=> Building biology/p5-bioperl build started at Fri Oct 7 23:40:36 PDT 2016 port directory: /usr/ports/biology/p5-bioperl building for: DragonFly pkgbox64.dragonflybsd.org 4.7-DEVELOPMENT DragonFly v4.7.0.78.g7d868-DEVELOPMENT #7: Mon Aug 1 22:25:32 PDT 2016 root@pkgbox64.dragonflybsd.org:/usr/obj/usr/src/sys/X86_64_GENERIC x86_64 maintained by: perl@FreeBSD.org ident warning: no id keywords in /build/boomdata/data/.m/Release46-default/ref/../05//usr/ports/biology/p5-bioperl/Makefile Makefile ident: Poudriere version: 3.1-pre Host OSVERSION: 400700 Jail OSVERSION: 400600 ---Begin Environment--- STATUS=1 SAVED_TERM=screen MASTERMNT=/build/boomdata/data/.m/Release46-default/ref PATH=/usr/local/libexec/poudriere:/sbin:/bin:/usr/sbin:/usr/bin:/usr/pkg/bin:/usr/pkg/sbin:/usr/games:/usr/local/sbin:/usr/local/bin:/usr/pkg/xorg/bin:/usr/X11R6/bin:/root/bin:/sbin:/usr/sbin POUDRIERE_BUILD_TYPE=bulk PKGNAME=p5-bioperl-1.6.924_4 OLDPWD=/root/boom PWD=/build/boomdata/data/.m/Release46-default/ref/.p/pool MASTERNAME=Release46-default TERM=cons25 USER=root HOME=/root POUDRIERE_VERSION=3.1-pre LOCALBASE=/usr/local PACKAGE_BUILDING=yes ---End Environment--- ---Begin OPTIONS List--- ===> The following configuration options are available for p5-bioperl-1.6.924_4: DOCS=on: Build and/or install documentation EXAMPLES=on: Build and/or install examples PGTEST=off: Test PostGreSQL SQLITETEST=off: Test SQLite ===> Use 'make config' to modify these settings ---End OPTIONS List--- --CONFIGURE_ARGS-- --install_path lib="/usr/local/lib/perl5/site_perl" --install_path arch="/usr/local/lib/perl5/site_perl/mach/5.20" --install_path script="/usr/local/bin" --install_path bin="/usr/local/bin" --install_path libdoc="/usr/local/lib/perl5/site_perl/man/man3" --install_path bindoc="/usr/local/lib/perl5/site_perl/man/man1" --destdir /wrkdirs/biology/p5-bioperl/stage --create_packlist 1 CC="cc" CCFLAGS="-pipe -O2 -fno-strict-aliasing" PREFIX="/usr/local" INSTALLPRIVLIB="/usr/local/lib" INSTALLARCHLIB="/usr/local/lib" --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- ac_cv_path_PERL=/usr/local/bin/perl ac_cv_path_PERL_PATH=/usr/local/bin/perl XDG_DATA_HOME=/wrkdirs/biology/p5-bioperl XDG_CONFIG_HOME=/wrkdirs/biology/p5-bioperl HOME=/wrkdirs/biology/p5-bioperl TMPDIR="/tmp" SHELL=/bin/sh CONFIG_SHELL=/bin/sh CCVER=gcc50 PERL_EXTUTILS_AUTOINSTALL="--skipdeps" PERL_MM_USE_DEFAULT="YES" --End CONFIGURE_ENV-- --MAKE_ENV-- XDG_DATA_HOME=/wrkdirs/biology/p5-bioperl XDG_CONFIG_HOME=/wrkdirs/biology/p5-bioperl HOME=/wrkdirs/biology/p5-bioperl TMPDIR="/tmp" NO_PIE=yes MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES CCVER=gcc50 PREFIX=/usr/local LOCALBASE=/usr/local LIBDIR="/usr/lib" NOPROFILE=1 CC="cc" CFLAGS="-pipe -O2 -fno-strict-aliasing" CPP="cpp" CPPFLAGS="" LDFLAGS="" LIBS="" CXX="c++" CXXFLAGS=" -pipe -O2 -fno-strict-aliasing" MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 444" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" --End MAKE_ENV-- --PLIST_SUB-- OSREL=4.6 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local PORTDOCS="" PORTEXAMPLES="" LIB32DIR=lib PERL_VERSION=5.20.3 PERL_VER=5.20 PERL5_MAN1=lib/perl5/site_perl/man/man1 PERL5_MAN3=lib/perl5/site_perl/man/man3 SITE_PERL=lib/perl5/site_perl SITE_ARCH=lib/perl5/site_perl/mach/5.20 PROFILE="@comment " DOCSDIR="share/doc/bioperl" EXAMPLESDIR="share/examples/bioperl" DATADIR="share/bioperl" WWWDIR="www/bioperl" ETCDIR="etc/bioperl" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/bioperl DOCSDIR=/usr/local/share/doc/bioperl EXAMPLESDIR=/usr/local/share/examples/bioperl WWWDIR=/usr/local/www/bioperl ETCDIR=/usr/local/etc/bioperl --End SUB_LIST-- ---Begin make.conf--- NO_BACKUP=yes USE_PACKAGE_DEPENDS=yes PKG_CREATE_VERBOSE=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PORT_DBDIR=/options PORTSDIR=/usr/ports PACKAGES=/packages DISTDIR=/distfiles MAKE_JOBS_NUMBER=5 ---End make.conf--- =================================================== ===> License ART10 GPLv1 accepted by the user =========================================================================== =================================================== ===> p5-bioperl-1.6.924_4 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.8.7_3.txz Installing pkg-1.8.7_3... Extracting pkg-1.8.7_3: .......... done ===> p5-bioperl-1.6.924_4 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of p5-bioperl-1.6.924_4 =========================================================================== =================================================== =========================================================================== =================================================== ===> License ART10 GPLv1 accepted by the user ===> Fetching all distfiles required by p5-bioperl-1.6.924_4 for building =========================================================================== =================================================== ===> License ART10 GPLv1 accepted by the user ===> Fetching all distfiles required by p5-bioperl-1.6.924_4 for building => SHA256 Checksum OK for BioPerl-1.6.924.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> License ART10 GPLv1 accepted by the user ===> Fetching all distfiles required by p5-bioperl-1.6.924_4 for building ===> Extracting for p5-bioperl-1.6.924_4 => SHA256 Checksum OK for BioPerl-1.6.924.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> Patching for p5-bioperl-1.6.924_4 ===> Applying ports patches for p5-bioperl-1.6.924_4 =========================================================================== =================================================== ===> p5-bioperl-1.6.924_4 depends on package: p5-Algorithm-Munkres>=0 - not found ===> Installing existing package /packages/All/p5-Algorithm-Munkres-0.08_1.txz Installing p5-Algorithm-Munkres-0.08_1... `-- Installing perl5-5.20.3_15... `-- Extracting perl5-5.20.3_15: .......... done Extracting p5-Algorithm-Munkres-0.08_1: ... done Message from perl5-5.20.3_15: The /usr/bin/perl symlink has been removed starting with Perl 5.20. For shebangs, you should either use: #!/usr/local/bin/perl or #!/usr/bin/env perl The first one will only work if you have a /usr/local/bin/perl, the second will work as long as perl is in PATH. ===> p5-bioperl-1.6.924_4 depends on package: p5-Algorithm-Munkres>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-Array-Compare>=0 - not found ===> Installing existing package /packages/All/p5-Array-Compare-2.12.txz Installing p5-Array-Compare-2.12... `-- Installing p5-Moo-2.002004... | `-- Installing p5-Module-Runtime-0.014_1... | `-- Extracting p5-Module-Runtime-0.014_1: ....... done | `-- Installing p5-Devel-GlobalDestruction-0.13_1... | | `-- Installing p5-Sub-Exporter-Progressive-0.001011... | | `-- Installing p5-Sub-Exporter-0.987_1... | | | `-- Installing p5-Params-Util-1.07_2... | | | `-- Extracting p5-Params-Util-1.07_2: ........ done | | | `-- Installing p5-Sub-Install-0.928_1... | | | `-- Extracting p5-Sub-Install-0.928_1: ....... done | | | `-- Installing p5-Data-OptList-0.110... | | | `-- Extracting p5-Data-OptList-0.110: ....... done | | `-- Extracting p5-Sub-Exporter-0.987_1: .......... done | | `-- Extracting p5-Sub-Exporter-Progressive-0.001011: ....... done | `-- Extracting p5-Devel-GlobalDestruction-0.13_1: ....... done | `-- Installing p5-Class-Method-Modifiers-2.12... | `-- Extracting p5-Class-Method-Modifiers-2.12: ....... done | `-- Installing p5-Role-Tiny-2.000003... | `-- Extracting p5-Role-Tiny-2.000003: ......... done `-- Extracting p5-Moo-2.002004: .......... done `-- Installing p5-Type-Tiny-1.000005_1... | `-- Installing p5-Exporter-Tiny-0.042_1... | `-- Extracting p5-Exporter-Tiny-0.042_1: ......... done | `-- Installing p5-Type-Tiny-XS-0.012_1... | `-- Extracting p5-Type-Tiny-XS-0.012_1: .......... done `-- Extracting p5-Type-Tiny-1.000005_1: .......... done Extracting p5-Array-Compare-2.12: ....... done ===> p5-bioperl-1.6.924_4 depends on package: p5-Array-Compare>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-Class-AutoClass>=0 - not found ===> Installing existing package /packages/All/p5-Class-AutoClass-1.56_1.txz Installing p5-Class-AutoClass-1.56_1... `-- Installing p5-Hash-AutoHash-1.17_1... | `-- Installing p5-List-MoreUtils-0.416... | | `-- Installing p5-XSLoader-0.22... | | `-- Extracting p5-XSLoader-0.22: ....... done | `-- Extracting p5-List-MoreUtils-0.416: .......... done | `-- Installing p5-Tie-ToObject-0.03_2... | `-- Extracting p5-Tie-ToObject-0.03_2: ... done `-- Extracting p5-Hash-AutoHash-1.17_1: ....... done `-- Installing p5-Hash-AutoHash-Args-1.18_1... `-- Extracting p5-Hash-AutoHash-Args-1.18_1: ......... done Extracting p5-Class-AutoClass-1.56_1: ........ done ===> p5-bioperl-1.6.924_4 depends on package: p5-Class-AutoClass>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-Clone>=0 - not found ===> Installing existing package /packages/All/p5-Clone-0.38.txz Installing p5-Clone-0.38... Extracting p5-Clone-0.38: ..... done ===> p5-bioperl-1.6.924_4 depends on package: p5-Clone>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-Convert-Binary-C>=0 - not found ===> Installing existing package /packages/All/p5-Convert-Binary-C-0.78.txz Installing p5-Convert-Binary-C-0.78... Extracting p5-Convert-Binary-C-0.78: .......... done ===> p5-bioperl-1.6.924_4 depends on package: p5-Convert-Binary-C>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-Data-Stag>=0 - not found ===> Installing existing package /packages/All/p5-Data-Stag-0.14_2.txz Installing p5-Data-Stag-0.14_2... `-- Installing p5-IO-String-1.08_1... `-- Extracting p5-IO-String-1.08_1: ... done Extracting p5-Data-Stag-0.14_2: .......... done ===> p5-bioperl-1.6.924_4 depends on package: p5-Data-Stag>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-DBD-mysql>=0 - not found ===> Installing existing package /packages/All/p5-DBD-mysql-4.036.txz Installing p5-DBD-mysql-4.036... `-- Installing mysql56-client-5.6.33... | `-- Installing libedit-3.1.20150325_2,1... | | `-- Installing ncurses-6.0_5... | | `-- Extracting ncurses-6.0_5: .......... done | `-- Extracting libedit-3.1.20150325_2,1: .......... done `-- Extracting mysql56-client-5.6.33: .......... done `-- Installing p5-DBI-1.636... `-- Extracting p5-DBI-1.636: .......... done Extracting p5-DBD-mysql-4.036: .......... done Message from ncurses-6.0_5: ===> NOTICE: The ncurses port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port Message from mysql56-client-5.6.33: * * * * * * * * * * * * * * * * * * * * * * * * Please be aware the database client is vulnerable to CVE-2015-3152 - SSL Downgrade aka "BACKRONYM". You may find more information at the following URL: http://www.vuxml.org/freebsd/36bd352d-299b-11e5-86ff-14dae9d210b8.html Although this database client is not listed as "affected", it is vulnerable and will not be receiving a patch. Please take note of this when deploying this software. * * * * * * * * * * * * * * * * * * * * * * * * ===> p5-bioperl-1.6.924_4 depends on package: p5-DBD-mysql>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-Error>=0 - not found ===> Installing existing package /packages/All/p5-Error-0.17024.txz Installing p5-Error-0.17024... Extracting p5-Error-0.17024: ......... done ===> p5-bioperl-1.6.924_4 depends on package: p5-Error>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-GD>=0 - not found ===> Installing existing package /packages/All/p5-GD-2.56_3.txz Installing p5-GD-2.56_3... `-- Installing libgd-2.2.3,1... | `-- Installing fontconfig-2.12.1,1... | | `-- Installing expat-2.2.0... | | `-- Extracting expat-2.2.0: .......... done | | `-- Installing freetype2-2.6.3... | | `-- Extracting freetype2-2.6.3: .......... done | `-- Extracting fontconfig-2.12.1,1: .......... done Running fc-cache to build fontconfig cache... /usr/local/share/fonts: skipping, no such directory /usr/local/lib/X11/fonts: skipping, no such directory /var/db/fontconfig: cleaning cache directory fc-cache: succeeded | `-- Installing jpeg-turbo-1.4.2... | `-- Extracting jpeg-turbo-1.4.2: .......... done | `-- Installing tiff-4.0.6_2... | | `-- Installing jbigkit-2.1_1... | | `-- Extracting jbigkit-2.1_1: .......... done | `-- Extracting tiff-4.0.6_2: .......... done | `-- Installing png-1.6.23... | `-- Extracting png-1.6.23: .......... done `-- Extracting libgd-2.2.3,1: .......... done Extracting p5-GD-2.56_3: .......... done ===> p5-bioperl-1.6.924_4 depends on package: p5-GD>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-GD-SVG>=0 - not found ===> Installing existing package /packages/All/p5-GD-SVG-0.33_6.txz Installing p5-GD-SVG-0.33_6... `-- Installing p5-SVG-2.64... `-- Extracting p5-SVG-2.64: .......... done Extracting p5-GD-SVG-0.33_6: ....... done ===> p5-bioperl-1.6.924_4 depends on package: p5-GD-SVG>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-Graph>=0 - not found ===> Installing existing package /packages/All/p5-Graph-0.96_2,1.txz Installing p5-Graph-0.96_2,1... `-- Installing p5-Heap-0.80_1... `-- Extracting p5-Heap-0.80_1: .......... done Extracting p5-Graph-0.96_2,1: .......... done ===> p5-bioperl-1.6.924_4 depends on package: p5-Graph>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-GraphViz>=0 - not found ===> Installing existing package /packages/All/p5-GraphViz-2.21.txz Installing p5-GraphViz-2.21... `-- Installing graphviz-2.38.0_13... | `-- Installing libXt-1.1.5,1... | | `-- Installing xproto-7.0.28... | | `-- Extracting xproto-7.0.28: .......... done | | `-- Installing libSM-1.2.2_3,1... | | `-- Installing libICE-1.0.9_1,1... | | `-- Extracting libICE-1.0.9_1,1: .......... done | | `-- Extracting libSM-1.2.2_3,1: .......... done | | `-- Installing libX11-1.6.3,1... | | `-- Installing kbproto-1.0.7... | | `-- Extracting kbproto-1.0.7: .......... done | | `-- Installing libXdmcp-1.1.2... | | `-- Extracting libXdmcp-1.1.2: ......... done | | `-- Installing libxcb-1.11.1... | | | `-- Installing libxml2-2.9.4... | | | `-- Extracting libxml2-2.9.4: .......... done | | | `-- Installing libpthread-stubs-0.3_6... | | | `-- Extracting libpthread-stubs-0.3_6: ..... done | | | `-- Installing libXau-1.0.8_3... | | | `-- Extracting libXau-1.0.8_3: .......... done | | `-- Extracting libxcb-1.11.1: .......... done | | `-- Extracting libX11-1.6.3,1: .......... done | `-- Extracting libXt-1.1.5,1: .......... done | `-- Installing pango-1.38.0_1... | | `-- Installing encodings-1.0.4_3,1... | | `-- Installing font-util-1.3.1... | | `-- Extracting font-util-1.3.1: .......... done | | `-- Extracting encodings-1.0.4_3,1: .......... done | | `-- Installing libXft-2.3.2_1... | | `-- Installing libXrender-0.9.9... | | | `-- Installing renderproto-0.11.1... | | | `-- Extracting renderproto-0.11.1: .... done | | `-- Extracting libXrender-0.9.9: .......... done | | `-- Extracting libXft-2.3.2_1: ......... done | | `-- Installing harfbuzz-1.3.2... | | `-- Installing cairo-1.14.6_1,2... | | | `-- Installing glproto-1.4.17... | | | `-- Extracting glproto-1.4.17: ...... done | | | `-- Installing libEGL-11.2.2... | | | `-- Installing libdevq-0.0.2_1... | | | `-- Extracting libdevq-0.0.2_1: ....... done | | | `-- Installing libXdamage-1.1.4_3... | | | | `-- Installing libXfixes-5.0.1_3... | | | | `-- Installing fixesproto-5.0... | | | | `-- Extracting fixesproto-5.0: .... done | | | | `-- Extracting libXfixes-5.0.1_3: .......... done | | | | `-- Installing damageproto-1.2.1... | | | | `-- Extracting damageproto-1.2.1: .... done | | | `-- Extracting libXdamage-1.1.4_3: ...... done | | | `-- Installing libxshmfence-1.2... | | | `-- Extracting libxshmfence-1.2: ......... done | | | `-- Installing libXext-1.3.3_1,1... | | | | `-- Installing xextproto-7.3.0... | | | | `-- Extracting xextproto-7.3.0: .......... done | | | `-- Extracting libXext-1.3.3_1,1: .......... done | | | `-- Installing gbm-11.2.2... | | | | `-- Installing libglapi-11.2.2... | | | | `-- Installing libXvMC-1.0.9... | | | | | `-- Installing libXv-1.0.10_3,1... | | | | | `-- Installing videoproto-2.3.2... | | | | | `-- Extracting videoproto-2.3.2: ...... done | | | | | `-- Extracting libXv-1.0.10_3,1: .......... done | | | | `-- Extracting libXvMC-1.0.9: .......... done | | | | `-- Installing libdrm-2.4.66,1... | | | | | `-- Installing libpciaccess-0.13.4... | | | | | `-- Installing pciids-20160621... | | | | | `-- Extracting pciids-20160621: ..... done | | | | | `-- Extracting libpciaccess-0.13.4: ...... done | | | | `-- Extracting libdrm-2.4.66,1: .......... done | | | | `-- Installing libelf-0.8.13_1... | | | | | `-- Installing gettext-runtime-0.19.8.1... | | | | | `-- Installing indexinfo-0.2.5... | | | | | `-- Extracting indexinfo-0.2.5: .... done | | | | | `-- Extracting gettext-runtime-0.19.8.1: .......... done | | | | `-- Extracting libelf-0.8.13_1: .......... done | | | | `-- Extracting libglapi-11.2.2: ... done | | | `-- Extracting gbm-11.2.2: ..... done | | | `-- Installing llvm37-3.7.1_3... | | | | `-- Installing python27-2.7.12... | | | | `-- Installing readline-6.3.8... | | | | `-- Extracting readline-6.3.8: .......... done | | | | `-- Installing libffi-3.2.1... | | | | `-- Extracting libffi-3.2.1: .......... done | | | | `-- Extracting python27-2.7.12: .......... done | | | `-- Extracting llvm37-3.7.1_3: .......... done | | | `-- Extracting libEGL-11.2.2: .......... done | | | `-- Installing libGL-11.2.2... | | | `-- Installing dri2proto-2.8... | | | `-- Extracting dri2proto-2.8: .... done | | | `-- Installing libXxf86vm-1.1.4_1... | | | | `-- Installing xf86vidmodeproto-2.3.1... | | | | `-- Extracting xf86vidmodeproto-2.3.1: .... done | | | `-- Extracting libXxf86vm-1.1.4_1: .......... done | | | `-- Extracting libGL-11.2.2: .......... done | | | `-- Installing xcb-util-renderutil-0.3.9_1... | | | `-- Installing xcb-util-0.4.0_1,1... | | | `-- Extracting xcb-util-0.4.0_1,1: .......... done | | | `-- Extracting xcb-util-renderutil-0.3.9_1: ...... done | | | `-- Installing pixman-0.34.0... | | | `-- Extracting pixman-0.34.0: .......... done | | | `-- Installing glib-2.46.2_3... | | | `-- Installing libiconv-1.14_9... | | | `-- Extracting libiconv-1.14_9: .......... done | | | `-- Installing pcre-8.39... | | | `-- Extracting pcre-8.39: .......... done | | | `-- Extracting glib-2.46.2_3: .......... done No schema files found: doing nothing. | | `-- Extracting cairo-1.14.6_1,2: .......... done | | `-- Installing icu-57.1,1... | | `-- Extracting icu-57.1,1: .......... done | | `-- Installing graphite2-1.3.8... | | `-- Extracting graphite2-1.3.8: .......... done | | `-- Extracting harfbuzz-1.3.2: .......... done | | `-- Installing xorg-fonts-truetype-7.7_1... | | `-- Installing font-misc-meltho-1.0.3_3... | | | `-- Installing mkfontdir-1.0.7... | | | `-- Installing mkfontscale-1.1.2... | | | | `-- Installing libfontenc-1.1.3... | | | | `-- Extracting libfontenc-1.1.3: ...... done | | | `-- Extracting mkfontscale-1.1.2: .. done | | | `-- Extracting mkfontdir-1.0.7: .. done | | `-- Extracting font-misc-meltho-1.0.3_3: .......... done | | `-- Installing font-bh-ttf-1.0.3_3... | | `-- Extracting font-bh-ttf-1.0.3_3: .......... done | | `-- Installing font-misc-ethiopic-1.0.3_3... | | `-- Extracting