I: pbuilder: network access will be disabled during build
I: Current time: Tue Mar 31 20:46:50 -12 2026
I: pbuilder-time-stamp: 1775033210
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz]
I: copying local configuration
W: --override-config is not set; not updating apt.conf Read the manpage for details.
I: mounting /proc filesystem
I: mounting /sys filesystem
I: creating /{dev,run}/shm
I: mounting /dev/pts filesystem
I: redirecting /dev/ptmx to /dev/pts/ptmx
I: policy-rc.d already exists
I: Copying source file
I: copying [presto_0.7.2-2.dsc]
I: copying [./presto_0.7.2.orig.tar.xz]
I: copying [./presto_0.7.2-2.debian.tar.xz]
I: Extracting source
dpkg-source: warning: cannot verify inline signature for ./presto_0.7.2-2.dsc: unsupported subcommand
dpkg-source: info: extracting presto in presto-0.7.2
dpkg-source: info: unpacking presto_0.7.2.orig.tar.xz
dpkg-source: info: unpacking presto_0.7.2-2.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying python3.12-syntax.patch
I: Not using root during the build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/927592/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='arm64'
DEBIAN_FRONTEND='noninteractive'
DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 '
DISTRIBUTION='unstable'
HOME='/root'
HOST_ARCH='arm64'
IFS='
'
INVOCATION_ID='54d694e3c5434dcd8accef66dde71302'
LANG='C'
LANGUAGE='en_US:en'
LC_ALL='C'
MAIL='/var/mail/root'
OPTIND='1'
PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games'
PBCURRENTCOMMANDLINEOPERATION='build'
PBUILDER_OPERATION='build'
PBUILDER_PKGDATADIR='/usr/share/pbuilder'
PBUILDER_PKGLIBDIR='/usr/lib/pbuilder'
PBUILDER_SYSCONFDIR='/etc'
PPID='927592'
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.hQMqwXVi/pbuilderrc_JmhX --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.hQMqwXVi/b1 --logfile b1/build.log presto_0.7.2-2.dsc'
SUDO_GID='109'
SUDO_UID='104'
SUDO_USER='jenkins'
TERM='unknown'
TZ='/usr/share/zoneinfo/Etc/GMT+12'
USER='root'
_='/usr/bin/systemd-run'
http_proxy='http://192.168.101.4:3128'
I: uname -a
Linux codethink03-arm64 6.1.0-31-cloud-arm64 #1 SMP Debian 6.1.128-1 (2025-02-07) aarch64 GNU/Linux
I: ls -l /bin
lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin
I: user script /srv/workspace/pbuilder/927592/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: arm64
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-sequence-python3, python3-all, python3-setuptools, python3-biopython, python3-pandas, python3-scipy, python3-packaging, vsearch, cd-hit
dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'.
Selecting previously unselected package pbuilder-satisfydepends-dummy.
(Reading database ... 19891 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-sequence-python3; however:
Package dh-sequence-python3 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-biopython; however:
Package python3-biopython is not installed.
pbuilder-satisfydepends-dummy depends on python3-pandas; however:
Package python3-pandas is not installed.
pbuilder-satisfydepends-dummy depends on python3-scipy; however:
Package python3-scipy is not installed.
pbuilder-satisfydepends-dummy depends on python3-packaging; however:
Package python3-packaging is not installed.
pbuilder-satisfydepends-dummy depends on vsearch; however:
Package vsearch is not installed.
pbuilder-satisfydepends-dummy depends on cd-hit; however:
Package cd-hit 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} cd-hit{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{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} libarchive-zip-perl{a} libblas3{a} libbrotli1{a} libcairo2{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} libgraphite2-3{a} libharfbuzz0b{a} libicu72{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} liblapack3{a} liblbfgsb0{a} liblcms2-2{a} liblerc4{a} libmagic-mgc{a} libmagic1t64{a} libopenjp2-7{a} libpipeline1{a} libpixman-1-0{a} libpng16-16t64{a} libpython3-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libraqm0{a} libreadline8t64{a} libsharpyuv0{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} po-debconf{a} python3{a} python3-all{a} python3-autocommand{a} python3-biopython{a} python3-cairo{a} python3-chardet{a} python3-dateutil{a} python3-decorator{a} python3-freetype{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-minimal{a} python3-more-itertools{a} python3-numpy{a} python3-numpy-dev{a} python3-packaging{a} python3-pandas{a} python3-pandas-lib{a} python3-pil{a} python3-pkg-resources{a} python3-pytz{a} python3-reportlab{a} python3-rlpycairo{a} python3-scipy{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-tz{a} python3-zipp{a} python3.13{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} tzdata{a} vsearch{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:
ca-certificates curl fonts-dejavu-extra libarchive-cpio-perl libglib2.0-data libltdl-dev libmail-sendmail-perl lynx ncbi-blast+ python-biopython-doc python3-bottleneck python3-bs4 python3-html5lib python3-jinja2 python3-lxml python3-matplotlib python3-numexpr python3-odf python3-olefile python3-openpyxl python3-pooch python3-tables shared-mime-info wget xdg-user-dirs
0 packages upgraded, 123 newly installed, 0 to remove and 0 not upgraded.
Need to get 87.7 MB of archives. After unpacking 400 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian unstable/main arm64 libpython3.13-minimal arm64 3.13.2-1 [853 kB]
Get: 2 http://deb.debian.org/debian unstable/main arm64 libexpat1 arm64 2.6.4-1 [90.7 kB]
Get: 3 http://deb.debian.org/debian unstable/main arm64 python3.13-minimal arm64 3.13.2-1 [1997 kB]
Get: 4 http://deb.debian.org/debian unstable/main arm64 python3-minimal arm64 3.13.2-1 [27.1 kB]
Get: 5 http://deb.debian.org/debian unstable/main arm64 media-types all 12.0.0 [28.9 kB]
Get: 6 http://deb.debian.org/debian unstable/main arm64 netbase all 6.4 [12.8 kB]
Get: 7 http://deb.debian.org/debian unstable/main arm64 tzdata all 2025a-2 [259 kB]
Get: 8 http://deb.debian.org/debian unstable/main arm64 libffi8 arm64 3.4.7-1 [21.2 kB]
Get: 9 http://deb.debian.org/debian unstable/main arm64 readline-common all 8.2-6 [69.4 kB]
Get: 10 http://deb.debian.org/debian unstable/main arm64 libreadline8t64 arm64 8.2-6 [159 kB]
Get: 11 http://deb.debian.org/debian unstable/main arm64 libpython3.13-stdlib arm64 3.13.2-1 [1914 kB]
Get: 12 http://deb.debian.org/debian unstable/main arm64 python3.13 arm64 3.13.2-1 [745 kB]
Get: 13 http://deb.debian.org/debian unstable/main arm64 libpython3-stdlib arm64 3.13.2-1 [10.0 kB]
Get: 14 http://deb.debian.org/debian unstable/main arm64 python3 arm64 3.13.2-1 [28.1 kB]
Get: 15 http://deb.debian.org/debian unstable/main arm64 python3-numpy-dev arm64 1:2.2.3+ds-2 [135 kB]
Get: 16 http://deb.debian.org/debian unstable/main arm64 libblas3 arm64 3.12.1-2 [104 kB]
Get: 17 http://deb.debian.org/debian unstable/main arm64 libgfortran5 arm64 14.2.0-17 [361 kB]
Get: 18 http://deb.debian.org/debian unstable/main arm64 liblapack3 arm64 3.12.1-2 [1819 kB]
Get: 19 http://deb.debian.org/debian unstable/main arm64 python3-numpy arm64 1:2.2.3+ds-2 [4134 kB]
Get: 20 http://deb.debian.org/debian unstable/main arm64 sgml-base all 1.31 [15.4 kB]
Get: 21 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.24 [24.8 kB]
Get: 22 http://deb.debian.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.45-3+b1 [314 kB]
Get: 23 http://deb.debian.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.45-3+b1 [102 kB]
Get: 24 http://deb.debian.org/debian unstable/main arm64 file arm64 1:5.45-3+b1 [43.4 kB]
Get: 25 http://deb.debian.org/debian unstable/main arm64 gettext-base arm64 0.23.1-1 [241 kB]
Get: 26 http://deb.debian.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB]
Get: 27 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-7 [1129 kB]
Get: 28 http://deb.debian.org/debian unstable/main arm64 bsdextrautils arm64 2.40.4-5 [92.0 kB]
Get: 29 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB]
Get: 30 http://deb.debian.org/debian unstable/main arm64 man-db arm64 2.13.0-1 [1404 kB]
Get: 31 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.19-5 [284 kB]
Get: 32 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.72-3 [493 kB]
Get: 33 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20220109.1 [51.6 kB]
Get: 34 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.17-3 [862 kB]
