Wed Dec 11 11:30:53 UTC 2024  I: starting to build presto/unstable/i386 on jenkins on '2024-12-11 11:30'
Wed Dec 11 11:30:53 UTC 2024  I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_10/35460/console.log
Wed Dec 11 11:30:53 UTC 2024  I: Downloading source for unstable/presto=0.7.2-2
--2024-12-11 11:30:53--  http://deb.debian.org/debian/pool/main/p/presto/presto_0.7.2-2.dsc
Connecting to 46.16.76.132:3128... connected.
Proxy request sent, awaiting response... 200 OK
Length: 2258 (2.2K) [text/prs.lines.tag]
Saving to: ‘presto_0.7.2-2.dsc’

     0K ..                                                    100%  376M=0s

2024-12-11 11:30:53 (376 MB/s) - ‘presto_0.7.2-2.dsc’ saved [2258/2258]

Wed Dec 11 11:30:53 UTC 2024  I: presto_0.7.2-2.dsc
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512

Format: 3.0 (quilt)
Source: presto
Binary: python3-presto, presto
Architecture: any all
Version: 0.7.2-2
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Steffen Moeller <moeller@debian.org>
Homepage: https://presto.readthedocs.io
Standards-Version: 4.7.0
Vcs-Browser: https://salsa.debian.org/med-team/presto
Vcs-Git: https://salsa.debian.org/med-team/presto.git
Testsuite: autopkgtest-pkg-pybuild
Build-Depends: debhelper-compat (= 13), dh-sequence-python3, python3-all, python3-setuptools, python3-biopython <!nocheck>, python3-pandas <!nocheck>, python3-scipy <!nocheck>, python3-packaging <!nocheck>, vsearch [amd64 arm64 kfreebsd-amd64 ppc64el] <!nocheck>, cd-hit <!nocheck>
Package-List:
 presto deb python optional arch=all
 python3-presto deb python optional arch=any
Checksums-Sha1:
 8e13875cb853e6bb06f77469942f36d565277791 361536 presto_0.7.2.orig.tar.xz
 db772f99a1ec2d4c0c5410dc58bf1f15f33b8506 21812 presto_0.7.2-2.debian.tar.xz
Checksums-Sha256:
 2eb8874e93df323a6fdf8a6e198f7795d710493d6a94d25d650a8ce0aa22c37b 361536 presto_0.7.2.orig.tar.xz
 afa3486409260fc81de61677149d6986e405358bbdcc013868d836564d92f383 21812 presto_0.7.2-2.debian.tar.xz
Files:
 c10efa18782dda0f00d1a99becd31881 361536 presto_0.7.2.orig.tar.xz
 937c7d10e99dbeb4b3570a5c99ff3688 21812 presto_0.7.2-2.debian.tar.xz

