https://launchpad.net/ubuntu/+source/presto/0.7.2-1/+build/27792493 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux bos02-ppc64el-023 5.4.0-171-generic #189-Ubuntu SMP Fri Jan 5 14:23:33 UTC 2024 ppc64le Buildd toolchain package versions: launchpad-buildd_236~650~ubuntu20.04.1 python3-lpbuildd_236~650~ubuntu20.04.1 sbuild_0.79.0-1ubuntu1 git-build-recipe_0.3.6 git_1:2.25.1-1ubuntu3.11 dpkg-dev_1.19.7ubuntu3.2 python3-debian_0.1.36ubuntu1.1. Syncing the system clock with the buildd NTP service... 19 Feb 17:12:34 ntpdate[2003]: adjust time server 10.211.37.1 offset -0.007597 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=noble --arch=ppc64el PACKAGEBUILD-27792493 --image-type chroot /home/buildd/filecache-default/d42c54d6e204d222772cc047f01d282d9c30a0e5 Creating target for build PACKAGEBUILD-27792493 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=noble --arch=ppc64el PACKAGEBUILD-27792493 Starting target for build PACKAGEBUILD-27792493 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=noble --arch=ppc64el PACKAGEBUILD-27792493 'deb http://ftpmaster.internal/ubuntu noble main universe' 'deb http://ftpmaster.internal/ubuntu noble-security main universe' 'deb http://ftpmaster.internal/ubuntu noble-updates main universe' 'deb http://ftpmaster.internal/ubuntu noble-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-27792493 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=noble --arch=ppc64el PACKAGEBUILD-27792493 Updating target for build PACKAGEBUILD-27792493 Get:1 http://ftpmaster.internal/ubuntu noble InRelease [255 kB] Get:2 http://ftpmaster.internal/ubuntu noble-security InRelease [90.7 kB] Get:3 http://ftpmaster.internal/ubuntu noble-updates InRelease [90.7 kB] Get:4 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] Get:5 http://ftpmaster.internal/ubuntu noble/main ppc64el Packages [1376 kB] Get:6 http://ftpmaster.internal/ubuntu noble/main Translation-en [519 kB] Get:7 http://ftpmaster.internal/ubuntu noble/universe ppc64el Packages [15.3 MB] Get:8 http://ftpmaster.internal/ubuntu noble/universe Translation-en [6027 kB] Get:9 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el Packages [183 kB] Get:10 http://ftpmaster.internal/ubuntu noble-proposed/main Translation-en [64.3 kB] Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el Packages [921 kB] Get:12 http://ftpmaster.internal/ubuntu noble-proposed/universe Translation-en [392 kB] Fetched 25.3 MB in 5s (5242 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libperl5.36 libunistring2 perl-modules-5.36 Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: cpp-13-powerpc64le-linux-gnu cpp-powerpc64le-linux-gnu g++-13-powerpc64le-linux-gnu g++-powerpc64le-linux-gnu gcc-13-powerpc64le-linux-gnu gcc-14-base gcc-powerpc64le-linux-gnu libperl5.38 libunistring5 perl-modules-5.38 The following packages will be upgraded: apt apt-utils base-files base-passwd bash bash-completion binutils binutils-common binutils-powerpc64le-linux-gnu bsdextrautils bsdutils ca-certificates coreutils cpp cpp-13 debconf debconf-i18n debianutils diffutils dpkg dpkg-dev fakeroot g++ g++-13 gcc gcc-13 gcc-13-base gpg gpg-agent gpgconf gpgv grep init init-system-helpers krb5-locales libacl1 libapparmor1 libapt-pkg6.0 libargon2-1 libasan8 libatomic1 libattr1 libaudit-common libaudit1 libbinutils libblkid1 libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcc1-0 libcrypt-dev libcrypt1 libcryptsetup12 libctf-nobfd0 libctf0 libdb5.3 libdebconfclient0 libdpkg-perl libfakeroot libfdisk1 libffi8 libgcc-13-dev libgcc-s1 libgcrypt20 libgdbm-compat4 libgdbm6 libgnutls30 libgomp1 libgpg-error-l10n libgpg-error0 libgssapi-krb5-2 libidn2-0 libip4tc2 libitm1 libk5crypto3 libkeyutils1 libkmod2 libkrb5-3 libkrb5support0 liblocale-gettext-perl liblsan0 liblzma5 libmd0 libmount1 libncursesw6 libnsl-dev libnsl2 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre2-8-0 libperl5.36 libpng16-16 libproc2-0 libquadmath0 libreadline8 libseccomp2 libselinux1 libsemanage-common libsemanage2 libsepol2 libsframe1 libsmartcols1 libsqlite3-0 libssl3 libstdc++-13-dev libstdc++6 libsystemd-shared libsystemd0 libtext-charwidth-perl libtext-iconv-perl libtinfo6 libtirpc-common libtirpc-dev libtirpc3 libtsan2 libubsan1 libudev1 libuuid1 libxxhash0 libzstd1 linux-libc-dev login lto-disabled-list mawk mount ncurses-base ncurses-bin openssl optipng passwd perl perl-base perl-modules-5.36 pinentry-curses procps psmisc readline-common sed sensible-utils systemd systemd-dev systemd-sysv sysvinit-utils tar tzdata ubuntu-keyring util-linux uuid-runtime xz-utils zlib1g 155 upgraded, 10 newly installed, 0 to remove and 0 not upgraded. Need to get 123 MB of archives. After this operation, 83.1 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu noble/main ppc64el libnsl-dev ppc64el 1.3.0-3 [79.2 kB] Get:2 http://ftpmaster.internal/ubuntu noble/main ppc64el libcrypt-dev ppc64el 1:4.4.36-4 [167 kB] Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el libc6-dev ppc64el 2.39-0ubuntu1 [2102 kB] Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el libc-dev-bin ppc64el 2.39-0ubuntu1 [21.3 kB] Get:5 http://ftpmaster.internal/ubuntu noble/main ppc64el libtirpc-common all 1.3.4+ds-1build1 [8566 B] Get:6 http://ftpmaster.internal/ubuntu noble/main ppc64el libtirpc-dev ppc64el 1.3.4+ds-1build1 [262 kB] Get:7 http://ftpmaster.internal/ubuntu noble/main ppc64el libgssapi-krb5-2 ppc64el 1.20.1-5build1 [180 kB] Get:8 http://ftpmaster.internal/ubuntu noble/main ppc64el libkrb5-3 ppc64el 1.20.1-5build1 [426 kB] Get:9 http://ftpmaster.internal/ubuntu noble/main ppc64el libk5crypto3 ppc64el 1.20.1-5build1 [106 kB] Get:10 http://ftpmaster.internal/ubuntu noble/main ppc64el libkrb5support0 ppc64el 1.20.1-5build1 [37.5 kB] Get:11 http://ftpmaster.internal/ubuntu noble/main ppc64el libkeyutils1 ppc64el 1.6.3-3 [11.0 kB] Get:12 http://ftpmaster.internal/ubuntu noble/main ppc64el libssl3 ppc64el 3.0.10-1ubuntu4 [2164 kB] Get:13 http://ftpmaster.internal/ubuntu noble/main ppc64el libtirpc3 ppc64el 1.3.4+ds-1build1 [119 kB] Get:14 http://ftpmaster.internal/ubuntu noble/main ppc64el libnsl2 ppc64el 1.3.0-3 [47.3 kB] Get:15 http://ftpmaster.internal/ubuntu noble/main ppc64el libcrypt1 ppc64el 1:4.4.36-4 [125 kB] Get:16 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el linux-libc-dev ppc64el 6.8.0-11.11 [1585 kB] Get:17 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el libc6 ppc64el 2.39-0ubuntu1 [3272 kB] Get:18 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el libc-bin ppc64el 2.39-0ubuntu1 [749 kB] Get:19 http://ftpmaster.internal/ubuntu noble/main ppc64el gcc-14-base ppc64el 14-20240201-3ubuntu1 [46.4 kB] Get:20 http://ftpmaster.internal/ubuntu noble/main ppc64el libgcc-s1 ppc64el 14-20240201-3ubuntu1 [39.3 kB] Get:21 http://ftpmaster.internal/ubuntu noble/main ppc64el base-files ppc64el 13ubuntu6 [84.2 kB] Get:22 http://ftpmaster.internal/ubuntu noble/main ppc64el debianutils ppc64el 5.16 [93.8 kB] Get:23 http://ftpmaster.internal/ubuntu noble/main ppc64el bash ppc64el 5.2.21-2ubuntu1 [959 kB] Get:24 http://ftpmaster.internal/ubuntu noble/main ppc64el bsdutils ppc64el 1:2.39.2-6ubuntu1 [97.0 kB] Get:25 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el coreutils ppc64el 9.4-2ubuntu3 [1551 kB] Get:26 http://ftpmaster.internal/ubuntu noble/main ppc64el diffutils ppc64el 1:3.10-1 [200 kB] Get:27 http://ftpmaster.internal/ubuntu noble/main ppc64el libgpg-error-l10n all 1.47-3build1 [8024 B] Get:28 http://ftpmaster.internal/ubuntu noble/main ppc64el libgpg-error0 ppc64el 1.47-3build1 [87.6 kB] Get:29 http://ftpmaster.internal/ubuntu noble/main ppc64el libgcrypt20 ppc64el 1.10.3-2 [745 kB] Get:30 http://ftpmaster.internal/ubuntu noble/main ppc64el liblzma5 ppc64el 5.4.5-0.3 [181 kB] Get:31 http://ftpmaster.internal/ubuntu noble/main ppc64el libstdc++6 ppc64el 14-20240201-3ubuntu1 [894 kB] Get:32 http://ftpmaster.internal/ubuntu noble/main ppc64el libacl1 ppc64el 2.3.1-4ubuntu1 [24.1 kB] Get:33 http://ftpmaster.internal/ubuntu noble/main ppc64el libapparmor1 ppc64el 4.0.0~alpha4-0ubuntu1 [54.5 kB] Get:34 http://ftpmaster.internal/ubuntu noble/main ppc64el libaudit-common all 1:3.1.2-2 [5594 B] Get:35 http://ftpmaster.internal/ubuntu noble/main ppc64el libcap-ng0 ppc64el 0.8.4-2 [16.2 kB] Get:36 http://ftpmaster.internal/ubuntu noble/main ppc64el libaudit1 ppc64el 1:3.1.2-2 [52.4 kB] Get:37 http://ftpmaster.internal/ubuntu noble/main ppc64el libblkid1 ppc64el 2.39.2-6ubuntu1 [152 kB] Get:38 http://ftpmaster.internal/ubuntu noble/main ppc64el libzstd1 ppc64el 1.5.5+dfsg2-2 [390 kB] Get:39 http://ftpmaster.internal/ubuntu noble/main ppc64el libkmod2 ppc64el 30+20230601-2ubuntu1 [62.4 kB] Get:40 http://ftpmaster.internal/ubuntu noble/main ppc64el libpcre2-8-0 ppc64el 10.42-4ubuntu1 [263 kB] Get:41 http://ftpmaster.internal/ubuntu noble/main ppc64el libselinux1 ppc64el 3.5-2build1 [101 kB] Get:42 http://ftpmaster.internal/ubuntu noble/main ppc64el libmount1 ppc64el 2.39.2-6ubuntu1 [166 kB] Get:43 http://ftpmaster.internal/ubuntu noble/main ppc64el perl-modules-5.38 all 5.38.2-3 [3110 kB] Get:44 http://ftpmaster.internal/ubuntu noble/main ppc64el libperl5.38 ppc64el 5.38.2-3 [4950 kB] Get:45 http://ftpmaster.internal/ubuntu noble/main ppc64el perl ppc64el 5.38.2-3 [231 kB] Get:46 http://ftpmaster.internal/ubuntu noble/main ppc64el perl-base ppc64el 5.38.2-3 [1909 kB] Get:47 http://ftpmaster.internal/ubuntu noble/main ppc64el liblocale-gettext-perl ppc64el 1.07-6build1 [15.7 kB] Get:48 http://ftpmaster.internal/ubuntu noble/main ppc64el libtext-iconv-perl ppc64el 1.7-8build1 [13.5 kB] Get:49 http://ftpmaster.internal/ubuntu noble/main ppc64el libtext-charwidth-perl ppc64el 0.04-11build1 [9434 B] Get:50 http://ftpmaster.internal/ubuntu noble/main ppc64el perl-modules-5.36 all 5.36.0-10ubuntu1 [2984 kB] Get:51 http://ftpmaster.internal/ubuntu noble/main ppc64el libperl5.36 ppc64el 5.36.0-10ubuntu1 [4849 kB] Get:52 http://ftpmaster.internal/ubuntu noble/main ppc64el libdb5.3 ppc64el 5.3.28+dfsg2-4 [853 kB] Get:53 http://ftpmaster.internal/ubuntu noble/main ppc64el libgdbm6 ppc64el 1.23-5 [40.6 kB] Get:54 http://ftpmaster.internal/ubuntu noble/main ppc64el libgdbm-compat4 ppc64el 1.23-5 [6620 B] Get:55 http://ftpmaster.internal/ubuntu noble/main ppc64el zlib1g ppc64el 1:1.3.dfsg-3ubuntu1 [72.1 kB] Get:56 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el debconf-i18n all 1.5.86 [205 kB] Get:57 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el debconf all 1.5.86 [124 kB] Get:58 http://ftpmaster.internal/ubuntu noble/main ppc64el libpam0g ppc64el 1.5.2-9.1ubuntu2 [73.8 kB] Get:59 http://ftpmaster.internal/ubuntu noble/main ppc64el libseccomp2 ppc64el 2.5.5-1ubuntu1 [62.4 kB] Get:60 http://ftpmaster.internal/ubuntu noble/main ppc64el systemd-sysv ppc64el 255.2-3ubuntu2 [11.9 kB] Get:61 http://ftpmaster.internal/ubuntu noble/main ppc64el systemd-dev all 255.2-3ubuntu2 [101 kB] Get:62 http://ftpmaster.internal/ubuntu noble/main ppc64el systemd ppc64el 255.2-3ubuntu2 [3759 kB] Get:63 http://ftpmaster.internal/ubuntu noble/main ppc64el libsystemd-shared ppc64el 255.2-3ubuntu2 [2339 kB] Get:64 http://ftpmaster.internal/ubuntu noble/main ppc64el libargon2-1 ppc64el 0~20190702+dfsg-4 [27.1 kB] Get:65 http://ftpmaster.internal/ubuntu noble/main ppc64el libuuid1 ppc64el 2.39.2-6ubuntu1 [37.8 kB] Get:66 http://ftpmaster.internal/ubuntu noble/main ppc64el libcryptsetup12 ppc64el 2:2.6.1-6ubuntu1 [347 kB] Get:67 http://ftpmaster.internal/ubuntu noble/main ppc64el libfdisk1 ppc64el 2.39.2-6ubuntu1 [168 kB] Get:68 http://ftpmaster.internal/ubuntu noble/main ppc64el mount ppc64el 2.39.2-6ubuntu1 [124 kB] Get:69 http://ftpmaster.internal/ubuntu noble/main ppc64el libsystemd0 ppc64el 255.2-3ubuntu2 [522 kB] Get:70 http://ftpmaster.internal/ubuntu noble/main ppc64el libudev1 ppc64el 255.2-3ubuntu2 [197 kB] Get:71 http://ftpmaster.internal/ubuntu noble/main ppc64el libxxhash0 ppc64el 0.8.2-2 [30.4 kB] Get:72 http://ftpmaster.internal/ubuntu noble/main ppc64el libapt-pkg6.0 ppc64el 2.7.11 [1061 kB] Get:73 http://ftpmaster.internal/ubuntu noble/main ppc64el tar ppc64el 1.35+dfsg-3 [307 kB] Get:74 http://ftpmaster.internal/ubuntu noble/main ppc64el dpkg ppc64el 1.22.4ubuntu3 [1344 kB] Get:75 http://ftpmaster.internal/ubuntu noble/main ppc64el grep ppc64el 3.11-4 [189 kB] Get:76 http://ftpmaster.internal/ubuntu noble/main ppc64el login ppc64el 1:4.13+dfsg1-3ubuntu1 [204 kB] Get:77 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el ncurses-bin ppc64el 6.4+20240113-1ubuntu1 [202 kB] Get:78 http://ftpmaster.internal/ubuntu noble/main ppc64el sed ppc64el 4.9-2 [223 kB] Get:79 http://ftpmaster.internal/ubuntu noble/main ppc64el util-linux ppc64el 2.39.2-6ubuntu1 [1184 kB] Get:80 http://ftpmaster.internal/ubuntu noble/main ppc64el libdebconfclient0 ppc64el 0.271ubuntu1 [11.1 kB] Get:81 http://ftpmaster.internal/ubuntu noble/main ppc64el base-passwd ppc64el 3.6.3 [52.5 kB] Get:82 http://ftpmaster.internal/ubuntu noble/main ppc64el init-system-helpers all 1.66ubuntu1 [39.4 kB] Get:83 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el ncurses-base all 6.4+20240113-1ubuntu1 [25.4 kB] Get:84 http://ftpmaster.internal/ubuntu noble/main ppc64el sysvinit-utils ppc64el 3.08-3ubuntu1 [35.2 kB] Get:85 http://ftpmaster.internal/ubuntu noble/main ppc64el apt ppc64el 2.7.11 [1398 kB] Get:86 http://ftpmaster.internal/ubuntu noble/main ppc64el apt-utils ppc64el 2.7.11 [226 kB] Get:87 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el gpgv ppc64el 2.4.4-2ubuntu3 [197 kB] Get:88 http://ftpmaster.internal/ubuntu noble/main ppc64el ubuntu-keyring all 2023.11.28.1 [11.1 kB] Get:89 http://ftpmaster.internal/ubuntu noble/main ppc64el libffi8 ppc64el 3.4.4-2 [27.3 kB] Get:90 http://ftpmaster.internal/ubuntu noble/main ppc64el libp11-kit0 ppc64el 0.25.3-4ubuntu1 [315 kB] Get:91 http://ftpmaster.internal/ubuntu noble/main ppc64el libunistring5 ppc64el 1.1-2 [556 kB] Get:92 http://ftpmaster.internal/ubuntu noble/main ppc64el libidn2-0 ppc64el 2.3.7-2 [69.8 kB] Get:93 http://ftpmaster.internal/ubuntu noble/main ppc64el libgnutls30 ppc64el 3.8.3-1ubuntu1 [1052 kB] Get:94 http://ftpmaster.internal/ubuntu noble/main ppc64el libpam-modules-bin ppc64el 1.5.2-9.1ubuntu2 [53.1 kB] Get:95 http://ftpmaster.internal/ubuntu noble/main ppc64el libpam-modules ppc64el 1.5.2-9.1ubuntu2 [326 kB] Get:96 http://ftpmaster.internal/ubuntu noble/main ppc64el init ppc64el 1.66ubuntu1 [6190 B] Get:97 http://ftpmaster.internal/ubuntu noble/main ppc64el libsmartcols1 ppc64el 2.39.2-6ubuntu1 [77.1 kB] Get:98 http://ftpmaster.internal/ubuntu noble/main ppc64el uuid-runtime ppc64el 2.39.2-6ubuntu1 [33.4 kB] Get:99 http://ftpmaster.internal/ubuntu noble/main ppc64el libattr1 ppc64el 1:2.5.2-1 [12.4 kB] Get:100 http://ftpmaster.internal/ubuntu noble/main ppc64el libmd0 ppc64el 1.1.0-2 [30.4 kB] Get:101 http://ftpmaster.internal/ubuntu noble/main ppc64el libpam-runtime all 1.5.2-9.1ubuntu2 [40.6 kB] Get:102 http://ftpmaster.internal/ubuntu noble/main ppc64el libsemanage-common all 3.5-1build2 [10.0 kB] Get:103 http://ftpmaster.internal/ubuntu noble/main ppc64el libsepol2 ppc64el 3.5-2 [386 kB] Get:104 http://ftpmaster.internal/ubuntu noble/main ppc64el libsemanage2 ppc64el 3.5-1build2 [115 kB] Get:105 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el libncursesw6 ppc64el 6.4+20240113-1ubuntu1 [186 kB] Get:106 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el libtinfo6 ppc64el 6.4+20240113-1ubuntu1 [129 kB] Get:107 http://ftpmaster.internal/ubuntu noble/main ppc64el passwd ppc64el 1:4.13+dfsg1-3ubuntu1 [875 kB] Get:108 http://ftpmaster.internal/ubuntu noble/main ppc64el g++-13 ppc64el 13.2.0-13ubuntu1 [14.0 kB] Get:109 http://ftpmaster.internal/ubuntu noble/main ppc64el gcc-13 ppc64el 13.2.0-13ubuntu1 [473 kB] Get:110 http://ftpmaster.internal/ubuntu noble/main ppc64el cpp-13 ppc64el 13.2.0-13ubuntu1 [1038 B] Get:111 http://ftpmaster.internal/ubuntu noble/main ppc64el cpp-13-powerpc64le-linux-gnu ppc64el 13.2.0-13ubuntu1 [10.7 MB] Get:112 http://ftpmaster.internal/ubuntu noble/main ppc64el libcc1-0 ppc64el 14-20240201-3ubuntu1 [48.2 kB] Get:113 http://ftpmaster.internal/ubuntu noble/main ppc64el libctf0 ppc64el 2.42-2ubuntu1 [112 kB] Get:114 http://ftpmaster.internal/ubuntu noble/main ppc64el libctf-nobfd0 ppc64el 2.42-2ubuntu1 [112 kB] Get:115 http://ftpmaster.internal/ubuntu noble/main ppc64el libsframe1 ppc64el 2.42-2ubuntu1 [15.7 kB] Get:116 http://ftpmaster.internal/ubuntu noble/main ppc64el binutils-powerpc64le-linux-gnu ppc64el 2.42-2ubuntu1 [2474 kB] Get:117 http://ftpmaster.internal/ubuntu noble/main ppc64el libbinutils ppc64el 2.42-2ubuntu1 [699 kB] Get:118 http://ftpmaster.internal/ubuntu noble/main ppc64el binutils ppc64el 2.42-2ubuntu1 [3082 B] Get:119 http://ftpmaster.internal/ubuntu noble/main ppc64el binutils-common ppc64el 2.42-2ubuntu1 [216 kB] Get:120 http://ftpmaster.internal/ubuntu noble/main ppc64el libstdc++-13-dev ppc64el 13.2.0-13ubuntu1 [2442 kB] Get:121 http://ftpmaster.internal/ubuntu noble/main ppc64el libgomp1 ppc64el 14-20240201-3ubuntu1 [161 kB] Get:122 http://ftpmaster.internal/ubuntu noble/main ppc64el libitm1 ppc64el 14-20240201-3ubuntu1 [32.4 kB] Get:123 http://ftpmaster.internal/ubuntu noble/main ppc64el libatomic1 ppc64el 14-20240201-3ubuntu1 [10.7 kB] Get:124 http://ftpmaster.internal/ubuntu noble/main ppc64el libasan8 ppc64el 14-20240201-3ubuntu1 [2973 kB] Get:125 http://ftpmaster.internal/ubuntu noble/main ppc64el liblsan0 ppc64el 14-20240201-3ubuntu1 [1324 kB] Get:126 http://ftpmaster.internal/ubuntu noble/main ppc64el libgcc-13-dev ppc64el 13.2.0-13ubuntu1 [1581 kB] Get:127 http://ftpmaster.internal/ubuntu noble/main ppc64el libtsan2 ppc64el 14-20240201-3ubuntu1 [2707 kB] Get:128 http://ftpmaster.internal/ubuntu noble/main ppc64el libubsan1 ppc64el 14-20240201-3ubuntu1 [1193 kB] Get:129 http://ftpmaster.internal/ubuntu noble/main ppc64el libquadmath0 ppc64el 14-20240201-3ubuntu1 [158 kB] Get:130 http://ftpmaster.internal/ubuntu noble/main ppc64el gcc-13-powerpc64le-linux-gnu ppc64el 13.2.0-13ubuntu1 [20.6 MB] Get:131 http://ftpmaster.internal/ubuntu noble/main ppc64el g++-13-powerpc64le-linux-gnu ppc64el 13.2.0-13ubuntu1 [12.1 MB] Get:132 http://ftpmaster.internal/ubuntu noble/main ppc64el gcc-13-base ppc64el 13.2.0-13ubuntu1 [46.7 kB] Get:133 http://ftpmaster.internal/ubuntu noble/main ppc64el libproc2-0 ppc64el 2:4.0.4-2ubuntu1 [66.6 kB] Get:134 http://ftpmaster.internal/ubuntu noble/main ppc64el mawk ppc64el 1.3.4.20240123-1 [138 kB] Get:135 http://ftpmaster.internal/ubuntu noble/main ppc64el procps ppc64el 2:4.0.4-2ubuntu1 [733 kB] Get:136 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el sensible-utils all 0.0.22 [22.5 kB] Get:137 http://ftpmaster.internal/ubuntu noble/main ppc64el openssl ppc64el 3.0.10-1ubuntu4 [1027 kB] Get:138 http://ftpmaster.internal/ubuntu noble/main ppc64el ca-certificates all 20240203 [159 kB] Get:139 http://ftpmaster.internal/ubuntu noble/main ppc64el krb5-locales all 1.20.1-5build1 [13.7 kB] Get:140 http://ftpmaster.internal/ubuntu noble/main ppc64el libip4tc2 ppc64el 1.8.10-3ubuntu1 [26.9 kB] Get:141 http://ftpmaster.internal/ubuntu noble/main ppc64el readline-common all 8.2-3 [56.2 kB] Get:142 http://ftpmaster.internal/ubuntu