https://launchpad.net/ubuntu/+source/python-biopython/1.80+dfsg-4build1/+build/25674076 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux lcy02-amd64-026 5.4.0-139-generic #156-Ubuntu SMP Fri Jan 20 17:27:18 UTC 2023 x86_64 Buildd toolchain package versions: launchpad-buildd_230~623~ubuntu20.04.1 python3-lpbuildd_230~623~ubuntu20.04.1 sbuild_0.79.0-1ubuntu1 git-build-recipe_0.3.6 git_1:2.25.1-1ubuntu3.10 dpkg-dev_1.19.7ubuntu3.2 python3-debian_0.1.36ubuntu1. Syncing the system clock with the buildd NTP service... 16 Mar 07:27:53 ntpdate[1836]: adjust time server 10.131.248.1 offset -0.000128 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=lunar --arch=amd64 PACKAGEBUILD-25674076 --image-type chroot /home/buildd/filecache-default/1fc1752c0976ad9eb0e621fd063fde252dab04e3 Creating target for build PACKAGEBUILD-25674076 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=lunar --arch=amd64 PACKAGEBUILD-25674076 Starting target for build PACKAGEBUILD-25674076 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=lunar --arch=amd64 PACKAGEBUILD-25674076 'deb http://ftpmaster.internal/ubuntu lunar main universe' 'deb http://ftpmaster.internal/ubuntu lunar-security main universe' 'deb http://ftpmaster.internal/ubuntu lunar-updates main universe' 'deb http://ftpmaster.internal/ubuntu lunar-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-25674076 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=lunar --arch=amd64 PACKAGEBUILD-25674076 Updating target for build PACKAGEBUILD-25674076 Get:1 http://ftpmaster.internal/ubuntu lunar InRelease [267 kB] Get:2 http://ftpmaster.internal/ubuntu lunar-security InRelease [90.7 kB] Get:3 http://ftpmaster.internal/ubuntu lunar-updates InRelease [90.7 kB] Get:4 http://ftpmaster.internal/ubuntu lunar-proposed InRelease [118 kB] Get:5 http://ftpmaster.internal/ubuntu lunar/main amd64 Packages [1390 kB] Get:6 http://ftpmaster.internal/ubuntu lunar/main Translation-en [512 kB] Get:7 http://ftpmaster.internal/ubuntu lunar/universe amd64 Packages [15.1 MB] Get:8 http://ftpmaster.internal/ubuntu lunar/universe Translation-en [5933 kB] Get:9 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 Packages [68.9 kB] Get:10 http://ftpmaster.internal/ubuntu lunar-proposed/main Translation-en [32.2 kB] Get:11 http://ftpmaster.internal/ubuntu lunar-proposed/universe amd64 Packages [124 kB] Get:12 http://ftpmaster.internal/ubuntu lunar-proposed/universe Translation-en [58.7 kB] Fetched 23.8 MB in 2s (10.1 MB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following NEW packages will be installed: gcc-13-base libproc2-0 The following packages will be upgraded: adduser advancecomp apt bash binutils binutils-common binutils-x86-64-linux-gnu ca-certificates coreutils cpp cpp-12 dash debconf diffutils dpkg dpkg-dev e2fsprogs fakeroot g++ g++-12 gcc gcc-12 gcc-12-base gpg gpg-agent gpgconf gpgv grep hostname libacl1 libapparmor1 libapt-pkg6.0 libasan8 libatomic1 libattr1 libaudit-common libaudit1 libbinutils libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcap2 libcc1-0 libcom-err2 libcrypt-dev libcrypt1 libcryptsetup12 libctf-nobfd0 libctf0 libdb5.3 libdebconfclient0 libdpkg-perl libext2fs2 libfakeroot libgcc-12-dev libgcc-s1 libgcrypt20 libgnutls30 libgomp1 libgprofng0 libitm1 libkmod2 liblsan0 liblzma5 libmpfr6 libncurses6 libncursesw6 libp11-kit0 libpcre2-8-0 libperl5.36 libquadmath0 libreadline8 libseccomp2 libselinux1 libsemanage-common libsemanage2 libsqlite3-0 libss2 libssl3 libstdc++-12-dev libstdc++6 libsystemd-shared libsystemd0 libtinfo6 libtsan2 libubsan1 libudev1 libzstd1 linux-libc-dev logsave lsb-base lto-disabled-list ncurses-base ncurses-bin openssl perl perl-base perl-modules-5.36 pkgbinarymangler procps readline-common sed sensible-utils systemd systemd-sysv sysvinit-utils tzdata xz-utils zlib1g 111 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 106 MB of archives. After this operation, 5442 kB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu lunar/main amd64 bash amd64 5.2.15-2ubuntu1 [795 kB] Get:2 http://ftpmaster.internal/ubuntu lunar/main amd64 coreutils amd64 9.1-1ubuntu2 [1407 kB] Get:3 http://ftpmaster.internal/ubuntu lunar/main amd64 libcrypt-dev amd64 1:4.4.33-2 [113 kB] Get:4 http://ftpmaster.internal/ubuntu lunar/main amd64 libc6-dev amd64 2.37-0ubuntu1 [2091 kB] Get:5 http://ftpmaster.internal/ubuntu lunar/main amd64 libc-dev-bin amd64 2.37-0ubuntu1 [20.0 kB] Get:6 http://ftpmaster.internal/ubuntu lunar/main amd64 libcrypt1 amd64 1:4.4.33-2 [80.7 kB] Get:7 http://ftpmaster.internal/ubuntu lunar/main amd64 linux-libc-dev amd64 6.1.0-16.16 [1638 kB] Get:8 http://ftpmaster.internal/ubuntu lunar/main amd64 libc-bin amd64 2.37-0ubuntu1 [670 kB] Get:9 http://ftpmaster.internal/ubuntu lunar/main amd64 gcc-13-base amd64 13-20230305-1ubuntu1 [40.6 kB] Get:10 http://ftpmaster.internal/ubuntu lunar/main amd64 libgcc-s1 amd64 13-20230305-1ubuntu1 [61.8 kB] Get:11 http://ftpmaster.internal/ubuntu lunar/main amd64 libc6 amd64 2.37-0ubuntu1 [3164 kB] Get:12 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 liblzma5 amd64 5.4.1-0.2 [125 kB] Get:13 http://ftpmaster.internal/ubuntu lunar/main amd64 libgcrypt20 amd64 1.10.1-3ubuntu1 [529 kB] Get:14 http://ftpmaster.internal/ubuntu lunar/main amd64 libstdc++6 amd64 13-20230305-1ubuntu1 [766 kB] Get:15 http://ftpmaster.internal/ubuntu lunar/main amd64 libacl1 amd64 2.3.1-3 [16.4 kB] Get:16 http://ftpmaster.internal/ubuntu lunar/main amd64 libapparmor1 amd64 3.0.8-1ubuntu2 [46.0 kB] Get:17 http://ftpmaster.internal/ubuntu lunar/main amd64 libaudit-common all 1:3.0.9-1 [5142 B] Get:18 http://ftpmaster.internal/ubuntu lunar/main amd64 libcap-ng0 amd64 0.8.3-1build2 [15.3 kB] Get:19 http://ftpmaster.internal/ubuntu lunar/main amd64 libaudit1 amd64 1:3.0.9-1 [46.0 kB] Get:20 http://ftpmaster.internal/ubuntu lunar/main amd64 libcap2 amd64 1:2.66-3ubuntu2 [28.2 kB] Get:21 http://ftpmaster.internal/ubuntu lunar/main amd64 libperl5.36 amd64 5.36.0-7 [4834 kB] Get:22 http://ftpmaster.internal/ubuntu lunar/main amd64 perl amd64 5.36.0-7 [235 kB] Get:23 http://ftpmaster.internal/ubuntu lunar/main amd64 perl-base amd64 5.36.0-7 [1779 kB] Get:24 http://ftpmaster.internal/ubuntu lunar/main amd64 perl-modules-5.36 all 5.36.0-7 [2984 kB] Get:25 http://ftpmaster.internal/ubuntu lunar/main amd64 libdb5.3 amd64 5.3.28+dfsg2-1 [742 kB] Get:26 http://ftpmaster.internal/ubuntu lunar/main amd64 zlib1g amd64 1:1.2.13.dfsg-1ubuntu4 [61.2 kB] Get:27 http://ftpmaster.internal/ubuntu lunar/main amd64 debconf all 1.5.82 [125 kB] Get:28 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libssl3 amd64 3.0.8-1ubuntu1 [1903 kB] Get:29 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libzstd1 amd64 1.5.4+dfsg2-4 [292 kB] Get:30 http://ftpmaster.internal/ubuntu lunar/main amd64 libkmod2 amd64 30+20221128-1ubuntu1 [49.5 kB] Get:31 http://ftpmaster.internal/ubuntu lunar/main amd64 libseccomp2 amd64 2.5.4-1ubuntu3 [49.1 kB] Get:32 http://ftpmaster.internal/ubuntu lunar/main amd64 libpcre2-8-0 amd64 10.42-1 [228 kB] Get:33 http://ftpmaster.internal/ubuntu lunar/main amd64 libselinux1 amd64 3.4-1build4 [78.1 kB] Get:34 http://ftpmaster.internal/ubuntu lunar/main amd64 systemd-sysv amd64 252.5-2ubuntu2 [11.5 kB] Get:35 http://ftpmaster.internal/ubuntu lunar/main amd64 systemd amd64 252.5-2ubuntu2 [3002 kB] Get:36 http://ftpmaster.internal/ubuntu lunar/main amd64 libsystemd-shared amd64 252.5-2ubuntu2 [1832 kB] Get:37 http://ftpmaster.internal/ubuntu lunar/main amd64 libcryptsetup12 amd64 2:2.6.1-1ubuntu1 [229 kB] Get:38 http://ftpmaster.internal/ubuntu lunar/main amd64 libp11-kit0 amd64 0.24.1-2ubuntu1 [248 kB] Get:39 http://ftpmaster.internal/ubuntu lunar/main amd64 libsystemd0 amd64 252.5-2ubuntu2 [389 kB] Get:40 http://ftpmaster.internal/ubuntu lunar/main amd64 libudev1 amd64 252.5-2ubuntu2 [150 kB] Get:41 http://ftpmaster.internal/ubuntu lunar/main amd64 libapt-pkg6.0 amd64 2.6.0 [919 kB] Get:42 http://ftpmaster.internal/ubuntu lunar/main amd64 dpkg amd64 1.21.21ubuntu1 [1394 kB] Get:43 http://ftpmaster.internal/ubuntu lunar/main amd64 dash amd64 0.5.12-2ubuntu1 [88.2 kB] Get:44 http://ftpmaster.internal/ubuntu lunar/main amd64 diffutils amd64 1:3.8-4 [176 kB] Get:45 http://ftpmaster.internal/ubuntu lunar/main amd64 grep amd64 3.8-5 [160 kB] Get:46 http://ftpmaster.internal/ubuntu lunar/main amd64 hostname amd64 3.23+nmu1ubuntu1 [11.0 kB] Get:47 http://ftpmaster.internal/ubuntu lunar/main amd64 ncurses-bin amd64 6.4-2 [185 kB] Get:48 http://ftpmaster.internal/ubuntu lunar/main amd64 sed amd64 4.9-1 [193 kB] Get:49 http://ftpmaster.internal/ubuntu lunar/main amd64 ncurses-base all 6.4-2 [21.3 kB] Get:50 http://ftpmaster.internal/ubuntu lunar/main amd64 sysvinit-utils amd64 3.06-2ubuntu1 [32.5 kB] Get:51 http://ftpmaster.internal/ubuntu lunar/main amd64 lsb-base all 11.6 [4606 B] Get:52 http://ftpmaster.internal/ubuntu lunar/main amd64 adduser all 3.129ubuntu1 [59.0 kB] Get:53 http://ftpmaster.internal/ubuntu lunar/main amd64 gpgv amd64 2.2.40-1ubuntu2 [137 kB] Get:54 http://ftpmaster.internal/ubuntu lunar/main amd64 libgnutls30 amd64 3.7.8-5ubuntu1 [985 kB] Get:55 http://ftpmaster.internal/ubuntu lunar/main amd64 apt amd64 2.6.0 [1386 kB] Get:56 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 logsave amd64 1.47.0-1ubuntu1 [14.2 kB] Get:57 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libext2fs2 amd64 1.47.0-1ubuntu1 [212 kB] Get:58 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 e2fsprogs amd64 1.47.0-1ubuntu1 [598 kB] Get:59 http://ftpmaster.internal/ubuntu lunar/main amd64 libattr1 amd64 1:2.5.1-4 [12.4 kB] Get:60 http://ftpmaster.internal/ubuntu lunar/main amd64 libdebconfclient0 amd64 0.267ubuntu1 [7892 B] Get:61 http://ftpmaster.internal/ubuntu lunar/main amd64 libsemanage-common all 3.4-1build4 [9852 B] Get:62 http://ftpmaster.internal/ubuntu lunar/main amd64 libsemanage2 amd64 3.4-1build4 [92.7 kB] Get:63 http://ftpmaster.internal/ubuntu lunar/main amd64 libncurses6 amd64 6.4-2 [112 kB] Get:64 http://ftpmaster.internal/ubuntu lunar/main amd64 libncursesw6 amd64 6.4-2 [147 kB] Get:65 http://ftpmaster.internal/ubuntu lunar/main amd64 libtinfo6 amd64 6.4-2 [101 kB] Get:66 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libcom-err2 amd64 1.47.0-1ubuntu1 [14.5 kB] Get:67 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libss2 amd64 1.47.0-1ubuntu1 [16.8 kB] Get:68 http://ftpmaster.internal/ubuntu lunar/main amd64 libproc2-0 amd64 2:4.0.3-1ubuntu1 [55.9 kB] Get:69 http://ftpmaster.internal/ubuntu lunar/main amd64 procps amd64 2:4.0.3-1ubuntu1 [609 kB] Get:70 http://ftpmaster.internal/ubuntu lunar/main amd64 sensible-utils all 0.0.17+nmu1 [19.3 kB] Get:71 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 openssl amd64 3.0.8-1ubuntu1 [1180 kB] Get:72 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 ca-certificates all 20230311 [155 kB] Get:73 http://ftpmaster.internal/ubuntu lunar/main amd64 readline-common all 8.2-1.3 [55.7 kB] Get:74 http://ftpmaster.internal/ubuntu lunar/main amd64 libreadline8 amd64 8.2-1.3 [151 kB] Get:75 http://ftpmaster.internal/ubuntu lunar/main amd64 libsqlite3-0 amd64 3.40.1-1 [654 kB] Get:76 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 tzdata all 2022g-7ubuntu2 [270 kB] Get:77 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 xz-utils amd64 5.4.1-0.2 [270 kB] Get:78 http://ftpmaster.internal/ubuntu lunar/main amd64 advancecomp amd64 2.5-1 [180 kB] Get:79 http://ftpmaster.internal/ubuntu lunar/main amd64 libgprofng0 amd64 2.40-2ubuntu3 [897 kB] Get:80 http://ftpmaster.internal/ubuntu lunar/main amd64 libctf0 amd64 2.40-2ubuntu3 [97.3 kB] Get:81 http://ftpmaster.internal/ubuntu lunar/main amd64 libctf-nobfd0 amd64 2.40-2ubuntu3 [101 kB] Get:82 http://ftpmaster.internal/ubuntu lunar/main amd64 binutils-x86-64-linux-gnu amd64 2.40-2ubuntu3 [2483 kB] Get:83 http://ftpmaster.internal/ubuntu lunar/main amd64 libbinutils amd64 2.40-2ubuntu3 [630 kB] Get:84 http://ftpmaster.internal/ubuntu lunar/main amd64 binutils amd64 2.40-2ubuntu3 [18.5 kB] Get:85 http://ftpmaster.internal/ubuntu lunar/main amd64 binutils-common amd64 2.40-2ubuntu3 [238 kB] Get:86 http://ftpmaster.internal/ubuntu lunar/main amd64 libubsan1 amd64 13-20230305-1ubuntu1 [1099 kB] Get:87 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 g++-12 amd64 12.2.0-17ubuntu1 [12.0 MB] Get:88 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libstdc++-12-dev amd64 12.2.0-17ubuntu1 [2157 kB] Get:89 http://ftpmaster.internal/ubuntu lunar/main amd64 libgomp1 amd64 13-20230305-1ubuntu1 [141 kB] Get:90 http://ftpmaster.internal/ubuntu lunar/main amd64 libitm1 amd64 13-20230305-1ubuntu1 [29.5 kB] Get:91 http://ftpmaster.internal/ubuntu lunar/main amd64 libatomic1 amd64 13-20230305-1ubuntu1 [10.4 kB] Get:92 http://ftpmaster.internal/ubuntu lunar/main amd64 libasan8 amd64 13-20230305-1ubuntu1 [2809 kB] Get:93 http://ftpmaster.internal/ubuntu lunar/main amd64 liblsan0 amd64 13-20230305-1ubuntu1 [1197 kB] Get:94 http://ftpmaster.internal/ubuntu lunar/main amd64 libquadmath0 amd64 13-20230305-1ubuntu1 [153 kB] Get:95 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 gcc-12 amd64 12.2.0-17ubuntu1 [21.4 MB] Get:96 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libgcc-12-dev amd64 12.2.0-17ubuntu1 [2576 kB] Get:97 http://ftpmaster.internal/ubuntu lunar/main amd64 libtsan2 amd64 13-20230305-1ubuntu1 [2590 kB] Get:98 http://ftpmaster.internal/ubuntu lunar/main amd64 libcc1-0 amd64 13-20230305-1ubuntu1 [46.8 kB] Get:99 http://ftpmaster.internal/ubuntu lunar/main amd64 libmpfr6 amd64 4.2.0-1 [352 kB] Get:100 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 cpp-12 amd64 12.2.0-17ubuntu1 [10.6 MB] Get:101 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 gcc-12-base amd64 12.2.0-17ubuntu1 [41.4 kB] Get:102 http://ftpmaster.internal/ubuntu lunar/main amd64 g++ amd64 4:12.2.0-3ubuntu1 [1120 B] Get:103 http://ftpmaster.internal/ubuntu lunar/main amd64 gcc amd64 4:12.2.0-3ubuntu1 [5160 B] Get:104 http://ftpmaster.internal/ubuntu lunar/main amd64 cpp amd64 4:12.2.0-3ubuntu1 [27.8 kB] Get:105 http://ftpmaster.internal/ubuntu lunar/main amd64 dpkg-dev all 1.21.21ubuntu1 [1117 kB] Get:106 http://ftpmaster.internal/ubuntu lunar/main amd64 libdpkg-perl all 1.21.21ubuntu1 [247 kB] Get:107 http://ftpmaster.internal/ubuntu lunar/main amd64 lto-disabled-list all 38 [12.3 kB] Get:108 http://ftpmaster.internal/ubuntu lunar/main amd64 libfakeroot amd64 1.31-1.1 [31.9 kB] Get:109 http://ftpmaster.internal/ubuntu lunar/main amd64 fakeroot amd64 1.31-1.1 [60.1 kB] Get:110 http://ftpmaster.internal/ubuntu lunar/main amd64 gpg amd64 2.2.40-1ubuntu2 [523 kB] Get:111 http://ftpmaster.internal/ubuntu lunar/main amd64 gpgconf amd64 2.2.40-1ubuntu2 [93.7 kB] Get:112 http://ftpmaster.internal/ubuntu lunar/main amd64 gpg-agent amd64 2.2.40-1ubuntu2 [217 kB] Get:113 http://ftpmaster.internal/ubuntu lunar/main amd64 pkgbinarymangler all 152 [16.2 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 106 MB in 1s (139 MB/s) (Reading database ... 13093 files and directories currently installed.) Preparing to unpack .../bash_5.2.15-2ubuntu1_amd64.deb ... Unpacking bash (5.2.15-2ubuntu1) over (5.2-1ubuntu2) ... Setting up bash (5.2.15-2ubuntu1) ... update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode (Reading database ... 13093 files and directories currently installed.) Preparing to unpack .../coreutils_9.1-1ubuntu2_amd64.deb ... Unpacking coreutils (9.1-1ubuntu2) over (8.32-4.1ubuntu1) ... Setting up coreutils (9.1-1ubuntu2) ... (Reading database ... 13093 files and directories currently installed.) Preparing to unpack .../libcrypt-dev_1%3a4.4.33-2_amd64.deb ... Unpacking libcrypt-dev:amd64 (1:4.4.33-2) over (1:4.4.33-1) ... Preparing to unpack .../libc6-dev_2.37-0ubuntu1_amd64.deb ... Unpacking libc6-dev:amd64 (2.37-0ubuntu1) over (2.36-0ubuntu4) ... Preparing to unpack .../libc-dev-bin_2.37-0ubuntu1_amd64.deb ... Unpacking libc-dev-bin (2.37-0ubuntu1) over (2.36-0ubuntu4) ... 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Setting up cpp (4:12.2.0-3ubuntu1) ... Setting up gpgconf (2.2.40-1ubuntu2) ... Setting up libc6-dev:amd64 (2.37-0ubuntu1) ... Setting up gpg (2.2.40-1ubuntu2) ... Setting up binutils-x86-64-linux-gnu (2.40-2ubuntu3) ... Setting up gpg-agent (2.2.40-1ubuntu2) ... Setting up libstdc++-12-dev:amd64 (12.2.0-17ubuntu1) ... Setting up systemd (252.5-2ubuntu2) ... Installing new version of config file /etc/systemd/logind.conf ... Installing new version of config file /etc/systemd/system.conf ... Installing new version of config file /etc/systemd/user.conf ... Initializing machine ID from random generator. Setting up binutils (2.40-2ubuntu3) ... Setting up dpkg-dev (1.21.21ubuntu1) ... Setting up gcc-12 (12.2.0-17ubuntu1) ... Setting up g++-12 (12.2.0-17ubuntu1) ... Setting up systemd-sysv (252.5-2ubuntu2) ... Setting up gcc (4:12.2.0-3ubuntu1) ... Setting up g++ (4:12.2.0-3ubuntu1) ... Processing triggers for libc-bin (2.37-0ubuntu1) ... Processing triggers for debianutils (5.7-0.4) ... Processing triggers for ca-certificates (20230311) ... 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-25674076 amd64 lunar-proposed -c chroot:build-PACKAGEBUILD-25674076 --arch=amd64 --dist=lunar-proposed --nolog -A python-biopython_1.80+dfsg-4build1.dsc Initiating build PACKAGEBUILD-25674076 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 5.4.0-139-generic #156-Ubuntu SMP Fri Jan 20 17:27:18 UTC 2023 x86_64 sbuild (Debian sbuild) 0.79.0 (05 February 2020) on lcy02-amd64-026.buildd +==============================================================================+ | python-biopython 1.80+dfsg-4build1 (amd64) Thu, 16 Mar 2023 07:28:15 +0000 | +==============================================================================+ Package: python-biopython Version: 1.80+dfsg-4build1 Source Version: 1.80+dfsg-4build1 Distribution: lunar-proposed Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: binary I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-25674076/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/python-biopython-CtdrCR/resolver-79nxU7' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- python-biopython_1.80+dfsg-4build1.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/python-biopython-CtdrCR/python-biopython-1.80+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/python-biopython-CtdrCR' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), dh-python, python3-all-dev, python3-numpy, flex, python3-reportlab, hevea, texlive-latex-base, texlive-latex-extra, texlive-fonts-recommended, bwa, clustalo, clustalw, dialign, dssp, emboss, fasttree, mafft, muscle3, ncbi-blast+, phylip, phyml, prank, probcons, python3-networkx, python3-mysqldb, python3-matplotlib, python3-mmtf, python3-pil, python3-rdflib, python3-renderpm, python3-psycopg2, python3-pygments, python3-scipy, python3-setuptools, python3-unittest2, raxml, samtools, t-coffee, wise, build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), dh-python, python3-all-dev, python3-numpy, flex, python3-reportlab, hevea, texlive-latex-base, texlive-latex-extra, texlive-fonts-recommended, bwa, clustalo, clustalw, dialign, dssp, emboss, fasttree, mafft, muscle3, ncbi-blast+, phylip, phyml, prank, probcons, python3-networkx, python3-mysqldb, python3-matplotlib, python3-mmtf, python3-pil, python3-rdflib, python3-renderpm, python3-psycopg2, python3-pygments, python3-scipy, python3-setuptools, python3-unittest2, raxml, samtools, t-coffee, wise, 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 [963 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [653 B] Get:5 copy:/<>/apt_archive ./ Packages [684 B] Fetched 2300 B in 0s (0 B/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 additional packages will be installed: autoconf automake autopoint autotools-dev blt bsdextrautils bwa clustalo clustalw debhelper debugedit dh-autoreconf dh-python dh-strip-nondeterminism dialign dssp dwz emboss emboss-data emboss-lib fasttree file flex fontconfig-config fonts-dejavu-core fonts-lmodern fonts-lyx fonts-urw-base35 gettext gettext-base ghostscript groff-base hevea hicolor-icon-theme ibverbs-providers imagemagick imagemagick-6-common imagemagick-6.q16 intltool-debian libaom3 libapache-pom-java libarchive-zip-perl libargtable2-0 libavahi-client3 libavahi-common-data libavahi-common3 libblas3 libboost-dev libboost-regex1.74.0 libboost1.74-dev libbrotli1 libbsd0 libcairo2 libcbor0.8 libcifpp-data libcifpp5 libcommons-logging-java libcommons-parent-java libcups2 libcurl3-gnutls libdav1d6 libdbus-1-3 libde265-0 libdebhelper-perl libdeflate0 libdw1 libedit2 libelf1 libevent-core-2.1-7a libevent-pthreads-2.1-7 libexpat1 libexpat1-dev libfabric1 libfftw3-double3 libfido2-1 libfile-stripnondeterminism-perl libfontbox-java libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libgd3 libgfortran5 libglib2.0-0 libgraphite2-3 libgs-common libgs10 libgs10-common libharfbuzz0b libheif1 libhpdf-2.3.0 libhts3 libhtscodecs2 libhwloc-plugins libhwloc15 libibverbs1 libice6 libicu72 libidn12 libijs-0.35 libimagequant0 libjbig0 libjbig2dec0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui libjs-sphinxdoc libjs-underscore libkpathsea6 liblapack3 liblbfgsb0 liblcms2-2 libldap2 liblerc4 liblmdb0 liblqr-1-0 libltdl7 libmagic-mgc libmagic1 libmagickcore-6.q16-6 libmagickwand-6.q16-6 libmbedcrypto7 libmbedtls14 libmbedx509-1 libmunge2 libmysqlclient21 libnetpbm11 libnghttp2-14 libnl-3-200 libnl-route-3-200 libnuma1 libopenblas-dev libopenblas-pthread-dev libopenblas0 libopenblas0-pthread libopenjp2-7 libopenmpi3 libpaper-utils libpaper1 libpciaccess0 libpcre3 libpdfbox-java libpipeline1 libpixman-1-0 libpmix2 libpq5 libpsl5 libpsm-infinipath1 libpsm2-2 libptexenc1 libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.11 libpython3.11-dev libpython3.11-minimal libpython3.11-stdlib libqhull-r8.0 libraqm0 librdmacm1 librtmp1 libsasl2-2 libsasl2-modules-db libsm6 libssh-4 libsub-override-perl libsynctex2 libtcl8.6 libteckit0 libtexlua53-5 libtexluajit2 libtiff6 libtk8.6 libtool libuchardet0 libucx0 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libx265-199 libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxi6 libxml2 libxmu6 libxnvctrl0 libxpm4 libxrender1 libxsimd-dev libxslt1.1 libxss1 libxt6 libzzip-0-13 m4 mafft mailcap man-db media-types mime-support muscle3 mysql-common ncbi-blast+ ncbi-data netpbm ocl-icd-libopencl1 openmpi-bin openmpi-common openssh-client phylip phyml po-debconf poppler-data prank preview-latex-style probcons python-matplotlib-data python3 python3-all python3-all-dev python3-appdirs python3-attr python3-beniget python3-brotli python3-cycler python3-dateutil python3-decorator python3-dev python3-distutils python3-fonttools python3-fs python3-gast python3-isodate python3-kiwisolver python3-lib2to3 python3-lxml python3-lz4 python3-matplotlib python3-minimal python3-mmtf python3-mpmath python3-msgpack python3-mysqldb python3-networkx python3-numpy python3-packaging python3-pil python3-pil.imagetk python3-pkg-resources python3-ply python3-psycopg2 python3-pygments python3-pyparsing python3-pythran python3-rdflib python3-renderpm python3-reportlab python3-reportlab-accel python3-scipy python3-setuptools python3-six python3-sympy python3-tk python3-tz python3-ufolib2 python3-unittest2 python3.11 python3.11-dev python3.11-minimal raxml samtools sgml-base t-coffee t1utils tex-common texlive-base texlive-binaries texlive-fonts-recommended texlive-latex-base texlive-latex-extra texlive-latex-recommended texlive-pictures tk8.6-blt2.5 ucf unicode-data wise wise-data x11-common xdg-utils xfonts-encodings xfonts-utils zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc blt-demo clustalx seaview dh-make flit python3-build python3-tomli python3-installer emboss-doc emboss-test embassy bison flex-doc fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre gettext-doc libasprintf-dev libgettextpo-dev groff hevea-doc imagemagick-doc autotrace cups-bsd | lpr | lprng curl enscript ffmpeg gimp gnuplot grads graphviz hp2xx html2ps libwmf-bin mplayer povray radiance sane-utils transfig ufraw-batch libboost-doc libboost1.74-doc libboost-atomic1.74-dev libboost-chrono1.74-dev libboost-container1.74-dev libboost-context1.74-dev libboost-contract1.74-dev libboost-coroutine1.74-dev libboost-date-time1.74-dev libboost-exception1.74-dev libboost-fiber1.74-dev libboost-filesystem1.74-dev libboost-graph1.74-dev libboost-graph-parallel1.74-dev libboost-iostreams1.74-dev libboost-locale1.74-dev libboost-log1.74-dev libboost-math1.74-dev libboost-mpi1.74-dev libboost-mpi-python1.74-dev libboost-numpy1.74-dev libboost-program-options1.74-dev libboost-python1.74-dev libboost-random1.74-dev libboost-regex1.74-dev libboost-serialization1.74-dev libboost-stacktrace1.74-dev libboost-system1.74-dev libboost-test1.74-dev libboost-thread1.74-dev libboost-timer1.74-dev libboost-type-erasure1.74-dev libboost-wave1.74-dev libboost1.74-tools-dev libmpfrc++-dev libntl-dev libboost-nowide1.74-dev libavalon-framework-java libcommons-logging-java-doc libexcalibur-logkit-java liblog4j1.2-java cups-common libfftw3-bin libfftw3-dev libgd-tools low-memory-monitor libhwloc-contrib-plugins libjs-jquery-ui-docs liblcms2-utils libmagickcore-6.q16-6-extra pciutils tcl8.6 tk8.6 libtool-doc gfortran | fortran95-compiler gcj-jdk libxsimd-doc m4-doc apparmor less www-browser opencl-icd gfortran | fortran-compiler keychain libpam-ssh monkeysphere ssh-askpass phylip-doc libmail-box-perl poppler-utils fonts-japanese-mincho | fonts-ipafont-mincho fonts-japanese-gothic | fonts-ipafont-gothic fonts-arphic-ukai fonts-arphic-uming fonts-nanum probcons-extra python3-doc python3-venv python-attr-doc python-cycler-doc python-lxml-doc cm-super-minimal dvipng fonts-staypuft gir1.2-gtk-3.0 inkscape ipython3 librsvg2-common python3-cairocffi python3-gi python3-gi-cairo python3-gobject python3-pyqt5 python3-sip python3-tornado texlive-extra-utils python-mpmath-doc python3-gmpy2 default-mysql-server | virtual-mysql-server python-networkx-doc python3-gdal python3-pydot python3-pygraphviz gfortran python3-pytest python-pil-doc python-ply-doc python-psycopg2-doc python-pygments-doc ttf-bitstream-vera python-pyparsing-doc python-rdflib-doc pdf-viewer python3-egenix-mxtexttools python-reportlab-doc python-scipy-doc python-setuptools-doc texlive-fonts-extra python-sympy-doc tix python3-tk-dbg python3.11-venv python3.11-doc binfmt-support cwltool sgml-base-doc boxshade t-coffee-examples perl-tk xpdf | pdf-viewer xzdec texlive-fonts-recommended-doc texlive-latex-base-doc wp2latex icc-profiles libfile-which-perl texlive-latex-extra-doc texlive-science texlive-latex-recommended-doc texlive-luatex texlive-pstricks dot2tex prerex texlive-pictures-doc vprerex wise-doc Recommended packages: primer3 libfl-dev curl | wget | lynx libmagickcore-6.q16-6-extra dbus libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs fonts-droid-fallback javascript-common libldap-common gsfonts publicsuffix libsasl2-modules libltdl-dev blast2 libwww-perl lynx ruby xauth libmail-sendmail-perl python3-bs4 python3-html5lib python3-yaml python3-olefile python3-sparqlwrapper isympy-common amap-align dialign-tx fsa kalign libsoap-lite-perl libxml-simple-perl muscle mustang poa proda tm-align lmodern dvisvgm tex-gyre tipa default-jre libspreadsheet-parseexcel-perl texlive-plain-generic tk libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following NEW packages will be installed: autoconf automake autopoint autotools-dev blt bsdextrautils bwa clustalo clustalw debhelper debugedit dh-autoreconf dh-python dh-strip-nondeterminism dialign dssp dwz emboss emboss-data emboss-lib fasttree file flex fontconfig-config fonts-dejavu-core fonts-lmodern fonts-lyx fonts-urw-base35 gettext gettext-base ghostscript groff-base hevea hicolor-icon-theme ibverbs-providers imagemagick imagemagick-6-common imagemagick-6.q16 intltool-debian libaom3 libapache-pom-java libarchive-zip-perl libargtable2-0 libavahi-client3 libavahi-common-data libavahi-common3 libblas3 libboost-dev libboost-regex1.74.0 libboost1.74-dev libbrotli1 libbsd0 libcairo2 libcbor0.8 libcifpp-data libcifpp5 libcommons-logging-java libcommons-parent-java libcups2 libcurl3-gnutls libdav1d6 libdbus-1-3 libde265-0 libdebhelper-perl libdeflate0 libdw1 libedit2 libelf1 libevent-core-2.1-7a libevent-pthreads-2.1-7 libexpat1 libexpat1-dev libfabric1 libfftw3-double3 libfido2-1 libfile-stripnondeterminism-perl libfontbox-java libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libgd3 libgfortran5 libglib2.0-0 libgraphite2-3 libgs-common libgs10 libgs10-common libharfbuzz0b libheif1 libhpdf-2.3.0 libhts3 libhtscodecs2 libhwloc-plugins libhwloc15 libibverbs1 libice6 libicu72 libidn12 libijs-0.35 libimagequant0 libjbig0 libjbig2dec0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui libjs-sphinxdoc libjs-underscore libkpathsea6 liblapack3 liblbfgsb0 liblcms2-2 libldap2 liblerc4 liblmdb0 liblqr-1-0 libltdl7 libmagic-mgc libmagic1 libmagickcore-6.q16-6 libmagickwand-6.q16-6 libmbedcrypto7 libmbedtls14 libmbedx509-1 libmunge2 libmysqlclient21 libnetpbm11 libnghttp2-14 libnl-3-200 libnl-route-3-200 libnuma1 libopenblas-dev libopenblas-pthread-dev libopenblas0 libopenblas0-pthread libopenjp2-7 libopenmpi3 libpaper-utils libpaper1 libpciaccess0 libpcre3 libpdfbox-java libpipeline1 libpixman-1-0 libpmix2 libpq5 libpsl5 libpsm-infinipath1 libpsm2-2 libptexenc1 libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.11 libpython3.11-dev libpython3.11-minimal libpython3.11-stdlib libqhull-r8.0 libraqm0 librdmacm1 librtmp1 libsasl2-2 libsasl2-modules-db libsm6 libssh-4 libsub-override-perl libsynctex2 libtcl8.6 libteckit0 libtexlua53-5 libtexluajit2 libtiff6 libtk8.6 libtool libuchardet0 libucx0 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libx265-199 libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxi6 libxml2 libxmu6 libxnvctrl0 libxpm4 libxrender1 libxsimd-dev libxslt1.1 libxss1 libxt6 libzzip-0-13 m4 mafft mailcap man-db media-types mime-support muscle3 mysql-common ncbi-blast+ ncbi-data netpbm ocl-icd-libopencl1 openmpi-bin openmpi-common openssh-client phylip phyml po-debconf poppler-data prank preview-latex-style probcons python-matplotlib-data python3 python3-all python3-all-dev python3-appdirs python3-attr python3-beniget python3-brotli python3-cycler python3-dateutil python3-decorator python3-dev python3-distutils python3-fonttools python3-fs python3-gast python3-isodate python3-kiwisolver python3-lib2to3 python3-lxml python3-lz4 python3-matplotlib python3-minimal python3-mmtf python3-mpmath python3-msgpack python3-mysqldb python3-networkx python3-numpy python3-packaging python3-pil python3-pil.imagetk python3-pkg-resources python3-ply python3-psycopg2 python3-pygments python3-pyparsing python3-pythran python3-rdflib python3-renderpm python3-reportlab python3-reportlab-accel python3-scipy python3-setuptools python3-six python3-sympy python3-tk python3-tz python3-ufolib2 python3-unittest2 python3.11 python3.11-dev python3.11-minimal raxml samtools sbuild-build-depends-main-dummy sgml-base t-coffee t1utils tex-common texlive-base texlive-binaries texlive-fonts-recommended texlive-latex-base texlive-latex-extra texlive-latex-recommended texlive-pictures tk8.6-blt2.5 ucf unicode-data wise wise-data x11-common xdg-utils xfonts-encodings xfonts-utils zlib1g-dev 0 upgraded, 301 newly installed, 0 to remove and 0 not upgraded. Need to get 351 MB of archives. After this operation, 1777 MB of additional disk space will be used. 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http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libpython3-stdlib amd64 3.11.2-1 [7234 B] Get:12 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 python3 amd64 3.11.2-1 [22.9 kB] Get:13 http://ftpmaster.internal/ubuntu lunar/main amd64 m4 amd64 1.4.19-3 [243 kB] Get:14 http://ftpmaster.internal/ubuntu lunar/main amd64 flex amd64 2.6.4-8.1 [299 kB] Get:15 http://ftpmaster.internal/ubuntu lunar/main amd64 libfftw3-double3 amd64 3.3.10-1ubuntu1 [835 kB] Get:16 http://ftpmaster.internal/ubuntu lunar/main amd64 libbrotli1 amd64 1.0.9-2build8 [309 kB] Get:17 http://ftpmaster.internal/ubuntu lunar/main amd64 libfreetype6 amd64 2.12.1+dfsg-4 [390 kB] Get:18 http://ftpmaster.internal/ubuntu lunar/main amd64 fonts-dejavu-core all 2.37-6 [1137 kB] Get:19 http://ftpmaster.internal/ubuntu lunar/main amd64 libfontenc1 amd64 1:1.1.4-1build3 [14.7 kB] Get:20 http://ftpmaster.internal/ubuntu lunar/main amd64 x11-common all 1:7.7+23ubuntu2 [23.4 kB] Get:21 http://ftpmaster.internal/ubuntu lunar/main amd64 xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] Get:22 http://ftpmaster.internal/ubuntu lunar/main amd64 xfonts-utils amd64 1:7.7+6build2 [94.6 kB] Get:23 http://ftpmaster.internal/ubuntu lunar/main amd64 fonts-urw-base35 all 20200910-7 [11.0 MB] Get:24 http://ftpmaster.internal/ubuntu lunar/main amd64 fontconfig-config amd64 2.14.1-3ubuntu3 [34.9 kB] Get:25 http://ftpmaster.internal/ubuntu lunar/main amd64 libfontconfig1 amd64 2.14.1-3ubuntu3 [136 kB] Get:26 http://ftpmaster.internal/ubuntu lunar/universe amd64 libaom3 amd64 3.6.0-1 [1919 kB] Get:27 http://ftpmaster.internal/ubuntu lunar/universe amd64 libdav1d6 amd64 1.0.0-2 [545 kB] Get:28 http://ftpmaster.internal/ubuntu lunar/universe amd64 libde265-0 amd64 1.0.11-1 [164 kB] Get:29 http://ftpmaster.internal/ubuntu lunar/main amd64 libnuma1 amd64 2.0.16-1 [22.6 kB] Get:30 http://ftpmaster.internal/ubuntu lunar/universe amd64 libx265-199 amd64 3.5-2 [1170 kB] Get:31 http://ftpmaster.internal/ubuntu lunar/universe amd64 libheif1 amd64 1.14.2-1 [212 kB] Get:32 http://ftpmaster.internal/ubuntu lunar/main amd64 libjbig0 amd64 2.1-6ubuntu1 [29.1 kB] Get:33 http://ftpmaster.internal/ubuntu lunar/main amd64 libjpeg-turbo8 amd64 2.1.5-2ubuntu1 [147 kB] Get:34 http://ftpmaster.internal/ubuntu lunar/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B] Get:35 http://ftpmaster.internal/ubuntu lunar/main amd64 liblcms2-2 amd64 2.14-2 [161 kB] Get:36 http://ftpmaster.internal/ubuntu lunar/main amd64 libglib2.0-0 amd64 2.75.3-3 [1513 kB] Get:37 http://ftpmaster.internal/ubuntu lunar/universe amd64 liblqr-1-0 amd64 0.4.2-2.1 [27.7 kB] Get:38 http://ftpmaster.internal/ubuntu lunar/main amd64 libltdl7 amd64 2.4.7-5 [40.3 kB] Get:39 http://ftpmaster.internal/ubuntu lunar/main amd64 libopenjp2-7 amd64 2.5.0-1build1 [174 kB] Get:40 http://ftpmaster.internal/ubuntu lunar/main amd64 libdeflate0 amd64 1.15-1 [41.9 kB] Get:41 http://ftpmaster.internal/ubuntu lunar/main amd64 liblerc4 amd64 4.0.0+ds-2ubuntu2 [185 kB] Get:42 http://ftpmaster.internal/ubuntu lunar/main amd64 libwebp7 amd64 1.2.4-0.1build1 [212 kB] Get:43 http://ftpmaster.internal/ubuntu lunar/main amd64 libtiff6 amd64 4.5.0-4ubuntu1 [195 kB] Get:44 http://ftpmaster.internal/ubuntu lunar/main amd64 libwebpdemux2 amd64 1.2.4-0.1build1 [9886 B] Get:45 http://ftpmaster.internal/ubuntu lunar/main amd64 libwebpmux3 amd64 1.2.4-0.1build1 [20.8 kB] Get:46 http://ftpmaster.internal/ubuntu lunar/main amd64 libxau6 amd64 1:1.0.9-1build5 [7634 B] Get:47 http://ftpmaster.internal/ubuntu lunar/main amd64 libbsd0 amd64 0.11.7-4 [41.4 kB] Get:48 http://ftpmaster.internal/ubuntu lunar/main amd64 libxdmcp6 amd64 1:1.1.3-0ubuntu5 [10.9 kB] Get:49 http://ftpmaster.internal/ubuntu lunar/main amd64 libxcb1 amd64 1.15-1 [48.0 kB] Get:50 http://ftpmaster.internal/ubuntu lunar/main amd64 libx11-data all 2:1.8.4-2 [118 kB] Get:51 http://ftpmaster.internal/ubuntu lunar/main amd64 libx11-6 amd64 2:1.8.4-2 [649 kB] Get:52 http://ftpmaster.internal/ubuntu lunar/main amd64 libxext6 amd64 2:1.3.4-1build1 [31.8 kB] Get:53 http://ftpmaster.internal/ubuntu lunar/main amd64 libicu72 amd64 72.1-3ubuntu1 [10.8 MB] Get:54 http://ftpmaster.internal/ubuntu lunar/main amd64 libxml2 amd64 2.9.14+dfsg-1.1build2 [763 kB] Get:55 http://ftpmaster.internal/ubuntu lunar/universe amd64 imagemagick-6-common all 8:6.9.11.60+dfsg-1.6 [64.6 kB] Get:56 http://ftpmaster.internal/ubuntu lunar/universe amd64 libmagickcore-6.q16-6 amd64 8:6.9.11.60+dfsg-1.6 [1792 kB] Get:57 http://ftpmaster.internal/ubuntu lunar/universe amd64 libmagickwand-6.q16-6 amd64 8:6.9.11.60+dfsg-1.6 [323 kB] Get:58 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 poppler-data all 0.4.12-1 [2060 kB] Get:59 http://ftpmaster.internal/ubuntu lunar/main amd64 sgml-base all 1.31 [11.4 kB] Get:60 http://ftpmaster.internal/ubuntu lunar/main amd64 libdbus-1-3 amd64 1.14.4-1ubuntu1 [201 kB] Get:61 http://ftpmaster.internal/ubuntu lunar/main amd64 libelf1 amd64 0.188-2.1 [53.4 kB] Get:62 http://ftpmaster.internal/ubuntu lunar/main amd64 libfribidi0 amd64 1.0.8-2.1ubuntu1 [25.9 kB] Get:63 http://ftpmaster.internal/ubuntu lunar/main amd64 python3-pkg-resources all 66.1.1-1 [225 kB] Get:64 http://ftpmaster.internal/ubuntu lunar/main amd64 python3-pygments all 2.14.0+dfsg-1 [785 kB] Get:65 http://ftpmaster.internal/ubuntu lunar/main amd64 ucf all 3.0043+nmu1 [56.5 kB] Get:66 http://ftpmaster.internal/ubuntu lunar/main amd64 bsdextrautils amd64 2.38.1-4ubuntu1 [71.0 kB] Get:67 http://ftpmaster.internal/ubuntu lunar/main amd64 libmagic-mgc amd64 1:5.44-3 [293 kB] Get:68 http://ftpmaster.internal/ubuntu lunar/main amd64 libmagic1 amd64 1:5.44-3 [85.6 kB] Get:69 http://ftpmaster.internal/ubuntu lunar/main amd64 file amd64 1:5.44-3 [21.8 kB] Get:70 http://ftpmaster.internal/ubuntu lunar/main amd64 gettext-base amd64 0.21-11 [36.5 kB] Get:71 http://ftpmaster.internal/ubuntu lunar/main amd64 libuchardet0 amd64 0.0.7-1build2 [76.9 kB] Get:72 http://ftpmaster.internal/ubuntu lunar/main amd64 groff-base amd64 1.22.4-10 [937 kB] Get:73 http://ftpmaster.internal/ubuntu lunar/main amd64 libcbor0.8 amd64 0.8.0-2ubuntu1 [24.6 kB] Get:74 http://ftpmaster.internal/ubuntu lunar/main amd64 libedit2 amd64 3.1-20221030-2 [95.2 kB] Get:75 http://ftpmaster.internal/ubuntu lunar/main amd64 libfido2-1 amd64 1.12.0-2 [84.8 kB] Get:76 http://ftpmaster.internal/ubuntu lunar/main amd64 liblmdb0 amd64 0.9.24-1build2 [47.6 kB] Get:77 http://ftpmaster.internal/ubuntu lunar/main amd64 libnghttp2-14 amd64 1.52.0-1 [72.0 kB] Get:78 http://ftpmaster.internal/ubuntu lunar/main amd64 libpipeline1 amd64 1.5.7-1 [23.3 kB] Get:79 http://ftpmaster.internal/ubuntu lunar/main amd64 libpsl5 amd64 0.21.2-1 [59.0 kB] Get:80 http://ftpmaster.internal/ubuntu lunar/main amd64 man-db amd64 2.11.2-1 [1218 kB] Get:81 http://ftpmaster.internal/ubuntu lunar/main amd64 openssh-client amd64 1:9.0p1-1ubuntu8 [876 kB] Get:82 http://ftpmaster.internal/ubuntu lunar/main amd64 autoconf all 2.71-3 [339 kB] Get:83 http://ftpmaster.internal/ubuntu lunar/main amd64 autotools-dev all 20220109.1 [44.9 kB] Get:84 http://ftpmaster.internal/ubuntu lunar/main amd64 automake all 1:1.16.5-1.3 [558 kB] Get:85 http://ftpmaster.internal/ubuntu lunar/main amd64 autopoint all 0.21-11 [420 kB] Get:86 http://ftpmaster.internal/ubuntu lunar/main amd64 libtcl8.6 amd64 8.6.13+dfsg-2 [984 kB] Get:87 http://ftpmaster.internal/ubuntu lunar/main amd64 libxrender1 amd64 1:0.9.10-1.1 [20.0 kB] Get:88 http://ftpmaster.internal/ubuntu lunar/main amd64 libxft2 amd64 2.3.6-1 [44.5 kB] Get:89 http://ftpmaster.internal/ubuntu lunar/main amd64 libxss1 amd64 1:1.2.3-1build2 [8476 B] Get:90 http://ftpmaster.internal/ubuntu lunar/main amd64 libtk8.6 amd64 8.6.13-2 [776 kB] Get:91 http://ftpmaster.internal/ubuntu lunar/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-4.1build2 [643 kB] Get:92 http://ftpmaster.internal/ubuntu lunar/main amd64 blt amd64 2.5.3+dfsg-4.1build2 [4838 B] Get:93 http://ftpmaster.internal/ubuntu lunar/universe amd64 bwa amd64 0.7.17-7 [195 kB] Get:94 http://ftpmaster.internal/ubuntu lunar/universe amd64 libargtable2-0 amd64 13-1.1 [14.1 kB] Get:95 http://ftpmaster.internal/ubuntu lunar/universe amd64 clustalo amd64 1.2.4-7 [259 kB] Get:96 http://ftpmaster.internal/ubuntu lunar/universe amd64 clustalw amd64 2.1+lgpl-7 [275 kB] Get:97 http://ftpmaster.internal/ubuntu lunar/main amd64 libdebhelper-perl all 13.11.4ubuntu3 [66.1 kB] Get:98 http://ftpmaster.internal/ubuntu lunar/main amd64 libtool all 2.4.7-5 [166 kB] Get:99 http://ftpmaster.internal/ubuntu lunar/main amd64 dh-autoreconf all 20 [16.1 kB] Get:100 http://ftpmaster.internal/ubuntu lunar/main amd64 libarchive-zip-perl all 1.68-1 [90.2 kB] Get:101 http://ftpmaster.internal/ubuntu lunar/main amd64 libsub-override-perl all 0.09-4 [8706 B] Get:102 http://ftpmaster.internal/ubuntu lunar/main amd64 libfile-stripnondeterminism-perl all 1.13.1-1 [18.1 kB] Get:103 http://ftpmaster.internal/ubuntu lunar/main amd64 dh-strip-nondeterminism all 1.13.1-1 [5362 B] Get:104 http://ftpmaster.internal/ubuntu lunar/main amd64 libdw1 amd64 0.188-2.1 [251 kB] Get:105 http://ftpmaster.internal/ubuntu lunar/main amd64 debugedit amd64 1:5.0-5 [46.1 kB] Get:106 http://ftpmaster.internal/ubuntu lunar/main amd64 dwz amd64 0.15-1 [112 kB] Get:107 http://ftpmaster.internal/ubuntu lunar/main amd64 gettext amd64 0.21-11 [867 kB] Get:108 http://ftpmaster.internal/ubuntu lunar/main amd64 intltool-debian all 0.35.0+20060710.6 [23.2 kB] Get:109 http://ftpmaster.internal/ubuntu lunar/main amd64 po-debconf all 1.0.21+nmu1 [233 kB] Get:110 http://ftpmaster.internal/ubuntu lunar/main amd64 debhelper all 13.11.4ubuntu3 [925 kB] Get:111 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 python3-lib2to3 all 3.11.2-2 [75.9 kB] Get:112 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 python3-distutils all 3.11.2-2 [130 kB] Get:113 http://ftpmaster.internal/ubuntu lunar/universe amd64 dh-python all 5.20230130 [101 kB] Get:114 http://ftpmaster.internal/ubuntu lunar/universe amd64 dialign amd64 2.2.1-11 [139 kB] Get:115 http://ftpmaster.internal/ubuntu lunar/main amd64 libboost-regex1.74.0 amd64 1.74.0-18.1ubuntu3 [515 kB] Get:116 http://ftpmaster.internal/ubuntu lunar/universe amd64 libcifpp-data all 5.0.7.1-1build1 [450 kB] Get:117 http://ftpmaster.internal/ubuntu lunar/universe amd64 libcifpp5 amd64 5.0.7.1-1build1 [874 kB] Get:118 http://ftpmaster.internal/ubuntu lunar/universe amd64 dssp amd64 4.2.2-2 [670 kB] Get:119 http://ftpmaster.internal/ubuntu lunar/main amd64 libxpm4 amd64 1:3.5.12-1.1 [36.2 kB] Get:120 http://ftpmaster.internal/ubuntu lunar/main amd64 libgd3 amd64 2.3.3-7ubuntu2 [123 kB] Get:121 http://ftpmaster.internal/ubuntu lunar/universe amd64 libhpdf-2.3.0 amd64 2.3.0+dfsg-1build1 [335 kB] Get:122 http://ftpmaster.internal/ubuntu lunar/main amd64 mysql-common all 5.8+1.1.0 [6626 B] Get:123 http://ftpmaster.internal/ubuntu lunar/main amd64 libmysqlclient21 amd64 8.0.32-0ubuntu4 [1277 kB] Get:124 http://ftpmaster.internal/ubuntu lunar/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg-10 [20.2 kB] Get:125 http://ftpmaster.internal/ubuntu lunar/main amd64 libsasl2-2 amd64 2.1.28+dfsg-10 [56.6 kB] Get:126 http://ftpmaster.internal/ubuntu lunar/main amd64 libldap2 amd64 2.6.3+dfsg-1~exp1ubuntu2 [184 kB] Get:127 http://ftpmaster.internal/ubuntu lunar/main amd64 libpq5 amd64 15.2-1 [134 kB] Get:128 http://ftpmaster.internal/ubuntu lunar/universe amd64 emboss-lib amd64 6.6.0+dfsg-12ubuntu1 [3011 kB] Get:129 http://ftpmaster.internal/ubuntu lunar/universe amd64 emboss-data all 6.6.0+dfsg-12ubuntu1 [61.0 MB] Get:130 http://ftpmaster.internal/ubuntu lunar/universe amd64 emboss amd64 6.6.0+dfsg-12ubuntu1 [981 kB] Get:131 http://ftpmaster.internal/ubuntu lunar/universe amd64 fonts-lmodern all 2.005-1 [4799 kB] Get:132 http://ftpmaster.internal/ubuntu lunar/universe amd64 fonts-lyx all 2.3.7-1 [167 kB] Get:133 http://ftpmaster.internal/ubuntu lunar/main amd64 libgs-common all 10.0.0~dfsg1-0ubuntu1 [168 kB] Get:134 http://ftpmaster.internal/ubuntu lunar/main amd64 libgs10-common all 10.0.0~dfsg1-0ubuntu1 [601 kB] Get:135 http://ftpmaster.internal/ubuntu lunar/main amd64 libavahi-common-data amd64 0.8-6ubuntu1 [24.0 kB] Get:136 http://ftpmaster.internal/ubuntu lunar/main amd64 libavahi-common3 amd64 0.8-6ubuntu1 [23.4 kB] Get:137 http://ftpmaster.internal/ubuntu lunar/main amd64 libavahi-client3 amd64 0.8-6ubuntu1 [27.6 kB] Get:138 http://ftpmaster.internal/ubuntu lunar/main amd64 libcups2 amd64 2.4.2-1ubuntu4 [261 kB] Get:139 http://ftpmaster.internal/ubuntu lunar/main amd64 libidn12 amd64 1.41-1 [56.2 kB] Get:140 http://ftpmaster.internal/ubuntu lunar/main amd64 libijs-0.35 amd64 0.35-15build2 [16.5 kB] Get:141 http://ftpmaster.internal/ubuntu lunar/main amd64 libjbig2dec0 amd64 0.19-3build2 [64.7 kB] Get:142 http://ftpmaster.internal/ubuntu lunar/main amd64 libpaper1 amd64 1.1.28build2 [13.8 kB] Get:143 http://ftpmaster.internal/ubuntu lunar/main amd64 libice6 amd64 2:1.0.10-1build2 [42.6 kB] Get:144 http://ftpmaster.internal/ubuntu lunar/main amd64 libsm6 amd64 2:1.2.3-1build2 [16.7 kB] Get:145 http://ftpmaster.internal/ubuntu lunar/main amd64 libxt6 amd64 1:1.2.1-1 [177 kB] Get:146 http://ftpmaster.internal/ubuntu lunar/main amd64 libgs10 amd64 10.0.0~dfsg1-0ubuntu1 [3836 kB] Get:147 http://ftpmaster.internal/ubuntu lunar/main amd64 ghostscript amd64 10.0.0~dfsg1-0ubuntu1 [49.3 kB] Get:148 http://ftpmaster.internal/ubuntu lunar/universe amd64 libnetpbm11 amd64 2:11.01.00-2build1 [111 kB] Get:149 http://ftpmaster.internal/ubuntu lunar/universe amd64 netpbm amd64 2:11.01.00-2build1 [2017 kB] Get:150 http://ftpmaster.internal/ubuntu lunar/universe amd64 tex-common all 6.18 [32.8 kB] Get:151 http://ftpmaster.internal/ubuntu lunar/main amd64 libpaper-utils amd64 1.1.28build2 [8674 B] Get:152 http://ftpmaster.internal/ubuntu lunar/main amd64 libkpathsea6 amd64 2022.20220321.62855-5build1 [59.6 kB] Get:153 http://ftpmaster.internal/ubuntu lunar/main amd64 libptexenc1 amd64 2022.20220321.62855-5build1 [38.1 kB] Get:154 http://ftpmaster.internal/ubuntu lunar/main amd64 libsynctex2 amd64 2022.20220321.62855-5build1 [55.4 kB] Get:155 http://ftpmaster.internal/ubuntu lunar/main amd64 libtexlua53-5 amd64 2022.20220321.62855-5build1 [118 kB] Get:156 http://ftpmaster.internal/ubuntu lunar/main amd64 libtexluajit2 amd64 2022.20220321.62855-5build1 [266 kB] Get:157 http://ftpmaster.internal/ubuntu lunar/main amd64 t1utils amd64 1.41-4build2 [61.3 kB] Get:158 http://ftpmaster.internal/ubuntu lunar/main amd64 libpixman-1-0 amd64 0.42.2-1 [268 kB] Get:159 http://ftpmaster.internal/ubuntu lunar/main amd64 libxcb-render0 amd64 1.15-1 [16.3 kB] Get:160 http://ftpmaster.internal/ubuntu lunar/main amd64 libxcb-shm0 amd64 1.15-1 [5740 B] Get:161 http://ftpmaster.internal/ubuntu lunar/main amd64 libcairo2 amd64 1.16.0-7 [518 kB] Get:162 http://ftpmaster.internal/ubuntu lunar/main amd64 libgraphite2-3 amd64 1.3.14-1build2 [71.3 kB] Get:163 http://ftpmaster.internal/ubuntu lunar/main amd64 libharfbuzz0b amd64 6.0.0+dfsg-3build1 [411 kB] Get:164 http://ftpmaster.internal/ubuntu lunar/universe amd64 libteckit0 amd64 2.5.11+ds1-1 [421 kB] Get:165 http://ftpmaster.internal/ubuntu lunar/main amd64 libxmu6 amd64 2:1.1.3-3 [49.6 kB] Get:166 http://ftpmaster.internal/ubuntu lunar/main amd64 libxaw7 amd64 2:1.0.14-1 [191 kB] Get:167 http://ftpmaster.internal/ubuntu lunar/main amd64 libxi6 amd64 2:1.8-1build1 [32.6 kB] Get:168 http://ftpmaster.internal/ubuntu lunar/universe amd64 libzzip-0-13 amd64 0.13.72+dfsg.1-1.1 [27.0 kB] Get:169 http://ftpmaster.internal/ubuntu lunar/universe amd64 texlive-binaries amd64 2022.20220321.62855-5build1 [10.1 MB] Get:170 http://ftpmaster.internal/ubuntu lunar/main amd64 xdg-utils all 1.1.3-4.1ubuntu3 [62.0 kB] Get:171 http://ftpmaster.internal/ubuntu lunar/universe amd64 texlive-base all 2022.20230122-2 [21.7 MB] Get:172 http://ftpmaster.internal/ubuntu lunar/main amd64 hicolor-icon-theme all 0.17-2 [9976 B] Get:173 http://ftpmaster.internal/ubuntu lunar/universe amd64 imagemagick-6.q16 amd64 8:6.9.11.60+dfsg-1.6 [222 kB] Get:174 http://ftpmaster.internal/ubuntu lunar/universe amd64 imagemagick amd64 8:6.9.11.60+dfsg-1.6 [14.5 kB] Get:175 http://ftpmaster.internal/ubuntu lunar/universe amd64 hevea amd64 2.36-1build1 [2021 kB] Get:176 http://ftpmaster.internal/ubuntu lunar/main amd64 libnl-3-200 amd64 3.7.0-0.2 [57.4 kB] Get:177 http://ftpmaster.internal/ubuntu lunar/main amd64 libnl-route-3-200 amd64 3.7.0-0.2 [189 kB] Get:178 http://ftpmaster.internal/ubuntu lunar/main amd64 libibverbs1 amd64 44.0-2 [67.1 kB] Get:179 http://ftpmaster.internal/ubuntu lunar/main amd64 ibverbs-providers amd64 44.0-2 [365 kB] Get:180 http://ftpmaster.internal/ubuntu lunar/universe amd64 libapache-pom-java all 29-2 [5284 B] Get:181 http://ftpmaster.internal/ubuntu lunar/main amd64 libblas3 amd64 3.11.0-2 [244 kB] Get:182 http://ftpmaster.internal/ubuntu lunar/main amd64 libboost1.74-dev amd64 1.74.0-18.1ubuntu3 [9588 kB] Get:183 http://ftpmaster.internal/ubuntu lunar/main amd64 libboost-dev amd64 1.74.0.3ubuntu7 [3490 B] Get:184 http://ftpmaster.internal/ubuntu lunar/universe amd64 libcommons-parent-java all 56-1 [10.7 kB] Get:185 http://ftpmaster.internal/ubuntu lunar/universe amd64 libcommons-logging-java all 1.2-3 [59.9 kB] Get:186 http://ftpmaster.internal/ubuntu lunar/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2build4 [58.2 kB] Get:187 http://ftpmaster.internal/ubuntu lunar/main amd64 libssh-4 amd64 0.10.4-2 [185 kB] Get:188 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libcurl3-gnutls amd64 7.88.1-6ubuntu1 [300 kB] Get:189 http://ftpmaster.internal/ubuntu lunar/main amd64 libevent-core-2.1-7a amd64 2.1.12-stable-5ubuntu1 [91.2 kB] Get:190 http://ftpmaster.internal/ubuntu lunar/main amd64 libevent-pthreads-2.1-7 amd64 2.1.12-stable-5ubuntu1 [7694 B] Get:191 http://ftpmaster.internal/ubuntu lunar/main amd64 libexpat1-dev amd64 2.5.0-1 [137 kB] Get:192 http://ftpmaster.internal/ubuntu lunar/universe amd64 libpsm-infinipath1 amd64 3.3+20.604758e7-6.2 [181 kB] Get:193 http://ftpmaster.internal/ubuntu lunar/universe amd64 libpsm2-2 amd64 11.2.185-2 [196 kB] Get:194 http://ftpmaster.internal/ubuntu lunar/main amd64 librdmacm1 amd64 44.0-2 [70.7 kB] Get:195 http://ftpmaster.internal/ubuntu lunar/universe amd64 libfabric1 amd64 1.17.0-3 [665 kB] Get:196 http://ftpmaster.internal/ubuntu lunar/main amd64 libgfortran5 amd64 13-20230305-1ubuntu1 [888 kB] Get:197 http://ftpmaster.internal/ubuntu lunar/universe amd64 libhtscodecs2 amd64 1.3.0-4 [93.6 kB] Get:198 http://ftpmaster.internal/ubuntu lunar/universe amd64 libhts3 amd64 1.16+ds-3 [420 kB] Get:199 http://ftpmaster.internal/ubuntu lunar/universe amd64 libhwloc15 amd64 2.9.0-1 [161 kB] Get:200 http://ftpmaster.internal/ubuntu lunar/main amd64 libimagequant0 amd64 2.17.0-1 [34.6 kB] Get:201 http://ftpmaster.internal/ubuntu lunar/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] Get:202 http://ftpmaster.internal/ubuntu lunar/universe amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB] Get:203 http://ftpmaster.internal/ubuntu lunar/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] Get:204 http://ftpmaster.internal/ubuntu lunar/main amd64 libjs-sphinxdoc all 5.3.0-3 [129 kB] Get:205 http://ftpmaster.internal/ubuntu lunar/universe amd64 libopenblas0-pthread amd64 0.3.21+ds-4 [7228 kB] Get:206 http://ftpmaster.internal/ubuntu lunar/main amd64 liblapack3 amd64 3.11.0-2 [2659 kB] Get:207 http://ftpmaster.internal/ubuntu lunar/universe amd64 liblbfgsb0 amd64 3.0+dfsg.3-11 [29.8 kB] Get:208 http://ftpmaster.internal/ubuntu lunar/universe amd64 libmbedcrypto7 amd64 2.28.2-1 [206 kB] Get:209 http://ftpmaster.internal/ubuntu lunar/universe amd64 libmbedx509-1 amd64 2.28.2-1 [45.7 kB] Get:210 http://ftpmaster.internal/ubuntu lunar/universe amd64 libmbedtls14 amd64 2.28.2-1 [82.6 kB] Get:211 http://ftpmaster.internal/ubuntu lunar/universe amd64 libopenblas0 amd64 0.3.21+ds-4 [6100 B] Get:212 http://ftpmaster.internal/ubuntu lunar/universe amd64 libopenblas-pthread-dev amd64 0.3.21+ds-4 [5002 kB] Get:213 http://ftpmaster.internal/ubuntu lunar/universe amd64 libopenblas-dev amd64 0.3.21+ds-4 [18.7 kB] Get:214 http://ftpmaster.internal/ubuntu lunar/universe amd64 libmunge2 amd64 0.5.15-2 [15.3 kB] Get:215 http://ftpmaster.internal/ubuntu lunar/main amd64 libpciaccess0 amd64 0.17-2 [18.5 kB] Get:216 http://ftpmaster.internal/ubuntu lunar/main amd64 libxnvctrl0 amd64 510.47.03-0ubuntu1 [11.5 kB] Get:217 http://ftpmaster.internal/ubuntu lunar/universe amd64 ocl-icd-libopencl1 amd64 2.3.1-1 [37.6 kB] Get:218 http://ftpmaster.internal/ubuntu lunar/universe amd64 libhwloc-plugins amd64 2.9.0-1 [15.8 kB] Get:219 http://ftpmaster.internal/ubuntu lunar/universe amd64 libpmix2 amd64 4.2.2-1 [656 kB] Get:220 http://ftpmaster.internal/ubuntu lunar/universe amd64 libucx0 amd64 1.13.1-1 [911 kB] Get:221 http://ftpmaster.internal/ubuntu lunar/universe amd64 libopenmpi3 amd64 4.1.4-3ubuntu2 [2583 kB] Get:222 http://ftpmaster.internal/ubuntu lunar/main amd64 libpcre3 amd64 2:8.39-15 [250 kB] Get:223 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libpython3.11 amd64 3.11.2-6 [2213 kB] Get:224 http://ftpmaster.internal/ubuntu lunar/main amd64 zlib1g-dev amd64 1:1.2.13.dfsg-1ubuntu4 [895 kB] Get:225 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libpython3.11-dev amd64 3.11.2-6 [5338 kB] Get:226 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libpython3-dev amd64 3.11.2-1 [7482 B] Get:227 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libpython3-all-dev amd64 3.11.2-1 [906 B] Get:228 http://ftpmaster.internal/ubuntu lunar/universe amd64 libqhull-r8.0 amd64 2020.2-5 [194 kB] Get:229 http://ftpmaster.internal/ubuntu lunar/main amd64 libraqm0 amd64 0.7.0-4.1 [11.3 kB] Get:230 http://ftpmaster.internal/ubuntu lunar/universe amd64 libxsimd-dev amd64 8.1.0-7 [90.7 kB] Get:231 http://ftpmaster.internal/ubuntu lunar/main amd64 libxslt1.1 amd64 1.1.35-1 [164 kB] Get:232 http://ftpmaster.internal/ubuntu lunar/universe amd64 mafft amd64 7.505-1 [795 kB] Get:233 http://ftpmaster.internal/ubuntu lunar/universe amd64 muscle3 amd64 3.8.1551-2 [193 kB] Get:234 http://ftpmaster.internal/ubuntu lunar/universe amd64 ncbi-data all 6.1.20170106+dfsg1-10 [4395 kB] Get:235 http://ftpmaster.internal/ubuntu lunar/universe amd64 ncbi-blast+ amd64 2.12.0+ds-3build1 [12.3 MB] Get:236 http://ftpmaster.internal/ubuntu lunar/universe amd64 openmpi-common all 4.1.4-3ubuntu2 [163 kB] Get:237 http://ftpmaster.internal/ubuntu lunar/universe amd64 openmpi-bin amd64 4.1.4-3ubuntu2 [115 kB] Get:238 http://ftpmaster.internal/ubuntu lunar/universe amd64 phylip amd64 1:3.697+dfsg-2 [906 kB] Get:239 http://ftpmaster.internal/ubuntu lunar/universe amd64 phyml amd64 3:3.3.20220408-3 [962 kB] Get:240 http://ftpmaster.internal/ubuntu lunar/universe amd64 prank amd64 0.0.170427+dfsg-3 [396 kB] Get:241 http://ftpmaster.internal/ubuntu lunar/universe amd64 preview-latex-style all 12.2-1ubuntu1 [185 kB] Get:242 http://ftpmaster.internal/ubuntu lunar/universe amd64 probcons amd64 1.12-14 [125 kB] Get:243 http://ftpmaster.internal/ubuntu lunar/universe amd64 python-matplotlib-data all 3.5.2-4ubuntu1 [2911 kB] Get:244 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 python3-all amd64 3.11.2-1 [896 B] Get:245 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 python3.11-dev amd64 3.11.2-6 [614 kB] Get:246 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 python3-dev amd64 3.11.2-1 [26.8 kB] Get:247 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 python3-all-dev amd64 3.11.2-1 [904 B] Get:248 http://ftpmaster.internal/ubuntu lunar/main amd64 python3-appdirs all 1.4.4-3 [10.8 kB] Get:249 http://ftpmaster.internal/ubuntu lunar/main amd64 python3-attr all 22.2.0-1 [49.6 kB] Get:250 http://ftpmaster.internal/ubuntu lunar/universe amd64 python3-gast all 0.5.2-2 [9394 B] Get:251 http://ftpmaster.internal/ubuntu lunar/universe amd64 python3-beniget all 0.4.1-3 [10.0 kB] Get:252 http://ftpmaster.internal/ubuntu lunar/universe amd64 python3-brotli amd64 1.0.9-2build8 [313 kB] Get:253 http://ftpmaster.internal/ubuntu lunar/universe amd64 python3-cycler all 0.11.0-1 [8156 B] Get:254 http://ftpmaster.internal/ubuntu lunar/main amd64 python3-six all 1.16.0-4 [12.4 kB] Get:255 http://ftpmaster.internal/ubuntu lunar/main amd64 python3-dateutil all 2.8.2-1 [79.1 kB] Get:256 http://ftpmaster.internal/ubuntu lunar/main amd64 python3-decorator all 5.1.1-3 [9938 B] Get:257 http://ftpmaster.internal/ubuntu lunar/main amd64 python3-numpy amd64 1:1.24.2-1 [5573 kB] Get:258 http://ftpmaster.internal/ubuntu lunar/main amd64 python3-ply all 3.11-5 [47.5 kB] Get:259 http://ftpmaster.internal/ubuntu lunar/universe amd64 python3-pythran amd64 0.11.0+ds-7 [427 kB] Get:260 http://ftpmaster.internal/ubuntu lunar/universe amd64 python3-scipy amd64 1.10.1-1 [15.4 MB] Get:261 http://ftpmaster.internal/ubuntu lunar/universe amd64 python3-ufolib2 all 0.14.0+dfsg1-1 [34.4 kB] Get:262 http://ftpmaster.internal/ubuntu lunar/universe amd64 python3-mpmath all 1.2.1-2 [419 kB] Get:263 http://ftpmaster.internal/ubuntu lunar/universe amd64 python3-sympy all 1.11.1-1 [4449 kB] Get:264 http://ftpmaster.internal/ubuntu lunar/main amd64 python3-tz all 2022.7.1-1 [32.5 kB] Get:265 http://ftpmaster.internal/ubuntu lunar/universe amd64 python3-fs all 2.4.16-2 [91.0 kB] Get:266 http://ftpmaster.internal/ubuntu lunar/main amd64 python3-lxml amd64 4.9.2-1build1 [1225 kB] Get:267 http://ftpmaster.internal/ubuntu lunar/universe amd64 python3-lz4 amd64 4.0.2+dfsg-1build1 [26.4 kB] Get:268 http://ftpmaster.internal/ubuntu lunar/universe amd64 unicode-data all 15.0.0-1 [8262 kB] Get:269 http://ftpmaster.internal/ubuntu lunar/universe amd64 python3-fonttools amd64 4.38.0-1build1 [1050 kB] Get:270 http://ftpmaster.internal/ubuntu lunar/universe amd64 python3-isodate all 0.6.1-1 [24.7 kB] Get:271 http://ftpmaster.internal/ubuntu lunar/universe amd64 python3-kiwisolver amd64 1.4.4-1build1 [50.6 kB] Get:272 http://ftpmaster.internal/ubuntu lunar/main amd64 python3-pil amd64 9.4.0-1.1build1 [431 kB] Get:273 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 python3-tk amd64 3.11.2-2 [100 kB] Get:274 http://ftpmaster.internal/ubuntu lunar/universe amd64 python3-pil.imagetk amd64 9.4.0-1.1build1 [9404 B] Get:275 http://ftpmaster.internal/ubuntu lunar/main amd64 python3-pyparsing all 3.0.9-1 [83.1 kB] Get:276 http://ftpmaster.internal/ubuntu lunar/main amd64 python3-packaging all 23.0-1 [32.7 kB] Get:277 http://ftpmaster.internal/ubuntu lunar/universe amd64 python3-matplotlib amd64 3.5.2-4ubuntu1 [5899 kB] Get:278 http://ftpmaster.internal/ubuntu lunar/main amd64 python3-msgpack amd64 1.0.3-2 [90.9 kB] Get:279 http://ftpmaster.internal/ubuntu lunar/universe amd64 python3-mmtf all 1.1.3-1 [16.2 kB] Get:280 http://ftpmaster.internal/ubuntu lunar/main amd64 python3-mysqldb amd64 1.4.6-2build1 [47.2 kB] Get:281 http://ftpmaster.internal/ubuntu lunar/main amd64 python3-networkx all 2.8.8-1ubuntu1 [1468 kB] Get:282 http://ftpmaster.internal/ubuntu lunar/main amd64 python3-psycopg2 amd64 2.9.5-1 [144 kB] Get:283 http://ftpmaster.internal/ubuntu lunar/universe amd64 python3-rdflib all 6.1.1-1 [363 kB] Get:284 http://ftpmaster.internal/ubuntu lunar/main amd64 python3-renderpm amd64 3.6.12-1build1 [64.7 kB] Get:285 http://ftpmaster.internal/ubuntu lunar/main amd64 python3-reportlab-accel amd64 3.6.12-1build1 [21.6 kB] Get:286 http://ftpmaster.internal/ubuntu lunar/main amd64 python3-reportlab all 3.6.12-1build1 [565 kB] Get:287 http://ftpmaster.internal/ubuntu lunar/main amd64 python3-setuptools all 66.1.1-1 [453 kB] Get:288 http://ftpmaster.internal/ubuntu lunar/main amd64 python3-unittest2 all 1.1.0-9 [76.3 kB] Get:289 http://ftpmaster.internal/ubuntu lunar/universe amd64 raxml amd64 8.2.12+dfsg-8 [1570 kB] Get:290 http://ftpmaster.internal/ubuntu lunar/universe amd64 samtools amd64 1.16.1-1 [551 kB] Get:291 http://ftpmaster.internal/ubuntu lunar/universe amd64 t-coffee amd64 13.45.0.4846264+really13.41.0.28bdc39+dfsg-1 [929 kB] Get:292 http://ftpmaster.internal/ubuntu lunar/universe amd64 texlive-fonts-recommended all 2022.20230122-2 [4973 kB] Get:293 http://ftpmaster.internal/ubuntu lunar/universe amd64 texlive-latex-base all 2022.20230122-2 [1165 kB] Get:294 http://ftpmaster.internal/ubuntu lunar/universe amd64 libfontbox-java all 1:1.8.16-2 [207 kB] Get:295 http://ftpmaster.internal/ubuntu lunar/universe amd64 libpdfbox-java all 1:1.8.16-2 [5199 kB] Get:296 http://ftpmaster.internal/ubuntu lunar/universe amd64 texlive-latex-recommended all 2022.20230122-2 [8864 kB] Get:297 http://ftpmaster.internal/ubuntu lunar/universe amd64 texlive-pictures all 2022.20230122-2 [15.8 MB] Get:298 http://ftpmaster.internal/ubuntu lunar/universe amd64 texlive-latex-extra all 2022.20230122-2 [18.8 MB] Get:299 http://ftpmaster.internal/ubuntu lunar/universe amd64 wise-data all 2.4.1-23 [76.8 kB] Get:300 http://ftpmaster.internal/ubuntu lunar/universe amd64 wise amd64 2.4.1-23 [995 kB] Get:301 http://ftpmaster.internal/ubuntu lunar/universe amd64 fasttree amd64 2.1.11-2 [174 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 351 MB in 2s (143 MB/s) Selecting previously unselected package libpython3.11-minimal:amd64. (Reading database ... 14633 files and directories currently installed.) Preparing to unpack .../libpython3.11-minimal_3.11.2-6_amd64.deb ... Unpacking libpython3.11-minimal:amd64 (3.11.2-6) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.5.0-1_amd64.deb ... Unpacking libexpat1:amd64 (2.5.0-1) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.2-6_amd64.deb ... Unpacking python3.11-minimal (3.11.2-6) ... Setting up libpython3.11-minimal:amd64 (3.11.2-6) ... Setting up libexpat1:amd64 (2.5.0-1) ... Setting up python3.11-minimal (3.11.2-6) ... Selecting previously unselected package python3-minimal. (Reading database ... 14947 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.11.2-1_amd64.deb ... Unpacking python3-minimal (3.11.2-1) ... Selecting previously unselected package media-types. 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Setting up libpixman-1-0:amd64 (0.42.2-1) ... Setting up libaom3:amd64 (3.6.0-1) ... Setting up libpciaccess0:amd64 (0.17-2) ... Setting up mysql-common (5.8+1.1.0) ... update-alternatives: using /etc/mysql/my.cnf.fallback to provide /etc/mysql/my.cnf (my.cnf) in auto mode Setting up libmysqlclient21:amd64 (8.0.32-0ubuntu4) ... Setting up libxau6:amd64 (1:1.0.9-1build5) ... Setting up imagemagick-6-common (8:6.9.11.60+dfsg-1.6) ... Setting up libhpdf-2.3.0:amd64 (2.3.0+dfsg-1build1) ... Setting up libpsl5:amd64 (0.21.2-1) ... Setting up libboost1.74-dev:amd64 (1.74.0-18.1ubuntu3) ... Setting up libicu72:amd64 (72.1-3ubuntu1) ... Setting up liblerc4:amd64 (4.0.0+ds-2ubuntu2) ... Setting up bsdextrautils (2.38.1-4ubuntu1) ... Setting up hicolor-icon-theme (0.17-2) ... Setting up probcons (1.12-14) ... Setting up libmagic-mgc (1:5.44-3) ... Setting up mafft (7.505-1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libevent-core-2.1-7a:amd64 (2.1.12-stable-5ubuntu1) ... Setting up libglib2.0-0:amd64 (2.75.3-3) ... No schema files found: doing nothing. Setting up bwa (0.7.17-7) ... Setting up fonts-lyx (2.3.7-1) ... Setting up libijs-0.35:amd64 (0.35-15build2) ... Setting up libcbor0.8:amd64 (0.8.0-2ubuntu1) ... Setting up libpython3.11-stdlib:amd64 (3.11.2-6) ... Setting up libtexluajit2:amd64 (2022.20220321.62855-5build1) ... Setting up libdebhelper-perl (13.11.4ubuntu3) ... Setting up libgs-common (10.0.0~dfsg1-0ubuntu1) ... Setting up libbrotli1:amd64 (1.0.9-2build8) ... Setting up libfontbox-java (1:1.8.16-2) ... Setting up phylip (1:3.697+dfsg-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 libnghttp2-14:amd64 (1.52.0-1) ... Setting up libmagic1:amd64 (1:5.44-3) ... Setting up libnetpbm11:amd64 (2:11.01.00-2build1) ... Setting up libdeflate0:amd64 (1.15-1) ... Setting up gettext-base (0.21-11) ... Setting up m4 (1.4.19-3) ... Setting up libqhull-r8.0:amd64 (2020.2-5) ... Setting up libzzip-0-13:amd64 (0.13.72+dfsg.1-1.1) ... Setting up file (1:5.44-3) ... Setting up emboss-data (6.6.0+dfsg-12ubuntu1) ... Setting up libjbig0:amd64 (2.1-6ubuntu1) ... Setting up t-coffee (13.45.0.4846264+really13.41.0.28bdc39+dfsg-1) ... Setting up poppler-data (0.4.12-1) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg-10) ... Setting up unicode-data (15.0.0-1) ... Setting up libxsimd-dev:amd64 (8.1.0-7) ... Setting up libpcre3:amd64 (2:8.39-15) ... Setting up libfontenc1:amd64 (1:1.1.4-1build3) ... Setting up autotools-dev (20220109.1) ... Setting up libblas3:amd64 (3.11.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libmunge2 (0.5.15-2) ... Setting up libexpat1-dev:amd64 (2.5.0-1) ... Setting up libfreetype6:amd64 (2.12.1+dfsg-4) ... Setting up libmbedcrypto7:amd64 (2.28.2-1) ... Setting up libx11-data (2:1.8.4-2) ... Setting up libjbig2dec0:amd64 (0.19-3build2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2build4) ... Setting up libteckit0:amd64 (2.5.11+ds1-1) ... Setting up libapache-pom-java (29-2) ... Setting up libavahi-common-data:amd64 (0.8-6ubuntu1) ... Setting up libdbus-1-3:amd64 (1.14.4-1ubuntu1) ... Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... Setting up libfribidi0:amd64 (1.0.8-2.1ubuntu1) ... Setting up libboost-regex1.74.0:amd64 (1.74.0-18.1ubuntu3) ... Setting up muscle3 (3.8.1551-2) ... Setting up t1utils (1.41-4build2) ... Setting up libtexlua53-5:amd64 (2022.20220321.62855-5build1) ... Setting up libimagequant0:amd64 (2.17.0-1) ... Setting up libhwloc15:amd64 (2.9.0-1) ... Setting up libidn12:amd64 (1.41-1) ... Setting up libtcl8.6:amd64 (8.6.13+dfsg-2) ... Setting up autopoint (0.21-11) ... Setting up fonts-dejavu-core (2.37-6) ... Setting up ucf (3.0043+nmu1) ... Setting up wise-data (2.4.1-23) ... Setting up libjpeg-turbo8:amd64 (2.1.5-2ubuntu1) ... Setting up libdav1d6:amd64 (1.0.0-2) ... Setting up libltdl7:amd64 (2.4.7-5) ... Setting up libfftw3-double3:amd64 (3.3.10-1ubuntu1) ... Setting up libcifpp-data (5.0.7.1-1build1) ... Setting up libkpathsea6:amd64 (2022.20220321.62855-5build1) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg-10) ... Setting up libssh-4:amd64 (0.10.4-2) ... Setting up libgfortran5:amd64 (13-20230305-1ubuntu1) ... Setting up autoconf (2.71-3) ... Setting up libwebp7:amd64 (1.2.4-0.1build1) ... Setting up zlib1g-dev:amd64 (1:1.2.13.dfsg-1ubuntu4) ... Setting up libnuma1:amd64 (2.0.16-1) ... Setting up liblqr-1-0:amd64 (0.4.2-2.1) ... Setting up ocl-icd-libopencl1:amd64 (2.3.1-1) ... Setting up libuchardet0:amd64 (0.0.7-1build2) ... Setting up libpsm2-2 (11.2.185-2) ... Setting up openmpi-common (4.1.4-3ubuntu2) ... Setting up clustalw (2.1+lgpl-7) ... Setting up fonts-lmodern (2.005-1) ... Setting up libopenjp2-7:amd64 (2.5.0-1build1) ... Setting up libsub-override-perl (0.09-4) ... Setting up libharfbuzz0b:amd64 (6.0.0+dfsg-3build1) ... Setting up fasttree (2.1.11-2) ... Setting up sgml-base (1.31) ... Setting up libboost-dev:amd64 (1.74.0.3ubuntu7) ... Setting up libpsm-infinipath1 (3.3+20.604758e7-6.2) ... update-alternatives: using /usr/lib/libpsm1/libpsm_infinipath.so.1.16 to provide /usr/lib/x86_64-linux-gnu/libpsm_infinipath.so.1 (libpsm_infinipath.so.1) in auto mode Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up libfido2-1:amd64 (1.12.0-2) ... Setting up libde265-0:amd64 (1.0.11-1) ... Setting up python-matplotlib-data (3.5.2-4ubuntu1) ... Setting up libwebpmux3:amd64 (1.2.4-0.1build1) ... Setting up libbsd0:amd64 (0.11.7-4) ... Setting up mailcap (3.70+nmu1ubuntu1) ... Setting up libelf1:amd64 (0.188-2.1) ... Setting up dialign (2.2.1-11) ... Setting up libxml2:amd64 (2.9.14+dfsg-1.1build2) ... Setting up xdg-utils (1.1.3-4.1ubuntu3) ... update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode Setting up libldap2:amd64 (2.6.3+dfsg-1~exp1ubuntu2) ... Setting up libsynctex2:amd64 (2022.20220321.62855-5build1) ... Setting up libpython3-stdlib:amd64 (3.11.2-1) ... Setting up prank (0.0.170427+dfsg-3) ... Setting up libargtable2-0 (13-1.1) ... Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Setting up libevent-pthreads-2.1-7:amd64 (2.1.12-stable-5ubuntu1) ... Setting up raxml (8.2.12+dfsg-8) ... Setting up libjpeg8:amd64 (8c-2ubuntu11) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up libpaper1:amd64 (1.1.28build2) ... Creating config file /etc/papersize with new version Setting up python3.11 (3.11.2-6) ... Setting up libice6:amd64 (2:1.0.10-1build2) ... Setting up libdw1:amd64 (0.188-2.1) ... Setting up libxdmcp6:amd64 (1:1.1.3-0ubuntu5) ... Setting up flex (2.6.4-8.1) ... Setting up liblapack3:amd64 (3.11.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libxcb1:amd64 (1.15-1) ... Setting up gettext (0.21-11) ... Setting up libopenblas0-pthread:amd64 (0.3.21+ds-4) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblas.so.0 to provide /usr/lib/x86_64-linux-gnu/libopenblas.so.0 (libopenblas.so.0-x86_64-linux-gnu) in auto mode Setting up libpdfbox-java (1:1.8.16-2) ... Setting up mime-support (3.66) ... Setting up libpython3.11:amd64 (3.11.2-6) ... Setting up libmbedx509-1:amd64 (2.28.2-1) ... Setting up libmbedtls14:amd64 (2.28.2-1) ... Setting up libtool (2.4.7-5) ... Setting up libxcb-render0:amd64 (1.15-1) ... Setting up fontconfig-config (2.14.1-3ubuntu3) ... Setting up wise (2.4.1-23) ... Setting up libwebpdemux2:amd64 (1.2.4-0.1build1) ... Setting up libedit2:amd64 (3.1-20221030-2) ... Setting up libcommons-parent-java (56-1) ... Setting up libavahi-common3:amd64 (0.8-6ubuntu1) ... Setting up libpq5:amd64 (15.2-1) ... Setting up libcommons-logging-java (1.2-3) ... Setting up libcurl3-gnutls:amd64 (7.88.1-6ubuntu1) ... Setting up python3 (3.11.2-1) ... Setting up libxcb-shm0:amd64 (1.15-1) ... Setting up libpaper-utils (1.1.28build2) ... Setting up clustalo (1.2.4-7) ... Setting up xfonts-utils (1:7.7+6build2) ... Setting up python3-tz (2022.7.1-1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up ncbi-blast+ (2.12.0+ds-3build1) ... Setting up libcifpp5:amd64 (5.0.7.1-1build1) ... Setting up python3-mysqldb (1.4.6-2build1) ... Setting up python3-six (1.16.0-4) ... Setting up dh-autoreconf (20) ... Setting up tex-common (6.18) ... update-language: texlive-base not installed and configured, doing nothing! Setting up python3-isodate (0.6.1-1) ... Setting up python3-decorator (5.1.1-3) ... Setting up python3-packaging (23.0-1) ... Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up libptexenc1:amd64 (2022.20220321.62855-5build1) ... Setting up python3-pyparsing (3.0.9-1) ... Setting up libpython3.11-dev:amd64 (3.11.2-6) ... Setting up python3-brotli (1.0.9-2build8) ... Setting up libraqm0:amd64 (0.7.0-4.1) ... Setting up python3-cycler (0.11.0-1) ... Setting up python3-reportlab-accel:amd64 (3.6.12-1build1) ... Setting up python3-kiwisolver (1.4.4-1build1) ... Setting up python3-psycopg2 (2.9.5-1) ... Setting up libjs-sphinxdoc (5.3.0-3) ... Setting up libx265-199:amd64 (3.5-2) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up libopenblas0:amd64 (0.3.21+ds-4) ... Setting up groff-base (1.22.4-10) ... Setting up libtiff6:amd64 (4.5.0-4ubuntu1) ... Setting up libxslt1.1:amd64 (1.1.35-1) ... Setting up libnl-3-200:amd64 (3.7.0-0.2) ... Setting up debugedit (1:5.0-5) ... Setting up libx11-6:amd64 (2:1.8.4-2) ... Setting up python3-dateutil (2.8.2-1) ... Setting up python3-msgpack (1.0.3-2) ... Setting up libfontconfig1:amd64 (2.14.1-3ubuntu3) ... Setting up python3-mpmath (1.2.1-2) ... Setting up python3-lib2to3 (3.11.2-2) ... Setting up python3-appdirs (1.4.4-3) ... Setting up libsm6:amd64 (2:1.2.3-1build2) ... Setting up libavahi-client3:amd64 (0.8-6ubuntu1) ... Setting up liblbfgsb0:amd64 (3.0+dfsg.3-11) ... Setting up python3-pkg-resources (66.1.1-1) ... Setting up python3-distutils (3.11.2-2) ... Setting up libopenblas-pthread-dev:amd64 (0.3.21+ds-4) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so to provide /usr/lib/x86_64-linux-gnu/libblas.so (libblas.so-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/liblapack.so to provide /usr/lib/x86_64-linux-gnu/liblapack.so (liblapack.so-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblas.so to provide /usr/lib/x86_64-linux-gnu/libopenblas.so (libopenblas.so-x86_64-linux-gnu) in auto mode Setting up dh-python (5.20230130) ... Setting up python3-sympy (1.11.1-1) ... Setting up python3-attr (22.2.0-1) ... Setting up libhts3:amd64 (1.16+ds-3) ... Setting up libpython3-dev:amd64 (3.11.2-1) ... Setting up python3-setuptools (66.1.1-1) ... Setting up libxpm4:amd64 (1:3.5.12-1.1) ... Setting up libxrender1:amd64 (1:0.9.10-1.1) ... Setting up python3-lz4 (4.0.2+dfsg-1build1) ... Setting up python3.11-dev (3.11.2-6) ... Setting up openssh-client (1:9.0p1-1ubuntu8) ... update-alternatives: using /usr/bin/ssh to provide /usr/bin/rsh (rsh) in auto mode update-alternatives: using /usr/bin/slogin to provide /usr/bin/rlogin (rlogin) in auto mode update-alternatives: using /usr/bin/scp to provide /usr/bin/rcp (rcp) in auto mode Setting up po-debconf (1.0.21+nmu1) ... Setting up preview-latex-style (12.2-1ubuntu1) ... Setting up python3-ply (3.11-5) ... Setting up libheif1:amd64 (1.14.2-1) ... Setting up python3-gast (0.5.2-2) ... Setting up libxext6:amd64 (2:1.3.4-1build1) ... Setting up python3-all (3.11.2-1) ... Setting up fonts-urw-base35 (20200910-7) ... Setting up dssp (4.2.2-2) ... Setting up python3-networkx (2.8.8-1ubuntu1) ... Setting up man-db (2.11.2-1) ... Not building database; man-db/auto-update is not 'true'. Created symlink /etc/systemd/system/timers.target.wants/man-db.timer → /lib/systemd/system/man-db.timer. Setting up libcairo2:amd64 (1.16.0-7) ... Setting up samtools (1.16.1-1) ... Setting up libnl-route-3-200:amd64 (3.7.0-0.2) ... Setting up python3-fs (2.4.16-2) ... Setting up libxnvctrl0:amd64 (510.47.03-0ubuntu1) ... Setting up python3-beniget (0.4.1-3) ... Setting up python3-pil:amd64 (9.4.0-1.1build1) ... Setting up libmagickcore-6.q16-6:amd64 (8:6.9.11.60+dfsg-1.6) ... Setting up libopenblas-dev:amd64 (0.3.21+ds-4) ... Setting up python3-pygments (2.14.0+dfsg-1) ... Setting up libpython3-all-dev:amd64 (3.11.2-1) ... Setting up python3-dev (3.11.2-1) ... Setting up libgd3:amd64 (2.3.3-7ubuntu2) ... Setting up python3-unittest2 (1.1.0-9) ... update-alternatives: using /usr/bin/python3-unit2 to provide /usr/bin/unit2 (unit2) in auto mode Setting up netpbm (2:11.01.00-2build1) ... Setting up libxt6:amd64 (1:1.2.1-1) ... Setting up python3-numpy (1:1.24.2-1) ... Setting up python3-reportlab (3.6.12-1build1) ... Setting up libcups2:amd64 (2.4.2-1ubuntu4) ... Setting up python3-lxml:amd64 (4.9.2-1build1) ... Setting up python3-rdflib (6.1.1-1) ... Setting up libmagickwand-6.q16-6:amd64 (8:6.9.11.60+dfsg-1.6) ... Setting up emboss-lib (6.6.0+dfsg-12ubuntu1) ... Setting up libxss1:amd64 (1:1.2.3-1build2) ... Setting up python3-all-dev (3.11.2-1) ... Setting up libgs10-common (10.0.0~dfsg1-0ubuntu1) ... Setting up libibverbs1:amd64 (44.0-2) ... Setting up libxft2:amd64 (2.3.6-1) ... Setting up libxmu6:amd64 (2:1.1.3-3) ... Setting up python3-renderpm:amd64 (3.6.12-1build1) ... Setting up emboss (6.6.0+dfsg-12ubuntu1) ... Setting up libxi6:amd64 (2:1.8-1build1) ... Setting up ibverbs-providers:amd64 (44.0-2) ... Setting up libtk8.6:amd64 (8.6.13-2) ... Setting up debhelper (13.11.4ubuntu3) ... Setting up libxaw7:amd64 (2:1.0.14-1) ... Setting up python3-mmtf (1.1.3-1) ... Setting up libhwloc-plugins:amd64 (2.9.0-1) ... Setting up imagemagick-6.q16 (8:6.9.11.60+dfsg-1.6) ... update-alternatives: using /usr/bin/compare-im6.q16 to provide /usr/bin/compare (compare) in auto mode update-alternatives: using /usr/bin/compare-im6.q16 to provide /usr/bin/compare-im6 (compare-im6) in auto mode update-alternatives: using /usr/bin/animate-im6.q16 to provide /usr/bin/animate (animate) in auto mode update-alternatives: using /usr/bin/animate-im6.q16 to provide /usr/bin/animate-im6 (animate-im6) in auto mode update-alternatives: using /usr/bin/convert-im6.q16 to provide /usr/bin/convert (convert) in auto mode update-alternatives: using /usr/bin/convert-im6.q16 to provide /usr/bin/convert-im6 (convert-im6) in auto mode update-alternatives: using /usr/bin/composite-im6.q16 to provide /usr/bin/composite (composite) in auto mode update-alternatives: using /usr/bin/composite-im6.q16 to provide /usr/bin/composite-im6 (composite-im6) in auto mode update-alternatives: using /usr/bin/conjure-im6.q16 to provide /usr/bin/conjure (conjure) in auto mode update-alternatives: using /usr/bin/conjure-im6.q16 to provide /usr/bin/conjure-im6 (conjure-im6) in auto mode update-alternatives: using /usr/bin/import-im6.q16 to provide /usr/bin/import (import) in auto mode update-alternatives: using /usr/bin/import-im6.q16 to provide /usr/bin/import-im6 (import-im6) in auto mode update-alternatives: using /usr/bin/identify-im6.q16 to provide /usr/bin/identify (identify) in auto mode update-alternatives: using /usr/bin/identify-im6.q16 to provide /usr/bin/identify-im6 (identify-im6) in auto mode update-alternatives: using /usr/bin/stream-im6.q16 to provide /usr/bin/stream (stream) in auto mode update-alternatives: using /usr/bin/stream-im6.q16 to provide /usr/bin/stream-im6 (stream-im6) in auto mode update-alternatives: using /usr/bin/display-im6.q16 to provide /usr/bin/display (display) in auto mode update-alternatives: using /usr/bin/display-im6.q16 to provide /usr/bin/display-im6 (display-im6) in auto mode update-alternatives: using /usr/bin/montage-im6.q16 to provide /usr/bin/montage (montage) in auto mode update-alternatives: using /usr/bin/montage-im6.q16 to provide /usr/bin/montage-im6 (montage-im6) in auto mode update-alternatives: using /usr/bin/mogrify-im6.q16 to provide /usr/bin/mogrify (mogrify) in auto mode update-alternatives: using /usr/bin/mogrify-im6.q16 to provide /usr/bin/mogrify-im6 (mogrify-im6) in auto mode Setting up python3-pythran (0.11.0+ds-7) ... Setting up texlive-binaries (2022.20220321.62855-5build1) ... update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode Setting up texlive-base (2022.20230122-2) ... tl-paper: setting paper size for dvips to a4: /var/lib/texmf/dvips/config/config-paper.ps tl-paper: setting paper size for dvipdfmx to a4: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg tl-paper: setting paper size for xdvi to a4: /var/lib/texmf/xdvi/XDvi-paper tl-paper: setting paper size for pdftex to a4: /var/lib/texmf/tex/generic/tex-ini-files/pdftexconfig.tex Setting up libgs10:amd64 (10.0.0~dfsg1-0ubuntu1) ... Setting up librdmacm1:amd64 (44.0-2) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-4.1build2) ... Setting up libucx0:amd64 (1.13.1-1) ... Setting up python3-scipy (1.10.1-1) ... Setting up libpmix2:amd64 (4.2.2-1) ... Setting up blt (2.5.3+dfsg-4.1build2) ... Setting up python3-tk:amd64 (3.11.2-2) ... Setting up ghostscript (10.0.0~dfsg1-0ubuntu1) ... Setting up texlive-latex-base (2022.20230122-2) ... Setting up python3-pil.imagetk:amd64 (9.4.0-1.1build1) ... Setting up texlive-latex-recommended (2022.20230122-2) ... Setting up hevea (2.36-1build1) ... Setting up texlive-pictures (2022.20230122-2) ... Setting up imagemagick (8:6.9.11.60+dfsg-1.6) ... Setting up texlive-fonts-recommended (2022.20230122-2) ... Setting up libfabric1:amd64 (1.17.0-3) ... Setting up libopenmpi3:amd64 (4.1.4-3ubuntu2) ... Setting up texlive-latex-extra (2022.20230122-2) ... Setting up openmpi-bin (4.1.4-3ubuntu2) ... update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode Setting up phyml (3:3.3.20220408-3) ... Setting up python3-ufolib2 (0.14.0+dfsg1-1) ... Setting up python3-fonttools (4.38.0-1build1) ... Setting up python3-matplotlib (3.5.2-4ubuntu1) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.37-0ubuntu1) ... Processing triggers for systemd (252.5-2ubuntu2) ... Processing triggers for tex-common (6.18) ... Running updmap-sys. This may take some time... done. Running mktexlsr /var/lib/texmf ... done. Building format(s) --all. This may take some time... done. +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any all) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.4.0-139-generic #156-Ubuntu SMP Fri Jan 20 17:27:18 UTC 2023 amd64 (x86_64) Toolchain package versions: binutils_2.40-2ubuntu3 dpkg-dev_1.21.21ubuntu1 g++-12_12.2.0-17ubuntu1 gcc-12_12.2.0-17ubuntu1 libc6-dev_2.37-0ubuntu1 libstdc++-12-dev_12.2.0-17ubuntu1 libstdc++6_13-20230305-1ubuntu1 linux-libc-dev_6.1.0-16.16 Package versions: adduser_3.129ubuntu1 advancecomp_2.5-1 apt_2.6.0 autoconf_2.71-3 automake_1:1.16.5-1.3 autopoint_0.21-11 autotools-dev_20220109.1 base-files_12.3ubuntu1 base-passwd_3.6.1 bash_5.2.15-2ubuntu1 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libunistring2_1.0-2 libuuid1_2.38.1-4ubuntu1 libwebp7_1.2.4-0.1build1 libwebpdemux2_1.2.4-0.1build1 libwebpmux3_1.2.4-0.1build1 libx11-6_2:1.8.4-2 libx11-data_2:1.8.4-2 libx265-199_3.5-2 libxau6_1:1.0.9-1build5 libxaw7_2:1.0.14-1 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 libxft2_2.3.6-1 libxi6_2:1.8-1build1 libxml2_2.9.14+dfsg-1.1build2 libxmu6_2:1.1.3-3 libxnvctrl0_510.47.03-0ubuntu1 libxpm4_1:3.5.12-1.1 libxrender1_1:0.9.10-1.1 libxsimd-dev_8.1.0-7 libxslt1.1_1.1.35-1 libxss1_1:1.2.3-1build2 libxt6_1:1.2.1-1 libxxhash0_0.8.1-1 libzstd1_1.5.4+dfsg2-4 libzzip-0-13_0.13.72+dfsg.1-1.1 linux-libc-dev_6.1.0-16.16 lockfile-progs_0.1.19build1 login_1:4.13+dfsg1-1ubuntu1 logsave_1.47.0-1ubuntu1 lsb-base_11.6 lto-disabled-list_38 m4_1.4.19-3 mafft_7.505-1 mailcap_3.70+nmu1ubuntu1 make_4.3-4.1build1 man-db_2.11.2-1 mawk_1.3.4.20200120-3.1 media-types_10.0.0 mime-support_3.66 mount_2.38.1-4ubuntu1 muscle3_3.8.1551-2 mysql-common_5.8+1.1.0 ncbi-blast+_2.12.0+ds-3build1 ncbi-data_6.1.20170106+dfsg1-10 ncurses-base_6.4-2 ncurses-bin_6.4-2 netpbm_2:11.01.00-2build1 ocl-icd-libopencl1_2.3.1-1 openmpi-bin_4.1.4-3ubuntu2 openmpi-common_4.1.4-3ubuntu2 openssh-client_1:9.0p1-1ubuntu8 openssl_3.0.8-1ubuntu1 optipng_0.7.7-2build1 passwd_1:4.13+dfsg1-1ubuntu1 patch_2.7.6-7build2 perl_5.36.0-7 perl-base_5.36.0-7 perl-modules-5.36_5.36.0-7 phylip_1:3.697+dfsg-2 phyml_3:3.3.20220408-3 pinentry-curses_1.2.1-1ubuntu1 pkgbinarymangler_152 po-debconf_1.0.21+nmu1 policyrcd-script-zg2_0.1-3.1 poppler-data_0.4.12-1 prank_0.0.170427+dfsg-3 preview-latex-style_12.2-1ubuntu1 probcons_1.12-14 procps_2:4.0.3-1ubuntu1 python-matplotlib-data_3.5.2-4ubuntu1 python3_3.11.2-1 python3-all_3.11.2-1 python3-all-dev_3.11.2-1 python3-appdirs_1.4.4-3 python3-attr_22.2.0-1 python3-beniget_0.4.1-3 python3-brotli_1.0.9-2build8 python3-cycler_0.11.0-1 python3-dateutil_2.8.2-1 python3-decorator_5.1.1-3 python3-dev_3.11.2-1 python3-distutils_3.11.2-2 python3-fonttools_4.38.0-1build1 python3-fs_2.4.16-2 python3-gast_0.5.2-2 python3-isodate_0.6.1-1 python3-kiwisolver_1.4.4-1build1 python3-lib2to3_3.11.2-2 python3-lxml_4.9.2-1build1 python3-lz4_4.0.2+dfsg-1build1 python3-matplotlib_3.5.2-4ubuntu1 python3-minimal_3.11.2-1 python3-mmtf_1.1.3-1 python3-mpmath_1.2.1-2 python3-msgpack_1.0.3-2 python3-mysqldb_1.4.6-2build1 python3-networkx_2.8.8-1ubuntu1 python3-numpy_1:1.24.2-1 python3-packaging_23.0-1 python3-pil_9.4.0-1.1build1 python3-pil.imagetk_9.4.0-1.1build1 python3-pkg-resources_66.1.1-1 python3-ply_3.11-5 python3-psycopg2_2.9.5-1 python3-pygments_2.14.0+dfsg-1 python3-pyparsing_3.0.9-1 python3-pythran_0.11.0+ds-7 python3-rdflib_6.1.1-1 python3-renderpm_3.6.12-1build1 python3-reportlab_3.6.12-1build1 python3-reportlab-accel_3.6.12-1build1 python3-scipy_1.10.1-1 python3-setuptools_66.1.1-1 python3-six_1.16.0-4 python3-sympy_1.11.1-1 python3-tk_3.11.2-2 python3-tz_2022.7.1-1 python3-ufolib2_0.14.0+dfsg1-1 python3-unittest2_1.1.0-9 python3.11_3.11.2-6 python3.11-dev_3.11.2-6 python3.11-minimal_3.11.2-6 raxml_8.2.12+dfsg-8 readline-common_8.2-1.3 rpcsvc-proto_1.4.2-0ubuntu6 samtools_1.16.1-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-1 sensible-utils_0.0.17+nmu1 sgml-base_1.31 systemd_252.5-2ubuntu2 systemd-sysv_252.5-2ubuntu2 sysvinit-utils_3.06-2ubuntu1 t-coffee_13.45.0.4846264+really13.41.0.28bdc39+dfsg-1 t1utils_1.41-4build2 tar_1.34+dfsg-1.1 tex-common_6.18 texlive-base_2022.20230122-2 texlive-binaries_2022.20220321.62855-5build1 texlive-fonts-recommended_2022.20230122-2 texlive-latex-base_2022.20230122-2 texlive-latex-extra_2022.20230122-2 texlive-latex-recommended_2022.20230122-2 texlive-pictures_2022.20230122-2 tk8.6-blt2.5_2.5.3+dfsg-4.1build2 tzdata_2022g-7ubuntu2 ubuntu-keyring_2021.03.26 ucf_3.0043+nmu1 unicode-data_15.0.0-1 usrmerge_33ubuntu1 util-linux_2.38.1-4ubuntu1 util-linux-extra_2.38.1-4ubuntu1 wise_2.4.1-23 wise-data_2.4.1-23 x11-common_1:7.7+23ubuntu2 xdg-utils_1.1.3-4.1ubuntu3 xfonts-encodings_1:1.0.5-0ubuntu2 xfonts-utils_1:7.7+6build2 xz-utils_5.4.1-0.2 zlib1g_1:1.2.13.dfsg-1ubuntu4 zlib1g-dev_1:1.2.13.dfsg-1ubuntu4 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: python-biopython Binary: python3-biopython, python-biopython-doc, python3-biopython-sql Architecture: any all Version: 1.80+dfsg-4build1 Maintainer: Debian Med Packaging Team Uploaders: Charles Plessy , Andreas Tille , Étienne Mollier Homepage: https://biopython.org Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/python-biopython Vcs-Git: https://salsa.debian.org/med-team/python-biopython.git Testsuite: autopkgtest Testsuite-Triggers: @builddeps@, python3-all, python3-setuptools Build-Depends: debhelper-compat (= 13), dh-python, python3-all-dev, python3-numpy , flex, python3-reportlab , hevea , texlive-latex-base, texlive-latex-extra, texlive-fonts-recommended, bwa , clustalo , clustalw , dialign , dssp , emboss , fasttree , mafft , muscle3 [i386 amd64 x32] , ncbi-blast+ , phylip , phyml [any-amd64 any-i386] , prank , probcons , python3-networkx , python3-mysqldb , python3-matplotlib , python3-mmtf , python3-pil , python3-rdflib , python3-renderpm , python3-psycopg2 , python3-pygments , python3-scipy , python3-setuptools, python3-unittest2 , raxml [any-amd64 any-i386] , samtools , t-coffee , wise Package-List: python-biopython-doc deb doc optional arch=all python3-biopython deb python optional arch=any python3-biopython-sql deb python optional arch=all Checksums-Sha1: c6351b33b1c214687eb27908202c47e9bb607c03 10665048 python-biopython_1.80+dfsg.orig.tar.xz 0c55e4eb5ece2d19f638eaf225904d304c10fdba 20856 python-biopython_1.80+dfsg-4build1.debian.tar.xz Checksums-Sha256: 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info: applying fix-use-of-unversioned-python.patch dpkg-source: info: applying reproduciblebuild.patch dpkg-source: info: applying croak-on-muscle5.patch dpkg-source: info: applying muscle3.patch dpkg-source: info: applying port_tutorial_to_muscle3.patch dpkg-source: info: applying numpy-1.24.patch 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-25674076 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-25674076 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-25674076 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 python-biopython dpkg-buildpackage: info: source version 1.80+dfsg-4build1 dpkg-buildpackage: info: source distribution lunar dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --with python3 --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' dh_auto_clean pybuild --clean -i python{version} -p 3.11 I: pybuild base:240: python3.11 setup.py clean running clean removing '/<>/.pybuild/cpython3_3.11/build' (and everything under it) 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.11' does not exist -- can't clean it rm -rf .pybuild/ find . -name \*.pyc -exec rm {} \; cd Doc && make distclean make[2]: Entering directory '/<>/Doc' ( for f in ; do make clean -C $f ; done ) rm -f Tutorial.aux rm -f Tutorial.toc rm -f Tutorial.log rm -f Tutorial.out rm -f Tutorial.haux rm -f Tutorial.htoc rm -f biopdb_faq.aux rm -f biopdb_faq.log rm -f biopdb_faq.out rm -f Tutorial/*.aux ( for f in ; do make distclean -C $f ; done ) rm -f version.sh rm -f biopdb_faq.pdf rm -f Tutorial.pdf rm -f Tutorial.html rm -f Tutorial.txt rm -f *_motif.gif #output from hacha make[2]: Leaving directory '/<>/Doc' rm -f Doc/install/Installation.pdf rm -f Doc/install/Installation.txt rm -f Doc/install/Installation.html rm -f Doc/Tutorial.pdf Doc/biopdb_faq.pdf rm -f Doc/Tutorial/*.aux find Doc -name "*.pygtex" -o -name "*.pygstyle" -delete rm -rf biopython.egg-info rm -rf .pybuild if [ -d Tests_avoid ] ; then \ mv Tests_avoid/* Tests ; \ rmdir Tests_avoid ; \ fi rm -rf debian/tmp_tests make[1]: Leaving directory '/<>' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/python3-biopython.substvars debian/python-biopython-doc.substvars debian/python3-biopython-sql.substvars debian/files rm -fr -- debian/python3-biopython/ debian/tmp/ debian/python-biopython-doc/ debian/python3-biopython-sql/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a -name autom4te.cache -prune -exec rm -rf {} + \) \) debian/rules binary dh binary --with python3 --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild pybuild --configure -i python{version} -p 3.11 I: pybuild base:240: python3.11 setup.py config running config debian/rules override_dh_auto_build make[1]: Entering directory '/<>' dh_auto_build pybuild --build -i python{version} -p 3.11 I: pybuild base:240: /usr/bin/python3 setup.py build running build running build_py creating /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/LogisticRegression.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/_utils.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/pairwise2.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/MaxEntropy.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/NaiveBayes.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/SeqFeature.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/MarkovModel.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/Seq.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/bgzf.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/File.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/SeqRecord.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/kNN.py -> /<>/.pybuild/cpython3_3.11/build/Bio creating /<>/.pybuild/cpython3_3.11/build/Bio/Affy copying Bio/Affy/CelFile.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Affy copying Bio/Affy/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Affy creating /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/nexus.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/emboss.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/AlignInfo.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/psl.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/hhr.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/maf.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/stockholm.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/bigmaf.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/mauve.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/tabular.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/exonerate.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/bed.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/clustal.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/phylip.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/sam.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/interfaces.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/fasta.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/bigbed.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/msf.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/bigpsl.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/a2m.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align creating /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications copying Bio/Align/Applications/_Muscle.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications copying Bio/Align/Applications/_TCoffee.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications copying Bio/Align/Applications/_Mafft.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications copying Bio/Align/Applications/_MSAProbs.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications copying Bio/Align/Applications/_ClustalOmega.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications copying Bio/Align/Applications/_Clustalw.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications copying Bio/Align/Applications/_Dialign.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications copying Bio/Align/Applications/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications copying Bio/Align/Applications/_Probcons.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications copying Bio/Align/Applications/_Prank.