Get: 35 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.23.1-1 [770 kB]
Get: 36 http://deb.debian.org/debian unstable/main arm64 cd-hit arm64 4.8.1-4+b1 [509 kB]
Get: 37 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.24.1 [90.9 kB]
Get: 38 http://deb.debian.org/debian unstable/main arm64 libtool all 2.5.4-3 [539 kB]
Get: 39 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 20 [17.1 kB]
Get: 40 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB]
Get: 41 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB]
Get: 42 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.14.1-2 [8620 B]
Get: 43 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.192-4 [189 kB]
Get: 44 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.15-1+b1 [102 kB]
Get: 45 http://deb.debian.org/debian unstable/main arm64 libunistring5 arm64 1.3-1 [449 kB]
Get: 46 http://deb.debian.org/debian unstable/main arm64 libicu72 arm64 72.1-6 [9239 kB]
Get: 47 http://deb.debian.org/debian unstable/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.2+b1 [630 kB]
Get: 48 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.23.1-1 [1610 kB]
Get: 49 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get: 50 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB]
Get: 51 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.24.1 [920 kB]
Get: 52 http://deb.debian.org/debian unstable/main arm64 python3-autocommand all 2.2.2-3 [13.6 kB]
Get: 53 http://deb.debian.org/debian unstable/main arm64 python3-more-itertools all 10.6.0-1 [65.3 kB]
Get: 54 http://deb.debian.org/debian unstable/main arm64 python3-typing-extensions all 4.12.2-2 [73.0 kB]
Get: 55 http://deb.debian.org/debian unstable/main arm64 python3-typeguard all 4.4.2-1 [37.3 kB]
Get: 56 http://deb.debian.org/debian unstable/main arm64 python3-inflect all 7.3.1-2 [32.4 kB]
Get: 57 http://deb.debian.org/debian unstable/main arm64 python3-jaraco.context all 6.0.0-1 [7984 B]
Get: 58 http://deb.debian.org/debian unstable/main arm64 python3-jaraco.functools all 4.1.0-1 [12.0 kB]
Get: 59 http://deb.debian.org/debian unstable/main arm64 python3-pkg-resources all 75.8.0-1 [222 kB]
Get: 60 http://deb.debian.org/debian unstable/main arm64 python3-jaraco.text all 4.0.0-1 [11.4 kB]
Get: 61 http://deb.debian.org/debian unstable/main arm64 python3-zipp all 3.21.0-1 [10.6 kB]
Get: 62 http://deb.debian.org/debian unstable/main arm64 python3-setuptools all 75.8.0-1 [724 kB]
Get: 63 http://deb.debian.org/debian unstable/main arm64 dh-python all 6.20250108 [113 kB]
Get: 64 http://deb.debian.org/debian unstable/main arm64 fonts-dejavu-mono all 2.37-8 [489 kB]
Get: 65 http://deb.debian.org/debian unstable/main arm64 fonts-dejavu-core all 2.37-8 [840 kB]
Get: 66 http://deb.debian.org/debian unstable/main arm64 libfontenc1 arm64 1:1.1.8-1+b2 [22.5 kB]
Get: 67 http://deb.debian.org/debian unstable/main arm64 libbrotli1 arm64 1.1.0-2+b6 [297 kB]
Get: 68 http://deb.debian.org/debian unstable/main arm64 libpng16-16t64 arm64 1.6.47-1 [274 kB]
Get: 69 http://deb.debian.org/debian unstable/main arm64 libfreetype6 arm64 2.13.3+dfsg-1 [422 kB]
Get: 70 http://deb.debian.org/debian unstable/main arm64 x11-common all 1:7.7+24 [217 kB]
Get: 71 http://deb.debian.org/debian unstable/main arm64 xfonts-encodings all 1:1.0.4-2.2 [577 kB]
Get: 72 http://deb.debian.org/debian unstable/main arm64 xfonts-utils arm64 1:7.7+7 [89.3 kB]
Get: 73 http://deb.debian.org/debian unstable/main arm64 fonts-urw-base35 all 20200910-8 [10.8 MB]
Get: 74 http://deb.debian.org/debian unstable/main arm64 fontconfig-config arm64 2.15.0-2 [317 kB]
Get: 75 http://deb.debian.org/debian unstable/main arm64 libfontconfig1 arm64 2.15.0-2 [386 kB]
Get: 76 http://deb.debian.org/debian unstable/main arm64 libpixman-1-0 arm64 0.44.0-3 [168 kB]
Get: 77 http://deb.debian.org/debian unstable/main arm64 libxau6 arm64 1:1.0.11-1 [20.6 kB]
Get: 78 http://deb.debian.org/debian unstable/main arm64 libxdmcp6 arm64 1:1.1.5-1 [27.8 kB]
Get: 79 http://deb.debian.org/debian unstable/main arm64 libxcb1 arm64 1.17.0-2+b1 [143 kB]
Get: 80 http://deb.debian.org/debian unstable/main arm64 libx11-data all 2:1.8.10-2 [337 kB]
Get: 81 http://deb.debian.org/debian unstable/main arm64 libx11-6 arm64 2:1.8.10-2 [789 kB]
Get: 82 http://deb.debian.org/debian unstable/main arm64 libxcb-render0 arm64 1.17.0-2+b1 [115 kB]
Get: 83 http://deb.debian.org/debian unstable/main arm64 libxcb-shm0 arm64 1.17.0-2+b1 [105 kB]
Get: 84 http://deb.debian.org/debian unstable/main arm64 libxext6 arm64 2:1.3.4-1+b3 [49.2 kB]
Get: 85 http://deb.debian.org/debian unstable/main arm64 libxrender1 arm64 1:0.9.10-1.1+b4 [27.2 kB]
Get: 86 http://deb.debian.org/debian unstable/main arm64 libcairo2 arm64 1.18.2-2 [483 kB]
Get: 87 http://deb.debian.org/debian unstable/main arm64 libdeflate0 arm64 1.23-1+b1 [42.5 kB]
Get: 88 http://deb.debian.org/debian unstable/main arm64 libfribidi0 arm64 1.0.16-1 [26.5 kB]
Get: 89 http://deb.debian.org/debian unstable/main arm64 libglib2.0-0t64 arm64 2.83.4-1 [1422 kB]
Get: 90 http://deb.debian.org/debian unstable/main arm64 libgraphite2-3 arm64 1.3.14-2+b1 [70.4 kB]
Get: 91 http://deb.debian.org/debian unstable/main arm64 libharfbuzz0b arm64 10.2.0-1 [443 kB]
Get: 92 http://deb.debian.org/debian unstable/main arm64 libimagequant0 arm64 2.18.0-1+b2 [34.6 kB]
Get: 93 http://deb.debian.org/debian unstable/main arm64 libjbig0 arm64 2.1-6.1+b2 [30.4 kB]
Get: 94 http://deb.debian.org/debian unstable/main arm64 libjpeg62-turbo arm64 1:2.1.5-3.1 [173 kB]
Get: 95 http://deb.debian.org/debian unstable/main arm64 liblbfgsb0 arm64 3.0+dfsg.4-1+b2 [25.6 kB]
Get: 96 http://deb.debian.org/debian unstable/main arm64 liblcms2-2 arm64 2.16-2 [151 kB]
Get: 97 http://deb.debian.org/debian unstable/main arm64 liblerc4 arm64 4.0.0+ds-5 [146 kB]
Get: 98 http://deb.debian.org/debian unstable/main arm64 libopenjp2-7 arm64 2.5.3-1 [189 kB]
Get: 99 http://deb.debian.org/debian unstable/main arm64 libraqm0 arm64 0.10.2-1 [13.6 kB]
Get: 100 http://deb.debian.org/debian unstable/main arm64 libsharpyuv0 arm64 1.5.0-0.1 [114 kB]
Get: 101 http://deb.debian.org/debian unstable/main arm64 libwebp7 arm64 1.5.0-0.1 [271 kB]
Get: 102 http://deb.debian.org/debian unstable/main arm64 libtiff6 arm64 4.5.1+git230720-5 [309 kB]
Get: 103 http://deb.debian.org/debian unstable/main arm64 libwebpdemux2 arm64 1.5.0-0.1 [113 kB]
Get: 104 http://deb.debian.org/debian unstable/main arm64 libwebpmux3 arm64 1.5.0-0.1 [125 kB]
Get: 105 http://deb.debian.org/debian unstable/main arm64 python3-all arm64 3.13.2-1 [1048 B]
Get: 106 http://deb.debian.org/debian unstable/main arm64 python3-chardet all 5.2.0+dfsg-2 [108 kB]
Get: 107 http://deb.debian.org/debian unstable/main arm64 python3-pil arm64 11.1.0-5 [514 kB]
Get: 108 http://deb.debian.org/debian unstable/main arm64 python3-cairo arm64 1.26.1-2+b1 [130 kB]
Get: 109 http://deb.debian.org/debian unstable/main arm64 python3-freetype all 2.5.1-1 [89.3 kB]
Get: 110 http://deb.debian.org/debian unstable/main arm64 python3-rlpycairo all 0.3.0-3 [9904 B]
Get: 111 http://deb.debian.org/debian unstable/main arm64 python3-reportlab all 4.3.1-1 [1158 kB]
Get: 112 http://deb.debian.org/debian unstable/main arm64 xml-core all 0.19 [20.1 kB]
Get: 113 http://deb.debian.org/debian unstable/main arm64 w3c-sgml-lib all 1.3-3 [273 kB]
Get: 114 http://deb.debian.org/debian unstable/main arm64 python3-biopython arm64 1.85+dfsg-2+b1 [1657 kB]
Get: 115 http://deb.debian.org/debian unstable/main arm64 python3-dateutil all 2.9.0-3 [79.3 kB]
Get: 116 http://deb.debian.org/debian unstable/main arm64 python3-decorator all 5.1.1-5 [15.1 kB]
Get: 117 http://deb.debian.org/debian unstable/main arm64 python3-packaging all 24.2-1 [55.3 kB]
Get: 118 http://deb.debian.org/debian unstable/main arm64 python3-pytz all 2025.1-3 [150 kB]
Get: 119 http://deb.debian.org/debian unstable/main arm64 python3-tz all 2025.1-3 [4004 B]
Get: 120 http://deb.debian.org/debian unstable/main arm64 python3-pandas-lib arm64 2.2.3+dfsg-8 [6029 kB]
Get: 121 http://deb.debian.org/debian unstable/main arm64 python3-pandas all 2.2.3+dfsg-8 [3097 kB]
Get: 122 http://deb.debian.org/debian unstable/main arm64 python3-scipy arm64 1.14.1-4 [18.5 MB]
Get: 123 http://deb.debian.org/debian unstable/main arm64 vsearch arm64 2.29.4-1 [411 kB]
Fetched 87.7 MB in 1s (84.3 MB/s)
Preconfiguring packages ...
