Mon Mar 18 20:32:41 UTC 2024 I: starting to build tnseq-transit/trixie/i386 on jenkins on '2024-03-18 20:32' Mon Mar 18 20:32:41 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_2/15497/console.log Mon Mar 18 20:32:41 UTC 2024 I: Downloading source for trixie/tnseq-transit=3.3.4-1 --2024-03-18 20:32:41-- http://deb.debian.org/debian/pool/main/t/tnseq-transit/tnseq-transit_3.3.4-1.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2380 (2.3K) [text/prs.lines.tag] Saving to: ‘tnseq-transit_3.3.4-1.dsc’ 0K .. 100% 335M=0s 2024-03-18 20:32:44 (335 MB/s) - ‘tnseq-transit_3.3.4-1.dsc’ saved [2380/2380] Mon Mar 18 20:32:45 UTC 2024 I: tnseq-transit_3.3.4-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: tnseq-transit Binary: tnseq-transit Architecture: any Version: 3.3.4-1 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Étienne Mollier Homepage: http://saclab.tamu.edu/essentiality/transit/ Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/tnseq-transit Vcs-Git: https://salsa.debian.org/med-team/tnseq-transit.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), dh-sequence-python3, python3-dev, python3-setuptools, python3-numpy, python3-scipy, python3-pil, python3-matplotlib, python3-sklearn , python3-statsmodels, python3-pubsub, bwa Package-List: tnseq-transit deb science optional arch=any Checksums-Sha1: 60d03c5298ea66391727577925885caa68c0b2f8 54888812 tnseq-transit_3.3.4.orig.tar.gz 7e4a1eaf353086a197b706081d07664d19d896ba 6872 tnseq-transit_3.3.4-1.debian.tar.xz Checksums-Sha256: c6dbc9c176c047960dc47a0d339da86353f5e20fef2ae0f6ec6a5ae46a6c3cb4 54888812 tnseq-transit_3.3.4.orig.tar.gz d9c48bcb920fec0772eba3248792ca9bfb2722e8ad8844cd44653dd58326c4c7 6872 tnseq-transit_3.3.4-1.debian.tar.xz Files: 46a399722e6efcc6d8c189d0c354cfce 54888812 tnseq-transit_3.3.4.orig.tar.gz cfd0cd403f4dcb436bf865a77a1ed1ab 6872 tnseq-transit_3.3.4-1.debian.tar.xz Dgit: db91e6cdde09cc6fb8662e1693dcbf7223d5c38e debian archive/debian/3.3.4-1 https://git.dgit.debian.org/tnseq-transit -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmXSD/cUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdrz1hAArIHcgAGxr5uyiArl66tbazf3zhXT o79EGzVlNvXd8F9xMkjR5qy0PIMbBohRSvKHjgxCG7Lv5nL5/b5lkluCkxWDF+sN /kixzkhh9mJdsBFduzrBA26hwTmN3/VWsVocNlm+l6BoLrtGP6Fp95HxNSMGPptl 2wXhYaiultO4bNmZoKpNMZ6RvXHZFXY6ZwbFiCZKvZ0OXvPyBPt8kPpB4EdsruCm JpWraAuNJY1TSSag+q/XhNJGo5w3ZI+r1sMtP9/DShtCBtl24Xweya0NN3bDjMaD e17o5U5ggSK4tHltraodHlaUz0t1cHVTNSuLekdIUlLG8UfhwFW5I+I75gM4FhPw EDwFYNUCXD3/VfXhmFloSsoJmhPmYB5QyY3ER0xWuzIrS1brkdtZVOLGATihmhFg vMn2lhPOTENnNoc3QC94NPERruDaL1fMKnXTM+WRIp7qoaEp5YcBmnaLpVI4B8zF 8rhkNbjxqminUhb2/z/eY+UVZvkm0szMRMLJ1G67gjZWsVysFbolEunX1Jx68Qcf lo0fOfxvmrRfTXSb6s7TRtqwOynEgvk0C6KaUiSfvuSapB8LMFtw0t140fVSp7oS XzpmfF9f7H/qODssniG+h/Bv/K3hVvK5q8dddSk3ZV0kFroxRorPqytWfDPTXzIw TEAkHG/FR+xYWrA= =jxzS -----END PGP SIGNATURE----- Mon Mar 18 20:32:45 UTC 2024 I: Checking whether the package is not for us Mon Mar 18 20:32:45 UTC 2024 I: Starting 1st build on remote node ionos6-i386.debian.net. Mon Mar 18 20:32:45 UTC 2024 I: Preparing to do remote build '1' on ionos6-i386.debian.net. Mon Mar 18 20:36:51 UTC 2024 I: Deleting $TMPDIR on ionos6-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sun Apr 20 14:55:48 -12 2025 I: pbuilder-time-stamp: 1745204148 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [tnseq-transit_3.3.4-1.dsc] I: copying [./tnseq-transit_3.3.4.orig.tar.gz] I: copying [./tnseq-transit_3.3.4-1.debian.tar.xz] I: Extracting source gpgv: Signature made Sun Feb 18 14:11:03 2024 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./tnseq-transit_3.3.4-1.dsc: no acceptable signature found dpkg-source: info: extracting tnseq-transit in tnseq-transit-3.3.4 dpkg-source: info: unpacking tnseq-transit_3.3.4.orig.tar.gz dpkg-source: info: unpacking tnseq-transit_3.3.4-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying skip_test_requiring_non_existing_input_data.patch dpkg-source: info: applying fix_problematic_comparison.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/33393/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=22 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='16f4a0a0623347e3ba2d9d74abddba5d' 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='33393' 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.L0DGf8rH/pbuilderrc_MlH3 --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.L0DGf8rH/b1 --logfile b1/build.log tnseq-transit_3.3.4-1.dsc' SUDO_GID='112' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://85.184.249.68:3128' I: uname -a Linux ionos6-i386 6.1.0-18-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.76-1 (2024-02-01) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Apr 19 17:48 /bin -> usr/bin I: user script /srv/workspace/pbuilder/33393/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 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-dev, python3-setuptools, python3-numpy, python3-scipy, python3-pil, python3-matplotlib, python3-sklearn, python3-statsmodels, python3-pubsub, bwa dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19816 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-dev; however: Package python3-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-scipy; however: Package python3-scipy is not installed. pbuilder-satisfydepends-dummy depends on python3-pil; however: Package python3-pil is not installed. pbuilder-satisfydepends-dummy depends on python3-matplotlib; however: Package python3-matplotlib is not installed. pbuilder-satisfydepends-dummy depends on python3-sklearn; however: Package python3-sklearn is not installed. pbuilder-satisfydepends-dummy depends on python3-statsmodels; however: Package python3-statsmodels is not installed. pbuilder-satisfydepends-dummy depends on python3-pubsub; however: Package python3-pubsub is not installed. pbuilder-satisfydepends-dummy depends on bwa; however: Package bwa 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} blt{a} bsdextrautils{a} bwa{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-lyx{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libbrotli1{a} libbsd0{a} libdebhelper-perl{a} libdeflate0{a} libelf1{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgfortran5{a} libglib2.0-0{a} libgraphite2-3{a} libharfbuzz0b{a} libicu72{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-jquery-ui{a} libjs-sphinxdoc{a} libjs-underscore{a} liblapack3{a} liblbfgsb0{a} liblcms2-2{a} liblerc4{a} libmagic-mgc{a} libmagic1{a} libopenjp2-7{a} libpipeline1{a} libpng16-16{a} libproc2-0{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.11{a} libpython3.11-dev{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libqhull-r8.0{a} libraqm0{a} libreadline8{a} libsharpyuv0{a} libsub-override-perl{a} libtcl8.6{a} libtiff6{a} libtk8.6{a} libtool{a} libuchardet0{a} libwebp7{a} libwebpdemux2{a} libwebpmux3{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxft2{a} libxml2{a} libxrender1{a} libxslt1.1{a} libxss1{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} procps{a} python-matplotlib-data{a} python3{a} python3-appdirs{a} python3-attr{a} python3-brotli{a} python3-contourpy{a} python3-cycler{a} python3-dateutil{a} python3-decorator{a} python3-dev{a} python3-distutils{a} python3-fonttools{a} python3-fs{a} python3-joblib{a} python3-kiwisolver{a} python3-lib2to3{a} python3-lxml{a} python3-lz4{a} python3-matplotlib{a} python3-minimal{a} python3-mpmath{a} python3-numpy{a} python3-packaging{a} python3-pandas{a} python3-pandas-lib{a} python3-patsy{a} python3-pil{a} python3-pil.imagetk{a} python3-pkg-resources{a} python3-pubsub{a} python3-pyparsing{a} python3-scipy{a} python3-setuptools{a} python3-six{a} python3-sklearn{a} python3-sklearn-lib{a} python3-statsmodels{a} python3-statsmodels-lib{a} python3-sympy{a} python3-threadpoolctl{a} python3-tk{a} python3-tz{a} python3-ufolib2{a} python3-unicodedata2{a} python3.11{a} python3.11-dev{a} python3.11-minimal{a} python3.12{a} python3.12-minimal{a} readline-common{a} sensible-utils{a} tk8.6-blt2.5{a} tzdata{a} unicode-data{a} x11-common{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl isympy-common javascript-common libarchive-cpio-perl libglib2.0-data libltdl-dev libmail-sendmail-perl lynx psmisc python3-bottleneck python3-bs4 python3-colorama python3-cssselect python3-cvxopt python3-html5lib python3-jinja2 python3-numexpr python3-odf python3-olefile python3-openpyxl python3-psutil python3-pytest python3-simplejson python3-tables shared-mime-info wget xdg-user-dirs 0 packages upgraded, 150 newly installed, 0 to remove and 0 not upgraded. Need to get 139 MB of archives. After unpacking 644 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main i386 libpython3.11-minimal i386 3.11.8-1 [817 kB] Get: 2 http://deb.debian.org/debian trixie/main i386 libexpat1 i386 2.5.0-2+b2 [104 kB] Get: 3 http://deb.debian.org/debian trixie/main i386 python3.11-minimal i386 3.11.8-1 [2087 kB] Get: 4 http://deb.debian.org/debian trixie/main i386 python3-minimal i386 3.11.6-1 [26.2 kB] Get: 5 http://deb.debian.org/debian trixie/main i386 media-types all 10.1.0 [26.9 kB] Get: 6 http://deb.debian.org/debian trixie/main i386 netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian trixie/main i386 tzdata all 2024a-1 [255 kB] Get: 8 http://deb.debian.org/debian trixie/main i386 readline-common all 8.2-3 [69.1 kB] Get: 9 http://deb.debian.org/debian trixie/main i386 libreadline8 i386 8.2-3+b1 [171 kB] Get: 10 http://deb.debian.org/debian trixie/main i386 libpython3.11-stdlib i386 3.11.8-1 [1821 kB] Get: 11 http://deb.debian.org/debian trixie/main i386 python3.11 i386 3.11.8-1 [597 kB] Get: 12 http://deb.debian.org/debian trixie/main i386 libpython3-stdlib i386 3.11.6-1 [9224 B] Get: 13 http://deb.debian.org/debian trixie/main i386 python3 i386 3.11.6-1 [26.2 kB] Get: 14 http://deb.debian.org/debian trixie/main i386 libpython3.12-minimal i386 3.12.2-1 [807 kB] Get: 15 http://deb.debian.org/debian trixie/main i386 python3.12-minimal i386 3.12.2-1 [2244 kB] Get: 16 http://deb.debian.org/debian trixie/main i386 libproc2-0 i386 2:4.0.4-4 [65.4 kB] Get: 17 http://deb.debian.org/debian trixie/main i386 procps i386 2:4.0.4-4 [876 kB] Get: 18 http://deb.debian.org/debian trixie/main i386 sensible-utils all 0.0.22 [22.4 kB] Get: 19 http://deb.debian.org/debian trixie/main i386 libmagic-mgc i386 1:5.45-2+b1 [314 kB] Get: 20 http://deb.debian.org/debian trixie/main i386 libmagic1 i386 1:5.45-2+b1 [114 kB] Get: 21 http://deb.debian.org/debian trixie/main i386 file i386 1:5.45-2+b1 [43.0 kB] Get: 22 http://deb.debian.org/debian trixie/main i386 gettext-base i386 0.21-14+b1 [162 kB] Get: 23 http://deb.debian.org/debian trixie/main i386 libuchardet0 i386 0.0.8-1+b1 [69.1 kB] Get: 24 http://deb.debian.org/debian trixie/main i386 groff-base i386 1.23.0-3 [1195 kB] Get: 25 http://deb.debian.org/debian trixie/main i386 bsdextrautils i386 2.39.3-6 [93.3 kB] Get: 26 http://deb.debian.org/debian trixie/main i386 libpipeline1 i386 1.5.7-1+b2 [39.6 kB] Get: 27 http://deb.debian.org/debian trixie/main i386 man-db i386 2.12.0-3 [1413 kB] Get: 28 http://deb.debian.org/debian trixie/main i386 m4 i386 1.4.19-4 [293 kB] Get: 29 http://deb.debian.org/debian trixie/main i386 autoconf all 2.71-3 [332 kB] Get: 30 http://deb.debian.org/debian trixie/main i386 autotools-dev all 20220109.1 [51.6 kB] Get: 31 http://deb.debian.org/debian trixie/main i386 automake all 1:1.16.5-1.3 [823 kB] Get: 32 http://deb.debian.org/debian trixie/main i386 autopoint all 0.21-14 [496 kB] Get: 33 http://deb.debian.org/debian trixie/main i386 libtcl8.6 i386 8.6.14+dfsg-1 [1095 kB] Get: 34 http://deb.debian.org/debian trixie/main i386 libbrotli1 i386 1.1.0-2+b3 [314 kB] Get: 35 http://deb.debian.org/debian trixie/main i386 libpng16-16 i386 1.6.43-1 [285 kB] Get: 36 http://deb.debian.org/debian trixie/main i386 libfreetype6 i386 2.13.2+dfsg-1+b1 [449 kB] Get: 37 http://deb.debian.org/debian trixie/main i386 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 38 http://deb.debian.org/debian trixie/main i386 fonts-dejavu-core all 2.37-8 [840 kB] Get: 39 http://deb.debian.org/debian trixie/main i386 fontconfig-config i386 2.15.0-1.1 [317 kB] Get: 40 http://deb.debian.org/debian trixie/main i386 libfontconfig1 i386 2.15.0-1.1 [401 kB] Get: 41 http://deb.debian.org/debian trixie/main i386 libxau6 i386 1:1.0.9-1 [20.0 kB] Get: 42 http://deb.debian.org/debian trixie/main i386 libbsd0 i386 0.12.1-1 [132 kB] Get: 43 http://deb.debian.org/debian trixie/main i386 libxdmcp6 i386 1:1.1.2-3 [26.7 kB] Get: 44 http://deb.debian.org/debian trixie/main i386 libxcb1 i386 1.15-1 [148 kB] Get: 45 http://deb.debian.org/debian trixie/main i386 libx11-data all 2:1.8.7-1 [328 kB] Get: 46 http://deb.debian.org/debian trixie/main i386 libx11-6 i386 2:1.8.7-1 [822 kB] Get: 47 http://deb.debian.org/debian trixie/main i386 libxrender1 i386 1:0.9.10-1.1 [34.1 kB] Get: 48 http://deb.debian.org/debian trixie/main i386 libxft2 i386 2.3.6-1+b1 [55.3 kB] Get: 49 http://deb.debian.org/debian trixie/main i386 libxext6 i386 2:1.3.4-1+b1 [55.3 kB] Get: 50 http://deb.debian.org/debian trixie/main i386 x11-common all 1:7.7+23 [252 kB] Get: 51 http://deb.debian.org/debian trixie/main i386 libxss1 i386 1:1.2.3-1 [18.1 kB] Get: 52 http://deb.debian.org/debian trixie/main i386 libtk8.6 i386 8.6.14-1 [826 kB] Get: 53 http://deb.debian.org/debian trixie/main i386 tk8.6-blt2.5 i386 2.5.3+dfsg-7 [616 kB] Get: 54 http://deb.debian.org/debian trixie/main i386 blt i386 2.5.3+dfsg-7 [6024 B] Get: 55 http://deb.debian.org/debian trixie/main i386 bwa i386 0.7.17-7+b3 [236 kB] Get: 56 http://deb.debian.org/debian trixie/main i386 libdebhelper-perl all 13.14.1 [85.6 kB] Get: 57 http://deb.debian.org/debian trixie/main i386 libtool all 2.4.7-7 [517 kB] Get: 58 http://deb.debian.org/debian trixie/main i386 dh-autoreconf all 20 [17.1 kB] Get: 59 http://deb.debian.org/debian trixie/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 60 http://deb.debian.org/debian trixie/main i386 libsub-override-perl all 0.10-1 [10.6 kB] Get: 61 http://deb.debian.org/debian trixie/main i386 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 62 http://deb.debian.org/debian trixie/main i386 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 63 http://deb.debian.org/debian trixie/main i386 libelf1 i386 0.190-1+b1 [182 kB] Get: 64 http://deb.debian.org/debian trixie/main i386 dwz i386 0.15-1 [118 kB] Get: 65 http://deb.debian.org/debian trixie/main i386 libicu72 i386 72.1-4+b1 [9549 kB] Get: 66 http://deb.debian.org/debian trixie/main i386 libxml2 i386 2.9.14+dfsg-1.3+b2 [727 kB] Get: 67 http://deb.debian.org/debian trixie/main i386 gettext i386 0.21-14+b1 [1311 kB] Get: 68 http://deb.debian.org/debian trixie/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 69 http://deb.debian.org/debian trixie/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 70 http://deb.debian.org/debian trixie/main i386 debhelper all 13.14.1 [890 kB] Get: 71 http://deb.debian.org/debian trixie/main i386 python3-lib2to3 all 3.11.5-1 [77.5 kB] Get: 72 http://deb.debian.org/debian trixie/main i386 python3-distutils all 3.11.5-1 [131 kB] Get: 73 http://deb.debian.org/debian trixie/main i386 python3-pkg-resources all 68.1.2-2 [241 kB] Get: 74 http://deb.debian.org/debian trixie/main i386 python3-setuptools all 68.1.2-2 [468 kB] Get: 75 http://deb.debian.org/debian trixie/main i386 dh-python all 6.20240310 [106 kB] Get: 76 http://deb.debian.org/debian trixie/main i386 fonts-lyx all 2.4.0~RC3-1 [189 kB] Get: 77 http://deb.debian.org/debian trixie/main i386 