noble/main ppc64el libreadline8 ppc64el 8.2-3 [177 kB] Get:143 http://ftpmaster.internal/ubuntu noble/main ppc64el libsqlite3-0 ppc64el 3.45.1-1 [804 kB] Get:144 http://ftpmaster.internal/ubuntu noble/main ppc64el tzdata all 2024a-1ubuntu1 [273 kB] Get:145 http://ftpmaster.internal/ubuntu noble/main ppc64el bash-completion all 1:2.11-8 [180 kB] Get:146 http://ftpmaster.internal/ubuntu noble/main ppc64el bsdextrautils ppc64el 2.39.2-6ubuntu1 [78.2 kB] Get:147 http://ftpmaster.internal/ubuntu noble/main ppc64el libpng16-16 ppc64el 1.6.42-1 [242 kB] Get:148 http://ftpmaster.internal/ubuntu noble/main ppc64el psmisc ppc64el 23.6-2 [191 kB] Get:149 http://ftpmaster.internal/ubuntu noble/main ppc64el xz-utils ppc64el 5.4.5-0.3 [286 kB] Get:150 http://ftpmaster.internal/ubuntu noble/main ppc64el g++ ppc64el 4:13.2.0-7ubuntu1 [1086 B] Get:151 http://ftpmaster.internal/ubuntu noble/main ppc64el gcc ppc64el 4:13.2.0-7ubuntu1 [5022 B] Get:152 http://ftpmaster.internal/ubuntu noble/main ppc64el cpp ppc64el 4:13.2.0-7ubuntu1 [22.5 kB] Get:153 http://ftpmaster.internal/ubuntu noble/main ppc64el cpp-powerpc64le-linux-gnu ppc64el 4:13.2.0-7ubuntu1 [5330 B] Get:154 http://ftpmaster.internal/ubuntu noble/main ppc64el gcc-powerpc64le-linux-gnu ppc64el 4:13.2.0-7ubuntu1 [1224 B] Get:155 http://ftpmaster.internal/ubuntu noble/main ppc64el g++-powerpc64le-linux-gnu ppc64el 4:13.2.0-7ubuntu1 [968 B] Get:156 http://ftpmaster.internal/ubuntu noble/main ppc64el dpkg-dev all 1.22.4ubuntu3 [1078 kB] Get:157 http://ftpmaster.internal/ubuntu noble/main ppc64el libdpkg-perl all 1.22.4ubuntu3 [268 kB] Get:158 http://ftpmaster.internal/ubuntu noble/main ppc64el lto-disabled-list all 46 [12.3 kB] Get:159 http://ftpmaster.internal/ubuntu noble/main ppc64el libfakeroot ppc64el 1.33-1 [34.4 kB] Get:160 http://ftpmaster.internal/ubuntu noble/main ppc64el fakeroot ppc64el 1.33-1 [69.2 kB] Get:161 http://ftpmaster.internal/ubuntu noble/main ppc64el pinentry-curses ppc64el 1.2.1-3ubuntu1 [38.2 kB] Get:162 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el gpg ppc64el 2.4.4-2ubuntu3 [705 kB] Get:163 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el gpgconf ppc64el 2.4.4-2ubuntu3 [115 kB] Get:164 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el gpg-agent 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Setting up libip4tc2:ppc64el (1.8.10-3ubuntu1) ... Setting up libtext-iconv-perl:ppc64el (1.7-8build1) ... Setting up libtext-charwidth-perl:ppc64el (0.04-11build1) ... Setting up libkeyutils1:ppc64el (1.6.3-3) ... Setting up lto-disabled-list (46) ... Setting up apt-utils (2.7.11) ... Setting up bsdextrautils (2.39.2-6ubuntu1) ... Setting up init (1.66ubuntu1) ... Setting up psmisc (23.6-2) ... Setting up libtirpc-common (1.3.4+ds-1build1) ... Setting up libsqlite3-0:ppc64el (3.45.1-1) ... Setting up binutils-common:ppc64el (2.42-2ubuntu1) ... Setting up linux-libc-dev:ppc64el (6.8.0-11.11) ... Setting up libctf-nobfd0:ppc64el (2.42-2ubuntu1) ... Setting up krb5-locales (1.20.1-5build1) ... Setting up libgomp1:ppc64el (14-20240201-3ubuntu1) ... Setting up libsframe1:ppc64el (2.42-2ubuntu1) ... Setting up libfakeroot:ppc64el (1.33-1) ... Setting up libkrb5support0:ppc64el (1.20.1-5build1) ... Setting up tzdata (2024a-1ubuntu1) ... Current default time zone: 'Etc/UTC' Local time is now: Mon Feb 19 17:13:15 UTC 2024. Universal Time is now: Mon Feb 19 17:13:15 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up fakeroot (1.33-1) ... Setting up perl-modules-5.36 (5.36.0-10ubuntu1) ... Setting up gcc-13-base:ppc64el (13.2.0-13ubuntu1) ... Setting up bash-completion (1:2.11-8) ... Setting up xz-utils (5.4.5-0.3) ... Setting up perl-modules-5.38 (5.38.2-3) ... Setting up libquadmath0:ppc64el (14-20240201-3ubuntu1) ... Setting up libproc2-0:ppc64el (2:4.0.4-2ubuntu1) ... Setting up libpng16-16:ppc64el (1.6.42-1) ... Setting up libatomic1:ppc64el (14-20240201-3ubuntu1) ... Setting up libncursesw6:ppc64el (6.4+20240113-1ubuntu1) ... Setting up libk5crypto3:ppc64el (1.20.1-5build1) ... Setting up libubsan1:ppc64el (14-20240201-3ubuntu1) ... Setting up sensible-utils (0.0.22) ... Setting up uuid-runtime (2.39.2-6ubuntu1) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of restart. Setting up libcrypt-dev:ppc64el (1:4.4.36-4) ... Setting up libasan8:ppc64el (14-20240201-3ubuntu1) ... Setting up procps (2:4.0.4-2ubuntu1) ... Installing new version of config file /etc/sysctl.conf ... Setting up mawk (1.3.4.20240123-1) ... Setting up libkrb5-3:ppc64el (1.20.1-5build1) ... Setting up libtsan2:ppc64el (14-20240201-3ubuntu1) ... Setting up libbinutils:ppc64el (2.42-2ubuntu1) ... Setting up libc-dev-bin (2.39-0ubuntu1) ... Setting up cpp-13-powerpc64le-linux-gnu (13.2.0-13ubuntu1) ... Setting up openssl (3.0.10-1ubuntu4) ... Setting up libgpg-error-l10n (1.47-3build1) ... Setting up readline-common (8.2-3) ... Setting up libcc1-0:ppc64el (14-20240201-3ubuntu1) ... Setting up liblocale-gettext-perl (1.07-6build1) ... Setting up liblsan0:ppc64el (14-20240201-3ubuntu1) ... Setting up libitm1:ppc64el (14-20240201-3ubuntu1) ... Setting up cpp-powerpc64le-linux-gnu (4:13.2.0-7ubuntu1) ... Setting up libgdbm6:ppc64el (1.23-5) ... Setting up libctf0:ppc64el (2.42-2ubuntu1) ... Setting up pinentry-curses (1.2.1-3ubuntu1) ... Setting up cpp-13 (13.2.0-13ubuntu1) ... Setting up libreadline8:ppc64el (8.2-3) ... Setting up debconf-i18n (1.5.86) ... Setting up ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... rehash: warning: skipping ca-certificates.crt,it does not contain exactly one certificate or CRL 14 added, 5 removed; done. Setting up optipng (0.7.8+ds-1) ... Setting up libgssapi-krb5-2:ppc64el (1.20.1-5build1) ... Setting up libgdbm-compat4:ppc64el (1.23-5) ... Setting up libgcc-13-dev:ppc64el (13.2.0-13ubuntu1) ... Setting up cpp (4:13.2.0-7ubuntu1) ... Setting up gpgconf (2.4.4-2ubuntu3) ... Setting up binutils-powerpc64le-linux-gnu (2.42-2ubuntu1) ... Setting up libperl5.36:ppc64el (5.36.0-10ubuntu1) ... Setting up gpg (2.4.4-2ubuntu3) ... Setting up libtirpc3:ppc64el (1.3.4+ds-1build1) ... Setting up gpg-agent (2.4.4-2ubuntu3) ... Setting up libperl5.38:ppc64el (5.38.2-3) ... Setting up binutils (2.42-2ubuntu1) ... Setting up perl (5.38.2-3) ... Setting up libtirpc-dev:ppc64el (1.3.4+ds-1build1) ... Setting up gcc-13-powerpc64le-linux-gnu (13.2.0-13ubuntu1) ... Setting up gcc-13 (13.2.0-13ubuntu1) ... Setting up libdpkg-perl (1.22.4ubuntu3) ... Setting up libnsl2:ppc64el (1.3.0-3) ... Setting up dpkg-dev (1.22.4ubuntu3) ... Setting up gcc-powerpc64le-linux-gnu (4:13.2.0-7ubuntu1) ... Setting up libnsl-dev:ppc64el (1.3.0-3) ... Setting up libc6-dev:ppc64el (2.39-0ubuntu1) ... Setting up libstdc++-13-dev:ppc64el (13.2.0-13ubuntu1) ... Setting up g++-13-powerpc64le-linux-gnu (13.2.0-13ubuntu1) ... Setting up gcc (4:13.2.0-7ubuntu1) ... Setting up g++-powerpc64le-linux-gnu (4:13.2.0-7ubuntu1) ... Setting up g++-13 (13.2.0-13ubuntu1) ... Setting up g++ (4:13.2.0-7ubuntu1) ... Processing triggers for libc-bin (2.39-0ubuntu1) ... Processing triggers for debianutils (5.16) ... Processing triggers for ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-27792493 ppc64el noble-proposed -c chroot:build-PACKAGEBUILD-27792493 --arch=ppc64el --dist=noble-proposed --nolog presto_0.7.2-1.dsc Initiating build PACKAGEBUILD-27792493 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 5.4.0-171-generic #189-Ubuntu SMP Fri Jan 5 14:23:33 UTC 2024 ppc64le sbuild (Debian sbuild) 0.79.0 (05 February 2020) on bos02-ppc64el-023.buildd +==============================================================================+ | presto 0.7.2-1 (ppc64el) Mon, 19 Feb 2024 17:13:19 +0000 | +==============================================================================+ Package: presto Version: 0.7.2-1 Source Version: 0.7.2-1 Distribution: noble-proposed Machine Architecture: ppc64el Host Architecture: ppc64el Build Architecture: ppc64el Build Type: any I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-27792493/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/presto-KacLhu/resolver-qJnrOS' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- presto_0.7.2-1.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/presto-KacLhu/presto-0.7.2' with '<>' I: NOTICE: Log filtering will replace 'build/presto-KacLhu' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), dh-sequence-python3, python3-all, python3-setuptools, python3-biopython, python3-pandas, python3-scipy, python3-packaging, vsearch, cd-hit, build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), dh-sequence-python3, python3-all, python3-setuptools, python3-biopython, python3-pandas, python3-scipy, python3-packaging, vsearch, cd-hit, build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [957 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [467 B] Get:5 copy:/<>/apt_archive ./ Packages [515 B] Fetched 1939 B in 0s (155 kB/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: apt-utils bash-completion ca-certificates debconf-i18n krb5-locales libgpg-error-l10n libgpm2 libip4tc2 liblocale-gettext-perl libnss-nis libnss-nisplus libperl5.36 libtext-charwidth-perl libtext-iconv-perl libtext-wrapi18n-perl libunistring2 openssl perl-modules-5.36 psmisc uuid-runtime Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev cd-hit debhelper debugedit dh-autoreconf dh-python dh-strip-nondeterminism dwz file fontconfig-config fonts-dejavu-core fonts-dejavu-extra fonts-dejavu-mono fonts-urw-base35 gettext gettext-base groff-base intltool-debian libarchive-zip-perl libblas3 libbrotli1 libbsd0 libcairo2 libdebhelper-perl libdeflate0 libdw1 libelf1 libexpat1 libfile-stripnondeterminism-perl libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libgfortran5 libglib2.0-0 libgraphite2-3 libharfbuzz0b libicu74 libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 liblapack3 liblbfgsb0 liblcms2-2 liblerc4 libmagic-mgc libmagic1 libopenjp2-7 libpipeline1 libpixman-1-0 libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libpython3.12-minimal libpython3.12-stdlib libraqm0 libsharpyuv0 libsub-override-perl libtiff6 libtool libuchardet0 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxml2 libxrender1 m4 man-db media-types netbase po-debconf python3 python3-all python3-biopython python3-cairo python3-chardet python3-dateutil python3-decorator python3-distutils python3-freetype python3-lib2to3 python3-minimal python3-numpy python3-packaging python3-pandas python3-pandas-lib python3-pil python3-pkg-resources python3-reportlab python3-rlpycairo python3-scipy python3-setuptools python3-six python3-tz python3.11 python3.11-minimal python3.12 python3.12-minimal sgml-base vsearch w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core Suggested packages: autoconf-archive gnu-standards autoconf-doc dh-make flit python3-build python3-installer python3-wheel fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre gettext-doc libasprintf-dev libgettextpo-dev groff low-memory-monitor liblcms2-utils libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl python3-doc python3-tk python3-venv bwa clustalo clustalw dialign dssp emboss fasttree mafft muscle3 phylip phyml prank probcons python3-mysqldb python3-matplotlib python3-mmtf python3-rdflib python3-psycopg2 raxml samtools t-coffee wise gfortran python3-dev python3-pytest python-pandas-doc python3-statsmodels python-pil-doc pdf-viewer python3-egenix-mxtexttools python-reportlab-doc rl-accel rl-renderpm python-scipy-doc python-setuptools-doc python3.11-venv python3.11-doc binfmt-support python3.12-venv python3.12-doc sgml-base-doc Recommended packages: curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libltdl-dev libmail-sendmail-perl python-biopython-doc ncbi-blast+ python3-matplotlib python3-bottleneck python3-numexpr python3-odf python3-openpyxl python3-bs4 python3-html5lib python3-lxml python3-tables python3-jinja2 python3-olefile The following NEW packages will be installed: autoconf automake autopoint autotools-dev cd-hit debhelper debugedit dh-autoreconf dh-python dh-strip-nondeterminism dwz file fontconfig-config fonts-dejavu-core fonts-dejavu-extra fonts-dejavu-mono fonts-urw-base35 gettext gettext-base groff-base intltool-debian libarchive-zip-perl libblas3 libbrotli1 libbsd0 libcairo2 libdebhelper-perl libdeflate0 libdw1 libelf1 libexpat1 libfile-stripnondeterminism-perl libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libgfortran5 libglib2.0-0 libgraphite2-3 libharfbuzz0b libicu74 libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 liblapack3 liblbfgsb0 liblcms2-2 liblerc4 libmagic-mgc libmagic1 libopenjp2-7 libpipeline1 libpixman-1-0 libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libpython3.12-minimal libpython3.12-stdlib libraqm0 libsharpyuv0 libsub-override-perl libtiff6 libtool libuchardet0 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxml2 libxrender1 m4 man-db media-types netbase po-debconf python3 python3-all python3-biopython python3-cairo python3-chardet python3-dateutil python3-decorator python3-distutils python3-freetype python3-lib2to3 python3-minimal python3-numpy python3-packaging python3-pandas python3-pandas-lib python3-pil python3-pkg-resources python3-reportlab python3-rlpycairo python3-scipy python3-setuptools python3-six python3-tz python3.11 python3.11-minimal python3.12 python3.12-minimal sbuild-build-depends-main-dummy sgml-base vsearch w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core 0 upgraded, 118 newly installed, 0 to remove and 0 not upgraded. Need to get 103 MB of archives. After this operation, 455 MB of additional disk space will be used. 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http://ftpmaster.internal/ubuntu noble/main ppc64el automake all 1:1.16.5-1.3ubuntu1 [558 kB] Get:42 http://ftpmaster.internal/ubuntu noble/main ppc64el autopoint all 0.21-14ubuntu1 [422 kB] Get:43 http://ftpmaster.internal/ubuntu noble/universe ppc64el cd-hit ppc64el 4.8.1-4 [547 kB] Get:44 http://ftpmaster.internal/ubuntu noble/main ppc64el libdebhelper-perl all 13.13ubuntu1 [88.9 kB] Get:45 http://ftpmaster.internal/ubuntu noble/main ppc64el libtool all 2.4.7-7 [166 kB] Get:46 http://ftpmaster.internal/ubuntu noble/main ppc64el dh-autoreconf all 20 [16.1 kB] Get:47 http://ftpmaster.internal/ubuntu noble/main ppc64el libarchive-zip-perl all 1.68-1 [90.2 kB] Get:48 http://ftpmaster.internal/ubuntu noble/main ppc64el libsub-override-perl all 0.10-1 [10.0 kB] Get:49 http://ftpmaster.internal/ubuntu noble/main ppc64el libfile-stripnondeterminism-perl all 1.13.1-1 [18.1 kB] Get:50 http://ftpmaster.internal/ubuntu noble/main ppc64el dh-strip-nondeterminism all 1.13.1-1 [5362 B] Get:51 http://ftpmaster.internal/ubuntu noble/main ppc64el libdw1 ppc64el 0.190-1 [294 kB] Get:52 http://ftpmaster.internal/ubuntu noble/main ppc64el debugedit ppc64el 1:5.0-5 [51.1 kB] Get:53 http://ftpmaster.internal/ubuntu noble/main ppc64el dwz ppc64el 0.15-1 [139 kB] Get:54 http://ftpmaster.internal/ubuntu noble/main ppc64el gettext ppc64el 0.21-14ubuntu1 [979 kB] Get:55 http://ftpmaster.internal/ubuntu noble/main ppc64el intltool-debian all 0.35.0+20060710.6 [23.2 kB] Get:56 http://ftpmaster.internal/ubuntu noble/main ppc64el po-debconf all 1.0.21+nmu1 [233 kB] Get:57 http://ftpmaster.internal/ubuntu noble/main ppc64el debhelper all 13.13ubuntu1 [868 kB] Get:58 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-lib2to3 all 3.11.5-1 [79.0 kB] Get:59 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-distutils all 3.11.5-1 [131 kB] Get:60 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-setuptools all 68.1.2-2 [396 kB] Get:61 http://ftpmaster.internal/ubuntu noble/universe ppc64el dh-python all 6.20231223 [128 kB] Get:62 http://ftpmaster.internal/ubuntu noble/main ppc64el fonts-dejavu-mono all 2.37-8 [502 kB] Get:63 http://ftpmaster.internal/ubuntu noble/main ppc64el fonts-dejavu-core all 2.37-8 [835 kB] Get:64 http://ftpmaster.internal/ubuntu noble/main ppc64el libfontenc1 ppc64el 1:1.1.4-1build3 [16.2 kB] Get:65 http://ftpmaster.internal/ubuntu noble/main ppc64el libbrotli1 ppc64el 1.1.0-2 [408 kB] Get:66 http://ftpmaster.internal/ubuntu noble/main ppc64el libfreetype6 ppc64el 2.13.2+dfsg-1 [535 kB] Get:67 http://ftpmaster.internal/ubuntu noble/main ppc64el x11-common all 1:7.7+23ubuntu2 [23.4 kB] Get:68 http://ftpmaster.internal/ubuntu noble/main ppc64el xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] Get:69 http://ftpmaster.internal/ubuntu noble/main ppc64el xfonts-utils ppc64el 1:7.7+6build2 [112 kB] Get:70 http://ftpmaster.internal/ubuntu noble/main ppc64el fonts-urw-base35 all 20200910-7 [11.0 MB] Get:71 http://ftpmaster.internal/ubuntu noble/main ppc64el fontconfig-config ppc64el 2.14.2-6ubuntu1 [36.0 kB] Get:72 http://ftpmaster.internal/ubuntu noble/main ppc64el fonts-dejavu-extra all 2.37-8 [1947 kB] Get:73 http://ftpmaster.internal/ubuntu noble/main ppc64el libblas3 ppc64el 3.12.0-3 [227 kB] Get:74 http://ftpmaster.internal/ubuntu noble/main ppc64el libfontconfig1 ppc64el 2.14.2-6ubuntu1 [184 kB] Get:75 http://ftpmaster.internal/ubuntu noble/main ppc64el libpixman-1-0 ppc64el 0.42.2-1 [300 kB] Get:76 http://ftpmaster.internal/ubuntu noble/main ppc64el libxcb-render0 ppc64el 1.15-1 [17.2 kB] Get:77 http://ftpmaster.internal/ubuntu noble/main ppc64el libxcb-shm0 ppc64el 1.15-1 [5896 B] Get:78 http://ftpmaster.internal/ubuntu noble/main ppc64el libxrender1 ppc64el 1:0.9.10-1.1 [23.3 kB] Get:79 http://ftpmaster.internal/ubuntu noble/main ppc64el libcairo2 ppc64el 1.18.0-1 [735 kB] Get:80 http://ftpmaster.internal/ubuntu noble/main ppc64el libdeflate0 ppc64el 1.19-1 [61.9 kB] Get:81 http://ftpmaster.internal/ubuntu noble/main ppc64el libgfortran5 ppc64el 14-20240201-3ubuntu1 [572 kB] Get:82 http://ftpmaster.internal/ubuntu noble/main ppc64el libgraphite2-3 ppc64el 1.3.14-2 [105 kB] Get:83 http://ftpmaster.internal/ubuntu noble/main ppc64el libharfbuzz0b ppc64el 8.3.0-2 [576 kB] Get:84 http://ftpmaster.internal/ubuntu noble/main ppc64el libimagequant0 ppc64el 2.18.0-1 [42.5 kB] Get:85 http://ftpmaster.internal/ubuntu noble/main ppc64el libjpeg-turbo8 ppc64el 2.1.5-2ubuntu1 [212 kB] Get:86 http://ftpmaster.internal/ubuntu noble/main ppc64el libjpeg8 ppc64el 8c-2ubuntu11 [2148 B] Get:87 http://ftpmaster.internal/ubuntu noble/main ppc64el liblapack3 ppc64el 3.12.0-3 [2804 kB] Get:88 http://ftpmaster.internal/ubuntu noble/universe ppc64el liblbfgsb0 ppc64el 3.0+dfsg.4-1 [32.8 kB] Get:89 http://ftpmaster.internal/ubuntu noble/main ppc64el liblcms2-2 ppc64el 2.14-2 [243 kB] Get:90 http://ftpmaster.internal/ubuntu noble/main ppc64el liblerc4 ppc64el 4.0.0+ds-4ubuntu1 [266 kB] Get:91 http://ftpmaster.internal/ubuntu noble/main ppc64el libraqm0 ppc64el 0.10.1-1 [18.9 kB] Get:92 http://ftpmaster.internal/ubuntu noble/main ppc64el libsharpyuv0 ppc64el 1.3.2-0.4 [28.7 kB] Get:93 http://ftpmaster.internal/ubuntu noble/main ppc64el libjbig0 ppc64el 2.1-6.1ubuntu1 [34.7 kB] Get:94 http://ftpmaster.internal/ubuntu noble/main ppc64el libwebp7 ppc64el 1.3.2-0.4 [312 kB] Get:95 http://ftpmaster.internal/ubuntu noble/main ppc64el libtiff6 ppc64el 4.5.1+git230720-3ubuntu1 [323 kB] Get:96 http://ftpmaster.internal/ubuntu noble/main ppc64el libwebpdemux2 ppc64el 1.3.2-0.4 [14.4 kB] Get:97 http://ftpmaster.internal/ubuntu noble/main ppc64el libwebpmux3 ppc64el 1.3.2-0.4 [31.2 kB] Get:98 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el python3-all ppc64el 3.12.1-0ubuntu1 [912 B] Get:99 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-numpy ppc64el 1:1.24.2-2 [5581 kB] Get:100 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-chardet all 5.2.0+dfsg-1 [117 kB] Get:101 http://ftpmaster.internal/ubuntu noble/main ppc64el libopenjp2-7 ppc64el 2.5.0-2 [233 kB] Get:102 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-pil ppc64el 10.2.0-1 [526 kB] Get:103 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-cairo ppc64el 1.25.1-2 [162 kB] Get:104 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-freetype all 2.4.0-1 [83.1 kB] Get:105 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-rlpycairo all 0.3.0-3 [9130 B] Get:106 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-reportlab all 4.1.0-1 [683 kB] Get:107 http://ftpmaster.internal/ubuntu noble/main ppc64el xml-core all 0.19 [20.3 kB] Get:108 http://ftpmaster.internal/ubuntu noble/universe ppc64el w3c-sgml-lib all 1.3-3 [280 kB] Get:109 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-biopython ppc64el 1.81+dfsg-3 [1738 kB] Get:110 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-six all 1.16.0-4 [12.4 kB] Get:111 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-dateutil all 2.8.2-3 [79.2 kB] Get:112 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-decorator all 5.1.1-5 [10.1 kB] Get:113 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-packaging all 23.2-1 [40.6 kB] Get:114 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el python3-tz all 2024.1-1 [31.3 kB] Get:115 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el python3-pandas-lib ppc64el 2.1.4+dfsg-4ubuntu2 [8837 kB] Get:116 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el python3-pandas all 2.1.4+dfsg-4ubuntu2 [3042 kB] Get:117 http://ftpmaster.internal/ubuntu noble/universe ppc64el vsearch ppc64el 2.27.0-1 [444 kB] Get:118 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el python3-scipy ppc64el 1.11.4-3 [21.4 MB] Preconfiguring packages ... Fetched 103 MB in 11s (9226 kB/s) Selecting previously unselected package libpython3.12-minimal:ppc64el. (Reading database ... 