Selecting previously unselected package libpython3.13-minimal:arm64.
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Current default time zone: 'Etc/UTC'
Local time is now: Wed Apr 1 08:47:47 UTC 2026.
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Reading package lists...
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-> Finished parsing the build-deps
I: Building the package
I: Running cd /build/reproducible-path/presto-0.7.2/ && 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 > ../presto_0.7.2-2_source.changes
dpkg-buildpackage: info: source package presto
dpkg-buildpackage: info: source version 0.7.2-2
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Andreas Tille <tille@debian.org>
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture arm64
dpkg-source: info: using options from presto-0.7.2/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/
debian/rules clean
dh clean --buildsystem=pybuild
dh_auto_clean -O--buildsystem=pybuild
I: pybuild base:311: python3.13 setup.py clean
running clean
removing '/build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build' (and everything under it)
'build/bdist.linux-aarch64' does not exist -- can't clean it
'build/scripts-3.13' does not exist -- can't clean it
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
running config
dh_auto_build -O--buildsystem=pybuild
I: pybuild base:311: /usr/bin/python3 setup.py build
running build
running build_py
creating /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto
copying presto/IO.py -> /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto
copying presto/Applications.py -> /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto
copying presto/Annotation.py -> /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto
copying presto/__init__.py -> /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto
copying presto/Version.py -> /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto
copying presto/Sequence.py -> /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto
copying presto/Multiprocessing.py -> /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto
copying presto/Defaults.py -> /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto
copying presto/Commandline.py -> /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto
running build_scripts
creating build/scripts-3.13
copying and adjusting bin/AlignSets.py -> build/scripts-3.13
copying and adjusting bin/AssemblePairs.py -> build/scripts-3.13
copying and adjusting bin/BuildConsensus.py -> build/scripts-3.13
copying and adjusting bin/ClusterSets.py -> build/scripts-3.13
copying and adjusting bin/CollapseSeq.py -> build/scripts-3.13
copying and adjusting bin/ConvertHeaders.py -> build/scripts-3.13
copying and adjusting bin/EstimateError.py -> build/scripts-3.13
copying and adjusting bin/FilterSeq.py -> build/scripts-3.13
copying and adjusting bin/MaskPrimers.py -> build/scripts-3.13
copying and adjusting bin/PairSeq.py -> build/scripts-3.13
copying and adjusting bin/ParseHeaders.py -> build/scripts-3.13
copying and adjusting bin/ParseLog.py -> build/scripts-3.13
copying and adjusting bin/SplitSeq.py -> build/scripts-3.13
copying and adjusting bin/UnifyHeaders.py -> build/scripts-3.13
changing mode of build/scripts-3.13/AlignSets.py from 644 to 755
changing mode of build/scripts-3.13/AssemblePairs.py from 644 to 755
changing mode of build/scripts-3.13/BuildConsensus.py from 644 to 755
changing mode of build/scripts-3.13/ClusterSets.py from 644 to 755
changing mode of build/scripts-3.13/CollapseSeq.py from 644 to 755
changing mode of build/scripts-3.13/ConvertHeaders.py from 644 to 755
changing mode of build/scripts-3.13/EstimateError.py from 644 to 755
changing mode of build/scripts-3.13/FilterSeq.py from 644 to 755
changing mode of build/scripts-3.13/MaskPrimers.py from 644 to 755
changing mode of build/scripts-3.13/PairSeq.py from 644 to 755
changing mode of build/scripts-3.13/ParseHeaders.py from 644 to 755
changing mode of build/scripts-3.13/ParseLog.py from 644 to 755
changing mode of build/scripts-3.13/SplitSeq.py from 644 to 755
changing mode of build/scripts-3.13/UnifyHeaders.py from 644 to 755
dh_auto_test -O--buildsystem=pybuild
I: pybuild pybuild:308: cp -r /build/reproducible-path/presto-0.7.2/bin /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build;
I: pybuild base:311: cd /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build; python3.13 -m unittest discover -v
test_collapseAnnotation (tests.test_Annotation.TestAnnotation.test_collapseAnnotation) ... ok
test_getCoordKey (tests.test_Annotation.TestAnnotation.test_getCoordKey) ... ok
test_mergeAnnotation (tests.test_Annotation.TestAnnotation.test_mergeAnnotation) ... ok
test_renameAnnotation (tests.test_Annotation.TestAnnotation.test_renameAnnotation) ... ok
test_alignAssembly (tests.test_AssemblePairs.TestAssemblePairs.test_alignAssembly) ... skipped '-> alignAssembly() skipped\n'
test_makeBlastnDb (tests.test_AssemblePairs.TestAssemblePairs.test_makeBlastnDb) ... skipped '-> makeBlastnDb() skipped\n'
test_makeUSearchDb (tests.test_AssemblePairs.TestAssemblePairs.test_makeUSearchDb) ... skipped '-> makeUSearchDb() skipped\n'
test_referenceAssembly (tests.test_AssemblePairs.TestAssemblePairs.test_referenceAssembly) ... skipped '-> referenceAssembly() skipped\n'
test_runBlastn (tests.test_AssemblePairs.TestAssemblePairs.test_runBlastn) ... skipped '-> runBlastn() skipped\n'
test_runUSearch (tests.test_AssemblePairs.TestAssemblePairs.test_runUSearch) ... skipped '-> runUSearch() skipped\n'
test_calculateSetError (tests.test_BuildConsensus.TestBuildConsensus.test_calculateSetError) ... ok
test_deleteSeqPositions (tests.test_BuildConsensus.TestBuildConsensus.test_deleteSeqPositions) ... ok
test_findGapPositions (tests.test_BuildConsensus.TestBuildConsensus.test_findGapPositions) ... ok
test_frequencyConsensus (tests.test_BuildConsensus.TestBuildConsensus.test_frequencyConsensus) ... ok
test_qualityConsensus (tests.test_BuildConsensus.TestBuildConsensus.test_qualityConsensus) ... ok
test_runCDHit (tests.test_ClusterSets.TestClusterSets.test_runCDHit) ... ok
test_runUClust (tests.test_ClusterSets.TestClusterSets.test_runUClust) ... ok
test_checkSeqEqual (tests.test_CollapseSeq.TestCollapseSeq.test_checkSeqEqual) ... ok
test_convert454Header (tests.test_ConvertHeaders.TestConvertHeaders.test_convert454Header) ... ok
test_convertGenbankHeader (tests.test_ConvertHeaders.TestConvertHeaders.test_convertGenbankHeader) ... ok
test_convertGenericHeader (tests.test_ConvertHeaders.TestConvertHeaders.test_convertGenericHeader) ... ok
test_convertIMGTHeader (tests.test_ConvertHeaders.TestConvertHeaders.test_convertIMGTHeader) ... ok
test_convertIlluminaHeader (tests.test_ConvertHeaders.TestConvertHeaders.test_convertIlluminaHeader) ... ok
test_convertSRAHeader (tests.test_ConvertHeaders.TestConvertHeaders.test_convertSRAHeader) ... ok
test_calculateDistances (tests.test_EstimateError.TestEstimateError.test_calculateDistances) ... /usr/lib/python3/dist-packages/Bio/SeqRecord.py:228: BiopythonDeprecationWarning: Using a string as the sequence is deprecated and will raise a TypeError in future. It has been converted to a Seq object.
