https://launchpad.net/ubuntu/+source/python-biopython/1.81+dfsg-1/+build/26424722 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux lcy02-amd64-024 5.4.0-153-generic #170-Ubuntu SMP Fri Jun 16 13:43:31 UTC 2023 x86_64 Buildd toolchain package versions: launchpad-buildd_234~642~ubuntu20.04.1 python3-lpbuildd_234~642~ubuntu20.04.1 sbuild_0.79.0-1ubuntu1 git-build-recipe_0.3.6 git_1:2.25.1-1ubuntu3.11 dpkg-dev_1.19.7ubuntu3.2 python3-debian_0.1.36ubuntu1.1. Syncing the system clock with the buildd NTP service... 15 Jul 23:17:06 ntpdate[1862]: adjust time server 10.131.248.1 offset 0.000262 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=mantic --arch=amd64 PACKAGEBUILD-26424722 --image-type chroot /home/buildd/filecache-default/1fc1752c0976ad9eb0e621fd063fde252dab04e3 Creating target for build PACKAGEBUILD-26424722 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=mantic --arch=amd64 PACKAGEBUILD-26424722 Starting target for build PACKAGEBUILD-26424722 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=mantic --arch=amd64 PACKAGEBUILD-26424722 'deb http://ftpmaster.internal/ubuntu mantic main universe' 'deb http://ftpmaster.internal/ubuntu mantic-security main universe' 'deb http://ftpmaster.internal/ubuntu mantic-updates main universe' 'deb http://ftpmaster.internal/ubuntu mantic-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-26424722 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=mantic --arch=amd64 PACKAGEBUILD-26424722 Updating target for build PACKAGEBUILD-26424722 Get:1 http://ftpmaster.internal/ubuntu mantic InRelease [255 kB] Get:2 http://ftpmaster.internal/ubuntu mantic-security InRelease [90.7 kB] Get:3 http://ftpmaster.internal/ubuntu mantic-updates InRelease [90.7 kB] Get:4 http://ftpmaster.internal/ubuntu mantic-proposed InRelease [118 kB] Get:5 http://ftpmaster.internal/ubuntu mantic/main amd64 Packages [1412 kB] Get:6 http://ftpmaster.internal/ubuntu mantic/main Translation-en [515 kB] Get:7 http://ftpmaster.internal/ubuntu mantic/universe amd64 Packages [15.1 MB] Get:8 http://ftpmaster.internal/ubuntu mantic/universe Translation-en [5946 kB] Get:9 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 Packages [141 kB] Get:10 http://ftpmaster.internal/ubuntu mantic-proposed/main Translation-en [40.1 kB] Get:11 http://ftpmaster.internal/ubuntu mantic-proposed/universe amd64 Packages [329 kB] Get:12 http://ftpmaster.internal/ubuntu mantic-proposed/universe Translation-en [128 kB] Fetched 24.2 MB in 3s (7807 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: g++-12 libstdc++-12-dev Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: cpp-13 g++-13 gcc-13 gcc-13-base libgcc-13-dev libhwasan0 libproc2-0 libsframe1 libstdc++-13-dev systemd-dev The following packages will be upgraded: adduser advancecomp apt base-files bash binutils binutils-common binutils-x86-64-linux-gnu bsdutils build-essential ca-certificates coreutils cpp cpp-12 dash debconf debianutils diffutils dpkg dpkg-dev e2fsprogs fakeroot findutils g++ g++-12 gcc gcc-12 gcc-12-base gpg gpg-agent gpgconf gpgv grep hostname libacl1 libapparmor1 libapt-pkg6.0 libargon2-1 libasan8 libatomic1 libattr1 libaudit-common libaudit1 libbinutils libblkid1 libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcap2 libcc1-0 libcom-err2 libcrypt-dev libcrypt1 libcryptsetup12 libctf-nobfd0 libctf0 libdb5.3 libdebconfclient0 libdevmapper1.02.1 libdpkg-perl libext2fs2 libfakeroot libfdisk1 libgcc-12-dev libgcc-s1 libgcrypt20 libgmp10 libgnutls30 libgomp1 libgprofng0 libgssapi-krb5-2 libidn2-0 libip4tc2 libisl23 libitm1 libk5crypto3 libkmod2 libkrb5-3 libkrb5support0 liblsan0 liblzma5 libmd0 libmount1 libmpfr6 libncurses6 libncursesw6 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre2-8-0 libperl5.36 libpng16-16 libquadmath0 libreadline8 libseccomp2 libselinux1 libsemanage-common libsemanage2 libsepol2 libsmartcols1 libsqlite3-0 libss2 libssl3 libstdc++-12-dev libstdc++6 libsystemd-shared libsystemd0 libtasn1-6 libtinfo6 libtsan2 libubsan1 libudev1 libuuid1 libzstd1 linux-libc-dev logsave lsb-base lto-disabled-list mawk mount ncurses-base ncurses-bin openssl perl perl-base perl-modules-5.36 pkgbinarymangler procps readline-common sed sensible-utils systemd systemd-sysv sysvinit-utils tar tzdata usrmerge util-linux util-linux-extra xz-utils zlib1g 145 upgraded, 10 newly installed, 0 to remove and 0 not upgraded. Need to get 313 MB of archives. After this operation, 638 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu mantic/main amd64 libcrypt-dev amd64 1:4.4.35-1 [112 kB] Get:2 http://ftpmaster.internal/ubuntu mantic/main amd64 libc6-dev amd64 2.37-0ubuntu2 [2092 kB] Get:3 http://ftpmaster.internal/ubuntu mantic/main amd64 libc-dev-bin amd64 2.37-0ubuntu2 [20.0 kB] Get:4 http://ftpmaster.internal/ubuntu mantic/main amd64 libcrypt1 amd64 1:4.4.35-1 [82.1 kB] Get:5 http://ftpmaster.internal/ubuntu mantic/main amd64 linux-libc-dev amd64 6.3.0-7.7 [1544 kB] Get:6 http://ftpmaster.internal/ubuntu mantic/main amd64 libc6 amd64 2.37-0ubuntu2 [3179 kB] Get:7 http://ftpmaster.internal/ubuntu mantic/main amd64 libc-bin amd64 2.37-0ubuntu2 [669 kB] Get:8 http://ftpmaster.internal/ubuntu mantic/main amd64 gcc-13-base amd64 13.1.0-8ubuntu1 [42.3 kB] Get:9 http://ftpmaster.internal/ubuntu mantic/main amd64 libgcc-s1 amd64 13.1.0-8ubuntu1 [62.5 kB] Get:10 http://ftpmaster.internal/ubuntu mantic/main amd64 base-files amd64 13ubuntu1 [74.0 kB] Get:11 http://ftpmaster.internal/ubuntu mantic/main amd64 debianutils amd64 5.8-1 [103 kB] Get:12 http://ftpmaster.internal/ubuntu mantic/main amd64 bash amd64 5.2.15-2ubuntu1 [795 kB] Get:13 http://ftpmaster.internal/ubuntu mantic/main amd64 bsdutils amd64 1:2.38.1-5ubuntu2 [91.5 kB] Get:14 http://ftpmaster.internal/ubuntu mantic/main amd64 coreutils amd64 9.1-1ubuntu2 [1407 kB] Get:15 http://ftpmaster.internal/ubuntu mantic/main amd64 liblzma5 amd64 5.4.1-0.2 [125 kB] Get:16 http://ftpmaster.internal/ubuntu mantic/main amd64 libzstd1 amd64 1.5.5+dfsg2-1ubuntu2 [295 kB] Get:17 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libgcrypt20 amd64 1.10.2-2ubuntu1 [531 kB] Get:18 http://ftpmaster.internal/ubuntu mantic/main amd64 libstdc++6 amd64 13.1.0-8ubuntu1 [772 kB] Get:19 http://ftpmaster.internal/ubuntu mantic/main amd64 libacl1 amd64 2.3.1-3 [16.4 kB] Get:20 http://ftpmaster.internal/ubuntu mantic/main amd64 libapparmor1 amd64 3.0.8-1ubuntu4 [46.2 kB] Get:21 http://ftpmaster.internal/ubuntu mantic/main amd64 libaudit-common all 1:3.1.1-1 [5426 B] Get:22 http://ftpmaster.internal/ubuntu mantic/main amd64 libcap-ng0 amd64 0.8.3-1build2 [15.3 kB] Get:23 http://ftpmaster.internal/ubuntu mantic/main amd64 libaudit1 amd64 1:3.1.1-1 [46.1 kB] Get:24 http://ftpmaster.internal/ubuntu mantic/main amd64 libblkid1 amd64 2.38.1-5ubuntu2 [111 kB] Get:25 http://ftpmaster.internal/ubuntu mantic/main amd64 libcap2 amd64 1:2.66-4ubuntu1 [29.4 kB] Get:26 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libip4tc2 amd64 1.8.9-2ubuntu1 [22.1 kB] Get:27 http://ftpmaster.internal/ubuntu mantic/main amd64 libperl5.36 amd64 5.36.0-7ubuntu1 [4834 kB] Get:28 http://ftpmaster.internal/ubuntu mantic/main amd64 perl amd64 5.36.0-7ubuntu1 [235 kB] Get:29 http://ftpmaster.internal/ubuntu mantic/main amd64 perl-base amd64 5.36.0-7ubuntu1 [1784 kB] Get:30 http://ftpmaster.internal/ubuntu mantic/main amd64 perl-modules-5.36 all 5.36.0-7ubuntu1 [2984 kB] Get:31 http://ftpmaster.internal/ubuntu mantic/main amd64 libdb5.3 amd64 5.3.28+dfsg2-1 [742 kB] Get:32 http://ftpmaster.internal/ubuntu mantic/main amd64 zlib1g amd64 1:1.2.13.dfsg-1ubuntu4 [61.2 kB] Get:33 http://ftpmaster.internal/ubuntu mantic/main amd64 debconf all 1.5.82 [125 kB] Get:34 http://ftpmaster.internal/ubuntu mantic/main amd64 libssl3 amd64 3.0.9-1ubuntu1 [1901 kB] Get:35 http://ftpmaster.internal/ubuntu mantic/main amd64 libkmod2 amd64 30+20221128-1ubuntu1 [49.5 kB] Get:36 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libpcre2-8-0 amd64 10.42-2 [229 kB] Get:37 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libselinux1 amd64 3.5-1 [78.2 kB] Get:38 http://ftpmaster.internal/ubuntu mantic/main amd64 libmount1 amd64 2.38.1-5ubuntu2 [121 kB] Get:39 http://ftpmaster.internal/ubuntu mantic/main amd64 libpam0g amd64 1.5.2-6ubuntu1 [65.9 kB] Get:40 http://ftpmaster.internal/ubuntu mantic/main amd64 libseccomp2 amd64 2.5.4-1ubuntu3 [49.1 kB] Get:41 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 systemd-sysv amd64 253.5-1ubuntu1 [11.5 kB] Get:42 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 systemd amd64 253.5-1ubuntu1 [3071 kB] Get:43 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libsystemd-shared amd64 253.5-1ubuntu1 [1870 kB] Get:44 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 systemd-dev all 253.5-1ubuntu1 [78.5 kB] Get:45 http://ftpmaster.internal/ubuntu mantic/main amd64 libargon2-1 amd64 0~20190702+dfsg-3 [20.3 kB] Get:46 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libudev1 amd64 253.5-1ubuntu1 [159 kB] Get:47 http://ftpmaster.internal/ubuntu mantic/main amd64 libdevmapper1.02.1 amd64 2:1.02.185-2ubuntu1 [139 kB] Get:48 http://ftpmaster.internal/ubuntu mantic/main amd64 libuuid1 amd64 2.38.1-5ubuntu2 [32.7 kB] Get:49 http://ftpmaster.internal/ubuntu mantic/main amd64 libcryptsetup12 amd64 2:2.6.1-4ubuntu1 [243 kB] Get:50 http://ftpmaster.internal/ubuntu mantic/main amd64 libfdisk1 amd64 2.38.1-5ubuntu2 [144 kB] Get:51 http://ftpmaster.internal/ubuntu mantic/main amd64 libp11-kit0 amd64 0.24.1-2ubuntu1 [248 kB] Get:52 http://ftpmaster.internal/ubuntu mantic/main amd64 mount amd64 2.38.1-5ubuntu2 [114 kB] Get:53 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libsystemd0 amd64 253.5-1ubuntu1 [407 kB] Get:54 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libapt-pkg6.0 amd64 2.7.2 [933 kB] Get:55 http://ftpmaster.internal/ubuntu mantic/main amd64 tar amd64 1.34+dfsg-1.2ubuntu1 [293 kB] Get:56 http://ftpmaster.internal/ubuntu mantic/main amd64 dpkg amd64 1.21.22ubuntu1 [1393 kB] Get:57 http://ftpmaster.internal/ubuntu mantic/main amd64 dash amd64 0.5.12-2ubuntu1 [88.2 kB] Get:58 http://ftpmaster.internal/ubuntu mantic/main amd64 diffutils amd64 1:3.8-4 [176 kB] Get:59 http://ftpmaster.internal/ubuntu mantic/main amd64 findutils amd64 4.9.0-5 [299 kB] Get:60 http://ftpmaster.internal/ubuntu mantic/main amd64 grep amd64 3.8-5 [160 kB] Get:61 http://ftpmaster.internal/ubuntu mantic/main amd64 hostname amd64 3.23+nmu1ubuntu1 [11.0 kB] Get:62 http://ftpmaster.internal/ubuntu mantic/main amd64 libncurses6 amd64 6.4+20230625-1 [112 kB] Get:63 http://ftpmaster.internal/ubuntu mantic/main amd64 libncursesw6 amd64 6.4+20230625-1 [149 kB] Get:64 http://ftpmaster.internal/ubuntu mantic/main amd64 libtinfo6 amd64 6.4+20230625-1 [107 kB] Get:65 http://ftpmaster.internal/ubuntu mantic/main amd64 ncurses-bin amd64 6.4+20230625-1 [185 kB] Get:66 http://ftpmaster.internal/ubuntu mantic/main amd64 sed amd64 4.9-1 [193 kB] Get:67 http://ftpmaster.internal/ubuntu mantic/main amd64 libsmartcols1 amd64 2.38.1-5ubuntu2 [59.5 kB] Get:68 http://ftpmaster.internal/ubuntu mantic/main amd64 util-linux-extra amd64 2.38.1-5ubuntu2 [83.8 kB] Get:69 http://ftpmaster.internal/ubuntu mantic/main amd64 util-linux amd64 2.38.1-5ubuntu2 [1075 kB] Get:70 http://ftpmaster.internal/ubuntu mantic/main amd64 ncurses-base all 6.4+20230625-1 [24.1 kB] Get:71 http://ftpmaster.internal/ubuntu mantic/main amd64 sysvinit-utils amd64 3.06-4ubuntu1 [33.0 kB] Get:72 http://ftpmaster.internal/ubuntu mantic/main amd64 lsb-base all 11.6 [4606 B] Get:73 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 adduser all 3.137ubuntu1 [101 kB] Get:74 http://ftpmaster.internal/ubuntu mantic/main amd64 gpgv amd64 2.2.40-1.1ubuntu1 [140 kB] Get:75 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libgmp10 amd64 2:6.2.1+dfsg1-1.1ubuntu2 [252 kB] Get:76 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libidn2-0 amd64 2.3.4-1 [108 kB] Get:77 http://ftpmaster.internal/ubuntu mantic/main amd64 libtasn1-6 amd64 4.19.0-3 [44.5 kB] Get:78 http://ftpmaster.internal/ubuntu mantic/main amd64 libgnutls30 amd64 3.7.9-2ubuntu1 [999 kB] Get:79 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 apt amd64 2.7.2 [1357 kB] Get:80 http://ftpmaster.internal/ubuntu mantic/main amd64 libpam-modules-bin amd64 1.5.2-6ubuntu1 [47.3 kB] Get:81 http://ftpmaster.internal/ubuntu mantic/main amd64 libpam-modules amd64 1.5.2-6ubuntu1 [284 kB] Get:82 http://ftpmaster.internal/ubuntu mantic/main amd64 logsave amd64 1.47.0-1ubuntu2 [21.8 kB] Get:83 http://ftpmaster.internal/ubuntu mantic/main amd64 libext2fs2 amd64 1.47.0-1ubuntu2 [219 kB] Get:84 http://ftpmaster.internal/ubuntu mantic/main amd64 e2fsprogs amd64 1.47.0-1ubuntu2 [598 kB] Get:85 http://ftpmaster.internal/ubuntu mantic/main amd64 libattr1 amd64 1:2.5.1-4 [12.4 kB] Get:86 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libdebconfclient0 amd64 0.270ubuntu1 [11.1 kB] Get:87 http://ftpmaster.internal/ubuntu mantic/main amd64 libmd0 amd64 1.1.0-1 [26.9 kB] Get:88 http://ftpmaster.internal/ubuntu mantic/main amd64 libpam-runtime all 1.5.2-6ubuntu1 [41.5 kB] Get:89 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libsemanage-common all 3.5-1 [9890 B] Get:90 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libsepol2 amd64 3.5-1 [301 kB] Get:91 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libsemanage2 amd64 3.5-1 [93.3 kB] Get:92 http://ftpmaster.internal/ubuntu mantic/main amd64 usrmerge all 35ubuntu1 [58.2 kB] Get:93 http://ftpmaster.internal/ubuntu mantic/main amd64 libcom-err2 amd64 1.47.0-1ubuntu2 [22.1 kB] Get:94 http://ftpmaster.internal/ubuntu mantic/main amd64 libproc2-0 amd64 2:4.0.3-1ubuntu1 [55.9 kB] Get:95 http://ftpmaster.internal/ubuntu mantic/main amd64 libss2 amd64 1.47.0-1ubuntu2 [16.8 kB] Get:96 http://ftpmaster.internal/ubuntu mantic/main amd64 mawk amd64 1.3.4.20230525-1 [113 kB] Get:97 http://ftpmaster.internal/ubuntu mantic/main amd64 procps amd64 2:4.0.3-1ubuntu1 [609 kB] Get:98 http://ftpmaster.internal/ubuntu mantic/main amd64 sensible-utils all 0.0.20 [19.6 kB] Get:99 http://ftpmaster.internal/ubuntu mantic/main amd64 openssl amd64 3.0.9-1ubuntu1 [1189 kB] Get:100 http://ftpmaster.internal/ubuntu mantic/main amd64 ca-certificates all 20230311ubuntu1 [152 kB] Get:101 http://ftpmaster.internal/ubuntu mantic/main amd64 libgssapi-krb5-2 amd64 1.20.1-2 [142 kB] Get:102 http://ftpmaster.internal/ubuntu mantic/main amd64 libkrb5-3 amd64 1.20.1-2 [346 kB] Get:103 http://ftpmaster.internal/ubuntu mantic/main amd64 libkrb5support0 amd64 1.20.1-2 [32.7 kB] Get:104 http://ftpmaster.internal/ubuntu mantic/main amd64 libk5crypto3 amd64 1.20.1-2 [81.1 kB] Get:105 http://ftpmaster.internal/ubuntu mantic/main amd64 readline-common all 8.2-1.3 [55.7 kB] Get:106 http://ftpmaster.internal/ubuntu mantic/main amd64 libreadline8 amd64 8.2-1.3 [151 kB] Get:107 http://ftpmaster.internal/ubuntu mantic/main amd64 libsqlite3-0 amd64 3.42.0-1 [668 kB] Get:108 http://ftpmaster.internal/ubuntu mantic/main amd64 tzdata all 2023c-7ubuntu1 [272 kB] Get:109 http://ftpmaster.internal/ubuntu mantic/main amd64 libpng16-16 amd64 1.6.40-1 [186 kB] Get:110 http://ftpmaster.internal/ubuntu mantic/main amd64 xz-utils amd64 5.4.1-0.2 [270 kB] Get:111 http://ftpmaster.internal/ubuntu mantic/main amd64 advancecomp amd64 2.5-1 [180 kB] Get:112 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libgprofng0 amd64 2.40.90.20230714-2ubuntu1 [848 kB] Get:113 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libctf0 amd64 2.40.90.20230714-2ubuntu1 [94.1 kB] Get:114 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libctf-nobfd0 amd64 2.40.90.20230714-2ubuntu1 [96.2 kB] Get:115 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 binutils-x86-64-linux-gnu amd64 2.40.90.20230714-2ubuntu1 [2477 kB] Get:116 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libbinutils amd64 2.40.90.20230714-2ubuntu1 [562 kB] Get:117 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 binutils amd64 2.40.90.20230714-2ubuntu1 [18.6 kB] Get:118 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 binutils-common amd64 2.40.90.20230714-2ubuntu1 [253 kB] Get:119 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libsframe1 amd64 2.40.90.20230714-2ubuntu1 [14.5 kB] Get:120 http://ftpmaster.internal/ubuntu mantic/main amd64 libisl23 amd64 0.26-3 [741 kB] Get:121 http://ftpmaster.internal/ubuntu mantic/main amd64 libmpfr6 amd64 4.2.0-1 [352 kB] Get:122 http://ftpmaster.internal/ubuntu mantic/main amd64 cpp-13 amd64 13.1.0-8ubuntu1 [60.2 MB] Get:123 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 g++ amd64 4:13.1.0-4ubuntu2 [1122 B] Get:124 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 gcc amd64 4:13.1.0-4ubuntu2 [5162 B] Get:125 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 cpp amd64 4:13.1.0-4ubuntu2 [28.9 kB] Get:126 http://ftpmaster.internal/ubuntu mantic/main amd64 libcc1-0 amd64 13.1.0-8ubuntu1 [48.0 kB] Get:127 http://ftpmaster.internal/ubuntu mantic/main amd64 libgomp1 amd64 13.1.0-8ubuntu1 [142 kB] Get:128 http://ftpmaster.internal/ubuntu mantic/main amd64 libitm1 amd64 13.1.0-8ubuntu1 [29.4 kB] Get:129 http://ftpmaster.internal/ubuntu mantic/main amd64 libatomic1 amd64 13.1.0-8ubuntu1 [10.4 kB] Get:130 http://ftpmaster.internal/ubuntu mantic/main amd64 libasan8 amd64 13.1.0-8ubuntu1 [2826 kB] Get:131 http://ftpmaster.internal/ubuntu mantic/main amd64 liblsan0 amd64 13.1.0-8ubuntu1 [1203 kB] Get:132 http://ftpmaster.internal/ubuntu mantic/main amd64 g++-12 amd64 12.3.0-6ubuntu1 [12.1 MB] Get:133 http://ftpmaster.internal/ubuntu mantic/main amd64 gcc-12 amd64 12.3.0-6ubuntu1 [21.6 MB] Get:134 http://ftpmaster.internal/ubuntu mantic/main amd64 cpp-12 amd64 12.3.0-6ubuntu1 [10.7 MB] Get:135 http://ftpmaster.internal/ubuntu mantic/main amd64 libubsan1 amd64 13.1.0-8ubuntu1 [1104 kB] Get:136 http://ftpmaster.internal/ubuntu mantic/main amd64 libstdc++-12-dev amd64 12.3.0-6ubuntu1 [2180 kB] Get:137 http://ftpmaster.internal/ubuntu mantic/main amd64 libquadmath0 amd64 13.1.0-8ubuntu1 [153 kB] Get:138 http://ftpmaster.internal/ubuntu mantic/main amd64 libgcc-12-dev amd64 12.3.0-6ubuntu1 [2574 kB] Get:139 http://ftpmaster.internal/ubuntu mantic/main amd64 libtsan2 amd64 13.1.0-8ubuntu1 [2595 kB] Get:140 http://ftpmaster.internal/ubuntu mantic/main amd64 gcc-12-base amd64 12.3.0-6ubuntu1 [43.0 kB] Get:141 http://ftpmaster.internal/ubuntu mantic/main amd64 libhwasan0 amd64 13.1.0-8ubuntu1 [1262 kB] Get:142 http://ftpmaster.internal/ubuntu mantic/main amd64 libgcc-13-dev amd64 13.1.0-8ubuntu1 [2686 kB] Get:143 http://ftpmaster.internal/ubuntu mantic/main amd64 gcc-13 amd64 13.1.0-8ubuntu1 [69.6 MB] Get:144 http://ftpmaster.internal/ubuntu mantic/main amd64 libstdc++-13-dev amd64 13.1.0-8ubuntu1 [2347 kB] Get:145 http://ftpmaster.internal/ubuntu mantic/main amd64 g++-13 amd64 13.1.0-8ubuntu1 [65.2 MB] Get:146 http://ftpmaster.internal/ubuntu mantic/main amd64 dpkg-dev all 1.21.22ubuntu1 [1118 kB] Get:147 http://ftpmaster.internal/ubuntu mantic/main amd64 libdpkg-perl all 1.21.22ubuntu1 [247 kB] Get:148 http://ftpmaster.internal/ubuntu mantic/main amd64 lto-disabled-list all 41 [12.4 kB] Get:149 http://ftpmaster.internal/ubuntu mantic/main amd64 build-essential amd64 12.10ubuntu1 [4928 B] Get:150 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libfakeroot amd64 1.32.1-1 [31.9 kB] Get:151 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 fakeroot amd64 1.32.1-1 [60.1 kB] Get:152 http://ftpmaster.internal/ubuntu mantic/main amd64 gpg amd64 2.2.40-1.1ubuntu1 [523 kB] Get:153 http://ftpmaster.internal/ubuntu mantic/main amd64 gpgconf amd64 2.2.40-1.1ubuntu1 [96.3 kB] Get:154 http://ftpmaster.internal/ubuntu mantic/main amd64 gpg-agent amd64 2.2.40-1.1ubuntu1 [216 kB] Get:155 http://ftpmaster.internal/ubuntu mantic/main amd64 pkgbinarymangler all 153 [16.3 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 313 MB in 14s (22.3 MB/s) (Reading database ... 13093 files and directories currently installed.) 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Setting up libctf0:amd64 (2.40.90.20230714-2ubuntu1) ... Setting up cpp-12 (12.3.0-6ubuntu1) ... Setting up pkgbinarymangler (153) ... Setting up cpp-13 (13.1.0-8ubuntu1) ... Setting up libreadline8:amd64 (8.2-1.3) ... Setting up e2fsprogs (1.47.0-1ubuntu2) ... Setting up ca-certificates (20230311ubuntu1) ... Updating certificates in /etc/ssl/certs... rehash: warning: skipping ca-certificates.crt,it does not contain exactly one certificate or CRL 19 added, 6 removed; done. Setting up perl (5.36.0-7ubuntu1) ... Setting up libgprofng0:amd64 (2.40.90.20230714-2ubuntu1) ... Setting up libgcc-12-dev:amd64 (12.3.0-6ubuntu1) ... Setting up libgssapi-krb5-2:amd64 (1.20.1-2) ... Setting up libsystemd-shared:amd64 (253.5-1ubuntu1) ... Setting up libdpkg-perl (1.21.22ubuntu1) ... Setting up libgcc-13-dev:amd64 (13.1.0-8ubuntu1) ... Setting up cpp (4:13.1.0-4ubuntu2) ... Setting up gpgconf (2.2.40-1.1ubuntu1) ... Setting up libc6-dev:amd64 (2.37-0ubuntu2) ... Setting up gpg (2.2.40-1.1ubuntu1) ... Setting up libstdc++-13-dev:amd64 (13.1.0-8ubuntu1) ... Setting up binutils-x86-64-linux-gnu (2.40.90.20230714-2ubuntu1) ... Setting up gpg-agent (2.2.40-1.1ubuntu1) ... Setting up libstdc++-12-dev:amd64 (12.3.0-6ubuntu1) ... Setting up systemd (253.5-1ubuntu1) ... Installing new version of config file /etc/systemd/journald.conf ... Installing new version of config file /etc/systemd/logind.conf ... Installing new version of config file /etc/systemd/sleep.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 (2.40.90.20230714-2ubuntu1) ... Setting up dpkg-dev (1.21.22ubuntu1) ... Setting up gcc-12 (12.3.0-6ubuntu1) ... Setting up gcc-13 (13.1.0-8ubuntu1) ... Setting up g++-12 (12.3.0-6ubuntu1) ... Setting up g++-13 (13.1.0-8ubuntu1) ... Setting up systemd-sysv (253.5-1ubuntu1) ... Setting up gcc (4:13.1.0-4ubuntu2) ... Setting up g++ (4:13.1.0-4ubuntu2) ... Setting up build-essential (12.10ubuntu1) ... Processing triggers for libc-bin (2.37-0ubuntu2) ... Processing triggers for debianutils (5.8-1) ... Processing triggers for ca-certificates (20230311ubuntu1) ... 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-26424722 amd64 mantic-proposed -c chroot:build-PACKAGEBUILD-26424722 --arch=amd64 --dist=mantic-proposed --nolog -A python-biopython_1.81+dfsg-1.dsc Initiating build PACKAGEBUILD-26424722 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 5.4.0-153-generic #170-Ubuntu SMP Fri Jun 16 13:43:31 UTC 2023 x86_64 sbuild (Debian sbuild) 0.79.0 (05 February 2020) on lcy02-amd64-024.buildd +==============================================================================+ | python-biopython 1.81+dfsg-1 (amd64) Sat, 15 Jul 2023 23:17:54 +0000 | +==============================================================================+ Package: python-biopython Version: 1.81+dfsg-1 Source Version: 1.81+dfsg-1 Distribution: mantic-proposed Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: binary I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-26424722/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/python-biopython-uAs1Pq/resolver-YebikJ' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- python-biopython_1.81+dfsg-1.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/python-biopython-uAs1Pq/python-biopython-1.81+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/python-biopython-uAs1Pq' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), dh-python, python3-all-dev, python3-numpy, flex, python3-reportlab (>= 4.0.4-1~), 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-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 (>= 4.0.4-1~), 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-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 [658 B] Get:5 copy:/<>/apt_archive ./ Packages [693 B] Fetched 2314 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 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 libdbus-1-3 libdebhelper-perl libdeflate0 libdw1 libedit2 libelf1 libevent-core-2.1-7 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 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-cairo python3-contourpy python3-cycler python3-dateutil python3-decorator python3-dev python3-distutils python3-fonttools python3-freetype 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-reportlab python3-rlpycairo 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 ttf-bitstream-vera 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-installer python3-wheel 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 libheif-plugin-rav1e libheif-plugin-svtenc 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 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 libheif-plugin-aomdec libheif-plugin-aomenc libheif-plugin-dav1d libheif-plugin-libde265 libheif-plugin-x265 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 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 libdbus-1-3 libdebhelper-perl libdeflate0 libdw1 libedit2 libelf1 libevent-core-2.1-7 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 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-cairo python3-contourpy python3-cycler python3-dateutil python3-decorator python3-dev python3-distutils python3-fonttools python3-freetype 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-reportlab python3-rlpycairo 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 ttf-bitstream-vera ucf unicode-data wise wise-data x11-common xdg-utils xfonts-encodings xfonts-utils zlib1g-dev 0 upgraded, 300 newly installed, 0 to remove and 0 not upgraded. Need to get 348 MB of archives. After this operation, 1750 MB of additional disk space will be used. 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http://ftpmaster.internal/ubuntu mantic/main amd64 libwebpmux3 amd64 1.2.4-0.2 [20.8 kB] Get:42 http://ftpmaster.internal/ubuntu mantic/main amd64 libxau6 amd64 1:1.0.9-1build5 [7634 B] Get:43 http://ftpmaster.internal/ubuntu mantic/main amd64 libbsd0 amd64 0.11.7-4 [41.4 kB] Get:44 http://ftpmaster.internal/ubuntu mantic/main amd64 libxdmcp6 amd64 1:1.1.3-0ubuntu5 [10.9 kB] Get:45 http://ftpmaster.internal/ubuntu mantic/main amd64 libxcb1 amd64 1.15-1 [48.0 kB] Get:46 http://ftpmaster.internal/ubuntu mantic/main amd64 libx11-data all 2:1.8.6-1 [115 kB] Get:47 http://ftpmaster.internal/ubuntu mantic/main amd64 libx11-6 amd64 2:1.8.6-1 [644 kB] Get:48 http://ftpmaster.internal/ubuntu mantic/main amd64 libxext6 amd64 2:1.3.4-1build1 [31.8 kB] Get:49 http://ftpmaster.internal/ubuntu mantic/main amd64 libicu72 amd64 72.1-3ubuntu2 [10.8 MB] Get:50 http://ftpmaster.internal/ubuntu mantic/main amd64 libxml2 amd64 2.9.14+dfsg-1.3 [764 kB] Get:51 http://ftpmaster.internal/ubuntu mantic/universe amd64 imagemagick-6-common all 8:6.9.11.60+dfsg-1.6ubuntu1 [64.8 kB] Get:52 http://ftpmaster.internal/ubuntu mantic/universe amd64 libmagickcore-6.q16-6 amd64 8:6.9.11.60+dfsg-1.6ubuntu1 [1792 kB] Get:53 http://ftpmaster.internal/ubuntu mantic/universe amd64 libmagickwand-6.q16-6 amd64 8:6.9.11.60+dfsg-1.6ubuntu1 [322 kB] Get:54 http://ftpmaster.internal/ubuntu mantic/main amd64 poppler-data all 0.4.12-1 [2060 kB] Get:55 http://ftpmaster.internal/ubuntu mantic/main amd64 sgml-base all 1.31 [11.4 kB] Get:56 http://ftpmaster.internal/ubuntu mantic/main amd64 libdbus-1-3 amd64 1.14.6-1ubuntu1 [206 kB] Get:57 http://ftpmaster.internal/ubuntu mantic/main amd64 libelf1 amd64 0.189-4 [56.3 kB] Get:58 http://ftpmaster.internal/ubuntu mantic/main amd64 libfribidi0 amd64 1.0.13-3 [26.1 kB] Get:59 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 python3-pkg-resources all 68.0.0-1 [167 kB] Get:60 http://ftpmaster.internal/ubuntu mantic/main amd64 python3-pygments all 2.15.1+dfsg-1 [820 kB] Get:61 http://ftpmaster.internal/ubuntu mantic/main amd64 ucf all 3.0043+nmu1 [56.5 kB] Get:62 http://ftpmaster.internal/ubuntu mantic/main amd64 bsdextrautils amd64 2.38.1-5ubuntu2 [71.0 kB] Get:63 http://ftpmaster.internal/ubuntu mantic/main amd64 libmagic-mgc amd64 1:5.44-3 [293 kB] Get:64 http://ftpmaster.internal/ubuntu mantic/main amd64 libmagic1 amd64 1:5.44-3 [85.6 kB] Get:65 http://ftpmaster.internal/ubuntu mantic/main amd64 file amd64 1:5.44-3 [21.8 kB] Get:66 http://ftpmaster.internal/ubuntu mantic/main amd64 gettext-base amd64 0.21-13 [38.1 kB] Get:67 http://ftpmaster.internal/ubuntu mantic/main amd64 libuchardet0 amd64 0.0.7-1build2 [76.9 kB] Get:68 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 groff-base amd64 1.23.0-2 [1023 kB] Get:69 http://ftpmaster.internal/ubuntu mantic/main amd64 libcbor0.8 amd64 0.8.0-2ubuntu1 [24.6 kB] Get:70 http://ftpmaster.internal/ubuntu mantic/main amd64 libedit2 amd64 3.1-20221030-2 [95.2 kB] Get:71 http://ftpmaster.internal/ubuntu mantic/main amd64 libfido2-1 amd64 1.13.0-1 [84.8 kB] Get:72 http://ftpmaster.internal/ubuntu mantic/main amd64 liblmdb0 amd64 0.9.24-1build2 [47.6 kB] Get:73 http://ftpmaster.internal/ubuntu mantic/main amd64 libnghttp2-14 amd64 1.54.0-1 [72.7 kB] Get:74 http://ftpmaster.internal/ubuntu mantic/main amd64 libnuma1 amd64 2.0.16-1 [22.6 kB] Get:75 http://ftpmaster.internal/ubuntu mantic/main amd64 libpipeline1 amd64 1.5.7-1 [23.3 kB] Get:76 http://ftpmaster.internal/ubuntu mantic/main amd64 libpsl5 amd64 0.21.2-1 [59.0 kB] Get:77 http://ftpmaster.internal/ubuntu mantic/main amd64 man-db amd64 2.11.2-2 [1220 kB] Get:78 http://ftpmaster.internal/ubuntu mantic/main amd64 openssh-client amd64 1:9.3p1-1ubuntu1 [913 kB] Get:79 http://ftpmaster.internal/ubuntu mantic/main amd64 autoconf all 2.71-3 [339 kB] Get:80 http://ftpmaster.internal/ubuntu mantic/main amd64 autotools-dev all 20220109.1 [44.9 kB] Get:81 http://ftpmaster.internal/ubuntu mantic/main amd64 automake all 1:1.16.5-1.3 [558 kB] Get:82 http://ftpmaster.internal/ubuntu mantic/main amd64 autopoint all 0.21-13 [422 kB] Get:83 http://ftpmaster.internal/ubuntu mantic/main amd64 libtcl8.6 amd64 8.6.13+dfsg-2 [984 kB] Get:84 http://ftpmaster.internal/ubuntu mantic/main amd64 libxrender1 amd64 1:0.9.10-1.1 [20.0 kB] Get:85 http://ftpmaster.internal/ubuntu mantic/main amd64 libxft2 amd64 2.3.6-1 [44.5 kB] Get:86 http://ftpmaster.internal/ubuntu mantic/main amd64 libxss1 amd64 1:1.2.3-1build2 [8476 B] Get:87 http://ftpmaster.internal/ubuntu mantic/main amd64 libtk8.6 amd64 8.6.13-2 [776 kB] Get:88 http://ftpmaster.internal/ubuntu mantic/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-4.1build2 [643 kB] Get:89 http://ftpmaster.internal/ubuntu mantic/main amd64 blt amd64 2.5.3+dfsg-4.1build2 [4838 B] Get:90 http://ftpmaster.internal/ubuntu mantic/universe amd64 bwa amd64 0.7.17-7 [195 kB] Get:91 http://ftpmaster.internal/ubuntu mantic/universe amd64 libargtable2-0 amd64 13-1.1 [14.1 kB] Get:92 http://ftpmaster.internal/ubuntu mantic/universe amd64 clustalo amd64 1.2.4-7 [259 kB] Get:93 http://ftpmaster.internal/ubuntu mantic/universe amd64 clustalw amd64 2.1+lgpl-7 [275 kB] Get:94 http://ftpmaster.internal/ubuntu mantic/main amd64 libdebhelper-perl all 13.11.4ubuntu3 [66.1 kB] Get:95 http://ftpmaster.internal/ubuntu mantic/main amd64 libtool all 2.4.7-5 [166 kB] Get:96 http://ftpmaster.internal/ubuntu mantic/main amd64 dh-autoreconf all 20 [16.1 kB] Get:97 http://ftpmaster.internal/ubuntu mantic/main amd64 libarchive-zip-perl all 1.68-1 [90.2 kB] Get:98 http://ftpmaster.internal/ubuntu mantic/main amd64 libsub-override-perl all 0.09-4 [8706 B] Get:99 http://ftpmaster.internal/ubuntu mantic/main amd64 libfile-stripnondeterminism-perl all 1.13.1-1 [18.1 kB] Get:100 http://ftpmaster.internal/ubuntu mantic/main amd64 dh-strip-nondeterminism all 1.13.1-1 [5362 B] Get:101 http://ftpmaster.internal/ubuntu mantic/main amd64 libdw1 amd64 0.189-4 [257 kB] Get:102 http://ftpmaster.internal/ubuntu mantic/main amd64 debugedit amd64 1:5.0-5 [46.1 kB] Get:103 http://ftpmaster.internal/ubuntu mantic/main amd64 dwz amd64 0.15-1 [112 kB] Get:104 http://ftpmaster.internal/ubuntu mantic/main amd64 gettext amd64 0.21-13 [866 kB] Get:105 http://ftpmaster.internal/ubuntu mantic/main amd64 intltool-debian all 0.35.0+20060710.6 [23.2 kB] Get:106 http://ftpmaster.internal/ubuntu mantic/main amd64 po-debconf all 1.0.21+nmu1 [233 kB] Get:107 http://ftpmaster.internal/ubuntu mantic/main amd64 debhelper all 13.11.4ubuntu3 [925 kB] Get:108 http://ftpmaster.internal/ubuntu mantic/main amd64 python3-lib2to3 all 3.11.4-1 [79.0 kB] Get:109 http://ftpmaster.internal/ubuntu mantic/main amd64 python3-distutils all 3.11.4-1 [131 kB] Get:110 http://ftpmaster.internal/ubuntu mantic-proposed/universe amd64 dh-python all 6.20230603 [107 kB] Get:111 http://ftpmaster.internal/ubuntu mantic/universe amd64 dialign amd64 2.2.1-11 [139 kB] Get:112 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libboost-regex1.74.0 amd64 1.74.0+ds1-21.2ubuntu1 [516 kB] Get:113 http://ftpmaster.internal/ubuntu mantic/universe amd64 libcifpp-data all 5.0.7.1-1build1 [450 kB] Get:114 http://ftpmaster.internal/ubuntu mantic/universe amd64 libcifpp5 amd64 5.0.7.1-1build1 [874 kB] Get:115 http://ftpmaster.internal/ubuntu mantic/universe amd64 dssp amd64 4.2.2-2 [670 kB] Get:116 http://ftpmaster.internal/ubuntu mantic/main amd64 libxpm4 amd64 1:3.5.12-1.1 [36.2 kB] Get:117 http://ftpmaster.internal/ubuntu mantic/main amd64 libgd3 amd64 2.3.3-9ubuntu1 [123 kB] Get:118 http://ftpmaster.internal/ubuntu mantic/universe amd64 libhpdf-2.3.0 amd64 2.3.0+dfsg-1build1 [335 kB] Get:119 http://ftpmaster.internal/ubuntu mantic/main amd64 mysql-common all 5.8+1.1.0 [6626 B] Get:120 http://ftpmaster.internal/ubuntu mantic/main amd64 libmysqlclient21 amd64 8.0.33-2 [1284 kB] Get:121 http://ftpmaster.internal/ubuntu mantic/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-1 [20.0 kB] Get:122 http://ftpmaster.internal/ubuntu mantic/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-1 [55.6 kB] Get:123 http://ftpmaster.internal/ubuntu mantic/main amd64 libldap2 amd64 2.6.4+dfsg-1~exp1ubuntu1 [193 kB] Get:124 http://ftpmaster.internal/ubuntu mantic/main amd64 libpq5 amd64 15.3-1 [134 kB] Get:125 http://ftpmaster.internal/ubuntu mantic/universe amd64 emboss-lib amd64 6.6.0+dfsg-12ubuntu1 [3011 kB] Get:126 http://ftpmaster.internal/ubuntu mantic/universe amd64 emboss-data all 6.6.0+dfsg-12ubuntu1 [61.0 MB] Get:127 http://ftpmaster.internal/ubuntu mantic/universe amd64 emboss amd64 6.6.0+dfsg-12ubuntu1 [981 kB] Get:128 http://ftpmaster.internal/ubuntu mantic/universe amd64 fonts-lmodern all 2.005-1 [4799 kB] Get:129 http://ftpmaster.internal/ubuntu mantic/universe amd64 fonts-lyx all 2.3.7-1 [167 kB] Get:130 http://ftpmaster.internal/ubuntu mantic/main amd64 libgs-common all 10.0.0~dfsg1-0ubuntu2 [174 kB] Get:131 http://ftpmaster.internal/ubuntu mantic/main amd64 libgs10-common all 10.0.0~dfsg1-0ubuntu2 [601 kB] Get:132 http://ftpmaster.internal/ubuntu mantic/main amd64 libavahi-common-data amd64 0.8-10ubuntu1 [27.7 kB] Get:133 http://ftpmaster.internal/ubuntu mantic/main amd64 libavahi-common3 amd64 0.8-10ubuntu1 [23.4 kB] Get:134 http://ftpmaster.internal/ubuntu mantic/main amd64 libavahi-client3 amd64 0.8-10ubuntu1 [27.5 kB] Get:135 http://ftpmaster.internal/ubuntu mantic/main amd64 libcups2 amd64 2.4.5-0ubuntu2 [269 kB] Get:136 http://ftpmaster.internal/ubuntu mantic/main amd64 libidn12 amd64 1.41-1 [56.2 kB] Get:137 http://ftpmaster.internal/ubuntu mantic/main amd64 libijs-0.35 amd64 0.35-15.1 [15.5 kB] Get:138 http://ftpmaster.internal/ubuntu mantic/main amd64 libjbig2dec0 amd64 0.19-3build2 [64.7 kB] Get:139 http://ftpmaster.internal/ubuntu mantic/main amd64 libpaper1 amd64 1.1.29 [13.4 kB] Get:140 http://ftpmaster.internal/ubuntu mantic/main amd64 libice6 amd64 2:1.0.10-1build2 [42.6 kB] Get:141 http://ftpmaster.internal/ubuntu mantic/main amd64 libsm6 amd64 2:1.2.3-1build2 [16.7 kB] Get:142 http://ftpmaster.internal/ubuntu mantic/main amd64 libxt6 amd64 1:1.2.1-1.1 [173 kB] Get:143 http://ftpmaster.internal/ubuntu mantic/main amd64 libgs10 amd64 10.0.0~dfsg1-0ubuntu2 [3843 kB] Get:144 http://ftpmaster.internal/ubuntu mantic/main amd64 ghostscript amd64 10.0.0~dfsg1-0ubuntu2 [49.3 kB] Get:145 http://ftpmaster.internal/ubuntu mantic/universe amd64 libnetpbm11 amd64 2:11.01.00-2build1 [111 kB] Get:146 http://ftpmaster.internal/ubuntu mantic/universe amd64 netpbm amd64 2:11.01.00-2build1 [2017 kB] Get:147 http://ftpmaster.internal/ubuntu mantic/universe amd64 tex-common all 6.18 [32.8 kB] Get:148 http://ftpmaster.internal/ubuntu mantic/main amd64 libpaper-utils amd64 1.1.29 [8658 B] Get:149 http://ftpmaster.internal/ubuntu mantic/main amd64 libkpathsea6 amd64 2022.20220321.62855-7 [61.5 kB] Get:150 http://ftpmaster.internal/ubuntu mantic/main amd64 libptexenc1 amd64 2022.20220321.62855-7 [38.1 kB] Get:151 http://ftpmaster.internal/ubuntu mantic/main amd64 libsynctex2 amd64 2022.20220321.62855-7 [57.2 kB] Get:152 http://ftpmaster.internal/ubuntu mantic/main amd64 libtexlua53-5 amd64 2022.20220321.62855-7 [120 kB] Get:153 http://ftpmaster.internal/ubuntu mantic/main amd64 libtexluajit2 amd64 2022.20220321.62855-7 [268 kB] Get:154 http://ftpmaster.internal/ubuntu mantic/main amd64 t1utils amd64 1.41-4build2 [61.3 kB] Get:155 http://ftpmaster.internal/ubuntu mantic/main amd64 libpixman-1-0 amd64 0.42.2-1 [268 kB] Get:156 http://ftpmaster.internal/ubuntu mantic/main amd64 libxcb-render0 amd64 1.15-1 [16.3 kB] Get:157 http://ftpmaster.internal/ubuntu mantic/main amd64 libxcb-shm0 amd64 1.15-1 [5740 B] Get:158 http://ftpmaster.internal/ubuntu mantic/main amd64 libcairo2 amd64 1.17.8-2 [560 kB] Get:159 http://ftpmaster.internal/ubuntu mantic/main amd64 libgraphite2-3 amd64 1.3.14-1build2 [71.3 kB] Get:160 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libharfbuzz0b amd64 8.0.1-1 [456 kB] Get:161 http://ftpmaster.internal/ubuntu mantic/universe amd64 libteckit0 amd64 2.5.11+ds1-1 [421 kB] Get:162 http://ftpmaster.internal/ubuntu mantic/main amd64 libxmu6 amd64 2:1.1.3-3 [49.6 kB] Get:163 http://ftpmaster.internal/ubuntu mantic/main amd64 libxaw7 amd64 2:1.0.14-1 [191 kB] Get:164 http://ftpmaster.internal/ubuntu mantic/main amd64 libxi6 amd64 2:1.8-1build1 [32.6 kB] Get:165 http://ftpmaster.internal/ubuntu mantic/universe amd64 libzzip-0-13 amd64 0.13.72+dfsg.1-1.1 [27.0 kB] Get:166 http://ftpmaster.internal/ubuntu mantic/universe amd64 texlive-binaries amd64 2022.20220321.62855-7 [10.1 MB] Get:167 http://ftpmaster.internal/ubuntu mantic/main amd64 xdg-utils all 1.1.3-4.1ubuntu3 [62.0 kB] Get:168 http://ftpmaster.internal/ubuntu mantic/universe amd64 texlive-base all 2022.20230122-3 [21.7 MB] Get:169 http://ftpmaster.internal/ubuntu mantic/main amd64 hicolor-icon-theme all 0.17-2 [9976 B] Get:170 http://ftpmaster.internal/ubuntu mantic/universe amd64 imagemagick-6.q16 amd64 8:6.9.11.60+dfsg-1.6ubuntu1 [222 kB] Get:171 http://ftpmaster.internal/ubuntu mantic/universe amd64 imagemagick amd64 8:6.9.11.60+dfsg-1.6ubuntu1 [14.6 kB] Get:172 http://ftpmaster.internal/ubuntu mantic/universe amd64 hevea amd64 2.36-1build1 [2021 kB] Get:173 http://ftpmaster.internal/ubuntu mantic/main amd64 libnl-3-200 amd64 3.7.0-0.2 [57.4 kB] Get:174 http://ftpmaster.internal/ubuntu mantic/main amd64 libnl-route-3-200 amd64 3.7.0-0.2 [189 kB] Get:175 http://ftpmaster.internal/ubuntu mantic/main amd64 libibverbs1 amd64 44.0-2 [67.1 kB] Get:176 http://ftpmaster.internal/ubuntu mantic/main amd64 ibverbs-providers amd64 44.0-2 [365 kB] Get:177 