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications creating /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices copying Bio/Align/substitution_matrices/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices creating /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO copying Bio/AlignIO/PhylipIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO copying Bio/AlignIO/ClustalIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO copying Bio/AlignIO/MafIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO copying Bio/AlignIO/MsfIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO copying Bio/AlignIO/NexusIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO copying Bio/AlignIO/EmbossIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO copying Bio/AlignIO/FastaIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO copying Bio/AlignIO/Interfaces.py -> /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO copying Bio/AlignIO/MauveIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO copying Bio/AlignIO/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO copying Bio/AlignIO/StockholmIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO creating /<>/.pybuild/cpython3_3.11/build/Bio/Alphabet copying Bio/Alphabet/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Alphabet creating /<>/.pybuild/cpython3_3.11/build/Bio/Application copying Bio/Application/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Application creating /<>/.pybuild/cpython3_3.11/build/Bio/Blast copying Bio/Blast/ParseBlastTable.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Blast copying Bio/Blast/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Blast copying Bio/Blast/NCBIXML.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Blast copying Bio/Blast/Applications.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Blast copying Bio/Blast/NCBIWWW.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Blast copying Bio/Blast/Record.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Blast creating /<>/.pybuild/cpython3_3.11/build/Bio/CAPS copying Bio/CAPS/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/CAPS creating /<>/.pybuild/cpython3_3.11/build/Bio/Cluster copying Bio/Cluster/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Cluster creating /<>/.pybuild/cpython3_3.11/build/Bio/codonalign copying Bio/codonalign/codonseq.py -> /<>/.pybuild/cpython3_3.11/build/Bio/codonalign copying Bio/codonalign/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/codonalign copying Bio/codonalign/codonalignment.py -> /<>/.pybuild/cpython3_3.11/build/Bio/codonalign creating /<>/.pybuild/cpython3_3.11/build/Bio/Compass copying Bio/Compass/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Compass creating /<>/.pybuild/cpython3_3.11/build/Bio/Data copying Bio/Data/SCOPData.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Data copying Bio/Data/IUPACData.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Data copying Bio/Data/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Data copying Bio/Data/CodonTable.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Data copying Bio/Data/PDBData.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Data creating /<>/.pybuild/cpython3_3.11/build/Bio/Emboss copying Bio/Emboss/Primer3.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Emboss copying Bio/Emboss/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Emboss copying Bio/Emboss/Applications.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Emboss copying Bio/Emboss/PrimerSearch.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Emboss creating /<>/.pybuild/cpython3_3.11/build/Bio/Entrez copying Bio/Entrez/Parser.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez copying Bio/Entrez/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez creating /<>/.pybuild/cpython3_3.11/build/Bio/ExPASy copying Bio/ExPASy/Enzyme.py -> /<>/.pybuild/cpython3_3.11/build/Bio/ExPASy copying Bio/ExPASy/Prosite.py -> /<>/.pybuild/cpython3_3.11/build/Bio/ExPASy copying Bio/ExPASy/Prodoc.py -> /<>/.pybuild/cpython3_3.11/build/Bio/ExPASy copying Bio/ExPASy/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/ExPASy copying Bio/ExPASy/ScanProsite.py -> /<>/.pybuild/cpython3_3.11/build/Bio/ExPASy copying Bio/ExPASy/cellosaurus.py -> /<>/.pybuild/cpython3_3.11/build/Bio/ExPASy creating /<>/.pybuild/cpython3_3.11/build/Bio/GenBank copying Bio/GenBank/utils.py -> /<>/.pybuild/cpython3_3.11/build/Bio/GenBank copying Bio/GenBank/Scanner.py -> /<>/.pybuild/cpython3_3.11/build/Bio/GenBank copying Bio/GenBank/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/GenBank copying Bio/GenBank/Record.py -> /<>/.pybuild/cpython3_3.11/build/Bio/GenBank creating /<>/.pybuild/cpython3_3.11/build/Bio/Geo copying Bio/Geo/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Geo copying Bio/Geo/Record.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Geo creating /<>/.pybuild/cpython3_3.11/build/Bio/Graphics copying Bio/Graphics/Distribution.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics copying Bio/Graphics/BasicChromosome.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics copying Bio/Graphics/KGML_vis.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics copying Bio/Graphics/DisplayRepresentation.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics copying Bio/Graphics/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics copying Bio/Graphics/ColorSpiral.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics copying Bio/Graphics/Comparative.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics creating /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/_Feature.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/_LinearDrawer.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/_GraphSet.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/_FeatureSet.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/_Graph.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/_CrossLink.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/_Diagram.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/_CircularDrawer.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/_Colors.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/_Track.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/_AbstractDrawer.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram creating /<>/.pybuild/cpython3_3.11/build/Bio/HMM copying Bio/HMM/Utilities.py -> /<>/.pybuild/cpython3_3.11/build/Bio/HMM copying Bio/HMM/DynamicProgramming.py -> /<>/.pybuild/cpython3_3.11/build/Bio/HMM copying Bio/HMM/MarkovModel.py -> /<>/.pybuild/cpython3_3.11/build/Bio/HMM copying Bio/HMM/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/HMM copying Bio/HMM/Trainer.py -> /<>/.pybuild/cpython3_3.11/build/Bio/HMM creating /<>/.pybuild/cpython3_3.11/build/Bio/KEGG copying Bio/KEGG/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/KEGG copying Bio/KEGG/REST.py -> /<>/.pybuild/cpython3_3.11/build/Bio/KEGG creating /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/Compound copying Bio/KEGG/Compound/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/Compound creating /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/Enzyme copying Bio/KEGG/Enzyme/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/Enzyme creating /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/Gene copying Bio/KEGG/Gene/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/Gene creating /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/Map copying Bio/KEGG/Map/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/Map creating /<>/.pybuild/cpython3_3.11/build/Bio/PDB creating /<>/.pybuild/cpython3_3.11/build/Bio/PDB/mmtf copying Bio/PDB/mmtf/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB/mmtf copying Bio/PDB/mmtf/DefaultParser.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB/mmtf copying Bio/PDB/mmtf/mmtfio.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB/mmtf creating /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/KGML copying Bio/KEGG/KGML/KGML_parser.py -> /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/KGML copying Bio/KEGG/KGML/KGML_pathway.py -> /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/KGML copying Bio/KEGG/KGML/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/KGML creating /<>/.pybuild/cpython3_3.11/build/Bio/Medline copying Bio/Medline/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Medline creating /<>/.pybuild/cpython3_3.11/build/Bio/motifs copying Bio/motifs/transfac.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs copying Bio/motifs/matrix.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs copying Bio/motifs/clusterbuster.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs copying Bio/motifs/thresholds.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs copying Bio/motifs/minimal.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs copying Bio/motifs/mast.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs copying Bio/motifs/alignace.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs copying Bio/motifs/pfm.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs copying Bio/motifs/meme.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs copying Bio/motifs/xms.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs copying Bio/motifs/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs creating /<>/.pybuild/cpython3_3.11/build/Bio/motifs/applications copying Bio/motifs/applications/_xxmotif.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs/applications copying Bio/motifs/applications/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs/applications creating /<>/.pybuild/cpython3_3.11/build/Bio/motifs/jaspar copying Bio/motifs/jaspar/db.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs/jaspar copying Bio/motifs/jaspar/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs/jaspar creating /<>/.pybuild/cpython3_3.11/build/Bio/Nexus copying Bio/Nexus/Trees.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Nexus copying Bio/Nexus/StandardData.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Nexus copying Bio/Nexus/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Nexus copying Bio/Nexus/Nodes.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Nexus copying Bio/Nexus/Nexus.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Nexus creating /<>/.pybuild/cpython3_3.11/build/Bio/NMR copying Bio/NMR/xpktools.py -> /<>/.pybuild/cpython3_3.11/build/Bio/NMR copying Bio/NMR/NOEtools.py -> /<>/.pybuild/cpython3_3.11/build/Bio/NMR copying Bio/NMR/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/NMR creating /<>/.pybuild/cpython3_3.11/build/Bio/Pathway copying Bio/Pathway/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Pathway creating /<>/.pybuild/cpython3_3.11/build/Bio/Pathway/Rep copying Bio/Pathway/Rep/MultiGraph.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Pathway/Rep copying Bio/Pathway/Rep/Graph.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Pathway/Rep copying Bio/Pathway/Rep/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Pathway/Rep copying Bio/PDB/Dice.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/ResidueDepth.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/FragmentMapper.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/NACCESS.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/PDBParser.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/Entity.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/ic_data.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/PSEA.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/MMCIFParser.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/Polypeptide.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/SASA.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/Residue.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/StructureAlignment.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/Superimposer.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/NeighborSearch.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/PDBIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/qcprot.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/mmcifio.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/AbstractPropertyMap.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/PDBExceptions.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/Atom.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/vectors.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/StructureBuilder.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/Model.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/PDBList.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/Selection.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/cealign.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/parse_pdb_header.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/DSSP.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/Structure.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/Chain.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/MMCIF2Dict.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/internal_coords.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/SCADIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/ic_rebuild.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/PICIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/HSExposure.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB creating /<>/.pybuild/cpython3_3.11/build/Bio/phenotype copying Bio/phenotype/phen_micro.py -> /<>/.pybuild/cpython3_3.11/build/Bio/phenotype copying Bio/phenotype/pm_fitting.py -> /<>/.pybuild/cpython3_3.11/build/Bio/phenotype copying Bio/phenotype/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/phenotype creating /<>/.pybuild/cpython3_3.11/build/Bio/PopGen copying Bio/PopGen/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PopGen creating /<>/.pybuild/cpython3_3.11/build/Bio/PopGen/GenePop copying Bio/PopGen/GenePop/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PopGen/GenePop copying Bio/PopGen/GenePop/Controller.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PopGen/GenePop copying Bio/PopGen/GenePop/LargeFileParser.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PopGen/GenePop copying Bio/PopGen/GenePop/FileParser.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PopGen/GenePop copying Bio/PopGen/GenePop/EasyController.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PopGen/GenePop creating /<>/.pybuild/cpython3_3.11/build/Bio/Restriction copying Bio/Restriction/PrintFormat.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Restriction copying Bio/Restriction/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Restriction copying Bio/Restriction/Restriction_Dictionary.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Restriction copying Bio/Restriction/Restriction.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Restriction creating /<>/.pybuild/cpython3_3.11/build/Bio/SCOP copying Bio/SCOP/Cla.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SCOP copying Bio/SCOP/Hie.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SCOP copying Bio/SCOP/Des.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SCOP copying Bio/SCOP/Dom.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SCOP copying Bio/SCOP/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SCOP copying Bio/SCOP/Residues.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SCOP copying Bio/SCOP/Raf.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SCOP creating /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO copying Bio/SearchIO/_utils.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO copying Bio/SearchIO/_index.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO copying Bio/SearchIO/FastaIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO copying Bio/SearchIO/BlatIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO copying Bio/SearchIO/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO creating /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_legacy copying Bio/SearchIO/_legacy/ParserSupport.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_legacy copying Bio/SearchIO/_legacy/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_legacy copying Bio/SearchIO/_legacy/NCBIStandalone.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_legacy creating /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_model copying Bio/SearchIO/_model/hit.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_model copying Bio/SearchIO/_model/hsp.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_model copying Bio/SearchIO/_model/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_model copying Bio/SearchIO/_model/query.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_model copying Bio/SearchIO/_model/_base.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_model creating /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/BlastIO copying Bio/SearchIO/BlastIO/blast_xml.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/BlastIO copying Bio/SearchIO/BlastIO/blast_text.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/BlastIO copying Bio/SearchIO/BlastIO/blast_tab.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/BlastIO copying Bio/SearchIO/BlastIO/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/BlastIO creating /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HHsuiteIO copying Bio/SearchIO/HHsuiteIO/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HHsuiteIO copying Bio/SearchIO/HHsuiteIO/hhsuite2_text.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HHsuiteIO creating /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HmmerIO copying Bio/SearchIO/HmmerIO/hmmer3_domtab.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HmmerIO copying Bio/SearchIO/HmmerIO/hmmer2_text.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HmmerIO copying Bio/SearchIO/HmmerIO/hmmer3_text.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HmmerIO copying Bio/SearchIO/HmmerIO/hmmer3_tab.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HmmerIO copying Bio/SearchIO/HmmerIO/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HmmerIO copying Bio/SearchIO/HmmerIO/_base.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HmmerIO creating /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/ExonerateIO copying Bio/SearchIO/ExonerateIO/exonerate_cigar.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/ExonerateIO copying Bio/SearchIO/ExonerateIO/exonerate_vulgar.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/ExonerateIO copying Bio/SearchIO/ExonerateIO/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/ExonerateIO copying Bio/SearchIO/ExonerateIO/_base.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/ExonerateIO copying Bio/SearchIO/ExonerateIO/exonerate_text.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/ExonerateIO creating /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/InterproscanIO copying Bio/SearchIO/InterproscanIO/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/InterproscanIO copying Bio/SearchIO/InterproscanIO/interproscan_xml.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/InterproscanIO creating /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/PirIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/PhdIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/_index.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/XdnaIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/NibIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/SnapGeneIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/InsdcIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/GckIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/UniprotIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/SeqXmlIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/PdbIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/SwissIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/AbiIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/FastaIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/Interfaces.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/AceIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/TabIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/IgIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/QualityIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/SffIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/TwoBitIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO creating /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils copying Bio/SeqUtils/ProtParam.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils copying Bio/SeqUtils/lcc.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils copying Bio/SeqUtils/CodonUsageIndices.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils copying Bio/SeqUtils/MeltingTemp.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils copying Bio/SeqUtils/CodonUsage.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils copying Bio/SeqUtils/ProtParamData.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils copying Bio/SeqUtils/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils copying Bio/SeqUtils/CheckSum.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils copying Bio/SeqUtils/IsoelectricPoint.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils creating /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing copying Bio/Sequencing/Phd.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing copying Bio/Sequencing/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing copying Bio/Sequencing/Ace.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing creating /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing/Applications copying Bio/Sequencing/Applications/_bwa.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing/Applications copying Bio/Sequencing/Applications/_Novoalign.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing/Applications copying Bio/Sequencing/Applications/_samtools.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing/Applications copying Bio/Sequencing/Applications/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing/Applications creating /<>/.pybuild/cpython3_3.11/build/Bio/SVDSuperimposer copying Bio/SVDSuperimposer/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SVDSuperimposer creating /<>/.pybuild/cpython3_3.11/build/Bio/PDB/QCPSuperimposer copying Bio/PDB/QCPSuperimposer/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB/QCPSuperimposer creating /<>/.pybuild/cpython3_3.11/build/Bio/SwissProt copying Bio/SwissProt/KeyWList.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SwissProt copying Bio/SwissProt/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SwissProt creating /<>/.pybuild/cpython3_3.11/build/Bio/TogoWS copying Bio/TogoWS/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/TogoWS creating /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/PhyloXMLIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/_utils.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/_io.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/CDAO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/NeXML.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/NexusIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/Newick.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/PhyloXML.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/NeXMLIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/_cdao_owl.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/BaseTree.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/CDAOIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/Consensus.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/NewickIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/TreeConstruction.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo creating /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/Applications copying Bio/Phylo/Applications/_Fasttree.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/Applications copying Bio/Phylo/Applications/_Raxml.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/Applications copying Bio/Phylo/Applications/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/Applications copying Bio/Phylo/Applications/_Phyml.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/Applications creating /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML copying Bio/Phylo/PAML/baseml.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML copying Bio/Phylo/PAML/yn00.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML copying Bio/Phylo/PAML/_parse_yn00.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML copying Bio/Phylo/PAML/_parse_baseml.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML copying Bio/Phylo/PAML/chi2.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML copying Bio/Phylo/PAML/_paml.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML copying Bio/Phylo/PAML/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML copying Bio/Phylo/PAML/_parse_codeml.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML copying Bio/Phylo/PAML/codeml.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML creating /<>/.pybuild/cpython3_3.11/build/Bio/UniGene copying Bio/UniGene/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/UniGene creating /<>/.pybuild/cpython3_3.11/build/Bio/UniProt copying Bio/UniProt/GOA.py -> /<>/.pybuild/cpython3_3.11/build/Bio/UniProt copying Bio/UniProt/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/UniProt creating /<>/.pybuild/cpython3_3.11/build/Bio/Wise copying Bio/Wise/dnal.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Wise copying Bio/Wise/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Wise copying Bio/Wise/psw.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Wise creating /<>/.pybuild/cpython3_3.11/build/BioSQL copying BioSQL/BioSeq.py -> /<>/.pybuild/cpython3_3.11/build/BioSQL copying BioSQL/Loader.py -> /<>/.pybuild/cpython3_3.11/build/BioSQL copying BioSQL/BioSeqDatabase.py -> /<>/.pybuild/cpython3_3.11/build/BioSQL copying BioSQL/DBUtils.py -> /<>/.pybuild/cpython3_3.11/build/BioSQL copying BioSQL/__init__.py -> /<>/.pybuild/cpython3_3.11/build/BioSQL running egg_info creating biopython.egg-info writing biopython.egg-info/PKG-INFO writing dependency_links to biopython.egg-info/dependency_links.txt writing requirements to biopython.egg-info/requires.txt writing top-level names to biopython.egg-info/top_level.txt writing manifest file 'biopython.egg-info/SOURCES.txt' reading manifest file 'biopython.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no previously-included files found matching 'Tests/Gck/DGVC_GCK.zip' warning: no previously-included files matching '*.pyc' found anywhere in distribution warning: no previously-included files matching '*.pyo' found anywhere in distribution warning: no previously-included files matching '*.py{}' found anywhere in distribution warning: no previously-included files matching '*.py-e' found anywhere in distribution adding license file 'LICENSE' adding license file 'LICENSE.rst' writing manifest file 'biopython.egg-info/SOURCES.txt' /usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'Bio.Align.substitution_matrices.data' as data is deprecated, please list it in `packages`. !! ############################ # Package would be ignored # ############################ Python recognizes 'Bio.Align.substitution_matrices.data' as an importable package, but it is not listed in the `packages` configuration of setuptools. 'Bio.Align.substitution_matrices.data' has been automatically added to the distribution only because it may contain data files, but this behavior is likely to change in future versions of setuptools (and therefore is considered deprecated). Please make sure that 'Bio.Align.substitution_matrices.data' is included as a package by using the `packages` configuration field or the proper discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" and "data files" on setuptools documentation page. !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'Bio.Entrez.DTDs' as data is deprecated, please list it in `packages`. !! ############################ # Package would be ignored # ############################ Python recognizes 'Bio.Entrez.DTDs' as an importable package, but it is not listed in the `packages` configuration of setuptools. 'Bio.Entrez.DTDs' has been automatically added to the distribution only because it may contain data files, but this behavior is likely to change in future versions of setuptools (and therefore is considered deprecated). Please make sure that 'Bio.Entrez.DTDs' is included as a package by using the `packages` configuration field or the proper discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" and "data files" on setuptools documentation page. !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'Bio.Entrez.XSDs' as data is deprecated, please list it in `packages`. !! ############################ # Package would be ignored # ############################ Python recognizes 'Bio.Entrez.XSDs' as an importable package, but it is not listed in the `packages` configuration of setuptools. 'Bio.Entrez.XSDs' has been automatically added to the distribution only because it may contain data files, but this behavior is likely to change in future versions of setuptools (and therefore is considered deprecated). Please make sure that 'Bio.Entrez.XSDs' is included as a package by using the `packages` configuration field or the proper discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" and "data files" on setuptools documentation page. !! check.warn(importable) copying Bio/cpairwise2module.c -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/Align/_aligners.c -> /<>/.pybuild/cpython3_3.11/build/Bio/Align creating /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/BENNER22 -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/BENNER6 -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/BENNER74 -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/BLASTN -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/BLASTP -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/BLOSUM45 -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/BLOSUM50 -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/BLOSUM62 -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/BLOSUM80 -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/BLOSUM90 -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/DAYHOFF -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/FENG -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/GENETIC -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/GONNET1992 -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/HOXD70 -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/JOHNSON -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/JONES -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/LEVIN -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/MCLACHLAN -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/MDM78 -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/MEGABLAST -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/NUC.4.4 -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/PAM250 -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/PAM30 -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/PAM70 -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/RAO -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/RISLER -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/SCHNEIDER -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/STR -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/TRANS -> /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data copying Bio/Cluster/cluster.c -> /<>/.pybuild/cpython3_3.11/build/Bio/Cluster copying Bio/Cluster/cluster.h -> /<>/.pybuild/cpython3_3.11/build/Bio/Cluster copying Bio/Cluster/clustermodule.c -> /<>/.pybuild/cpython3_3.11/build/Bio/Cluster creating /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/BITS-embedded-index2.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/BITS-question-answer2.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/Docsum_3_0.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/Docsum_3_0.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/Docsum_3_1.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/Docsum_3_1.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/Docsum_3_2.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/Docsum_3_2.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/Docsum_3_3.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/Docsum_3_3.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/Docsum_3_4.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/Docsum_3_4.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/EMBL_General.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/EMBL_General.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/GenBank_General.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/GenBank_General.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/HomoloGene.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/HomoloGene.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/INSD_INSDSeq.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/INSD_INSDSeq.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-XHTMLtablesetup1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-ali-namespace1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-archivearticle1-3-mathml3.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-archivecustom-classes1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-archivecustom-mixes1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-archivecustom-models1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-archivecustom-modules1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-articlemeta1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-backmatter1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-chars1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-common-atts1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-common1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-default-classes1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-default-mixes1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-display1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-format1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-funding1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-journalmeta1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-link1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-list1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-math1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-mathml3-mathmlsetup1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-mathml3-modules1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-modules1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-nlmcitation1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-notat1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-para1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-phrase1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-references1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-related-object1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-section1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-xmlspecchars1-3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/MMDB.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/MMDB.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/MMDB_Chemical_graph.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/MMDB_Chemical_graph.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/MMDB_Features.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/MMDB_Features.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/MMDB_Structural_model.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/MMDB_Structural_model.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Access.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Access.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Biblio.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Biblio.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_BioSource.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_BioSource.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_BioTree.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_BioTree.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Blast4.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Blast4.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_BlastDL.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_BlastDL.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_BlastOutput.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_BlastOutput.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Cdd.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Cdd.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Cn3d.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Cn3d.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Entity.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Entrez2.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Entrez2.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Entrezgene.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Entrezgene.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_FeatDef.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_FeatDef.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_GBSeq.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_GBSeq.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Gene.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Gene.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_General.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_General.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_ID1Access.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_ID1Access.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_ID2Access.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_ID2Access.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_MedArchive.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_MedArchive.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Medlars.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Medlars.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Medline.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Medline.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Mim.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Mim.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Mime.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Mime.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_ObjPrt.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_ObjPrt.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Organism.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Organism.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_PCAssay.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_PCAssay.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_PCSubstance.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_PCSubstance.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Project.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Project.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Protein.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Protein.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Pub.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Pub.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_PubMed.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_PubMed.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_RNA.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_RNA.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Remap.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Remap.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Rsite.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Rsite.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_ScoreMat.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_ScoreMat.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_SeqCode.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_SeqCode.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_SeqTable.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_SeqTable.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seq_split.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seq_split.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seqalign.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seqalign.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seqfeat.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seqfeat.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seqloc.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seqloc.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seqres.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seqres.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seqset.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seqset.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Sequence.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Sequence.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Submit.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Submit.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Systems.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_TSeq.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_TSeq.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_TxInit.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_TxInit.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Variation.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Variation.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_all.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NSE.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NSE.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/OMSSA.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/OMSSA.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/PDB_General.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/PDB_General.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/PIR_General.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/PIR_General.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/PRF_General.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/PRF_General.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/SP_General.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/SP_General.mod.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/XHTMLtablesetup.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/archivearticle.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/archivecustom-classes.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/archivecustom-mixes.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/archivecustom-models.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/archivecustom-modules.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/articlemeta.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/backmatter.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/bookdoc_100301.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/bookdoc_110101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/bookdoc_120101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/bookdoc_130101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/bookdoc_140101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/bookdoc_150101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/chars.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/common.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/default-classes.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/default-mixes.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/display.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/eInfo_020511.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/eLink_090910.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/eLink_101123.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/ePost_020511.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/eSearch_020511.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/eSpell.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/eSummary_041029.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/egquery.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/einfo.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/elink_020122.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/esearch.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/esummary-v1.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/format.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/htmltable.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isoamsa.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isoamsb.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isoamsc.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isoamsn.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isoamso.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isoamsr.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isobox.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isocyr1.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isocyr2.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isodia.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isogrk1.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isogrk2.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isogrk3.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isogrk4.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isolat1.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isolat2.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isomfrk.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isomopf.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isomscr.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isonum.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isopub.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isotech.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/journalmeta.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/link.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/list.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/math.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/mathml-in-pubmed.mod -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/mathml2.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/mathml3-qname1.mod -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/mathml3.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/mathmlsetup.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/mmlalias.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/mmlextra.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/modules.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlm-articleset-2.0.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmcatalogrecordset_170601.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmcommon_011101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmcommon_080101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmcommon_090101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedline_011101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedline_080101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedline_090101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedlinecitation_011101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedlinecitation_080101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedlinecitation_090101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedlinecitationset_100101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedlinecitationset_100301.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedlinecitationset_110101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedlinecitationset_120101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedlinecitationset_130101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedlinecitationset_130501.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedlinecitationset_140101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedlinecitationset_150101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmserials_080101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmserials_100101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmsharedcatcit_080101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmsharedcatcit_090101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/notat.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/para.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/phrase.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pmc-1.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_020114.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_080101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_090101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_100101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_100301.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_110101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_120101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_130101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_130501.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_140101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_150101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_180101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_180601.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_190101.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/references.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/section.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/taxon.dtd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/xhtml-inlstyle-1.mod -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/xhtml-table-1.mod -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/xmlspecchars.ent -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs creating /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/XSDs copying Bio/Entrez/XSDs/IPGReportSet.xsd -> /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/XSDs copying Bio/motifs/_pwm.c -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs copying Bio/Nexus/cnexus.c -> /<>/.pybuild/cpython3_3.11/build/Bio/Nexus copying Bio/PDB/ccealignmodule.c -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/kdtrees.c -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/SeqIO/_twoBitIO.c -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/PDB/QCPSuperimposer/qcprotmodule.c -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB/QCPSuperimposer running build_ext building 'Bio.Align._aligners' extension creating build creating build/temp.linux-x86_64-cpython-311 creating build/temp.linux-x86_64-cpython-311/Bio creating build/temp.linux-x86_64-cpython-311/Bio/Align x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/python-biopython-1.80+dfsg-4build1 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c Bio/Align/_aligners.c -o build/temp.linux-x86_64-cpython-311/Bio/Align/_aligners.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/python-biopython-1.80+dfsg-4build1 -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-311/Bio/Align/_aligners.o -L/usr/lib/x86_64-linux-gnu -o /<>/.pybuild/cpython3_3.11/build/Bio/Align/_aligners.cpython-311-x86_64-linux-gnu.so building 'Bio.cpairwise2' extension x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/python-biopython-1.80+dfsg-4build1 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c Bio/cpairwise2module.c -o build/temp.linux-x86_64-cpython-311/Bio/cpairwise2module.o Bio/cpairwise2module.c: In function ‘_get_match_score’: Bio/cpairwise2module.c:60:5: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 60 | if(!(py_result = PyEval_CallObject(py_match_fn, py_arglist))) | ^~ In file included from /usr/include/python3.11/Python.h:95, from Bio/cpairwise2module.c:16: /usr/include/python3.11/ceval.h:27:43: note: declared here 27 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/python-biopython-1.80+dfsg-4build1 -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-311/Bio/cpairwise2module.o -L/usr/lib/x86_64-linux-gnu -o /<>/.pybuild/cpython3_3.11/build/Bio/cpairwise2.cpython-311-x86_64-linux-gnu.so building 'Bio.Nexus.cnexus' extension creating build/temp.linux-x86_64-cpython-311/Bio/Nexus x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/python-biopython-1.80+dfsg-4build1 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c Bio/Nexus/cnexus.c -o build/temp.linux-x86_64-cpython-311/Bio/Nexus/cnexus.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/python-biopython-1.80+dfsg-4build1 -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-311/Bio/Nexus/cnexus.o -L/usr/lib/x86_64-linux-gnu -o /<>/.pybuild/cpython3_3.11/build/Bio/Nexus/cnexus.cpython-311-x86_64-linux-gnu.so building 'Bio.PDB.QCPSuperimposer.qcprotmodule' extension creating build/temp.linux-x86_64-cpython-311/Bio/PDB creating build/temp.linux-x86_64-cpython-311/Bio/PDB/QCPSuperimposer x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/python-biopython-1.80+dfsg-4build1 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c Bio/PDB/QCPSuperimposer/qcprotmodule.c -o build/temp.linux-x86_64-cpython-311/Bio/PDB/QCPSuperimposer/qcprotmodule.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/python-biopython-1.80+dfsg-4build1 -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-311/Bio/PDB/QCPSuperimposer/qcprotmodule.o -L/usr/lib/x86_64-linux-gnu -o /<>/.pybuild/cpython3_3.11/build/Bio/PDB/QCPSuperimposer/qcprotmodule.cpython-311-x86_64-linux-gnu.so building 'Bio.motifs._pwm' extension creating build/temp.linux-x86_64-cpython-311/Bio/motifs x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/python-biopython-1.80+dfsg-4build1 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c Bio/motifs/_pwm.c -o build/temp.linux-x86_64-cpython-311/Bio/motifs/_pwm.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/python-biopython-1.80+dfsg-4build1 -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-311/Bio/motifs/_pwm.o -L/usr/lib/x86_64-linux-gnu -o /<>/.pybuild/cpython3_3.11/build/Bio/motifs/_pwm.cpython-311-x86_64-linux-gnu.so building 'Bio.Cluster._cluster' extension creating build/temp.linux-x86_64-cpython-311/Bio/Cluster x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/python-biopython-1.80+dfsg-4build1 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c Bio/Cluster/cluster.c -o build/temp.linux-x86_64-cpython-311/Bio/Cluster/cluster.o x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/python-biopython-1.80+dfsg-4build1 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c Bio/Cluster/clustermodule.c -o build/temp.linux-x86_64-cpython-311/Bio/Cluster/clustermodule.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/python-biopython-1.80+dfsg-4build1 -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-311/Bio/Cluster/cluster.o build/temp.linux-x86_64-cpython-311/Bio/Cluster/clustermodule.o -L/usr/lib/x86_64-linux-gnu -o /<>/.pybuild/cpython3_3.11/build/Bio/Cluster/_cluster.cpython-311-x86_64-linux-gnu.so building 'Bio.PDB.kdtrees' extension x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/python-biopython-1.80+dfsg-4build1 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c Bio/PDB/kdtrees.c -o build/temp.linux-x86_64-cpython-311/Bio/PDB/kdtrees.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/python-biopython-1.80+dfsg-4build1 -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-311/Bio/PDB/kdtrees.o -L/usr/lib/x86_64-linux-gnu -o /<>/.pybuild/cpython3_3.11/build/Bio/PDB/kdtrees.cpython-311-x86_64-linux-gnu.so building 'Bio.PDB.ccealign' extension x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/python-biopython-1.80+dfsg-4build1 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c Bio/PDB/ccealignmodule.c -o build/temp.linux-x86_64-cpython-311/Bio/PDB/ccealignmodule.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/python-biopython-1.80+dfsg-4build1 -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-311/Bio/PDB/ccealignmodule.o -L/usr/lib/x86_64-linux-gnu -o /<>/.pybuild/cpython3_3.11/build/Bio/PDB/ccealign.cpython-311-x86_64-linux-gnu.so building 'Bio.SeqIO._twoBitIO' extension creating build/temp.linux-x86_64-cpython-311/Bio/SeqIO x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/python-biopython-1.80+dfsg-4build1 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c Bio/SeqIO/_twoBitIO.c -o build/temp.linux-x86_64-cpython-311/Bio/SeqIO/_twoBitIO.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/python-biopython-1.80+dfsg-4build1 -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-311/Bio/SeqIO/_twoBitIO.o -L/usr/lib/x86_64-linux-gnu -o /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/_twoBitIO.cpython-311-x86_64-linux-gnu.so cd Doc && make make[2]: Entering directory '/<>/Doc' sed "s/\@VERSION\@/1.80/g" version.in > version.sh chmod +x version.sh hevea -exec ./version.sh -exec xxdate.exe -fix Tutorial.tex Exclude comment 'comment' ./Tutorial/chapter_introduction.tex:91: Warning: Undefined citation: 'cock2009' ./Tutorial/chapter_introduction.tex:95: Warning: Undefined citation: 'chapman2000' ./Tutorial/chapter_introduction.tex:96: Warning: Undefined citation: 'hamelryck2003a' ./Tutorial/chapter_introduction.tex:97: Warning: Undefined citation: 'dehoon2004' ./Tutorial/chapter_introduction.tex:98: Warning: Undefined citation: 'pritchard2006' ./Tutorial/chapter_introduction.tex:99: Warning: Undefined citation: 'talevich2012' ./Tutorial/chapter_introduction.tex:100: Warning: Undefined citation: 'cock2010' ./Tutorial/chapter_introduction.tex:185: Warning: Undefined label: 'sec:seq-comparison' ./Tutorial/chapter_introduction.tex:191: Warning: Undefined label: 'sec:appendix-handles' ./Tutorial/chapter_quick_start.tex:2: Warning: '_' occurring outside math mode ./Tutorial/chapter_quick_start.tex:14: Warning: Undefined label: 'chapter:cookbook' ./Tutorial/chapter_quick_start.tex:14: Warning: Undefined label: 'chapter:advanced' ./Tutorial/chapter_quick_start.tex:19: Warning: Undefined label: 'chapter:seq_objects' ./Tutorial/chapter_quick_start.tex:45: Warning: Undefined label: 'chapter:seqio' ./Tutorial/chapter_quick_start.tex:65: Warning: Undefined label: 'sec:sequence-parsing' ./Tutorial/chapter_quick_start.tex:65: Warning: Undefined label: 'chapter:entrez' ./Tutorial/chapter_quick_start.tex:65: Warning: Undefined label: 'chapter:uniprot' ./Tutorial/chapter_quick_start.tex:65: Warning: Undefined label: 'sec:align_clustal' ./Tutorial/chapter_quick_start.tex:72: Warning: Undefined label: 'chapter:seqio' ./Tutorial/chapter_quick_start.tex:79: Warning: Undefined label: 'sec:connecting-with-biological-databases' ./Tutorial/chapter_quick_start.tex:145: Warning: Undefined label: 'chapter:seqio' ./Tutorial/chapter_quick_start.tex:145: Warning: Undefined label: 'chapter:align' ./Tutorial/chapter_quick_start.tex:150: Warning: Undefined label: 'chapter:cookbook' ./Tutorial/chapter_quick_start.tex:158: Warning: Undefined label: 'chapter:entrez' ./Tutorial/chapter_quick_start.tex:159: Warning: Undefined label: 'chapter:uniprot' ./Tutorial/chapter_quick_start.tex:169: Warning: Undefined label: 'chapter:cookbook' ./Tutorial/chapter_seq_objects.tex:2: Warning: '_' occurring outside math mode ./Tutorial/chapter_seq_objects.tex:5: Warning: Undefined label: 'chapter:seq_annot' ./Tutorial/chapter_seq_objects.tex:5: Warning: Undefined label: 'chapter:seqio' ./Tutorial/chapter_seq_objects.tex:86: Warning: Undefined label: 'sec:mutable-seq' ./Tutorial/chapter_seq_objects.tex:155: Warning: Undefined label: 'sec:SeqRecord-format' ./Tutorial/chapter_seq_objects.tex:157: Warning: Undefined label: 'chapter:seqio' ./Tutorial/chapter_seq_objects.tex:278: Warning: Undefined label: 'sec:SeqIO-reverse-complement' ./Tutorial/chapter_seq_objects.tex:353: Warning: Undefined label: 'sec:seq-module-functions' ./Tutorial/chapter_seq_objects.tex:469: Warning: Undefined label: 'sec:SeqIO-translate' ./Tutorial/chapter_seq_objects.tex:475: Warning: Undefined label: 'sec:seq-module-functions' ./Tutorial/chapter_seq_objects.tex:598: Warning: Undefined label: 'sec:seq-to-string' ./Tutorial/chapter_seq_objects.tex:741: Warning: Undefined label: 'sec:seq-to-string' ./Tutorial/chapter_seq_annot.tex:2: Warning: '_' occurring outside math mode ./Tutorial/chapter_seq_annot.tex:4: Warning: Undefined label: 'chapter:seq_objects' ./Tutorial/chapter_seq_annot.tex:4: Warning: Undefined label: 'chapter:seqio' ./Tutorial/chapter_seq_annot.tex:20: Warning: Undefined label: 'chapter:seq_objects' ./Tutorial/chapter_seq_annot.tex:20: Warning: Undefined label: 'chapter:seqio' ./Tutorial/chapter_seq_annot.tex:33: Warning: Undefined label: 'sec:FASTQ-filtering-example' ./Tutorial/chapter_seq_annot.tex:37: Warning: Undefined label: 'sec:seq_features' ./Tutorial/chapter_seq_annot.tex:47: Warning: Undefined label: 'chapter:seqio' ./Tutorial/chapter_seq_annot.tex:130: Warning: Undefined label: 'chapter:quick_start' ./Tutorial/chapter_seq_annot.tex:132: Warning: Undefined label: 'chapter:seqio' ./Tutorial/chapter_seq_annot.tex:211: Warning: Undefined label: 'chapter:seqio' ./Tutorial/chapter_seq_annot.tex:275: Warning: Undefined label: 'sec:seq_features' ./Tutorial/chapter_seq_annot.tex:278: Warning: '_' occurring outside math mode ./Tutorial/chapter_seq_annot.tex:284: Warning: Undefined label: 'sec:locations' ./Tutorial/chapter_seq_annot.tex:292: Warning: Undefined label: 'sec:locations' ./Tutorial/chapter_seq_annot.tex:502: Warning: Undefined label: 'sec:locations' ./Tutorial/chapter_seq_annot.tex:600: Warning: Undefined label: 'sec:seq-comparison' ./Tutorial/chapter_seq_annot.tex:608: Warning: Undefined label: 'sec:locations' ./Tutorial/chapter_seq_annot.tex:648: Warning: Undefined label: 'chapter:seqio' ./Tutorial/chapter_seq_annot.tex:651: Warning: Undefined label: 'sec:Bio.SeqIO-and-StringIO' ./Tutorial/chapter_seq_annot.tex:793: Warning: Undefined label: 'sec:SeqRecord-format' ./Tutorial/chapter_seq_annot.tex:805: Warning: Undefined label: 'sec:FASTQ-slicing-off-primer' ./Tutorial/chapter_seq_annot.tex:806: Warning: Undefined label: 'sec:FASTQ-slicing-off-adaptor' ./Tutorial/chapter_seq_annot.tex:819: Warning: Undefined label: 'chapter:seqio' ./Tutorial/chapter_seqio.tex:4: Warning: Undefined label: 'chapter:quick_start' ./Tutorial/chapter_seqio.tex:4: Warning: Undefined label: 'chapter:seq_annot' ./Tutorial/chapter_seqio.tex:12: Warning: Undefined label: 'chapter:seq_annot' ./Tutorial/chapter_seqio.tex:12: Warning: Undefined label: 'chapter:seq_objects' ./Tutorial/chapter_seqio.tex:14: Warning: Undefined label: 'sec:low-level-fasta-fastq' ./Tutorial/chapter_seqio.tex:22: Warning: Undefined label: 'sec:SeqIO_Online' ./Tutorial/chapter_seqio.tex:22: Warning: Undefined label: 'sec:appendix-handles' ./Tutorial/chapter_seqio.tex:43: Warning: Undefined label: 'sec:sequence-parsing' ./Tutorial/chapter_seqio.tex:68: Warning: Undefined label: 'sec:sequence-parsing-plus-pylab' ./Tutorial/chapter_seqio.tex:150: Warning: Undefined label: 'chapter:seq_annot' ./Tutorial/chapter_seqio.tex:306: Warning: Undefined label: 'sec:writing-sequence-files' ./Tutorial/chapter_seqio.tex:326: Warning: '_' occurring outside math mode ./Tutorial/chapter_seqio.tex:329: Warning: Undefined label: 'sec:appendix-handles' ./Tutorial/chapter_seqio.tex:398: Warning: Undefined label: 'sec:SeqIO-index-bgzf' ./Tutorial/chapter_seqio.tex:401: Warning: '_' occurring outside math mode ./Tutorial/chapter_seqio.tex:413: Warning: '_' occurring outside math mode ./Tutorial/chapter_seqio.tex:413: Warning: '_' occurring outside math mode ./Tutorial/chapter_seqio.tex:414: Warning: Undefined label: 'sec:efetch' ./Tutorial/chapter_seqio.tex:504: Warning: Undefined label: 'chapter:entrez' ./Tutorial/chapter_seqio.tex:504: Warning: Undefined label: 'sec:entrez-guidelines' ./Tutorial/chapter_seqio.tex:507: Warning: '_' occurring outside math mode ./Tutorial/chapter_seqio.tex:507: Warning: '_' occurring outside math mode ./Tutorial/chapter_seqio.tex:507: Warning: '_' occurring outside math mode ./Tutorial/chapter_seqio.tex:509: Warning: Undefined label: 'chapter:uniprot' ./Tutorial/chapter_seqio.tex:565: Warning: Undefined label: 'sec:seqio_todict' ./Tutorial/chapter_seqio.tex:571: Warning: Undefined label: 'sec:SeqIO-index' ./Tutorial/chapter_seqio.tex:575: Warning: Undefined label: 'sec:SeqIO-index-db' ./Tutorial/chapter_seqio.tex:578: Warning: Undefined label: 'sec:SeqIO-indexing-discussion' ./Tutorial/chapter_seqio.tex:581: Warning: '_' occurring outside math mode ./Tutorial/chapter_seqio.tex:588: Warning: Undefined label: 'sec:SeqIO-index' ./Tutorial/chapter_seqio.tex:661: Warning: Undefined label: 'sec:fasta-parsing' ./Tutorial/chapter_seqio.tex:783: Warning: Undefined label: 'sec:fastq-indexing' ./Tutorial/chapter_seqio.tex:804: Warning: Undefined label: 'sec:seqio-todict-functionkey' ./Tutorial/chapter_seqio.tex:866: Warning: Undefined label: 'sec:SeqIO-sort' ./Tutorial/chapter_seqio.tex:948: Warning: Undefined label: 'sec:seqio-index-getraw' ./Tutorial/chapter_seqio.tex:1189: Warning: Undefined label: 'sec:seqio-index-getraw' ./Tutorial/chapter_seqio.tex:1232: Warning: Undefined label: 'sec:SeqIO-fastq-conversion' ./Tutorial/chapter_seqio.tex:1232: Warning: Undefined label: 'sec:SeqIO-fasta-qual-conversion' ./Tutorial/chapter_seqio.tex:1247: Warning: Undefined label: 'sec:seq-reverse-complement' ./Tutorial/chapter_seqio.tex:1258: Warning: Undefined label: 'sec:SeqRecord-reverse-complement' ./Tutorial/chapter_seqio.tex:1311: Warning: Undefined label: 'sec:SeqIO-translate' ./Tutorial/chapter_seqio.tex:1331: Warning: Undefined label: 'sec:SeqRecord-format' ./Tutorial/chapter_seqio.tex:1412: Warning: Undefined label: 'chapter:cookbook' ./Tutorial/chapter_align.tex:31: Warning: Undefined label: 'sec:appendix-handles' ./Tutorial/chapter_align.tex:35: Warning: Undefined label: 'sec:AlignIO-count-argument' ./Tutorial/chapter_align.tex:113: Warning: Undefined label: 'sec:alignment-format' ./Tutorial/chapter_align.tex:444: Warning: Undefined label: 'sec:SeqIO-conversion' ./Tutorial/chapter_align.tex:633: Warning: Undefined label: 'sec:SeqRecord-format' ./Tutorial/chapter_align.tex:813: Warning: Undefined label: 'sec:SeqRecord-addition' ./Tutorial/chapter_align.tex:892: Warning: Undefined label: 'sec:subs_mat_ex' ./Tutorial/chapter_align.tex:913: Warning: Undefined label: 'sec:pairwise' ./Tutorial/chapter_align.tex:917: Warning: Undefined label: 'chapter:seqio' ./Tutorial/chapter_align.tex:947: Warning: Undefined label: 'sec:emboss-needle-water' ./Tutorial/chapter_align.tex:955: Warning: '_' occurring outside math mode ./Tutorial/chapter_align.tex:1093: Warning: Undefined label: 'chapter:phylo' ./Tutorial/chapter_align.tex:1317: Warning: Undefined label: 'sec:appendix-handles' ./Tutorial/chapter_align.tex:1492: Warning: Undefined citation: 'durbin1998' ./Tutorial/chapter_align.tex:1505: Warning: Undefined label: 'sec:pairwise-aligner' ./Tutorial/chapter_align.tex:1578: Warning: Undefined citation: 'waterman1987' ./Tutorial/chapter_align.tex:1608: Warning: Undefined label: 'sec:pairwise-substitution-scores' ./Tutorial/chapter_align.tex:1608: Warning: Undefined label: 'sec:pairwise-affine-gapscores' ./Tutorial/chapter_align.tex:1608: Warning: Undefined label: 'sec:pairwise-general-gapscores' ./Tutorial/chapter_align.tex:1609: Warning: Undefined label: 'sec:pairwise-basic' ./Tutorial/chapter_align.tex:1612: Warning: Undefined label: 'sec:pairwise-affine-gapscores' ./Tutorial/chapter_align.tex:1613: Warning: Undefined label: 'sec:pairwise-general-gapscores' ./Tutorial/chapter_align.tex:1639: Warning: Undefined citation: 'altschul1990' ./Tutorial/chapter_align.tex:1639: Warning: Undefined label: 'sec:pairwise-affine-gapscores' ./Tutorial/chapter_align.tex:1668: Warning: Undefined citation: 'altschul1990' ./Tutorial/chapter_align.tex:1772: Warning: Undefined label: 'table:align-meta-attributes' ./Tutorial/chapter_align.tex:1908: Warning: Undefined label: 'sec:pairwise-examples' ./Tutorial/chapter_align.tex:2424: Warning: Undefined citation: 'kent2002' ./Tutorial/chapter_align.tex:2496: Warning: Multiple definitions for label: sec:pairwise-general-gapscores ./Tutorial/chapter_align.tex:2725: Warning: Undefined citation: 'schneider2005' ./Tutorial/chapter_align.tex:2725: Warning: Undefined label: 'sec:substitution_matrices' ./Tutorial/chapter_align.tex:2932: Warning: '_' occurring outside math mode ./Tutorial/chapter_align.tex:3282: Warning: Undefined citation: 'altschul1990' ./Tutorial/chapter_align.tex:3354: Warning: Undefined citation: 'henikoff1992' ./Tutorial/chapter_align.tex:3354: Warning: Undefined citation: 'dayhoff1978' ./Tutorial/chapter_align.tex:3379: Warning: Undefined citation: 'schneider2005' ./Tutorial/chapter_align.tex:3379: Warning: Suppressing nested a element ./Tutorial/chapter_align.tex:3391: Warning: Undefined label: 'sec:pairwise' ./Tutorial/chapter_blast.tex:18: Warning: Undefined label: 'chapter:searchio' ./Tutorial/chapter_blast.tex:73: Warning: Undefined label: 'sec:parsing-blast' ./Tutorial/chapter_blast.tex:133: Warning: Undefined label: 'chapter:seqio' ./Tutorial/chapter_blast.tex:138: Warning: Undefined label: 'sec:parsing-blast' ./Tutorial/chapter_blast.tex:160: Warning: Undefined label: 'sec:parsing-blast' ./Tutorial/chapter_blast.tex:169: Warning: Undefined label: 'sec:parsing-blast' ./Tutorial/chapter_blast.tex:178: Warning: Undefined label: 'sec:running-www-blast' ./Tutorial/chapter_blast.tex:206: Warning: Undefined label: 'sec:alignment-tools' ./Tutorial/chapter_blast.tex:241: Warning: Undefined label: 'sec:parsing-blast' ./Tutorial/chapter_blast.tex:287: Warning: Undefined label: 'sec:running-www-blast' ./Tutorial/chapter_blast.tex:289: Warning: Undefined label: 'sec:running-local-blast' ./Tutorial/chapter_blast.tex:304: Warning: Undefined label: 'sec:appendix-handles' ./Tutorial/chapter_blast.tex:340: Warning: Undefined label: 'chapter:seqio' ./Tutorial/chapter_blast.tex:340: Warning: Undefined label: 'chapter:align' ./Tutorial/chapter_blast.tex:452: Warning: Undefined label: 'fig:blastrecord' ./Tutorial/chapter_blast.tex:468: Warning: Undefined label: 'fig:psiblastrecord' ./Tutorial/chapter_searchio.tex:739: Warning: Undefined label: 'chapter:seq_annot' ./Tutorial/chapter_searchio.tex:1089: Warning: Undefined label: 'sec:SeqIO-index' ./Tutorial/chapter_entrez.tex:21: Warning: Undefined label: 'sec:entrez-specialized-parsers' ./Tutorial/chapter_entrez.tex:60: Warning: Undefined label: 'sec:entrez-webenv' ./Tutorial/chapter_entrez.tex:63: Warning: Undefined label: 'sec:BioSQL' ./Tutorial/chapter_entrez.tex:216: Warning: Undefined label: 'sec:efetch' ./Tutorial/chapter_entrez.tex:220: Warning: Undefined label: 'sec:entrez-einfo' ./Tutorial/chapter_entrez.tex:236: Warning: Undefined label: 'sec:efetch' ./Tutorial/chapter_entrez.tex:299: Warning: Undefined label: 'sec:entrez-webenv' ./Tutorial/chapter_entrez.tex:325: Warning: Undefined label: 'sec:SeqIO_GenBank_Online' ./Tutorial/chapter_entrez.tex:325: Warning: Undefined label: 'sec:efetch' ./Tutorial/chapter_entrez.tex:419: Warning: Undefined label: 'chapter:seqio' ./Tutorial/chapter_entrez.tex:481: Warning: Undefined label: 'sec:entrez-specialized-parsers' ./Tutorial/chapter_entrez.tex:483: Warning: Undefined label: 'sec:entrez-webenv' ./Tutorial/chapter_entrez.tex:565: Warning: Undefined label: 'sec:elink-citations' ./Tutorial/chapter_entrez.tex:571: Warning: Undefined label: 'sec:entrez_example_genbank' ./Tutorial/chapter_entrez.tex:780: Warning: Undefined label: 'sec:SeqIO_GenBank_Online' ./Tutorial/chapter_entrez.tex:780: Warning: Undefined label: 'sec:efetch' ./Tutorial/chapter_entrez.tex:902: Warning: Undefined label: 'sec:entrez-webenv' ./Tutorial/chapter_entrez.tex:1065: Warning: '_' occurring outside math mode ./Tutorial/chapter_entrez.tex:1068: Warning: '_' occurring outside math mode ./Tutorial/chapter_entrez.tex:1072: Warning: Undefined label: 'sec:orchids' ./Tutorial/chapter_entrez.tex:1115: Warning: Undefined label: 'sec:entrez-webenv' ./Tutorial/chapter_entrez.tex:1159: Warning: '_' occurring outside math mode ./Tutorial/chapter_entrez.tex:1159: Warning: '_' occurring outside math mode ./Tutorial/chapter_entrez.tex:1161: Warning: Undefined label: 'sec:orchids' ./Tutorial/chapter_entrez.tex:1216: Warning: Undefined label: 'sec:entrez-webenv' ./Tutorial/chapter_entrez.tex:1251: Warning: Undefined label: 'sec:entrez-webenv' ./Tutorial/chapter_entrez.tex:1258: Warning: Undefined label: 'sec:SeqIO_GenBank_Online' ./Tutorial/chapter_entrez.tex:1259: Warning: Undefined label: 'sec:entrez-webenv' ./Tutorial/chapter_entrez.tex:1311: Warning: Undefined label: 'chapter:seqio' ./Tutorial/chapter_entrez.tex:1335: Warning: Undefined label: 'sec:entrez-guidelines' ./Tutorial/chapter_entrez.tex:1336: Warning: Undefined label: 'sec:entrez-webenv' ./Tutorial/chapter_entrez.tex:1396: Warning: Undefined label: 'sec:entrez-search-fetch-genbank' ./Tutorial/chapter_entrez.tex:1418: Warning: Undefined label: 'sec:entrez_example_genbank' ./Tutorial/chapter_entrez.tex:1507: Warning: Undefined label: 'sec:entrez-and-medline' ./Tutorial/chapter_entrez.tex:1512: Warning: Undefined label: 'sec:elink' ./Tutorial/chapter_entrez.tex:1537: Warning: Undefined label: 'sec:entrez-webenv' ./Tutorial/chapter_uniprot.tex:12: Warning: Undefined label: 'sec:SeqIO_ExPASy_and_SwissProt' ./Tutorial/chapter_uniprot.tex:37: Warning: Undefined label: 'sec:expasy_swissprot' 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Rerun me to get cross-references right. Run, run, again... 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./Tutorial/chapter_align.tex:2519: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2519: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2519: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2519: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2559: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2559: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2559: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2559: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2559: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2559: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2559: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2559: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2612: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2612: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2612: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2612: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2698: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2698: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2698: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2698: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2721: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2721: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2721: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2721: Warning: Undefined block in 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./Tutorial/chapter_align.tex:3107: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3107: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3107: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3107: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3107: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3107: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3119: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3119: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3119: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3119: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3217: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3217: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3217: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3217: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3232: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3232: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3232: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3232: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3232: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3232: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3232: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3232: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3263: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3263: Warning: Undefined block in 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'CODE' [] ./Tutorial/chapter_align.tex:3529: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3529: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3552: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3552: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3565: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3565: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3572: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3572: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:1: Warning: line too long ./Tutorial/chapter_blast.tex:1: Warning: line too long ./Tutorial/chapter_blast.tex:19: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:19: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:20: Warning: 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block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:450: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:452: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:452: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:452: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:452: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:456: Warning: Image in text ./Tutorial/chapter_blast.tex:472: Warning: Image in text ./Tutorial/chapter_blast.tex:488: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:488: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:488: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:488: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:489: Warning: Undefined block in text mode: 'CODE' [] 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./Tutorial/chapter_cluster.tex:559: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:566: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:566: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:583: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:583: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:583: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:583: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:584: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:584: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:587: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:587: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:588: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:588: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:589: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:589: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:594: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:594: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:594: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:594: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:594: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:594: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:594: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:594: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:596: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:596: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:596: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:596: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:596: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:596: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:596: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:596: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:607: Warning: Cannot output that numerical entity: U+00B7 ./Tutorial/chapter_cluster.tex:611: Warning: Cannot output that numerical entity: U+00B7 ./Tutorial/chapter_cluster.tex:616: Warning: Cannot output that numerical entity: U+00B7 ./Tutorial/chapter_cluster.tex:623: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:623: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:625: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:625: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:632: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:632: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:634: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:634: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:634: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:634: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:635: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:635: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:635: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:635: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:635: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:635: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:635: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:635: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:636: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:636: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:636: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:636: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:637: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:637: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:637: Warning: 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in text mode: 'CODE' [] ./Tutorial/chapter_appendix.tex:53: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_appendix.tex:54: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_appendix.tex:54: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_appendix.tex:98: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_appendix.tex:98: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial.tex:126: Warning: line too long ./Tutorial.tex:137: Warning: Application of '\'' on 'e' failed ./Tutorial.tex:137: Warning: Application of '\'' on 'o' failed ./Tutorial.tex:141: Warning: Application of '\"' on 'u' failed ./Tutorial.tex:215: Warning: Application of '\"' on 'o' failed ./Tutorial.tex:215: Warning: Application of '\"' on 'u' failed HeVeA Warning: Label(s) may have changed. Rerun me to get cross-references right. Run, run, again... Exclude comment 'comment' ./Tutorial.tex:73: Warning: tt_mode is an empty style ./Tutorial.haux:561: Giving up command: \@hevea@cbrace ./Tutorial.tex:73: Giving up command: \input ./Tutorial.tex:73: Warning: Failure while reading .haux ./Tutorial.tex:100: Warning: Application of '\'' on 'n' failed ./Tutorial/chapter_introduction.tex:82: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_introduction.tex:82: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_introduction.tex:91: Warning: Undefined citation: 'cock2009' ./Tutorial/chapter_introduction.tex:95: Warning: Undefined citation: 'chapman2000' ./Tutorial/chapter_introduction.tex:96: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_introduction.tex:96: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_introduction.tex:96: Warning: Undefined citation: 'hamelryck2003a' ./Tutorial/chapter_introduction.tex:97: Warning: Undefined block in text mode: 'CODE' [] 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./Tutorial/chapter_seq_objects.tex:729: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_objects.tex:729: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_objects.tex:729: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_objects.tex:729: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_objects.tex:731: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_objects.tex:731: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_objects.tex:731: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_objects.tex:731: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_objects.tex:741: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_objects.tex:741: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_objects.tex:741: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_objects.tex:741: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_objects.tex:741: Warning: Undefined label: 'sec:seq-to-string' ./Tutorial/chapter_seq_objects.tex:747: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_objects.tex:747: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_objects.tex:748: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_objects.tex:748: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_objects.tex:748: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_objects.tex:748: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_objects.tex:764: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_objects.tex:764: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_annot.tex:2: Warning: '_' occurring outside math mode ./Tutorial/chapter_seq_annot.tex:4: 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./Tutorial/chapter_seq_annot.tex:10: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_annot.tex:10: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_annot.tex:10: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_annot.tex:10: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_annot.tex:10: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_annot.tex:10: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_annot.tex:20: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_annot.tex:20: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_annot.tex:20: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_annot.tex:20: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_annot.tex:20: Warning: Undefined label: 'chapter:seq_objects' ./Tutorial/chapter_seq_annot.tex:20: Warning: Undefined 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./Tutorial/chapter_seq_annot.tex:956: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_annot.tex:956: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seq_annot.tex:956: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1: Warning: line too long ./Tutorial/chapter_seqio.tex:1: Warning: line too long ./Tutorial/chapter_seqio.tex:4: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:4: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:4: Warning: Undefined label: 'chapter:quick_start' ./Tutorial/chapter_seqio.tex:4: Warning: Undefined label: 'chapter:seq_annot' ./Tutorial/chapter_seqio.tex:5: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:5: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:12: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:12: Warning: Undefined block in text 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./Tutorial/chapter_seqio.tex:1247: Warning: Undefined label: 'sec:seq-reverse-complement' ./Tutorial/chapter_seqio.tex:1257: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1257: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1258: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1258: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1258: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1258: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1258: Warning: Undefined label: 'sec:SeqRecord-reverse-complement' ./Tutorial/chapter_seqio.tex:1311: Warning: Undefined label: 'sec:SeqIO-translate' ./Tutorial/chapter_seqio.tex:1316: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1316: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1318: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1318: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1331: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1331: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1331: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1331: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1331: Warning: Undefined label: 'sec:SeqRecord-format' ./Tutorial/chapter_seqio.tex:1333: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1333: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1342: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1342: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1349: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1349: Warning: 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in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:24: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:24: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:24: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:24: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:24: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:26: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:26: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:26: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:26: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:31: Warning: Undefined label: 'sec:appendix-handles' ./Tutorial/chapter_align.tex:32: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:32: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:35: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:35: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:35: Warning: Undefined label: 'sec:AlignIO-count-argument' ./Tutorial/chapter_align.tex:93: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:93: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:113: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:113: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:113: Warning: Undefined label: 'sec:alignment-format' ./Tutorial/chapter_align.tex:165: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:165: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:167: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:167: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:178: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:178: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:191: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:191: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:221: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:221: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:266: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:266: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:266: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:266: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:335: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:335: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:336: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:336: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:336: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:336: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:336: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:336: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:338: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:338: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:338: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:338: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:366: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:366: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:366: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:366: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:366: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:366: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:368: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:368: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:368: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:368: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:370: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:370: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:370: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:370: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:370: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:370: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:374: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:374: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:374: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:374: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:374: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:374: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:374: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:374: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:374: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:374: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:376: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:376: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:377: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:377: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:408: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:408: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:434: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:434: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:434: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:434: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:434: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:434: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:436: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:436: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:442: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:442: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:443: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:443: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:444: Warning: Undefined label: 'sec:SeqIO-conversion' ./Tutorial/chapter_align.tex:445: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:445: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:445: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:445: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:446: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:446: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:457: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:457: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:457: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:457: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:467: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:467: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:467: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:467: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:469: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:469: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:469: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:469: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:614: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:614: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:615: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:615: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:616: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:616: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:631: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:631: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:631: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:631: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:633: Warning: Undefined label: 'sec:SeqRecord-format' ./Tutorial/chapter_align.tex:633: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:633: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:633: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:633: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:635: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:635: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:635: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:635: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:635: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:635: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:664: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:664: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:665: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:665: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:666: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:666: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:666: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:666: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:687: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:687: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:687: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:687: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:688: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:688: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:748: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:748: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:813: Warning: Undefined label: 'sec:SeqRecord-addition' ./Tutorial/chapter_align.tex:814: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:814: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:863: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:863: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:892: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:892: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:892: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:892: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:892: Warning: Undefined block in text 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./Tutorial/chapter_align.tex:917: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:917: Warning: Undefined label: 'chapter:seqio' ./Tutorial/chapter_align.tex:921: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:921: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:933: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:933: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:944: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:944: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:947: Warning: Undefined label: 'sec:emboss-needle-water' ./Tutorial/chapter_align.tex:955: Warning: '_' occurring outside math mode ./Tutorial/chapter_align.tex:958: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:958: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1016: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1016: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1016: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1016: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1022: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1022: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1023: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1023: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1024: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1024: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1048: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1048: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1050: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1050: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1069: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1069: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1093: Warning: Undefined label: 'chapter:phylo' ./Tutorial/chapter_align.tex:1098: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1098: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1127: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1127: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1150: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1150: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1161: Warning: Undefined block in text mode: 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'CODE' [] ./Tutorial/chapter_align.tex:1810: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1810: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1811: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1811: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1811: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1811: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1811: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1811: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1812: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1812: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1812: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1812: Warning: Undefined block in 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Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1816: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1816: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1818: Warning: overfull line in array : array too wide ./Tutorial/chapter_align.tex:1818: Warning: line too long ./Tutorial/chapter_align.tex:1818: Warning: line too long ./Tutorial/chapter_align.tex:1818: Warning: line too long ./Tutorial/chapter_align.tex:1863: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1863: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1863: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1863: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1863: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1863: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1863: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1863: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1863: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1863: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1863: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1863: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1863: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1863: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1908: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1908: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1908: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1908: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1908: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1908: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1908: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1908: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1908: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1908: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1908: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1908: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1908: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1908: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1908: Warning: Undefined label: 'sec:pairwise-examples' ./Tutorial/chapter_align.tex:1910: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1910: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1912: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1912: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1912: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1912: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1912: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1912: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1912: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1912: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1946: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1946: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1984: Warning: Undefined 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./Tutorial/chapter_align.tex:2164: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2164: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2166: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2166: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2166: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2166: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2181: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2181: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2192: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2192: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2203: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2203: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2260: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2260: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2260: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2260: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2260: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2260: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2260: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2260: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2260: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2260: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2260: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2260: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2260: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2260: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2260: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2260: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2295: Warning: line too long ./Tutorial/chapter_align.tex:2311: Warning: line too long ./Tutorial/chapter_align.tex:2316: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2316: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2316: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2316: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2316: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2316: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2316: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2316: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2316: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2316: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2316: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2316: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2316: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2316: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2316: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2316: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2366: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2366: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2366: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2366: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2366: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2366: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2366: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2366: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2366: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2366: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2366: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2366: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2379: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2379: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2379: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2379: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2379: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2379: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2392: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2392: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2392: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2392: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2408: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2408: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2408: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2408: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2408: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2408: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2411: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2411: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2411: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2411: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2412: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2412: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2418: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2418: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2424: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2424: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2424: Warning: Undefined citation: 'kent2002' ./Tutorial/chapter_align.tex:2428: Warning: line too long ./Tutorial/chapter_align.tex:2431: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2431: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2433: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2433: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2434: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2434: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2435: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2435: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2437: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2437: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2437: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2437: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2437: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2437: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2479: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2479: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2479: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2479: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2485: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2485: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2493: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2493: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2496: Warning: Multiple definitions for label: sec:pairwise-general-gapscores ./Tutorial/chapter_align.tex:2498: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2498: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2498: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2498: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2498: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2498: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2519: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2519: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2519: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2519: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2559: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2559: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2559: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2559: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2559: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2559: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2559: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2559: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2612: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2612: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2612: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2612: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2698: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2698: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2698: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2698: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2721: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2721: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2721: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2721: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2721: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2721: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2725: Warning: Undefined citation: 'schneider2005' ./Tutorial/chapter_align.tex:2725: Warning: Undefined label: 'sec:substitution_matrices' ./Tutorial/chapter_align.tex:2758: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2758: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2758: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2758: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2773: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2773: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2773: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2773: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2773: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2773: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2773: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2773: Warning: 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./Tutorial/chapter_align.tex:3070: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3070: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3072: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3072: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3072: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3072: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3072: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3072: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3107: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3107: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3107: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3107: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3107: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3107: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3107: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3107: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3119: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3119: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3119: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3119: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3217: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3217: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3217: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3217: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3232: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3232: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3232: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3232: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3232: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3232: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3232: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3232: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3263: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3263: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3282: Warning: Undefined citation: 'altschul1990' ./Tutorial/chapter_align.tex:3282: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3282: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3302: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3302: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3315: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3315: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3315: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3315: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3350: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3350: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3354: Warning: Undefined citation: 'henikoff1992' ./Tutorial/chapter_align.tex:3354: Warning: Undefined citation: 'dayhoff1978' ./Tutorial/chapter_align.tex:3354: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3354: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3354: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3354: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3354: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3354: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3369: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3369: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3379: Warning: Undefined citation: 'schneider2005' ./Tutorial/chapter_align.tex:3391: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3391: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3391: Warning: Undefined label: 'sec:pairwise' ./Tutorial/chapter_align.tex:3393: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3393: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3396: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3396: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3400: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3400: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3416: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3416: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3425: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3425: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3429: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3429: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3442: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3442: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3443: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3443: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3448: Warning: line too long ./Tutorial/chapter_align.tex:3450: Warning: line too long ./Tutorial/chapter_align.tex:3468: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3468: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3491: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3491: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3508: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3508: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3511: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3511: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3528: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3528: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3529: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3529: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3552: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3552: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3565: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3565: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3572: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:3572: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:1: Warning: line too long ./Tutorial/chapter_blast.tex:1: Warning: line too long ./Tutorial/chapter_blast.tex:18: Warning: Undefined label: 'chapter:searchio' ./Tutorial/chapter_blast.tex:19: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:19: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:20: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:20: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:23: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:23: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:29: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:29: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:29: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:29: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:35: Warning: 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./Tutorial/chapter_blast.tex:70: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:70: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:71: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:71: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:71: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:71: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:71: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:71: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:71: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:71: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:72: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:72: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:73: Warning: Undefined label: 'sec:parsing-blast' ./Tutorial/chapter_blast.tex:74: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:74: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:109: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:109: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:121: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:121: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:132: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:132: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:133: Warning: Undefined label: 'chapter:seqio' ./Tutorial/chapter_blast.tex:135: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:135: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:138: Warning: Undefined label: 'sec:parsing-blast' ./Tutorial/chapter_blast.tex:146: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:146: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:147: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:147: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:157: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:157: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:159: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:159: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:160: Warning: Undefined label: 'sec:parsing-blast' ./Tutorial/chapter_blast.tex:169: Warning: Undefined label: 'sec:parsing-blast' ./Tutorial/chapter_blast.tex:178: Warning: Undefined label: 'sec:running-www-blast' ./Tutorial/chapter_blast.tex:202: Warning: '_' occurring outside math mode ./Tutorial/chapter_blast.tex:202: Warning: '_' occurring outside math mode ./Tutorial/chapter_blast.tex:206: Warning: Undefined label: 'sec:alignment-tools' ./Tutorial/chapter_blast.tex:225: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:225: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:236: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:236: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:238: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:238: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:240: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:240: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:241: Warning: Undefined label: 'sec:parsing-blast' ./Tutorial/chapter_blast.tex:248: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:248: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:259: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:259: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:259: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:259: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:260: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:260: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:273: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:273: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:287: Warning: Undefined label: 'sec:running-www-blast' ./Tutorial/chapter_blast.tex:289: Warning: Undefined label: 'sec:running-local-blast' ./Tutorial/chapter_blast.tex:303: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:303: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:303: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:303: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:304: Warning: Undefined label: 'sec:appendix-handles' ./Tutorial/chapter_blast.tex:307: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:307: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:316: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:316: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:339: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:339: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:339: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:339: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:340: Warning: Undefined label: 'chapter:seqio' ./Tutorial/chapter_blast.tex:340: Warning: Undefined label: 'chapter:align' ./Tutorial/chapter_blast.tex:341: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:341: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:341: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:341: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:342: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:342: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:342: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:342: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:344: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:344: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:344: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:344: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:348: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:348: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:369: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:369: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:388: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:388: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:440: Warning: line too long ./Tutorial/chapter_blast.tex:442: Warning: line too long ./Tutorial/chapter_blast.tex:450: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:450: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:450: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:450: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:450: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:450: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:450: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:450: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:452: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:452: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:452: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:452: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:452: Warning: Undefined label: 'fig:blastrecord' ./Tutorial/chapter_blast.tex:456: Warning: Image in text 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./Tutorial/chapter_entrez.tex:1311: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_entrez.tex:1311: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_entrez.tex:1311: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_entrez.tex:1311: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_entrez.tex:1311: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_entrez.tex:1311: Warning: Undefined label: 'chapter:seqio' ./Tutorial/chapter_entrez.tex:1335: Warning: Undefined label: 'sec:entrez-guidelines' ./Tutorial/chapter_entrez.tex:1336: Warning: Undefined label: 'sec:entrez-webenv' ./Tutorial/chapter_entrez.tex:1355: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_entrez.tex:1355: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_entrez.tex:1396: Warning: Undefined label: 'sec:entrez-search-fetch-genbank' ./Tutorial/chapter_entrez.tex:1397: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_entrez.tex:1397: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_entrez.tex:1398: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_entrez.tex:1398: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_entrez.tex:1404: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_entrez.tex:1404: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_entrez.tex:1405: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_entrez.tex:1405: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_entrez.tex:1418: Warning: Undefined label: 'sec:entrez_example_genbank' ./Tutorial/chapter_entrez.tex:1418: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_entrez.tex:1418: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_entrez.tex:1418: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_entrez.tex:1418: 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text mode: 'CODE' [] ./Tutorial/chapter_uniprot.tex:418: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_uniprot.tex:418: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_uniprot.tex:418: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_uniprot.tex:418: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_uniprot.tex:418: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_uniprot.tex:418: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_uniprot.tex:420: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_uniprot.tex:420: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_uniprot.tex:420: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_uniprot.tex:420: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_uniprot.tex:446: Warning: '_' occurring outside math mode ./Tutorial/chapter_uniprot.tex:446: Warning: '_' occurring outside math mode ./Tutorial/chapter_uniprot.tex:448: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_uniprot.tex:448: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_uniprot.tex:466: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_uniprot.tex:466: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_uniprot.tex:466: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_uniprot.tex:466: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_uniprot.tex:474: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_uniprot.tex:474: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_uniprot.tex:497: Warning: '_' occurring outside math mode ./Tutorial/chapter_uniprot.tex:497: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_uniprot.tex:497: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_pdb.tex:1: Warning: line too long ./Tutorial/chapter_pdb.tex:23: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_pdb.tex:23: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_pdb.tex:25: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_pdb.tex:25: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_pdb.tex:84: Warning: Undefined label: 'sec:problem_structures' ./Tutorial/chapter_pdb.tex:86: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_pdb.tex:86: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_pdb.tex:86: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_pdb.tex:86: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_pdb.tex:113: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_pdb.tex:113: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_pdb.tex:113: Warning: Undefined block in text mode: 'CODE' [] 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./Tutorial/chapter_pdb.tex:204: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_pdb.tex:275: Warning: Undefined label: 'fig:smcra' ./Tutorial/chapter_pdb.tex:284: Warning: Undefined label: 'sec:problem_structures' ./Tutorial/chapter_pdb.tex:288: Warning: Image in text ./Tutorial/chapter_pdb.tex:350: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_pdb.tex:350: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_pdb.tex:351: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_pdb.tex:351: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_pdb.tex:352: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_pdb.tex:352: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_pdb.tex:353: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_pdb.tex:353: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_pdb.tex:357: Warning: Undefined block in 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citation: 'majumdar2005' ./Tutorial/chapter_popgen.tex:4: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_popgen.tex:4: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_popgen.tex:19: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_popgen.tex:19: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_phylo.tex:9: Warning: Undefined citation: 'talevich2012' ./Tutorial/chapter_phylo.tex:34: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_phylo.tex:34: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_phylo.tex:70: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_phylo.tex:70: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_phylo.tex:96: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_phylo.tex:96: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_phylo.tex:96: Warning: Undefined label: 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./Tutorial/chapter_motifs.tex:1532: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_motifs.tex:1532: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_motifs.tex:1533: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_motifs.tex:1533: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_motifs.tex:1534: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_motifs.tex:1534: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_motifs.tex:1565: Warning: '_' occurring outside math mode ./Tutorial/chapter_motifs.tex:1566: Warning: '_' occurring outside math mode ./Tutorial/chapter_motifs.tex:1566: Warning: '_' occurring outside math mode ./Tutorial/chapter_motifs.tex:1567: Warning: '_' occurring outside math mode ./Tutorial/chapter_cluster.tex:6: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:6: Warning: Undefined block in text mode: 'CODE' [] 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text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:551: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:551: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:552: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:552: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:553: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:553: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:555: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:555: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:555: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:555: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:556: Warning: Undefined label: 'sec:distancefunctions' ./Tutorial/chapter_cluster.tex:559: 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./Tutorial/chapter_cluster.tex:584: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:584: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:587: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:587: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:588: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:588: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:589: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:589: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:594: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:594: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:594: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:594: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:594: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:594: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:594: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:594: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:596: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:596: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:596: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:596: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:596: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:596: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:596: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:596: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:600: Warning: Undefined citation: 'kohonen1997' ./Tutorial/chapter_cluster.tex:600: Warning: Undefined citation: 'tamayo1999' ./Tutorial/chapter_cluster.tex:607: Warning: Cannot output that numerical entity: U+00B7 ./Tutorial/chapter_cluster.tex:611: Warning: Cannot output that numerical entity: U+00B7 ./Tutorial/chapter_cluster.tex:616: Warning: Cannot output that numerical entity: U+00B7 ./Tutorial/chapter_cluster.tex:623: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:623: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:625: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:625: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:632: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:632: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:634: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:634: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:634: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:634: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:635: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:635: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:635: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:635: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:635: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:635: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:635: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:635: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:636: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:636: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:636: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:636: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:637: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:637: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:637: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:637: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:638: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:638: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:638: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:638: Warning: 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./Tutorial/chapter_cluster.tex:640: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:642: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:642: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:642: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:642: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:643: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:643: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:644: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:644: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:644: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:644: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:646: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:646: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:646: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:646: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:647: Warning: Undefined label: 'sec:distancefunctions' ./Tutorial/chapter_cluster.tex:650: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:650: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:652: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:652: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:654: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:654: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:655: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:655: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:655: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:655: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:655: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:655: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:655: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:655: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:655: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:655: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:655: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:655: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:660: Warning: Undefined citation: 'yeung2001' ./Tutorial/chapter_cluster.tex:668: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:668: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:668: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:668: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:668: Warning: Undefined citation: 'golub1971' ./Tutorial/chapter_cluster.tex:668: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:668: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:670: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:670: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:675: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:675: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:677: Warning: Undefined block in text 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'eq:NOP' ./Tutorial/chapter_learning.tex:261: Warning: Undefined label: 'eq:OP' ./Tutorial/chapter_learning.tex:261: Warning: Undefined label: 'eq:NOP' ./Tutorial/chapter_learning.tex:263: Warning: Undefined label: 'eq:OP' ./Tutorial/chapter_learning.tex:263: Warning: Undefined label: 'eq:NOP' ./Tutorial/chapter_learning.tex:273: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_learning.tex:273: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_learning.tex:273: Warning: Undefined label: 'sec:LogisticRegression' ./Tutorial/chapter_learning.tex:277: Warning: Undefined label: 'table:training' ./Tutorial/chapter_learning.tex:285: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_learning.tex:285: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_learning.tex:285: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_learning.tex:285: Warning: Undefined block in text mode: 'CODE' [] 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./Tutorial/chapter_graphics.tex:212: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:212: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:217: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:217: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:217: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:219: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:219: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:219: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:219: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:220: Warning: Undefined label: 'sec:seq_features' ./Tutorial/chapter_graphics.tex:221: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:221: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:223: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:223: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:268: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:268: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:271: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:271: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:277: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:277: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:279: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:279: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:325: Warning: Image in text ./Tutorial/chapter_graphics.tex:325: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:325: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:326: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:326: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:345: Warning: Undefined label: 'sec:gd_nice_example' ./Tutorial/chapter_graphics.tex:352: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:396: Warning: Image in text ./Tutorial/chapter_graphics.tex:396: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:409: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:409: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:430: Warning: Image in text ./Tutorial/chapter_graphics.tex:430: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:430: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:430: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:459: Warning: Image in text ./Tutorial/chapter_graphics.tex:459: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:459: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:459: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:473: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:473: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:482: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:482: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:482: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:482: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:485: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:485: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:488: Warning: Undefined label: 'sec:gd_top_down' ./Tutorial/chapter_graphics.tex:564: Warning: Image in text ./Tutorial/chapter_graphics.tex:564: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:564: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:566: Warning: Image in text ./Tutorial/chapter_graphics.tex:566: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:566: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:591: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:591: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:596: Warning: Undefined citation: 'proux2002' ./Tutorial/chapter_graphics.tex:599: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:599: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:600: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:600: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:601: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:601: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:605: Warning: Undefined label: 'sec:efetch' ./Tutorial/chapter_graphics.tex:608: Warning: Undefined label: 'sec:SeqRecord-slicing' ./Tutorial/chapter_graphics.tex:610: Warning: Undefined label: 'sec:SeqRecord-reverse-complement' ./Tutorial/chapter_graphics.tex:728: Warning: Image in text ./Tutorial/chapter_graphics.tex:728: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:728: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:752: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:752: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:759: Warning: Undefined citation: 'proux2002' ./Tutorial/chapter_graphics.tex:841: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:841: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:843: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:843: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:843: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:843: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:843: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:873: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:873: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:874: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:874: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:874: Warning: Undefined block in text mode: 'CODE' [] 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./Tutorial/chapter_cookbook.tex:443: Warning: Undefined label: 'sec:low-level-fasta-fastq' ./Tutorial/chapter_cookbook.tex:452: Warning: line too long ./Tutorial/chapter_cookbook.tex:454: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cookbook.tex:454: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cookbook.tex:456: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cookbook.tex:456: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cookbook.tex:457: Warning: Undefined label: 'sec:low-level-fasta-fastq' ./Tutorial/chapter_cookbook.tex:459: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cookbook.tex:459: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cookbook.tex:460: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cookbook.tex:460: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cookbook.tex:461: Warning: Undefined block in text 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(./_minted-Tutorial/EEEF4ABAD66CE989F67C9E27EEDE95CCBD02851C2FB632864165FCA4920 46548.pygtex) LaTeX Warning: Reference `sec:seqio-todict-functionkey' on page 53 undefined on input line 804. (./_minted-Tutorial/F6AFF5A59B0706E4973BC1656FBD2D669543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/C4099CB0613585FCCD5EA7D8198704CEBD02851C2FB632864165FCA4920 46548.pygtex [53]) Overfull \hbox (9.93459pt too wide) in paragraph at lines 848--853 \OT1/cmr/m/n/10 FTP site ([][]$\OT1/cmtt/m/n/10 ftp : / / ftp . uniprot . org / pub / databases / uniprot / current _ release / knowledgebase / complete / (./_minted-Tutorial/D52DA4EEEEE2BF0FBE89EE253714929DBD02851C2FB632864165FCA4920 46548.pygtex) LaTeX Warning: Reference `sec:SeqIO-sort' on page 54 undefined on input line 86 6. Overfull \hbox (4.48064pt too wide) in paragraph at lines 891--894 []\OT1/cmr/m/n/10 As of Gen-Bank re-lease $210$, there are $38$ files mak-ing u p the vi-ral se-quences, \OT1/cmtt/m/n/10 gbvrl1.seq\OT1/cmr/m/n/10 , ..., \OT1 /cmtt/m/n/10 gbvrl38.seq\OT1/cmr/m/n/10 , (./_minted-Tutorial/D41A88D88AB398F0C3B719A5C7D017C144BBF456F55B5DC060035246D76 9EADB.pygtex [54]) (./_minted-Tutorial/B4D970E8C81930851D8639D77EC3E41044BBF456F55B5DC060035246D76 9EADB.pygtex) (./_minted-Tutorial/7C4E0944FB13EC4E75DD6FC64900395ABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/C68CC3C9B3A505FB972706356D7F336FBD02851C2FB632864165FCA4920 46548.pygtex) LaTeX Warning: Reference `sec:seqio-index-getraw' on page 55 undefined on input line 948. 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Overfull \hbox (39.68698pt too wide) in paragraph at lines 442--447 [][]\OT1/cmtt/m/n/10 Bio.AlignIO.parse() []\OT1/cmr/m/n/10 and then save them u s-ing the [][]\OT1/cmtt/m/n/10 Bio.AlignIO.write() []\OT1/cmr/m/n/10 -- or just use the [][]\OT1/cmtt/m/n/10 Bio.AlignIO.convert() (./_minted-Tutorial/9776F24C4F96F850E549BEF997E4D18CBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/D8256B42DA32121F3B83617DD03F4024BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/DA108466F70572EEAE2D54AEA4C156A1BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/8FD10ACD641F4427B35E96F33B44479F669566ECC2CFEDC7429F829576A D0DC6.pygtex [71]) (./_minted-Tutorial/ACC9FF1F2F025F77815D96DC3115B7DFBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/7E530BB128C8AE6BCF7BCE91DD4AF189669566ECC2CFEDC7429F829576A D0DC6.pygtex) (./_minted-Tutorial/C17F8CD5F33DB6EB328532E02ADD1FE6BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/C02EB78C9555A4FEE4954D77162ACF99669566ECC2CFEDC7429F829576A D0DC6.pygtex [72]) (./_minted-Tutorial/74D8F602592BD3646F12A04951B2C44CBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/CB14E2060AF38515C129AB5808537F169543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/E78F5A80C222A5B2777910FED4F43F56669566ECC2CFEDC7429F829576A D0DC6.pygtex [73]) (./_minted-Tutorial/4D0AF4A40C449D27FF181EC477C63CE6BD02851C2FB632864165FCA4920 46548.pygtex) LaTeX Warning: Reference `sec:SeqRecord-format' on page 74 undefined on input l ine 633. 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(./_minted-Tutorial/FC96AF22EDD72BC4AC2EE47EBAA6B045BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/E941CFC951CAE25312D9A5CAC9B27425BD02851C2FB632864165FCA4920 46548.pygtex) Overfull \hbox (8.40039pt too wide) in paragraph at lines 1126--1130 []\OT1/cmr/m/n/10 By de-fault MUS-CLE will out-put the align-ment as a FASTA fi le (us-ing gapped se-quences). 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(./_minted-Tutorial/0FE96E337A3BA73D52896D46E2E233DCBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/434D41043E1630324FA64E8B55B90BD5BD02851C2FB632864165FCA4920 46548.pygtex) LaTeX Warning: Citation `altschul1990' on page 89 undefined on input line 1668. (./_minted-Tutorial/48453D528762FF183499778647AF218BBD02851C2FB632864165FCA4920 46548.pygtex [89]) (./_minted-Tutorial/BD86EE3248811DE8FD9DE8ED02397A39BD02851C2FB632864165FCA4920 46548.pygtex) Overfull \hbox (76.42714pt too wide) in paragraph at lines 1707--1711 []\OT1/cmr/m/n/10 By de-fault, [][]\OT1/cmtt/m/n/10 aligner.substitution_matrix []\OT1/cmr/m/n/10 is [][]\OT1/cmtt/m/n/10 None[]\OT1/cmr/m/n/10 . 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[][]\OT1/cmtt/m/n/10 HSPFragment Overfull \hbox (8.43927pt too wide) in paragraph at lines 105--107 [][][]\OT1/cmtt/m/n/10 parse []\OT1/cmr/m/n/10 is used for search out-put files with mul-ti-ple queries and re-turns a gen-er-a-tor that yields [][]\OT1/cmtt/ m/n/10 QueryResult (./_minted-Tutorial/0EF47CD31A1F702FF10BD5C95E6D18FCBD02851C2FB632864165FCA4920 46548.pygtex [132]) (./_minted-Tutorial/BCDD1F95C8585B3C70DE9C1280B51955BD02851C2FB632864165FCA4920 46548.pygtex [133]) (./_minted-Tutorial/7A12FEF8445FE62A62C651C8B4EC163FBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/362861C831165FEA5413E0240053CD89BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/40227DD719AAD22E8DC2923BF43CE327BD02851C2FB632864165FCA4920 46548.pygtex [134]) (./_minted-Tutorial/FD9C81C098491598DBFB6208173BB575BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/87D36F7AE3CBC4EDC6FCCFDE0173412CBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/CA24D00985B075C56E7C71A246E439FFBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/DE8A481953AA0F7BD7A99C0E281AD1A0BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/E7AA701BE1D007CE77D402E8CBFC777ABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/906546E8B6F7831A0E7C5FC93AA56A03BD02851C2FB632864165FCA4920 46548.pygtex) [135] (./_minted-Tutorial/0B914838010D3E86EC368E1702EB7253BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/E4688DCAB619DBEB784ED0D836D1E619BD02851C2FB632864165FCA4920 46548.pygtex [136]) (./_minted-Tutorial/DDECA9EB99D9FA38003A52C176593072BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/578CBF904F35965EECFEC1FA694F0752BD02851C2FB632864165FCA4920 46548.pygtex [137]) (./_minted-Tutorial/C0EB7D270F64704BA5AF848A21AACD64BD02851C2FB632864165FCA4920 46548.pygtex) [138] (./_minted-Tutorial/84848AABE250EF05E85067B2CD3275B8BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/A2EA3A12F7596A64ECEE374A9C53499ABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/E7A6E47CCC64E8FADF02D1CDC6246863BD02851C2FB632864165FCA4920 46548.pygtex) [139] (./_minted-Tutorial/A3385B945E43CC076FFA693B27681F05BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/DAAFD2AAF126ED8D7284764B561B5E2BBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/4B4824DE2ED3215F02082987EE573577BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/61406D58E5F7C40FD0A0280DCAA66B46BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/BF77764978D907008BC936FD2A5FCD95BD02851C2FB632864165FCA4920 46548.pygtex [140]) (./_minted-Tutorial/CE618F26D70602D511E57E53CD880444BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/DE23F71CD74CF7717D38AD01C1E1C787BD02851C2FB632864165FCA4920 46548.pygtex) LaTeX Warning: Reference `chapter:seq_annot' on page 141 undefined on input lin e 739. Overfull \hbox (27.24287pt too wide) in paragraph at lines 743--745 []\OT1/cmr/m/n/10 It should not sur-prise you now that the [][]\OT1/cmtt/m/n/10 HSP []\OT1/cmr/m/n/10 ob-ject has an [][]\OT1/cmtt/m/n/10 alignment []\OT1/cmr /m/n/10 prop-erty which is a [][]\OT1/cmtt/m/n/10 MultipleSeqAlignment (./_minted-Tutorial/338C616C7128C3DB7FFD516F5C2BDA12BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/1195D6861E887568107FA7F463EA9BBABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/31F43A46088F6D2E63B39857A3536909BD02851C2FB632864165FCA4920 46548.pygtex [141]) (./_minted-Tutorial/16771935702D6A2A9762A80A621013D8BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/046FE550C51B323D1E952A27E126FE19BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/A55E467518B2E0F936A232F0970B1037BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/6D69D310788199FBA6E8A5BF5CAB2021BD02851C2FB632864165FCA4920 46548.pygtex [142]) (./_minted-Tutorial/2C71B4AE1F4F9990447491C6C291ABC2BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/FD7ECFDD9D017B829A54C995FEE42EEDBD02851C2FB632864165FCA4920 46548.pygtex [143]) (./_minted-Tutorial/3AD8335853E972C8E62AAF79CF0A3D33BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/758BAC7574A59544686354199D20892CBD02851C2FB632864165FCA4920 46548.pygtex) [144] (./_minted-Tutorial/7A63CB5E786CCE052981F7DD10653DA9BD02851C2FB632864165FCA4920 46548.pygtex) Overfull \hbox (14.20721pt too wide) in paragraph at lines 1055--1059 \OT1/cmr/m/n/10 func-tion re-turns a gen-er-a-tor ob-ject that yields a [][]\OT 1/cmtt/m/n/10 QueryResult []\OT1/cmr/m/n/10 ob-ject in each it-er-a-tion. Like [][]\OT1/cmtt/m/n/10 Bio.SearchIO.read[]\OT1/cmr/m/n/10 , (./_minted-Tutorial/DC4E434DA5B851CF1E22BD3608A311F4BD02851C2FB632864165FCA4920 46548.pygtex) [145] LaTeX Warning: Reference `sec:SeqIO-index' on page 146 undefined on input line 1089. Overfull \hbox (20.13245pt too wide) in paragraph at lines 1087--1092 []\OT1/cmr/m/n/10 In this case, the ideal choice would be to in-dex the file us -ing [][]\OT1/cmtt/m/n/10 Bio.SearchIO.index []\OT1/cmr/m/n/10 or [][]\OT1/cmtt /m/n/10 Bio.SearchIO.index_db[]\OT1/cmr/m/n/10 . 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[203] [204] (./_minted-Tutorial/7A6D5A10ECC42BAFEE724455549BCB15BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/D5B0F5228C1E7FAD0C7AB40AEFF6B6A9BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/2810A7579DC6FE011D31E2F074471A74BD02851C2FB632864165FCA4920 46548.pygtex [205]) (./_minted-Tutorial/D9D0B8746EBF14CF4BE7DA480D9ECD5DBD02851C2FB632864165FCA4920 46548.pygtex) [206] LaTeX Warning: Citation `hamelryck2003b' on page 207 undefined on input line 13 83. LaTeX Warning: Citation `majumdar2005' on page 207 undefined on input line 1384 . ) [207] (./Tutorial/chapter_popgen.tex Chapter 12. (./_minted-Tutorial/E5F1866C3CBB485B8C06B62764ACFBB29543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/331BEE386F268F55DE217F54E27EAB6B9543DFECA235A69AE23006BA05B 4EB70.pygtex) [208] (./_minted-Tutorial/6CD64A1F591B16F512F7EB6B68E5B3FC9543DFECA235A69AE23006BA05B 4EB70.pygtex)) [209] (./Tutorial/chapter_phylo.tex Chapter 13. LaTeX Warning: Citation `talevich2012' on page 210 undefined on input line 9. (./_minted-Tutorial/8F8EFC1C83277AE6C5B5A259FAAC5671669566ECC2CFEDC7429F829576A D0DC6.pygtex) (./_minted-Tutorial/4914B4679D1C933D9AD76E95F18CE15844BBF456F55B5DC060035246D76 9EADB.pygtex) (./_minted-Tutorial/3D758844BE2A5D4414B741470EDE8C24BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/719B0C758B666CDEEB2B250C2143A4ADBD02851C2FB632864165FCA4920 46548.pygtex [210]) (./_minted-Tutorial/8698B66B622D8A91E7706D889D5F35DDBD02851C2FB632864165FCA4920 46548.pygtex) LaTeX Warning: Reference `fig:phylo-simple-draw' on page 211 undefined on input line 96. (./_minted-Tutorial/6621A01BB423374C8FC608E267D0EA7DBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/87517FEF82BFE1AB8D89A83F4DC5E8B9BD02851C2FB632864165FCA4920 46548.pygtex) Excluding 'htmlonly' comment. 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[216 <./images/phylo-draw-example.p ng>] Overfull \hbox (19.85507pt too wide) in paragraph at lines 479--486 \OT1/cmr/m/n/10 For ex-am-ple, in a tree with clade names Foo1, Foo2 and Foo3, [][]\OT1/cmtt/m/n/10 tree.find_clades({"name": "Foo1"}) [217] Overfull \hbox (13.48741pt too wide) in paragraph at lines 534--537 []\OT1/cmr/m/n/10 Find each clade con-tain-ing a match-ing el-e-ment. That is, find each el-e-ment as with [][]\OT1/cmtt/m/n/10 find_elements[]\OT1/cmr/m/n/10 , [218] (./_minted-Tutorial/6AAB725DBD2E5B7C5FD79A9A16536BF69543DFECA235A69AE23006BA05B 4EB70.pygtex) [219] Overfull \hbox (15.04868pt too wide) in paragraph at lines 703--707 []\OT1/cmr/m/n/10 Below is an ex-am-ple on how to use a python script to in-ter -act with PhyML ([][]$\OT1/cmtt/m/n/10 http : / / www . atgc-[]montpellier . 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LaTeX Warning: Citation `dehoon2004' on page 250 undefined on input line 6. LaTeX Warning: Citation `lecuyer1988' on page 250 undefined on input line 30. LaTeX Warning: Citation `kachitvichyanukul1988' on page 250 undefined on input line 30. [250] [251] [252] LaTeX Warning: Citation `snedecor1989' on page 253 undefined on input line 154. [253] (./_minted-Tutorial/C7B59059E3AE6CDE790EFE6EB0ED4140BD02851C2FB632864165FCA4920 46548.pygtex) LaTeX Warning: Reference `sec:distancefunctions' on page 254 undefined on input line 183. 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(./_minted-Tutorial/A2465D4E8908256A31684D5DDE7DA1119543DFECA235A69AE23006BA05B 4EB70.pygtex [298 <./images/three_track_simple.png>]) (./_minted-Tutorial/347EB36A3001532221DDF6C29AA04AFB9543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/F46F39DD7A8EC7B20CD42ACF6EFD18409543DFECA235A69AE23006BA05B 4EB70.pygtex [299]) (./_minted-Tutorial/2CF2D2FC7E96B3F426F22452724A4C289543DFECA235A69AE23006BA05B 4EB70.pygtex) Overfull \hbox (2.65141pt too wide) in paragraph at lines 873--879 []\OT1/cmr/m/n/10 There are sev-eral im-por-tant pieces to this code. First the [][]\OT1/cmtt/m/n/10 GenomeDiagram []\OT1/cmr/m/n/10 ob-ject has a [][]\OT1/cm tt/m/n/10 cross_track_links Excluding 'htmlonly' comment. LaTeX Warning: Reference `fig:three_track_cl' on page 300 undefined on input li ne 894. LaTeX Warning: Reference `sec:gd_cross_links' on page 300 undefined on input li ne 901. LaTeX Warning: Reference `sec:gd_cross_links' on page 300 undefined on input li ne 901. Excluding 'htmlonly' comment. 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How-ever, for large FASTQ files it woul d be faster the low-level [][]\OT1/cmtt/m/n/10 FastqGeneralIterator (./_minted-Tutorial/AB16E58608A2F17CC79E6929557208879543DFECA235A69AE23006BA05B 4EB70.pygtex [322]) Overfull \hbox (4.57849pt too wide) in paragraph at lines 475--477 \OT1/cmr/m/n/10 That should find $13819$ reads from \OT1/cmtt/m/n/10 SRR014849. fastq \OT1/cmr/m/n/10 and save them to a new FASTQ file, \OT1/cmtt/m/n/10 with[ ]primer.fastq\OT1/cmr/m/n/10 . LaTeX Warning: Reference `sec:SeqRecord-slicing' on page 323 undefined on input line 480. 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Overfull \hbox (4.00363pt too wide) in paragraph at lines 1117--1120 []\OT1/cmr/m/it/10 Tip: \OT1/cmr/m/n/10 Rather than us-ing [][]\OT1/cmtt/m/n/10 pylab.show() []\OT1/cmr/m/n/10 to show the plot in a win-dow, you can also use [][]\OT1/cmtt/m/n/10 pylab.savefig(...) (./_minted-Tutorial/798776F436EA559BACD9C305C09973919543DFECA235A69AE23006BA05B 4EB70.pygtex [332 <./images/hist_plot.png>]) (./_minted-Tutorial/CB78AD94DFE82ADBAF348C0EC1D261CD9543DFECA235A69AE23006BA05B 4EB70.pygtex) Excluding 'htmlonly' comment. LaTeX Warning: Reference `fig:seq-gc-plot' on page 333 undefined on input line 1177. LaTeX Warning: Reference `fig:nuc-dot-plot' on page 333 undefined on input line 1191. Excluding 'htmlonly' comment. 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(./_minted-Tutorial/FE4CF732C73126A3874795838D95FAB5BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/E7420F7622CCC097E8ADA484A405A3C6BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/07A24756D2FDD5E9B66DEB7412FC4D6E9543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/7F04F15A8B73F26152ED44DB3C48528F669566ECC2CFEDC7429F829576A D0DC6.pygtex) (./_minted-Tutorial/55430EAFE498E385842834603E0B8C869543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/47CA5358E0862EF3920CC2BF888DBDB89543DFECA235A69AE23006BA05B 4EB70.pygtex [58]) (./_minted-Tutorial/A50FCDC5880666D012F0A802072B4AC5BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/D27A33312B4E81447304AAB2BAF2F6DC9543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/11D55B86CA819707A4B89E7FDA2E6E83669566ECC2CFEDC7429F829576A D0DC6.pygtex) (./_minted-Tutorial/74E272C92C546FD61FA6D3DA5C178893BD02851C2FB632864165FCA4920 46548.pygtex) [59] (./_minted-Tutorial/415024C641C8DA7A09117B3DFE240C78BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/487DCC9F44A2539C9B32C0122AEF4065BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/5098CD053449CEC3C9C30C90A007A364BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/EEEF4ABAD66CE989F67C9E27EEDE95CCBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/F6AFF5A59B0706E4973BC1656FBD2D669543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/C4099CB0613585FCCD5EA7D8198704CEBD02851C2FB632864165FCA4920 46548.pygtex [60]) Overfull \hbox (9.93459pt too wide) in paragraph at lines 848--853 \OT1/cmr/m/n/10 FTP site ([][]$\OT1/cmtt/m/n/10 ftp : / / ftp . uniprot . org / pub / databases / uniprot / current _ release / knowledgebase / complete / (./_minted-Tutorial/D52DA4EEEEE2BF0FBE89EE253714929DBD02851C2FB632864165FCA4920 46548.pygtex) Overfull \hbox (4.48064pt too wide) in paragraph at lines 891--894 []\OT1/cmr/m/n/10 As of Gen-Bank re-lease $210$, there are $38$ files mak-ing u p the vi-ral se-quences, \OT1/cmtt/m/n/10 gbvrl1.seq\OT1/cmr/m/n/10 , ..., \OT1 /cmtt/m/n/10 gbvrl38.seq\OT1/cmr/m/n/10 , (./_minted-Tutorial/D41A88D88AB398F0C3B719A5C7D017C144BBF456F55B5DC060035246D76 9EADB.pygtex [61]) (./_minted-Tutorial/B4D970E8C81930851D8639D77EC3E41044BBF456F55B5DC060035246D76 9EADB.pygtex) (./_minted-Tutorial/7C4E0944FB13EC4E75DD6FC64900395ABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/C68CC3C9B3A505FB972706356D7F336FBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/61AD507889ED86CFCEFC880BAF2A2777BD02851C2FB632864165FCA4920 46548.pygtex) [62] (./_minted-Tutorial/DC5117490176932EFB8A7F0E0DA450F6BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/657D43328835FC01F9133F8BC964475D44BBF456F55B5DC060035246D76 9EADB.pygtex) (./_minted-Tutorial/82CBCD9B9F23373D67D9D0D7D2CA363FBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/36F8D0FD2B4ADF57AC4203A0C80C6471BD02851C2FB632864165FCA4920 46548.pygtex) [63] (./_minted-Tutorial/9CEF7BF9B2634ACBC930BA5EB6DD73429543DFECA235A69AE23006BA05B 4EB70.pygtex [64]) (./_minted-Tutorial/AC02E3950380715FC960C04EF317D69F9543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/1C65F538FA7F22F7BB5183FC1553A0C6669566ECC2CFEDC7429F829576A D0DC6.pygtex) (./_minted-Tutorial/935F773BF84C3BF326F4BA093FEC79D4669566ECC2CFEDC7429F829576A D0DC6.pygtex [65]) (./_minted-Tutorial/C194E2231D844AE7D0223173D2A899919543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/10CB116B7358444BA68AFA046B5B84D59543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/29D12D495374A5A8C37AEB7083851DEABD02851C2FB632864165FCA4920 46548.pygtex) [66] (./_minted-Tutorial/920133226A22EEB682D854077D7FB78FBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/4EBA0A67E686E73FAA1A0EB27C260028BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/C06224D76A18C126B27DFE55444AA3FDBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/E381FF526AC999B71717F178C997F6B2BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/5F05AD4A17978E60C531612707D8F26ABD02851C2FB632864165FCA4920 46548.pygtex) [67] (./_minted-Tutorial/D19467E367634413AE9EE17A62E5D9EA9543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/EDF3737891061C33EDE0FBFD16CCC63B9543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/D1EAD55A1F8AD3DEAB82383A4F020F539543DFECA235A69AE23006BA05B 4EB70.pygtex) Overfull \hbox (19.46596pt too wide) in paragraph at lines 1349--1351 \OT1/cmr/m/n/10 Making a sin-gle call to [][]\OT1/cmtt/m/n/10 SeqIO.write(...) []\OT1/cmr/m/n/10 is also much quicker than mul-ti-ple calls to the [][]\OT1/cm tt/m/n/10 SeqRecord.format(...) [68] (./_minted-Tutorial/2F337ECD1F936D416FF9C5C6F41A02D7BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/3337CD054623BAC21B6021E996EE0DFD9543DFECA235A69AE23006BA05B 4EB70.pygtex) Overfull \hbox (21.32593pt too wide) in paragraph at lines 1393--1397 []\OT1/cmr/m/n/10 Likewise, when pars-ing FASTQ files, in-ter-nally [][]\OT1/cm tt/m/n/10 Bio.SeqIO.parse() []\OT1/cmr/m/n/10 calls the low-level [][]\OT1/cmtt /m/n/10 FastqGeneralIterator (./_minted-Tutorial/D3AF6542680CA390CDA8C8DF87C693D3BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/D749A84299CF58E876E9A899069830DB9543DFECA235A69AE23006BA05B 4EB70.pygtex)) [69] (./Tutorial/chapter_align.tex Chapter 6. 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There-fore the [][]\OT1/cmtt/m/n/10 Bio.AlignIO.write() Overfull \hbox (39.68698pt too wide) in paragraph at lines 442--447 [][]\OT1/cmtt/m/n/10 Bio.AlignIO.parse() []\OT1/cmr/m/n/10 and then save them u s-ing the [][]\OT1/cmtt/m/n/10 Bio.AlignIO.write() []\OT1/cmr/m/n/10 -- or just use the [][]\OT1/cmtt/m/n/10 Bio.AlignIO.convert() (./_minted-Tutorial/9776F24C4F96F850E549BEF997E4D18CBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/D8256B42DA32121F3B83617DD03F4024BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/DA108466F70572EEAE2D54AEA4C156A1BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/8FD10ACD641F4427B35E96F33B44479F669566ECC2CFEDC7429F829576A D0DC6.pygtex [78]) (./_minted-Tutorial/ACC9FF1F2F025F77815D96DC3115B7DFBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/7E530BB128C8AE6BCF7BCE91DD4AF189669566ECC2CFEDC7429F829576A D0DC6.pygtex) (./_minted-Tutorial/C17F8CD5F33DB6EB328532E02ADD1FE6BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/C02EB78C9555A4FEE4954D77162ACF99669566ECC2CFEDC7429F829576A D0DC6.pygtex [79]) (./_minted-Tutorial/74D8F602592BD3646F12A04951B2C44CBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/CB14E2060AF38515C129AB5808537F169543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/E78F5A80C222A5B2777910FED4F43F56669566ECC2CFEDC7429F829576A D0DC6.pygtex [80]) (./_minted-Tutorial/4D0AF4A40C449D27FF181EC477C63CE6BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/2590B11C695B984E246A0A91734F786CBD02851C2FB632864165FCA4920 46548.pygtex) [81] (./_minted-Tutorial/508710FC1759BFFED598544DEC99BC0DBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/886094CE2C1CAC714387144709D5A47ABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/6DC12DBE1D4FD44E7395C66258B5EAC9BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/CAC16111FAD8C2E739F6D7C04A986BF0BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/A4149E9BEF55B5853014A59A3CBBFBE5BD02851C2FB632864165FCA4920 46548.pygtex [82]) (./_minted-Tutorial/8327145320A3BCB412D977F6683B71A2BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/1E096B06E33D157FFE18E045579F838CBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/C7331D522D75BB7830A1364BC3B71692BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/C45FE25766D82D1C4A245CBB9A77DB00BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/C0937EED558D842CEA8E3DB9514C6E59BD02851C2FB632864165FCA4920 46548.pygtex [83]) (./_minted-Tutorial/8EC03E9C8500D05C6439AC85123A9253BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/AE857C14E4731CC6F6EBA53051460097BD02851C2FB632864165FCA4920 46548.pygtex) [84] (./_minted-Tutorial/F88E003F9A4A95A929AA549FA710239CBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/523928538FA511A925EC995B1803BD16BD02851C2FB632864165FCA4920 46548.pygtex) [85] (./_minted-Tutorial/CD47D1913C82182C164BD47DA4715282BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/E7AA94166BAA5F4CBB44EF4336F3E893BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/B49F47BF4F2EB4093BDE51E631C63064BD02851C2FB632864165FCA4920 46548.pygtex) [86] (./_minted-Tutorial/230B4706E315BD2F2A44F2EBCB37A442BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/C11A66992B6C74B61F5A0BE7757AF3BCBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/EAE190D91CC491562308EE568F986368BD02851C2FB632864165FCA4920 46548.pygtex [87]) (./_minted-Tutorial/6256254C5A7DFD21185291C77133BFDFBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/FC96AF22EDD72BC4AC2EE47EBAA6B045BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/E941CFC951CAE25312D9A5CAC9B27425BD02851C2FB632864165FCA4920 46548.pygtex) Overfull \hbox (8.40039pt too wide) in paragraph at lines 1126--1130 []\OT1/cmr/m/n/10 By de-fault MUS-CLE will out-put the align-ment as a FASTA fi le (us-ing gapped se-quences). The [][]\OT1/cmtt/m/n/10 Bio.AlignIO (./_minted-Tutorial/EA6A02999040945446E72AC6A00E56D8BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/106ED62B0CFC10E7D5BC6CFC9CE003BDBD02851C2FB632864165FCA4920 46548.pygtex [88]) (./_minted-Tutorial/4D75AC9EDD74C466535F1EC4944833F7BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/14F1F3BAF80772F5999B0773C02432E7BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/A261B9E9E2D4EB3C1DF5131C6F739998BD02851C2FB632864165FCA4920 46548.pygtex [89]) (./_minted-Tutorial/E2B86D066966C8BA13EEEF614D3E7454BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/E87BDA1F176DA567A757DBA0231BC5BABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/6BF1884F2D94AF8D067A2A20A9A41E2CBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/F551ABCEBB0043257A807C76B9D81B5CBD02851C2FB632864165FCA4920 46548.pygtex [90]) (./_minted-Tutorial/37B6E52C66902FA821D4B0E80172CE74BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/0BA045AD7DFE0F0F3DD972F3E2C40BA1BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/482576AF06E80D82290535FF7857A240BD02851C2FB632864165FCA4920 46548.pygtex) [91] (./_minted-Tutorial/5D3CCD84BC2EC46BF5FD98E7A3FC7266669566ECC2CFEDC7429F829576A D0DC6.pygtex) (./_minted-Tutorial/D9565472E525C9F2B734FC37A70D258E669566ECC2CFEDC7429F829576A D0DC6.pygtex) (./_minted-Tutorial/39152F199CEBB3375366F2E947824519BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/256B036DA9C3EDBC9EE41E2E52FDE1ADBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/DC6CF8B5CDDD2C32E2052C03AF385674BD02851C2FB632864165FCA4920 46548.pygtex [92]) (./_minted-Tutorial/CEE035FF629B69F7D6B6351C1DCE2493BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/DF151703751D72BD556402B910190A87BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/004029547AAB1172AF2684D2CA89EA88BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/554024580088332FAF0EA9296BACE82EBD02851C2FB632864165FCA4920 46548.pygtex) [93] (./_minted-Tutorial/419ECEB266819C8DCC38EB3E1DC3E361BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/143B9D317680E51D3A6E5641208720CABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/6CCC707502EDD92E9C355854215BF885BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/0A4B1939051DE630E53C7151447C8DD4BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/2B6197C314840AD3EC15C56F366120C5BD02851C2FB632864165FCA4920 46548.pygtex [94]) (./_minted-Tutorial/E5E00F47BD7A0C8BC5F8818526283868BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/52B42D5819C8EC5D57A21AE60D28F6CEBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/5F566D907B2F88621EC4175F1F17AE04BD02851C2FB632864165FCA4920 46548.pygtex) [95] (./_minted-Tutorial/0FE96E337A3BA73D52896D46E2E233DCBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/434D41043E1630324FA64E8B55B90BD5BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/48453D528762FF183499778647AF218BBD02851C2FB632864165FCA4920 46548.pygtex [96]) (./_minted-Tutorial/BD86EE3248811DE8FD9DE8ED02397A39BD02851C2FB632864165FCA4920 46548.pygtex) Overfull \hbox (76.42714pt too wide) in paragraph at lines 1707--1711 []\OT1/cmr/m/n/10 By de-fault, [][]\OT1/cmtt/m/n/10 aligner.substitution_matrix []\OT1/cmr/m/n/10 is [][]\OT1/cmtt/m/n/10 None[]\OT1/cmr/m/n/10 . The at-tribu tes [][]\OT1/cmtt/m/n/10 aligner.match_score []\OT1/cmr/m/n/10 and [][]\OT1/cmt t/m/n/10 aligner.mismatch_score Overfull \hbox (47.73264pt too wide) in paragraph at lines 1707--1711 []\OT1/cmr/m/n/10 are ig-nored if [][]\OT1/cmtt/m/n/10 aligner.substitution_mat rix []\OT1/cmr/m/n/10 is not [][]\OT1/cmtt/m/n/10 None[]\OT1/cmr/m/n/10 . Set-t ing [][]\OT1/cmtt/m/n/10 aligner.match_score []\OT1/cmr/m/n/10 or [][]\OT1/cmtt /m/n/10 aligner.mismatch_score LaTeX Warning: `h' float specifier changed to `ht'. 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Overfull \hbox (5.71313pt too wide) in paragraph at lines 45--46 []\OT1/cmr/m/n/10 NCBI guide-lines, from [][]$\OT1/cmtt/m/n/10 https : / / blas t . ncbi . nlm . nih . gov / Blast . cgi ? 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Excluding 'htmlonly' comment. LaTeX Warning: Float too large for page by 32.27644pt on input line 481. ) [135] [136 <./images/BlastRecord.png>] [137 <./images/PSIBlastRecord.png>] (./Tutorial/chapter_searchio.tex Chapter 8. (./_minted-Tutorial/6D0EADF658E662CBA394834EFAC7346E669566ECC2CFEDC7429F829576A D0DC6.pygtex) [138] Overfull \hbox (2.9019pt too wide) in paragraph at lines 85--93 [][][]\OT1/cmtt/m/n/10 HSPFragment[]\OT1/cmr/m/n/10 , to rep-re-sent a sin-gle con-tigu-ous align-ment be-tween query and hit se-quences. [][]\OT1/cmtt/m/n/10 HSPFragment Overfull \hbox (8.43927pt too wide) in paragraph at lines 105--107 [][][]\OT1/cmtt/m/n/10 parse []\OT1/cmr/m/n/10 is used for search out-put files with mul-ti-ple queries and re-turns a gen-er-a-tor that yields [][]\OT1/cmtt/ m/n/10 QueryResult (./_minted-Tutorial/0EF47CD31A1F702FF10BD5C95E6D18FCBD02851C2FB632864165FCA4920 46548.pygtex [139]) (./_minted-Tutorial/BCDD1F95C8585B3C70DE9C1280B51955BD02851C2FB632864165FCA4920 46548.pygtex [140]) (./_minted-Tutorial/7A12FEF8445FE62A62C651C8B4EC163FBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/362861C831165FEA5413E0240053CD89BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/40227DD719AAD22E8DC2923BF43CE327BD02851C2FB632864165FCA4920 46548.pygtex [141]) (./_minted-Tutorial/FD9C81C098491598DBFB6208173BB575BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/87D36F7AE3CBC4EDC6FCCFDE0173412CBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/CA24D00985B075C56E7C71A246E439FFBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/DE8A481953AA0F7BD7A99C0E281AD1A0BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/E7AA701BE1D007CE77D402E8CBFC777ABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/906546E8B6F7831A0E7C5FC93AA56A03BD02851C2FB632864165FCA4920 46548.pygtex) [142] (./_minted-Tutorial/0B914838010D3E86EC368E1702EB7253BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/E4688DCAB619DBEB784ED0D836D1E619BD02851C2FB632864165FCA4920 46548.pygtex [143]) (./_minted-Tutorial/DDECA9EB99D9FA38003A52C176593072BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/578CBF904F35965EECFEC1FA694F0752BD02851C2FB632864165FCA4920 46548.pygtex [144]) (./_minted-Tutorial/C0EB7D270F64704BA5AF848A21AACD64BD02851C2FB632864165FCA4920 46548.pygtex) [145] (./_minted-Tutorial/84848AABE250EF05E85067B2CD3275B8BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/A2EA3A12F7596A64ECEE374A9C53499ABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/E7A6E47CCC64E8FADF02D1CDC6246863BD02851C2FB632864165FCA4920 46548.pygtex) [146] (./_minted-Tutorial/A3385B945E43CC076FFA693B27681F05BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/DAAFD2AAF126ED8D7284764B561B5E2BBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/4B4824DE2ED3215F02082987EE573577BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/61406D58E5F7C40FD0A0280DCAA66B46BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/BF77764978D907008BC936FD2A5FCD95BD02851C2FB632864165FCA4920 46548.pygtex [147]) (./_minted-Tutorial/CE618F26D70602D511E57E53CD880444BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/DE23F71CD74CF7717D38AD01C1E1C787BD02851C2FB632864165FCA4920 46548.pygtex) Overfull \hbox (27.24287pt too wide) in paragraph at lines 743--745 []\OT1/cmr/m/n/10 It should not sur-prise you now that the [][]\OT1/cmtt/m/n/10 HSP []\OT1/cmr/m/n/10 ob-ject has an [][]\OT1/cmtt/m/n/10 alignment []\OT1/cmr /m/n/10 prop-erty which is a [][]\OT1/cmtt/m/n/10 MultipleSeqAlignment (./_minted-Tutorial/338C616C7128C3DB7FFD516F5C2BDA12BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/1195D6861E887568107FA7F463EA9BBABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/31F43A46088F6D2E63B39857A3536909BD02851C2FB632864165FCA4920 46548.pygtex [148]) (./_minted-Tutorial/16771935702D6A2A9762A80A621013D8BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/046FE550C51B323D1E952A27E126FE19BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/A55E467518B2E0F936A232F0970B1037BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/6D69D310788199FBA6E8A5BF5CAB2021BD02851C2FB632864165FCA4920 46548.pygtex [149]) (./_minted-Tutorial/2C71B4AE1F4F9990447491C6C291ABC2BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/FD7ECFDD9D017B829A54C995FEE42EEDBD02851C2FB632864165FCA4920 46548.pygtex [150]) (./_minted-Tutorial/3AD8335853E972C8E62AAF79CF0A3D33BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/758BAC7574A59544686354199D20892CBD02851C2FB632864165FCA4920 46548.pygtex) [151] (./_minted-Tutorial/7A63CB5E786CCE052981F7DD10653DA9BD02851C2FB632864165FCA4920 46548.pygtex) Overfull \hbox (14.20721pt too wide) in paragraph at lines 1055--1059 \OT1/cmr/m/n/10 func-tion re-turns a gen-er-a-tor ob-ject that yields a [][]\OT 1/cmtt/m/n/10 QueryResult []\OT1/cmr/m/n/10 ob-ject in each it-er-a-tion. Like [][]\OT1/cmtt/m/n/10 Bio.SearchIO.read[]\OT1/cmr/m/n/10 , (./_minted-Tutorial/DC4E434DA5B851CF1E22BD3608A311F4BD02851C2FB632864165FCA4920 46548.pygtex) [152] Overfull \hbox (20.13245pt too wide) in paragraph at lines 1087--1092 []\OT1/cmr/m/n/10 In this case, the ideal choice would be to in-dex the file us -ing [][]\OT1/cmtt/m/n/10 Bio.SearchIO.index []\OT1/cmr/m/n/10 or [][]\OT1/cmtt /m/n/10 Bio.SearchIO.index_db[]\OT1/cmr/m/n/10 . (./_minted-Tutorial/0AB25750C7D89E832295045C60D6B8C4BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/DFACFE04880AE0CA2E8E32ABDC9E9868BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/51F256FC56FFFAE1F1E84A4EFC5BAE55BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/5BCEFFE3DBB7A0AE4FD5D950731D72DEBD02851C2FB632864165FCA4920 46548.pygtex) [153] Overfull \hbox (11.82602pt too wide) in paragraph at lines 1167--1170 []\OT1/cmr/m/n/10 Finally, [][]\OT1/cmtt/m/n/10 Bio.SearchIO []\OT1/cmr/m/n/10 also pro-vides a [][]\OT1/cmtt/m/n/10 convert []\OT1/cmr/m/n/10 func-tion, whic h is sim-ply a short-cut for [][]\OT1/cmtt/m/n/10 Bio.SearchIO.parse (./_minted-Tutorial/BDE985FA3ADA6B0D37013C3D5F37C176BD02851C2FB632864165FCA4920 46548.pygtex)) [154] (./Tutorial/chapter_entrez.tex Chapter 9. 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(./_minted-Tutorial/6C5156DAD460519324A5B7657B301B5DBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/1836031BC83AA94C8906762F613E6CBABD02851C2FB632864165FCA4920 46548.pygtex) [218] (./_minted-Tutorial/D0A75FB8C1C791E4AA80420B93F216A8BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/FEC6C2CB5FA0AFCFE00D995BD3642FF2BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/2B435DC3041611A5D6A663B437ADB1ADBD02851C2FB632864165FCA4920 46548.pygtex) Overfull \hbox (25.13162pt too wide) in paragraph at lines 182--185 []\OT1/cmr/m/n/10 Let's tar-get the most re-cent com-mon an-ces-tor (MRCA) of t he nodes named ``E'' and ``F''. The [][]\OT1/cmtt/m/n/10 common_ancestor (./_minted-Tutorial/29624A9666C9430AABADF395148BBF27BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/D0F05D42BA0A9BC594EEDB16319A972DBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/87517FEF82BFE1AB8D89A83F4DC5E8B9BD02851C2FB632864165FCA4920 46548.pygtex [219 <./images/phylo-simple-draw.png>]) Excluding 'htmlonly' comment. 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[223 <./images/phylo-draw-example.p ng>] Overfull \hbox (19.85507pt too wide) in paragraph at lines 479--486 \OT1/cmr/m/n/10 For ex-am-ple, in a tree with clade names Foo1, Foo2 and Foo3, [][]\OT1/cmtt/m/n/10 tree.find_clades({"name": "Foo1"}) [224] Overfull \hbox (13.48741pt too wide) in paragraph at lines 534--537 []\OT1/cmr/m/n/10 Find each clade con-tain-ing a match-ing el-e-ment. That is, find each el-e-ment as with [][]\OT1/cmtt/m/n/10 find_elements[]\OT1/cmr/m/n/10 , [225] (./_minted-Tutorial/6AAB725DBD2E5B7C5FD79A9A16536BF69543DFECA235A69AE23006BA05B 4EB70.pygtex) [226] Overfull \hbox (15.04868pt too wide) in paragraph at lines 703--707 []\OT1/cmr/m/n/10 Below is an ex-am-ple on how to use a python script to in-ter -act with PhyML ([][]$\OT1/cmtt/m/n/10 http : / / www . atgc-[]montpellier . 