warnings.warn(
ok
test_countMismatches (tests.test_EstimateError.TestEstimateError.test_countMismatches) ... ok
test_initializeMismatchDictionary (tests.test_EstimateError.TestEstimateError.test_initializeMismatchDictionary) ... ok
test_getFileType (tests.test_IO.TestIO.test_getFileType) ... ok
test_extractAlignment (tests.test_MaskPrimers.TestMaskPrimers.test_extractAlignment) ... ok
test_localAlignment (tests.test_MaskPrimers.TestMaskPrimers.test_localAlignment) ... -> test_collapseAnnotation()
OrderedDict({'ID': 'SEQ1', 'TEST1': 'A', 'TEST2': 1, 'TEST3': 'First'})
OrderedDict({'ID': 'SEQ1', 'TEST1': 'B', 'TEST2': 2, 'TEST3': 'Second'})
OrderedDict({'ID': 'SEQ1', 'TEST1': ['A', 'B'], 'TEST2': [1, 2], 'TEST3': ['First', 'Second']})
OrderedDict({'ID': 'SEQ1', 'TEST1': 'AB', 'TEST2': '12', 'TEST3': 'FirstSecond'})
OrderedDict({'ID': 'SEQ1', 'TEST1': 'A,B', 'TEST2': '1', 'TEST3': ['First', 'Second']})
OrderedDict({'ID': 'SEQ1', 'TEST1': 'A,B', 'TEST2': '2', 'TEST3': ['First', 'Second']})
OrderedDict({'ID': 'SEQ1', 'TEST1': 'A,B', 'TEST2': '3', 'TEST3': ['First', 'Second']})
<- test_collapseAnnotation() 0.000
-> test_getCoordKey()
['MISEQ:132:000000000-A2F3U:1:1101:14340:1555', 'HWI-EAS209_0006_FC706VJ:5:58:5894:21141', 'MS6_33112:1:1101:18371:1066']
['SRR001666.1', 'SRR735691.1', 'SRR1383326.1', 'SRR1383326.1', 'ERR346596.6']
['000034_0199_0169', 'GXGJ56Z01AE06X']
<- test_getCoordKey() 0.000
-> test_mergeAnnotation()
OrderedDict({'ID': 'SEQ1', 'TEST1': 'A,B,C,C', 'TEST2': '1,2,3', 'TEST3': ['First', 'Second']})
OrderedDict({'ID': 'SEQ1', 'TEST1': 'C,C,A,B', 'TEST2': '3,1,2', 'TEST3': ['First', 'Second']})
<- test_mergeAnnotation() 0.000
-> test_renameAnnotation()
OrderedDict({'ID': 'SEQ1', 'RENAMED1': 'A,B', 'TEST2': [1, 2], 'TEST3': ['First', 'Second']})
OrderedDict({'ID': 'SEQ1', 'RENAMED2': 'A,B', 'TEST2': [1, 2], 'TEST3': ['First', 'Second']})
OrderedDict({'ID': 'SEQ1', 'TEST1': 'A,B,1,2', 'TEST3': ['First', 'Second']})
OrderedDict({'ID': 'SEQ1', 'TEST1': 'A,B,1,2,First,Second'})
<- test_renameAnnotation() 0.000
-> test_calculateSetError()
Frequency consensus error>
REF> CGGCGTAA
SEQ1> CGGCGTAA
SEQ2> CCNNGTAA
SEQ3> CGGC--TA
SEQ4> CGNN--TA
SEQ5> CGGC--AA
ERROR> 0.250000
Quality consensus error>
REF> CGGCNNAA
SEQ1> CGGCGTAA
SEQ2> CCNNGTAA
SEQ3> CGGC--TA
SEQ4> CGNN--TA
SEQ5> CGGC--AA
ERROR> 0.233333
<- test_calculateSetError() 0.000
-> test_deleteSeqPositions()
MAX_GAP=0.4> CGGCAA
MAX_GAP=0.8> CGGCGTAA
<- test_deleteSeqPositions() 0.000
-> test_findGapPositions()
MAX_GAP=0.4> [4, 5]
MAX_GAP=0.8> []
<- test_findGapPositions() 0.000
-> test_frequencyConsensus()
MIN_FREQ=0.2> CGGCGTAA
MIN_FREQ=0.8> CGGCGTNA
<- test_frequencyConsensus() 0.000
-> test_qualityConsensus()
MIN_QUAL=0> CGGCGTAA [90, 90, 36, 36, 16, 16, 72, 90]
MIN_QUAL=20> CGGCNNAA [90, 90, 36, 36, 0, 0, 72, 90]
MIN_FREQ=0.8> CGGCNNNA [90, 90, 36, 36, 0, 0, 0, 90]
<- test_qualityConsensus() 0.000
-> test_runCDHit()
FULL_LENGTH>
{1: ['SEQ1', 'SEQ2', 'SEQ3'], 2: ['SEQ4', 'SEQ5']}
TRIMMED>
{1: ['SEQ1', 'SEQ2', 'SEQ3'], 2: ['SEQ4', 'SEQ5']}
ZERO_LENGTH>
None
<- test_runCDHit() 0.038
-> test_runUClust()
FULL_LENGTH>
{1: ['SEQ1', 'SEQ2', 'SEQ3'], 2: ['SEQ4', 'SEQ5']}
TRIMMED>
{1: ['SEQ1', 'SEQ2', 'SEQ3'], 2: ['SEQ4', 'SEQ5']}
ZERO_LENGTH>
None
<- test_runUClust() 0.062
-> test_checkSeqEqual()
DNA Equality>
SEQ1|COUNT=1> CCACGTTTTAGTAATTAATA
SEQ2|COUNT=2> CCACGTTTTAGTAATTAATA
EQUAL> True
SEQ1|COUNT=1> CCACGTTTTAGTAATTAATA
SEQ3|COUNT=3> CCACGTTTTACTAATTAATA
EQUAL> False
SEQ1|COUNT=1> CCACGTTTTAGTAATTAATA
SEQ4|COUNT=4> CCACGTTTTANTAATTAATA
EQUAL> True
SEQ2|COUNT=2> CCACGTTTTAGTAATTAATA
SEQ3|COUNT=3> CCACGTTTTACTAATTAATA
EQUAL> False
SEQ2|COUNT=2> CCACGTTTTAGTAATTAATA
SEQ4|COUNT=4> CCACGTTTTANTAATTAATA
EQUAL> True
SEQ3|COUNT=3> CCACGTTTTACTAATTAATA
SEQ4|COUNT=4> CCACGTTTTANTAATTAATA
EQUAL> True
<- test_checkSeqEqual() 0.000
-> test_convert454Header()
OrderedDict({'ID': '000034_0199_0169', 'LENGTH': '437', 'UACCNO': 'GNDG01201ARRCR'})
OrderedDict({'ID': 'GXGJ56Z01AE06X', 'LENGTH': '222'})
<- test_convert454Header() 0.000
-> test_convertGenbankHeader()
OrderedDict({'ID': 'CM000663.2', 'GI': '568336023', 'SOURCE': 'gb', 'DESC': 'Homo_sapiens_chromosome_1_GRCh38_reference_primary_assembly'})
OrderedDict({'ID': 'CM000663.2', 'DESC': 'Homo_sapiens_chromosome_1__GRCh38_reference_primary_assembly'})
<- test_convertGenbankHeader() 0.000
-> test_convertGenericHeader()
OrderedDict({'ID': 'gi_568336023_gb_CM000663.2_Homo_sapiens_chromosome_1_GRCh38_reference_primary_assembly'})
OrderedDict({'ID': 'CM000663.2_Homo_sapiens_chromosome_1_GRCh38_reference_primary_assembly'})
OrderedDict({'ID': 'M99641_IGHV1-18*01_Homo_sapiens_F_V-REGION_188..483_296_nt_1_296+24_320_'})
OrderedDict({'ID': "Z29978_IGHV1-69*07_Homo_sapiens_F_V-REGION_1..233_233_nt_1_233+58_291_partial_in_5'_and_in_3'_"})
OrderedDict({'ID': 'AB019439_IGHV(III)-22-2*01_Homo_sapiens_P_L-PART1+V-EXON_168065..168119+168222..168262_96_nt_1_96+0_96_'})
OrderedDict({'ID': 'AE000659_TRAV11*01_Homo_sapiens_(P)_V-REGION_85121..85397_276_nt_1_276+42_318_'})
<- test_convertGenericHeader() 0.000
-> test_convertIMGTHeader()
OrderedDict({'ID': 'IGHV1-18*01', 'SPECIES': 'Homo_sapiens', 'REGION': 'V-REGION', 'FUNCTIONALITY': 'F', 'PARTIAL': 'FALSE', 'ACCESSION': 'M99641'})
OrderedDict({'ID': 'IGHV1-69*07', 'SPECIES': 'Homo_sapiens', 'REGION': 'V-REGION', 'FUNCTIONALITY': 'F', 'PARTIAL': 'TRUE', 'ACCESSION': 'Z29978'})
OrderedDict({'ID': 'IGHV(III)-22-2*01', 'SPECIES': 'Homo_sapiens', 'REGION': 'L-PART1+V-EXON', 'FUNCTIONALITY': 'P', 'PARTIAL': 'FALSE', 'ACCESSION': 'AB019439'})
OrderedDict({'ID': 'TRAV11*01', 'SPECIES': 'Homo_sapiens', 'REGION': 'V-REGION', 'FUNCTIONALITY': 'P', 'PARTIAL': 'FALSE', 'ACCESSION': 'AE000659'})
OrderedDict({'ID': 'IGHV1-18*01'})
OrderedDict({'ID': 'IGHV1-69*07'})
OrderedDict({'ID': 'IGHV(III)-22-2*01'})
OrderedDict({'ID': 'TRAV11*01'})
<- test_convertIMGTHeader() 0.000
-> test_convertIlluminaHeader()
OrderedDict({'ID': 'MISEQ:132:000000000-A2F3U:1:1101:14340:1555', 'INDEX': 'ATCACG', 'READ': '1'})
OrderedDict({'ID': 'HWI-EAS209_0006_FC706VJ:5:58:5894:21141', 'INDEX': 'ATCACG', 'READ': '1'})
OrderedDict({'ID': 'MS6_33112:1:1101:18371:1066', 'READ': '1'})
<- test_convertIlluminaHeader() 0.000
-> test_convertSRAHeader()
OrderedDict({'ID': 'SRR001666.1', 'DESC': '071112_SLXA-EAS1_s_7:5:1:817:345', 'LENGTH': '36'})