15698 files and directories currently installed.) Preparing to unpack .../libpython3.12-minimal_3.12.2-1_ppc64el.deb ... Unpacking libpython3.12-minimal:ppc64el (3.12.2-1) ... Selecting previously unselected package libexpat1:ppc64el. Preparing to unpack .../libexpat1_2.6.0-1_ppc64el.deb ... Unpacking libexpat1:ppc64el (2.6.0-1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../python3.12-minimal_3.12.2-1_ppc64el.deb ... Unpacking python3.12-minimal (3.12.2-1) ... Setting up libpython3.12-minimal:ppc64el (3.12.2-1) ... Setting up libexpat1:ppc64el (2.6.0-1) ... Setting up python3.12-minimal (3.12.2-1) ... Selecting previously unselected package python3-minimal. (Reading database ... 16016 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.12.1-0ubuntu1_ppc64el.deb ... 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Selecting previously unselected package libxcb-render0:ppc64el. Preparing to unpack .../065-libxcb-render0_1.15-1_ppc64el.deb ... Unpacking libxcb-render0:ppc64el (1.15-1) ... Selecting previously unselected package libxcb-shm0:ppc64el. Preparing to unpack .../066-libxcb-shm0_1.15-1_ppc64el.deb ... Unpacking libxcb-shm0:ppc64el (1.15-1) ... Selecting previously unselected package libxrender1:ppc64el. Preparing to unpack .../067-libxrender1_1%3a0.9.10-1.1_ppc64el.deb ... Unpacking libxrender1:ppc64el (1:0.9.10-1.1) ... Selecting previously unselected package libcairo2:ppc64el. Preparing to unpack .../068-libcairo2_1.18.0-1_ppc64el.deb ... Unpacking libcairo2:ppc64el (1.18.0-1) ... Selecting previously unselected package libdeflate0:ppc64el. Preparing to unpack .../069-libdeflate0_1.19-1_ppc64el.deb ... Unpacking libdeflate0:ppc64el (1.19-1) ... Selecting previously unselected package libgfortran5:ppc64el. Preparing to unpack .../070-libgfortran5_14-20240201-3ubuntu1_ppc64el.deb ... 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Setting up libpixman-1-0:ppc64el (0.42.2-1) ... Setting up libsharpyuv0:ppc64el (1.3.2-0.4) ... Setting up libxau6:ppc64el (1:1.0.9-1build5) ... Setting up liblerc4:ppc64el (4.0.0+ds-4ubuntu1) ... Setting up libmagic-mgc (1:5.45-2) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:ppc64el (2.79.1-1) ... No schema files found: doing nothing. Setting up vsearch (2.27.0-1) ... Setting up libdebhelper-perl (13.13ubuntu1) ... Setting up libbrotli1:ppc64el (1.1.0-2) ... Setting up x11-common (1:7.7+23ubuntu2) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up libmagic1:ppc64el (1:5.45-2) ... Setting up libdeflate0:ppc64el (1.19-1) ... Setting up gettext-base (0.21-14ubuntu1) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-2) ... Setting up libjbig0:ppc64el (2.1-6.1ubuntu1) ... Setting up libfontenc1:ppc64el (1:1.1.4-1build3) ... Setting up autotools-dev (20220109.1) ... Setting up libblas3:ppc64el (3.12.0-3) ... update-alternatives: using /usr/lib/powerpc64le-linux-gnu/blas/libblas.so.3 to provide /usr/lib/powerpc64le-linux-gnu/libblas.so.3 (libblas.so.3-powerpc64le-linux-gnu) in auto mode Setting up libfreetype6:ppc64el (2.13.2+dfsg-1) ... Setting up libx11-data (2:1.8.7-1) ... Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... Setting up libfribidi0:ppc64el (1.0.13-3) ... Setting up libimagequant0:ppc64el (2.18.0-1) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up autopoint (0.21-14ubuntu1) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up libjpeg-turbo8:ppc64el (2.1.5-2ubuntu1) ... Setting up libgfortran5:ppc64el (14-20240201-3ubuntu1) ... Setting up autoconf (2.71-3) ... Setting up libwebp7:ppc64el (1.3.2-0.4) ... Setting up libicu74:ppc64el (74.2-1ubuntu1) ... Setting up fonts-dejavu-extra (2.37-8) ... Setting up libuchardet0:ppc64el (0.0.8-1) ... Setting up libopenjp2-7:ppc64el (2.5.0-2) ... Setting up libsub-override-perl (0.10-1) ... Setting up libharfbuzz0b:ppc64el (8.3.0-2) ... Setting up netbase (6.4) ... Setting up sgml-base (1.31) ... Setting up libpython3.11-minimal:ppc64el (3.11.8-1) ... Setting up libwebpmux3:ppc64el (1.3.2-0.4) ... Setting up libbsd0:ppc64el (0.11.8-1) ... Setting up libelf1:ppc64el (0.190-1) ... Setting up libxml2:ppc64el (2.9.14+dfsg-1.3ubuntu1) ... Setting up libjpeg8:ppc64el (8c-2ubuntu11) ... Setting up automake (1:1.16.5-1.3ubuntu1) ... 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 python3.11-minimal (3.11.8-1) ... Setting up libdw1:ppc64el (0.190-1) ... Setting up libxdmcp6:ppc64el (1:1.1.3-0ubuntu5) ... Setting up liblapack3:ppc64el (3.12.0-3) ... update-alternatives: using /usr/lib/powerpc64le-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/powerpc64le-linux-gnu/liblapack.so.3 (liblapack.so.3-powerpc64le-linux-gnu) in auto mode Setting up libxcb1:ppc64el (1.15-1) ... Setting up gettext (0.21-14ubuntu1) ... Setting up libpython3.12-stdlib:ppc64el (3.12.2-1) ... Setting up libtool (2.4.7-7) ... Setting up libxcb-render0:ppc64el (1.15-1) ... Setting up fontconfig-config (2.14.2-6ubuntu1) ... Setting up libwebpdemux2:ppc64el (1.3.2-0.4) ... Setting up libpython3.11-stdlib:ppc64el (3.11.8-1) ... Setting up python3.12 (3.12.2-1) ... Setting up libxcb-shm0:ppc64el (1.15-1) ... Setting up xfonts-utils (1:7.7+6build2) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libraqm0:ppc64el (0.10.1-1) ... 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 libtiff6:ppc64el (4.5.1+git230720-3ubuntu1) ... Setting up xml-core (0.19) ... Setting up debugedit (1:5.0-5) ... Setting up libx11-6:ppc64el (2:1.8.7-1) ... Setting up libfontconfig1:ppc64el (2.14.2-6ubuntu1) ... Setting up libpython3-stdlib:ppc64el (3.12.1-0ubuntu1) ... Setting up liblbfgsb0:ppc64el (3.0+dfsg.4-1) ... Setting up python3.11 (3.11.8-1) ... Setting up libxrender1:ppc64el (1:0.9.10-1.1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libxext6:ppc64el (2:1.3.4-1build1) ... Setting up python3 (3.12.1-0ubuntu1) ... Setting up fonts-urw-base35 (20200910-7) ... Setting up python3-freetype (2.4.0-1) ... Setting up man-db (2.12.0-3) ... Not building database; man-db/auto-update is not 'true'. Created symlink /etc/systemd/system/timers.target.wants/man-db.timer → /usr/lib/systemd/system/man-db.timer. Setting up libcairo2:ppc64el (1.18.0-1) ... Setting up python3-tz (2024.1-1) ... Setting up python3-six (1.16.0-4) ... Setting up python3-pil:ppc64el (10.2.0-1) ... Setting up python3-decorator (5.1.1-5) ... Setting up python3-packaging (23.2-1) ... Setting up python3-dateutil (2.8.2-3) ... Setting up python3-lib2to3 (3.11.5-1) ... 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-cairo (1.25.1-2) ... Setting up python3-setuptools (68.1.2-2) ... Setting up python3-all (3.12.1-0ubuntu1) ... Setting up debhelper (13.13ubuntu1) ... Setting up python3-chardet (5.2.0+dfsg-1) ... Setting up python3-rlpycairo (0.3.0-3) ... Setting up python3-numpy (1:1.24.2-2) ... Setting up python3-reportlab (4.1.0-1) ... Setting up dh-python (6.20231223) ... Setting up python3-scipy (1.11.4-3) ... Setting up python3-pandas-lib:ppc64el (2.1.4+dfsg-4ubuntu2) ... Setting up python3-pandas (2.1.4+dfsg-4ubuntu2) ... Processing triggers for libc-bin (2.39-0ubuntu1) ... Processing triggers for systemd (255.2-3ubuntu2) ... Processing triggers for sgml-base (1.31) ... Setting up w3c-sgml-lib (1.3-3) ... Setting up python3-biopython (1.81+dfsg-3) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (ppc64el included in any all) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.4.0-171-generic #189-Ubuntu SMP Fri Jan 5 14:23:33 UTC 2024 ppc64el (ppc64le) Toolchain package versions: binutils_2.42-2ubuntu1 dpkg-dev_1.22.4ubuntu3 g++-13_13.2.0-13ubuntu1 gcc-13_13.2.0-13ubuntu1 libc6-dev_2.39-0ubuntu1 libstdc++-13-dev_13.2.0-13ubuntu1 libstdc++6_14-20240201-3ubuntu1 linux-libc-dev_6.8.0-11.11 Package versions: adduser_3.137ubuntu1 advancecomp_2.5-1 apt_2.7.11 apt-utils_2.7.11 autoconf_2.71-3 automake_1:1.16.5-1.3ubuntu1 autopoint_0.21-14ubuntu1 autotools-dev_20220109.1 base-files_13ubuntu6 base-passwd_3.6.3 bash_5.2.21-2ubuntu1 bash-completion_1:2.11-8 binutils_2.42-2ubuntu1 binutils-common_2.42-2ubuntu1 binutils-powerpc64le-linux-gnu_2.42-2ubuntu1 bsdextrautils_2.39.2-6ubuntu1 bsdutils_1:2.39.2-6ubuntu1 build-essential_12.10ubuntu1 bzip2_1.0.8-5build1 ca-certificates_20240203 cd-hit_4.8.1-4 coreutils_9.4-2ubuntu3 cpp_4:13.2.0-7ubuntu1 cpp-13_13.2.0-13ubuntu1 cpp-13-powerpc64le-linux-gnu_13.2.0-13ubuntu1 cpp-powerpc64le-linux-gnu_4:13.2.0-7ubuntu1 dash_0.5.12-6ubuntu1 debconf_1.5.86 debconf-i18n_1.5.86 debhelper_13.13ubuntu1 debianutils_5.16 debugedit_1:5.0-5 dh-autoreconf_20 dh-python_6.20231223 dh-strip-nondeterminism_1.13.1-1 diffutils_1:3.10-1 dpkg_1.22.4ubuntu3 dpkg-dev_1.22.4ubuntu3 dwz_0.15-1 e2fsprogs_1.47.0-2ubuntu1 fakeroot_1.33-1 file_1:5.45-2 findutils_4.9.0-5 fontconfig-config_2.14.2-6ubuntu1 fonts-dejavu-core_2.37-8 fonts-dejavu-extra_2.37-8 fonts-dejavu-mono_2.37-8 fonts-urw-base35_20200910-7 g++_4:13.2.0-7ubuntu1 g++-13_13.2.0-13ubuntu1 g++-13-powerpc64le-linux-gnu_13.2.0-13ubuntu1 g++-powerpc64le-linux-gnu_4:13.2.0-7ubuntu1 gcc_4:13.2.0-7ubuntu1 gcc-13_13.2.0-13ubuntu1 gcc-13-base_13.2.0-13ubuntu1 gcc-13-powerpc64le-linux-gnu_13.2.0-13ubuntu1 gcc-14-base_14-20240201-3ubuntu1 gcc-powerpc64le-linux-gnu_4:13.2.0-7ubuntu1 gettext_0.21-14ubuntu1 gettext-base_0.21-14ubuntu1 gpg_2.4.4-2ubuntu3 gpg-agent_2.4.4-2ubuntu3 gpgconf_2.4.4-2ubuntu3 gpgv_2.4.4-2ubuntu3 grep_3.11-4 groff-base_1.23.0-3 gzip_1.12-1ubuntu1 hostname_3.23+nmu1ubuntu1 init_1.66ubuntu1 init-system-helpers_1.66ubuntu1 intltool-debian_0.35.0+20060710.6 krb5-locales_1.20.1-5build1 libacl1_2.3.1-4ubuntu1 libapparmor1_4.0.0~alpha4-0ubuntu1 libapt-pkg6.0_2.7.11 libarchive-zip-perl_1.68-1 libargon2-1_0~20190702+dfsg-4 libasan8_14-20240201-3ubuntu1 libassuan0_2.5.6-1 libatomic1_14-20240201-3ubuntu1 libattr1_1:2.5.2-1 libaudit-common_1:3.1.2-2 libaudit1_1:3.1.2-2 libbinutils_2.42-2ubuntu1 libblas3_3.12.0-3 libblkid1_2.39.2-6ubuntu1 libbrotli1_1.1.0-2 libbsd0_0.11.8-1 libbz2-1.0_1.0.8-5build1 libc-bin_2.39-0ubuntu1 libc-dev-bin_2.39-0ubuntu1 libc6_2.39-0ubuntu1 libc6-dev_2.39-0ubuntu1 libcairo2_1.18.0-1 libcap-ng0_0.8.4-2 libcap2_1:2.66-4ubuntu1 libcc1-0_14-20240201-3ubuntu1 libcom-err2_1.47.0-2ubuntu1 libcrypt-dev_1:4.4.36-4 libcrypt1_1:4.4.36-4 libcryptsetup12_2:2.6.1-6ubuntu1 libctf-nobfd0_2.42-2ubuntu1 libctf0_2.42-2ubuntu1 libdb5.3_5.3.28+dfsg2-4 libdebconfclient0_0.271ubuntu1 libdebhelper-perl_13.13ubuntu1 libdeflate0_1.19-1 libdevmapper1.02.1_2:1.02.185-2ubuntu1 libdpkg-perl_1.22.4ubuntu3 libdw1_0.190-1 libelf1_0.190-1 libexpat1_2.6.0-1 libext2fs2_1.47.0-2ubuntu1 libfakeroot_1.33-1 libfdisk1_2.39.2-6ubuntu1 libffi8_3.4.4-2 libfile-stripnondeterminism-perl_1.13.1-1 libfontconfig1_2.14.2-6ubuntu1 libfontenc1_1:1.1.4-1build3 libfreetype6_2.13.2+dfsg-1 libfribidi0_1.0.13-3 libgcc-13-dev_13.2.0-13ubuntu1 libgcc-s1_14-20240201-3ubuntu1 libgcrypt20_1.10.3-2 libgdbm-compat4_1.23-5 libgdbm6_1.23-5 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libxrender1_1:0.9.10-1.1 libxxhash0_0.8.2-2 libzstd1_1.5.5+dfsg2-2 linux-libc-dev_6.8.0-11.11 lockfile-progs_0.1.19build1 login_1:4.13+dfsg1-3ubuntu1 logsave_1.47.0-2ubuntu1 lto-disabled-list_46 m4_1.4.19-4 make_4.3-4.1build1 man-db_2.12.0-3 mawk_1.3.4.20240123-1 media-types_10.1.0 mount_2.39.2-6ubuntu1 ncurses-base_6.4+20240113-1ubuntu1 ncurses-bin_6.4+20240113-1ubuntu1 netbase_6.4 openssl_3.0.10-1ubuntu4 optipng_0.7.8+ds-1 passwd_1:4.13+dfsg1-3ubuntu1 patch_2.7.6-7build2 perl_5.38.2-3 perl-base_5.38.2-3 perl-modules-5.36_5.36.0-10ubuntu1 perl-modules-5.38_5.38.2-3 pinentry-curses_1.2.1-3ubuntu1 pkgbinarymangler_154 po-debconf_1.0.21+nmu1 policyrcd-script-zg2_0.1-3.1 procps_2:4.0.4-2ubuntu1 psmisc_23.6-2 python3_3.12.1-0ubuntu1 python3-all_3.12.1-0ubuntu1 python3-biopython_1.81+dfsg-3 python3-cairo_1.25.1-2 python3-chardet_5.2.0+dfsg-1 python3-dateutil_2.8.2-3 python3-decorator_5.1.1-5 python3-distutils_3.11.5-1 python3-freetype_2.4.0-1 python3-lib2to3_3.11.5-1 python3-minimal_3.12.1-0ubuntu1 python3-numpy_1:1.24.2-2 python3-packaging_23.2-1 python3-pandas_2.1.4+dfsg-4ubuntu2 python3-pandas-lib_2.1.4+dfsg-4ubuntu2 python3-pil_10.2.0-1 python3-pkg-resources_68.1.2-2 python3-reportlab_4.1.0-1 python3-rlpycairo_0.3.0-3 python3-scipy_1.11.4-3 python3-setuptools_68.1.2-2 python3-six_1.16.0-4 python3-tz_2024.1-1 python3.11_3.11.8-1 python3.11-minimal_3.11.8-1 python3.12_3.12.2-1 python3.12-minimal_3.12.2-1 readline-common_8.2-3 rpcsvc-proto_1.4.2-0ubuntu6 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-2 sensible-utils_0.0.22 sgml-base_1.31 systemd_255.2-3ubuntu2 systemd-dev_255.2-3ubuntu2 systemd-sysv_255.2-3ubuntu2 sysvinit-utils_3.08-3ubuntu1 tar_1.35+dfsg-3 tzdata_2024a-1ubuntu1 ubuntu-keyring_2023.11.28.1 usrmerge_35ubuntu1 util-linux_2.39.2-6ubuntu1 uuid-runtime_2.39.2-6ubuntu1 vsearch_2.27.0-1 w3c-sgml-lib_1.3-3 x11-common_1:7.7+23ubuntu2 xfonts-encodings_1:1.0.5-0ubuntu2 xfonts-utils_1:7.7+6build2 xml-core_0.19 xz-utils_5.4.5-0.3 zlib1g_1:1.3.dfsg-3ubuntu1 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: presto Binary: python3-presto, presto Architecture: any all Version: 0.7.2-1 Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller Homepage: https://presto.readthedocs.io Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/presto Vcs-Git: https://salsa.debian.org/med-team/presto.git Testsuite: autopkgtest-pkg-pybuild Build-Depends: debhelper-compat (= 13), dh-sequence-python3, python3-all, python3-setuptools, python3-biopython , python3-pandas , python3-scipy , python3-packaging , vsearch [amd64 arm64 kfreebsd-amd64 ppc64el] , cd-hit Package-List: presto deb python optional arch=all python3-presto deb python optional arch=any Checksums-Sha1: 8e13875cb853e6bb06f77469942f36d565277791 361536 presto_0.7.2.orig.tar.xz 3066f884934bb7424d348c51c3b1cc356a47479d 20772 presto_0.7.2-1.debian.tar.xz Checksums-Sha256: 2eb8874e93df323a6fdf8a6e198f7795d710493d6a94d25d650a8ce0aa22c37b 361536 presto_0.7.2.orig.tar.xz 448a6926319a56a21569fc927e45b1708549ef27b7542ebfa345e0d8aab698d2 20772 presto_0.7.2-1.debian.tar.xz Files: c10efa18782dda0f00d1a99becd31881 361536 presto_0.7.2.orig.tar.xz 50274e92ddd35153efbe95fe0cb01b0b 20772 presto_0.7.2-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEESjHbWh7kCWyHOZiAkDZJKUwz+bcFAmXTTsYACgkQkDZJKUwz +bfRyA/9EBLWJf1DlmgkxNIsmCceB64EJXnGBG+Z14PKTA0sOlp53TW7dSlnGZcb yDWyBcbvj6IAlXBcG/XE0yVeuM17NXLXo9Y0jCe6EXYIxqiBs05hyj1xj5Z33831 +4niNjHXr9HsrvQx5ajNM0hpdqS8KRvpZiB5Xnzt2kOC61mBBkhe1gDCFvanOxnG wl2oA0oe23Ybje/zdu2Z5ob2rF2QwC+F48XuMzeLh2MixTkczvmq9pBuyk/dYvO2 N7c8nhaOnCQqeCkxdt1T/GpxeytiK7B0VEJK2NjXyThOlh4c4GMS7K5neeN9Y5Ic tqTVlzGgRsXWIqA4p/iALniS4kb0Zitx23csVf+IQdtT8MpOejia7d8ZjJ+kWX/B N2f0wZFbPqbTbkAJW7zklHO1Q6A0x9aMZKxxaHm5ptOcAw+ukf8pfr65yy/RfX4+ UIdBD06OGSCxGSFyV5ZBL8gSdTxoVsnwgKKrdhYdrwpEB+7AY7HqgC18nUAIOaql auDb2SU3d7Aon1dcCD+I/XWjlNb6W4gT7nWn5WM3RDLWhADcWRA62k5tx5L9XLOq CxfOgQpez26RtcikZksRDmoGfB0ekGCUwQvvTNSk69bpNqQaGz3fyEFSDuO8FRds xdrc3f/TWvY9axPIYtIjQJ95a3E05Q+XiGpT4pQjfl+dGSu5Pvc= =9L84 -----END PGP SIGNATURE----- gpgv: Signature made Mon Feb 19 12:51:18 2024 UTC gpgv: using RSA key 4A31DB5A1EE4096C87399880903649294C33F9B7 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./presto_0.7.2-1.dsc: no acceptable signature found dpkg-source: info: extracting presto in /<> dpkg-source: info: unpacking presto_0.7.2.orig.tar.xz dpkg-source: info: unpacking presto_0.7.2-1.debian.tar.xz Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-27792493 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-27792493 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-27792493 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- Command: dpkg-buildpackage -us -uc -mLaunchpad Build Daemon -B -rfakeroot dpkg-buildpackage: info: source package presto dpkg-buildpackage: info: source version 0.7.2-1 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture ppc64el dpkg-source: info: using options from presto-0.7.2/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ debian/rules clean dh clean --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild I: pybuild base:305: python3.11 setup.py clean running clean removing '/<>/.pybuild/cpython3_3.11_presto/build' (and everything under it) 'build/bdist.linux-ppc64le' does not exist -- can't clean it 'build/scripts-3.11' does not exist -- can't clean it I: pybuild base:305: python3.12 setup.py clean running clean removing '/<>/.pybuild/cpython3_3.12_presto/build' (and everything under it) 'build/bdist.linux-ppc64le' does not exist -- can't clean it 'build/scripts-3.12' does not exist -- can't clean it dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary-arch dh binary-arch --buildsystem=pybuild dh_update_autotools_config -a -O--buildsystem=pybuild dh_autoreconf -a -O--buildsystem=pybuild dh_auto_configure -a -O--buildsystem=pybuild I: pybuild base:305: python3.11 setup.py config running config I: pybuild base:305: python3.12 setup.py config running config dh_auto_build -a -O--buildsystem=pybuild I: pybuild base:305: /usr/bin/python3.11 setup.py build running