libblas3 i386 3.12.0-3 [140 kB] Get: 78 http://deb.debian.org/debian trixie/main i386 libdeflate0 i386 1.19-1 [41.9 kB] Get: 79 http://deb.debian.org/debian trixie/main i386 libexpat1-dev i386 2.5.0-2+b2 [159 kB] Get: 80 http://deb.debian.org/debian trixie/main i386 libfribidi0 i386 1.0.13-3+b1 [71.8 kB] Get: 81 http://deb.debian.org/debian trixie/main i386 libgfortran5 i386 14-20240201-3 [733 kB] Get: 82 http://deb.debian.org/debian trixie/main i386 libglib2.0-0 i386 2.78.4-1 [1520 kB] Get: 83 http://deb.debian.org/debian trixie/main i386 libgraphite2-3 i386 1.3.14-2 [77.7 kB] Get: 84 http://deb.debian.org/debian trixie/main i386 libharfbuzz0b i386 8.3.0-2 [2234 kB] Get: 85 http://deb.debian.org/debian trixie/main i386 libimagequant0 i386 2.18.0-1 [35.6 kB] Get: 86 http://deb.debian.org/debian trixie/main i386 libjbig0 i386 2.1-6.1+b1 [31.8 kB] Get: 87 http://deb.debian.org/debian trixie/main i386 libjpeg62-turbo i386 1:2.1.5-2+b2 [169 kB] Get: 88 http://deb.debian.org/debian trixie/main i386 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 89 http://deb.debian.org/debian trixie/main i386 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 90 http://deb.debian.org/debian trixie/main i386 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 91 http://deb.debian.org/debian trixie/main i386 libjs-sphinxdoc all 7.2.6-4 [150 kB] Get: 92 http://deb.debian.org/debian trixie/main i386 liblapack3 i386 3.12.0-3 [2167 kB] Get: 93 http://deb.debian.org/debian trixie/main i386 liblbfgsb0 i386 3.0+dfsg.4-1+b1 [29.1 kB] Get: 94 http://deb.debian.org/debian trixie/main i386 liblcms2-2 i386 2.14-2+b1 [165 kB] Get: 95 http://deb.debian.org/debian trixie/main i386 liblerc4 i386 4.0.0+ds-4+b1 [180 kB] Get: 96 http://deb.debian.org/debian trixie/main i386 libopenjp2-7 i386 2.5.0-2+b2 [197 kB] Get: 97 http://deb.debian.org/debian trixie/main i386 libpython3.11 i386 3.11.8-1 [2009 kB] Get: 98 http://deb.debian.org/debian trixie/main i386 zlib1g-dev i386 1:1.3.dfsg-3+b1 [915 kB] Get: 99 http://deb.debian.org/debian trixie/main i386 libpython3.11-dev i386 3.11.8-1 [4726 kB] Get: 100 http://deb.debian.org/debian trixie/main i386 libpython3-dev i386 3.11.6-1 [9496 B] Get: 101 http://deb.debian.org/debian trixie/main i386 libpython3.12-stdlib i386 3.12.2-1 [1927 kB] Get: 102 http://deb.debian.org/debian trixie/main i386 libqhull-r8.0 i386 2020.2-6+b1 [256 kB] Get: 103 http://deb.debian.org/debian trixie/main i386 libraqm0 i386 0.10.1-1+b1 [14.7 kB] Get: 104 http://deb.debian.org/debian trixie/main i386 libsharpyuv0 i386 1.3.2-0.4 [107 kB] Get: 105 http://deb.debian.org/debian trixie/main i386 libwebp7 i386 1.3.2-0.4 [314 kB] Get: 106 http://deb.debian.org/debian trixie/main i386 libtiff6 i386 4.5.1+git230720-4 [338 kB] Get: 107 http://deb.debian.org/debian trixie/main i386 libwebpdemux2 i386 1.3.2-0.4 [108 kB] Get: 108 http://deb.debian.org/debian trixie/main i386 libwebpmux3 i386 1.3.2-0.4 [121 kB] Get: 109 http://deb.debian.org/debian trixie/main i386 libxslt1.1 i386 1.1.35-1 [253 kB] Get: 110 http://deb.debian.org/debian trixie/main i386 python-matplotlib-data all 3.6.3-1 [2744 kB] Get: 111 http://deb.debian.org/debian trixie/main i386 python3-appdirs all 1.4.4-4 [12.5 kB] Get: 112 http://deb.debian.org/debian trixie/main i386 python3-attr all 23.2.0-2 [65.5 kB] Get: 113 http://deb.debian.org/debian trixie/main i386 python3-brotli i386 1.1.0-2+b3 [323 kB] Get: 114 http://deb.debian.org/debian trixie/main i386 python3.12 i386 3.12.2-1 [653 kB] Get: 115 http://deb.debian.org/debian trixie/main i386 python3-numpy i386 1:1.24.2-2 [4879 kB] Get: 116 http://deb.debian.org/debian trixie/main i386 python3-contourpy i386 1.0.7-2 [295 kB] Get: 117 http://deb.debian.org/debian trixie/main i386 python3-cycler all 0.11.0-2 [8060 B] Get: 118 http://deb.debian.org/debian trixie/main i386 python3-six all 1.16.0-4 [17.5 kB] Get: 119 http://deb.debian.org/debian trixie/main i386 python3-dateutil all 2.8.2-3 [78.4 kB] Get: 120 http://deb.debian.org/debian trixie/main i386 python3-decorator all 5.1.1-5 [15.1 kB] Get: 121 http://deb.debian.org/debian trixie/main i386 python3.11-dev i386 3.11.8-1 [509 kB] Get: 122 http://deb.debian.org/debian trixie/main i386 python3-dev i386 3.11.6-1 [26.1 kB] Get: 123 http://deb.debian.org/debian trixie/main i386 python3-scipy i386 1.11.4-6 [19.0 MB] Get: 124 http://deb.debian.org/debian trixie/main i386 python3-ufolib2 all 0.16.0+dfsg1-1 [32.9 kB] Get: 125 http://deb.debian.org/debian trixie/main i386 python3-mpmath all 1.2.1-3 [415 kB] Get: 126 http://deb.debian.org/debian trixie/main i386 python3-sympy all 1.12-7 [3869 kB] Get: 127 http://deb.debian.org/debian trixie/main i386 python3-tz all 2024.1-2 [30.9 kB] Get: 128 http://deb.debian.org/debian trixie/main i386 python3-fs all 2.4.16-3 [95.3 kB] Get: 129 http://deb.debian.org/debian trixie/main i386 python3-lxml i386 5.1.0-1 [2065 kB] Get: 130 http://deb.debian.org/debian trixie/main i386 python3-lz4 i386 4.0.2+dfsg-1+b3 [25.6 kB] Get: 131 http://deb.debian.org/debian trixie/main i386 python3-unicodedata2 i386 15.1.0+ds-1+b1 [298 kB] Get: 132 http://deb.debian.org/debian trixie/main i386 unicode-data all 15.1.0-1 [8547 kB] Get: 133 http://deb.debian.org/debian trixie/main i386 python3-fonttools i386 4.46.0-1 [1613 kB] Get: 134 http://deb.debian.org/debian trixie/main i386 python3-joblib all 1.3.2-2 [218 kB] Get: 135 http://deb.debian.org/debian trixie/main i386 python3-kiwisolver i386 1.4.4-2 [83.9 kB] Get: 136 http://deb.debian.org/debian trixie/main i386 python3-pil i386 10.2.0-1 [526 kB] Get: 137 http://deb.debian.org/debian trixie/main i386 python3-tk i386 3.11.5-1 [108 kB] Get: 138 http://deb.debian.org/debian trixie/main i386 python3-pil.imagetk i386 10.2.0-1 [78.0 kB] Get: 139 http://deb.debian.org/debian trixie/main i386 python3-pyparsing all 3.1.1-1 [145 kB] Get: 140 http://deb.debian.org/debian trixie/main i386 python3-packaging all 23.2-1 [44.8 kB] Get: 141 http://deb.debian.org/debian trixie/main i386 python3-matplotlib i386 3.6.3-1+b2 [8100 kB] Get: 142 http://deb.debian.org/debian trixie/main i386 python3-pandas-lib i386 2.1.4+dfsg-5 [7492 kB] Get: 143 http://deb.debian.org/debian trixie/main i386 python3-pandas all 2.1.4+dfsg-5 [3015 kB] Get: 144 http://deb.debian.org/debian trixie/main i386 python3-patsy all 0.5.6-1 [173 kB] Get: 145 http://deb.debian.org/debian trixie/main i386 python3-pubsub all 4.0.3-7 [46.7 kB] Get: 146 http://deb.debian.org/debian trixie/main i386 python3-threadpoolctl all 3.1.0-1 [21.2 kB] Get: 147 http://deb.debian.org/debian trixie/main i386 python3-sklearn-lib i386 1.4.1.post1+dfsg-1 [6130 kB] Get: 148 http://deb.debian.org/debian trixie/main i386 python3-sklearn all 1.4.1.post1+dfsg-1 [2246 kB] Get: 149 http://deb.debian.org/debian trixie/main i386 python3-statsmodels-lib i386 0.14.1+dfsg-2 [2265 kB] Get: 150 http://deb.debian.org/debian trixie/main i386 python3-statsmodels all 0.14.1+dfsg-2 [4826 kB] Fetched 139 MB in 3s (55.5 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal:i386. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19816 files and directories currently installed.) Preparing to unpack .../libpython3.11-minimal_3.11.8-1_i386.deb ... Unpacking libpython3.11-minimal:i386 (3.11.8-1) ... Selecting previously unselected package libexpat1:i386. Preparing to unpack .../libexpat1_2.5.0-2+b2_i386.deb ... Unpacking libexpat1:i386 (2.5.0-2+b2) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.8-1_i386.deb ... Unpacking python3.11-minimal (3.11.8-1) ... Setting up libpython3.11-minimal:i386 (3.11.8-1) ... Setting up libexpat1:i386 (2.5.0-2+b2) ... Setting up python3.11-minimal (3.11.8-1) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20133 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.11.6-1_i386.deb ... Unpacking python3-minimal (3.11.6-1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../3-tzdata_2024a-1_all.deb ... Unpacking tzdata (2024a-1) ... Selecting previously unselected package readline-common. Preparing to unpack .../4-readline-common_8.2-3_all.deb ... Unpacking readline-common (8.2-3) ... Selecting previously unselected package libreadline8:i386. Preparing to unpack .../5-libreadline8_8.2-3+b1_i386.deb ... Unpacking libreadline8:i386 (8.2-3+b1) ... Selecting previously unselected package libpython3.11-stdlib:i386. Preparing to unpack .../6-libpython3.11-stdlib_3.11.8-1_i386.deb ... Unpacking libpython3.11-stdlib:i386 (3.11.8-1) ... Selecting previously unselected package python3.11. Preparing to unpack .../7-python3.11_3.11.8-1_i386.deb ... Unpacking python3.11 (3.11.8-1) ... Selecting previously unselected package libpython3-stdlib:i386. Preparing to unpack .../8-libpython3-stdlib_3.11.6-1_i386.deb ... Unpacking libpython3-stdlib:i386 (3.11.6-1) ... Setting up python3-minimal (3.11.6-1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 21121 files and directories currently installed.) Preparing to unpack .../000-python3_3.11.6-1_i386.deb ... Unpacking python3 (3.11.6-1) ... Selecting previously unselected package libpython3.12-minimal:i386. Preparing to unpack .../001-libpython3.12-minimal_3.12.2-1_i386.deb ... Unpacking libpython3.12-minimal:i386 (3.12.2-1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../002-python3.12-minimal_3.12.2-1_i386.deb ... Unpacking python3.12-minimal (3.12.2-1) ... Selecting previously unselected package libproc2-0:i386. Preparing to unpack .../003-libproc2-0_2%3a4.0.4-4_i386.deb ... Unpacking libproc2-0:i386 (2:4.0.4-4) ... Selecting previously unselected package procps. Preparing to unpack .../004-procps_2%3a4.0.4-4_i386.deb ... Unpacking procps (2:4.0.4-4) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../005-sensible-utils_0.0.22_all.deb ... Unpacking sensible-utils (0.0.22) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../006-libmagic-mgc_1%3a5.45-2+b1_i386.deb ... Unpacking libmagic-mgc (1:5.45-2+b1) ... Selecting previously unselected package libmagic1:i386. Preparing to unpack .../007-libmagic1_1%3a5.45-2+b1_i386.deb ... Unpacking libmagic1:i386 (1:5.45-2+b1) ... Selecting previously unselected package file. Preparing to unpack .../008-file_1%3a5.45-2+b1_i386.deb ... Unpacking file (1:5.45-2+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../009-gettext-base_0.21-14+b1_i386.deb ... Unpacking gettext-base (0.21-14+b1) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../010-libuchardet0_0.0.8-1+b1_i386.deb ... Unpacking libuchardet0:i386 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../011-groff-base_1.23.0-3_i386.deb ... Unpacking groff-base (1.23.0-3) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../012-bsdextrautils_2.39.3-6_i386.deb ... Unpacking bsdextrautils (2.39.3-6) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../013-libpipeline1_1.5.7-1+b2_i386.deb ... Unpacking libpipeline1:i386 (1.5.7-1+b2) ... Selecting previously unselected package man-db. Preparing to unpack .../014-man-db_2.12.0-3_i386.deb ... Unpacking man-db (2.12.0-3) ... Selecting previously unselected package m4. Preparing to unpack .../015-m4_1.4.19-4_i386.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../016-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../017-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../018-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../019-autopoint_0.21-14_all.deb ... Unpacking autopoint (0.21-14) ... Selecting previously unselected package libtcl8.6:i386. Preparing to unpack .../020-libtcl8.6_8.6.14+dfsg-1_i386.deb ... Unpacking libtcl8.6:i386 (8.6.14+dfsg-1) ... Selecting previously unselected package libbrotli1:i386. Preparing to unpack .../021-libbrotli1_1.1.0-2+b3_i386.deb ... Unpacking libbrotli1:i386 (1.1.0-2+b3) ... Selecting previously unselected package libpng16-16:i386. Preparing to unpack .../022-libpng16-16_1.6.43-1_i386.deb ... Unpacking libpng16-16:i386 (1.6.43-1) ... Selecting previously unselected package libfreetype6:i386. Preparing to unpack .../023-libfreetype6_2.13.2+dfsg-1+b1_i386.deb ... Unpacking libfreetype6:i386 (2.13.2+dfsg-1+b1) ... Selecting previously unselected package fonts-dejavu-mono. Preparing to unpack .../024-fonts-dejavu-mono_2.37-8_all.deb ... Unpacking fonts-dejavu-mono (2.37-8) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../025-fonts-dejavu-core_2.37-8_all.deb ... Unpacking fonts-dejavu-core (2.37-8) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../026-fontconfig-config_2.15.0-1.1_i386.deb ... Unpacking fontconfig-config (2.15.0-1.1) ... Selecting previously unselected package libfontconfig1:i386. Preparing to unpack .../027-libfontconfig1_2.15.0-1.1_i386.deb ... Unpacking libfontconfig1:i386 (2.15.0-1.1) ... Selecting previously unselected package libxau6:i386. Preparing to unpack .../028-libxau6_1%3a1.0.9-1_i386.deb ... Unpacking libxau6:i386 (1:1.0.9-1) ... Selecting previously unselected package libbsd0:i386. Preparing to unpack .../029-libbsd0_0.12.1-1_i386.deb ... Unpacking libbsd0:i386 (0.12.1-1) ... Selecting previously unselected package libxdmcp6:i386. Preparing to unpack .../030-libxdmcp6_1%3a1.1.2-3_i386.deb ... Unpacking libxdmcp6:i386 (1:1.1.2-3) ... Selecting previously unselected package libxcb1:i386. Preparing to unpack .../031-libxcb1_1.15-1_i386.deb ... Unpacking libxcb1:i386 (1.15-1) ... Selecting previously unselected package libx11-data. Preparing to unpack .../032-libx11-data_2%3a1.8.7-1_all.deb ... Unpacking libx11-data (2:1.8.7-1) ... Selecting previously unselected package libx11-6:i386. Preparing to unpack .../033-libx11-6_2%3a1.8.7-1_i386.deb ... Unpacking libx11-6:i386 (2:1.8.7-1) ... Selecting previously unselected package libxrender1:i386. Preparing to unpack .../034-libxrender1_1%3a0.9.10-1.1_i386.deb ... Unpacking libxrender1:i386 (1:0.9.10-1.1) ... Selecting previously unselected package libxft2:i386. Preparing to unpack .../035-libxft2_2.3.6-1+b1_i386.deb ... Unpacking libxft2:i386 (2.3.6-1+b1) ... Selecting previously unselected package libxext6:i386. Preparing to unpack .../036-libxext6_2%3a1.3.4-1+b1_i386.deb ... Unpacking libxext6:i386 (2:1.3.4-1+b1) ... Selecting previously unselected package x11-common. Preparing to unpack .../037-x11-common_1%3a7.7+23_all.deb ... Unpacking x11-common (1:7.7+23) ... Selecting previously unselected package libxss1:i386. Preparing to unpack .../038-libxss1_1%3a1.2.3-1_i386.deb ... Unpacking libxss1:i386 (1:1.2.3-1) ... Selecting previously unselected package libtk8.6:i386. Preparing to unpack .../039-libtk8.6_8.6.14-1_i386.deb ... Unpacking libtk8.6:i386 (8.6.14-1) ... Selecting previously unselected package tk8.6-blt2.5. Preparing to unpack .../040-tk8.6-blt2.5_2.5.3+dfsg-7_i386.deb ... Unpacking tk8.6-blt2.5 (2.5.3+dfsg-7) ... Selecting previously unselected package blt. Preparing to unpack .../041-blt_2.5.3+dfsg-7_i386.deb ... Unpacking blt (2.5.3+dfsg-7) ... Selecting previously unselected package bwa. Preparing to unpack .../042-bwa_0.7.17-7+b3_i386.deb ... Unpacking bwa (0.7.17-7+b3) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../043-libdebhelper-perl_13.14.1_all.deb ... Unpacking libdebhelper-perl (13.14.1) ... Selecting previously unselected package libtool. Preparing to unpack .../044-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... Selecting previously unselected package dh-autoreconf. 