font-misc-ethiopic-1.0.3_3: ... done | | `-- Installing dejavu-2.35... | | `-- Extracting dejavu-2.35: .......... done | `-- Extracting pango-1.38.0_1: .......... done | `-- Installing libXaw-1.0.13,2... | | `-- Installing libXpm-3.5.11_4... | | `-- Extracting libXpm-3.5.11_4: .......... done | | `-- Installing libXmu-1.1.2_3,1... | | `-- Extracting libXmu-1.1.2_3,1: .......... done | | `-- Installing printproto-1.0.5... | | `-- Extracting printproto-1.0.5: .... done | | `-- Installing libXp-1.0.3,1... | | `-- Extracting libXp-1.0.3,1: .......... done | `-- Extracting libXaw-1.0.13,2: .......... done | `-- Installing libltdl-2.4.6... | `-- Extracting libltdl-2.4.6: .......... done `-- Extracting graphviz-2.38.0_13: .......... done `-- Installing p5-IPC-Run-0.94... | `-- Installing p5-IO-Tty-1.12_1... | `-- Extracting p5-IO-Tty-1.12_1: .......... done `-- Extracting p5-IPC-Run-0.94: .......... done `-- Installing p5-Parse-RecDescent-1.967.009_2... `-- Extracting p5-Parse-RecDescent-1.967.009_2: .......... done `-- Installing p5-XML-Twig-3.49... | `-- Installing p5-Tie-IxHash-1.23_1... | `-- Extracting p5-Tie-IxHash-1.23_1: ... done | `-- Installing p5-Text-Iconv-1.7_3... | `-- Extracting p5-Text-Iconv-1.7_3: ..... done | `-- Installing p5-HTML-Tree-5.03_1... | | `-- Installing p5-HTML-Parser-3.72... | | `-- Installing p5-HTML-Tagset-3.20_1... | | `-- Extracting p5-HTML-Tagset-3.20_1: ... done | | `-- Extracting p5-HTML-Parser-3.72: .......... done | `-- Extracting p5-HTML-Tree-5.03_1: .......... done | `-- Installing p5-libwww-6.15... | | `-- Installing p5-Net-HTTP-6.09... | | `-- Installing p5-URI-1.71... | | `-- Extracting p5-URI-1.71: .......... done | | `-- Installing p5-IO-Socket-SSL-2.038... | | | `-- Installing p5-Net-SSLeay-1.78... | | | `-- Extracting p5-Net-SSLeay-1.78: .......... done | | | `-- Installing p5-IO-Socket-IP-0.37_1... | | | `-- Extracting p5-IO-Socket-IP-0.37_1: ....... done | | | `-- Installing p5-Mozilla-CA-20160104... | | | `-- Extracting p5-Mozilla-CA-20160104: ........ done | | | `-- Installing p5-Socket-2.021... | | | `-- Extracting p5-Socket-2.021: ........ done | | `-- Extracting p5-IO-Socket-SSL-2.038: .......... done | | `-- Extracting p5-Net-HTTP-6.09: .......... done | | `-- Installing p5-HTTP-Daemon-6.01_1... | | `-- Installing p5-HTTP-Message-6.11... | | | `-- Installing p5-Encode-Locale-1.05... | | | `-- Extracting p5-Encode-Locale-1.05: ... done | | | `-- Installing p5-IO-HTML-1.001_1... | | | `-- Extracting p5-IO-HTML-1.001_1: ....... done | | | `-- Installing p5-HTTP-Date-6.02_1... | | | `-- Extracting p5-HTTP-Date-6.02_1: ....... done | | | `-- Installing p5-LWP-MediaTypes-6.02_1... | | | `-- Extracting p5-LWP-MediaTypes-6.02_1: .... done | | `-- Extracting p5-HTTP-Message-6.11: .......... done | | `-- Extracting p5-HTTP-Daemon-6.01_1: ....... done | | `-- Installing p5-HTTP-Negotiate-6.01_1... | | `-- Extracting p5-HTTP-Negotiate-6.01_1: ....... done | | `-- Installing p5-WWW-RobotRules-6.02_1... | | `-- Extracting p5-WWW-RobotRules-6.02_1: ..... done | | `-- Installing p5-HTTP-Cookies-6.01_1... | | `-- Extracting p5-HTTP-Cookies-6.01_1: .......... done | | `-- Installing p5-File-Listing-6.04_1... | | `-- Extracting p5-File-Listing-6.04_1: ....... done | | `-- Installing p5-Authen-NTLM-1.09_1... | | `-- Installing p5-Digest-HMAC-1.03_1... | | `-- Extracting p5-Digest-HMAC-1.03_1: ....... done | | `-- Extracting p5-Authen-NTLM-1.09_1: ..... done | `-- Extracting p5-libwww-6.15: .......... done | `-- Installing p5-XML-Parser-2.44... | `-- Extracting p5-XML-Parser-2.44: .......... done | `-- Installing p5-XML-XPath-1.37... | `-- Extracting p5-XML-XPath-1.37: .......... done `-- Extracting p5-XML-Twig-3.49: .......... done Extracting p5-GraphViz-2.21: .......... done Message from python27-2.7.12: =========================================================================== Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: bsddb databases/py-bsddb gdbm databases/py-gdbm sqlite3 databases/py-sqlite3 tkinter x11-toolkits/py-tkinter =========================================================================== Message from dejavu-2.35: Make sure that the freetype module is loaded. If it is not, add the following line to the "Modules" section of your X Windows configuration file: Load "freetype" Add the following line to the "Files" section of X Windows configuration file: FontPath "/usr/local/share/fonts/dejavu/" Note: your X Windows configuration file is typically /etc/X11/XF86Config if you are using XFree86, and /etc/X11/xorg.conf if you are using X.Org. ===> p5-bioperl-1.6.924_4 depends on package: p5-GraphViz>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-HTML-Parser>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-HTML-TableExtract>=2 - not found ===> Installing existing package /packages/All/p5-HTML-TableExtract-2.13.txz Installing p5-HTML-TableExtract-2.13... `-- Installing p5-HTML-Element-Extended-1.18_1... `-- Extracting p5-HTML-Element-Extended-1.18_1: ......... done Extracting p5-HTML-TableExtract-2.13: ....... done ===> p5-bioperl-1.6.924_4 depends on package: p5-HTML-TableExtract>=2 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-IO-stringy>=0 - not found ===> Installing existing package /packages/All/p5-IO-stringy-2.111.txz Installing p5-IO-stringy-2.111... Extracting p5-IO-stringy-2.111: .......... done ===> p5-bioperl-1.6.924_4 depends on package: p5-IO-stringy>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-IO-String>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-Math-Random>=0 - not found ===> Installing existing package /packages/All/p5-Math-Random-0.72.txz Installing p5-Math-Random-0.72... Extracting p5-Math-Random-0.72: ........ done ===> p5-bioperl-1.6.924_4 depends on package: p5-Math-Random>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-PostScript>=0 - not found ===> Installing existing package /packages/All/p5-PostScript-0.06_2.txz Installing p5-PostScript-0.06_2... Extracting p5-PostScript-0.06_2: ......... done ===> p5-bioperl-1.6.924_4 depends on package: p5-PostScript>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-SOAP-Lite>=0 - not found ===> Installing existing package /packages/All/p5-SOAP-Lite-1.20.txz Installing p5-SOAP-Lite-1.20... `-- Installing p5-IO-SessionData-1.03_1... `-- Extracting p5-IO-SessionData-1.03_1: ....... done `-- Installing p5-Task-Weaken-1.04_1... `-- Extracting p5-Task-Weaken-1.04_1: ... done `-- Installing p5-LWP-Protocol-https-6.06_1... `-- Extracting p5-LWP-Protocol-https-6.06_1: ....... done `-- Installing p5-Class-Inspector-1.28_1... `-- Extracting p5-Class-Inspector-1.28_1: ......... done `-- Installing p5-MIME-Tools-5.508,2... | `-- Installing p5-Mail-Tools-2.14... | | `-- Installing p5-TimeDate-2.30_2,1... | | `-- Extracting p5-TimeDate-2.30_2,1: .......... done | `-- Extracting p5-Mail-Tools-2.14: .......... done | `-- Installing p5-Convert-BinHex-1.125... | `-- Extracting p5-Convert-BinHex-1.125: .......... done `-- Extracting p5-MIME-Tools-5.508,2: .......... done `-- Installing p5-XML-Parser-Lite-0.721... `-- Extracting p5-XML-Parser-Lite-0.721: ....... done Extracting p5-SOAP-Lite-1.20: .......... done ===> p5-bioperl-1.6.924_4 depends on package: p5-SOAP-Lite>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-Set-Scalar>=0 - not found ===> Installing existing package /packages/All/p5-Set-Scalar-1.26_1.txz Installing p5-Set-Scalar-1.26_1... Extracting p5-Set-Scalar-1.26_1: .......... done ===> p5-bioperl-1.6.924_4 depends on package: p5-Set-Scalar>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-Sort-Naturally>=1 - not found ===> Installing existing package /packages/All/p5-Sort-Naturally-1.03_1.txz Installing p5-Sort-Naturally-1.03_1... Extracting p5-Sort-Naturally-1.03_1: ....... done ===> p5-bioperl-1.6.924_4 depends on package: p5-Sort-Naturally>=1 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-Spreadsheet-ParseExcel>=0 - not found ===> Installing existing package /packages/All/p5-Spreadsheet-ParseExcel-0.65_2,1.txz Installing p5-Spreadsheet-ParseExcel-0.65_2,1... `-- Installing p5-Digest-Perl-MD5-1.9_1... `-- Extracting p5-Digest-Perl-MD5-1.9_1: ... done `-- Installing p5-Crypt-RC4-2.02_1... `-- Extracting p5-Crypt-RC4-2.02_1: ... done `-- Installing p5-OLE-Storage_Lite-0.19_1... `-- Extracting p5-OLE-Storage_Lite-0.19_1: ... done Extracting p5-Spreadsheet-ParseExcel-0.65_2,1: .......... done ===> p5-bioperl-1.6.924_4 depends on package: p5-Spreadsheet-ParseExcel>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-SVG>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-SVG-Graph>=0 - not found ===> Installing existing package /packages/All/p5-SVG-Graph-0.04_1.txz Installing p5-SVG-Graph-0.04_1... `-- Installing p5-Tree-DAG_Node-1.29... | `-- Installing p5-File-Slurp-Tiny-0.004... | `-- Extracting p5-File-Slurp-Tiny-0.004: ....... done `-- Extracting p5-Tree-DAG_Node-1.29: ...... done `-- Installing p5-Statistics-Descriptive-3.0609... `-- Extracting p5-Statistics-Descriptive-3.0609: ......... done `-- Installing p5-Math-Spline-0.02_1... | `-- Installing p5-Math-Derivative-0.04... | `-- Extracting p5-Math-Derivative-0.04: ....... done `-- Extracting p5-Math-Spline-0.02_1: ....... done Extracting p5-SVG-Graph-0.04_1: .......... done ===> p5-bioperl-1.6.924_4 depends on package: p5-SVG-Graph>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-Test-Most>=0 - not found ===> Installing existing package /packages/All/p5-Test-Most-0.34_1.txz Installing p5-Test-Most-0.34_1... `-- Installing p5-Test-Warn-0.30_2... | `-- Installing p5-Sub-Uplevel-0.2500... | `-- Extracting p5-Sub-Uplevel-0.2500: ... done `-- Extracting p5-Test-Warn-0.30_2: ....... done `-- Installing p5-Exception-Class-1.40... | `-- Installing p5-Class-Data-Inheritable-0.08_1... | `-- Extracting p5-Class-Data-Inheritable-0.08_1: ... done | `-- Installing p5-Devel-StackTrace-2.01... | `-- Extracting p5-Devel-StackTrace-2.01: ........ done `-- Extracting p5-Exception-Class-1.40: ......... done `-- Installing p5-Test-Differences-0.630,1... | `-- Installing p5-Text-Diff-1.41_1... | | `-- Installing p5-Algorithm-Diff-1.1903... | | `-- Extracting p5-Algorithm-Diff-1.1903: ......... done | `-- Extracting p5-Text-Diff-1.41_1: .......... done `-- Extracting p5-Test-Differences-0.630,1: ....... done `-- Installing p5-Test-Exception-0.43... `-- Extracting p5-Test-Exception-0.43: ....... done `-- Installing p5-Test-Deep-1.123... | `-- Installing p5-Test-Simple-1.302056... | `-- Extracting p5-Test-Simple-1.302056: .......... done `-- Extracting p5-Test-Deep-1.123: .......... done Extracting p5-Test-Most-0.34_1: ..... done ===> p5-bioperl-1.6.924_4 depends on package: p5-Test-Most>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-Text-Shellwords>=0 - not found ===> Installing existing package /packages/All/p5-Text-Shellwords-1.08_1.txz Installing p5-Text-Shellwords-1.08_1... Extracting p5-Text-Shellwords-1.08_1: ....... done ===> p5-bioperl-1.6.924_4 depends on package: p5-Text-Shellwords>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-Text-Tabs+Wrap>=0 - not found ===> Installing existing package /packages/All/p5-Text-Tabs+Wrap-2013.0523_1.txz Installing p5-Text-Tabs+Wrap-2013.0523_1... Extracting p5-Text-Tabs+Wrap-2013.0523_1: ..... done ===> p5-bioperl-1.6.924_4 depends on package: p5-Text-Tabs+Wrap>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-URI>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-DOM>=0 - not found ===> Installing existing package /packages/All/p5-XML-DOM-1.44_1.txz Installing p5-XML-DOM-1.44_1... `-- Installing p5-libxml-0.08_1... `-- Extracting p5-libxml-0.08_1: .......... done `-- Installing p5-XML-RegExp-0.04_1... `-- Extracting p5-XML-RegExp-0.04_1: ... done Extracting p5-XML-DOM-1.44_1: .......... done ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-DOM>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-DOM-XPath>=0 - not found ===> Installing existing package /packages/All/p5-XML-DOM-XPath-0.14_1.txz Installing p5-XML-DOM-XPath-0.14_1... `-- Installing p5-XML-XPathEngine-0.14_1... `-- Extracting p5-XML-XPathEngine-0.14_1: .......... done Extracting p5-XML-DOM-XPath-0.14_1: ... done ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-DOM-XPath>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-LibXML>=0 - not found ===> Installing existing package /packages/All/p5-XML-LibXML-2.0126,1.txz Installing p5-XML-LibXML-2.0126,1... `-- Installing p5-XML-NamespaceSupport-1.11_1... `-- Extracting p5-XML-NamespaceSupport-1.11_1: ... done `-- Installing p5-XML-SAX-0.99_2... | `-- Installing p5-XML-SAX-Base-1.08_1... | `-- Extracting p5-XML-SAX-Base-1.08_1: .......... done `-- Extracting p5-XML-SAX-0.99_2: .......... done Extracting p5-XML-LibXML-2.0126,1: .......... done ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-LibXML>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-Parser>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-SAX>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-SAX-Writer>=0 - not found ===> Installing existing package /packages/All/p5-XML-SAX-Writer-0.56.txz Installing p5-XML-SAX-Writer-0.56... `-- Installing p5-XML-Filter-BufferText-1.01_1... `-- Extracting p5-XML-Filter-BufferText-1.01_1: ... done Extracting p5-XML-SAX-Writer-0.56: ......... done ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-SAX-Writer>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-Simple>=2 - not found ===> Installing existing package /packages/All/p5-XML-Simple-2.22.txz Installing p5-XML-Simple-2.22... `-- Installing p5-XML-SAX-Expat-0.51_1... `-- Extracting p5-XML-SAX-Expat-0.51_1: ....... done Extracting p5-XML-Simple-2.22: ......... done ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-Simple>=2 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-Twig>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-Writer>=0 - not found ===> Installing existing package /packages/All/p5-XML-Writer-0.625_1.txz Installing p5-XML-Writer-0.625_1... Extracting p5-XML-Writer-0.625_1: ... done ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-Writer>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-YAML>=0 - not found ===> Installing existing package /packages/All/p5-YAML-1.14.txz Installing p5-YAML-1.14... Extracting p5-YAML-1.14: .......... done ===> p5-bioperl-1.6.924_4 depends on package: p5-YAML>=0 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: p5-libwww>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-libxml>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-Module-Build>=0.4206 - not found ===> Installing existing package /packages/All/p5-Module-Build-0.4220.txz Installing p5-Module-Build-0.4220... `-- Installing p5-CPAN-Meta-2.150005... `-- Extracting p5-CPAN-Meta-2.150005: .......... done Extracting p5-Module-Build-0.4220: .......... done ===> p5-bioperl-1.6.924_4 depends on package: p5-Module-Build>=0.4206 - found ===> Returning to build of p5-bioperl-1.6.924_4 ===> p5-bioperl-1.6.924_4 depends on package: perl5>=5.20<5.21 - found =========================================================================== =================================================== =========================================================================== =================================================== ===> Configuring for p5-bioperl-1.6.924_4 Checking prerequisites... recommends: * Bio::Phylo is not installed Checking optional features... EntrezGene............disabled requires: ! Bio::ASN1::EntrezGene is not installed Pg Tests..............disabled requires: ! DBD::Pg is not installed SQLite Tests..........disabled requires: ! DBD::SQLite is not installed ERRORS/WARNINGS FOUND IN PREREQUISITES. You may wish to install the versions of the modules indicated above before proceeding with this installation Run 'Build installdeps' to install missing prerequisites. - will not run the BioDBGFF or BioDBSeqFeature live database tests - willt install all scripts - will not run internet-requiring tests Created MYMETA.yml and MYMETA.json Creating new 'Build' script for 'BioPerl' version '1.006924' =========================================================================== =================================================== ===> Building for p5-bioperl-1.6.924_4 Building BioPerl =========================================================================== =================================================== ===> p5-bioperl-1.6.924_4 depends on package: p5-Algorithm-Munkres>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-Array-Compare>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-Class-AutoClass>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-Clone>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-Convert-Binary-C>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-Data-Stag>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-DBD-mysql>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-Error>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-GD>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-GD-SVG>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-Graph>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-GraphViz>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-HTML-Parser>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-HTML-TableExtract>=2 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-IO-stringy>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-IO-String>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-Math-Random>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-PostScript>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-SOAP-Lite>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-Set-Scalar>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-Sort-Naturally>=1 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-Spreadsheet-ParseExcel>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-SVG>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-SVG-Graph>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-Test-Most>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-Text-Shellwords>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-Text-Tabs+Wrap>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-URI>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-DOM>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-DOM-XPath>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-LibXML>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-Parser>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-SAX>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-SAX-Writer>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-Simple>=2 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-Twig>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-XML-Writer>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-YAML>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-libwww>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: p5-libxml>=0 - found ===> p5-bioperl-1.6.924_4 depends on package: perl5>=5.20<5.21 - found =========================================================================== =================================================== ===> Staging for p5-bioperl-1.6.924_4 ===> Generating temporary packing list Building BioPerl Reading skip patterns from 'INSTALL.SKIP'. Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_query_entrez_taxa.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_filter_search.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_download_query_genbank.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_blast2tree.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_process_gadfly.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_remote_blast.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_genbank2gff.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_fetch.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_revtrans-motif.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_seqret.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_search2gff.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_mutate.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_tree2pag.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_composite_LD.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_flanks.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_meta_gff.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_generate_histogram.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_biofetch_genbank_proxy.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_search2BSML.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_seq_length.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_dbsplit.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_extract_feature_seq.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_split_seq.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_mask_by_search.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_classify_hits_kingdom.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_biogetseq.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_aacomp.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_netinstall.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_local_taxonomydb_query.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_fast_load_gff.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_heterogeneity_test.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_chaos_plot.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_search2tribe.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_sreformat.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_search2alnblocks.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_gccalc.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_process_wormbase.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_oligo_count.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_taxid4species.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_genbank2gff3.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_bioflat_index.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_load_gff.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_seqconvert.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_pairwise_kaks.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_fastam9_to_table.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_seqcut.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_nrdb.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_nexus2nh.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_search2table.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_parse_hmmsearch.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_seqretsplit.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_make_mrna_protein.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_taxonomy2tree.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_unflatten_seq.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_mrtrans.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_hivq.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_hmmer_to_table.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_process_sgd.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_seqpart.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_seqfeature_load.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_index.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_bulk_load_gff.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_translate_seq.pl.1 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/DBLinkContainerI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/OntologyIO.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/PhyloNetwork.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/AnalysisResultI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/AnnotationCollectionI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/IdentifiableI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/LocatableSeq.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/ClusterIO.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/MapIO.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/ParameterBaseI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/HandlerBaseI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/FeatureHolderI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/AnalysisI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/AlignIO.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/AnnotationI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/IdCollectionI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/LocationI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/AnnotatableI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/DasI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/NexmlIO.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/AnalysisParserI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/Perl.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/DescribableI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/ClusterI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/RangeI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/Taxon.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/Seq.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/PullParserI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/SeqIO.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/WebAgent.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/SearchIO.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/PrimarySeq.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/SearchDist.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/SeqAnalysisParserI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/PrimarySeqI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/SeqI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/SeqFeatureI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/SeqUtils.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/SimpleAnalysisI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/Species.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/TreeIO.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/Taxonomy.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/SimpleAlign.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/UpdateableSeqI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/Range.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/Coordinate/GeneMapper.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/Coordinate/ExtrapolatingPair.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/Coordinate/Utils.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/Coordinate/ResultI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/Coordinate/Graph.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/Coordinate/MapperI.pm Installing 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/wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/DB/SeqVersion.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/DB/LocationI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/DB/RefSeq.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/DB/Taxonomy.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/DB/IndexedBase.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/DB/WebDBSeqI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/DB/SeqHound.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/DB/Qual.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/DB/QueryI.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/DB/Universal.pm Installing 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Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/DB/HIV/lanl-schema.xml Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/DB/Expression/geo.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/DB/SeqVersion/gi.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/DB/Flat/BDB.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/DB/Flat/BinarySearch.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/DB/Flat/BDB/embl.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/DB/Flat/BDB/genbank.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/DB/Flat/BDB/fasta.pm Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/Bio/DB/Flat/BDB/swiss.pm Installing 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/wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::Phylo::PAML::Codeml.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::Primer::AssessorI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Symbol::DNAAlphabet.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqUtils.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::Alignment::Trim.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::Glimmer.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Structure::Residue.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Species.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::RandomDistFunctions.3 Installing 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Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Adaptor::berkeleydb::iterator.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::PhylipDist.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Aggregator::transcript.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::PSM::IO::transfac.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::PSM::PsmI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::NexmlIO.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Nexml::Factory.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::IO::scoring.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Adaptor::ace.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::PSM::SiteMatrix.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Adaptor::memory.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Aggregator::ucsc_genscan.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Typename.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Featname.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::IO.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::InMemoryCache.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Adaptor::dbi::oracle.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Aggregator::ucsc_twinscan.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Aggregator::ucsc_ensgene.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Adaptor::dbi::pg_fts.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Aggregator::ucsc_refgene.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::PSM::IO::masta.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::IndexedBase.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Aggregator::ucsc_acembly.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Adaptor::dbi::mysql.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Adaptor::biofetch_oracle.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Aggregator::ucsc_sanger22pseudo.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Aggregator::ucsc_sanger22.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Aggregator::ucsc_unigene.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Util::Rearrange.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::DocumentRegistry.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MapIO.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::GOterm.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::RelSegment.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::PSM::InstanceSiteI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Feature.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::Generic.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::PSM::IO::meme.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::OBOEngine.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Adaptor::dbi::caching_handle.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::HIV::HIVQueryHelper.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Segment.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Adaptor::biofetch.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::IO::phylip.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Adaptor::dbi::mysqlopt.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::Mlagan.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Adaptor::dbi::mysqlace.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GenPept.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MapIO::fpc.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Util::Binning.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::PSM::ProtMatrix.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Map::TranscriptionFactor.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Aggregator::ucsc_softberry.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::MatrixI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Map::Relative.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Map::Prediction.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::PSM::IO::psiblast.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::PSM::PsmHeaderI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Adaptor::memory::feature_serializer.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::IO::mlagan.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::PSM::IO::mast.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Map::PositionWithSequence.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Map::RelativeI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Homol.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Adaptor::berkeleydb.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Adaptor::dbi::oracleace.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MapIO::mapmaker.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MolEvol::CodonModel.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Aggregator::so_transcript.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Adaptor::dbi::mysqlcmap.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::PSM::PsmHeader.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::PSM::ProtPsm.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Adaptor::dbi::iterator.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GenericWebAgent.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::HIV.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GenBank.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::PSM::Psm.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::HIV::HIVAnnotProcessor.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Map::SimpleMap.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Adaptor::dbi::pg.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::PSM::SiteMatrixI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GFF::Adaptor::memory::iterator.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::Flat::BDB.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::Flat::BDB::genbank.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::Flat::BDB::embl.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::Flat::BDB::swiss.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::Flat::BinarySearch.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::Flat.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::Flat::BDB::fasta.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::Meta.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SearchIO::wise.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::BaseSeqProcessor.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SearchIO::hmmer2.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::EncodedSeq.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SearchIO::hmmer.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::Quality.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SearchIO::sim4.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::LargeLocatableSeq.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::QualI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::LargePrimarySeq.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::LargeSeqI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SearchIO::rnamotif.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SearchIO::waba.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::Meta::Array.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::PrimedSeq.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SearchIO::hmmer3.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SearchIO::psl.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::PrimaryQual.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::MetaI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::LargeSeq.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Coordinate::Utils.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Coordinate::Result::Match.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Coordinate::Graph.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Coordinate::MapperI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Coordinate::GeneMapper.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::Ace.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Coordinate::Collection.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Coordinate::Result.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Coordinate::ResultI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Coordinate::ExtrapolatingPair.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Coordinate::Chain.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Coordinate::Result::Gap.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Coordinate::Pair.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::CUTG.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::BioFetch.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::DBFetch.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::EMBL.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::msout.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::metafasta.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::lasergene.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::largefasta.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::interpro.