http://ftpmaster.internal/ubuntu mantic/universe amd64 libapache-pom-java all 29-2 [5284 B] Get:178 http://ftpmaster.internal/ubuntu mantic/main amd64 libblas3 amd64 3.11.0-2 [244 kB] Get:179 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libboost1.74-dev amd64 1.74.0+ds1-21.2ubuntu1 [9585 kB] Get:180 http://ftpmaster.internal/ubuntu mantic/main amd64 libboost-dev amd64 1.74.0.3ubuntu7 [3490 B] Get:181 http://ftpmaster.internal/ubuntu mantic/universe amd64 libcommons-parent-java all 56-1 [10.7 kB] Get:182 http://ftpmaster.internal/ubuntu mantic/universe amd64 libcommons-logging-java all 1.2-3 [59.9 kB] Get:183 http://ftpmaster.internal/ubuntu mantic/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2build4 [58.2 kB] Get:184 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libssh-4 amd64 0.10.5-2 [187 kB] Get:185 http://ftpmaster.internal/ubuntu mantic/main amd64 libcurl3-gnutls amd64 7.88.1-10ubuntu1 [301 kB] Get:186 http://ftpmaster.internal/ubuntu mantic/main amd64 libevent-core-2.1-7 amd64 2.1.12-stable-8ubuntu3 [91.7 kB] Get:187 http://ftpmaster.internal/ubuntu mantic/main amd64 libevent-pthreads-2.1-7 amd64 2.1.12-stable-8ubuntu3 [7808 B] Get:188 http://ftpmaster.internal/ubuntu mantic/main amd64 libexpat1-dev amd64 2.5.0-2 [137 kB] Get:189 http://ftpmaster.internal/ubuntu mantic/universe amd64 libpsm-infinipath1 amd64 3.3+20.604758e7-6.2 [181 kB] Get:190 http://ftpmaster.internal/ubuntu mantic/universe amd64 libpsm2-2 amd64 11.2.185-2 [196 kB] Get:191 http://ftpmaster.internal/ubuntu mantic/main amd64 librdmacm1 amd64 44.0-2 [70.7 kB] Get:192 http://ftpmaster.internal/ubuntu mantic/universe amd64 libfabric1 amd64 1.17.0-3 [665 kB] Get:193 http://ftpmaster.internal/ubuntu mantic/main amd64 libgfortran5 amd64 13.1.0-8ubuntu1 [891 kB] Get:194 http://ftpmaster.internal/ubuntu mantic/universe amd64 libhtscodecs2 amd64 1.5.0-1 [96.8 kB] Get:195 http://ftpmaster.internal/ubuntu mantic/universe amd64 libhts3 amd64 1.17+ds-1 [429 kB] Get:196 http://ftpmaster.internal/ubuntu mantic/universe amd64 libhwloc15 amd64 2.9.2-1 [163 kB] Get:197 http://ftpmaster.internal/ubuntu mantic/main amd64 libimagequant0 amd64 2.17.0-1 [34.6 kB] Get:198 http://ftpmaster.internal/ubuntu mantic/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] Get:199 http://ftpmaster.internal/ubuntu mantic/universe amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB] Get:200 http://ftpmaster.internal/ubuntu mantic/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] Get:201 http://ftpmaster.internal/ubuntu mantic/main amd64 libjs-sphinxdoc all 5.3.0-4 [130 kB] Get:202 http://ftpmaster.internal/ubuntu mantic/universe amd64 libopenblas0-pthread amd64 0.3.23+ds-2 [7230 kB] Get:203 http://ftpmaster.internal/ubuntu mantic/main amd64 liblapack3 amd64 3.11.0-2 [2659 kB] Get:204 http://ftpmaster.internal/ubuntu mantic/universe amd64 liblbfgsb0 amd64 3.0+dfsg.4-1 [30.4 kB] Get:205 http://ftpmaster.internal/ubuntu mantic/universe amd64 libmbedcrypto7 amd64 2.28.3-1 [206 kB] Get:206 http://ftpmaster.internal/ubuntu mantic/universe amd64 libmbedx509-1 amd64 2.28.3-1 [45.7 kB] Get:207 http://ftpmaster.internal/ubuntu mantic/universe amd64 libmbedtls14 amd64 2.28.3-1 [82.5 kB] Get:208 http://ftpmaster.internal/ubuntu mantic/universe amd64 libopenblas0 amd64 0.3.23+ds-2 [6124 B] Get:209 http://ftpmaster.internal/ubuntu mantic/universe amd64 libopenblas-pthread-dev amd64 0.3.23+ds-2 [5003 kB] Get:210 http://ftpmaster.internal/ubuntu mantic/universe amd64 libopenblas-dev amd64 0.3.23+ds-2 [19.0 kB] Get:211 http://ftpmaster.internal/ubuntu mantic/universe amd64 libmunge2 amd64 0.5.15-2 [15.3 kB] Get:212 http://ftpmaster.internal/ubuntu mantic/main amd64 libpciaccess0 amd64 0.17-2 [18.5 kB] Get:213 http://ftpmaster.internal/ubuntu mantic/main amd64 libxnvctrl0 amd64 510.47.03-0ubuntu1 [11.5 kB] Get:214 http://ftpmaster.internal/ubuntu mantic/universe amd64 ocl-icd-libopencl1 amd64 2.3.2-1 [38.3 kB] Get:215 http://ftpmaster.internal/ubuntu mantic/universe amd64 libhwloc-plugins amd64 2.9.2-1 [15.8 kB] Get:216 http://ftpmaster.internal/ubuntu mantic/universe amd64 libpmix2 amd64 5.0.0~rc1-2 [682 kB] Get:217 http://ftpmaster.internal/ubuntu mantic/universe amd64 libucx0 amd64 1.15.0~rc1-2 [984 kB] Get:218 http://ftpmaster.internal/ubuntu mantic/universe amd64 libopenmpi3 amd64 4.1.5-2ubuntu1 [2586 kB] Get:219 http://ftpmaster.internal/ubuntu mantic/main amd64 libpcre3 amd64 2:8.39-15 [250 kB] Get:220 http://ftpmaster.internal/ubuntu mantic/main amd64 libpython3.11 amd64 3.11.4-1 [2198 kB] Get:221 http://ftpmaster.internal/ubuntu mantic/main amd64 zlib1g-dev amd64 1:1.2.13.dfsg-1ubuntu4 [895 kB] Get:222 http://ftpmaster.internal/ubuntu mantic/main amd64 libpython3.11-dev amd64 3.11.4-1 [5325 kB] Get:223 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libpython3-dev amd64 3.11.4-5 [9756 B] Get:224 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libpython3-all-dev amd64 3.11.4-5 [906 B] Get:225 http://ftpmaster.internal/ubuntu mantic/universe amd64 libqhull-r8.0 amd64 2020.2-6 [194 kB] Get:226 http://ftpmaster.internal/ubuntu mantic/main amd64 libraqm0 amd64 0.10.1-1 [14.6 kB] Get:227 http://ftpmaster.internal/ubuntu mantic/universe amd64 libxsimd-dev amd64 8.1.0-7 [90.7 kB] Get:228 http://ftpmaster.internal/ubuntu mantic/main amd64 libxslt1.1 amd64 1.1.35-1 [164 kB] Get:229 http://ftpmaster.internal/ubuntu mantic/universe amd64 mafft amd64 7.505-1 [795 kB] Get:230 http://ftpmaster.internal/ubuntu mantic/universe amd64 muscle3 amd64 3.8.1551-2 [193 kB] Get:231 http://ftpmaster.internal/ubuntu mantic/universe amd64 ncbi-data all 6.1.20170106+dfsg1-10 [4395 kB] Get:232 http://ftpmaster.internal/ubuntu mantic/universe amd64 ncbi-blast+ amd64 2.12.0+ds-3build1 [12.3 MB] Get:233 http://ftpmaster.internal/ubuntu mantic/universe amd64 openmpi-common all 4.1.5-2ubuntu1 [168 kB] Get:234 http://ftpmaster.internal/ubuntu mantic/universe amd64 openmpi-bin amd64 4.1.5-2ubuntu1 [115 kB] Get:235 http://ftpmaster.internal/ubuntu mantic/universe amd64 phylip amd64 1:3.697+dfsg-2 [906 kB] Get:236 http://ftpmaster.internal/ubuntu mantic/universe amd64 phyml amd64 3:3.3.20220408-3 [962 kB] Get:237 http://ftpmaster.internal/ubuntu mantic/universe amd64 prank amd64 0.0.170427+dfsg-3 [396 kB] Get:238 http://ftpmaster.internal/ubuntu mantic/universe amd64 preview-latex-style all 12.2-1ubuntu1 [185 kB] Get:239 http://ftpmaster.internal/ubuntu mantic/universe amd64 probcons amd64 1.12-14 [125 kB] Get:240 http://ftpmaster.internal/ubuntu mantic/universe amd64 python-matplotlib-data all 3.6.3-1ubuntu2 [2939 kB] Get:241 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 python3-all amd64 3.11.4-5 [896 B] Get:242 http://ftpmaster.internal/ubuntu mantic/main amd64 python3.11-dev amd64 3.11.4-1 [618 kB] Get:243 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 python3-dev amd64 3.11.4-5 [26.8 kB] Get:244 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 python3-all-dev amd64 3.11.4-5 [904 B] Get:245 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 python3-appdirs all 1.4.4-4 [10.9 kB] Get:246 http://ftpmaster.internal/ubuntu mantic/main amd64 python3-attr all 23.1.0-1 [50.4 kB] Get:247 http://ftpmaster.internal/ubuntu mantic/universe amd64 python3-gast all 0.5.2-2 [9394 B] Get:248 http://ftpmaster.internal/ubuntu mantic/universe amd64 python3-beniget all 0.4.1-3 [10.0 kB] Get:249 http://ftpmaster.internal/ubuntu mantic/universe amd64 python3-brotli amd64 1.0.9-2build8 [313 kB] Get:250 http://ftpmaster.internal/ubuntu mantic/main amd64 python3-cairo amd64 1.24.0-1 [116 kB] Get:251 http://ftpmaster.internal/ubuntu mantic/main amd64 python3-numpy amd64 1:1.24.2-1 [5573 kB] Get:252 http://ftpmaster.internal/ubuntu mantic/universe amd64 python3-contourpy amd64 1.0.7-1build1 [173 kB] Get:253 http://ftpmaster.internal/ubuntu mantic/universe amd64 python3-cycler all 0.11.0-1 [8156 B] Get:254 http://ftpmaster.internal/ubuntu mantic/main amd64 python3-six all 1.16.0-4 [12.4 kB] Get:255 http://ftpmaster.internal/ubuntu mantic/main amd64 python3-dateutil all 2.8.2-2 [79.2 kB] Get:256 http://ftpmaster.internal/ubuntu mantic/main amd64 python3-decorator all 5.1.1-3 [9938 B] Get:257 http://ftpmaster.internal/ubuntu mantic/main amd64 python3-ply all 3.11-5 [47.5 kB] Get:258 http://ftpmaster.internal/ubuntu mantic/universe amd64 python3-pythran amd64 0.11.0+ds-7 [427 kB] Get:259 http://ftpmaster.internal/ubuntu mantic/universe amd64 python3-scipy amd64 1.10.1-2 [15.4 MB] Get:260 http://ftpmaster.internal/ubuntu mantic/universe amd64 python3-ufolib2 all 0.14.0+dfsg1-1 [34.4 kB] Get:261 http://ftpmaster.internal/ubuntu mantic/universe amd64 python3-mpmath all 1.2.1-2 [419 kB] Get:262 http://ftpmaster.internal/ubuntu mantic-proposed/universe amd64 python3-sympy all 1.12-2 [3967 kB] Get:263 http://ftpmaster.internal/ubuntu mantic/main amd64 python3-tz all 2023.3-3 [31.2 kB] Get:264 http://ftpmaster.internal/ubuntu mantic/universe amd64 python3-fs all 2.4.16-2 [91.0 kB] Get:265 http://ftpmaster.internal/ubuntu mantic/main amd64 python3-lxml amd64 4.9.3-1 [1224 kB] Get:266 http://ftpmaster.internal/ubuntu mantic/universe amd64 python3-lz4 amd64 4.0.2+dfsg-1build1 [26.4 kB] Get:267 http://ftpmaster.internal/ubuntu mantic/universe amd64 unicode-data all 15.0.0-1 [8262 kB] Get:268 http://ftpmaster.internal/ubuntu mantic/universe amd64 python3-fonttools amd64 4.38.0-1build1 [1050 kB] Get:269 http://ftpmaster.internal/ubuntu mantic/universe amd64 python3-freetype all 2.4.0-1 [83.1 kB] Get:270 http://ftpmaster.internal/ubuntu mantic/universe amd64 python3-isodate all 0.6.1-1 [24.7 kB] Get:271 http://ftpmaster.internal/ubuntu mantic/universe amd64 python3-kiwisolver amd64 1.4.4-1build1 [50.6 kB] Get:272 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 python3-pil amd64 10.0.0-1 [436 kB] Get:273 http://ftpmaster.internal/ubuntu mantic/main amd64 python3-tk amd64 3.11.4-1 [112 kB] Get:274 http://ftpmaster.internal/ubuntu mantic-proposed/universe amd64 python3-pil.imagetk amd64 10.0.0-1 [9168 B] Get:275 http://ftpmaster.internal/ubuntu mantic/main amd64 python3-pyparsing all 3.1.0-1 [86.4 kB] Get:276 http://ftpmaster.internal/ubuntu mantic/main amd64 python3-packaging all 23.1-1 [38.1 kB] Get:277 http://ftpmaster.internal/ubuntu mantic/universe amd64 python3-matplotlib amd64 3.6.3-1ubuntu2 [6095 kB] Get:278 http://ftpmaster.internal/ubuntu mantic/main amd64 python3-msgpack amd64 1.0.3-2build1 [66.7 kB] Get:279 http://ftpmaster.internal/ubuntu mantic/universe amd64 python3-mmtf all 1.1.3-1 [16.2 kB] Get:280 http://ftpmaster.internal/ubuntu mantic/main amd64 python3-mysqldb amd64 1.4.6-2build1 [47.2 kB] Get:281 http://ftpmaster.internal/ubuntu mantic/main amd64 python3-networkx all 2.8.8-1ubuntu1 [1468 kB] Get:282 http://ftpmaster.internal/ubuntu mantic/main amd64 python3-psycopg2 amd64 2.9.6-2 [130 kB] Get:283 http://ftpmaster.internal/ubuntu mantic/universe amd64 python3-rdflib all 6.1.1-1 [363 kB] Get:284 http://ftpmaster.internal/ubuntu mantic/universe amd64 python3-rlpycairo all 0.3.0-2 [9076 B] Get:285 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 python3-reportlab all 4.0.4-9 [567 kB] Get:286 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 python3-setuptools all 68.0.0-1 [396 kB] Get:287 http://ftpmaster.internal/ubuntu mantic/main amd64 python3-unittest2 all 1.1.0-9 [76.3 kB] Get:288 http://ftpmaster.internal/ubuntu mantic/universe amd64 raxml amd64 8.2.12+dfsg-8 [1570 kB] Get:289 http://ftpmaster.internal/ubuntu mantic/universe amd64 samtools amd64 1.17-1 [577 kB] Get:290 http://ftpmaster.internal/ubuntu mantic/universe amd64 t-coffee amd64 13.45.0.4846264+really13.41.0.28bdc39+dfsg-1 [929 kB] Get:291 http://ftpmaster.internal/ubuntu mantic/universe amd64 texlive-fonts-recommended all 2022.20230122-3 [4973 kB] Get:292 http://ftpmaster.internal/ubuntu mantic/universe amd64 texlive-latex-base all 2022.20230122-3 [1165 kB] Get:293 http://ftpmaster.internal/ubuntu mantic/universe amd64 libfontbox-java all 1:1.8.16-3 [208 kB] Get:294 http://ftpmaster.internal/ubuntu mantic/universe amd64 libpdfbox-java all 1:1.8.16-3 [5550 kB] Get:295 http://ftpmaster.internal/ubuntu mantic/universe amd64 texlive-latex-recommended all 2022.20230122-3 [8864 kB] Get:296 http://ftpmaster.internal/ubuntu mantic/universe amd64 texlive-pictures all 2022.20230122-3 [15.8 MB] Get:297 http://ftpmaster.internal/ubuntu mantic/universe amd64 texlive-latex-extra all 2022.20230122-4 [18.8 MB] Get:298 http://ftpmaster.internal/ubuntu mantic/universe amd64 wise-data all 2.4.1-23 [76.8 kB] Get:299 http://ftpmaster.internal/ubuntu mantic/universe amd64 wise amd64 2.4.1-23 [995 kB] Get:300 http://ftpmaster.internal/ubuntu mantic/universe amd64 fasttree amd64 2.1.11-2 [174 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 348 MB in 17s (20.1 MB/s) Selecting previously unselected package libpython3.11-minimal:amd64. (Reading database ... 13736 files and directories currently installed.) Preparing to unpack .../libpython3.11-minimal_3.11.4-1_amd64.deb ... Unpacking libpython3.11-minimal:amd64 (3.11.4-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.5.0-2_amd64.deb ... Unpacking libexpat1:amd64 (2.5.0-2) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.4-1_amd64.deb ... Unpacking python3.11-minimal (3.11.4-1) ... Setting up libpython3.11-minimal:amd64 (3.11.4-1) ... Setting up libexpat1:amd64 (2.5.0-2) ... Setting up python3.11-minimal (3.11.4-1) ... Selecting previously unselected package python3-minimal. (Reading database ... 14050 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.11.4-5_amd64.deb ... Unpacking python3-minimal (3.11.4-5) ... Selecting previously unselected package media-types. 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Selecting previously unselected package libwebpmux3:amd64. Preparing to unpack .../029-libwebpmux3_1.2.4-0.2_amd64.deb ... Unpacking libwebpmux3:amd64 (1.2.4-0.2) ... Selecting previously unselected package libxau6:amd64. Preparing to unpack .../030-libxau6_1%3a1.0.9-1build5_amd64.deb ... Unpacking libxau6:amd64 (1:1.0.9-1build5) ... Selecting previously unselected package libbsd0:amd64. Preparing to unpack .../031-libbsd0_0.11.7-4_amd64.deb ... Unpacking libbsd0:amd64 (0.11.7-4) ... Selecting previously unselected package libxdmcp6:amd64. Preparing to unpack .../032-libxdmcp6_1%3a1.1.3-0ubuntu5_amd64.deb ... Unpacking libxdmcp6:amd64 (1:1.1.3-0ubuntu5) ... Selecting previously unselected package libxcb1:amd64. Preparing to unpack .../033-libxcb1_1.15-1_amd64.deb ... Unpacking libxcb1:amd64 (1.15-1) ... Selecting previously unselected package libx11-data. Preparing to unpack .../034-libx11-data_2%3a1.8.6-1_all.deb ... Unpacking libx11-data (2:1.8.6-1) ... 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Selecting previously unselected package fasttree. Preparing to unpack .../288-fasttree_2.1.11-2_amd64.deb ... Unpacking fasttree (2.1.11-2) ... Selecting previously unselected package sbuild-build-depends-main-dummy. Preparing to unpack .../289-sbuild-build-depends-main-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-main-dummy (0.invalid.0) ... Setting up libhtscodecs2:amd64 (1.5.0-1) ... Setting up media-types (10.1.0) ... Setting up libpipeline1:amd64 (1.5.7-1) ... Setting up liblmdb0:amd64 (0.9.24-1build2) ... Setting up libgraphite2-3:amd64 (1.3.14-1build2) ... Setting up liblcms2-2:amd64 (2.14-2) ... Setting up ncbi-data (6.1.20170106+dfsg1-10) ... Setting up libpixman-1-0:amd64 (0.42.2-1) ... 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 (8.0.33-2) ... Setting up libxau6:amd64 (1:1.0.9-1build5) ... Setting up imagemagick-6-common (8:6.9.11.60+dfsg-1.6ubuntu1) ... Setting up libhpdf-2.3.0:amd64 (2.3.0+dfsg-1build1) ... Setting up libpsl5:amd64 (0.21.2-1) ... Setting up ttf-bitstream-vera (1.10-8.2) ... Setting up libboost1.74-dev:amd64 (1.74.0+ds1-21.2ubuntu1) ... Setting up libicu72:amd64 (72.1-3ubuntu2) ... Setting up liblerc4:amd64 (4.0.0+ds-2ubuntu2) ... Setting up bsdextrautils (2.38.1-5ubuntu2) ... 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 libglib2.0-0:amd64 (2.77.0-0ubuntu2) ... No schema files found: doing nothing. Setting up fontconfig-config (2.14.1-4ubuntu1) ... Setting up bwa (0.7.17-7) ... Setting up fonts-lyx (2.3.7-1) ... Setting up libijs-0.35:amd64 (0.35-15.1) ... Setting up libcbor0.8:amd64 (0.8.0-2ubuntu1) ... Setting up libpython3.11-stdlib:amd64 (3.11.4-1) ... Setting up libtexluajit2:amd64 (2022.20220321.62855-7) ... Setting up libdebhelper-perl (13.11.4ubuntu3) ... Setting up libgs-common (10.0.0~dfsg1-0ubuntu2) ... Setting up libbrotli1:amd64 (1.0.9-2build8) ... Setting up libfontbox-java (1:1.8.16-3) ... Setting up libheif1:amd64 (1.16.2-1ubuntu1) ... 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 (1.54.0-1) ... 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 (0.21-13) ... Setting up m4 (1.4.19-3) ... Setting up libqhull-r8.0:amd64 (2020.2-6) ... 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 (2.1-6.1ubuntu1) ... 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+dfsg1-1) ... 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 (2.5.0-2) ... Setting up libfreetype6:amd64 (2.13.0+dfsg-1) ... Setting up libmbedcrypto7:amd64 (2.28.3-1) ... Setting up libx11-data (2:1.8.6-1) ... 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 (0.8-10ubuntu1) ... Setting up libdbus-1-3:amd64 (1.14.6-1ubuntu1) ... Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... Setting up libfribidi0:amd64 (1.0.13-3) ... Setting up libboost-regex1.74.0:amd64 (1.74.0+ds1-21.2ubuntu1) ... Setting up muscle3 (3.8.1551-2) ... Setting up t1utils (1.41-4build2) ... Setting up libtexlua53-5:amd64 (2022.20220321.62855-7) ... Setting up libimagequant0:amd64 (2.17.0-1) ... Setting up libhwloc15:amd64 (2.9.2-1) ... Setting up libevent-core-2.1-7:amd64 (2.1.12-stable-8ubuntu3) ... Setting up libidn12:amd64 (1.41-1) ... Setting up libtcl8.6:amd64 (8.6.13+dfsg-2) ... Setting up autopoint (0.21-13) ... 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 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 (2022.20220321.62855-7) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-1) ... Setting up libssh-4:amd64 (0.10.5-2) ... Setting up libgfortran5:amd64 (13.1.0-8ubuntu1) ... Setting up autoconf (2.71-3) ... Setting up libwebp7:amd64 (1.2.4-0.2) ... 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 (2.3.2-1) ... Setting up libuchardet0:amd64 (0.0.7-1build2) ... Setting up libpsm2-2 (11.2.185-2) ... Setting up openmpi-common (4.1.5-2ubuntu1) ... Setting up clustalw (2.1+lgpl-7) ... Setting up fonts-lmodern (2.005-1) ... Setting up libopenjp2-7:amd64 (2.5.0-2) ... Setting up libsub-override-perl (0.09-4) ... Setting up libharfbuzz0b:amd64 (8.0.1-1) ... Setting up fasttree (2.1.11-2) ... Setting up sgml-base (1.31) ... Setting up libboost-dev:amd64 (1.74.0.3ubuntu7) ... Setting up libfontconfig1:amd64 (2.14.1-4ubuntu1) ... 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 (1.13.0-1) ... Setting up python-matplotlib-data (3.6.3-1ubuntu2) ... Setting up libwebpmux3:amd64 (1.2.4-0.2) ... Setting up libbsd0:amd64 (0.11.7-4) ... Setting up mailcap (3.70+nmu1ubuntu1) ... Setting up libelf1:amd64 (0.189-4) ... Setting up dialign (2.2.1-11) ... Setting up libxml2:amd64 (2.9.14+dfsg-1.3) ... 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 (2.6.4+dfsg-1~exp1ubuntu1) ... Setting up libsynctex2:amd64 (2022.20220321.62855-7) ... Setting up libpython3-stdlib:amd64 (3.11.4-5) ... 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-8ubuntu3) ... 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 (1.1.29) ... Creating config file /etc/papersize with new version Setting up python3.11 (3.11.4-1) ... Setting up libice6:amd64 (2:1.0.10-1build2) ... Setting up libdw1:amd64 (0.189-4) ... Setting up libxdmcp6:amd64 (1:1.1.3-0ubuntu5) ... Setting up flex (2.6.4-8.2) ... 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 (0.21-13) ... Setting up libopenblas0-pthread:amd64 (0.3.23+ds-2) ... 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 (1:1.8.16-3) ... Setting up mime-support (3.66) ... Setting up libpython3.11:amd64 (3.11.4-1) ... Setting up libmbedx509-1:amd64 (2.28.3-1) ... Setting up libmbedtls14:amd64 (2.28.3-1) ... Setting up libtool (2.4.7-5) ... Setting up libxcb-render0:amd64 (1.15-1) ... Setting up wise (2.4.1-23) ... Setting up libwebpdemux2:amd64 (1.2.4-0.2) ... Setting up libedit2:amd64 (3.1-20221030-2) ... Setting up libcommons-parent-java (56-1) ... Setting up libavahi-common3:amd64 (0.8-10ubuntu1) ... Setting up libpq5:amd64 (15.3-1) ... Setting up libcommons-logging-java (1.2-3) ... Setting up libcurl3-gnutls:amd64 (7.88.1-10ubuntu1) ... Setting up python3 (3.11.4-5) ... Setting up libxcb-shm0:amd64 (1.15-1) ... Setting up libpaper-utils (1.1.29) ... Setting up clustalo (1.2.4-7) ... Setting up python3-freetype (2.4.0-1) ... Setting up xfonts-utils (1:7.7+6build2) ... Setting up python3-tz (2023.3-3) ... 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 (23.1-1) ... Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up libptexenc1:amd64 (2022.20220321.62855-7) ... Setting up python3-pyparsing (3.1.0-1) ... Setting up libpython3.11-dev:amd64 (3.11.4-1) ... Setting up python3-brotli (1.0.9-2build8) ... Setting up libraqm0:amd64 (0.10.1-1) ... Setting up python3-cycler (0.11.0-1) ... Setting up python3-kiwisolver (1.4.4-1build1) ... Setting up python3-psycopg2 (2.9.6-2) ... Setting up libjs-sphinxdoc (5.3.0-4) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up libopenblas0:amd64 (0.3.23+ds-2) ... Setting up groff-base (1.23.0-2) ... Setting up libtiff6:amd64 (4.5.0-6ubuntu1) ... 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 (2:1.8.6-1) ... Setting up python3-dateutil (2.8.2-2) ... Setting up python3-msgpack (1.0.3-2build1) ... Setting up python3-mpmath (1.2.1-2) ... Setting up python3-lib2to3 (3.11.4-1) ... Setting up python3-appdirs (1.4.4-4) ... Setting up libsm6:amd64 (2:1.2.3-1build2) ... Setting up libavahi-client3:amd64 (0.8-10ubuntu1) ... Setting up liblbfgsb0:amd64 (3.0+dfsg.4-1) ... Setting up python3-pkg-resources (68.0.0-1) ... Setting up python3-distutils (3.11.4-1) ... Setting up libopenblas-pthread-dev:amd64 (0.3.23+ds-2) ... 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 (6.20230603) ... Setting up python3-sympy (1.12-2) ... Setting up python3-attr (23.1.0-1) ... Setting up libhts3:amd64 (1.17+ds-1) ... Setting up libpython3-dev:amd64 (3.11.4-5) ... Setting up python3-setuptools (68.0.0-1) ... 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 (3.11.4-1) ... Setting up openssh-client (1:9.3p1-1ubuntu1) ... 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 python3-gast (0.5.2-2) ... Setting up libxext6:amd64 (2:1.3.4-1build1) ... Setting up python3-all (3.11.4-5) ... 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 (2.11.2-2) ... 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 (1.17.8-2) ... Setting up samtools (1.17-1) ... 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 (10.0.0-1) ... Setting up libmagickcore-6.q16-6:amd64 (8:6.9.11.60+dfsg-1.6ubuntu1) ... Setting up libopenblas-dev:amd64 (0.3.23+ds-2) ... Setting up python3-pygments (2.15.1+dfsg-1) ... Setting up libpython3-all-dev:amd64 (3.11.4-5) ... Setting up python3-dev (3.11.4-5) ... Setting up libgd3:amd64 (2.3.3-9ubuntu1) ... 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 (1:1.2.1-1.1) ... Setting up python3-numpy (1:1.24.2-1) ... Setting up libcups2:amd64 (2.4.5-0ubuntu2) ... Setting up python3-lxml:amd64 (4.9.3-1) ... Setting up python3-rdflib (6.1.1-1) ... Setting up libmagickwand-6.q16-6:amd64 (8:6.9.11.60+dfsg-1.6ubuntu1) ... Setting up python3-contourpy (1.0.7-1build1) ... Setting up emboss-lib (6.6.0+dfsg-12ubuntu1) ... Setting up libxss1:amd64 (1:1.2.3-1build2) ... Setting up python3-all-dev (3.11.4-5) ... Setting up libgs10-common (10.0.0~dfsg1-0ubuntu2) ... 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-cairo:amd64 (1.24.0-1) ... 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 (2.9.2-1) ... Setting up python3-rlpycairo (0.3.0-2) ... Setting up python3-reportlab (4.0.4-9) ... Setting up imagemagick-6.q16 (8:6.9.11.60+dfsg-1.6ubuntu1) ... 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 (2022.20220321.62855-7) ... 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 (2022.20230122-3) ... 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~dfsg1-0ubuntu2) ... Setting up librdmacm1:amd64 (44.0-2) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-4.1build2) ... Setting up libucx0:amd64 (1.15.0~rc1-2) ... Setting up python3-scipy (1.10.1-2) ... Setting up libpmix2:amd64 (5.0.0~rc1-2) ... Setting up blt (2.5.3+dfsg-4.1build2) ... Setting up python3-tk:amd64 (3.11.4-1) ... Setting up ghostscript (10.0.0~dfsg1-0ubuntu2) ... Setting up texlive-latex-base (2022.20230122-3) ... Setting up python3-pil.imagetk:amd64 (10.0.0-1) ... Setting up texlive-latex-recommended (2022.20230122-3) ... Setting up hevea (2.36-1build1) ... Setting up texlive-pictures (2022.20230122-3) ... Setting up imagemagick (8:6.9.11.60+dfsg-1.6ubuntu1) ... Setting up texlive-fonts-recommended (2022.20230122-3) ... Setting up libfabric1:amd64 (1.17.0-3) ... Setting up libopenmpi3:amd64 (4.1.5-2ubuntu1) ... Setting up texlive-latex-extra (2022.20230122-4) ... Setting up openmpi-bin (4.1.5-2ubuntu1) ... 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 (3.6.3-1ubuntu2) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.37-0ubuntu2) ... Processing triggers for systemd (253.5-1ubuntu1) ... 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 5.4.0-153-generic #170-Ubuntu SMP Fri Jun 16 13:43:31 UTC 2023 amd64 (x86_64) Toolchain package versions: binutils_2.40.90.20230714-2ubuntu1 dpkg-dev_1.21.22ubuntu1 g++-12_12.3.0-6ubuntu1 g++-13_13.1.0-8ubuntu1 gcc-12_12.3.0-6ubuntu1 gcc-13_13.1.0-8ubuntu1 libc6-dev_2.37-0ubuntu2 libstdc++-12-dev_12.3.0-6ubuntu1 libstdc++-13-dev_13.1.0-8ubuntu1 libstdc++6_13.1.0-8ubuntu1 linux-libc-dev_6.3.0-7.7 Package versions: adduser_3.137ubuntu1 advancecomp_2.5-1 apt_2.7.2 autoconf_2.71-3 automake_1:1.16.5-1.3 autopoint_0.21-13 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libpython3.11-minimal_3.11.4-1 libpython3.11-stdlib_3.11.4-1 libqhull-r8.0_2020.2-6 libquadmath0_13.1.0-8ubuntu1 libraqm0_0.10.1-1 librdmacm1_44.0-2 libreadline8_8.2-1.3 librtmp1_2.4+20151223.gitfa8646d.1-2build4 libsasl2-2_2.1.28+dfsg1-1 libsasl2-modules-db_2.1.28+dfsg1-1 libseccomp2_2.5.4-1ubuntu3 libselinux1_3.5-1 libsemanage-common_3.5-1 libsemanage2_3.5-1 libsepol2_3.5-1 libsframe1_2.40.90.20230714-2ubuntu1 libsm6_2:1.2.3-1build2 libsmartcols1_2.38.1-5ubuntu2 libsqlite3-0_3.42.0-1 libss2_1.47.0-1ubuntu2 libssh-4_0.10.5-2 libssl3_3.0.9-1ubuntu1 libstdc++-12-dev_12.3.0-6ubuntu1 libstdc++-13-dev_13.1.0-8ubuntu1 libstdc++6_13.1.0-8ubuntu1 libsub-override-perl_0.09-4 libsynctex2_2022.20220321.62855-7 libsystemd-shared_253.5-1ubuntu1 libsystemd0_253.5-1ubuntu1 libtasn1-6_4.19.0-3 libtcl8.6_8.6.13+dfsg-2 libteckit0_2.5.11+ds1-1 libtexlua53-5_2022.20220321.62855-7 libtexluajit2_2022.20220321.62855-7 libtiff6_4.5.0-6ubuntu1 libtinfo6_6.4+20230625-1 libtirpc-common_1.3.3+ds-1 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mailcap_3.70+nmu1ubuntu1 make_4.3-4.1build1 man-db_2.11.2-2 mawk_1.3.4.20230525-1 media-types_10.1.0 mime-support_3.66 mount_2.38.1-5ubuntu2 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+20230625-1 ncurses-bin_6.4+20230625-1 netpbm_2:11.01.00-2build1 ocl-icd-libopencl1_2.3.2-1 openmpi-bin_4.1.5-2ubuntu1 openmpi-common_4.1.5-2ubuntu1 openssh-client_1:9.3p1-1ubuntu1 openssl_3.0.9-1ubuntu1 optipng_0.7.7-2build1 passwd_1:4.13+dfsg1-1ubuntu1 patch_2.7.6-7build2 perl_5.36.0-7ubuntu1 perl-base_5.36.0-7ubuntu1 perl-modules-5.36_5.36.0-7ubuntu1 phylip_1:3.697+dfsg-2 phyml_3:3.3.20220408-3 pinentry-curses_1.2.1-1ubuntu1 pkgbinarymangler_153 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_3.6.3-1ubuntu2 python3_3.11.4-5 python3-all_3.11.4-5 python3-all-dev_3.11.4-5 python3-appdirs_1.4.4-4 python3-attr_23.1.0-1 python3-beniget_0.4.1-3 python3-brotli_1.0.9-2build8 python3-cairo_1.24.0-1 python3-contourpy_1.0.7-1build1 python3-cycler_0.11.0-1 python3-dateutil_2.8.2-2 python3-decorator_5.1.1-3 python3-dev_3.11.4-5 python3-distutils_3.11.4-1 python3-fonttools_4.38.0-1build1 python3-freetype_2.4.0-1 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_3.11.4-1 python3-lxml_4.9.3-1 python3-lz4_4.0.2+dfsg-1build1 python3-matplotlib_3.6.3-1ubuntu2 python3-minimal_3.11.4-5 python3-mmtf_1.1.3-1 python3-mpmath_1.2.1-2 python3-msgpack_1.0.3-2build1 python3-mysqldb_1.4.6-2build1 python3-networkx_2.8.8-1ubuntu1 python3-numpy_1:1.24.2-1 python3-packaging_23.1-1 python3-pil_10.0.0-1 python3-pil.imagetk_10.0.0-1 python3-pkg-resources_68.0.0-1 python3-ply_3.11-5 python3-psycopg2_2.9.6-2 python3-pygments_2.15.1+dfsg-1 python3-pyparsing_3.1.0-1 python3-pythran_0.11.0+ds-7 python3-rdflib_6.1.1-1 python3-reportlab_4.0.4-9 python3-rlpycairo_0.3.0-2 python3-scipy_1.10.1-2 python3-setuptools_68.0.0-1 python3-six_1.16.0-4 python3-sympy_1.12-2 python3-tk_3.11.4-1 python3-tz_2023.3-3 python3-ufolib2_0.14.0+dfsg1-1 python3-unittest2_1.1.0-9 python3.11_3.11.4-1 python3.11-dev_3.11.4-1 python3.11-minimal_3.11.4-1 raxml_8.2.12+dfsg-8 readline-common_8.2-1.3 rpcsvc-proto_1.4.2-0ubuntu6 samtools_1.17-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-1 sensible-utils_0.0.20 sgml-base_1.31 systemd_253.5-1ubuntu1 systemd-dev_253.5-1ubuntu1 systemd-sysv_253.5-1ubuntu1 sysvinit-utils_3.06-4ubuntu1 t-coffee_13.45.0.4846264+really13.41.0.28bdc39+dfsg-1 t1utils_1.41-4build2 tar_1.34+dfsg-1.2ubuntu1 tex-common_6.18 texlive-base_2022.20230122-3 texlive-binaries_2022.20220321.62855-7 texlive-fonts-recommended_2022.20230122-3 texlive-latex-base_2022.20230122-3 texlive-latex-extra_2022.20230122-4 texlive-latex-recommended_2022.20230122-3 texlive-pictures_2022.20230122-3 tk8.6-blt2.5_2.5.3+dfsg-4.1build2 ttf-bitstream-vera_1.10-8.2 tzdata_2023c-7ubuntu1 ubuntu-keyring_2021.03.26 ucf_3.0043+nmu1 unicode-data_15.0.0-1 usrmerge_35ubuntu1 util-linux_2.38.1-5ubuntu2 util-linux-extra_2.38.1-5ubuntu2 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: 1.81+dfsg-1 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 (>= 4.0.4-1~) , 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-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: d8b39f189078bd119960a3e5c3136e1cc53e4d64 11483844 python-biopython_1.81+dfsg.orig.tar.xz 7803de1c8db6b613df8e907853ac96652408ae18 20340 python-biopython_1.81+dfsg-1.debian.tar.xz Checksums-Sha256: 459868a86c2e47a0cc2f19be1371dd5309474b3106d17093cadebf7abdd03413 11483844 python-biopython_1.81+dfsg.orig.tar.xz 518472f9bc52bdd67715d777992396d5ab232eec102dcabc8b52467339de1b62 20340 python-biopython_1.81+dfsg-1.debian.tar.xz Files: 67dfa4cf427956d8dbb5be53c2b62d49 11483844 python-biopython_1.81+dfsg.orig.tar.xz c6a2359c952dea9910d987c1cbbbc9e4 20340 python-biopython_1.81+dfsg-1.debian.tar.xz Dgit: 99b20e6f1702a249533e2c7a1751bd9ca78de0b0 debian archive/debian/1.81+dfsg-1 https://git.dgit.debian.org/python-biopython -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmSyQ0IUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdozqRAAk2nzzX33Z5lLiRLq66O/pJLXqaM0 7LkKmfBETsplNC0EkI7keI0CuTgiAVtmm9eSLwDCjJcnBKu3PauDXO2V2iY/muTh 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/<> dpkg-source: info: unpacking python-biopython_1.81+dfsg.orig.tar.xz dpkg-source: info: unpacking python-biopython_1.81+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying remove_mathml-qname.patch dpkg-source: info: applying privacy_breach.patch dpkg-source: info: applying privacy_breach_ie9.patch dpkg-source: 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 remove-distutils-import.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-26424722 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-26424722 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-26424722 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 1.81+dfsg-1 dpkg-buildpackage: info: source distribution unstable 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:275: 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 rm -rf _minted-Tutorial ( 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:275: 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:275: /usr/bin/python3 setup.py build running build running build_py creating /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/Seq.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/NaiveBayes.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/bgzf.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/_utils.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/MaxEntropy.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/SeqRecord.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/File.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/MarkovModel.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/LogisticRegression.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/SeqFeature.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/kNN.py -> /<>/.pybuild/cpython3_3.11/build/Bio copying Bio/pairwise2.py -> /<>/.pybuild/cpython3_3.11/build/Bio creating /<>/.pybuild/cpython3_3.11/build/Bio/Affy copying Bio/Affy/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Affy copying Bio/Affy/CelFile.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Affy creating /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/clustal.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/tabular.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/hhr.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/mauve.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/sam.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/bigpsl.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/nexus.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/msf.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/__init__.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/exonerate.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/maf.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/phylip.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/stockholm.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/interfaces.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/fasta.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/emboss.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/bigmaf.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/a2m.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/bed.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align copying Bio/Align/bigbed.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Align creating /<>/.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/_Mafft.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/_Prank.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/_TCoffee.py -> /<>/.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/_MSAProbs.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/StockholmIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO copying Bio/AlignIO/MsfIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO copying Bio/AlignIO/ClustalIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO copying Bio/AlignIO/EmbossIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO copying Bio/AlignIO/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO copying Bio/AlignIO/Interfaces.py -> /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO copying Bio/AlignIO/FastaIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO copying Bio/AlignIO/MauveIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO copying Bio/AlignIO/PhylipIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO copying Bio/AlignIO/NexusIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/AlignIO copying Bio/AlignIO/MafIO.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/NCBIWWW.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Blast copying Bio/Blast/ParseBlastTable.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Blast copying Bio/Blast/Applications.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Blast copying Bio/Blast/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Blast copying Bio/Blast/Record.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Blast copying Bio/Blast/NCBIXML.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/CodonTable.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/PDBData.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Data copying Bio/Data/SCOPData.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Data creating /<>/.pybuild/cpython3_3.11/build/Bio/Emboss copying Bio/Emboss/Applications.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Emboss copying Bio/Emboss/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Emboss copying Bio/Emboss/Primer3.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/ScanProsite.py -> /<>/.pybuild/cpython3_3.11/build/Bio/ExPASy copying Bio/ExPASy/__init__.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/Enzyme.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/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/GenBank copying Bio/GenBank/Record.py -> /<>/.pybuild/cpython3_3.11/build/Bio/GenBank copying Bio/GenBank/Scanner.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/KGML_vis.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics copying Bio/Graphics/Distribution.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics copying Bio/Graphics/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics copying Bio/Graphics/Comparative.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics copying Bio/Graphics/ColorSpiral.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics copying Bio/Graphics/DisplayRepresentation.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics copying Bio/Graphics/BasicChromosome.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics creating /<>/.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/_Track.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/_CircularDrawer.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/_AbstractDrawer.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/_Feature.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/_Colors.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/_Diagram.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/GenomeDiagram creating /<>/.pybuild/cpython3_3.11/build/Bio/HMM copying Bio/HMM/Trainer.py -> /<>/.pybuild/cpython3_3.11/build/Bio/HMM copying Bio/HMM/Utilities.py -> /<>/.pybuild/cpython3_3.11/build/Bio/HMM copying Bio/HMM/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/HMM copying Bio/HMM/MarkovModel.py -> /<>/.pybuild/cpython3_3.11/build/Bio/HMM copying Bio/HMM/DynamicProgramming.py -> /<>/.pybuild/cpython3_3.11/build/Bio/HMM creating /<>/.pybuild/cpython3_3.11/build/Bio/KEGG copying Bio/KEGG/REST.py -> /<>/.pybuild/cpython3_3.11/build/Bio/KEGG copying Bio/KEGG/__init__.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/mmtfio.py -> /<>/.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 creating /<>/.pybuild/cpython3_3.11/build/Bio/KEGG/KGML copying Bio/KEGG/KGML/__init__.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/KGML_parser.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/mast.