build running build_py creating /<>/.pybuild/cpython3_3.11_presto/build/presto copying presto/Commandline.py -> /<>/.pybuild/cpython3_3.11_presto/build/presto copying presto/IO.py -> /<>/.pybuild/cpython3_3.11_presto/build/presto copying presto/Multiprocessing.py -> /<>/.pybuild/cpython3_3.11_presto/build/presto copying presto/Sequence.py -> /<>/.pybuild/cpython3_3.11_presto/build/presto copying presto/Defaults.py -> /<>/.pybuild/cpython3_3.11_presto/build/presto copying presto/Version.py -> /<>/.pybuild/cpython3_3.11_presto/build/presto copying presto/__init__.py -> /<>/.pybuild/cpython3_3.11_presto/build/presto copying presto/Applications.py -> /<>/.pybuild/cpython3_3.11_presto/build/presto copying presto/Annotation.py -> /<>/.pybuild/cpython3_3.11_presto/build/presto running build_scripts creating build creating build/scripts-3.11 copying and adjusting bin/AlignSets.py -> build/scripts-3.11 copying and adjusting bin/AssemblePairs.py -> build/scripts-3.11 copying and adjusting bin/BuildConsensus.py -> build/scripts-3.11 copying and adjusting bin/ClusterSets.py -> build/scripts-3.11 copying and adjusting bin/CollapseSeq.py -> build/scripts-3.11 copying and adjusting bin/ConvertHeaders.py -> build/scripts-3.11 copying and adjusting bin/EstimateError.py -> build/scripts-3.11 copying and adjusting bin/FilterSeq.py -> build/scripts-3.11 copying and adjusting bin/MaskPrimers.py -> build/scripts-3.11 copying and adjusting bin/PairSeq.py -> build/scripts-3.11 copying and adjusting bin/ParseHeaders.py -> build/scripts-3.11 copying and adjusting bin/ParseLog.py -> build/scripts-3.11 copying and adjusting bin/SplitSeq.py -> build/scripts-3.11 copying and adjusting bin/UnifyHeaders.py -> build/scripts-3.11 changing mode of build/scripts-3.11/AlignSets.py from 644 to 755 changing mode of build/scripts-3.11/AssemblePairs.py from 644 to 755 changing mode of build/scripts-3.11/BuildConsensus.py from 644 to 755 changing mode of build/scripts-3.11/ClusterSets.py from 644 to 755 changing mode of build/scripts-3.11/CollapseSeq.py from 644 to 755 changing mode of build/scripts-3.11/ConvertHeaders.py from 644 to 755 changing mode of build/scripts-3.11/EstimateError.py from 644 to 755 changing mode of build/scripts-3.11/FilterSeq.py from 644 to 755 changing mode of build/scripts-3.11/MaskPrimers.py from 644 to 755 changing mode of build/scripts-3.11/PairSeq.py from 644 to 755 changing mode of build/scripts-3.11/ParseHeaders.py from 644 to 755 changing mode of build/scripts-3.11/ParseLog.py from 644 to 755 changing mode of build/scripts-3.11/SplitSeq.py from 644 to 755 changing mode of build/scripts-3.11/UnifyHeaders.py from 644 to 755 I: pybuild base:305: /usr/bin/python3 setup.py build running build running build_py creating /<>/.pybuild/cpython3_3.12_presto/build/presto copying presto/Commandline.py -> /<>/.pybuild/cpython3_3.12_presto/build/presto copying presto/IO.py -> /<>/.pybuild/cpython3_3.12_presto/build/presto copying presto/Multiprocessing.py -> /<>/.pybuild/cpython3_3.12_presto/build/presto copying presto/Sequence.py -> /<>/.pybuild/cpython3_3.12_presto/build/presto copying presto/Defaults.py -> /<>/.pybuild/cpython3_3.12_presto/build/presto copying presto/Version.py -> /<>/.pybuild/cpython3_3.12_presto/build/presto copying presto/__init__.py -> /<>/.pybuild/cpython3_3.12_presto/build/presto copying presto/Applications.py -> /<>/.pybuild/cpython3_3.12_presto/build/presto copying presto/Annotation.py -> /<>/.pybuild/cpython3_3.12_presto/build/presto running build_scripts creating build/scripts-3.12 copying and adjusting bin/AlignSets.py -> build/scripts-3.12 copying and adjusting bin/AssemblePairs.py -> build/scripts-3.12 copying and adjusting bin/BuildConsensus.py -> build/scripts-3.12 copying and adjusting bin/ClusterSets.py -> build/scripts-3.12 copying and adjusting bin/CollapseSeq.py -> build/scripts-3.12 copying and adjusting bin/ConvertHeaders.py -> build/scripts-3.12 copying and adjusting bin/EstimateError.py -> build/scripts-3.12 copying and adjusting bin/FilterSeq.py -> build/scripts-3.12 copying and adjusting bin/MaskPrimers.py -> build/scripts-3.12 copying and adjusting bin/PairSeq.py -> build/scripts-3.12 copying and adjusting bin/ParseHeaders.py -> build/scripts-3.12 copying and adjusting bin/ParseLog.py -> build/scripts-3.12 copying and adjusting bin/SplitSeq.py -> build/scripts-3.12 copying and adjusting bin/UnifyHeaders.py -> build/scripts-3.12 changing mode of build/scripts-3.12/AlignSets.py from 644 to 755 changing mode of build/scripts-3.12/AssemblePairs.py from 644 to 755 changing mode of build/scripts-3.12/BuildConsensus.py from 644 to 755 changing mode of build/scripts-3.12/ClusterSets.py from 644 to 755 changing mode of build/scripts-3.12/CollapseSeq.py from 644 to 755 changing mode of build/scripts-3.12/ConvertHeaders.py from 644 to 755 changing mode of build/scripts-3.12/EstimateError.py from 644 to 755 changing mode of build/scripts-3.12/FilterSeq.py from 644 to 755 changing mode of build/scripts-3.12/MaskPrimers.py from 644 to 755 changing mode of build/scripts-3.12/PairSeq.py from 644 to 755 changing mode of build/scripts-3.12/ParseHeaders.py from 644 to 755 changing mode of build/scripts-3.12/ParseLog.py from 644 to 755 changing mode of build/scripts-3.12/SplitSeq.py from 644 to 755 changing mode of build/scripts-3.12/UnifyHeaders.py from 644 to 755 dh_auto_test -a -O--buildsystem=pybuild I: pybuild pybuild:310: cp -r /<>/bin /<>/.pybuild/cpython3_3.11_presto/build; I: pybuild base:305: cd /<>/.pybuild/cpython3_3.11_presto/build; python3.11 -m unittest discover -v test_collapseAnnotation (tests.test_Annotation.TestAnnotation.test_collapseAnnotation) ... ok test_getCoordKey (tests.test_Annotation.TestAnnotation.test_getCoordKey) ... ok test_mergeAnnotation (tests.test_Annotation.TestAnnotation.test_mergeAnnotation) ... ok test_renameAnnotation (tests.test_Annotation.TestAnnotation.test_renameAnnotation) ... ok test_alignAssembly (tests.test_AssemblePairs.TestAssemblePairs.test_alignAssembly) ... skipped '-> alignAssembly() skipped\n' test_makeBlastnDb (tests.test_AssemblePairs.TestAssemblePairs.test_makeBlastnDb) ... skipped '-> makeBlastnDb() skipped\n' test_makeUSearchDb (tests.test_AssemblePairs.TestAssemblePairs.test_makeUSearchDb) ... skipped '-> makeUSearchDb() skipped\n' test_referenceAssembly (tests.test_AssemblePairs.TestAssemblePairs.test_referenceAssembly) ... skipped '-> referenceAssembly() skipped\n' test_runBlastn (tests.test_AssemblePairs.TestAssemblePairs.test_runBlastn) ... skipped '-> runBlastn() skipped\n' test_runUSearch (tests.test_AssemblePairs.TestAssemblePairs.test_runUSearch) ... skipped '-> runUSearch() skipped\n' test_calculateSetError (tests.test_BuildConsensus.TestBuildConsensus.test_calculateSetError) ... ok test_deleteSeqPositions (tests.test_BuildConsensus.TestBuildConsensus.test_deleteSeqPositions) ... ok test_findGapPositions (tests.test_BuildConsensus.TestBuildConsensus.test_findGapPositions) ... ok test_frequencyConsensus (tests.test_BuildConsensus.TestBuildConsensus.test_frequencyConsensus) ... ok test_qualityConsensus (tests.test_BuildConsensus.TestBuildConsensus.test_qualityConsensus) ... ok test_runCDHit (tests.test_ClusterSets.TestClusterSets.test_runCDHit) ... ok test_runUClust (tests.test_ClusterSets.TestClusterSets.test_runUClust) ... ok test_checkSeqEqual (tests.test_CollapseSeq.TestCollapseSeq.test_checkSeqEqual) ... ok test_convert454Header (tests.test_ConvertHeaders.TestConvertHeaders.test_convert454Header) ... ok test_convertGenbankHeader (tests.test_ConvertHeaders.TestConvertHeaders.test_convertGenbankHeader) ... ok test_convertGenericHeader (tests.test_ConvertHeaders.TestConvertHeaders.test_convertGenericHeader) ... ok test_convertIMGTHeader (tests.test_ConvertHeaders.TestConvertHeaders.test_convertIMGTHeader) ... ok test_convertIlluminaHeader (tests.test_ConvertHeaders.TestConvertHeaders.test_convertIlluminaHeader) ... ok test_convertSRAHeader (tests.test_ConvertHeaders.TestConvertHeaders.test_convertSRAHeader) ... ok test_calculateDistances (tests.test_EstimateError.TestEstimateError.test_calculateDistances) ... ok test_countMismatches (tests.test_EstimateError.TestEstimateError.test_countMismatches) ... ok test_initializeMismatchDictionary (tests.test_EstimateError.TestEstimateError.test_initializeMismatchDictionary) ... ok test_getFileType (tests.test_IO.TestIO.test_getFileType) ... ok test_extractAlignment (tests.test_MaskPrimers.TestMaskPrimers.test_extractAlignment) ... ok test_localAlignment (tests.test_MaskPrimers.TestMaskPrimers.test_localAlignment) ... ok test_maskSeq (tests.test_MaskPrimers.TestMaskPrimers.test_maskSeq) ... ok test_scoreAlignment (tests.test_MaskPrimers.TestMaskPrimers.test_scoreAlignment) ... ok test_calculateSetError (tests.test_Sequence.TestSequence.test_calculateSetError) ... ok test_filterQuality (tests.test_Sequence.TestSequence.test_filterQuality) ... ok test_meanQuality (tests.test_Sequence.TestSequence.test_meanQuality) ... ok test_scoreDNA (tests.test_Sequence.TestSequence.test_scoreDNA) ... ok test_scoreSeqPair (tests.test_Sequence.TestSequence.test_scoreSeqPair) ... ok test_weightDNA (tests.test_Sequence.TestSequence.test_weightDNA) ... ok test_consensusUnify (tests.test_UnifyHeaders.TestConvertHeaders.test_consensusUnify) ... ok test_deletionUnify (tests.test_UnifyHeaders.TestConvertHeaders.test_deletionUnify) ... ok ---------------------------------------------------------------------- Ran 40 tests in 0.118s OK (skipped=6) -> test_collapseAnnotation() OrderedDict([('ID', 'SEQ1'), ('TEST1', 'A'), ('TEST2', 1), ('TEST3', 'First')]) OrderedDict([('ID', 'SEQ1'), ('TEST1', 'B'), ('TEST2', 2), ('TEST3', 'Second')]) OrderedDict([('ID', 'SEQ1'), ('TEST1', ['A', 'B']), ('TEST2', [1, 2]), ('TEST3', ['First', 'Second'])]) OrderedDict([('ID', 'SEQ1'), ('TEST1', 'AB'), ('TEST2', '12'), ('TEST3', 'FirstSecond')]) OrderedDict([('ID', 'SEQ1'), ('TEST1', 'A,B'), ('TEST2', '1'), ('TEST3', ['First', 'Second'])]) OrderedDict([('ID', 'SEQ1'), ('TEST1', 'A,B'), ('TEST2', '2'), ('TEST3', ['First', 'Second'])]) OrderedDict([('ID', 'SEQ1'), ('TEST1', 'A,B'), ('TEST2', '3'), ('TEST3', ['First', 'Second'])]) <- test_collapseAnnotation() 0.000 -> test_getCoordKey() ['MISEQ:132:000000000-A2F3U:1:1101:14340:1555', 'HWI-EAS209_0006_FC706VJ:5:58:5894:21141', 'MS6_33112:1:1101:18371:1066'] ['SRR001666.1', 'SRR735691.1', 'SRR1383326.1', 'SRR1383326.1', 'ERR346596.6'] ['000034_0199_0169', 'GXGJ56Z01AE06X'] <- test_getCoordKey() 0.000 -> test_mergeAnnotation() OrderedDict([('ID', 'SEQ1'), ('TEST1', 'A,B,C,C'), ('TEST2', '1,2,3'), ('TEST3', ['First', 'Second'])]) OrderedDict([('ID', 'SEQ1'), ('TEST1', 'C,C,A,B'), ('TEST2', '3,1,2'), ('TEST3', ['First', 'Second'])]) <- test_mergeAnnotation() 0.000 -> test_renameAnnotation() OrderedDict([('ID', 'SEQ1'), ('RENAMED1', 'A,B'), ('TEST2', [1, 2]), ('TEST3', ['First', 'Second'])]) OrderedDict([('ID', 'SEQ1'), ('RENAMED2', 'A,B'), ('TEST2', [1, 2]), ('TEST3', ['First', 'Second'])]) OrderedDict([('ID', 'SEQ1'), ('TEST1', 'A,B,1,2'), ('TEST3', ['First', 'Second'])]) OrderedDict([('ID', 'SEQ1'), ('TEST1', 'A,B,1,2,First,Second')]) <- test_renameAnnotation() 0.000 -> test_calculateSetError() Frequency consensus error> REF> CGGCGTAA SEQ1> CGGCGTAA SEQ2> CCNNGTAA SEQ3> CGGC--TA SEQ4> CGNN--TA SEQ5> CGGC--AA ERROR> 0.250000 Quality consensus error> REF> CGGCNNAA SEQ1> CGGCGTAA SEQ2> CCNNGTAA SEQ3> CGGC--TA SEQ4> CGNN--TA SEQ5> CGGC--AA ERROR> 0.233333 <- test_calculateSetError() 0.000 -> test_deleteSeqPositions() MAX_GAP=0.4> CGGCAA MAX_GAP=0.8> CGGCGTAA <- test_deleteSeqPositions() 0.000 -> test_findGapPositions() MAX_GAP=0.4> [4, 5] MAX_GAP=0.8> [] <- test_findGapPositions() 0.000 -> test_frequencyConsensus() MIN_FREQ=0.2> CGGCGTAA MIN_FREQ=0.8> CGGCGTNA <- test_frequencyConsensus() 0.000 -> test_qualityConsensus() MIN_QUAL=0> CGGCGTAA [90, 90, 36, 36, 16, 16, 72, 90] MIN_QUAL=20> CGGCNNAA [90, 90, 36, 36, 0, 0, 72, 90] MIN_FREQ=0.8> CGGCNNNA [90, 90, 36, 36, 0, 0, 0, 90] <- test_qualityConsensus() 0.000 -> test_runCDHit() FULL_LENGTH> {1: ['SEQ1', 'SEQ2', 'SEQ3'], 2: ['SEQ4', 'SEQ5']} TRIMMED> {1: ['SEQ1', 'SEQ2', 'SEQ3'], 2: ['SEQ4', 'SEQ5']} ZERO_LENGTH> None <- test_runCDHit() 0.016 -> test_runUClust() FULL_LENGTH> {1: ['SEQ1', 'SEQ2', 'SEQ3'], 2: ['SEQ4', 'SEQ5']} TRIMMED> {1: ['SEQ1', 'SEQ2', 'SEQ3'], 2: ['SEQ4', 'SEQ5']} ZERO_LENGTH> None <- test_runUClust() 0.022 -> test_checkSeqEqual() DNA Equality> SEQ1|COUNT=1> CCACGTTTTAGTAATTAATA SEQ2|COUNT=2> CCACGTTTTAGTAATTAATA EQUAL> True SEQ1|COUNT=1> CCACGTTTTAGTAATTAATA SEQ3|COUNT=3> CCACGTTTTACTAATTAATA EQUAL> False SEQ1|COUNT=1> CCACGTTTTAGTAATTAATA SEQ4|COUNT=4> CCACGTTTTANTAATTAATA EQUAL> True SEQ2|COUNT=2> CCACGTTTTAGTAATTAATA SEQ3|COUNT=3> CCACGTTTTACTAATTAATA EQUAL> False SEQ2|COUNT=2> CCACGTTTTAGTAATTAATA SEQ4|COUNT=4> CCACGTTTTANTAATTAATA EQUAL> True SEQ3|COUNT=3> CCACGTTTTACTAATTAATA SEQ4|COUNT=4> CCACGTTTTANTAATTAATA EQUAL> True <- test_checkSeqEqual() 0.000 -> test_convert454Header() OrderedDict([('ID', '000034_0199_0169'), ('LENGTH', '437'), ('UACCNO', 'GNDG01201ARRCR')]) OrderedDict([('ID', 'GXGJ56Z01AE06X'), ('LENGTH', '222')]) <- test_convert454Header() 0.000 -> test_convertGenbankHeader() OrderedDict([('ID', 'CM000663.2'), ('GI', '568336023'), ('SOURCE', 'gb'), ('DESC', 'Homo_sapiens_chromosome_1_GRCh38_reference_primary_assembly')]) OrderedDict([('ID', 'CM000663.2'), ('DESC', 'Homo_sapiens_chromosome_1__GRCh38_reference_primary_assembly')]) <- test_convertGenbankHeader() 0.000 -> test_convertGenericHeader() OrderedDict([('ID', 'gi_568336023_gb_CM000663.2_Homo_sapiens_chromosome_1_GRCh38_reference_primary_assembly')]) OrderedDict([('ID', 'CM000663.2_Homo_sapiens_chromosome_1_GRCh38_reference_primary_assembly')]) OrderedDict([('ID', 'M99641_IGHV1-18*01_Homo_sapiens_F_V-REGION_188..483_296_nt_1_296+24_320_')]) OrderedDict([('ID', "Z29978_IGHV1-69*07_Homo_sapiens_F_V-REGION_1..233_233_nt_1_233+58_291_partial_in_5'_and_in_3'_")]) OrderedDict([('ID', 'AB019439_IGHV(III)-22-2*01_Homo_sapiens_P_L-PART1+V-EXON_168065..168119+168222..168262_96_nt_1_96+0_96_')]) OrderedDict([('ID', 'AE000659_TRAV11*01_Homo_sapiens_(P)_V-REGION_85121..85397_276_nt_1_276+42_318_')]) <- test_convertGenericHeader() 0.000 -> test_convertIMGTHeader() OrderedDict([('ID', 'IGHV1-18*01'), ('SPECIES', 'Homo_sapiens'), ('REGION', 'V-REGION'), ('FUNCTIONALITY', 'F'), ('PARTIAL', 'FALSE'), ('ACCESSION', 'M99641')]) OrderedDict([('ID', 'IGHV1-69*07'), ('SPECIES', 'Homo_sapiens'), ('REGION', 'V-REGION'), ('FUNCTIONALITY', 'F'), ('PARTIAL', 'TRUE'), ('ACCESSION', 'Z29978')]) OrderedDict([('ID', 'IGHV(III)-22-2*01'), ('SPECIES', 'Homo_sapiens'), ('REGION', 'L-PART1+V-EXON'), ('FUNCTIONALITY', 'P'), ('PARTIAL', 'FALSE'), ('ACCESSION', 'AB019439')]) OrderedDict([('ID', 'TRAV11*01'), ('SPECIES', 'Homo_sapiens'), ('REGION', 'V-REGION'), ('FUNCTIONALITY', 'P'), ('PARTIAL', 'FALSE'), ('ACCESSION', 'AE000659')]) OrderedDict([('ID', 'IGHV1-18*01')]) OrderedDict([('ID', 'IGHV1-69*07')]) OrderedDict([('ID', 'IGHV(III)-22-2*01')]) OrderedDict([('ID', 'TRAV11*01')]) <- test_convertIMGTHeader() 0.000 -> test_convertIlluminaHeader() OrderedDict([('ID', 'MISEQ:132:000000000-A2F3U:1:1101:14340:1555'), ('INDEX', 'ATCACG'), ('READ', '1')]) OrderedDict([('ID', 'HWI-EAS209_0006_FC706VJ:5:58:5894:21141'), ('INDEX', 'ATCACG'), ('READ', '1')]) OrderedDict([('ID', 'MS6_33112:1:1101:18371:1066'), ('READ', '1')]) <- test_convertIlluminaHeader() 0.000 -> test_convertSRAHeader() OrderedDict([('ID', 'SRR001666.1'), ('DESC', '071112_SLXA-EAS1_s_7:5:1:817:345'), ('LENGTH', '36')]) OrderedDict([('ID', 'SRR735691.1'), ('DESC', 'GXGJ56Z01AE06X'), ('LENGTH', '222')]) OrderedDict([('ID', 'SRR1383326.1'), ('DESC', '1'), ('LENGTH', '250')]) OrderedDict([('ID', 'SRR1383326.1'), ('READ', '2'), ('DESC', '1'), ('LENGTH', '250')]) OrderedDict([('ID', 'ERR346596.6'), ('DESC', 'BS-DSFCONTROL04:4:000000000-A3F0Y:1:1101:13220:1649/1')]) <- test_convertSRAHeader() 0.000 -> test_calculateDistances() <- test_calculateDistances() 0.001 -> test_countMismatches() <- test_countMismatches() 0.002 -> test_initializeMismatchDictionary() <- test_initializeMismatchDictionary() 0.000 -> test_getFileType() <- test_getFileType() 0.000 -> test_extractAlignment() SEQ1> SEQ> CCACGTTTTAGTAATTAATA ALN-SEQ> CCACGTTTTAGT ALN-PR> ----GTTTTAGT PRIMER> GTTTTAGT START> 4 END> 12 GAPS> 0 ERROR> 0.000000 SEQ2> SEQ> CCNCGTTTTAGTAATTAATA ALN-SEQ> CCNCGTTTTAGT ALN-PR> ----GTTTTAGT PRIMER> GTTTTAGT START> 4 END> 12 GAPS> 0 ERROR> 0.000000 SEQ3> SEQ> GGGCGTTTTAGTAATTAATA ALN-SEQ> GGGCGTTTTAGT ALN-PR> ----GTTTTAGT PRIMER> GTTTTAGT START> 4 END> 12 GAPS> 0 ERROR> 0.000000 SEQ4> SEQ> GGNNGTTTTACTAATTAATA ALN-SEQ> GGNNGTTTTACT ALN-PR> ----GTTTTACT PRIMER> GTTTTACT START> 4 END> 12 GAPS> 0 ERROR> 0.000000 SEQ5> SEQ> NNGCNNNNNACTAATTAATA ALN-SEQ> NNGCNNNNNACT ALN-PR> ----NNNNNACT PRIMER> NNNNNACT START> 4 END> 12 GAPS> 0 ERROR> 0.000000 SEQ6> SEQ> GGGATANNNACTAATTAATA ALN-SEQ> GGGATANNNACT ALN-PR> ----TANNNACT PRIMER> TANNNACT START> 4 END> 12 GAPS> 0 ERROR> 0.000000 SEQ7> SEQ> NNNNNNNNNNNNNNNNNNNN ALN-SEQ> NNNNNNNNNNNN ALN-PR> ----NNNNNNNN PRIMER> NNNNNNNN START> 4 END> 12 GAPS> 0 ERROR> 0.000000 <- test_extractAlignment() 0.000 -> test_localAlignment() TEST Ns> SEQ1> SEQ> CCACGTTTTAGTAATTAATA ALN-SEQ> CCACGTTTTAGTAATTAATA ALN-PR> -CACGTTTT----------- PRIMER> PR1 START> 1 END> 9 GAPS> 0 ERROR> 0.000000 SEQ2> SEQ> CCNCGTTTTAGTAATTAATA ALN-SEQ> CCNCGTTTTAGTAATTAATA ALN-PR> -CACGTTTT----------- PRIMER> PR1 START> 1 END> 9 GAPS> 0 ERROR> 0.125000 SEQ3> SEQ> GGGCGTTTTAGTAATTAATA ALN-SEQ> GGGCGTTTTAGTAATTAATA ALN-PR> -GGCGTTTT----------- PRIMER> PR2 START> 1 END> 9 GAPS> 0 ERROR> 0.000000 SEQ4> SEQ> GGNNGTTTTACTAATTAATA ALN-SEQ> GGNNGTTTTACTAATTAATA ALN-PR> GGC-GTTTT----------- PRIMER> PR2 START> 0 END> 9 GAPS> 1 ERROR> 0.250000 SEQ5> SEQ> NNGCNNNNNACTAATTAATA ALN-SEQ> NNGCNNNNNACTAATTAATA ALN-PR> ------------ANATAA-- PRIMER> PR3 START> 12 END> 18 GAPS> 0 ERROR> 0.375000 SEQ6> SEQ> GGGATANNNACTAATTAATA ALN-SEQ> GGGATANNNACTAATTAATA ALN-PR> -GGANA-------------- PRIMER> PR3 START> 1 END> 6 GAPS> 0 ERROR> 0.375000 SEQ7> SEQ> NNNNNNNNNNNNNNNNNNNN ALN-SEQ> None ALN-PR> None PRIMER> None START> None END> None GAPS> 0 ERROR> 1.000000 TEST INDELS> SEQ1> SEQ> CGGATCTTCTACTCCATACGTCCGTCAGTCGTGGATCTGATCTAGCTGCGCCTTTTTCTCAG ALN-SEQ> CGGATCTTCTACTCCATACGTCCGTCAGTCGTGGATCTGATCTAGCTGCGCCTTTTTCTCAG ALN-PR> ---------------ATACGTCCGTCAGTCGTGGATGT------------------------ PRIMER> PR1 START> 15 END> 38 GAPS> 0 ERROR> 0.083333 SEQ2> SEQ> CGGATCTTCTACTCAAAACCGTCCTCAGTCGTGGATCTGGTCTAGCTGGGGCTGTTTCCCTG ALN-SEQ> CGGATCTTCTACTCAAAACCGTCC-TCAGTCGTGGATCTGGTCTAGCTGGGGCTGTTTCCCTG ALN-PR> --------------AATAC-GTCCGTCAGTCGTGGATGT------------------------ PRIMER> PR1 START> 14 END> 38 GAPS> 2 ERROR> 0.208333 SEQ3> SEQ> GGTTTAAGTTAAGATAATACGTCCGTCAGTCGTGATCTGTTTTACATGGGGGCATCACCCAG ALN-SEQ> GGTTTAAGTTAAGATAATACGTCCGTCAGTCGTG-ATCTGTTTTACATGGGGGCATCACCCAG ALN-PR> ---------------AATACGTCCGTCAGTCGTGGATGT------------------------ PRIMER> PR1 START> 15 END> 38 GAPS> 1 ERROR> 0.125000 SEQ4> SEQ> CAACCACATGGGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCT ALN-SEQ> CAACCACATGGGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCT ALN-PR> ------CATCT-TCCTCTA------------------------------------------- PRIMER> PR2 START> 6 END> 19 GAPS> 1 ERROR> 0.250000 SEQ5> SEQ> CAACCACATGGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCTG ALN-SEQ> CAACCACATGGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCTG ALN-PR> ------CATCTTCCTCTA-------------------------------------------- PRIMER> PR2 START> 6 END> 18 GAPS> 0 ERROR> 0.166667 SEQ6> SEQ> TCTGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCTCAACCACA ALN-SEQ> TCTGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCTCAACCACA ALN-PR> TCT-TCCTCTA--------------------------------------------------- PRIMER> PR2 START> 0 END> 11 GAPS> 1 ERROR> 0.250000 SEQ7> SEQ> AGGTGAAGAAGCCTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC ALN-SEQ> AGGTGAAGAAGCCTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC ALN-PR> --GTGAAGA-GCCTG----------------------------------------------- PRIMER> PR3 START> 2 END> 15 GAPS> 1 ERROR> 0.083333 SEQ8> SEQ> A--TGAAGAAGCCTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC ALN-SEQ> A--TGAAGAAGCCTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC ALN-PR> ---TGAAGA-GCCTG----------------------------------------------- PRIMER> PR3 START> 3 END> 15 GAPS> 1 ERROR> 0.166667 SEQ9> SEQ> ANNTGAAGAAGNNTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC ALN-SEQ> ANNTGAAGAAGNNTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC ALN-PR> ---TGAAGA-GCCTG----------------------------------------------- PRIMER> PR3 START> 3 END> 15 GAPS> 1 ERROR> 0.333333 SEQ10> SEQ> -------------------------------------------------------------- ALN-SEQ> None ALN-PR> None PRIMER> None START> None END> None GAPS> 0 ERROR> 1.000000 <- test_localAlignment() 0.036 -> test_maskSeq() TEST CUT> ID> SEQ|PRIMER=A|BARCODE=CCA SEQ> AGTAATTAATA TEST MASK> ID> SEQ|PRIMER=A|BARCODE=CCA SEQ> NNNNNNAGTAATTAATA TEST TRIM> ID> SEQ|PRIMER=A|BARCODE=CCA SEQ> CGTTTTAGTAATTAATA TEST TAG> ID> SEQ|PRIMER=A|BARCODE=CCA SEQ> CCACGTTTTAGTAATTAATA <- test_maskSeq() 0.002 -> test_scoreAlignment() SEQ1> SEQ> CCACGTTTTAGTAATTAATA ALN-SEQ> CCACGTTTT ALN-PR> -CACGTTTT PRIMER> PR1 START> 1 END> 9 GAPS> 0 ERROR> 0.000000 SEQ2> SEQ> CCNCGTTTTAGTAATTAATA ALN-SEQ> CCNCGTTTT ALN-PR> -CACGTTTT PRIMER> PR1 START> 1 END> 9 GAPS> 0 ERROR> 0.125000 SEQ3> SEQ> GGGCGTTTTAGTAATTAATA ALN-SEQ> GGGCGTTTT ALN-PR> -GGCGTTTT PRIMER> PR2 START> 1 END> 9 GAPS> 0 ERROR> 0.000000 SEQ4> SEQ> GGNNGTTTTACTAATTAATA ALN-SEQ> GGNNGTTTT ALN-PR> -GGCGTTTT PRIMER> PR2 START> 1 END> 9 GAPS> 0 ERROR> 0.250000 SEQ5> SEQ> NNGCNNNNNACTAATTAATA ALN-SEQ> NNGCNNNNN ALN-PR> -GGCGTTTT PRIMER> PR2 START> 1 END> 9 GAPS> 0 ERROR> 0.750000 SEQ6> SEQ> GGGATANNNACTAATTAATA ALN-SEQ> GGGATANNN ALN-PR> -GGANATAA PRIMER> PR3 START> 1 END> 9 GAPS> 0 ERROR> 0.375000 SEQ7> SEQ> NNNNNNNNNNNNNNNNNNNN ALN-SEQ> NNNNNNNNN ALN-PR> -CACGTTTT PRIMER> None START> 1 END> 9 GAPS> 0 ERROR> 1.000000 <- test_scoreAlignment() 0.011 -> test_calculateSetError() REF> CGGCGTAA 0.4347826086956522 REF> NNNNNNNN 1.0 <- test_calculateSetError() 0.000 -> test_filterQuality() RESULT> True 25 RESULT> False 5 RESULT> False 0 <- test_filterQuality() 0.000 -> test_meanQuality() RESULT> 25 [30, 30, 20, 20, 30, 30, 40, 40] RESULT> 5 [30, 30, 0, 0, 30, 30, 20, 20] RESULT> 0 [0, 0, 0, 0, 0, 0, 0, 0] <- test_meanQuality() 0.000 -> test_scoreDNA() Default DNA Scores> A==A> 1 A==T> 0 A==R> 1 U==T> 1 A==N> 1 N==A> 1 A==-> 0 -==A> 0 Symmetric DNA Scores> A==A> 1 A==T> 0 A==R> 1 U==T> 1 A==N> 1 N==A> 1 A==-> 1 -==A> 1 Asymmetric DNA Scores> A==A> 1 A==T> 0 A==R> 1 U==T> 1 A==N> 1 N==A> 0 A==-> 1 -==A> 0 <- test_scoreDNA() 0.001 -> test_scoreSeqPair() Default DNA Scores> SEQ1> CGGCGTAA SEQ2> CGNNGTAG SCORE> 7 WEIGHT> 8 ERROR> 0.125000 SEQ1> CGGCGTAA SEQ3> CGGC--AA SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ1> CGGCGTAA SEQ4> CGNN--AG SCORE> 5 WEIGHT> 8 ERROR> 0.375000 SEQ1> CGGCGTAA SEQ5> NNNNNNNN SCORE> 8 WEIGHT> 8 ERROR> 0.000000 SEQ1> CGGCGTAA SEQ6> NNNNNNAA SCORE> 8 WEIGHT> 8 ERROR> 0.000000 SEQ1> CGGCGTAA SEQ7> -------- SCORE> 0 WEIGHT> 8 ERROR> 1.000000 SEQ1> CGGCGTAA SEQ8> CG------ SCORE> 2 WEIGHT> 8 ERROR> 0.750000 SEQ2> CGNNGTAG SEQ3> CGGC--AA SCORE> 5 WEIGHT> 8 ERROR> 0.375000 SEQ2> CGNNGTAG SEQ4> CGNN--AG SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ2> CGNNGTAG SEQ5> NNNNNNNN SCORE> 8 WEIGHT> 8 ERROR> 0.000000 SEQ2> CGNNGTAG SEQ6> NNNNNNAA SCORE> 7 WEIGHT> 8 ERROR> 0.125000 SEQ2> CGNNGTAG SEQ7> -------- SCORE> 0 WEIGHT> 8 ERROR> 1.000000 SEQ2> CGNNGTAG SEQ8> CG------ SCORE> 2 WEIGHT> 8 ERROR> 0.750000 SEQ3> CGGC--AA SEQ4> CGNN--AG SCORE> 7 WEIGHT> 8 ERROR> 0.125000 SEQ3> CGGC--AA SEQ5> NNNNNNNN SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ3> CGGC--AA SEQ6> NNNNNNAA SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ3> CGGC--AA SEQ7> -------- SCORE> 2 WEIGHT> 8 ERROR> 0.750000 SEQ3> CGGC--AA SEQ8> CG------ SCORE> 4 WEIGHT> 8 ERROR> 0.500000 SEQ4> CGNN--AG SEQ5> NNNNNNNN SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ4> CGNN--AG SEQ6> NNNNNNAA SCORE> 5 WEIGHT> 8 ERROR> 0.375000 SEQ4> CGNN--AG SEQ7> -------- SCORE> 2 WEIGHT> 8 ERROR> 0.750000 SEQ4> CGNN--AG SEQ8> CG------ SCORE> 4 WEIGHT> 8 ERROR> 0.500000 SEQ5> NNNNNNNN SEQ6> NNNNNNAA SCORE> 8 WEIGHT> 8 ERROR> 0.000000 SEQ5> NNNNNNNN SEQ7> -------- SCORE> 0 WEIGHT> 8 ERROR> 1.000000 SEQ5> NNNNNNNN SEQ8> CG------ SCORE> 2 WEIGHT> 8 ERROR> 0.750000 SEQ6> NNNNNNAA SEQ7> -------- SCORE> 0 WEIGHT> 8 ERROR> 1.000000 SEQ6> NNNNNNAA SEQ8> CG------ SCORE> 2 WEIGHT> 8 ERROR> 0.750000 SEQ7> -------- SEQ8> CG------ SCORE> 6 WEIGHT> 8 ERROR> 0.250000 Asymmetric DNA Scores> SEQ1> CGGCGTAA SEQ2> CGNNGTAG SCORE> 7 WEIGHT> 8 ERROR> 0.125000 SEQ1> CGGCGTAA SEQ3> CGGC--AA SCORE> 8 WEIGHT> 8 ERROR> 0.000000 SEQ1> CGGCGTAA SEQ4> CGNN--AG SCORE> 7 WEIGHT> 8 ERROR> 0.125000 SEQ1> CGGCGTAA SEQ5> NNNNNNNN SCORE> 8 WEIGHT> 8 ERROR> 0.000000 SEQ1> CGGCGTAA SEQ6> NNNNNNAA SCORE> 8 WEIGHT> 8 ERROR> 0.000000 SEQ1> CGGCGTAA SEQ7> -------- SCORE> 8 WEIGHT> 8 ERROR> 0.000000 SEQ1> CGGCGTAA SEQ8> CG------ SCORE> 8 WEIGHT> 8 ERROR> 0.000000 SEQ2> CGNNGTAG SEQ3> CGGC--AA SCORE> 5 WEIGHT> 8 ERROR> 0.375000 SEQ2> CGNNGTAG SEQ4> CGNN--AG SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ2> CGNNGTAG SEQ5> NNNNNNNN SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ2> CGNNGTAG SEQ6> NNNNNNAA SCORE> 5 WEIGHT> 8 ERROR> 0.375000 SEQ2> CGNNGTAG SEQ7> -------- SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ2> CGNNGTAG SEQ8> CG------ SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ3> CGGC--AA SEQ4> CGNN--AG SCORE> 5 WEIGHT> 8 ERROR> 0.375000 SEQ3> CGGC--AA SEQ5> NNNNNNNN SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ3> CGGC--AA SEQ6> NNNNNNAA SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ3> CGGC--AA SEQ7> -------- SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ3> CGGC--AA SEQ8> CG------ SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ4> CGNN--AG SEQ5> NNNNNNNN SCORE> 4 WEIGHT> 8 ERROR> 0.500000 SEQ4> CGNN--AG SEQ6> NNNNNNAA SCORE> 3 WEIGHT> 8 ERROR> 0.625000 SEQ4> CGNN--AG SEQ7> -------- SCORE> 4 WEIGHT> 8 ERROR> 0.500000 SEQ4> CGNN--AG SEQ8> CG------ SCORE> 4 WEIGHT> 8 ERROR> 0.500000 SEQ5> NNNNNNNN SEQ6> NNNNNNAA SCORE> 0 WEIGHT> 8 ERROR> 1.000000 SEQ5> NNNNNNNN SEQ7> -------- SCORE> 0 WEIGHT> 8 ERROR> 1.000000 SEQ5> NNNNNNNN SEQ8> CG------ SCORE> 0 WEIGHT> 8 ERROR> 1.000000 SEQ6> NNNNNNAA SEQ7> -------- SCORE> 2 WEIGHT> 8 ERROR> 0.750000 SEQ6> NNNNNNAA SEQ8> CG------ SCORE> 2 WEIGHT> 8 ERROR> 0.750000 SEQ7> -------- SEQ8> CG------ SCORE> 0 WEIGHT> 8 ERROR> 1.000000 Masked DNA Scores> SEQ1> CGGCGTAA SEQ2> CGNNGTAG SCORE> 5 WEIGHT> 6 ERROR> 0.166667 SEQ1> CGGCGTAA SEQ3> CGGC--AA SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ1> CGGCGTAA SEQ4> CGNN--AG SCORE> 3 WEIGHT> 6 ERROR> 0.500000 SEQ1> CGGCGTAA SEQ5> NNNNNNNN SCORE> 0 WEIGHT> 0 ERROR> 1.000000 SEQ1> CGGCGTAA SEQ6> NNNNNNAA SCORE> 2 WEIGHT> 2 ERROR> 0.000000 SEQ1> CGGCGTAA SEQ7> -------- SCORE> 0 WEIGHT> 8 ERROR> 1.000000 SEQ1> CGGCGTAA SEQ8> CG------ SCORE> 2 WEIGHT> 8 ERROR> 0.750000 SEQ2> CGNNGTAG SEQ3> CGGC--AA SCORE> 3 WEIGHT> 6 ERROR> 0.500000 SEQ2> CGNNGTAG SEQ4> CGNN--AG SCORE> 4 WEIGHT> 6 ERROR> 0.333333 SEQ2> CGNNGTAG SEQ5> NNNNNNNN SCORE> 0 WEIGHT> 0 ERROR> 1.000000 SEQ2> CGNNGTAG SEQ6> NNNNNNAA SCORE> 1 WEIGHT> 2 ERROR> 0.500000 SEQ2> CGNNGTAG SEQ7> -------- SCORE> 0 WEIGHT> 6 ERROR> 1.000000 SEQ2> CGNNGTAG SEQ8> CG------ SCORE> 2 WEIGHT> 6 ERROR> 0.666667 SEQ3> CGGC--AA SEQ4> CGNN--AG SCORE> 5 WEIGHT> 6 ERROR> 0.166667 SEQ3> CGGC--AA SEQ5> NNNNNNNN SCORE> 0 WEIGHT> 0 ERROR> 1.000000 SEQ3> CGGC--AA SEQ6> NNNNNNAA SCORE> 2 WEIGHT> 2 ERROR> 0.000000 SEQ3> CGGC--AA SEQ7> -------- SCORE> 2 WEIGHT> 8 ERROR> 0.750000 SEQ3> CGGC--AA SEQ8> CG------ SCORE> 4 WEIGHT> 8 ERROR> 0.500000 SEQ4> CGNN--AG SEQ5> NNNNNNNN SCORE> 0 WEIGHT> 0 ERROR> 1.000000 SEQ4> CGNN--AG SEQ6> NNNNNNAA SCORE> 1 WEIGHT> 2 ERROR> 0.500000 SEQ4> CGNN--AG SEQ7> -------- SCORE> 2 WEIGHT> 6 ERROR> 0.666667 SEQ4> CGNN--AG SEQ8> CG------ SCORE> 4 WEIGHT> 6 ERROR> 0.333333 SEQ5> NNNNNNNN SEQ6> NNNNNNAA SCORE> 0 WEIGHT> 0 ERROR> 1.000000 SEQ5> NNNNNNNN SEQ7> -------- SCORE> 0 WEIGHT> 0 ERROR> 1.000000 SEQ5> NNNNNNNN SEQ8> CG------ SCORE> 0 WEIGHT> 0 ERROR> 1.000000 SEQ6> NNNNNNAA SEQ7> -------- SCORE> 0 WEIGHT> 2 ERROR> 1.000000 SEQ6> NNNNNNAA SEQ8> CG------ SCORE> 0 WEIGHT> 2 ERROR> 1.000000 SEQ7> -------- SEQ8> CG------ SCORE> 6 WEIGHT> 8 ERROR> 0.250000 <- test_scoreSeqPair() 0.008 -> test_weightDNA() DNA Weight> SEQ1> 8 SEQ2> 6 SEQ3> 8 SEQ4> 6 SEQ5> 0 SEQ6> 2 SEQ7> 8 SEQ8> 8 AA Weight> SEQ1> 8 SEQ2> 6 SEQ3> 8 SEQ4> 6 <- test_weightDNA() 0.000 -> test_consensusUnify() ID> SEQ0|BARCODE=AAAA|SAMPLE=S1 -> SEQ0|BARCODE=AAAA|SAMPLE=S1 ID> SEQ1|BARCODE=AAAA|SAMPLE=S1 -> SEQ1|BARCODE=AAAA|SAMPLE=S1 ID> SEQ2|BARCODE=AAAA|SAMPLE=S2 -> SEQ2|BARCODE=AAAA|SAMPLE=S1 ID> SEQ3|BARCODE=AAAA|SAMPLE=S3 -> SEQ3|BARCODE=AAAA|SAMPLE=S1 ID> SEQ4|BARCODE=CCCC|SAMPLE=S1 -> SEQ4|BARCODE=CCCC|SAMPLE=S1 ID> SEQ5|BARCODE=CCCC|SAMPLE=S2 -> SEQ5|BARCODE=CCCC|SAMPLE=S1 ID> SEQ6|BARCODE=GGGG|SAMPLE=S2 -> SEQ6|BARCODE=GGGG|SAMPLE=S2 ID> SEQ7|BARCODE=GGGG|SAMPLE=S2 -> SEQ7|BARCODE=GGGG|SAMPLE=S2 <- test_consensusUnify() 0.001 -> test_deletionUnify() ID> SEQ0|BARCODE=AAAA|SAMPLE=S1 -> False ID> SEQ1|BARCODE=AAAA|SAMPLE=S1 -> False ID> SEQ2|BARCODE=AAAA|SAMPLE=S2 -> False ID> SEQ3|BARCODE=AAAA|SAMPLE=S3 -> False ID> SEQ4|BARCODE=CCCC|SAMPLE=S1 -> False ID> SEQ5|BARCODE=CCCC|SAMPLE=S2 -> False ID> SEQ6|BARCODE=GGGG|SAMPLE=S2 -> True ID> SEQ7|BARCODE=GGGG|SAMPLE=S2 -> True <- test_deletionUnify() 0.000 I: pybuild pybuild:310: cp -r /<>/bin /<>/.pybuild/cpython3_3.12_presto/build; I: pybuild base:305: cd /<>/.pybuild/cpython3_3.12_presto/build; python3.12 -m unittest discover -v /<>/.pybuild/cpython3_3.12_presto/build/presto/Annotation.py:293: SyntaxWarning: invalid escape sequence '\s' sub_regex = '[%s\s]+' % re.escape(''.join(delimiter)) /<>/.pybuild/cpython3_3.12_presto/build/presto/Annotation.py:368: SyntaxWarning: invalid escape sequence '\s' sub_regex = '[%s\s]+' % re.escape(''.join(delimiter[1:])) /<>/.pybuild/cpython3_3.12_presto/build/presto/Annotation.py:491: SyntaxWarning: invalid escape sequence '\s' header['SPECIES'] = re.sub('\s', '_', fields[2]) /<>/.pybuild/cpython3_3.12_presto/build/presto/Annotation.py:493: SyntaxWarning: invalid escape sequence '\(' header['FUNCTIONALITY'] = re.sub('[\(\)\[\]]', '', fields[3]) /<>/.pybuild/cpython3_3.12_presto/build/presto/Annotation.py:494: SyntaxWarning: invalid escape sequence '\s' header['PARTIAL'] = 'FALSE' if re.sub('\s', '', fields[13]) == '' else 'TRUE' /<>/.pybuild/cpython3_3.12_presto/build/presto/IO.py:34: SyntaxWarning: invalid escape sequence '\s' if replace_special: parse_id = lambda x: re.sub('[\s,=|]+', '_', x) /<>/.pybuild/cpython3_3.12_presto/build/presto/Applications.py:61: SyntaxWarning: invalid escape sequence '\.' version = re.sub('\.linux.*$','',version) /<>/.pybuild/cpython3_3.12_presto/build/presto/Applications.py:288: SyntaxWarning: invalid escape sequence '\>' id_regex = re.compile('([0-9]+\t[0-9]+nt, \>)(.+)(\.\.\.)') test_collapseAnnotation (tests.test_Annotation.TestAnnotation.test_collapseAnnotation) ... ok test_getCoordKey (tests.test_Annotation.TestAnnotation.test_getCoordKey) ... ok test_mergeAnnotation (tests.test_Annotation.TestAnnotation.test_mergeAnnotation) ... ok test_renameAnnotation (tests.test_Annotation.TestAnnotation.test_renameAnnotation) ... ok test_alignAssembly (tests.test_AssemblePairs.TestAssemblePairs.test_alignAssembly) ... skipped '-> alignAssembly() skipped\n' test_makeBlastnDb (tests.test_AssemblePairs.TestAssemblePairs.test_makeBlastnDb) ... skipped '-> makeBlastnDb() skipped\n' test_makeUSearchDb (tests.test_AssemblePairs.TestAssemblePairs.test_makeUSearchDb) ... skipped '-> makeUSearchDb() skipped\n' test_referenceAssembly (tests.test_AssemblePairs.TestAssemblePairs.test_referenceAssembly) ... skipped '-> referenceAssembly() skipped\n' test_runBlastn (tests.test_AssemblePairs.TestAssemblePairs.test_runBlastn) ... skipped '-> runBlastn() skipped\n' test_runUSearch (tests.test_AssemblePairs.TestAssemblePairs.test_runUSearch) ... skipped '-> runUSearch() skipped\n' test_calculateSetError (tests.test_BuildConsensus.TestBuildConsensus.test_calculateSetError) ... ok test_deleteSeqPositions (tests.test_BuildConsensus.TestBuildConsensus.test_deleteSeqPositions) ... ok test_findGapPositions (tests.test_BuildConsensus.TestBuildConsensus.test_findGapPositions) ... ok test_frequencyConsensus (tests.test_BuildConsensus.TestBuildConsensus.test_frequencyConsensus) ... ok test_qualityConsensus (tests.test_BuildConsensus.TestBuildConsensus.test_qualityConsensus) ... ok test_runCDHit (tests.test_ClusterSets.TestClusterSets.test_runCDHit) ... ok test_runUClust (tests.test_ClusterSets.TestClusterSets.test_runUClust) ... ok test_checkSeqEqual (tests.test_CollapseSeq.TestCollapseSeq.test_checkSeqEqual) ... ok test_convert454Header (tests.test_ConvertHeaders.TestConvertHeaders.test_convert454Header) ... ok test_convertGenbankHeader (tests.test_ConvertHeaders.TestConvertHeaders.test_convertGenbankHeader) ... ok test_convertGenericHeader (tests.test_ConvertHeaders.TestConvertHeaders.test_convertGenericHeader) ... ok test_convertIMGTHeader (tests.test_ConvertHeaders.TestConvertHeaders.test_convertIMGTHeader) ... ok test_convertIlluminaHeader (tests.test_ConvertHeaders.TestConvertHeaders.test_convertIlluminaHeader) ... ok test_convertSRAHeader (tests.test_ConvertHeaders.TestConvertHeaders.test_convertSRAHeader) ... ok test_calculateDistances (tests.test_EstimateError.TestEstimateError.test_calculateDistances) ... ok test_countMismatches (tests.test_EstimateError.TestEstimateError.test_countMismatches) ... ok test_initializeMismatchDictionary (tests.test_EstimateError.TestEstimateError.test_initializeMismatchDictionary) ... ok test_getFileType (tests.test_IO.TestIO.test_getFileType) ... ok test_extractAlignment (tests.test_MaskPrimers.TestMaskPrimers.test_extractAlignment) ... ok test_localAlignment (tests.test_MaskPrimers.TestMaskPrimers.test_localAlignment) ... ok test_maskSeq (tests.test_MaskPrimers.TestMaskPrimers.test_maskSeq) ... ok test_scoreAlignment (tests.test_MaskPrimers.TestMaskPrimers.test_scoreAlignment) ... ok test_calculateSetError (tests.test_Sequence.TestSequence.test_calculateSetError) ... ok test_filterQuality (tests.test_Sequence.TestSequence.test_filterQuality) ... ok test_meanQuality (tests.test_Sequence.TestSequence.test_meanQuality) ... ok test_scoreDNA (tests.test_Sequence.TestSequence.test_scoreDNA) ... ok test_scoreSeqPair (tests.test_Sequence.TestSequence.test_scoreSeqPair) ... ok test_weightDNA (tests.test_Sequence.TestSequence.test_weightDNA) ... ok test_consensusUnify (tests.test_UnifyHeaders.TestConvertHeaders.test_consensusUnify) ... ok test_deletionUnify (tests.test_UnifyHeaders.TestConvertHeaders.test_deletionUnify) ... ok ---------------------------------------------------------------------- Ran 40 tests in 0.106s OK (skipped=6) -> test_collapseAnnotation() OrderedDict({'ID': 'SEQ1', 'TEST1': 'A', 'TEST2': 1, 'TEST3': 'First'}) OrderedDict({'ID': 'SEQ1', 'TEST1': 'B', 'TEST2': 2, 'TEST3': 'Second'}) OrderedDict({'ID': 'SEQ1', 'TEST1': ['A', 'B'], 'TEST2': [1, 2], 'TEST3': ['First', 'Second']}) OrderedDict({'ID': 'SEQ1', 'TEST1': 'AB', 'TEST2': '12', 'TEST3': 'FirstSecond'}) OrderedDict({'ID': 'SEQ1', 'TEST1': 'A,B', 'TEST2': '1', 'TEST3': ['First', 'Second']}) OrderedDict({'ID': 'SEQ1', 'TEST1': 'A,B', 'TEST2': '2', 'TEST3': ['First', 'Second']}) OrderedDict({'ID': 'SEQ1', 'TEST1': 'A,B', 'TEST2': '3', 'TEST3': ['First', 'Second']}) <- test_collapseAnnotation() 0.000 -> test_getCoordKey() ['MISEQ:132:000000000-A2F3U:1:1101:14340:1555', 'HWI-EAS209_0006_FC706VJ:5:58:5894:21141', 'MS6_33112:1:1101:18371:1066'] ['SRR001666.1', 'SRR735691.1', 'SRR1383326.1', 'SRR1383326.1', 'ERR346596.6'] ['000034_0199_0169', 'GXGJ56Z01AE06X'] <- test_getCoordKey() 0.000 -> test_mergeAnnotation() OrderedDict({'ID': 'SEQ1', 'TEST1': 'A,B,C,C', 'TEST2': '1,2,3', 'TEST3': ['First', 'Second']}) OrderedDict({'ID': 'SEQ1', 'TEST1': 'C,C,A,B', 'TEST2': '3,1,2', 'TEST3': ['First', 'Second']}) <- test_mergeAnnotation() 0.000 -> test_renameAnnotation() OrderedDict({'ID': 'SEQ1', 'RENAMED1': 'A,B', 'TEST2': [1, 2], 'TEST3': ['First', 'Second']}) OrderedDict({'ID': 'SEQ1', 'RENAMED2': 'A,B', 'TEST2': [1, 2], 'TEST3': ['First', 'Second']}) OrderedDict({'ID': 'SEQ1', 'TEST1': 'A,B,1,2', 'TEST3': ['First', 'Second']}) OrderedDict({'ID': 'SEQ1', 'TEST1': 'A,B,1,2,First,Second'}) <- test_renameAnnotation() 0.000 -> test_calculateSetError() Frequency consensus error> REF> CGGCGTAA SEQ1> CGGCGTAA SEQ2> CCNNGTAA SEQ3> CGGC--TA SEQ4> CGNN--TA SEQ5> CGGC--AA ERROR> 0.250000 Quality consensus error> REF> CGGCNNAA SEQ1> CGGCGTAA SEQ2> CCNNGTAA SEQ3> CGGC--TA SEQ4> CGNN--TA SEQ5> CGGC--AA ERROR> 0.233333 <- test_calculateSetError() 0.000 -> test_deleteSeqPositions() MAX_GAP=0.4> CGGCAA MAX_GAP=0.8> CGGCGTAA <- test_deleteSeqPositions() 0.000 -> test_findGapPositions() MAX_GAP=0.4> [4, 5] MAX_GAP=0.8> [] <- test_findGapPositions() 0.000 -> test_frequencyConsensus() MIN_FREQ=0.2> CGGCGTAA MIN_FREQ=0.8> CGGCGTNA <- test_frequencyConsensus() 0.000 -> test_qualityConsensus() MIN_QUAL=0> CGGCGTAA [90, 90, 36, 36, 16, 16, 72, 90] MIN_QUAL=20> CGGCNNAA [90, 90, 36, 36, 0, 0, 72, 90] MIN_FREQ=0.8> CGGCNNNA [90, 90, 36, 36, 0, 0, 0, 90] <- test_qualityConsensus() 0.000 -> test_runCDHit() FULL_LENGTH> {1: ['SEQ1', 'SEQ2', 'SEQ3'], 2: ['SEQ4', 'SEQ5']} TRIMMED> {1: ['SEQ1', 'SEQ2', 'SEQ3'], 2: ['SEQ4', 'SEQ5']} ZERO_LENGTH> None <- test_runCDHit() 0.011 -> test_runUClust() FULL_LENGTH> {1: ['SEQ1', 'SEQ2', 'SEQ3'], 2: ['SEQ4', 'SEQ5']} TRIMMED> {1: ['SEQ1', 'SEQ2', 'SEQ3'], 2: ['SEQ4', 'SEQ5']} ZERO_LENGTH> None <- test_runUClust() 0.022 -> test_checkSeqEqual() DNA Equality> SEQ1|COUNT=1> CCACGTTTTAGTAATTAATA SEQ2|COUNT=2> CCACGTTTTAGTAATTAATA EQUAL> True SEQ1|COUNT=1> CCACGTTTTAGTAATTAATA SEQ3|COUNT=3> CCACGTTTTACTAATTAATA EQUAL> False SEQ1|COUNT=1> CCACGTTTTAGTAATTAATA SEQ4|COUNT=4> CCACGTTTTANTAATTAATA EQUAL> True SEQ2|COUNT=2> CCACGTTTTAGTAATTAATA SEQ3|COUNT=3> CCACGTTTTACTAATTAATA EQUAL> False SEQ2|COUNT=2> CCACGTTTTAGTAATTAATA SEQ4|COUNT=4> CCACGTTTTANTAATTAATA EQUAL> True SEQ3|COUNT=3> CCACGTTTTACTAATTAATA