OrderedDict({'ID': 'SRR735691.1', 'DESC': 'GXGJ56Z01AE06X', 'LENGTH': '222'})
OrderedDict({'ID': 'SRR1383326.1', 'DESC': '1', 'LENGTH': '250'})
OrderedDict({'ID': 'SRR1383326.1', 'READ': '2', 'DESC': '1', 'LENGTH': '250'})
OrderedDict({'ID': 'ERR346596.6', 'DESC': 'BS-DSFCONTROL04:4:000000000-A3F0Y:1:1101:13220:1649/1'})
<- test_convertSRAHeader() 0.000
-> test_calculateDistances()
<- test_calculateDistances() 0.001
-> test_countMismatches()
<- test_countMismatches() 0.001
-> test_initializeMismatchDictionary()
<- test_initializeMismatchDictionary() 0.000
-> test_getFileType()
<- test_getFileType() 0.000
-> test_extractAlignment()
SEQ1>
SEQ> CCACGTTTTAGTAATTAATA
ALN-SEQ> CCACGTTTTAGT
ALN-PR> ----GTTTTAGT
PRIMER> GTTTTAGT
START> 4
END> 12
GAPS> 0
ERROR> 0.000000
SEQ2>
SEQ> CCNCGTTTTAGTAATTAATA
ALN-SEQ> CCNCGTTTTAGT
ALN-PR> ----GTTTTAGT
PRIMER> GTTTTAGT
START> 4
END> 12
GAPS> 0
ERROR> 0.000000
SEQ3>
SEQ> GGGCGTTTTAGTAATTAATA
ALN-SEQ> GGGCGTTTTAGT
ALN-PR> ----GTTTTAGT
PRIMER> GTTTTAGT
START> 4
END> 12
GAPS> 0
ERROR> 0.000000
SEQ4>
SEQ> GGNNGTTTTACTAATTAATA
ALN-SEQ> GGNNGTTTTACT
ALN-PR> ----GTTTTACT
PRIMER> GTTTTACT
START> 4
END> 12
GAPS> 0
ERROR> 0.000000
SEQ5>
SEQ> NNGCNNNNNACTAATTAATA
ALN-SEQ> NNGCNNNNNACT
ALN-PR> ----NNNNNACT
PRIMER> NNNNNACT
START> 4
END> 12
GAPS> 0
ERROR> 0.000000
SEQ6>
SEQ> GGGATANNNACTAATTAATA
ALN-SEQ> GGGATANNNACT
ALN-PR> ----TANNNACT
PRIMER> TANNNACT
START> 4
END> 12
GAPS> 0
ERROR> 0.000000
SEQ7>
SEQ> NNNNNNNNNNNNNNNNNNNN
ALN-SEQ> NNNNNNNNNNNN
ALN-PR> ----NNNNNNNN
PRIMER> NNNNNNNN
START> 4
END> 12
GAPS> 0
ERROR> 0.000000
<- test_extractAlignment() 0.000
-> test_localAlignment()
TEST Ns>
SEQ1>
SEQ> CCACGTTTTAGTAATTAATA
ALN-SEQ> CCACGTTTTAGTAATTAATA
ALN-PR> -CACGTTTT-----------
PRIMER> PR1
START> 1
END> 9
GAPS> 0
ERROR> 0.000000
SEQ2>
SEQ> CCNCGTTTTAGTAATTAATA
ALN-SEQ> CCNCGTTTTAGTAATTAATA
ALN-PR> -CACGTTTT-----------
PRIMER> PR1
START> 1
END> 9
GAPS> 0
ERROR> 0.125000
ok
test_maskSeq (tests.test_MaskPrimers.TestMaskPrimers.test_maskSeq) ... ok
test_scoreAlignment (tests.test_MaskPrimers.TestMaskPrimers.test_scoreAlignment) ... ok
test_calculateSetError (tests.test_Sequence.TestSequence.test_calculateSetError) ... ok
test_filterQuality (tests.test_Sequence.TestSequence.test_filterQuality) ... ok
test_meanQuality (tests.test_Sequence.TestSequence.test_meanQuality) ... ok
test_scoreDNA (tests.test_Sequence.TestSequence.test_scoreDNA) ... ok
test_scoreSeqPair (tests.test_Sequence.TestSequence.test_scoreSeqPair) ...
SEQ3>
SEQ> GGGCGTTTTAGTAATTAATA
ALN-SEQ> GGGCGTTTTAGTAATTAATA
ALN-PR> -GGCGTTTT-----------
PRIMER> PR2
START> 1
END> 9
GAPS> 0
ERROR> 0.000000
SEQ4>
SEQ> GGNNGTTTTACTAATTAATA
ALN-SEQ> GGNNGTTTTACTAATTAATA
ALN-PR> GGC-GTTTT-----------
PRIMER> PR2
START> 0
END> 9
GAPS> 1
ERROR> 0.250000
SEQ5>
SEQ> NNGCNNNNNACTAATTAATA
ALN-SEQ> NNGCNNNNNACTAATTAATA
ALN-PR> ------------ANATAA--
PRIMER> PR3
START> 12
END> 18
GAPS> 0
ERROR> 0.375000
SEQ6>
SEQ> GGGATANNNACTAATTAATA
ALN-SEQ> GGGATANNNACTAATTAATA
ALN-PR> -GGANA--------------
PRIMER> PR3
START> 1
END> 6
GAPS> 0
ERROR> 0.375000
SEQ7>
SEQ> NNNNNNNNNNNNNNNNNNNN
ALN-SEQ> None
ALN-PR> None
PRIMER> None
START> None
END> None
GAPS> 0
ERROR> 1.000000
TEST INDELS>
SEQ1>
SEQ> CGGATCTTCTACTCCATACGTCCGTCAGTCGTGGATCTGATCTAGCTGCGCCTTTTTCTCAG
ALN-SEQ> CGGATCTTCTACTCCATACGTCCGTCAGTCGTGGATCTGATCTAGCTGCGCCTTTTTCTCAG
ALN-PR> ---------------ATACGTCCGTCAGTCGTGGATGT------------------------
PRIMER> PR1
START> 15
END> 38
GAPS> 0
ERROR> 0.083333
SEQ2>
SEQ> CGGATCTTCTACTCAAAACCGTCCTCAGTCGTGGATCTGGTCTAGCTGGGGCTGTTTCCCTG
ALN-SEQ> CGGATCTTCTACTCAAAACCGTCC-TCAGTCGTGGATCTGGTCTAGCTGGGGCTGTTTCCCTG
ALN-PR> --------------AATAC-GTCCGTCAGTCGTGGATGT------------------------
PRIMER> PR1
START> 14
END> 38
GAPS> 2
ERROR> 0.208333
SEQ3>
SEQ> GGTTTAAGTTAAGATAATACGTCCGTCAGTCGTGATCTGTTTTACATGGGGGCATCACCCAG
ALN-SEQ> GGTTTAAGTTAAGATAATACGTCCGTCAGTCGTG-ATCTGTTTTACATGGGGGCATCACCCAG
ALN-PR> ---------------AATACGTCCGTCAGTCGTGGATGT------------------------
PRIMER> PR1
START> 15
END> 38
GAPS> 1
ERROR> 0.125000
SEQ4>
SEQ> CAACCACATGGGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCT
ALN-SEQ> CAACCACATGGGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCT
ALN-PR> ------CATCT-TCCTCTA-------------------------------------------
PRIMER> PR2
START> 6
END> 19
GAPS> 1
ERROR> 0.250000
SEQ5>
SEQ> CAACCACATGGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCTG
ALN-SEQ> CAACCACATGGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCTG
ALN-PR> ------CATCTTCCTCTA--------------------------------------------
PRIMER> PR2
START> 6
END> 18
GAPS> 0
ERROR> 0.166667
SEQ6>
SEQ> TCTGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCTCAACCACA
ALN-SEQ> TCTGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCTCAACCACA
ALN-PR> TCT-TCCTCTA---------------------------------------------------
PRIMER> PR2
START> 0
END> 11
GAPS> 1
ERROR> 0.250000
SEQ7>
SEQ> AGGTGAAGAAGCCTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC
ALN-SEQ> AGGTGAAGAAGCCTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC
ALN-PR> --GTGAAGA-GCCTG-----------------------------------------------
PRIMER> PR3
START> 2
END> 15
GAPS> 1
ERROR> 0.083333
SEQ8>
SEQ> A--TGAAGAAGCCTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC
ALN-SEQ> A--TGAAGAAGCCTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC
ALN-PR> ---TGAAGA-GCCTG-----------------------------------------------
PRIMER> PR3
START> 3
END> 15
GAPS> 1
ERROR> 0.166667
SEQ9>
SEQ> ANNTGAAGAAGNNTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC
ALN-SEQ> ANNTGAAGAAGNNTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC
ALN-PR> ---TGAAGA-GCCTG-----------------------------------------------
PRIMER> PR3
START> 3
END> 15
GAPS> 1
ERROR> 0.333333
SEQ10>
SEQ> --------------------------------------------------------------
ALN-SEQ> None
ALN-PR> None
PRIMER> None
START> None
END> None
GAPS> 0
ERROR> 1.000000
<- test_localAlignment() 0.048
-> test_maskSeq()
TEST CUT>
ID> SEQ|PRIMER=A|BARCODE=CCA
SEQ> AGTAATTAATA
TEST MASK>
ID> SEQ|PRIMER=A|BARCODE=CCA
SEQ> NNNNNNAGTAATTAATA
TEST TRIM>
ID> SEQ|PRIMER=A|BARCODE=CCA
SEQ> CGTTTTAGTAATTAATA
TEST TAG>
ID> SEQ|PRIMER=A|BARCODE=CCA
SEQ> CCACGTTTTAGTAATTAATA
<- test_maskSeq() 0.005
-> test_scoreAlignment()
SEQ1>
SEQ> CCACGTTTTAGTAATTAATA
ALN-SEQ> CCACGTTTT
ALN-PR> -CACGTTTT
PRIMER> PR1
START> 1
END> 9
GAPS> 0
ERROR> 0.000000
SEQ2>
SEQ> CCNCGTTTTAGTAATTAATA
ALN-SEQ> CCNCGTTTT
ALN-PR> -CACGTTTT