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Setting up libtcl8.6:i386 (8.6.14+dfsg-1) ... Setting up autopoint (0.21-14) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up libgfortran5:i386 (14-20240201-3) ... Setting up autoconf (2.71-3) ... Setting up libwebp7:i386 (1.3.2-0.4) ... Setting up zlib1g-dev:i386 (1:1.3.dfsg-3+b1) ... Setting up sensible-utils (0.0.22) ... Setting up libtiff6:i386 (4.5.1+git230720-4) ... Setting up libuchardet0:i386 (0.0.8-1+b1) ... Setting up procps (2:4.0.4-4) ... Setting up libopenjp2-7:i386 (2.5.0-2+b2) ... Setting up libsub-override-perl (0.10-1) ... Setting up netbase (6.4) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up python-matplotlib-data (3.6.3-1) ... Setting up libwebpmux3:i386 (1.3.2-0.4) ... Setting up libbsd0:i386 (0.12.1-1) ... Setting up libelf1:i386 (0.190-1+b1) ... Setting up readline-common (8.2-3) ... Setting up libxml2:i386 (2.9.14+dfsg-1.3+b2) ... Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up python3.12-minimal (3.12.2-1) ... Setting up libxdmcp6:i386 (1:1.1.2-3) ... Setting up liblapack3:i386 (3.12.0-3) ... 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 Setting up libxcb1:i386 (1.15-1) ... Setting up gettext (0.21-14+b1) ... Setting up libtool (2.4.7-7) ... Setting up fontconfig-config (2.15.0-1.1) ... Setting up libwebpdemux2:i386 (1.3.2-0.4) ... Setting up libreadline8:i386 (8.2-3+b1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up libfreetype6:i386 (2.13.2+dfsg-1+b1) ... Setting up libjs-sphinxdoc (7.2.6-4) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.23.0-3) ... Setting up libxslt1.1:i386 (1.1.35-1) ... Setting up libx11-6:i386 (2:1.8.7-1) ... Setting up libharfbuzz0b:i386 (8.3.0-2) ... Setting up libfontconfig1:i386 (2.15.0-1.1) ... Setting up liblbfgsb0:i386 (3.0+dfsg.4-1+b1) ... Setting up libpython3.12-stdlib:i386 (3.12.2-1) ... Setting up libxrender1:i386 (1:0.9.10-1.1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpython3.11-stdlib:i386 (3.11.8-1) ... Setting up python3.12 (3.12.2-1) ... Setting up libxext6:i386 (2:1.3.4-1+b1) ... Setting up man-db (2.12.0-3) ... Not building database; man-db/auto-update is not 'true'. Setting up libraqm0:i386 (0.10.1-1+b1) ... Setting up libxss1:i386 (1:1.2.3-1) ... Setting up libpython3-stdlib:i386 (3.11.6-1) ... Setting up python3.11 (3.11.8-1) ... Setting up libxft2:i386 (2.3.6-1+b1) ... Setting up libpython3.11:i386 (3.11.8-1) ... Setting up libtk8.6:i386 (8.6.14-1) ... Setting up debhelper (13.14.1) ... Setting up python3 (3.11.6-1) ... Setting up python3-tz (2024.1-2) ... Setting up python3-six (1.16.0-4) ... Setting up python3-pil:i386 (10.2.0-1) ... Setting up python3-decorator (5.1.1-5) ... Setting up python3-packaging (23.2-1) ... Setting up python3-pyparsing (3.1.1-1) ... Setting up libpython3.11-dev:i386 (3.11.8-1) ... Setting up python3-brotli (1.1.0-2+b3) ... Setting up python3-cycler (0.11.0-2) ... Setting up python3-kiwisolver (1.4.4-2) ... Setting up python3-pubsub (4.0.3-7) ... Setting up python3-lxml:i386 (5.1.0-1) ... Setting up python3-dateutil (2.8.2-3) ... Setting up python3-mpmath (1.2.1-3) ... Setting up python3-lib2to3 (3.11.5-1) ... Setting up python3-appdirs (1.4.4-4) ... Setting up python3-pkg-resources (68.1.2-2) ... Setting up python3-distutils (3.11.5-1) ... python3.12: can't get files for byte-compilation Setting up python3-sympy (1.12-7) ... Setting up python3-attr (23.2.0-2) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-7) ... Setting up libpython3-dev:i386 (3.11.6-1) ... Setting up python3-setuptools (68.1.2-2) ... Setting up python3-joblib (1.3.2-2) ... Setting up python3-lz4 (4.0.2+dfsg-1+b3) ... Setting up python3.11-dev (3.11.8-1) ... Setting up python3-unicodedata2 (15.1.0+ds-1+b1) ... Setting up blt (2.5.3+dfsg-7) ... Setting up python3-threadpoolctl (3.1.0-1) ... Setting up python3-tk:i386 (3.11.5-1) ... Setting up python3-fs (2.4.16-3) ... Setting up python3-pil.imagetk:i386 (10.2.0-1) ... Setting up python3-dev (3.11.6-1) ... Setting up python3-numpy (1:1.24.2-2) ... Setting up python3-contourpy (1.0.7-2) ... Setting up python3-statsmodels-lib:i386 (0.14.1+dfsg-2) ... Setting up dh-python (6.20240310) ... Setting up python3-scipy (1.11.4-6) ... Setting up python3-pandas-lib:i386 (2.1.4+dfsg-5) ... Setting up python3-sklearn-lib:i386 (1.4.1.post1+dfsg-1) ... Setting up python3-patsy (0.5.6-1) ... Setting up python3-pandas (2.1.4+dfsg-5) ... Setting up python3-sklearn (1.4.1.post1+dfsg-1) ... Setting up python3-statsmodels (0.14.1+dfsg-2) ... Setting up python3-fonttools (4.46.0-1) ... Setting up python3-ufolib2 (0.16.0+dfsg1-1) ... Setting up python3-matplotlib (3.6.3-1+b2) ... Processing triggers for libc-bin (2.37-15) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/tnseq-transit-3.3.4/ && 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 > ../tnseq-transit_3.3.4-1_source.changes dpkg-buildpackage: info: source package tnseq-transit dpkg-buildpackage: info: source version 3.3.4-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/tnseq-transit-3.3.4' dh_auto_clean I: pybuild base:305: python3.11 setup.py clean running clean removing '/build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build' (and everything under it) 'build/bdist.linux-i686' does not exist -- can't clean it 'build/scripts-3.11' does not exist -- can't clean it rm -rf tests_invalid_data rm -rf tnseq_transit.egg-info make[1]: Leaving directory '/build/reproducible-path/tnseq-transit-3.3.4' 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 debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/tnseq-transit-3.3.4' mkdir -p tests_invalid_data if [ -L tests/H37Rv.fna ] && ! [ -e tests/H37Rv.fna ] \ ; then mv tests/H37Rv.fna tests_invalid_data \ ; fi dh_auto_configure I: pybuild base:305: python3.11 setup.py config running config make[1]: Leaving directory '/build/reproducible-path/tnseq-transit-3.3.4' dh_auto_build -O--buildsystem=pybuild I: pybuild base:305: /usr/bin/python3 setup.py build running build running build_py creating /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytpp copying src/pytpp/__main__.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytpp copying src/pytpp/tpp_gui.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytpp copying src/pytpp/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytpp copying src/pytpp/tpp_tools.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytpp creating /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/tnseq_tools.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/norm_tools.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/fileDisplay.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/images.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/view_trash.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/__main__.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/stat_tools.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/draw_trash.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/transit_tools.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/qcDisplay.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/trash.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/transit_gui.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit creating /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/convert copying src/pytransit/convert/gff_to_prot_table.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/convert copying src/pytransit/convert/base.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/convert copying src/pytransit/convert/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/convert creating /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/tn5gaps.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/gumbel.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/normalize.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/CGI.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/base.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/pathway_enrichment.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/binomial.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/zinb.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/griffin.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/tnseq_stats.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/hmm.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/example.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/resampling.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/rankproduct.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/gi.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/corrplot.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/ttnfitness.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/utest.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/anova.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/heatmap.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/norm.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis creating /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export copying src/pytransit/export/igv.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export copying src/pytransit/export/base.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export copying src/pytransit/export/mean_counts.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export copying src/pytransit/export/combined_wig.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export copying src/pytransit/export/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export copying src/pytransit/export/prot_table.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export running egg_info creating tnseq_transit.egg-info writing tnseq_transit.egg-info/PKG-INFO writing dependency_links to tnseq_transit.egg-info/dependency_links.txt writing entry points to tnseq_transit.egg-info/entry_points.txt writing requirements to tnseq_transit.egg-info/requires.txt writing top-level names to tnseq_transit.egg-info/top_level.txt writing manifest file 'tnseq_transit.egg-info/SOURCES.txt' reading manifest file 'tnseq_transit.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'VERSION' warning: no files found matching '*.html' under directory 'src/pytransit/doc/build/html' warning: no files found matching '*.png' under directory 'src/pytransit/doc/build/html/_images' warning: no files found matching '*' under directory 'src/pytransit/doc/build/html/_modules' warning: no files found matching '*' under directory 'src/pytransit/doc/build/html/_static' adding license file 'LICENSE.md' writing manifest file 'tnseq_transit.egg-info/SOURCES.txt' /usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'pytransit.data' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pytransit.data' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pytransit.data' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pytransit.data' to be distributed and are already explicitly excluding 'pytransit.data' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'pytransit.data.CGI' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pytransit.data.CGI' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pytransit.data.CGI' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pytransit.data.CGI' to be distributed and are already explicitly excluding 'pytransit.data.CGI' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'pytransit.genomes' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pytransit.genomes' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pytransit.genomes' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pytransit.genomes' to be distributed and are already explicitly excluding 'pytransit.genomes' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) creating /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/COG_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/GO_associated_Rvs-3-11-18.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/GO_associated_Rvs.csv -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/GO_term_names.dat -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/GO_terms_for_each_Rv.obo-3-11-18.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/H37Rv.sanger_associated_RVS.csv -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/H37Rv_COG_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/H37Rv_GO_terms.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/H37Rv_sanger_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/README.md -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/cholesterol_H37Rv_merged.wig -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/cholesterol_H37Rv_rep1.wig -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/cholesterol_H37Rv_rep2.wig -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/cholesterol_H37Rv_rep3.wig -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/cholesterol_glycerol_combined.dat -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/gene_ontology.1_2.3-11-18.obo -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/glycerol_H37Rv_merged.wig -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/glycerol_H37Rv_rep1.wig -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/glycerol_H37Rv_rep2.wig -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/iron_combined_wig4.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/iron_samples_metadata.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/samples_metadata_cg.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/samples_metadata_cg_covar.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/samples_metadata_cg_interactions.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/sanger_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/smeg_COG_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/smeg_GO_terms.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data creating /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI copying src/pytransit/data/CGI/IDs.H37Rv.CRISPRi.lib.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI copying src/pytransit/data/CGI/RIF_D1_combined_counts.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI copying src/pytransit/data/CGI/samples_metadata.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI copying src/pytransit/data/CGI/sgRNA_info.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI copying src/pytransit/data/CGI/temp_cdr.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI copying src/pytransit/data/CGI/temp_frac_abund.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI copying src/pytransit/data/CGI/uninduced_ATC_counts.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI creating /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/BCG.fna -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/BCG.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/H37Rv.fna -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/H37Rv.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/H37RvBD.fna -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/H37RvBD.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/H37RvBD_mod3.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/H37RvMA2.fna -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/H37RvMA2.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/genomes.html -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/mc2_155_tamu.fna -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/mc2_155_tamu.