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Wed Dec 11 11:30:53 UTC 2024  I: Checking whether the package is not for us
Wed Dec 11 11:30:53 UTC 2024  I: Starting 1st build on remote node infom08-i386.debian.net.
Wed Dec 11 11:30:53 UTC 2024  I: Preparing to do remote build '1' on infom08-i386.debian.net.
Wed Dec 11 11:32:25 UTC 2024  I: Deleting $TMPDIR on infom08-i386.debian.net.
I: pbuilder: network access will be disabled during build
I: Current time: Tue Jan 13 05:53:53 -12 2026
I: pbuilder-time-stamp: 1768326833
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: using eatmydata during job
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
gpgv: Signature made Mon Dec  9 21:07:49 2024 
gpgv:                using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv:                issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: cannot verify inline signature for ./presto_0.7.2-2.dsc: no acceptable signature found
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/30371/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=6 '
  DISTRIBUTION='unstable'
  HOME='/root'
  HOST_ARCH='i386'
  IFS=' 	
  '
  INVOCATION_ID='c4ce2b23ced54ad58e63ec5148457eb5'
  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='30371'
  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.ceQ6BRTq/pbuilderrc_x0tt --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.ceQ6BRTq/b1 --logfile b1/build.log presto_0.7.2-2.dsc'
  SUDO_GID='111'
  SUDO_UID='104'
  SUDO_USER='jenkins'
  TERM='unknown'
  TZ='/usr/share/zoneinfo/Etc/GMT+12'
  USER='root'
  _='/usr/bin/systemd-run'
I: uname -a
  Linux infom08-i386 6.11.5+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.11.5-1~bpo12+1 (2024-11-11) 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/30371/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-sequence-python3, python3-all, python3-setuptools, python3-biopython, python3-pandas, python3-scipy, python3-packaging, 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 ... 19952 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 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} libcom-err2{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfontenc1{a} libfreetype6{a} libfribidi0{a} libgfortran5{a} libglib2.0-0t64{a} libgraphite2-3{a} libgssapi-krb5-2{a} libharfbuzz0b{a} libicu72{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack3{a} liblbfgsb0{a} liblcms2-2{a} liblerc4{a} libmagic-mgc{a} libmagic1t64{a} libnsl2{a} libopenjp2-7{a} libpipeline1{a} libpixman-1-0{a} libpng16-16t64{a} libpython3-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libraqm0{a} libreadline8t64{a} libsharpyuv0{a} libtiff6{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libuchardet0{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-packaging{a} python3-pandas{a} python3-pandas-lib{a} python3-pil{a} python3-pkg-resources{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} python3.12{a} python3.12-minimal{a} python3.13{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} sgml-base{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:
  ca-certificates curl fonts-dejavu-extra krb5-locales 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, 131 newly installed, 0 to remove and 0 not upgraded.
Need to get 98.4 MB of archives. After unpacking 444 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian unstable/main i386 libpython3.12-minimal i386 3.12.8-1 [815 kB]
Get: 2 http://deb.debian.org/debian unstable/main i386 libexpat1 i386 2.6.4-1 [107 kB]
Get: 3 http://deb.debian.org/debian unstable/main i386 python3.12-minimal i386 3.12.8-1 [2240 kB]
Get: 4 http://deb.debian.org/debian unstable/main i386 python3-minimal i386 3.12.7-1 [26.8 kB]
Get: 5 http://deb.debian.org/debian unstable/main i386 media-types all 10.1.0 [26.9 kB]
Get: 6 http://deb.debian.org/debian unstable/main i386 netbase all 6.4 [12.8 kB]
Get: 7 http://deb.debian.org/debian unstable/main i386 tzdata all 2024b-4 [256 kB]
Get: 8 http://deb.debian.org/debian unstable/main i386 libkrb5support0 i386 1.21.3-3 [34.9 kB]
Get: 9 http://deb.debian.org/debian unstable/main i386 libcom-err2 i386 1.47.2~rc1-2 [24.0 kB]
Get: 10 http://deb.debian.org/debian unstable/main i386 libk5crypto3 i386 1.21.3-3 [83.6 kB]
Get: 11 http://deb.debian.org/debian unstable/main i386 libkeyutils1 i386 1.6.3-4 [9600 B]
Get: 12 http://deb.debian.org/debian unstable/main i386 libkrb5-3 i386 1.21.3-3 [350 kB]
Get: 13 http://deb.debian.org/debian unstable/main i386 libgssapi-krb5-2 i386 1.21.3-3 [146 kB]
Get: 14 http://deb.debian.org/debian unstable/main i386 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB]
Get: 15 http://deb.debian.org/debian unstable/main i386 libtirpc3t64 i386 1.3.4+ds-1.3+b1 [90.5 kB]
Get: 16 http://deb.debian.org/debian unstable/main i386 libnsl2 i386 1.3.0-3+b3 [42.7 kB]
Get: 17 http://deb.debian.org/debian unstable/main i386 readline-common all 8.2-5 [69.3 kB]
Get: 18 http://deb.debian.org/debian unstable/main i386 libreadline8t64 i386 8.2-5 [173 kB]
Get: 19 http://deb.debian.org/debian unstable/main i386 libpython3.12-stdlib i386 3.12.8-1 [1968 kB]