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs copying Bio/motifs/transfac.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs copying Bio/motifs/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs copying Bio/motifs/matrix.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs copying Bio/motifs/meme.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs copying Bio/motifs/pfm.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs copying Bio/motifs/minimal.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs copying Bio/motifs/xms.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs copying Bio/motifs/thresholds.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs copying Bio/motifs/alignace.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs copying Bio/motifs/clusterbuster.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs creating /<>/.pybuild/cpython3_3.11/build/Bio/motifs/applications copying Bio/motifs/applications/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/motifs/applications copying Bio/motifs/applications/_xxmotif.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/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/NMR copying Bio/NMR/NOEtools.py -> /<>/.pybuild/cpython3_3.11/build/Bio/NMR copying Bio/NMR/xpktools.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/Graph.py -> /<>/.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/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Pathway/Rep copying Bio/PDB/Atom.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/NACCESS.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/PDBExceptions.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/Dice.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/HSExposure.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/PSEA.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/Superimposer.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/PDBList.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/MMCIFParser.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/ic_data.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/Structure.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/PICIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/SASA.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/SCADIO.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/DSSP.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/ic_rebuild.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/internal_coords.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/Selection.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/Model.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/MMCIF2Dict.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/Residue.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/vectors.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/NeighborSearch.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/FragmentMapper.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/cealign.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/Polypeptide.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/ResidueDepth.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/StructureAlignment.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/Entity.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/mmcifio.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/PDBParser.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/AbstractPropertyMap.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/StructureBuilder.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/Chain.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB copying Bio/PDB/parse_pdb_header.py -> /<>/.pybuild/cpython3_3.11/build/Bio/PDB creating /<>/.pybuild/cpython3_3.11/build/Bio/phenotype copying Bio/phenotype/pm_fitting.py -> /<>/.pybuild/cpython3_3.11/build/Bio/phenotype copying Bio/phenotype/phen_micro.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/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/__init__.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/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Restriction copying Bio/Restriction/Restriction.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Restriction copying Bio/Restriction/PrintFormat.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Restriction copying Bio/Restriction/Restriction_Dictionary.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/Residues.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SCOP copying Bio/SCOP/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SCOP copying Bio/SCOP/Raf.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SCOP copying Bio/SCOP/Dom.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/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO copying Bio/SearchIO/BlatIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO copying Bio/SearchIO/FastaIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO creating /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_legacy copying Bio/SearchIO/_legacy/NCBIStandalone.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/ParserSupport.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_legacy creating /<>/.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/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/_base.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_model copying Bio/SearchIO/_model/__init__.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/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/BlastIO copying Bio/SearchIO/BlastIO/blast_tab.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/BlastIO creating /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HHsuiteIO copying Bio/SearchIO/HHsuiteIO/hhsuite2_text.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HHsuiteIO copying Bio/SearchIO/HHsuiteIO/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HHsuiteIO creating /<>/.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/hmmer3_domtab.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/HmmerIO copying Bio/SearchIO/HmmerIO/_base.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/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 creating /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/ExonerateIO copying Bio/SearchIO/ExonerateIO/exonerate_text.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/_base.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/exonerate_cigar.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/QualityIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/PdbIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/_index.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/AbiIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/IgIO.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/SffIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/SeqXmlIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/Interfaces.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/XdnaIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/UniprotIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/FastaIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/SnapGeneIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/PirIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/TabIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/NibIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/SwissIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/TwoBitIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/AceIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO copying Bio/SeqIO/PhdIO.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/CheckSum.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils copying Bio/SeqUtils/ProtParamData.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils copying Bio/SeqUtils/CodonUsage.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils copying Bio/SeqUtils/IsoelectricPoint.py -> /<>/.pybuild/cpython3_3.11/build/Bio/SeqUtils copying Bio/SeqUtils/__init__.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 creating /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing copying Bio/Sequencing/Ace.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing copying Bio/Sequencing/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing copying Bio/Sequencing/Phd.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/__init__.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/_Novoalign.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/Consensus.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/NeXMLIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/_io.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/_utils.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/BaseTree.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/NewickIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/_cdao_owl.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/CDAOIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/PhyloXML.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/PhyloXMLIO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/Newick.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo copying Bio/Phylo/TreeConstruction.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/CDAO.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo creating /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/Applications copying Bio/Phylo/Applications/_Phyml.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/_Fasttree.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/Applications copying Bio/Phylo/Applications/_Raxml.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/Applications creating /<>/.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/__init__.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/_parse_baseml.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/codeml.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/baseml.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/PAML copying Bio/Phylo/PAML/_parse_yn00.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/psw.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Wise copying Bio/Wise/__init__.py -> /<>/.pybuild/cpython3_3.11/build/Bio/Wise creating /<>/.pybuild/cpython3_3.11/build/BioSQL copying BioSQL/__init__.py -> /<>/.pybuild/cpython3_3.11/build/BioSQL copying BioSQL/Loader.py -> /<>/.pybuild/cpython3_3.11/build/BioSQL copying BioSQL/BioSeq.py -> /<>/.pybuild/cpython3_3.11/build/BioSQL copying BioSQL/DBUtils.py -> /<>/.pybuild/cpython3_3.11/build/BioSQL copying BioSQL/BioSeqDatabase.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:201: _Warning: Package 'Bio.Align.substitution_matrices.data' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'Bio.Align.substitution_matrices.data' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'Bio.Align.substitution_matrices.data' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'Bio.Align.substitution_matrices.data' to be distributed and are already explicitly excluding 'Bio.Align.substitution_matrices.data' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:201: _Warning: Package 'Bio.Entrez.DTDs' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'Bio.Entrez.DTDs' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'Bio.Entrez.DTDs' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'Bio.Entrez.DTDs' to be distributed and are already explicitly excluding 'Bio.Entrez.DTDs' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:201: _Warning: Package 'Bio.Entrez.XSDs' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'Bio.Entrez.XSDs' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'Bio.Entrez.XSDs' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'Bio.Entrez.XSDs' to be distributed and are already explicitly excluding 'Bio.Entrez.XSDs' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) 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.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/epost.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/esummary_gene.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-1.81+dfsg-1 -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-1.81+dfsg-1 -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-1.81+dfsg-1 -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-1.81+dfsg-1 -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-1.81+dfsg-1 -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-1.81+dfsg-1 -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-1.81+dfsg-1 -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-1.81+dfsg-1 -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-1.81+dfsg-1 -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-1.81+dfsg-1 -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-1.81+dfsg-1 -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-1.81+dfsg-1 -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-1.81+dfsg-1 -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-1.81+dfsg-1 -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-1.81+dfsg-1 -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-1.81+dfsg-1 -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-1.81+dfsg-1 -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-1.81+dfsg-1 -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-1.81+dfsg-1 -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\@/1.81/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: 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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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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: 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mode: 'CODE' [] ./Tutorial/chapter_appendix.tex:35: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_appendix.tex:37: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_appendix.tex:37: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_appendix.tex:38: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_appendix.tex:38: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_appendix.tex:41: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_appendix.tex:41: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_appendix.tex:53: Warning: Undefined block 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:567: 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: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: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:22: Warning: Undefined label: 'sec:appendix-handles' ./Tutorial/chapter_seqio.tex:26: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:26: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:26: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:26: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:28: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:28: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:28: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:28: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:32: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:32: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:32: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:32: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:43: Warning: Undefined label: 'sec:sequence-parsing' ./Tutorial/chapter_seqio.tex:43: Warning: '_' occurring outside math mode ./Tutorial/chapter_seqio.tex:43: Warning: '_' occurring outside math mode ./Tutorial/chapter_seqio.tex:54: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:54: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:67: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:67: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:68: Warning: Undefined label: 'sec:sequence-parsing-plus-pylab' ./Tutorial/chapter_seqio.tex:75: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:75: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:75: Warning: Undefined block in text mode: 'CODE' [] 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./Tutorial/chapter_seqio.tex:149: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:150: Warning: Undefined label: 'chapter:seq_annot' ./Tutorial/chapter_seqio.tex:150: Warning: '_' occurring outside math mode ./Tutorial/chapter_seqio.tex:180: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:180: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:181: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:181: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:198: Warning: '_' occurring outside math mode ./Tutorial/chapter_seqio.tex:248: Warning: '_' occurring outside math mode ./Tutorial/chapter_seqio.tex:257: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:257: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:290: Warning: Undefined block in text mode: 'CODE' [] 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[] ./Tutorial/chapter_seqio.tex:326: Warning: '_' occurring outside math mode ./Tutorial/chapter_seqio.tex:328: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:328: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:329: Warning: Undefined label: 'sec:appendix-handles' ./Tutorial/chapter_seqio.tex:332: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:332: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:333: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:333: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:345: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:345: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:370: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:370: Warning: Undefined block in text mode: 'CODE' [] ./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:404: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:404: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:408: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:408: Warning: Undefined block in text mode: 'CODE' [] ./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:421: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:421: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:448: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:448: 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'CODE' [] ./Tutorial/chapter_seqio.tex:540: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:540: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:540: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:540: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:550: Warning: line too long ./Tutorial/chapter_seqio.tex:560: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:560: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:564: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:564: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:565: Warning: Undefined label: 'sec:seqio_todict' ./Tutorial/chapter_seqio.tex:566: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:566: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:567: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:567: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:569: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:569: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:570: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:570: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:571: Warning: Undefined label: 'sec:SeqIO-index' ./Tutorial/chapter_seqio.tex:572: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:572: Warning: Undefined block in text mode: 'CODE' [] ./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 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./Tutorial/chapter_seqio.tex:778: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:778: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:781: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:781: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:783: Warning: Undefined label: 'sec:fastq-indexing' ./Tutorial/chapter_seqio.tex:804: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:804: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:804: Warning: Undefined label: 'sec:seqio-todict-functionkey' ./Tutorial/chapter_seqio.tex:819: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:819: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:834: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:834: Warning: Undefined block in text mode: 'CODE' 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'CODE' [] ./Tutorial/chapter_seqio.tex:1062: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1062: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1062: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1067: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1067: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1073: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1073: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1080: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1080: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1080: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1080: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1080: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1080: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1082: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1082: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1125: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1125: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1154: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1154: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1155: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1155: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1155: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1155: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1155: Warning: Undefined 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Undefined label: 'sec:SeqIO-fastq-conversion' ./Tutorial/chapter_seqio.tex:1232: Warning: Undefined label: 'sec:SeqIO-fasta-qual-conversion' ./Tutorial/chapter_seqio.tex:1235: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1235: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1243: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1243: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1245: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1245: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1247: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1247: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1247: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_seqio.tex:1247: Warning: Undefined block in text mode: 'CODE' [] ./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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Warning: line too long ./Tutorial/chapter_align.tex:1: Warning: line too long ./Tutorial/chapter_align.tex:1: Warning: line too long ./Tutorial/chapter_align.tex:8: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:8: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:10: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:10: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:11: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:11: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:12: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:12: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:13: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:13: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:13: 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 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 label: 'sec:subs_mat_ex' ./Tutorial/chapter_align.tex:894: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:894: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:894: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:894: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:913: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:913: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:913: Warning: Undefined label: 'sec:pairwise' ./Tutorial/chapter_align.tex:917: Warning: Undefined block in text mode: 'CODE' [] ./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: 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./Tutorial/chapter_align.tex:1808: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1808: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1809: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1809: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1809: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1809: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1809: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1809: Warning: Undefined block in text mode: '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:1810: Warning: Undefined block in text mode: '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: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 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:1813: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1813: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1813: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1813: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1813: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1813: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1814: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1814: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1814: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1814: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1814: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1814: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1815: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1815: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1815: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1815: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1815: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:1815: Warning: 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:1816: Warning: 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: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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Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2054: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2055: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2055: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2055: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2055: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2067: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2067: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2091: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2091: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2102: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_align.tex:2102: Warning: Undefined block in text mode: 'CODE' [] ./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: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:35: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:45: Warning: line too long ./Tutorial/chapter_blast.tex:53: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:53: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:60: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:60: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:65: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:65: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:68: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:68: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:69: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_blast.tex:69: Warning: Undefined block in text mode: 'CODE' [] ./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 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./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' [] 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in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:47: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:47: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:49: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:49: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:51: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:51: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:68: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:68: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:76: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:76: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:84: Warning: Application of '\=' on 'x' failed ./Tutorial/chapter_cluster.tex:84: Warning: Application of '\=' on 'y' failed ./Tutorial/chapter_cluster.tex:86: Warning: Application of '\=' on 'x' failed ./Tutorial/chapter_cluster.tex:86: Warning: Application of '\=' on 'y' failed ./Tutorial/chapter_cluster.tex:112: Warning: Undefined block in text mode: 'DIV' [class="equationcontainer"] ./Tutorial/chapter_cluster.tex:115: Warning: Undefined block in text mode: 'DIV' [] ./Tutorial/chapter_cluster.tex:117: Warning: Application of '\=' on 'x' failed ./Tutorial/chapter_cluster.tex:117: Warning: Application of '\=' on 'y' failed ./Tutorial/chapter_cluster.tex:154: Warning: Undefined citation: 'snedecor1989' ./Tutorial/chapter_cluster.tex:162: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:162: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:167: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:167: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:167: Warning: Undefined 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./Tutorial/chapter_cluster.tex:272: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:273: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:273: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:274: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:274: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:275: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:275: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:277: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:277: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:277: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:277: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:278: Warning: Undefined label: 'sec:distancefunctions' ./Tutorial/chapter_cluster.tex:279: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:279: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:279: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:279: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:280: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:280: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:280: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:280: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:280: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:280: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:281: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:281: 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./Tutorial/chapter_cluster.tex:546: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:547: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:547: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:547: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:547: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:550: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:550: Warning: Undefined block in 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: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:559: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:559: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:559: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:559: Warning: Undefined block in text mode: 'CODE' [] ./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: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 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./Tutorial/chapter_cluster.tex:986: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:986: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:986: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:986: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:986: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cluster.tex:986: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_learning.tex:26: Warning: Undefined block in text mode: 'DIV' [class="equationcontainer"] ./Tutorial/chapter_learning.tex:28: Warning: Undefined block in text mode: 'SPAN' [class="equationnumber"] ./Tutorial/chapter_learning.tex:28: Warning: Undefined block in text mode: 'SPAN' [] ./Tutorial/chapter_learning.tex:28: Warning: Undefined block in text mode: 'DIV' [] ./Tutorial/chapter_learning.tex:36: Warning: Undefined block in text mode: 'DIV' 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./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' [] ./Tutorial/chapter_learning.tex:285: Warning: Undefined label: 'sec:LogisticRegressionTraining' ./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: 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./Tutorial/chapter_graphics.tex:16: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:18: Warning: Undefined citation: 'pritchard2006' ./Tutorial/chapter_graphics.tex:28: Warning: Undefined citation: 'toth2006' ./Tutorial/chapter_graphics.tex:31: Warning: Undefined citation: 'vanderauwera2009' ./Tutorial/chapter_graphics.tex:34: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:34: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:35: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:35: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:36: Warning: Undefined label: 'chapter:seq_annot' ./Tutorial/chapter_graphics.tex:36: Warning: Undefined label: 'chapter:seqio' ./Tutorial/chapter_graphics.tex:61: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:61: Warning: '_' occurring outside math mode 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'CODE' [] ./Tutorial/chapter_graphics.tex:132: Warning: Image in text ./Tutorial/chapter_graphics.tex:132: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:144: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:144: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:163: Warning: Image in text ./Tutorial/chapter_graphics.tex:163: Warning: '_' occurring outside math mode ./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: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: 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./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: 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./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: 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./Tutorial/chapter_graphics.tex:876: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:890: Warning: Image in text ./Tutorial/chapter_graphics.tex:890: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:890: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:914: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:914: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_graphics.tex:917: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:917: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:917: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:917: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:917: Warning: '_' occurring outside math mode ./Tutorial/chapter_graphics.tex:923: Warning: Image in text ./Tutorial/chapter_graphics.tex:923: Warning: '_' occurring outside math 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./Tutorial/chapter_cookbook.tex:337: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cookbook.tex:338: Warning: Undefined label: 'sec:seqio-index-getraw' ./Tutorial/chapter_cookbook.tex:357: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cookbook.tex:357: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cookbook.tex:357: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cookbook.tex:357: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cookbook.tex:359: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cookbook.tex:359: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cookbook.tex:391: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cookbook.tex:391: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cookbook.tex:391: Warning: Undefined block in text mode: 'CODE' [] ./Tutorial/chapter_cookbook.tex:391: Warning: 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(./_minted-Tutorial/4EBA0A67E686E73FAA1A0EB27C260028BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/C06224D76A18C126B27DFE55444AA3FDBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/E381FF526AC999B71717F178C997F6B2BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/5F05AD4A17978E60C531612707D8F26ABD02851C2FB632864165FCA4920 46548.pygtex) LaTeX Warning: Reference `sec:SeqIO-translate' on page 60 undefined on input li ne 1311. [60] (./_minted-Tutorial/D19467E367634413AE9EE17A62E5D9EA9543DFECA235A69AE23006BA05B 4EB70.pygtex) LaTeX Warning: Reference `sec:SeqRecord-format' on page 61 undefined on input l ine 1331. (./_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(...) [61] (./_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) LaTeX Warning: Reference `chapter:cookbook' on page 62 undefined on input line 1412. (./_minted-Tutorial/D749A84299CF58E876E9A899069830DB9543DFECA235A69AE23006BA05B 4EB70.pygtex)) [62] (./Tutorial/chapter_align.tex Chapter 6. LaTeX Warning: Reference `sec:appendix-handles' on page 63 undefined on input l ine 31. LaTeX Warning: Reference `sec:AlignIO-count-argument' on page 63 undefined on i nput line 35. (./_minted-Tutorial/9CC7A6864E21FFDDB3F4D02F2870DF42669566ECC2CFEDC7429F829576A D0DC6.pygtex [63]) (./_minted-Tutorial/81FAFBAECB3A03B11080ECF19D4CCC80BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/31E7567531B3A1035700A1E555A47FC0BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/D2523B56ECD3F392CD3E37EEBE302AECBD02851C2FB632864165FCA4920 46548.pygtex [64]) LaTeX Warning: Reference `sec:alignment-format' on page 65 undefined on input l ine 113. 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There-fore the [][]\OT1/cmtt/m/n/10 Bio.AlignIO.write() LaTeX Warning: Reference `sec:SeqIO-conversion' on page 71 undefined on input l ine 444. 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). The [][]\OT1/cmtt/m/n/10 Bio.AlignIO (./_minted-Tutorial/EA6A02999040945446E72AC6A00E56D8BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/106ED62B0CFC10E7D5BC6CFC9CE003BDBD02851C2FB632864165FCA4920 46548.pygtex [81]) (./_minted-Tutorial/4D75AC9EDD74C466535F1EC4944833F7BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/14F1F3BAF80772F5999B0773C02432E7BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/A261B9E9E2D4EB3C1DF5131C6F739998BD02851C2FB632864165FCA4920 46548.pygtex [82]) (./_minted-Tutorial/E2B86D066966C8BA13EEEF614D3E7454BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/E87BDA1F176DA567A757DBA0231BC5BABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/6BF1884F2D94AF8D067A2A20A9A41E2CBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/F551ABCEBB0043257A807C76B9D81B5CBD02851C2FB632864165FCA4920 46548.pygtex [83]) (./_minted-Tutorial/37B6E52C66902FA821D4B0E80172CE74BD02851C2FB632864165FCA4920 46548.pygtex) LaTeX Warning: Reference `sec:appendix-handles' on page 84 undefined on input l ine 1317. 