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[257] [258] [259] [260] (./_minted-Tutorial/C7B59059E3AE6CDE790EFE6EB0ED4140BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/C2B72A7408C7DF74DFCEBE0485997287BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/425EDAA643B5AA9589F3EEE601735827BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/50B5971EFCF22FCC4E1302DB2D0A25009543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/293084E63EA5C0E01F325A4DD59469C0BD02851C2FB632864165FCA4920 46548.pygtex [261]) Overfull \hbox (78.60634pt too wide) in paragraph at lines 245--246 \OT1/cmr/m/n/10 men-sions of these ar-rays are $[]$ if [][]\OT1/cmtt/m/n/10 tra nspose []\OT1/cmr/m/n/10 is [][]\OT1/cmtt/m/n/10 0[]\OT1/cmr/m/n/10 , or $[]$ (./_minted-Tutorial/05DC01C08B8EDF71F86E3C3A9C28EB34BD02851C2FB632864165FCA4920 46548.pygtex) [262] [263] (./_minted-Tutorial/A4A28B5A443208DEAB3B4D76AA3B762EBD02851C2FB632864165FCA4920 46548.pygtex) [264] (./_minted-Tutorial/C286E2777B917B774560CBDC7CF92626BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/D04E097D8E8C4C039FEC20FA103CED189543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/36EF8931044EF448BC70F722AFADB43D9543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/805B33438269C932AC54C0DAB5A3D7AC9543DFECA235A69AE23006BA05B 4EB70.pygtex) [265] [266] Overfull \hbox (16.73593pt too wide) in paragraph at lines 423--424 [][]\OT1/cmtt/m/n/10 distance []\OT1/cmr/m/n/10 is the dis-tance be-tween them. The items be-ing clus-tered are num-bered from 0 to $[]$, (./_minted-Tutorial/015798D317E9D8732518AFD186C997CABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/A27E6BF4EEB8E8B1C239049267861739BD02851C2FB632864165FCA4920 46548.pygtex) [267] (./_minted-Tutorial/81E4060E427D22B8F0C63B69EEC10A2ABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/B8D2A546EC4941692F427A363193FBDEBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/A54EF6455421EFDFA1F63EB361CD74F6BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/8975A4CCBC4C6138C302117E04F203ADBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/636486BB1CF700F6391685224211BE22BD02851C2FB632864165FCA4920 46548.pygtex) [268] (./_minted-Tutorial/6EFE1AC811BF16FF597EBE3E25BD2F72BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/F8E41E59FD44DADEB3740B0C0ED17D41BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/1B924FC8FA13A8B73C1C9E6EF8895055BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/77B32E49165B4345FFCA9FACF597BEEBBD02851C2FB632864165FCA4920 46548.pygtex [269]) (./_minted-Tutorial/D04E097D8E8C4C039FEC20FA103CED189543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/36EF8931044EF448BC70F722AFADB43D9543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/805B33438269C932AC54C0DAB5A3D7AC9543DFECA235A69AE23006BA05B 4EB70.pygtex) [270] (./_minted-Tutorial/E542C07D0131DF56A89D92F80416C175BD02851C2FB632864165FCA4920 46548.pygtex) [271] Overfull \hbox (106.77225pt too wide) in paragraph at lines 654--656 \OT1/cmr/m/n/10 An ar-ray with di-men-sions $[]$ if rows are be-ing clus-tered, or $[]$ (./_minted-Tutorial/7476A2D5F9D3A46EE00108837901FAEABD02851C2FB632864165FCA4920 46548.pygtex) [272] (./_minted-Tutorial/0420D397BA03971C0079F52E55FEABABBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/8D3928D79091BFFA7AFB6D6F35A52C7CBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/4D59CC328F454A26A4BE9F91740D961CBD02851C2FB632864165FCA4920 46548.pygtex) Overfull \hbox (25.39864pt too wide) in paragraph at lines 739--750 [] [273] [274] (./_minted-Tutorial/EFB8602799AD543446B386107A8147F7BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/43B30B527C3A2D8148F25CA143719CAFBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/C77F1ABB31C6A53C1626E0E0B34BB0FCBD02851C2FB632864165FCA4920 46548.pygtex) [275] (./_minted-Tutorial/1F3E2EFB988F2639C701A920B547241DBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/3CAD921471DA4CA4441D02558CD1F2E0BD02851C2FB632864165FCA4920 46548.pygtex [276]) (./_minted-Tutorial/1A863BDE3A5754AA2C865F2A82DA8504BD02851C2FB632864165FCA4920 46548.pygtex) [277] Overfull \hbox (106.77225pt too wide) in paragraph at lines 929--931 \OT1/cmr/m/n/10 An ar-ray with di-men-sions $[]$ if rows are be-ing clus-tered, or $[]$ (./_minted-Tutorial/A39469F362670EDC6C7E8FD9FDF412C4BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/12B5F20EFF78F0E8FE505D45A9786D70BD02851C2FB632864165FCA4920 46548.pygtex [278]) (./_minted-Tutorial/E6C8D570402CFDDB43A6AE5A198BCF58BD02851C2FB632864165FCA4920 46548.pygtex)) Overfull \hbox (26.21434pt too wide) in paragraph at lines 986--116 []\OT1/cmr/m/n/10 This will cre-ate the files [][]\OT1/cmtt/m/n/10 cyano_result _K_G2_A2.cdt[]\OT1/cmr/m/n/10 , [][]\OT1/cmtt/m/n/10 cyano_result_K_G2.kgg[]\OT 1/cmr/m/n/10 , and [][]\OT1/cmtt/m/n/10 cyano_result_K_A2.kag[]\OT1/cmr/m/n/10 . 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[301 <./images/plasmid_linear_nice.png (PNG copy) >] [302 <./images/plasmid_circular_nice.png>] (./_minted-Tutorial/7CAF22FEDE98A6B9B7990010CA8709DC9543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/FA676816242752C9FE9F5EB12D4DAA899543DFECA235A69AE23006BA05B 4EB70.pygtex [303]) (./_minted-Tutorial/7926619D7609A591C404A01B2A99177A9543DFECA235A69AE23006BA05B 4EB70.pygtex [304]) Excluding 'htmlonly' comment. [305 <./images/three_track_si mple.png>] (./_minted-Tutorial/A2465D4E8908256A31684D5DDE7DA1119543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/347EB36A3001532221DDF6C29AA04AFB9543DFECA235A69AE23006BA05B 4EB70.pygtex [306]) (./_minted-Tutorial/F46F39DD7A8EC7B20CD42ACF6EFD18409543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/2CF2D2FC7E96B3F426F22452724A4C289543DFECA235A69AE23006BA05B 4EB70.pygtex) Overfull \hbox (2.65141pt too wide) in paragraph at lines 873--879 []\OT1/cmr/m/n/10 There are sev-eral im-por-tant pieces to this code. 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How-ever, for large FASTQ files it woul d be faster the low-level [][]\OT1/cmtt/m/n/10 FastqGeneralIterator (./_minted-Tutorial/AB16E58608A2F17CC79E6929557208879543DFECA235A69AE23006BA05B 4EB70.pygtex [329]) Overfull \hbox (4.57849pt too wide) in paragraph at lines 475--477 \OT1/cmr/m/n/10 That should find $13819$ reads from \OT1/cmtt/m/n/10 SRR014849. fastq \OT1/cmr/m/n/10 and save them to a new FASTQ file, \OT1/cmtt/m/n/10 with[ ]primer.fastq\OT1/cmr/m/n/10 . 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Overfull \hbox (4.00363pt too wide) in paragraph at lines 1117--1120 []\OT1/cmr/m/it/10 Tip: \OT1/cmr/m/n/10 Rather than us-ing [][]\OT1/cmtt/m/n/10 pylab.show() []\OT1/cmr/m/n/10 to show the plot in a win-dow, you can also use [][]\OT1/cmtt/m/n/10 pylab.savefig(...) (./_minted-Tutorial/798776F436EA559BACD9C305C09973919543DFECA235A69AE23006BA05B 4EB70.pygtex [339 <./images/hist_plot.png>]) (./_minted-Tutorial/CB78AD94DFE82ADBAF348C0EC1D261CD9543DFECA235A69AE23006BA05B 4EB70.pygtex) Excluding 'htmlonly' comment. Excluding 'htmlonly' comment. [340 <./images/gc_plot.png>] (./_minted-Tutorial/6E0DA723E11A7B9CA8E2353A984B5DF79543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/80A47C8780CE3021D53829563E8166569543DFECA235A69AE23006BA05B 4EB70.pygtex [341 <./images/dot_plot.png>]) (./_minted-Tutorial/9574E55C4A182E2A0201DF18689F52F49543DFECA235A69AE23006BA05B 4EB70.pygtex) Excluding 'htmlonly' comment. (./_minted-Tutorial/24C65C38DAD936B7AA15C7ED02EA36B39543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/6655B5CD97C33186A22E6897501301FF9543DFECA235A69AE23006BA05B 4EB70.pygtex [342]) (./_minted-Tutorial/7727E7020AA1BDC4C2A426B7590C20AD9543DFECA235A69AE23006BA05B 4EB70.pygtex) Excluding 'htmlonly' comment. [343 <./images/dot_plot_scatter.png >] (./_minted-Tutorial/601CCA4B782F1DA528DB81B0248031959543DFECA235A69AE23006BA05B 4EB70.pygtex) Excluding 'htmlonly' comment. 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For ex-am-ple, [][]\OT1/cmtt/m/n/10 expec ted_frequencies[^^MD^^M, ^^ME^^M] (./_minted-Tutorial/40ECF2E139F38209730D3B02B624EF74BD02851C2FB632864165FCA4920 46548.pygtex [349]) (./_minted-Tutorial/8965C8E87A0A43ECCE216C12F7DE7A4FBD02851C2FB632864165FCA4920 46548.pygtex)) [350] (./Tutorial/chapter_testing.tex Chapter 21. 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(./_minted-Tutorial/415024C641C8DA7A09117B3DFE240C78BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/487DCC9F44A2539C9B32C0122AEF4065BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/5098CD053449CEC3C9C30C90A007A364BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/EEEF4ABAD66CE989F67C9E27EEDE95CCBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/F6AFF5A59B0706E4973BC1656FBD2D669543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/C4099CB0613585FCCD5EA7D8198704CEBD02851C2FB632864165FCA4920 46548.pygtex [60]) Overfull \hbox (9.93459pt too wide) in paragraph at lines 848--853 \OT1/cmr/m/n/10 FTP site ([][]$\OT1/cmtt/m/n/10 ftp : / / ftp . uniprot . org / pub / databases / uniprot / current _ release / knowledgebase / complete / (./_minted-Tutorial/D52DA4EEEEE2BF0FBE89EE253714929DBD02851C2FB632864165FCA4920 46548.pygtex) Overfull \hbox (4.48064pt too wide) in paragraph at lines 891--894 []\OT1/cmr/m/n/10 As of Gen-Bank re-lease $210$, there are $38$ files mak-ing u p the vi-ral se-quences, \OT1/cmtt/m/n/10 gbvrl1.seq\OT1/cmr/m/n/10 , ..., \OT1 /cmtt/m/n/10 gbvrl38.seq\OT1/cmr/m/n/10 , (./_minted-Tutorial/D41A88D88AB398F0C3B719A5C7D017C144BBF456F55B5DC060035246D76 9EADB.pygtex [61]) (./_minted-Tutorial/B4D970E8C81930851D8639D77EC3E41044BBF456F55B5DC060035246D76 9EADB.pygtex) (./_minted-Tutorial/7C4E0944FB13EC4E75DD6FC64900395ABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/C68CC3C9B3A505FB972706356D7F336FBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/61AD507889ED86CFCEFC880BAF2A2777BD02851C2FB632864165FCA4920 46548.pygtex) [62] (./_minted-Tutorial/DC5117490176932EFB8A7F0E0DA450F6BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/657D43328835FC01F9133F8BC964475D44BBF456F55B5DC060035246D76 9EADB.pygtex) (./_minted-Tutorial/82CBCD9B9F23373D67D9D0D7D2CA363FBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/36F8D0FD2B4ADF57AC4203A0C80C6471BD02851C2FB632864165FCA4920 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(./_minted-Tutorial/E381FF526AC999B71717F178C997F6B2BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/5F05AD4A17978E60C531612707D8F26ABD02851C2FB632864165FCA4920 46548.pygtex) [67] (./_minted-Tutorial/D19467E367634413AE9EE17A62E5D9EA9543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/EDF3737891061C33EDE0FBFD16CCC63B9543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/D1EAD55A1F8AD3DEAB82383A4F020F539543DFECA235A69AE23006BA05B 4EB70.pygtex) Overfull \hbox (19.46596pt too wide) in paragraph at lines 1349--1351 \OT1/cmr/m/n/10 Making a sin-gle call to [][]\OT1/cmtt/m/n/10 SeqIO.write(...) []\OT1/cmr/m/n/10 is also much quicker than mul-ti-ple calls to the [][]\OT1/cm tt/m/n/10 SeqRecord.format(...) [68] (./_minted-Tutorial/2F337ECD1F936D416FF9C5C6F41A02D7BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/3337CD054623BAC21B6021E996EE0DFD9543DFECA235A69AE23006BA05B 4EB70.pygtex) Overfull \hbox (21.32593pt too wide) in paragraph at lines 1393--1397 []\OT1/cmr/m/n/10 Likewise, when pars-ing FASTQ files, in-ter-nally [][]\OT1/cm tt/m/n/10 Bio.SeqIO.parse() []\OT1/cmr/m/n/10 calls the low-level [][]\OT1/cmtt /m/n/10 FastqGeneralIterator (./_minted-Tutorial/D3AF6542680CA390CDA8C8DF87C693D3BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/D749A84299CF58E876E9A899069830DB9543DFECA235A69AE23006BA05B 4EB70.pygtex)) [69] (./Tutorial/chapter_align.tex Chapter 6. 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There-fore the [][]\OT1/cmtt/m/n/10 Bio.AlignIO.write() Overfull \hbox (39.68698pt too wide) in paragraph at lines 442--447 [][]\OT1/cmtt/m/n/10 Bio.AlignIO.parse() []\OT1/cmr/m/n/10 and then save them u s-ing the [][]\OT1/cmtt/m/n/10 Bio.AlignIO.write() []\OT1/cmr/m/n/10 -- or just use the [][]\OT1/cmtt/m/n/10 Bio.AlignIO.convert() (./_minted-Tutorial/9776F24C4F96F850E549BEF997E4D18CBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/D8256B42DA32121F3B83617DD03F4024BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/DA108466F70572EEAE2D54AEA4C156A1BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/8FD10ACD641F4427B35E96F33B44479F669566ECC2CFEDC7429F829576A D0DC6.pygtex [78]) (./_minted-Tutorial/ACC9FF1F2F025F77815D96DC3115B7DFBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/7E530BB128C8AE6BCF7BCE91DD4AF189669566ECC2CFEDC7429F829576A D0DC6.pygtex) (./_minted-Tutorial/C17F8CD5F33DB6EB328532E02ADD1FE6BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/C02EB78C9555A4FEE4954D77162ACF99669566ECC2CFEDC7429F829576A D0DC6.pygtex [79]) (./_minted-Tutorial/74D8F602592BD3646F12A04951B2C44CBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/CB14E2060AF38515C129AB5808537F169543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/E78F5A80C222A5B2777910FED4F43F56669566ECC2CFEDC7429F829576A D0DC6.pygtex [80]) (./_minted-Tutorial/4D0AF4A40C449D27FF181EC477C63CE6BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/2590B11C695B984E246A0A91734F786CBD02851C2FB632864165FCA4920 46548.pygtex) [81] (./_minted-Tutorial/508710FC1759BFFED598544DEC99BC0DBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/886094CE2C1CAC714387144709D5A47ABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/6DC12DBE1D4FD44E7395C66258B5EAC9BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/CAC16111FAD8C2E739F6D7C04A986BF0BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/A4149E9BEF55B5853014A59A3CBBFBE5BD02851C2FB632864165FCA4920 46548.pygtex [82]) (./_minted-Tutorial/8327145320A3BCB412D977F6683B71A2BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/1E096B06E33D157FFE18E045579F838CBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/C7331D522D75BB7830A1364BC3B71692BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/C45FE25766D82D1C4A245CBB9A77DB00BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/C0937EED558D842CEA8E3DB9514C6E59BD02851C2FB632864165FCA4920 46548.pygtex [83]) (./_minted-Tutorial/8EC03E9C8500D05C6439AC85123A9253BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/AE857C14E4731CC6F6EBA53051460097BD02851C2FB632864165FCA4920 46548.pygtex) [84] (./_minted-Tutorial/F88E003F9A4A95A929AA549FA710239CBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/523928538FA511A925EC995B1803BD16BD02851C2FB632864165FCA4920 46548.pygtex) [85] (./_minted-Tutorial/CD47D1913C82182C164BD47DA4715282BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/E7AA94166BAA5F4CBB44EF4336F3E893BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/B49F47BF4F2EB4093BDE51E631C63064BD02851C2FB632864165FCA4920 46548.pygtex) [86] (./_minted-Tutorial/230B4706E315BD2F2A44F2EBCB37A442BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/C11A66992B6C74B61F5A0BE7757AF3BCBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/EAE190D91CC491562308EE568F986368BD02851C2FB632864165FCA4920 46548.pygtex [87]) (./_minted-Tutorial/6256254C5A7DFD21185291C77133BFDFBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/FC96AF22EDD72BC4AC2EE47EBAA6B045BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/E941CFC951CAE25312D9A5CAC9B27425BD02851C2FB632864165FCA4920 46548.pygtex) Overfull \hbox (8.40039pt too wide) in paragraph at lines 1126--1130 []\OT1/cmr/m/n/10 By de-fault MUS-CLE will out-put the align-ment as a FASTA fi le (us-ing gapped se-quences). The [][]\OT1/cmtt/m/n/10 Bio.AlignIO (./_minted-Tutorial/EA6A02999040945446E72AC6A00E56D8BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/106ED62B0CFC10E7D5BC6CFC9CE003BDBD02851C2FB632864165FCA4920 46548.pygtex [88]) (./_minted-Tutorial/4D75AC9EDD74C466535F1EC4944833F7BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/14F1F3BAF80772F5999B0773C02432E7BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/A261B9E9E2D4EB3C1DF5131C6F739998BD02851C2FB632864165FCA4920 46548.pygtex [89]) (./_minted-Tutorial/E2B86D066966C8BA13EEEF614D3E7454BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/E87BDA1F176DA567A757DBA0231BC5BABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/6BF1884F2D94AF8D067A2A20A9A41E2CBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/F551ABCEBB0043257A807C76B9D81B5CBD02851C2FB632864165FCA4920 46548.pygtex [90]) (./_minted-Tutorial/37B6E52C66902FA821D4B0E80172CE74BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/0BA045AD7DFE0F0F3DD972F3E2C40BA1BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/482576AF06E80D82290535FF7857A240BD02851C2FB632864165FCA4920 46548.pygtex) [91] (./_minted-Tutorial/5D3CCD84BC2EC46BF5FD98E7A3FC7266669566ECC2CFEDC7429F829576A D0DC6.pygtex) (./_minted-Tutorial/D9565472E525C9F2B734FC37A70D258E669566ECC2CFEDC7429F829576A D0DC6.pygtex) (./_minted-Tutorial/39152F199CEBB3375366F2E947824519BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/256B036DA9C3EDBC9EE41E2E52FDE1ADBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/DC6CF8B5CDDD2C32E2052C03AF385674BD02851C2FB632864165FCA4920 46548.pygtex [92]) (./_minted-Tutorial/CEE035FF629B69F7D6B6351C1DCE2493BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/DF151703751D72BD556402B910190A87BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/004029547AAB1172AF2684D2CA89EA88BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/554024580088332FAF0EA9296BACE82EBD02851C2FB632864165FCA4920 46548.pygtex) [93] (./_minted-Tutorial/419ECEB266819C8DCC38EB3E1DC3E361BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/143B9D317680E51D3A6E5641208720CABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/6CCC707502EDD92E9C355854215BF885BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/0A4B1939051DE630E53C7151447C8DD4BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/2B6197C314840AD3EC15C56F366120C5BD02851C2FB632864165FCA4920 46548.pygtex [94]) (./_minted-Tutorial/E5E00F47BD7A0C8BC5F8818526283868BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/52B42D5819C8EC5D57A21AE60D28F6CEBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/5F566D907B2F88621EC4175F1F17AE04BD02851C2FB632864165FCA4920 46548.pygtex) [95] (./_minted-Tutorial/0FE96E337A3BA73D52896D46E2E233DCBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/434D41043E1630324FA64E8B55B90BD5BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/48453D528762FF183499778647AF218BBD02851C2FB632864165FCA4920 46548.pygtex [96]) (./_minted-Tutorial/BD86EE3248811DE8FD9DE8ED02397A39BD02851C2FB632864165FCA4920 46548.pygtex) Overfull \hbox (76.42714pt too wide) in paragraph at lines 1707--1711 []\OT1/cmr/m/n/10 By de-fault, [][]\OT1/cmtt/m/n/10 aligner.substitution_matrix []\OT1/cmr/m/n/10 is [][]\OT1/cmtt/m/n/10 None[]\OT1/cmr/m/n/10 . The at-tribu tes [][]\OT1/cmtt/m/n/10 aligner.match_score []\OT1/cmr/m/n/10 and [][]\OT1/cmt t/m/n/10 aligner.mismatch_score Overfull \hbox (47.73264pt too wide) in paragraph at lines 1707--1711 []\OT1/cmr/m/n/10 are ig-nored if [][]\OT1/cmtt/m/n/10 aligner.substitution_mat rix []\OT1/cmr/m/n/10 is not [][]\OT1/cmtt/m/n/10 None[]\OT1/cmr/m/n/10 . Set-t ing [][]\OT1/cmtt/m/n/10 aligner.match_score []\OT1/cmr/m/n/10 or [][]\OT1/cmtt /m/n/10 aligner.mismatch_score LaTeX Warning: `h' float specifier changed to `ht'. 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Overfull \hbox (5.71313pt too wide) in paragraph at lines 45--46 []\OT1/cmr/m/n/10 NCBI guide-lines, from [][]$\OT1/cmtt/m/n/10 https : / / blas t . ncbi . nlm . nih . gov / Blast . cgi ? 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Excluding 'htmlonly' comment. LaTeX Warning: Float too large for page by 32.27644pt on input line 481. ) [135] [136 <./images/BlastRecord.png>] [137 <./images/PSIBlastRecord.png>] (./Tutorial/chapter_searchio.tex Chapter 8. (./_minted-Tutorial/6D0EADF658E662CBA394834EFAC7346E669566ECC2CFEDC7429F829576A D0DC6.pygtex) [138] Overfull \hbox (2.9019pt too wide) in paragraph at lines 85--93 [][][]\OT1/cmtt/m/n/10 HSPFragment[]\OT1/cmr/m/n/10 , to rep-re-sent a sin-gle con-tigu-ous align-ment be-tween query and hit se-quences. [][]\OT1/cmtt/m/n/10 HSPFragment Overfull \hbox (8.43927pt too wide) in paragraph at lines 105--107 [][][]\OT1/cmtt/m/n/10 parse []\OT1/cmr/m/n/10 is used for search out-put files with mul-ti-ple queries and re-turns a gen-er-a-tor that yields [][]\OT1/cmtt/ m/n/10 QueryResult (./_minted-Tutorial/0EF47CD31A1F702FF10BD5C95E6D18FCBD02851C2FB632864165FCA4920 46548.pygtex [139]) (./_minted-Tutorial/BCDD1F95C8585B3C70DE9C1280B51955BD02851C2FB632864165FCA4920 46548.pygtex [140]) (./_minted-Tutorial/7A12FEF8445FE62A62C651C8B4EC163FBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/362861C831165FEA5413E0240053CD89BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/40227DD719AAD22E8DC2923BF43CE327BD02851C2FB632864165FCA4920 46548.pygtex [141]) (./_minted-Tutorial/FD9C81C098491598DBFB6208173BB575BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/87D36F7AE3CBC4EDC6FCCFDE0173412CBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/CA24D00985B075C56E7C71A246E439FFBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/DE8A481953AA0F7BD7A99C0E281AD1A0BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/E7AA701BE1D007CE77D402E8CBFC777ABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/906546E8B6F7831A0E7C5FC93AA56A03BD02851C2FB632864165FCA4920 46548.pygtex) [142] (./_minted-Tutorial/0B914838010D3E86EC368E1702EB7253BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/E4688DCAB619DBEB784ED0D836D1E619BD02851C2FB632864165FCA4920 46548.pygtex [143]) (./_minted-Tutorial/DDECA9EB99D9FA38003A52C176593072BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/578CBF904F35965EECFEC1FA694F0752BD02851C2FB632864165FCA4920 46548.pygtex [144]) (./_minted-Tutorial/C0EB7D270F64704BA5AF848A21AACD64BD02851C2FB632864165FCA4920 46548.pygtex) [145] (./_minted-Tutorial/84848AABE250EF05E85067B2CD3275B8BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/A2EA3A12F7596A64ECEE374A9C53499ABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/E7A6E47CCC64E8FADF02D1CDC6246863BD02851C2FB632864165FCA4920 46548.pygtex) [146] (./_minted-Tutorial/A3385B945E43CC076FFA693B27681F05BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/DAAFD2AAF126ED8D7284764B561B5E2BBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/4B4824DE2ED3215F02082987EE573577BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/61406D58E5F7C40FD0A0280DCAA66B46BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/BF77764978D907008BC936FD2A5FCD95BD02851C2FB632864165FCA4920 46548.pygtex [147]) (./_minted-Tutorial/CE618F26D70602D511E57E53CD880444BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/DE23F71CD74CF7717D38AD01C1E1C787BD02851C2FB632864165FCA4920 46548.pygtex) Overfull \hbox (27.24287pt too wide) in paragraph at lines 743--745 []\OT1/cmr/m/n/10 It should not sur-prise you now that the [][]\OT1/cmtt/m/n/10 HSP []\OT1/cmr/m/n/10 ob-ject has an [][]\OT1/cmtt/m/n/10 alignment []\OT1/cmr /m/n/10 prop-erty which is a [][]\OT1/cmtt/m/n/10 MultipleSeqAlignment (./_minted-Tutorial/338C616C7128C3DB7FFD516F5C2BDA12BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/1195D6861E887568107FA7F463EA9BBABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/31F43A46088F6D2E63B39857A3536909BD02851C2FB632864165FCA4920 46548.pygtex [148]) (./_minted-Tutorial/16771935702D6A2A9762A80A621013D8BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/046FE550C51B323D1E952A27E126FE19BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/A55E467518B2E0F936A232F0970B1037BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/6D69D310788199FBA6E8A5BF5CAB2021BD02851C2FB632864165FCA4920 46548.pygtex [149]) (./_minted-Tutorial/2C71B4AE1F4F9990447491C6C291ABC2BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/FD7ECFDD9D017B829A54C995FEE42EEDBD02851C2FB632864165FCA4920 46548.pygtex [150]) (./_minted-Tutorial/3AD8335853E972C8E62AAF79CF0A3D33BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/758BAC7574A59544686354199D20892CBD02851C2FB632864165FCA4920 46548.pygtex) [151] (./_minted-Tutorial/7A63CB5E786CCE052981F7DD10653DA9BD02851C2FB632864165FCA4920 46548.pygtex) Overfull \hbox (14.20721pt too wide) in paragraph at lines 1055--1059 \OT1/cmr/m/n/10 func-tion re-turns a gen-er-a-tor ob-ject that yields a [][]\OT 1/cmtt/m/n/10 QueryResult []\OT1/cmr/m/n/10 ob-ject in each it-er-a-tion. Like [][]\OT1/cmtt/m/n/10 Bio.SearchIO.read[]\OT1/cmr/m/n/10 , (./_minted-Tutorial/DC4E434DA5B851CF1E22BD3608A311F4BD02851C2FB632864165FCA4920 46548.pygtex) [152] Overfull \hbox (20.13245pt too wide) in paragraph at lines 1087--1092 []\OT1/cmr/m/n/10 In this case, the ideal choice would be to in-dex the file us -ing [][]\OT1/cmtt/m/n/10 Bio.SearchIO.index []\OT1/cmr/m/n/10 or [][]\OT1/cmtt /m/n/10 Bio.SearchIO.index_db[]\OT1/cmr/m/n/10 . (./_minted-Tutorial/0AB25750C7D89E832295045C60D6B8C4BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/DFACFE04880AE0CA2E8E32ABDC9E9868BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/51F256FC56FFFAE1F1E84A4EFC5BAE55BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/5BCEFFE3DBB7A0AE4FD5D950731D72DEBD02851C2FB632864165FCA4920 46548.pygtex) [153] Overfull \hbox (11.82602pt too wide) in paragraph at lines 1167--1170 []\OT1/cmr/m/n/10 Finally, [][]\OT1/cmtt/m/n/10 Bio.SearchIO []\OT1/cmr/m/n/10 also pro-vides a [][]\OT1/cmtt/m/n/10 convert []\OT1/cmr/m/n/10 func-tion, whic h is sim-ply a short-cut for [][]\OT1/cmtt/m/n/10 Bio.SearchIO.parse (./_minted-Tutorial/BDE985FA3ADA6B0D37013C3D5F37C176BD02851C2FB632864165FCA4920 46548.pygtex)) [154] (./Tutorial/chapter_entrez.tex Chapter 9. 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(./_minted-Tutorial/6C5156DAD460519324A5B7657B301B5DBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/1836031BC83AA94C8906762F613E6CBABD02851C2FB632864165FCA4920 46548.pygtex) [218] (./_minted-Tutorial/D0A75FB8C1C791E4AA80420B93F216A8BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/FEC6C2CB5FA0AFCFE00D995BD3642FF2BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/2B435DC3041611A5D6A663B437ADB1ADBD02851C2FB632864165FCA4920 46548.pygtex) Overfull \hbox (25.13162pt too wide) in paragraph at lines 182--185 []\OT1/cmr/m/n/10 Let's tar-get the most re-cent com-mon an-ces-tor (MRCA) of t he nodes named ``E'' and ``F''. The [][]\OT1/cmtt/m/n/10 common_ancestor (./_minted-Tutorial/29624A9666C9430AABADF395148BBF27BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/D0F05D42BA0A9BC594EEDB16319A972DBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/87517FEF82BFE1AB8D89A83F4DC5E8B9BD02851C2FB632864165FCA4920 46548.pygtex [219 <./images/phylo-simple-draw.png>]) Excluding 'htmlonly' comment. 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[223 <./images/phylo-draw-example.p ng>] Overfull \hbox (19.85507pt too wide) in paragraph at lines 479--486 \OT1/cmr/m/n/10 For ex-am-ple, in a tree with clade names Foo1, Foo2 and Foo3, [][]\OT1/cmtt/m/n/10 tree.find_clades({"name": "Foo1"}) [224] Overfull \hbox (13.48741pt too wide) in paragraph at lines 534--537 []\OT1/cmr/m/n/10 Find each clade con-tain-ing a match-ing el-e-ment. That is, find each el-e-ment as with [][]\OT1/cmtt/m/n/10 find_elements[]\OT1/cmr/m/n/10 , [225] (./_minted-Tutorial/6AAB725DBD2E5B7C5FD79A9A16536BF69543DFECA235A69AE23006BA05B 4EB70.pygtex) [226] Overfull \hbox (15.04868pt too wide) in paragraph at lines 703--707 []\OT1/cmr/m/n/10 Below is an ex-am-ple on how to use a python script to in-ter -act with PhyML ([][]$\OT1/cmtt/m/n/10 http : / / www . atgc-[]montpellier . 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[257] [258] [259] [260] (./_minted-Tutorial/C7B59059E3AE6CDE790EFE6EB0ED4140BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/C2B72A7408C7DF74DFCEBE0485997287BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/425EDAA643B5AA9589F3EEE601735827BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/50B5971EFCF22FCC4E1302DB2D0A25009543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/293084E63EA5C0E01F325A4DD59469C0BD02851C2FB632864165FCA4920 46548.pygtex [261]) Overfull \hbox (78.60634pt too wide) in paragraph at lines 245--246 \OT1/cmr/m/n/10 men-sions of these ar-rays are $[]$ if [][]\OT1/cmtt/m/n/10 tra nspose []\OT1/cmr/m/n/10 is [][]\OT1/cmtt/m/n/10 0[]\OT1/cmr/m/n/10 , or $[]$ (./_minted-Tutorial/05DC01C08B8EDF71F86E3C3A9C28EB34BD02851C2FB632864165FCA4920 46548.pygtex) [262] [263] (./_minted-Tutorial/A4A28B5A443208DEAB3B4D76AA3B762EBD02851C2FB632864165FCA4920 46548.pygtex) [264] (./_minted-Tutorial/C286E2777B917B774560CBDC7CF92626BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/D04E097D8E8C4C039FEC20FA103CED189543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/36EF8931044EF448BC70F722AFADB43D9543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/805B33438269C932AC54C0DAB5A3D7AC9543DFECA235A69AE23006BA05B 4EB70.pygtex) [265] [266] Overfull \hbox (16.73593pt too wide) in paragraph at lines 423--424 [][]\OT1/cmtt/m/n/10 distance []\OT1/cmr/m/n/10 is the dis-tance be-tween them. The items be-ing clus-tered are num-bered from 0 to $[]$, (./_minted-Tutorial/015798D317E9D8732518AFD186C997CABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/A27E6BF4EEB8E8B1C239049267861739BD02851C2FB632864165FCA4920 46548.pygtex) [267] (./_minted-Tutorial/81E4060E427D22B8F0C63B69EEC10A2ABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/B8D2A546EC4941692F427A363193FBDEBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/A54EF6455421EFDFA1F63EB361CD74F6BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/8975A4CCBC4C6138C302117E04F203ADBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/636486BB1CF700F6391685224211BE22BD02851C2FB632864165FCA4920 46548.pygtex) [268] (./_minted-Tutorial/6EFE1AC811BF16FF597EBE3E25BD2F72BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/F8E41E59FD44DADEB3740B0C0ED17D41BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/1B924FC8FA13A8B73C1C9E6EF8895055BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/77B32E49165B4345FFCA9FACF597BEEBBD02851C2FB632864165FCA4920 46548.pygtex [269]) (./_minted-Tutorial/D04E097D8E8C4C039FEC20FA103CED189543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/36EF8931044EF448BC70F722AFADB43D9543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/805B33438269C932AC54C0DAB5A3D7AC9543DFECA235A69AE23006BA05B 4EB70.pygtex) [270] (./_minted-Tutorial/E542C07D0131DF56A89D92F80416C175BD02851C2FB632864165FCA4920 46548.pygtex) [271] Overfull \hbox (106.77225pt too wide) in paragraph at lines 654--656 \OT1/cmr/m/n/10 An ar-ray with di-men-sions $[]$ if rows are be-ing clus-tered, or $[]$ (./_minted-Tutorial/7476A2D5F9D3A46EE00108837901FAEABD02851C2FB632864165FCA4920 46548.pygtex) [272] (./_minted-Tutorial/0420D397BA03971C0079F52E55FEABABBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/8D3928D79091BFFA7AFB6D6F35A52C7CBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/4D59CC328F454A26A4BE9F91740D961CBD02851C2FB632864165FCA4920 46548.pygtex) Overfull \hbox (25.39864pt too wide) in paragraph at lines 739--750 [] [273] [274] (./_minted-Tutorial/EFB8602799AD543446B386107A8147F7BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/43B30B527C3A2D8148F25CA143719CAFBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/C77F1ABB31C6A53C1626E0E0B34BB0FCBD02851C2FB632864165FCA4920 46548.pygtex) [275] (./_minted-Tutorial/1F3E2EFB988F2639C701A920B547241DBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/3CAD921471DA4CA4441D02558CD1F2E0BD02851C2FB632864165FCA4920 46548.pygtex [276]) (./_minted-Tutorial/1A863BDE3A5754AA2C865F2A82DA8504BD02851C2FB632864165FCA4920 46548.pygtex) [277] Overfull \hbox (106.77225pt too wide) in paragraph at lines 929--931 \OT1/cmr/m/n/10 An ar-ray with di-men-sions $[]$ if rows are be-ing clus-tered, or $[]$ (./_minted-Tutorial/A39469F362670EDC6C7E8FD9FDF412C4BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/12B5F20EFF78F0E8FE505D45A9786D70BD02851C2FB632864165FCA4920 46548.pygtex [278]) (./_minted-Tutorial/E6C8D570402CFDDB43A6AE5A198BCF58BD02851C2FB632864165FCA4920 46548.pygtex)) Overfull \hbox (26.21434pt too wide) in paragraph at lines 986--116 []\OT1/cmr/m/n/10 This will cre-ate the files [][]\OT1/cmtt/m/n/10 cyano_result _K_G2_A2.cdt[]\OT1/cmr/m/n/10 , [][]\OT1/cmtt/m/n/10 cyano_result_K_G2.kgg[]\OT 1/cmr/m/n/10 , and [][]\OT1/cmtt/m/n/10 cyano_result_K_A2.kag[]\OT1/cmr/m/n/10 . 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[301 <./images/plasmid_linear_nice.png (PNG copy) >] [302 <./images/plasmid_circular_nice.png>] (./_minted-Tutorial/7CAF22FEDE98A6B9B7990010CA8709DC9543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/FA676816242752C9FE9F5EB12D4DAA899543DFECA235A69AE23006BA05B 4EB70.pygtex [303]) (./_minted-Tutorial/7926619D7609A591C404A01B2A99177A9543DFECA235A69AE23006BA05B 4EB70.pygtex [304]) Excluding 'htmlonly' comment. [305 <./images/three_track_si mple.png>] (./_minted-Tutorial/A2465D4E8908256A31684D5DDE7DA1119543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/347EB36A3001532221DDF6C29AA04AFB9543DFECA235A69AE23006BA05B 4EB70.pygtex [306]) (./_minted-Tutorial/F46F39DD7A8EC7B20CD42ACF6EFD18409543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/2CF2D2FC7E96B3F426F22452724A4C289543DFECA235A69AE23006BA05B 4EB70.pygtex) Overfull \hbox (2.65141pt too wide) in paragraph at lines 873--879 []\OT1/cmr/m/n/10 There are sev-eral im-por-tant pieces to this code. 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How-ever, for large FASTQ files it woul d be faster the low-level [][]\OT1/cmtt/m/n/10 FastqGeneralIterator (./_minted-Tutorial/AB16E58608A2F17CC79E6929557208879543DFECA235A69AE23006BA05B 4EB70.pygtex [329]) Overfull \hbox (4.57849pt too wide) in paragraph at lines 475--477 \OT1/cmr/m/n/10 That should find $13819$ reads from \OT1/cmtt/m/n/10 SRR014849. fastq \OT1/cmr/m/n/10 and save them to a new FASTQ file, \OT1/cmtt/m/n/10 with[ ]primer.fastq\OT1/cmr/m/n/10 . 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Overfull \hbox (4.00363pt too wide) in paragraph at lines 1117--1120 []\OT1/cmr/m/it/10 Tip: \OT1/cmr/m/n/10 Rather than us-ing [][]\OT1/cmtt/m/n/10 pylab.show() []\OT1/cmr/m/n/10 to show the plot in a win-dow, you can also use [][]\OT1/cmtt/m/n/10 pylab.savefig(...) (./_minted-Tutorial/798776F436EA559BACD9C305C09973919543DFECA235A69AE23006BA05B 4EB70.pygtex [339 <./images/hist_plot.png>]) (./_minted-Tutorial/CB78AD94DFE82ADBAF348C0EC1D261CD9543DFECA235A69AE23006BA05B 4EB70.pygtex) Excluding 'htmlonly' comment. Excluding 'htmlonly' comment. [340 <./images/gc_plot.png>] (./_minted-Tutorial/6E0DA723E11A7B9CA8E2353A984B5DF79543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/80A47C8780CE3021D53829563E8166569543DFECA235A69AE23006BA05B 4EB70.pygtex [341 <./images/dot_plot.png>]) (./_minted-Tutorial/9574E55C4A182E2A0201DF18689F52F49543DFECA235A69AE23006BA05B 4EB70.pygtex) Excluding 'htmlonly' comment. (./_minted-Tutorial/24C65C38DAD936B7AA15C7ED02EA36B39543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/6655B5CD97C33186A22E6897501301FF9543DFECA235A69AE23006BA05B 4EB70.pygtex [342]) (./_minted-Tutorial/7727E7020AA1BDC4C2A426B7590C20AD9543DFECA235A69AE23006BA05B 4EB70.pygtex) Excluding 'htmlonly' comment. [343 <./images/dot_plot_scatter.png >] (./_minted-Tutorial/601CCA4B782F1DA528DB81B0248031959543DFECA235A69AE23006BA05B 4EB70.pygtex) Excluding 'htmlonly' comment. 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For ex-am-ple, [][]\OT1/cmtt/m/n/10 expec ted_frequencies[^^MD^^M, ^^ME^^M] (./_minted-Tutorial/40ECF2E139F38209730D3B02B624EF74BD02851C2FB632864165FCA4920 46548.pygtex [349]) (./_minted-Tutorial/8965C8E87A0A43ECCE216C12F7DE7A4FBD02851C2FB632864165FCA4920 46548.pygtex)) [350] (./Tutorial/chapter_testing.tex Chapter 21. 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Transcript written on Tutorial.log. pdflatex biopdb_faq.tex This is pdfTeX, Version 3.141592653-2.6-1.40.24 (TeX Live 2022/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./biopdb_faq.tex LaTeX2e <2022-11-01> patch level 1 L3 programming layer <2023-01-16> (/usr/share/texlive/texmf-dist/tex/latex/base/article.cls Document Class: article 2022/07/02 v1.4n Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/size10.clo)) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/bookman.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1pbk.fd)) (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty (/usr/share/texlive/texmf-dist/tex/latex/base/latin1.def)) (/usr/share/texlive/texmf-dist/tex/latex/geometry/geometry.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty) (/usr/share/texlive/texmf-dist/tex/generic/iftex/ifvtex.sty (/usr/share/texlive/texmf-dist/tex/generic/iftex/iftex.sty))) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg) (/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def))) (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty) (/usr/share/texlive/texmf-dist/tex/latex/fancyhdr/fancyhdr.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/ltxcmds/ltxcmds.sty) (/usr/share/texlive/texmf-dist/tex/generic/pdftexcmds/pdftexcmds.sty (/usr/share/texlive/texmf-dist/tex/generic/infwarerr/infwarerr.sty)) (/usr/share/texlive/texmf-dist/tex/latex/kvsetkeys/kvsetkeys.sty) (/usr/share/texlive/texmf-dist/tex/generic/kvdefinekeys/kvdefinekeys.sty) (/usr/share/texlive/texmf-dist/tex/generic/pdfescape/pdfescape.sty) (/usr/share/texlive/texmf-dist/tex/latex/hycolor/hycolor.sty) (/usr/share/texlive/texmf-dist/tex/latex/letltxmacro/letltxmacro.sty) (/usr/share/texlive/texmf-dist/tex/latex/auxhook/auxhook.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/latex/refcount/refcount.sty) (/usr/share/texlive/texmf-dist/tex/generic/gettitlestring/gettitlestring.sty (/usr/share/texlive/texmf-dist/tex/latex/kvoptions/kvoptions.sty))) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def) (/usr/share/texlive/texmf-dist/tex/generic/intcalc/intcalc.sty) (/usr/share/texlive/texmf-dist/tex/generic/etexcmds/etexcmds.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/puenc.def) (/usr/share/texlive/texmf-dist/tex/generic/bitset/bitset.sty (/usr/share/texlive/texmf-dist/tex/generic/bigintcalc/bigintcalc.sty)) (/usr/share/texlive/texmf-dist/tex/latex/base/atbegshi-ltx.sty)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def (/usr/share/texlive/texmf-dist/tex/latex/base/atveryend-ltx.sty) (/usr/share/texlive/texmf-dist/tex/latex/rerunfilecheck/rerunfilecheck.sty (/usr/share/texlive/texmf-dist/tex/generic/uniquecounter/uniquecounter.sty))) Package hyperref Warning: Option `hyperindex' has already been used, (hyperref) setting the option has no effect on input line 56. 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The se-quence of each polypep-tide can then eas-ily be ob- tained from the \T1/pcr/m/n/10 Polypeptide [11] [12] Overfull \hbox (87.74638pt too wide) in paragraph at lines 1148--1149 []\T1/pcr/m/n/10 # Calculate classical coordination number exp_fs=hse.calc_fs_e xposure(model) Overfull \hbox (20.6135pt too wide) in paragraph at lines 1169--1174 \T1/pcr/m/n/10 Atom \T1/pbk/l/n/10 ob-jects re-turn a \T1/pcr/m/n/10 Vector \T1 /pbk/l/n/10 ob-ject rep-re-sen-ta-tion of the co-or-di-nates with the \T1/pcr/m /n/10 get_vector [13] [14] Overfull \hbox (1.21811pt too wide) in paragraph at lines 1345--1353 []\T1/pbk/l/n/10 THE CON-TRIB-U-TORS AND COPY-RIGHT HOLD-ERS OF THIS SOFT-WARE DIS-CLAIM [15] (./biopdb_faq.aux) ) (see the transcript file for additional information){/usr/share/texlive/texmf-d ist/fonts/enc/dvips/base/8r.enc} Output written on biopdb_faq.pdf (15 pages, 165295 bytes). Transcript written on biopdb_faq.log. pdflatex biopdb_faq.tex This is pdfTeX, Version 3.141592653-2.6-1.40.24 (TeX Live 2022/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./biopdb_faq.tex LaTeX2e <2022-11-01> patch level 1 L3 programming layer <2023-01-16> (/usr/share/texlive/texmf-dist/tex/latex/base/article.cls Document Class: article 2022/07/02 v1.4n Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/size10.clo)) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/bookman.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1pbk.fd)) (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty (/usr/share/texlive/texmf-dist/tex/latex/base/latin1.def)) (/usr/share/texlive/texmf-dist/tex/latex/geometry/geometry.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty) (/usr/share/texlive/texmf-dist/tex/generic/iftex/ifvtex.sty (/usr/share/texlive/texmf-dist/tex/generic/iftex/iftex.sty))) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg) (/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def))) (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty) (/usr/share/texlive/texmf-dist/tex/latex/fancyhdr/fancyhdr.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/ltxcmds/ltxcmds.sty) (/usr/share/texlive/texmf-dist/tex/generic/pdftexcmds/pdftexcmds.sty (/usr/share/texlive/texmf-dist/tex/generic/infwarerr/infwarerr.sty)) (/usr/share/texlive/texmf-dist/tex/latex/kvsetkeys/kvsetkeys.sty) (/usr/share/texlive/texmf-dist/tex/generic/kvdefinekeys/kvdefinekeys.sty) (/usr/share/texlive/texmf-dist/tex/generic/pdfescape/pdfescape.sty) (/usr/share/texlive/texmf-dist/tex/latex/hycolor/hycolor.sty) (/usr/share/texlive/texmf-dist/tex/latex/letltxmacro/letltxmacro.sty) (/usr/share/texlive/texmf-dist/tex/latex/auxhook/auxhook.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/latex/refcount/refcount.sty) (/usr/share/texlive/texmf-dist/tex/generic/gettitlestring/gettitlestring.sty (/usr/share/texlive/texmf-dist/tex/latex/kvoptions/kvoptions.sty))) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def) (/usr/share/texlive/texmf-dist/tex/generic/intcalc/intcalc.sty) (/usr/share/texlive/texmf-dist/tex/generic/etexcmds/etexcmds.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/puenc.def) (/usr/share/texlive/texmf-dist/tex/generic/bitset/bitset.sty (/usr/share/texlive/texmf-dist/tex/generic/bigintcalc/bigintcalc.sty)) (/usr/share/texlive/texmf-dist/tex/latex/base/atbegshi-ltx.sty)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def (/usr/share/texlive/texmf-dist/tex/latex/base/atveryend-ltx.sty) (/usr/share/texlive/texmf-dist/tex/latex/rerunfilecheck/rerunfilecheck.sty (/usr/share/texlive/texmf-dist/tex/generic/uniquecounter/uniquecounter.sty))) Package hyperref Warning: Option `hyperindex' has already been used, (hyperref) setting the option has no effect on input line 56. (/usr/share/texlive/texmf-dist/tex/generic/babel/babel.sty (/usr/share/texlive/texmf-dist/tex/generic/babel/txtbabel.def) (/usr/share/texlive/texmf-dist/tex/generic/babel-english/english.ldf)) (/usr/share/texlive/texmf-dist/tex/generic/babel/locale/en/babel-english.tex) (/usr/share/texlive/texmf-dist/tex/latex/l3backend/l3backend-pdftex.def) (./biopdb_faq.aux) *geometry* driver: auto-detecting *geometry* detected driver: pdftex *geometry* verbose mode - [ preamble ] result: * driver: pdftex * paper: a4paper * layout: * layoutoffset:(h,v)=(0.0pt,0.0pt) * modes: * h-part:(L,W,R)=(89.62709pt, 418.25368pt, 89.6271pt) * v-part:(T,H,B)=(56.9055pt, 731.23584pt, 56.9055pt) * \paperwidth=597.50787pt * \paperheight=845.04684pt * \textwidth=418.25368pt * \textheight=731.23584pt * \oddsidemargin=17.3571pt * \evensidemargin=17.3571pt * \topmargin=-52.36449pt * \headheight=12.0pt * \headsep=25.0pt * \topskip=10.0pt * \footskip=30.0pt * \marginparwidth=65.0pt * \marginparsep=11.0pt * \columnsep=10.0pt * \skip\footins=9.0pt plus 4.0pt minus 2.0pt * \hoffset=0.0pt * \voffset=0.0pt * \mag=1000 * \@twocolumnfalse * \@twosidefalse * \@mparswitchfalse * \@reversemarginfalse * (1in=72.27pt=25.4mm, 1cm=28.453pt) (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/epstopdf-pkg/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/graphics/color.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/color.cfg) (/usr/share/texlive/texmf-dist/tex/latex/graphics/mathcolor.ltx)) (./biopdb_faq.out) (./biopdb_faq.out) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1pcr.fd) Overfull \hbox (40.90678pt too wide) in paragraph at lines 112--119 []\T1/pbk/l/n/10 However, the [][]\T1/pcr/m/n/10 Bio.PDB.mmCIF.MMCIFlex []\T1/p bk/l/n/10 mod-ule (used in-ter-nally by [][]\T1/pcr/m/n/10 Bio.PDB.MMCIFParser [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1pbk.fd) [2] Overfull \hbox (21.75009pt too wide) in paragraph at lines 271--276 \T1/pbk/l/n/10 file to their val-ues. If there are mul-ti-ple val-ues (like in the case of tag \T1/pcr/m/n/10 _atom_site.Cartn_y\T1/pbk/l/n/10 , [3] Overfull \hbox (13.9754pt too wide) in paragraph at lines 312--318 \T1/pbk/l/n/10 The avail-able keys are \T1/pcr/m/n/10 name, head, deposition_-d ate, release_-date, structure_- Overfull \hbox (11.71707pt too wide) in paragraph at lines 312--318 \T1/pcr/m/n/10 method, resolution, structure_-reference \T1/pbk/l/n/10 (maps to a list of ref-er-ences), \T1/pcr/m/n/10 journal_- [4] [5] [6] [7 <./images/smcra.png (PNG copy)>] [8] [9] [10] Overfull \hbox (45.08351pt too wide) in paragraph at lines 1012--1016 \T1/pbk/l/n/10 Note that in the above case only model 0 of the struc-ture is co n-sid-ered by \T1/pcr/m/n/10 PolypeptideBuilder\T1/pbk/l/n/10 . Overfull \hbox (10.80998pt too wide) in paragraph at lines 1020--1024 \T1/pbk/l/n/10 try). The se-quence of each polypep-tide can then eas-ily be ob- tained from the \T1/pcr/m/n/10 Polypeptide [11] [12] Overfull \hbox (87.74638pt too wide) in paragraph at lines 1148--1149 []\T1/pcr/m/n/10 # Calculate classical coordination number exp_fs=hse.calc_fs_e xposure(model) Overfull \hbox (20.6135pt too wide) in paragraph at lines 1169--1174 \T1/pcr/m/n/10 Atom \T1/pbk/l/n/10 ob-jects re-turn a \T1/pcr/m/n/10 Vector \T1 /pbk/l/n/10 ob-ject rep-re-sen-ta-tion of the co-or-di-nates with the \T1/pcr/m /n/10 get_vector [13] [14] Overfull \hbox (1.21811pt too wide) in paragraph at lines 1345--1353 []\T1/pbk/l/n/10 THE CON-TRIB-U-TORS AND COPY-RIGHT HOLD-ERS OF THIS SOFT-WARE DIS-CLAIM [15] (./biopdb_faq.aux) ) (see the transcript file for additional information){/usr/share/texlive/texmf-d ist/fonts/enc/dvips/base/8r.enc} Output written on biopdb_faq.pdf (15 pages, 165295 bytes). Transcript written on biopdb_faq.log. make[2]: Leaving directory '/<>/Doc' make[1]: Leaving directory '/<>' rm -f debian/python-biopython-doc.debhelper.log debian/python3-biopython-sql.debhelper.log debian/python3-biopython.debhelper.log debian/rules override_dh_auto_test make[1]: Entering directory '/<>' mkdir -p Tests_avoid for avoid in PAML_tools EmbossPhylipNew MSAProbs_tool NACCESS_tool PopGen_GenePop PopGen_GenePop_EasyController XXmotif_tool PDB_ResidueDepth mmtf mmtf_online BioSQL_MySQLdb BioSQL_psycopg2 \ ; do \ mv Tests/test_${avoid}.py Tests_avoid ; \ done mv: cannot stat 'Tests/test_NACCESS_tool.py': No such file or directory # For the doc package we need a clean testsuite without all the remaining files. So keep a clean copy here mkdir -p debian/tmp_tests cp -a Tests debian/tmp_tests # remove duplicated file rm -f debian/tmp_tests/Tests/Quality/example.fastq.gz # We also keep the tests we need to avoid for later inspection cp -a Tests_avoid debian/tmp_tests # in the Debian package dialign it is not needed to set DIALIGN2_DIR but the test is verifying this dir # to run the EMBOSS test test_Emboss also requires to have the environment variable EMBOSS_ROOT set LC_ALL=C.UTF-8 dh_auto_test -- --test --system=custom \ --test-args='set -e; \ mkdir -p {build_dir}/home; \ mkdir -p {build_dir}/Doc/examples; \ cp -a Doc/Tutorial.tex {build_dir}/Doc; \ cp -a Doc/Tutorial {build_dir}/Doc; \ cp -a Doc/examples {build_dir}/Doc; \ cp -a Tests {build_dir}; \ cd {build_dir}/Tests; \ env DIALIGN2_DIR=/usr/share/dialign EMBOSS_ROOT=/usr/lib/emboss HOME={build_dir}/home {interpreter} run_tests.py --offline' pybuild --test -i python{version} -p 3.11 --test --system=custom "--test-args=set -e; \\\ mkdir -p {build_dir}/home; \\\ mkdir -p {build_dir}/Doc/examples; \\\ cp -a Doc/Tutorial.tex {build_dir}/Doc; \\\ cp -a Doc/Tutorial {build_dir}/Doc; \\\ cp -a Doc/examples {build_dir}/Doc; \\\ cp -a Tests {build_dir}; \\\ cd {build_dir}/Tests; \\\ env DIALIGN2_DIR=/usr/share/dialign EMBOSS_ROOT=/usr/lib/emboss HOME={build_dir}/home {interpreter} run_tests.py --offline" I: pybuild base:240: set -e; \ mkdir -p /<>/.pybuild/cpython3_3.11/build/home; \ mkdir -p /<>/.pybuild/cpython3_3.11/build/Doc/examples; \ cp -a Doc/Tutorial.tex /<>/.pybuild/cpython3_3.11/build/Doc; \ cp -a Doc/Tutorial /<>/.pybuild/cpython3_3.11/build/Doc; \ cp -a Doc/examples /<>/.pybuild/cpython3_3.11/build/Doc; \ cp -a Tests /<>/.pybuild/cpython3_3.11/build; \ cd /<>/.pybuild/cpython3_3.11/build/Tests; \ env DIALIGN2_DIR=/usr/share/dialign EMBOSS_ROOT=/usr/lib/emboss HOME=/<>/.pybuild/cpython3_3.11/build/home python3.11 run_tests.py --offline test_Ace ... ok test_Affy ... ok test_AlignIO ... ok test_AlignIO_ClustalIO ... ok test_AlignIO_EmbossIO ... ok test_AlignIO_FastaIO ... ok test_AlignIO_MauveIO ... ok test_AlignIO_PhylipIO ... ok test_AlignIO_convert ... ok test_AlignInfo ... ok test_Align_Alignment ... ok test_Align_a2m ... ok test_Align_bed ... ok test_Align_bigbed ... ok test_Align_bigmaf ... ok test_Align_bigpsl ... ok test_Align_clustal ... ok test_Align_emboss ... ok test_Align_exonerate ... ok test_Align_fasta ... ok test_Align_hhr ... ok test_Align_maf ... ok test_Align_mauve ... ok test_Align_msf ... ok test_Align_nexus ... ok test_Align_phylip ... ok test_Align_psl ... ok test_Align_sam ... ok test_Align_stockholm ... ok test_Align_tabular ... ok test_Application ... ok test_BWA_tool ... ok test_BioSQL_MySQLdb_online ... skipping. internet not available test_BioSQL_mysql_connector ... skipping. BioSQL test configuration file biosql.ini missing (see biosql.ini.sample) test_BioSQL_mysql_connector_online ... skipping. internet not available test_BioSQL_psycopg2_online ... skipping. internet not available test_BioSQL_sqlite3 ... ok test_BioSQL_sqlite3_online ... skipping. internet not available test_Blast_Record ... ok test_CAPS ... ok test_Chi2 ... ok test_ClustalOmega_tool ... ok test_Clustalw_tool ... ok test_Cluster ... ok test_CodonTable ... ok test_ColorSpiral ... ok test_Compass ... ok test_Consensus ... ok test_Dialign_tool ... ok test_EMBL_unittest ... ok test_Emboss ... /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/InsdcIO.py:1254: BiopythonWarning: Non-standard molecule type: mRNA warnings.warn(f"Non-standard molecule type: {mol_type}", BiopythonWarning) ok test_EmbossPrimer ... ok test_Entrez ... /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/__init__.py:686: UserWarning: Email address is not specified. To make use of NCBI's E-utilities, NCBI requires you to specify your email address with each request. As an example, if your email address is A.N.Other@example.com, you can specify it as follows: from Bio import Entrez Entrez.email = 'A.N.Other@example.com' In case of excessive usage of the E-utilities, NCBI will attempt to contact a user at the email address provided before blocking access to the E-utilities. warnings.warn( ok test_Entrez_online ... skipping. internet not available test_Entrez_parser ... ok test_Enzyme ... ok test_ExPASy ... skipping. internet not available test_Fasttree_tool ... ok test_File ... ok test_GenBank ... /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/InsdcIO.py:1254: BiopythonWarning: Non-standard molecule type: genomic DNA warnings.warn(f"Non-standard molecule type: {mol_type}", BiopythonWarning) ok test_GenomeDiagram ... Warn: Can't find .pfb for face 'Times-Roman' ok test_GraphicsBitmaps ... skipping. Check the fonts needed by ReportLab if you want bitmaps from Bio.Graphics Error in setFont('Times-Roman',10) missing the T1 files? Originally : makeT1Font() argument 2 must be str, not None test_GraphicsChromosome ... ok test_GraphicsDistribution ... ok test_GraphicsGeneral ... ok test_HMMCasino ... ok test_HMMGeneral ... ok test_KEGG ... ok test_KEGG_online ... skipping. internet not available test_KGML_graphics ... ok test_KGML_graphics_online ... skipping. internet not available test_KGML_nographics ... ok test_KeyWList ... ok test_LogisticRegression ... ok test_MafIO_index ... ok test_Mafft_tool ... ok test_MarkovModel ... ok test_Medline ... ok test_Muscle_tool ... ok test_NCBITextParser ... ok test_NCBIXML ... ok test_NCBI_BLAST_tools ... ok test_NCBI_qblast ... ok test_NMR ... ok test_NaiveBayes ... ok test_Nexus ... ok test_PAML_baseml ... ok test_PAML_codeml ... ok test_PAML_yn00 ... ok test_PDBList ... skipping. internet not available test_PDB_CEAligner ... ok test_PDB_DSSP ... ok test_PDB_Dice ... ok test_PDB_Disordered ... ok test_PDB_Exposure ... ok test_PDB_FragmentMapper ... ok test_PDB_KDTree ... ok test_PDB_MMCIF2Dict ... ok test_PDB_MMCIFIO ... ok test_PDB_MMCIFParser ... ok test_PDB_NACCESS ... ok test_PDB_PDBIO ... ok test_PDB_PDBParser ... ok test_PDB_PSEA ... skipping. Download and install psea from ftp://ftp.lmcp.jussieu.fr/pub/sincris/software/protein/p-sea/. Make sure that psea is on path test_PDB_Polypeptide ... ok test_PDB_QCSuperimposer ... ok test_PDB_SASA ... ok test_PDB_SMCRA ... ok test_PDB_Selection ... ok test_PDB_StructureAlignment ... ok test_PDB_Superimposer ... ok test_PDB_internal_coords ... /<>/.pybuild/cpython3_3.11/build/Bio/PDB/Polypeptide.py:144: BiopythonDeprecationWarning: 'three_to_one' will be deprecated in a future release of Biopython in favor of 'Bio.PDB.Polypeptide.protein_letters_3to1'. warnings.warn( /<>/.pybuild/cpython3_3.11/build/Bio/PDB/Polypeptide.py:144: BiopythonDeprecationWarning: 'three_to_one' will be deprecated in a future release of Biopython in favor of 'Bio.PDB.Polypeptide.protein_letters_3to1'. warnings.warn( /<>/.pybuild/cpython3_3.11/build/Bio/PDB/Polypeptide.py:161: BiopythonDeprecationWarning: 'one_to_three' will be deprecated in a future release of Biopython in favor of 'Bio.PDB.Polypeptide.protein_letters_1to3'. warnings.warn( ok test_PDB_parse_pdb_header ... ok test_PDB_vectors ... ok test_PQR ... ok test_Pathway ... ok test_Phd ... ok test_Phylo ... ok test_PhyloXML ... ok test_Phylo_CDAO ... ok test_Phylo_NeXML ... ok test_Phylo_matplotlib ... ok test_Phylo_networkx ... ok test_PopGen_GenePop_nodepend ... ok test_Prank_tool ... ok test_Probcons_tool ... ok test_ProtParam ... ok test_RCSBFormats ... ok test_Restriction ... ok test_SCOP_Astral ... ok test_SCOP_Cla ... ok test_SCOP_Des ... ok test_SCOP_Dom ... ok test_SCOP_Hie ... ok test_SCOP_Raf ... ok test_SCOP_Residues ... ok test_SCOP_Scop ... ok test_SCOP_online ... skipping. internet not available test_SVDSuperimposer ... ok test_SearchIO_blast_tab ... ok test_SearchIO_blast_tab_index ... ok test_SearchIO_blast_text ... ok test_SearchIO_blast_xml ... ok test_SearchIO_blast_xml_index ... ok test_SearchIO_blat_psl ... ok test_SearchIO_blat_psl_index ... ok test_SearchIO_exonerate ... ok test_SearchIO_exonerate_text_index ... ok test_SearchIO_exonerate_vulgar_index ... ok test_SearchIO_fasta_m10 ... ok test_SearchIO_fasta_m10_index ... ok test_SearchIO_hhsuite2_text ... ok test_SearchIO_hmmer2_text ... ok test_SearchIO_hmmer2_text_index ... ok test_SearchIO_hmmer3_domtab ... ok test_SearchIO_hmmer3_domtab_index ... ok test_SearchIO_hmmer3_tab ... ok test_SearchIO_hmmer3_tab_index ... ok test_SearchIO_hmmer3_text ... ok test_SearchIO_hmmer3_text_index ... ok test_SearchIO_interproscan_xml ... ok test_SearchIO_legacy ... ok test_SearchIO_model ... ok test_SearchIO_write ... ok test_SeqFeature ... ok test_SeqIO ... ok test_SeqIO_AbiIO ... ok test_SeqIO_FastaIO ... ok test_SeqIO_Gck ... ok test_SeqIO_Insdc ... /<>/.pybuild/cpython3_3.11/build/Bio/GenBank/Scanner.py:303: BiopythonParserWarning: Non-standard feature line wrapping (didn't break on comma)? warnings.warn( /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/InsdcIO.py:1254: BiopythonWarning: Non-standard molecule type: mRNA warnings.warn(f"Non-standard molecule type: {mol_type}", BiopythonWarning) /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/InsdcIO.py:1254: BiopythonWarning: Non-standard molecule type: unassigned DNA warnings.warn(f"Non-standard molecule type: {mol_type}", BiopythonWarning) /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/InsdcIO.py:1254: BiopythonWarning: Non-standard molecule type: genomic DNA warnings.warn(f"Non-standard molecule type: {mol_type}", BiopythonWarning) ok test_SeqIO_NibIO ... ok test_SeqIO_PdbIO ... ok test_SeqIO_QualityIO ... ok test_SeqIO_SeqXML ... ok test_SeqIO_SnapGene ... ok test_SeqIO_TwoBitIO ... ok test_SeqIO_Xdna ... ok test_SeqIO_features ... /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/InsdcIO.py:1254: BiopythonWarning: Non-standard molecule type: unassigned DNA warnings.warn(f"Non-standard molecule type: {mol_type}", BiopythonWarning) /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/InsdcIO.py:1254: BiopythonWarning: Non-standard molecule type: genomic DNA warnings.warn(f"Non-standard molecule type: {mol_type}", BiopythonWarning) /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/InsdcIO.py:1254: BiopythonWarning: Non-standard molecule type: mRNA warnings.warn(f"Non-standard molecule type: {mol_type}", BiopythonWarning) /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/InsdcIO.py:550: BiopythonWarning: Annotation 'swissprot: locus SCX3_BUTOC, accession P01485; class: standard. created: Jul 21, 1986. sequence updated: Jul 21, 1986. annotation updated: Oct 16, 2001. xrefs: gi: gi: 69530 xrefs (non-sequence databases): HSSP P01484, InterPro IPR003614, InterPro IPR002061, InterPro IPR001219, Pfam PF00537, PRINTS PR00284, ProDom PD000908, SMART SM00505' too long for 'DBSOURCE' line warnings.warn( ok test_SeqIO_index ... ok test_SeqIO_online ... skipping. internet not available test_SeqIO_write ... ok test_SeqRecord ... ok test_SeqUtils ... ok test_Seq_objs ... ok test_SffIO ... ok test_SwissProt ... ok test_TCoffee_tool ... ok test_TogoWS ... skipping. internet not available test_TreeConstruction ... ok test_Tutorial ... /<>/.pybuild/cpython3_3.11/build/Bio/pairwise2.py:278: BiopythonDeprecationWarning: Bio.pairwise2 has been deprecated, and we intend to remove it in a future release of Biopython. As an alternative, please consider using Bio.Align.PairwiseAligner as a replacement, and contact the Biopython developers if you still need the Bio.pairwise2 module. warnings.warn( ok test_UniGene ... ok test_UniProt_GOA ... ok test_Uniprot ... ok test_Wise ... ok test_align ... ok test_align_substitution_matrices ... ok test_bgzf ... ok test_cellosaurus ... ok test_codonalign ... /<>/.pybuild/cpython3_3.11/build/Bio/codonalign/codonalignment.py:113: BiopythonWarning: Please make sure the two CodonAlignment objects are sharing the same codon table. This is not checked by Biopython. warnings.warn( /<>/.pybuild/cpython3_3.11/build/Bio/Seq.py:3457: BiopythonWarning: This table contains 6 codon(s) which code(s) for both STOP and an amino acid (e.g. 'TAA' -> 'stop' or STOP). Such codons will be translated as amino acid. warnings.warn( /<>/.pybuild/cpython3_3.11/build/Bio/codonalign/__init__.py:612: BiopythonWarning: start codon of pro1 (S 0) does not correspond to pro1 (TCA) warnings.warn( /<>/.pybuild/cpython3_3.11/build/Bio/codonalign/__init__.py:678: BiopythonWarning: start codon of pro2(S 0) does not correspond to pro2(TCA) warnings.warn( ok test_geo ... ok test_kNN ... ok test_motifs ... ok test_motifs_online ... skipping. internet not available test_pairwise2 ... ok test_pairwise2_no_C ... ok test_pairwise_aligner ... ok test_pairwise_alignment_map ... ok test_phenotype ... ok test_phenotype_fit ... ok test_phyml_tool ... ok test_prodoc ... ok test_prosite ... ok test_raxml_tool ... ok test_samtools_tool ... ok test_seq ... ok test_translate ... ok Bio docstring test ... ok Bio.Affy docstring test ... ok Bio.Affy.CelFile docstring test ... ok Bio.Align docstring test ... ok Bio.Align.AlignInfo docstring test ... ok Bio.Align.Applications docstring test ... ok Bio.Align.Applications._ClustalOmega docstring test ... ok Bio.Align.Applications._Clustalw docstring test ... ok Bio.Align.Applications._Dialign docstring test ... ok Bio.Align.Applications._MSAProbs docstring test ... ok Bio.Align.Applications._Mafft docstring test ... ok Bio.Align.Applications._Muscle docstring test ... ok Bio.Align.Applications._Prank docstring test ... ok Bio.Align.Applications._Probcons docstring test ... ok Bio.Align.Applications._TCoffee docstring test ... ok Bio.Align._aligners docstring test ... ok Bio.Align.a2m docstring test ... ok Bio.Align.bed docstring test ... ok Bio.Align.bigbed docstring test ... ok Bio.Align.bigmaf docstring test ... ok Bio.Align.bigpsl docstring test ... ok Bio.Align.clustal docstring test ... ok Bio.Align.emboss docstring test ... ok Bio.Align.exonerate docstring test ... ok Bio.Align.fasta docstring test ... ok Bio.Align.hhr docstring test ... ok Bio.Align.interfaces docstring test ... ok Bio.Align.maf docstring test ... ok Bio.Align.mauve docstring test ... ok Bio.Align.msf docstring test ... ok Bio.Align.nexus docstring test ... ok Bio.Align.phylip docstring test ... ok Bio.Align.psl docstring test ... ok Bio.Align.sam docstring test ... ok Bio.Align.stockholm docstring test ... ok Bio.Align.substitution_matrices docstring test ... ok Bio.Align.tabular docstring test ... ok Bio.AlignIO docstring test ... ok Bio.AlignIO.ClustalIO docstring test ... ok Bio.AlignIO.EmbossIO docstring test ... ok Bio.AlignIO.FastaIO docstring test ... ok Bio.AlignIO.Interfaces docstring test ... ok Bio.AlignIO.MafIO docstring test ... ok Bio.AlignIO.MauveIO docstring test ... ok Bio.AlignIO.MsfIO docstring test ... ok Bio.AlignIO.NexusIO docstring test ... ok Bio.AlignIO.PhylipIO docstring test ... ok Bio.AlignIO.StockholmIO docstring test ... ok Bio.Application docstring test ... ok Bio.Blast docstring test ... ok Bio.Blast.Applications docstring test ... ok Bio.Blast.NCBIWWW docstring test ... ok Bio.Blast.NCBIXML docstring test ... ok Bio.Blast.ParseBlastTable docstring test ... ok Bio.Blast.Record docstring test ... ok Bio.CAPS docstring test ... ok Bio.Cluster docstring test ... ok Bio.Cluster._cluster docstring test ... ok Bio.Compass docstring test ... ok Bio.Data docstring test ... ok Bio.Data.CodonTable docstring test ... ok Bio.Data.IUPACData docstring test ... ok Bio.Data.PDBData docstring test ... ok Bio.Data.SCOPData docstring test ... ok Bio.Emboss docstring test ... ok Bio.Emboss.Applications docstring test ... ok Bio.Emboss.Primer3 docstring test ... ok Bio.Emboss.PrimerSearch docstring test ... ok Bio.Entrez.Parser docstring test ... ok Bio.ExPASy.Enzyme docstring test ... ok Bio.ExPASy.Prodoc docstring test ... ok Bio.ExPASy.Prosite docstring test ... ok Bio.ExPASy.ScanProsite docstring test ... ok Bio.ExPASy.cellosaurus docstring test ... ok Bio.File docstring test ... ok Bio.GenBank docstring test ... ok Bio.GenBank.Record docstring test ... ok Bio.GenBank.Scanner docstring test ... ok Bio.GenBank.utils docstring test ... ok Bio.Geo docstring test ... ok Bio.Geo.Record docstring test ... ok Bio.Graphics docstring test ... ok Bio.Graphics.BasicChromosome docstring test ... ok Bio.Graphics.ColorSpiral docstring test ... ok Bio.Graphics.Comparative docstring test ... ok Bio.Graphics.DisplayRepresentation docstring test ... ok Bio.Graphics.Distribution docstring test ... ok Bio.Graphics.GenomeDiagram docstring test ... ok Bio.Graphics.GenomeDiagram._AbstractDrawer docstring test ... ok Bio.Graphics.GenomeDiagram._CircularDrawer docstring test ... ok Bio.Graphics.GenomeDiagram._Colors docstring test ... ok Bio.Graphics.GenomeDiagram._CrossLink docstring test ... ok Bio.Graphics.GenomeDiagram._Diagram docstring test ... ok Bio.Graphics.GenomeDiagram._Feature docstring test ... ok Bio.Graphics.GenomeDiagram._FeatureSet docstring test ... ok Bio.Graphics.GenomeDiagram._Graph docstring test ... ok Bio.Graphics.GenomeDiagram._GraphSet docstring test ... ok Bio.Graphics.GenomeDiagram._LinearDrawer docstring test ... ok Bio.Graphics.GenomeDiagram._Track docstring test ... ok Bio.Graphics.KGML_vis docstring test ... ok Bio.HMM docstring test ... ok Bio.HMM.DynamicProgramming docstring test ... ok Bio.HMM.MarkovModel docstring test ... ok Bio.HMM.Trainer docstring test ... ok Bio.HMM.Utilities docstring test ... ok Bio.KEGG docstring test ... ok Bio.KEGG.Compound docstring test ... ok Bio.KEGG.Enzyme docstring test ... ok Bio.KEGG.Gene docstring test ... ok Bio.KEGG.KGML docstring test ... ok Bio.KEGG.KGML.KGML_parser docstring test ... ok Bio.KEGG.KGML.KGML_pathway docstring test ... ok Bio.KEGG.Map docstring test ... ok Bio.KEGG.REST docstring test ... ok Bio.LogisticRegression docstring test ... ok Bio.MarkovModel docstring test ... ok Bio.MaxEntropy docstring test ... ok Bio.Medline docstring test ... ok Bio.NMR docstring test ... ok Bio.NMR.NOEtools docstring test ... ok Bio.NMR.xpktools docstring test ... ok Bio.NaiveBayes docstring test ... ok Bio.Nexus docstring test ... ok Bio.Nexus.Nexus docstring test ... ok Bio.Nexus.Nodes docstring test ... ok Bio.Nexus.StandardData docstring test ... ok Bio.Nexus.Trees docstring test ... ok Bio.Nexus.cnexus docstring test ... ok Bio.PDB docstring test ... ok Bio.PDB.AbstractPropertyMap docstring test ... ok Bio.PDB.Atom docstring test ... ok Bio.PDB.Chain docstring test ... ok Bio.PDB.DSSP docstring test ... ok Bio.PDB.Dice docstring test ... ok Bio.PDB.Entity docstring test ... ok Bio.PDB.FragmentMapper docstring test ... ok Bio.PDB.HSExposure docstring test ... ok Bio.PDB.MMCIF2Dict docstring test ... ok Bio.PDB.MMCIFParser docstring test ... ok Bio.PDB.Model docstring test ... ok Bio.PDB.NACCESS docstring test ... ok Bio.PDB.NeighborSearch docstring test ... ok Bio.PDB.PDBExceptions docstring test ... ok Bio.PDB.PDBIO docstring test ... ok Bio.PDB.PDBList docstring test ... ok Bio.PDB.PDBParser docstring test ... ok Bio.PDB.PICIO docstring test ... ok Bio.PDB.PSEA docstring test ... ok Bio.PDB.Polypeptide docstring test ... ok Bio.PDB.QCPSuperimposer docstring test ... ok Bio.PDB.QCPSuperimposer.qcprotmodule docstring test ... ok Bio.PDB.Residue docstring test ... ok Bio.PDB.ResidueDepth docstring test ... ok Bio.PDB.SASA docstring test ... ok Bio.PDB.SCADIO docstring test ... ok Bio.PDB.Selection docstring test ... ok Bio.PDB.Structure docstring test ... ok Bio.PDB.StructureAlignment docstring test ... ok Bio.PDB.StructureBuilder docstring test ... ok Bio.PDB.Superimposer docstring test ... ok Bio.PDB.ccealign docstring test ... ok Bio.PDB.cealign docstring test ... ok Bio.PDB.ic_data docstring test ... ok Bio.PDB.ic_rebuild docstring test ... ok Bio.PDB.internal_coords docstring test ... ok Bio.PDB.kdtrees docstring test ... ok Bio.PDB.mmcifio docstring test ... ok Bio.PDB.mmtf docstring test ... ok Bio.PDB.mmtf.DefaultParser docstring test ... ok Bio.PDB.mmtf.mmtfio docstring test ... ok Bio.PDB.parse_pdb_header docstring test ... ok Bio.PDB.qcprot docstring test ... ok Bio.PDB.vectors docstring test ... ok Bio.Pathway docstring test ... ok Bio.Pathway.Rep docstring test ... ok Bio.Pathway.Rep.Graph docstring test ... ok Bio.Pathway.Rep.MultiGraph docstring test ... ok Bio.Phylo docstring test ... ok Bio.Phylo.Applications docstring test ... ok Bio.Phylo.Applications._Fasttree docstring test ... ok Bio.Phylo.Applications._Phyml docstring test ... ok Bio.Phylo.Applications._Raxml docstring test ... ok Bio.Phylo.BaseTree docstring test ... ok Bio.Phylo.CDAO docstring test ... ok Bio.Phylo.CDAOIO docstring test ... ok Bio.Phylo.Consensus docstring test ... ok Bio.Phylo.NeXML docstring test ... ok Bio.Phylo.NeXMLIO docstring test ... ok Bio.Phylo.Newick docstring test ... ok Bio.Phylo.NewickIO docstring test ... ok Bio.Phylo.NexusIO docstring test ... ok Bio.Phylo.PAML docstring test ... ok Bio.Phylo.PAML._paml docstring test ... ok Bio.Phylo.PAML._parse_baseml docstring test ... ok Bio.Phylo.PAML._parse_codeml docstring test ... ok Bio.Phylo.PAML._parse_yn00 docstring test ... ok Bio.Phylo.PAML.baseml docstring test ... ok Bio.Phylo.PAML.chi2 docstring test ... ok Bio.Phylo.PAML.codeml docstring test ... ok Bio.Phylo.PAML.yn00 docstring test ... ok Bio.Phylo.PhyloXML docstring test ... ok Bio.Phylo.PhyloXMLIO docstring test ... ok Bio.Phylo.TreeConstruction docstring test ... ok Bio.Phylo._cdao_owl docstring test ... ok Bio.Phylo._io docstring test ... ok Bio.Phylo._utils docstring test ... ok Bio.PopGen docstring test ... ok Bio.PopGen.GenePop docstring test ... ok Bio.PopGen.GenePop.Controller docstring test ... ok Bio.PopGen.GenePop.EasyController docstring test ... ok Bio.PopGen.GenePop.FileParser docstring test ... ok Bio.PopGen.GenePop.LargeFileParser docstring test ... ok Bio.Restriction docstring test ... ok Bio.Restriction.PrintFormat docstring test ... ok Bio.Restriction.Restriction docstring test ... ok Bio.Restriction.Restriction_Dictionary docstring test ... ok Bio.SCOP docstring test ... ok Bio.SCOP.Cla docstring test ... ok Bio.SCOP.Des docstring test ... ok Bio.SCOP.Dom docstring test ... ok Bio.SCOP.Hie docstring test ... ok Bio.SCOP.Raf docstring test ... ok Bio.SCOP.Residues docstring test ... ok Bio.SVDSuperimposer docstring test ... ok Bio.SearchIO docstring test ... ok Bio.SearchIO.BlastIO docstring test ... ok Bio.SearchIO.BlastIO.blast_tab docstring test ... ok Bio.SearchIO.BlastIO.blast_text docstring test ... ok Bio.SearchIO.BlastIO.blast_xml docstring test ... ok Bio.SearchIO.BlatIO docstring test ... ok Bio.SearchIO.ExonerateIO docstring test ... ok Bio.SearchIO.ExonerateIO._base docstring test ... ok Bio.SearchIO.ExonerateIO.exonerate_cigar docstring test ... ok Bio.SearchIO.ExonerateIO.exonerate_text docstring test ... ok Bio.SearchIO.ExonerateIO.exonerate_vulgar docstring test ... ok Bio.SearchIO.FastaIO docstring test ... ok Bio.SearchIO.HHsuiteIO docstring test ... ok Bio.SearchIO.HHsuiteIO.hhsuite2_text docstring test ... ok Bio.SearchIO.HmmerIO docstring test ... ok Bio.SearchIO.HmmerIO._base docstring test ... ok Bio.SearchIO.HmmerIO.hmmer2_text docstring test ... ok Bio.SearchIO.HmmerIO.hmmer3_domtab docstring test ... ok Bio.SearchIO.HmmerIO.hmmer3_tab docstring test ... ok Bio.SearchIO.HmmerIO.hmmer3_text docstring test ... ok Bio.SearchIO.InterproscanIO docstring test ... ok Bio.SearchIO.InterproscanIO.interproscan_xml docstring test ... ok Bio.SearchIO._index docstring test ... ok Bio.SearchIO._legacy docstring test ... ok Bio.SearchIO._legacy.NCBIStandalone docstring test ... ok Bio.SearchIO._legacy.ParserSupport docstring test ... ok Bio.SearchIO._model docstring test ... ok Bio.SearchIO._model._base docstring test ... ok Bio.SearchIO._model.hit docstring test ... ok Bio.SearchIO._model.hsp docstring test ... ok Bio.SearchIO._model.query docstring test ... ok Bio.SearchIO._utils docstring test ... ok Bio.Seq docstring test ... ok Bio.SeqFeature docstring test ... ok Bio.SeqIO docstring test ... ok Bio.SeqIO.AbiIO docstring test ... ok Bio.SeqIO.AceIO docstring test ... ok Bio.SeqIO.FastaIO docstring test ... ok Bio.SeqIO.GckIO docstring test ... ok Bio.SeqIO.IgIO docstring test ... ok Bio.SeqIO.InsdcIO docstring test ... ok Bio.SeqIO.Interfaces docstring test ... ok Bio.SeqIO.NibIO docstring test ... ok Bio.SeqIO.PdbIO docstring test ... ok Bio.SeqIO.PhdIO docstring test ... ok Bio.SeqIO.PirIO docstring test ... ok Bio.SeqIO.QualityIO docstring test ... ok Bio.SeqIO.SeqXmlIO docstring test ... ok Bio.SeqIO.SffIO docstring test ... ok Bio.SeqIO.SnapGeneIO docstring test ... ok Bio.SeqIO.SwissIO docstring test ... ok Bio.SeqIO.TabIO docstring test ... ok Bio.SeqIO.TwoBitIO docstring test ... ok Bio.SeqIO.UniprotIO docstring test ... ok Bio.SeqIO.XdnaIO docstring test ... ok Bio.SeqIO._index docstring test ... ok Bio.SeqIO._twoBitIO docstring test ... ok Bio.SeqRecord docstring test ... ok Bio.SeqUtils docstring test ... ok Bio.SeqUtils.CheckSum docstring test ... ok Bio.SeqUtils.CodonUsage docstring test ... ok Bio.SeqUtils.CodonUsageIndices docstring test ... ok Bio.SeqUtils.IsoelectricPoint docstring test ... ok Bio.SeqUtils.MeltingTemp docstring test ... ok Bio.SeqUtils.ProtParam docstring test ... ok Bio.SeqUtils.ProtParamData docstring test ... ok Bio.SeqUtils.lcc docstring test ... ok Bio.Sequencing docstring test ... ok Bio.Sequencing.Ace docstring test ... ok Bio.Sequencing.Applications docstring test ... ok Bio.Sequencing.Applications._Novoalign docstring test ... ok Bio.Sequencing.Applications._bwa docstring test ... ok Bio.Sequencing.Applications._samtools docstring test ... ok Bio.Sequencing.Phd docstring test ... ok Bio.SwissProt docstring test ... ok Bio.SwissProt.KeyWList docstring test ... ok Bio.UniGene docstring test ... ok Bio.UniProt docstring test ... ok Bio.UniProt.GOA docstring test ... ok Bio.Wise docstring test ... ok Bio.Wise.dnal docstring test ... ok Bio.Wise.psw docstring test ... ok Bio._utils docstring test ... ok Bio.bgzf docstring test ... ok Bio.codonalign docstring test ... ok Bio.codonalign.codonalignment docstring test ... ok Bio.codonalign.codonseq docstring test ... ok Bio.cpairwise2 docstring test ... ok Bio.kNN docstring test ... ok Bio.motifs docstring test ... ok Bio.motifs._pwm docstring test ... ok Bio.motifs.alignace docstring test ... ok Bio.motifs.applications docstring test ... ok Bio.motifs.applications._xxmotif docstring test ... ok Bio.motifs.clusterbuster docstring test ... ok Bio.motifs.jaspar docstring test ... ok Bio.motifs.jaspar.db docstring test ... ok Bio.motifs.mast docstring test ... ok Bio.motifs.matrix docstring test ... ok Bio.motifs.meme docstring test ... ok Bio.motifs.minimal docstring test ... ok Bio.motifs.pfm docstring test ... ok Bio.motifs.thresholds docstring test ... ok Bio.motifs.transfac docstring test ... ok Bio.motifs.xms docstring test ... ok Bio.pairwise2 docstring test ... ok Bio.phenotype docstring test ... ok Bio.phenotype.phen_micro docstring test ... ok Bio.phenotype.pm_fitting docstring test ... ok BioSQL docstring test ... ok BioSQL.BioSeq docstring test ... ok BioSQL.BioSeqDatabase docstring test ... ok BioSQL.DBUtils docstring test ... ok BioSQL.Loader docstring test ... ok ---------------------------------------------------------------------- Ran 554 tests in 311.175 seconds Skipping any tests requiring internet access Python version: 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0] Operating system: posix linux rm -fr -- /tmp/dh-xdg-rundir-WA6TPnj1 mv Tests_avoid/* Tests rmdir Tests_avoid make[1]: Leaving directory '/<>' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild rm -f -- debian/python3-biopython.substvars debian/python-biopython-doc.substvars debian/python3-biopython-sql.substvars rm -fr -- debian/.debhelper/generated/python3-biopython/ debian/python3-biopython/ debian/tmp/ debian/.debhelper/generated/python-biopython-doc/ debian/python-biopython-doc/ debian/.debhelper/generated/python3-biopython-sql/ debian/python3-biopython-sql/ rm -f debian/python-biopython-doc.debhelper.log debian/python3-biopython-sql.debhelper.log debian/python3-biopython.debhelper.log debian/rules override_dh_auto_install make[1]: Entering directory '/<>' dh_auto_install install -m0755 -d /<>/python-biopython-1.80\+dfsg/debian/tmp pybuild --install -i python{version} -p 3.11 --dest-dir /<>/python-biopython-1.80\+dfsg/debian/tmp I: pybuild base:240: /usr/bin/python3 setup.py install --root /<>/debian/tmp running install /usr/lib/python3/dist-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools. warnings.warn( running build running build_py running egg_info writing biopython.egg-info/PKG-INFO writing dependency_links to biopython.egg-info/dependency_links.txt writing requirements to biopython.egg-info/requires.txt writing top-level names to biopython.egg-info/top_level.txt reading manifest file 'biopython.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no previously-included files found matching 'Tests/Gck/DGVC_GCK.zip' warning: no previously-included files matching '*.pyc' found anywhere in distribution warning: no previously-included files matching '*.pyo' found anywhere in distribution warning: no previously-included files matching '*.py{}' found anywhere in distribution warning: no previously-included files matching '*.py-e' found anywhere in distribution adding license file 'LICENSE' adding license file 'LICENSE.rst' writing manifest file 'biopython.egg-info/SOURCES.txt' /usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'Bio.Align.substitution_matrices.data' as data is deprecated, please list it in `packages`. !! ############################ # Package would be ignored # ############################ Python recognizes 'Bio.Align.substitution_matrices.data' as an importable package, but it is not listed in the `packages` configuration of setuptools. 'Bio.Align.substitution_matrices.data' has been automatically added to the distribution only because it may contain data files, but this behavior is likely to change in future versions of setuptools (and therefore is considered deprecated). Please make sure that 'Bio.Align.substitution_matrices.data' is included as a package by using the `packages` configuration field or the proper discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" and "data files" on setuptools documentation page. !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'Bio.Entrez.DTDs' as data is deprecated, please list it in `packages`. !! ############################ # Package would be ignored # ############################ Python recognizes 'Bio.Entrez.DTDs' as an importable package, but it is not listed in the `packages` configuration of setuptools. 'Bio.Entrez.DTDs' has been automatically added to the distribution only because it may contain data files, but this behavior is likely to change in future versions of setuptools (and therefore is considered deprecated). Please make sure that 'Bio.Entrez.DTDs' is included as a package by using the `packages` configuration field or the proper discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" and "data files" on setuptools documentation page. !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'Bio.Entrez.XSDs' as data is deprecated, please list it in `packages`. !! ############################ # Package would be ignored # ############################ Python recognizes 'Bio.Entrez.XSDs' as an importable package, but it is not listed in the `packages` configuration of setuptools. 'Bio.Entrez.XSDs' has been automatically added to the distribution only because it may contain data files, but this behavior is likely to change in future versions of setuptools (and therefore is considered deprecated). Please make sure that 'Bio.Entrez.XSDs' is included as a package by using the `packages` configuration field or the proper discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" and "data files" on setuptools documentation page. !! check.warn(importable) running build_ext running install_lib creating /<>/debian/tmp/usr creating /<>/debian/tmp/usr/lib creating /<>/debian/tmp/usr/lib/python3.11 creating /<>/debian/tmp/usr/lib/python3.11/dist-packages creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/home creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/home/.cache creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/home/.cache/matplotlib copying /<>/.pybuild/cpython3_3.11/build/home/.cache/matplotlib/fontlist-v330.json -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/home/.cache/matplotlib creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/home/.config creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/home/.config/biopython creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/home/.config/biopython/Bio creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/home/.config/biopython/Bio/Entrez creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/home/.config/biopython/Bio/Entrez/XSDs creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/home/.config/biopython/Bio/Entrez/DTDs creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/home/.config/matplotlib creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/home/.t_coffee creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/home/.t_coffee/mcoffee creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/home/.t_coffee/methods creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/home/.t_coffee/cache creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/home/.t_coffee/plugins creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/home/.t_coffee/plugins/linux copying /<>/.pybuild/cpython3_3.11/build/tree1.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_seqio.aux -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_contributing.aux -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_seq_annot.aux -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_cluster.aux -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_pdb.aux -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_seq_annot.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_graphics.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_cookbook.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_blast.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_entrez.aux -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_learning.aux -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_cookbook.aux -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_contributing.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_phylo.aux -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_testing.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_uniprot.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_learning.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_searchio.aux -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_introduction.aux -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_kegg.aux -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_cluster.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_motifs.aux -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_phylo.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_testing.aux -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_kegg.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_quick_start.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_uniprot.aux -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_blast.aux -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_phenotype.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_pdb.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_graphics.aux -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_align.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_align.aux -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_seq_objects.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_seqio.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_appendix.aux -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_motifs.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_introduction.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_appendix.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_popgen.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_seq_objects.aux -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_entrez.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_phenotype.aux -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_quick_start.aux -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_searchio.tex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial copying /<>/.pybuild/cpython3_3.11/build/Doc/Tutorial/chapter_popgen.aux -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/Tutorial creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples/nmr copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/nmr/simplepredict.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples/nmr copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/nmr/noed.xpk -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples/nmr copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/beta.faa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/ls_orchid.fasta -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/clustal_run.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/ec_5.4.2.2.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/ls_orchid.gbk.bz2 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/opuntia.dnd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/Plates.csv -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/ls_orchid.gbk.bgz -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/fasta_dictionary.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/my_blat.psl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/my_blast.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/opuntia.aln -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/alpha.faa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/ACT_example.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/PF05371_seed.sth -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/fasta_iterator.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/swissprot.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/opuntia.fasta -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/m_cold.fasta -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/Proux_et_al_2002_Figure_6.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/simple.dnd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/ls_orchid.gbk -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/ls_orchid.gbk.gz -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/Doc/examples/www_blast.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio copying /<>/.pybuild/cpython3_3.11/build/Bio/cpairwise2.cpython-311-x86_64-linux-gnu.so -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PopGen creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PopGen/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PopGen/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PopGen/__pycache__ creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PopGen/GenePop creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PopGen/GenePop/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PopGen/GenePop/__pycache__/Controller.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PopGen/GenePop/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PopGen/GenePop/__pycache__/EasyController.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PopGen/GenePop/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PopGen/GenePop/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PopGen/GenePop/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PopGen/GenePop/__pycache__/FileParser.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PopGen/GenePop/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PopGen/GenePop/__pycache__/LargeFileParser.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PopGen/GenePop/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PopGen/GenePop/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PopGen/GenePop copying /<>/.pybuild/cpython3_3.11/build/Bio/PopGen/GenePop/Controller.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PopGen/GenePop copying /<>/.pybuild/cpython3_3.11/build/Bio/PopGen/GenePop/LargeFileParser.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PopGen/GenePop copying /<>/.pybuild/cpython3_3.11/build/Bio/PopGen/GenePop/FileParser.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PopGen/GenePop copying /<>/.pybuild/cpython3_3.11/build/Bio/PopGen/GenePop/EasyController.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PopGen/GenePop copying /<>/.pybuild/cpython3_3.11/build/Bio/PopGen/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PopGen creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Geo creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Geo/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Geo/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Geo/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Geo/__pycache__/Record.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Geo/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Geo/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Geo copying /<>/.pybuild/cpython3_3.11/build/Bio/Geo/Record.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Geo copying /<>/.pybuild/cpython3_3.11/build/Bio/LogisticRegression.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio copying /<>/.pybuild/cpython3_3.11/build/Bio/_utils.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/UniProt creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/UniProt/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/UniProt/__pycache__/GOA.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/UniProt/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/UniProt/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/UniProt/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/UniProt/GOA.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/UniProt copying /<>/.pybuild/cpython3_3.11/build/Bio/UniProt/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/UniProt copying /<>/.pybuild/cpython3_3.11/build/Bio/pairwise2.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/__pycache__/MarkovModel.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/__pycache__/SeqFeature.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/__pycache__/MaxEntropy.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/__pycache__/_utils.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/__pycache__/LogisticRegression.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/__pycache__/File.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/__pycache__/NaiveBayes.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/__pycache__/kNN.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/__pycache__/pairwise2.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/__pycache__/Seq.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/__pycache__/bgzf.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/__pycache__/SeqRecord.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/__pycache__ creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/Compound creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/Compound/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/Compound/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/Compound/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/Compound/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/Compound creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/Gene creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/Gene/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/Gene/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/Gene/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/Gene/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/Gene creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/__pycache__/REST.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/__pycache__ creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/Map creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/Map/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/Map/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/Map/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/Map/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/Map creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/KGML creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/KGML/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/KGML/__pycache__/KGML_parser.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/KGML/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/KGML/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/KGML/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/KGML/__pycache__/KGML_pathway.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/KGML/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/KGML/KGML_parser.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/KGML copying /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/KGML/KGML_pathway.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/KGML copying /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/KGML/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/KGML creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/Enzyme creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/Enzyme/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/Enzyme/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/Enzyme/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/Enzyme/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/Enzyme copying /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG copying /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/REST.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/Dice.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/kdtrees.cpython-311-x86_64-linux-gnu.so -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/ResidueDepth.