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/tnseq-transit-3.3.4' dh_auto_test -- --system=custom --test-args="PYTHONPATH=tests {interpreter} -m unittest -v tests/*.py" I: pybuild base:305: PYTHONPATH=tests python3.11 -m unittest -v tests/*.py test_Binomial (tests.test_analysis_methods.TestMethods.test_Binomial) ... /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/glycerol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/glycerol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/glycerol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/glycerol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:1290: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.prot_table' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:1217: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.prot_table' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:521: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.prot_table' mode='r' encoding='UTF-8'> for line in open(self.annotation): ResourceWarning: Enable tracemalloc to get the object allocation traceback #################### tests.test_analysis_methods.TestMethods.test_Binomial #################### [binomial] Starting Binomial Method [binomial] Getting Data [binomial] Setting Parameters [binomial] Setting Initial Values [binomial] Running Binomial Method... 0.2% [binomial] Running Binomial Method... 0.3% [binomial] Running Binomial Method... 0.4% [binomial] Running Binomial Method... 0.5% [binomial] Running Binomial Method... 0.5% [binomial] Running Binomial Method... 0.6% [binomial] Running Binomial Method... 0.7% [binomial] Running Binomial Method... 0.8% [binomial] Running Binomial Method... 0.9% [binomial] Running Binomial Method... 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Running Binomial Method... 67.2% [binomial] Running Binomial Method... 67.3% [binomial] Running Binomial Method... 67.4% [binomial] Running Binomial Method... 67.5% [binomial] Running Binomial Method... 67.5% [binomial] Running Binomial Method... 67.6% [binomial] Running Binomial Method... 67.7% [binomial] Running Binomial Method... 67.8% [binomial] Running Binomial Method... 67.9% [binomial] Running Binomial Method... 68.0% [binomial] Running Binomial Method... 68.1% [binomial] Running Binomial Method... 68.2% [binomial] Running Binomial Method... 68.3% [binomial] Running Binomial Method... 68.4% [binomial] Running Binomial Method... 68.5% [binomial] Running Binomial Method... 68.5% [binomial] Running Binomial Method... 68.6% [binomial] Running Binomial Method... 68.7% [binomial] Running Binomial Method... 68.8% [binomial] Running Binomial Method... 68.9% [binomial] Running Binomial Method... 69.0% [binomial] Running Binomial Method... 69.1% [binomial] Running Binomial Method... 69.2% 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[binomial] Running Binomial Method... 75.5% [binomial] Running Binomial Method... 75.5% [binomial] Running Binomial Method... 75.6% [binomial] Running Binomial Method... 75.7% [binomial] Running Binomial Method... 75.8% [binomial] Running Binomial Method... 75.9% [binomial] Running Binomial Method... 76.0% [binomial] Running Binomial Method... 76.1% [binomial] Running Binomial Method... 76.2% [binomial] Running Binomial Method... 76.3% [binomial] Running Binomial Method... 76.4% [binomial] Running Binomial Method... 76.5% [binomial] Running Binomial Method... 76.5% [binomial] Running Binomial Method... 76.6% [binomial] Running Binomial Method... 76.7% [binomial] Running Binomial Method... 76.8% [binomial] Running Binomial Method... 76.9% [binomial] Running Binomial Method... 77.0% [binomial] Running Binomial Method... 77.1% [binomial] Running Binomial Method... 77.2% [binomial] Running Binomial Method... 77.3% [binomial] Running Binomial Method... 77.4% [binomial] Running Binomial Method... 77.5% [binomial] Running Binomial Method... 77.5% [binomial] Running Binomial Method... 77.6% [binomial] Running Binomial Method... 77.7% [binomial] Running Binomial Method... 77.8% [binomial] Running Binomial Method... 77.9% [binomial] Running Binomial Method... 78.0% [binomial] Running Binomial Method... 78.1% [binomial] Running Binomial Method... 78.2% [binomial] Running Binomial Method... 78.3% [binomial] Running Binomial Method... 78.4% [binomial] Running Binomial Method... 78.5% [binomial] Running Binomial Method... 78.5% [binomial] Running Binomial Method... 78.6% [binomial] Running Binomial Method... 78.7% [binomial] Running Binomial Method... 78.8% [binomial] Running Binomial Method... 78.9% [binomial] Running Binomial Method... 79.0% [binomial] Running Binomial Method... 79.1% [binomial] Running Binomial Method... 79.2% [binomial] Running Binomial Method... 79.3% [binomial] Running Binomial Method... 79.4% [binomial] Running Binomial Method... 79.5% [binomial] Running Binomial Method... 79.5% [binomial] Running Binomial Method... 79.6% [binomial] Running Binomial Method... 79.7% [binomial] Running Binomial Method... 79.8% [binomial] Running Binomial Method... 79.9% [binomial] Running Binomial Method... 80.0% [binomial] Running Binomial Method... 80.1% [binomial] Running Binomial Method... 80.2% [binomial] Running Binomial Method... 80.3% [binomial] Running Binomial Method... 80.4% [binomial] Running Binomial Method... 80.5% [binomial] Running Binomial Method... 80.5% [binomial] Running Binomial Method... 80.6% [binomial] Running Binomial Method... 80.7% [binomial] Running Binomial Method... 80.8% [binomial] Running Binomial Method... 80.9% [binomial] Running Binomial Method... 81.0% [binomial] Running Binomial Method... 81.1% [binomial] Running Binomial Method... 81.2% [binomial] Running Binomial Method... 81.3% [binomial] Running Binomial Method... 81.4% [binomial] Running Binomial Method... 81.5% [binomial] Running Binomial Method... 81.5% [binomial] Running Binomial Method... 81.6% [binomial] Running Binomial Method... 81.7% [binomial] Running Binomial Method... 81.8% [binomial] Running Binomial Method... 81.9% [binomial] Running Binomial Method... 82.0% [binomial] Running Binomial Method... 82.1% [binomial] Running Binomial Method... 82.2% [binomial] Running Binomial Method... 82.3% [binomial] Running Binomial Method... 82.4% [binomial] Running Binomial Method... 82.5% [binomial] Running Binomial Method... 82.5% [binomial] Running Binomial Method... 82.6% [binomial] Running Binomial Method... 82.7% [binomial] Running Binomial Method... 82.8% [binomial] Running Binomial Method... 82.9% [binomial] Running Binomial Method... 83.0% [binomial] Running Binomial Method... 83.1% [binomial] Running Binomial Method... 83.2% [binomial] Running Binomial Method... 83.3% [binomial] Running Binomial Method... 83.4% [binomial] Running Binomial Method... 83.5% [binomial] Running Binomial Method... 83.5% [binomial] Running Binomial Method... 83.6% [binomial] Running Binomial Method... 83.7% [binomial] Running Binomial Method... 83.8% [binomial] Running Binomial Method... 83.9% [binomial] Running Binomial Method... 84.0% [binomial] Running Binomial Method... 84.1% [binomial] Running Binomial Method... 84.2% [binomial] Running Binomial Method... 84.3% [binomial] Running Binomial Method... 84.4% [binomial] Running Binomial Method... 84.5% [binomial] Running Binomial Method... 84.5% [binomial] Running Binomial Method... 84.6% [binomial] Running Binomial Method... 84.7% [binomial] Running Binomial Method... 84.8% [binomial] Running Binomial Method... 84.9% [binomial] Running Binomial Method... 85.0% [binomial] Running Binomial Method... 85.1% [binomial] Running Binomial Method... 85.2% [binomial] Running Binomial Method... 85.3% [binomial] Running Binomial Method... 85.4% [binomial] Running Binomial Method... 85.5% [binomial] Running Binomial Method... 85.5% [binomial] Running Binomial Method... 85.6% [binomial] Running Binomial Method... 85.7% [binomial] Running Binomial Method... 85.8% [binomial] Running Binomial Method... 85.9% [binomial] Running Binomial Method... 86.0% [binomial] Running Binomial Method... 86.1% [binomial] Running Binomial Method... 86.2% [binomial] Running Binomial Method... 86.3% [binomial] Running Binomial Method... 86.4% [binomial] Running Binomial Method... 86.5% [binomial] Running Binomial Method... 86.5% [binomial] Running Binomial Method... 86.6% [binomial] Running Binomial Method... 86.7% [binomial] Running Binomial Method... 86.8% [binomial] Running Binomial Method... 86.9% [binomial] Running Binomial Method... 87.0% [binomial] Running Binomial Method... 87.1% [binomial] Running Binomial Method... 87.2% [binomial] Running Binomial Method... 87.3% [binomial] Running Binomial Method... 87.4% [binomial] Running Binomial Method... 87.5% [binomial] Running Binomial Method... 87.5% [binomial] Running Binomial Method... 87.6% [binomial] Running Binomial Method... 87.7% [binomial] Running Binomial Method... 87.8% [binomial] Running Binomial Method... 87.9% [binomial] Running Binomial Method... 88.0% [binomial] Running Binomial Method... 88.1% [binomial] Running Binomial Method... 88.2% [binomial] Running Binomial Method... 88.3% [binomial] Running Binomial Method... 88.4% [binomial] Running Binomial Method... 88.5% [binomial] Running Binomial Method... 88.5% [binomial] Running Binomial Method... 88.6% [binomial] Running Binomial Method... 88.7% [binomial] Running Binomial Method... 88.8% [binomial] Running Binomial Method... 88.9% [binomial] Running Binomial Method... 89.0% [binomial] Running Binomial Method... 89.1% [binomial] Running Binomial Method... 89.2% [binomial] Running Binomial Method... 89.3% [binomial] Running Binomial Method... 89.4% [binomial] Running Binomial Method... 89.5% [binomial] Running Binomial Method... 89.5% [binomial] Running Binomial Method... 89.6% [binomial] Running Binomial Method... 89.7% [binomial] Running Binomial Method... 89.8% [binomial] Running Binomial Method... 89.9% [binomial] Running Binomial Method... 90.0% [binomial] Running Binomial Method... 90.1% [binomial] Running Binomial Method... 90.2% [binomial] Running Binomial Method... 90.3% [binomial] Running Binomial Method... 90.4% [binomial] Running Binomial Method... 90.5% [binomial] Running Binomial Method... 90.5% [binomial] Running Binomial Method... 90.6% [binomial] Running Binomial Method... 90.7% [binomial] Running Binomial Method... 90.8% [binomial] Running Binomial Method... 90.9% [binomial] Running Binomial Method... 91.0% [binomial] Running Binomial Method... 91.1% [binomial] Running Binomial Method... 91.2% [binomial] Running Binomial Method... 91.3% [binomial] Running Binomial Method... 91.4% [binomial] Running Binomial Method... 91.5% [binomial] Running Binomial Method... 91.5% [binomial] Running Binomial Method... 91.6% [binomial] Running Binomial Method... 91.7% [binomial] Running Binomial Method... 91.8% [binomial] Running Binomial Method... 91.9% [binomial] Running Binomial Method... 92.0% [binomial] Running Binomial Method... 92.1% [binomial] Running Binomial Method... 92.2% [binomial] Running Binomial Method... 92.3% [binomial] Running Binomial Method... 92.4% [binomial] Running Binomial Method... 92.5% [binomial] Running Binomial Method... 92.5% [binomial] Running Binomial Method... 92.6% [binomial] Running Binomial Method... 92.7% [binomial] Running Binomial Method... 92.8% [binomial] Running Binomial Method... 92.9% [binomial] Running Binomial Method... 93.0% [binomial] Running Binomial Method... 93.1% [binomial] Running Binomial Method... 93.2% [binomial] Running Binomial Method... 93.3% [binomial] Running Binomial Method... 93.4% [binomial] Running Binomial Method... 93.5% [binomial] Running Binomial Method... 93.5% [binomial] Running Binomial Method... 93.6% [binomial] Running Binomial Method... 93.7% [binomial] Running Binomial Method... 93.8% [binomial] Running Binomial Method... 93.9% [binomial] Running Binomial Method... 94.0% [binomial] Running Binomial Method... 94.1% [binomial] Running Binomial Method... 94.2% [binomial] Running Binomial Method... 94.3% [binomial] Running Binomial Method... 94.4% [binomial] Running Binomial Method... 94.5% [binomial] Running Binomial Method... 94.5% [binomial] Running Binomial Method... 94.6% [binomial] Running Binomial Method... 94.7% [binomial] Running Binomial Method... 94.8% [binomial] Running Binomial Method... 94.9% [binomial] Running Binomial Method... 95.0% [binomial] Running Binomial Method... 95.1% [binomial] Running Binomial Method... 95.2% [binomial] Running Binomial Method... 95.3% [binomial] Running Binomial Method... 95.4% [binomial] Running Binomial Method... 95.5% [binomial] Running Binomial Method... 95.5% [binomial] Running Binomial Method... 95.6% [binomial] Running Binomial Method... 95.7% [binomial] Running Binomial Method... 95.8% [binomial] Running Binomial Method... 95.9% [binomial] Running Binomial Method... 96.0% [binomial] Running Binomial Method... 96.1% [binomial] Running Binomial Method... 96.2% [binomial] Running Binomial Method... 96.3% [binomial] Running Binomial Method... 96.4% [binomial] Running Binomial Method... 96.5% [binomial] Running Binomial Method... 96.5% [binomial] Running Binomial Method... 96.6% [binomial] Running Binomial Method... 96.7% [binomial] Running Binomial Method... 96.8% [binomial] Running Binomial Method... 96.9% [binomial] Running Binomial Method... 97.0% [binomial] Running Binomial Method... 97.1% [binomial] Running Binomial Method... 97.2% [binomial] Running Binomial Method... 97.3% [binomial] Running Binomial Method... 97.4% [binomial] Running Binomial Method... 97.5% [binomial] Running Binomial Method... 97.5% [binomial] Running Binomial Method... 97.6% [binomial] Running Binomial Method... 97.7% [binomial] Running Binomial Method... 97.8% [binomial] Running Binomial Method... 97.9% [binomial] Running Binomial Method... 98.0% [binomial] Running Binomial Method... 98.1% [binomial] Running Binomial Method... 98.2% [binomial] Running Binomial Method... 98.3% [binomial] Running Binomial Method... 98.4% [binomial] Running Binomial Method... 98.5% [binomial] Running Binomial Method... 98.5% [binomial] Running Binomial Method... 98.6% [binomial] Running Binomial Method... 98.7% [binomial] Running Binomial Method... 98.8% [binomial] Running Binomial Method... 98.9% [binomial] Running Binomial Method... 99.0% [binomial] Running Binomial Method... 99.1% [binomial] Running Binomial Method... 99.2% [binomial] Running Binomial Method... 99.3% [binomial] Running Binomial Method... 99.4% [binomial] Running Binomial Method... 99.5% [binomial] Running Binomial Method... 99.5% [binomial] Running Binomial Method... 99.6% [binomial] Running Binomial Method... 99.7% [binomial] Running Binomial Method... 99.8% [binomial] Running Binomial Method... 99.9% [binomial] Running Binomial Method... 100.0% ok test_GI (tests.test_analysis_methods.TestMethods.test_GI) ... /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep3.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep3.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback [binomial] [binomial] Adding File: /build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt [binomial] Finished Binomial Method Removing output file... #################### tests.test_analysis_methods.TestMethods.test_GI #################### [gi] Starting Genetic Interactions Method [gi] Getting Data [gi] Normalizing using: TTR [gi] Running GI Method... 2% [gi] analyzing Rv0244c (0.0% done) [gi] Running GI Method... 4% [gi] analyzing Rv0362 (2.0% done) [gi] Running GI Method... 6% [gi] analyzing Rv0450c (4.0% done) [gi] Running GI Method... 8% [gi] analyzing Rv0485 (6.0% done) [gi] Running GI Method... 10% [gi] analyzing Rv0694 (8.0% done) [gi] Running GI Method... 12% [gi] analyzing Rv0761c (10.0% done) [gi] Running GI Method... 14% [gi] analyzing Rv1129c (12.0% done) [gi] Running GI Method... 16% [gi] analyzing Rv1130 (14.0% done) [gi] Running GI Method... 18% [gi] analyzing Rv1183 (16.0% done) [gi] Running GI Method... 20% [gi] analyzing Rv1428c (18.0% done) [gi] Running GI Method... 