Diff of the two buildlogs: -- --- b1/build.log 2020-09-01 17:23:56.816676917 +0000 +++ b2/build.log 2020-09-01 17:50:31.952918836 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue Sep 1 05:15:32 -12 2020 -I: pbuilder-time-stamp: 1598980532 +I: Current time: Wed Sep 2 07:24:15 +14 2020 +I: pbuilder-time-stamp: 1598981055 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-reproducible-base.tgz] I: copying local configuration @@ -17,7 +17,7 @@ I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error -gpgv: Signature made Sat Oct 27 10:53:18 2018 -12 +gpgv: Signature made Sun Oct 28 12:53:18 2018 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key @@ -27,136 +27,170 @@ dpkg-source: info: unpacking bioperl_1.7.2-3.debian.tar.xz I: using fakeroot in build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/24394/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/31395/tmp/hooks/D01_modify_environment starting +debug: Running on wbq0. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' +Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' +Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' +Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by bash' +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/31395/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/31395/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='armhf' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3' - DISTRIBUTION='' - HOME='/root' - HOST_ARCH='armhf' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:hostcomplete:interactive_comments:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="0" [2]="3" [3]="1" [4]="release" [5]="arm-unknown-linux-gnueabihf") + BASH_VERSION='5.0.3(1)-release' + BUILDDIR=/build + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=armhf + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=4' + DIRSTACK=() + DISTRIBUTION= + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=arm + HOST_ARCH=armhf IFS=' ' - INVOCATION_ID='750a2a0be068431dbc1c1adfc6cad88b' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='24394' - PS1='# ' - PS2='> ' + INVOCATION_ID=4b517542c5bc4dd7b4785ce8c30094ae + LANG=C + LANGUAGE=it_CH:it + LC_ALL=C + MACHTYPE=arm-unknown-linux-gnueabihf + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnueabihf + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=31395 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.GGXlRteIsE/pbuilderrc_SStH --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.GGXlRteIsE/b1 --logfile b1/build.log bioperl_1.7.2-3.dsc' - SUDO_GID='114' - SUDO_UID='109' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://10.0.0.15:8000/' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.GGXlRteIsE/pbuilderrc_Bb6Y --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.GGXlRteIsE/b2 --logfile b2/build.log bioperl_1.7.2-3.dsc' + SUDO_GID=115 + SUDO_UID=111 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://10.0.0.15:8000/ I: uname -a - Linux ff2a 4.19.0-10-armmp-lpae #1 SMP Debian 4.19.132-1 (2020-07-24) armv7l GNU/Linux + Linux i-capture-the-hostname 4.19.0-10-armmp #1 SMP Debian 4.19.132-1 (2020-07-24) armv7l GNU/Linux I: ls -l /bin total 3328 - -rwxr-xr-x 1 root root 767656 Apr 17 2019 bash - -rwxr-xr-x 3 root root 26052 Jul 10 2019 bunzip2 - -rwxr-xr-x 3 root root 26052 Jul 10 2019 bzcat - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzcmp -> bzdiff - -rwxr-xr-x 1 root root 2227 Jul 10 2019 bzdiff - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzegrep -> bzgrep - -rwxr-xr-x 1 root root 4877 Jun 24 2019 bzexe - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzfgrep -> bzgrep - -rwxr-xr-x 1 root root 3641 Jul 10 2019 bzgrep - -rwxr-xr-x 3 root root 26052 Jul 10 2019 bzip2 - -rwxr-xr-x 1 root root 9636 Jul 10 2019 bzip2recover - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzless -> bzmore - -rwxr-xr-x 1 root root 1297 Jul 10 2019 bzmore - -rwxr-xr-x 1 root root 22432 Feb 28 2019 cat - -rwxr-xr-x 1 root root 38868 Feb 28 2019 chgrp - -rwxr-xr-x 1 root root 38836 Feb 28 2019 chmod - -rwxr-xr-x 1 root root 42972 Feb 28 2019 chown - -rwxr-xr-x 1 root root 88376 Feb 28 2019 cp - -rwxr-xr-x 1 root root 75516 Jan 17 2019 dash - -rwxr-xr-x 1 root root 71648 Feb 28 2019 date - -rwxr-xr-x 1 root root 51212 Feb 28 2019 dd - -rwxr-xr-x 1 root root 55672 Feb 28 2019 df - -rwxr-xr-x 1 root root 88444 Feb 28 2019 dir - -rwxr-xr-x 1 root root 54872 Jan 9 2019 dmesg - lrwxrwxrwx 1 root root 8 Sep 26 2018 dnsdomainname -> hostname - lrwxrwxrwx 1 root root 8 Sep 26 2018 domainname -> hostname - -rwxr-xr-x 1 root root 22364 Feb 28 2019 echo - -rwxr-xr-x 1 root root 28 Jan 7 2019 egrep - -rwxr-xr-x 1 root root 18260 Feb 28 2019 false - -rwxr-xr-x 1 root root 28 Jan 7 2019 fgrep - -rwxr-xr-x 1 root root 47356 Jan 9 2019 findmnt - -rwsr-xr-x 1 root root 21980 Apr 22 07:38 fusermount - -rwxr-xr-x 1 root root 124508 Jan 7 2019 grep - -rwxr-xr-x 2 root root 2345 Jan 5 2019 gunzip - -rwxr-xr-x 1 root root 6375 Jan 5 2019 gzexe - -rwxr-xr-x 1 root root 64232 Jan 5 2019 gzip - -rwxr-xr-x 1 root root 13784 Sep 26 2018 hostname - -rwxr-xr-x 1 root root 43044 Feb 28 2019 ln - -rwxr-xr-x 1 root root 34932 Jul 26 2018 login - -rwxr-xr-x 1 root root 88444 Feb 28 2019 ls - -rwxr-xr-x 1 root root 67036 Jan 9 2019 lsblk - -rwxr-xr-x 1 root root 47168 Feb 28 2019 mkdir - -rwxr-xr-x 1 root root 43040 Feb 28 2019 mknod - -rwxr-xr-x 1 root root 26552 Feb 28 2019 mktemp - -rwxr-xr-x 1 root root 26024 Jan 9 2019 more - -rwsr-xr-x 1 root root 34268 Jan 9 2019 mount - -rwxr-xr-x 1 root root 9688 Jan 9 2019 mountpoint - -rwxr-xr-x 1 root root 84284 Feb 28 2019 mv - lrwxrwxrwx 1 root root 8 Sep 26 2018 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Feb 14 2019 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 22416 Feb 28 2019 pwd - lrwxrwxrwx 1 root root 4 Apr 17 2019 rbash -> bash - -rwxr-xr-x 1 root root 26504 Feb 28 2019 readlink - -rwxr-xr-x 1 root root 42968 Feb 28 2019 rm - -rwxr-xr-x 1 root root 26496 Feb 28 2019 rmdir - -rwxr-xr-x 1 root root 14136 Jan 21 2019 run-parts - -rwxr-xr-x 1 root root 76012 Dec 22 2018 sed - lrwxrwxrwx 1 root root 4 Aug 30 20:24 sh -> dash - -rwxr-xr-x 1 root root 22384 Feb 28 2019 sleep - -rwxr-xr-x 1 root root 51124 Feb 28 2019 stty - -rwsr-xr-x 1 root root 42472 Jan 9 2019 su - -rwxr-xr-x 1 root root 22392 Feb 28 2019 sync - -rwxr-xr-x 1 root root 283324 Apr 23 2019 tar - -rwxr-xr-x 1 root root 9808 Jan 21 2019 tempfile - -rwxr-xr-x 1 root root 63464 Feb 28 2019 touch - -rwxr-xr-x 1 root root 18260 Feb 28 2019 true - -rwxr-xr-x 1 root root 9636 Apr 22 07:38 ulockmgr_server - -rwsr-xr-x 1 root root 21976 Jan 9 2019 umount - -rwxr-xr-x 1 root root 22380 Feb 28 2019 uname - -rwxr-xr-x 2 root root 2345 Jan 5 2019 uncompress - -rwxr-xr-x 1 root root 88444 Feb 28 2019 vdir - -rwxr-xr-x 1 root root 21980 Jan 9 2019 wdctl - -rwxr-xr-x 1 root root 946 Jan 21 2019 which - lrwxrwxrwx 1 root root 8 Sep 26 2018 ypdomainname -> hostname - -rwxr-xr-x 1 root root 1983 Jan 5 2019 zcat - -rwxr-xr-x 1 root root 1677 Jan 5 2019 zcmp - -rwxr-xr-x 1 root root 5879 Jan 5 2019 zdiff - -rwxr-xr-x 1 root root 29 Jan 5 2019 zegrep - -rwxr-xr-x 1 root root 29 Jan 5 2019 zfgrep - -rwxr-xr-x 1 root root 2080 Jan 5 2019 zforce - -rwxr-xr-x 1 root root 7584 Jan 5 2019 zgrep - -rwxr-xr-x 1 root root 2205 Jan 5 2019 zless - -rwxr-xr-x 1 root root 1841 Jan 5 2019 zmore - -rwxr-xr-x 1 root root 4552 Jan 5 2019 znew -I: user script /srv/workspace/pbuilder/24394/tmp/hooks/D02_print_environment finished + -rwxr-xr-x 1 root root 767656 Apr 18 2019 bash + -rwxr-xr-x 3 root root 26052 Jul 11 2019 bunzip2 + -rwxr-xr-x 3 root root 26052 Jul 11 2019 bzcat + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzcmp -> bzdiff + -rwxr-xr-x 1 root root 2227 Jul 11 2019 bzdiff + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzegrep -> bzgrep + -rwxr-xr-x 1 root root 4877 Jun 25 2019 bzexe + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzfgrep -> bzgrep + -rwxr-xr-x 1 root root 3641 Jul 11 2019 bzgrep + -rwxr-xr-x 3 root root 26052 Jul 11 2019 bzip2 + -rwxr-xr-x 1 root root 9636 Jul 11 2019 bzip2recover + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzless -> bzmore + -rwxr-xr-x 1 root root 1297 Jul 11 2019 bzmore + -rwxr-xr-x 1 root root 22432 Mar 1 2019 cat + -rwxr-xr-x 1 root root 38868 Mar 1 2019 chgrp + -rwxr-xr-x 1 root root 38836 Mar 1 2019 chmod + -rwxr-xr-x 1 root root 42972 Mar 1 2019 chown + -rwxr-xr-x 1 root root 88376 Mar 1 2019 cp + -rwxr-xr-x 1 root root 75516 Jan 18 2019 dash + -rwxr-xr-x 1 root root 71648 Mar 1 2019 date + -rwxr-xr-x 1 root root 51212 Mar 1 2019 dd + -rwxr-xr-x 1 root root 55672 Mar 1 2019 df + -rwxr-xr-x 1 root root 88444 Mar 1 2019 dir + -rwxr-xr-x 1 root root 54872 Jan 10 2019 dmesg + lrwxrwxrwx 1 root root 8 Sep 27 2018 dnsdomainname -> hostname + lrwxrwxrwx 1 root root 8 Sep 27 2018 domainname -> hostname + -rwxr-xr-x 1 root root 22364 Mar 1 2019 echo + -rwxr-xr-x 1 root root 28 Jan 8 2019 egrep + -rwxr-xr-x 1 root root 18260 Mar 1 2019 false + -rwxr-xr-x 1 root root 28 Jan 8 2019 fgrep + -rwxr-xr-x 1 root root 47356 Jan 10 2019 findmnt + -rwsr-xr-x 1 root root 21980 Apr 23 09:38 fusermount + -rwxr-xr-x 1 root root 124508 Jan 8 2019 grep + -rwxr-xr-x 2 root root 2345 Jan 6 2019 gunzip + -rwxr-xr-x 1 root root 6375 Jan 6 2019 gzexe + -rwxr-xr-x 1 root root 64232 Jan 6 2019 gzip + -rwxr-xr-x 1 root root 13784 Sep 27 2018 hostname + -rwxr-xr-x 1 root root 43044 Mar 1 2019 ln + -rwxr-xr-x 1 root root 34932 Jul 27 2018 login + -rwxr-xr-x 1 root root 88444 Mar 1 2019 ls + -rwxr-xr-x 1 root root 67036 Jan 10 2019 lsblk + -rwxr-xr-x 1 root root 47168 Mar 1 2019 mkdir + -rwxr-xr-x 1 root root 43040 Mar 1 2019 mknod + -rwxr-xr-x 1 root root 26552 Mar 1 2019 mktemp + -rwxr-xr-x 1 root root 26024 Jan 10 2019 more + -rwsr-xr-x 1 root root 34268 Jan 10 2019 mount + -rwxr-xr-x 1 root root 9688 Jan 10 2019 mountpoint + -rwxr-xr-x 1 root root 84284 Mar 1 2019 mv + lrwxrwxrwx 1 root root 8 Sep 27 2018 nisdomainname -> hostname + lrwxrwxrwx 1 root root 14 Feb 15 2019 pidof -> /sbin/killall5 + -rwxr-xr-x 1 root root 22416 Mar 1 2019 pwd + lrwxrwxrwx 1 root root 4 Apr 18 2019 rbash -> bash + -rwxr-xr-x 1 root root 26504 Mar 1 2019 readlink + -rwxr-xr-x 1 root root 42968 Mar 1 2019 rm + -rwxr-xr-x 1 root root 26496 Mar 1 2019 rmdir + -rwxr-xr-x 1 root root 14136 Jan 22 2019 run-parts + -rwxr-xr-x 1 root root 76012 Dec 23 2018 sed + lrwxrwxrwx 1 root root 4 Sep 2 07:24 sh -> bash + lrwxrwxrwx 1 root root 4 Aug 31 22:26 sh.distrib -> dash + -rwxr-xr-x 1 root root 22384 Mar 1 2019 sleep + -rwxr-xr-x 1 root root 51124 Mar 1 2019 stty + -rwsr-xr-x 1 root root 42472 Jan 10 2019 su + -rwxr-xr-x 1 root root 22392 Mar 1 2019 sync + -rwxr-xr-x 1 root root 283324 Apr 24 2019 tar + -rwxr-xr-x 1 root root 9808 Jan 22 2019 tempfile + -rwxr-xr-x 1 root root 63464 Mar 1 2019 touch + -rwxr-xr-x 1 root root 18260 Mar 1 2019 true + -rwxr-xr-x 1 root root 9636 Apr 23 09:38 ulockmgr_server + -rwsr-xr-x 1 root root 21976 Jan 10 2019 umount + -rwxr-xr-x 1 root root 22380 Mar 1 2019 uname + -rwxr-xr-x 2 root root 2345 Jan 6 2019 uncompress + -rwxr-xr-x 1 root root 88444 Mar 1 2019 vdir + -rwxr-xr-x 1 root root 21980 Jan 10 2019 wdctl + -rwxr-xr-x 1 root root 946 Jan 22 2019 which + lrwxrwxrwx 1 root root 8 Sep 27 2018 ypdomainname -> hostname + -rwxr-xr-x 1 root root 1983 Jan 6 2019 zcat + -rwxr-xr-x 1 root root 1677 Jan 6 2019 zcmp + -rwxr-xr-x 1 root root 5879 Jan 6 2019 zdiff + -rwxr-xr-x 1 root root 29 Jan 6 2019 zegrep + -rwxr-xr-x 1 root root 29 Jan 6 2019 zfgrep + -rwxr-xr-x 1 root root 2080 Jan 6 2019 zforce + -rwxr-xr-x 1 root root 7584 Jan 6 2019 zgrep + -rwxr-xr-x 1 root root 2205 Jan 6 2019 zless + -rwxr-xr-x 1 root root 1841 Jan 6 2019 zmore + -rwxr-xr-x 1 root root 4552 Jan 6 2019 znew +I: user script /srv/workspace/pbuilder/31395/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -503,7 +537,7 @@ Get: 223 http://deb.debian.org/debian buster/main armhf libxml-simple-perl all 2.25-1 [72.0 kB] Get: 224 http://deb.debian.org/debian buster/main armhf libxml-writer-perl all 0.625-1 [29.7 kB] Get: 225 http://deb.debian.org/debian buster/main armhf rename all 1.10-1 [17.2 kB] -Fetched 47.2 MB in 18s (2627 kB/s) +Fetched 47.2 MB in 8s (5967 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:armhf. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18932 files and directories currently installed.) @@ -1454,7 +1488,7 @@ fakeroot is already the newest version (1.23-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package -I: Running cd /build/bioperl-1.7.2/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b +I: Running cd /build/bioperl-1.7.2/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package bioperl dpkg-buildpackage: info: source version 1.7.2-3 dpkg-buildpackage: info: source distribution unstable @@ -1889,33 +1923,33 @@ 1..29 ok 1 - use Bio::AlignIO; ok 2 - An object of class 'Bio::SimpleAlign' isa 'Bio::AnnotatableI' -ok 3 - input filehandle method test : mase -ok 4 - input filehandle method test : pfam -ok 5 - input filehandle method test : stockholm -ok 6 - input filehandle method test : psi -ok 7 - input filehandle method test : xmfa -ok 8 - input filehandle method test : msf -ok 9 - input filehandle method test : fasta -ok 10 - input filehandle method test : selex -ok 11 - input filehandle method test : prodom -ok 12 - input filehandle method test : phylip -ok 13 - input filehandle method test : clustalw -ok 14 - input filehandle method test : nexus -ok 15 - input filehandle method test : po -ok 16 - input filehandle method test : arp -ok 17 - input filehandle method test : metafasta -ok 18 - filehandle output test : pfam -ok 19 - filehandle output test : stockholm -ok 20 - filehandle output test : psi -ok 21 - filehandle output test : xmfa -ok 22 - filehandle output test : msf -ok 23 - filehandle output test : fasta -ok 24 - filehandle output test : selex -ok 25 - filehandle output test : phylip -ok 26 - filehandle output test : clustalw -ok 27 - filehandle output test : nexus -ok 28 - filehandle output test : po -ok 29 - filehandle output test : metafasta +ok 3 - input filehandle method test : metafasta +ok 4 - input filehandle method test : nexus +ok 5 - input filehandle method test : phylip +ok 6 - input filehandle method test : clustalw +ok 7 - input filehandle method test : arp +ok 8 - input filehandle method test : selex +ok 9 - input filehandle method test : mase +ok 10 - input filehandle method test : prodom +ok 11 - input filehandle method test : psi +ok 12 - input filehandle method test : po +ok 13 - input filehandle method test : stockholm +ok 14 - input filehandle method test : pfam +ok 15 - input filehandle method test : msf +ok 16 - input filehandle method test : fasta +ok 17 - input filehandle method test : xmfa +ok 18 - filehandle output test : metafasta +ok 19 - filehandle output test : nexus +ok 20 - filehandle output test : phylip +ok 21 - filehandle output test : clustalw +ok 22 - filehandle output test : selex +ok 23 - filehandle output test : psi +ok 24 - filehandle output test : po +ok 25 - filehandle output test : stockholm +ok 26 - filehandle output test : pfam +ok 27 - filehandle output test : msf +ok 28 - filehandle output test : fasta +ok 29 - filehandle output test : xmfa ok t/AlignIO/arp.t ........................ 1..48 @@ -6054,23 +6088,23 @@ ok 17 - to_string looks reasonable ok 18 - There are 8 root InterPro terms ok 19 - An object of class 'Bio::Ontology::Ontology' isa 'Bio::Ontology::Ontology' -ok 20 - term Conserved Site in ontology InterPro +ok 20 - term Binding Site in ontology InterPro ok 21 - An object of class 'Bio::Ontology::Ontology' isa 'Bio::Ontology::Ontology' ok 22 - term Helix-turn-helix, AraC type in ontology InterPro ok 23 - An object of class 'Bio::Ontology::Ontology' isa 'Bio::Ontology::Ontology' -ok 24 - term Repeat in ontology InterPro +ok 24 - term Cdc20/Fizzy in ontology InterPro ok 25 - An object of class 'Bio::Ontology::Ontology' isa 'Bio::Ontology::Ontology' -ok 26 - term Cdc20/Fizzy in ontology InterPro +ok 26 - term Region in ontology InterPro ok 27 - An object of class 'Bio::Ontology::Ontology' isa 'Bio::Ontology::Ontology' -ok 28 - term post-translational modification in ontology InterPro +ok 28 - term Active Site in ontology InterPro ok 29 - An object of class 'Bio::Ontology::Ontology' isa 'Bio::Ontology::Ontology' -ok 30 - term Binding Site in ontology InterPro +ok 30 - term Repeat in ontology InterPro ok 31 - An object of class 'Bio::Ontology::Ontology' isa 'Bio::Ontology::Ontology' -ok 32 - term Integrins alpha chain in ontology InterPro +ok 32 - term Conserved Site in ontology InterPro ok 33 - An object of class 'Bio::Ontology::Ontology' isa 'Bio::Ontology::Ontology' -ok 34 - term Active Site in ontology InterPro +ok 34 - term Integrins alpha chain in ontology InterPro ok 35 - An object of class 'Bio::Ontology::Ontology' isa 'Bio::Ontology::Ontology' -ok 36 - term Region in ontology InterPro +ok 36 - term post-translational modification in ontology InterPro ok 37 - An object of class 'Bio::Ontology::Ontology' isa 'Bio::Ontology::Ontology' ok 38 - term Kringle in ontology InterPro ok 39 - An object of class 'Bio::Ontology::Ontology' isa 'Bio::Ontology::Ontology' @@ -7004,928 +7038,928 @@ ok t/PodSyntax.t .......................... 1..922 -ok 1 - POD test for Bio/LocationI.pm -ok 2 - POD test for Bio/RangeI.pm -ok 3 - POD test for Bio/OntologyIO.pm -ok 4 - POD test for Bio/ClusterIO.pm -ok 5 - POD test for Bio/AnnotationI.pm -ok 6 - POD test for Bio/DBLinkContainerI.pm -ok 7 - POD test for Bio/HandlerBaseI.pm -ok 8 - POD test for Bio/ClusterI.pm -ok 9 - POD test for Bio/LocatableSeq.pm -ok 10 - POD test for Bio/FeatureHolderI.pm -ok 11 - POD test for Bio/SearchIO.pm -ok 12 - POD test for Bio/MapIO.pm -ok 13 - POD test for Bio/SeqUtils.pm -ok 14 - POD test for Bio/PhyloNetwork.pm -ok 15 - POD test for Bio/UpdateableSeqI.pm -ok 16 - POD test for Bio/PrimarySeq.pm -ok 17 - POD test for Bio/SeqIO.pm -ok 18 - POD test for Bio/NexmlIO.pm -ok 19 - POD test for Bio/WebAgent.pm -ok 20 - POD test for Bio/SeqAnalysisParserI.pm -ok 21 - POD test for Bio/TreeIO.pm -ok 22 - POD test for Bio/Perl.pm -ok 23 - POD test for Bio/AlignIO.pm -ok 24 - POD test for Bio/Species.pm -ok 25 - POD test for 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777 - POD test for Bio/SeqFeature/Gene/ExonI.pm -ok 778 - POD test for Bio/SeqFeature/Gene/GeneStructure.pm -ok 779 - POD test for Bio/SeqFeature/Gene/UTR.pm -ok 780 - POD test for Bio/SeqFeature/Gene/Promoter.pm -ok 781 - POD test for Bio/SeqFeature/Gene/NC_Feature.pm -ok 782 - POD test for Bio/SeqFeature/Gene/Exon.pm -ok 783 - POD test for Bio/SeqFeature/Gene/GeneStructureI.pm -ok 784 - POD test for Bio/SeqFeature/Gene/TranscriptI.pm -ok 785 - POD test for Bio/SeqFeature/Gene/Transcript.pm -ok 786 - POD test for Bio/SeqFeature/Gene/Intron.pm -ok 787 - POD test for Bio/SeqFeature/Gene/Poly_A_site.pm +ok 431 - POD test for Bio/Search/Result/CrossMatchResult.pm +ok 432 - POD test for Bio/Search/Result/ResultFactory.pm +ok 433 - POD test for Bio/Search/Result/HMMERResult.pm +ok 434 - POD test for Bio/SeqFeature/CollectionI.pm +ok 435 - POD test for Bio/SeqFeature/Collection.pm +ok 436 - POD test for Bio/SeqFeature/SubSeq.pm +ok 437 - POD test for Bio/SeqFeature/Lite.pm +ok 438 - POD test for Bio/SeqFeature/PositionProxy.pm +ok 439 - POD test for Bio/SeqFeature/SimilarityPair.pm +ok 440 - POD test for Bio/SeqFeature/Primer.pm +ok 441 - POD test for Bio/SeqFeature/FeaturePair.pm +ok 442 - POD test for Bio/SeqFeature/TypedSeqFeatureI.pm +ok 443 - POD test for Bio/SeqFeature/Computation.pm +ok 444 - POD test for Bio/SeqFeature/AnnotationAdaptor.pm +ok 445 - POD test for Bio/SeqFeature/Amplicon.pm +ok 446 - POD test for Bio/SeqFeature/Similarity.pm +ok 447 - POD test for Bio/SeqFeature/Generic.pm +ok 448 - POD test for Bio/SeqFeature/Gene/UTR.pm +ok 449 - POD test for Bio/SeqFeature/Gene/ExonI.pm +ok 450 - POD test for Bio/SeqFeature/Gene/GeneStructureI.pm +ok 451 - POD test for Bio/SeqFeature/Gene/NC_Feature.pm +ok 452 - POD test for Bio/SeqFeature/Gene/GeneStructure.pm +ok 453 - POD test for Bio/SeqFeature/Gene/TranscriptI.pm +ok 454 - POD test for Bio/SeqFeature/Gene/Poly_A_site.pm +ok 455 - POD test for Bio/SeqFeature/Gene/Transcript.pm +ok 456 - POD test for Bio/SeqFeature/Gene/Promoter.pm +ok 457 - POD test for Bio/SeqFeature/Gene/Exon.pm +ok 458 - POD test for Bio/SeqFeature/Gene/Intron.pm +ok 459 - POD test for Bio/SeqFeature/SiRNA/Oligo.pm +ok 460 - POD test for Bio/SeqFeature/SiRNA/Pair.pm +ok 461 - POD test for Bio/SeqFeature/Tools/Unflattener.pm +ok 462 - POD test for Bio/SeqFeature/Tools/FeatureNamer.pm +ok 463 - POD test for Bio/SeqFeature/Tools/IDHandler.pm +ok 464 - POD test for Bio/SeqFeature/Tools/TypeMapper.pm +ok 465 - POD test for Bio/Location/WidestCoordPolicy.pm +ok 466 - POD test for Bio/Location/Fuzzy.pm +ok 467 - POD test for Bio/Location/NarrowestCoordPolicy.pm +ok 468 - POD test for Bio/Location/AvWithinCoordPolicy.pm +ok 469 - POD test for Bio/Location/FuzzyLocationI.pm +ok 470 - POD test for Bio/Location/CoordinatePolicyI.pm +ok 471 - POD test for Bio/Location/Split.pm +ok 472 - POD test for Bio/Location/Atomic.pm +ok 473 - POD test for Bio/Location/SplitLocationI.pm +ok 474 - POD test for Bio/Location/Simple.pm 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for Bio/Variation/SeqDiff.pm +ok 517 - POD test for Bio/Variation/RNAChange.pm +ok 518 - POD test for Bio/Variation/SNP.pm +ok 519 - POD test for Bio/Variation/Allele.pm +ok 520 - POD test for Bio/Variation/IO.pm +ok 521 - POD test for Bio/Variation/DNAMutation.pm +ok 522 - POD test for Bio/Variation/IO/flat.pm +ok 523 - POD test for Bio/Variation/IO/xml.pm +ok 524 - POD test for Bio/Assembly/Singlet.pm +ok 525 - POD test for Bio/Assembly/ContigAnalysis.pm +ok 526 - POD test for Bio/Assembly/IO.pm +ok 527 - POD test for Bio/Assembly/Contig.pm +ok 528 - POD test for Bio/Assembly/Scaffold.pm +ok 529 - POD test for Bio/Assembly/ScaffoldI.pm +ok 530 - POD test for Bio/Assembly/IO/bowtie.pm +ok 531 - POD test for Bio/Assembly/IO/maq.pm +ok 532 - POD test for Bio/Assembly/IO/tigr.pm +ok 533 - POD test for Bio/Assembly/IO/sam.pm +ok 534 - POD test for Bio/Assembly/IO/phrap.pm +ok 535 - POD test for Bio/Assembly/IO/ace.pm +ok 536 - POD test for Bio/Assembly/Tools/ContigSpectrum.pm +ok 537 - POD test for Bio/LiveSeq/Translation.pm +ok 538 - POD test for Bio/LiveSeq/Repeat_Region.pm +ok 539 - POD test for Bio/LiveSeq/AARange.pm +ok 540 - POD test for Bio/LiveSeq/Range.pm +ok 541 - POD test for Bio/LiveSeq/SeqI.pm +ok 542 - POD test for Bio/LiveSeq/Mutator.pm +ok 543 - POD test for Bio/LiveSeq/Repeat_Unit.pm +ok 544 - POD test for Bio/LiveSeq/ChainI.pm +ok 545 - POD test for Bio/LiveSeq/Gene.pm +ok 546 - POD test for Bio/LiveSeq/Chain.pm +ok 547 - POD test for Bio/LiveSeq/Transcript.pm +ok 548 - POD test for Bio/LiveSeq/Mutation.pm +ok 549 - POD test for Bio/LiveSeq/Exon.pm +ok 550 - POD test for Bio/LiveSeq/Intron.pm +ok 551 - POD test for Bio/LiveSeq/DNA.pm +ok 552 - POD test for Bio/LiveSeq/Prim_Transcript.pm +ok 553 - POD test for Bio/LiveSeq/IO/BioPerl.pm +ok 554 - POD test for Bio/LiveSeq/IO/Loader.pm +ok 555 - POD test for Bio/Nexml/Factory.pm +ok 556 - POD test for Bio/Structure/Atom.pm +ok 557 - POD test for Bio/Structure/Residue.pm +ok 558 - POD test for Bio/Structure/StructureI.pm +ok 559 - POD test for Bio/Structure/Model.pm +ok 560 - POD test for Bio/Structure/Chain.pm +ok 561 - POD test for Bio/Structure/IO.pm +ok 562 - POD test for Bio/Structure/Entry.pm +ok 563 - POD test for Bio/Structure/SecStr/STRIDE/Res.pm +ok 564 - POD test for Bio/Structure/SecStr/DSSP/Res.pm +ok 565 - POD test for Bio/Structure/IO/pdb.pm +ok 566 - POD test for Bio/Tree/AnnotatableNode.pm +ok 567 - POD test for Bio/Tree/Compatible.pm +ok 568 - POD test for Bio/Tree/Node.pm +ok 569 - POD test for Bio/Tree/NodeNHX.pm +ok 570 - POD test for Bio/Tree/AlleleNode.pm +ok 571 - POD test for Bio/Tree/Statistics.pm +ok 572 - POD test for Bio/Tree/DistanceFactory.pm +ok 573 - POD test for Bio/Tree/Tree.pm +ok 574 - POD test for Bio/Tree/TreeFunctionsI.pm +ok 575 - POD test for Bio/Tree/NodeI.pm +ok 576 - POD test for Bio/Tree/TreeI.pm +ok 577 - POD test for Bio/Tree/RandomFactory.pm +ok 578 - POD test for Bio/Tree/Draw/Cladogram.pm +ok 579 - POD test for Bio/TreeIO/NewickParser.pm +ok 580 - POD test for Bio/TreeIO/cluster.pm +ok 581 - POD test for Bio/TreeIO/phyloxml.pm +ok 582 - POD test for Bio/TreeIO/nhx.pm +ok 583 - POD test for Bio/TreeIO/nexml.pm +ok 584 - POD test for Bio/TreeIO/svggraph.pm +ok 585 - POD test for Bio/TreeIO/nexus.pm +ok 586 - POD test for Bio/TreeIO/TreeEventBuilder.pm +ok 587 - POD test for Bio/TreeIO/tabtree.pm +ok 588 - POD test for Bio/TreeIO/lintree.pm +ok 589 - POD test for Bio/TreeIO/newick.pm +ok 590 - POD test for Bio/TreeIO/pag.pm +ok 591 - POD test for Bio/Das/SegmentI.pm +ok 592 - POD test for Bio/Das/FeatureTypeI.pm +ok 593 - POD test for Bio/SeqIO/scf.pm +ok 594 - POD test for Bio/SeqIO/tigrxml.pm +ok 595 - POD test for Bio/SeqIO/FTHelper.pm +ok 596 - POD test for Bio/SeqIO/msout.pm +ok 597 - POD test for Bio/SeqIO/lasergene.pm +ok 598 - POD test for Bio/SeqIO/pir.pm +ok 599 - POD test for Bio/SeqIO/bsml_sax.pm +ok 600 - POD test for Bio/SeqIO/mbsout.pm +ok 601 - POD test for Bio/SeqIO/ctf.pm +ok 602 - POD test for Bio/SeqIO/chaosxml.pm +ok 603 - POD test for Bio/SeqIO/seqxml.pm +ok 604 - POD test for Bio/SeqIO/pln.pm +ok 605 - POD test for Bio/SeqIO/chadoxml.pm +ok 606 - POD test for Bio/SeqIO/exp.pm +ok 607 - POD test for Bio/SeqIO/bsml.pm +ok 608 - POD test for Bio/SeqIO/abi.pm +ok 609 - POD test for Bio/SeqIO/MultiFile.pm +ok 610 - POD test for Bio/SeqIO/phd.pm +ok 611 - POD test for Bio/SeqIO/strider.pm +ok 612 - POD test for Bio/SeqIO/alf.pm +ok 613 - POD test for Bio/SeqIO/tab.pm +ok 614 - POD test for Bio/SeqIO/kegg.pm +ok 615 - POD test for Bio/SeqIO/fastq.pm +ok 616 - POD test for Bio/SeqIO/nexml.pm +ok 617 - POD test for Bio/SeqIO/tigr.pm +ok 618 - POD test for Bio/SeqIO/table.pm +ok 619 - POD test for Bio/SeqIO/entrezgene.pm +ok 620 - POD test for Bio/SeqIO/gbxml.pm +ok 621 - POD test for Bio/SeqIO/raw.pm +ok 622 - POD test for Bio/SeqIO/game.pm +ok 623 - POD test for Bio/SeqIO/chaos.pm +ok 624 - POD test for Bio/SeqIO/tinyseq.pm +ok 625 - POD test for Bio/SeqIO/fasta.pm +ok 626 - POD test for Bio/SeqIO/flybase_chadoxml.pm +ok 627 - POD test for Bio/SeqIO/embl.pm +ok 628 - POD test for Bio/SeqIO/excel.pm +ok 629 - POD test for Bio/SeqIO/metafasta.pm +ok 630 - POD test for Bio/SeqIO/gcg.pm +ok 631 - POD test for Bio/SeqIO/gbdriver.pm +ok 632 - POD test for Bio/SeqIO/locuslink.pm +ok 633 - POD test for Bio/SeqIO/agave.pm +ok 634 - POD test for Bio/SeqIO/asciitree.pm +ok 635 - POD test for Bio/SeqIO/swiss.pm +ok 636 - POD test for Bio/SeqIO/qual.pm +ok 637 - POD test for Bio/SeqIO/interpro.pm +ok 638 - POD test for Bio/SeqIO/largefasta.pm +ok 639 - POD test for Bio/SeqIO/genbank.pm +ok 640 - POD test for Bio/SeqIO/ztr.pm +ok 641 - POD test for Bio/SeqIO/swissdriver.pm +ok 642 - POD test for Bio/SeqIO/ace.pm +ok 643 - POD test for Bio/SeqIO/embldriver.pm +ok 644 - POD test for Bio/SeqIO/game/gameWriter.pm +ok 645 - POD test for Bio/SeqIO/game/seqHandler.pm +ok 646 - POD test for Bio/SeqIO/game/gameHandler.pm +ok 647 - POD test for Bio/SeqIO/game/gameSubs.pm +ok 648 - POD test for Bio/SeqIO/game/featHandler.pm +ok 649 - POD test for Bio/SeqIO/tinyseq/tinyseqHandler.pm +ok 650 - POD test for Bio/SeqIO/Handler/GenericRichSeqHandler.pm +ok 651 - POD test for Bio/Annotation/TypeManager.pm +ok 652 - POD test for Bio/Annotation/OntologyTerm.pm +ok 653 - POD test for Bio/Annotation/DBLink.pm +ok 654 - POD test for Bio/Annotation/Comment.pm +ok 655 - POD test for Bio/Annotation/Collection.pm +ok 656 - POD test for Bio/Annotation/Relation.pm +ok 657 - POD test for Bio/Annotation/SimpleValue.pm +ok 658 - POD test for Bio/Annotation/AnnotationFactory.pm +ok 659 - POD test for Bio/Annotation/Tree.pm +ok 660 - POD test for Bio/Annotation/Reference.pm +ok 661 - POD test for Bio/Annotation/TagTree.pm +ok 662 - POD test for Bio/Annotation/StructuredValue.pm +ok 663 - POD test for Bio/Annotation/Target.pm +ok 664 - POD test for Bio/CodonUsage/Table.pm +ok 665 - POD test for Bio/CodonUsage/IO.pm +ok 666 - POD test for Bio/SeqEvolution/DNAPoint.pm +ok 667 - POD test for Bio/SeqEvolution/EvolutionI.pm +ok 668 - POD test for Bio/SeqEvolution/Factory.pm +ok 669 - POD test for Bio/Index/Qual.pm +ok 670 - POD test for Bio/Index/SwissPfam.pm +ok 671 - POD test for Bio/Index/BlastTable.pm +ok 672 - POD test for Bio/Index/GenBank.pm +ok 673 - POD test for Bio/Index/Fastq.pm +ok 674 - POD test for Bio/Index/Abstract.pm +ok 675 - POD test for Bio/Index/Hmmer.pm +ok 676 - POD test for Bio/Index/Swissprot.pm +ok 677 - POD test for Bio/Index/Stockholm.pm +ok 678 - POD test for Bio/Index/Blast.pm +ok 679 - POD test for Bio/Index/AbstractSeq.pm +ok 680 - POD test for Bio/Index/Fasta.pm +ok 681 - POD test for Bio/Index/EMBL.pm +ok 682 - POD test for Bio/Symbol/SymbolI.pm +ok 683 - POD test for Bio/Symbol/AlphabetI.pm +ok 684 - POD test for Bio/Symbol/ProteinAlphabet.pm +ok 685 - POD test for Bio/Symbol/Alphabet.pm +ok 686 - POD test for Bio/Symbol/DNAAlphabet.pm +ok 687 - POD test for Bio/Symbol/Symbol.pm +ok 688 - POD test for Bio/Draw/Pictogram.pm +ok 689 - POD test for Bio/Tools/Coil.pm +ok 690 - POD test for Bio/Tools/ECnumber.pm +ok 691 - POD test for Bio/Tools/AnalysisResult.pm +ok 692 - POD test for Bio/Tools/Seg.pm +ok 693 - POD test for Bio/Tools/PrositeScan.pm +ok 694 - POD test for Bio/Tools/Primer3.pm +ok 695 - POD test for Bio/Tools/Blat.pm +ok 696 - POD test for Bio/Tools/Grail.pm +ok 697 - POD test for Bio/Tools/Match.pm +ok 698 - POD test for Bio/Tools/GFF.pm +ok 699 - POD test for Bio/Tools/dpAlign.pm +ok 700 - POD test for Bio/Tools/AmpliconSearch.pm +ok 701 - POD test for Bio/Tools/OddCodes.pm +ok 702 - POD test for Bio/Tools/QRNA.pm +ok 703 - POD test for Bio/Tools/FootPrinter.pm +ok 704 - POD test for Bio/Tools/Genewise.pm +ok 705 - POD test for Bio/Tools/GuessSeqFormat.pm +ok 706 - POD test for Bio/Tools/RepeatMasker.pm +ok 707 - POD test for Bio/Tools/Protparam.pm +ok 708 - POD test for Bio/Tools/isPcr.pm +ok 709 - POD test for Bio/Tools/Genscan.pm +ok 710 - POD test for 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POD test for Bio/Tools/Phylo/Gerp.pm +ok 754 - POD test for Bio/Tools/Phylo/Phylip/ProtDist.pm +ok 755 - POD test for Bio/Tools/Phylo/Molphy/Result.pm +ok 756 - POD test for Bio/Tools/EMBOSS/Palindrome.pm +ok 757 - POD test for Bio/Tools/Run/RemoteBlast.pm +ok 758 - POD test for Bio/Tools/Run/GenericParameters.pm +ok 759 - POD test for Bio/Tools/Run/ParametersI.pm +ok 760 - POD test for Bio/Tools/Alignment/Consed.pm +ok 761 - POD test for Bio/Tools/Alignment/Trim.pm +ok 762 - POD test for Bio/Tools/SiRNA/Ruleset/tuschl.pm +ok 763 - POD test for Bio/Tools/SiRNA/Ruleset/saigo.pm +ok 764 - POD test for Bio/Tools/Sim4/Results.pm +ok 765 - POD test for Bio/Tools/Sim4/Exon.pm +ok 766 - POD test for Bio/Tools/SeqPattern/Backtranslate.pm +ok 767 - POD test for Bio/Tools/HMMER/Results.pm +ok 768 - POD test for Bio/Tools/HMMER/Set.pm +ok 769 - POD test for Bio/Tools/HMMER/Domain.pm +ok 770 - POD test for Bio/Tools/Spidey/Results.pm +ok 771 - POD test for Bio/Tools/Spidey/Exon.pm +ok 772 - POD test for Bio/Tools/Analysis/SimpleAnalysisBase.pm +ok 773 - POD test for Bio/Tools/Analysis/DNA/ESEfinder.pm +ok 774 - POD test for Bio/Tools/Analysis/Protein/Sopma.pm +ok 775 - POD test for Bio/Tools/Analysis/Protein/ELM.pm +ok 776 - POD test for Bio/Tools/Analysis/Protein/GOR4.pm +ok 777 - POD test for Bio/Tools/Analysis/Protein/HNN.pm +ok 778 - POD test for Bio/Tools/Analysis/Protein/Scansite.pm +ok 779 - POD test for Bio/Tools/Analysis/Protein/NetPhos.pm +ok 780 - POD test for Bio/Tools/Analysis/Protein/Domcut.pm +ok 781 - POD test for Bio/Align/Utilities.pm +ok 782 - POD test for Bio/Align/DNAStatistics.pm +ok 783 - POD test for Bio/Align/ProteinStatistics.pm +ok 784 - POD test for Bio/Align/Graphics.pm +ok 785 - POD test for Bio/Align/StatisticsI.pm +ok 786 - POD test for Bio/Align/PairwiseStatistics.pm +ok 787 - POD test for Bio/Align/AlignI.pm ok 788 - POD test for scripts/das/bp_das_server.pl (no pod) -ok 789 - POD test for scripts/tree/bp_tree2pag.pl -ok 790 - POD test for scripts/tree/bp_blast2tree.pl -ok 791 - POD test for scripts/tree/bp_nexus2nh.pl -ok 792 - POD test for scripts/taxa/bp_query_entrez_taxa.pl -ok 793 - POD test for scripts/taxa/bp_local_taxonomydb_query.pl -ok 794 - POD test for scripts/taxa/bp_classify_hits_kingdom.pl -ok 795 - POD test for scripts/taxa/bp_taxid4species.pl -ok 796 - POD test for scripts/taxa/bp_taxonomy2tree.pl -ok 797 - POD test for scripts/seqstats/bp_gccalc.pl -ok 798 - POD test for scripts/seqstats/bp_oligo_count.pl -ok 799 - POD test for scripts/seqstats/bp_aacomp.pl -ok 800 - POD test for scripts/seqstats/bp_chaos_plot.pl -ok 801 - POD test for scripts/index/bp_index.pl -ok 802 - POD test for scripts/index/bp_seqret.pl -ok 803 - POD test for scripts/index/bp_fetch.pl -ok 804 - POD test for scripts/popgen/bp_composite_LD.pl -ok 805 - POD test for scripts/popgen/bp_heterogeneity_test.pl -ok 806 - POD test for scripts/DB-HIV/bp_hivq.pl -ok 807 - POD test for scripts/DB/bp_biogetseq.pl -ok 808 - POD test for scripts/DB/bp_flanks.pl -ok 809 - POD test for scripts/DB/bp_biofetch_genbank_proxy.pl -ok 810 - POD test for scripts/DB/bp_bioflat_index.pl -ok 811 - POD test for scripts/utilities/bp_netinstall.pl -ok 812 - POD test for scripts/utilities/bp_revtrans-motif.pl -ok 813 - POD test for scripts/utilities/bp_mrtrans.pl -ok 814 - POD test for scripts/utilities/bp_mutate.pl -ok 815 - POD test for scripts/utilities/bp_find-blast-matches.pl -ok 816 - POD test for scripts/utilities/bp_mask_by_search.pl -ok 817 - POD test for scripts/utilities/bp_download_query_genbank.pl -ok 818 - POD test for scripts/utilities/bp_search2tribe.pl -ok 819 - POD test for scripts/utilities/bp_search2alnblocks.pl -ok 820 - POD test for scripts/utilities/bp_dbsplit.pl -ok 821 - POD test for scripts/utilities/bp_search2gff.pl -ok 822 - POD test for scripts/utilities/bp_seq_length.pl -ok 823 - POD test for scripts/utilities/bp_nrdb.pl -ok 824 - POD test for scripts/utilities/bp_sreformat.pl -ok 825 - POD test for scripts/utilities/bp_remote_blast.pl -ok 826 - POD test for scripts/searchio/bp_filter_search.pl -ok 827 - POD test for scripts/searchio/bp_search2table.pl -ok 828 - POD test for scripts/searchio/bp_fastam9_to_table.pl -ok 829 - POD test for scripts/searchio/bp_hmmer_to_table.pl -ok 830 - POD test for scripts/searchio/bp_parse_hmmsearch.pl -ok 831 - POD test for scripts/Bio-DB-SeqFeature-Store/bp_seqfeature_load.pl -ok 832 - POD test for scripts/Bio-DB-SeqFeature-Store/bp_seqfeature_gff3.pl (no pod) -ok 833 - POD test for scripts/Bio-DB-SeqFeature-Store/bp_seqfeature_delete.pl (no pod) -ok 834 - POD test for scripts/seq/bp_translate_seq.pl -ok 835 - POD test for scripts/seq/bp_seqretsplit.pl -ok 836 - POD test for scripts/seq/bp_unflatten_seq.pl -ok 837 - POD test for scripts/seq/bp_split_seq.pl -ok 838 - POD test for scripts/seq/bp_seqconvert.pl -ok 839 - POD test for scripts/seq/bp_seqcut.pl -ok 840 - POD test for scripts/seq/bp_extract_feature_seq.pl -ok 841 - POD test for scripts/seq/bp_seqpart.pl -ok 842 - POD test for scripts/seq/bp_make_mrna_protein.pl -ok 843 - POD test for scripts/Bio-DB-GFF/bp_genbank2gff3.pl -ok 844 - POD test for scripts/Bio-DB-GFF/bp_meta_gff.pl -ok 845 - POD test for scripts/Bio-DB-GFF/bp_process_wormbase.pl -ok 846 - POD test for scripts/Bio-DB-GFF/bp_load_gff.pl -ok 847 - POD test for scripts/Bio-DB-GFF/bp_fast_load_gff.pl -ok 848 - POD test for scripts/Bio-DB-GFF/bp_genbank2gff.pl -ok 849 - POD test for scripts/Bio-DB-GFF/bp_process_sgd.pl -ok 850 - POD test for scripts/Bio-DB-GFF/bp_process_gadfly.pl -ok 851 - POD test for scripts/Bio-DB-GFF/bp_bulk_load_gff.pl -ok 852 - POD test for scripts/Bio-DB-GFF/bp_generate_histogram.pl -ok 853 - POD test for examples/subsequence.cgi (no pod) -ok 854 - POD test for examples/revcom_dir.pl (no pod) -ok 855 - POD test for examples/rev_and_trans.pl (no pod) -ok 856 - POD test for examples/bioperl.pl (no pod) -ok 857 - POD test for examples/make_primers.pl (no pod) -ok 858 - POD test for examples/generate_random_seq.pl (no pod) -ok 859 - POD test for examples/longorf.pl -ok 860 - POD test for examples/cluster/dbsnp.pl (no pod) -ok 861 - POD test for examples/tools/run_primer3.pl -ok 862 - POD test for examples/tools/parse_codeml.pl (no pod) -ok 863 - POD test for examples/tools/gff2ps.pl -ok 864 - POD test for examples/tools/run_genscan.pl (no pod) +ok 789 - POD test for scripts/seqstats/bp_chaos_plot.pl +ok 790 - POD test for scripts/seqstats/bp_gccalc.pl +ok 791 - POD test for scripts/seqstats/bp_oligo_count.pl +ok 792 - POD test for scripts/seqstats/bp_aacomp.pl +ok 793 - POD test for scripts/tree/bp_nexus2nh.pl +ok 794 - POD test for scripts/tree/bp_blast2tree.pl +ok 795 - POD test for scripts/tree/bp_tree2pag.pl +ok 796 - POD test for scripts/Bio-DB-SeqFeature-Store/bp_seqfeature_gff3.pl (no pod) +ok 797 - POD test for scripts/Bio-DB-SeqFeature-Store/bp_seqfeature_load.pl +ok 798 - POD test for scripts/Bio-DB-SeqFeature-Store/bp_seqfeature_delete.pl (no pod) +ok 799 - POD test for scripts/Bio-DB-GFF/bp_load_gff.pl +ok 800 - POD test for scripts/Bio-DB-GFF/bp_fast_load_gff.pl +ok 801 - POD test for scripts/Bio-DB-GFF/bp_process_gadfly.pl +ok 802 - POD test for scripts/Bio-DB-GFF/bp_meta_gff.pl +ok 803 - POD test for scripts/Bio-DB-GFF/bp_generate_histogram.pl +ok 804 - POD test for scripts/Bio-DB-GFF/bp_genbank2gff3.pl +ok 805 - POD test for scripts/Bio-DB-GFF/bp_bulk_load_gff.pl +ok 806 - POD test for scripts/Bio-DB-GFF/bp_process_wormbase.pl +ok 807 - POD test for scripts/Bio-DB-GFF/bp_genbank2gff.pl +ok 808 - POD test for scripts/Bio-DB-GFF/bp_process_sgd.pl +ok 809 - POD test for scripts/popgen/bp_heterogeneity_test.pl +ok 810 - POD test for scripts/popgen/bp_composite_LD.pl +ok 811 - POD test for scripts/DB/bp_bioflat_index.pl +ok 812 - POD test for scripts/DB/bp_biofetch_genbank_proxy.pl +ok 813 - POD test for scripts/DB/bp_biogetseq.pl +ok 814 - POD test for scripts/DB/bp_flanks.pl +ok 815 - POD test for scripts/searchio/bp_filter_search.pl +ok 816 - POD test for scripts/searchio/bp_search2table.pl +ok 817 - POD test for scripts/searchio/bp_parse_hmmsearch.pl +ok 818 - POD test for scripts/searchio/bp_hmmer_to_table.pl +ok 819 - POD test for scripts/searchio/bp_fastam9_to_table.pl +ok 820 - POD test for scripts/taxa/bp_local_taxonomydb_query.pl +ok 821 - POD test for scripts/taxa/bp_taxid4species.pl +ok 822 - POD test for scripts/taxa/bp_classify_hits_kingdom.pl +ok 823 - POD test for scripts/taxa/bp_query_entrez_taxa.pl +ok 824 - POD test for scripts/taxa/bp_taxonomy2tree.pl +ok 825 - POD test for scripts/utilities/bp_mask_by_search.pl +ok 826 - POD test for scripts/utilities/bp_sreformat.pl +ok 827 - POD test for scripts/utilities/bp_search2gff.pl +ok 828 - POD test for scripts/utilities/bp_search2tribe.pl +ok 829 - POD test for scripts/utilities/bp_netinstall.pl +ok 830 - POD test for scripts/utilities/bp_dbsplit.pl +ok 831 - POD test for scripts/utilities/bp_find-blast-matches.pl +ok 832 - POD test for scripts/utilities/bp_nrdb.pl +ok 833 - POD test for scripts/utilities/bp_mrtrans.pl +ok 834 - POD test for scripts/utilities/bp_download_query_genbank.pl +ok 835 - POD test for scripts/utilities/bp_remote_blast.pl +ok 836 - POD test for scripts/utilities/bp_search2alnblocks.pl +ok 837 - POD test for scripts/utilities/bp_mutate.pl +ok 838 - POD test for scripts/utilities/bp_seq_length.pl +ok 839 - POD test for scripts/utilities/bp_revtrans-motif.pl +ok 840 - POD test for scripts/seq/bp_translate_seq.pl +ok 841 - POD test for scripts/seq/bp_seqretsplit.pl +ok 842 - POD test for scripts/seq/bp_seqpart.pl +ok 843 - POD test for scripts/seq/bp_unflatten_seq.pl +ok 844 - POD test for scripts/seq/bp_make_mrna_protein.pl +ok 845 - POD test for scripts/seq/bp_split_seq.pl +ok 846 - POD test for scripts/seq/bp_seqcut.pl +ok 847 - POD test for scripts/seq/bp_extract_feature_seq.pl +ok 848 - POD test for scripts/seq/bp_seqconvert.pl +ok 849 - POD test for scripts/DB-HIV/bp_hivq.pl +ok 850 - POD test for scripts/index/bp_fetch.pl +ok 851 - POD test for scripts/index/bp_seqret.pl +ok 852 - POD test for scripts/index/bp_index.pl +ok 853 - POD test for examples/generate_random_seq.pl (no pod) +ok 854 - POD test for examples/make_primers.pl (no pod) +ok 855 - POD test for examples/bioperl.pl (no pod) +ok 856 - POD test for examples/revcom_dir.pl (no pod) +ok 857 - POD test for examples/rev_and_trans.pl (no pod) +ok 858 - POD test for examples/longorf.pl +ok 859 - POD test for examples/subsequence.cgi (no pod) +ok 860 - POD test for examples/tools/parse_codeml.pl (no pod) +ok 861 - POD test for examples/tools/reverse-translate.pl +ok 862 - POD test for examples/tools/seq_pattern.pl (no pod) +ok 863 - POD test for examples/tools/run_primer3.pl +ok 864 - POD test for examples/tools/psw.pl (no pod) ok 865 - POD test for examples/tools/gb_to_gff.pl (no pod) -ok 866 - POD test for examples/tools/seq_pattern.pl (no pod) -ok 867 - POD test for examples/tools/psw.pl (no pod) -ok 868 - POD test for examples/tools/reverse-translate.pl +ok 866 - POD test for examples/tools/run_genscan.pl (no pod) +ok 867 - POD test for examples/tools/gff2ps.pl +ok 868 - POD test for examples/tools/standaloneblast.pl (no pod) ok 869 - POD test for examples/tools/extract_genes.pl -ok 870 - POD test for examples/tools/standaloneblast.pl (no pod) -ok 871 - POD test for examples/tree/paup2phylip.pl (no pod) -ok 872 - POD test for examples/quality/svgtrace.pl (no pod) -ok 873 - POD test for examples/structure/structure-io.pl (no pod) -ok 874 - POD test for examples/popgen/parse_calc_stats.pl (no pod) -ok 875 - POD test for examples/align/simplealign.pl (no pod) -ok 876 - POD test for examples/align/aligntutorial.pl (no pod) -ok 877 - POD test for examples/align/clustalw.pl (no pod) -ok 878 - POD test for examples/align/align_on_codons.pl (no pod) -ok 879 - POD test for examples/align/FastAlign.pl +ok 870 - POD test for examples/liveseq/change_gene.pl (no pod) +ok 871 - POD test for examples/contributed/nmrpdb_parse.pl (no pod) +ok 872 - POD test for examples/contributed/prosite2perl.pl (no pod) +ok 873 - POD test for examples/contributed/rebase2list.pl (no pod) +ok 874 - POD test for examples/tree/paup2phylip.pl (no pod) +ok 875 - POD test for examples/cluster/dbsnp.pl (no pod) +ok 876 - POD test for examples/tk/gsequence.pl (no pod) +ok 877 - POD test for examples/tk/hitdisplay.pl (no pod) +ok 878 - POD test for examples/db/use_registry.pl (no pod) +ok 879 - POD test for examples/db/gb2features.pl (no pod) ok 880 - POD test for examples/db/get_seqs.pl (no pod) -ok 881 - POD test for examples/db/use_registry.pl (no pod) +ok 881 - POD test for examples/db/est_tissue_query.pl (no pod) ok 882 - POD test for examples/db/getGenBank.pl (no pod) ok 883 - POD test for examples/db/rfetch.pl (no pod) ok 884 - POD test for examples/db/dbfetch -ok 885 - POD test for examples/db/gb2features.pl (no pod) -ok 886 - POD test for examples/db/est_tissue_query.pl (no pod) -ok 887 - POD test for examples/contributed/rebase2list.pl (no pod) -ok 888 - POD test for examples/contributed/prosite2perl.pl (no pod) -ok 889 - POD test for examples/contributed/nmrpdb_parse.pl (no pod) -ok 890 - POD test for examples/liveseq/change_gene.pl (no pod) -ok 891 - POD test for examples/searchio/blast_example.pl (no pod) -ok 892 - POD test for examples/searchio/waba2gff.pl (no pod) -ok 893 - POD test for examples/searchio/rawwriter.pl (no pod) -ok 894 - POD test for examples/searchio/resultwriter.pl (no pod) +ok 885 - POD test for examples/sirna/rnai_finder.cgi +ok 886 - POD test for examples/Bio-DB-GFF/load_ucsc.pl (no pod) +ok 887 - POD test for examples/popgen/parse_calc_stats.pl (no pod) +ok 888 - POD test for examples/align/simplealign.pl (no pod) +ok 889 - POD test for examples/align/aligntutorial.pl (no pod) +ok 890 - POD test for examples/align/clustalw.pl (no pod) +ok 891 - POD test for examples/align/align_on_codons.pl (no pod) +ok 892 - POD test for examples/align/FastAlign.pl +ok 893 - POD test for examples/searchio/waba2gff.pl (no pod) +ok 894 - POD test for examples/searchio/blast_example.pl (no pod) ok 895 - POD test for examples/searchio/psiblast_features.pl (no pod) -ok 896 - POD test for examples/searchio/waba2gff3.pl +ok 896 - POD test for examples/searchio/htmlwriter.pl (no pod) ok 897 - POD test for examples/searchio/hspwriter.pl (no pod) -ok 898 - POD test for examples/searchio/custom_writer.pl (no pod) -ok 899 - POD test for examples/searchio/htmlwriter.pl (no pod) -ok 900 - POD test for examples/searchio/psiblast_iterations.pl (no pod) -ok 901 - POD test for examples/searchio/hitwriter.pl (no pod) -ok 902 - POD test for examples/Bio-DB-GFF/load_ucsc.pl (no pod) -ok 903 - POD test for examples/tk/gsequence.pl (no pod) -ok 904 - POD test for examples/tk/hitdisplay.pl (no pod) -ok 905 - POD test for examples/sirna/rnai_finder.cgi +ok 898 - POD test for examples/searchio/rawwriter.pl (no pod) +ok 899 - POD test for examples/searchio/hitwriter.pl (no pod) +ok 900 - POD test for examples/searchio/waba2gff3.pl +ok 901 - POD test for examples/searchio/psiblast_iterations.pl (no pod) +ok 902 - POD test for examples/searchio/custom_writer.pl (no pod) +ok 903 - POD test for examples/searchio/resultwriter.pl (no pod) +ok 904 - POD test for examples/quality/svgtrace.pl (no pod) +ok 905 - POD test for examples/structure/structure-io.pl (no pod) ok 906 - POD test for examples/root/exceptions4.pl (no pod) -ok 907 - POD test for examples/root/exceptions1.pl (no pod) -ok 908 - POD test for examples/root/exceptions2.pl (no pod) -ok 909 - POD test for examples/root/exceptions3.pl (no pod) -ok 910 - POD test for maintenance/dependencies.pl -ok 911 - POD test for maintenance/module_usage.pl (no pod) -ok 912 - POD test for maintenance/ncbi_blast_switches.pl (no pod) -ok 913 - POD test for maintenance/authors.pl -ok 914 - POD test for maintenance/version.pl -ok 915 - POD test for maintenance/check_NAME.pl -ok 916 - POD test for maintenance/check_URLs.pl +ok 907 - POD test for examples/root/exceptions3.pl (no pod) +ok 908 - POD test for examples/root/exceptions1.pl (no pod) +ok 909 - POD test for examples/root/exceptions2.pl (no pod) +ok 910 - POD test for maintenance/check_URLs.pl +ok 911 - POD test for maintenance/modules.pl +ok 912 - POD test for maintenance/module_usage.pl (no pod) +ok 913 - POD test for maintenance/find_mod_deps.pl +ok 914 - POD test for maintenance/authors.pl +ok 915 - POD test for maintenance/dependencies.pl +ok 916 - POD test for maintenance/check_NAME.pl ok 917 - POD test for maintenance/deprecated.pl -ok 918 - POD test for maintenance/modules.pl -ok 919 - POD test for maintenance/symlink_script.pl -ok 920 - POD test for maintenance/cvs2cl_by_file.pl -ok 921 - POD test for maintenance/pod.pl -ok 922 - POD test for maintenance/find_mod_deps.pl +ok 918 - POD test for maintenance/pod.pl +ok 919 - POD test for maintenance/version.pl +ok 920 - POD test for maintenance/symlink_script.pl +ok 921 - POD test for maintenance/cvs2cl_by_file.pl +ok 922 - POD test for maintenance/ncbi_blast_switches.pl (no pod) ok t/PopGen/Coalescent.t .................. 1..13 @@ -9234,24 +9268,24 @@ t/SearchIO/SearchIO.t .................. 1..19 ok 1 - use Bio::SearchIO; -ok 2 - blast for f.blx -ok 3 - blastxml for f.xml -ok 4 - fasta for f.fa -ok 5 - fasta for f.SSEARCH.m9 -ok 6 - blastxml for f.blastxml -ok 7 - exonerate for f.exon -ok 8 - blast for filename.blast +ok 2 - blast for filename.bls +ok 3 - fasta for f.fasta +ok 4 - fasta for f.fy +ok 5 - fasta for f.osearch +ok 6 - exonerate for f.exon +ok 7 - fasta for f.psearch +ok 8 - fasta for f.m9 ok 9 - fasta for f.ssearch -ok 10 - blast for f.tblx -ok 11 - blast for fast.bls -ok 12 - fasta for f.osearch -ok 13 - fasta for f.fasta -ok 14 - fasta for f.m9 -ok 15 - fasta for f.fy -ok 16 - exonerate for f.exonerate -ok 17 - blast for filename.bls -ok 18 - fasta for f.fx -ok 19 - fasta for f.psearch +ok 10 - fasta for f.fa +ok 11 - fasta for f.SSEARCH.m9 +ok 12 - blast for f.tblx +ok 13 - exonerate for f.exonerate +ok 14 - blast for f.blx +ok 15 - blastxml for f.xml +ok 16 - blastxml for f.blastxml +ok 17 - fasta for f.fx +ok 18 - blast for filename.blast +ok 19 - blast for fast.bls ok t/SearchIO/SimilarityPair.t ............ 1..12 @@ -10271,10 +10305,10 @@ ok 999 - q id: exact (0.40541) <= max (0.40541) ok 1000 - q cn: exact (0.56757) ~ est (0.56757) ok 1001 - q cn: exact (0.56757) <= max (0.56757) -ok 1002 - h id: est (0.36364) = fast (0.36364) -ok 1003 - h cn: est (0.63636) = fast (0.63636) -ok 1004 - h id: est (0.42308) = fast (0.42308) -ok 1005 - h cn: est (0.53846) = fast (0.53846) +ok 1002 - h id: est (0.42308) = fast (0.42308) +ok 1003 - h cn: est (0.53846) = fast (0.53846) +ok 1004 - h id: est (0.36364) = fast (0.36364) +ok 1005 - h cn: est (0.63636) = fast (0.63636) ok 1006 - tile HUMBETGLOA.tblastx hit 10 \#hsps 1 ok 1007 - q id: est (0.29167) = fast (0.29167) ok 1008 - q cn: est (0.39583) = fast (0.39583) @@ -10332,37 +10366,37 @@ ok 1060 - h cn: est (0.60000) = fast (0.60000) ok 1061 - dnaEbsub_ecoli.wutblastx ok 1062 - tile dnaEbsub_ecoli.wutblastx hit 1 \#hsps 12 -ok 1063 - q id: est (0.25352) = fast (0.25352) -ok 1064 - q cn: est (0.47887) = fast (0.47887) -ok 1065 - q id: exact (0.40224) ~ est (0.40912) -ok 1066 - q id: exact (0.40224) <= max (0.42628) -ok 1067 - q cn: exact (0.58494) ~ est (0.58968) -ok 1068 - q cn: exact (0.58494) <= max (0.62179) -ok 1069 - q id: exact (0.44118) ~ est (0.44118) -ok 1070 - q id: exact (0.44118) <= max (0.44118) -ok 1071 - q cn: exact (0.54412) ~ est (0.54412) -ok 1072 - q cn: exact (0.54412) <= max (0.54412) -ok 1073 - q id: est (0.37500) = fast (0.37500) -ok 1074 - q cn: est (0.62500) = fast (0.62500) -ok 1075 - h id: est (0.25352) = fast (0.25352) -ok 1076 - h cn: est (0.47887) = fast (0.47887) -ok 1077 - h id: exact (0.39848) ~ est (0.40304) -ok 1078 - h id: exact (0.39848) <= max (0.40355) -ok 1079 - h cn: exact (0.58376) ~ est (0.58889) -ok 1080 - h cn: exact (0.58376) <= max (0.58883) -ok 1081 - h id: exact (0.44118) ~ est (0.44118) -ok 1082 - h id: exact (0.44118) <= max (0.44118) -ok 1083 - h cn: exact (0.54412) ~ est (0.54412) -ok 1084 - h cn: exact (0.54412) <= max (0.54412) +ok 1063 - q id: exact (0.40224) ~ est (0.40912) +ok 1064 - q id: exact (0.40224) <= max (0.42628) +ok 1065 - q cn: exact (0.58494) ~ est (0.58968) +ok 1066 - q cn: exact (0.58494) <= max (0.62179) +ok 1067 - q id: est (0.37500) = fast (0.37500) +ok 1068 - q cn: est (0.62500) = fast (0.62500) +ok 1069 - q id: est (0.25352) = fast (0.25352) +ok 1070 - q cn: est (0.47887) = fast (0.47887) +ok 1071 - q id: exact (0.44118) ~ est (0.44118) +ok 1072 - q id: exact (0.44118) <= max (0.44118) +ok 1073 - q cn: exact (0.54412) ~ est (0.54412) +ok 1074 - q cn: exact (0.54412) <= max (0.54412) +ok 1075 - h id: exact (0.39848) ~ est (0.40304) +ok 1076 - h id: exact (0.39848) <= max (0.40355) +ok 1077 - h cn: exact (0.58376) ~ est (0.58889) +ok 1078 - h cn: exact (0.58376) <= max (0.58883) +ok 1079 - h id: exact (0.44118) ~ est (0.44118) +ok 1080 - h id: exact (0.44118) <= max (0.44118) +ok 1081 - h cn: exact (0.54412) ~ est (0.54412) +ok 1082 - h cn: exact (0.54412) <= max (0.54412) +ok 1083 - h id: est (0.25352) = fast (0.25352) +ok 1084 - h cn: est (0.47887) = fast (0.47887) ok 1085 - tile dnaEbsub_ecoli.wutblastx hit 2 \#hsps 2 ok 1086 - q id: exact (0.41818) ~ est (0.41818) ok 1087 - q id: exact (0.41818) <= max (0.41818) ok 1088 - q cn: exact (0.52727) ~ est (0.52727) ok 1089 - q cn: exact (0.52727) <= max (0.52727) -ok 1090 - h id: est (0.37500) = fast (0.37500) -ok 1091 - h cn: est (0.47500) = fast (0.47500) -ok 1092 - h id: est (0.53333) = fast (0.53333) -ok 1093 - h cn: est (0.66667) = fast (0.66667) +ok 1090 - h id: est (0.53333) = fast (0.53333) +ok 1091 - h cn: est (0.66667) = fast (0.66667) +ok 1092 - h id: est (0.37500) = fast (0.37500) +ok 1093 - h cn: est (0.47500) = fast (0.47500) ok 1094 - bug2942: query m0: range correct ok 1095 - bug2942: query m1: range correct ok 1096 - bug2942: query m2: range correct @@ -11577,24 +11611,24 @@ ok 1080 ok 1081 ok 1082 -ok 1083 - fasta for f.m9 -ok 1084 - exonerate for f.exonerate -ok 1085 - fasta for f.fa -ok 1086 - fasta for f.osearch -ok 1087 - fasta for f.fasta -ok 1088 - fasta for f.fx -ok 1089 - fasta for f.fy -ok 1090 - fasta for f.ssearch -ok 1091 - blastxml for f.blastxml +ok 1083 - blast for fast.bls +ok 1084 - blast for f.blx +ok 1085 - blastxml for f.xml +ok 1086 - exonerate for f.exonerate +ok 1087 - fasta for f.ssearch +ok 1088 - fasta for f.fasta +ok 1089 - blast for filename.blast +ok 1090 - blastxml for f.blastxml +ok 1091 - fasta for f.m9 ok 1092 - blast for f.tblx -ok 1093 - fasta for f.SSEARCH.m9 -ok 1094 - blastxml for f.xml -ok 1095 - blast for filename.bls +ok 1093 - fasta for f.fy +ok 1094 - fasta for f.fx +ok 1095 - fasta for f.osearch ok 1096 - fasta for f.psearch -ok 1097 - blast for fast.bls +ok 1097 - blast for filename.bls ok 1098 - exonerate for f.exon -ok 1099 - blast for filename.blast -ok 1100 - blast for f.blx +ok 1099 - fasta for f.fa +ok 1100 - fasta for f.SSEARCH.m9 ok 1101 ok 1102 ok 1103 @@ -15087,7 +15121,7 @@ ok 19 not ok 20 # TODO Need to fix columns before start of seq w/ start > 1 # Failed (TODO) test at t/Seq/LocatableSeq.t line 47. -# got: 'Bio::Location::Simple=HASH(0x1e9ea90)' +# got: 'Bio::Location::Simple=HASH(0x1b051a8)' # expected: undef ok 21 ok 22 - An object of class 'Bio::AlignIO::pfam' isa 'Bio::AlignIO' @@ -16839,7 +16873,7 @@ 1..325 ok 1 - use Bio::Factory::FTLocationFactory; ok 2 - An object of class 'Bio::Factory::FTLocationFactory' isa 'Bio::Factory::LocationFactoryI' -ok 3 - Bio::Location::Simple +ok 3 - Bio::Location::Fuzzy ok 4 ok 5 ok 6 @@ -16848,7 +16882,7 @@ ok 9 ok 10 ok 11 -ok 12 - Location String: 340..565 +ok 12 - Location String: (23.45)..600 ok 13 ok 14 - Bio::Location::Fuzzy ok 15 @@ -16859,9 +16893,9 @@ ok 20 ok 21 ok 22 -ok 23 - Location String: (102.110) +ok 23 - Location String: 145^177 ok 24 -ok 25 - Bio::Location::Fuzzy +ok 25 - Bio::Location::Split ok 26 ok 27 ok 28 @@ -16870,9 +16904,9 @@ ok 31 ok 32 ok 33 -ok 34 - Location String: 145^177 +ok 34 - Location String: complement(join(94468..94578,94578..>94889)) ok 35 -ok 36 - Bio::Location::Fuzzy +ok 36 - Bio::Location::Simple ok 37 ok 38 ok 39 @@ -16881,7 +16915,7 @@ ok 42 ok 43 ok 44 -ok 45 - Location String: (23.45)..600 +ok 45 - Location String: 123^124 ok 46 ok 47 - Bio::Location::Fuzzy ok 48 @@ -16892,9 +16926,9 @@ ok 53 ok 54 ok 55 -ok 56 - Location String: ?22..?64 +ok 56 - Location String: <1..? ok 57 -ok 58 - Bio::Location::Fuzzy +ok 58 - Bio::Location::Simple ok 59 ok 60 ok 61 @@ -16903,7 +16937,7 @@ ok 64 ok 65 ok 66 -ok 67 - Location String: 1..>888 +ok 67 - Location String: J00194:100..202 ok 68 ok 69 - Bio::Location::Fuzzy ok 70 @@ -16914,7 +16948,7 @@ ok 75 ok 76 ok 77 -ok 78 - Location String: (122.133)..(204.221) +ok 78 - Location String: ?22..?64 ok 79 ok 80 - Bio::Location::Fuzzy ok 81 @@ -16925,9 +16959,9 @@ ok 86 ok 87 ok 88 -ok 89 - Location String: 22..?64 +ok 89 - Location String: (122.133)..(204.221) ok 90 -ok 91 - Bio::Location::Split +ok 91 - Bio::Location::Simple ok 92 ok 93 ok 94 @@ -16936,7 +16970,7 @@ ok 97 ok 98 ok 99 -ok 100 - Location String: join(AY016290.1:108..185,AY016291.1:1546..1599) +ok 100 - Location String: 467 ok 101 ok 102 - Bio::Location::Fuzzy ok 103 @@ -16947,9 +16981,9 @@ ok 108 ok 109 ok 110 -ok 111 - Location String: ?2465..2774 +ok 111 - Location String: 1..? ok 112 -ok 113 - Bio::Location::Fuzzy +ok 113 - Bio::Location::Simple ok 114 ok 115 ok 116 @@ -16958,9 +16992,9 @@ ok 119 ok 120 ok 121 -ok 122 - Location String: <1..888 +ok 122 - Location String: J00194:100..202 ok 123 -ok 124 - Bio::Location::Simple +ok 124 - Bio::Location::Fuzzy ok 125 ok 126 ok 127 @@ -16969,7 +17003,7 @@ ok 130 ok 131 ok 132 -ok 133 - Location String: 467 +ok 133 - Location String: ?1..12 ok 134 ok 135 - Bio::Location::Fuzzy ok 136 @@ -16980,9 +17014,9 @@ ok 141 ok 142 ok 143 -ok 144 - Location String: ?..536 +ok 144 - Location String: (102.110) ok 145 -ok 146 - Bio::Location::Split +ok 146 - Bio::Location::Fuzzy ok 147 ok 148 ok 149 @@ -16991,9 +17025,9 @@ ok 152 ok 153 ok 154 -ok 155 - Location String: complement(join(2691..4571,4918..5163)) +ok 155 - Location String: 1..>888 ok 156 -ok 157 - Bio::Location::Fuzzy +ok 157 - Bio::Location::Split ok 158 ok 159 ok 160 @@ -17002,9 +17036,9 @@ ok 163 ok 164 ok 165 -ok 166 - Location String: ?..? +ok 166 - Location String: join(1..100,J00194.1:100..202) ok 167 -ok 168 - Bio::Location::Simple +ok 168 - Bio::Location::Fuzzy ok 169 ok 170 ok 171 @@ -17013,9 +17047,9 @@ ok 174 ok 175 ok 176 -ok 177 - Location String: 123^124 +ok 177 - Location String: ?2465..2774 ok 178 -ok 179 - Bio::Location::Simple +ok 179 - Bio::Location::Split ok 180 ok 181 ok 182 @@ -17024,7 +17058,7 @@ ok 185 ok 186 ok 187 -ok 188 - Location String: J00194:100..202 +ok 188 - Location String: join(AY016290.1:108..185,AY016291.1:1546..1599) ok 189 ok 190 - Bio::Location::Fuzzy ok 191 @@ -17046,7 +17080,7 @@ ok 207 ok 208 ok 209 -ok 210 - Location String: 1..? +ok 210 - Location String: complement(34..(122.126)) ok 211 ok 212 - Bio::Location::Split ok 213 @@ -17057,7 +17091,7 @@ ok 218 ok 219 ok 220 -ok 221 - Location String: join(12..78,134..202) +ok 221 - Location String: complement(join(2691..4571,4918..5163)) ok 222 ok 223 - Bio::Location::Fuzzy ok 224 @@ -17068,9 +17102,9 @@ ok 229 ok 230 ok 231 -ok 232 - Location String: complement(34..(122.126)) +ok 232 - Location String: (122.133)..(204.221) ok 233 -ok 234 - Bio::Location::Split +ok 234 - Bio::Location::Simple ok 235 ok 236 ok 237 @@ -17079,9 +17113,9 @@ ok 240 ok 241 ok 242 -ok 243 - Location String: join(1..100,J00194.1:100..202) +ok 243 - Location String: 340..565 ok 244 -ok 245 - Bio::Location::Fuzzy +ok 245 - Bio::Location::Split ok 246 ok 247 ok 248 @@ -17090,7 +17124,7 @@ ok 251 ok 252 ok 253 -ok 254 - Location String: (122.133)..(204.221) +ok 254 - Location String: join(12..78,134..202) ok 255 ok 256 - Bio::Location::Fuzzy ok 257 @@ -17101,9 +17135,9 @@ ok 262 ok 263 ok 264 -ok 265 - Location String: ?1..12 +ok 265 - Location String: <1..888 ok 266 -ok 267 - Bio::Location::Simple +ok 267 - Bio::Location::Fuzzy ok 268 ok 269 ok 270 @@ -17112,9 +17146,9 @@ ok 273 ok 274 ok 275 -ok 276 - Location String: J00194:100..202 +ok 276 - Location String: 22..?64 ok 277 -ok 278 - Bio::Location::Split +ok 278 - Bio::Location::Fuzzy ok 279 ok 280 ok 281 @@ -17123,7 +17157,7 @@ ok 284 ok 285 ok 286 -ok 287 - Location String: complement(join(94468..94578,94578..>94889)) +ok 287 - Location String: ?..? ok 288 ok 289 - Bio::Location::Fuzzy ok 290 @@ -17134,7 +17168,7 @@ ok 295 ok 296 ok 297 -ok 298 - Location String: <1..? +ok 298 - Location String: ?..>393 ok 299 ok 300 - Bio::Location::Fuzzy ok 301 @@ -17145,7 +17179,7 @@ ok 306 ok 307 ok 308 -ok 309 - Location String: ?..