SEQ4|COUNT=4> CCACGTTTTANTAATTAATA EQUAL> True <- test_checkSeqEqual() 0.000 -> test_convert454Header() OrderedDict({'ID': '000034_0199_0169', 'LENGTH': '437', 'UACCNO': 'GNDG01201ARRCR'}) OrderedDict({'ID': 'GXGJ56Z01AE06X', 'LENGTH': '222'}) <- test_convert454Header() 0.000 -> test_convertGenbankHeader() OrderedDict({'ID': 'CM000663.2', 'GI': '568336023', 'SOURCE': 'gb', 'DESC': 'Homo_sapiens_chromosome_1_GRCh38_reference_primary_assembly'}) OrderedDict({'ID': 'CM000663.2', 'DESC': 'Homo_sapiens_chromosome_1__GRCh38_reference_primary_assembly'}) <- test_convertGenbankHeader() 0.000 -> test_convertGenericHeader() OrderedDict({'ID': 'gi_568336023_gb_CM000663.2_Homo_sapiens_chromosome_1_GRCh38_reference_primary_assembly'}) OrderedDict({'ID': 'CM000663.2_Homo_sapiens_chromosome_1_GRCh38_reference_primary_assembly'}) OrderedDict({'ID': 'M99641_IGHV1-18*01_Homo_sapiens_F_V-REGION_188..483_296_nt_1_296+24_320_'}) OrderedDict({'ID': "Z29978_IGHV1-69*07_Homo_sapiens_F_V-REGION_1..233_233_nt_1_233+58_291_partial_in_5'_and_in_3'_"}) OrderedDict({'ID': 'AB019439_IGHV(III)-22-2*01_Homo_sapiens_P_L-PART1+V-EXON_168065..168119+168222..168262_96_nt_1_96+0_96_'}) OrderedDict({'ID': 'AE000659_TRAV11*01_Homo_sapiens_(P)_V-REGION_85121..85397_276_nt_1_276+42_318_'}) <- test_convertGenericHeader() 0.000 -> test_convertIMGTHeader() OrderedDict({'ID': 'IGHV1-18*01', 'SPECIES': 'Homo_sapiens', 'REGION': 'V-REGION', 'FUNCTIONALITY': 'F', 'PARTIAL': 'FALSE', 'ACCESSION': 'M99641'}) OrderedDict({'ID': 'IGHV1-69*07', 'SPECIES': 'Homo_sapiens', 'REGION': 'V-REGION', 'FUNCTIONALITY': 'F', 'PARTIAL': 'TRUE', 'ACCESSION': 'Z29978'}) OrderedDict({'ID': 'IGHV(III)-22-2*01', 'SPECIES': 'Homo_sapiens', 'REGION': 'L-PART1+V-EXON', 'FUNCTIONALITY': 'P', 'PARTIAL': 'FALSE', 'ACCESSION': 'AB019439'}) OrderedDict({'ID': 'TRAV11*01', 'SPECIES': 'Homo_sapiens', 'REGION': 'V-REGION', 'FUNCTIONALITY': 'P', 'PARTIAL': 'FALSE', 'ACCESSION': 'AE000659'}) OrderedDict({'ID': 'IGHV1-18*01'}) OrderedDict({'ID': 'IGHV1-69*07'}) OrderedDict({'ID': 'IGHV(III)-22-2*01'}) OrderedDict({'ID': 'TRAV11*01'}) <- test_convertIMGTHeader() 0.000 -> test_convertIlluminaHeader() OrderedDict({'ID': 'MISEQ:132:000000000-A2F3U:1:1101:14340:1555', 'INDEX': 'ATCACG', 'READ': '1'}) OrderedDict({'ID': 'HWI-EAS209_0006_FC706VJ:5:58:5894:21141', 'INDEX': 'ATCACG', 'READ': '1'}) OrderedDict({'ID': 'MS6_33112:1:1101:18371:1066', 'READ': '1'}) <- test_convertIlluminaHeader() 0.000 -> test_convertSRAHeader() OrderedDict({'ID': 'SRR001666.1', 'DESC': '071112_SLXA-EAS1_s_7:5:1:817:345', 'LENGTH': '36'}) OrderedDict({'ID': 'SRR735691.1', 'DESC': 'GXGJ56Z01AE06X', 'LENGTH': '222'}) OrderedDict({'ID': 'SRR1383326.1', 'DESC': '1', 'LENGTH': '250'}) OrderedDict({'ID': 'SRR1383326.1', 'READ': '2', 'DESC': '1', 'LENGTH': '250'}) OrderedDict({'ID': 'ERR346596.6', 'DESC': 'BS-DSFCONTROL04:4:000000000-A3F0Y:1:1101:13220:1649/1'}) <- test_convertSRAHeader() 0.000 -> test_calculateDistances() <- test_calculateDistances() 0.001 -> test_countMismatches() <- test_countMismatches() 0.002 -> test_initializeMismatchDictionary() <- test_initializeMismatchDictionary() 0.000 -> test_getFileType() <- test_getFileType() 0.000 -> test_extractAlignment() SEQ1> SEQ> CCACGTTTTAGTAATTAATA ALN-SEQ> CCACGTTTTAGT ALN-PR> ----GTTTTAGT PRIMER> GTTTTAGT START> 4 END> 12 GAPS> 0 ERROR> 0.000000 SEQ2> SEQ> CCNCGTTTTAGTAATTAATA ALN-SEQ> CCNCGTTTTAGT ALN-PR> ----GTTTTAGT PRIMER> GTTTTAGT START> 4 END> 12 GAPS> 0 ERROR> 0.000000 SEQ3> SEQ> GGGCGTTTTAGTAATTAATA ALN-SEQ> GGGCGTTTTAGT ALN-PR> ----GTTTTAGT PRIMER> GTTTTAGT START> 4 END> 12 GAPS> 0 ERROR> 0.000000 SEQ4> SEQ> GGNNGTTTTACTAATTAATA ALN-SEQ> GGNNGTTTTACT ALN-PR> ----GTTTTACT PRIMER> GTTTTACT START> 4 END> 12 GAPS> 0 ERROR> 0.000000 SEQ5> SEQ> NNGCNNNNNACTAATTAATA ALN-SEQ> NNGCNNNNNACT ALN-PR> ----NNNNNACT PRIMER> NNNNNACT START> 4 END> 12 GAPS> 0 ERROR> 0.000000 SEQ6> SEQ> GGGATANNNACTAATTAATA ALN-SEQ> GGGATANNNACT ALN-PR> ----TANNNACT PRIMER> TANNNACT START> 4 END> 12 GAPS> 0 ERROR> 0.000000 SEQ7> SEQ> NNNNNNNNNNNNNNNNNNNN ALN-SEQ> NNNNNNNNNNNN ALN-PR> ----NNNNNNNN PRIMER> NNNNNNNN START> 4 END> 12 GAPS> 0 ERROR> 0.000000 <- test_extractAlignment() 0.000 -> test_localAlignment() TEST Ns> SEQ1> SEQ> CCACGTTTTAGTAATTAATA ALN-SEQ> CCACGTTTTAGTAATTAATA ALN-PR> -CACGTTTT----------- PRIMER> PR1 START> 1 END> 9 GAPS> 0 ERROR> 0.000000 SEQ2> SEQ> CCNCGTTTTAGTAATTAATA ALN-SEQ> CCNCGTTTTAGTAATTAATA ALN-PR> -CACGTTTT----------- PRIMER> PR1 START> 1 END> 9 GAPS> 0 ERROR> 0.125000 SEQ3> SEQ> GGGCGTTTTAGTAATTAATA ALN-SEQ> GGGCGTTTTAGTAATTAATA ALN-PR> -GGCGTTTT----------- PRIMER> PR2 START> 1 END> 9 GAPS> 0 ERROR> 0.000000 SEQ4> SEQ> GGNNGTTTTACTAATTAATA ALN-SEQ> GGNNGTTTTACTAATTAATA ALN-PR> GGC-GTTTT----------- PRIMER> PR2 START> 0 END> 9 GAPS> 1 ERROR> 0.250000 SEQ5> SEQ> NNGCNNNNNACTAATTAATA ALN-SEQ> NNGCNNNNNACTAATTAATA ALN-PR> ------------ANATAA-- PRIMER> PR3 START> 12 END> 18 GAPS> 0 ERROR> 0.375000 SEQ6> SEQ> GGGATANNNACTAATTAATA ALN-SEQ> GGGATANNNACTAATTAATA ALN-PR> -GGANA-------------- PRIMER> PR3 START> 1 END> 6 GAPS> 0 ERROR> 0.375000 SEQ7> SEQ> NNNNNNNNNNNNNNNNNNNN ALN-SEQ> None ALN-PR> None PRIMER> None START> None END> None GAPS> 0 ERROR> 1.000000 TEST INDELS> SEQ1> SEQ> CGGATCTTCTACTCCATACGTCCGTCAGTCGTGGATCTGATCTAGCTGCGCCTTTTTCTCAG ALN-SEQ> CGGATCTTCTACTCCATACGTCCGTCAGTCGTGGATCTGATCTAGCTGCGCCTTTTTCTCAG ALN-PR> ---------------ATACGTCCGTCAGTCGTGGATGT------------------------ PRIMER> PR1 START> 15 END> 38 GAPS> 0 ERROR> 0.083333 SEQ2> SEQ> CGGATCTTCTACTCAAAACCGTCCTCAGTCGTGGATCTGGTCTAGCTGGGGCTGTTTCCCTG ALN-SEQ> CGGATCTTCTACTCAAAACCGTCC-TCAGTCGTGGATCTGGTCTAGCTGGGGCTGTTTCCCTG ALN-PR> --------------AATAC-GTCCGTCAGTCGTGGATGT------------------------ PRIMER> PR1 START> 14 END> 38 GAPS> 2 ERROR> 0.208333 SEQ3> SEQ> GGTTTAAGTTAAGATAATACGTCCGTCAGTCGTGATCTGTTTTACATGGGGGCATCACCCAG ALN-SEQ> GGTTTAAGTTAAGATAATACGTCCGTCAGTCGTG-ATCTGTTTTACATGGGGGCATCACCCAG ALN-PR> ---------------AATACGTCCGTCAGTCGTGGATGT------------------------ PRIMER> PR1 START> 15 END> 38 GAPS> 1 ERROR> 0.125000 SEQ4> SEQ> CAACCACATGGGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCT ALN-SEQ> CAACCACATGGGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCT ALN-PR> ------CATCT-TCCTCTA------------------------------------------- PRIMER> PR2 START> 6 END> 19 GAPS> 1 ERROR> 0.250000 SEQ5> SEQ> CAACCACATGGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCTG ALN-SEQ> CAACCACATGGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCTG ALN-PR> ------CATCTTCCTCTA-------------------------------------------- PRIMER> PR2 START> 6 END> 18 GAPS> 0 ERROR> 0.166667 SEQ6> SEQ> TCTGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCTCAACCACA ALN-SEQ> TCTGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCTCAACCACA ALN-PR> TCT-TCCTCTA--------------------------------------------------- PRIMER> PR2 START> 0 END> 11 GAPS> 1 ERROR> 0.250000 SEQ7> SEQ> AGGTGAAGAAGCCTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC ALN-SEQ> AGGTGAAGAAGCCTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC ALN-PR> --GTGAAGA-GCCTG----------------------------------------------- PRIMER> PR3 START> 2 END> 15 GAPS> 1 ERROR> 0.083333 SEQ8> SEQ> A--TGAAGAAGCCTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC ALN-SEQ> A--TGAAGAAGCCTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC ALN-PR> ---TGAAGA-GCCTG----------------------------------------------- PRIMER> PR3 START> 3 END> 15 GAPS> 1 ERROR> 0.166667 SEQ9> SEQ> ANNTGAAGAAGNNTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC ALN-SEQ> ANNTGAAGAAGNNTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC ALN-PR> ---TGAAGA-GCCTG----------------------------------------------- PRIMER> PR3 START> 3 END> 15 GAPS> 1 ERROR> 0.333333 SEQ10> SEQ> -------------------------------------------------------------- ALN-SEQ> None ALN-PR> None PRIMER> None START> None END> None GAPS> 0 ERROR> 1.000000 <- test_localAlignment() 0.037 -> test_maskSeq() TEST CUT> ID> SEQ|PRIMER=A|BARCODE=CCA SEQ> AGTAATTAATA TEST MASK> ID> SEQ|PRIMER=A|BARCODE=CCA SEQ> NNNNNNAGTAATTAATA TEST TRIM> ID> SEQ|PRIMER=A|BARCODE=CCA SEQ> CGTTTTAGTAATTAATA TEST TAG> ID> SEQ|PRIMER=A|BARCODE=CCA SEQ> CCACGTTTTAGTAATTAATA <- test_maskSeq() 0.002 -> test_scoreAlignment() SEQ1> SEQ> CCACGTTTTAGTAATTAATA ALN-SEQ> CCACGTTTT ALN-PR> -CACGTTTT PRIMER> PR1 START> 1 END> 9 GAPS> 0 ERROR> 0.000000 SEQ2> SEQ> CCNCGTTTTAGTAATTAATA ALN-SEQ> CCNCGTTTT ALN-PR> -CACGTTTT PRIMER> PR1 START> 1 END> 9 GAPS> 0 ERROR> 0.125000 SEQ3> SEQ> GGGCGTTTTAGTAATTAATA ALN-SEQ> GGGCGTTTT ALN-PR> -GGCGTTTT PRIMER> PR2 START> 1 END> 9 GAPS> 0 ERROR> 0.000000 SEQ4> SEQ> GGNNGTTTTACTAATTAATA ALN-SEQ> GGNNGTTTT ALN-PR> -GGCGTTTT PRIMER> PR2 START> 1 END> 9 GAPS> 0 ERROR> 0.250000 SEQ5> SEQ> NNGCNNNNNACTAATTAATA ALN-SEQ> NNGCNNNNN ALN-PR> -GGCGTTTT PRIMER> PR2 START> 1 END> 9 GAPS> 0 ERROR> 0.750000 SEQ6> SEQ> GGGATANNNACTAATTAATA ALN-SEQ> GGGATANNN ALN-PR> -GGANATAA PRIMER> PR3 START> 1 END> 9 GAPS> 0 ERROR> 0.375000 SEQ7> SEQ> NNNNNNNNNNNNNNNNNNNN ALN-SEQ> NNNNNNNNN ALN-PR> -CACGTTTT PRIMER> None START> 1 END> 9 GAPS> 0 ERROR> 1.000000 <- test_scoreAlignment() 0.011 -> test_calculateSetError() REF> CGGCGTAA 0.4347826086956522 REF> NNNNNNNN 1.0 <- test_calculateSetError() 0.000 -> test_filterQuality() RESULT> True 25 RESULT> False 5 RESULT> False 0 <- test_filterQuality() 0.000 -> test_meanQuality() RESULT> 25 [30, 30, 20, 20, 30, 30, 40, 40] RESULT> 5 [30, 30, 0, 0, 30, 30, 20, 20] RESULT> 0 [0, 0, 0, 0, 0, 0, 0, 0] <- test_meanQuality() 0.000 -> test_scoreDNA() Default DNA Scores> A==A> 1 A==T> 0 A==R> 1 U==T> 1 A==N> 1 N==A> 1 A==-> 0 -==A> 0 Symmetric DNA Scores> A==A> 1 A==T> 0 A==R> 1 U==T> 1 A==N> 1 N==A> 1 A==-> 1 -==A> 1 Asymmetric DNA Scores> A==A> 1 A==T> 0 A==R> 1 U==T> 1 A==N> 1 N==A> 0 A==-> 1 -==A> 0 <- test_scoreDNA() 0.001 -> test_scoreSeqPair() Default DNA Scores> SEQ1> CGGCGTAA SEQ2> CGNNGTAG SCORE> 7 WEIGHT> 8 ERROR> 0.125000 SEQ1> CGGCGTAA SEQ3> CGGC--AA SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ1> CGGCGTAA SEQ4> CGNN--AG SCORE> 5 WEIGHT> 8 ERROR> 0.375000 SEQ1> CGGCGTAA SEQ5> NNNNNNNN SCORE> 8 WEIGHT> 8 ERROR> 0.000000 SEQ1> CGGCGTAA SEQ6> NNNNNNAA SCORE> 8 WEIGHT> 8 ERROR> 0.000000 SEQ1> CGGCGTAA SEQ7> -------- SCORE> 0 WEIGHT> 8 ERROR> 1.000000 SEQ1> CGGCGTAA SEQ8> CG------ SCORE> 2 WEIGHT> 8 ERROR> 0.750000 SEQ2> CGNNGTAG SEQ3> CGGC--AA SCORE> 5 WEIGHT> 8 ERROR> 0.375000 SEQ2> CGNNGTAG SEQ4> CGNN--AG SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ2> CGNNGTAG SEQ5> NNNNNNNN SCORE> 8 WEIGHT> 8 ERROR> 0.000000 SEQ2> CGNNGTAG SEQ6> NNNNNNAA SCORE> 7 WEIGHT> 8 ERROR> 0.125000 SEQ2> CGNNGTAG SEQ7> -------- SCORE> 0 WEIGHT> 8 ERROR> 1.000000 SEQ2> CGNNGTAG SEQ8> CG------ SCORE> 2 WEIGHT> 8 ERROR> 0.750000 SEQ3> CGGC--AA SEQ4> CGNN--AG SCORE> 7 WEIGHT> 8 ERROR> 0.125000 SEQ3> CGGC--AA SEQ5> NNNNNNNN SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ3> CGGC--AA SEQ6> NNNNNNAA SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ3> CGGC--AA SEQ7> -------- SCORE> 2 WEIGHT> 8 ERROR> 0.750000 SEQ3> CGGC--AA SEQ8> CG------ SCORE> 4 WEIGHT> 8 ERROR> 0.500000 SEQ4> CGNN--AG SEQ5> NNNNNNNN SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ4> CGNN--AG SEQ6> NNNNNNAA SCORE> 5 WEIGHT> 8 ERROR> 0.375000 SEQ4> CGNN--AG SEQ7> -------- SCORE> 2 WEIGHT> 8 ERROR> 0.750000 SEQ4> CGNN--AG SEQ8> CG------ SCORE> 4 WEIGHT> 8 ERROR> 0.500000 SEQ5> NNNNNNNN SEQ6> NNNNNNAA SCORE> 8 WEIGHT> 8 ERROR> 0.000000 SEQ5> NNNNNNNN SEQ7> -------- SCORE> 0 WEIGHT> 8 ERROR> 1.000000 SEQ5> NNNNNNNN SEQ8> CG------ SCORE> 2 WEIGHT> 8 ERROR> 0.750000 SEQ6> NNNNNNAA SEQ7> -------- SCORE> 0 WEIGHT> 8 ERROR> 1.000000 SEQ6> NNNNNNAA SEQ8> CG------ SCORE> 2 WEIGHT> 8 ERROR> 0.750000 SEQ7> -------- SEQ8> CG------ SCORE> 6 WEIGHT> 8 ERROR> 0.250000 Asymmetric DNA Scores> SEQ1> CGGCGTAA SEQ2> CGNNGTAG SCORE> 7 WEIGHT> 8 ERROR> 0.125000 SEQ1> CGGCGTAA SEQ3> CGGC--AA SCORE> 8 WEIGHT> 8 ERROR> 0.000000 SEQ1> CGGCGTAA SEQ4> CGNN--AG SCORE> 7 WEIGHT> 8 ERROR> 0.125000 SEQ1> CGGCGTAA SEQ5> NNNNNNNN SCORE> 8 WEIGHT> 8 ERROR> 0.000000 SEQ1> CGGCGTAA SEQ6> NNNNNNAA SCORE> 8 WEIGHT> 8 ERROR> 0.000000 SEQ1> CGGCGTAA SEQ7> -------- SCORE> 8 WEIGHT> 8 ERROR> 0.000000 SEQ1> CGGCGTAA SEQ8> CG------ SCORE> 8 WEIGHT> 8 ERROR> 0.000000 SEQ2> CGNNGTAG SEQ3> CGGC--AA SCORE> 5 WEIGHT> 8 ERROR> 0.375000 SEQ2> CGNNGTAG SEQ4> CGNN--AG SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ2> CGNNGTAG SEQ5> NNNNNNNN SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ2> CGNNGTAG SEQ6> NNNNNNAA SCORE> 5 WEIGHT> 8 ERROR> 0.375000 SEQ2> CGNNGTAG SEQ7> -------- SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ2> CGNNGTAG SEQ8> CG------ SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ3> CGGC--AA SEQ4> CGNN--AG SCORE> 5 WEIGHT> 8 ERROR> 0.375000 SEQ3> CGGC--AA SEQ5> NNNNNNNN SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ3> CGGC--AA SEQ6> NNNNNNAA SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ3> CGGC--AA SEQ7> -------- SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ3> CGGC--AA SEQ8> CG------ SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ4> CGNN--AG SEQ5> NNNNNNNN SCORE> 4 WEIGHT> 8 ERROR> 0.500000 SEQ4> CGNN--AG SEQ6> NNNNNNAA SCORE> 3 WEIGHT> 8 ERROR> 0.625000 SEQ4> CGNN--AG SEQ7> -------- SCORE> 4 WEIGHT> 8 ERROR> 0.500000 SEQ4> CGNN--AG SEQ8> CG------ SCORE> 4 WEIGHT> 8 ERROR> 0.500000 SEQ5> NNNNNNNN SEQ6> NNNNNNAA SCORE> 0 WEIGHT> 8 ERROR> 1.000000 SEQ5> NNNNNNNN SEQ7> -------- SCORE> 0 WEIGHT> 8 ERROR> 1.000000 SEQ5> NNNNNNNN SEQ8> CG------ SCORE> 0 WEIGHT> 8 ERROR> 1.000000 SEQ6> NNNNNNAA SEQ7> -------- SCORE> 2 WEIGHT> 8 ERROR> 0.750000 SEQ6> NNNNNNAA SEQ8> CG------ SCORE> 2 WEIGHT> 8 ERROR> 0.750000 SEQ7> -------- SEQ8> CG------ SCORE> 0 WEIGHT> 8 ERROR> 1.000000 Masked DNA Scores> SEQ1> CGGCGTAA SEQ2> CGNNGTAG SCORE> 5 WEIGHT> 6 ERROR> 0.166667 SEQ1> CGGCGTAA SEQ3> CGGC--AA SCORE> 6 WEIGHT> 8 ERROR> 0.250000 SEQ1> CGGCGTAA SEQ4> CGNN--AG SCORE> 3 WEIGHT> 6 ERROR> 0.500000 SEQ1> CGGCGTAA SEQ5> NNNNNNNN SCORE> 0 WEIGHT> 0 ERROR> 1.000000 SEQ1> CGGCGTAA SEQ6> NNNNNNAA SCORE> 2 WEIGHT> 2 ERROR> 0.000000 SEQ1> CGGCGTAA SEQ7> -------- SCORE> 0 WEIGHT> 8 ERROR> 1.000000 SEQ1> CGGCGTAA SEQ8> CG------ SCORE> 2 WEIGHT> 8 ERROR> 0.750000 SEQ2> CGNNGTAG SEQ3> CGGC--AA SCORE> 3 WEIGHT> 6 ERROR> 0.500000 SEQ2> CGNNGTAG SEQ4> CGNN--AG SCORE> 4 WEIGHT> 6 ERROR> 0.333333 SEQ2> CGNNGTAG SEQ5> NNNNNNNN SCORE> 0 WEIGHT> 0 ERROR> 1.000000 SEQ2> CGNNGTAG SEQ6> NNNNNNAA SCORE> 1 WEIGHT> 2 ERROR> 0.500000 SEQ2> CGNNGTAG SEQ7> -------- SCORE> 0 WEIGHT> 6 ERROR> 1.000000 SEQ2> CGNNGTAG SEQ8> CG------ SCORE> 2 WEIGHT> 6 ERROR> 0.666667 SEQ3> CGGC--AA SEQ4> CGNN--AG SCORE> 5 WEIGHT> 6 ERROR> 0.166667 SEQ3> CGGC--AA SEQ5> NNNNNNNN SCORE> 0 WEIGHT> 0 ERROR> 1.000000 SEQ3> CGGC--AA SEQ6> NNNNNNAA SCORE> 2 WEIGHT> 2 ERROR> 0.000000 SEQ3> CGGC--AA SEQ7> -------- SCORE> 2 WEIGHT> 8 ERROR> 0.750000 SEQ3> CGGC--AA SEQ8> CG------ SCORE> 4 WEIGHT> 8 ERROR> 0.500000 SEQ4> CGNN--AG SEQ5> NNNNNNNN SCORE> 0 WEIGHT> 0 ERROR> 1.000000 SEQ4> CGNN--AG SEQ6> NNNNNNAA SCORE> 1 WEIGHT> 2 ERROR> 0.500000 SEQ4> CGNN--AG SEQ7> -------- SCORE> 2 WEIGHT> 6 ERROR> 0.666667 SEQ4> CGNN--AG SEQ8> CG------ SCORE> 4 WEIGHT> 6 ERROR> 0.333333 SEQ5> NNNNNNNN SEQ6> NNNNNNAA SCORE> 0 WEIGHT> 0 ERROR> 1.000000 SEQ5> NNNNNNNN SEQ7> -------- SCORE> 0 WEIGHT> 0 ERROR> 1.000000 SEQ5> NNNNNNNN SEQ8> CG------ SCORE> 0 WEIGHT> 0 ERROR> 1.000000 SEQ6> NNNNNNAA SEQ7> -------- SCORE> 0 WEIGHT> 2 ERROR> 1.000000 SEQ6> NNNNNNAA SEQ8> CG------ SCORE> 0 WEIGHT> 2 ERROR> 1.000000 SEQ7> -------- SEQ8> CG------ SCORE> 6 WEIGHT> 8 ERROR> 0.250000 <- test_scoreSeqPair() 0.008 -> test_weightDNA() DNA Weight> SEQ1> 8 SEQ2> 6 SEQ3> 8 SEQ4> 6 SEQ5> 0 SEQ6> 2 SEQ7> 8 SEQ8> 8 AA Weight> SEQ1> 8 SEQ2> 6 SEQ3> 8 SEQ4> 6 <- test_weightDNA() 0.000 -> test_consensusUnify() ID> SEQ0|BARCODE=AAAA|SAMPLE=S1 -> SEQ0|BARCODE=AAAA|SAMPLE=S1 ID> SEQ1|BARCODE=AAAA|SAMPLE=S1 -> SEQ1|BARCODE=AAAA|SAMPLE=S1 ID> SEQ2|BARCODE=AAAA|SAMPLE=S2 -> SEQ2|BARCODE=AAAA|SAMPLE=S1 ID> SEQ3|BARCODE=AAAA|SAMPLE=S3 -> SEQ3|BARCODE=AAAA|SAMPLE=S1 ID> SEQ4|BARCODE=CCCC|SAMPLE=S1 -> SEQ4|BARCODE=CCCC|SAMPLE=S1 ID> SEQ5|BARCODE=CCCC|SAMPLE=S2 -> SEQ5|BARCODE=CCCC|SAMPLE=S1 ID> SEQ6|BARCODE=GGGG|SAMPLE=S2 -> SEQ6|BARCODE=GGGG|SAMPLE=S2 ID> SEQ7|BARCODE=GGGG|SAMPLE=S2 -> SEQ7|BARCODE=GGGG|SAMPLE=S2 <- test_consensusUnify() 0.001 -> test_deletionUnify() ID> SEQ0|BARCODE=AAAA|SAMPLE=S1 -> False ID> SEQ1|BARCODE=AAAA|SAMPLE=S1 -> False ID> SEQ2|BARCODE=AAAA|SAMPLE=S2 -> False ID> SEQ3|BARCODE=AAAA|SAMPLE=S3 -> False ID> SEQ4|BARCODE=CCCC|SAMPLE=S1 -> False ID> SEQ5|BARCODE=CCCC|SAMPLE=S2 -> False ID> SEQ6|BARCODE=GGGG|SAMPLE=S2 -> True ID> SEQ7|BARCODE=GGGG|SAMPLE=S2 -> True <- test_deletionUnify() 0.000 create-stamp debian/debhelper-build-stamp dh_testroot -a -O--buildsystem=pybuild dh_prep -a -O--buildsystem=pybuild dh_auto_install -a -O--buildsystem=pybuild I: pybuild base:305: /usr/bin/python3.11 setup.py install --root /<>/debian/python3-presto running install /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() running build running build_py running build_scripts running install_lib creating /<>/debian/python3-presto creating /<>/debian/python3-presto/usr creating /<>/debian/python3-presto/usr/lib creating /<>/debian/python3-presto/usr/lib/python3.11 creating /<>/debian/python3-presto/usr/lib/python3.11/dist-packages creating /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin copying /<>/.pybuild/cpython3_3.11_presto/build/bin/BuildConsensus.py -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin copying /<>/.pybuild/cpython3_3.11_presto/build/bin/ClusterSets.py -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin copying /<>/.pybuild/cpython3_3.11_presto/build/bin/MaskPrimers.py -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin copying /<>/.pybuild/cpython3_3.11_presto/build/bin/AssemblePairs.py -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin copying /<>/.pybuild/cpython3_3.11_presto/build/bin/EstimateError.py -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin copying /<>/.pybuild/cpython3_3.11_presto/build/bin/CollapseSeq.py -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin creating /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin/__pycache__ copying /<>/.pybuild/cpython3_3.11_presto/build/bin/__pycache__/EstimateError.cpython-311.pyc -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin/__pycache__ copying /<>/.pybuild/cpython3_3.11_presto/build/bin/__pycache__/CollapseSeq.cpython-311.pyc -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin/__pycache__ copying /<>/.pybuild/cpython3_3.11_presto/build/bin/__pycache__/ConvertHeaders.cpython-311.pyc -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin/__pycache__ copying /<>/.pybuild/cpython3_3.11_presto/build/bin/__pycache__/BuildConsensus.cpython-311.pyc -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin/__pycache__ copying /<>/.pybuild/cpython3_3.11_presto/build/bin/__pycache__/MaskPrimers.cpython-311.pyc -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin/__pycache__ copying /<>/.pybuild/cpython3_3.11_presto/build/bin/__pycache__/ClusterSets.cpython-311.pyc -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin/__pycache__ copying /<>/.pybuild/cpython3_3.11_presto/build/bin/__pycache__/UnifyHeaders.cpython-311.pyc -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin/__pycache__ copying /<>/.pybuild/cpython3_3.11_presto/build/bin/__pycache__/AssemblePairs.cpython-311.pyc -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin/__pycache__ copying /<>/.pybuild/cpython3_3.11_presto/build/bin/ParseLog.py -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin copying /<>/.pybuild/cpython3_3.11_presto/build/bin/ConvertHeaders.py -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin copying /<>/.pybuild/cpython3_3.11_presto/build/bin/SplitSeq.py -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin copying /<>/.pybuild/cpython3_3.11_presto/build/bin/AlignSets.py -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin copying /<>/.pybuild/cpython3_3.11_presto/build/bin/PairSeq.py -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin copying /<>/.pybuild/cpython3_3.11_presto/build/bin/FilterSeq.py -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin copying /<>/.pybuild/cpython3_3.11_presto/build/bin/UnifyHeaders.py -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin copying /<>/.pybuild/cpython3_3.11_presto/build/bin/ParseHeaders.py -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin creating /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto copying /<>/.pybuild/cpython3_3.11_presto/build/presto/Commandline.py -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto copying /<>/.pybuild/cpython3_3.11_presto/build/presto/IO.py -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto copying /<>/.pybuild/cpython3_3.11_presto/build/presto/Multiprocessing.py -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto copying /<>/.pybuild/cpython3_3.11_presto/build/presto/Sequence.py -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto copying /<>/.pybuild/cpython3_3.11_presto/build/presto/Defaults.py -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto copying /<>/.pybuild/cpython3_3.11_presto/build/presto/Version.py -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto creating /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto/__pycache__ copying /<>/.pybuild/cpython3_3.11_presto/build/presto/__pycache__/IO.cpython-311.pyc -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto/__pycache__ copying /<>/.pybuild/cpython3_3.11_presto/build/presto/__pycache__/Annotation.cpython-311.pyc -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto/__pycache__ copying /<>/.pybuild/cpython3_3.11_presto/build/presto/__pycache__/Applications.cpython-311.pyc -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto/__pycache__ copying /<>/.pybuild/cpython3_3.11_presto/build/presto/__pycache__/Multiprocessing.cpython-311.pyc -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto/__pycache__ copying /<>/.pybuild/cpython3_3.11_presto/build/presto/__pycache__/__init__.cpython-311.pyc -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto/__pycache__ copying /<>/.pybuild/cpython3_3.11_presto/build/presto/__pycache__/Defaults.cpython-311.pyc -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto/__pycache__ copying /<>/.pybuild/cpython3_3.11_presto/build/presto/__pycache__/Commandline.cpython-311.pyc -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto/__pycache__ copying /<>/.pybuild/cpython3_3.11_presto/build/presto/__pycache__/Version.cpython-311.pyc -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto/__pycache__ copying /<>/.pybuild/cpython3_3.11_presto/build/presto/__pycache__/Sequence.cpython-311.pyc -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto/__pycache__ copying /<>/.pybuild/cpython3_3.11_presto/build/presto/__init__.py -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto copying /<>/.pybuild/cpython3_3.11_presto/build/presto/Applications.py -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto copying /<>/.pybuild/cpython3_3.11_presto/build/presto/Annotation.py -> /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto byte-compiling /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin/BuildConsensus.py to BuildConsensus.cpython-311.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin/ClusterSets.py to ClusterSets.cpython-311.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin/MaskPrimers.py to MaskPrimers.cpython-311.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin/AssemblePairs.py to AssemblePairs.cpython-311.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin/EstimateError.py to EstimateError.cpython-311.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin/CollapseSeq.py to CollapseSeq.cpython-311.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin/ParseLog.py to ParseLog.cpython-311.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin/ConvertHeaders.py to ConvertHeaders.cpython-311.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin/SplitSeq.py to SplitSeq.cpython-311.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin/AlignSets.py to AlignSets.cpython-311.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin/PairSeq.py to PairSeq.cpython-311.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin/FilterSeq.py to FilterSeq.cpython-311.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin/UnifyHeaders.py to UnifyHeaders.cpython-311.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/bin/ParseHeaders.py to ParseHeaders.cpython-311.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto/Commandline.py to Commandline.cpython-311.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto/IO.py to IO.cpython-311.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto/Multiprocessing.py to Multiprocessing.cpython-311.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto/Sequence.py to Sequence.cpython-311.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto/Defaults.py to Defaults.cpython-311.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto/Version.py to Version.cpython-311.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto/Applications.py to Applications.cpython-311.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto/Annotation.py to Annotation.cpython-311.pyc running install_egg_info running egg_info creating presto.egg-info writing presto.egg-info/PKG-INFO writing dependency_links to presto.egg-info/dependency_links.txt writing requirements to presto.egg-info/requires.txt writing top-level names to presto.egg-info/top_level.txt writing manifest file 'presto.egg-info/SOURCES.txt' reading manifest file 'presto.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE' writing manifest file 'presto.egg-info/SOURCES.txt' Copying presto.egg-info to /<>/debian/python3-presto/usr/lib/python3.11/dist-packages/presto-0.7.2.egg-info Skipping SOURCES.txt running install_scripts creating /<>/debian/python3-presto/usr/bin copying build/scripts-3.11/BuildConsensus.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.11/ClusterSets.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.11/MaskPrimers.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.11/AssemblePairs.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.11/EstimateError.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.11/CollapseSeq.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.11/ParseLog.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.11/ConvertHeaders.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.11/SplitSeq.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.11/AlignSets.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.11/PairSeq.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.11/FilterSeq.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.11/UnifyHeaders.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.11/ParseHeaders.py -> /<>/debian/python3-presto/usr/bin changing mode of /<>/debian/python3-presto/usr/bin/BuildConsensus.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/ClusterSets.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/MaskPrimers.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/AssemblePairs.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/EstimateError.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/CollapseSeq.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/ParseLog.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/ConvertHeaders.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/SplitSeq.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/AlignSets.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/PairSeq.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/FilterSeq.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/UnifyHeaders.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/ParseHeaders.py to 755 I: pybuild base:305: /usr/bin/python3 setup.py install --root /<>/debian/python3-presto running install /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() running build running build_py running build_scripts running install_lib creating /<>/debian/python3-presto/usr/lib/python3.12 creating /<>/debian/python3-presto/usr/lib/python3.12/dist-packages creating /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin copying /<>/.pybuild/cpython3_3.12_presto/build/bin/BuildConsensus.py -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin copying /<>/.pybuild/cpython3_3.12_presto/build/bin/ClusterSets.py -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin copying /<>/.pybuild/cpython3_3.12_presto/build/bin/MaskPrimers.py -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin copying /<>/.pybuild/cpython3_3.12_presto/build/bin/AssemblePairs.py -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin copying /<>/.pybuild/cpython3_3.12_presto/build/bin/EstimateError.py -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin copying /<>/.pybuild/cpython3_3.12_presto/build/bin/CollapseSeq.py -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin creating /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/__pycache__ copying /<>/.pybuild/cpython3_3.12_presto/build/bin/__pycache__/CollapseSeq.cpython-312.pyc -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/__pycache__ copying /<>/.pybuild/cpython3_3.12_presto/build/bin/__pycache__/MaskPrimers.cpython-312.pyc -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/__pycache__ copying /<>/.pybuild/cpython3_3.12_presto/build/bin/__pycache__/ConvertHeaders.cpython-312.pyc -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/__pycache__ copying /<>/.pybuild/cpython3_3.12_presto/build/bin/__pycache__/ClusterSets.cpython-312.pyc -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/__pycache__ copying /<>/.pybuild/cpython3_3.12_presto/build/bin/__pycache__/EstimateError.cpython-312.pyc -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/__pycache__ copying /<>/.pybuild/cpython3_3.12_presto/build/bin/__pycache__/AssemblePairs.cpython-312.pyc -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/__pycache__ copying /<>/.pybuild/cpython3_3.12_presto/build/bin/__pycache__/UnifyHeaders.cpython-312.pyc -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/__pycache__ copying /<>/.pybuild/cpython3_3.12_presto/build/bin/__pycache__/BuildConsensus.cpython-312.pyc -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/__pycache__ copying /<>/.pybuild/cpython3_3.12_presto/build/bin/ParseLog.py -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin copying /<>/.pybuild/cpython3_3.12_presto/build/bin/ConvertHeaders.py -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin copying /<>/.pybuild/cpython3_3.12_presto/build/bin/SplitSeq.py -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin copying /<>/.pybuild/cpython3_3.12_presto/build/bin/AlignSets.py -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin copying /<>/.pybuild/cpython3_3.12_presto/build/bin/PairSeq.py -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin copying /<>/.pybuild/cpython3_3.12_presto/build/bin/FilterSeq.py -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin copying /<>/.pybuild/cpython3_3.12_presto/build/bin/UnifyHeaders.py -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin copying /<>/.pybuild/cpython3_3.12_presto/build/bin/ParseHeaders.py -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin creating /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto copying /<>/.pybuild/cpython3_3.12_presto/build/presto/Commandline.py -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto copying /<>/.pybuild/cpython3_3.12_presto/build/presto/IO.py -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto copying /<>/.pybuild/cpython3_3.12_presto/build/presto/Multiprocessing.py -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto copying /<>/.pybuild/cpython3_3.12_presto/build/presto/Sequence.py -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto copying /<>/.pybuild/cpython3_3.12_presto/build/presto/Defaults.py -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto copying /<>/.pybuild/cpython3_3.12_presto/build/presto/Version.py -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto creating /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/__pycache__ copying /<>/.pybuild/cpython3_3.12_presto/build/presto/__pycache__/__init__.cpython-312.pyc -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/__pycache__ copying /<>/.pybuild/cpython3_3.12_presto/build/presto/__pycache__/Annotation.cpython-312.pyc -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/__pycache__ copying /<>/.pybuild/cpython3_3.12_presto/build/presto/__pycache__/Sequence.cpython-312.pyc -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/__pycache__ copying /<>/.pybuild/cpython3_3.12_presto/build/presto/__pycache__/Commandline.cpython-312.pyc -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/__pycache__ copying /<>/.pybuild/cpython3_3.12_presto/build/presto/__pycache__/Applications.cpython-312.pyc -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/__pycache__ copying /<>/.pybuild/cpython3_3.12_presto/build/presto/__pycache__/IO.cpython-312.pyc -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/__pycache__ copying /<>/.pybuild/cpython3_3.12_presto/build/presto/__pycache__/Version.cpython-312.pyc -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/__pycache__ copying /<>/.pybuild/cpython3_3.12_presto/build/presto/__pycache__/Defaults.cpython-312.pyc -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/__pycache__ copying /<>/.pybuild/cpython3_3.12_presto/build/presto/__pycache__/Multiprocessing.cpython-312.pyc -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/__pycache__ copying /<>/.pybuild/cpython3_3.12_presto/build/presto/__init__.py -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto copying /<>/.pybuild/cpython3_3.12_presto/build/presto/Applications.py -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto copying /<>/.pybuild/cpython3_3.12_presto/build/presto/Annotation.py -> /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto byte-compiling /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/BuildConsensus.py to BuildConsensus.cpython-312.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/ClusterSets.py to ClusterSets.cpython-312.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/MaskPrimers.py to MaskPrimers.cpython-312.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/AssemblePairs.py to AssemblePairs.cpython-312.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/EstimateError.py to EstimateError.cpython-312.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/CollapseSeq.py to CollapseSeq.cpython-312.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/ParseLog.py to ParseLog.cpython-312.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/ConvertHeaders.py to ConvertHeaders.cpython-312.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/SplitSeq.py to SplitSeq.cpython-312.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/AlignSets.py to AlignSets.cpython-312.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/PairSeq.py to PairSeq.cpython-312.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/FilterSeq.py to FilterSeq.cpython-312.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/UnifyHeaders.py to UnifyHeaders.cpython-312.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/bin/ParseHeaders.py to ParseHeaders.cpython-312.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/Commandline.py to Commandline.cpython-312.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/IO.py to IO.cpython-312.pyc /usr/lib/python3.12/dist-packages/presto/IO.py:34: SyntaxWarning: invalid escape sequence '\s' byte-compiling /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/Multiprocessing.py to Multiprocessing.cpython-312.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/Sequence.py to Sequence.cpython-312.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/Defaults.py to Defaults.cpython-312.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/Version.py to Version.cpython-312.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/__init__.py to __init__.cpython-312.pyc byte-compiling /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/Applications.py to Applications.cpython-312.pyc /usr/lib/python3.12/dist-packages/presto/Applications.py:61: SyntaxWarning: invalid escape sequence '\.' /usr/lib/python3.12/dist-packages/presto/Applications.py:288: SyntaxWarning: invalid escape sequence '\>' byte-compiling /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto/Annotation.py to Annotation.cpython-312.pyc /usr/lib/python3.12/dist-packages/presto/Annotation.py:293: SyntaxWarning: invalid escape sequence '\s' /usr/lib/python3.12/dist-packages/presto/Annotation.py:368: SyntaxWarning: invalid escape sequence '\s' /usr/lib/python3.12/dist-packages/presto/Annotation.py:491: SyntaxWarning: invalid escape sequence '\s' /usr/lib/python3.12/dist-packages/presto/Annotation.py:493: SyntaxWarning: invalid escape sequence '\(' /usr/lib/python3.12/dist-packages/presto/Annotation.py:494: SyntaxWarning: invalid escape sequence '\s' running install_egg_info running egg_info writing presto.egg-info/PKG-INFO writing dependency_links to presto.egg-info/dependency_links.txt writing requirements to presto.egg-info/requires.txt writing top-level names to presto.egg-info/top_level.txt reading manifest file 'presto.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE' writing manifest file 'presto.egg-info/SOURCES.txt' Copying presto.egg-info to /<>/debian/python3-presto/usr/lib/python3.12/dist-packages/presto-0.7.2.egg-info Skipping SOURCES.txt running install_scripts copying build/scripts-3.12/BuildConsensus.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.12/ClusterSets.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.12/MaskPrimers.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.12/AssemblePairs.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.12/EstimateError.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.12/CollapseSeq.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.12/ParseLog.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.12/ConvertHeaders.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.12/SplitSeq.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.12/AlignSets.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.12/PairSeq.