22% [gi] analyzing Rv3200c (20.0% done) [gi] Running GI Method... 24% [gi] analyzing Rv3559c (22.0% done) [gi] Running GI Method... 25% [gi] analyzing Rv3564 (24.0% done) [gi] Running GI Method... 27% [gi] analyzing Rv3575c (26.0% done) [gi] Running GI Method... 29% [gi] analyzing Rv0381c (28.0% done) [gi] Running GI Method... 31% [gi] analyzing Rv1432 (30.0% done) [gi] Running GI Method... 33% [gi] analyzing Rv3543c (32.0% done) [gi] Running GI Method... 35% [gi] analyzing Rv3570c (34.0% done) [gi] Running GI Method... 37% [gi] analyzing Rv0495c (36.0% done) [gi] Running GI Method... 39% [gi] analyzing Rv0805 (38.0% done) [gi] Running GI Method... 41% [gi] analyzing Rvnr01 (40.0% done) [gi] Running GI Method... 43% [gi] analyzing Rv3924c (42.0% done) [gi] Running GI Method... 45% [gi] analyzing Rv3923c (44.0% done) [gi] Running GI Method... 47% [gi] analyzing Rv3922c (46.0% done) [gi] Running GI Method... 49% [gi] analyzing Rv3921c (48.0% done) [gi] Running GI Method... 51% [gi] analyzing Rv3920c (50.0% done) [gi] Running GI Method... 53% [gi] analyzing Rv3918c (52.0% done) [gi] Running GI Method... 55% [gi] analyzing Rv3917c (54.0% done) [gi] Running GI Method... 57% [gi] analyzing Rv3916c (56.0% done) [gi] Running GI Method... 59% [gi] analyzing Rv3915 (58.0% done) [gi] Running GI Method... 61% [gi] analyzing Rv1132 (60.0% done) [gi] Running GI Method... 63% [gi] analyzing Rv0499 (62.0% done) [gi] Running GI Method... 65% [gi] analyzing Rv2190c (64.0% done) [gi] Running GI Method... 67% [gi] analyzing Rv2207 (66.0% done) [gi] Running GI Method... 69% [gi] analyzing Rv2347c (68.0% done) [gi] Running GI Method... 71% [gi] analyzing Rv2567 (70.0% done) [gi] Running GI Method... 73% [gi] analyzing Rv2887 (72.0% done) [gi] Running GI Method... 75% [gi] analyzing Rv3005c (74.0% done) [gi] Running GI Method... 76% [gi] analyzing Rv1111c (76.0% done) [gi] Running GI Method... 78% [gi] analyzing Rv1072 (78.0% done) [gi] Running GI Method... 80% [gi] analyzing Rv2958c (80.0% done) [gi] Running GI Method... 82% [gi] analyzing Rv3552 (82.0% done) [gi] Running GI Method... 84% [gi] analyzing Rv0129c (84.0% done) [gi] Running GI Method... 86% [gi] analyzing Rv1821 (86.0% done) [gi] Running GI Method... 88% [gi] analyzing Rv2224c (88.0% done) [gi] Running GI Method... 90% [gi] analyzing Rv3567c (90.0% done) [gi] Running GI Method... 92% [gi] analyzing Rv0924c (92.0% done) [gi] Running GI Method... 94% [gi] analyzing Rv0249c (94.0% done) [gi] Running GI Method... 96% [gi] analyzing Rv2021c (96.0% done) [gi] Running GI Method... 98% [gi] analyzing Rv2694c (98.0% done) [gi] Running GI Method... 100% /usr/lib/python3.11/unittest/case.py:579: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt' mode='w' encoding='UTF-8'> if method() is not None: ResourceWarning: Enable tracemalloc to get the object allocation traceback ok test_Griffin (tests.test_analysis_methods.TestMethods.test_Griffin) ... [gi] analyzing Rv3586 (100.0% done) [gi] Adding File: /build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt [gi] Finished Genetic Interactions Method Removing output file... #################### tests.test_analysis_methods.TestMethods.test_Griffin #################### [griffin] Starting Griffin Method [griffin] Getting Data [griffin] Running Griffin Method... 2.0% [griffin] Running Griffin Method... 3.9% [griffin] Running Griffin Method... 5.9% [griffin] Running Griffin Method... 7.8% [griffin] Running Griffin Method... 9.8% [griffin] Running Griffin Method... 11.8% [griffin] Running Griffin Method... 13.7% [griffin] Running Griffin Method... 15.7% [griffin] Running Griffin Method... 17.6% [griffin] Running Griffin Method... 19.6% [griffin] Running Griffin Method... 21.6% [griffin] Running Griffin Method... 23.5% [griffin] Running Griffin Method... 25.5% [griffin] Running Griffin Method... 27.5% [griffin] Running Griffin Method... 29.4% [griffin] Running Griffin Method... 31.4% [griffin] Running Griffin Method... 33.3% [griffin] Running Griffin Method... 35.3% [griffin] Running Griffin Method... 37.3% [griffin] Running Griffin Method... 39.2% [griffin] Running Griffin Method... 41.2% [griffin] Running Griffin Method... 43.1% [griffin] Running Griffin Method... 45.1% [griffin] Running Griffin Method... 47.1% [griffin] Running Griffin Method... 49.0% [griffin] Running Griffin Method... 51.0% [griffin] Running Griffin Method... 52.9% [griffin] Running Griffin Method... 54.9% [griffin] Running Griffin Method... 56.9% [griffin] Running Griffin Method... 58.8% [griffin] Running Griffin Method... 60.8% [griffin] Running Griffin Method... 62.7% [griffin] Running Griffin Method... 64.7% [griffin] Running Griffin Method... 66.7% [griffin] Running Griffin Method... 68.6% [griffin] Running Griffin Method... 70.6% [griffin] Running Griffin Method... 72.5% [griffin] Running Griffin Method... 74.5% [griffin] Running Griffin Method... 76.5% [griffin] Running Griffin Method... 78.4% [griffin] Running Griffin Method... 80.4% [griffin] Running Griffin Method... 82.4% [griffin] Running Griffin Method... 84.3% [griffin] Running Griffin Method... 86.3% [griffin] Running Griffin Method... 88.2% [griffin] Running Griffin Method... 90.2% [griffin] Running Griffin Method... 92.2% [griffin] Running Griffin Method... 94.1% [griffin] Running Griffin Method... 96.1% [griffin] Running Griffin Method... 98.0% [griffin] Running Griffin Method... 100.0% ok test_Gumbel (tests.test_analysis_methods.TestMethods.test_Gumbel) ... [griffin] [griffin] Adding File: /build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt [griffin] Finished Griffin Method Removing output file... #################### tests.test_analysis_methods.TestMethods.test_Gumbel #################### [gumbel] Reading Annotation [gumbel] Getting Data [gumbel] Doing Regression [gumbel] Setting Initial Class [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 0.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 0.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 0.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 0.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 0.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 0.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 0.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 0.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 0.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 1.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 1.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 1.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 1.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 1.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 1.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 1.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 1.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 1.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 1.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 1.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 2.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 2.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 2.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 2.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 2.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 2.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 2.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 2.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 2.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 2.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 2.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 3.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 3.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 3.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 3.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 3.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 3.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 3.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 3.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 3.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 3.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 3.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 4.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 4.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 4.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 4.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 4.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 4.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 4.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 4.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 4.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 4.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 4.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 5.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 5.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 5.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 5.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 5.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 5.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 5.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 5.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 5.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 5.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 5.9% [gumbel] Running Gumbel 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Running Gumbel Method with Binomial Essentiality Calls... 8.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 8.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 8.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 8.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 8.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 9.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 9.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 9.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 9.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 9.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 9.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 9.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 9.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 9.7% 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[gumbel] Running Gumbel Method with Binomial Essentiality Calls... 13.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 13.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 13.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 13.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 13.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 14.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 14.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 14.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 14.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 14.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 14.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 14.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 14.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 14.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 14.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 14.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 15.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 15.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 15.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 15.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 15.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 15.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 15.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 15.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 15.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 15.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 15.9% [gumbel] Running Gumbel 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Essentiality Calls... 18.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 18.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 18.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 18.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 18.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 18.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 19.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 19.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 19.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 19.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 19.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 19.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 19.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 19.6% [gumbel] Running Gumbel 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Essentiality Calls... 25.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.1% [gumbel] Running Gumbel 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Method with Binomial Essentiality Calls... 30.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 100.0% ok test_HMM (tests.test_analysis_methods.TestMethods.test_HMM) ... /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/analysis/hmm.py:194: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.wig' mode='r' encoding='UTF-8'> T = len([1 for line in open(ctrldata[0]).readlines() if not line.startswith("#")]) ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback [gumbel] [gumbel] Adding File: /build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt [gumbel] Finished Gumbel Method Removing output file... #################### tests.test_analysis_methods.TestMethods.test_HMM #################### [hmm] Starting HMM Method [hmm] Getting Data [hmm] Normalizing using: TTR [hmm] Running HMM Method... 2.5% [hmm] Running HMM Method... 5.0% [hmm] Running HMM Method... 7.5% [hmm] Running HMM Method... 10.0% [hmm] Running HMM Method... 12.5% [hmm] Running HMM Method... 15.0% [hmm] Running HMM Method... 17.5% [hmm] Running HMM Method... 20.0% [hmm] Running HMM Method... 22.5% [hmm] Running HMM Method... 25.0% [hmm] Running HMM Method... 27.5% [hmm] Running HMM Method... 30.0% [hmm] Running HMM Method... 32.5% [hmm] Running HMM Method... 35.0% [hmm] Running HMM Method... 37.5% [hmm] Running HMM Method... 40.0% [hmm] Running HMM Method... 42.5% [hmm] Running HMM Method... 45.0% [hmm] Running HMM Method... 47.5% [hmm] Running HMM Method... 50.0% [hmm] Running HMM Method... 50.0% [hmm] Running HMM Method... 52.5% [hmm] Running HMM Method... 55.0% [hmm] Running HMM Method... 57.5% [hmm] Running HMM Method... 60.0% [hmm] Running HMM Method... 62.5% [hmm] Running HMM Method... 65.0% [hmm] Running HMM Method... 67.5% [hmm] Running HMM Method... 70.0% [hmm] Running HMM Method... 72.5% [hmm] Running HMM Method... 75.0% [hmm] Running HMM Method... 77.5% [hmm] Running HMM Method... 80.0% [hmm] Running HMM Method... 82.5% [hmm] Running HMM Method... 85.0% [hmm] Running HMM Method... 87.5% [hmm] Running HMM Method... 90.0% [hmm] Running HMM Method... 92.5% [hmm] Running HMM Method... 95.0% [hmm] Running HMM Method... 