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/FragmentMapper.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/NACCESS.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/PDBParser.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/PICIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/mmcifio.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/SCADIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/Chain.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/vectors.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/PDBParser.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/DSSP.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/NACCESS.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/ic_rebuild.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/StructureAlignment.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/Atom.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/Entity.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/HSExposure.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/PDBIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/MMCIF2Dict.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/FragmentMapper.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/StructureBuilder.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/qcprot.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/Dice.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/AbstractPropertyMap.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/Selection.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/Structure.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/Residue.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/internal_coords.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/NeighborSearch.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/PDBList.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/ic_data.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/Polypeptide.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/PDBExceptions.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/Model.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/MMCIFParser.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/cealign.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/Superimposer.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/SASA.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/parse_pdb_header.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/PSEA.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__pycache__/ResidueDepth.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/Entity.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/ic_data.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/PSEA.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/MMCIFParser.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/Polypeptide.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/SASA.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/Residue.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/StructureAlignment.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/Superimposer.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/QCPSuperimposer creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/QCPSuperimposer/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/QCPSuperimposer/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/QCPSuperimposer/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/QCPSuperimposer/qcprotmodule.c -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/QCPSuperimposer copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/QCPSuperimposer/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/QCPSuperimposer copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/QCPSuperimposer/qcprotmodule.cpython-311-x86_64-linux-gnu.so -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/QCPSuperimposer copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/NeighborSearch.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/PDBIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/ccealignmodule.c -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/qcprot.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/mmcifio.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/AbstractPropertyMap.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/PDBExceptions.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/Atom.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/mmtf creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/mmtf/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/mmtf/__pycache__/DefaultParser.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/mmtf/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/mmtf/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/mmtf/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/mmtf/__pycache__/mmtfio.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/mmtf/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/mmtf/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/mmtf copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/mmtf/DefaultParser.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/mmtf copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/mmtf/mmtfio.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/mmtf copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/vectors.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/StructureBuilder.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/Model.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/PDBList.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/Selection.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/cealign.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/parse_pdb_header.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/DSSP.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/Structure.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/Chain.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/MMCIF2Dict.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/internal_coords.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/kdtrees.c -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/SCADIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/ic_rebuild.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/PICIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/HSExposure.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB copying /<>/.pybuild/cpython3_3.11/build/Bio/PDB/ccealign.cpython-311-x86_64-linux-gnu.so -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Application creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Application/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Application/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Application/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Application/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Application creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO copying /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO/PhylipIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO/__pycache__/FastaIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO/__pycache__/StockholmIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO/__pycache__/Interfaces.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO/__pycache__/MsfIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO/__pycache__/MauveIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO/__pycache__/NexusIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO/__pycache__/MafIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO/__pycache__/PhylipIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO/__pycache__/ClustalIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO/__pycache__/EmbossIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO/ClustalIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO copying /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO/MafIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO copying /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO/MsfIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO copying /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO/NexusIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO copying /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO/EmbossIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO copying /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO/FastaIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO copying /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO/Interfaces.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO copying /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO/MauveIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO copying /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO copying /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO/StockholmIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO copying /<>/.pybuild/cpython3_3.11/build/Bio/cpairwise2module.c -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Affy creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Affy/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Affy/__pycache__/CelFile.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Affy/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Affy/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Affy/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Affy/CelFile.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Affy copying /<>/.pybuild/cpython3_3.11/build/Bio/Affy/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Affy creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/HMM creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/HMM/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/HMM/__pycache__/MarkovModel.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/HMM/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/HMM/__pycache__/Utilities.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/HMM/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/HMM/__pycache__/Trainer.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/HMM/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/HMM/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/HMM/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/HMM/__pycache__/DynamicProgramming.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/HMM/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/HMM/Utilities.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/HMM copying /<>/.pybuild/cpython3_3.11/build/Bio/HMM/DynamicProgramming.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/HMM copying /<>/.pybuild/cpython3_3.11/build/Bio/HMM/MarkovModel.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/HMM copying /<>/.pybuild/cpython3_3.11/build/Bio/HMM/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/HMM copying /<>/.pybuild/cpython3_3.11/build/Bio/HMM/Trainer.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/HMM creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Alphabet copying /<>/.pybuild/cpython3_3.11/build/Bio/Alphabet/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Alphabet copying /<>/.pybuild/cpython3_3.11/build/Bio/MaxEntropy.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Restriction creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Restriction/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Restriction/__pycache__/PrintFormat.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Restriction/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Restriction/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Restriction/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Restriction/__pycache__/Restriction.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Restriction/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Restriction/__pycache__/Restriction_Dictionary.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Restriction/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Restriction/PrintFormat.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Restriction copying /<>/.pybuild/cpython3_3.11/build/Bio/Restriction/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Restriction copying /<>/.pybuild/cpython3_3.11/build/Bio/Restriction/Restriction_Dictionary.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Restriction copying /<>/.pybuild/cpython3_3.11/build/Bio/Restriction/Restriction.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Restriction creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Pathway creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Pathway/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Pathway/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Pathway/__pycache__ creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Pathway/Rep creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Pathway/Rep/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Pathway/Rep/__pycache__/MultiGraph.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Pathway/Rep/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Pathway/Rep/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Pathway/Rep/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Pathway/Rep/__pycache__/Graph.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Pathway/Rep/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Pathway/Rep/MultiGraph.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Pathway/Rep copying /<>/.pybuild/cpython3_3.11/build/Bio/Pathway/Rep/Graph.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Pathway/Rep copying /<>/.pybuild/cpython3_3.11/build/Bio/Pathway/Rep/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Pathway/Rep copying /<>/.pybuild/cpython3_3.11/build/Bio/Pathway/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Pathway creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Data copying /<>/.pybuild/cpython3_3.11/build/Bio/Data/SCOPData.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Data creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Data/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Data/__pycache__/IUPACData.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Data/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Data/__pycache__/CodonTable.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Data/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Data/__pycache__/SCOPData.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Data/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Data/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Data/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Data/__pycache__/PDBData.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Data/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Data/IUPACData.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Data copying /<>/.pybuild/cpython3_3.11/build/Bio/Data/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Data copying /<>/.pybuild/cpython3_3.11/build/Bio/Data/CodonTable.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Data copying /<>/.pybuild/cpython3_3.11/build/Bio/Data/PDBData.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Data creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Compass creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Compass/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Compass/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Compass/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Compass/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Compass creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_model copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_model/hit.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_model creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_model/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_model/__pycache__/_base.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_model/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_model/__pycache__/hit.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_model/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_model/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_model/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_model/__pycache__/query.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_model/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_model/__pycache__/hsp.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_model/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_model/hsp.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_model copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_model/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_model copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_model/query.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_model copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_model/_base.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_model copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_utils.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/__pycache__/FastaIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/__pycache__/_utils.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/__pycache__/_index.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/__pycache__/BlatIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_index.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HmmerIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HmmerIO/hmmer3_domtab.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HmmerIO creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HmmerIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HmmerIO/__pycache__/hmmer3_tab.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HmmerIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HmmerIO/__pycache__/_base.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HmmerIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HmmerIO/__pycache__/hmmer3_domtab.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HmmerIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HmmerIO/__pycache__/hmmer3_text.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HmmerIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HmmerIO/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HmmerIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HmmerIO/__pycache__/hmmer2_text.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HmmerIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HmmerIO/hmmer2_text.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HmmerIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HmmerIO/hmmer3_text.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HmmerIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HmmerIO/hmmer3_tab.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HmmerIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HmmerIO/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HmmerIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HmmerIO/_base.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HmmerIO creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/ExonerateIO creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/ExonerateIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/ExonerateIO/__pycache__/_base.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/ExonerateIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/ExonerateIO/__pycache__/exonerate_cigar.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/ExonerateIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/ExonerateIO/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/ExonerateIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/ExonerateIO/__pycache__/exonerate_vulgar.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/ExonerateIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/ExonerateIO/__pycache__/exonerate_text.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/ExonerateIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/ExonerateIO/exonerate_cigar.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/ExonerateIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/ExonerateIO/exonerate_vulgar.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/ExonerateIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/ExonerateIO/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/ExonerateIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/ExonerateIO/_base.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/ExonerateIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/ExonerateIO/exonerate_text.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/ExonerateIO creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HHsuiteIO creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HHsuiteIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HHsuiteIO/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HHsuiteIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HHsuiteIO/__pycache__/hhsuite2_text.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HHsuiteIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HHsuiteIO/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HHsuiteIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HHsuiteIO/hhsuite2_text.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HHsuiteIO creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/BlastIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/BlastIO/blast_xml.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/BlastIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/BlastIO/blast_text.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/BlastIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/BlastIO/blast_tab.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/BlastIO creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/BlastIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/BlastIO/__pycache__/blast_xml.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/BlastIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/BlastIO/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/BlastIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/BlastIO/__pycache__/blast_text.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/BlastIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/BlastIO/__pycache__/blast_tab.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/BlastIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/BlastIO/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/BlastIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/FastaIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_legacy creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_legacy/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_legacy/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_legacy/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_legacy/__pycache__/NCBIStandalone.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_legacy/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_legacy/__pycache__/ParserSupport.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_legacy/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_legacy/ParserSupport.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_legacy copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_legacy/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_legacy copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_legacy/NCBIStandalone.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_legacy copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/BlatIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/InterproscanIO creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/InterproscanIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/InterproscanIO/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/InterproscanIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/InterproscanIO/__pycache__/interproscan_xml.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/InterproscanIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/InterproscanIO/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/InterproscanIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/InterproscanIO/interproscan_xml.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/InterproscanIO creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Medline creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Medline/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Medline/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Medline/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Medline/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Medline creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/phenotype creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/phenotype/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/phenotype/__pycache__/pm_fitting.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/phenotype/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/phenotype/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/phenotype/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/phenotype/__pycache__/phen_micro.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/phenotype/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/phenotype/phen_micro.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/phenotype copying /<>/.pybuild/cpython3_3.11/build/Bio/phenotype/pm_fitting.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/phenotype copying /<>/.pybuild/cpython3_3.11/build/Bio/phenotype/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/phenotype creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PhyloXMLIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/_utils.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/__pycache__/PhyloXML.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/__pycache__/BaseTree.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/__pycache__/_io.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/__pycache__/Consensus.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/__pycache__/_cdao_owl.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/__pycache__/PhyloXMLIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/__pycache__/NexusIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/__pycache__/CDAO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/__pycache__/_utils.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/__pycache__/CDAOIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/__pycache__/NeXMLIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/__pycache__/NeXML.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/__pycache__/TreeConstruction.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/__pycache__/Newick.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/__pycache__/NewickIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/_io.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/Applications creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/Applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/Applications/__pycache__/_Phyml.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/Applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/Applications/__pycache__/_Raxml.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/Applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/Applications/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/Applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/Applications/__pycache__/_Fasttree.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/Applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/Applications/_Fasttree.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/Applications copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/Applications/_Raxml.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/Applications copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/Applications/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/Applications copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/Applications/_Phyml.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/Applications copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/CDAO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/NeXML.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/NexusIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/Newick.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PhyloXML.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/NeXMLIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/_cdao_owl.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/BaseTree.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML/baseml.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML/yn00.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML/__pycache__/_paml.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML/__pycache__/_parse_codeml.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML/__pycache__/chi2.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML/__pycache__/yn00.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML/__pycache__/_parse_yn00.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML/__pycache__/baseml.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML/__pycache__/codeml.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML/__pycache__/_parse_baseml.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML/_parse_yn00.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML/_parse_baseml.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML/chi2.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML/_paml.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML/_parse_codeml.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML/codeml.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/CDAOIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/Consensus.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/NewickIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/TreeConstruction.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/UniGene creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/UniGene/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/UniGene/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/UniGene/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/UniGene/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/UniGene copying /<>/.pybuild/cpython3_3.11/build/Bio/NaiveBayes.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/__pycache__/Parser.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/Parser.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/XSDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/XSDs/IPGReportSet.xsd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/XSDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-common-atts1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_RNA.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/bookdoc_140101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-ali-namespace1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/MMDB_Features.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Sequence.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/xhtml-inlstyle-1.mod -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Rsite.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/references.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/Docsum_3_4.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-related-object1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-math1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Seqalign.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Project.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/taxon.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-archivearticle1-3-mathml3.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Entrezgene.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/isodia.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/isogrk1.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Seqfeat.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_all.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-list1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Variation.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/MMDB_Chemical_graph.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/common.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/nlmmedlinecitationset_120101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Submit.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Mim.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/INSD_INSDSeq.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_PCAssay.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_FeatDef.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/phrase.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_ScoreMat.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/Docsum_3_1.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Mim.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_ObjPrt.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/pubmed_100101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/PRF_General.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_ID1Access.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/Docsum_3_0.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/esearch.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-archivecustom-models1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Gene.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/nlmmedlinecitationset_150101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_BlastOutput.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/MMDB.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/archivecustom-models.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Seq_split.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Medline.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/bookdoc_130101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/BITS-embedded-index2.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/isoamsb.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-archivecustom-modules1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_MedArchive.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/nlmmedline_011101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_RNA.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-section1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/GenBank_General.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Medlars.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/PIR_General.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/list.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_BioTree.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/pubmed_130501.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_BioTree.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/isobox.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/INSD_INSDSeq.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Seqset.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/bookdoc_110101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Cdd.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_BlastDL.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/Docsum_3_3.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Submit.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/notat.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/isoamsn.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-para1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/nlmmedlinecitationset_130501.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/HomoloGene.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_General.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/PDB_General.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/xmlspecchars.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/EMBL_General.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NSE.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Variation.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/Docsum_3_4.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/ePost_020511.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/MMDB_Structural_model.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/isomscr.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/nlmcommon_090101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/bookdoc_150101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/archivecustom-modules.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Biblio.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/PDB_General.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/egquery.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_PCAssay.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/nlmmedlinecitationset_140101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/pubmed_100301.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Seqres.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/MMDB.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Protein.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Systems.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/eLink_090910.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Medline.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/isogrk2.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Seqloc.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/backmatter.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-journalmeta1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/pubmed_190101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NSE.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/bookdoc_120101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/nlmmedlinecitationset_100301.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Mime.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-modules1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Cn3d.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/nlmserials_100101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/eSpell.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/htmltable.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_SeqCode.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/HomoloGene.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-funding1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/pubmed_150101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_TxInit.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-mathml3-mathmlsetup1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Remap.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/esummary-v1.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-notat1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_General.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/isopub.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_ScoreMat.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/nlmmedlinecitationset_130101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/journalmeta.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/elink_020122.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Seqloc.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-XHTMLtablesetup1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Access.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/pubmed_020114.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/section.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_ID1Access.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/display.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/isocyr1.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Blast4.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/SP_General.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/nlmmedlinecitationset_100101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-display1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Remap.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/PRF_General.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/isogrk4.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_PCSubstance.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-common1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/pubmed_120101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/format.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/pubmed_090101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/math.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Seqalign.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_SeqTable.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Seqset.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-default-mixes1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Biblio.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/nlm-articleset-2.0.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-articlemeta1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/para.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/isonum.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/isogrk3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/nlmcatalogrecordset_170601.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/eInfo_020511.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/nlmcommon_011101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_PCSubstance.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/pmc-1.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/pubmed_180601.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/SP_General.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/isoamsa.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/chars.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/pubmed_130101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/Docsum_3_2.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/pubmed_110101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/nlmmedline_080101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/MMDB_Chemical_graph.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/articlemeta.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-link1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/nlmmedlinecitation_080101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-nlmcitation1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-default-classes1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_GBSeq.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Cn3d.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-phrase1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/mathml3.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/isocyr2.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/archivecustom-classes.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/Docsum_3_3.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Mime.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Entrez2.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/GenBank_General.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Seq_split.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_ID2Access.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/pubmed_140101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_SeqTable.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/mathml3-qname1.mod -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Seqfeat.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/archivecustom-mixes.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_TxInit.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Entity.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_SeqCode.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_TSeq.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/mathml2.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-archivecustom-classes1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/isotech.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/isomfrk.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_GBSeq.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Sequence.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Pub.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_BioSource.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/MMDB_Features.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/einfo.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/isolat2.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_MedArchive.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/BITS-question-answer2.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_TSeq.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/eSummary_041029.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/eSearch_020511.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-archivecustom-mixes1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/nlmsharedcatcit_090101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_BlastDL.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_ID2Access.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/OMSSA.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-mathml3-modules1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/nlmsharedcatcit_080101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/MMDB_Structural_model.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/mmlalias.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/Docsum_3_2.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/XHTMLtablesetup.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/pubmed_180101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/nlmcommon_080101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Blast4.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-format1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/modules.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Rsite.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-xmlspecchars1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Access.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Entrezgene.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/nlmmedlinecitation_011101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/isoamsr.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/isoamsc.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/nlmmedlinecitation_090101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Pub.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Project.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Medlars.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/mathml-in-pubmed.mod -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Seqres.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Entrez2.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/nlmmedline_090101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_BlastOutput.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/Docsum_3_1.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Gene.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Cdd.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/mmlextra.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/Docsum_3_0.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/mathmlsetup.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Protein.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/default-classes.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/eLink_101123.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/isolat1.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/EMBL_General.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/pubmed_080101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_PubMed.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/nlmmedlinecitationset_110101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_FeatDef.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/bookdoc_100301.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Organism.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/archivearticle.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/nlmserials_080101.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_ObjPrt.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_BioSource.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_PubMed.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/PIR_General.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/NCBI_Organism.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/isomopf.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-backmatter1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/isoamso.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/default-mixes.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-chars1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/OMSSA.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/xhtml-table-1.mod -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/link.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/JATS-references1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/GenBank copying /<>/.pybuild/cpython3_3.11/build/Bio/GenBank/utils.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/GenBank creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/GenBank/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/GenBank/__pycache__/Scanner.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/GenBank/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/GenBank/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/GenBank/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/GenBank/__pycache__/Record.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/GenBank/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/GenBank/__pycache__/utils.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/GenBank/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/GenBank/Scanner.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/GenBank copying /<>/.pybuild/cpython3_3.11/build/Bio/GenBank/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/GenBank copying /<>/.pybuild/cpython3_3.11/build/Bio/GenBank/Record.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/GenBank creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Cluster creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Cluster/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Cluster/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Cluster/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Cluster/cluster.c -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Cluster copying /<>/.pybuild/cpython3_3.11/build/Bio/Cluster/cluster.h -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Cluster copying /<>/.pybuild/cpython3_3.11/build/Bio/Cluster/_cluster.cpython-311-x86_64-linux-gnu.so -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Cluster copying /<>/.pybuild/cpython3_3.11/build/Bio/Cluster/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Cluster copying /<>/.pybuild/cpython3_3.11/build/Bio/Cluster/clustermodule.c -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Cluster creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Emboss creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Emboss/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Emboss/__pycache__/Primer3.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Emboss/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Emboss/__pycache__/Applications.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Emboss/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Emboss/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Emboss/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Emboss/__pycache__/PrimerSearch.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Emboss/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Emboss/Primer3.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Emboss copying /<>/.pybuild/cpython3_3.11/build/Bio/Emboss/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Emboss copying /<>/.pybuild/cpython3_3.11/build/Bio/Emboss/Applications.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Emboss copying /<>/.pybuild/cpython3_3.11/build/Bio/Emboss/PrimerSearch.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Emboss copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqFeature.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SwissProt creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SwissProt/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SwissProt/__pycache__/KeyWList.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SwissProt/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SwissProt/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SwissProt/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SwissProt/KeyWList.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Bio/SwissProt/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SwissProt creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/PirIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/__pycache__/FastaIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/__pycache__/NibIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/__pycache__/Interfaces.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/__pycache__/SffIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/__pycache__/QualityIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/__pycache__/SwissIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/__pycache__/PirIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/__pycache__/PdbIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/__pycache__/UniprotIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/__pycache__/PhdIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/__pycache__/TabIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/__pycache__/AceIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/__pycache__/SnapGeneIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/__pycache__/_index.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/__pycache__/AbiIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/__pycache__/IgIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/__pycache__/TwoBitIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/__pycache__/SeqXmlIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/__pycache__/GckIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/__pycache__/XdnaIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/__pycache__/InsdcIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/PhdIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/_index.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/XdnaIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/NibIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/SnapGeneIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/InsdcIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/GckIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/UniprotIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/SeqXmlIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/PdbIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/SwissIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/_twoBitIO.cpython-311-x86_64-linux-gnu.so -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/AbiIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/FastaIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/Interfaces.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/AceIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/_twoBitIO.c -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/TabIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/IgIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/QualityIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/SffIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/TwoBitIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Blast creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Blast/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Blast/__pycache__/NCBIWWW.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Blast/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Blast/__pycache__/Applications.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Blast/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Blast/__pycache__/NCBIXML.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Blast/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Blast/__pycache__/ParseBlastTable.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Blast/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Blast/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Blast/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Blast/__pycache__/Record.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Blast/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Blast/ParseBlastTable.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Blast copying /<>/.pybuild/cpython3_3.11/build/Bio/Blast/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Blast copying /<>/.pybuild/cpython3_3.11/build/Bio/Blast/NCBIXML.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Blast copying /<>/.pybuild/cpython3_3.11/build/Bio/Blast/Applications.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Blast copying /<>/.pybuild/cpython3_3.11/build/Bio/Blast/NCBIWWW.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Blast copying /<>/.pybuild/cpython3_3.11/build/Bio/Blast/Record.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Blast creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Nexus creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Nexus/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Nexus/__pycache__/Nexus.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Nexus/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Nexus/__pycache__/Nodes.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Nexus/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Nexus/__pycache__/StandardData.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Nexus/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Nexus/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Nexus/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Nexus/__pycache__/Trees.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Nexus/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Nexus/Trees.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Nexus copying /<>/.pybuild/cpython3_3.11/build/Bio/Nexus/cnexus.c -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Nexus copying /<>/.pybuild/cpython3_3.11/build/Bio/Nexus/StandardData.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Nexus copying /<>/.pybuild/cpython3_3.11/build/Bio/Nexus/cnexus.cpython-311-x86_64-linux-gnu.so -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Nexus copying /<>/.pybuild/cpython3_3.11/build/Bio/Nexus/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Nexus copying /<>/.pybuild/cpython3_3.11/build/Bio/Nexus/Nodes.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Nexus copying /<>/.pybuild/cpython3_3.11/build/Bio/Nexus/Nexus.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Nexus creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/__pycache__/ColorSpiral.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/__pycache__/DisplayRepresentation.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/__pycache__/BasicChromosome.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/__pycache__/KGML_vis.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/__pycache__/Comparative.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/__pycache__/Distribution.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/Distribution.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/BasicChromosome.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/KGML_vis.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/__pycache__/_LinearDrawer.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/__pycache__/_CircularDrawer.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/__pycache__/_Track.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/__pycache__/_CrossLink.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/__pycache__/_Colors.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/__pycache__/_FeatureSet.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/__pycache__/_GraphSet.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/__pycache__/_AbstractDrawer.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/__pycache__/_Graph.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/__pycache__/_Diagram.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/__pycache__/_Feature.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/_Feature.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/_LinearDrawer.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/_GraphSet.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/_FeatureSet.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/_Graph.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/_CrossLink.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/_Diagram.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/_CircularDrawer.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/_Colors.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/_Track.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram/_AbstractDrawer.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/DisplayRepresentation.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/ColorSpiral.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/Comparative.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils/ProtParam.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils/__pycache__/CodonUsage.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils/__pycache__/IsoelectricPoint.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils/__pycache__/CheckSum.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils/__pycache__/CodonUsageIndices.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils/__pycache__/ProtParamData.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils/__pycache__/MeltingTemp.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils/__pycache__/ProtParam.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils/__pycache__/lcc.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils/lcc.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils/CodonUsageIndices.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils/MeltingTemp.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils/CodonUsage.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils/ProtParamData.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils/CheckSum.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils/IsoelectricPoint.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SVDSuperimposer creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SVDSuperimposer/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SVDSuperimposer/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SVDSuperimposer/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SVDSuperimposer/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SVDSuperimposer creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/transfac.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/matrix.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/__pycache__/alignace.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/__pycache__/thresholds.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/__pycache__/minimal.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/__pycache__/matrix.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/__pycache__/clusterbuster.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/__pycache__/mast.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/__pycache__/transfac.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/__pycache__/xms.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/__pycache__/meme.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/__pycache__/pfm.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/clusterbuster.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/thresholds.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/minimal.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/mast.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/alignace.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/_pwm.c -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/pfm.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/applications creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/applications/__pycache__/_xxmotif.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/applications/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/applications/_xxmotif.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/applications copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/applications/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/applications copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/meme.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/xms.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/jaspar creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/jaspar/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/jaspar/__pycache__/db.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/jaspar/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/jaspar/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/jaspar/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/jaspar/db.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/jaspar copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/jaspar/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/jaspar copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/_pwm.cpython-311-x86_64-linux-gnu.so -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/ExPASy copying /<>/.pybuild/cpython3_3.11/build/Bio/ExPASy/Enzyme.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/ExPASy copying /<>/.pybuild/cpython3_3.11/build/Bio/ExPASy/Prosite.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/ExPASy creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/ExPASy/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/ExPASy/__pycache__/ScanProsite.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/ExPASy/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/ExPASy/__pycache__/cellosaurus.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/ExPASy/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/ExPASy/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/ExPASy/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/ExPASy/__pycache__/Prosite.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/ExPASy/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/ExPASy/__pycache__/Enzyme.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/ExPASy/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/ExPASy/__pycache__/Prodoc.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/ExPASy/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/ExPASy/Prodoc.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/ExPASy copying /<>/.pybuild/cpython3_3.11/build/Bio/ExPASy/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/ExPASy copying /<>/.pybuild/cpython3_3.11/build/Bio/ExPASy/ScanProsite.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/ExPASy copying /<>/.pybuild/cpython3_3.11/build/Bio/ExPASy/cellosaurus.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/ExPASy creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/codonalign creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/codonalign/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/codonalign/__pycache__/codonalignment.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/codonalign/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/codonalign/__pycache__/codonseq.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/codonalign/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/codonalign/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/codonalign/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/codonalign/codonseq.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/codonalign copying /<>/.pybuild/cpython3_3.11/build/Bio/codonalign/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/codonalign copying /<>/.pybuild/cpython3_3.11/build/Bio/codonalign/codonalignment.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/codonalign copying /<>/.pybuild/cpython3_3.11/build/Bio/MarkovModel.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing/__pycache__/Ace.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing/__pycache__/Phd.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing/Phd.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing/Applications creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing/Applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing/Applications/__pycache__/_samtools.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing/Applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing/Applications/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing/Applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing/Applications/__pycache__/_Novoalign.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing/Applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing/Applications/__pycache__/_bwa.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing/Applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing/Applications/_bwa.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing/Applications copying /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing/Applications/_Novoalign.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing/Applications copying /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing/Applications/_samtools.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing/Applications copying /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing/Applications/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing/Applications copying /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing copying /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing/Ace.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing copying /<>/.pybuild/cpython3_3.11/build/Bio/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio copying /<>/.pybuild/cpython3_3.11/build/Bio/Seq.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/nexus.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/__pycache__/maf.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/__pycache__/clustal.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/__pycache__/sam.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/__pycache__/msf.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/__pycache__/AlignInfo.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/__pycache__/exonerate.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/__pycache__/bigpsl.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/__pycache__/bigmaf.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/__pycache__/stockholm.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/__pycache__/nexus.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/__pycache__/psl.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/__pycache__/emboss.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/__pycache__/bed.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/__pycache__/mauve.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/__pycache__/a2m.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/__pycache__/hhr.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/__pycache__/interfaces.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/__pycache__/bigbed.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/__pycache__/fasta.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/__pycache__/tabular.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/__pycache__/phylip.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/emboss.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/AlignInfo.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications/_Muscle.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications/__pycache__/_Muscle.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications/__pycache__/_ClustalOmega.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications/__pycache__/_TCoffee.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications/__pycache__/_Probcons.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications/__pycache__/_MSAProbs.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications/__pycache__/_Clustalw.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications/__pycache__/_Prank.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications/__pycache__/_Dialign.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications/__pycache__/_Mafft.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications/_TCoffee.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications/_Mafft.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications/_MSAProbs.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications/_ClustalOmega.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications/_Clustalw.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications/_Dialign.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications/_Probcons.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications/_Prank.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/psl.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/hhr.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/maf.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/stockholm.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/bigmaf.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/mauve.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/tabular.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/exonerate.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/bed.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/clustal.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/_aligners.cpython-311-x86_64-linux-gnu.so -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/phylip.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/sam.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/interfaces.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/fasta.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/_aligners.c -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/__pycache__ creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/BLASTN -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/DAYHOFF -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/BLOSUM45 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/PAM30 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/BENNER22 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/SCHNEIDER -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/RAO -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/BENNER6 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/NUC.4.4 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/MEGABLAST -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/MCLACHLAN -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/LEVIN -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/BLOSUM90 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/BENNER74 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/BLOSUM62 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/RISLER -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/BLASTP -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/BLOSUM50 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/FENG -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/PAM70 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/JONES -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/GONNET1992 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/PAM250 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/STR -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/HOXD70 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/MDM78 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/JOHNSON -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/TRANS -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/BLOSUM80 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/data/GENETIC -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/substitution_matrices/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/bigbed.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/msf.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/bigpsl.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/a2m.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align copying /<>/.pybuild/cpython3_3.11/build/Bio/bgzf.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio copying /<>/.pybuild/cpython3_3.11/build/Bio/File.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/CAPS creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/CAPS/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/CAPS/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/CAPS/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/CAPS/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/CAPS creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/NMR copying /<>/.pybuild/cpython3_3.11/build/Bio/NMR/xpktools.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/NMR creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/NMR/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/NMR/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/NMR/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/NMR/__pycache__/xpktools.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/NMR/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/NMR/__pycache__/NOEtools.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/NMR/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/NMR/NOEtools.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/NMR copying /<>/.pybuild/cpython3_3.11/build/Bio/NMR/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/NMR creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP copying /<>/.pybuild/cpython3_3.11/build/Bio/SCOP/Cla.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SCOP/__pycache__/Des.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SCOP/__pycache__/Dom.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SCOP/__pycache__/Hie.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SCOP/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SCOP/__pycache__/Raf.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SCOP/__pycache__/Residues.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SCOP/__pycache__/Cla.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/SCOP/Hie.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP copying /<>/.pybuild/cpython3_3.11/build/Bio/SCOP/Des.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP copying /<>/.pybuild/cpython3_3.11/build/Bio/SCOP/Dom.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP copying /<>/.pybuild/cpython3_3.11/build/Bio/SCOP/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP copying /<>/.pybuild/cpython3_3.11/build/Bio/SCOP/Residues.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP copying /<>/.pybuild/cpython3_3.11/build/Bio/SCOP/Raf.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/TogoWS creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/TogoWS/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/TogoWS/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/TogoWS/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/TogoWS/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/TogoWS copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqRecord.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio copying /<>/.pybuild/cpython3_3.11/build/Bio/kNN.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Wise creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Wise/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Wise/__pycache__/psw.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Wise/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Wise/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Wise/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Wise/__pycache__/dnal.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Wise/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Wise/dnal.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Wise copying /<>/.pybuild/cpython3_3.11/build/Bio/Wise/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Wise copying /<>/.pybuild/cpython3_3.11/build/Bio/Wise/psw.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Wise copying /<>/.pybuild/cpython3_3.11/build/other_trees.nex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages copying /<>/.pybuild/cpython3_3.11/build/tree1.nwk -> /<>/debian/tmp/usr/lib/python3.11/dist-packages creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Muscle_tool.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_QCSuperimposer.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/pairwise2_testCases.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_KEGG_online.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Rebase copying /<>/.pybuild/cpython3_3.11/build/Tests/Rebase/crei.htm -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Rebase copying /<>/.pybuild/cpython3_3.11/build/Tests/Rebase/taqi.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Rebase copying /<>/.pybuild/cpython3_3.11/build/Tests/Rebase/pvuii.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Rebase copying /<>/.pybuild/cpython3_3.11/build/Tests/Rebase/pvuii.htm -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Rebase copying /<>/.pybuild/cpython3_3.11/build/Tests/Rebase/bamii.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Rebase copying /<>/.pybuild/cpython3_3.11/build/Tests/Rebase/foki.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Rebase copying /<>/.pybuild/cpython3_3.11/build/Tests/Rebase/cac81.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Rebase copying /<>/.pybuild/cpython3_3.11/build/Tests/Rebase/cac81.htm -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Rebase copying /<>/.pybuild/cpython3_3.11/build/Tests/Rebase/taqi.htm -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Rebase copying /<>/.pybuild/cpython3_3.11/build/Tests/Rebase/crei.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Rebase copying /<>/.pybuild/cpython3_3.11/build/Tests/Rebase/bamii.htm -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Rebase copying /<>/.pybuild/cpython3_3.11/build/Tests/Rebase/foki.htm -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Rebase copying /<>/.pybuild/cpython3_3.11/build/Tests/test_align.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_pairwise2.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Entrez_parser.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Seq_objs.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PhyloXML.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_CodonTable.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_hmmer3_text_index.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PopGen copying /<>/.pybuild/cpython3_3.11/build/Tests/PopGen/c2line.gen -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PopGen copying /<>/.pybuild/cpython3_3.11/build/Tests/PopGen/haplo3.gen -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PopGen copying /<>/.pybuild/cpython3_3.11/build/Tests/PopGen/haplo2.gen -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PopGen copying /<>/.pybuild/cpython3_3.11/build/Tests/PopGen/c2space.gen -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PopGen copying /<>/.pybuild/cpython3_3.11/build/Tests/PopGen/c3space.gen -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PopGen copying /<>/.pybuild/cpython3_3.11/build/Tests/PopGen/README -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PopGen copying /<>/.pybuild/cpython3_3.11/build/Tests/PopGen/c3line.gen -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PopGen copying /<>/.pybuild/cpython3_3.11/build/Tests/PopGen/haplo.gen -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PopGen copying /<>/.pybuild/cpython3_3.11/build/Tests/PopGen/big.gen -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PopGen creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Geo copying /<>/.pybuild/cpython3_3.11/build/Tests/Geo/GSE16.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Geo copying /<>/.pybuild/cpython3_3.11/build/Tests/Geo/GSM691.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Geo copying /<>/.pybuild/cpython3_3.11/build/Tests/Geo/GSM645.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Geo copying /<>/.pybuild/cpython3_3.11/build/Tests/Geo/soft_ex_family.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Geo copying /<>/.pybuild/cpython3_3.11/build/Tests/Geo/soft_ex_affy.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Geo copying /<>/.pybuild/cpython3_3.11/build/Tests/Geo/soft_ex_platform.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Geo copying /<>/.pybuild/cpython3_3.11/build/Tests/Geo/soft_ex_dual.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Geo copying /<>/.pybuild/cpython3_3.11/build/Tests/Geo/GSM700.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Geo copying /<>/.pybuild/cpython3_3.11/build/Tests/Geo/soft_ex_affy_chp.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Geo copying /<>/.pybuild/cpython3_3.11/build/Tests/Geo/soft_ex_series.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Geo copying /<>/.pybuild/cpython3_3.11/build/Tests/Geo/GSM804.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Geo copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_Superimposer.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/UniProt copying /<>/.pybuild/cpython3_3.11/build/Tests/UniProt/goa_yeast.gpa.59.gpa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/UniProt copying /<>/.pybuild/cpython3_3.11/build/Tests/UniProt/goa_human_sample.gpi -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/UniProt copying /<>/.pybuild/cpython3_3.11/build/Tests/UniProt/gene_association.goa_yeast.1.gaf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/UniProt copying /<>/.pybuild/cpython3_3.11/build/Tests/UniProt/goa_yeast.gaf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/UniProt copying /<>/.pybuild/cpython3_3.11/build/Tests/UniProt/gp_information.goa_yeast.28.gpi -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/UniProt copying /<>/.pybuild/cpython3_3.11/build/Tests/test_samtools_tool.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_motifs_online.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_interproscan_xml.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Align_bigmaf.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Align_clustal.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/common_BioSQL_online.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_Dice.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_RCSBFormats.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SCOP_online.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_GraphicsChromosome.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_MafIO_index.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SCOP_Astral.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Phylo.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Phylo_NeXML.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SCOP_Dom.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Align_tabular.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Blast_Record.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_KeyWList.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Align_phylip.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_HMMCasino.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Align_maf.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_StructureAlignment.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_ExPASy.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_exonerate_text_index.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SeqUtils.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_NCBITextParser.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_GenomeDiagram.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PAML_baseml.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_KDTree.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_blat_psl.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SCOP_Scop.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Uniprot.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Align_exonerate.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_blast_tab.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_Selection.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/common_BioSQL.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_MMCIFIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_AlignIO_ClustalIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_model.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_BWA_tool.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_PDBParser.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Prank_tool.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_blast_tab_index.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDBList.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_phenotype.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_ClustalOmega_tool.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Phylo_CDAO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SwissProt.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_blast_text.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_parse_pdb_header.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_NCBI_BLAST_tools.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Tutorial.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_exonerate_vulgar_index.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Wise.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_blast_xml.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_PSEA.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PAML_yn00.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Compass.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SeqIO_Insdc.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_PDBIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_KGML_graphics_online.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_kNN.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Align_a2m.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_BioSQL_sqlite3.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_ColorSpiral.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SeqIO_index.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_BioSQL_sqlite3_online.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_fasta_m10.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SeqIO_AbiIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_AlignIO_FastaIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/seq_tests_common.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_vectors.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SCOP_Cla.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_AlignIO_EmbossIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Align_emboss.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_NMR.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_AlignIO_MauveIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/requires_internet.