>393 +ok 309 - Location String: ?..536 ok 310 ok 311 - complement(join(2691..4571,4918..5163)) ok 312 - join(complement(4918..5163),complement(2691..4571)) @@ -18688,8 +18722,8 @@ ok 265 - correct number of loops for T8 ok 266 ok 267 - correct number of loops for T10 -ok 268 - correct number of loops for T11a -ok 269 +ok 268 +ok 269 - correct number of loops for T11a ok 270 - correct number of loops for T11a ok 271 - correct number of loops for T11a ok 272 - correct number of loops for T11 @@ -18748,9 +18782,9 @@ ok 325 ok 326 ok 327 - correct number of loops for T10 -ok 328 +ok 328 - correct number of loops for T11a ok 329 - correct number of loops for T11a -ok 330 - correct number of loops for T11a +ok 330 ok 331 - correct number of loops for T11a ok 332 - correct number of loops for T11 ok 333 @@ -19784,8 +19818,8 @@ ok 1361 - correct number of loops for T10 ok 1362 - correct number of loops for T11a ok 1363 - correct number of loops for T11a -ok 1364 - correct number of loops for T11a -ok 1365 +ok 1364 +ok 1365 - correct number of loops for T11a ok 1366 - correct number of loops for T11a ok 1367 - correct number of loops for T11 ok 1368 @@ -19809,9 +19843,9 @@ ok 1386 - correct number of loops for T8 ok 1387 ok 1388 - correct number of loops for T10 -ok 1389 +ok 1389 - correct number of loops for T11a ok 1390 - correct number of loops for T11a -ok 1391 - correct number of loops for T11a +ok 1391 ok 1392 - correct number of loops for T11a ok 1393 - correct number of loops for T11a ok 1394 - correct number of loops for T11 @@ -20102,7 +20136,7 @@ not ok 9 - primary_id # TODO possible bug: RichSeq not setting primary_id? # Failed (TODO) test 'primary_id' # at t/SeqIO/gcg.t line 54. -# got: 'Bio::PrimarySeq=HASH(0x22606b8)' +# got: 'Bio::PrimarySeq=HASH(0x1ed4bc8)' # expected: 'roa1_drome' ok 10 - description ok 11 @@ -20529,21 +20563,21 @@ ok 2 - Bio::SeqIO::mbsout is at least api version 1.1.3 ok 3 - An object of class 'Bio::SeqIO::mbsout' isa 'Bio::SeqIO::mbsout' ok 4 - An object of class 'Bio::SeqIO::mbsout' isa 'Bio::SeqIO::mbsout' -ok 5 - Get SEGSITES -ok 6 - Get NEXT_RUN_NUM -ok 7 - Get NREPS -ok 8 - Get RUNS -ok 9 - Get NFILES -ok 10 - Get TOT_RUN_HAPS -ok 11 - Get TRAJ_FILENAME -ok 12 - Get CURRENT_RUN_SEGSITES -ok 13 - Get POSITIONS -ok 14 - Get MBS_INFO_LINE -ok 15 - Get POP_RECOMB_PARAM_PER_SITE -ok 16 - Get LAST_READ_HAP_NUM -ok 17 - Get POP_MUT_PARAM_PER_SITE -ok 18 - Get NSITES -ok 19 - Get SELPOS +ok 5 - Get TOT_RUN_HAPS +ok 6 - Get NSITES +ok 7 - Get TRAJ_FILENAME +ok 8 - Get SELPOS +ok 9 - Get POP_RECOMB_PARAM_PER_SITE +ok 10 - Get NFILES +ok 11 - Get CURRENT_RUN_SEGSITES +ok 12 - Get POSITIONS +ok 13 - Get NREPS +ok 14 - Get SEGSITES +ok 15 - Get RUNS +ok 16 - Get MBS_INFO_LINE +ok 17 - Get NEXT_RUN_NUM +ok 18 - Get POP_MUT_PARAM_PER_SITE +ok 19 - Get LAST_READ_HAP_NUM ok 20 - Get next_hap at beginning of run ok 21 - Get next_hap after beginning of run ok 22 - Get next_pop after beginning of pop @@ -20554,21 +20588,21 @@ ok 27 - Get next_run at beginning of run ok 28 - have all lines been read? ok 29 - An object of class 'Bio::SeqIO::mbsout' isa 'Bio::SeqIO::mbsout' -ok 30 - Get SELPOS -ok 31 - Get LAST_READ_HAP_NUM -ok 32 - Get POP_MUT_PARAM_PER_SITE -ok 33 - Get NSITES -ok 34 - Get POSITIONS -ok 35 - Get MBS_INFO_LINE -ok 36 - Get POP_RECOMB_PARAM_PER_SITE -ok 37 - Get TRAJ_FILENAME -ok 38 - Get CURRENT_RUN_SEGSITES -ok 39 - Get TOT_RUN_HAPS -ok 40 - Get NEXT_RUN_NUM -ok 41 - Get NREPS -ok 42 - Get NFILES -ok 43 - Get RUNS -ok 44 - Get SEGSITES +ok 30 - Get CURRENT_RUN_SEGSITES +ok 31 - Get NFILES +ok 32 - Get POP_RECOMB_PARAM_PER_SITE +ok 33 - Get SELPOS +ok 34 - Get TRAJ_FILENAME +ok 35 - Get NSITES +ok 36 - Get TOT_RUN_HAPS +ok 37 - Get LAST_READ_HAP_NUM +ok 38 - Get POP_MUT_PARAM_PER_SITE +ok 39 - Get NEXT_RUN_NUM +ok 40 - Get MBS_INFO_LINE +ok 41 - Get RUNS +ok 42 - Get SEGSITES +ok 43 - Get NREPS +ok 44 - Get POSITIONS ok 45 - Get next_hap at beginning of run ok 46 - Get next_hap after beginning of run ok 47 - Testing mbsout::outgroup @@ -20579,21 +20613,21 @@ ok 52 - Get next_run after hap ok 53 - next run should be 5. ok 54 - An object of class 'Bio::SeqIO::mbsout' isa 'Bio::SeqIO::mbsout' -ok 55 - Get SEGSITES -ok 56 - Get NEXT_RUN_NUM -ok 57 - Get RUNS -ok 58 - Get NREPS -ok 59 - Get NFILES +ok 55 - Get CURRENT_RUN_SEGSITES +ok 56 - Get NFILES +ok 57 - Get POP_RECOMB_PARAM_PER_SITE +ok 58 - Get TRAJ_FILENAME +ok 59 - Get SELPOS ok 60 - Get TOT_RUN_HAPS -ok 61 - Get TRAJ_FILENAME -ok 62 - Get CURRENT_RUN_SEGSITES -ok 63 - Get POSITIONS -ok 64 - Get MBS_INFO_LINE -ok 65 - Get POP_RECOMB_PARAM_PER_SITE -ok 66 - Get LAST_READ_HAP_NUM -ok 67 - Get POP_MUT_PARAM_PER_SITE -ok 68 - Get NSITES -ok 69 - Get SELPOS +ok 61 - Get NSITES +ok 62 - Get LAST_READ_HAP_NUM +ok 63 - Get POP_MUT_PARAM_PER_SITE +ok 64 - Get NEXT_RUN_NUM +ok 65 - Get MBS_INFO_LINE +ok 66 - Get RUNS +ok 67 - Get SEGSITES +ok 68 - Get POSITIONS +ok 69 - Get NREPS ok 70 - Get next_run at end/beginning of run ok 71 - have all lines been read? ok 72 - Get next_run at eof @@ -20614,17 +20648,17 @@ ok 1 - use Bio::SeqIO::msout; ok 2 - Bio::SeqIO::msout is at least api version 1.1.5 ok 3 - An object of class 'Bio::SeqIO::msout' isa 'Bio::SeqIO::msout' -ok 4 - Get POPS -ok 5 - Get N_SITES -ok 6 - Get MS_INFO_LINE -ok 7 - Get RUNS -ok 8 - Get POSITIONS -ok 9 - Get LAST_READ_HAP_NUM -ok 10 - Get CURRENT_RUN_SEGSITES +ok 4 - Get LAST_READ_HAP_NUM +ok 5 - Get SEEDS +ok 6 - Get N_SITES +ok 7 - Get CURRENT_RUN_SEGSITES +ok 8 - Get RUNS +ok 9 - Get MS_INFO_LINE +ok 10 - Get SEGSITES ok 11 - Get NEXT_RUN_NUM -ok 12 - Get TOT_RUN_HAPS -ok 13 - Get SEGSITES -ok 14 - Get SEEDS +ok 12 - Get POSITIONS +ok 13 - Get TOT_RUN_HAPS +ok 14 - Get POPS ok 15 - Get next_hap at beginning of run ok 16 - Get next_hap after beginning of run ok 17 - Testing msout::outgroup @@ -20637,17 +20671,17 @@ ok 24 - Get next_run at beginning of run ok 25 - have all lines been read? ok 26 - An object of class 'Bio::SeqIO::msout' isa 'Bio::SeqIO::msout' -ok 27 - Get POSITIONS -ok 28 - Get RUNS -ok 29 - Get N_SITES -ok 30 - Get MS_INFO_LINE +ok 27 - Get SEGSITES +ok 28 - Get MS_INFO_LINE +ok 29 - Get RUNS +ok 30 - Get CURRENT_RUN_SEGSITES ok 31 - Get POPS -ok 32 - Get SEEDS -ok 33 - Get NEXT_RUN_NUM -ok 34 - Get TOT_RUN_HAPS -ok 35 - Get SEGSITES -ok 36 - Get CURRENT_RUN_SEGSITES -ok 37 - Get LAST_READ_HAP_NUM +ok 32 - Get TOT_RUN_HAPS +ok 33 - Get POSITIONS +ok 34 - Get NEXT_RUN_NUM +ok 35 - Get SEEDS +ok 36 - Get LAST_READ_HAP_NUM +ok 37 - Get N_SITES ok 38 - Get next_hap at beginning of run ok 39 - Get next_hap after beginning of run ok 40 - Testing msout::outgroup @@ -20659,16 +20693,16 @@ ok 46 - next run should be 5. ok 47 - Get last hap through next_hap ok 48 - An object of class 'Bio::SeqIO::msout' isa 'Bio::SeqIO::msout' -ok 49 - Get SEEDS -ok 50 - Get TOT_RUN_HAPS -ok 51 - Get NEXT_RUN_NUM -ok 52 - Get SEGSITES -ok 53 - Get CURRENT_RUN_SEGSITES -ok 54 - Get LAST_READ_HAP_NUM -ok 55 - Get POSITIONS -ok 56 - Get RUNS -ok 57 - Get MS_INFO_LINE -ok 58 - Get POPS +ok 49 - Get POSITIONS +ok 50 - Get NEXT_RUN_NUM +ok 51 - Get POPS +ok 52 - Get TOT_RUN_HAPS +ok 53 - Get RUNS +ok 54 - Get CURRENT_RUN_SEGSITES +ok 55 - Get SEGSITES +ok 56 - Get MS_INFO_LINE +ok 57 - Get LAST_READ_HAP_NUM +ok 58 - Get SEEDS ok 59 - Get next_pop at end of run ok 60 - have all lines been read? ok 61 - Get next_pop at eof @@ -20676,17 +20710,17 @@ ok 63 - Get next_hap at eof ok 64 - Get next_seq at eof ok 65 - An object of class 'Bio::SeqIO::msout' isa 'Bio::SeqIO::msout' -ok 66 - Get POSITIONS -ok 67 - Get RUNS +ok 66 - Get SEEDS +ok 67 - Get LAST_READ_HAP_NUM ok 68 - Get N_SITES ok 69 - Get MS_INFO_LINE -ok 70 - Get POPS -ok 71 - Get TOT_RUN_HAPS -ok 72 - Get NEXT_RUN_NUM -ok 73 - Get SEGSITES -ok 74 - Get SEEDS -ok 75 - Get LAST_READ_HAP_NUM -ok 76 - Get CURRENT_RUN_SEGSITES +ok 70 - Get SEGSITES +ok 71 - Get CURRENT_RUN_SEGSITES +ok 72 - Get RUNS +ok 73 - Get TOT_RUN_HAPS +ok 74 - Get POPS +ok 75 - Get NEXT_RUN_NUM +ok 76 - Get POSITIONS ok 77 - Get next_hap at beginning of run ok 78 - Get next_hap after beginning of run ok 79 - Testing msout::outgroup @@ -20703,17 +20737,17 @@ ok 90 - An object of class 'Bio::SeqIO::msout' isa 'Bio::SeqIO::msout' ok 91 - Caught error in bad msout file 2 ok 92 - An object of class 'Bio::SeqIO::msout' isa 'Bio::SeqIO::msout' -ok 93 - Get SEEDS -ok 94 - Get NEXT_RUN_NUM -ok 95 - Get TOT_RUN_HAPS -ok 96 - Get SEGSITES -ok 97 - Get CURRENT_RUN_SEGSITES -ok 98 - Get LAST_READ_HAP_NUM -ok 99 - Get POSITIONS -ok 100 - Get RUNS +ok 93 - Get TOT_RUN_HAPS +ok 94 - Get POPS +ok 95 - Get POSITIONS +ok 96 - Get NEXT_RUN_NUM +ok 97 - Get SEGSITES +ok 98 - Get MS_INFO_LINE +ok 99 - Get RUNS +ok 100 - Get CURRENT_RUN_SEGSITES ok 101 - Get N_SITES -ok 102 - Get MS_INFO_LINE -ok 103 - Get POPS +ok 102 - Get SEEDS +ok 103 - Get LAST_READ_HAP_NUM ok 104 - Get next_hap at beginning of run ok 105 - Get next_hap after beginning of run ok 106 - Testing msout::outgroup @@ -20726,17 +20760,17 @@ ok 113 - Get next_run at beginning of run ok 114 - have all lines been read? ok 115 - An object of class 'Bio::SeqIO::msout' isa 'Bio::SeqIO::msout' -ok 116 - Get POSITIONS -ok 117 - Get RUNS +ok 116 - Get LAST_READ_HAP_NUM +ok 117 - Get SEEDS ok 118 - Get N_SITES -ok 119 - Get MS_INFO_LINE -ok 120 - Get POPS +ok 119 - Get RUNS +ok 120 - Get CURRENT_RUN_SEGSITES ok 121 - Get SEGSITES -ok 122 - Get NEXT_RUN_NUM -ok 123 - Get TOT_RUN_HAPS -ok 124 - Get SEEDS -ok 125 - Get LAST_READ_HAP_NUM -ok 126 - Get CURRENT_RUN_SEGSITES +ok 122 - Get MS_INFO_LINE +ok 123 - Get POSITIONS +ok 124 - Get NEXT_RUN_NUM +ok 125 - Get TOT_RUN_HAPS +ok 126 - Get POPS ok 127 - Get next_hap at beginning of run ok 128 - Get next_hap after beginning of run ok 129 - Testing msout::outgroup @@ -20748,17 +20782,17 @@ ok 135 - next run should be 5. ok 136 - Get last hap through next_hap ok 137 - An object of class 'Bio::SeqIO::msout' isa 'Bio::SeqIO::msout' -ok 138 - Get POPS -ok 139 - Get RUNS -ok 140 - Get POSITIONS -ok 141 - Get N_SITES -ok 142 - Get MS_INFO_LINE -ok 143 - Get NEXT_RUN_NUM -ok 144 - Get SEGSITES -ok 145 - Get TOT_RUN_HAPS +ok 138 - Get MS_INFO_LINE +ok 139 - Get SEGSITES +ok 140 - Get CURRENT_RUN_SEGSITES +ok 141 - Get RUNS +ok 142 - Get POPS +ok 143 - Get TOT_RUN_HAPS +ok 144 - Get NEXT_RUN_NUM +ok 145 - Get POSITIONS ok 146 - Get SEEDS ok 147 - Get LAST_READ_HAP_NUM -ok 148 - Get CURRENT_RUN_SEGSITES +ok 148 - Get N_SITES ok 149 - Get next_hap at beginning of run ok 150 - Get next_hap after beginning of run ok 151 - Testing msout::outgroup @@ -20900,7 +20934,7 @@ not ok 29 - accuracies # TODO documentation and code for accuracies() do not match # Failed (TODO) test 'accuracies' # at t/SeqIO/scf.t line 78. -# got: 'ARRAY(0x25d0d40)' +# got: 'ARRAY(0x22c2100)' # expected: '482' ok 30 ok 31 - sub_peak_index @@ -25087,7 +25121,7 @@ ok t/nexml.t .............................. skipped: The optional module Bio::Phylo (or dependencies thereof) was not installed All tests successful. -Files=325, Tests=22589, 303 wallclock secs ( 5.44 usr 1.04 sys + 284.73 cusr 14.77 csys = 305.98 CPU) +Files=325, Tests=22589, 1154 wallclock secs (18.37 usr 5.48 sys + 1004.19 cusr 63.05 csys = 1091.09 CPU) Result: PASS create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary @@ -25098,1708 +25132,1708 @@ perl Build install --destdir /build/bioperl-1.7.2/debian/tmp --create_packlist 0 Building BioPerl Reading skip patterns from 'INSTALL.SKIP'. -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_tree2pag.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_classify_hits_kingdom.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_nexus2nh.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_translate_seq.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_mutate.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_process_sgd.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_seqret.pl.1p Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_biofetch_genbank_proxy.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_seqconvert.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_seqretsplit.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_biogetseq.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_taxid4species.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_oligo_count.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_generate_histogram.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_netinstall.pl.1p Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_find-blast-matches.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_dbsplit.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_bulk_load_gff.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_seqpart.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_gccalc.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_seqfeature_load.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_hivq.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_genbank2gff.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_taxid4species.pl.1p Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_index.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_hmmer_to_table.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_dbsplit.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_meta_gff.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_mrtrans.pl.1p Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_process_wormbase.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_revtrans-motif.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_seqret.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_seqretsplit.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_query_entrez_taxa.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_seqcut.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_chaos_plot.pl.1p Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_sreformat.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_fetch.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_meta_gff.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_search2table.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_nrdb.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_blast2tree.pl.1p Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_seq_length.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_gccalc.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_tree2pag.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_fast_load_gff.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_load_gff.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_bioflat_index.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_search2tribe.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_composite_LD.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_nexus2nh.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_seqpart.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_fastam9_to_table.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_oligo_count.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_search2table.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_flanks.pl.1p Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_make_mrna_protein.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_process_gadfly.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_genbank2gff3.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_hivq.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_heterogeneity_test.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_extract_feature_seq.pl.1p Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_remote_blast.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_genbank2gff.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_classify_hits_kingdom.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_download_query_genbank.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_filter_search.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_split_seq.pl.1p Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_aacomp.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_generate_histogram.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_biogetseq.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_parse_hmmsearch.pl.1p Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_unflatten_seq.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_search2tribe.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_fast_load_gff.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_hmmer_to_table.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_query_entrez_taxa.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_process_gadfly.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_heterogeneity_test.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_mask_by_search.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_process_sgd.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_fetch.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_seqconvert.pl.1p Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_local_taxonomydb_query.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_taxonomy2tree.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_netinstall.pl.1p Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_search2gff.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_mask_by_search.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_nrdb.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_blast2tree.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_split_seq.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_filter_search.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_composite_LD.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_bioflat_index.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_seqfeature_load.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_mrtrans.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_seqcut.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_parse_hmmsearch.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_flanks.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_chaos_plot.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_revtrans-motif.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_download_query_genbank.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_load_gff.pl.1p Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_search2alnblocks.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_extract_feature_seq.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_fastam9_to_table.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_taxonomy2tree.pl.1p -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LocationI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/RangeI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/OntologyIO.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/ClusterIO.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AnnotationI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_bulk_load_gff.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_mutate.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_genbank2gff3.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man1/bp_translate_seq.pl.1p +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Taxonomy.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Species.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AnnotationCollectionI.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DBLinkContainerI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/HandlerBaseI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/ClusterI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LocatableSeq.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/FeatureHolderI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/MapIO.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqUtils.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PhyloNetwork.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AnalysisResultI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Range.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/UpdateableSeqI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PrimarySeq.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/NexmlIO.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/WebAgent.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PrimarySeqI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/IdCollectionI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/ClusterIO.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/HandlerBaseI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DescribableI.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqAnalysisParserI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Taxon.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/WebAgent.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/ParameterBaseI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DasI.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Perl.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Species.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqI.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeatureI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AnnotationCollectionI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/IdentifiableI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AnnotatableI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SimpleAnalysisI.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchDist.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PrimarySeqI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Range.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Perl.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SimpleAnalysisI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/ClusterI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SimpleAlign.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/OntologyIO.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/RangeI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PrimarySeq.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AnalysisI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/NexmlIO.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PullParserI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AnalysisResultI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DescribableI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/IdCollectionI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/IdentifiableI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/MapIO.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AnnotationI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqUtils.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PhyloNetwork.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AnalysisParserI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Taxonomy.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Taxon.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DasI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AnalysisI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/ParameterBaseI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SimpleAlign.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/OntologyIO/obo.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/OntologyIO/simplehierarchy.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/OntologyIO/dagflat.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/OntologyIO/InterProParser.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/OntologyIO/goflat.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/OntologyIO/soflat.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/OntologyIO/Handlers/InterPro_BioSQL_Handler.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/OntologyIO/Handlers/InterProHandler.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/OntologyIO/Handlers/BaseSAXHandler.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LocatableSeq.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LocationI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AnnotatableI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/MolEvol/CodonModel.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PhylipDist.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/Mlagan.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/MatrixI.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/IO.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/Mlagan.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/Generic.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/Scoring.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PhylipDist.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/IO/scoring.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/IO/mlagan.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/IO/phylip.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/IO/mlagan.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/IO/scoring.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/Psm.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/InstanceSiteI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/SiteMatrix.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/PsmI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/ProtMatrix.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/PsmHeaderI.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/PsmHeader.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/ProtPsm.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/IO.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/ProtMatrix.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/PsmI.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/InstanceSite.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/SiteMatrix.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/PsmHeaderI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/Psm.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/InstanceSiteI.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/SiteMatrixI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/ProtPsm.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/IO/masta.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/IO/transfac.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/IO/mast.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/IO/masta.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/IO/psiblast.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/IO/meme.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Matrix/PSM/IO/mast.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/dpAlign.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/SeqPattern.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/AmpliconSearch.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Blat.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/SeqWords.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Gel.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/AnalysisResult.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/EPCR.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/tRNAscanSE.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/MZEF.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Promoterwise.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/PrositeScan.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Tmhmm.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Grail.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Fgenesh.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/pICalculator.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Genemark.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/AlignFactory.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/RandomDistFunctions.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/ipcress.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Lucy.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/RepeatMasker.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Sigcleave.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Match.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/TargetP.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/CodonTable.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Primer3.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Eponine.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Pseudowise.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/isPcr.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Genscan.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Hmmpfam.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Seg.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Est2Genome.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/FootPrinter.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/TandemRepeatsFinder.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/GuessSeqFormat.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Signalp.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/ECnumber.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/ESTScan.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Genewise.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Geneid.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Protparam.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/pSW.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/SiRNA.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/IUPAC.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Prints.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/QRNA.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Profile.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Glimmer.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/GFF.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Coil.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/OddCodes.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/SeqStats.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Genomewise.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Spidey/Exon.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Spidey/Results.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Sim4/Exon.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Sim4/Results.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/SiRNA/Ruleset/tuschl.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/SiRNA/Ruleset/saigo.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Signalp/ExtendedSignalp.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/HMMER/Results.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/HMMER/Set.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/HMMER/Domain.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Prediction/Gene.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Prediction/Exon.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Alignment/Trim.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Alignment/Consed.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Phylo/Molphy.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Phylo/Gumby.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Phylo/Gerp.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Phylo/Molphy/Result.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Phylo/Phylip/ProtDist.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Analysis/SimpleAnalysisBase.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Analysis/Protein/Scansite.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Analysis/Protein/ELM.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Analysis/Protein/NetPhos.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Analysis/Protein/HNN.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Analysis/Protein/Domcut.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Analysis/Protein/GOR4.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Analysis/Protein/Sopma.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Analysis/DNA/ESEfinder.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Primer/Feature.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Primer/Pair.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Primer/AssessorI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Primer/Assessor/Base.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/SeqPattern/Backtranslate.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Run/RemoteBlast.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Run/GenericParameters.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Run/ParametersI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/EMBOSS/Palindrome.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Das/FeatureTypeI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Das/SegmentI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Root/IO.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Root/Utilities.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Root/HTTPget.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Root/RootI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Root/Exception.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Root/Storable.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Root/Version.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Root/Build.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Root/Test.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Root/Root.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Root/TestObject.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqEvolution/DNAPoint.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqEvolution/Factory.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqEvolution/EvolutionI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/SequenceFactoryI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/DriverFactory.