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::mbsout.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::locuslink.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Search::Result::ResultFactory.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::kegg.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::exp.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::ctf.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::embl.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::entrezgene.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::fastq.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::embldriver.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::chaos.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::excel.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::chaosxml.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Location::Atomic.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::LiveSeq::Repeat_Region.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Location::CoordinatePolicyI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::LiveSeq::IO::Loader.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::LiveSeq::IO::BioPerl.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::LiveSeq::Repeat_Unit.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::LiveSeq::Gene.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Location::AvWithinCoordPolicy.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::LiveSeq::Exon.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::LiveSeq::Mutator.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Location::FuzzyLocationI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::LiveSeq::Prim_Transcript.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::LiveSeq::Mutation.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::LiveSeq::Range.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::LiveSeq::SeqI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::LiveSeq::DNA.3 Installing 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Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Variation::SNP.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::isPcr.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::TreeIO::nhx.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tree::Tree.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::Sim4::Results.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::Sim4::Exon.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tree::AnnotatableNode.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::WebAgent.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::TandemRepeatsFinder.3 Installing 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/wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::MultiFile.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::Spidey::Results.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::TreeIO::svggraph.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tree::RandomFactory.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::TreeIO::phyloxml.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::ipcress.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::Handler::GenericRichSeqHandler.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::FTHelper.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::TargetP.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Variation::IO::flat.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqFeatureI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::Spidey::Exon.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Variation::SeqDiff.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::TreeIO::nexus.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqFeature::TypedSeqFeatureI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::dpAlign.3 Installing 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/wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::selex.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::bl2seq.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::Handler::GenericAlignHandler.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Align::ProteinStatistics.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Annotation::Reference.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AnnotationCollectionI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Annotation::OntologyTerm.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::phylip.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::clustalw.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::meme.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Annotation::Comment.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::nexus.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::mase.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Align::Utilities.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Annotation::AnnotationFactory.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::prodom.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::proda.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Annotation::Tree.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::arp.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Annotation::TypeManager.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Annotation::Target.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::largemultifasta.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Align::Graphics.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Annotation::DBLink.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Annotation::StructuredValue.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Align::StatisticsI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Annotation::Relation.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::mega.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AnalysisResultI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Annotation::Collection.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::fasta.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Align::DNAStatistics.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::stockholm.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::emboss.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Align::AlignI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::psi.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Assembly::Contig.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Annotation::TagTree.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Annotation::SimpleValue.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::metafasta.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Align::PairwiseStatistics.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AnalysisParserI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::nexml.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::xmfa.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::pfam.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AnalysisI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AnnotatableI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::msf.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::SeqFeature::Store::memory.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::SeqHound.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::SeqVersion.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::SeqFeature::Store::DBI::Pg.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::Taxonomy::entrez.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::TFBS::transfac_pro.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::SeqFeature::Store::GFF2Loader.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::SeqI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::SeqFeature::Store::DBI::Iterator.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::TFBS.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::SeqFeature::Store::berkeleydb3.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::SwissProt.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::SeqFeature::Store::LoadHelper.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::SeqFeature::Store::Loader.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::Taxonomy.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::SeqFeature::Store::bdb.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::SeqVersion::gi.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::SeqFeature::Store::GFF3Loader.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::SeqFeature::Store::DBI::mysql.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::SeqFeature::Store::FeatureFileLoader.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::SeqFeature::Store::berkeleydb.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::SeqFeature::Store::DBI::SQLite.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Search::Result::hmmer3Result.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Search::Result::WABAResult.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Search::SearchUtils.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Search::StatisticsI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Search::Tiling::MapTileUtils.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::OntologyEngineI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::OntologyStore.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::Relationship.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::OBOterm.