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(./_minted-Tutorial/554024580088332FAF0EA9296BACE82EBD02851C2FB632864165FCA4920 46548.pygtex) LaTeX Warning: Reference `sec:pairwise-aligner' on page 86 undefined on input l ine 1505. [86] (./_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 [87]) LaTeX Warning: Citation `waterman1987' on page 88 undefined on input line 1578. (./_minted-Tutorial/E5E00F47BD7A0C8BC5F8818526283868BD02851C2FB632864165FCA4920 46548.pygtex) LaTeX Warning: Reference `sec:pairwise-substitution-scores' on page 88 undefine d on input line 1608. LaTeX Warning: Reference `sec:pairwise-affine-gapscores' on page 88 undefined o n input line 1608. LaTeX Warning: Reference `sec:pairwise-general-gapscores' on page 88 undefined on input line 1608. LaTeX Warning: Reference `sec:pairwise-basic' on page 88 undefined on input lin e 1609. LaTeX Warning: Reference `sec:pairwise-affine-gapscores' on page 88 undefined o n input line 1612. LaTeX Warning: Reference `sec:pairwise-general-gapscores' on page 88 undefined on input line 1613. (./_minted-Tutorial/52B42D5819C8EC5D57A21AE60D28F6CEBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/5F566D907B2F88621EC4175F1F17AE04BD02851C2FB632864165FCA4920 46548.pygtex) [88] LaTeX Warning: Citation `altschul1990' on page 89 undefined on input line 1639. LaTeX Warning: Reference `sec:pairwise-affine-gapscores' on page 89 undefined o n input line 1639. 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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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(./_minted-Tutorial/0ABBC5325B76EBCC5687BB33E7595F219543DFECA235A69AE23006BA05B 4EB70.pygtex) Excluding 'htmlonly' comment. [206 <./images/1a8o-ca-plot.png>] Overfull \hbox (15.27203pt too wide) in paragraph at lines 1292--1295 []\OT1/cmr/m/n/10 This work uses equa-tions de-vel-oped by Blue, the Hedronome- ter, dis-cussed in [][]$\OT1/cmtt/m/n/10 https : / / math . stackexchange . Overfull \hbox (116.15723pt too wide) in paragraph at lines 1292--1295 \OT1/cmtt/m/n/10 com / a / 49340 / 409$[][] \OT1/cmr/m/n/10 and fur-ther in [][ ]$\OT1/cmtt/m/n/10 http : / / daylateanddollarshort . com / mathdocs / Heron-[] like-[]Results-[]for-[]Tetrahedral-[]Volume . 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[212] (./_minted-Tutorial/7A6D5A10ECC42BAFEE724455549BCB15BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/D5B0F5228C1E7FAD0C7AB40AEFF6B6A9BD02851C2FB632864165FCA4920 46548.pygtex [213]) (./_minted-Tutorial/2810A7579DC6FE011D31E2F074471A74BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/D9D0B8746EBF14CF4BE7DA480D9ECD5DBD02851C2FB632864165FCA4920 46548.pygtex) [214] LaTeX Warning: Citation `hamelryck2003b' on page 215 undefined on input line 18 61. LaTeX Warning: Citation `majumdar2005' on page 215 undefined on input line 1862 . ) [215] (./Tutorial/chapter_popgen.tex Chapter 12. (./_minted-Tutorial/E5F1866C3CBB485B8C06B62764ACFBB29543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/331BEE386F268F55DE217F54E27EAB6B9543DFECA235A69AE23006BA05B 4EB70.pygtex) [216] (./_minted-Tutorial/6CD64A1F591B16F512F7EB6B68E5B3FC9543DFECA235A69AE23006BA05B 4EB70.pygtex)) [217] (./Tutorial/chapter_phylo.tex Chapter 13. 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[224 <./images/phylo-draw-example.p ng>] Overfull \hbox (19.85507pt too wide) in paragraph at lines 479--486 \OT1/cmr/m/n/10 For ex-am-ple, in a tree with clade names Foo1, Foo2 and Foo3, [][]\OT1/cmtt/m/n/10 tree.find_clades({"name": "Foo1"}) [225] Overfull \hbox (13.48741pt too wide) in paragraph at lines 534--537 []\OT1/cmr/m/n/10 Find each clade con-tain-ing a match-ing el-e-ment. That is, find each el-e-ment as with [][]\OT1/cmtt/m/n/10 find_elements[]\OT1/cmr/m/n/10 , [226] (./_minted-Tutorial/6AAB725DBD2E5B7C5FD79A9A16536BF69543DFECA235A69AE23006BA05B 4EB70.pygtex) [227] Overfull \hbox (15.04868pt too wide) in paragraph at lines 703--707 []\OT1/cmr/m/n/10 Below is an ex-am-ple on how to use a python script to in-ter -act with PhyML ([][]$\OT1/cmtt/m/n/10 http : / / www . atgc-[]montpellier . 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LaTeX Warning: Citation `dehoon2004' on page 258 undefined on input line 6. LaTeX Warning: Citation `lecuyer1988' on page 258 undefined on input line 30. LaTeX Warning: Citation `kachitvichyanukul1988' on page 258 undefined on input line 30. [258] [259] [260] LaTeX Warning: Citation `snedecor1989' on page 261 undefined on input line 154. [261] (./_minted-Tutorial/C7B59059E3AE6CDE790EFE6EB0ED4140BD02851C2FB632864165FCA4920 46548.pygtex) LaTeX Warning: Reference `sec:distancefunctions' on page 262 undefined on input line 183. 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[278] 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) LaTeX Warning: Citation `hihara2001' on page 279 undefined on input line 954. (./_minted-Tutorial/12B5F20EFF78F0E8FE505D45A9786D70BD02851C2FB632864165FCA4920 46548.pygtex [279]) (./_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 . [280] (./Tutorial/chapter_learning.tex Chapter 16. [281] LaTeX Warning: Reference `eq:OP' on page 282 undefined on input line 40. 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(./_minted-Tutorial/A2465D4E8908256A31684D5DDE7DA1119543DFECA235A69AE23006BA05B 4EB70.pygtex [306 <./images/three_track_simple.png>]) (./_minted-Tutorial/347EB36A3001532221DDF6C29AA04AFB9543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/F46F39DD7A8EC7B20CD42ACF6EFD18409543DFECA235A69AE23006BA05B 4EB70.pygtex [307]) (./_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 308 undefined on input li ne 894. LaTeX Warning: Reference `sec:gd_cross_links' on page 308 undefined on input li ne 901. LaTeX Warning: Reference `sec:gd_cross_links' on page 308 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 [330]) 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 331 undefined on input line 480. 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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 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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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Use \OT1/cmtt/m/n/10 structure[]rebuild[]test$$ (./_minted-Tutorial/BD4323A41DFED2A7E4CD261AA65F95EDBD02851C2FB632864165FCA4920 46548.pygtex) [210] (./_minted-Tutorial/6395F38A139598C6CC297CDBA73A8A43BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/21D2C13C2AA9395E0B1E4F1DDC801798BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/12E711A2CBFD0B046AA026208A117C1E9543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/813FE78A3F8D8E46F06FF71539F000E69543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/CD78F368EB103F71947A3184BB62B46F9543DFECA235A69AE23006BA05B 4EB70.pygtex [211]) (./_minted-Tutorial/8E34478E945971E05C77F0A0E8C1B9D89543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/0D3FBB23D21A6A468370D56058193010BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/BBA5405CCC4A3178ADA49DA358246C819543DFECA235A69AE23006BA05B 4EB70.pygtex [212]) (./_minted-Tutorial/DE601B1883F045FBEE1B28168CFF0CCABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/AAF43F15691D49893FAEEAB7B7693A1D9543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/0ABBC5325B76EBCC5687BB33E7595F219543DFECA235A69AE23006BA05B 4EB70.pygtex) Excluding 'htmlonly' comment. [213 <./images/1a8o-ca-plot.png>] Overfull \hbox (15.27203pt too wide) in paragraph at lines 1292--1295 []\OT1/cmr/m/n/10 This work uses equa-tions de-vel-oped by Blue, the Hedronome- ter, dis-cussed in [][]$\OT1/cmtt/m/n/10 https : / / math . stackexchange . Overfull \hbox (116.15723pt too wide) in paragraph at lines 1292--1295 \OT1/cmtt/m/n/10 com / a / 49340 / 409$[][] \OT1/cmr/m/n/10 and fur-ther in [][ ]$\OT1/cmtt/m/n/10 http : / / daylateanddollarshort . com / mathdocs / Heron-[] like-[]Results-[]for-[]Tetrahedral-[]Volume . 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(./_minted-Tutorial/6C5156DAD460519324A5B7657B301B5DBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/1836031BC83AA94C8906762F613E6CBABD02851C2FB632864165FCA4920 46548.pygtex) [226] (./_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 [227 <./images/phylo-simple-draw.png>]) Excluding 'htmlonly' comment. 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[231 <./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"}) [232] 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 , [233] (./_minted-Tutorial/6AAB725DBD2E5B7C5FD79A9A16536BF69543DFECA235A69AE23006BA05B 4EB70.pygtex) [234] 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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[265] [266] [267] [268] (./_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 [269]) 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) [270] [271] (./_minted-Tutorial/A4A28B5A443208DEAB3B4D76AA3B762EBD02851C2FB632864165FCA4920 46548.pygtex) [272] (./_minted-Tutorial/C286E2777B917B774560CBDC7CF92626BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/D04E097D8E8C4C039FEC20FA103CED189543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/36EF8931044EF448BC70F722AFADB43D9543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/805B33438269C932AC54C0DAB5A3D7AC9543DFECA235A69AE23006BA05B 4EB70.pygtex) [273] [274] 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. 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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 [337]) 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 [347 <./images/hist_plot.png>]) (./_minted-Tutorial/CB78AD94DFE82ADBAF348C0EC1D261CD9543DFECA235A69AE23006BA05B 4EB70.pygtex) Excluding 'htmlonly' comment. Excluding 'htmlonly' comment. [348 <./images/gc_plot.png>] (./_minted-Tutorial/6E0DA723E11A7B9CA8E2353A984B5DF79543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/80A47C8780CE3021D53829563E8166569543DFECA235A69AE23006BA05B 4EB70.pygtex [349 <./images/dot_plot.png>]) (./_minted-Tutorial/9574E55C4A182E2A0201DF18689F52F49543DFECA235A69AE23006BA05B 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 [357]) (./_minted-Tutorial/8965C8E87A0A43ECCE216C12F7DE7A4FBD02851C2FB632864165FCA4920 46548.pygtex)) [358] (./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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Use \OT1/cmtt/m/n/10 structure[]rebuild[]test$$ (./_minted-Tutorial/BD4323A41DFED2A7E4CD261AA65F95EDBD02851C2FB632864165FCA4920 46548.pygtex) [210] (./_minted-Tutorial/6395F38A139598C6CC297CDBA73A8A43BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/21D2C13C2AA9395E0B1E4F1DDC801798BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/12E711A2CBFD0B046AA026208A117C1E9543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/813FE78A3F8D8E46F06FF71539F000E69543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/CD78F368EB103F71947A3184BB62B46F9543DFECA235A69AE23006BA05B 4EB70.pygtex [211]) (./_minted-Tutorial/8E34478E945971E05C77F0A0E8C1B9D89543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/0D3FBB23D21A6A468370D56058193010BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/BBA5405CCC4A3178ADA49DA358246C819543DFECA235A69AE23006BA05B 4EB70.pygtex [212]) (./_minted-Tutorial/DE601B1883F045FBEE1B28168CFF0CCABD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/AAF43F15691D49893FAEEAB7B7693A1D9543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/0ABBC5325B76EBCC5687BB33E7595F219543DFECA235A69AE23006BA05B 4EB70.pygtex) Excluding 'htmlonly' comment. [213 <./images/1a8o-ca-plot.png>] Overfull \hbox (15.27203pt too wide) in paragraph at lines 1292--1295 []\OT1/cmr/m/n/10 This work uses equa-tions de-vel-oped by Blue, the Hedronome- ter, dis-cussed in [][]$\OT1/cmtt/m/n/10 https : / / math . stackexchange . Overfull \hbox (116.15723pt too wide) in paragraph at lines 1292--1295 \OT1/cmtt/m/n/10 com / a / 49340 / 409$[][] \OT1/cmr/m/n/10 and fur-ther in [][ ]$\OT1/cmtt/m/n/10 http : / / daylateanddollarshort . com / mathdocs / Heron-[] like-[]Results-[]for-[]Tetrahedral-[]Volume . 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(./_minted-Tutorial/6C5156DAD460519324A5B7657B301B5DBD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/1836031BC83AA94C8906762F613E6CBABD02851C2FB632864165FCA4920 46548.pygtex) [226] (./_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 [227 <./images/phylo-simple-draw.png>]) Excluding 'htmlonly' comment. 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[231 <./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"}) [232] 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 , [233] (./_minted-Tutorial/6AAB725DBD2E5B7C5FD79A9A16536BF69543DFECA235A69AE23006BA05B 4EB70.pygtex) [234] 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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[265] [266] [267] [268] (./_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 [269]) 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) [270] [271] (./_minted-Tutorial/A4A28B5A443208DEAB3B4D76AA3B762EBD02851C2FB632864165FCA4920 46548.pygtex) [272] (./_minted-Tutorial/C286E2777B917B774560CBDC7CF92626BD02851C2FB632864165FCA4920 46548.pygtex) (./_minted-Tutorial/D04E097D8E8C4C039FEC20FA103CED189543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/36EF8931044EF448BC70F722AFADB43D9543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/805B33438269C932AC54C0DAB5A3D7AC9543DFECA235A69AE23006BA05B 4EB70.pygtex) [273] [274] 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. 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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 [337]) 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 [347 <./images/hist_plot.png>]) (./_minted-Tutorial/CB78AD94DFE82ADBAF348C0EC1D261CD9543DFECA235A69AE23006BA05B 4EB70.pygtex) Excluding 'htmlonly' comment. Excluding 'htmlonly' comment. [348 <./images/gc_plot.png>] (./_minted-Tutorial/6E0DA723E11A7B9CA8E2353A984B5DF79543DFECA235A69AE23006BA05B 4EB70.pygtex) (./_minted-Tutorial/80A47C8780CE3021D53829563E8166569543DFECA235A69AE23006BA05B 4EB70.pygtex [349 <./images/dot_plot.png>]) (./_minted-Tutorial/9574E55C4A182E2A0201DF18689F52F49543DFECA235A69AE23006BA05B 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 [357]) (./_minted-Tutorial/8965C8E87A0A43ECCE216C12F7DE7A4FBD02851C2FB632864165FCA4920 46548.pygtex)) [358] (./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 GraphicsBitmaps 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:275: 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:1241: 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:694: 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:1241: 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 'Helvetica' ok 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 ... 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:1241: 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:1241: 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:1241: 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:1241: 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:1241: 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:1241: 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:549: 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:2779: 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.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 552 tests in 314.000 seconds Skipping any tests requiring internet access Python version: 3.11.4 (main, Jun 7 2023, 10:13:09) [GCC 12.3.0] Operating system: posix linux rm -fr -- /tmp/dh-xdg-rundir-di0J3QIi 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-1.81\+dfsg/debian/tmp pybuild --install -i python{version} -p 3.11 --dest-dir /<>/python-biopython-1.81\+dfsg/debian/tmp I: pybuild base:275: /usr/bin/python3 setup.py install --root /<>/debian/tmp running install /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() running build running build_py running egg_info writing 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:201: _Warning: Package 'Bio.Align.substitution_matrices.data' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'Bio.Align.substitution_matrices.data' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'Bio.Align.substitution_matrices.data' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'Bio.Align.substitution_matrices.data' to be distributed and are already explicitly excluding 'Bio.Align.substitution_matrices.data' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:201: _Warning: Package 'Bio.Entrez.DTDs' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'Bio.Entrez.DTDs' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'Bio.Entrez.DTDs' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'Bio.Entrez.DTDs' to be distributed and are already explicitly excluding 'Bio.Entrez.DTDs' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:201: _Warning: Package 'Bio.Entrez.XSDs' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'Bio.Entrez.XSDs' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'Bio.Entrez.XSDs' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'Bio.Entrez.XSDs' to be distributed and are already explicitly excluding 'Bio.Entrez.XSDs' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) running 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/BioSQL creating /<>/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__/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/__pycache__/DBUtils.cpython-311.pyc -> /<>/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/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/BioSQL 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/BioSeq.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/BioSeqDatabase.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/BioSQL copying /<>/.pybuild/cpython3_3.11/build/tree1.xml -> /<>/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 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 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_SearchIO_blat_psl.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_phylip.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/characters.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/timetree.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/trees-uris.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/sets.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/meta_taxa.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/tolweb.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/treebase-record.xml -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NeXML copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SeqIO_SnapGene.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests 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_SearchIO_hmmer3_text.py -> /<>/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_phenotype.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_Phylo.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_Align_a2m.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/output.best.nex -> /<>/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 creating /<>/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/solexa_example.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/misc_dna_original_sanger.fastq -> /<>/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_qual_unit_sep.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/example.fasta -> /<>/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/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/example.fastq.gz -> /<>/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_93.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 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_rna_as_solexa.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_space.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/misc_rna_original_sanger.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/example.qual -> /<>/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/wrapping_as_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_tab.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/sanger_full_range_as_solexa.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/misc_rna_as_illumina.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/misc_dna_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/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/example.fastq.bgz -> /<>/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/error_trunc_at_seq.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/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_double_qual.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/illumina_full_range_as_illumina.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/illumina_full_range_original_illumina.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/misc_rna_as_sanger.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/error_diff_ids.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/error_long_qual.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/error_trunc_in_seq.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/zero_length.fastq -> /<>/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/example_dos.fastq.bgz -> /<>/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/misc_dna_as_illumina.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/longreads_as_illumina.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/error_double_seq.fastq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Quality 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_KeyWList.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_SCOP_Hie.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/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/odd_consensus.aln -> /<>/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/clustalw.a2m -> /<>/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/muscle.a2m -> /<>/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/kalign.aln -> /<>/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/probcons.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/msaprobs.aln -> /<>/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/clustalw.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/hedgehog.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/probcons.fa -> /<>/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/msaprobs.a2m -> /<>/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/test_prodoc.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/three.dat -> /<>/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/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.phy -> /<>/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/interlaced.phy -> /<>/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/reference_dna2.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/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/Phylip/four.dat -> /<>/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/horses.tree -> /<>/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/test_SeqIO_Gck.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-mysql.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 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 copying /<>/.pybuild/cpython3_3.11/build/Tests/test_AlignIO_FastaIO.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_Affy.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests 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/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/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-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-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-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-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-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+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-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-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/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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-25-test.id -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SCOP/scopseq-test 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/dir.des.scop.txt_test -> /<>/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/biosql.ini.sample -> /<>/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/seq_tests_common.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 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/test_motifs_online.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 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/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/enzyme.sample -> /<>/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/compound.irregular -> /<>/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/map01100.png -> /<>/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/ko00010.xml -> /<>/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/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/map03070.png -> /<>/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/compound.sample -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/KEGG 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_KEGG_online.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests 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_PDBList.py -> /<>/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_Chi2.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_PAML_baseml.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_TreeConstruction.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_Align_maf.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests 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_Entrez_online.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_BioSQL_psycopg2_online.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests 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/test_ProtParam.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/keywlist.txt -> /<>/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/H2CNN8.txt -> /<>/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/H2CNN8.xml -> /<>/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/multi_ex.xml -> /<>/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/P04439.txt -> /<>/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/P60904.txt -> /<>/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/Q13639.xml -> /<>/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/F2CXE6.txt -> /<>/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/uni002 -> /<>/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/R5HY77.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/uni003 -> /<>/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/Q7Z739.txt -> /<>/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/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/O95832.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/README -> /<>/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/uni001 -> /<>/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/multi_ex.gff -> /<>/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/P62258.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/Q13454.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/test_Uniprot.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/length_coords_mismatch.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/bug2453.maf -> /<>/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.mafindex -> /<>/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/corrupt.idx -> /<>/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/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_bad.maf -> /<>/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/MAF/ucsc_mm9_chr10.bb -> /<>/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_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/wrong_version.idx -> /<>/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/cnksr3.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MAF copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_Disordered.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_BioSQL_sqlite3.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 copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SeqIO_NibIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_PDB_internal_coords.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/common_BioSQL_online.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/c3space.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/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/c2space.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/big.gen -> /<>/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/haplo2.gen -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PopGen copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_exonerate_vulgar_index.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/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/ex1_header.bam -> /<>/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/readme.txt -> /<>/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/ex1_refresh.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/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/SamBam/ex1.bam -> /<>/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/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 creating /<>/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/NirK.primer3 -> /<>/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/cds_reverse.primer3 -> /<>/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/needle_asis.txt -> /<>/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/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/needle_overhang.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/internal_oligo.primer3 -> /<>/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/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/short.primer3 -> /<>/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 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.txt -> /<>/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/water2.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.txt -> /<>/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/test_Emboss.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 creating /<>/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/int_node_labels.nwk -> /<>/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/bats.nex -> /<>/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/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/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/test_PDB_parse_pdb_header.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_ClustalOmega_tool.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_SeqIO_write.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/README.txt -> /<>/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/triple_sff_rel_paths.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/E3MFGYR02_random_10_reads.sff -> /<>/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_random_10_reads_no_trim.qual -> /<>/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/triple_sff.idx -> /<>/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_alt_index_in_middle.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/Roche/invalid_greek_E3MFGYR02.sff -> /<>/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_index_in_middle.sff -> /<>/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_index_at_start.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/test_SearchIO_hmmer3_tab.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 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/test_File.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_Align_nexus.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/meta2.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/Meta4.out -> /<>/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/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/meta.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/MetaTool copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_hhr.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_SeqIO_AbiIO.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/bsubtilis.txt -> /<>/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/pig.fa -> /<>/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/bsubtilis.fa -> /<>/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/hg38.chrom.sizes -> /<>/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/cow.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Align creating /<>/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/IntelliGenetics/vpu_nucaligned.txt -> /<>/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/test_NaiveBayes.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 copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_bed.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_prosite.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 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_Exposure.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/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/GSM804.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/soft_ex_dual.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/GSM700.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/GSE16.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/GSM645.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/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/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/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 copying /<>/.pybuild/cpython3_3.11/build/Tests/SubsMat/protein_count.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SubsMat creating /<>/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 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/test_samtools_tool.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_v3_example.CEL -> /<>/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/test_AlignIO_EmbossIO.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 copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SeqUtils.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/test.fsa -> /<>/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/310.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/empty.ab1 -> /<>/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/nonascii_encoding.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/fake.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 creating /<>/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/ps00107.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 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/ps00488.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/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/pdoc00100.txt -> /<>/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/pdoc00340.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/pdoc00933.txt -> /<>/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/pdoc00472.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/pdoc00640.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Prosite/Doc 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 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_SearchIO_fasta_m10_index.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_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 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/test_PDB_Superimposer.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_seq.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/tmpdirprankmsateF3q0 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_SeqIO_TwoBitIO.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 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_Align_Alignment.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 copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Blast_Record.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests 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 copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_hmmer3_text_index.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_legacy.py -> /<>/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_g01_exons.fna_01 -> /<>/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/test_TCoffee_tool.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests 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_Muscle_tool.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_PDB_StructureAlignment.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 creating /<>/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/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_bigendian.nib -> /<>/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.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Nib 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_SearchIO_hmmer3_tab_index.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_PDB_SMCRA.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_KGML_nographics.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_SeqRecord.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_SCOP_Dom.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_KEGG.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_MMCIFParser.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_Affy.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_Application.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_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_SearchIO_exonerate.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_prodoc.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_ProtParam.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_PDB_DSSP.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_Phylo_NeXML.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_NMR.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_PAML_yn00.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_NCBIXML.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_SeqIO_NibIO.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_translate.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_Align_psl.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_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_SCOP_Raf.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_AlignIO_FastaIO.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_PDB_Disordered.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_raxml_tool.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_GenomeDiagram.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_cellosaurus.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_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_Align_clustal.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_Align_sam.