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/SeqAnalysisParserFactoryI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/LocationFactoryI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/RichSeqI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/LargeSeqI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/SeqWithQuality.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/QualI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/EncodedSeq.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/LargeLocatableSeq.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/SequenceTrace.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/PrimedSeq.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/LargePrimarySeq.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/SimulatedRead.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/BaseSeqProcessor.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/SeqBuilder.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/SeqFastaSpeedFactory.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/SeqFactory.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/Quality.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/PrimaryQual.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/RichSeq.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/Meta.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/MetaI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/TraceI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/LargeSeq.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/Meta/Array.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/ObjectFactory.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/SequenceStreamI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/MapFactoryI.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/SequenceProcessorI.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/SeqAnalysisParserFactory.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/ApplicationFactoryI.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/ObjectBuilderI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/FTLocationFactory.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/MapFactoryI.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/ObjectFactoryI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/TreeFactoryI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/SeqAnalysisParserFactoryI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/FTLocationFactory.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/DriverFactory.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/SequenceFactoryI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/LocationFactoryI.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/AnalysisI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Align/Utilities.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Align/ProteinStatistics.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Align/Graphics.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Align/StatisticsI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Align/DNAStatistics.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Align/AlignI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Align/PairwiseStatistics.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/Contig.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/IO.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/ContigAnalysis.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/ScaffoldI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/Scaffold.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/Singlet.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/Tools/ContigSpectrum.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/IO/tigr.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/IO/phrap.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/IO/ace.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/IO/bowtie.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/IO/maq.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/IO/sam.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/DBLink.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/Tree.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/Comment.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/StructuredValue.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/Relation.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/Target.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/TypeManager.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/SimpleValue.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/Collection.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/TagTree.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/Reference.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/OntologyTerm.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/AnnotationFactory.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Taxonomy/Tree.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/ApplicationFactoryI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/SequenceStreamI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Factory/TreeFactoryI.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Taxonomy/Node.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Taxonomy/Taxon.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Taxonomy/FactoryI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/OntologyStore.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/RelationshipType.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/Path.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/TermI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/RelationshipI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/SimpleOntologyEngine.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/OBOEngine.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/OntologyEngineI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/PathI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/Ontology.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/InterProTerm.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/Relationship.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/OBOterm.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/RelationshipFactory.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/DocumentRegistry.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/TermFactory.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/GOterm.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/OntologyI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/Term.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/SimpleGOEngine/GraphAdaptor.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Phenotype/Correlate.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Taxonomy/Taxon.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Taxonomy/Tree.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/MapI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/RelativeI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/SimpleMap.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/Clone.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/Prediction.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/Physical.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/PositionWithSequence.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/PositionHandler.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/LinkagePosition.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/CytoPosition.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/Marker.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/Position.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/PositionI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/MarkerI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/GeneRelative.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/FPCMarker.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/GeneMap.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/CytoMarker.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/TranscriptionFactor.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/PositionHandlerI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/Mappable.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/Relative.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/Gene.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/OrderedPosition.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/OrderedPositionWithDistance.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/EntityI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/MappableI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/Contig.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/CytoMap.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/LinkageMap.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/GenePosition.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/Microsatellite.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Phenotype/Measure.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Phenotype/Phenotype.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Phenotype/Correlate.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Phenotype/PhenotypeI.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Phenotype/OMIM/OMIMentryAllelicVariant.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Phenotype/OMIM/OMIMentry.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Phenotype/OMIM/OMIMparser.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Phenotype/OMIM/MiniMIMentry.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Phenotype/MeSH/Twig.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Phenotype/MeSH/Term.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/CodonUsage/IO.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/CodonUsage/Table.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Location/Split.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Location/CoordinatePolicyI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Location/NarrowestCoordPolicy.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Location/FuzzyLocationI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Location/Atomic.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Location/Fuzzy.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Location/SplitLocationI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Location/WidestCoordPolicy.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Location/AvWithinCoordPolicy.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Location/Simple.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/TreeEventBuilder.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/nexus.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/pag.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/svggraph.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/nexml.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/lintree.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/phyloxml.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/NewickParser.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/newick.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/nhx.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/cluster.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/tabtree.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/ClusterIO/unigene.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/ClusterIO/dbsnp.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Structure/IO.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Structure/Model.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Structure/StructureI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Structure/Entry.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Structure/Residue.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Structure/Atom.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Structure/Chain.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Structure/IO/pdb.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Structure/SecStr/DSSP/Res.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Structure/SecStr/STRIDE/Res.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/MolEvol/CodonModel.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/bsml_sax.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/qual.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/fastq.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/chaos.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/excel.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/chadoxml.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/FTHelper.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/seqxml.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/tigr.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/tinyseq.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/table.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/lasergene.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/tigrxml.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/phd.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/pln.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/strider.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/locuslink.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/ace.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/tab.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/agave.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/fasta.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/chaosxml.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/swissdriver.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/ztr.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/mbsout.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/bsml.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/embl.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/genbank.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/raw.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/alf.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/gcg.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/pir.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/metafasta.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/swiss.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/embldriver.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/game.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/largefasta.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/gbxml.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/ctf.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/flybase_chadoxml.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/MultiFile.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/abi.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/nexml.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/exp.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/entrezgene.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/scf.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/interpro.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/kegg.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/asciitree.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/gbdriver.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/msout.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/Handler/GenericRichSeqHandler.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/tinyseq/tinyseqHandler.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/game/gameWriter.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/game/gameHandler.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/game/featHandler.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/game/gameSubs.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/game/seqHandler.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/Statistics.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/IO.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/TagHaplotype.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Phenotype/MeSH/Twig.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PhyloNetwork/TreeFactoryX.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PhyloNetwork/muVector.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PhyloNetwork/FactoryX.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PhyloNetwork/GraphViz.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PhyloNetwork/TreeFactoryMulti.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PhyloNetwork/Factory.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PhyloNetwork/TreeFactory.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PhyloNetwork/RandomFactory.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/OntologyIO/obo.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/OntologyIO/goflat.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/OntologyIO/InterProParser.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/OntologyIO/simplehierarchy.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/OntologyIO/soflat.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/OntologyIO/dagflat.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/OntologyIO/Handlers/InterPro_BioSQL_Handler.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/OntologyIO/Handlers/BaseSAXHandler.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/OntologyIO/Handlers/InterProHandler.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/Utilities.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/GenotypeI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/Genotype.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/PopStats.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/Individual.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/HtSNP.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/Marker.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/Individual.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/TagHaplotype.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/GenotypeI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/Statistics.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/MarkerI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/Population.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/IndividualI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/IO.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/Genotype.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/PopStats.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/PopulationI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/Population.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/IO/phase.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/IO/prettybase.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/IO/csv.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/IO/hapmap.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/IO/csv.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/IO/phase.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/Simulation/GeneticDrift.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PopGen/Simulation/Coalescent.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/proda.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/psi.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/mase.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/selex.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/emboss.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/fasta.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/pfam.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/largemultifasta.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/nexus.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/po.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/metafasta.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/xmfa.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/mega.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/arp.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/msf.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/stockholm.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/nexml.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/phylip.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/maf.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/meme.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/prodom.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/bl2seq.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/clustalw.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/Handler/GenericAlignHandler.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/MapIO/fpc.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/MapIO/mapmaker.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/GenericStatistics.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/BlastStatistics.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Processor.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/DatabaseI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/BlastUtils.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/StatisticsI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/GenericDatabase.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/SearchUtils.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/hmmer3Result.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/BlastResult.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/GenericResult.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/WABAResult.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/ResultFactory.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/INFERNALResult.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/CrossMatchResult.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/BlastPullResult.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/HmmpfamResult.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/PullResultI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/HMMERResult.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/ResultI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/PSLHSP.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/HMMERHSP.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/WABAHSP.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/PsiBlastHSP.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/HSPI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/ModelHSP.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/GenericHSP.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/HmmpfamHSP.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/HSPFactory.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/BlastPullHSP.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/PullHSPI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/BlastHSP.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/FastaHSP.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Tiling/MapTiling.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Tiling/MapTileUtils.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Tiling/TilingI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/HitFactory.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/hmmer3Hit.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/BlastHit.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/HmmpfamHit.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/GenericHit.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/HMMERHit.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/PsiBlastHit.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/BlastPullHit.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/PullHitI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/Fasta.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/HitI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/ModelHit.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Iteration/IterationI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Iteration/GenericIteration.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/Hmmer.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/Abstract.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/EMBL.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/GenBank.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/Swissprot.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/Stockholm.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/Fastq.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/AbstractSeq.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/SwissPfam.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/BlastTable.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/Fasta.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/Qual.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/Blast.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/LocationI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GenericWebAgent.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/DBFetch.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/BioFetch.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/HIV.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SwissProt.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/hmmer_pull.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/SearchResultEventBuilder.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/FastHitEventBuilder.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/waba.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/hmmer.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/hmmer3.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/blasttable.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/blast.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/rnamotif.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/SearchWriterI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/blast_pull.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/gmap_f9.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/infernal.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/EventHandlerI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/exonerate.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/cross_match.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/psl.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/hmmer2.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/sim4.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/erpin.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/wise.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/axt.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/fasta.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/megablast.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/IteratedSearchResultEventBuilder.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/Writer/HTMLResultWriter.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/Writer/HitTableWriter.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/Writer/GbrowseGFF.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/Writer/TextResultWriter.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/Writer/HSPTableWriter.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/Writer/ResultTableWriter.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Cluster/SequenceFamily.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Cluster/UniGeneI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Cluster/UniGene.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Cluster/ClusterFactory.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Cluster/FamilyI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/ClusterIO/dbsnp.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/ClusterIO/unigene.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Qual.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GenPept.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Taxonomy.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/TFBS.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqVersion.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Flat.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/NCBIHelper.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/UpdateableSeqI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/EMBL.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/EntrezGene.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GenericWebAgent.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/IndexedBase.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/InMemoryCache.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/CUTG.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GenBank.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Registry.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Universal.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/WebDBSeqI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/CUTG.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/InMemoryCache.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/RefSeq.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqVersion.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/IndexedBase.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/RandomAccessI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/MeSH.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/NCBIHelper.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Taxonomy.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/FileCache.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Failover.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Flat.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Fasta.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GenPept.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Qual.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/QueryI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/TFBS.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/HIV.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Expression.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/DBFetch.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Ace.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/ReferenceI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Expression.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/HIV/HIVQueryHelper.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/HIV/lanl-schema.xml -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/HIV/HIVAnnotProcessor.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqVersion/gi.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Taxonomy/entrez.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Registry.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Universal.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/MeSH.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/EntrezGene.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/BioFetch.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Failover.