PRIMER> PR1
START> 1
END> 9
GAPS> 0
ERROR> 0.125000
SEQ3>
SEQ> GGGCGTTTTAGTAATTAATA
ALN-SEQ> GGGCGTTTT
ALN-PR> -GGCGTTTT
PRIMER> PR2
START> 1
END> 9
GAPS> 0
ERROR> 0.000000
SEQ4>
SEQ> GGNNGTTTTACTAATTAATA
ALN-SEQ> GGNNGTTTT
ALN-PR> -GGCGTTTT
PRIMER> PR2
START> 1
END> 9
GAPS> 0
ERROR> 0.250000
SEQ5>
SEQ> NNGCNNNNNACTAATTAATA
ALN-SEQ> NNGCNNNNN
ALN-PR> -GGCGTTTT
PRIMER> PR2
START> 1
END> 9
GAPS> 0
ERROR> 0.750000
SEQ6>
SEQ> GGGATANNNACTAATTAATA
ALN-SEQ> GGGATANNN
ALN-PR> -GGANATAA
PRIMER> PR3
START> 1
END> 9
GAPS> 0
ERROR> 0.375000
SEQ7>
SEQ> NNNNNNNNNNNNNNNNNNNN
ALN-SEQ> NNNNNNNNN
ALN-PR> -CACGTTTT
PRIMER> None
START> 1
END> 9
GAPS> 0
ERROR> 1.000000
<- test_scoreAlignment() 0.021
-> test_calculateSetError()
REF> CGGCGTAA 0.4347826086956522
REF> NNNNNNNN 1.0
<- test_calculateSetError() 0.000
-> test_filterQuality()
RESULT> True 25
RESULT> False 5
RESULT> False 0
<- test_filterQuality() 0.000
-> test_meanQuality()
RESULT> 25 [30, 30, 20, 20, 30, 30, 40, 40]
RESULT> 5 [30, 30, 0, 0, 30, 30, 20, 20]
RESULT> 0 [0, 0, 0, 0, 0, 0, 0, 0]
<- test_meanQuality() 0.000
-> test_scoreDNA()
Default DNA Scores>
A==A> 1
A==T> 0
A==R> 1
U==T> 1
A==N> 1
N==A> 1
A==-> 0
-==A> 0
Symmetric DNA Scores>
A==A> 1
A==T> 0
A==R> 1
U==T> 1
A==N> 1
N==A> 1
A==-> 1
-==A> 1
Asymmetric DNA Scores>
A==A> 1
A==T> 0
A==R> 1
U==T> 1
A==N> 1
N==A> 0
A==-> 1
-==A> 0
<- test_scoreDNA() 0.000
-> test_scoreSeqPair()
Default DNA Scores>
SEQ1> CGGCGTAA
SEQ2> CGNNGTAG
SCORE> 7
WEIGHT> 8
ERROR> 0.125000
SEQ1> CGGCGTAA
SEQ3> CGGC--AA
SCORE> 6
WEIGHT> 8
ERROR> 0.250000
SEQ1> CGGCGTAA
SEQ4> CGNN--AG
SCORE> 5
WEIGHT> 8
ERROR> 0.375000
SEQ1> CGGCGTAA
SEQ5> NNNNNNNN
SCORE> 8
WEIGHT> 8
ERROR> 0.000000
SEQ1> CGGCGTAA
SEQ6> NNNNNNAA
SCORE> 8
WEIGHT> 8
ERROR> 0.000000
SEQ1> CGGCGTAA
SEQ7> --------
SCORE> 0
WEIGHT> 8
ERROR> 1.000000
SEQ1> CGGCGTAA
SEQ8> CG------
SCORE> 2
WEIGHT> 8
ERROR> 0.750000
SEQ2> CGNNGTAG
SEQ3> CGGC--AA
SCORE> 5
WEIGHT> 8
ERROR> 0.375000
SEQ2> CGNNGTAG
SEQ4> CGNN--AG
SCORE> 6
WEIGHT> 8
ERROR> 0.250000
SEQ2> CGNNGTAG
SEQ5> NNNNNNNN
SCORE> 8
WEIGHT> 8
ERROR> 0.000000
SEQ2> CGNNGTAG
SEQ6> NNNNNNAA
SCORE> 7
WEIGHT> 8
ERROR> 0.125000
SEQ2> CGNNGTAG
SEQ7> --------
SCORE> 0
WEIGHT> 8
ERROR> 1.000000
SEQ2> CGNNGTAG
SEQ8> CG------
SCORE> 2
WEIGHT> 8
ERROR> 0.750000
SEQ3> CGGC--AA
SEQ4> CGNN--AG
SCORE> 7
WEIGHT> 8
ERROR> 0.125000
SEQ3> CGGC--AA
SEQ5> NNNNNNNN
SCORE> 6
WEIGHT> 8
ERROR> 0.250000
SEQ3> CGGC--AA
SEQ6> NNNNNNAA
SCORE> 6
WEIGHT> 8
ERROR> 0.250000
SEQ3> CGGC--AA
SEQ7> --------
SCORE> 2
WEIGHT> 8
ERROR> 0.750000
SEQ3> CGGC--AA
SEQ8> CG------
SCORE> 4
WEIGHT> 8
ERROR> 0.500000
SEQ4> CGNN--AG
SEQ5> NNNNNNNN
SCORE> 6
WEIGHT> 8
ERROR> 0.250000
SEQ4> CGNN--AG
SEQ6> NNNNNNAA
SCORE> 5
WEIGHT> 8
ERROR> 0.375000
SEQ4> CGNN--AG
SEQ7> --------
SCORE> 2
WEIGHT> 8
ERROR> 0.750000
SEQ4> CGNN--AG
SEQ8> CG------
SCORE> 4
WEIGHT> 8
ERROR> 0.500000
SEQ5> NNNNNNNN
SEQ6> NNNNNNAA
SCORE> 8
WEIGHT> 8
ERROR> 0.000000
SEQ5> NNNNNNNN
SEQ7> --------
SCORE> 0
WEIGHT> 8
ERROR> 1.000000
SEQ5> NNNNNNNN
SEQ8> CG------
SCORE> 2
WEIGHT> 8
ERROR> 0.750000
SEQ6> NNNNNNAA
SEQ7> --------ok
test_weightDNA (tests.test_Sequence.TestSequence.test_weightDNA) ... ok
test_consensusUnify (tests.test_UnifyHeaders.TestConvertHeaders.test_consensusUnify) ... ok
test_deletionUnify (tests.test_UnifyHeaders.TestConvertHeaders.test_deletionUnify) ... ok
----------------------------------------------------------------------
Ran 40 tests in 0.193s
OK (skipped=6)
SCORE> 0
WEIGHT> 8
ERROR> 1.000000
SEQ6> NNNNNNAA
SEQ8> CG------
SCORE> 2
WEIGHT> 8
ERROR> 0.750000
SEQ7> --------
SEQ8> CG------
SCORE> 6
WEIGHT> 8
ERROR> 0.250000
Asymmetric DNA Scores>
SEQ1> CGGCGTAA
SEQ2> CGNNGTAG
SCORE> 7
WEIGHT> 8
ERROR> 0.125000
SEQ1> CGGCGTAA
SEQ3> CGGC--AA
SCORE> 8
WEIGHT> 8
ERROR> 0.000000
SEQ1> CGGCGTAA
SEQ4> CGNN--AG
SCORE> 7
WEIGHT> 8
ERROR> 0.125000
SEQ1> CGGCGTAA
SEQ5> NNNNNNNN
SCORE> 8
WEIGHT> 8
ERROR> 0.000000
SEQ1> CGGCGTAA
SEQ6> NNNNNNAA
SCORE> 8
WEIGHT> 8
ERROR> 0.000000
SEQ1> CGGCGTAA
SEQ7> --------
SCORE> 8
WEIGHT> 8
ERROR> 0.000000
SEQ1> CGGCGTAA
SEQ8> CG------
SCORE> 8
WEIGHT> 8
ERROR> 0.000000
SEQ2> CGNNGTAG
SEQ3> CGGC--AA
SCORE> 5
WEIGHT> 8
ERROR> 0.375000
SEQ2> CGNNGTAG
SEQ4> CGNN--AG
SCORE> 6
WEIGHT> 8
ERROR> 0.250000
SEQ2> CGNNGTAG
SEQ5> NNNNNNNN
SCORE> 6
WEIGHT> 8
ERROR> 0.250000
SEQ2> CGNNGTAG
SEQ6> NNNNNNAA
SCORE> 5
WEIGHT> 8
ERROR> 0.375000
SEQ2> CGNNGTAG
SEQ7> --------
SCORE> 6
WEIGHT> 8
ERROR> 0.250000
SEQ2> CGNNGTAG
SEQ8> CG------
SCORE> 6
WEIGHT> 8
ERROR> 0.250000
SEQ3> CGGC--AA
SEQ4> CGNN--AG
SCORE> 5
WEIGHT> 8
ERROR> 0.375000
SEQ3> CGGC--AA
SEQ5> NNNNNNNN
SCORE> 6
WEIGHT> 8
ERROR> 0.250000
SEQ3> CGGC--AA
SEQ6> NNNNNNAA
SCORE> 6
WEIGHT> 8
ERROR> 0.250000
SEQ3> CGGC--AA
SEQ7> --------
SCORE> 6
WEIGHT> 8
ERROR> 0.250000
SEQ3> CGGC--AA
SEQ8> CG------
SCORE> 6
WEIGHT> 8
ERROR> 0.250000
SEQ4> CGNN--AG
SEQ5> NNNNNNNN
SCORE> 4
WEIGHT> 8
ERROR> 0.500000
SEQ4> CGNN--AG
SEQ6> NNNNNNAA
SCORE> 3
WEIGHT> 8
ERROR> 0.625000
SEQ4> CGNN--AG
SEQ7> --------
SCORE> 4
WEIGHT> 8
ERROR> 0.500000
SEQ4> CGNN--AG
SEQ8> CG------
SCORE> 4
WEIGHT> 8
ERROR> 0.500000
SEQ5> NNNNNNNN
SEQ6> NNNNNNAA
SCORE> 0
WEIGHT> 8
ERROR> 1.000000
SEQ5> NNNNNNNN
SEQ7> --------
SCORE> 0
WEIGHT> 8
ERROR> 1.000000
SEQ5> NNNNNNNN
SEQ8> CG------
SCORE> 0
WEIGHT> 8
ERROR> 1.000000
SEQ6> NNNNNNAA
SEQ7> --------
SCORE> 2
WEIGHT> 8
ERROR> 0.750000
SEQ6> NNNNNNAA
SEQ8> CG------
SCORE> 2
WEIGHT> 8
ERROR> 0.750000
SEQ7> --------
SEQ8> CG------
SCORE> 0
WEIGHT> 8
ERROR> 1.000000
Masked DNA Scores>
SEQ1> CGGCGTAA
SEQ2> CGNNGTAG
SCORE> 5
WEIGHT> 6
ERROR> 0.166667
SEQ1> CGGCGTAA
SEQ3> CGGC--AA
SCORE> 6
WEIGHT> 8
ERROR> 0.250000
SEQ1> CGGCGTAA
SEQ4> CGNN--AG
SCORE> 3
WEIGHT> 6
ERROR> 0.500000
SEQ1> CGGCGTAA
SEQ5> NNNNNNNN
SCORE> 0
WEIGHT> 0
ERROR> 1.000000
SEQ1> CGGCGTAA
SEQ6> NNNNNNAA
SCORE> 2
WEIGHT> 2
ERROR> 0.000000
SEQ1> CGGCGTAA
SEQ7> --------
SCORE> 0
WEIGHT> 8
ERROR> 1.000000
SEQ1> CGGCGTAA
SEQ8> CG------
SCORE> 2
WEIGHT> 8
ERROR> 0.750000
SEQ2> CGNNGTAG
SEQ3> CGGC--AA
SCORE> 3
WEIGHT> 6
ERROR> 0.500000
SEQ2> CGNNGTAG
SEQ4> CGNN--AG
SCORE> 4
WEIGHT> 6
ERROR> 0.333333
SEQ2> CGNNGTAG
SEQ5> NNNNNNNN
SCORE> 0
WEIGHT> 0
ERROR> 1.000000
SEQ2> CGNNGTAG
SEQ6> NNNNNNAA
SCORE> 1
WEIGHT> 2
ERROR> 0.500000
SEQ2> CGNNGTAG
SEQ7> --------
SCORE> 0
WEIGHT> 6
ERROR> 1.000000
SEQ2> CGNNGTAG
SEQ8> CG------
SCORE> 2
WEIGHT> 6
ERROR> 0.666667
SEQ3> CGGC--AA
SEQ4> CGNN--AG
SCORE> 5