Get: 20 http://deb.debian.org/debian unstable/main i386 python3.12 i386 3.12.8-1 [677 kB]
Get: 21 http://deb.debian.org/debian unstable/main i386 libpython3-stdlib i386 3.12.7-1 [9712 B]
Get: 22 http://deb.debian.org/debian unstable/main i386 python3 i386 3.12.7-1 [27.8 kB]
Get: 23 http://deb.debian.org/debian unstable/main i386 libpython3.13-minimal i386 3.13.1-1 [856 kB]
Get: 24 http://deb.debian.org/debian unstable/main i386 python3.13-minimal i386 3.13.1-1 [2261 kB]
Get: 25 http://deb.debian.org/debian unstable/main i386 sgml-base all 1.31 [15.4 kB]
Get: 26 http://deb.debian.org/debian unstable/main i386 sensible-utils all 0.0.24 [24.8 kB]
Get: 27 http://deb.debian.org/debian unstable/main i386 libmagic-mgc i386 1:5.45-3+b1 [314 kB]
Get: 28 http://deb.debian.org/debian unstable/main i386 libmagic1t64 i386 1:5.45-3+b1 [115 kB]
Get: 29 http://deb.debian.org/debian unstable/main i386 file i386 1:5.45-3+b1 [43.2 kB]
Get: 30 http://deb.debian.org/debian unstable/main i386 gettext-base i386 0.22.5-2 [201 kB]
Get: 31 http://deb.debian.org/debian unstable/main i386 libuchardet0 i386 0.0.8-1+b2 [69.2 kB]
Get: 32 http://deb.debian.org/debian unstable/main i386 groff-base i386 1.23.0-6 [1198 kB]
Get: 33 http://deb.debian.org/debian unstable/main i386 bsdextrautils i386 2.40.2-12 [95.9 kB]
Get: 34 http://deb.debian.org/debian unstable/main i386 libpipeline1 i386 1.5.8-1 [41.2 kB]
Get: 35 http://deb.debian.org/debian unstable/main i386 man-db i386 2.13.0-1 [1428 kB]
Get: 36 http://deb.debian.org/debian unstable/main i386 m4 i386 1.4.19-4 [293 kB]
Get: 37 http://deb.debian.org/debian unstable/main i386 autoconf all 2.72-3 [493 kB]
Get: 38 http://deb.debian.org/debian unstable/main i386 autotools-dev all 20220109.1 [51.6 kB]
Get: 39 http://deb.debian.org/debian unstable/main i386 automake all 1:1.16.5-1.3 [823 kB]
Get: 40 http://deb.debian.org/debian unstable/main i386 autopoint all 0.22.5-2 [723 kB]
Get: 41 http://deb.debian.org/debian unstable/main i386 cd-hit i386 4.8.1-4 [524 kB]
Get: 42 http://deb.debian.org/debian unstable/main i386 libdebhelper-perl all 13.20 [89.7 kB]
Get: 43 http://deb.debian.org/debian unstable/main i386 libtool all 2.4.7-8 [517 kB]
Get: 44 http://deb.debian.org/debian unstable/main i386 dh-autoreconf all 20 [17.1 kB]
Get: 45 http://deb.debian.org/debian unstable/main i386 libarchive-zip-perl all 1.68-1 [104 kB]
Get: 46 http://deb.debian.org/debian unstable/main i386 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB]
Get: 47 http://deb.debian.org/debian unstable/main i386 dh-strip-nondeterminism all 1.14.0-1 [8448 B]
Get: 48 http://deb.debian.org/debian unstable/main i386 libelf1t64 i386 0.192-4 [195 kB]
Get: 49 http://deb.debian.org/debian unstable/main i386 dwz i386 0.15-1+b1 [116 kB]
Get: 50 http://deb.debian.org/debian unstable/main i386 libicu72 i386 72.1-5+b1 [9583 kB]
Get: 51 http://deb.debian.org/debian unstable/main i386 libxml2 i386 2.12.7+dfsg+really2.9.14-0.2+b1 [734 kB]
Get: 52 http://deb.debian.org/debian unstable/main i386 gettext i386 0.22.5-2 [1631 kB]
Get: 53 http://deb.debian.org/debian unstable/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get: 54 http://deb.debian.org/debian unstable/main i386 po-debconf all 1.0.21+nmu1 [248 kB]
Get: 55 http://deb.debian.org/debian unstable/main i386 debhelper all 13.20 [915 kB]
Get: 56 http://deb.debian.org/debian unstable/main i386 python3-autocommand all 2.2.2-3 [13.6 kB]
Get: 57 http://deb.debian.org/debian unstable/main i386 python3-more-itertools all 10.5.0-1 [63.8 kB]
Get: 58 http://deb.debian.org/debian unstable/main i386 python3-typing-extensions all 4.12.2-2 [73.0 kB]
Get: 59 http://deb.debian.org/debian unstable/main i386 python3-typeguard all 4.4.1-1 [37.0 kB]
Get: 60 http://deb.debian.org/debian unstable/main i386 python3-inflect all 7.3.1-2 [32.4 kB]
Get: 61 http://deb.debian.org/debian unstable/main i386 python3-jaraco.context all 6.0.0-1 [7984 B]
Get: 62 http://deb.debian.org/debian unstable/main i386 python3-jaraco.functools all 4.1.0-1 [12.0 kB]
Get: 63 http://deb.debian.org/debian unstable/main i386 python3-pkg-resources all 75.2.0-1 [213 kB]
Get: 64 http://deb.debian.org/debian unstable/main i386 python3-jaraco.text all 4.0.0-1 [11.4 kB]
Get: 65 http://deb.debian.org/debian unstable/main i386 python3-zipp all 3.21.0-1 [10.6 kB]
Get: 66 http://deb.debian.org/debian unstable/main i386 python3-setuptools all 75.2.0-1 [731 kB]
Get: 67 http://deb.debian.org/debian unstable/main i386 dh-python all 6.20241024 [109 kB]
Get: 68 http://deb.debian.org/debian unstable/main i386 fonts-dejavu-mono all 2.37-8 [489 kB]
Get: 69 http://deb.debian.org/debian unstable/main i386 fonts-dejavu-core all 2.37-8 [840 kB]
Get: 70 http://deb.debian.org/debian unstable/main i386 libfontenc1 i386 1:1.1.8-1+b1 [23.4 kB]
Get: 71 http://deb.debian.org/debian unstable/main i386 libbrotli1 i386 1.1.0-2+b6 [308 kB]
Get: 72 http://deb.debian.org/debian unstable/main i386 libpng16-16t64 i386 1.6.44-3 [288 kB]
Get: 73 http://deb.debian.org/debian unstable/main i386 libfreetype6 i386 2.13.3+dfsg-1 [464 kB]