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SwissProt.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/QueryI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/RefSeq.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/RandomAccessI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Fasta.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/LocationI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/EMBL.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Query/HIVQuery.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Query/GenBank.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Query/WebQuery.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Taxonomy/silva.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Taxonomy/flatfile.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Taxonomy/greengenes.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Taxonomy/sqlite.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Taxonomy/greengenes.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Taxonomy/entrez.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Taxonomy/flatfile.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Taxonomy/list.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/TFBS/transfac_pro.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Flat/BDB.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Flat/BinarySearch.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Flat/BDB/fasta.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Flat/BDB/embl.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Flat/BDB/genbank.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Flat/BDB/swiss.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Query/GenBank.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Query/HIVQuery.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Query/WebQuery.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Expression/geo.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/TFBS/transfac_pro.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/NormalizedFeatureI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Segment.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/NormalizedTableFeatureI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/NormalizedFeature.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/FeatureFileLoader.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/LoadHelper.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/Loader.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/memory.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/berkeleydb.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/berkeleydb3.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/GFF2Loader.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/GFF3Loader.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/bdb.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/DBI/mysql.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/DBI/Pg.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/DBI/Iterator.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/DBI/SQLite.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Feature.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Flat/BDB/genbank.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Homol.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/RelSegment.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Featname.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Feature.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Segment.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Homol.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/RelSegment.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Typename.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/biofetch_oracle.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/memory.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/dbi.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/biofetch.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/ace.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/berkeleydb.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/biofetch.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/biofetch_oracle.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/dbi.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/memory/iterator.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/memory/feature_serializer.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/berkeleydb/iterator.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/dbi/mysql.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/dbi/iterator.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/dbi/caching_handle.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/dbi/pg.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/dbi/pg_fts.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/dbi/oracle.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/dbi/mysqlcmap.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/dbi/iterator.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/dbi/mysqlopt.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/dbi/mysqlace.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/dbi/oracle.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/dbi/oracleace.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Util/Rearrange.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Util/Binning.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/so_transcript.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/alignment.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/dbi/pg_fts.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/dbi/pg.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/dbi/mysqlcmap.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Adaptor/berkeleydb/iterator.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/ucsc_twinscan.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/processed_transcript.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/ucsc_softberry.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/ucsc_unigene.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/ucsc_acembly.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/clone.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/ucsc_refgene.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/ucsc_sanger22.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/gene.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/ucsc_genscan.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/ucsc_sanger22.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/ucsc_ensgene.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/ucsc_twinscan.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/ucsc_refgene.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/transcript.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/so_transcript.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/ucsc_ensgene.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/match.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/ucsc_sanger22pseudo.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/alignment.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/ucsc_acembly.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/ucsc_softberry.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/none.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/ucsc_unigene.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/coding.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/ucsc_sanger22pseudo.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/clone.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Aggregator/orf.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/SeqBuilder.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/LargeSeq.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/BaseSeqProcessor.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/Meta.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/RichSeqI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/SeqWithQuality.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/SequenceTrace.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/EncodedSeq.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/MetaI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/TraceI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/LargeLocatableSeq.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/PrimedSeq.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/LargePrimarySeq.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/RichSeq.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/SimulatedRead.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/Quality.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/QualI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/LargeSeqI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/SeqFastaSpeedFactory.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/SeqFactory.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/PrimaryQual.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Seq/Meta/Array.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Event/EventGeneratorI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Event/EventHandlerI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Nexml/Factory.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Draw/Pictogram.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Restriction/IO.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Restriction/EnzymeCollection.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Util/Rearrange.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/GFF/Util/Binning.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/HIV/HIVAnnotProcessor.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/HIV/HIVQueryHelper.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/HIV/lanl-schema.xml +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/NormalizedTableFeatureI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/NormalizedFeatureI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Segment.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/NormalizedFeature.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/LoadHelper.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/berkeleydb3.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/memory.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/bdb.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/Loader.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/GFF3Loader.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/FeatureFileLoader.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/GFF2Loader.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/berkeleydb.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/DBI/mysql.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/DBI/Iterator.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/DBI/SQLite.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqFeature/Store/DBI/Pg.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/SeqVersion/gi.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/DB/Expression/geo.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/MapIO/mapmaker.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/MapIO/fpc.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/TermI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/Path.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/Ontology.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/InterProTerm.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/RelationshipFactory.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/TermFactory.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/Relationship.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/OntologyI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/OntologyStore.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/Term.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/OntologyEngineI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/OBOEngine.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/RelationshipType.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/SimpleOntologyEngine.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/OBOterm.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/PathI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/RelationshipI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/GOterm.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/DocumentRegistry.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Ontology/SimpleGOEngine/GraphAdaptor.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Root/Root.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Root/Utilities.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Root/Test.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Root/Version.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Root/RootI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Root/Exception.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Root/TestObject.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Root/HTTPget.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Root/IO.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Root/Storable.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Root/Build.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/BlastStatistics.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/BlastUtils.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/StatisticsI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Processor.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/GenericStatistics.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/DatabaseI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/SearchUtils.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/GenericDatabase.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/BlastHSP.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/BlastPullHSP.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/ModelHSP.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/HmmpfamHSP.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/PsiBlastHSP.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/FastaHSP.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/HMMERHSP.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/HSPFactory.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/GenericHSP.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/PullHSPI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/HSPI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/WABAHSP.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/HSP/PSLHSP.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/BlastHit.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/hmmer3Hit.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/HmmpfamHit.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/BlastPullHit.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/HitFactory.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/HMMERHit.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/PullHitI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/PsiBlastHit.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/GenericHit.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/ModelHit.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/HitI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Hit/Fasta.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Iteration/IterationI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Iteration/GenericIteration.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Tiling/MapTiling.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Tiling/TilingI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Tiling/MapTileUtils.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/BlastResult.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/WABAResult.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/HmmpfamResult.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/GenericResult.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/INFERNALResult.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/hmmer3Result.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/PullResultI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/BlastPullResult.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/ResultI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/CrossMatchResult.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/ResultFactory.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Search/Result/HMMERResult.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/CollectionI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Collection.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/SubSeq.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Lite.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/PositionProxy.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/SimilarityPair.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Primer.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/FeaturePair.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/TypedSeqFeatureI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Computation.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/AnnotationAdaptor.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Amplicon.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Similarity.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Generic.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Gene/UTR.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Gene/ExonI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Gene/GeneStructureI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Gene/NC_Feature.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Gene/GeneStructure.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Gene/TranscriptI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Gene/Poly_A_site.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Gene/Transcript.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Gene/Promoter.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Gene/Exon.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Gene/Intron.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/SiRNA/Oligo.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/SiRNA/Pair.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Tools/Unflattener.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Tools/FeatureNamer.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Tools/IDHandler.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Tools/TypeMapper.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Location/WidestCoordPolicy.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Location/Fuzzy.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Location/NarrowestCoordPolicy.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Location/AvWithinCoordPolicy.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Location/FuzzyLocationI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Location/CoordinatePolicyI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Location/Split.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Location/Atomic.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Location/SplitLocationI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Location/Simple.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Restriction/Enzyme.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Restriction/Analysis.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Restriction/EnzymeI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Restriction/EnzymeCollection.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Restriction/IO.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Restriction/Analysis.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Restriction/IO/prototype.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Restriction/IO/itype2.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Restriction/IO/withrefm.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Restriction/IO/bairoch.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Restriction/IO/base.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Restriction/Enzyme/MultiCut.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Restriction/IO/itype2.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Restriction/IO/bairoch.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Restriction/Enzyme/MultiSite.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Variation/RNAChange.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Restriction/Enzyme/MultiCut.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Event/EventGeneratorI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Event/EventHandlerI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/selex.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/clustalw.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/emboss.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/maf.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/psi.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/po.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/xmfa.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/stockholm.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/mega.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/msf.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/proda.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/nexml.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/phylip.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/fasta.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/mase.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/metafasta.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/nexus.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/arp.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/bl2seq.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/meme.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/largemultifasta.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/prodom.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/pfam.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/AlignIO/Handler/GenericAlignHandler.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Variation/VariantI.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Variation/AAChange.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Variation/IO.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Variation/Allele.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Variation/SNP.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Variation/AAReverseMutate.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Variation/DNAMutation.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Variation/VariantI.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Variation/SeqDiff.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Variation/RNAChange.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Variation/SNP.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Variation/Allele.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Variation/IO.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Variation/DNAMutation.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Variation/IO/flat.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Variation/IO/xml.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Symbol/ProteinAlphabet.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Symbol/DNAAlphabet.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Symbol/Alphabet.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Symbol/SymbolI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Symbol/AlphabetI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Symbol/Symbol.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PhyloNetwork/FactoryX.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PhyloNetwork/GraphViz.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PhyloNetwork/TreeFactoryMulti.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PhyloNetwork/Factory.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PhyloNetwork/TreeFactoryX.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PhyloNetwork/muVector.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PhyloNetwork/TreeFactory.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/PhyloNetwork/RandomFactory.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/blasttable.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/SearchWriterI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/wise.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/FastHitEventBuilder.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/rnamotif.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/SearchResultEventBuilder.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/exonerate.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/psl.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/fasta.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/cross_match.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/infernal.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/IteratedSearchResultEventBuilder.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/gmap_f9.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/megablast.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/hmmer3.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/hmmer.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/hmmer_pull.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/sim4.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/blast.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/hmmer2.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/EventHandlerI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/waba.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/axt.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/blast_pull.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/erpin.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/Writer/GbrowseGFF.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/Writer/TextResultWriter.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/Writer/HitTableWriter.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/Writer/HSPTableWriter.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/Writer/HTMLResultWriter.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SearchIO/Writer/ResultTableWriter.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/Mappable.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/Prediction.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/OrderedPosition.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/Contig.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/EntityI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/Gene.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/TranscriptionFactor.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/PositionHandler.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/SimpleMap.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/GenePosition.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/PositionWithSequence.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/FPCMarker.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/PositionI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/CytoPosition.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/MappableI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/Physical.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/Marker.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/OrderedPositionWithDistance.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/MapI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/GeneRelative.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/GeneMap.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/CytoMarker.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/Relative.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/Position.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/LinkagePosition.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/CytoMap.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/Clone.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/MarkerI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/Microsatellite.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/LinkageMap.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/PositionHandlerI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Map/RelativeI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Cluster/FamilyI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Cluster/SequenceFamily.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Cluster/UniGeneI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Cluster/UniGene.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Cluster/ClusterFactory.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/Statistics.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/NodeNHX.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/Tree.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/Node.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/AlleleNode.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/Compatible.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/AnnotatableNode.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/DistanceFactory.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/RandomFactory.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/TreeI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/NodeI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/TreeFunctionsI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/Draw/Cladogram.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/Prim_Transcript.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/Gene.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/SeqI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/Singlet.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/ContigAnalysis.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/IO.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/Contig.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/Scaffold.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/ScaffoldI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/IO/bowtie.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/IO/maq.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/IO/tigr.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/IO/sam.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/IO/phrap.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/IO/ace.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Assembly/Tools/ContigSpectrum.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/Translation.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/Mutator.