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_kNN.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_SeqIO_features.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_MafIO_index.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_PDB_PDBIO.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_MMCIFIO.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_SearchIO_legacy.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_Dice.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_SeqIO_index.cpython-311.pyc -> /<>/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_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_Align_stockholm.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_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_Blast_Record.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_Phylo_matplotlib.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_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_Align_Alignment.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_Align_exonerate.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_emboss.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_PDB_PSEA.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_Entrez.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_Align_a2m.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_Enzyme.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_Cluster.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_RCSBFormats.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_SwissProt.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_SeqIO_TwoBitIO.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_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_Seq_objs.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_TogoWS.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_NCBITextParser.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_Align_hhr.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_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_Consensus.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_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_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_Compass.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_HMMCasino.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_CodonTable.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__/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_BioSQL_sqlite3.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_ColorSpiral.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_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_Clustalw_tool.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_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_HMMGeneral.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_SCOP_Des.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_CAPS.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_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_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_PDB_Polypeptide.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_SVDSuperimposer.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_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_Exposure.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_Wise.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_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_bed.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_SeqIO_FastaIO.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_bgzf.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_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_psycopg2_online.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_ExPASy.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_PAML_codeml.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_Chi2.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_PDB_vectors.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_pairwise_aligner.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_PDBList.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_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_geo.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_SeqIO_Gck.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_phenotype_fit.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_Probcons_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.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_Phylo_networkx.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_BWA_tool.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_SeqIO_online.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_phenotype.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_KGML_graphics.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__/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_SCOP_Hie.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_UniGene.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_KeyWList.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_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_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_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_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_AlignIO_MauveIO.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_SeqIO_Insdc.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_Align_nexus.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__/pairwise2_testCases.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_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_Pathway.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_Fasttree_tool.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_Ace.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_SeqIO.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_EMBL_unittest.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Tests/test_HMMCasino.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/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/B_nuc.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/NBRF/DMA_nuc.pir -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/NBRF 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_Medline.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 creating /<>/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 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/phd2 -> /<>/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 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/NC_001802x.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/test_phyml_tool.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests 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_PDB_PDBIO.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 copying /<>/.pybuild/cpython3_3.11/build/Tests/requires_internet.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/README.txt -> /<>/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/bed7.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/bed8.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/bed12.bed -> /<>/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/hg38.fa -> /<>/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/psl_35_002.psl -> /<>/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/psl_34_005.sam -> /<>/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_001.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/rna.fa -> /<>/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/psl_34_004.bed -> /<>/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/bed3.bed -> /<>/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_34_005.bb -> /<>/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/bed9.bed -> /<>/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/bed6.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/bed5.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/psl_34_001.bed -> /<>/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/psl_35_002.bed -> /<>/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/dna.fa -> /<>/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/psl_34_001.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/psl_34_003.bed -> /<>/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/bed3.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/bed8.bed -> /<>/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_003.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_004.bb -> /<>/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/psl_35_001.psl -> /<>/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/pslx_34_004.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_005.pslx -> /<>/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/bigbedtest.psl.bb -> /<>/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/psl_35_002.psl.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/bed5.bed -> /<>/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/psl_34_003.psl -> /<>/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/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/psl_34_004.psl.bb -> /<>/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_35_001.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/test_SeqFeature.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests 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_LogisticRegression.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 creating /<>/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/DD231055_edited2.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/AE017046.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/U87107.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/AAA03323.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/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/101ma_no_coords.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_edited.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/patents.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/A04195.imgt -> /<>/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/test_SCOP_Dom.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_PDB_FragmentMapper.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_KGML_graphics.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_NMR.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests 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_SeqIO_QualityIO.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 creating /<>/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/esummary4.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/elink3.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/einfo1.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/esearch6.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/pubmed5.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/esummary9.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/epost2.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/elink7.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/einfo4.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/journals.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/esearch5.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/elink4.xml -> /<>/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/esummary7.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/esummary5.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/esummary8.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/esearch1.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/einfo2.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/taxonomy.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/esummary2.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/nucleotide2.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/elink5.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/pubmed4.xml -> /<>/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/efetch_pmc.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/pubmed2.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/test_Application.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/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/SnapGene/sample-e.dna -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/SnapGene 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/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_AlignIO_MauveIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests 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/bt001 -> /<>/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/test_Align_msf.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests 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/run_tests.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/taqi.htm -> /<>/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/taqi.txt -> /<>/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/pvuii.htm -> /<>/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/foki.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/bamii.htm -> /<>/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/foki.txt -> /<>/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/test_Align_mauve.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 creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/tmpdirprankmsaz3taS6 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_bgzf.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_TogoWS.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_GenomeDiagram.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/globins45.ali -> /<>/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/Stockholm/pfam4.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/pfam1.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/rfam4.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/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/pfam3.seed.txt -> /<>/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/rfam5.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/pfam9.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/funny.sth -> /<>/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/cath1.sth -> /<>/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/test_cellosaurus.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/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.bigendian.2bit -> /<>/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.littleendian.2bit -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/TwoBit 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_AlignIO_ClustalIO.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 creating /<>/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/REB1.pfm -> /<>/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/minimal_test.meme -> /<>/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/fourcolumns.pfm -> /<>/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/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/meme.adh.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.txt -> /<>/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/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.Klf1-200.cd.oops.xml.xml -> /<>/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.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/motifs/Arnt.sites -> /<>/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/mast.crp0.de.oops.txt.xml -> /<>/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/abdb.xms -> /<>/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/test_PDB_PSEA.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/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/Cellosaurus/cell_lines_2.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Cellosaurus 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_AlignIO.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 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 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_SCOP_Astral.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 copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_hhsuite2_text.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests 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_SffIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_hmmer2_text.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_sigil_short_OCTO.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_sigil_long_OCTO.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/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_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_sigil_labels.png -> /<>/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/labels_default_c.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/GD_sigil_short_BIGARROW.png -> /<>/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/GD_sigil_bigarrow_shafts.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_short_JAGGY.png -> /<>/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_arrows.png -> /<>/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_labels.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_sigils_c.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/map03070_original.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_arrow_shafts.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_short_ARROW_c.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_long_ARROW.png -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_long_OCTO.png -> /<>/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/GD_region_circular.svg -> /<>/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_short_BIGARROW.pdf -> /<>/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_sigils.png -> /<>/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/GD_sigil_long_BIGARROW_c.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/labels_default.png -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_long_BIGARROW.png -> /<>/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/GD_sigil_long_ARROW_c.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_sigil_short_ARROW.png -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_arrow_shafts.png -> /<>/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/GD_sigil_long_ARROW.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/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.png -> /<>/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_long_JAGGY.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_bigarrow_shafts.png -> /<>/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/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/multi_bar.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_sigil_arrows_c.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/line_graph.pdf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Graphics copying /<>/.pybuild/cpython3_3.11/build/Tests/Graphics/GD_sigil_long_JAGGY.png -> /<>/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/map03070_transparency.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_long_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_c.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_sigil_long_OCTO_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/spiral_test.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/tRNA_chrom.pdf -> /<>/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/test_raxml_tool.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 creating /<>/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/noref.gb -> /<>/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/GU949562.1.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/KF527485_output.gbk -> /<>/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/origin_line.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/extra_keywords.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/wrong_sequence_indent.gb -> /<>/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/EU851978.gbk -> /<>/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/NC_005816.ffn -> /<>/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/NC_005816.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/addgene-plasmid-11664-sequence-180430.gbk -> /<>/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/tsa_acropora.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/cor6_6.gb.bgz -> /<>/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/NC_000932.faa -> /<>/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/qualifier_escaping_write.gb -> /<>/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/addgene-plasmid-39296-sequence-49545.gbk -> /<>/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/cor6_6.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/tls_KDHP01000000.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/NC_005816.tsv -> /<>/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/1MRR_A.gp -> /<>/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/bad_origin_wrap_linear.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/NC_000932.gb.bgz -> /<>/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/NC_005816.fna -> /<>/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/invalid_misc_feature.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/pri1.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/HM138502.gbk -> /<>/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/bad_loc_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/protein_refseq2.gb -> /<>/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/gbvrl1_start.seq -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/GenBank 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_SeqIO_SeqXML.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_PDB_vectors.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/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/1MOM_min.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/1LCD.pdb -> /<>/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/2OFG.cif -> /<>/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/1SSU_mod.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/1AS5.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/4CUP.mmtf -> /<>/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/2BEG_noheader.dssp -> /<>/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/2BEG.pdb -> /<>/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/2BEG.dssp -> /<>/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/4CUP.cif -> /<>/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.xyzr -> /<>/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/Miller_RASA.txt -> /<>/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/6WQA.cif -> /<>/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/a_structure.cif -> /<>/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/7CFN.cif -> /<>/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/7CFN_aligned.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/4ZHL.mmtf -> /<>/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/1A7G.cif -> /<>/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/dssp_xtra_Sander.txt -> /<>/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/disordered.pdb -> /<>/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/2XHE.pdb -> /<>/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/occupancy.pdb -> /<>/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 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/proline.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/lipoprotein.txt -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Enzymes 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_SeqIO_Xdna.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/combined.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/Mauve/combined.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/combined.xmfa.backbone -> /<>/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 -> /<>/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/simple_short.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/simple.xmfa.backbone -> /<>/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/separate.xmfa.backbone -> /<>/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.bbcols -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Mauve creating /<>/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/README.txt -> /<>/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/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/4p79_hhsearch_server_NOssm.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_hhblits.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/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/test_SearchIO_blast_tab.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests 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_blast_text.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 creating /<>/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_blastn_006.xml -> /<>/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/xml_2212L_tblastn_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_2011L_blastx_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/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_blastn_001.txt -> /<>/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/xml_2222_blastx_001.xml -> /<>/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/text_2010L_blastp_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_2012L_psiblast_001.txt -> /<>/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/tab_2228_tblastx_001.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_2011L_phiblast_003.txt -> /<>/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_2226_tblastx_004.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_blastx_001.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/xml_2226_blastx_004.xml -> /<>/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/xml_2222_blastp_001.xml -> /<>/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_2010L_blastp_007.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/xml_2226_tblastn_001.xml -> /<>/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_2226_blastp_002.txt -> /<>/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/text_2010L_blastp_005.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/xml_2226_tblastn_005.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/xml_2900_tblastx_001_v2.xml -> /<>/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_2011L_blastp_006.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_2201L_blastx_001.txt -> /<>/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/text_2226_tblastn_001.txt -> /<>/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_2212L_blastp_001.xml -> /<>/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_blastn_004.txt -> /<>/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/tab_2226_tblastn_006.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_2208L_psiblast_001.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_2011L_blastn_002.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/wnts.xml.bgz -> /<>/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/text_2222_blastx_001.txt -> /<>/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_2226_blastx_004.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_2202L_blastn_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/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_blastx_001.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/xml_2226_tblastn_003.xml -> /<>/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_2900_blastp_001.xml -> /<>/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/text_2220L_blastx_001.txt -> /<>/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_2010L_tblastn_002.txt -> /<>/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_2202L_blastn_002.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/xml_2212L_tblastx_001.xml -> /<>/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_2222L_blastx_001.txt -> /<>/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/xml_2226_blastp_004.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_2221L_blastp_001.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/xml_2218L_blastp_001.xml -> /<>/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/tab_2226_tblastn_004.txt -> /<>/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_002.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_tblastn_004.xml -> /<>/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_2011L_blastp_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/mock_short_empty.xml -> /<>/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/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_blastn_004.xml -> /<>/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/xml_2226_blastp_002.xml -> /<>/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/text_2011L_tblastn_001.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_2226_blastn_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/text_2226_tblastn_002.txt -> /<>/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/text_2215L_blastx_001.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_2216L_tblastn_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/text_2226_blastp_004.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/tab_2226_tblastn_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_2011L_blastp_002.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_2010L_blastp_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/xml_2226_blastn_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/mock_orchid.xml -> /<>/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_2226_tblastx_004.txt -> /<>/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_blastn_003.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/text_2010L_blastp_003.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/Blast/text_2010L_blastp_004.txt -> /<>/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_blastn_002.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/xml_2900_tblastx_001.xml -> /<>/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/text_2010L_phiblast_003.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_2010L_tblastn_001.txt -> /<>/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/xml_2226_blastp_003.xml -> /<>/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_2011L_phiblast_002.txt -> /<>/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/text_2011L_phiblast_001.txt -> /<>/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/tab_2226_tblastn_005.txt -> /<>/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/test_Tutorial.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests 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_align.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/tc_out.msf -> /<>/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/phlox.nu -> /<>/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/output003.m10 -> /<>/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/output001.m10 -> /<>/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/aster.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/f002 -> /<>/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/output015.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/centaurea.nu -> /<>/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/loveliesbleeding.pro -> /<>/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/output016.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/lavender.nu -> /<>/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/aster_no_wrap.pro -> /<>/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/wisteria.nu -> /<>/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/f001 -> /<>/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/output009.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/output012.m10 -> /<>/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/output008.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/elderberry.nu -> /<>/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/output014.m10 -> /<>/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/output010.m10 -> /<>/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/rose.pro -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Fasta 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/test_SeqIO_index.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_Nexus.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_AlignIO_convert.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests 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_SearchIO_model.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests 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_Selection.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 creating /<>/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/egfr_nucl.fa -> /<>/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/egfr_id -> /<>/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/adh.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/drosophilla.fasta -> /<>/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/codonalign/nucl4.fa -> /<>/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/pro4.aln -> /<>/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/nucl5.fa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/codonalign copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_clustal.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/upgma.tre -> /<>/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/consensus_refs.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/strict_refs.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/nj.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/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/adam_refs.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/test_PDB_Polypeptide.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests 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_2_truncated.fastq -> /<>/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/test_GenBank.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 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_Phylo_matplotlib.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_PDB_KDTree.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 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_CodonTable.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SCOP_Residues.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/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/domtab_30_hmmsearch_001.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_hmmsearch_001.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_20_hmmsearch_001.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/domtab_30_hmmscan_002.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/tab_31b1_hmmsearch_001.out -> /<>/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/domtab_31b1_hmmsearch_001.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_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_001.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/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_hmmsearch_005.out -> /<>/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/tab_30_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_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_002.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/domtab_30_hmmscan_003.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/text_24_hmmpfam_001.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/text_30_hmmsearch_003.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_004.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/tab_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_004.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/domtab_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_010.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_31b1_hmmscan_001.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/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_008.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_hmmsearch_001.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/Hmmer copying /<>/.pybuild/cpython3_3.11/build/Tests/test_NCBITextParser.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_Align_bigbed.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_pairwise_alignment_map.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests 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_Entrez_parser.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_Align_exonerate.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 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_Fasttree_tool.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_human_sample.gpi -> /<>/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/gp_information.goa_yeast.28.gpi -> /<>/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/gene_association.goa_yeast.1.gaf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/UniProt copying /<>/.pybuild/cpython3_3.11/build/Tests/test_SearchIO_interproscan_xml.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/comtest2 -> /<>/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 creating /<>/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/msf/DOA_prot.msf -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/msf 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_PDB_MMCIFParser.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML creating /<>/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 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/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/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/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/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/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/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/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/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/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/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/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/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/bad2.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 copying /<>/.pybuild/cpython3_3.11/build/Tests/PAML/Control_files/bad3.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/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_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.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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/bad1.ctl -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Control_files creating /<>/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/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_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_4c.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_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_6.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/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_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_3.