WEIGHT> 6
ERROR> 0.166667
SEQ3> CGGC--AA
SEQ5> NNNNNNNN
SCORE> 0
WEIGHT> 0
ERROR> 1.000000
SEQ3> CGGC--AA
SEQ6> NNNNNNAA
SCORE> 2
WEIGHT> 2
ERROR> 0.000000
SEQ3> CGGC--AA
SEQ7> --------
SCORE> 2
WEIGHT> 8
ERROR> 0.750000
SEQ3> CGGC--AA
SEQ8> CG------
SCORE> 4
WEIGHT> 8
ERROR> 0.500000
SEQ4> CGNN--AG
SEQ5> NNNNNNNN
SCORE> 0
WEIGHT> 0
ERROR> 1.000000
SEQ4> CGNN--AG
SEQ6> NNNNNNAA
SCORE> 1
WEIGHT> 2
ERROR> 0.500000
SEQ4> CGNN--AG
SEQ7> --------
SCORE> 2
WEIGHT> 6
ERROR> 0.666667
SEQ4> CGNN--AG
SEQ8> CG------
SCORE> 4
WEIGHT> 6
ERROR> 0.333333
SEQ5> NNNNNNNN
SEQ6> NNNNNNAA
SCORE> 0
WEIGHT> 0
ERROR> 1.000000
SEQ5> NNNNNNNN
SEQ7> --------
SCORE> 0
WEIGHT> 0
ERROR> 1.000000
SEQ5> NNNNNNNN
SEQ8> CG------
SCORE> 0
WEIGHT> 0
ERROR> 1.000000
SEQ6> NNNNNNAA
SEQ7> --------
SCORE> 0
WEIGHT> 2
ERROR> 1.000000
SEQ6> NNNNNNAA
SEQ8> CG------
SCORE> 0
WEIGHT> 2
ERROR> 1.000000
SEQ7> --------
SEQ8> CG------
SCORE> 6
WEIGHT> 8
ERROR> 0.250000
<- test_scoreSeqPair() 0.010
-> test_weightDNA()
DNA Weight>
SEQ1> 8
SEQ2> 6
SEQ3> 8
SEQ4> 6
SEQ5> 0
SEQ6> 2
SEQ7> 8
SEQ8> 8
AA Weight>
SEQ1> 8
SEQ2> 6
SEQ3> 8
SEQ4> 6
<- test_weightDNA() 0.000
-> test_consensusUnify()
ID> SEQ0|BARCODE=AAAA|SAMPLE=S1 -> SEQ0|BARCODE=AAAA|SAMPLE=S1
ID> SEQ1|BARCODE=AAAA|SAMPLE=S1 -> SEQ1|BARCODE=AAAA|SAMPLE=S1
ID> SEQ2|BARCODE=AAAA|SAMPLE=S2 -> SEQ2|BARCODE=AAAA|SAMPLE=S1
ID> SEQ3|BARCODE=AAAA|SAMPLE=S3 -> SEQ3|BARCODE=AAAA|SAMPLE=S1
ID> SEQ4|BARCODE=CCCC|SAMPLE=S1 -> SEQ4|BARCODE=CCCC|SAMPLE=S1
ID> SEQ5|BARCODE=CCCC|SAMPLE=S2 -> SEQ5|BARCODE=CCCC|SAMPLE=S1
ID> SEQ6|BARCODE=GGGG|SAMPLE=S2 -> SEQ6|BARCODE=GGGG|SAMPLE=S2
ID> SEQ7|BARCODE=GGGG|SAMPLE=S2 -> SEQ7|BARCODE=GGGG|SAMPLE=S2
<- test_consensusUnify() 0.000
-> test_deletionUnify()
ID> SEQ0|BARCODE=AAAA|SAMPLE=S1 -> False
ID> SEQ1|BARCODE=AAAA|SAMPLE=S1 -> False
ID> SEQ2|BARCODE=AAAA|SAMPLE=S2 -> False
ID> SEQ3|BARCODE=AAAA|SAMPLE=S3 -> False
ID> SEQ4|BARCODE=CCCC|SAMPLE=S1 -> False
ID> SEQ5|BARCODE=CCCC|SAMPLE=S2 -> False
ID> SEQ6|BARCODE=GGGG|SAMPLE=S2 -> True
ID> SEQ7|BARCODE=GGGG|SAMPLE=S2 -> True
<- test_deletionUnify() 0.000
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/presto-0.7.2/debian/python3-presto
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 build_scripts
running install_lib
creating /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages
creating /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin
creating /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/bin/__pycache__/UnifyHeaders.cpython-313.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/bin/__pycache__/MaskPrimers.cpython-313.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/bin/__pycache__/EstimateError.cpython-313.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/bin/__pycache__/ConvertHeaders.cpython-313.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/bin/__pycache__/CollapseSeq.cpython-313.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/bin/__pycache__/ClusterSets.cpython-313.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/bin/__pycache__/BuildConsensus.cpython-313.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/bin/__pycache__/AssemblePairs.cpython-313.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/bin/UnifyHeaders.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/bin/SplitSeq.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/bin/ParseLog.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/bin/ParseHeaders.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/bin/PairSeq.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/bin/MaskPrimers.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/bin/FilterSeq.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/bin/EstimateError.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/bin/ConvertHeaders.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/bin/CollapseSeq.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/bin/ClusterSets.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/bin/BuildConsensus.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/bin/AssemblePairs.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/bin/AlignSets.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin
creating /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto
creating /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto/__pycache__/Multiprocessing.cpython-313.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto/__pycache__/Sequence.cpython-313.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto/__pycache__/Applications.cpython-313.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto/__pycache__/Commandline.cpython-313.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto/__pycache__/IO.cpython-313.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto/__pycache__/Annotation.cpython-313.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto/__pycache__/Defaults.cpython-313.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto/__pycache__/Version.cpython-313.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto/Commandline.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto/Defaults.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto/Multiprocessing.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto/Sequence.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto/Version.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto/__init__.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto/Annotation.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto/Applications.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.13_presto/build/presto/IO.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin/UnifyHeaders.py to UnifyHeaders.cpython-313.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin/SplitSeq.py to SplitSeq.cpython-313.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin/ParseLog.py to ParseLog.cpython-313.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin/ParseHeaders.py to ParseHeaders.cpython-313.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin/PairSeq.py to PairSeq.cpython-313.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin/MaskPrimers.py to MaskPrimers.cpython-313.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin/FilterSeq.py to FilterSeq.cpython-313.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin/EstimateError.py to EstimateError.cpython-313.