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/Exon.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/Range.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/Repeat_Region.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/AARange.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/Range.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/SeqI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/Mutator.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/Repeat_Unit.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/ChainI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/Gene.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/Chain.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/Transcript.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/Mutation.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/Exon.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/Intron.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/AARange.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/Chain.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/ChainI.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/DNA.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/IO/Loader.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/Prim_Transcript.pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/IO/BioPerl.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/FeaturePair.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/TypedSeqFeatureI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Amplicon.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Generic.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/SimilarityPair.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Computation.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Similarity.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Primer.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Collection.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/PositionProxy.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/CollectionI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/SubSeq.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Lite.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/AnnotationAdaptor.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Tools/Unflattener.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Tools/TypeMapper.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Tools/IDHandler.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Tools/FeatureNamer.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/SiRNA/Pair.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/SiRNA/Oligo.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Gene/ExonI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Gene/GeneStructure.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Gene/UTR.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Gene/Promoter.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Gene/NC_Feature.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Gene/Exon.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Gene/GeneStructureI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Gene/TranscriptI.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Gene/Transcript.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Gene/Intron.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqFeature/Gene/Poly_A_site.pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Query::WebQuery.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::MetaI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Assembly::Scaffold.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::Handler::GenericAlignHandler.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchDist.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Run::ParametersI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::PositionI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PullParserI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Result::HMMERResult.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Phylo::Molphy::Result.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::Gene::Poly_A_site.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Genemark.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Taxon.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Aggregator::ucsc_twinscan.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::HIV::HIVAnnotProcessor.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::FeaturePair.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::Meta.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Index::GenBank.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Result::PullResultI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Assembly::IO::phrap.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Range.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::pln.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::msf.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::tRNAscanSE.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tree::Compatible.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Homol.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Flat::BDB::genbank.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::swissdriver.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::PhylipDist.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Align::Utilities.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::HMMER::Domain.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::UpdateableSeqI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PhyloNetwork::TreeFactoryX.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::RichSeqI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Phenotype::MeSH::Term.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::Genotype.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::ctf.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Location::Simple.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::QualI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Assembly::Singlet.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Draw::Pictogram.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Ontology::RelationshipFactory.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/LiveSeq/IO/Loader.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Nexml/Factory.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Structure/Atom.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Structure/Residue.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Structure/StructureI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Structure/Model.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Structure/Chain.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Structure/IO.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Structure/Entry.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Structure/SecStr/STRIDE/Res.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Structure/SecStr/DSSP/Res.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Structure/IO/pdb.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/AnnotatableNode.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/Compatible.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/Node.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/NodeNHX.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/AlleleNode.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/Statistics.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/DistanceFactory.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/Tree.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/TreeFunctionsI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/NodeI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/TreeI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/RandomFactory.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tree/Draw/Cladogram.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/NewickParser.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/cluster.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/phyloxml.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/nhx.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/nexml.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/svggraph.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/nexus.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/TreeEventBuilder.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/tabtree.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/lintree.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/newick.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/TreeIO/pag.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Das/SegmentI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Das/FeatureTypeI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/scf.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/tigrxml.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/FTHelper.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/msout.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/lasergene.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/pir.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/bsml_sax.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/mbsout.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/ctf.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/chaosxml.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/seqxml.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/pln.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/chadoxml.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/exp.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/bsml.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/abi.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/MultiFile.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/phd.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/strider.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/alf.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/tab.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/kegg.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/fastq.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/nexml.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/tigr.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/table.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/entrezgene.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/gbxml.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/raw.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/game.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/chaos.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/tinyseq.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/fasta.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/flybase_chadoxml.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/embl.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/excel.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/metafasta.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/gcg.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/gbdriver.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/locuslink.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/agave.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/asciitree.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/swiss.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/qual.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/interpro.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/largefasta.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/genbank.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/ztr.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/swissdriver.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/ace.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/embldriver.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/game/gameWriter.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/game/seqHandler.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/game/gameHandler.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/game/gameSubs.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/game/featHandler.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/tinyseq/tinyseqHandler.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqIO/Handler/GenericRichSeqHandler.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/TypeManager.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/OntologyTerm.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/DBLink.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/Comment.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/Collection.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/Relation.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/SimpleValue.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/AnnotationFactory.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/Tree.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/Reference.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/TagTree.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/StructuredValue.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Annotation/Target.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/CodonUsage/Table.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/CodonUsage/IO.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqEvolution/DNAPoint.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqEvolution/EvolutionI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/SeqEvolution/Factory.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/Qual.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/SwissPfam.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/BlastTable.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/GenBank.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/Fastq.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/Abstract.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/Hmmer.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/Swissprot.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/Stockholm.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/Blast.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/AbstractSeq.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/Fasta.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Index/EMBL.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Symbol/SymbolI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Symbol/AlphabetI.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Symbol/ProteinAlphabet.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Symbol/Alphabet.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Symbol/DNAAlphabet.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Symbol/Symbol.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Draw/Pictogram.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Coil.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/ECnumber.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/AnalysisResult.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Seg.pm +Installing 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/build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/GuessSeqFormat.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/RepeatMasker.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Protparam.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/isPcr.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Genscan.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/tRNAscanSE.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/pSW.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/TargetP.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/RandomDistFunctions.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/SeqStats.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Genomewise.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/pICalculator.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Tmhmm.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Signalp.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Profile.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Eponine.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Promoterwise.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Gel.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/TandemRepeatsFinder.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/SiRNA.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/ipcress.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/ESTScan.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Geneid.pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/perl5/Bio/Tools/Lucy.pm +Installing 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/build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SimpleAnalysisI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::AmpliconSearch.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::entrezgene.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::TranscriptionFactor.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Location::NarrowestCoordPolicy.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Ontology::Term.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Taxonomy.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Tiling::MapTileUtils.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Phylo::Phylip::ProtDist.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GenPept.3pm +Installing 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/build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::ipcress.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::Writer::HTMLResultWriter.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::Gene::Transcript.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Structure::Entry.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Sim4::Exon.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Symbol::AlphabetI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::tinyseq::tinyseqHandler.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::MapIO::mapmaker.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::GFF.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Analysis::Protein::Sopma.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Factory::AnalysisI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Phenotype::OMIM::MiniMIMentry.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::ztr.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Factory::FTLocationFactory.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::MatrixI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::psi.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Analysis::SimpleAnalysisBase.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::IO::mlagan.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Glimmer.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::Store::Loader.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::QRNA.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::OntologyIO.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Eponine.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Alignment::Trim.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::SearchUtils.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::IO::phylip.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchDist.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::swissdriver.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Align::Graphics.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Taxonomy::entrez.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::RichSeq.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::ClusterIO.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::CytoPosition.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Coil.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::SiRNA.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::TreeIO::NewickParser.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::biofetch.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Variation::SNP.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Processor.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::ace.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::Microsatellite.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::OntologyIO::dagflat.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::FeatureHolderI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::PSM::IO::transfac.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Assembly::IO::tigr.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Genemark.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tree::NodeNHX.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::memory::iterator.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::HIV::HIVQueryHelper.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::phylip.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::Scoring.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::DBFetch.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::tigr.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::HSP::HmmpfamHSP.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Annotation::Comment.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::SiRNA::Pair.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::HSP::PullHSPI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::IO::phase.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SimpleAlign.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Index::Qual.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Assembly::Contig.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::SeqWords.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Variation::SeqDiff.3pm -Installing 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+Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Taxonomy::Node.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PhyloNetwork::TreeFactoryMulti.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Taxonomy::sqlite.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::Store::LoadHelper.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Root::IO.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PhyloNetwork::muVector.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Annotation::StructuredValue.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::PopStats.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::MapI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Analysis::SimpleAnalysisBase.3pm +Installing 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/build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Phenotype::Correlate.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Annotation::TypeManager.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Index::Hmmer.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Assembly::IO::maq.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::erpin.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Location::AvWithinCoordPolicy.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::interpro.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::EncodedSeq.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::infernal.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::HSP::FastaHSP.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Aggregator.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::FastHitEventBuilder.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Profile.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Restriction::IO::base.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Flat::BinarySearch.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Ontology::InterProTerm.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::PSM::ProtPsm.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Phenotype::OMIM::OMIMparser.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::Tools::IDHandler.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Factory::MapFactoryI.3pm -Installing 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/build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::TreeIO::nhx.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::SearchWriterI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Index::BlastTable.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::Gene::ExonI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GenericWebAgent.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::Store::memory.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::FPCMarker.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Flat::BDB::swiss.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::Microsatellite.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::HSP::PsiBlastHSP.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Ontology::Ontology.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Aggregator::match.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Ace.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Geneid.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Structure::Entry.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Result::INFERNALResult.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Index::AbstractSeq.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::dbi::oracle.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AnalysisParserI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqVersion.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::IO.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Restriction::Enzyme::MultiSite.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::pfam.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::fasta.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::Gene::TranscriptI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::largefasta.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Aggregator::ucsc_acembly.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Cluster::UniGeneI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Ontology::Relationship.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::strider.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::meme.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Symbol::DNAAlphabet.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::Writer::GbrowseGFF.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PhyloNetwork::RandomFactory.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Structure::Atom.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::Genotype.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::NormalizedTableFeatureI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::Handler::GenericRichSeqHandler.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GenBank.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::PSM::ProtMatrix.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::StatisticsI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::HSP::GenericHSP.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::Quality.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::hmmer_pull.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::mbsout.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Variation::SeqDiff.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LiveSeq::Prim_Transcript.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Variation::AAChange.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Restriction::IO::withrefm.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Annotation::TypeManager.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::Computation.3pm -Installing 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/build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::OntologyIO::simplehierarchy.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::Generic.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::dbi::mysqlace.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::MapIO.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::ClusterIO::unigene.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Structure::Residue.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::GenericDatabase.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::DatabaseI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::NormalizedFeature.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Result::ResultFactory.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LiveSeq::SeqI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Variation::VariantI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Symbol::Symbol.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Hit::BlastHit.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::dbi::mysqlopt.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::InMemoryCache.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LiveSeq::Chain.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Taxonomy::flatfile.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Hit::ModelHit.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::PrimaryQual.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::NCBIHelper.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::rnamotif.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::PSM::PsmHeader.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Util::Binning.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Ontology::OBOterm.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::axt.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Flat::BDB.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::SubSeq.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Analysis::Protein::Scansite.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Hit::PullHitI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::chadoxml.3pm -Installing 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/build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Lucy.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::HSP::BlastHSP.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::game::gameWriter.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Iteration::GenericIteration.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::lasergene.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::nexus.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::Utilities.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::Store::GFF3Loader.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::LinkagePosition.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Root::IO.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Signalp::ExtendedSignalp.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::mase.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Result::BlastResult.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::Mlagan.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::Prediction.