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::Term.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::PathI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::RelationshipType.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::SimpleOntologyEngine.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::RelationshipFactory.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::RelationshipI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::TermFactory.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::SimpleGOEngine::GraphAdaptor.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::OntologyI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::TermI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::Path.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::Ontology.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Assembly::ContigAnalysis.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Cluster::SequenceFamily.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Assembly::Tools::ContigSpectrum.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Assembly::IO::phrap.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Assembly::IO::sam.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Assembly::IO::maq.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Cluster::FamilyI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Assembly::IO.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Cluster::UniGene.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Cluster::UniGeneI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Assembly::ScaffoldI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Assembly::IO::tigr.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Cluster::ClusterFactory.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Assembly::Scaffold.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Assembly::Singlet.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Assembly::IO::bowtie.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Assembly::IO::ace.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::ClusterI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SearchIO::infernal.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SearchIO::erpin.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SearchIO::gmap_f9.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::RichSeq.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SearchIO::hmmer_pull.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SearchIO::fasta.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::RichSeqI.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SearchIO::cross_match.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SearchIO::exonerate.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SearchIO::megablast.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::SeqBuilder.3 Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_search2gff.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_fast_load_gff.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_index.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_aacomp.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_chaos_plot.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_seqfeature_delete.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_fetch.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_seqfeature_load.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_filter_search.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_tree2pag.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_seqpart.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_process_sgd.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_mask_by_search.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_biofetch_genbank_proxy.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_local_taxonomydb_query.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_search2table.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_bulk_load_gff.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_seqret.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_search2tribe.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_blast2tree.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_dbsplit.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_meta_gff.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_hivq.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_extract_feature_seq.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_nrdb.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_heterogeneity_test.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_split_seq.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_mutate.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_mrtrans.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_remote_blast.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_taxonomy2tree.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_seqcut.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_generate_histogram.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_search2BSML.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_oligo_count.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_gccalc.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_search2alnblocks.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_genbank2gff.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_sreformat.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_query_entrez_taxa.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_revtrans-motif.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_flanks.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_download_query_genbank.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_composite_LD.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_parse_hmmsearch.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_taxid4species.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_process_wormbase.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_pairwise_kaks.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_seqconvert.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_seqfeature_gff3.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_load_gff.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_classify_hits_kingdom.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_hmmer_to_table.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_netinstall.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_genbank2gff3.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_make_mrna_protein.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_process_gadfly.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_seq_length.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_das_server.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_unflatten_seq.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_fastam9_to_table.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_seqretsplit.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_nexus2nh.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_translate_seq.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_bioflat_index.pl Installing /wrkdirs/biology/p5-bioperl/stage/usr/local/bin/bp_biogetseq.pl Writing /wrkdirs/biology/p5-bioperl/stage/usr/local/lib/perl5/site_perl/mach/5.20/auto/Bio/.packlist /bin/cp -R /wrkdirs/biology/p5-bioperl/BioPerl-1.6.924/scripts /wrkdirs/biology/p5-bioperl/BioPerl-1.6.924/models /wrkdirs/biology/p5-bioperl/stage/usr/local/share/bioperl /bin/cp -R /wrkdirs/biology/p5-bioperl/BioPerl-1.6.924/examples/* /wrkdirs/biology/p5-bioperl/stage/usr/local/share/examples/bioperl install -m 444 /wrkdirs/biology/p5-bioperl/BioPerl-1.6.924/AUTHORS /wrkdirs/biology/p5-bioperl/stage/usr/local/share/doc/bioperl install -m 444 /wrkdirs/biology/p5-bioperl/BioPerl-1.6.924/BUGS /wrkdirs/biology/p5-bioperl/stage/usr/local/share/doc/bioperl install -m 444 /wrkdirs/biology/p5-bioperl/BioPerl-1.6.924/Changes /wrkdirs/biology/p5-bioperl/stage/usr/local/share/doc/bioperl install -m 444 /wrkdirs/biology/p5-bioperl/BioPerl-1.6.924/DEPENDENCIES /wrkdirs/biology/p5-bioperl/stage/usr/local/share/doc/bioperl install -m 444 /wrkdirs/biology/p5-bioperl/BioPerl-1.6.924/DEPRECATED /wrkdirs/biology/p5-bioperl/stage/usr/local/share/doc/bioperl install -m 444 /wrkdirs/biology/p5-bioperl/BioPerl-1.6.924/INSTALL /wrkdirs/biology/p5-bioperl/stage/usr/local/share/doc/bioperl install -m 444 /wrkdirs/biology/p5-bioperl/BioPerl-1.6.924/LICENSE /wrkdirs/biology/p5-bioperl/stage/usr/local/share/doc/bioperl install -m 444 /wrkdirs/biology/p5-bioperl/BioPerl-1.6.924/MANIFEST /wrkdirs/biology/p5-bioperl/stage/usr/local/share/doc/bioperl install -m 444 /wrkdirs/biology/p5-bioperl/BioPerl-1.6.924/README /wrkdirs/biology/p5-bioperl/stage/usr/local/share/doc/bioperl /bin/cp -R /wrkdirs/biology/p5-bioperl/BioPerl-1.6.924/doc /wrkdirs/biology/p5-bioperl/stage/usr/local/share/doc/bioperl ====> Compressing man pages (compress-man) =========================================================================== =================================================== ===> Building package for p5-bioperl-1.6.924_4 file sizes/checksums [1944]: .......... done packing files [1944]: .......... done packing directories [0]: . done =========================================================================== => Cleaning up wrkdir ===> Cleaning for p5-bioperl-1.6.924_4 build of biology/p5-bioperl ended at Fri Oct 7 23:43:18 PDT 2016 build time: 00:02:42