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.12/FilterSeq.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.12/UnifyHeaders.py -> /<>/debian/python3-presto/usr/bin copying build/scripts-3.12/ParseHeaders.py -> /<>/debian/python3-presto/usr/bin changing mode of /<>/debian/python3-presto/usr/bin/BuildConsensus.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/ClusterSets.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/MaskPrimers.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/AssemblePairs.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/EstimateError.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/CollapseSeq.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/ParseLog.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/ConvertHeaders.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/SplitSeq.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/AlignSets.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/PairSeq.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/FilterSeq.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/UnifyHeaders.py to 755 changing mode of /<>/debian/python3-presto/usr/bin/ParseHeaders.py to 755 debian/rules override_dh_install make[1]: Entering directory '/<>' dh_install mkdir -p debian/presto/usr mv debian/python3-presto/usr/bin debian/presto/usr make[1]: Leaving directory '/<>' dh_installdocs -a -O--buildsystem=pybuild dh_installchangelogs -a -O--buildsystem=pybuild dh_installexamples -a -O--buildsystem=pybuild debian/rules override_dh_installman make[1]: Entering directory '/<>' dh_installman --language=C make[1]: Leaving directory '/<>' dh_python3 -a -O--buildsystem=pybuild dh_installsystemduser -a -O--buildsystem=pybuild dh_perl -a -O--buildsystem=pybuild dh_link -a -O--buildsystem=pybuild dh_strip_nondeterminism -a -O--buildsystem=pybuild dh_compress -a -O--buildsystem=pybuild dh_fixperms -a -O--buildsystem=pybuild dh_missing -a -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 -a -O--buildsystem=pybuild dh_gencontrol -a -O--buildsystem=pybuild dh_md5sums -a -O--buildsystem=pybuild dh_builddeb -a -O--buildsystem=pybuild INFO: pkgstriptranslations version 154 pkgstriptranslations: processing python3-presto (in debian/python3-presto); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/python3-presto/DEBIAN/control, package python3-presto, directory debian/python3-presto pkgstripfiles: Truncating usr/share/doc/python3-presto/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package python3-presto ... pkgstripfiles: No PNG files. dpkg-deb: building package 'python3-presto' in '../python3-presto_0.7.2-1_ppc64el.deb'. dpkg-genbuildinfo --build=any -O../presto_0.7.2-1_ppc64el.buildinfo dpkg-genchanges --build=any -mLaunchpad Build Daemon -O../presto_0.7.2-1_ppc64el.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-source: info: using options from presto-0.7.2/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2024-02-19T17:15:01Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ presto_0.7.2-1_ppc64el.changes: ------------------------------- Format: 1.8 Date: Mon, 19 Feb 2024 19:34:26 +0700 Source: presto Binary: python3-presto Built-For-Profiles: noudeb Architecture: ppc64el Version: 0.7.2-1 Distribution: noble-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Lance Lin Description: python3-presto - toolkit for processing B and T cell sequences (Python3 module) Changes: presto (0.7.2-1) unstable; urgency=medium . * Team upload. * New upstream version * Standards-Version: 4.6.2 (routine-update) * Build-Depends: s/dh-python/dh-sequence-python3/ (routine-update) * d/presto.lintian-overrides: Update lintian override format on lines 3-16 * d/presto.examples: Install examples folder * d/control: Add to Depends and Build-Depends and replace testsuite with autopkgtest-pkg-pybuild to run upstream tests * d/control: Switch Architecture from all to any for python3-presto due to 'vsearch' (architecture specific dependency for ClusterSets) * d/rules: Copy bin dir to build dir for testing and remove overrides for dh_auto_clean and dh_installchangelogs * d/rules: Remove test file for architecture specific dependency (vsearch) Checksums-Sha1: 23b3fe39773b41e0db5e5b1e47c17681ca1fb92f 8559 presto_0.7.2-1_ppc64el.buildinfo 063cdda1f0322402ddb82e99e2db20524ad4d080 80720 python3-presto_0.7.2-1_ppc64el.deb Checksums-Sha256: b272f495c6bdb3fdbc758df27112825bc7b5faf5d8b3fce228b80bca1a95dc3d 8559 presto_0.7.2-1_ppc64el.buildinfo 4a86d39d48856c96d5bdbb6b11b2a5a710a595a9f8fa57070dda04e692dbf9a4 80720 python3-presto_0.7.2-1_ppc64el.deb Files: 1a3b5be302022982c6e99ca9c723aec5 8559 python optional presto_0.7.2-1_ppc64el.buildinfo 638d81365ef0fa544a80ccc6b67f0e64 80720 python optional python3-presto_0.7.2-1_ppc64el.deb /<>/presto_0.7.2-1_ppc64el.changes.new could not be renamed to /<>/presto_0.7.2-1_ppc64el.changes: Illegal seek Distribution field may be wrong!!! +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: presto Binary: python3-presto Architecture: ppc64el Version: 0.7.2-1 Checksums-Md5: 638d81365ef0fa544a80ccc6b67f0e64 80720 python3-presto_0.7.2-1_ppc64el.deb Checksums-Sha1: 063cdda1f0322402ddb82e99e2db20524ad4d080 80720 python3-presto_0.7.2-1_ppc64el.deb Checksums-Sha256: 4a86d39d48856c96d5bdbb6b11b2a5a710a595a9f8fa57070dda04e692dbf9a4 80720 python3-presto_0.7.2-1_ppc64el.deb Build-Origin: Ubuntu Build-Architecture: ppc64el Build-Date: Mon, 19 Feb 2024 17:15:00 +0000 Build-Path: /<> Build-Tainted-By: merged-usr-via-aliased-dirs usr-local-has-programs Installed-Build-Depends: autoconf (= 2.71-3), automake (= 1:1.16.5-1.3ubuntu1), autopoint (= 0.21-14ubuntu1), autotools-dev (= 20220109.1), base-files (= 13ubuntu6), base-passwd (= 3.6.3), bash (= 5.2.21-2ubuntu1), binutils (= 2.42-2ubuntu1), binutils-common (= 2.42-2ubuntu1), binutils-powerpc64le-linux-gnu (= 2.42-2ubuntu1), bsdextrautils (= 2.39.2-6ubuntu1), bsdutils (= 1:2.39.2-6ubuntu1), build-essential (= 12.10ubuntu1), bzip2 (= 1.0.8-5build1), cd-hit (= 4.8.1-4), coreutils (= 9.4-2ubuntu3), cpp (= 4:13.2.0-7ubuntu1), cpp-13 (= 13.2.0-13ubuntu1), cpp-13-powerpc64le-linux-gnu (= 13.2.0-13ubuntu1), cpp-powerpc64le-linux-gnu (= 4:13.2.0-7ubuntu1), dash (= 0.5.12-6ubuntu1), debconf (= 1.5.86), debhelper (= 13.13ubuntu1), debianutils (= 5.16), debugedit (= 1:5.0-5), dh-autoreconf (= 20), dh-python (= 6.20231223), dh-strip-nondeterminism (= 1.13.1-1), diffutils (= 1:3.10-1), dpkg (= 1.22.4ubuntu3), dpkg-dev (= 1.22.4ubuntu3), dwz (= 0.15-1), file (= 1:5.45-2), findutils (= 4.9.0-5), fontconfig-config (= 2.14.2-6ubuntu1), fonts-dejavu-core (= 2.37-8), fonts-dejavu-extra (= 2.37-8), fonts-dejavu-mono (= 2.37-8), fonts-urw-base35 (= 20200910-7), g++ (= 4:13.2.0-7ubuntu1), g++-13 (= 13.2.0-13ubuntu1), g++-13-powerpc64le-linux-gnu (= 13.2.0-13ubuntu1), g++-powerpc64le-linux-gnu (= 4:13.2.0-7ubuntu1), gcc (= 4:13.2.0-7ubuntu1), gcc-13 (= 13.2.0-13ubuntu1), gcc-13-base (= 13.2.0-13ubuntu1), gcc-13-powerpc64le-linux-gnu (= 13.2.0-13ubuntu1), gcc-14-base (= 14-20240201-3ubuntu1), gcc-powerpc64le-linux-gnu (= 4:13.2.0-7ubuntu1), gettext (= 0.21-14ubuntu1), gettext-base (= 0.21-14ubuntu1), grep (= 3.11-4), groff-base (= 1.23.0-3), gzip (= 1.12-1ubuntu1), hostname (= 3.23+nmu1ubuntu1), init-system-helpers (= 1.66ubuntu1), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.3.1-4ubuntu1), libarchive-zip-perl (= 1.68-1), libasan8 (= 14-20240201-3ubuntu1), libatomic1 (= 14-20240201-3ubuntu1), libattr1 (= 1:2.5.2-1), libaudit-common (= 1:3.1.2-2), libaudit1 (= 1:3.1.2-2), libbinutils (= 2.42-2ubuntu1), libblas3 (= 3.12.0-3), libblkid1 (= 2.39.2-6ubuntu1), libbrotli1 (= 1.1.0-2), libbsd0 (= 0.11.8-1), libbz2-1.0 (= 1.0.8-5build1), libc-bin (= 2.39-0ubuntu1), libc-dev-bin (= 2.39-0ubuntu1), libc6 (= 2.39-0ubuntu1), libc6-dev (= 2.39-0ubuntu1), libcairo2 (= 1.18.0-1), libcap-ng0 (= 0.8.4-2), libcap2 (= 1:2.66-4ubuntu1), libcc1-0 (= 14-20240201-3ubuntu1), libcom-err2 (= 1.47.0-2ubuntu1), libcrypt-dev (= 1:4.4.36-4), libcrypt1 (= 1:4.4.36-4), libctf-nobfd0 (= 2.42-2ubuntu1), libctf0 (= 2.42-2ubuntu1), libdb5.3 (= 5.3.28+dfsg2-4), libdebconfclient0 (= 0.271ubuntu1), libdebhelper-perl (= 13.13ubuntu1), libdeflate0 (= 1.19-1), libdpkg-perl (= 1.22.4ubuntu3), libdw1 (= 0.190-1), libelf1 (= 0.190-1), libexpat1 (= 2.6.0-1), libffi8 (= 3.4.4-2), libfile-stripnondeterminism-perl (= 1.13.1-1), libfontconfig1 (= 2.14.2-6ubuntu1), libfontenc1 (= 1:1.1.4-1build3), libfreetype6 (= 2.13.2+dfsg-1), libfribidi0 (= 1.0.13-3), libgcc-13-dev (= 13.2.0-13ubuntu1), libgcc-s1 (= 14-20240201-3ubuntu1), libgcrypt20 (= 1.10.3-2), libgdbm-compat4 (= 1.23-5), libgdbm6 (= 1.23-5), libgfortran5 (= 14-20240201-3ubuntu1), libglib2.0-0 (= 2.79.1-1), libgmp10 (= 2:6.3.0+dfsg-2ubuntu4), libgomp1 (= 14-20240201-3ubuntu1), libgpg-error0 (= 1.47-3build1), libgraphite2-3 (= 1.3.14-2), libgssapi-krb5-2 (= 1.20.1-5build1), libharfbuzz0b (= 8.3.0-2), libicu74 (= 74.2-1ubuntu1), libimagequant0 (= 2.18.0-1), libisl23 (= 0.26-3), libitm1 (= 14-20240201-3ubuntu1), libjansson4 (= 2.14-2), libjbig0 (= 2.1-6.1ubuntu1), libjpeg-turbo8 (= 2.1.5-2ubuntu1), libjpeg8 (= 8c-2ubuntu11), libk5crypto3 (= 1.20.1-5build1), libkeyutils1 (= 1.6.3-3), libkrb5-3 (= 1.20.1-5build1), libkrb5support0 (= 1.20.1-5build1), liblapack3 (= 3.12.0-3), liblbfgsb0 (= 3.0+dfsg.4-1), liblcms2-2 (= 2.14-2), liblerc4 (= 4.0.0+ds-4ubuntu1), liblsan0 (= 14-20240201-3ubuntu1), liblz4-1 (= 1.9.4-1), liblzma5 (= 5.4.5-0.3), libmagic-mgc (= 1:5.45-2), libmagic1 (= 1:5.45-2), libmd0 (= 1.1.0-2), libmount1 (= 2.39.2-6ubuntu1), libmpc3 (= 1.3.1-1), libmpfr6 (= 4.2.1-1), libncursesw6 (= 6.4+20240113-1ubuntu1), libnsl-dev (= 1.3.0-3), libnsl2 (= 1.3.0-3), libopenjp2-7 (= 2.5.0-2), libpam-modules (= 1.5.2-9.1ubuntu2), libpam-modules-bin (= 1.5.2-9.1ubuntu2), libpam-runtime (= 1.5.2-9.1ubuntu2), libpam0g (= 1.5.2-9.1ubuntu2), libpcre2-8-0 (= 10.42-4ubuntu1), libperl5.38 (= 5.38.2-3), libpipeline1 (= 1.5.7-1), libpixman-1-0 (= 0.42.2-1), libpng16-16 (= 1.6.42-1), libpython3-stdlib (= 3.12.1-0ubuntu1), libpython3.11-minimal (= 3.11.8-1), libpython3.11-stdlib (= 3.11.8-1), libpython3.12-minimal (= 3.12.2-1), libpython3.12-stdlib (= 3.12.2-1), libquadmath0 (= 14-20240201-3ubuntu1), libraqm0 (= 0.10.1-1), libreadline8 (= 8.2-3), libseccomp2 (= 2.5.5-1ubuntu1), libselinux1 (= 3.5-2build1), libsframe1 (= 2.42-2ubuntu1), libsharpyuv0 (= 1.3.2-0.4), libsmartcols1 (= 2.39.2-6ubuntu1), libsqlite3-0 (= 3.45.1-1), libssl3 (= 3.0.10-1ubuntu4), libstdc++-13-dev (= 13.2.0-13ubuntu1), libstdc++6 (= 14-20240201-3ubuntu1), libsub-override-perl (= 0.10-1), libsystemd0 (= 255.2-3ubuntu2), libtiff6 (= 4.5.1+git230720-3ubuntu1), libtinfo6 (= 6.4+20240113-1ubuntu1), libtirpc-common (= 1.3.4+ds-1build1), libtirpc-dev (= 1.3.4+ds-1build1), libtirpc3 (= 1.3.4+ds-1build1), libtool (= 2.4.7-7), libtsan2 (= 14-20240201-3ubuntu1), libubsan1 (= 14-20240201-3ubuntu1), libuchardet0 (= 0.0.8-1), libudev1 (= 255.2-3ubuntu2), libunistring5 (= 1.1-2), libuuid1 (= 2.39.2-6ubuntu1), libwebp7 (= 1.3.2-0.4), libwebpdemux2 (= 1.3.2-0.4), libwebpmux3 (= 1.3.2-0.4), libx11-6 (= 2:1.8.7-1), libx11-data (= 2:1.8.7-1), libxau6 (= 1:1.0.9-1build5), libxcb-render0 (= 1.15-1), libxcb-shm0 (= 1.15-1), libxcb1 (= 1.15-1), libxdmcp6 (= 1:1.1.3-0ubuntu5), libxext6 (= 2:1.3.4-1build1), libxml2 (= 2.9.14+dfsg-1.3ubuntu1), libxrender1 (= 1:0.9.10-1.1), libzstd1 (= 1.5.5+dfsg2-2), linux-libc-dev (= 6.8.0-11.11), login (= 1:4.13+dfsg1-3ubuntu1), lto-disabled-list (= 46), m4 (= 1.4.19-4), make (= 4.3-4.1build1), man-db (= 2.12.0-3), mawk (= 1.3.4.20240123-1), media-types (= 10.1.0), ncurses-base (= 6.4+20240113-1ubuntu1), ncurses-bin (= 6.4+20240113-1ubuntu1), netbase (= 6.4), patch (= 2.7.6-7build2), perl (= 5.38.2-3), perl-base (= 5.38.2-3), perl-modules-5.38 (= 5.38.2-3), po-debconf (= 1.0.21+nmu1), python3 (= 3.12.1-0ubuntu1), python3-all (= 3.12.1-0ubuntu1), python3-biopython (= 1.81+dfsg-3), python3-cairo (= 1.25.1-2), python3-chardet (= 5.2.0+dfsg-1), python3-dateutil (= 2.8.2-3), python3-decorator (= 5.1.1-5), python3-distutils (= 3.11.5-1), python3-freetype (= 2.4.0-1), python3-lib2to3 (= 3.11.5-1), python3-minimal (= 3.12.1-0ubuntu1), python3-numpy (= 1:1.24.2-2), python3-packaging (= 23.2-1), python3-pandas (= 2.1.4+dfsg-4ubuntu2), python3-pandas-lib (= 2.1.4+dfsg-4ubuntu2), python3-pil (= 10.2.0-1), python3-pkg-resources (= 68.1.2-2), python3-reportlab (= 4.1.0-1), python3-rlpycairo (= 0.3.0-3), python3-scipy (= 1.11.4-3), python3-setuptools (= 68.1.2-2), python3-six (= 1.16.0-4), python3-tz (= 2024.1-1), python3.11 (= 3.11.8-1), python3.11-minimal (= 3.11.8-1), python3.12 (= 3.12.2-1), python3.12-minimal (= 3.12.2-1), readline-common (= 8.2-3), rpcsvc-proto (= 1.4.2-0ubuntu6), sed (= 4.9-2), sensible-utils (= 0.0.22), sgml-base (= 1.31), sysvinit-utils (= 3.08-3ubuntu1), tar (= 1.35+dfsg-3), tzdata (= 2024a-1ubuntu1), util-linux (= 2.39.2-6ubuntu1), vsearch (= 2.27.0-1), w3c-sgml-lib (= 1.3-3), x11-common (= 1:7.7+23ubuntu2), xfonts-encodings (= 1:1.0.5-0ubuntu2), xfonts-utils (= 1:7.7+6build2), xml-core (= 0.19), xz-utils (= 5.4.5-0.3), zlib1g (= 1:1.3.dfsg-3ubuntu1) Environment: DEB_BUILD_OPTIONS="parallel=4" DEB_BUILD_PROFILES="noudeb" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1708346066" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ python3-presto_0.7.2-1_ppc64el.deb ---------------------------------- new Debian package, version 2.0. size 80720 bytes: control archive=2232 bytes. 1554 bytes, 29 lines control 2572 bytes, 30 lines md5sums 279 bytes, 12 lines * postinst #!/bin/sh 392 bytes, 12 lines * prerm #!/bin/sh Package: python3-presto Source: presto Version: 0.7.2-1 Architecture: ppc64el Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 513 Depends: python3-biopython, python3-numpy, python3-pandas, python3-scipy, python3:any, python3-packaging, vsearch, cd-hit, ncbi-blast+ Section: python Priority: optional Homepage: https://presto.readthedocs.io Description: toolkit for processing B and T cell sequences (Python3 module) pRESTO is a toolkit for processing raw reads from high-throughput sequencing of B cell and T cell repertoires. . Dramatic improvements in high-throughput sequencing technologies now enable large-scale characterization of lymphocyte repertoires, defined as the collection of trans-membrane antigen-receptor proteins located on the surface of B cells and T cells. The REpertoire Sequencing TOolkit (pRESTO) is composed of a suite of utilities to handle all stages of sequence processing prior to germline segment assignment. pRESTO is designed to handle either single reads or paired-end reads. It includes features for quality control, primer masking, annotation of reads with sequence embedded barcodes, generation of unique molecular identifier (UMI) consensus sequences, assembly of paired-end reads and identification of duplicate sequences. Numerous options for sequence sorting, sampling and conversion operations are also included. . This package provides the presto Python3 module. drwxr-xr-x root/root 0 2024-02-19 12:34 ./ drwxr-xr-x root/root 0 2024-02-19 12:34 ./usr/ drwxr-xr-x root/root 0 2024-02-19 12:34 ./usr/lib/ drwxr-xr-x root/root 0 2024-02-19 12:34 ./usr/lib/python3/ drwxr-xr-x root/root 0 2024-02-19 12:34 ./usr/lib/python3/dist-packages/ drwxr-xr-x root/root 0 2024-02-19 12:34 ./usr/lib/python3/dist-packages/bin/ -rwxr-xr-x root/root 20526 2024-02-19 12:34 ./usr/lib/python3/dist-packages/bin/AlignSets.py -rwxr-xr-x root/root 24527 2024-02-19 12:34 ./usr/lib/python3/dist-packages/bin/AssemblePairs.py -rwxr-xr-x root/root 23986 2024-02-19 12:34 ./usr/lib/python3/dist-packages/bin/BuildConsensus.py -rwxr-xr-x root/root 29321 2024-02-19 12:34 ./usr/lib/python3/dist-packages/bin/ClusterSets.py -rwxr-xr-x root/root 20499 2024-02-19 12:34 ./usr/lib/python3/dist-packages/bin/CollapseSeq.py -rwxr-xr-x root/root 11328 2024-02-19 12:34 ./usr/lib/python3/dist-packages/bin/ConvertHeaders.py -rwxr-xr-x root/root 38451 2024-02-19 12:34 ./usr/lib/python3/dist-packages/bin/EstimateError.py -rwxr-xr-x root/root 12038 2024-02-19 12:34 ./usr/lib/python3/dist-packages/bin/FilterSeq.py -rwxr-xr-x root/root 28009 2024-02-19 12:34 ./usr/lib/python3/dist-packages/bin/MaskPrimers.py -rwxr-xr-x root/root 12120 2024-02-19 12:34 ./usr/lib/python3/dist-packages/bin/PairSeq.py -rwxr-xr-x root/root 21750 2024-02-19 12:34 ./usr/lib/python3/dist-packages/bin/ParseHeaders.py -rwxr-xr-x root/root 5333 2024-02-19 12:34 ./usr/lib/python3/dist-packages/bin/ParseLog.py -rwxr-xr-x root/root 37723 2024-02-19 12:34 ./usr/lib/python3/dist-packages/bin/SplitSeq.py -rwxr-xr-x root/root 7128 2024-02-19 12:34 ./usr/lib/python3/dist-packages/bin/UnifyHeaders.py drwxr-xr-x root/root 0 2024-02-19 12:34 ./usr/lib/python3/dist-packages/presto-0.7.2.egg-info/ -rw-r--r-- root/root 2288 2024-02-19 12:34 ./usr/lib/python3/dist-packages/presto-0.7.2.egg-info/PKG-INFO -rw-r--r-- root/root 1 2024-02-19 12:34 ./usr/lib/python3/dist-packages/presto-0.7.2.egg-info/dependency_links.txt -rw-r--r-- root/root 1 2024-02-19 12:34 ./usr/lib/python3/dist-packages/presto-0.7.2.egg-info/not-zip-safe -rw-r--r-- root/root 0 2024-02-19 12:34 ./usr/lib/python3/dist-packages/presto-0.7.2.egg-info/requires.txt -rw-r--r-- root/root 7 2024-02-19 12:34 ./usr/lib/python3/dist-packages/presto-0.7.2.egg-info/top_level.txt drwxr-xr-x root/root 0 2024-02-19 12:34 ./usr/lib/python3/dist-packages/presto/ -rw-r--r-- root/root 24189 2020-06-22 19:31 ./usr/lib/python3/dist-packages/presto/Annotation.py -rw-r--r-- root/root 18378 2023-09-14 22:21 ./usr/lib/python3/dist-packages/presto/Applications.py -rw-r--r-- root/root 14310 2020-06-22 19:31 ./usr/lib/python3/dist-packages/presto/Commandline.py -rw-r--r-- root/root 1814 2020-06-22 19:31 ./usr/lib/python3/dist-packages/presto/Defaults.py -rw-r--r-- root/root 12932 2023-09-14 22:21 ./usr/lib/python3/dist-packages/presto/IO.py -rw-r--r-- root/root 23864 2020-06-22 19:31 ./usr/lib/python3/dist-packages/presto/Multiprocessing.py -rw-r--r-- root/root 67020 2024-01-23 18:31 ./usr/lib/python3/dist-packages/presto/Sequence.py -rw-r--r-- root/root 293 2024-01-23 19:43 ./usr/lib/python3/dist-packages/presto/Version.py -rw-r--r-- root/root 259 2020-06-22 19:31 ./usr/lib/python3/dist-packages/presto/__init__.py drwxr-xr-x root/root 0 2024-02-19 12:34 ./usr/share/ drwxr-xr-x root/root 0 2024-02-19 12:34 ./usr/share/doc/ drwxr-xr-x root/root 0 2024-02-19 12:34 ./usr/share/doc/python3-presto/ -rw-r--r-- root/root 1048 2024-02-19 12:34 ./usr/share/doc/python3-presto/changelog.Debian.gz -rw-r--r-- root/root 35812 2024-02-14 13:20 ./usr/share/doc/python3-presto/copyright +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: ppc64el Build Type: any Build-Space: 6172 Build-Time: 11 Distribution: noble-proposed Host Architecture: ppc64el Install-Time: 90 Job: presto_0.7.2-1.dsc Machine Architecture: ppc64el Package: presto Package-Time: 102 Source-Version: 0.7.2-1 Space: 6172 Status: successful Version: 0.7.2-1 -------------------------------------------------------------------------------- Finished at 2024-02-19T17:15:01Z Build needed 00:01:42, 6172k disk space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=noble --arch=ppc64el PACKAGEBUILD-27792493 Scanning for processes to kill in build PACKAGEBUILD-27792493