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/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_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_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_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_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_7.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_4.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/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_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 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_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_7.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/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_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_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_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_7.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 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_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_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_1.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_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_4.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/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_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_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_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_7.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 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_3.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_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_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_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_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_1.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/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_5.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_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_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_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_4c.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/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_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_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 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_4c.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_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_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_7.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_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_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_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_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_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_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_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/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 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_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/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/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/yn00-4_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_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_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/yn00-4_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_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/Results/baseml 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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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_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_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_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_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/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_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/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/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_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/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/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/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_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_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/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/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/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/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/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/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/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/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/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/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/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/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_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_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_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_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_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/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_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_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_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_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_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_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_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_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_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_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_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/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/model8-4_1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/model 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/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/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_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_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_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_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_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_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_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_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_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_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_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_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_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/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_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/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/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/nhomo3-4_7.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml/nhomo 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/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/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/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/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_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_1.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_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_4.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/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 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/baseml_alpha1rho1.out -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML/Results/baseml 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/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/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/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/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/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/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/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/nparK4-4_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/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/nparK3-4_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/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/dottednum.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/dottednames.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 creating /<>/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 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/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/gen_results.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests/PAML creating /<>/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/README.txt -> /<>/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_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_ner_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_vulgar.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_coding2genome_vulgar.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_coding2coding.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_affine_local_vulgar.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_vulgar.exn -> /<>/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_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_m_genome2genome.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_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/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_m_protein2genome.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_protein2genome_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_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_dna2protein.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_revcomp_fshifts_cigar.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_affine_local_cigar.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_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_trans.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_protein2dna.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_m_cdna2genome.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_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_ungapped.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_ungapped_cigar.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.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_cdna2genome_cigar.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_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.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/test_SearchIO_exonerate_text_index.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests copying /<>/.pybuild/cpython3_3.11/build/Tests/test_Align_tabular.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/made_up.xml -> /<>/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/example.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/apaf.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/test_Mafft_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_pairwise2_no_C.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 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_Compass.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests 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/Plates.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/Plate_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/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/test_align_substitution_matrices.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_SearchIO_exonerate.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_PDB_NACCESS.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-b.xdna -> /<>/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/test_NCBI_qblast.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_BioSQL_sqlite3_online.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 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/biosql.ini.appveyor -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Tests creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio creating /<>/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 creating /<>/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__/cellosaurus.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__/Prodoc.cpython-311.pyc -> /<>/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__/Enzyme.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/ExPASy/__pycache__ 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/Prosite.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/ExPASy 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/Enzyme.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 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/SCOP copying /<>/.pybuild/cpython3_3.11/build/Bio/SCOP/Cla.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP 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/Residues.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__/__init__.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__/Cla.cpython-311.pyc -> /<>/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__/Raf.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__/Residues.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SCOP/__pycache__ 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/Raf.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 creating /<>/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/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/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/__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__ 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/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG 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__/__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/__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/__init__.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/KGML_parser.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/KEGG/KGML 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/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/NaiveBayes.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio copying /<>/.pybuild/cpython3_3.11/build/Bio/bgzf.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio 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/SwissProt copying /<>/.pybuild/cpython3_3.11/build/Bio/SwissProt/KeyWList.py -> /<>/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__/__init__.cpython-311.pyc -> /<>/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/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SwissProt creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PopGen creating /<>/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 creating /<>/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__/__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__/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__/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/__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/__init__.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 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__ 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/Emboss copying /<>/.pybuild/cpython3_3.11/build/Bio/Emboss/Applications.py -> /<>/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__/__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/__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__/Primer3.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Emboss/__pycache__ 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/Primer3.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 creating /<>/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/AlignIO/MsfIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO 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/EmbossIO.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__/__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__/PhylipIO.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__/MsfIO.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/__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__/MauveIO.cpython-311.pyc -> /<>/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__/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/__init__.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/FastaIO.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/PhylipIO.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/MafIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/AlignIO creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Nexus 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/StandardData.py -> /<>/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__/__init__.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__/Nexus.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/__pycache__/Nodes.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Nexus/__pycache__ 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/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/Nexus.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/_utils.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio 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__ 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/Pathway/Rep copying /<>/.pybuild/cpython3_3.11/build/Bio/Pathway/Rep/Graph.py -> /<>/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__/__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/__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/MultiGraph.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 creating /<>/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/tabular.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/_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/mauve.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/bigpsl.py -> /<>/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/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/_Mafft.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/_Prank.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__/_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__/_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__/_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__/_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__/_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/__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__/_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__/_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__/_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/_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/_TCoffee.py -> /<>/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 copying /<>/.pybuild/cpython3_3.11/build/Bio/Align/Applications/_MSAProbs.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/Applications 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__/psl.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__/__init__.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__/bigpsl.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__/fasta.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__/bigmaf.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__/phylip.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__/interfaces.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__/sam.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__/AlignInfo.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__/bigbed.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__/exonerate.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/__pycache__ 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/__init__.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 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/exonerate.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/phylip.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/interfaces.py -> /<>/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/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/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/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/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/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/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/GENETIC -> /<>/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/BENNER22 -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align/substitution_matrices/data 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__ 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/_aligners.c -> /<>/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/emboss.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/a2m.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/bigbed.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Align 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/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 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__/__init__.cpython-311.pyc -> /<>/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/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Affy 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/MaxEntropy.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio creating /<>/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/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/NMR 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/xpktools.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/NMR 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 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/File.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Wise 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/psw.py -> /<>/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__/__init__.cpython-311.pyc -> /<>/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__/dnal.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Wise/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/Wise/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Wise creating /<>/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__/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__ 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__/MaxEntropy.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__/pairwise2.cpython-311.pyc -> /<>/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__/NaiveBayes.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__/kNN.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__/_utils.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/__pycache__ creating /<>/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/IUPACData.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__/__init__.cpython-311.pyc -> /<>/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__/PDBData.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/__init__.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 copying /<>/.pybuild/cpython3_3.11/build/Bio/Data/SCOPData.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Data copying /<>/.pybuild/cpython3_3.11/build/Bio/__init__.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__/Restriction_Dictionary.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__/PrintFormat.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Restriction/__pycache__ 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.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Restriction 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/Restriction_Dictionary.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Restriction 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 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/CheckSum.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/CodonUsage.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/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__/lcc.cpython-311.pyc -> /<>/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__/ProtParam.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__/MeltingTemp.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__/ProtParamData.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqUtils/__pycache__ 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/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 creating /<>/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/Parser.py -> /<>/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/__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-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_BlastDL.mod.dtd -> /<>/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/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_Medlars.dtd -> /<>/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/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_Protein.dtd -> /<>/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/JATS-references1-3.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/isogrk2.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/isocyr2.ent -> /<>/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/NCBI_PubMed.mod.dtd -> /<>/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/isodia.ent -> /<>/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/isogrk4.ent -> /<>/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/pubmed_190101.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/NCBI_MedArchive.mod.dtd -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/epost.dtd -> /<>/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_GBSeq.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/NCBI_Seqset.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/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_FeatDef.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/NCBI_BlastOutput.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/pubmed_130501.dtd -> /<>/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/nlmmedline_011101.dtd -> /<>/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/notat.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/nlmmedlinecitationset_120101.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/JATS-format1-3.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_Cn3d.mod.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/MMDB_Structural_model.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/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/default-classes.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/eSearch_020511.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_Seqres.mod.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/OMSSA.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/archivearticle.dtd -> /<>/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/nlmcommon_011101.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_PCSubstance.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/archivecustom-modules.ent -> /<>/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/journalmeta.ent -> /<>/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/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/JATS-nlmcitation1-3.ent -> /<>/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/NCBI_Pub.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/xmlspecchars.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/NCBI_Seqloc.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_Medlars.mod.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/NCBI_RNA.mod.dtd -> /<>/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/esummary-v1.dtd -> /<>/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_General.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/nlmcatalogrecordset_170601.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/pubmed_080101.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/NCBI_Gene.mod.dtd -> /<>/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/isoamsa.ent -> /<>/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/nlmmedlinecitation_080101.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_Blast4.mod.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_Mime.dtd -> /<>/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/mmlextra.ent -> /<>/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/phrase.ent -> /<>/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/backmatter.ent -> /<>/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/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/pubmed_020114.dtd -> /<>/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_Entrez2.dtd -> /<>/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/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/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_Sequence.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_PCAssay.mod.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/mathml-in-pubmed.mod -> /<>/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/mathml2.dtd -> /<>/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/JATS-XHTMLtablesetup1-3.ent -> /<>/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/isobox.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/htmltable.dtd -> /<>/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_4.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/mathml3.dtd -> /<>/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/elink.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/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_ID2Access.dtd -> /<>/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/NCBI_SeqTable.dtd -> /<>/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_ScoreMat.dtd -> /<>/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/mmlalias.ent -> /<>/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/NCBI_Variation.mod.dtd -> /<>/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/PDB_General.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_Entrez2.mod.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/NCBI_BlastOutput.mod.dtd -> /<>/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/NCBI_Organism.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/MMDB.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/pubmed_100301.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/egquery.dtd -> /<>/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/nlmserials_080101.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/nlmmedlinecitationset_130101.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_Seqres.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/NCBI_SeqCode.dtd -> /<>/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/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_Access.mod.dtd -> /<>/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/einfo.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/pubmed_140101.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/INSD_INSDSeq.dtd -> /<>/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/NCBI_Cdd.mod.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-notat1-3.ent -> /<>/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/ePost_020511.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/NSE.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_Mim.mod.dtd -> /<>/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_110101.dtd -> /<>/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/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/JATS-para1-3.ent -> /<>/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/NCBI_Seqset.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/NCBI_TxInit.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/BITS-embedded-index2.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/SP_General.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_ScoreMat.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/elink_020122.dtd -> /<>/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/JATS-articlemeta1-3.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs copying /<>/.pybuild/cpython3_3.11/build/Bio/Entrez/DTDs/esummary_gene.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/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_Cn3d.dtd -> /<>/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/NCBI_Access.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/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/NCBI_FeatDef.mod.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/common.ent -> /<>/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/PIR_General.mod.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/NCBI_BioTree.mod.dtd -> /<>/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/articlemeta.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/NCBI_Remap.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/JATS-display1-3.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/archivecustom-mixes.ent -> /<>/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/NCBI_Variation.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_Submit.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/isoamsn.ent -> /<>/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/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_Blast4.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/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/NCBI_SeqTable.mod.dtd -> /<>/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/HomoloGene.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/JATS-journalmeta1-3.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/isolat1.ent -> /<>/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/Docsum_3_4.dtd -> /<>/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/NCBI_Medline.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/archivecustom-classes.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/PDB_General.mod.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/NCBI_PCSubstance.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-archivearticle1-3-mathml3.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_Entity.mod.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/NCBI_SeqCode.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/isogrk3.ent -> /<>/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/isogrk1.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/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_Mim.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/nlmmedlinecitationset_110101.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/nlmmedlinecitationset_100301.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/eLink_090910.dtd -> /<>/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/para.ent -> /<>/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/NCBI_Medline.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/MMDB_Features.mod.dtd -> /<>/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/NCBI_Sequence.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/nlmmedlinecitationset_100101.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/isomfrk.ent -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Entrez/DTDs 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/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/MarkovModel.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio creating /<>/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/NeXMLIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/_io.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 copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/BaseTree.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo creating /<>/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 creating /<>/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__/_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__/_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/__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/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/Applications 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/NewickIO.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 creating /<>/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__/Consensus.cpython-311.pyc -> /<>/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__/CDAO.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__/TreeConstruction.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__/NewickIO.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__/PhyloXMLIO.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__/Newick.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__/_utils.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/CDAOIO.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 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/PhyloXMLIO.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/TreeConstruction.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 creating /<>/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__/_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__/_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__/__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__/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__/_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__/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__/_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/__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/__init__.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/_parse_baseml.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/codeml.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/baseml.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo/PAML 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/NexusIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo copying /<>/.pybuild/cpython3_3.11/build/Bio/Phylo/CDAO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Phylo 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/Sequencing copying /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing/Ace.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing/Applications copying /<>/.pybuild/cpython3_3.11/build/Bio/Sequencing/Applications/_bwa.py -> /<>/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__/_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/__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__/_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/__init__.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/_Novoalign.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing/Applications 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__/Phd.