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_EMBL_unittest.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SffIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_CAPS.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Ace.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_NCBIXML.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Affy.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SeqIO_Gck.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PhyloXML.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_MarkovModel.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Dialign_tool.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_KGML_graphics.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_pairwise_alignment_map.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_File.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_AlignIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_Superimposer.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_TogoWS.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_hmmer3_text.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_GraphicsBitmaps.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SeqIO_online.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_pairwise_aligner.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_hmmer3_domtab.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Entrez_parser.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_hmmer2_text.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_SMCRA.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_raxml_tool.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Phylo_matplotlib.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Entrez.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_NACCESS.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_BioSQL_MySQLdb_online.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_CEAligner.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SCOP_Raf.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Consensus.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Clustalw_tool.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_prodoc.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Nexus.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Probcons_tool.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_LogisticRegression.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Align_mauve.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Align_psl.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_translate.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_NCBI_qblast.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_BioSQL_mysql_connector_online.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PopGen_GenePop_nodepend.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Entrez_online.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_hmmer3_tab.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_KGML_nographics.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_Polypeptide.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Align_bigpsl.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_DSSP.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Pathway.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SeqIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_HMMGeneral.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_bgzf.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_blat_psl_index.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Application.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SeqIO_QualityIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_align_substitution_matrices.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_samtools_tool.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_AlignIO_convert.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_KEGG.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Mafft_tool.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_hmmer3_text_index.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_pairwise2.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Muscle_tool.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_Disordered.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/search_tests_common.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_phyml_tool.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_prosite.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SCOP_Hie.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_QCSuperimposer.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_hhsuite2_text.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_seq.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_CodonTable.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Align_hhr.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SeqIO_Xdna.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Chi2.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Fasttree_tool.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/pairwise2_testCases.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SeqIO_SeqXML.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Align_msf.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_hmmer3_domtab_index.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_write.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Restriction.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Align_fasta.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_BioSQL_psycopg2_online.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SeqIO_features.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_UniGene.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_EmbossPrimer.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Seq_objs.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Emboss.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_exonerate.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_TCoffee_tool.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_AlignInfo.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SeqIO_TwoBitIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SeqIO_SnapGene.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_cellosaurus.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Align_bigbed.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_hmmer2_text_index.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SeqRecord.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SeqIO_write.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Phylo_networkx.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_ProtParam.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SCOP_Residues.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_GraphicsDistribution.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_MMCIFParser.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Align_bed.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PQR.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_AlignIO_PhylipIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SCOP_Des.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Align_sam.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Medline.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_geo.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_pairwise2_no_C.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_SASA.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Align_stockholm.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_BioSQL_mysql_connector.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Enzyme.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SeqIO_NibIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_legacy.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_align.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PAML_codeml.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_hmmer3_tab_index.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Align_Alignment.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_TreeConstruction.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SVDSuperimposer.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SeqFeature.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Cluster.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_GenBank.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_FragmentMapper.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_motifs_online.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_phenotype_fit.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SeqIO_FastaIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_blast_xml_index.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_codonalign.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SearchIO_fasta_m10_index.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_motifs.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_KEGG_online.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_NaiveBayes.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Phd.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_internal_coords.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_GraphicsGeneral.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_SeqIO_PdbIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_MMCIF2Dict.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_PDB_Exposure.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_UniProt_GOA.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/__pycache__/test_Align_nexus.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Medline.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SeqRecord.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PopGen_GenePop_nodepend.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_exonerate.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_SASA.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_blast_xml_index.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_Polypeptide.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SeqIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_blast_xml.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Saf copying /<>/.pybuild/cpython3_3.11/build/Tests/Saf/saf1.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Saf creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/msf copying /<>/.pybuild/cpython3_3.11/build/Tests/msf/DOA_prot.msf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/msf copying /<>/.pybuild/cpython3_3.11/build/Tests/msf/W_prot.msf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/msf copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_bigbed.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MetaTool copying /<>/.pybuild/cpython3_3.11/build/Tests/MetaTool/Meta3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MetaTool copying /<>/.pybuild/cpython3_3.11/build/Tests/MetaTool/Meta6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MetaTool copying /<>/.pybuild/cpython3_3.11/build/Tests/MetaTool/Meta7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MetaTool copying /<>/.pybuild/cpython3_3.11/build/Tests/MetaTool/meta9.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MetaTool copying /<>/.pybuild/cpython3_3.11/build/Tests/MetaTool/Meta8.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MetaTool copying /<>/.pybuild/cpython3_3.11/build/Tests/MetaTool/Meta4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MetaTool copying /<>/.pybuild/cpython3_3.11/build/Tests/MetaTool/meta.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MetaTool copying /<>/.pybuild/cpython3_3.11/build/Tests/MetaTool/meta2.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MetaTool copying /<>/.pybuild/cpython3_3.11/build/Tests/out.bam -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_Alignment.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_NCBI_qblast.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_blat_psl.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_exonerate_text_index.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Emboss.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Mafft_tool.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SeqIO_PdbIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Restriction.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_phenotype.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Enzyme.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_MafIO_index.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SCOP_Dom.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PAML_yn00.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Fasttree_tool.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PhyloXML copying /<>/.pybuild/cpython3_3.11/build/Tests/PhyloXML/phyloxml_examples.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PhyloXML copying /<>/.pybuild/cpython3_3.11/build/Tests/PhyloXML/made_up.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PhyloXML copying /<>/.pybuild/cpython3_3.11/build/Tests/PhyloXML/bcl_2.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PhyloXML copying /<>/.pybuild/cpython3_3.11/build/Tests/PhyloXML/distribution.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PhyloXML copying /<>/.pybuild/cpython3_3.11/build/Tests/PhyloXML/o_tol_332_d_dollo.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PhyloXML copying /<>/.pybuild/cpython3_3.11/build/Tests/PhyloXML/example.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PhyloXML copying /<>/.pybuild/cpython3_3.11/build/Tests/PhyloXML/apaf.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PhyloXML creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SubsMat copying /<>/.pybuild/cpython3_3.11/build/Tests/SubsMat/protein_freq.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SubsMat copying /<>/.pybuild/cpython3_3.11/build/Tests/SubsMat/acc_rep_mat.pik -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SubsMat copying /<>/.pybuild/cpython3_3.11/build/Tests/SubsMat/aaDistrib.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SubsMat copying /<>/.pybuild/cpython3_3.11/build/Tests/SubsMat/protein_count.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SubsMat copying /<>/.pybuild/cpython3_3.11/build/Tests/SubsMat/redAltAADistrib.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SubsMat copying /<>/.pybuild/cpython3_3.11/build/Tests/SubsMat/redAADistrib.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SubsMat creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_23_hmmpfam_002.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/tab_30_hmmscan_004.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/domtab_31b1_hmmsearch_001.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/domtab_30_hmmscan_004.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_30_hmmscan_003.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_31b1_hmmsearch_001.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/domtab_30_hmmscan_002.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_22_hmmsearch_001.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_30_hmmscan_006.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/tab_31b1_hmmsearch_001.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_30_hmmscan_007.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_30_hmmscan_009.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_30_hmmsearch_003.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_30_hmmscan_005.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_22_hmmpfam_001.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/README.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_30_hmmscan_001.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_30_hmmscan_002.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/tab_30_hmmscan_001.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/domtab_31b1_hmmscan_001.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_30_hmmsearch_004.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/tab_30_hmmscan_003.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_23_hmmpfam_003.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_30_hmmscan_004.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/domtab_30_hmmscan_001.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/tab_31b1_hmmscan_001.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_30_hmmsearch_001.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_31b2_phmmer_001.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_23_hmmpfam_004.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/tab_30_hmmscan_002.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/domtab_30_hmmsearch_001.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_20_hmmsearch_001.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_31b2_hmmsearch_001.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_30_hmmsearch_005.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_30_hmmscan_008.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_24_hmmpfam_001.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_31b2_hmmsearch_002.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_30_hmmscan_010.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/domtab_30_hmmscan_003.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_23_hmmpfam_001.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_21_hmmpfam_001.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_31b2_hmmscan_001.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_30_hmmsearch_002.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/Hmmer/text_31b1_hmmscan_001.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SeqIO_index.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_NCBI_BLAST_tools.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Phylip copying /<>/.pybuild/cpython3_3.11/build/Tests/Phylip/six.dat -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Phylip copying /<>/.pybuild/cpython3_3.11/build/Tests/Phylip/horses.phy -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Phylip copying /<>/.pybuild/cpython3_3.11/build/Tests/Phylip/four.dat -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Phylip copying /<>/.pybuild/cpython3_3.11/build/Tests/Phylip/hennigian.phy -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Phylip copying /<>/.pybuild/cpython3_3.11/build/Tests/Phylip/two.dat -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Phylip copying /<>/.pybuild/cpython3_3.11/build/Tests/Phylip/reference_dna2.phy -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Phylip copying /<>/.pybuild/cpython3_3.11/build/Tests/Phylip/interlaced.phy -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Phylip copying /<>/.pybuild/cpython3_3.11/build/Tests/Phylip/reference_dna.phy -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Phylip copying /<>/.pybuild/cpython3_3.11/build/Tests/Phylip/five.dat -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Phylip copying /<>/.pybuild/cpython3_3.11/build/Tests/Phylip/horses.tree -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Phylip copying /<>/.pybuild/cpython3_3.11/build/Tests/Phylip/one.dat -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Phylip copying /<>/.pybuild/cpython3_3.11/build/Tests/Phylip/sequential2.phy -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Phylip copying /<>/.pybuild/cpython3_3.11/build/Tests/Phylip/interlaced2.phy -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Phylip copying /<>/.pybuild/cpython3_3.11/build/Tests/Phylip/three.dat -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Phylip copying /<>/.pybuild/cpython3_3.11/build/Tests/Phylip/sequential.phy -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Phylip copying /<>/.pybuild/cpython3_3.11/build/Tests/Phylip/random.phy -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Phylip copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_blast_tab_index.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/tmpdirprankmsaUxkEBM copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SeqIO_write.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_pairwise_aligner.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/KEGG copying /<>/.pybuild/cpython3_3.11/build/Tests/KEGG/ko00253.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/KEGG copying /<>/.pybuild/cpython3_3.11/build/Tests/KEGG/map00950.rea -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/KEGG copying /<>/.pybuild/cpython3_3.11/build/Tests/KEGG/compound.irregular -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/KEGG copying /<>/.pybuild/cpython3_3.11/build/Tests/KEGG/map03070.png -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/KEGG copying /<>/.pybuild/cpython3_3.11/build/Tests/KEGG/enzyme.4letter -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/KEGG copying /<>/.pybuild/cpython3_3.11/build/Tests/KEGG/ko01100.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/KEGG copying /<>/.pybuild/cpython3_3.11/build/Tests/KEGG/map01100.png -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/KEGG copying /<>/.pybuild/cpython3_3.11/build/Tests/KEGG/enzyme.sample -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/KEGG copying /<>/.pybuild/cpython3_3.11/build/Tests/KEGG/ko03070.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/KEGG copying /<>/.pybuild/cpython3_3.11/build/Tests/KEGG/enzyme.irregular -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/KEGG copying /<>/.pybuild/cpython3_3.11/build/Tests/KEGG/gene.sample -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/KEGG copying /<>/.pybuild/cpython3_3.11/build/Tests/KEGG/enzyme.new -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/KEGG copying /<>/.pybuild/cpython3_3.11/build/Tests/KEGG/ko00010.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/KEGG copying /<>/.pybuild/cpython3_3.11/build/Tests/KEGG/compound.sample -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/KEGG copying /<>/.pybuild/cpython3_3.11/build/Tests/test_HMMGeneral.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/seq_tests_common.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SCOP_Cla.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Nib copying /<>/.pybuild/cpython3_3.11/build/Tests/Nib/test_odd.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Nib copying /<>/.pybuild/cpython3_3.11/build/Tests/Nib/test_even_bigendian.nib -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Nib copying /<>/.pybuild/cpython3_3.11/build/Tests/Nib/test_even_littleendian.nib -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Nib copying /<>/.pybuild/cpython3_3.11/build/Tests/Nib/test_odd_bigendian.nib -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Nib copying /<>/.pybuild/cpython3_3.11/build/Tests/Nib/test_even.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Nib copying /<>/.pybuild/cpython3_3.11/build/Tests/Nib/test_odd_littleendian.nib -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Nib copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_sam.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Blast_Record.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/requires_internet.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_ClustalOmega_tool.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_BioSQL_mysql_connector.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/FSSP copying /<>/.pybuild/cpython3_3.11/build/Tests/FSSP/1cnv.fssp -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/FSSP creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/7CFN.cif -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/1AS5.cif -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/7DDO.pdb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/1A8O.rsa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/4ZHL.cif -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/1A7G.cif -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/1SSU_mod.cif -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/6WQA.cif -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/1SSU_mod.pdb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/4CUP.cif -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/1MOM_min.cif -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/1A8O.mmtf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/ions.pdb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/1A8O.asa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/2XHE.cif -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/disordered.pdb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/4ZHL.mmtf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/1LCD.cif -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/2n0n_M1.pdb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/3JQH.cif -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/1A8O.cif -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/1LCD.pdb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/2XHE.pdb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/2OFG.cif -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/alignment_file.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/7CFN_aligned.cif -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/lib_10_z_5.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/4Q9R_min.cif -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/1A8O.pdb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/2BEG.cif -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/2BEG_noheader.dssp -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/Ahmad_RASA.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/d256ba_.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/a_structure.cif -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/header.pdb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/2BEG.pdb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/dssp_xtra_Sander.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/occupancy.pdb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/Sander_RASA.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/1A8O.xyzr -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/a_structure.pdb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/4CUP.mmtf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/Wilke_RASA.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/2BEG.dssp -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB copying /<>/.pybuild/cpython3_3.11/build/Tests/PDB/Miller_RASA.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PDB creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/BWA copying /<>/.pybuild/cpython3_3.11/build/Tests/BWA/human_g1k_v37_truncated.fasta -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/BWA copying /<>/.pybuild/cpython3_3.11/build/Tests/BWA/HNSCC1_1_truncated.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/BWA copying /<>/.pybuild/cpython3_3.11/build/Tests/BWA/HNSCC1_2_truncated.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/BWA creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/TwoBit copying /<>/.pybuild/cpython3_3.11/build/Tests/TwoBit/sequence.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/TwoBit copying /<>/.pybuild/cpython3_3.11/build/Tests/TwoBit/sequence.long.2bit -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/TwoBit copying /<>/.pybuild/cpython3_3.11/build/Tests/TwoBit/sequence.littleendian.2bit -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/TwoBit copying /<>/.pybuild/cpython3_3.11/build/Tests/TwoBit/sequence.bigendian.2bit -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/TwoBit copying /<>/.pybuild/cpython3_3.11/build/Tests/test_BioSQL_mysql_connector_online.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_prosite.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_pairwise_alignment_map.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_AlignInfo.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Affy copying /<>/.pybuild/cpython3_3.11/build/Tests/Affy/affy_v4_example.CEL -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Affy copying /<>/.pybuild/cpython3_3.11/build/Tests/Affy/affy_v3_example.CEL -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Affy copying /<>/.pybuild/cpython3_3.11/build/Tests/biosql.ini.appveyor -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Entrez.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_fasta_m10_index.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_translate.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Phylo_NeXML.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_bigmaf.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Dialign_tool.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_CEAligner.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SeqIO_Gck.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_ExPASy.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NeXML copying /<>/.pybuild/cpython3_3.11/build/Tests/NeXML/treebase-record.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NeXML copying /<>/.pybuild/cpython3_3.11/build/Tests/NeXML/characters.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NeXML copying /<>/.pybuild/cpython3_3.11/build/Tests/NeXML/sets.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NeXML copying /<>/.pybuild/cpython3_3.11/build/Tests/NeXML/meta_taxa.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NeXML copying /<>/.pybuild/cpython3_3.11/build/Tests/NeXML/phenoscape.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NeXML copying /<>/.pybuild/cpython3_3.11/build/Tests/NeXML/taxa.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NeXML copying /<>/.pybuild/cpython3_3.11/build/Tests/NeXML/timetree.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NeXML copying /<>/.pybuild/cpython3_3.11/build/Tests/NeXML/edgelabels.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NeXML copying /<>/.pybuild/cpython3_3.11/build/Tests/NeXML/nexml.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NeXML copying /<>/.pybuild/cpython3_3.11/build/Tests/NeXML/trees.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NeXML copying /<>/.pybuild/cpython3_3.11/build/Tests/NeXML/meta_types.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NeXML copying /<>/.pybuild/cpython3_3.11/build/Tests/NeXML/trees-uris.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NeXML copying /<>/.pybuild/cpython3_3.11/build/Tests/NeXML/tolweb.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NeXML copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_bed.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Roche copying /<>/.pybuild/cpython3_3.11/build/Tests/Roche/E3MFGYR02_index_in_middle.sff -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Roche copying /<>/.pybuild/cpython3_3.11/build/Tests/Roche/E3MFGYR02_random_10_reads.qual -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Roche copying /<>/.pybuild/cpython3_3.11/build/Tests/Roche/E3MFGYR02_random_10_reads_no_trim.qual -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Roche copying /<>/.pybuild/cpython3_3.11/build/Tests/Roche/greek.sff -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Roche copying /<>/.pybuild/cpython3_3.11/build/Tests/Roche/E3MFGYR02_random_10_reads_no_trim.fasta -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Roche copying /<>/.pybuild/cpython3_3.11/build/Tests/Roche/E3MFGYR02_no_manifest.sff -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Roche copying /<>/.pybuild/cpython3_3.11/build/Tests/Roche/E3MFGYR02_random_10_reads.fasta -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Roche copying /<>/.pybuild/cpython3_3.11/build/Tests/Roche/E3MFGYR02_index_at_start.sff -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Roche copying /<>/.pybuild/cpython3_3.11/build/Tests/Roche/invalid_greek_E3MFGYR02.sff -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Roche copying /<>/.pybuild/cpython3_3.11/build/Tests/Roche/README.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Roche copying /<>/.pybuild/cpython3_3.11/build/Tests/Roche/E3MFGYR02_random_10_reads.sff -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Roche copying /<>/.pybuild/cpython3_3.11/build/Tests/Roche/triple_sff.idx -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Roche copying /<>/.pybuild/cpython3_3.11/build/Tests/Roche/E3MFGYR02_alt_index_at_start.sff -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Roche copying /<>/.pybuild/cpython3_3.11/build/Tests/Roche/triple_sff_rel_paths.idx -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Roche copying /<>/.pybuild/cpython3_3.11/build/Tests/Roche/E3MFGYR02_random_10_reads.sff.gz -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Roche copying /<>/.pybuild/cpython3_3.11/build/Tests/Roche/E3MFGYR02_alt_index_at_end.sff -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Roche copying /<>/.pybuild/cpython3_3.11/build/Tests/Roche/E3MFGYR02_alt_index_in_middle.sff -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Roche copying /<>/.pybuild/cpython3_3.11/build/Tests/Roche/paired.sff -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Roche copying /<>/.pybuild/cpython3_3.11/build/Tests/Roche/invalid_paired_E3MFGYR02.sff -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Roche copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_psl.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_GraphicsGeneral.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_codonalign.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_AlignIO_ClustalIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_NMR.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PQR.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MAF copying /<>/.pybuild/cpython3_3.11/build/Tests/MAF/bundle_without_target.maf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MAF copying /<>/.pybuild/cpython3_3.11/build/Tests/MAF/ucsc_mm9_chr10_bad.maf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MAF copying /<>/.pybuild/cpython3_3.11/build/Tests/MAF/humor.maf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MAF copying /<>/.pybuild/cpython3_3.11/build/Tests/MAF/ucsc_mm9_chr10.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MAF copying /<>/.pybuild/cpython3_3.11/build/Tests/MAF/cnksr3.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MAF copying /<>/.pybuild/cpython3_3.11/build/Tests/MAF/length_coords_mismatch.maf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MAF copying /<>/.pybuild/cpython3_3.11/build/Tests/MAF/bundle_without_target.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MAF copying /<>/.pybuild/cpython3_3.11/build/Tests/MAF/ucsc_test.maf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MAF copying /<>/.pybuild/cpython3_3.11/build/Tests/MAF/ucsc_mm9_chr10.maf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MAF copying /<>/.pybuild/cpython3_3.11/build/Tests/MAF/ucsc_test.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MAF copying /<>/.pybuild/cpython3_3.11/build/Tests/MAF/ucsc_mm9_chr10_big.mafindex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MAF copying /<>/.pybuild/cpython3_3.11/build/Tests/MAF/ucsc_mm9_chr10.mafindex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MAF copying /<>/.pybuild/cpython3_3.11/build/Tests/MAF/corrupt.idx -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MAF copying /<>/.pybuild/cpython3_3.11/build/Tests/MAF/ucsc_mm9_chr10_bad.mafindex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MAF copying /<>/.pybuild/cpython3_3.11/build/Tests/MAF/ucsc_mm9_chr10_big.maf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MAF copying /<>/.pybuild/cpython3_3.11/build/Tests/MAF/bug2453.maf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MAF copying /<>/.pybuild/cpython3_3.11/build/Tests/MAF/wrong_version.idx -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MAF copying /<>/.pybuild/cpython3_3.11/build/Tests/MAF/unfinished.idx -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MAF copying /<>/.pybuild/cpython3_3.11/build/Tests/MAF/invalid.idx -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MAF copying /<>/.pybuild/cpython3_3.11/build/Tests/common_BioSQL_online.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Phylo_CDAO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Affy.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_hmmer3_tab_index.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_BioSQL_sqlite3_online.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_msf.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Chi2.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Compass copying /<>/.pybuild/cpython3_3.11/build/Tests/Compass/comtest1 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Compass copying /<>/.pybuild/cpython3_3.11/build/Tests/Compass/comtest2 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Compass copying /<>/.pybuild/cpython3_3.11/build/Tests/test_phyml_tool.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_BioSQL_sqlite3.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_KEGG.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_KeyWList.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PAML_baseml.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_blast_tab.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Medline copying /<>/.pybuild/cpython3_3.11/build/Tests/Medline/pubmed_result2.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Medline copying /<>/.pybuild/cpython3_3.11/build/Tests/Medline/pubmed_result1.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Medline copying /<>/.pybuild/cpython3_3.11/build/Tests/Medline/pubmed_result3.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Medline creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_ner_vulgar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_ungapped_trans_vulgar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_affine_local.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_coding2coding_vulgar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_ungapped_vulgar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_q_multiple_vulgar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_genome2genome.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_protein2genome_vulgar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_dna2protein_cigar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_coding2genome.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_cdna2genome_cigar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_affine_local_cigar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_cdna2genome_vulgar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_protein2dna_cigar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_coding2genome_cigar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_ungapped_cigar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_ungapped_trans_cigar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_protein2dna_vulgar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_coding2coding_cigar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_coding2genome_vulgar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_ner_cigar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_coding2coding.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_ungapped_trans.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_24_m_protein2genome_met_intron.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_o_vulgar_cigar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_q_multiple.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_est2genome.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_24_m_protein2genome_revcomp_fshifts_cigar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_24_m_protein2genome_revcomp_fshifts_vulgar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/README.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_est2genome_cigar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_coding2coding_fshifts.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_ungapped.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_protein2dna_fshifts.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_o_cigar_fshifts2.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_24_m_protein2genome_revcomp_fshifts.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_dna2protein_vulgar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_est2genome_vulgar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_affine_local_vulgar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_q_none.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_cigar_fshifts.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_protein2genome_cigar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_ner.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_o_vulgar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_q_multiple_cigar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_dna2protein.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_24_m_protein2genome_met_intron_vulgar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_o_vulgar_fshifts2.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_cdna2genome.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_o_vulgar_fshifts.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_24_m_protein2genome_met_intron_cigar.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_protein2dna.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate copying /<>/.pybuild/cpython3_3.11/build/Tests/Exonerate/exn_22_m_protein2genome.exn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Exonerate creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/phenotype copying /<>/.pybuild/cpython3_3.11/build/Tests/phenotype/SmallPlates.csv -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/phenotype copying /<>/.pybuild/cpython3_3.11/build/Tests/phenotype/BadPlate.json -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/phenotype copying /<>/.pybuild/cpython3_3.11/build/Tests/phenotype/Plates.csv -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/phenotype copying /<>/.pybuild/cpython3_3.11/build/Tests/phenotype/Plate_2.json -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/phenotype copying /<>/.pybuild/cpython3_3.11/build/Tests/phenotype/Plate.json -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/phenotype copying /<>/.pybuild/cpython3_3.11/build/Tests/phenotype/SmallPlate_2.json -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/phenotype copying /<>/.pybuild/cpython3_3.11/build/Tests/phenotype/SmallPlate.json -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/phenotype copying /<>/.pybuild/cpython3_3.11/build/Tests/test_phenotype_fit.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_UniGene.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Consensus.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Phylo.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/TreeConstruction copying /<>/.pybuild/cpython3_3.11/build/Tests/TreeConstruction/neighbor_trees.tre -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/TreeConstruction copying /<>/.pybuild/cpython3_3.11/build/Tests/TreeConstruction/msa.phy -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/TreeConstruction copying /<>/.pybuild/cpython3_3.11/build/Tests/TreeConstruction/adam_refs.tre -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/TreeConstruction copying /<>/.pybuild/cpython3_3.11/build/Tests/TreeConstruction/consensus_refs.tre -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/TreeConstruction copying /<>/.pybuild/cpython3_3.11/build/Tests/TreeConstruction/upgma.tre -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/TreeConstruction copying /<>/.pybuild/cpython3_3.11/build/Tests/TreeConstruction/nj.tre -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/TreeConstruction copying /<>/.pybuild/cpython3_3.11/build/Tests/TreeConstruction/test.log -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/TreeConstruction copying /<>/.pybuild/cpython3_3.11/build/Tests/TreeConstruction/majority_ref.tre -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/TreeConstruction copying /<>/.pybuild/cpython3_3.11/build/Tests/TreeConstruction/trees.tre -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/TreeConstruction copying /<>/.pybuild/cpython3_3.11/build/Tests/TreeConstruction/pars3.tre -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/TreeConstruction copying /<>/.pybuild/cpython3_3.11/build/Tests/TreeConstruction/strict_refs.tre -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/TreeConstruction copying /<>/.pybuild/cpython3_3.11/build/Tests/TreeConstruction/nj_min.tre -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/TreeConstruction copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SCOP_Residues.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_stockholm.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Compass.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/UniGene copying /<>/.pybuild/cpython3_3.11/build/Tests/UniGene/Eca.1.2425.data -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/UniGene copying /<>/.pybuild/cpython3_3.11/build/Tests/UniGene/Mdm_partial.data -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/UniGene copying /<>/.pybuild/cpython3_3.11/build/Tests/UniGene/Hs.2.data -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/UniGene copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_blat_psl_index.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Phylo_matplotlib.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_GraphicsBitmaps.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_bgzf.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_ProtParam.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Xdna copying /<>/.pybuild/cpython3_3.11/build/Tests/Xdna/sample-a.xdna -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Xdna copying /<>/.pybuild/cpython3_3.11/build/Tests/Xdna/sample-c.xprt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Xdna copying /<>/.pybuild/cpython3_3.11/build/Tests/Xdna/sample-b.xdna -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Xdna copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_SMCRA.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/search_tests_common.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/common_BioSQL.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/output012.m10 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/output010.m10 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/wisteria.nu -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/output006.m10 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/flowers.pro.gz -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/f003 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/output015.m10 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/nucleotide_lib.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/rose.pro -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/dups.fasta -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/elderberry.nu -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/protein_lib.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/protein_m8CB.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/rosemary.pro -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/output004.m10 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/README -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/centaurea.nu -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/aster_no_wrap.pro -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/output011.m10 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/output013.m10 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/nucleotide_m8CB.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/output001.m10 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/output014.m10 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/protein_m8CC.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/tc_out.msf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/f001 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/aster.pro -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/output007.m10 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/sweetpea.nu -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/output008.m10 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/f002 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/lupine.nu -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/lavender.nu -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/output003.m10 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/output005.m10 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/loveliesbleeding.pro -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/output009.m10 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/output002.m10 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/fa01 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/phlox.nu -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/nucleotide_m8CC.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta copying /<>/.pybuild/cpython3_3.11/build/Tests/Fasta/output016.m10 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/CDAO copying /<>/.pybuild/cpython3_3.11/build/Tests/CDAO/test.cdao -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/CDAO creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Ace copying /<>/.pybuild/cpython3_3.11/build/Tests/Ace/seq.cap.ace -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Ace copying /<>/.pybuild/cpython3_3.11/build/Tests/Ace/contig1.ace -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Ace copying /<>/.pybuild/cpython3_3.11/build/Tests/Ace/consed_sample.ace -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Ace creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Prosite copying /<>/.pybuild/cpython3_3.11/build/Tests/Prosite/ps00432.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Prosite copying /<>/.pybuild/cpython3_3.11/build/Tests/Prosite/ps00165.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Prosite copying /<>/.pybuild/cpython3_3.11/build/Tests/Prosite/ps00159.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Prosite creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Prosite/Doc copying /<>/.pybuild/cpython3_3.11/build/Tests/Prosite/Doc/prosite.excerpt.doc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Prosite/Doc copying /<>/.pybuild/cpython3_3.11/build/Tests/Prosite/Doc/pdoc00144.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Prosite/Doc copying /<>/.pybuild/cpython3_3.11/build/Tests/Prosite/Doc/pdoc00640.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Prosite/Doc copying /<>/.pybuild/cpython3_3.11/build/Tests/Prosite/Doc/pdoc00100.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Prosite/Doc copying /<>/.pybuild/cpython3_3.11/build/Tests/Prosite/Doc/pdoc00424.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Prosite/Doc copying /<>/.pybuild/cpython3_3.11/build/Tests/Prosite/Doc/pdoc00787.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Prosite/Doc copying /<>/.pybuild/cpython3_3.11/build/Tests/Prosite/Doc/pdoc00340.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Prosite/Doc copying /<>/.pybuild/cpython3_3.11/build/Tests/Prosite/Doc/pdoc00113.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Prosite/Doc copying /<>/.pybuild/cpython3_3.11/build/Tests/Prosite/Doc/pdoc00149.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Prosite/Doc copying /<>/.pybuild/cpython3_3.11/build/Tests/Prosite/Doc/pdoc00472.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Prosite/Doc copying /<>/.pybuild/cpython3_3.11/build/Tests/Prosite/Doc/pdoc00933.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Prosite/Doc copying /<>/.pybuild/cpython3_3.11/build/Tests/Prosite/ps00107.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Prosite copying /<>/.pybuild/cpython3_3.11/build/Tests/Prosite/ps00546.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Prosite copying /<>/.pybuild/cpython3_3.11/build/Tests/Prosite/ps00488.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Prosite creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/esummary1.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/ncbi_mim.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/elink3.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/taxonomy.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/einfo4.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/esearch3.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/protein.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/esearch1.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/nucleotide1.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/elink7.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/esummary5.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/pubmed4.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/esearch2.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/elink8.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/esummary2.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/egquery1.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/esearch4.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/pubmed3.html -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/pubmed6.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/nucleotide2.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/elink4.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/epost1.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/esearch8.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/journals.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/elink1.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/esummary8.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/esearch7.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/espell.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/esummary3.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/esummary4.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/pubmed5.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/elink2.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/esummary9.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/efetch_pmc.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/esummary7.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/pubmed2.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/egquery2.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/einfo1.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/efetch_schemas.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/epost3.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/biosample.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/einfo2.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/elink5.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/pubmed7.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/epost2.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/einfo3.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/esearch6.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/pubmed1.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/esummary6.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/elink6.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez copying /<>/.pybuild/cpython3_3.11/build/Tests/Entrez/esearch5.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Entrez creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SnapGene copying /<>/.pybuild/cpython3_3.11/build/Tests/SnapGene/sample-e.dna -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SnapGene copying /<>/.pybuild/cpython3_3.11/build/Tests/SnapGene/sample-d.dna -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SnapGene copying /<>/.pybuild/cpython3_3.11/build/Tests/SnapGene/sample-f.dna -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SnapGene copying /<>/.pybuild/cpython3_3.11/build/Tests/SnapGene/pFA-KanMX4.dna -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SnapGene copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SwissProt.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_MMCIFIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SeqIO_Insdc.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_DSSP.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_PDBParser.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SeqIO_NibIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/HHsuite copying /<>/.pybuild/cpython3_3.11/build/Tests/HHsuite/4p79_hhsearch_server_NOssm.hhr -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/HHsuite copying /<>/.pybuild/cpython3_3.11/build/Tests/HHsuite/4y9h_hhsearch_server_NOssm.hhr -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/HHsuite copying /<>/.pybuild/cpython3_3.11/build/Tests/HHsuite/2uvo_hhblits_onlyheader.hhr -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/HHsuite copying /<>/.pybuild/cpython3_3.11/build/Tests/HHsuite/hhpred_9590198.hhr -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/HHsuite copying /<>/.pybuild/cpython3_3.11/build/Tests/HHsuite/hhsearch_q9bsu1_uniclust_w_ss_pfamA_30.hhr -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/HHsuite copying /<>/.pybuild/cpython3_3.11/build/Tests/HHsuite/README.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/HHsuite copying /<>/.pybuild/cpython3_3.11/build/Tests/HHsuite/2uvo_hhblits.hhr -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/HHsuite copying /<>/.pybuild/cpython3_3.11/build/Tests/HHsuite/2uvo_hhblits_emptytable.hhr -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/HHsuite copying /<>/.pybuild/cpython3_3.11/build/Tests/HHsuite/allx.hhr -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/HHsuite copying /<>/.pybuild/cpython3_3.11/build/Tests/HHsuite/2uvo_hhsearch.hhr -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/HHsuite copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SeqIO_features.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SeqIO_FastaIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_AlignIO_FastaIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NeuralNetwork copying /<>/.pybuild/cpython3_3.11/build/Tests/NeuralNetwork/enolase.fasta -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NeuralNetwork copying /<>/.pybuild/cpython3_3.11/build/Tests/NeuralNetwork/repeat.fasta -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NeuralNetwork copying /<>/.pybuild/cpython3_3.11/build/Tests/test_GraphicsChromosome.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_NCBITextParser.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/error_spaces.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/misc_rna_as_sanger.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/error_trunc_at_qual.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/wrapping_as_illumina.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/zero_length.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/example.fasta -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/error_trunc_at_seq.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/example.fastq.bgz -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/wrapping_as_solexa.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/error_trunc_in_plus.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/solexa_full_range_original_solexa.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/misc_dna_original_sanger.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/sanger_full_range_as_illumina.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/error_qual_unit_sep.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/longreads_as_solexa.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/error_qual_null.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/sanger_93.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/longreads_as_sanger.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/sanger_full_range_original_sanger.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/error_qual_vtab.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/error_qual_del.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/wrapping_as_sanger.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/illumina_full_range_as_sanger.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/misc_dna_as_sanger.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/error_diff_ids.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/solexa_full_range_as_illumina.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/solexa_full_range_as_solexa.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/misc_rna_as_solexa.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/error_no_qual.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/example_dos.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/illumina_faked.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/error_tabs.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/error_qual_tab.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/illumina_full_range_as_illumina.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/example.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/error_trunc_in_title.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/error_trunc_at_plus.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/illumina_full_range_original_illumina.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/error_long_qual.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/error_qual_escape.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/longreads_as_illumina.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/tricky.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/solexa_faked.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/sanger_full_range_as_solexa.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/solexa_full_range_as_sanger.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/misc_rna_original_sanger.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/example.qual -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/misc_dna_as_illumina.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/example.fastq.gz -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/error_double_qual.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/misc_rna_as_illumina.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/error_trunc_in_qual.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/illumina_full_range_as_solexa.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/wrapping_original_sanger.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/solexa_example.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/misc_dna_as_solexa.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/example_dos.fastq.bgz -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/error_short_qual.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/error_double_seq.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/sanger_full_range_as_sanger.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/error_trunc_in_seq.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/error_qual_space.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/longreads_original_sanger.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality copying /<>/.pybuild/cpython3_3.11/build/Tests/Quality/sanger_faked.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SamBam copying /<>/.pybuild/cpython3_3.11/build/Tests/SamBam/ex1_refresh.bam -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SamBam copying /<>/.pybuild/cpython3_3.11/build/Tests/SamBam/readme.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SamBam copying /<>/.pybuild/cpython3_3.11/build/Tests/SamBam/ex1.bam -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SamBam copying /<>/.pybuild/cpython3_3.11/build/Tests/SamBam/ex1_header.sam -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SamBam copying /<>/.pybuild/cpython3_3.11/build/Tests/SamBam/sam1.sam -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SamBam copying /<>/.pybuild/cpython3_3.11/build/Tests/SamBam/sam2.sam -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SamBam copying /<>/.pybuild/cpython3_3.11/build/Tests/SamBam/ex1_header.bam -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SamBam copying /<>/.pybuild/cpython3_3.11/build/Tests/SamBam/bam2_sorted.bam -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SamBam copying /<>/.pybuild/cpython3_3.11/build/Tests/SamBam/ex1.sam -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SamBam copying /<>/.pybuild/cpython3_3.11/build/Tests/SamBam/bam1_sorted.bam -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SamBam copying /<>/.pybuild/cpython3_3.11/build/Tests/SamBam/ex1.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SamBam copying /<>/.pybuild/cpython3_3.11/build/Tests/SamBam/bam2.bam -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SamBam copying /<>/.pybuild/cpython3_3.11/build/Tests/SamBam/bam1.bam -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SamBam copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_legacy.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_File.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_CAPS.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/NC_005816.fna -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/empty_version.gbk -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/tls_KDHP01000000.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/one_of.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/tsa_acropora.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/empty_accession.gbk -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/bad_origin_wrap_linear.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/no_origin_no_end.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/HM138502_output.gbk -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/cor6_6.gb.bgz -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/bad_loc_wrap.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/pBAD30.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/qualifier_escaping_write.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/NC_005816.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/no_end_marker.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/NC_005816.faa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/empty_feature_qualifier.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/NT_019265.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/invalid_locus_line_spacing.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/NC_000932.gb.bgz -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/NC_000932.faa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/KF527485_output.gbk -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/cor6_6.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/bad_origin_wrap.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/wrong_sequence_indent.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/origin_line.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/invalid_product.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/blank_seq.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/addgene-plasmid-11664-sequence-180430.gbk -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/negative_location.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/NC_005816.tsv -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/gbvrl1_start.seq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/NP_416719.gbwithparts -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/1MRR_A.gp -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/NC_005816.ffn -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/KF527485.gbk -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/HM138502.gbk -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/NC_000932.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/EU851978.gbk -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/bad_origin_wrap_CDS.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/DS830848.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/extra_keywords.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/dbsource_wrap.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/invalid_structured_comment.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/bad_origin_wrap_fuzzy.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/noref.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/qualifier_escaping_read.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/EU851978_output.gbk -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/arab1.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/addgene-plasmid-39296-sequence-49545.gbk -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/protein_refseq2.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/invalid_misc_feature.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/pri1.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/protein_refseq.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/iro.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank copying /<>/.pybuild/cpython3_3.11/build/Tests/GenBank/GU949562.1.gb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Cluster copying /<>/.pybuild/cpython3_3.11/build/Tests/Cluster/cyano.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Cluster copying /<>/.pybuild/cpython3_3.11/build/Tests/Cluster/README -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Cluster copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_internal_coords.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Enzymes copying /<>/.pybuild/cpython3_3.11/build/Tests/Enzymes/valine.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Enzymes copying /<>/.pybuild/cpython3_3.11/build/Tests/Enzymes/lactate.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Enzymes copying /<>/.pybuild/cpython3_3.11/build/Tests/Enzymes/proline.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Enzymes copying /<>/.pybuild/cpython3_3.11/build/Tests/Enzymes/lipoprotein.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Enzymes copying /<>/.pybuild/cpython3_3.11/build/Tests/test_cellosaurus.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_34_004.psl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_34_004.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_34_005.psl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/hg38.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/balAcu1.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_34_004.bed -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_34_003.psl.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/rna.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_34_004.sam -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/bed9.bed -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/bigbed_extended.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_35_002.psl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_34_005.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_35_001.bed -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/pslx_34_005.pslx -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_34_001.psl.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/dna_rna.psl.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_34_001.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/bed9.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/bed7.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/bed4.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/bed6.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_34_005.bed -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_34_001.sam -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/README.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/bigPsl.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/bed7.bed -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/bed12.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/pslx_34_001.pslx -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/pslx_34_004.pslx -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_34_001.psl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/dna_rna.sam -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_35_002.psl.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/dna_rna.bed -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_34_003.sam -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/pslx_35_002.pslx -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_34_005.psl.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/bed6.bed -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/bed5.bed -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_34_001.bed -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/fasta_34.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_34_003.psl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/bed12.bed -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_34_005.sam -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/dna_rna.psl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/bed5.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_35_001.psl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/mirna.pslx -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_34_004.psl.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/dna.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/bed8.bed -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/dna_rna.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/CAG33136.1.fasta -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/bed8.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/pslx_34_002.pslx -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/bigbedtest.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/pslx_34_003.pslx -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_35_001.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/bed3.bed -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/bigbedtest.psl.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_34_002.psl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_35_002.bed -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/pslx_35_001.pslx -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_34_003.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/bed4.bed -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_34_003.bed -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/psl_35_001.psl.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat copying /<>/.pybuild/cpython3_3.11/build/Tests/Blat/bed3.bb -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blat creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss copying /<>/.pybuild/cpython3_3.11/build/Tests/Emboss/no_oligo.primer3 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss copying /<>/.pybuild/cpython3_3.11/build/Tests/Emboss/short.primer3 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss copying /<>/.pybuild/cpython3_3.11/build/Tests/Emboss/emboss_pair_aln_full_blank_line.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss copying /<>/.pybuild/cpython3_3.11/build/Tests/Emboss/cds_reverse.primer3 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss copying /<>/.pybuild/cpython3_3.11/build/Tests/Emboss/needle_overhang.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss copying /<>/.pybuild/cpython3_3.11/build/Tests/Emboss/water_reverse3.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss copying /<>/.pybuild/cpython3_3.11/build/Tests/Emboss/NirK.primer3 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss copying /<>/.pybuild/cpython3_3.11/build/Tests/Emboss/needle_asis.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss copying /<>/.pybuild/cpython3_3.11/build/Tests/Emboss/cds_forward.primer3 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss copying /<>/.pybuild/cpython3_3.11/build/Tests/Emboss/needle_nobrief_multiple.pair -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss copying /<>/.pybuild/cpython3_3.11/build/Tests/Emboss/matcher_pair.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss copying /<>/.pybuild/cpython3_3.11/build/Tests/Emboss/water_reverse2.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss copying /<>/.pybuild/cpython3_3.11/build/Tests/Emboss/internal_oligo.primer3 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss copying /<>/.pybuild/cpython3_3.11/build/Tests/Emboss/needle.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss copying /<>/.pybuild/cpython3_3.11/build/Tests/Emboss/NirK_full.primer3 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss copying /<>/.pybuild/cpython3_3.11/build/Tests/Emboss/bac_find.primer3 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss copying /<>/.pybuild/cpython3_3.11/build/Tests/Emboss/alignret.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss copying /<>/.pybuild/cpython3_3.11/build/Tests/Emboss/water_reverse1.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss copying /<>/.pybuild/cpython3_3.11/build/Tests/Emboss/water2.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss copying /<>/.pybuild/cpython3_3.11/build/Tests/Emboss/matcher_simple.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss copying /<>/.pybuild/cpython3_3.11/build/Tests/Emboss/water_reverse4.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss copying /<>/.pybuild/cpython3_3.11/build/Tests/Emboss/water.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss copying /<>/.pybuild/cpython3_3.11/build/Tests/Emboss/bac_find.psearch -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Emboss creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Clustalw copying /<>/.pybuild/cpython3_3.11/build/Tests/Clustalw/muscle.a2m -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Clustalw copying /<>/.pybuild/cpython3_3.11/build/Tests/Clustalw/probcons.aln -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Clustalw copying /<>/.pybuild/cpython3_3.11/build/Tests/Clustalw/clustalw.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Clustalw copying /<>/.pybuild/cpython3_3.11/build/Tests/Clustalw/muscle.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Clustalw copying /<>/.pybuild/cpython3_3.11/build/Tests/Clustalw/clustalw.aln -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Clustalw copying /<>/.pybuild/cpython3_3.11/build/Tests/Clustalw/msaprobs.aln -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Clustalw copying /<>/.pybuild/cpython3_3.11/build/Tests/Clustalw/msaprobs.a2m -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Clustalw copying /<>/.pybuild/cpython3_3.11/build/Tests/Clustalw/promals3d.aln -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Clustalw copying /<>/.pybuild/cpython3_3.11/build/Tests/Clustalw/opuntia.aln -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Clustalw copying /<>/.pybuild/cpython3_3.11/build/Tests/Clustalw/kalign.aln -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Clustalw copying /<>/.pybuild/cpython3_3.11/build/Tests/Clustalw/temp horses.fasta -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Clustalw copying /<>/.pybuild/cpython3_3.11/build/Tests/Clustalw/clustalw.a2m -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Clustalw copying /<>/.pybuild/cpython3_3.11/build/Tests/Clustalw/msaprobs.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Clustalw copying /<>/.pybuild/cpython3_3.11/build/Tests/Clustalw/kalign.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Clustalw copying /<>/.pybuild/cpython3_3.11/build/Tests/Clustalw/muscle.aln -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Clustalw copying /<>/.pybuild/cpython3_3.11/build/Tests/Clustalw/probcons.a2m -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Clustalw copying /<>/.pybuild/cpython3_3.11/build/Tests/Clustalw/protein.aln -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Clustalw copying /<>/.pybuild/cpython3_3.11/build/Tests/Clustalw/kalign.a2m -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Clustalw copying /<>/.pybuild/cpython3_3.11/build/Tests/Clustalw/odd_consensus.aln -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Clustalw copying /<>/.pybuild/cpython3_3.11/build/Tests/Clustalw/hedgehog.aln -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Clustalw copying /<>/.pybuild/cpython3_3.11/build/Tests/Clustalw/probcons.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Clustalw copying /<>/.pybuild/cpython3_3.11/build/Tests/test_GraphicsDistribution.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_AlignIO_PhylipIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_RCSBFormats.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_emboss.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/uni003 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/F2CXE6.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/P60904.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/H2CNN8.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/O95832.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/README -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/sp012 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/F2CXE6.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/Q13639.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/sp013 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/Q7Z739.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/O23729.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/P97881.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/P39896.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/sp015 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/P84001.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/P68308.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/P0A186.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/multi_ex.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/P0CK95.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/uni001 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/multi_ex.gff -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/uni002 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/sp016 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/Q13639.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/multi_ex.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/Q13454.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/multi_ex.list -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/multi_ex.rdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/keywlist2.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/multi_ex.fasta -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/H2CNN8.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/P16235.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/keywlist.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/P60137.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/R5HY77.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/P62258.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/SwissProt/P04439.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Tests/biosql.ini.sample -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Clustalw_tool.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_mauve.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_NACCESS.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_BWA_tool.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_hhr.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2011L_tblastn_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2014L_blastn_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2010L_blastp_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2226_tblastn_002.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_blastn_001.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2226_blastx_002.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2226_blastx_004.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/tab_2228_tblastx_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_blastx_001.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_blastp_004.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_tblastx_004.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2011L_blastp_006.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2011L_blastp_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_blastx_003.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2011L_blastp_004.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_tblastn_005.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2010L_phiblast_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2900_blastp_001.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2011L_blastp_002.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2010L_blastp_007.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2222_blastp_001.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/wnts.xml.bgz -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2010L_blastn_002.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2010L_blastp_003.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2900_blastx_001_v2.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2900_blastn_001_v2.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/mock_wait.html -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2010L_phiblast_002.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/tab_2226_tblastn_011.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2201L_blastx_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2012L_psiblast_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/tab_2226_tblastn_004.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_blastn_003.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2212L_blastp_001.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/mock_short_result.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2011L_phiblast_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2011L_phiblast_002.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2212L_blastn_001.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2010L_blastp_005.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/mock_short_empty.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2010L_blastn_004.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2010L_blastn_003.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2011L_blastp_003.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2011L_blastx_002.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_blastp_005.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_blastp_002.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2202L_blastn_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2010L_phiblast_003.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2226_tblastn_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/tab_2226_tblastn_008.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/mirna.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2010L_blastp_004.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2900_tblastx_001.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/README.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2226_blastp_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/tab_2226_tblastn_012.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2010L_tblastn_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2226_blastp_002.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2226_blastn_002.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2900_tblastx_001_v2.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2102L_blastn_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2218L_blastp_001.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/tab_2226_tblastn_013.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_blastp_001.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2226_tblastx_002.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2226_blastx_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_blastn_005.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_blastn_002.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_tblastn_004.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/mirna.tab -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2212L_tblastx_001.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2222L_blastx_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/mock_disco.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2010L_tblastn_002.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_tblastx_003.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/tab_2226_tblastn_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_blastn_006.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/mock_orchid.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/wnts.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2208L_psiblast_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_tblastn_001.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2215L_blastx_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_tblastx_002.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/tab_2226_tblastn_002.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/tab_2226_tblastn_005.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_blastp_003.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2226_tblastx_003.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/tab_2226_tblastn_007.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2011L_blastx_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/tab_2226_tblastn_009.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2011L_phiblast_003.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2226_tblastn_003.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2010L_blastp_006.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2226_tblastx_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2230_blastp_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2221L_blastp_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2900_blastx_001.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2011L_tblastx_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2218_blastp_002.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/mock_actin.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_tblastn_003.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2011L_blastn_003.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2218_blastp_001.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2011L_blastn_004.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/tab_2226_tblastn_010.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2226_blastn_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/tab_2228_tblastn_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2212L_blastx_001.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2222_blastx_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2011L_blastp_007.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/tab_2226_tblastn_006.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2900_tblastn_001.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2226_blastp_004.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2900_blastn_001.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2011L_tblastn_002.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2900_blastp_001_v2.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_blastn_004.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2220L_blastx_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2014L_psiblast_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2010L_blastp_002.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2011L_blastn_002.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2202L_blastp_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2226_blastn_003.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/tab_2226_tblastn_003.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_blastx_002.