97.5% ok test_anova (tests.test_analysis_methods.TestMethods.test_anova) ... /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:84: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/samples_metadata_cg.txt' mode='r' encoding='UTF-8'> for line in open(metadata_file): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:124: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.prot_table' mode='r' encoding='UTF-8'> for line in open(fname): ResourceWarning: Enable tracemalloc to get the object allocation traceback [hmm] [hmm] Finished HMM - Sites Method [hmm] Adding File: /build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt.sites.txt [hmm] Creating HMM Genes Level Output [hmm] Adding File: /build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt.genes.txt [hmm] Finished HMM Method #################### tests.test_analysis_methods.TestMethods.test_anova #################### [anova] Starting Anova analysis [anova] Getting Data [anova] Normalizing using: TTR [anova] Running Anova [anova] Running Anova Method... 2.0% [anova] Running Anova Method... 3.9% [anova] Running Anova Method... 5.9% [anova] Running Anova Method... 7.8% [anova] Running Anova Method... 9.8% [anova] Running Anova Method... 11.8% [anova] Running Anova Method... 13.7% [anova] Running Anova Method... 15.7% [anova] Running Anova Method... 17.6% [anova] Running Anova Method... 19.6% [anova] Running Anova Method... 21.6% [anova] Running Anova Method... 23.5% [anova] Running Anova Method... 25.5% [anova] Running Anova Method... 27.5% [anova] Running Anova Method... 29.4% [anova] Running Anova Method... 31.4% [anova] Running Anova Method... 33.3% [anova] Running Anova Method... 35.3% [anova] Running Anova Method... 37.3% [anova] Running Anova Method... 39.2% [anova] Running Anova Method... 41.2% [anova] Running Anova Method... 43.1% [anova] Running Anova Method... 45.1% [anova] Running Anova Method... 47.1% [anova] Running Anova Method... 49.0% [anova] Running Anova Method... 51.0% [anova] Running Anova Method... 52.9% [anova] Running Anova Method... 54.9% [anova] Running Anova Method... 56.9% [anova] Running Anova Method... 58.8% [anova] Running Anova Method... 60.8% [anova] Running Anova Method... 62.7% [anova] Running Anova Method... 64.7% [anova] Running Anova Method... 66.7% [anova] Running Anova Method... 68.6% [anova] Running Anova Method... 70.6% [anova] Running Anova Method... 72.5% [anova] Running Anova Method... 74.5% [anova] Running Anova Method... 76.5% [anova] Running Anova Method... 78.4% [anova] Running Anova Method... 80.4% [anova] Running Anova Method... 82.4% [anova] Running Anova Method... 84.3% [anova] Running Anova Method... 86.3% [anova] Running Anova Method... 88.2% [anova] Running Anova Method... 90.2% [anova] Running Anova Method... 92.2% [anova] Running Anova Method... 94.1% [anova] Running Anova Method... 96.1% [anova] Running Anova Method... 98.0% [anova] Running Anova Method... 100.0% /build/reproducible-path/tnseq-transit-3.3.4/tests/transit_test.py:89: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt' mode='r' encoding='UTF-8'> for line in open(fname): ResourceWarning: Enable tracemalloc to get the object allocation traceback ok test_resampling (tests.test_analysis_methods.TestMethods.test_resampling) ... /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/glycerol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/glycerol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/glycerol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/glycerol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep3.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep3.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:1290: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.prot_table' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:1217: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.prot_table' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:521: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.prot_table' mode='r' encoding='UTF-8'> for line in open(self.annotation): ResourceWarning: Enable tracemalloc to get the object allocation traceback [anova] Adding File: /build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt [anova] Finished Anova analysis [anova] Time: 0.4s Removing output file... #################### tests.test_analysis_methods.TestMethods.test_resampling #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Preprocessing Ctrl data... [resampling] Normalizing using: TTR [resampling] Performing LOESS Correction [resampling] Preprocessing Exp data... [resampling] Normalizing using: TTR [resampling] Performing LOESS Correction [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% /build/reproducible-path/tnseq-transit-3.3.4/tests/transit_test.py:89: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt' mode='r' encoding='UTF-8'> for line in open(fname): ResourceWarning: Enable tracemalloc to get the object allocation traceback ok test_resampling_adaptive (tests.test_analysis_methods.TestMethods.test_resampling_adaptive) ... [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 34 [resampling] Time: 11.65s [resampling] Finished resampling Method Removing output file... #################### tests.test_analysis_methods.TestMethods.test_resampling_adaptive #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Preprocessing Ctrl data... [resampling] Normalizing using: TTR [resampling] Preprocessing Exp data... [resampling] Normalizing using: TTR [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% ok test_resampling_combined_wig (tests.test_analysis_methods.TestMethods.test_resampling_combined_wig) ... /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:84: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/samples_metadata_cg.txt' mode='r' encoding='UTF-8'> for line in open(metadata_file): ResourceWarning: Enable tracemalloc to get the object allocation traceback [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 35 [resampling] Time: 8.00s [resampling] Finished resampling Method Removing output file... #################### tests.test_analysis_methods.TestMethods.test_resampling_combined_wig #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Preprocessing Ctrl data... [resampling] Normalizing using: TTR [resampling] Preprocessing Exp data... [resampling] Normalizing using: TTR [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% ok test_resampling_histogram (tests.test_analysis_methods.TestMethods.test_resampling_histogram) ... [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 35 [resampling] Time: 6.62s [resampling] Finished resampling Method 37 35 Removing output file... #################### tests.test_analysis_methods.TestMethods.test_resampling_histogram #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Preprocessing Ctrl data... [resampling] Normalizing using: TTR [resampling] Preprocessing Exp data... [resampling] Normalizing using: TTR [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% ok test_resampling_multistrain (tests.test_analysis_methods.TestMethods.test_resampling_multistrain) ... [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 35 [resampling] Time: 13.63s [resampling] Finished resampling Method Removing histogram files Removing output file... #################### tests.test_analysis_methods.TestMethods.test_resampling_multistrain #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Multiple annotation files found [resampling] Mapping ctrl data to /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.prot_table, exp data to /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.prot_table [resampling] Preprocessing Ctrl data... [resampling] Normalizing using: TTR [resampling] Preprocessing Exp data... [resampling] Normalizing using: TTR [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% ok test_utest (tests.test_analysis_methods.TestMethods.test_utest) ... [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 35 [resampling] Time: 24.20s [resampling] Finished resampling Method Removing histogram files Removing output file... #################### tests.test_analysis_methods.TestMethods.test_utest #################### [utest] Starting Mann-Whitney U-test Method [utest] Getting Data [utest] Normalizing using: TTR [utest] Running Mann-Whitney U-test Method... 2.0% [utest] Running Mann-Whitney U-test Method... 3.9% [utest] Running Mann-Whitney U-test Method... 5.9% [utest] Running Mann-Whitney U-test Method... 7.8% [utest] Running Mann-Whitney U-test Method... 9.8% [utest] Running Mann-Whitney U-test Method... 11.8% [utest] Running Mann-Whitney U-test Method... 13.7% [utest] Running Mann-Whitney U-test Method... 15.7% [utest] Running Mann-Whitney U-test Method... 17.6% [utest] Running Mann-Whitney U-test Method... 19.6% [utest] Running Mann-Whitney U-test Method... 21.6% [utest] Running Mann-Whitney U-test Method... 23.5% [utest] Running Mann-Whitney U-test Method... 25.5% [utest] Running Mann-Whitney U-test Method... 27.5% [utest] Running Mann-Whitney U-test Method... 29.4% [utest] Running Mann-Whitney U-test Method... 31.4% [utest] Running Mann-Whitney U-test Method... 33.3% [utest] Running Mann-Whitney U-test Method... 35.3% [utest] Running Mann-Whitney U-test Method... 37.3% [utest] Running Mann-Whitney U-test Method... 39.2% [utest] Running Mann-Whitney U-test Method... 41.2% [utest] Running Mann-Whitney U-test Method... 43.1% [utest] Running Mann-Whitney U-test Method... 45.1% [utest] Running Mann-Whitney U-test Method... 47.1% [utest] Running Mann-Whitney U-test Method... 49.0% [utest] Running Mann-Whitney U-test Method... 51.0% [utest] Running Mann-Whitney U-test Method... 52.9% [utest] Running Mann-Whitney U-test Method... 54.9% [utest] Running Mann-Whitney U-test Method... 56.9% [utest] Running Mann-Whitney U-test Method... 58.8% [utest] Running Mann-Whitney U-test Method... 60.8% [utest] Running Mann-Whitney U-test Method... 62.7% [utest] Running Mann-Whitney U-test Method... 64.7% [utest] Running Mann-Whitney U-test Method... 66.7% [utest] Running Mann-Whitney U-test Method... 68.6% [utest] Running Mann-Whitney U-test Method... 70.6% [utest] Running Mann-Whitney U-test Method... 72.5% [utest] Running Mann-Whitney U-test Method... 74.5% [utest] Running Mann-Whitney U-test Method... 76.5% [utest] Running Mann-Whitney U-test Method... 78.4% [utest] Running Mann-Whitney U-test Method... 80.4% [utest] Running Mann-Whitney U-test Method... 82.4% [utest] Running Mann-Whitney U-test Method... 84.3% [utest] Running Mann-Whitney U-test Method... 86.3% [utest] Running Mann-Whitney U-test Method... 88.2% [utest] Running Mann-Whitney U-test Method... 90.2% [utest] Running Mann-Whitney U-test Method... 92.2% [utest] Running Mann-Whitney U-test Method... 94.1% [utest] Running Mann-Whitney U-test Method... 96.1% [utest] Running Mann-Whitney U-test Method... 98.0% [utest] Running Mann-Whitney U-test Method... 100.0% ok test_zinb (tests.test_analysis_methods.TestMethods.test_zinb) ... skipped 'requires R, rpy2' test_zinb_covariates (tests.test_analysis_methods.TestMethods.test_zinb_covariates) ... skipped 'requires R, rpy2' test_zinb_interactions (tests.test_analysis_methods.TestMethods.test_zinb_interactions) ... skipped 'requires R, rpy2' test_TTR (tests.test_norm_methods.TestNormMethods.test_TTR) ... ok test_nonorm (tests.test_norm_methods.TestNormMethods.test_nonorm) ... ok test_resampling_NZMean (tests.test_norm_methods.TestNormMethods.test_resampling_NZMean) ... [utest] [utest] Performing Benjamini-Hochberg Correction [utest] Adding File: /build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt [utest] Finished Mann-Whitney U-test Method Removing output file... #################### tests.test_norm_methods.TestNormMethods.test_TTR #################### #################### tests.test_norm_methods.TestNormMethods.test_nonorm #################### #################### tests.test_norm_methods.TestNormMethods.test_resampling_NZMean #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Preprocessing Ctrl data... [resampling] Normalizing using: nzmean [resampling] Preprocessing Exp data... [resampling] Normalizing using: nzmean [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% ok test_resampling_Quantile (tests.test_norm_methods.TestNormMethods.test_resampling_Quantile) ... [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 0 [resampling] Time: 1.23s [resampling] Finished resampling Method Removing output file... #################### tests.test_norm_methods.TestNormMethods.test_resampling_Quantile #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Preprocessing Ctrl data... [resampling] Normalizing using: quantile [resampling] Preprocessing Exp data... [resampling] Normalizing using: quantile [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% /build/reproducible-path/tnseq-transit-3.3.4/tests/transit_test.py:75: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback ok test_resampling_TTR (tests.test_norm_methods.TestNormMethods.test_resampling_TTR) ... [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 0 [resampling] Time: 1.56s [resampling] Finished resampling Method Removing output file... #################### tests.test_norm_methods.TestNormMethods.test_resampling_TTR #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Preprocessing Ctrl data... [resampling] Normalizing using: TTR [resampling] Preprocessing Exp data... [resampling] Normalizing using: TTR [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% ok test_resampling_TotReads (tests.test_norm_methods.TestNormMethods.test_resampling_TotReads) ... [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 0 [resampling] Time: 1.27s [resampling] Finished resampling Method Removing output file... #################### tests.test_norm_methods.TestNormMethods.test_resampling_TotReads #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Preprocessing Ctrl data... [resampling] Normalizing using: totreads [resampling] Preprocessing Exp data... [resampling] Normalizing using: totreads [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% ok test_resampling_ZINFNB (tests.test_norm_methods.TestNormMethods.test_resampling_ZINFNB) ... [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 0 [resampling] Time: 1.23s [resampling] Finished resampling Method Removing output file... #################### tests.test_norm_methods.TestNormMethods.test_resampling_ZINFNB #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Preprocessing Ctrl data... [resampling] Normalizing using: zinfnb [resampling] Preprocessing Exp data... [resampling] Normalizing using: zinfnb [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% ok test_resampling_nonorm (tests.test_norm_methods.TestNormMethods.test_resampling_nonorm) ... [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 0 [resampling] Time: 14.56s [resampling] Finished resampling Method Removing output file... #################### tests.test_norm_methods.TestNormMethods.test_resampling_nonorm #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Preprocessing Ctrl data... [resampling] Preprocessing Exp data... [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% ok test_cleanargs_flag_arguments_w_quotes (tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_flag_arguments_w_quotes) ... ok test_cleanargs_flag_arguments_with_double_dash (tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_flag_arguments_with_double_dash) ... ok test_cleanargs_flag_without_arguments (tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_flag_without_arguments) ... ok test_cleanargs_negative_arguments (tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_negative_arguments) ... ok test_cleanargs_positional_arguments (tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_positional_arguments) ... ok test_cleanargs_positional_arguments_w_quotes (tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_positional_arguments_w_quotes) ... ok test_file_types (tests.test_pytransit_tools.TestTnSeqTools.test_file_types) ... ok