Get: 74 http://deb.debian.org/debian unstable/main i386 x11-common all 1:7.7+23.1 [216 kB]
Get: 75 http://deb.debian.org/debian unstable/main i386 xfonts-encodings all 1:1.0.4-2.2 [577 kB]
Get: 76 http://deb.debian.org/debian unstable/main i386 xfonts-utils i386 1:7.7+7 [95.1 kB]
Get: 77 http://deb.debian.org/debian unstable/main i386 fonts-urw-base35 all 20200910-8 [10.8 MB]
Get: 78 http://deb.debian.org/debian unstable/main i386 fontconfig-config i386 2.15.0-1.1+b1 [318 kB]
Get: 79 http://deb.debian.org/debian unstable/main i386 libblas3 i386 3.12.0-4 [143 kB]
Get: 80 http://deb.debian.org/debian unstable/main i386 libfontconfig1 i386 2.15.0-1.1+b1 [402 kB]
Get: 81 http://deb.debian.org/debian unstable/main i386 libpixman-1-0 i386 0.44.0-3 [246 kB]
Get: 82 http://deb.debian.org/debian unstable/main i386 libxau6 i386 1:1.0.11-1 [20.7 kB]
Get: 83 http://deb.debian.org/debian unstable/main i386 libxdmcp6 i386 1:1.1.5-1 [28.2 kB]
Get: 84 http://deb.debian.org/debian unstable/main i386 libxcb1 i386 1.17.0-2+b1 [148 kB]
Get: 85 http://deb.debian.org/debian unstable/main i386 libx11-data all 2:1.8.10-2 [337 kB]
Get: 86 http://deb.debian.org/debian unstable/main i386 libx11-6 i386 2:1.8.10-2 [834 kB]
Get: 87 http://deb.debian.org/debian unstable/main i386 libxcb-render0 i386 1.17.0-2+b1 [116 kB]
Get: 88 http://deb.debian.org/debian unstable/main i386 libxcb-shm0 i386 1.17.0-2+b1 [105 kB]
Get: 89 http://deb.debian.org/debian unstable/main i386 libxext6 i386 2:1.3.4-1+b2 [52.6 kB]
Get: 90 http://deb.debian.org/debian unstable/main i386 libxrender1 i386 1:0.9.10-1.1+b2 [28.9 kB]
Get: 91 http://deb.debian.org/debian unstable/main i386 libcairo2 i386 1.18.2-2 [591 kB]
Get: 92 http://deb.debian.org/debian unstable/main i386 libdeflate0 i386 1.22-1 [48.1 kB]
Get: 93 http://deb.debian.org/debian unstable/main i386 libfribidi0 i386 1.0.16-1 [27.0 kB]
Get: 94 http://deb.debian.org/debian unstable/main i386 libgfortran5 i386 14.2.0-8 [735 kB]
Get: 95 http://deb.debian.org/debian unstable/main i386 libglib2.0-0t64 i386 2.82.3-2 [1572 kB]
Get: 96 http://deb.debian.org/debian unstable/main i386 libgraphite2-3 i386 1.3.14-2+b1 [77.8 kB]
Get: 97 http://deb.debian.org/debian unstable/main i386 libharfbuzz0b i386 10.1.0-1 [503 kB]
Get: 98 http://deb.debian.org/debian unstable/main i386 libimagequant0 i386 2.18.0-1+b2 [36.0 kB]
Get: 99 http://deb.debian.org/debian unstable/main i386 libjbig0 i386 2.1-6.1+b2 [32.2 kB]
Get: 100 http://deb.debian.org/debian unstable/main i386 libjpeg62-turbo i386 1:2.1.5-3+b1 [171 kB]
Get: 101 http://deb.debian.org/debian unstable/main i386 liblapack3 i386 3.12.0-4 [2194 kB]
Get: 102 http://deb.debian.org/debian unstable/main i386 liblbfgsb0 i386 3.0+dfsg.4-1+b2 [29.5 kB]
Get: 103 http://deb.debian.org/debian unstable/main i386 liblcms2-2 i386 2.16-2 [171 kB]
Get: 104 http://deb.debian.org/debian unstable/main i386 liblerc4 i386 4.0.0+ds-5 [191 kB]
Get: 105 http://deb.debian.org/debian unstable/main i386 libopenjp2-7 i386 2.5.0-2+b4 [210 kB]
Get: 106 http://deb.debian.org/debian unstable/main i386 libpython3.13-stdlib i386 3.13.1-1 [1979 kB]
Get: 107 http://deb.debian.org/debian unstable/main i386 libraqm0 i386 0.10.2-1 [14.6 kB]
Get: 108 http://deb.debian.org/debian unstable/main i386 libsharpyuv0 i386 1.4.0-0.1+b1 [113 kB]
Get: 109 http://deb.debian.org/debian unstable/main i386 libwebp7 i386 1.4.0-0.1+b1 [322 kB]
Get: 110 http://deb.debian.org/debian unstable/main i386 libtiff6 i386 4.5.1+git230720-5 [339 kB]
Get: 111 http://deb.debian.org/debian unstable/main i386 libwebpdemux2 i386 1.4.0-0.1+b1 [111 kB]
Get: 112 http://deb.debian.org/debian unstable/main i386 libwebpmux3 i386 1.4.0-0.1+b1 [125 kB]
Get: 113 http://deb.debian.org/debian unstable/main i386 python3.13 i386 3.13.1-1 [740 kB]
Get: 114 http://deb.debian.org/debian unstable/main i386 python3-all i386 3.12.7-1 [1052 B]
Get: 115 http://deb.debian.org/debian unstable/main i386 python3-numpy i386 1:1.26.4+ds-12 [4752 kB]
Get: 116 http://deb.debian.org/debian unstable/main i386 python3-chardet all 5.2.0+dfsg-1 [107 kB]
Get: 117 http://deb.debian.org/debian unstable/main i386 python3-pil i386 10.4.0-1+b1 [513 kB]
Get: 118 http://deb.debian.org/debian unstable/main i386 python3-cairo i386 1.26.1-2+b1 [131 kB]
Get: 119 http://deb.debian.org/debian unstable/main i386 python3-freetype all 2.5.1-1 [89.3 kB]
Get: 120 http://deb.debian.org/debian unstable/main i386 python3-rlpycairo all 0.3.0-3 [9904 B]
Get: 121 http://deb.debian.org/debian unstable/main i386 python3-reportlab all 4.2.5-1 [1117 kB]
Get: 122 http://deb.debian.org/debian unstable/main i386 xml-core all 0.19 [20.1 kB]
Get: 123 http://deb.debian.org/debian unstable/main i386 w3c-sgml-lib all 1.3-3 [273 kB]
Get: 124 http://deb.debian.org/debian unstable/main i386 python3-biopython i386 1.84+dfsg-4+b1 [1648 kB]
Get: 125 http://deb.debian.org/debian unstable/main i386 python3-dateutil all 2.9.0-3 [79.3 kB]
Get: 126 http://deb.debian.org/debian unstable/main i386 python3-decorator all 5.1.1-5 [15.1 kB]
Get: 127 http://deb.debian.org/debian unstable/main i386 python3-packaging all 24.2-1 [55.3 kB]