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2011L_blastn_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2011L_blastp_005.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2010L_blastn_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2226_blastn_004.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2226_blastx_003.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2218L_rpsblast_001.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/mock_pcr.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_tblastn_002.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2226_blastp_003.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2226_tblastx_004.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2010L_blastx_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2202L_blastn_002.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2900_tblastn_001_v2.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/html_msgid_29_blastx_001.html -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_blastx_004.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2222_blastx_001.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2226_tblastn_004.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2010L_tblastx_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2212L_tblastn_001.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2010L_blastx_002.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/xml_2226_tblastx_001.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2216L_tblastn_001.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/Blast/text_2220L_blastx_002.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Blast copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SCOP_Des.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_prodoc.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Phd copying /<>/.pybuild/cpython3_3.11/build/Tests/Phd/phd_454 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Phd copying /<>/.pybuild/cpython3_3.11/build/Tests/Phd/phd2 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Phd copying /<>/.pybuild/cpython3_3.11/build/Tests/Phd/phd_solexa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Phd copying /<>/.pybuild/cpython3_3.11/build/Tests/Phd/phd1 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Phd creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Nexus copying /<>/.pybuild/cpython3_3.11/build/Tests/Nexus/vSysLab_Heptascelio_no-states_10+chars.nex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Nexus copying /<>/.pybuild/cpython3_3.11/build/Tests/Nexus/test.new -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Nexus copying /<>/.pybuild/cpython3_3.11/build/Tests/Nexus/codonposset.nex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Nexus copying /<>/.pybuild/cpython3_3.11/build/Tests/Nexus/vSysLab_Ganaspidium_multistate.nex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Nexus copying /<>/.pybuild/cpython3_3.11/build/Tests/Nexus/test_Nexus_input.nex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Nexus copying /<>/.pybuild/cpython3_3.11/build/Tests/Nexus/vSysLab_Oreiscelio_discrete+continuous.nex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Nexus copying /<>/.pybuild/cpython3_3.11/build/Tests/Nexus/int_node_labels.nwk -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Nexus copying /<>/.pybuild/cpython3_3.11/build/Tests/Nexus/ByteOrderMarkFile.nwk -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Nexus copying /<>/.pybuild/cpython3_3.11/build/Tests/Nexus/bats.nex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Nexus creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/tmpdirprankmsaQlhkz4 copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_phylip.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_PSEA.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/InterProScan copying /<>/.pybuild/cpython3_3.11/build/Tests/InterProScan/test_001.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/InterProScan copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_hmmer3_domtab_index.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SCOP_online.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_by_obj_linear.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/square_test.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_long_OCTO.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_arrow_shafts.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/random_organism.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_region_linear.svg -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_labels.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_long_JAGGY.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_by_obj_frag_linear.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_long_JAGGY_c.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/tRNA_chrom_sf.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_region_circular.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_by_obj_circular.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/labels_default_c.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_by_obj_frag_circular.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_bigarrow_shafts_c.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/scatter_test_1.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_long_ARROW_c.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/map03070_transparency.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/map01100_widths.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/map03070_colors.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_short_BIGARROW_c.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigils.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_short_JAGGY_c.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_bigarrow_shafts.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/multi_bar.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/tRNA_chrom.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_long_BIGARROW.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_region_linear.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/README -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/line_graph_c.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_long_OCTO_c.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/simple_bar.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_short_OCTO_c.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_short_OCTO.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/organism.svg -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_by_meth_circular.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_labels_c.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/spiral_test.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_arrows_c.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/line_graph.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_short_ARROW_c.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_short_ARROW.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_long_ARROW.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_short_BIGARROW.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_short_JAGGY.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_arrows.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_region_circular.svg -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/organism.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_by_meth_linear.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/scatter_test_7.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_arrow_shafts_c.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/map01100_transparency.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/map03070_original.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigils_c.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/labels_default.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/organism.eps -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/map01100_original.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_long_BIGARROW_c.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Prank_tool.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_blast_text.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Cluster.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SffIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Wise.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_fasta.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_MMCIF2Dict.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_raxml_tool.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Ace.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_PDBIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/EMBL copying /<>/.pybuild/cpython3_3.11/build/Tests/EMBL/patents.embl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/EMBL copying /<>/.pybuild/cpython3_3.11/build/Tests/EMBL/SC10H5.embl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/EMBL copying /<>/.pybuild/cpython3_3.11/build/Tests/EMBL/Human_contigs.embl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/EMBL copying /<>/.pybuild/cpython3_3.11/build/Tests/EMBL/DD231055_edited2.embl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/EMBL copying /<>/.pybuild/cpython3_3.11/build/Tests/EMBL/RepBase23.02.embl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/EMBL copying /<>/.pybuild/cpython3_3.11/build/Tests/EMBL/kipo_prt_sample.embl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/EMBL copying /<>/.pybuild/cpython3_3.11/build/Tests/EMBL/U87107.embl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/EMBL copying /<>/.pybuild/cpython3_3.11/build/Tests/EMBL/location_wrap.embl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/EMBL copying /<>/.pybuild/cpython3_3.11/build/Tests/EMBL/DS830848.embl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/EMBL copying /<>/.pybuild/cpython3_3.11/build/Tests/EMBL/TRBG361.embl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/EMBL copying /<>/.pybuild/cpython3_3.11/build/Tests/EMBL/hla_3260_sample.imgt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/EMBL copying /<>/.pybuild/cpython3_3.11/build/Tests/EMBL/AAA03323.embl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/EMBL copying /<>/.pybuild/cpython3_3.11/build/Tests/EMBL/xx_after_co.embl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/EMBL copying /<>/.pybuild/cpython3_3.11/build/Tests/EMBL/epo_prt_selection.embl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/EMBL copying /<>/.pybuild/cpython3_3.11/build/Tests/EMBL/embl_with_0_line.embl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/EMBL copying /<>/.pybuild/cpython3_3.11/build/Tests/EMBL/DD231055_edited.embl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/EMBL copying /<>/.pybuild/cpython3_3.11/build/Tests/EMBL/A04195.imgt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/EMBL copying /<>/.pybuild/cpython3_3.11/build/Tests/EMBL/AE017046.embl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/EMBL copying /<>/.pybuild/cpython3_3.11/build/Tests/EMBL/101ma_no_coords.embl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/EMBL copying /<>/.pybuild/cpython3_3.11/build/Tests/test_BioSQL_psycopg2_online.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/motifs/fourrows.pfm -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/motifs/clusterbuster.pfm.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/motifs/alignace.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/motifs/MA0056.1.transfac -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/motifs/transfac.dat -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/motifs/REB1.pfm -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/motifs/fourcolumns.pfm -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/motifs/mast.Klf1-200.cd.oops.xml.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/motifs/Arnt.sites -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/motifs/meme.INO_up800.classic.oops.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/motifs/mast.crp0.de.oops.txt.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/motifs/meme.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/motifs/abdb.xms -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/motifs/minimal_test.meme -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/motifs/mast.adh.de.oops.html.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/motifs/mast.crp0.de.oops.txt.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/motifs/mast.Klf1-200.cd.oops.xml.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/motifs/meme.adh.classic.oops.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/motifs/meme.psp_test.classic.zoops.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/motifs/SRF.pfm -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/motifs/clusterbuster.pfm -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/motifs/meme.farntrans5.classic.anr.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/motifs/mast.adh.de.oops.html.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/motifs copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SeqIO_Xdna.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Application.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Mauve copying /<>/.pybuild/cpython3_3.11/build/Tests/Mauve/separate.xmfa.bbcols -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Mauve copying /<>/.pybuild/cpython3_3.11/build/Tests/Mauve/simple_short.xmfa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Mauve copying /<>/.pybuild/cpython3_3.11/build/Tests/Mauve/simple.xmfa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Mauve copying /<>/.pybuild/cpython3_3.11/build/Tests/Mauve/mm9.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Mauve copying /<>/.pybuild/cpython3_3.11/build/Tests/Mauve/separate.xmfa.backbone -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Mauve copying /<>/.pybuild/cpython3_3.11/build/Tests/Mauve/combined.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Mauve copying /<>/.pybuild/cpython3_3.11/build/Tests/Mauve/separate.xmfa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Mauve copying /<>/.pybuild/cpython3_3.11/build/Tests/Mauve/combined.xmfa.bbcols -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Mauve copying /<>/.pybuild/cpython3_3.11/build/Tests/Mauve/simple.xmfa.backbone -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Mauve copying /<>/.pybuild/cpython3_3.11/build/Tests/Mauve/combined.xmfa.backbone -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Mauve copying /<>/.pybuild/cpython3_3.11/build/Tests/Mauve/simple.xmfa.bbcols -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Mauve copying /<>/.pybuild/cpython3_3.11/build/Tests/Mauve/equCab1.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Mauve copying /<>/.pybuild/cpython3_3.11/build/Tests/Mauve/combined.xmfa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Mauve copying /<>/.pybuild/cpython3_3.11/build/Tests/Mauve/simple.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Mauve copying /<>/.pybuild/cpython3_3.11/build/Tests/Mauve/canFam2.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Mauve copying /<>/.pybuild/cpython3_3.11/build/Tests/test_kNN.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_hmmer2_text_index.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_AlignIO_MauveIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Uniprot.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_ColorSpiral.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_KGML_graphics_online.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_AlignIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_a2m.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/codonalign copying /<>/.pybuild/cpython3_3.11/build/Tests/codonalign/egfr_id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/codonalign copying /<>/.pybuild/cpython3_3.11/build/Tests/codonalign/nucl4.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/codonalign copying /<>/.pybuild/cpython3_3.11/build/Tests/codonalign/adh.aln -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/codonalign copying /<>/.pybuild/cpython3_3.11/build/Tests/codonalign/pro3.aln -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/codonalign copying /<>/.pybuild/cpython3_3.11/build/Tests/codonalign/pro1.aln -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/codonalign copying /<>/.pybuild/cpython3_3.11/build/Tests/codonalign/nucl5.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/codonalign copying /<>/.pybuild/cpython3_3.11/build/Tests/codonalign/egfr_nucl.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/codonalign copying /<>/.pybuild/cpython3_3.11/build/Tests/codonalign/nucl1.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/codonalign copying /<>/.pybuild/cpython3_3.11/build/Tests/codonalign/nucl3.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/codonalign copying /<>/.pybuild/cpython3_3.11/build/Tests/codonalign/pro5.aln -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/codonalign copying /<>/.pybuild/cpython3_3.11/build/Tests/codonalign/pro4.aln -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/codonalign copying /<>/.pybuild/cpython3_3.11/build/Tests/codonalign/pro2.aln -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/codonalign copying /<>/.pybuild/cpython3_3.11/build/Tests/codonalign/drosophilla.fasta -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/codonalign copying /<>/.pybuild/cpython3_3.11/build/Tests/codonalign/egfr_pro.aln -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/codonalign copying /<>/.pybuild/cpython3_3.11/build/Tests/codonalign/nucl2.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/codonalign copying /<>/.pybuild/cpython3_3.11/build/Tests/test_seq.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Entrez_online.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_pairwise2_no_C.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/ExtendedPhylip copying /<>/.pybuild/cpython3_3.11/build/Tests/ExtendedPhylip/primates.phyx -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/ExtendedPhylip creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Cellosaurus copying /<>/.pybuild/cpython3_3.11/build/Tests/Cellosaurus/cell_lines_2.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Cellosaurus copying /<>/.pybuild/cpython3_3.11/build/Tests/Cellosaurus/cell_lines_1.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Cellosaurus copying /<>/.pybuild/cpython3_3.11/build/Tests/Cellosaurus/cell_lines_3.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Cellosaurus copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_Selection.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Phd.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_KGML_graphics.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_TogoWS.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_BioSQL_MySQLdb_online.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_TCoffee_tool.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_nexus.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/CodonUsage copying /<>/.pybuild/cpython3_3.11/build/Tests/CodonUsage/HighlyExpressedGenes.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/CodonUsage copying /<>/.pybuild/cpython3_3.11/build/Tests/test_EmbossPrimer.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SeqUtils.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_clustal.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_vectors.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_bigpsl.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SVDSuperimposer.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SCOP_Hie.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_LogisticRegression.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_geo.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_UniProt_GOA.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_KDTree.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Phylo_networkx.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_parse_pdb_header.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SCOP_Astral.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SeqIO_QualityIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_StructureAlignment.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GFF copying /<>/.pybuild/cpython3_3.11/build/Tests/GFF/NC_001802.fna -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GFF copying /<>/.pybuild/cpython3_3.11/build/Tests/GFF/multi.fna -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GFF copying /<>/.pybuild/cpython3_3.11/build/Tests/GFF/NC_001802lc.fna -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GFF copying /<>/.pybuild/cpython3_3.11/build/Tests/GFF/NC_001422.gbk -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GFF copying /<>/.pybuild/cpython3_3.11/build/Tests/GFF/NC_001802x.fna -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GFF copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_hmmer2_text.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_hmmer3_text.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Tutorial.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_align_substitution_matrices.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_interproscan_xml.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_EMBL_unittest.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Align copying /<>/.pybuild/cpython3_3.11/build/Tests/Align/ecoli.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Align copying /<>/.pybuild/cpython3_3.11/build/Tests/Align/pig.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Align copying /<>/.pybuild/cpython3_3.11/build/Tests/Align/hg38.chrom.sizes -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Align copying /<>/.pybuild/cpython3_3.11/build/Tests/Align/bsubtilis.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Align copying /<>/.pybuild/cpython3_3.11/build/Tests/Align/pig.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Align copying /<>/.pybuild/cpython3_3.11/build/Tests/Align/ecoli.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Align copying /<>/.pybuild/cpython3_3.11/build/Tests/Align/cow.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Align copying /<>/.pybuild/cpython3_3.11/build/Tests/Align/cow.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Align copying /<>/.pybuild/cpython3_3.11/build/Tests/Align/bsubtilis.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Align copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_exonerate_vulgar_index.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_Exposure.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_write.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_exonerate.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SeqIO_SnapGene.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/gen_results.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/bad_results.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/m2a_rel copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/m2a_rel/m2a_rel-4_9a.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/m2a_rel copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/m2a_rel/m2a_rel-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/m2a_rel copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/m2a_rel/m2a_rel-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/m2a_rel copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/m2a_rel/m2a_rel-4_8.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/m2a_rel copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/tree_regexp_versatility.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/ngene2_mgene02 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/ngene2_mgene02/ngene2_mgene02-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/ngene2_mgene02 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/ngene2_mgene02/ngene2_mgene02-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/ngene2_mgene02 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/ngene2_mgene02/ngene2_mgene02-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/ngene2_mgene02 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/ngene2_mgene02/ngene2_mgene02-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/ngene2_mgene02 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/ngene2_mgene02/ngene2_mgene02-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/ngene2_mgene02 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/ngene2_mgene02/ngene2_mgene02-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/ngene2_mgene02 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/ngene2_mgene02/ngene2_mgene02-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/ngene2_mgene02 creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/ngene2_mgene1 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/ngene2_mgene1/ngene2_mgene1-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/ngene2_mgene1 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/ngene2_mgene1/ngene2_mgene1-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/ngene2_mgene1 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/ngene2_mgene1/ngene2_mgene1-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/ngene2_mgene1 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/ngene2_mgene1/ngene2_mgene1-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/ngene2_mgene1 creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/all_NSsites copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/all_NSsites/all_NSsites-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/all_NSsites copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/all_NSsites/all_NSsites-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/all_NSsites copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/all_NSsites/all_NSsites-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/all_NSsites copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/all_NSsites/all_NSsites-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/all_NSsites copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/all_NSsites/all_NSsites-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/all_NSsites copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/all_NSsites/all_NSsites-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/all_NSsites copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/all_NSsites/all_NSsites-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/all_NSsites creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/branchsiteA copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/branchsiteA/branchsiteA-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/branchsiteA copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/branchsiteA/branchsiteA-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/branchsiteA copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/branchsiteA/branchsiteA-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/branchsiteA copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/branchsiteA/branchsiteA-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/branchsiteA copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/branchsiteA/branchsiteA-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/branchsiteA copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/branchsiteA/branchsiteA-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/branchsiteA copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/branchsiteA/branchsiteA-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/branchsiteA creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/pairwise copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/pairwise/pairwise-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/pairwise copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/pairwise/pairwise-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/pairwise copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/pairwise/pairwise-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/pairwise copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/pairwise/pairwise-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/pairwise copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/pairwise/pairwise-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/pairwise copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/pairwise/pairwise-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/pairwise copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/pairwise/pairwise-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/pairwise creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/SE copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/SE/SE-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/SE copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/SE/SE-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/SE copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/SE/SE-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/SE copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/SE/SE-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/SE copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/SE/SE-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/SE copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/SE/SE-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/SE copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/SE/SE-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/SE creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/clademodelC copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/clademodelC/clademodelC-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/clademodelC copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/clademodelC/clademodelC-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/clademodelC copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/clademodelC/clademodelC-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/clademodelC copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/clademodelC/clademodelC-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/clademodelC copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/clademodelC/clademodelC-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/clademodelC copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/clademodelC/clademodelC-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/clademodelC copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/clademodelC/clademodelC-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/clademodelC creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/ngene2_mgene34 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/ngene2_mgene34/ngene2_mgene34-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/ngene2_mgene34 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/ngene2_mgene34/ngene2_mgene34-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/ngene2_mgene34 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/ngene2_mgene34/ngene2_mgene34-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/ngene2_mgene34 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/ngene2_mgene34/ngene2_mgene34-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/ngene2_mgene34 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/ngene2_mgene34/ngene2_mgene34-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/ngene2_mgene34 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/ngene2_mgene34/ngene2_mgene34-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/ngene2_mgene34 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/ngene2_mgene34/ngene2_mgene34-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/ngene2_mgene34 creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/aa_pairwise copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/aa_pairwise/aa_pairwise-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/aa_pairwise copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/aa_pairwise/aa_pairwise-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/aa_pairwise copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/aa_pairwise/aa_pairwise-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/aa_pairwise copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/aa_pairwise/aa_pairwise-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/aa_pairwise copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/aa_pairwise/aa_pairwise-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/aa_pairwise copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/aa_pairwise/aa_pairwise-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/aa_pairwise copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/aa_pairwise/aa_pairwise-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/aa_pairwise creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/freeratio copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/freeratio/freeratio-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/freeratio copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/freeratio/freeratio-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/freeratio copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/freeratio/freeratio-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/freeratio copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/freeratio/freeratio-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/freeratio copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/freeratio/freeratio-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/freeratio copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/freeratio/freeratio-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/freeratio copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/freeratio/freeratio-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/freeratio creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/NSsite3 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/NSsite3/NSsite3-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/NSsite3 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/NSsite3/NSsite3-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/NSsite3 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/NSsite3/NSsite3-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/NSsite3 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/NSsite3/NSsite3-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/NSsite3 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/NSsite3/NSsite3-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/NSsite3 creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/aa_model0 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/aa_model0/aa_model0-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/aa_model0 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/aa_model0/aa_model0-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/aa_model0 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/aa_model0/aa_model0-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/aa_model0 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/aa_model0/aa_model0-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/aa_model0 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/aa_model0/aa_model0-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/aa_model0 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/aa_model0/aa_model0-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/aa_model0 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/codeml/aa_model0/aa_model0-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/codeml/aa_model0 creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/alpha1rho1 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/alpha1rho1/alpha1rho1-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/alpha1rho1 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/alpha1rho1/alpha1rho1-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/alpha1rho1 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/alpha1rho1/alpha1rho1-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/alpha1rho1 creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model4-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model6-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model7-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model7-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model5-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model7-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model2-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model2-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model2-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model6-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model4-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model3-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model4-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model1-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model4-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model7-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model6-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model5-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model8-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model0-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model0-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model3-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model8-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model5-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model2-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model1-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model2-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model3-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model3-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model5-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model7-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model4-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model4-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model5-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model1-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model2-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model8-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model2-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model1-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model5-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model1-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model3-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model8-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model6-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model6-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model1-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model7-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model8-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model7-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model6-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model6-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model4-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model0-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model8-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model3-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model0-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model0-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model3-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model8-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model0-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model5-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model1-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/model/model0-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/baseml_alpha1rho1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/SE copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/SE/SE-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/SE copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/SE/SE-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/SE copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/SE/SE-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/SE copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/SE/SE-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/SE copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/SE/SE-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/SE copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/SE/SE-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/SE copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/SE/SE-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/SE creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nparK copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nparK/nparK1-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nparK copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nparK/nparK4-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nparK copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nparK/nparK1-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nparK copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nparK/nparK2-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nparK copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nparK/nparK2-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nparK copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nparK/nparK3-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nparK copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nparK/nparK2-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nparK copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nparK/nparK3-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nparK copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nparK/nparK3-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nparK copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nparK/nparK4-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nparK copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nparK/nparK1-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nparK copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nparK/nparK4-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nparK creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nhomo copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nhomo/nhomo4-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nhomo copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nhomo/nhomo3-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nhomo copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nhomo/nhomo1-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nhomo copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nhomo/nhomo4-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nhomo copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nhomo/nhomo3-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nhomo copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nhomo/nhomo1-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nhomo copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nhomo/nhomo4-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nhomo copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nhomo/nhomo4-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nhomo copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nhomo/nhomo4-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nhomo copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nhomo/nhomo4-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nhomo copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nhomo/nhomo1-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nhomo copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nhomo/nhomo1-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nhomo copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nhomo/nhomo1-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nhomo copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nhomo/nhomo3-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nhomo copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nhomo/nhomo1-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nhomo copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nhomo/nhomo4-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nhomo copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nhomo/nhomo3-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nhomo copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nhomo/nhomo1-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nhomo copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nhomo/nhomo3-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nhomo copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nhomo/nhomo3-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nhomo copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/nhomo/nhomo3-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nhomo copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/baseml_SE.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/versions copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/versions/baseml44c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/versions copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/versions/baseml41.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/versions copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/versions/baseml43.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/versions copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/baseml/versions/baseml44.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/versions creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/yn00 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/yn00/yn00-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/yn00 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/yn00/yn00-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/yn00 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/yn00/yn00-4_6.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/yn00 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/yn00/yn00-4_4.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/yn00 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/yn00/yn00-4_4c.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/yn00 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/yn00/yn00-4_5.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/yn00 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/yn00/yn00-4_3.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/yn00 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/yn00/yn00-4_8.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/yn00 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/yn00/yn00_dotted-4_9i.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/yn00 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/yn00/yn00_long-4_8.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/yn00 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Results/yn00/yn00_dottednum-4_9i.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/yn00 creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Trees copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Trees/bad.tree -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Trees copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Trees/lysin.trees -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Trees copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Trees/lysin.trees.4.6 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Trees copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Trees/species.tree -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Trees creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/baseml.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/codeml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/codeml/SE.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/codeml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/codeml/freeratio.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/codeml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/codeml/branchsiteA.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/codeml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/codeml/pairwise.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/codeml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/codeml/all_NSsites.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/codeml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/codeml/ngene2_mgene1.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/codeml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/codeml/aa_model0.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/codeml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/codeml/ngene2_mgene34.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/codeml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/codeml/aa_pairwise.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/codeml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/codeml/m2a_rel.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/codeml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/codeml/codeml.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/codeml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/codeml/ngene2_mgene02.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/codeml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/codeml/NSsite3.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/codeml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/codeml/clademodelC.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/codeml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/bad3.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/bad2.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/README.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/baseml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/baseml/SE.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/baseml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/baseml/baseml.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/baseml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/baseml/nparK3.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/baseml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/baseml/nparK4.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/baseml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/baseml/nhomo4.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/baseml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/baseml/model8.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/baseml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/baseml/nparK2.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/baseml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/baseml/model0.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/baseml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/baseml/nhomo3.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/baseml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/baseml/alpha1rho1.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/baseml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/baseml/model4.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/baseml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/baseml/nparK1.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/baseml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/baseml/model6.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/baseml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/baseml/nhomo1.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/baseml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/baseml/model2.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/baseml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/baseml/model3.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/baseml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/baseml/model1.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/baseml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/baseml/model5.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/baseml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/baseml/model7.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/baseml copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/bad1.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/species.tree -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/yn00 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/yn00/yn00_dottednum.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/yn00 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/yn00/yn00_dotted.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/yn00 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/yn00/yn00_long.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/yn00 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/yn00/yn00.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files/yn00 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/yn00.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Alignments copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Alignments/dottednames.phylip -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Alignments copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Alignments/aa_alignment.phylip -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Alignments copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Alignments/lysinYangSwanson2002.nuc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Alignments copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Alignments/longnames.fasta -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Alignments copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Alignments/alignment.phylip -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Alignments copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Alignments/dottednum.fasta -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Alignments copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_Disordered.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PQR copying /<>/.pybuild/cpython3_3.11/build/Tests/PQR/1A80.pqr -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PQR copying /<>/.pybuild/cpython3_3.11/build/Tests/test_TreeConstruction.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDBList.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_hhsuite2_text.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Abi copying /<>/.pybuild/cpython3_3.11/build/Tests/Abi/A6_1-DB3.ab1 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Abi copying /<>/.pybuild/cpython3_3.11/build/Tests/Abi/3100.ab1 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Abi copying /<>/.pybuild/cpython3_3.11/build/Tests/Abi/empty.ab1 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Abi copying /<>/.pybuild/cpython3_3.11/build/Tests/Abi/3730.ab1 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Abi copying /<>/.pybuild/cpython3_3.11/build/Tests/Abi/fake.ab1 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Abi copying /<>/.pybuild/cpython3_3.11/build/Tests/Abi/no_smpl1.ab1 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Abi copying /<>/.pybuild/cpython3_3.11/build/Tests/Abi/nonascii_encoding.ab1 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Abi copying /<>/.pybuild/cpython3_3.11/build/Tests/Abi/310.ab1 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Abi copying /<>/.pybuild/cpython3_3.11/build/Tests/Abi/test_data -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Abi copying /<>/.pybuild/cpython3_3.11/build/Tests/Abi/test.fsa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Abi copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_tabular.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SeqIO_SeqXML.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_hmmer3_domtab.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_AlignIO_EmbossIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_FragmentMapper.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/output.best.nex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_NaiveBayes.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/run_tests.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NMR copying /<>/.pybuild/cpython3_3.11/build/Tests/NMR/out_example.xpk -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NMR copying /<>/.pybuild/cpython3_3.11/build/Tests/NMR/noed.xpk -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NMR creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SeqXML copying /<>/.pybuild/cpython3_3.11/build/Tests/SeqXML/dna_example.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SeqXML copying /<>/.pybuild/cpython3_3.11/build/Tests/SeqXML/corrupt_example2.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SeqXML copying /<>/.pybuild/cpython3_3.11/build/Tests/SeqXML/corrupt_example1.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SeqXML copying /<>/.pybuild/cpython3_3.11/build/Tests/SeqXML/global_species_example.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SeqXML copying /<>/.pybuild/cpython3_3.11/build/Tests/SeqXML/rna_example.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SeqXML copying /<>/.pybuild/cpython3_3.11/build/Tests/SeqXML/protein_example.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SeqXML creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/dir.cla.scop.txt_test -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/testDom.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/raftest.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/dir.des.scop.txt_test -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-e100m-e-4-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-e100m-e-2-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-bib-100-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-e100m-e-0,3-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-e100m-e-20-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-e100m-e-15-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-bib-35-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-e100m-e-1,3-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-bib-90-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-bib-40-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-e100m-e-10-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-e100m-e-25-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-e100m-e+1-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-bib-10-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-e100m-e-5-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-bib-95-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-e100m-e-50-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-e100m-e+0,7-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-all-test.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-bib-25-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-e100m-e-1-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-bib-70-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-bib-50-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-bib-20-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-e100m-e-3-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-e100m-e+0-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-bib-30-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/scopseq-test/astral-scopdom-seqres-sel-gs-e100m-e-2,3-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test copying /<>/.pybuild/cpython3_3.11/build/Tests/SCOP/dir.hie.scop.txt_test -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Registry copying /<>/.pybuild/cpython3_3.11/build/Tests/Registry/seqs.fasta -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Registry copying /<>/.pybuild/cpython3_3.11/build/Tests/Registry/EDD_RAT.dat -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Registry copying /<>/.pybuild/cpython3_3.11/build/Tests/Registry/bt001 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Registry creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/IntelliGenetics copying /<>/.pybuild/cpython3_3.11/build/Tests/IntelliGenetics/TAT_mase_nuc.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/IntelliGenetics copying /<>/.pybuild/cpython3_3.11/build/Tests/IntelliGenetics/vpu_nucaligned.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/IntelliGenetics copying /<>/.pybuild/cpython3_3.11/build/Tests/IntelliGenetics/VIF_mase-pro.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/IntelliGenetics copying /<>/.pybuild/cpython3_3.11/build/Tests/test_NCBIXML.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PAML_codeml.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_hmmer3_tab.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Nexus.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SCOP_Raf.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/BioSQL copying /<>/.pybuild/cpython3_3.11/build/Tests/BioSQL/cor6_6.db -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/BioSQL copying /<>/.pybuild/cpython3_3.11/build/Tests/BioSQL/biosqldb-sqlite.sql -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/BioSQL copying /<>/.pybuild/cpython3_3.11/build/Tests/BioSQL/biosqldb-pg.sql -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/BioSQL copying /<>/.pybuild/cpython3_3.11/build/Tests/BioSQL/biosqldb-mysql.sql -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/BioSQL copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SeqIO_online.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_motifs.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SeqFeature.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_MarkovModel.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_KGML_nographics.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_model.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Gck copying /<>/.pybuild/cpython3_3.11/build/Tests/Gck/artificial.gck -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Gck creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NBRF copying /<>/.pybuild/cpython3_3.11/build/Tests/NBRF/DMA_nuc.pir -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NBRF copying /<>/.pybuild/cpython3_3.11/build/Tests/NBRF/B_nuc.pir -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NBRF copying /<>/.pybuild/cpython3_3.11/build/Tests/NBRF/clustalw.pir -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NBRF copying /<>/.pybuild/cpython3_3.11/build/Tests/NBRF/DMB_prot.pir -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NBRF copying /<>/.pybuild/cpython3_3.11/build/Tests/NBRF/Cw_prot.pir -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NBRF copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SeqIO_TwoBitIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_GenBank.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SCOP_Scop.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SeqIO_AbiIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/output.best.fas -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_GenomeDiagram.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Probcons_tool.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_Dice.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_AlignIO_convert.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_MMCIFParser.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_fasta_m10.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Stockholm copying /<>/.pybuild/cpython3_3.11/build/Tests/Stockholm/rfam1.seed.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Stockholm copying /<>/.pybuild/cpython3_3.11/build/Tests/Stockholm/rfam3.seed.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Stockholm copying /<>/.pybuild/cpython3_3.11/build/Tests/Stockholm/pfam1.seed.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Stockholm copying /<>/.pybuild/cpython3_3.11/build/Tests/Stockholm/pfam8.seed.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Stockholm copying /<>/.pybuild/cpython3_3.11/build/Tests/Stockholm/simple.sth -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Stockholm copying /<>/.pybuild/cpython3_3.11/build/Tests/Stockholm/pfam3.seed.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Stockholm copying /<>/.pybuild/cpython3_3.11/build/Tests/Stockholm/globins45.ali -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Stockholm copying /<>/.pybuild/cpython3_3.11/build/Tests/Stockholm/pfam9.seed.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Stockholm copying /<>/.pybuild/cpython3_3.11/build/Tests/Stockholm/cath3.sth -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Stockholm copying /<>/.pybuild/cpython3_3.11/build/Tests/Stockholm/pfam5.seed.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Stockholm copying /<>/.pybuild/cpython3_3.11/build/Tests/Stockholm/cath2.sth -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Stockholm copying /<>/.pybuild/cpython3_3.11/build/Tests/Stockholm/pfam6.seed.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Stockholm copying /<>/.pybuild/cpython3_3.11/build/Tests/Stockholm/rfam2.seed.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Stockholm copying /<>/.pybuild/cpython3_3.11/build/Tests/Stockholm/pfam7.seed.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Stockholm copying /<>/.pybuild/cpython3_3.11/build/Tests/Stockholm/rfam5.seed.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Stockholm copying /<>/.pybuild/cpython3_3.11/build/Tests/Stockholm/funny.sth -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Stockholm copying /<>/.pybuild/cpython3_3.11/build/Tests/Stockholm/cath1.sth -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Stockholm copying /<>/.pybuild/cpython3_3.11/build/Tests/Stockholm/pfam4.seed.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Stockholm copying /<>/.pybuild/cpython3_3.11/build/Tests/Stockholm/rfam4.seed.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Stockholm copying /<>/.pybuild/cpython3_3.11/build/Tests/Stockholm/pfam2.seed.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Stockholm copying /<>/.pybuild/cpython3_3.11/build/Tests/Stockholm/example.sth -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Stockholm copying /<>/.pybuild/cpython3_3.11/build/Tests/test_HMMCasino.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Pathway.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/.coveragerc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Wise copying /<>/.pybuild/cpython3_3.11/build/Tests/Wise/human_114_g02_exons.fna_01 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Wise copying /<>/.pybuild/cpython3_3.11/build/Tests/Wise/human_114_g01_exons.fna_01 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Wise copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_maf.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/BioSQL copying /<>/.pybuild/cpython3_3.11/build/BioSQL/BioSeq.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/BioSQL creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/BioSQL/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/BioSQL/__pycache__/Loader.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/BioSQL/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/BioSQL/__pycache__/__init__.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/BioSQL/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/BioSQL/__pycache__/DBUtils.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/BioSQL/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/BioSQL/__pycache__/BioSeqDatabase.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/BioSQL/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/BioSQL/__pycache__/BioSeq.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/BioSQL/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/BioSQL/Loader.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/BioSQL copying /<>/.pybuild/cpython3_3.11/build/BioSQL/BioSeqDatabase.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/BioSQL copying /<>/.pybuild/cpython3_3.11/build/BioSQL/DBUtils.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/BioSQL copying /<>/.pybuild/cpython3_3.11/build/BioSQL/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/BioSQL copying /<>/.pybuild/cpython3_3.11/build/other_trees.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples/nmr/simplepredict.py to simplepredict.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples/clustal_run.py to clustal_run.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples/fasta_dictionary.py to fasta_dictionary.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples/ACT_example.py to ACT_example.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples/fasta_iterator.py to fasta_iterator.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples/swissprot.py to swissprot.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples/Proux_et_al_2002_Figure_6.py to Proux_et_al_2002_Figure_6.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples/www_blast.py to www_blast.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PopGen/GenePop/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PopGen/GenePop/Controller.py to Controller.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PopGen/GenePop/LargeFileParser.py to LargeFileParser.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PopGen/GenePop/FileParser.py to FileParser.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PopGen/GenePop/EasyController.py to EasyController.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PopGen/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Geo/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Geo/Record.py to Record.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/LogisticRegression.py to LogisticRegression.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/_utils.py to _utils.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/UniProt/GOA.py to GOA.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/UniProt/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/pairwise2.py to pairwise2.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/Compound/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/Gene/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/Map/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/KGML/KGML_parser.py to KGML_parser.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/KGML/KGML_pathway.py to KGML_pathway.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/KGML/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/Enzyme/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/REST.py to REST.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/Dice.py to Dice.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/ResidueDepth.py to ResidueDepth.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/FragmentMapper.py to FragmentMapper.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/NACCESS.py to NACCESS.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/PDBParser.py to PDBParser.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/Entity.py to Entity.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/ic_data.py to ic_data.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/PSEA.py to PSEA.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/MMCIFParser.py to MMCIFParser.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/Polypeptide.py to Polypeptide.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/SASA.py to SASA.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/Residue.py to Residue.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/StructureAlignment.py to StructureAlignment.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/Superimposer.py to Superimposer.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/QCPSuperimposer/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/NeighborSearch.py to NeighborSearch.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/PDBIO.py to PDBIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/qcprot.py to qcprot.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/mmcifio.py to mmcifio.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/AbstractPropertyMap.py to AbstractPropertyMap.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/PDBExceptions.py to PDBExceptions.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/Atom.py to Atom.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/mmtf/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/mmtf/DefaultParser.py to DefaultParser.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/mmtf/mmtfio.py to mmtfio.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/vectors.py to vectors.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/StructureBuilder.py to StructureBuilder.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/Model.py to Model.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/PDBList.py to PDBList.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/Selection.py to Selection.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/cealign.py to cealign.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/parse_pdb_header.py to parse_pdb_header.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/DSSP.py to DSSP.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/Structure.py to Structure.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/Chain.py to Chain.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/MMCIF2Dict.py to MMCIF2Dict.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/internal_coords.py to internal_coords.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/SCADIO.py to SCADIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/ic_rebuild.py to ic_rebuild.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/PICIO.py to PICIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/HSExposure.py to HSExposure.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Application/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO/PhylipIO.py to PhylipIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO/ClustalIO.py to ClustalIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO/MafIO.py to MafIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO/MsfIO.py to MsfIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO/NexusIO.py to NexusIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO/EmbossIO.py to EmbossIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO/FastaIO.py to FastaIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO/Interfaces.py to Interfaces.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO/MauveIO.py to MauveIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO/StockholmIO.py to StockholmIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Affy/CelFile.py to CelFile.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Affy/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/HMM/Utilities.py to Utilities.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/HMM/DynamicProgramming.py to DynamicProgramming.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/HMM/MarkovModel.py to MarkovModel.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/HMM/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/HMM/Trainer.py to Trainer.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Alphabet/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/MaxEntropy.py to MaxEntropy.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Restriction/PrintFormat.py to PrintFormat.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Restriction/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Restriction/Restriction_Dictionary.py to Restriction_Dictionary.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Restriction/Restriction.py to Restriction.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Pathway/Rep/MultiGraph.py to MultiGraph.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Pathway/Rep/Graph.py to Graph.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Pathway/Rep/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Pathway/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Data/SCOPData.py to SCOPData.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Data/IUPACData.py to IUPACData.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Data/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Data/CodonTable.py to CodonTable.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Data/PDBData.py to PDBData.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Compass/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_model/hit.py to hit.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_model/hsp.py to hsp.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_model/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_model/query.py to query.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_model/_base.py to _base.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_utils.py to _utils.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_index.py to _index.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HmmerIO/hmmer3_domtab.py to hmmer3_domtab.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HmmerIO/hmmer2_text.py to hmmer2_text.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HmmerIO/hmmer3_text.py to hmmer3_text.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HmmerIO/hmmer3_tab.py to hmmer3_tab.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HmmerIO/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HmmerIO/_base.py to _base.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/ExonerateIO/exonerate_cigar.py to exonerate_cigar.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/ExonerateIO/exonerate_vulgar.py to exonerate_vulgar.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/ExonerateIO/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/ExonerateIO/_base.py to _base.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/ExonerateIO/exonerate_text.py to exonerate_text.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HHsuiteIO/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HHsuiteIO/hhsuite2_text.py to hhsuite2_text.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/BlastIO/blast_xml.py to blast_xml.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/BlastIO/blast_text.py to blast_text.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/BlastIO/blast_tab.py to blast_tab.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/BlastIO/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/FastaIO.py to FastaIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_legacy/ParserSupport.py to ParserSupport.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_legacy/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_legacy/NCBIStandalone.py to NCBIStandalone.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/BlatIO.py to BlatIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/InterproscanIO/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/InterproscanIO/interproscan_xml.py to interproscan_xml.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Medline/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/phenotype/phen_micro.py to phen_micro.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/phenotype/pm_fitting.py to pm_fitting.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/phenotype/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PhyloXMLIO.py to PhyloXMLIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/_utils.py to _utils.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/_io.py to _io.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/Applications/_Fasttree.py to _Fasttree.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/Applications/_Raxml.py to _Raxml.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/Applications/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/Applications/_Phyml.py to _Phyml.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/CDAO.py to CDAO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/NeXML.py to NeXML.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/NexusIO.py to NexusIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/Newick.py to Newick.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PhyloXML.py to PhyloXML.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/NeXMLIO.py to NeXMLIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/_cdao_owl.py to _cdao_owl.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/BaseTree.py to BaseTree.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML/baseml.py to baseml.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML/yn00.py to yn00.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML/_parse_yn00.py to _parse_yn00.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML/_parse_baseml.py to _parse_baseml.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML/chi2.py to chi2.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML/_paml.py to _paml.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML/_parse_codeml.py to _parse_codeml.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML/codeml.py to codeml.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/CDAOIO.py to CDAOIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/Consensus.py to Consensus.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/NewickIO.py to NewickIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/TreeConstruction.py to TreeConstruction.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/UniGene/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/NaiveBayes.py to NaiveBayes.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/Parser.py to Parser.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/GenBank/utils.py to utils.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/GenBank/Scanner.py to Scanner.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/GenBank/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/GenBank/Record.py to Record.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Cluster/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Emboss/Primer3.py to Primer3.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Emboss/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Emboss/Applications.py to Applications.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Emboss/PrimerSearch.py to PrimerSearch.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqFeature.py to SeqFeature.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SwissProt/KeyWList.py to KeyWList.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SwissProt/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/PirIO.py to PirIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/PhdIO.py to PhdIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/_index.py to _index.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/XdnaIO.py to XdnaIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/NibIO.py to NibIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/SnapGeneIO.py to SnapGeneIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/InsdcIO.py to InsdcIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/GckIO.py to GckIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/UniprotIO.py to UniprotIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/SeqXmlIO.py to SeqXmlIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/PdbIO.py to PdbIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/SwissIO.py to SwissIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/AbiIO.py to AbiIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/FastaIO.py to FastaIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/Interfaces.py to Interfaces.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/AceIO.py to AceIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/TabIO.py to TabIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/IgIO.py to IgIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/QualityIO.py to QualityIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/SffIO.py to SffIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/TwoBitIO.py to TwoBitIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Blast/ParseBlastTable.py to ParseBlastTable.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Blast/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Blast/NCBIXML.py to NCBIXML.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Blast/Applications.py to Applications.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Blast/NCBIWWW.py to NCBIWWW.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Blast/Record.py to Record.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Nexus/Trees.py to Trees.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Nexus/StandardData.py to StandardData.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Nexus/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Nexus/Nodes.py to Nodes.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Nexus/Nexus.py to Nexus.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/Distribution.py to Distribution.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/BasicChromosome.py to BasicChromosome.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/KGML_vis.py to KGML_vis.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/_Feature.py to _Feature.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/_LinearDrawer.py to _LinearDrawer.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/_GraphSet.py to _GraphSet.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/_FeatureSet.py to _FeatureSet.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/_Graph.py to _Graph.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/_CrossLink.py to _CrossLink.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/_Diagram.py to _Diagram.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/_CircularDrawer.py to _CircularDrawer.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/_Colors.py to _Colors.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/_Track.py to _Track.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram/_AbstractDrawer.py to _AbstractDrawer.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/DisplayRepresentation.py to DisplayRepresentation.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/ColorSpiral.py to ColorSpiral.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/Comparative.py to Comparative.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils/ProtParam.py to ProtParam.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils/lcc.py to lcc.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils/CodonUsageIndices.py to CodonUsageIndices.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils/MeltingTemp.py to MeltingTemp.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils/CodonUsage.py to CodonUsage.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils/ProtParamData.py to ProtParamData.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils/CheckSum.py to CheckSum.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils/IsoelectricPoint.py to IsoelectricPoint.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SVDSuperimposer/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/transfac.py to transfac.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/matrix.py to matrix.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/clusterbuster.py to clusterbuster.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/thresholds.py to thresholds.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/minimal.py to minimal.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/mast.py to mast.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/alignace.py to alignace.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/pfm.py to pfm.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/applications/_xxmotif.py to _xxmotif.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/applications/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/meme.py to meme.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/xms.py to xms.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/jaspar/db.py to db.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/jaspar/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/ExPASy/Enzyme.py to Enzyme.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/ExPASy/Prosite.py to Prosite.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/ExPASy/Prodoc.py to Prodoc.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/ExPASy/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/ExPASy/ScanProsite.py to ScanProsite.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/ExPASy/cellosaurus.py to cellosaurus.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/codonalign/codonseq.py to codonseq.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/codonalign/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/codonalign/codonalignment.py to codonalignment.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/MarkovModel.py to MarkovModel.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing/Phd.py to Phd.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing/Applications/_bwa.py to _bwa.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing/Applications/_Novoalign.py to _Novoalign.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing/Applications/_samtools.py to _samtools.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing/Applications/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing/Ace.py to Ace.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Seq.py to Seq.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/nexus.py to nexus.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/emboss.py to emboss.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/AlignInfo.py to AlignInfo.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications/_Muscle.py to _Muscle.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications/_TCoffee.py to _TCoffee.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications/_Mafft.py to _Mafft.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications/_MSAProbs.py to _MSAProbs.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications/_ClustalOmega.py to _ClustalOmega.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications/_Clustalw.py to _Clustalw.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications/_Dialign.py to _Dialign.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications/_Probcons.py to _Probcons.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications/_Prank.py to _Prank.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/psl.py to psl.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/hhr.py to hhr.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/maf.py to maf.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/stockholm.py to stockholm.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/bigmaf.py to bigmaf.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/mauve.py to mauve.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/tabular.py to tabular.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/exonerate.py to exonerate.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/bed.py to bed.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/clustal.py to clustal.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/phylip.py to phylip.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/sam.py to sam.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/interfaces.py to interfaces.