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/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Sequencing 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/motifs copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/mast.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__/__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/__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/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/applications copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/applications/_xxmotif.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/applications creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/jaspar copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/jaspar/db.py -> /<>/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__/__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/__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/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/jaspar copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/transfac.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__/__init__.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__/transfac.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__/mast.cpython-311.pyc -> /<>/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__/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__/clusterbuster.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__/pfm.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/motifs/__init__.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 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/pfm.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/xms.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/alignace.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs 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 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/_pwm.c -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/motifs 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 creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics creating /<>/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/_Track.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/_CircularDrawer.py -> /<>/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__/__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__/_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__/_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__/_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__/_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__/_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__/_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__/_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/__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__/_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__/_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__/_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/__init__.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/GenomeDiagram/_FeatureSet.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics/GenomeDiagram 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/_GraphSet.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/_Graph.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/KGML_vis.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Graphics copying /<>/.pybuild/cpython3_3.11/build/Bio/Graphics/Distribution.py -> /<>/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__/DisplayRepresentation.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__/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__/ColorSpiral.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__/BasicChromosome.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/__init__.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 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/DisplayRepresentation.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 creating /<>/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__/__init__.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/__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__/Record.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/GenBank/__pycache__ copying /<>/.pybuild/cpython3_3.11/build/Bio/GenBank/utils.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 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/LogisticRegression.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio creating /<>/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 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/PDBExceptions.py -> /<>/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/HSExposure.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/Superimposer.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/MMCIFParser.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/ic_data.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/PICIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB creating /<>/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 creating /<>/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/__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/__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 creating /<>/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__/SCADIO.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__/qcprot.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__/MMCIFParser.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__/PICIO.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__/PDBExceptions.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__/PSEA.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__/Chain.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__/AbstractPropertyMap.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__/Entity.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__/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__/Atom.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__/DSSP.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__/HSExposure.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__/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__/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__/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__/mmcifio.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__/ResidueDepth.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__/Model.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__/Residue.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__/Dice.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/__pycache__ 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/SASA.py -> /<>/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/PDBIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/QCPSuperimposer 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/qcprotmodule.cpython-311-x86_64-linux-gnu.so -> /<>/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/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB/QCPSuperimposer 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/DSSP.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/internal_coords.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/ccealignmodule.c -> /<>/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/MMCIF2Dict.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/vectors.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB 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/FragmentMapper.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/Polypeptide.py -> /<>/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/StructureAlignment.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB 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/mmcifio.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 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/AbstractPropertyMap.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/Chain.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/ccealign.cpython-311-x86_64-linux-gnu.so -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/PDB 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/HMM copying /<>/.pybuild/cpython3_3.11/build/Bio/HMM/Trainer.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/HMM copying /<>/.pybuild/cpython3_3.11/build/Bio/HMM/Utilities.py -> /<>/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__/__init__.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__/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__/DynamicProgramming.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/HMM/__pycache__ 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/MarkovModel.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 creating /<>/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/ParseBlastTable.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 creating /<>/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__/ParseBlastTable.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__/Applications.cpython-311.pyc -> /<>/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__/Record.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Blast/__pycache__ 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/Record.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/SeqFeature.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Cluster 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.cpython-311-x86_64-linux-gnu.so -> /<>/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/__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 copying /<>/.pybuild/cpython3_3.11/build/Bio/Cluster/cluster.h -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/Cluster creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/codonalign copying /<>/.pybuild/cpython3_3.11/build/Bio/codonalign/codonseq.py -> /<>/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__/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/__pycache__/codonalignment.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/codonalign/__pycache__ 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 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/kNN.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO 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 creating /<>/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/__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_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/__init__.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/_legacy copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_legacy/NCBIStandalone.py -> /<>/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__/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__/__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__/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/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_legacy copying /<>/.pybuild/cpython3_3.11/build/Bio/SearchIO/_legacy/ParserSupport.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_legacy 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 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/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/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 creating /<>/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/hmmer3_domtab.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/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__/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__/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__/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/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/HmmerIO 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/_index.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__/BlatIO.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__/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__/_index.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/__pycache__ 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/_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/hit.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_model 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/_base.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__/__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__/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/__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__/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__/_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/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/_model 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/FastaIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO creating /<>/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 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/_base.py -> /<>/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__/__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_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/__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__/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/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SearchIO/ExonerateIO 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/pairwise2.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/UniProt copying /<>/.pybuild/cpython3_3.11/build/Bio/UniProt/GOA.py -> /<>/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__/__init__.cpython-311.pyc -> /<>/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/__init__.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/UniProt 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/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/phen_micro.py -> /<>/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__/__init__.cpython-311.pyc -> /<>/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__/phen_micro.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/phenotype/__pycache__ 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/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/PdbIO.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/AbiIO.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/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/SffIO.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__/__init__.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__/SeqXmlIO.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__/TwoBitIO.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__/TabIO.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__/NibIO.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__/AceIO.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/__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__/Interfaces.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__/FastaIO.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__/UniprotIO.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__/SwissIO.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__/SnapGeneIO.cpython-311.pyc -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO/__pycache__ 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/SeqXmlIO.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/XdnaIO.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/FastaIO.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/PirIO.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/_twoBitIO.c -> /<>/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/SwissIO.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 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/AceIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO copying /<>/.pybuild/cpython3_3.11/build/Bio/SeqIO/PhdIO.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Bio/SeqIO creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/home creating /<>/debian/tmp/usr/lib/python3.11/dist-packages/home/.t_coffee 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 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/.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/matplotlib 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 copying /<>/.pybuild/cpython3_3.11/build/other_trees.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_testing.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_motifs.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_align.aux -> /<>/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_popgen.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_seq_objects.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_contributing.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_kegg.tex -> /<>/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_phenotype.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 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_entrez.tex -> /<>/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_testing.tex -> /<>/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_uniprot.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_searchio.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_appendix.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_blast.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_introduction.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_seq_objects.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_learning.tex -> /<>/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_cookbook.tex -> /<>/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_seq_annot.aux -> /<>/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_motifs.tex -> /<>/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_quick_start.aux -> /<>/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_quick_start.tex -> /<>/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 creating /<>/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/Plates.csv -> /<>/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/clustal_run.py -> /<>/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/ls_orchid.gbk -> /<>/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/alpha.faa -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples 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/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/ls_orchid.gbk.bz2 -> /<>/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/opuntia.dnd -> /<>/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/www_blast.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/ls_orchid.fasta -> /<>/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/opuntia.fasta -> /<>/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/my_blast.xml -> /<>/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/PF05371_seed.sth -> /<>/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/fasta_dictionary.py -> /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples copying /<>/.pybuild/cpython3_3.11/build/other_trees.nex -> /<>/debian/tmp/usr/lib/python3.11/dist-packages byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/BioSQL/__init__.py to __init__.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/BioSeq.py to BioSeq.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/BioSeqDatabase.py to BioSeqDatabase.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_SearchIO_blat_psl.py to test_SearchIO_blat_psl.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_SeqIO_SnapGene.py to test_SeqIO_SnapGene.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_SearchIO_hmmer3_text.py to test_SearchIO_hmmer3_text.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_phenotype.py to test_phenotype.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_Phylo.py to test_Phylo.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_Align_a2m.py to test_Align_a2m.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_Pathway.py to test_Pathway.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_KeyWList.py to test_KeyWList.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_SCOP_Hie.py to test_SCOP_Hie.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_SeqIO_Gck.py to test_SeqIO_Gck.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_Align_stockholm.py to test_Align_stockholm.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_hmmer2_text_index.py to test_SearchIO_hmmer2_text_index.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_ExPASy.py to test_ExPASy.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/test_motifs_online.py to test_motifs_online.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_SeqIO_online.py to test_SeqIO_online.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_phenotype_fit.py to test_phenotype_fit.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_Entrez.py to test_Entrez.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_KEGG.py to test_KEGG.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_ColorSpiral.py to test_ColorSpiral.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_Phd.py to test_Phd.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/Tests/test_GraphicsDistribution.py to test_GraphicsDistribution.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_BioSQL_psycopg2_online.py to test_BioSQL_psycopg2_online.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/test_ProtParam.py to test_ProtParam.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_PDB_Disordered.py to test_PDB_Disordered.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_BioSQL_sqlite3.py to test_BioSQL_sqlite3.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/test_SeqIO_NibIO.py to test_SeqIO_NibIO.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/common_BioSQL_online.py to common_BioSQL_online.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_Emboss.py to test_Emboss.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_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_SeqIO_FastaIO.py to test_SeqIO_FastaIO.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_SearchIO_hmmer3_domtab.py to test_SearchIO_hmmer3_domtab.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_SearchIO_hmmer3_tab.py to test_SearchIO_hmmer3_tab.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/test_File.py to test_File.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_Align_nexus.py to test_Align_nexus.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_PhyloXML.py to test_PhyloXML.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_NaiveBayes.py to test_NaiveBayes.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_Align_bed.py to test_Align_bed.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_prosite.py to test_prosite.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_Phylo_networkx.py to test_Phylo_networkx.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_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_samtools_tool.py to test_samtools_tool.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_AlignInfo.py to test_AlignInfo.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_SCOP_Scop.py to test_SCOP_Scop.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_PDB_Superimposer.py to test_PDB_Superimposer.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_PopGen_GenePop_nodepend.py to test_PopGen_GenePop_nodepend.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_BioSQL_mysql_connector.py to test_BioSQL_mysql_connector.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_Align_Alignment.py to test_Align_Alignment.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_Blast_Record.py to test_Blast_Record.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_SearchIO_legacy.py to test_SearchIO_legacy.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_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_Muscle_tool.py to test_Muscle_tool.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_PDB_StructureAlignment.py to test_PDB_StructureAlignment.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_UniProt_GOA.py to test_UniProt_GOA.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_HMMCasino.py to test_HMMCasino.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_Medline.py to test_Medline.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_phyml_tool.py to test_phyml_tool.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_PDB_PDBIO.py to test_PDB_PDBIO.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/requires_internet.py to requires_internet.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_GraphicsChromosome.py to test_GraphicsChromosome.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_motifs.py to test_motifs.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_PDB_PDBParser.py to test_PDB_PDBParser.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_geo.py to test_geo.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_Wise.py to test_Wise.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_SeqIO_QualityIO.py to test_SeqIO_QualityIO.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_Application.py to test_Application.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_Align_msf.py to test_Align_msf.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/run_tests.py to run_tests.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/pairwise2_testCases.py to pairwise2_testCases.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_Phylo_NeXML.py to test_Phylo_NeXML.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_Restriction.py to test_Restriction.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_cellosaurus.py to test_cellosaurus.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_Probcons_tool.py to test_Probcons_tool.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_pairwise_aligner.py to test_pairwise_aligner.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_AlignIO.py to test_AlignIO.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_SCOP_Astral.py to test_SCOP_Astral.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_SearchIO_hhsuite2_text.py to test_SearchIO_hhsuite2_text.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_SffIO.py to test_SffIO.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_raxml_tool.py to test_raxml_tool.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_Dialign_tool.py to test_Dialign_tool.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_SeqIO.py to test_SeqIO.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_SCOP_online.py to test_SCOP_online.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_SeqIO_Xdna.py to test_SeqIO_Xdna.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_kNN.py to test_kNN.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_KGML_graphics_online.py to test_KGML_graphics_online.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_NCBIXML.py to test_NCBIXML.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_PDB_SMCRA.py to test_PDB_SMCRA.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_SeqIO_Insdc.py to test_SeqIO_Insdc.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_SeqIO_PdbIO.py to test_SeqIO_PdbIO.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_Align_psl.py to test_Align_psl.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_PDB_Selection.py to test_PDB_Selection.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_Align_clustal.py to test_Align_clustal.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_GenBank.py to test_GenBank.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_PAML_yn00.py to test_PAML_yn00.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_MarkovModel.py to test_MarkovModel.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_Align_emboss.py to test_Align_emboss.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_CodonTable.py to test_CodonTable.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_NCBITextParser.py to test_NCBITextParser.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_Align_bigbed.py to test_Align_bigbed.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_SwissProt.py to test_SwissProt.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_Consensus.py to test_Consensus.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_PAML_codeml.py to test_PAML_codeml.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_SearchIO_interproscan_xml.py to test_SearchIO_interproscan_xml.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_PDB_MMCIFParser.py to test_PDB_MMCIFParser.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_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_Align_tabular.py to test_Align_tabular.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_PDB_CEAligner.py to test_PDB_CEAligner.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_SearchIO_fasta_m10.py to test_SearchIO_fasta_m10.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_Compass.py to test_Compass.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_Cluster.py to test_Cluster.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_Phylo_CDAO.py to test_Phylo_CDAO.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_NCBI_qblast.py to test_NCBI_qblast.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_BioSQL_sqlite3_online.py to test_BioSQL_sqlite3_online.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_SVDSuperimposer.py to test_SVDSuperimposer.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/__init__.py to __init__.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/Enzyme.py to Enzyme.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/Seq.py to Seq.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/Residues.py to Residues.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/Raf.py to Raf.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/KEGG/REST.py to REST.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/Compound/__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/KGML/__init__.py to __init__.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/KGML_parser.py to KGML_parser.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/Enzyme/__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/bgzf.py to bgzf.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/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/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/__init__.py to __init__.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/Emboss/Applications.py to Applications.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/Primer3.py to Primer3.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/AlignIO/StockholmIO.py to StockholmIO.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/ClustalIO.py to ClustalIO.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/__init__.py to __init__.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/FastaIO.py to FastaIO.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/PhylipIO.py to PhylipIO.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/MafIO.py to MafIO.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/_utils.py to _utils.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/Pathway/Rep/Graph.py to Graph.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/__init__.py to __init__.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/tabular.py to tabular.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/mauve.py to mauve.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/bigpsl.py to bigpsl.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/Applications/_Clustalw.py to _Clustalw.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/_ClustalOmega.py to _ClustalOmega.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/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/_TCoffee.py to _TCoffee.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/_MSAProbs.py to _MSAProbs.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/__init__.py to __init__.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/psl.py to psl.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/maf.py to maf.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/stockholm.py to stockholm.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/substitution_matrices/__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/emboss.py to emboss.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/a2m.py to a2m.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/bigbed.py to bigbed.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/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/Affy/__init__.py to __init__.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/MaxEntropy.py to MaxEntropy.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/NMR/NOEtools.py to NOEtools.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/Medline/__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/File.py to File.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/psw.py to psw.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/Data/CodonTable.py to CodonTable.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/PDBData.py to PDBData.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/__init__.py to __init__.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.py to Restriction.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/Restriction_Dictionary.py to Restriction_Dictionary.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/CheckSum.py to CheckSum.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/CodonUsage.py to CodonUsage.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/SeqUtils/__init__.py to __init__.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/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/UniGene/__init__.py to __init__.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/Phylo/Consensus.py to Consensus.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/_io.py to _io.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/BaseTree.py to BaseTree.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/Applications/__init__.py to __init__.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/NewickIO.py to NewickIO.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/CDAOIO.py to CDAOIO.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/PhyloXML.py to PhyloXML.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/Newick.py to Newick.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/Phylo/NeXML.py to NeXML.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/__init__.py to __init__.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/_parse_baseml.py to _parse_baseml.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/codeml.py to codeml.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/baseml.py to baseml.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/NexusIO.py to NexusIO.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/SVDSuperimposer/__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/Sequencing/Applications/_bwa.py to _bwa.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/Applications/_samtools.py to _samtools.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/__init__.py to __init__.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/motifs/mast.py to mast.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/applications/_xxmotif.py to _xxmotif.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/motifs/transfac.py to transfac.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/matrix.py to matrix.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/pfm.py to pfm.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/xms.py to xms.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/alignace.py to alignace.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/TogoWS/__init__.py to __init__.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/_Track.py to _Track.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/_CircularDrawer.py to _CircularDrawer.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/_AbstractDrawer.py to _AbstractDrawer.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/_Feature.py to _Feature.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/_Colors.py to _Colors.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/_Diagram.py to _Diagram.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/Distribution.py to Distribution.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/Comparative.py to Comparative.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/DisplayRepresentation.py to DisplayRepresentation.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/GenBank/utils.py to utils.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/GenBank/Scanner.py to Scanner.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/PDB/Atom.py to Atom.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/PDBExceptions.py to PDBExceptions.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/HSExposure.py to HSExposure.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/Superimposer.py to Superimposer.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/MMCIFParser.py to MMCIFParser.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/Structure.py to Structure.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/mmtf/mmtfio.py to mmtfio.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/__init__.py to __init__.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/SCADIO.py to SCADIO.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/QCPSuperimposer/__init__.py to __init__.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/DSSP.py to DSSP.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/internal_coords.py to internal_coords.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/Model.py to Model.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/Residue.py to Residue.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/NeighborSearch.py to NeighborSearch.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/cealign.py to cealign.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/ResidueDepth.py to ResidueDepth.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/Entity.py to Entity.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/PDBParser.py to PDBParser.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/StructureBuilder.py to StructureBuilder.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/parse_pdb_header.py to parse_pdb_header.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/HMM/Utilities.py to Utilities.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/MarkovModel.py to MarkovModel.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/Blast/NCBIWWW.py to NCBIWWW.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/Applications.py to Applications.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/Record.py to Record.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/SeqFeature.py to SeqFeature.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/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/Alphabet/__init__.py to __init__.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/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/__init__.py to __init__.