Get: 128 http://deb.debian.org/debian unstable/main i386 python3-tz all 2024.1-2 [30.9 kB]
Get: 129 http://deb.debian.org/debian unstable/main i386 python3-pandas-lib i386 2.2.3+dfsg-5+b1 [6860 kB]
Get: 130 http://deb.debian.org/debian unstable/main i386 python3-pandas all 2.2.3+dfsg-5 [3096 kB]
Get: 131 http://deb.debian.org/debian unstable/main i386 python3-scipy i386 1.14.1-3 [20.1 MB]
Fetched 98.4 MB in 1s (113 MB/s)
debconf: delaying package configuration, since apt-utils is not installed
Selecting previously unselected package libpython3.12-minimal:i386.
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Unpacking libpython3.12-minimal:i386 (3.12.8-1) ...
Selecting previously unselected package libexpat1:i386.
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Unpacking python3.12-minimal (3.12.8-1) ...
Setting up libpython3.12-minimal:i386 (3.12.8-1) ...
Setting up libexpat1:i386 (2.6.4-1) ...
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Unpacking python3-minimal (3.12.7-1) ...
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Unpacking media-types (10.1.0) ...
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Unpacking netbase (6.4) ...
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Unpacking tzdata (2024b-4) ...
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Unpacking libkrb5support0:i386 (1.21.3-3) ...
Selecting previously unselected package libcom-err2:i386.
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Unpacking libcom-err2:i386 (1.47.2~rc1-2) ...
Selecting previously unselected package libk5crypto3:i386.
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Unpacking libk5crypto3:i386 (1.21.3-3) ...
Selecting previously unselected package libkeyutils1:i386.
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Unpacking libkeyutils1:i386 (1.6.3-4) ...
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Unpacking libkrb5-3:i386 (1.21.3-3) ...
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Unpacking libgssapi-krb5-2:i386 (1.21.3-3) ...
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Unpacking libtirpc-common (1.3.4+ds-1.3) ...
Selecting previously unselected package libtirpc3t64:i386.
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Adding 'diversion of /lib/i386-linux-gnu/libtirpc.so.3 to /lib/i386-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64'
Adding 'diversion of /lib/i386-linux-gnu/libtirpc.so.3.0.0 to /lib/i386-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64'
Unpacking libtirpc3t64:i386 (1.3.4+ds-1.3+b1) ...
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Unpacking libnsl2:i386 (1.3.0-3+b3) ...
Selecting previously unselected package readline-common.
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Unpacking readline-common (8.2-5) ...
Selecting previously unselected package libreadline8t64:i386.
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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 (8.2-5) ...
Selecting previously unselected package libpython3.12-stdlib:i386.
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Selecting previously unselected package python3.12.
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Unpacking python3.12 (3.12.8-1) ...
Selecting previously unselected package libpython3-stdlib:i386.
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Setting up python3-minimal (3.12.7-1) ...
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Unpacking python3 (3.12.7-1) ...
Selecting previously unselected package libpython3.13-minimal:i386.
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Unpacking libpython3.13-minimal:i386 (3.13.1-1) ...
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Unpacking dh-strip-nondeterminism (1.14.0-1) ...
Selecting previously unselected package libelf1t64:i386.
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Unpacking libelf1t64:i386 (0.192-4) ...
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Unpacking dwz (0.15-1+b1) ...
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Unpacking python3-jaraco.text (4.0.0-1) ...
Selecting previously unselected package python3-zipp.
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Unpacking python3-zipp (3.21.0-1) ...
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Unpacking dh-python (6.20241024) ...
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Unpacking fonts-dejavu-mono (2.37-8) ...
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Unpacking fonts-dejavu-core (2.37-8) ...
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Unpacking libfontenc1:i386 (1:1.1.8-1+b1) ...
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Selecting previously unselected package libpng16-16t64:i386.
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Selecting previously unselected package libfreetype6:i386.
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Unpacking libfreetype6:i386 (2.13.3+dfsg-1) ...
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Unpacking x11-common (1:7.7+23.1) ...
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Current default time zone: 'Etc/UTC'