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin/ConvertHeaders.py to ConvertHeaders.cpython-313.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin/CollapseSeq.py to CollapseSeq.cpython-313.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin/ClusterSets.py to ClusterSets.cpython-313.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin/BuildConsensus.py to BuildConsensus.cpython-313.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin/AssemblePairs.py to AssemblePairs.cpython-313.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/bin/AlignSets.py to AlignSets.cpython-313.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto/Commandline.py to Commandline.cpython-313.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto/Defaults.py to Defaults.cpython-313.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto/Multiprocessing.py to Multiprocessing.cpython-313.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto/Sequence.py to Sequence.cpython-313.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto/Version.py to Version.cpython-313.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto/__init__.py to __init__.cpython-313.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto/Annotation.py to Annotation.cpython-313.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto/Applications.py to Applications.cpython-313.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto/IO.py to IO.cpython-313.pyc
running install_egg_info
running egg_info
creating presto.egg-info
writing presto.egg-info/PKG-INFO
writing dependency_links to presto.egg-info/dependency_links.txt
writing requirements to presto.egg-info/requires.txt
writing top-level names to presto.egg-info/top_level.txt
writing manifest file 'presto.egg-info/SOURCES.txt'
reading manifest file 'presto.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
adding license file 'LICENSE'
writing manifest file 'presto.egg-info/SOURCES.txt'
Copying presto.egg-info to /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.13/dist-packages/presto-0.7.2.egg-info
Skipping SOURCES.txt
running install_scripts
creating /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.13/UnifyHeaders.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.13/SplitSeq.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.13/ParseLog.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.13/ParseHeaders.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.13/PairSeq.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.13/MaskPrimers.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.13/FilterSeq.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.13/EstimateError.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.13/ConvertHeaders.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.13/CollapseSeq.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.13/ClusterSets.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.13/BuildConsensus.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.13/AssemblePairs.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.13/AlignSets.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
changing mode of /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin/UnifyHeaders.py to 755
changing mode of /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin/SplitSeq.py to 755
changing mode of /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin/ParseLog.py to 755
changing mode of /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin/ParseHeaders.py to 755
changing mode of /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin/PairSeq.py to 755
changing mode of /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin/MaskPrimers.py to 755
changing mode of /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin/FilterSeq.py to 755
changing mode of /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin/EstimateError.py to 755
changing mode of /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin/ConvertHeaders.py to 755
changing mode of /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin/CollapseSeq.py to 755
changing mode of /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin/ClusterSets.py to 755
changing mode of /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin/BuildConsensus.py to 755
changing mode of /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin/AssemblePairs.py to 755
changing mode of /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin/AlignSets.py to 755
debian/rules override_dh_install
make[1]: Entering directory '/build/reproducible-path/presto-0.7.2'
dh_install
mkdir -p debian/presto/usr
mv debian/python3-presto/usr/bin debian/presto/usr
make[1]: Leaving directory '/build/reproducible-path/presto-0.7.2'
dh_installdocs -O--buildsystem=pybuild
dh_installchangelogs -O--buildsystem=pybuild
dh_installexamples -O--buildsystem=pybuild
debian/rules override_dh_installman
make[1]: Entering directory '/build/reproducible-path/presto-0.7.2'
dh_installman --language=C
make[1]: Leaving directory '/build/reproducible-path/presto-0.7.2'
dh_python3 -O--buildsystem=pybuild
dh_installsystemduser -O--buildsystem=pybuild
dh_lintian -O--buildsystem=pybuild
dh_perl -O--buildsystem=pybuild
dh_link -O--buildsystem=pybuild
dh_strip_nondeterminism -O--buildsystem=pybuild
dh_compress -O--buildsystem=pybuild
dh_fixperms -O--buildsystem=pybuild
dh_missing -O--buildsystem=pybuild
dh_dwz -a -O--buildsystem=pybuild
dh_strip -a -O--buildsystem=pybuild
dh_makeshlibs -a -O--buildsystem=pybuild
dh_shlibdeps -a -O--buildsystem=pybuild
dh_installdeb -O--buildsystem=pybuild
dh_gencontrol -O--buildsystem=pybuild
dh_md5sums -O--buildsystem=pybuild
dh_builddeb -O--buildsystem=pybuild
dpkg-deb: building package 'python3-presto' in '../python3-presto_0.7.2-2_arm64.deb'.
dpkg-deb: building package 'presto' in '../presto_0.7.2-2_all.deb'.
dpkg-genbuildinfo --build=binary -O../presto_0.7.2-2_arm64.buildinfo
dpkg-genchanges --build=binary -O../presto_0.7.2-2_arm64.changes
dpkg-genchanges: info: binary-only upload (no source code included)
dpkg-source --after-build .
dpkg-source: info: using options from presto-0.7.2/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/
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/927592 and its subdirectories
I: Current time: Tue Mar 31 20:49:45 -12 2026
I: pbuilder-time-stamp: 1775033385