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/fasta.py to fasta.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/bigbed.py to bigbed.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/msf.py to msf.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/bigpsl.py to bigpsl.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/a2m.py to a2m.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/bgzf.py to bgzf.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/File.py to File.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/CAPS/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/NMR/xpktools.py to xpktools.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/NMR/NOEtools.py to NOEtools.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/NMR/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP/Cla.py to Cla.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP/Hie.py to Hie.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP/Des.py to Des.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP/Dom.py to Dom.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP/Residues.py to Residues.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP/Raf.py to Raf.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/TogoWS/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqRecord.py to SeqRecord.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/kNN.py to kNN.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Wise/dnal.py to dnal.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Wise/__init__.py to __init__.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Wise/psw.py to psw.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Muscle_tool.py to test_Muscle_tool.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_QCSuperimposer.py to test_PDB_QCSuperimposer.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/pairwise2_testCases.py to pairwise2_testCases.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_KEGG_online.py to test_KEGG_online.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_align.py to test_align.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_pairwise2.py to test_pairwise2.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Entrez_parser.py to test_Entrez_parser.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Seq_objs.py to test_Seq_objs.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PhyloXML.py to test_PhyloXML.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_CodonTable.py to test_CodonTable.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_hmmer3_text_index.py to test_SearchIO_hmmer3_text_index.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_Superimposer.py to test_PDB_Superimposer.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_samtools_tool.py to test_samtools_tool.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_motifs_online.py to test_motifs_online.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Medline.py to test_Medline.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SeqRecord.py to test_SeqRecord.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PopGen_GenePop_nodepend.py to test_PopGen_GenePop_nodepend.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_exonerate.py to test_SearchIO_exonerate.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_SASA.py to test_PDB_SASA.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_blast_xml_index.py to test_SearchIO_blast_xml_index.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_Polypeptide.py to test_PDB_Polypeptide.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SeqIO.py to test_SeqIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_blast_xml.py to test_SearchIO_blast_xml.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Align_bigbed.py to test_Align_bigbed.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Align_Alignment.py to test_Align_Alignment.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_NCBI_qblast.py to test_NCBI_qblast.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_blat_psl.py to test_SearchIO_blat_psl.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_exonerate_text_index.py to test_SearchIO_exonerate_text_index.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Emboss.py to test_Emboss.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Mafft_tool.py to test_Mafft_tool.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SeqIO_PdbIO.py to test_SeqIO_PdbIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Restriction.py to test_Restriction.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_phenotype.py to test_phenotype.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Enzyme.py to test_Enzyme.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_MafIO_index.py to test_MafIO_index.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SCOP_Dom.py to test_SCOP_Dom.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PAML_yn00.py to test_PAML_yn00.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Fasttree_tool.py to test_Fasttree_tool.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SeqIO_index.py to test_SeqIO_index.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_NCBI_BLAST_tools.py to test_NCBI_BLAST_tools.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_blast_tab_index.py to test_SearchIO_blast_tab_index.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SeqIO_write.py to test_SeqIO_write.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_pairwise_aligner.py to test_pairwise_aligner.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_HMMGeneral.py to test_HMMGeneral.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/seq_tests_common.py to seq_tests_common.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SCOP_Cla.py to test_SCOP_Cla.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Align_sam.py to test_Align_sam.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Blast_Record.py to test_Blast_Record.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/requires_internet.py to requires_internet.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_ClustalOmega_tool.py to test_ClustalOmega_tool.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_BioSQL_mysql_connector.py to test_BioSQL_mysql_connector.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_BioSQL_mysql_connector_online.py to test_BioSQL_mysql_connector_online.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_prosite.py to test_prosite.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_pairwise_alignment_map.py to test_pairwise_alignment_map.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_AlignInfo.py to test_AlignInfo.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Entrez.py to test_Entrez.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_fasta_m10_index.py to test_SearchIO_fasta_m10_index.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_translate.py to test_translate.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Phylo_NeXML.py to test_Phylo_NeXML.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Align_bigmaf.py to test_Align_bigmaf.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Dialign_tool.py to test_Dialign_tool.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_CEAligner.py to test_PDB_CEAligner.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SeqIO_Gck.py to test_SeqIO_Gck.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_ExPASy.py to test_ExPASy.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Align_bed.py to test_Align_bed.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Align_psl.py to test_Align_psl.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_GraphicsGeneral.py to test_GraphicsGeneral.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_codonalign.py to test_codonalign.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_AlignIO_ClustalIO.py to test_AlignIO_ClustalIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_NMR.py to test_NMR.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PQR.py to test_PQR.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/common_BioSQL_online.py to common_BioSQL_online.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Phylo_CDAO.py to test_Phylo_CDAO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Affy.py to test_Affy.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_hmmer3_tab_index.py to test_SearchIO_hmmer3_tab_index.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_BioSQL_sqlite3_online.py to test_BioSQL_sqlite3_online.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Align_msf.py to test_Align_msf.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Chi2.py to test_Chi2.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_phyml_tool.py to test_phyml_tool.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_BioSQL_sqlite3.py to test_BioSQL_sqlite3.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_KEGG.py to test_KEGG.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_KeyWList.py to test_KeyWList.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PAML_baseml.py to test_PAML_baseml.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_blast_tab.py to test_SearchIO_blast_tab.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_phenotype_fit.py to test_phenotype_fit.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_UniGene.py to test_UniGene.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Consensus.py to test_Consensus.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Phylo.py to test_Phylo.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SCOP_Residues.py to test_SCOP_Residues.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Align_stockholm.py to test_Align_stockholm.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Compass.py to test_Compass.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_blat_psl_index.py to test_SearchIO_blat_psl_index.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Phylo_matplotlib.py to test_Phylo_matplotlib.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_GraphicsBitmaps.py to test_GraphicsBitmaps.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_bgzf.py to test_bgzf.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_ProtParam.py to test_ProtParam.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_SMCRA.py to test_PDB_SMCRA.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/search_tests_common.py to search_tests_common.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/common_BioSQL.py to common_BioSQL.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SwissProt.py to test_SwissProt.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_MMCIFIO.py to test_PDB_MMCIFIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SeqIO_Insdc.py to test_SeqIO_Insdc.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_DSSP.py to test_PDB_DSSP.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_PDBParser.py to test_PDB_PDBParser.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SeqIO_NibIO.py to test_SeqIO_NibIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SeqIO_features.py to test_SeqIO_features.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SeqIO_FastaIO.py to test_SeqIO_FastaIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_AlignIO_FastaIO.py to test_AlignIO_FastaIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_GraphicsChromosome.py to test_GraphicsChromosome.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_NCBITextParser.py to test_NCBITextParser.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_legacy.py to test_SearchIO_legacy.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_File.py to test_File.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_CAPS.py to test_CAPS.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_internal_coords.py to test_PDB_internal_coords.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_cellosaurus.py to test_cellosaurus.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_GraphicsDistribution.py to test_GraphicsDistribution.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_AlignIO_PhylipIO.py to test_AlignIO_PhylipIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_RCSBFormats.py to test_RCSBFormats.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Align_emboss.py to test_Align_emboss.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Clustalw_tool.py to test_Clustalw_tool.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Align_mauve.py to test_Align_mauve.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_NACCESS.py to test_PDB_NACCESS.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_BWA_tool.py to test_BWA_tool.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Align_hhr.py to test_Align_hhr.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SCOP_Des.py to test_SCOP_Des.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_prodoc.py to test_prodoc.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Align_phylip.py to test_Align_phylip.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_PSEA.py to test_PDB_PSEA.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_hmmer3_domtab_index.py to test_SearchIO_hmmer3_domtab_index.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SCOP_online.py to test_SCOP_online.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Prank_tool.py to test_Prank_tool.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_blast_text.py to test_SearchIO_blast_text.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Cluster.py to test_Cluster.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SffIO.py to test_SffIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Wise.py to test_Wise.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Align_fasta.py to test_Align_fasta.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_MMCIF2Dict.py to test_PDB_MMCIF2Dict.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_raxml_tool.py to test_raxml_tool.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Ace.py to test_Ace.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_PDBIO.py to test_PDB_PDBIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_BioSQL_psycopg2_online.py to test_BioSQL_psycopg2_online.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SeqIO_Xdna.py to test_SeqIO_Xdna.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Application.py to test_Application.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_kNN.py to test_kNN.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_hmmer2_text_index.py to test_SearchIO_hmmer2_text_index.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_AlignIO_MauveIO.py to test_AlignIO_MauveIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Uniprot.py to test_Uniprot.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_ColorSpiral.py to test_ColorSpiral.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_KGML_graphics_online.py to test_KGML_graphics_online.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_AlignIO.py to test_AlignIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Align_a2m.py to test_Align_a2m.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_seq.py to test_seq.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Entrez_online.py to test_Entrez_online.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_pairwise2_no_C.py to test_pairwise2_no_C.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_Selection.py to test_PDB_Selection.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Phd.py to test_Phd.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_KGML_graphics.py to test_KGML_graphics.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_TogoWS.py to test_TogoWS.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_BioSQL_MySQLdb_online.py to test_BioSQL_MySQLdb_online.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_TCoffee_tool.py to test_TCoffee_tool.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Align_nexus.py to test_Align_nexus.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_EmbossPrimer.py to test_EmbossPrimer.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SeqUtils.py to test_SeqUtils.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Align_clustal.py to test_Align_clustal.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_vectors.py to test_PDB_vectors.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Align_bigpsl.py to test_Align_bigpsl.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SVDSuperimposer.py to test_SVDSuperimposer.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SCOP_Hie.py to test_SCOP_Hie.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_LogisticRegression.py to test_LogisticRegression.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_geo.py to test_geo.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_UniProt_GOA.py to test_UniProt_GOA.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_KDTree.py to test_PDB_KDTree.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Phylo_networkx.py to test_Phylo_networkx.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_parse_pdb_header.py to test_PDB_parse_pdb_header.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SCOP_Astral.py to test_SCOP_Astral.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SeqIO_QualityIO.py to test_SeqIO_QualityIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_StructureAlignment.py to test_PDB_StructureAlignment.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_hmmer2_text.py to test_SearchIO_hmmer2_text.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_hmmer3_text.py to test_SearchIO_hmmer3_text.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Tutorial.py to test_Tutorial.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_align_substitution_matrices.py to test_align_substitution_matrices.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_interproscan_xml.py to test_SearchIO_interproscan_xml.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_EMBL_unittest.py to test_EMBL_unittest.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_exonerate_vulgar_index.py to test_SearchIO_exonerate_vulgar_index.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_Exposure.py to test_PDB_Exposure.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_write.py to test_SearchIO_write.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Align_exonerate.py to test_Align_exonerate.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SeqIO_SnapGene.py to test_SeqIO_SnapGene.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/gen_results.py to gen_results.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_Disordered.py to test_PDB_Disordered.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_TreeConstruction.py to test_TreeConstruction.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDBList.py to test_PDBList.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_hhsuite2_text.py to test_SearchIO_hhsuite2_text.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Align_tabular.py to test_Align_tabular.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SeqIO_SeqXML.py to test_SeqIO_SeqXML.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_hmmer3_domtab.py to test_SearchIO_hmmer3_domtab.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_AlignIO_EmbossIO.py to test_AlignIO_EmbossIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_FragmentMapper.py to test_PDB_FragmentMapper.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_NaiveBayes.py to test_NaiveBayes.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/run_tests.py to run_tests.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_NCBIXML.py to test_NCBIXML.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PAML_codeml.py to test_PAML_codeml.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_hmmer3_tab.py to test_SearchIO_hmmer3_tab.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Nexus.py to test_Nexus.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SCOP_Raf.py to test_SCOP_Raf.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SeqIO_online.py to test_SeqIO_online.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_motifs.py to test_motifs.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SeqFeature.py to test_SeqFeature.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_MarkovModel.py to test_MarkovModel.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_KGML_nographics.py to test_KGML_nographics.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_model.py to test_SearchIO_model.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SeqIO_TwoBitIO.py to test_SeqIO_TwoBitIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_GenBank.py to test_GenBank.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SCOP_Scop.py to test_SCOP_Scop.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SeqIO_AbiIO.py to test_SeqIO_AbiIO.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_GenomeDiagram.py to test_GenomeDiagram.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Probcons_tool.py to test_Probcons_tool.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_Dice.py to test_PDB_Dice.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_AlignIO_convert.py to test_AlignIO_convert.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_PDB_MMCIFParser.py to test_PDB_MMCIFParser.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_SearchIO_fasta_m10.py to test_SearchIO_fasta_m10.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_HMMCasino.py to test_HMMCasino.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Pathway.py to test_Pathway.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/test_Align_maf.py to test_Align_maf.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/BioSQL/BioSeq.py to BioSeq.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/BioSQL/Loader.py to Loader.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/BioSQL/BioSeqDatabase.py to BioSeqDatabase.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/BioSQL/DBUtils.py to DBUtils.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/BioSQL/__init__.py to __init__.cpython-311.pyc running install_egg_info Copying biopython.egg-info to /<>/debian/tmp/usr/lib/python3.11/dist-packages/biopython-1.80.egg-info Skipping SOURCES.txt running install_scripts dh_numpy3 -ppython3-biopython mv debian/python3-biopython.substvars.new debian/python3-biopython.substvars make[1]: Leaving directory '/<>' dh_install -O--buildsystem=pybuild install -m0755 -d debian/python3-biopython//usr/lib/python3.11/dist-packages cp --reflink=auto -a debian/tmp/usr/lib/python3.11/dist-packages/Bio debian/tmp/usr/lib/python3.11/dist-packages/biopython-1.80.egg-info debian/python3-biopython//usr/lib/python3.11/dist-packages/ install -m0755 -d debian/python3-biopython-sql//usr/lib/python3.11/dist-packages cp --reflink=auto -a debian/tmp/usr/lib/python3.11/dist-packages/BioSQL debian/python3-biopython-sql//usr/lib/python3.11/dist-packages/ rm -f debian/python-biopython-doc.debhelper.log debian/python3-biopython-sql.debhelper.log debian/python3-biopython.debhelper.log debian/rules override_dh_installdocs-indep make[1]: Entering directory '/<>' dh_installdocs -i dh_installdocs: warning: Cannot auto-detect main package for python-biopython-doc. If the default is wrong, please use --doc-main-package install -m0755 -d debian/python-biopython-doc/usr/share/doc/python-biopython-doc install -m0755 -d debian/python-biopython-doc/usr/share/doc/python-biopython-doc cd './Doc/..' && find 'Doc' \( -type f -or -type l \) -and ! -empty -print0 | LC_ALL=C sort -z | xargs -0 -I {} cp --reflink=auto --parents -dp {} /<>/debian/python-biopython-doc/usr/share/doc/python-biopython-doc cp --reflink=auto -a ./debian/README.test debian/python-biopython-doc/usr/share/doc/python-biopython-doc cp --reflink=auto -a ./debian/tests/run-unit-test debian/python-biopython-doc/usr/share/doc/python-biopython-doc cd './debian/Tests_fixme/..' && find 'Tests_fixme' \( -type f -or -type l \) -and ! -empty -print0 | LC_ALL=C sort -z | xargs -0 -I {} cp --reflink=auto --parents -dp {} /<>/debian/python-biopython-doc/usr/share/doc/python-biopython-doc chmod -R u\+rw,go=rX debian/python-biopython-doc/usr/share/doc install -p -m0644 debian/copyright debian/python-biopython-doc/usr/share/doc/python-biopython-doc/copyright install -m0755 -d debian/python-biopython-doc/usr/share/doc-base/ install -p -m0644 debian/python-biopython-doc.doc-base debian/python-biopython-doc/usr/share/doc-base/python-biopython-doc.biopython-tutorial install -m0755 -d debian/python3-biopython-sql/usr/share/doc/python3-biopython-sql install -p -m0644 debian/copyright debian/python3-biopython-sql/usr/share/doc/python3-biopython-sql/copyright find debian -name __pycache__ -type d | xargs rm -rf find debian -name example.fastq.gz debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality/example.fastq.gz # dh_installdocs seems to refuse copying zero length files (for instance Tests/Blast/tab_2226_tblastn_002.txt) but these are needed for the tests as well cp -a debian/tmp_tests/* /<>/debian/python-biopython-doc/usr/share/doc/python-biopython-doc/ find debian -name .cvsignore -delete # no idea why Doc dir ends up in /usr/share/doc/python-biopython since biopython 1.71 - just move it into right place if [ -d debian/python-biopython-doc/usr/share/doc/python-biopython/Doc ] ; then \ mv debian/python-biopython-doc/usr/share/doc/python-biopython/Doc debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc ; \ fi cd debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc && make clean make[2]: Entering directory '/<>/debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc' grep: ../Bio/__init__.py: No such file or directory File "", line 1 ; print('dev' if 'dev' in __version__ else __version__) ^ SyntaxError: invalid syntax ( for f in ; do make clean -C $f ; done ) rm -f Tutorial.aux rm -f Tutorial.toc rm -f Tutorial.log rm -f Tutorial.out rm -f Tutorial.haux rm -f Tutorial.htoc rm -f biopdb_faq.aux rm -f biopdb_faq.log rm -f biopdb_faq.out rm -f Tutorial/*.aux make[2]: Leaving directory '/<>/debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc' find debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc -name Makefile -delete find debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc -name "*.aux" -delete find debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc -name "*.lyx" -delete find debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc -type d -empty -delete make[1]: Leaving directory '/<>' dh_installdocs -O--buildsystem=pybuild -Npython-biopython-doc -Npython3-biopython-sql install -m0755 -d debian/python3-biopython/usr/share/doc/python3-biopython install -m0755 -d debian/python3-biopython/usr/share/doc/python3-biopython cp --reflink=auto -a ./CONTRIB.rst debian/python3-biopython/usr/share/doc/python3-biopython cp --reflink=auto -a ./CONTRIBUTING.rst debian/python3-biopython/usr/share/doc/python3-biopython cp --reflink=auto -a ./DEPRECATED.rst debian/python3-biopython/usr/share/doc/python3-biopython cp --reflink=auto -a ./NEWS.rst debian/python3-biopython/usr/share/doc/python3-biopython chmod -R u\+rw,go=rX debian/python3-biopython/usr/share/doc install -p -m0644 debian/README.Debian debian/python3-biopython/usr/share/doc/python3-biopython/README.Debian install -p -m0644 debian/copyright debian/python3-biopython/usr/share/doc/python3-biopython/copyright dh_installchangelogs -O--buildsystem=pybuild install -m0755 -d debian/python3-biopython/usr/share/doc/python3-biopython install -p -m0644 debian/.debhelper/generated/python3-biopython/dh_installchangelogs.dch.trimmed debian/python3-biopython/usr/share/doc/python3-biopython/changelog.Debian install -p -m0644 debian/NEWS debian/python3-biopython/usr/share/doc/python3-biopython/NEWS.Debian install -m0755 -d debian/python3-biopython-sql/usr/share/doc/python3-biopython-sql install -p -m0644 debian/.debhelper/generated/python3-biopython-sql/dh_installchangelogs.dch.trimmed debian/python3-biopython-sql/usr/share/doc/python3-biopython-sql/changelog.Debian install -p -m0644 debian/NEWS debian/python3-biopython-sql/usr/share/doc/python3-biopython-sql/NEWS.Debian install -m0755 -d debian/python-biopython-doc/usr/share/doc/python-biopython-doc install -p -m0644 debian/.debhelper/generated/python-biopython-doc/dh_installchangelogs.dch.trimmed debian/python-biopython-doc/usr/share/doc/python-biopython-doc/changelog.Debian install -p -m0644 debian/NEWS debian/python-biopython-doc/usr/share/doc/python-biopython-doc/NEWS.Debian dh_python3 -O--buildsystem=pybuild D: dh_python3 dh_python3:179: version: 5.20230130 D: dh_python3 dh_python3:180: argv: ['/usr/bin/dh_python3', '-O--buildsystem=pybuild'] D: dh_python3 dh_python3:181: options: Namespace(guess_deps=True, skip_private=False, verbose=True, arch=None, package=None, no_package=None, remaining_packages=False, compile_all=False, vrange=None, regexpr=None, accept_upstream_versions=False, depends=None, depends_section=None, recommends=None, recommends_section=None, suggests=None, suggests_section=None, requires=None, shebang=None, ignore_shebangs=False, clean_dbg_pkg=True, no_ext_rename=False, no_shebang_rewrite=False, private_dir=None, O=['--buildsystem=pybuild']) D: dh_python3 dh_python3:182: supported Python versions: 3.11 (default=3.11) D: dh_python3 debhelper:149: skipping package: python-biopython-doc D: dh_python3 debhelper:183: source=python-biopython, binary packages=['python3-biopython', 'python3-biopython-sql'] D: dh_python3 dh_python3:204: processing package python3-biopython... D: dh_python3 fs:52: moving files from debian/python3-biopython/usr/lib/python3.11/dist-packages to debian/python3-biopython/usr/lib/python3/dist-packages/ D: dh_python3 fs:400: package python3-biopython details = {'requires.txt': {'debian/python3-biopython/usr/lib/python3/dist-packages/biopython-1.80.egg-info/requires.txt'}, 'egg-info': set(), 'dist-info': set(), 'nsp.txt': set(), 'shebangs': set(), 'public_vers': {Version('3')}, 'private_dirs': {}, 'compile': True, 'ext_vers': {Version('3.11')}, 'ext_no_version': set()} D: dh_python3 depends:117: generating dependencies for package python3-biopython D: dh_python3 pydist:173: trying to find dependency for numpy (python=None) D: dh_python3 pydist:207: dependency: module seems to be installed D: dh_python3 pydist:270: dependency: included in build-deps D: dh_python3 depends:281: D={'python3 (>= 3.11~)', 'python3 (<< 3.12)', 'python3:any', 'python3-numpy'}; R=[]; S=[]; E=[], B=[]; RT=[] D: dh_python3 dh_python3:204: processing package python3-biopython-sql... D: dh_python3 fs:52: moving files from debian/python3-biopython-sql/usr/lib/python3.11/dist-packages to debian/python3-biopython-sql/usr/lib/python3/dist-packages/ D: dh_python3 fs:400: package python3-biopython-sql details = {'requires.txt': set(), 'egg-info': set(), 'dist-info': set(), 'nsp.txt': set(), 'shebangs': set(), 'public_vers': {Version('3')}, 'private_dirs': {}, 'compile': True, 'ext_vers': set(), 'ext_no_version': set()} D: dh_python3 depends:117: generating dependencies for package python3-biopython-sql D: dh_python3 depends:281: D={'python3:any'}; R=[]; S=[]; E=[], B=[]; RT=[] dh_installsystemduser -O--buildsystem=pybuild dh_lintian -O--buildsystem=pybuild install -m0755 -d debian/python3-biopython/usr/share/lintian/overrides install -p -m0644 debian/python3-biopython.lintian-overrides debian/python3-biopython/usr/share/lintian/overrides/python3-biopython install -m0755 -d debian/python-biopython-doc/usr/share/lintian/overrides install -p -m0644 debian/python-biopython-doc.lintian-overrides debian/python-biopython-doc/usr/share/lintian/overrides/python-biopython-doc dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild install -m0755 -d debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Entrez/DTDs rm -f debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Entrez/DTDs/mathml2.dtd ln -s ../../../../../../share/xml/w3c-sgml-lib/schema/dtd/XX-MathML2-20031104/mathml2.dtd debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Entrez/DTDs/mathml2.dtd dh_strip_nondeterminism -O--buildsystem=pybuild Using 1678951574 as canonical time Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/GD_sigil_arrow_heads.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/three_track_cl2a.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/hist_plot.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/phylo-draw-example.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/biopython_logo_xs.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/plasmid_linear_nice.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/gc_plot.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/plasmid_linear.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/biopython_logo_white.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/dot_plot.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/three_track_simple.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/phylo-color.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/GD_sigils.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/phylo-simple-draw.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/PSIBlastRecord.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/three_track_cl.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/GD_sigil_labels.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/phylo-color-draw.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/smcra.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/biopython_logo_l.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/tRNA_chrom.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/dot_plot_scatter.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/BlastRecord.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/GD_sigil_arrow_shafts.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/phylo-dot.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/simple_chrom.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/phylo-rooted.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/phylo-apaf-zoom.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/biopython_logo_s.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/phylo-apaf.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/SRR001666.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/biopython_logo_m.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/plasmid_circular_nice.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/plasmid_circular.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/examples/ls_orchid.gbk.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Tests/KEGG/map03070.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Tests/KEGG/map01100.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Tests/Roche/E3MFGYR02_random_10_reads.sff.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Tests/Fasta/flowers.pro.gz using File::StripNondeterminism::handlers::gzip dh_compress -O--buildsystem=pybuild cd debian/python3-biopython cd debian/python-biopython-doc cd debian/python3-biopython-sql chmod a-x usr/share/doc/python3-biopython-sql/NEWS.Debian usr/share/doc/python3-biopython-sql/changelog.Debian chmod a-x usr/share/doc/python3-biopython/CONTRIB.rst usr/share/doc/python3-biopython/DEPRECATED.rst usr/share/doc/python3-biopython/NEWS.Debian usr/share/doc/python3-biopython/NEWS.rst usr/share/doc/python3-biopython/changelog.Debian gzip -9nf usr/share/doc/python3-biopython/CONTRIB.rst usr/share/doc/python3-biopython/DEPRECATED.rst usr/share/doc/python3-biopython/NEWS.Debian usr/share/doc/python3-biopython/NEWS.rst usr/share/doc/python3-biopython/changelog.Debian gzip -9nf usr/share/doc/python3-biopython-sql/NEWS.Debian usr/share/doc/python3-biopython-sql/changelog.Debian cd '/<>' cd '/<>' chmod a-x usr/share/doc/python-biopython-doc/Doc/Tutorial.pdf usr/share/doc/python-biopython-doc/Doc/Tutorial.tex usr/share/doc/python-biopython-doc/Doc/Tutorial.txt usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_align.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_appendix.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_blast.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_cluster.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_contributing.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_cookbook.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_entrez.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_graphics.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_introduction.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_kegg.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_learning.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_motifs.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_pdb.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_phenotype.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_phylo.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_popgen.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_quick_start.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_searchio.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_seq_annot.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_seq_objects.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_seqio.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_testing.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_uniprot.tex usr/share/doc/python-biopython-doc/Doc/_minted-Tutorial/0EF47CD31A1F702FF10BD5C95E6D18FCBD02851C2FB632864165FCA492046548.pygtex usr/share/doc/python-biopython-doc/Doc/_minted-Tutorial/67B3F646AA5F8690151428081229D39B9543DFECA235A69AE23006BA05B4EB70.pygtex usr/share/doc/python-biopython-doc/Doc/_minted-Tutorial/7B75AD289117B9F25E36C48BBFCB0A759543DFECA235A69AE23006BA05B4EB70.pygtex usr/share/doc/python-biopython-doc/Doc/_minted-Tutorial/9153ABDB5D850EC42F344B9B42C10E4FBD02851C2FB632864165FCA492046548.pygtex usr/share/doc/python-biopython-doc/Doc/_minted-Tutorial/98D9A5E0CD47E306CA0DA2AFE878514ABD02851C2FB632864165FCA492046548.pygtex usr/share/doc/python-biopython-doc/Doc/_minted-Tutorial/AA26452EC447FD01D35D14B1CE4F3147BD02851C2FB632864165FCA492046548.pygtex usr/share/doc/python-biopython-doc/Doc/_minted-Tutorial/DE6EBD36098288038E8FFA4A045EC8FDBD02851C2FB632864165FCA492046548.pygtex usr/share/doc/python-biopython-doc/Doc/_minted-Tutorial/EE9671DEE2B114F544A5881F074C33B29543DFECA235A69AE23006BA05B4EB70.pygtex usr/share/doc/python-biopython-doc/Doc/_minted-Tutorial/default.pygstyle usr/share/doc/python-biopython-doc/Doc/api/conf.py usr/share/doc/python-biopython-doc/Doc/biopdb_faq.pdf usr/share/doc/python-biopython-doc/Doc/biopdb_faq.tex usr/share/doc/python-biopython-doc/Doc/cookbook/Restriction/Restriction.md usr/share/doc/python-biopython-doc/Doc/doc.rst 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usr/share/doc/python-biopython-doc/Tests/test_SearchIO_blast_xml.py usr/share/doc/python-biopython-doc/Tests/test_SearchIO_blast_xml_index.py usr/share/doc/python-biopython-doc/Tests/test_SearchIO_blat_psl.py usr/share/doc/python-biopython-doc/Tests/test_SearchIO_exonerate.py usr/share/doc/python-biopython-doc/Tests/test_SearchIO_fasta_m10.py usr/share/doc/python-biopython-doc/Tests/test_SearchIO_hhsuite2_text.py usr/share/doc/python-biopython-doc/Tests/test_SearchIO_hmmer2_text.py usr/share/doc/python-biopython-doc/Tests/test_SearchIO_hmmer2_text_index.py usr/share/doc/python-biopython-doc/Tests/test_SearchIO_hmmer3_domtab.py usr/share/doc/python-biopython-doc/Tests/test_SearchIO_hmmer3_domtab_index.py usr/share/doc/python-biopython-doc/Tests/test_SearchIO_hmmer3_tab.py usr/share/doc/python-biopython-doc/Tests/test_SearchIO_hmmer3_tab_index.py usr/share/doc/python-biopython-doc/Tests/test_SearchIO_hmmer3_text.py usr/share/doc/python-biopython-doc/Tests/test_SearchIO_hmmer3_text_index.py usr/share/doc/python-biopython-doc/Tests/test_SearchIO_legacy.py usr/share/doc/python-biopython-doc/Tests/test_SearchIO_model.py usr/share/doc/python-biopython-doc/Tests/test_SearchIO_write.py usr/share/doc/python-biopython-doc/Tests/test_SeqFeature.py usr/share/doc/python-biopython-doc/Tests/test_SeqIO.py usr/share/doc/python-biopython-doc/Tests/test_SeqIO_AbiIO.py usr/share/doc/python-biopython-doc/Tests/test_SeqIO_FastaIO.py usr/share/doc/python-biopython-doc/Tests/test_SeqIO_Insdc.py usr/share/doc/python-biopython-doc/Tests/test_SeqIO_PdbIO.py usr/share/doc/python-biopython-doc/Tests/test_SeqIO_QualityIO.py usr/share/doc/python-biopython-doc/Tests/test_SeqIO_SeqXML.py usr/share/doc/python-biopython-doc/Tests/test_SeqIO_SnapGene.py usr/share/doc/python-biopython-doc/Tests/test_SeqIO_TwoBitIO.py usr/share/doc/python-biopython-doc/Tests/test_SeqIO_Xdna.py usr/share/doc/python-biopython-doc/Tests/test_SeqIO_features.py usr/share/doc/python-biopython-doc/Tests/test_SeqIO_index.py usr/share/doc/python-biopython-doc/Tests/test_SeqIO_write.py usr/share/doc/python-biopython-doc/Tests/test_SeqRecord.py usr/share/doc/python-biopython-doc/Tests/test_SeqUtils.py usr/share/doc/python-biopython-doc/Tests/test_Seq_objs.py usr/share/doc/python-biopython-doc/Tests/test_SffIO.py usr/share/doc/python-biopython-doc/Tests/test_SwissProt.py usr/share/doc/python-biopython-doc/Tests/test_TCoffee_tool.py usr/share/doc/python-biopython-doc/Tests/test_TogoWS.py usr/share/doc/python-biopython-doc/Tests/test_TreeConstruction.py usr/share/doc/python-biopython-doc/Tests/test_Tutorial.py usr/share/doc/python-biopython-doc/Tests/test_UniGene.py usr/share/doc/python-biopython-doc/Tests/test_UniProt_GOA.py usr/share/doc/python-biopython-doc/Tests/test_Uniprot.py usr/share/doc/python-biopython-doc/Tests/test_Wise.py usr/share/doc/python-biopython-doc/Tests/test_align.py usr/share/doc/python-biopython-doc/Tests/test_align_substitution_matrices.py usr/share/doc/python-biopython-doc/Tests/test_bgzf.py usr/share/doc/python-biopython-doc/Tests/test_cellosaurus.py usr/share/doc/python-biopython-doc/Tests/test_codonalign.py usr/share/doc/python-biopython-doc/Tests/test_geo.py usr/share/doc/python-biopython-doc/Tests/test_motifs.py usr/share/doc/python-biopython-doc/Tests/test_pairwise_aligner.py usr/share/doc/python-biopython-doc/Tests/test_pairwise_alignment_map.py usr/share/doc/python-biopython-doc/Tests/test_phenotype.py usr/share/doc/python-biopython-doc/Tests/test_prodoc.py usr/share/doc/python-biopython-doc/Tests/test_prosite.py usr/share/doc/python-biopython-doc/Tests/test_samtools_tool.py usr/share/doc/python-biopython-doc/Tests/test_seq.py usr/share/doc/python-biopython-doc/Tests_avoid/test_EmbossPhylipNew.py usr/share/doc/python-biopython-doc/Tests_avoid/test_MSAProbs_tool.py usr/share/doc/python-biopython-doc/Tests_avoid/test_PAML_tools.py usr/share/doc/python-biopython-doc/Tests_avoid/test_PDB_ResidueDepth.py usr/share/doc/python-biopython-doc/Tests_avoid/test_PopGen_GenePop_EasyController.py usr/share/doc/python-biopython-doc/Tests_avoid/test_XXmotif_tool.py usr/share/doc/python-biopython-doc/Tests_avoid/test_mmtf.py usr/share/doc/python-biopython-doc/changelog.Debian cd '/<>' rm -f debian/python-biopython-doc.debhelper.log debian/python3-biopython-sql.debhelper.log debian/rules override_dh_fixperms make[1]: Entering directory '/<>' dh_fixperms find debian/python3-biopython ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/python-biopython-doc ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/python3-biopython-sql ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/python3-biopython/usr/share/doc -type f -a -true -a ! -regex 'debian/python3-biopython/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-biopython-sql/usr/share/doc -type f -a -true -a ! -regex 'debian/python3-biopython-sql/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-biopython-sql/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/python3-biopython/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/python3-biopython/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-biopython-sql -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-biopython-sql/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w find debian/python3-biopython -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python-biopython-doc/usr/share/doc -type f -a -true -a ! -regex 'debian/python-biopython-doc/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-biopython/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w find debian/python-biopython-doc/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/python-biopython-doc/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python-biopython-doc -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian -name "*.dtd" -exec chmod -x \{\} \; chmod: cannot operate on dangling symlink 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Entrez/DTDs/mathml2.dtd' make[1]: Leaving directory '/<>' dh_missing -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild install -m0755 -d debian/python3-biopython/usr/lib/debug/.dwz/x86_64-linux-gnu dwz -mdebian/python3-biopython/usr/lib/debug/.dwz/x86_64-linux-gnu/python3-biopython.debug -M/usr/lib/debug/.dwz/x86_64-linux-gnu/python3-biopython.debug -- debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Align/_aligners.cpython-311-x86_64-linux-gnu.so debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Cluster/_cluster.cpython-311-x86_64-linux-gnu.so debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Nexus/cnexus.cpython-311-x86_64-linux-gnu.so debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/QCPSuperimposer/qcprotmodule.cpython-311-x86_64-linux-gnu.so debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/ccealign.cpython-311-x86_64-linux-gnu.so debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/kdtrees.cpython-311-x86_64-linux-gnu.so debian/python3-biopython/usr/lib/python3/dist-packages/Bio/SeqIO/_twoBitIO.cpython-311-x86_64-linux-gnu.so debian/python3-biopython/usr/lib/python3/dist-packages/Bio/cpairwise2.cpython-311-x86_64-linux-gnu.so debian/python3-biopython/usr/lib/python3/dist-packages/Bio/motifs/_pwm.cpython-311-x86_64-linux-gnu.so objcopy --compress-debug-sections debian/python3-biopython/usr/lib/debug/.dwz/x86_64-linux-gnu/python3-biopython.debug chmod 0644 -- debian/python3-biopython/usr/lib/debug/.dwz/x86_64-linux-gnu/python3-biopython.debug dh_strip -a -O--buildsystem=pybuild debugedit --build-id --build-id-seed=python3-biopython/1.80\+dfsg-4build1 debian/python3-biopython/usr/lib/python3/dist-packages/Bio/cpairwise2.cpython-311-x86_64-linux-gnu.so debugedit: debian/python3-biopython/usr/lib/python3/dist-packages/Bio/cpairwise2.cpython-311-x86_64-linux-gnu.so: Unknown DWARF DW_FORM_0x1f20 2814e030facca99793b4c800b9c45401675f04ee install -m0755 -d debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/28 objcopy --only-keep-debug --compress-debug-sections debian/python3-biopython/usr/lib/python3/dist-packages/Bio/cpairwise2.cpython-311-x86_64-linux-gnu.so debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/28/14e030facca99793b4c800b9c45401675f04ee.debug chmod 0644 -- debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/28/14e030facca99793b4c800b9c45401675f04ee.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded -o /tmp/uqstNZRnXw/stripXvK6go debian/python3-biopython/usr/lib/python3/dist-packages/Bio/cpairwise2.cpython-311-x86_64-linux-gnu.so chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/cpairwise2.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/stripXvK6go cat '/tmp/uqstNZRnXw/stripXvK6go' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/cpairwise2.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/uqstNZRnXw/stripXvK6go debian/python3-biopython/usr/lib/python3/dist-packages/Bio/cpairwise2.cpython-311-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/28/14e030facca99793b4c800b9c45401675f04ee.debug debian/python3-biopython/usr/lib/python3/dist-packages/Bio/cpairwise2.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/objcopyvMWC4K chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/cpairwise2.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/objcopyvMWC4K cat '/tmp/uqstNZRnXw/objcopyvMWC4K' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/cpairwise2.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/uqstNZRnXw/objcopyvMWC4K debian/python3-biopython/usr/lib/python3/dist-packages/Bio/cpairwise2.cpython-311-x86_64-linux-gnu.so debugedit --build-id --build-id-seed=python3-biopython/1.80\+dfsg-4build1 debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/kdtrees.cpython-311-x86_64-linux-gnu.so debugedit: debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/kdtrees.cpython-311-x86_64-linux-gnu.so: Unknown DWARF DW_FORM_0x1f20 c088497433de793069a4901895735bccf2bfacc6 install -m0755 -d debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/c0 objcopy --only-keep-debug --compress-debug-sections debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/kdtrees.cpython-311-x86_64-linux-gnu.so debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/c0/88497433de793069a4901895735bccf2bfacc6.debug chmod 0644 -- debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/c0/88497433de793069a4901895735bccf2bfacc6.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded -o /tmp/uqstNZRnXw/stripRWd8VM debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/kdtrees.cpython-311-x86_64-linux-gnu.so chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/kdtrees.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/stripRWd8VM cat '/tmp/uqstNZRnXw/stripRWd8VM' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/kdtrees.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/uqstNZRnXw/stripRWd8VM debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/kdtrees.cpython-311-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/c0/88497433de793069a4901895735bccf2bfacc6.debug debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/kdtrees.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/objcopyl4EgjQ chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/kdtrees.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/objcopyl4EgjQ cat '/tmp/uqstNZRnXw/objcopyl4EgjQ' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/kdtrees.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/uqstNZRnXw/objcopyl4EgjQ debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/kdtrees.cpython-311-x86_64-linux-gnu.so debugedit --build-id --build-id-seed=python3-biopython/1.80\+dfsg-4build1 debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/ccealign.cpython-311-x86_64-linux-gnu.so debugedit: debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/ccealign.cpython-311-x86_64-linux-gnu.so: Unknown DWARF DW_FORM_0x1f21 550b7ef310638a81b771c00dc37ff5312da62259 install -m0755 -d debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/55 objcopy --only-keep-debug --compress-debug-sections debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/ccealign.cpython-311-x86_64-linux-gnu.so debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/55/0b7ef310638a81b771c00dc37ff5312da62259.debug chmod 0644 -- debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/55/0b7ef310638a81b771c00dc37ff5312da62259.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded -o /tmp/uqstNZRnXw/stripujwfaV debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/ccealign.cpython-311-x86_64-linux-gnu.so chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/ccealign.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/stripujwfaV cat '/tmp/uqstNZRnXw/stripujwfaV' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/ccealign.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/uqstNZRnXw/stripujwfaV debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/ccealign.cpython-311-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/55/0b7ef310638a81b771c00dc37ff5312da62259.debug debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/ccealign.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/objcopyBahI9G chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/ccealign.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/objcopyBahI9G cat '/tmp/uqstNZRnXw/objcopyBahI9G' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/ccealign.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/uqstNZRnXw/objcopyBahI9G debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/ccealign.cpython-311-x86_64-linux-gnu.so debugedit --build-id --build-id-seed=python3-biopython/1.80\+dfsg-4build1 debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/QCPSuperimposer/qcprotmodule.cpython-311-x86_64-linux-gnu.so debugedit: debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/QCPSuperimposer/qcprotmodule.cpython-311-x86_64-linux-gnu.so: Unknown DWARF DW_FORM_0x1f20 2e9ced3b7fdc5e19b97167f9b560b1e92514e958 install -m0755 -d debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/2e objcopy --only-keep-debug --compress-debug-sections debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/QCPSuperimposer/qcprotmodule.cpython-311-x86_64-linux-gnu.so debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/2e/9ced3b7fdc5e19b97167f9b560b1e92514e958.debug chmod 0644 -- debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/2e/9ced3b7fdc5e19b97167f9b560b1e92514e958.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded -o /tmp/uqstNZRnXw/stripAnkJ_B debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/QCPSuperimposer/qcprotmodule.cpython-311-x86_64-linux-gnu.so chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/QCPSuperimposer/qcprotmodule.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/stripAnkJ_B cat '/tmp/uqstNZRnXw/stripAnkJ_B' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/QCPSuperimposer/qcprotmodule.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/uqstNZRnXw/stripAnkJ_B debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/QCPSuperimposer/qcprotmodule.cpython-311-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/2e/9ced3b7fdc5e19b97167f9b560b1e92514e958.debug debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/QCPSuperimposer/qcprotmodule.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/objcopy_8X35E chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/QCPSuperimposer/qcprotmodule.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/objcopy_8X35E cat '/tmp/uqstNZRnXw/objcopy_8X35E' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/QCPSuperimposer/qcprotmodule.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/uqstNZRnXw/objcopy_8X35E debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/QCPSuperimposer/qcprotmodule.cpython-311-x86_64-linux-gnu.so debugedit --build-id --build-id-seed=python3-biopython/1.80\+dfsg-4build1 debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Cluster/_cluster.cpython-311-x86_64-linux-gnu.so debugedit: debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Cluster/_cluster.cpython-311-x86_64-linux-gnu.so: Unknown DWARF DW_FORM_0x1f20 9a1a2b6b82f43beb7f29d76cdb124d761d085813 install -m0755 -d debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/9a objcopy --only-keep-debug --compress-debug-sections debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Cluster/_cluster.cpython-311-x86_64-linux-gnu.so debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/9a/1a2b6b82f43beb7f29d76cdb124d761d085813.debug chmod 0644 -- debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/9a/1a2b6b82f43beb7f29d76cdb124d761d085813.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded -o /tmp/uqstNZRnXw/stripPXrXXa debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Cluster/_cluster.cpython-311-x86_64-linux-gnu.so chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Cluster/_cluster.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/stripPXrXXa cat '/tmp/uqstNZRnXw/stripPXrXXa' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Cluster/_cluster.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/uqstNZRnXw/stripPXrXXa debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Cluster/_cluster.cpython-311-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/9a/1a2b6b82f43beb7f29d76cdb124d761d085813.debug debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Cluster/_cluster.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/objcopyeR0Evj chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Cluster/_cluster.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/objcopyeR0Evj cat '/tmp/uqstNZRnXw/objcopyeR0Evj' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Cluster/_cluster.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/uqstNZRnXw/objcopyeR0Evj debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Cluster/_cluster.cpython-311-x86_64-linux-gnu.so debugedit --build-id --build-id-seed=python3-biopython/1.80\+dfsg-4build1 debian/python3-biopython/usr/lib/python3/dist-packages/Bio/SeqIO/_twoBitIO.cpython-311-x86_64-linux-gnu.so debugedit: debian/python3-biopython/usr/lib/python3/dist-packages/Bio/SeqIO/_twoBitIO.cpython-311-x86_64-linux-gnu.so: Unknown DWARF DW_FORM_0x1f20 29fa6dd079124b1513f187905976877fd378011d install -m0755 -d debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/29 objcopy --only-keep-debug --compress-debug-sections debian/python3-biopython/usr/lib/python3/dist-packages/Bio/SeqIO/_twoBitIO.cpython-311-x86_64-linux-gnu.so debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/29/fa6dd079124b1513f187905976877fd378011d.debug chmod 0644 -- debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/29/fa6dd079124b1513f187905976877fd378011d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded -o /tmp/uqstNZRnXw/stripsZWvWi debian/python3-biopython/usr/lib/python3/dist-packages/Bio/SeqIO/_twoBitIO.cpython-311-x86_64-linux-gnu.so chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/SeqIO/_twoBitIO.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/stripsZWvWi cat '/tmp/uqstNZRnXw/stripsZWvWi' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/SeqIO/_twoBitIO.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/uqstNZRnXw/stripsZWvWi debian/python3-biopython/usr/lib/python3/dist-packages/Bio/SeqIO/_twoBitIO.cpython-311-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/29/fa6dd079124b1513f187905976877fd378011d.debug debian/python3-biopython/usr/lib/python3/dist-packages/Bio/SeqIO/_twoBitIO.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/objcopy4Q9oeY chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/SeqIO/_twoBitIO.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/objcopy4Q9oeY cat '/tmp/uqstNZRnXw/objcopy4Q9oeY' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/SeqIO/_twoBitIO.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/uqstNZRnXw/objcopy4Q9oeY debian/python3-biopython/usr/lib/python3/dist-packages/Bio/SeqIO/_twoBitIO.cpython-311-x86_64-linux-gnu.so debugedit --build-id --build-id-seed=python3-biopython/1.80\+dfsg-4build1 debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Nexus/cnexus.cpython-311-x86_64-linux-gnu.so debugedit: debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Nexus/cnexus.cpython-311-x86_64-linux-gnu.so: Unknown DWARF DW_FORM_0x1f20 48fa4ee0ec41ccfc299515bf4748a447015ca365 install -m0755 -d debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/48 objcopy --only-keep-debug --compress-debug-sections debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Nexus/cnexus.cpython-311-x86_64-linux-gnu.so debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/48/fa4ee0ec41ccfc299515bf4748a447015ca365.debug chmod 0644 -- debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/48/fa4ee0ec41ccfc299515bf4748a447015ca365.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded -o /tmp/uqstNZRnXw/stripqIb40t debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Nexus/cnexus.cpython-311-x86_64-linux-gnu.so chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Nexus/cnexus.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/stripqIb40t cat '/tmp/uqstNZRnXw/stripqIb40t' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Nexus/cnexus.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/uqstNZRnXw/stripqIb40t debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Nexus/cnexus.cpython-311-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/48/fa4ee0ec41ccfc299515bf4748a447015ca365.debug debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Nexus/cnexus.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/objcopyIcC6q4 chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Nexus/cnexus.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/objcopyIcC6q4 cat '/tmp/uqstNZRnXw/objcopyIcC6q4' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Nexus/cnexus.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/uqstNZRnXw/objcopyIcC6q4 debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Nexus/cnexus.cpython-311-x86_64-linux-gnu.so debugedit --build-id --build-id-seed=python3-biopython/1.80\+dfsg-4build1 debian/python3-biopython/usr/lib/python3/dist-packages/Bio/motifs/_pwm.cpython-311-x86_64-linux-gnu.so debugedit: debian/python3-biopython/usr/lib/python3/dist-packages/Bio/motifs/_pwm.cpython-311-x86_64-linux-gnu.so: Unknown DWARF DW_FORM_0x1f20 41ffdf8f7afb392d0905be29ca1cbf1f4ebd0faf install -m0755 -d debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/41 objcopy --only-keep-debug --compress-debug-sections debian/python3-biopython/usr/lib/python3/dist-packages/Bio/motifs/_pwm.cpython-311-x86_64-linux-gnu.so debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/41/ffdf8f7afb392d0905be29ca1cbf1f4ebd0faf.debug chmod 0644 -- debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/41/ffdf8f7afb392d0905be29ca1cbf1f4ebd0faf.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded -o /tmp/uqstNZRnXw/stripqRa2yI debian/python3-biopython/usr/lib/python3/dist-packages/Bio/motifs/_pwm.cpython-311-x86_64-linux-gnu.so chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/motifs/_pwm.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/stripqRa2yI cat '/tmp/uqstNZRnXw/stripqRa2yI' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/motifs/_pwm.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/uqstNZRnXw/stripqRa2yI debian/python3-biopython/usr/lib/python3/dist-packages/Bio/motifs/_pwm.cpython-311-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/41/ffdf8f7afb392d0905be29ca1cbf1f4ebd0faf.debug debian/python3-biopython/usr/lib/python3/dist-packages/Bio/motifs/_pwm.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/objcopyfqp0s0 chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/motifs/_pwm.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/objcopyfqp0s0 cat '/tmp/uqstNZRnXw/objcopyfqp0s0' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/motifs/_pwm.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/uqstNZRnXw/objcopyfqp0s0 debian/python3-biopython/usr/lib/python3/dist-packages/Bio/motifs/_pwm.cpython-311-x86_64-linux-gnu.so debugedit --build-id --build-id-seed=python3-biopython/1.80\+dfsg-4build1 debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Align/_aligners.cpython-311-x86_64-linux-gnu.so debugedit: debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Align/_aligners.cpython-311-x86_64-linux-gnu.so: Unknown DWARF DW_FORM_0x1f20 92c017fd7f3eaf1cad0103bddb6921631ea62316 install -m0755 -d debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/92 objcopy --only-keep-debug --compress-debug-sections debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Align/_aligners.cpython-311-x86_64-linux-gnu.so debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/92/c017fd7f3eaf1cad0103bddb6921631ea62316.debug chmod 0644 -- debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/92/c017fd7f3eaf1cad0103bddb6921631ea62316.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded -o /tmp/uqstNZRnXw/stripS5ApsA debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Align/_aligners.cpython-311-x86_64-linux-gnu.so chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Align/_aligners.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/stripS5ApsA cat '/tmp/uqstNZRnXw/stripS5ApsA' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Align/_aligners.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/uqstNZRnXw/stripS5ApsA debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Align/_aligners.cpython-311-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/92/c017fd7f3eaf1cad0103bddb6921631ea62316.debug debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Align/_aligners.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/objcopyEAx4y1 chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Align/_aligners.cpython-311-x86_64-linux-gnu.so /tmp/uqstNZRnXw/objcopyEAx4y1 cat '/tmp/uqstNZRnXw/objcopyEAx4y1' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Align/_aligners.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/uqstNZRnXw/objcopyEAx4y1 debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Align/_aligners.cpython-311-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.dwz cp --reflink=auto -a debian/python3-biopython/usr/lib/debug/.dwz/x86_64-linux-gnu debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.dwz rm -fr debian/python3-biopython/usr/lib/debug/.dwz rmdir -p --ignore-fail-on-non-empty debian/python3-biopython/usr/lib/debug install -m0755 -d debian/.debhelper/python3-biopython/dbgsym-root/usr/share/doc ln -s python3-biopython debian/.debhelper/python3-biopython/dbgsym-root/usr/share/doc/python3-biopython-dbgsym install -m0755 -d debian/.debhelper/python3-biopython dh_makeshlibs -a -O--buildsystem=pybuild rm -f debian/python3-biopython/DEBIAN/shlibs dh_shlibdeps -a -O--buildsystem=pybuild install -m0755 -d debian/python3-biopython/DEBIAN dpkg-shlibdeps -Tdebian/python3-biopython.substvars debian/python3-biopython/usr/lib/python3/dist-packages/Bio/cpairwise2.cpython-311-x86_64-linux-gnu.so debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/kdtrees.cpython-311-x86_64-linux-gnu.so debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/ccealign.cpython-311-x86_64-linux-gnu.so debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/QCPSuperimposer/qcprotmodule.cpython-311-x86_64-linux-gnu.so debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Cluster/_cluster.cpython-311-x86_64-linux-gnu.so debian/python3-biopython/usr/lib/python3/dist-packages/Bio/SeqIO/_twoBitIO.cpython-311-x86_64-linux-gnu.so debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Nexus/cnexus.cpython-311-x86_64-linux-gnu.so debian/python3-biopython/usr/lib/python3/dist-packages/Bio/motifs/_pwm.cpython-311-x86_64-linux-gnu.so debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Align/_aligners.cpython-311-x86_64-linux-gnu.so dh_installdeb -O--buildsystem=pybuild install -m0755 -d debian/python3-biopython/DEBIAN printf '#!/bin/sh\nset -e\n' > debian/python3-biopython/DEBIAN/postinst cat debian/python3-biopython.postinst.debhelper >> debian/python3-biopython/DEBIAN/postinst chmod 0755 -- debian/python3-biopython/DEBIAN/postinst printf '#!/bin/sh\nset -e\n' > debian/python3-biopython/DEBIAN/prerm cat debian/python3-biopython.prerm.debhelper >> debian/python3-biopython/DEBIAN/prerm chmod 0755 -- debian/python3-biopython/DEBIAN/prerm install -m0755 -d debian/python-biopython-doc/DEBIAN install -m0755 -d debian/python3-biopython-sql/DEBIAN printf '#!/bin/sh\nset -e\n' > debian/python3-biopython-sql/DEBIAN/postinst cat debian/python3-biopython-sql.postinst.debhelper >> debian/python3-biopython-sql/DEBIAN/postinst chmod 0755 -- debian/python3-biopython-sql/DEBIAN/postinst printf '#!/bin/sh\nset -e\n' > debian/python3-biopython-sql/DEBIAN/prerm cat debian/python3-biopython-sql.prerm.debhelper >> debian/python3-biopython-sql/DEBIAN/prerm chmod 0755 -- debian/python3-biopython-sql/DEBIAN/prerm dh_gencontrol -O--buildsystem=pybuild install -m0755 -d debian/python-biopython-doc/DEBIAN echo misc:Depends= >> debian/python-biopython-doc.substvars echo misc:Pre-Depends= >> debian/python-biopython-doc.substvars dpkg-gencontrol -ppython-biopython-doc -ldebian/changelog -Tdebian/python-biopython-doc.substvars -Pdebian/python-biopython-doc install -m0755 -d debian/python3-biopython-sql/DEBIAN echo misc:Depends= >> debian/python3-biopython-sql.substvars echo misc:Pre-Depends= >> debian/python3-biopython-sql.substvars dpkg-gencontrol -ppython3-biopython-sql -ldebian/changelog -Tdebian/python3-biopython-sql.substvars -Pdebian/python3-biopython-sql install -m0755 -d debian/python3-biopython/DEBIAN echo misc:Depends= >> debian/python3-biopython.substvars echo misc:Pre-Depends= >> debian/python3-biopython.substvars install -m0755 -d debian/.debhelper/python3-biopython/dbgsym-root/DEBIAN dpkg-gencontrol -ppython3-biopython -ldebian/changelog -Tdebian/python3-biopython.substvars -Pdebian/.debhelper/python3-biopython/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -UBuilt-Using -DAuto-Built-Package=debug-symbols -UProtected -DPackage=python3-biopython-dbgsym "-DDepends=python3-biopython (= \${binary:Version})" "-DDescription=debug symbols for python3-biopython" "-DBuild-Ids=2814e030facca99793b4c800b9c45401675f04ee 29fa6dd079124b1513f187905976877fd378011d 2e9ced3b7fdc5e19b97167f9b560b1e92514e958 41ffdf8f7afb392d0905be29ca1cbf1f4ebd0faf 48fa4ee0ec41ccfc299515bf4748a447015ca365 550b7ef310638a81b771c00dc37ff5312da62259 92c017fd7f3eaf1cad0103bddb6921631ea62316 9a1a2b6b82f43beb7f29d76cdb124d761d085813 c088497433de793069a4901895735bccf2bfacc6" -DSection=debug -DPackage-Type=ddeb -UMulti-Arch -UReplaces -UBreaks dpkg-gencontrol: warning: Provides field of package python3-biopython-sql: substitution variable ${python3:Provides} used, but is not defined chmod 0644 -- debian/python3-biopython-sql/DEBIAN/control chmod 0644 -- debian/.debhelper/python3-biopython/dbgsym-root/DEBIAN/control dpkg-gencontrol -ppython3-biopython -ldebian/changelog -Tdebian/python3-biopython.substvars -Pdebian/python3-biopython chmod 0644 -- debian/python-biopython-doc/DEBIAN/control chmod 0644 -- debian/python3-biopython/DEBIAN/control dh_md5sums -O--buildsystem=pybuild install -m0755 -d debian/python3-biopython/DEBIAN install -m0755 -d debian/python3-biopython-sql/DEBIAN install -m0755 -d debian/python-biopython-doc/DEBIAN cd debian/python3-biopython-sql >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/python3-biopython >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/python3-biopython-sql/DEBIAN/md5sums cd debian/python-biopython-doc >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/python3-biopython/DEBIAN/md5sums install -m0755 -d debian/.debhelper/python3-biopython/dbgsym-root/DEBIAN cd debian/.debhelper/python3-biopython/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/python3-biopython/dbgsym-root/DEBIAN/md5sums chmod 0644 -- debian/python-biopython-doc/DEBIAN/md5sums dh_builddeb -O--buildsystem=pybuild dpkg-deb --root-owner-group --build debian/python3-biopython .. dpkg-deb --root-owner-group --build debian/python-biopython-doc .. dpkg-deb --root-owner-group --build debian/python3-biopython-sql .. dpkg-deb --root-owner-group --build debian/.debhelper/python3-biopython/dbgsym-root debian/.debhelper/scratch-space/build-python3-biopython INFO: pkgstriptranslations version 152 INFO: pkgstriptranslations version 152 INFO: pkgstriptranslations version 152 INFO: pkgstriptranslations version 152 pkgstriptranslations: processing python3-biopython (in debian/python3-biopython); do_strip: , oemstrip: pkgstriptranslations: processing python-biopython-doc (in debian/python-biopython-doc); do_strip: , oemstrip: pkgstriptranslations: processing python3-biopython-sql (in debian/python3-biopython-sql); do_strip: , oemstrip: pkgstriptranslations: processing python3-biopython-dbgsym (in debian/.debhelper/python3-biopython/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/python-biopython-doc/DEBIAN/control, package python-biopython-doc, directory debian/python-biopython-doc INFO: pkgstripfiles: waiting for lock (python-biopython-doc) ... pkgstripfiles: processing control file: debian/.debhelper/python3-biopython/dbgsym-root/DEBIAN/control, package python3-biopython-dbgsym, directory debian/.debhelper/python3-biopython/dbgsym-root dpkg-deb: building package 'python3-biopython-dbgsym' in 'debian/.debhelper/scratch-space/build-python3-biopython/python3-biopython-dbgsym_1.80+dfsg-4build1_amd64.deb'. pkgstripfiles: processing control file: debian/python3-biopython-sql/DEBIAN/control, package python3-biopython-sql, directory debian/python3-biopython-sql INFO: pkgstripfiles: waiting for lock (python3-biopython-sql) ... Renaming python3-biopython-dbgsym_1.80+dfsg-4build1_amd64.deb to python3-biopython-dbgsym_1.80+dfsg-4build1_amd64.ddeb mv debian/.debhelper/scratch-space/build-python3-biopython/python3-biopython-dbgsym_1.80\+dfsg-4build1_amd64.deb ../python3-biopython-dbgsym_1.80\+dfsg-4build1_amd64.ddeb INFO: pkgstripfiles: waiting for lock (python-biopython-doc) ... INFO: pkgstripfiles: waiting for lock (python3-biopython-sql) ... INFO: pkgstripfiles: waiting for lock (python-biopython-doc) ... INFO: pkgstripfiles: waiting for lock (python3-biopython-sql) ... INFO: pkgstripfiles: waiting for lock (python-biopython-doc) ... INFO: pkgstripfiles: waiting for lock (python3-biopython-sql) ... INFO: pkgstripfiles: waiting for lock (python-biopython-doc) ... INFO: pkgstripfiles: waiting for lock (python3-biopython-sql) ... pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/python3-biopython/DEBIAN/control, package python3-biopython, directory debian/python3-biopython pkgstripfiles: Running PNG optimization (using 4 cpus) for package python3-biopython ... pkgstripfiles: No PNG files. dpkg-deb: building package 'python3-biopython' in '../python3-biopython_1.80+dfsg-4build1_amd64.deb'. pkgstripfiles: Disabled PNG optimization for -doc package python-biopython-doc (to save build time) dpkg-deb: building package 'python-biopython-doc' in '../python-biopython-doc_1.80+dfsg-4build1_all.deb'. Searching for duplicated docs in dependency python3-biopython... symlinking NEWS.Debian.gz in python3-biopython-sql to file in python3-biopython symlinking changelog.Debian.gz in python3-biopython-sql to file in python3-biopython pkgstripfiles: Running PNG optimization (using 4 cpus) for package python3-biopython-sql ... pkgstripfiles: No PNG files. dpkg-deb: building package 'python3-biopython-sql' in '../python3-biopython-sql_1.80+dfsg-4build1_all.deb'. dpkg-genbuildinfo --build=binary -O../python-biopython_1.80+dfsg-4build1_amd64.buildinfo dpkg-genchanges --build=binary -mLaunchpad Build Daemon -O../python-biopython_1.80+dfsg-4build1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2023-03-16T07:37:46Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ python-biopython_1.80+dfsg-4build1_amd64.changes: ------------------------------------------------- Format: 1.8 Date: Thu, 16 Mar 2023 07:26:14 +0000 Source: python-biopython Binary: python-biopython-doc python3-biopython python3-biopython-sql Built-For-Profiles: noudeb Architecture: all amd64 Version: 1.80+dfsg-4build1 Distribution: lunar-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Graham Inggs Description: python-biopython-doc - Documentation for the Biopython library python3-biopython - Python3 library for bioinformatics python3-biopython-sql - Biopython support for the BioSQL database schema (Python 3) Changes: python-biopython (1.80+dfsg-4build1) lunar; urgency=medium . * No-change rebuild with Python 3.11 only Checksums-Sha1: 935c77c0a4178fa882386f65e2ae2967b3eab250 16155156 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+------------------------------------------------------------------------------+ Format: 1.0 Source: python-biopython Binary: python-biopython-doc python3-biopython python3-biopython-dbgsym python3-biopython-sql Architecture: all amd64 Version: 1.80+dfsg-4build1 Checksums-Md5: 8c716904d67efba2d6631328fa091c35 16155156 python-biopython-doc_1.80+dfsg-4build1_all.deb bf6050823ff96ee155401b96a399b234 303326 python3-biopython-dbgsym_1.80+dfsg-4build1_amd64.ddeb dcd6919551a7f575c3d9df6ab0c8882d 25576 python3-biopython-sql_1.80+dfsg-4build1_all.deb 130d254ef52c8844558cafd2a471b080 1639562 python3-biopython_1.80+dfsg-4build1_amd64.deb Checksums-Sha1: 935c77c0a4178fa882386f65e2ae2967b3eab250 16155156 python-biopython-doc_1.80+dfsg-4build1_all.deb 5fffb0fd70e2a490fdc9c95e99faf72e2fe9d946 303326 python3-biopython-dbgsym_1.80+dfsg-4build1_amd64.ddeb c4c1acbd4b30b378de43b09566a4e60ac3a25842 25576 python3-biopython-sql_1.80+dfsg-4build1_all.deb 48d76f4994d79881c3cb731eda4ad8ae927831ff 1639562 python3-biopython_1.80+dfsg-4build1_amd64.deb Checksums-Sha256: ed4280aee0a92b1dabc8530b410dd64b4bca065be97088a939e8557c60760b80 16155156 python-biopython-doc_1.80+dfsg-4build1_all.deb 7d7a07dd28f6b29a36293c2e0603525b82c971e31bb94c816eae63649688ac22 303326 python3-biopython-dbgsym_1.80+dfsg-4build1_amd64.ddeb f564b0cdfe537e6376e867e8a593a10e741533104315cb86d0b11dfcf8ba362c 25576 python3-biopython-sql_1.80+dfsg-4build1_all.deb e299d7e535eb15fb8d5251cddd3a28b0781e6078062644c22274f8f9d65b1113 1639562 python3-biopython_1.80+dfsg-4build1_amd64.deb Build-Origin: Ubuntu Build-Architecture: amd64 Build-Date: Thu, 16 Mar 2023 07:37:46 +0000 Build-Path: /<> Build-Tainted-By: merged-usr-via-aliased-dirs usr-local-has-programs Installed-Build-Depends: adduser (= 3.129ubuntu1), autoconf (= 2.71-3), automake (= 1:1.16.5-1.3), autopoint (= 0.21-11), autotools-dev (= 20220109.1), base-files (= 12.3ubuntu1), base-passwd (= 3.6.1), bash (= 5.2.15-2ubuntu1), binutils (= 2.40-2ubuntu3), binutils-common (= 2.40-2ubuntu3), binutils-x86-64-linux-gnu (= 2.40-2ubuntu3), blt (= 2.5.3+dfsg-4.1build2), bsdextrautils (= 2.38.1-4ubuntu1), bsdutils (= 1:2.38.1-4ubuntu1), build-essential (= 12.9ubuntu3), bwa (= 0.7.17-7), bzip2 (= 1.0.8-5build1), clustalo (= 1.2.4-7), clustalw (= 2.1+lgpl-7), coreutils (= 9.1-1ubuntu2), cpp (= 4:12.2.0-3ubuntu1), cpp-12 (= 12.2.0-17ubuntu1), dash (= 0.5.12-2ubuntu1), debconf (= 1.5.82), debhelper (= 13.11.4ubuntu3), debianutils (= 5.7-0.4), debugedit (= 1:5.0-5), dh-autoreconf (= 20), dh-python (= 5.20230130), dh-strip-nondeterminism (= 1.13.1-1), dialign (= 2.2.1-11), diffutils (= 1:3.8-4), dpkg (= 1.21.21ubuntu1), dpkg-dev (= 1.21.21ubuntu1), dssp (= 4.2.2-2), dwz (= 0.15-1), emboss (= 6.6.0+dfsg-12ubuntu1), emboss-data (= 6.6.0+dfsg-12ubuntu1), emboss-lib (= 6.6.0+dfsg-12ubuntu1), fasttree (= 2.1.11-2), file (= 1:5.44-3), findutils (= 4.9.0-3ubuntu1), flex (= 2.6.4-8.1), fontconfig-config (= 2.14.1-3ubuntu3), fonts-dejavu-core (= 2.37-6), fonts-lmodern (= 2.005-1), fonts-lyx (= 2.3.7-1), fonts-urw-base35 (= 20200910-7), g++ (= 4:12.2.0-3ubuntu1), g++-12 (= 12.2.0-17ubuntu1), gcc (= 4:12.2.0-3ubuntu1), gcc-12 (= 12.2.0-17ubuntu1), gcc-12-base (= 12.2.0-17ubuntu1), gcc-13-base (= 13-20230305-1ubuntu1), gettext (= 0.21-11), gettext-base (= 0.21-11), ghostscript (= 10.0.0~dfsg1-0ubuntu1), grep (= 3.8-5), groff-base (= 1.22.4-10), gzip (= 1.12-1ubuntu1), hevea (= 2.36-1build1), hicolor-icon-theme (= 0.17-2), hostname (= 3.23+nmu1ubuntu1), ibverbs-providers (= 44.0-2), imagemagick (= 8:6.9.11.60+dfsg-1.6), imagemagick-6-common (= 8:6.9.11.60+dfsg-1.6), imagemagick-6.q16 (= 8:6.9.11.60+dfsg-1.6), init-system-helpers (= 1.65.2), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.3.1-3), libaom3 (= 3.6.0-1), libapache-pom-java (= 29-2), libarchive-zip-perl (= 1.68-1), libargtable2-0 (= 13-1.1), libasan8 (= 13-20230305-1ubuntu1), libatomic1 (= 13-20230305-1ubuntu1), libattr1 (= 1:2.5.1-4), libaudit-common (= 1:3.0.9-1), libaudit1 (= 1:3.0.9-1), libavahi-client3 (= 0.8-6ubuntu1), libavahi-common-data (= 0.8-6ubuntu1), libavahi-common3 (= 0.8-6ubuntu1), libbinutils (= 2.40-2ubuntu3), libblas3 (= 3.11.0-2), libblkid1 (= 2.38.1-4ubuntu1), libboost-dev (= 1.74.0.3ubuntu7), libboost-regex1.74.0 (= 1.74.0-18.1ubuntu3), libboost1.74-dev (= 1.74.0-18.1ubuntu3), libbrotli1 (= 1.0.9-2build8), libbsd0 (= 0.11.7-4), libbz2-1.0 (= 1.0.8-5build1), libc-bin (= 2.37-0ubuntu1), libc-dev-bin (= 2.37-0ubuntu1), libc6 (= 2.37-0ubuntu1), libc6-dev (= 2.37-0ubuntu1), libcairo2 (= 1.16.0-7), libcap-ng0 (= 0.8.3-1build2), libcap2 (= 1:2.66-3ubuntu2), libcbor0.8 (= 0.8.0-2ubuntu1), libcc1-0 (= 13-20230305-1ubuntu1), libcifpp-data (= 5.0.7.1-1build1), libcifpp5 (= 5.0.7.1-1build1), libcom-err2 (= 1.47.0-1ubuntu1), libcommons-logging-java (= 1.2-3), libcommons-parent-java (= 56-1), libcrypt-dev (= 1:4.4.33-2), libcrypt1 (= 1:4.4.33-2), libctf-nobfd0 (= 2.40-2ubuntu3), libctf0 (= 2.40-2ubuntu3), libcups2 (= 2.4.2-1ubuntu4), libcurl3-gnutls (= 7.88.1-6ubuntu1), libdav1d6 (= 1.0.0-2), libdb5.3 (= 5.3.28+dfsg2-1), libdbus-1-3 (= 1.14.4-1ubuntu1), libde265-0 (= 1.0.11-1), libdebconfclient0 (= 0.267ubuntu1), libdebhelper-perl (= 13.11.4ubuntu3), libdeflate0 (= 1.15-1), libdpkg-perl (= 1.21.21ubuntu1), libdw1 (= 0.188-2.1), libedit2 (= 3.1-20221030-2), libelf1 (= 0.188-2.1), libevent-core-2.1-7a (= 2.1.12-stable-5ubuntu1), libevent-pthreads-2.1-7 (= 2.1.12-stable-5ubuntu1), libexpat1 (= 2.5.0-1), libexpat1-dev (= 2.5.0-1), libfabric1 (= 1.17.0-3), libffi8 (= 3.4.4-1), libfftw3-double3 (= 3.3.10-1ubuntu1), libfido2-1 (= 1.12.0-2), libfile-stripnondeterminism-perl (= 1.13.1-1), libfontbox-java (= 1:1.8.16-2), libfontconfig1 (= 2.14.1-3ubuntu3), libfontenc1 (= 1:1.1.4-1build3), libfreetype6 (= 2.12.1+dfsg-4), libfribidi0 (= 1.0.8-2.1ubuntu1), libgcc-12-dev (= 12.2.0-17ubuntu1), libgcc-s1 (= 13-20230305-1ubuntu1), libgcrypt20 (= 1.10.1-3ubuntu1), libgd3 (= 2.3.3-7ubuntu2), libgdbm-compat4 (= 1.23-3), libgdbm6 (= 1.23-3), libgfortran5 (= 13-20230305-1ubuntu1), libglib2.0-0 (= 2.75.3-3), libgmp10 (= 2:6.2.1+dfsg1-1.1ubuntu1), libgnutls30 (= 3.7.8-5ubuntu1), libgomp1 (= 13-20230305-1ubuntu1), libgpg-error0 (= 1.46-1), libgprofng0 (= 2.40-2ubuntu3), libgraphite2-3 (= 1.3.14-1build2), libgs-common (= 10.0.0~dfsg1-0ubuntu1), libgs10 (= 10.0.0~dfsg1-0ubuntu1), libgs10-common (= 10.0.0~dfsg1-0ubuntu1), libgssapi-krb5-2 (= 1.20.1-1build1), libharfbuzz0b (= 6.0.0+dfsg-3build1), libheif1 (= 1.14.2-1), libhogweed6 (= 3.8.1-2), libhpdf-2.3.0 (= 2.3.0+dfsg-1build1), libhts3 (= 1.16+ds-3), libhtscodecs2 (= 1.3.0-4), libhwloc-plugins (= 2.9.0-1), libhwloc15 (= 2.9.0-1), libibverbs1 (= 44.0-2), libice6 (= 2:1.0.10-1build2), libicu72 (= 72.1-3ubuntu1), libidn12 (= 1.41-1), libidn2-0 (= 2.3.3-1build1), libijs-0.35 (= 0.35-15build2), libimagequant0 (= 2.17.0-1), libisl23 (= 0.25-1), libitm1 (= 13-20230305-1ubuntu1), libjansson4 (= 2.14-2), libjbig0 (= 2.1-6ubuntu1), libjbig2dec0 (= 0.19-3build2), libjpeg-turbo8 (= 2.1.5-2ubuntu1), libjpeg8 (= 8c-2ubuntu11), libjs-jquery (= 3.6.1+dfsg+~3.5.14-1), libjs-jquery-ui (= 1.13.2+dfsg-1), libjs-sphinxdoc (= 5.3.0-3), libjs-underscore (= 1.13.4~dfsg+~1.11.4-3), libk5crypto3 (= 1.20.1-1build1), libkeyutils1 (= 1.6.3-2), libkpathsea6 (= 2022.20220321.62855-5build1), libkrb5-3 (= 1.20.1-1build1), libkrb5support0 (= 1.20.1-1build1), liblapack3 (= 3.11.0-2), liblbfgsb0 (= 3.0+dfsg.3-11), liblcms2-2 (= 2.14-2), libldap2 (= 2.6.3+dfsg-1~exp1ubuntu2), liblerc4 (= 4.0.0+ds-2ubuntu2), liblmdb0 (= 0.9.24-1build2), liblqr-1-0 (= 0.4.2-2.1), liblsan0 (= 13-20230305-1ubuntu1), libltdl7 (= 2.4.7-5), liblz4-1 (= 1.9.4-1), liblzma5 (= 5.4.1-0.2), libmagic-mgc (= 1:5.44-3), libmagic1 (= 1:5.44-3), libmagickcore-6.q16-6 (= 8:6.9.11.60+dfsg-1.6), libmagickwand-6.q16-6 (= 8:6.9.11.60+dfsg-1.6), libmbedcrypto7 (= 2.28.2-1), libmbedtls14 (= 2.28.2-1), libmbedx509-1 (= 2.28.2-1), libmd0 (= 1.0.4-2), libmount1 (= 2.38.1-4ubuntu1), libmpc3 (= 1.3.1-1), libmpfr6 (= 4.2.0-1), libmunge2 (= 0.5.15-2), libmysqlclient21 (= 8.0.32-0ubuntu4), libncurses6 (= 6.4-2), libncursesw6 (= 6.4-2), libnetpbm11 (= 2:11.01.00-2build1), libnettle8 (= 3.8.1-2), libnghttp2-14 (= 1.52.0-1), libnl-3-200 (= 3.7.0-0.2), libnl-route-3-200 (= 3.7.0-0.2), libnsl-dev (= 1.3.0-2build2), libnsl2 (= 1.3.0-2build2), libnuma1 (= 2.0.16-1), libopenblas-dev (= 0.3.21+ds-4), libopenblas-pthread-dev (= 0.3.21+ds-4), libopenblas0 (= 0.3.21+ds-4), libopenblas0-pthread (= 0.3.21+ds-4), libopenjp2-7 (= 2.5.0-1build1), libopenmpi3 (= 4.1.4-3ubuntu2), libp11-kit0 (= 0.24.1-2ubuntu1), libpam-modules (= 1.5.2-5ubuntu1), libpam-modules-bin (= 1.5.2-5ubuntu1), libpam-runtime (= 1.5.2-5ubuntu1), libpam0g (= 1.5.2-5ubuntu1), libpaper-utils (= 1.1.28build2), libpaper1 (= 1.1.28build2), libpciaccess0 (= 0.17-2), libpcre2-8-0 (= 10.42-1), libpcre3 (= 2:8.39-15), libpdfbox-java (= 1:1.8.16-2), libperl5.36 (= 5.36.0-7), libpipeline1 (= 1.5.7-1), libpixman-1-0 (= 0.42.2-1), libpmix2 (= 4.2.2-1), libpng16-16 (= 1.6.39-2), libpq5 (= 15.2-1), libpsl5 (= 0.21.2-1), libpsm-infinipath1 (= 3.3+20.604758e7-6.2), libpsm2-2 (= 11.2.185-2), libptexenc1 (= 2022.20220321.62855-5build1), libpython3-all-dev (= 3.11.2-1), libpython3-dev (= 3.11.2-1), libpython3-stdlib (= 3.11.2-1), libpython3.11 (= 3.11.2-6), libpython3.11-dev (= 3.11.2-6), libpython3.11-minimal (= 3.11.2-6), libpython3.11-stdlib (= 3.11.2-6), libqhull-r8.0 (= 2020.2-5), libquadmath0 (= 13-20230305-1ubuntu1), libraqm0 (= 0.7.0-4.1), librdmacm1 (= 44.0-2), libreadline8 (= 8.2-1.3), librtmp1 (= 2.4+20151223.gitfa8646d.1-2build4), libsasl2-2 (= 2.1.28+dfsg-10), libsasl2-modules-db (= 2.1.28+dfsg-10), libseccomp2 (= 2.5.4-1ubuntu3), libselinux1 (= 3.4-1build4), libsemanage-common (= 3.4-1build4), libsemanage2 (= 3.4-1build4), libsepol2 (= 3.4-2), libsm6 (= 2:1.2.3-1build2), libsmartcols1 (= 2.38.1-4ubuntu1), libsqlite3-0 (= 3.40.1-1), libssh-4 (= 0.10.4-2), libssl3 (= 3.0.8-1ubuntu1), libstdc++-12-dev (= 12.2.0-17ubuntu1), libstdc++6 (= 13-20230305-1ubuntu1), libsub-override-perl (= 0.09-4), libsynctex2 (= 2022.20220321.62855-5build1), libsystemd0 (= 252.5-2ubuntu2), libtasn1-6 (= 4.19.0-2), libtcl8.6 (= 8.6.13+dfsg-2), libteckit0 (= 2.5.11+ds1-1), libtexlua53-5 (= 2022.20220321.62855-5build1), libtexluajit2 (= 2022.20220321.62855-5build1), libtiff6 (= 4.5.0-4ubuntu1), libtinfo6 (= 6.4-2), libtirpc-common (= 1.3.3+ds-1), libtirpc-dev (= 1.3.3+ds-1), libtirpc3 (= 1.3.3+ds-1), libtk8.6 (= 8.6.13-2), libtool (= 2.4.7-5), libtsan2 (= 13-20230305-1ubuntu1), libubsan1 (= 13-20230305-1ubuntu1), libuchardet0 (= 0.0.7-1build2), libucx0 (= 1.13.1-1), libudev1 (= 252.5-2ubuntu2), libunistring2 (= 1.0-2), libuuid1 (= 2.38.1-4ubuntu1), libwebp7 (= 1.2.4-0.1build1), libwebpdemux2 (= 1.2.4-0.1build1), libwebpmux3 (= 1.2.4-0.1build1), libx11-6 (= 2:1.8.4-2), libx11-data (= 2:1.8.4-2), libx265-199 (= 3.5-2), libxau6 (= 1:1.0.9-1build5), libxaw7 (= 2:1.0.14-1), 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), libxft2 (= 2.3.6-1), libxi6 (= 2:1.8-1build1), libxml2 (= 2.9.14+dfsg-1.1build2), libxmu6 (= 2:1.1.3-3), libxnvctrl0 (= 510.47.03-0ubuntu1), libxpm4 (= 1:3.5.12-1.1), libxrender1 (= 1:0.9.10-1.1), libxsimd-dev (= 8.1.0-7), libxslt1.1 (= 1.1.35-1), libxss1 (= 1:1.2.3-1build2), libxt6 (= 1:1.2.1-1), libzstd1 (= 1.5.4+dfsg2-4), libzzip-0-13 (= 0.13.72+dfsg.1-1.1), linux-libc-dev (= 6.1.0-16.16), login (= 1:4.13+dfsg1-1ubuntu1), lsb-base (= 11.6), lto-disabled-list (= 38), m4 (= 1.4.19-3), mafft (= 7.505-1), mailcap (= 3.70+nmu1ubuntu1), make (= 4.3-4.1build1), man-db (= 2.11.2-1), mawk (= 1.3.4.20200120-3.1), media-types (= 10.0.0), mime-support (= 3.66), muscle3 (= 3.8.1551-2), mysql-common (= 5.8+1.1.0), ncbi-blast+ (= 2.12.0+ds-3build1), ncbi-data (= 6.1.20170106+dfsg1-10), ncurses-base (= 6.4-2), ncurses-bin (= 6.4-2), netpbm (= 2:11.01.00-2build1), ocl-icd-libopencl1 (= 2.3.1-1), openmpi-bin (= 4.1.4-3ubuntu2), openmpi-common (= 4.1.4-3ubuntu2), openssh-client (= 1:9.0p1-1ubuntu8), passwd (= 1:4.13+dfsg1-1ubuntu1), patch (= 2.7.6-7build2), perl (= 5.36.0-7), perl-base (= 5.36.0-7), perl-modules-5.36 (= 5.36.0-7), phylip (= 1:3.697+dfsg-2), phyml (= 3:3.3.20220408-3), po-debconf (= 1.0.21+nmu1), poppler-data (= 0.4.12-1), prank (= 0.0.170427+dfsg-3), preview-latex-style (= 12.2-1ubuntu1), probcons (= 1.12-14), python-matplotlib-data (= 3.5.2-4ubuntu1), python3 (= 3.11.2-1), python3-all (= 3.11.2-1), python3-all-dev (= 3.11.2-1), python3-appdirs (= 1.4.4-3), python3-attr (= 22.2.0-1), python3-beniget (= 0.4.1-3), python3-brotli (= 1.0.9-2build8), python3-cycler (= 0.11.0-1), python3-dateutil (= 2.8.2-1), python3-decorator (= 5.1.1-3), python3-dev (= 3.11.2-1), python3-distutils (= 3.11.2-2), python3-fonttools (= 4.38.0-1build1), python3-fs (= 2.4.16-2), python3-gast (= 0.5.2-2), python3-isodate (= 0.6.1-1), python3-kiwisolver (= 1.4.4-1build1), python3-lib2to3 (= 3.11.2-2), python3-lxml (= 4.9.2-1build1), python3-lz4 (= 4.0.2+dfsg-1build1), python3-matplotlib (= 3.5.2-4ubuntu1), python3-minimal (= 3.11.2-1), python3-mmtf (= 1.1.3-1), python3-mpmath (= 1.2.1-2), python3-msgpack (= 1.0.3-2), python3-mysqldb (= 1.4.6-2build1), python3-networkx (= 2.8.8-1ubuntu1), python3-numpy (= 1:1.24.2-1), python3-packaging (= 23.0-1), python3-pil (= 9.4.0-1.1build1), python3-pil.imagetk (= 9.4.0-1.1build1), python3-pkg-resources (= 66.1.1-1), python3-ply (= 3.11-5), python3-psycopg2 (= 2.9.5-1), python3-pygments (= 2.14.0+dfsg-1), python3-pyparsing (= 3.0.9-1), python3-pythran (= 0.11.0+ds-7), python3-rdflib (= 6.1.1-1), python3-renderpm (= 3.6.12-1build1), python3-reportlab (= 3.6.12-1build1), python3-reportlab-accel (= 3.6.12-1build1), python3-scipy (= 1.10.1-1), python3-setuptools (= 66.1.1-1), python3-six (= 1.16.0-4), python3-sympy (= 1.11.1-1), python3-tk (= 3.11.2-2), python3-tz (= 2022.7.1-1), python3-ufolib2 (= 0.14.0+dfsg1-1), python3-unittest2 (= 1.1.0-9), python3.11 (= 3.11.2-6), python3.11-dev (= 3.11.2-6), python3.11-minimal (= 3.11.2-6), raxml (= 8.2.12+dfsg-8), readline-common (= 8.2-1.3), rpcsvc-proto (= 1.4.2-0ubuntu6), samtools (= 1.16.1-1), sed (= 4.9-1), sensible-utils (= 0.0.17+nmu1), sgml-base (= 1.31), sysvinit-utils (= 3.06-2ubuntu1), t-coffee (= 13.45.0.4846264+really13.41.0.28bdc39+dfsg-1), t1utils (= 1.41-4build2), tar (= 1.34+dfsg-1.1), tex-common (= 6.18), texlive-base (= 2022.20230122-2), texlive-binaries (= 2022.20220321.62855-5build1), texlive-fonts-recommended (= 2022.20230122-2), texlive-latex-base (= 2022.20230122-2), texlive-latex-extra (= 2022.20230122-2), texlive-latex-recommended (= 2022.20230122-2), texlive-pictures (= 2022.20230122-2), tk8.6-blt2.5 (= 2.5.3+dfsg-4.1build2), tzdata (= 2022g-7ubuntu2), ucf (= 3.0043+nmu1), unicode-data (= 15.0.0-1), usrmerge (= 33ubuntu1), util-linux (= 2.38.1-4ubuntu1), util-linux-extra (= 2.38.1-4ubuntu1), wise (= 2.4.1-23), wise-data (= 2.4.1-23), x11-common (= 1:7.7+23ubuntu2), xdg-utils (= 1.1.3-4.1ubuntu3), xfonts-encodings (= 1:1.0.5-0ubuntu2), xfonts-utils (= 1:7.7+6build2), xz-utils (= 5.4.1-0.2), zlib1g (= 1:1.2.13.dfsg-1ubuntu4), zlib1g-dev (= 1:1.2.13.dfsg-1ubuntu4) Environment: DEB_BUILD_OPTIONS="parallel=4" DEB_BUILD_PROFILES="noudeb" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1678951574" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ python-biopython-doc_1.80+dfsg-4build1_all.deb ---------------------------------------------- new Debian package, version 2.0. size 16155156 bytes: control archive=77779 bytes. 649 bytes, 18 lines control 336209 bytes, 2687 lines md5sums Package: python-biopython-doc Source: python-biopython Version: 1.80+dfsg-4build1 Architecture: all Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 20499 Recommends: python3-biopython (= 1.80+dfsg-4build1) Section: doc Priority: optional Multi-Arch: foreign Homepage: https://biopython.org Description: Documentation for the Biopython library Documentation and examples about how to use the Biopython library. . 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+------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: binary Build-Space: 388204 Build-Time: 483 Distribution: lunar-proposed Host Architecture: amd64 Install-Time: 86 Job: python-biopython_1.80+dfsg-4build1.dsc Machine Architecture: amd64 Package: python-biopython Package-Time: 571 Source-Version: 1.80+dfsg-4build1 Space: 388204 Status: successful Version: 1.80+dfsg-4build1 -------------------------------------------------------------------------------- Finished at 2023-03-16T07:37:46Z Build needed 00:09:31, 388204k disk space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=lunar --arch=amd64 PACKAGEBUILD-25674076 Scanning for processes to kill in build PACKAGEBUILD-25674076