Local time is now:      Tue Jan 13 17:54:17 UTC 2026.
Universal Time is now:  Tue Jan 13 17:54:17 UTC 2026.
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update-alternatives: using /usr/lib/i386-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/i386-linux-gnu/liblapack.so.3 (liblapack.so.3-i386-linux-gnu) in auto mode
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Not building database; man-db/auto-update is not 'true'.
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Setting up python3-jaraco.functools (4.1.0-1) ...
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Setting up python3-all (3.12.7-1) ...
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Setting up python3-jaraco.text (4.0.0-1) ...
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Setting up python3-chardet (5.2.0+dfsg-1) ...
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Reading package lists...
Building dependency tree...
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Building tag database...
 -> 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 i386
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-i686' does not exist -- can't clean it
'build/scripts-3.13' does not exist -- can't clean it
I: pybuild base:311: python3.12 setup.py clean 
running clean
removing '/build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build' (and everything under it)
'build/bdist.linux-i686' does not exist -- can't clean it
'build/scripts-3.12' 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
I: pybuild base:311: python3.12 setup.py config 
running config
   dh_auto_build -O--buildsystem=pybuild
I: pybuild base:311: /usr/bin/python3.13 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/Annotation.py -> /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/Version.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/Commandline.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/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
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
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_3.12_presto/build/presto
copying presto/Annotation.py -> /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto
copying presto/IO.py -> /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto
copying presto/Version.py -> /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto
copying presto/Applications.py -> /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto
copying presto/Commandline.py -> /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto
copying presto/__init__.py -> /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto
copying presto/Sequence.py -> /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto
copying presto/Multiprocessing.py -> /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto
copying presto/Defaults.py -> /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto
running build_scripts
creating build/scripts-3.12
copying and adjusting bin/AlignSets.py -> build/scripts-3.12
copying and adjusting bin/AssemblePairs.py -> build/scripts-3.12
copying and adjusting bin/BuildConsensus.py -> build/scripts-3.12
copying and adjusting bin/ClusterSets.py -> build/scripts-3.12
copying and adjusting bin/CollapseSeq.py -> build/scripts-3.12
copying and adjusting bin/ConvertHeaders.py -> build/scripts-3.12
copying and adjusting bin/EstimateError.py -> build/scripts-3.12
copying and adjusting bin/FilterSeq.py -> build/scripts-3.12
copying and adjusting bin/MaskPrimers.py -> build/scripts-3.12
copying and adjusting bin/PairSeq.py -> build/scripts-3.12
copying and adjusting bin/ParseHeaders.py -> build/scripts-3.12
copying and adjusting bin/ParseLog.py -> build/scripts-3.12
copying and adjusting bin/SplitSeq.py -> build/scripts-3.12
copying and adjusting bin/UnifyHeaders.py -> build/scripts-3.12
changing mode of build/scripts-3.12/AlignSets.py from 644 to 755
changing mode of build/scripts-3.12/AssemblePairs.py from 644 to 755
changing mode of build/scripts-3.12/BuildConsensus.py from 644 to 755
changing mode of build/scripts-3.12/ClusterSets.py from 644 to 755
changing mode of build/scripts-3.12/CollapseSeq.py from 644 to 755
changing mode of build/scripts-3.12/ConvertHeaders.py from 644 to 755
changing mode of build/scripts-3.12/EstimateError.py from 644 to 755
changing mode of build/scripts-3.12/FilterSeq.py from 644 to 755
changing mode of build/scripts-3.12/MaskPrimers.py from 644 to 755
changing mode of build/scripts-3.12/PairSeq.py from 644 to 755
changing mode of build/scripts-3.12/ParseHeaders.py from 644 to 755
changing mode of build/scripts-3.12/ParseLog.py from 644 to 755
changing mode of build/scripts-3.12/SplitSeq.py from 644 to 755
changing mode of build/scripts-3.12/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; rm /build/reproducible-path/presto-0.7.2/tests/test_ClusterSets.py || echo "Test file already removed or moved";
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_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_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