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::Marker.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PhyloNetwork.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Hit::BlastPullHit.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::LinkageMap.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Phylo::Molphy.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::Tools::IDHandler.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Assembly::ContigAnalysis.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::PSM::IO::meme.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Feature.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Tiling::MapTileUtils.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PrimarySeqI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::swiss.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::Relative.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Result::ResultFactory.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::HSP::HMMERHSP.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::memory::feature_serializer.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Factory::SeqAnalysisParserFactoryI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::IteratedSearchResultEventBuilder.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Result::HMMERResult.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::TagHaplotype.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::NormalizedFeatureI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::megablast.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Root::Storable.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::PSM::IO::masta.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LiveSeq::IO::BioPerl.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Analysis::DNA::ESEfinder.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Assembly::IO::sam.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Location::CoordinatePolicyI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::QueryI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::IndexedBase.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::HMMER::Domain.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tree::Tree.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Restriction::Enzyme::MultiSite.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Aggregator::alignment.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::Writer::HSPTableWriter.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::Clone.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::emboss.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Geneid.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::chaos.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Flat::BDB::swiss.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Annotation::OntologyTerm.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::IUPAC.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::Gene::NC_Feature.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Annotation::Tree.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tree::Draw::Cladogram.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::OntologyIO::obo.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Factory::ObjectFactoryI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::WebAgent.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Annotation::AnnotationFactory.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::maf.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Location::Fuzzy.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqUtils.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Hmmpfam.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::GeneRelative.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::fastq.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Variation::AAReverseMutate.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::SearchWriterI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqVersion.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Eponine.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Analysis::DNA::ESEfinder.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::NormalizedFeatureI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::tab.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::game::gameHandler.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::HSP::WABAHSP.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Hit::hmmer3Hit.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::infernal.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Run::RemoteBlast.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Protparam.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Cluster::SequenceFamily.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Taxonomy::FactoryI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::Store.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Factory::SequenceStreamI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::CodonTable.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::PSM::SiteMatrix.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::hmmer3.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::WebAgent.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::CodonUsage::IO.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Factory::TreeFactoryI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Factory::ObjectFactory.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::HIV::HIVAnnotProcessor.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Aggregator::ucsc_softberry.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::EntityI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::Tools::Unflattener.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Aggregator::ucsc_genscan.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::LargeLocatableSeq.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::wise.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Hit::BlastHit.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::MapIO::fpc.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AnnotationI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::OrderedPosition.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Root::Exception.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AnalysisI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Iteration::GenericIteration.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Aggregator::so_transcript.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::dbi::oracle.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Spidey::Exon.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::Prediction.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::CodonUsage::Table.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Root::RootI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Signalp::ExtendedSignalp.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::proda.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::IdCollectionI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::QRNA.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::PSM::SiteMatrix.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tree::AnnotatableNode.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Phylo::Gumby.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Location::Split.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Location::CoordinatePolicyI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::game.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::blast_pull.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Tiling::MapTiling.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::GeneMap.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::chadoxml.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::Computation.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::EventHandlerI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Perl.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::pICalculator.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::fasta.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LocatableSeq.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LiveSeq::Repeat_Unit.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::kegg.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::SeqWords.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::abi.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Run::GenericParameters.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Variation::RNAChange.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Aggregator::ucsc_refgene.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::SimpleMap.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::HSP::PullHSPI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Sim4::Results.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::dbi::caching_handle.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Phenotype::MeSH::Twig.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DBLinkContainerI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::RandomDistFunctions.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Prints.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::SearchResultEventBuilder.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DasI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tree::TreeFunctionsI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::waba.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Factory::LocationFactoryI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Cluster::SequenceFamily.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Assembly::Tools::ContigSpectrum.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::GenericStatistics.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::IO::mlagan.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tree::Statistics.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LiveSeq::Chain.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Variation::IO::xml.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::SeqFactory.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Analysis::Protein::NetPhos.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::Store::DBI::mysql.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Aggregator::clone.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Annotation::Tree.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Restriction::IO::itype2.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Event::EventGeneratorI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tree::Node.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Featname.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LiveSeq::Exon.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Hit::GenericHit.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Est2Genome.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::SeqWithQuality.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Factory::ObjectBuilderI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::HSP::FastaHSP.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::OrderedPositionWithDistance.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::gcg.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::UpdateableSeqI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Annotation::OntologyTerm.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::Gene.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::qual.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Index::Abstract.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::EntrezGene.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::PrositeScan.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::WebDBSeqI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::berkeleydb::iterator.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::genbank.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::Writer::ResultTableWriter.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::MolEvol::CodonModel.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Ontology::TermI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Prints.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::GeneRelative.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Hit::HitI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Symbol::SymbolI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::SeqBuilder.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Result::BlastPullResult.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::IO.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Result::INFERNALResult.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::game::seqHandler.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Location::Split.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LiveSeq::Exon.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tree::Compatible.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Universal.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Phenotype::MeSH::Term.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Phenotype::OMIM::OMIMentry.3pm -Installing 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/build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::abi.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::OntologyIO::simplehierarchy.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::swiss.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::tigr.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::emboss.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::Simulation::Coalescent.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::NexmlIO.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::agave.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::SeqPattern.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::Handler::GenericRichSeqHandler.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Aggregator::gene.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::Position.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Factory::DriverFactory.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Location::FuzzyLocationI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::IO.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::GuessSeqFormat.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::MappableI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::dbi.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::metafasta.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::TreeIO::pag.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Result::WABAResult.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::mbsout.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Annotation::Target.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::Marker.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::dbi::caching_handle.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::Writer::HTMLResultWriter.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Aggregator::ucsc_ensgene.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Hit::HMMERHit.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Qual.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::hmmer_pull.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Restriction::IO.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Factory::SeqAnalysisParserFactory.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Index::AbstractSeq.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::ace.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Ontology::Term.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::GFF.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::raw.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::SeqFactory.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::clustalw.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Variation::Allele.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Ontology::SimpleOntologyEngine.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::Scoring.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Annotation::AnnotationFactory.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Index::Fastq.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::blasttable.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::Individual.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::HSP::HSPI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::berkeleydb.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Fasta.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::IO::phylip.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Genscan.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Location::WidestCoordPolicy.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::TreeIO::cluster.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Genomewise.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::PSM::IO::transfac.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Primer::AssessorI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::RichSeq.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Structure::Chain.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::FPCMarker.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::Store::Loader.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::SeqPattern.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Root::HTTPget.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::Store::memory.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AnnotationCollectionI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::ClusterIO::dbsnp.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Iteration::IterationI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::HandlerBaseI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqVersion::gi.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Taxonomy::Tree.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Primer::Feature.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::SiRNA::Oligo.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tree::AnnotatableNode.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::MultiFile.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PrimarySeq.3pm 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+Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::TFBS.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::TreeIO::tabtree.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqEvolution::Factory.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AnnotatableI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqVersion::gi.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Cluster::UniGeneI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Analysis::Protein::Domcut.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Genscan.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Phenotype::OMIM::OMIMentryAllelicVariant.3pm -Installing 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-Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::IO::csv.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tree::AlleleNode.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::SimulatedRead.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Taxonomy::silva.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::scf.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::Gene::GeneStructureI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Ontology::SimpleGOEngine::GraphAdaptor.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Restriction::Analysis.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Glimmer.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Run::RemoteBlast.3pm +Installing 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-Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::Store::GFF2Loader.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::Store::DBI::Iterator.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::MapI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::fasta.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Root::Exception.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::TandemRepeatsFinder.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::RelativeI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::NCBIHelper.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::MapIO.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::HMMER::Set.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Ontology::InterProTerm.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Symbol::ProteinAlphabet.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Location::Simple.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Index::Stockholm.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::IO::hapmap.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Taxonomy::Tree.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::RichSeqI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DescribableI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Feature.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Primer::AssessorI.3pm +Installing 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+Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::IO::csv.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Aggregator::none.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LiveSeq::Range.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::HSP::BlastPullHSP.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Annotation::Collection.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::tab.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::PSM::InstanceSiteI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::FTHelper.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::HIV::HIVQueryHelper.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AnnotationI.3pm -Installing 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/build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PhyloNetwork::TreeFactory.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::UpdateableSeqI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::UpdateableSeqI.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::ParameterBaseI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::table.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Hit::HmmpfamHit.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::hmmer2.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Factory::ObjectBuilderI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PrimarySeq.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Aggregator::ucsc_twinscan.3pm +Installing 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/build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Assembly::IO.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Fgenesh.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Index::SwissPfam.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::Segment.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::IO::scoring.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::kegg.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::AlignFactory.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::exonerate.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Assembly::IO::bowtie.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::fasta.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Restriction::IO::prototype.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Result::GenericResult.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::Store::GFF3Loader.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Protparam.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::SiRNA::Pair.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::TreeIO.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Ontology::RelationshipFactory.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqEvolution::EvolutionI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Restriction::IO::withrefm.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Aggregator::transcript.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::Population.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Align::StatisticsI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LiveSeq::IO::BioPerl.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Failover.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Structure::StructureI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::Gene.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Taxonomy.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Flat::BDB::embl.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::EPCR.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Result::hmmer3Result.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::NormalizedTableFeatureI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::HSP::GenericHSP.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::LinkageMap.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LocatableSeq.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Index::Blast.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LiveSeq::Repeat_Unit.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::HtSNP.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::biofetch_oracle.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SwissProt.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::TreeIO::svggraph.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LiveSeq::Repeat_Region.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::PSM::ProtMatrix.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::TreeIO::nexml.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Root::Build.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::PSM::PsmI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::TandemRepeatsFinder.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::embldriver.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Factory::MapFactoryI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Location::WidestCoordPolicy.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Spidey::Results.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Variation::IO::flat.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::metafasta.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Symbol::SymbolI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::GuessSeqFormat.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tree::AlleleNode.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Index::Qual.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Featname.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Aggregator::ucsc_unigene.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Hit::Fasta.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Restriction::IO::itype2.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::OntologyIO::goflat.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::chaosxml.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Fgenesh.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Factory::ObjectFactoryI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::BlastStatistics.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::RangeI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Result::ResultI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Ontology::Ontology.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Index::Abstract.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::HSP::BlastPullHSP.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Result::WABAResult.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Hit::GenericHit.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::GenotypeI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Cluster::UniGene.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::PrositeScan.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tree::DistanceFactory.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::Position.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Sigcleave.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Variation::RNAChange.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::BaseSeqProcessor.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::proda.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::HMMER::Results.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::Writer::GbrowseGFF.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::SeqStats.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Align::ProteinStatistics.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::TreeIO::cluster.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Match.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::Tools::FeatureNamer.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::Physical.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::ace.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::SeqFastaSpeedFactory.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Annotation::SimpleValue.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::PSM::InstanceSite.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Segment.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::OrderedPositionWithDistance.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::dbi.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::RelSegment.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::psi.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Symbol::Symbol.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Phenotype::Phenotype.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Symbol::Alphabet.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::arp.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::Gene::UTR.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::Simulation::GeneticDrift.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::exp.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Tiling::TilingI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Index::GenBank.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::PSM::IO::psiblast.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::OntologyIO::Handlers::BaseSAXHandler.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Aggregator::gene.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::embl.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::GenePosition.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Factory::FTLocationFactory.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::PSM::IO::mast.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Query::HIVQuery.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::Marker.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Ontology::OntologyEngineI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::TreeIO::phyloxml.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::NormalizedFeature.