test_genes_creation_fromdata (tests.test_pytransit_tools.TestTnSeqTools.test_genes_creation_fromdata) ... /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:1290: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/genomes/H37Rv.prot_table' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:1217: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/genomes/H37Rv.prot_table' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:521: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/genomes/H37Rv.prot_table' mode='r' encoding='UTF-8'> for line in open(self.annotation): ResourceWarning: Enable tracemalloc to get the object allocation traceback ok test_genes_creation_fromwig (tests.test_pytransit_tools.TestTnSeqTools.test_genes_creation_fromwig) ... ok test_normalization (tests.test_pytransit_tools.TestTnSeqTools.test_normalization) ... ok test_read_data (tests.test_pytransit_tools.TestTnSeqTools.test_read_data) ... ok test_tpp_flag_primer (tests.test_tpp.TestTPP.test_tpp_flag_primer) ... skipped 'requires local data file' test_tpp_multicontig_auto_replicon_ids (tests.test_tpp.TestTPP.test_tpp_multicontig_auto_replicon_ids) ... [tn_preprocess] running pre-processing on /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig-1.fastq and [tn_preprocess] protocol: Sassetti [tn_preprocess] transposon type: Himar1 [tn_preprocess] One reference genome specified: /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna, containing 3 records. [tn_preprocess] Autogenerating replicon_ids... [tn_preprocess] extracting reads... [tn_preprocess] fastq2reads: /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig-1.fastq -> /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.reads1 /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytpp/tpp_tools.py:85: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig-1.fastq' mode='r' encoding='UTF-8'> for line in open(infile): ResourceWarning: Enable tracemalloc to get the object allocation traceback [tn_preprocess] assuming single-ended reads [tn_preprocess] creating /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.trimmed1 [tn_preprocess] prefix sequence: [tn_preprocess] Looking for start of Tn prefix within P,Q = [0,20] /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytpp/tpp_tools.py:285: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.reads1' mode='r' encoding='UTF-8'> for line in open(infile): ResourceWarning: Enable tracemalloc to get the object allocation traceback [tn_preprocess] mapping reads using BWA...(this takes a couple of minutes) [tn_preprocess] /usr/bin/bwa index /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna b'[bwa_index] Pack FASTA... 0.06 sec' b'[bwa_index] Construct BWT for the packed sequence...' b'[bwa_index] 1.02 seconds elapse.' b'[bwa_index] Update BWT... 0.05 sec' b'[bwa_index] Pack forward-only FASTA... 0.04 sec' b'[bwa_index] Construct SA from BWT and Occ... 0.71 sec' b'[main] Version: 0.7.17-r1188' b'[main] CMD: /usr/bin/bwa index /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna' b'[main] Real time: 1.901 sec; CPU: 1.883 sec' b'' [tn_preprocess] /usr/bin/bwa mem /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.trimmed1 > /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.sam b'[M::bwa_idx_load_from_disk] read 0 ALT contigs' b'[M::process] read 2500 sequences (304052 bp)...' b'[M::mem_process_seqs] Processed 2500 reads in 0.214 CPU sec, 0.214 real sec' b'[main] Version: 0.7.17-r1188' b'[main] CMD: /usr/bin/bwa mem /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.trimmed1' b'[main] Real time: 0.225 sec; CPU: 0.225 sec' b'' [tn_preprocess] tabulating template counts and statistics for reference genome /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytpp/tpp_tools.py:387: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna' mode='r' encoding='UTF-8'> for line in open(filename): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytpp/tpp_tools.py:569: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.sam' mode='r' encoding='UTF-8'> for line in open(sam): ResourceWarning: Enable tracemalloc to get the object allocation traceback [tn_preprocess] writing /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp_1.wig [tn_preprocess] writing /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp_2.wig [tn_preprocess] writing /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp_3.wig /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytpp/tpp_tools.py:1118: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.reads1' mode='r' encoding='UTF-8'> read_length = get_read_length(vars.base + ".reads1") ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytpp/tpp_tools.py:1119: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.trimmed1' mode='r' encoding='UTF-8'> mean_r1_genomic = get_genomic_portion(vars.base + ".trimmed1") ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytpp/tpp_tools.py:1197: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.trimmed1' mode='r' encoding='UTF-8'> for line in open(vars.trimmed1): ResourceWarning: Enable tracemalloc to get the object allocation traceback [tn_preprocess] writing /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.tn_stats [tn_preprocess] Done. ok test_tpp_multicontig_empty_prefix (tests.test_tpp.TestTPP.test_tpp_multicontig_empty_prefix) ... [tn_preprocess] running pre-processing on /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig-1.fastq and [tn_preprocess] protocol: Sassetti [tn_preprocess] transposon type: Himar1 [tn_preprocess] One reference genome specified: /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna, containing 3 records. [tn_preprocess] extracting reads... [tn_preprocess] fastq2reads: /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig-1.fastq -> /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.reads1 [tn_preprocess] assuming single-ended reads [tn_preprocess] creating /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.trimmed1 [tn_preprocess] prefix sequence: [tn_preprocess] Looking for start of Tn prefix within P,Q = [0,20] [tn_preprocess] mapping reads using BWA...(this takes a couple of minutes) [tn_preprocess] /usr/bin/bwa mem /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.trimmed1 > /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.sam b'[M::bwa_idx_load_from_disk] read 0 ALT contigs' b'[M::process] read 2500 sequences (304052 bp)...' b'[M::mem_process_seqs] Processed 2500 reads in 0.215 CPU sec, 0.215 real sec' b'[main] Version: 0.7.17-r1188' b'[main] CMD: /usr/bin/bwa mem /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.trimmed1' b'[main] Real time: 0.227 sec; CPU: 0.226 sec' b'' [tn_preprocess] tabulating template counts and statistics for reference genome /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna [tn_preprocess] writing /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp_a.wig [tn_preprocess] writing /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp_b.wig [tn_preprocess] writing /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp_c.wig [tn_preprocess] writing /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.tn_stats [tn_preprocess] Done. ok test_tpp_noflag_primer (tests.test_tpp.TestTPP.test_tpp_noflag_primer) ... skipped 'requires local data file' test_tpp_protocol_mme1 (tests.test_tpp.TestTPP.test_tpp_protocol_mme1) ... skipped 'requires local data file' ---------------------------------------------------------------------- Ran 39 tests in 128.026s OK (skipped=6) [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 0 [resampling] Time: 1.23s [resampling] Finished resampling Method Removing output file... #################### tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_flag_arguments_w_quotes #################### #################### tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_flag_arguments_with_double_dash #################### #################### tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_flag_without_arguments #################### #################### tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_negative_arguments #################### #################### tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_positional_arguments #################### #################### tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_positional_arguments_w_quotes #################### #################### tests.test_pytransit_tools.TestTnSeqTools.test_file_types #################### #################### tests.test_pytransit_tools.TestTnSeqTools.test_genes_creation_fromdata #################### #################### tests.test_pytransit_tools.TestTnSeqTools.test_genes_creation_fromwig #################### #################### tests.test_pytransit_tools.TestTnSeqTools.test_normalization #################### #################### tests.test_pytransit_tools.TestTnSeqTools.test_read_data #################### #################### tests.test_tpp.TestTPP.test_tpp_multicontig_auto_replicon_ids #################### /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig-1.fastq # title: Tn-Seq Pre-Processor # date: 04/20/2025 14:59:20 # command: python python3.11 -m unittest -v tests/test_analysis_methods.py tests/test_norm_methods.py tests/test_pytransit_tools.py tests/test_tpp.py tests/transit_test.py # transposon type: Himar1 # protocol type: Sassetti # bwa flags: # read1: /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig-1.fastq # read2: # ref_genome: /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna # replicon_ids: 1,2,3 # total_reads (or read pairs): 2500 # truncated_reads 156 (genomic inserts shorter than the read length; ADAP2 appears in read1) # trimmed_reads (reads with valid Tn prefix, and insert size>20bp): 2512 # reads1_mapped: 2116 # reads2_mapped: 0 # mapped_reads (both R1 and R2 map into genome, and R2 has a proper barcode): 2116 # read_count (TA sites only, for Himar1): # 1: 63 # 2: 0 # 3: 0 # template_count: # 1: 63 # 2: 0 # 3: 0 # template_ratio (reads per template): # 1: 1.00 # 2: 0.00 # 3: 0.00 # TA_sites: # 1: 89994 # 2: 646 # 3: 664 # TAs_hit: # 1: 63 # 2: 0 # 3: 0 # density: # 1: 0.001 # 2: 0.000 # 3: 0.000 # max_count (among templates): # 1: 1 # 2: 0 # 3: 0 # max_site (coordinate): # 1: 4977050 # 2: 57441 # 3: 38111 # NZ_mean (among templates): # 1: 1.0 # 2: 0.0 # 3: 0.0 # FR_corr (Fwd templates vs. Rev templates): # 1: -0.000 # 2: nan # 3: nan # BC_corr (reads vs. templates, summed over both strands): # 1: nan # 2: nan # 3: nan # Break-down of total reads (2500): # -12 reads (-0.5%) lack the expected Tn prefix # Break-down of trimmed reads with valid Tn prefix (2500): # primer_matches: 36 reads (1.4%) contain CTAGAGGGCCCAATTCGCCCTATAGTGAGT (Himar1) # vector_matches: 36 reads (1.4%) contain CTAGACCGTCCAGTCTGGCAGGCCGGAAAC (phiMycoMarT7) # adapter_matches: 14 reads (0.6%) contain GATCGGAAGAGCACACGTCTGAACTCCAGTCAC (Illumina/TruSeq index) # misprimed_reads: 17 reads (0.7%) contain Himar1 prefix but don't end in TGTTA # read_length: 125 bp # mean_R1_genomic_length: 121.6 bp Removing tpp test file Removing tpp test file Removing tpp test file Removing tpp test file Removing tpp test file Removing tpp test file Removing tpp test file Removing tpp test file #################### tests.test_tpp.TestTPP.test_tpp_multicontig_empty_prefix #################### /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig-1.fastq # title: Tn-Seq Pre-Processor # date: 04/20/2025 14:59:21 # command: python python3.11 -m unittest -v tests/test_analysis_methods.py tests/test_norm_methods.py tests/test_pytransit_tools.py tests/test_tpp.py tests/transit_test.py # transposon type: Himar1 # protocol type: Sassetti # bwa flags: # read1: /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig-1.fastq # read2: # ref_genome: /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna # replicon_ids: a,b,c # total_reads (or read pairs): 2500 # truncated_reads 156 (genomic inserts shorter than the read length; ADAP2 appears in read1) # trimmed_reads (reads with valid Tn prefix, and insert size>20bp): 2512 # reads1_mapped: 2116 # reads2_mapped: 0 # mapped_reads (both R1 and R2 map into genome, and R2 has a proper barcode): 2116 # read_count (TA sites only, for Himar1): # a: 63 # b: 0 # c: 0 # template_count: # a: 63 # b: 0 # c: 0 # template_ratio (reads per template): # a: 1.00 # b: 0.00 # c: 0.00 # TA_sites: # a: 89994 # b: 646 # c: 664 # TAs_hit: # a: 63 # b: 0 # c: 0 # density: # a: 0.001 # b: 0.000 # c: 0.000 # max_count (among templates): # a: 1 # b: 0 # c: 0 # max_site (coordinate): # a: 4977050 # b: 57441 # c: 38111 # NZ_mean (among templates): # a: 1.0 # b: 0.0 # c: 0.0 # FR_corr (Fwd templates vs. Rev templates): # a: -0.000 # b: nan # c: nan # BC_corr (reads vs. templates, summed over both strands): # a: nan # b: nan # c: nan # Break-down of total reads (2500): # -12 reads (-0.5%) lack the expected Tn prefix # Break-down of trimmed reads with valid Tn prefix (2500): # primer_matches: 36 reads (1.4%) contain CTAGAGGGCCCAATTCGCCCTATAGTGAGT (Himar1) # vector_matches: 36 reads (1.4%) contain CTAGACCGTCCAGTCTGGCAGGCCGGAAAC (phiMycoMarT7) # adapter_matches: 14 reads (0.6%) contain GATCGGAAGAGCACACGTCTGAACTCCAGTCAC (Illumina/TruSeq index) # misprimed_reads: 17 reads (0.7%) contain Himar1 prefix but don't end in TGTTA # read_length: 125 bp # mean_R1_genomic_length: 121.6 bp Removing tpp test file Removing tpp test file Removing tpp test file Removing tpp test file Removing tpp test file Removing tpp test file Removing tpp test file Removing tpp test file make[1]: Leaving directory '/build/reproducible-path/tnseq-transit-3.3.4' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install --destdir=debian/tnseq-transit/ -O--buildsystem=pybuild I: pybuild base:305: /usr/bin/python3 setup.py install --root /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit 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 egg_info writing tnseq_transit.egg-info/PKG-INFO writing dependency_links to tnseq_transit.egg-info/dependency_links.txt writing entry points to tnseq_transit.egg-info/entry_points.txt writing requirements to tnseq_transit.egg-info/requires.txt writing top-level names to tnseq_transit.egg-info/top_level.txt reading manifest file 'tnseq_transit.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'VERSION' warning: no files found matching '*.html' under directory 'src/pytransit/doc/build/html' warning: no files found matching '*.png' under directory 'src/pytransit/doc/build/html/_images' warning: no files found matching '*' under directory 'src/pytransit/doc/build/html/_modules' warning: no files found matching '*' under directory 'src/pytransit/doc/build/html/_static' adding license file 'LICENSE.md' writing manifest file 'tnseq_transit.egg-info/SOURCES.txt' /usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'pytransit.data' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pytransit.data' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pytransit.data' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pytransit.data' to be distributed and are already explicitly excluding 'pytransit.data' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'pytransit.data.CGI' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pytransit.data.CGI' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pytransit.data.CGI' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pytransit.data.CGI' to be distributed and are already explicitly excluding 'pytransit.data.CGI' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'pytransit.genomes' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pytransit.genomes' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pytransit.genomes' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pytransit.genomes' to be distributed and are already explicitly excluding 'pytransit.genomes' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) running install_lib creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11 creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytpp copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytpp/__main__.