  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
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) ... 
  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() 0.018
-> 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() 0.001
-> 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() 0.006
-> 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> --------
   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> 8ok
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 38 tests in 0.035s

OK (skipped=6)

  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() 0.004
-> 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
I: pybuild pybuild:308: cp -r /build/reproducible-path/presto-0.7.2/bin /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build; rm /build/reproducible-path/presto-0.7.2/tests/test_ClusterSets.py || echo "Test file already removed or moved";
rm: cannot remove '/build/reproducible-path/presto-0.7.2/tests/test_ClusterSets.py': No such file or directory
Test file already removed or moved
I: pybuild base:311: cd /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build; python3.12 -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_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_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

  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
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) ... 
  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() 0.021
-> 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() 0.001
-> 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() 0.007
-> 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> --------
   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> 8ok
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 38 tests in 0.041s

OK (skipped=6)

  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() 0.005
-> 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/python3.13 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:66: 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
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/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/AlignSets.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
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__/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__/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__/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__/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__/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__/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/__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/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/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/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/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/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/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/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/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/ParseLog.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
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/IO.py -> /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__/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__/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__/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__/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__/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__/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__/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__/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__/__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/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/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/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/__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/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/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/Defaults.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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/IO.py to IO.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/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/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/__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/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/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/Defaults.py to Defaults.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/ParseHeaders.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/AlignSets.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/UnifyHeaders.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/AssemblePairs.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/PairSeq.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/ConvertHeaders.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/ParseLog.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/ParseHeaders.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/AlignSets.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/UnifyHeaders.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/AssemblePairs.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/PairSeq.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/ConvertHeaders.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/ParseLog.py to 755
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:66: 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/python3.12/dist-packages
creating /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/bin/ParseHeaders.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/bin/BuildConsensus.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/bin/AlignSets.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/bin/CollapseSeq.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin
creating /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/bin/__pycache__/MaskPrimers.cpython-312.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/bin/__pycache__/ConvertHeaders.cpython-312.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/bin/__pycache__/CollapseSeq.cpython-312.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/bin/__pycache__/BuildConsensus.cpython-312.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/bin/__pycache__/UnifyHeaders.cpython-312.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/bin/__pycache__/EstimateError.cpython-312.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/bin/__pycache__/AssemblePairs.cpython-312.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/bin/UnifyHeaders.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/bin/ClusterSets.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/bin/AssemblePairs.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/bin/MaskPrimers.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/bin/PairSeq.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/bin/SplitSeq.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/bin/ConvertHeaders.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/bin/FilterSeq.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/bin/EstimateError.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/bin/ParseLog.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin
creating /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto/Annotation.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto/IO.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto
creating /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto/__pycache__/Commandline.cpython-312.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto/__pycache__/__init__.cpython-312.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto/__pycache__/Defaults.cpython-312.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto/__pycache__/Sequence.cpython-312.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto/__pycache__/Annotation.cpython-312.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto/__pycache__/IO.cpython-312.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto/__pycache__/Version.cpython-312.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto/__pycache__/Applications.cpython-312.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto/__pycache__/Multiprocessing.cpython-312.pyc -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/__pycache__
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto/Version.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto/Applications.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto/Commandline.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto/__init__.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto/Sequence.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto/Multiprocessing.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto
copying /build/reproducible-path/presto-0.7.2/.pybuild/cpython3_3.12_presto/build/presto/Defaults.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/ParseHeaders.py to ParseHeaders.cpython-312.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/BuildConsensus.py to BuildConsensus.cpython-312.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/AlignSets.py to AlignSets.cpython-312.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/CollapseSeq.py to CollapseSeq.cpython-312.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/UnifyHeaders.py to UnifyHeaders.cpython-312.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/ClusterSets.py to ClusterSets.cpython-312.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/AssemblePairs.py to AssemblePairs.cpython-312.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/MaskPrimers.py to MaskPrimers.cpython-312.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/PairSeq.py to PairSeq.cpython-312.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/SplitSeq.py to SplitSeq.cpython-312.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/ConvertHeaders.py to ConvertHeaders.cpython-312.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/FilterSeq.py to FilterSeq.cpython-312.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/EstimateError.py to EstimateError.cpython-312.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/ParseLog.py to ParseLog.cpython-312.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/Annotation.py to Annotation.cpython-312.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/IO.py to IO.cpython-312.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/Version.py to Version.cpython-312.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/Applications.py to Applications.cpython-312.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/Commandline.py to Commandline.cpython-312.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/__init__.py to __init__.cpython-312.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/Sequence.py to Sequence.cpython-312.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/Multiprocessing.py to Multiprocessing.cpython-312.pyc
byte-compiling /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/Defaults.py to Defaults.cpython-312.pyc
running install_egg_info
running 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
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/python3.12/dist-packages/presto-0.7.2.egg-info
Skipping SOURCES.txt
running install_scripts
copying build/scripts-3.12/ParseHeaders.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.12/BuildConsensus.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.12/AlignSets.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.12/CollapseSeq.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.12/UnifyHeaders.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.12/ClusterSets.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.12/AssemblePairs.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.12/MaskPrimers.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.12/PairSeq.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.12/SplitSeq.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.12/ConvertHeaders.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.12/FilterSeq.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.12/EstimateError.py -> /build/reproducible-path/presto-0.7.2/debian/python3-presto/usr/bin
copying build/scripts-3.12/ParseLog.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/ParseHeaders.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/AlignSets.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/UnifyHeaders.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/AssemblePairs.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/PairSeq.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/ConvertHeaders.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/ParseLog.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_i386.deb'.
dpkg-deb: building package 'presto' in '../presto_0.7.2-2_all.deb'.
 dpkg-genbuildinfo --build=binary -O../presto_0.7.2-2_i386.buildinfo
 dpkg-genchanges --build=binary -O../presto_0.7.2-2_i386.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/30371 and its subdirectories
I: Current time: Tue Jan 13 05:55:22 -12 2026
I: pbuilder-time-stamp: 1768326922
Wed Dec 11 11:32:25 UTC 2024  I: 1st build successful. Starting 2nd build on remote node ionos12-i386.debian.net.
Wed Dec 11 11:32:25 UTC 2024  I: Preparing to do remote build '2' on ionos12-i386.debian.net.
Wed Dec 11 11:36:58 UTC 2024  I: Deleting $TMPDIR on ionos12-i386.debian.net.
Wed Dec 11 11:36:58 UTC 2024  I: presto_0.7.2-2_i386.changes:
Format: 1.8
Date: Mon, 09 Dec 2024 20:54:04 +0100
Source: presto
Binary: presto python3-presto
Architecture: all i386
Version: 0.7.2-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
 presto     - toolkit for processing B and T cell sequences
 python3-presto - toolkit for processing B and T cell sequences (Python3 module)
Closes: 1085789
Changes:
 presto (0.7.2-2) unstable; urgency=medium
 .
   * Team upload.
   * Fix Python3.12 string syntax
     Closes: #1085789
   * Standards-Version: 4.7.0 (routine-update)
Checksums-Sha1:
 4eba34db118f1ff107202a02635794eb6e39a76d 239504 presto_0.7.2-2_all.deb
 d44d61a9a101189c9b2ec54f705ec76c59cd72a3 8103 presto_0.7.2-2_i386.buildinfo
 78664a1a1b9ab61474b6ec6c55e01ed998251d50 79648 python3-presto_0.7.2-2_i386.deb
Checksums-Sha256:
 d23a4f898705ace714cfab5619d8c47b2210f17c7553a1aebab44b72fc83f20c 239504 presto_0.7.2-2_all.deb
 ccb683fa8e6680a6f178b3fa2863b6e0e45b883be0a5347ec87fd8bf9706721d 8103 presto_0.7.2-2_i386.buildinfo
 140de3ed7a070a70e77760c052a1e4b6b6ae80b9bfc7114a760378bb404bd81e 79648 python3-presto_0.7.2-2_i386.deb
Files:
 87fdcaa2817fafc9293c5bfb1627429b 239504 python optional presto_0.7.2-2_all.deb
 25fbf418584d530bed0de3b124a91f26 8103 python optional presto_0.7.2-2_i386.buildinfo
 82295e032e168b66a008c9b4d4b0dead 79648 python optional python3-presto_0.7.2-2_i386.deb
Wed Dec 11 11:36:59 UTC 2024  I: diffoscope 284 will be used to compare the two builds:
Running as unit: rb-diffoscope-i386_10-35460.service
# Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.ceQ6BRTq/presto_0.7.2-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.ceQ6BRTq/presto_0.7.2-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.ceQ6BRTq/presto_0.7.2-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.ceQ6BRTq/b1/presto_0.7.2-2_i386.changes /srv/reproducible-results/rbuild-debian/r-b-build.ceQ6BRTq/b2/presto_0.7.2-2_i386.changes