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/_legacy/NCBIStandalone.py to NCBIStandalone.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/ParserSupport.py to ParserSupport.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/SearchIO/_utils.py to _utils.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/HHsuiteIO/__init__.py to __init__.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/hmmer3_domtab.py to hmmer3_domtab.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/HmmerIO/__init__.py to __init__.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/_index.py to _index.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/_model/query.py to query.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/_base.py to _base.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/BlatIO.py to BlatIO.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/ExonerateIO/exonerate_text.py to exonerate_text.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/_base.py to _base.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/exonerate_cigar.py to exonerate_cigar.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/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/Compass/__init__.py to __init__.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/phen_micro.py to phen_micro.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/SeqIO/QualityIO.py to QualityIO.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/_index.py to _index.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/IgIO.py to IgIO.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/SffIO.py to SffIO.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/SeqXmlIO.py to SeqXmlIO.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/XdnaIO.py to XdnaIO.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/FastaIO.py to FastaIO.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/PirIO.py to PirIO.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/NibIO.py to NibIO.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/TwoBitIO.py to TwoBitIO.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/PhdIO.py to PhdIO.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/ACT_example.py to ACT_example.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/Doc/examples/swissprot.py to swissprot.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/nmr/simplepredict.py to simplepredict.cpython-311.pyc byte-compiling /<>/debian/tmp/usr/lib/python3.11/dist-packages/Doc/examples/fasta_dictionary.py to fasta_dictionary.cpython-311.pyc running install_egg_info Copying biopython.egg-info to /<>/debian/tmp/usr/lib/python3.11/dist-packages/biopython-1.81.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-1.81.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 rm -rf _minted-Tutorial 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/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 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 dh_python3 -O--buildsystem=pybuild D: dh_python3 dh_python3:179: version: 6.20230603 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:408: package python3-biopython details = {'requires.txt': {'debian/python3-biopython/usr/lib/python3/dist-packages/biopython-1.81.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 (<< 3.12)', 'python3:any', 'python3 (>= 3.11~)', '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:408: 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 1689022252 as canonical time 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/1a8o-ca-plot.png using File::StripNondeterminism::handlers::png 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/plasmid_circular_nice.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/biopython_logo_white.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/phylo-draw-example.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-dot.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/Tests/KEGG/map01100.png using File::StripNondeterminism::handlers::png 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/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 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/BlastRecord.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/phylo-color-draw.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/biopython_logo_xs.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/GD_sigils.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/biopython_logo_s.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-simple-draw.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/images/phylo-apaf.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/hist_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/phe-pairs-3pbl.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/phylo-apaf-zoom.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/simple_chrom.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/biopython_logo_m.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/examples/ls_orchid.gbk.gz using File::StripNondeterminism::handlers::gzip dh_compress -O--buildsystem=pybuild cd debian/python-biopython-doc cd debian/python3-biopython 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-sql/NEWS.Debian usr/share/doc/python3-biopython-sql/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 cd '/<>' cd '/<>' chmod a-x 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usr/share/doc/python-biopython-doc/Tests/test_NCBIXML.py usr/share/doc/python-biopython-doc/Tests/test_NCBI_BLAST_tools.py usr/share/doc/python-biopython-doc/Tests/test_NCBI_qblast.py usr/share/doc/python-biopython-doc/Tests/test_NMR.py usr/share/doc/python-biopython-doc/Tests/test_NaiveBayes.py usr/share/doc/python-biopython-doc/Tests/test_Nexus.py usr/share/doc/python-biopython-doc/Tests/test_PAML_baseml.py usr/share/doc/python-biopython-doc/Tests/test_PAML_codeml.py usr/share/doc/python-biopython-doc/Tests/test_PAML_yn00.py usr/share/doc/python-biopython-doc/Tests/test_PDBList.py usr/share/doc/python-biopython-doc/Tests/test_PDB_DSSP.py usr/share/doc/python-biopython-doc/Tests/test_PDB_Disordered.py usr/share/doc/python-biopython-doc/Tests/test_PDB_Exposure.py usr/share/doc/python-biopython-doc/Tests/test_PDB_KDTree.py usr/share/doc/python-biopython-doc/Tests/test_PDB_MMCIF2Dict.py usr/share/doc/python-biopython-doc/Tests/test_PDB_MMCIFIO.py usr/share/doc/python-biopython-doc/Tests/test_PDB_MMCIFParser.py usr/share/doc/python-biopython-doc/Tests/test_PDB_PDBIO.py usr/share/doc/python-biopython-doc/Tests/test_PDB_PDBParser.py usr/share/doc/python-biopython-doc/Tests/test_PDB_Polypeptide.py usr/share/doc/python-biopython-doc/Tests/test_PDB_QCSuperimposer.py usr/share/doc/python-biopython-doc/Tests/test_PDB_SASA.py usr/share/doc/python-biopython-doc/Tests/test_PDB_SMCRA.py usr/share/doc/python-biopython-doc/Tests/test_PDB_Selection.py usr/share/doc/python-biopython-doc/Tests/test_PDB_Superimposer.py usr/share/doc/python-biopython-doc/Tests/test_PDB_internal_coords.py usr/share/doc/python-biopython-doc/Tests/test_PDB_parse_pdb_header.py usr/share/doc/python-biopython-doc/Tests/test_PDB_vectors.py usr/share/doc/python-biopython-doc/Tests/test_PQR.py usr/share/doc/python-biopython-doc/Tests/test_Pathway.py usr/share/doc/python-biopython-doc/Tests/test_Phd.py usr/share/doc/python-biopython-doc/Tests/test_Phylo.py usr/share/doc/python-biopython-doc/Tests/test_PhyloXML.py usr/share/doc/python-biopython-doc/Tests/test_PopGen_GenePop_nodepend.py usr/share/doc/python-biopython-doc/Tests/test_Prank_tool.py usr/share/doc/python-biopython-doc/Tests/test_ProtParam.py usr/share/doc/python-biopython-doc/Tests/test_Restriction.py usr/share/doc/python-biopython-doc/Tests/test_SCOP_Raf.py usr/share/doc/python-biopython-doc/Tests/test_SCOP_Scop.py usr/share/doc/python-biopython-doc/Tests/test_SVDSuperimposer.py usr/share/doc/python-biopython-doc/Tests/test_SearchIO_blast_tab.py usr/share/doc/python-biopython-doc/Tests/test_SearchIO_blast_tab_index.py usr/share/doc/python-biopython-doc/Tests/test_SearchIO_blast_text.py 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_GraphicsBitmaps.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-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 f -a -true -a ! -regex 'debian/python3-biopython/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 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-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/usr/share/lintian/overrides -type f -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 -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/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/1.81\+dfsg-1 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 6f4ca2f99e21712a1323ba50e7ac844cb95a259f install -m0755 -d debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/6f 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/6f/4ca2f99e21712a1323ba50e7ac844cb95a259f.debug chmod 0644 -- debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/6f/4ca2f99e21712a1323ba50e7ac844cb95a259f.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded -o /tmp/vh3_RwGcK3/stripOr05zF 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/vh3_RwGcK3/stripOr05zF cat '/tmp/vh3_RwGcK3/stripOr05zF' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/cpairwise2.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/vh3_RwGcK3/stripOr05zF 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/6f/4ca2f99e21712a1323ba50e7ac844cb95a259f.debug debian/python3-biopython/usr/lib/python3/dist-packages/Bio/cpairwise2.cpython-311-x86_64-linux-gnu.so /tmp/vh3_RwGcK3/objcopy4KovnW chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/cpairwise2.cpython-311-x86_64-linux-gnu.so /tmp/vh3_RwGcK3/objcopy4KovnW cat '/tmp/vh3_RwGcK3/objcopy4KovnW' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/cpairwise2.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/vh3_RwGcK3/objcopy4KovnW 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/1.81\+dfsg-1 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 a2dfea8837c2323e1bbb9e04566552d8594ce10c install -m0755 -d debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/a2 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/a2/dfea8837c2323e1bbb9e04566552d8594ce10c.debug chmod 0644 -- debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/a2/dfea8837c2323e1bbb9e04566552d8594ce10c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded -o /tmp/vh3_RwGcK3/stripQkxRdc 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/vh3_RwGcK3/stripQkxRdc cat '/tmp/vh3_RwGcK3/stripQkxRdc' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Nexus/cnexus.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/vh3_RwGcK3/stripQkxRdc 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/a2/dfea8837c2323e1bbb9e04566552d8594ce10c.debug debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Nexus/cnexus.cpython-311-x86_64-linux-gnu.so /tmp/vh3_RwGcK3/objcopyaJ65EW chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Nexus/cnexus.cpython-311-x86_64-linux-gnu.so /tmp/vh3_RwGcK3/objcopyaJ65EW cat '/tmp/vh3_RwGcK3/objcopyaJ65EW' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Nexus/cnexus.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/vh3_RwGcK3/objcopyaJ65EW 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/1.81\+dfsg-1 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 075d00662ea34a5facdb610aa1c557bc7155ac4a install -m0755 -d debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/07 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/07/5d00662ea34a5facdb610aa1c557bc7155ac4a.debug chmod 0644 -- debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/07/5d00662ea34a5facdb610aa1c557bc7155ac4a.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded -o /tmp/vh3_RwGcK3/stripPXMUK_ 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/vh3_RwGcK3/stripPXMUK_ cat '/tmp/vh3_RwGcK3/stripPXMUK_' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Align/_aligners.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/vh3_RwGcK3/stripPXMUK_ 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/07/5d00662ea34a5facdb610aa1c557bc7155ac4a.debug debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Align/_aligners.cpython-311-x86_64-linux-gnu.so /tmp/vh3_RwGcK3/objcopy6VCQIb chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Align/_aligners.cpython-311-x86_64-linux-gnu.so /tmp/vh3_RwGcK3/objcopy6VCQIb cat '/tmp/vh3_RwGcK3/objcopy6VCQIb' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Align/_aligners.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/vh3_RwGcK3/objcopy6VCQIb debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Align/_aligners.cpython-311-x86_64-linux-gnu.so debugedit --build-id --build-id-seed=python3-biopython/1.81\+dfsg-1 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 4b6dcfd84e9d553c4653e2689a7aa006846d7084 install -m0755 -d debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/4b 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/4b/6dcfd84e9d553c4653e2689a7aa006846d7084.debug chmod 0644 -- debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/4b/6dcfd84e9d553c4653e2689a7aa006846d7084.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded -o /tmp/vh3_RwGcK3/strip5AnIrW 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/vh3_RwGcK3/strip5AnIrW cat '/tmp/vh3_RwGcK3/strip5AnIrW' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/motifs/_pwm.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/vh3_RwGcK3/strip5AnIrW 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/4b/6dcfd84e9d553c4653e2689a7aa006846d7084.debug debian/python3-biopython/usr/lib/python3/dist-packages/Bio/motifs/_pwm.cpython-311-x86_64-linux-gnu.so /tmp/vh3_RwGcK3/objcopyOVMNTR chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/motifs/_pwm.cpython-311-x86_64-linux-gnu.so /tmp/vh3_RwGcK3/objcopyOVMNTR cat '/tmp/vh3_RwGcK3/objcopyOVMNTR' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/motifs/_pwm.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/vh3_RwGcK3/objcopyOVMNTR 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/1.81\+dfsg-1 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 e605643b49a011fa3d9c2c3dfab3fed00b08ee4c install -m0755 -d debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/e6 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/e6/05643b49a011fa3d9c2c3dfab3fed00b08ee4c.debug chmod 0644 -- debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/e6/05643b49a011fa3d9c2c3dfab3fed00b08ee4c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded -o /tmp/vh3_RwGcK3/stripNh1Gb4 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/vh3_RwGcK3/stripNh1Gb4 cat '/tmp/vh3_RwGcK3/stripNh1Gb4' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/kdtrees.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/vh3_RwGcK3/stripNh1Gb4 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/e6/05643b49a011fa3d9c2c3dfab3fed00b08ee4c.debug debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/kdtrees.cpython-311-x86_64-linux-gnu.so /tmp/vh3_RwGcK3/objcopylDqeZw chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/kdtrees.cpython-311-x86_64-linux-gnu.so /tmp/vh3_RwGcK3/objcopylDqeZw cat '/tmp/vh3_RwGcK3/objcopylDqeZw' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/kdtrees.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/vh3_RwGcK3/objcopylDqeZw 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/1.81\+dfsg-1 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 13c0471ae085e343c093f3a3e10f905651668edb install -m0755 -d debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/13 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/13/c0471ae085e343c093f3a3e10f905651668edb.debug chmod 0644 -- debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/13/c0471ae085e343c093f3a3e10f905651668edb.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded -o /tmp/vh3_RwGcK3/stripadeWEU 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/vh3_RwGcK3/stripadeWEU cat '/tmp/vh3_RwGcK3/stripadeWEU' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/ccealign.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/vh3_RwGcK3/stripadeWEU 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/13/c0471ae085e343c093f3a3e10f905651668edb.debug debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/ccealign.cpython-311-x86_64-linux-gnu.so /tmp/vh3_RwGcK3/objcopyvQwpBz chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/ccealign.cpython-311-x86_64-linux-gnu.so /tmp/vh3_RwGcK3/objcopyvQwpBz cat '/tmp/vh3_RwGcK3/objcopyvQwpBz' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/ccealign.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/vh3_RwGcK3/objcopyvQwpBz 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/1.81\+dfsg-1 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 f9fdb6628b7bf8ec465ee67141ee4ad252457208 install -m0755 -d debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/f9 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/f9/fdb6628b7bf8ec465ee67141ee4ad252457208.debug chmod 0644 -- debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/f9/fdb6628b7bf8ec465ee67141ee4ad252457208.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded -o /tmp/vh3_RwGcK3/stripLzOJ0O 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/vh3_RwGcK3/stripLzOJ0O cat '/tmp/vh3_RwGcK3/stripLzOJ0O' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/QCPSuperimposer/qcprotmodule.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/vh3_RwGcK3/stripLzOJ0O 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/f9/fdb6628b7bf8ec465ee67141ee4ad252457208.debug debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/QCPSuperimposer/qcprotmodule.cpython-311-x86_64-linux-gnu.so /tmp/vh3_RwGcK3/objcopyMTniqq chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/QCPSuperimposer/qcprotmodule.cpython-311-x86_64-linux-gnu.so /tmp/vh3_RwGcK3/objcopyMTniqq cat '/tmp/vh3_RwGcK3/objcopyMTniqq' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/PDB/QCPSuperimposer/qcprotmodule.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/vh3_RwGcK3/objcopyMTniqq 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/1.81\+dfsg-1 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 24a81d4b74dc4222cc24ebefc65b5c1cb8e4f647 install -m0755 -d debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/24 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/24/a81d4b74dc4222cc24ebefc65b5c1cb8e4f647.debug chmod 0644 -- debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/24/a81d4b74dc4222cc24ebefc65b5c1cb8e4f647.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded -o /tmp/vh3_RwGcK3/stripcEbssq 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/vh3_RwGcK3/stripcEbssq cat '/tmp/vh3_RwGcK3/stripcEbssq' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Cluster/_cluster.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/vh3_RwGcK3/stripcEbssq 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/24/a81d4b74dc4222cc24ebefc65b5c1cb8e4f647.debug debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Cluster/_cluster.cpython-311-x86_64-linux-gnu.so /tmp/vh3_RwGcK3/objcopyG4KL3L chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Cluster/_cluster.cpython-311-x86_64-linux-gnu.so /tmp/vh3_RwGcK3/objcopyG4KL3L cat '/tmp/vh3_RwGcK3/objcopyG4KL3L' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Cluster/_cluster.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/vh3_RwGcK3/objcopyG4KL3L 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/1.81\+dfsg-1 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 793f846f6a924c159bacf3bb7f5176197cddb5f4 install -m0755 -d debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/79 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/79/3f846f6a924c159bacf3bb7f5176197cddb5f4.debug chmod 0644 -- debian/.debhelper/python3-biopython/dbgsym-root/usr/lib/debug/.build-id/79/3f846f6a924c159bacf3bb7f5176197cddb5f4.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded -o /tmp/vh3_RwGcK3/stripljY1yQ 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/vh3_RwGcK3/stripljY1yQ cat '/tmp/vh3_RwGcK3/stripljY1yQ' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/SeqIO/_twoBitIO.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/vh3_RwGcK3/stripljY1yQ 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/79/3f846f6a924c159bacf3bb7f5176197cddb5f4.debug debian/python3-biopython/usr/lib/python3/dist-packages/Bio/SeqIO/_twoBitIO.cpython-311-x86_64-linux-gnu.so /tmp/vh3_RwGcK3/objcopyXLDPDw chmod --reference debian/python3-biopython/usr/lib/python3/dist-packages/Bio/SeqIO/_twoBitIO.cpython-311-x86_64-linux-gnu.so /tmp/vh3_RwGcK3/objcopyXLDPDw cat '/tmp/vh3_RwGcK3/objcopyXLDPDw' > 'debian/python3-biopython/usr/lib/python3/dist-packages/Bio/SeqIO/_twoBitIO.cpython-311-x86_64-linux-gnu.so' chmod --reference /tmp/vh3_RwGcK3/objcopyXLDPDw debian/python3-biopython/usr/lib/python3/dist-packages/Bio/SeqIO/_twoBitIO.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/Nexus/cnexus.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 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/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 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/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=075d00662ea34a5facdb610aa1c557bc7155ac4a 13c0471ae085e343c093f3a3e10f905651668edb 24a81d4b74dc4222cc24ebefc65b5c1cb8e4f647 4b6dcfd84e9d553c4653e2689a7aa006846d7084 6f4ca2f99e21712a1323ba50e7ac844cb95a259f 793f846f6a924c159bacf3bb7f5176197cddb5f4 a2dfea8837c2323e1bbb9e04566552d8594ce10c e605643b49a011fa3d9c2c3dfab3fed00b08ee4c f9fdb6628b7bf8ec465ee67141ee4ad252457208" -DSection=debug -DPackage-Type=ddeb -UMulti-Arch -UReplaces -UBreaks 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 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 153 INFO: pkgstriptranslations version 153 INFO: pkgstriptranslations version 153 INFO: pkgstriptranslations version 153 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-dbgsym (in debian/.debhelper/python3-biopython/dbgsym-root); do_strip: , oemstrip: pkgstriptranslations: processing python3-biopython-sql (in debian/python3-biopython-sql); 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/python3-biopython/DEBIAN/control, package python3-biopython, directory debian/python3-biopython pkgstripfiles: processing control file: debian/python-biopython-doc/DEBIAN/control, package python-biopython-doc, directory debian/python-biopython-doc pkgstripfiles: Running PNG optimization (using 4 cpus) for package python3-biopython ... pkgstripfiles: No PNG files. dpkg-deb: building package 'python3-biopython' in '../python3-biopython_1.81+dfsg-1_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) ... 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_1.81+dfsg-1_all.deb'. Searching for duplicated docs in dependency python3-biopython... symlinking changelog.Debian.gz in python3-biopython-sql to file in python3-biopython symlinking NEWS.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_1.81+dfsg-1_all.deb'. pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " 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_1.81+dfsg-1_amd64.deb'. Renaming python3-biopython-dbgsym_1.81+dfsg-1_amd64.deb to python3-biopython-dbgsym_1.81+dfsg-1_amd64.ddeb mv debian/.debhelper/scratch-space/build-python3-biopython/python3-biopython-dbgsym_1.81\+dfsg-1_amd64.deb ../python3-biopython-dbgsym_1.81\+dfsg-1_amd64.ddeb dpkg-genbuildinfo --build=binary -O../python-biopython_1.81+dfsg-1_amd64.buildinfo dpkg-genchanges --build=binary -mLaunchpad Build Daemon -O../python-biopython_1.81+dfsg-1_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 2023-07-15T23:27:25Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ python-biopython_1.81+dfsg-1_amd64.changes: ------------------------------------------- Format: 1.8 Date: Mon, 10 Jul 2023 22:50:52 +0200 Source: python-biopython Binary: python-biopython-doc python3-biopython python3-biopython-sql Built-For-Profiles: noudeb Architecture: all amd64 Version: 1.81+dfsg-1 Distribution: mantic-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Étienne Mollier 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 (1.81+dfsg-1) unstable; urgency=medium . * Migrate biopython 1.81 to unstable. * Merges fixes from python-biopython 1.80+dfsg-6. 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Binary: python-biopython-doc python3-biopython python3-biopython-dbgsym python3-biopython-sql Architecture: all amd64 Version: 1.81+dfsg-1 Checksums-Md5: e145519bf106d07cbe0b074916c5a3a0 17332100 python-biopython-doc_1.81+dfsg-1_all.deb 65f244d2a69f8c50cef6eb9dd6d42013 315216 python3-biopython-dbgsym_1.81+dfsg-1_amd64.ddeb c52036bb7401ba3f1332eef4ad624c09 25564 python3-biopython-sql_1.81+dfsg-1_all.deb 093a28e0c4ef2a8a0ffc8161c2d4e5db 1644152 python3-biopython_1.81+dfsg-1_amd64.deb Checksums-Sha1: d0a798e1c094cef30f1160ebd3b3fd9c2f967c77 17332100 python-biopython-doc_1.81+dfsg-1_all.deb 1596c977fa66e35cacf1829501f3d5a4b866a14f 315216 python3-biopython-dbgsym_1.81+dfsg-1_amd64.ddeb e2ee81ef3c72c049a381a3a62b98b6f8d49a8f69 25564 python3-biopython-sql_1.81+dfsg-1_all.deb 6ab50d1192efed95d3b98082fe9a91875c4c6392 1644152 python3-biopython_1.81+dfsg-1_amd64.deb Checksums-Sha256: 199a4223d4ad4520ece3ed7ff50ec9df0228810b2c4f240c7e3207fa107b220a 17332100 python-biopython-doc_1.81+dfsg-1_all.deb b924fcbf8b62cbcf4fcbe93e412abc8c70a7a061a3bebfb6358329b6d7ba8562 315216 python3-biopython-dbgsym_1.81+dfsg-1_amd64.ddeb ddabafc0b2dfc0367fc79d507e31ae573012695db5959c696ead9fb42a449997 25564 python3-biopython-sql_1.81+dfsg-1_all.deb 73275b7999f6719a14af9293df9cad0bd5b006da42523778db12ccd2f21bae81 1644152 python3-biopython_1.81+dfsg-1_amd64.deb Build-Origin: Ubuntu Build-Architecture: amd64 Build-Date: Sat, 15 Jul 2023 23:27:25 +0000 Build-Path: /<> Build-Tainted-By: merged-usr-via-aliased-dirs usr-local-has-programs Installed-Build-Depends: adduser (= 3.137ubuntu1), autoconf (= 2.71-3), automake (= 1:1.16.5-1.3), autopoint (= 0.21-13), autotools-dev (= 20220109.1), base-files (= 13ubuntu1), base-passwd (= 3.6.1), bash (= 5.2.15-2ubuntu1), binutils (= 2.40.90.20230714-2ubuntu1), binutils-common (= 2.40.90.20230714-2ubuntu1), binutils-x86-64-linux-gnu (= 2.40.90.20230714-2ubuntu1), blt (= 2.5.3+dfsg-4.1build2), bsdextrautils (= 2.38.1-5ubuntu2), bsdutils (= 1:2.38.1-5ubuntu2), build-essential (= 12.10ubuntu1), 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 (= 4:13.1.0-4ubuntu2), cpp-12 (= 12.3.0-6ubuntu1), cpp-13 (= 13.1.0-8ubuntu1), dash (= 0.5.12-2ubuntu1), debconf (= 1.5.82), debhelper (= 13.11.4ubuntu3), debianutils (= 5.8-1), debugedit (= 1:5.0-5), dh-autoreconf (= 20), dh-python (= 6.20230603), dh-strip-nondeterminism (= 1.13.1-1), dialign (= 2.2.1-11), diffutils (= 1:3.8-4), dpkg (= 1.21.22ubuntu1), dpkg-dev (= 1.21.22ubuntu1), 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 (= 4.9.0-5), flex (= 2.6.4-8.2), fontconfig-config (= 2.14.1-4ubuntu1), fonts-dejavu-core (= 2.37-6), fonts-lmodern (= 2.005-1), fonts-lyx (= 2.3.7-1), fonts-urw-base35 (= 20200910-7), g++ (= 4:13.1.0-4ubuntu2), g++-12 (= 12.3.0-6ubuntu1), g++-13 (= 13.1.0-8ubuntu1), gcc (= 4:13.1.0-4ubuntu2), gcc-12 (= 12.3.0-6ubuntu1), gcc-12-base (= 12.3.0-6ubuntu1), gcc-13 (= 13.1.0-8ubuntu1), gcc-13-base (= 13.1.0-8ubuntu1), gettext (= 0.21-13), gettext-base (= 0.21-13), ghostscript (= 10.0.0~dfsg1-0ubuntu2), grep (= 3.8-5), groff-base (= 1.23.0-2), 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-1.6ubuntu1), imagemagick-6-common (= 8:6.9.11.60+dfsg-1.6ubuntu1), imagemagick-6.q16 (= 8:6.9.11.60+dfsg-1.6ubuntu1), init-system-helpers (= 1.65.2), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.3.1-3), libapache-pom-java (= 29-2), libarchive-zip-perl (= 1.68-1), libargtable2-0 (= 13-1.1), libasan8 (= 13.1.0-8ubuntu1), libatomic1 (= 13.1.0-8ubuntu1), libattr1 (= 1:2.5.1-4), libaudit-common (= 1:3.1.1-1), libaudit1 (= 1:3.1.1-1), libavahi-client3 (= 0.8-10ubuntu1), libavahi-common-data (= 0.8-10ubuntu1), libavahi-common3 (= 0.8-10ubuntu1), libbinutils (= 2.40.90.20230714-2ubuntu1), libblas3 (= 3.11.0-2), libblkid1 (= 2.38.1-5ubuntu2), libboost-dev (= 1.74.0.3ubuntu7), libboost-regex1.74.0 (= 1.74.0+ds1-21.2ubuntu1), libboost1.74-dev (= 1.74.0+ds1-21.2ubuntu1), libbrotli1 (= 1.0.9-2build8), libbsd0 (= 0.11.7-4), libbz2-1.0 (= 1.0.8-5build1), libc-bin (= 2.37-0ubuntu2), libc-dev-bin (= 2.37-0ubuntu2), libc6 (= 2.37-0ubuntu2), libc6-dev (= 2.37-0ubuntu2), libcairo2 (= 1.17.8-2), libcap-ng0 (= 0.8.3-1build2), libcap2 (= 1:2.66-4ubuntu1), libcbor0.8 (= 0.8.0-2ubuntu1), libcc1-0 (= 13.1.0-8ubuntu1), libcifpp-data (= 5.0.7.1-1build1), libcifpp5 (= 5.0.7.1-1build1), libcom-err2 (= 1.47.0-1ubuntu2), libcommons-logging-java (= 1.2-3), libcommons-parent-java (= 56-1), libcrypt-dev (= 1:4.4.35-1), libcrypt1 (= 1:4.4.35-1), libctf-nobfd0 (= 2.40.90.20230714-2ubuntu1), libctf0 (= 2.40.90.20230714-2ubuntu1), libcups2 (= 2.4.5-0ubuntu2), libcurl3-gnutls (= 7.88.1-10ubuntu1), libdb5.3 (= 5.3.28+dfsg2-1), libdbus-1-3 (= 1.14.6-1ubuntu1), libdebconfclient0 (= 0.270ubuntu1), libdebhelper-perl (= 13.11.4ubuntu3), libdeflate0 (= 1.15-1), libdpkg-perl (= 1.21.22ubuntu1), libdw1 (= 0.189-4), libedit2 (= 3.1-20221030-2), libelf1 (= 0.189-4), libevent-core-2.1-7 (= 2.1.12-stable-8ubuntu3), libevent-pthreads-2.1-7 (= 2.1.12-stable-8ubuntu3), libexpat1 (= 2.5.0-2), libexpat1-dev (= 2.5.0-2), libfabric1 (= 1.17.0-3), libffi8 (= 3.4.4-1), libfftw3-double3 (= 3.3.10-1ubuntu1), libfido2-1 (= 1.13.0-1), libfile-stripnondeterminism-perl (= 1.13.1-1), libfontbox-java (= 1:1.8.16-3), libfontconfig1 (= 2.14.1-4ubuntu1), libfontenc1 (= 1:1.1.4-1build3), libfreetype6 (= 2.13.0+dfsg-1), libfribidi0 (= 1.0.13-3), libgcc-12-dev (= 12.3.0-6ubuntu1), libgcc-13-dev (= 13.1.0-8ubuntu1), libgcc-s1 (= 13.1.0-8ubuntu1), libgcrypt20 (= 1.10.2-2ubuntu1), libgd3 (= 2.3.3-9ubuntu1), libgdbm-compat4 (= 1.23-3), libgdbm6 (= 1.23-3), libgfortran5 (= 13.1.0-8ubuntu1), libglib2.0-0 (= 2.77.0-0ubuntu2), libgmp10 (= 2:6.2.1+dfsg1-1.1ubuntu2), libgnutls30 (= 3.7.9-2ubuntu1), libgomp1 (= 13.1.0-8ubuntu1), libgpg-error0 (= 1.46-1), libgprofng0 (= 2.40.90.20230714-2ubuntu1), libgraphite2-3 (= 1.3.14-1build2), libgs-common (= 10.0.0~dfsg1-0ubuntu2), libgs10 (= 10.0.0~dfsg1-0ubuntu2), libgs10-common (= 10.0.0~dfsg1-0ubuntu2), libgssapi-krb5-2 (= 1.20.1-2), libharfbuzz0b (= 8.0.1-1), libheif1 (= 1.16.2-1ubuntu1), libhogweed6 (= 3.8.1-2), libhpdf-2.3.0 (= 2.3.0+dfsg-1build1), libhts3 (= 1.17+ds-1), libhtscodecs2 (= 1.5.0-1), libhwasan0 (= 13.1.0-8ubuntu1), libhwloc-plugins (= 2.9.2-1), libhwloc15 (= 2.9.2-1), libibverbs1 (= 44.0-2), libice6 (= 2:1.0.10-1build2), libicu72 (= 72.1-3ubuntu2), libidn12 (= 1.41-1), libidn2-0 (= 2.3.4-1), libijs-0.35 (= 0.35-15.1), libimagequant0 (= 2.17.0-1), libisl23 (= 0.26-3), libitm1 (= 13.1.0-8ubuntu1), libjansson4 (= 2.14-2), libjbig0 (= 2.1-6.1ubuntu1), 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 (= 5.3.0-4), libjs-underscore (= 1.13.4~dfsg+~1.11.4-3), libk5crypto3 (= 1.20.1-2), libkeyutils1 (= 1.6.3-2), libkpathsea6 (= 2022.20220321.62855-7), libkrb5-3 (= 1.20.1-2), libkrb5support0 (= 1.20.1-2), liblapack3 (= 3.11.0-2), liblbfgsb0 (= 3.0+dfsg.4-1), liblcms2-2 (= 2.14-2), libldap2 (= 2.6.4+dfsg-1~exp1ubuntu1), liblerc4 (= 4.0.0+ds-2ubuntu2), liblmdb0 (= 0.9.24-1build2), liblqr-1-0 (= 0.4.2-2.1), liblsan0 (= 13.1.0-8ubuntu1), 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-1.6ubuntu1), libmagickwand-6.q16-6 (= 8:6.9.11.60+dfsg-1.6ubuntu1), libmbedcrypto7 (= 2.28.3-1), libmbedtls14 (= 2.28.3-1), libmbedx509-1 (= 2.28.3-1), libmd0 (= 1.1.0-1), libmount1 (= 2.38.1-5ubuntu2), libmpc3 (= 1.3.1-1), libmpfr6 (= 4.2.0-1), libmunge2 (= 0.5.15-2), libmysqlclient21 (= 8.0.33-2), libncurses6 (= 6.4+20230625-1), libncursesw6 (= 6.4+20230625-1), libnetpbm11 (= 2:11.01.00-2build1), libnettle8 (= 3.8.1-2), libnghttp2-14 (= 1.54.0-1), 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 (= 0.3.23+ds-2), libopenblas-pthread-dev (= 0.3.23+ds-2), libopenblas0 (= 0.3.23+ds-2), libopenblas0-pthread (= 0.3.23+ds-2), libopenjp2-7 (= 2.5.0-2), libopenmpi3 (= 4.1.5-2ubuntu1), libp11-kit0 (= 0.24.1-2ubuntu1), libpam-modules (= 1.5.2-6ubuntu1), libpam-modules-bin (= 1.5.2-6ubuntu1), libpam-runtime (= 1.5.2-6ubuntu1), libpam0g (= 1.5.2-6ubuntu1), libpaper-utils (= 1.1.29), libpaper1 (= 1.1.29), libpciaccess0 (= 0.17-2), libpcre2-8-0 (= 10.42-2), libpcre3 (= 2:8.39-15), libpdfbox-java (= 1:1.8.16-3), libperl5.36 (= 5.36.0-7ubuntu1), libpipeline1 (= 1.5.7-1), libpixman-1-0 (= 0.42.2-1), libpmix2 (= 5.0.0~rc1-2), libpng16-16 (= 1.6.40-1), libpq5 (= 15.3-1), libpsl5 (= 0.21.2-1), libpsm-infinipath1 (= 3.3+20.604758e7-6.2), libpsm2-2 (= 11.2.185-2), libptexenc1 (= 2022.20220321.62855-7), libpython3-all-dev (= 3.11.4-5), libpython3-dev (= 3.11.4-5), libpython3-stdlib (= 3.11.4-5), libpython3.11 (= 3.11.4-1), libpython3.11-dev (= 3.11.4-1), libpython3.11-minimal (= 3.11.4-1), libpython3.11-stdlib (= 3.11.4-1), libqhull-r8.0 (= 2020.2-6), libquadmath0 (= 13.1.0-8ubuntu1), libraqm0 (= 0.10.1-1), librdmacm1 (= 44.0-2), libreadline8 (= 8.2-1.3), librtmp1 (= 2.4+20151223.gitfa8646d.1-2build4), libsasl2-2 (= 2.1.28+dfsg1-1), libsasl2-modules-db (= 2.1.28+dfsg1-1), libseccomp2 (= 2.5.4-1ubuntu3), libselinux1 (= 3.5-1), libsemanage-common (= 3.5-1), libsemanage2 (= 3.5-1), libsepol2 (= 3.5-1), libsframe1 (= 2.40.90.20230714-2ubuntu1), libsm6 (= 2:1.2.3-1build2), libsmartcols1 (= 2.38.1-5ubuntu2), libsqlite3-0 (= 3.42.0-1), libssh-4 (= 0.10.5-2), libssl3 (= 3.0.9-1ubuntu1), libstdc++-12-dev (= 12.3.0-6ubuntu1), libstdc++-13-dev (= 13.1.0-8ubuntu1), libstdc++6 (= 13.1.0-8ubuntu1), libsub-override-perl (= 0.09-4), libsynctex2 (= 2022.20220321.62855-7), libsystemd0 (= 253.5-1ubuntu1), libtasn1-6 (= 4.19.0-3), libtcl8.6 (= 8.6.13+dfsg-2), libteckit0 (= 2.5.11+ds1-1), libtexlua53-5 (= 2022.20220321.62855-7), libtexluajit2 (= 2022.20220321.62855-7), libtiff6 (= 4.5.0-6ubuntu1), libtinfo6 (= 6.4+20230625-1), 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 (= 13.1.0-8ubuntu1), libubsan1 (= 13.1.0-8ubuntu1), libuchardet0 (= 0.0.7-1build2), libucx0 (= 1.15.0~rc1-2), libudev1 (= 253.5-1ubuntu1), libunistring2 (= 1.0-2), libuuid1 (= 2.38.1-5ubuntu2), libwebp7 (= 1.2.4-0.2), libwebpdemux2 (= 1.2.4-0.2), libwebpmux3 (= 1.2.4-0.2), libx11-6 (= 2:1.8.6-1), libx11-data (= 2:1.8.6-1), 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-1.3), 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 (= 1:1.2.1-1.1), libzstd1 (= 1.5.5+dfsg2-1ubuntu2), libzzip-0-13 (= 0.13.72+dfsg.1-1.1), linux-libc-dev (= 6.3.0-7.7), login (= 1:4.13+dfsg1-1ubuntu1), lsb-base (= 11.6), lto-disabled-list (= 41), m4 (= 1.4.19-3), mafft (= 7.505-1), mailcap (= 3.70+nmu1ubuntu1), make (= 4.3-4.1build1), man-db (= 2.11.2-2), mawk (= 1.3.4.20230525-1), media-types (= 10.1.0), 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+20230625-1), ncurses-bin (= 6.4+20230625-1), netpbm (= 2:11.01.00-2build1), ocl-icd-libopencl1 (= 2.3.2-1), openmpi-bin (= 4.1.5-2ubuntu1), openmpi-common (= 4.1.5-2ubuntu1), openssh-client (= 1:9.3p1-1ubuntu1), passwd (= 1:4.13+dfsg1-1ubuntu1), patch (= 2.7.6-7build2), perl (= 5.36.0-7ubuntu1), perl-base (= 5.36.0-7ubuntu1), perl-modules-5.36 (= 5.36.0-7ubuntu1), 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 (= 3.6.3-1ubuntu2), python3 (= 3.11.4-5), python3-all (= 3.11.4-5), python3-all-dev (= 3.11.4-5), python3-appdirs (= 1.4.4-4), python3-attr (= 23.1.0-1), python3-beniget (= 0.4.1-3), python3-brotli (= 1.0.9-2build8), python3-cairo (= 1.24.0-1), python3-contourpy (= 1.0.7-1build1), python3-cycler (= 0.11.0-1), python3-dateutil (= 2.8.2-2), python3-decorator (= 5.1.1-3), python3-dev (= 3.11.4-5), python3-distutils (= 3.11.4-1), python3-fonttools (= 4.38.0-1build1), python3-freetype (= 2.4.0-1), 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 (= 3.11.4-1), python3-lxml (= 4.9.3-1), python3-lz4 (= 4.0.2+dfsg-1build1), python3-matplotlib (= 3.6.3-1ubuntu2), python3-minimal (= 3.11.4-5), python3-mmtf (= 1.1.3-1), python3-mpmath (= 1.2.1-2), python3-msgpack (= 1.0.3-2build1), python3-mysqldb (= 1.4.6-2build1), python3-networkx (= 2.8.8-1ubuntu1), python3-numpy (= 1:1.24.2-1), python3-packaging (= 23.1-1), python3-pil (= 10.0.0-1), python3-pil.imagetk (= 10.0.0-1), python3-pkg-resources (= 68.0.0-1), python3-ply (= 3.11-5), python3-psycopg2 (= 2.9.6-2), python3-pygments (= 2.15.1+dfsg-1), python3-pyparsing (= 3.1.0-1), python3-pythran (= 0.11.0+ds-7), python3-rdflib (= 6.1.1-1), python3-reportlab (= 4.0.4-9), python3-rlpycairo (= 0.3.0-2), python3-scipy (= 1.10.1-2), python3-setuptools (= 68.0.0-1), python3-six (= 1.16.0-4), python3-sympy (= 1.12-2), python3-tk (= 3.11.4-1), python3-tz (= 2023.3-3), python3-ufolib2 (= 0.14.0+dfsg1-1), python3-unittest2 (= 1.1.0-9), python3.11 (= 3.11.4-1), python3.11-dev (= 3.11.4-1), python3.11-minimal (= 3.11.4-1), raxml (= 8.2.12+dfsg-8), readline-common (= 8.2-1.3), rpcsvc-proto (= 1.4.2-0ubuntu6), samtools (= 1.17-1), sed (= 4.9-1), sensible-utils (= 0.0.20), sgml-base (= 1.31), sysvinit-utils (= 3.06-4ubuntu1), t-coffee (= 13.45.0.4846264+really13.41.0.28bdc39+dfsg-1), t1utils (= 1.41-4build2), tar (= 1.34+dfsg-1.2ubuntu1), tex-common (= 6.18), texlive-base (= 2022.20230122-3), texlive-binaries (= 2022.20220321.62855-7), texlive-fonts-recommended (= 2022.20230122-3), texlive-latex-base (= 2022.20230122-3), texlive-latex-extra (= 2022.20230122-4), texlive-latex-recommended (= 2022.20230122-3), texlive-pictures (= 2022.20230122-3), tk8.6-blt2.5 (= 2.5.3+dfsg-4.1build2), ttf-bitstream-vera (= 1.10-8.2), tzdata (= 2023c-7ubuntu1), ucf (= 3.0043+nmu1), unicode-data (= 15.0.0-1), usrmerge (= 35ubuntu1), util-linux (= 2.38.1-5ubuntu2), util-linux-extra (= 2.38.1-5ubuntu2), 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="1689022252" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ python-biopython-doc_1.81+dfsg-1_all.deb ---------------------------------------- new Debian package, version 2.0. size 17332100 bytes: control archive=41585 bytes. 637 bytes, 18 lines control 177682 bytes, 1709 lines md5sums Package: python-biopython-doc Source: python-biopython Version: 1.81+dfsg-1 Architecture: all Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 20565 Recommends: python3-biopython (= 1.81+dfsg-1) 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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./usr/share/doc/python3-biopython/copyright drwxr-xr-x root/root 0 2023-07-10 20:50 ./usr/share/lintian/ drwxr-xr-x root/root 0 2023-07-10 20:50 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 188 2023-07-10 20:50 ./usr/share/lintian/overrides/python3-biopython +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: binary Build-Space: 393124 Build-Time: 466 Distribution: mantic-proposed Host Architecture: amd64 Install-Time: 105 Job: python-biopython_1.81+dfsg-1.dsc Machine Architecture: amd64 Package: python-biopython Package-Time: 571 Source-Version: 1.81+dfsg-1 Space: 393124 Status: successful Version: 1.81+dfsg-1 -------------------------------------------------------------------------------- Finished at 2023-07-15T23:27:25Z Build needed 00:09:31, 393124k disk space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=mantic --arch=amd64 PACKAGEBUILD-26424722 Scanning for processes to kill in build PACKAGEBUILD-26424722