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytpp copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytpp/tpp_gui.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytpp copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytpp/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytpp copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytpp/tpp_tools.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytpp creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/tnseq_tools.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/norm_tools.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/fileDisplay.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/convert copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/convert/gff_to_prot_table.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/convert copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/convert/base.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/convert copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/convert/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/convert creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/tn5gaps.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/gumbel.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/normalize.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/CGI.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/base.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/pathway_enrichment.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/binomial.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/zinb.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/griffin.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/tnseq_stats.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/hmm.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/example.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/resampling.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/rankproduct.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/gi.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/corrplot.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/ttnfitness.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/utest.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/anova.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/heatmap.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/norm.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data/CGI copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI/temp_frac_abund.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data/CGI copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI/samples_metadata.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data/CGI copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI/sgRNA_info.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data/CGI copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI/uninduced_ATC_counts.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data/CGI copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI/IDs.H37Rv.CRISPRi.lib.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data/CGI copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI/RIF_D1_combined_counts.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data/CGI copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI/temp_cdr.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data/CGI copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/H37Rv_GO_terms.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/iron_samples_metadata.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/glycerol_H37Rv_rep1.wig -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/iron_combined_wig4.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/COG_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/cholesterol_H37Rv_rep1.wig -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/H37Rv_COG_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/samples_metadata_cg_covar.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/GO_term_names.dat -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/GO_associated_Rvs.csv -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/sanger_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/H37Rv.sanger_associated_RVS.csv -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/samples_metadata_cg.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/cholesterol_H37Rv_merged.wig -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/glycerol_H37Rv_merged.wig -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/cholesterol_glycerol_combined.dat -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/gene_ontology.1_2.3-11-18.obo -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/smeg_GO_terms.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/H37Rv_sanger_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/cholesterol_H37Rv_rep3.wig -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/README.md -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/GO_associated_Rvs-3-11-18.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/samples_metadata_cg_interactions.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/glycerol_H37Rv_rep2.wig -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/smeg_COG_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/GO_terms_for_each_Rv.obo-3-11-18.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/cholesterol_H37Rv_rep2.wig -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/images.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/view_trash.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/__main__.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/stat_tools.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/draw_trash.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/H37RvMA2.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/H37RvBD.fna -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/H37Rv.fna -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/mc2_155_tamu.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/H37Rv.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/BCG.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/mc2_155_tamu.fna -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/H37RvMA2.fna -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/H37RvBD_mod3.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/genomes.html -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/BCG.fna -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/H37RvBD.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/transit_tools.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/qcDisplay.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/trash.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export/igv.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export/base.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export/mean_counts.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export/combined_wig.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export/prot_table.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/transit_gui.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytpp/__main__.py to __main__.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytpp/tpp_gui.py to tpp_gui.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytpp/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytpp/tpp_tools.py to tpp_tools.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/tnseq_tools.py to tnseq_tools.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/norm_tools.py to norm_tools.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/fileDisplay.py to fileDisplay.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/convert/gff_to_prot_table.py to gff_to_prot_table.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/convert/base.py to base.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/convert/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/tn5gaps.py to tn5gaps.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/gumbel.py to gumbel.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/normalize.py to normalize.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/CGI.py to CGI.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/base.py to base.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/pathway_enrichment.py to pathway_enrichment.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/binomial.py to binomial.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/zinb.py to zinb.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/griffin.py to griffin.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/tnseq_stats.py to tnseq_stats.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/hmm.py to hmm.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/example.py to example.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/resampling.py to resampling.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/rankproduct.py to rankproduct.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/gi.py to gi.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/corrplot.py to corrplot.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/ttnfitness.py to ttnfitness.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/utest.py to utest.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/anova.py to anova.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/heatmap.py to heatmap.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/norm.py to norm.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/images.py to images.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/view_trash.py to view_trash.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/__main__.py to __main__.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/stat_tools.py to stat_tools.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/draw_trash.py to draw_trash.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/transit_tools.py to transit_tools.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/qcDisplay.py to qcDisplay.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/trash.py to trash.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export/igv.py to igv.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export/base.py to base.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export/mean_counts.py to mean_counts.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export/combined_wig.py to combined_wig.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export/prot_table.py to prot_table.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/transit_gui.py to transit_gui.cpython-311.pyc running install_egg_info Copying tnseq_transit.egg-info to /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/tnseq_transit-3.3.4.egg-info Skipping SOURCES.txt running install_scripts Installing tpp script to /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/bin Installing transit script to /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/bin debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/tnseq-transit-3.3.4' dh_install mv debian/tnseq-transit/usr/bin/tpp debian/tnseq-transit/usr/bin/transit-tpp make[1]: Leaving directory '/build/reproducible-path/tnseq-transit-3.3.4' dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_installman -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild dh_missing -O--buildsystem=pybuild dh_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 'tnseq-transit' in '../tnseq-transit_3.3.4-1_i386.deb'. dpkg-genbuildinfo --build=binary -O../tnseq-transit_3.3.4-1_i386.buildinfo dpkg-genchanges --build=binary -O../tnseq-transit_3.3.4-1_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full 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/33393 and its subdirectories I: Current time: Sun Apr 20 14:59:49 -12 2025 I: pbuilder-time-stamp: 1745204389 Mon Mar 18 20:36:51 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ionos2-i386.debian.net. Mon Mar 18 20:36:51 UTC 2024 I: Preparing to do remote build '2' on ionos2-i386.debian.net. Mon Mar 18 20:50:01 UTC 2024 I: Deleting $TMPDIR on ionos2-i386.debian.net. Mon Mar 18 20:50:02 UTC 2024 I: tnseq-transit_3.3.4-1_i386.changes: Format: 1.8 Date: Sun, 18 Feb 2024 15:00:13 +0100 Source: tnseq-transit Binary: tnseq-transit Architecture: i386 Version: 3.3.4-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: tnseq-transit - statistical calculations of essentiality of genes or genomic regi Changes: tnseq-transit (3.3.4-1) unstable; urgency=medium . * New upstream version Checksums-Sha1: d6997c9a0eb009ada8f79580fc44a1e70010a8fa 8844 tnseq-transit_3.3.4-1_i386.buildinfo 173cd1c20841948b18f5db7e9f5bbe5823fa1954 29913548 tnseq-transit_3.3.4-1_i386.deb Checksums-Sha256: 1e1bdd4a42daa78ff4f51b71114e6ef06615241a4adfcee45144cdb081a90b23 8844 tnseq-transit_3.3.4-1_i386.buildinfo 4bad4dadfc11f9837d76baf1d87eccc073f41d7029fe7ff51bdd339f9468d58d 29913548 tnseq-transit_3.3.4-1_i386.deb Files: 6a729972624c65f3df389c373fb1114c 8844 science optional tnseq-transit_3.3.4-1_i386.buildinfo 25fa7460adb2ffbebdfdf1e5164b46cc 29913548 science optional tnseq-transit_3.3.4-1_i386.deb Mon Mar 18 20:50:05 UTC 2024 I: diffoscope 260 will be used to compare the two builds: Running as unit: rb-diffoscope-i386_2-15497.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.L0DGf8rH/tnseq-transit_3.3.4-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.L0DGf8rH/tnseq-transit_3.3.4-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.L0DGf8rH/tnseq-transit_3.3.4-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.L0DGf8rH/b1/tnseq-transit_3.3.4-1_i386.changes /srv/reproducible-results/rbuild-debian/r-b-build.L0DGf8rH/b2/tnseq-transit_3.3.4-1_i386.changes ## command (total time: 0.001s) 0.001s 1 call cmp (internal) ## has_same_content_as (total time: 0.001s) 0.001s 1 call abc.DotChangesFile ## main (total time: 1.518s) 1.518s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.945s) 0.945s 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: 3.326s CPU time consumed: 1.843s Mon Mar 18 20:50:09 UTC 2024 I: diffoscope 260 found no differences in the changes files, and a .buildinfo file also exists. Mon Mar 18 20:50:09 UTC 2024 I: tnseq-transit from trixie built successfully and reproducibly on i386. Mon Mar 18 20:50:12 UTC 2024 I: Submitting .buildinfo files to external archives: Mon Mar 18 20:50:12 UTC 2024 I: Submitting 12K b1/tnseq-transit_3.3.4-1_i386.buildinfo.asc Mon Mar 18 20:50:13 UTC 2024 I: Submitting 12K b2/tnseq-transit_3.3.4-1_i386.buildinfo.asc Mon Mar 18 20:50:13 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Mon Mar 18 20:50:13 UTC 2024 I: Done submitting .buildinfo files. Mon Mar 18 20:50:13 UTC 2024 I: Removing signed tnseq-transit_3.3.4-1_i386.buildinfo.asc files: removed './b1/tnseq-transit_3.3.4-1_i386.buildinfo.asc' removed './b2/tnseq-transit_3.3.4-1_i386.buildinfo.asc'