## command (total time: 0.000s)
       0.000s      1 call     cmp (internal)

## has_same_content_as (total time: 0.000s)
       0.000s      1 call     abc.DotChangesFile

## main (total time: 0.338s)
       0.337s      2 calls    outputs
       0.000s      1 call     cleanup

## recognizes (total time: 0.018s)
       0.018s     12 calls    diffoscope.comparators.binary.FilesystemFile

## specialize (total time: 0.000s)
       0.000s      1 call     specialize
Finished with result: success
Main processes terminated with: code=exited/status=0
Service runtime: 688ms
CPU time consumed: 689ms
Wed Dec 11 11:37:00 UTC 2024  I: diffoscope 284 found no differences in the changes files, and a .buildinfo file also exists.
Wed Dec 11 11:37:00 UTC 2024  I: presto from unstable built successfully and reproducibly on i386.
Wed Dec 11 11:37:01 UTC 2024  I: Submitting .buildinfo files to external archives:
Wed Dec 11 11:37:01 UTC 2024  I: Submitting 12K	b1/presto_0.7.2-2_i386.buildinfo.asc
Wed Dec 11 11:37:02 UTC 2024  I: Submitting 12K	b2/presto_0.7.2-2_i386.buildinfo.asc
Wed Dec 11 11:37:04 UTC 2024  I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit.
Wed Dec 11 11:37:04 UTC 2024  I: Done submitting .buildinfo files.
Wed Dec 11 11:37:04 UTC 2024  I: Removing signed presto_0.7.2-2_i386.buildinfo.asc files:
removed './b1/presto_0.7.2-2_i386.buildinfo.asc'
removed './b2/presto_0.7.2-2_i386.buildinfo.asc'