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tree::TreeI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::ClusterI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::SeqBuilder.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Structure::IO.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::dbi::mysqlcmap.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::TreeIO::pag.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LiveSeq::Transcript.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Blat.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Gel.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Taxonomy::greengenes.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Cluster::UniGene.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Failover.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Cluster::FamilyI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::game::gameSubs.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::dbi::iterator.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::memory::feature_serializer.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::InMemoryCache.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::Store::berkeleydb3.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::HandlerBaseI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Aggregator::match.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Hit::ModelHit.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Taxonomy.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::rnamotif.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::PositionWithSequence.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Hit::PsiBlastHit.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Das::SegmentI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::SimilarityPair.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Assembly::IO::ace.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Ontology::PathI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::BlastUtils.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tree::RandomFactory.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::MetaI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::PSM::IO::masta.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::flybase_chadoxml.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::MZEF.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::PositionHandler.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Flat::BDB.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::PopulationI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LiveSeq::Mutator.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::SiRNA::Ruleset::saigo.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::EPCR.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::game::gameWriter.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::pir.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::LargeSeq.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Ontology::RelationshipType.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PhyloNetwork::Factory.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Prediction::Gene.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::xmfa.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::Mlagan.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Ontology::OntologyI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Assembly::IO::tigr.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::maf.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::HSP::HSPFactory.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::pln.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Phenotype::Measure.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::mase.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::Gene::Poly_A_site.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AnalysisParserI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::CytoMap.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::ClusterIO::dbsnp.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Seg.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::sim4.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SwissProt.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Nexml::Factory.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Ontology::DocumentRegistry.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Aggregator::clone.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::qual.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::EMBOSS::Palindrome.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::OntologyIO::obo.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::PSM::Psm.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Pseudowise.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::TreeIO::lintree.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::MarkerI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::HIV.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Phylo::Phylip::ProtDist.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::PrimedSeq.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Structure::SecStr::STRIDE::Res.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Annotation::SimpleValue.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LiveSeq::Mutation.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::cross_match.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::Gene::UTR.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::game.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Restriction::EnzymeI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::bsml_sax.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::tinyseq::tinyseqHandler.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::TreeIO::TreeEventBuilder.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tree::TreeI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::dbi::pg.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::LargeSeq.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::dpAlign.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::blast_pull.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::OntologyIO::Handlers::InterProHandler.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Util::Rearrange.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::HSP::ModelHSP.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Taxonomy::sqlite.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::AnnotationAdaptor.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::tinyseq.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::memory.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::LocationI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::RangeI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Phenotype::Phenotype.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::exonerate.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::CytoMarker.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::FTHelper.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LiveSeq::Intron.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Index::Blast.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::PSM::SiteMatrixI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::MultiFile.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::msout.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Location::Atomic.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Ontology::TermFactory.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Prediction::Exon.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::ctf.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::Store::bdb.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::AnnotationAdaptor.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::gcg.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Assembly::Singlet.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Primer3.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Structure::IO::pdb.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Run::ParametersI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Index::Swissprot.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tree::Node.3pm +Installing 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/build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LiveSeq::Translation.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::SequenceTrace.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::IndividualI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::Writer::TextResultWriter.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::OntologyIO::InterProParser.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::Store::DBI::mysql.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::nexml.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::PSM::PsmHeader.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Analysis::Protein::NetPhos.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Analysis::Protein::ELM.3pm +Installing 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/build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Hit::HMMERHit.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::TreeIO::lintree.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::ztr.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::Store.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::PositionProxy.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::QualI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqAnalysisParserI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::dbi::iterator.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::ECnumber.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Structure::Residue.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::metafasta.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::fasta.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AnalysisI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::Segment.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Phenotype::OMIM::OMIMparser.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Restriction::IO::bairoch.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Ontology::OBOEngine.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LiveSeq::AARange.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Location::FuzzyLocationI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Aggregator::orf.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Root::Test.3pm +Installing 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/build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Aggregator::ucsc_sanger22.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::game::gameSubs.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::hmmer.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::FeatureHolderI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PhyloNetwork::muVector.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GenBank.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::CytoMap.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PhyloNetwork::TreeFactoryMulti.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::dbi::oracleace.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Flat.3pm +Installing 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/build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Ontology::OntologyStore.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::Tools::TypeMapper.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Index::EMBL.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::RefSeq.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Index::Fasta.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::Marker.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Homol.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Fasta.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::TypedSeqFeatureI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Registry.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LiveSeq::ChainI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::Store::DBI::Iterator.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::seqxml.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::Generic.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Sim4::Exon.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::PositionWithSequence.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LiveSeq::Intron.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tree::DistanceFactory.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Structure::SecStr::DSSP::Res.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Structure::IO::pdb.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Align::AlignI.3pm -Installing 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/build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::pSW.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Align::ProteinStatistics.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Symbol::Alphabet.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Factory::ObjectFactory.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Assembly::IO::maq.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::MeSH.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::HtSNP.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Restriction::Enzyme::MultiCut.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::berkeleydb.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::TFBS::transfac_pro.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Assembly::IO.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::AnalysisResult.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::TreeIO::nexus.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Util::Binning.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Restriction::Enzyme.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Factory::ApplicationFactoryI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Assembly::Contig.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Index::Fastq.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Qual.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::asciitree.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Aggregator::ucsc_acembly.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::PopulationI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::embl.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::alf.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Flat::BDB::genbank.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::TraceI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::HSP::PSLHSP.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::BaseSeqProcessor.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Grail.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::BlastUtils.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Assembly::IO::sam.3pm Installing 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/build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::Gene::GeneStructure.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::phylip.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqEvolution::EvolutionI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::SearchUtils.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::Store::FeatureFileLoader.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::MeSH.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::Store::LoadHelper.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::Primer.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::Similarity.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::RelSegment.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::fastq.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::Generic.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::RepeatMasker.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Range.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::Meta.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Index::SwissPfam.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeatureI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Location::Fuzzy.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::dbi::mysqlcmap.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LiveSeq::IO::Loader.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Location::SplitLocationI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LiveSeq::Transcript.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::TreeIO.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Hit::PsiBlastHit.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::TreeIO::tabtree.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::CytoMarker.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Species.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Nexml::Factory.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PhyloNetwork::TreeFactory.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Phenotype::MeSH::Twig.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Taxonomy.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Map::Relative.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Root::Version.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::Quality.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::HSP::HmmpfamHSP.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::BlastStatistics.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Location::AvWithinCoordPolicy.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Ontology::SimpleOntologyEngine.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::po.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Result::CrossMatchResult.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Spidey::Exon.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Aggregator::ucsc_sanger22pseudo.3pm -Installing 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/build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Prediction::Exon.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::TargetP.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::ESTScan.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Annotation::TagTree.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Result::ResultI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Restriction::Enzyme.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqUtils.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqEvolution::Factory.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::Gene::Exon.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Variation::IO::flat.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::game::seqHandler.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::PSM::PsmHeaderI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::Simulation::Coalescent.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::PSM::InstanceSite.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Hit::HitFactory.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::pfam.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::stockholm.3pm Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::LiveSeq::Gene.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::StatisticsI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Result::GenericResult.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::TreeIO::nexus.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Index::Stockholm.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqFeature::PositionProxy.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tree::TreeFunctionsI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Taxonomy::entrez.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::prodom.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::OntologyIO::InterProParser.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::ClusterIO.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Annotation::Reference.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Root::Test.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::CodonUsage::IO.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::IO::prettybase.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::Primer3.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Structure::StructureI.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::IO::hapmap.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::AlignIO::metafasta.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Assembly::Tools::ContigSpectrum.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Search::Tiling::MapTiling.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SearchIO::FastHitEventBuilder.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Cluster::ClusterFactory.3pm -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_index.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_seqret.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_netinstall.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_genbank2gff3.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_seqfeature_load.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_translate_seq.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_biogetseq.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_revtrans-motif.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_mrtrans.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_mutate.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::Store::FeatureFileLoader.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::OntologyIO::Handlers::InterPro_BioSQL_Handler.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::OntologyIO.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Taxonomy::flatfile.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::PopGen::MarkerI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::isPcr.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Adaptor::dbi::pg_fts.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Flat::BDB::fasta.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::SeqFeature::Store::berkeleydb.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::Taxonomy::greengenes.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::SeqIO::bsml.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Assembly::ScaffoldI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Tools::OddCodes.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Root::Storable.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Seq::PrimedSeq.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::DB::GFF::Segment.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Ontology::GOterm.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Taxonomy::FactoryI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::Matrix::PSM::PsmI.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/share/man/man3/Bio::ClusterIO::unigene.3pm +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_chaos_plot.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_local_taxonomydb_query.pl Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_filter_search.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_meta_gff.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_find-blast-matches.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_process_wormbase.pl Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_mask_by_search.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_gccalc.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_download_query_genbank.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_sreformat.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_bioflat_index.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_translate_seq.pl Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_load_gff.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_query_entrez_taxa.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_search2tribe.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_taxid4species.pl Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_fast_load_gff.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_search2alnblocks.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_oligo_count.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_composite_LD.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_seqfeature_gff3.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_fetch.pl Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_seqretsplit.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_heterogeneity_test.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_search2gff.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_process_gadfly.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_search2tribe.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_netinstall.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_meta_gff.pl Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_search2table.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_fastam9_to_table.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_composite_LD.pl Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_dbsplit.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_aacomp.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_tree2pag.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_nexus2nh.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_seqpart.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_generate_histogram.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_parse_hmmsearch.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_seqfeature_gff3.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_find-blast-matches.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_classify_hits_kingdom.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_genbank2gff3.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_nrdb.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_bulk_load_gff.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_gccalc.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_biofetch_genbank_proxy.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_unflatten_seq.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_process_wormbase.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_mrtrans.pl Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_hivq.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_blast2tree.pl Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_genbank2gff.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_unflatten_seq.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_search2gff.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_seq_length.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_das_server.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_seqret.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_query_entrez_taxa.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_make_mrna_protein.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_download_query_genbank.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_remote_blast.pl Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_process_sgd.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_local_taxonomydb_query.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_classify_hits_kingdom.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_chaos_plot.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_blast2tree.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_search2alnblocks.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_oligo_count.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_aacomp.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_taxonomy2tree.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_seqfeature_load.pl Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_split_seq.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_seqconvert.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_heterogeneity_test.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_biogetseq.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_mutate.pl Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_hmmer_to_table.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_process_gadfly.pl Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_seqcut.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_nrdb.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_sreformat.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_remote_blast.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_bulk_load_gff.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_fetch.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_flanks.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_seq_length.pl Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_seqfeature_delete.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_revtrans-motif.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_tree2pag.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_das_server.pl Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_extract_feature_seq.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_taxid4species.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_parse_hmmsearch.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_seqpart.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_generate_histogram.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_taxonomy2tree.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_biofetch_genbank_proxy.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_bioflat_index.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_make_mrna_protein.pl -Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_nexus2nh.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_seqconvert.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_fastam9_to_table.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_index.pl +Installing /build/bioperl-1.7.2/debian/tmp/usr/bin/bp_flanks.pl debian/rules override_dh_install make[1]: Entering directory '/build/bioperl-1.7.2' dh_install @@ -26831,20 +26865,22 @@ dh_gencontrol dh_md5sums dh_builddeb -dpkg-deb: building package 'bioperl' in '../bioperl_1.7.2-3_all.deb'. dpkg-deb: building package 'libbio-perl-perl' in '../libbio-perl-perl_1.7.2-3_all.deb'. +dpkg-deb: building package 'bioperl' in '../bioperl_1.7.2-3_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../bioperl_1.7.2-3_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: copying local configuration +I: user script /srv/workspace/pbuilder/31395/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/31395/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/24394 and its subdirectories -I: Current time: Tue Sep 1 05:23:47 -12 2020 -I: pbuilder-time-stamp: 1598981027 +I: removing directory /srv/workspace/pbuilder/31395 and its subdirectories +I: Current time: Wed Sep 2 07:50:21 +14 2020 +I: pbuilder-time-stamp: 1598982621