=> Building biology/p5-BioPerl Started : Thursday, 30 AUG 2018 at 07:54:12 UTC Platform: 5.3-DEVELOPMENT DragonFly 5.3-DEVELOPMENT #140: Wed Aug 29 22:06:30 PDT 2018 root@test.backplane.com:/usr/obj/usr/src/sys/X86_64_GENERIC x86_64 -------------------------------------------------- -- Environment -------------------------------------------------- UNAME_r=5.3-SYNTH UNAME_m=x86_64 UNAME_p=x86_64 UNAME_v=DragonFly 5.3-SYNTH UNAME_s=DragonFly PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin SSL_NO_VERIFY_PEER=1 TERM=dumb PKG_CACHEDIR=/var/cache/pkg8 PKG_DBDIR=/var/db/pkg8 PORTSDIR=/xports LANG=C HOME=/root USER=root -------------------------------------------------- -- Options -------------------------------------------------- ===> The following configuration options are available for p5-BioPerl-1.007002: 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 -------------------------------------------------- -- CONFIGURE_ENV -------------------------------------------------- ac_cv_path_PERL=/usr/local/bin/perl ac_cv_path_PERL_PATH=/usr/local/bin/perl PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/construction/biology/p5-BioPerl XDG_CONFIG_HOME=/construction/biology/p5-BioPerl HOME=/construction/biology/p5-BioPerl TMPDIR="/tmp" PATH=/construction/biology/p5-BioPerl/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh CCVER=gcc50 PERL_EXTUTILS_AUTOINSTALL="--skipdeps" PERL_MM_USE_DEFAULT="YES" -------------------------------------------------- -- CONFIGURE_ARGS -------------------------------------------------- --install_path lib="/usr/local/lib/perl5/site_perl" --install_path arch="/usr/local/lib/perl5/site_perl/mach/5.26" --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 /construction/biology/p5-BioPerl/stage --perl="/usr/local/bin/perl" --create_packlist 1 CC="cc" CCFLAGS="-pipe -O2 -fno-strict-aliasing" LD="cc" PREFIX="/usr/local" INSTALLPRIVLIB="/usr/local/lib" INSTALLARCHLIB="/usr/local/lib" -------------------------------------------------- -- MAKE_ENV -------------------------------------------------- PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/construction/biology/p5-BioPerl XDG_CONFIG_HOME=/construction/biology/p5-BioPerl HOME=/construction/biology/p5-BioPerl TMPDIR="/tmp" PATH=/construction/biology/p5-BioPerl/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin 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 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 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" -------------------------------------------------- -- MAKE_ARGS -------------------------------------------------- --destdir=/construction/biology/p5-BioPerl/stage -------------------------------------------------- -- PLIST_SUB -------------------------------------------------- PORTDOCS="" PORTEXAMPLES="" OSREL=5.3 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib PERL_VERSION=5.26.2 PERL_VER=5.26 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/5.26 PROFILE="@comment " DOCSDIR="share/doc/BioPerl" EXAMPLESDIR="share/examples/BioPerl" DATADIR="share/BioPerl" WWWDIR="www/BioPerl" ETCDIR="etc/BioPerl" -------------------------------------------------- -- 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 -------------------------------------------------- -- /etc/make.conf -------------------------------------------------- SYNTHPROFILE=LiveSystem USE_PACKAGE_DEPENDS_ONLY=yes PACKAGE_BUILDING=yes BATCH=yes PKG_CREATE_VERBOSE=yes PORTSDIR=/xports DISTDIR=/distfiles WRKDIRPREFIX=/construction PORT_DBDIR=/options PACKAGES=/packages MAKE_JOBS_NUMBER_LIMIT=12 _ALTCCVERSION_921dbbb2=none _OBJC_ALTCCVERSION_921dbbb2=none _SMP_CPUS=32 UID=0 ARCH=x86_64 OPSYS=DragonFly DFLYVERSION=500316 OSVERSION=9999999 OSREL=5.3 _OSRELEASE=5.3-SYNTH PYTHONBASE=/usr/local _PKG_CHECKED=1 -------------------------------------------------------------------------------- -- Phase: check-sanity -------------------------------------------------------------------------------- ===> License ART10 GPLv1+ accepted by the user -------------------------------------------------------------------------------- -- Phase: pkg-depends -------------------------------------------------------------------------------- ===> p5-BioPerl-1.007002 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.10.5_1.txz Installing pkg-1.10.5_1... Extracting pkg-1.10.5_1: .......... done ===> p5-BioPerl-1.007002 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of p5-BioPerl-1.007002 -------------------------------------------------------------------------------- -- Phase: fetch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: fetch -------------------------------------------------------------------------------- ===> License ART10 GPLv1+ accepted by the user ===> Fetching all distfiles required by p5-BioPerl-1.007002 for building -------------------------------------------------------------------------------- -- Phase: checksum -------------------------------------------------------------------------------- ===> License ART10 GPLv1+ accepted by the user ===> Fetching all distfiles required by p5-BioPerl-1.007002 for building => SHA256 Checksum OK for BioPerl-1.007002.tar.gz. -------------------------------------------------------------------------------- -- Phase: extract-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: extract -------------------------------------------------------------------------------- ===> License ART10 GPLv1+ accepted by the user ===> Fetching all distfiles required by p5-BioPerl-1.007002 for building ===> Extracting for p5-BioPerl-1.007002 => SHA256 Checksum OK for BioPerl-1.007002.tar.gz. -------------------------------------------------------------------------------- -- Phase: patch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: patch -------------------------------------------------------------------------------- ===> Patching for p5-BioPerl-1.007002 ===> Applying ports patches for p5-BioPerl-1.007002 No such line 1151 in input file, ignoring -------------------------------------------------------------------------------- -- Phase: build-depends -------------------------------------------------------------------------------- ===> p5-BioPerl-1.007002 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 perl5-5.26.2... `-- Extracting perl5-5.26.2: .......... done Extracting p5-Algorithm-Munkres-0.08_1: ... done Message from perl5-5.26.2: 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-1.007002 depends on package: p5-Algorithm-Munkres>=0 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: p5-Array-Compare>=0 - not found ===> Installing existing package /packages/All/p5-Array-Compare-3.0.1.txz Installing p5-Array-Compare-3.0.1... `-- Installing p5-Moo-2.003004... | `-- Installing p5-Class-Method-Modifiers-2.12... | `-- Extracting p5-Class-Method-Modifiers-2.12: ....... done | `-- Installing p5-Devel-GlobalDestruction-0.14... | | `-- Installing p5-Sub-Exporter-Progressive-0.001013... | | `-- Installing p5-Sub-Exporter-0.987_1... | | | `-- Installing p5-Data-OptList-0.110... | | | `-- 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 | | | `-- Extracting p5-Data-OptList-0.110: ....... done | | `-- Extracting p5-Sub-Exporter-0.987_1: .......... done | | `-- Extracting p5-Sub-Exporter-Progressive-0.001013: ....... done | `-- Extracting p5-Devel-GlobalDestruction-0.14: ....... done | `-- Installing p5-Module-Runtime-0.016... | `-- Extracting p5-Module-Runtime-0.016: ....... done | `-- Installing p5-Role-Tiny-2.000006... | `-- Extracting p5-Role-Tiny-2.000006: ......... done | `-- Installing p5-Sub-Quote-2.005001... | `-- Extracting p5-Sub-Quote-2.005001: ......... done `-- Extracting p5-Moo-2.003004: .......... done `-- Installing p5-Type-Tiny-1.002002... | `-- Installing p5-Devel-StackTrace-2.03... | `-- Extracting p5-Devel-StackTrace-2.03: ........ done | `-- Installing p5-Exporter-Tiny-1.000000... | `-- Extracting p5-Exporter-Tiny-1.000000: .......... done | `-- Installing p5-Ref-Util-XS-0.117... | `-- Extracting p5-Ref-Util-XS-0.117: ....... done | `-- Installing p5-Type-Tie-0.011... | | `-- Installing p5-Hash-FieldHash-0.15... | | `-- Extracting p5-Hash-FieldHash-0.15: ........ done | `-- Extracting p5-Type-Tie-0.011: ......... done | `-- Installing p5-Type-Tiny-XS-0.014... | `-- Extracting p5-Type-Tiny-XS-0.014: .......... done `-- Extracting p5-Type-Tiny-1.002002: .......... done Extracting p5-Array-Compare-3.0.1: ....... done ===> p5-BioPerl-1.007002 depends on package: p5-Array-Compare>=0 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: p5-CGI>=0 - not found ===> Installing existing package /packages/All/p5-CGI-4.38.txz Installing p5-CGI-4.38... `-- 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-CGI-4.38: .......... done ===> p5-BioPerl-1.007002 depends on package: p5-CGI>=0 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: p5-Clone>=0 - not found ===> Installing existing package /packages/All/p5-Clone-0.39.txz Installing p5-Clone-0.39... Extracting p5-Clone-0.39: ......... done ===> p5-BioPerl-1.007002 depends on package: p5-Clone>=0 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 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-1.007002 depends on package: p5-Convert-Binary-C>=0 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: p5-DBD-mysql>=0 - not found ===> Installing existing package /packages/All/p5-DBD-mysql-4.046.txz Installing p5-DBD-mysql-4.046... `-- Installing mysql56-client-5.6.40... | `-- Installing libedit-3.1.20170329_2,1... | | `-- Installing ncurses-6.0.0s20171223_1... | | `-- Extracting ncurses-6.0.0s20171223_1: .......... done | `-- Extracting libedit-3.1.20170329_2,1: .......... done | `-- Installing libevent-2.1.8_1... | | `-- Installing libressl-2.7.4... | | `-- Extracting libressl-2.7.4: .......... done | `-- Extracting libevent-2.1.8_1: .......... done | `-- Installing liblz4-1.8.2,1... | `-- Extracting liblz4-1.8.2,1: .......... done `-- Extracting mysql56-client-5.6.40: .......... done `-- Installing p5-DBI-1.641... `-- Extracting p5-DBI-1.641: .......... done Extracting p5-DBD-mysql-4.046: .......... done Message from mysql56-client-5.6.40: * * * * * * * * * * * * * * * * * * * * * * * * 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-1.007002 depends on package: p5-DBD-mysql>=0 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: p5-DBI>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-Data-Stag>=0.11 - 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-1.007002 depends on package: p5-Data-Stag>=0.11 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: p5-Error>=0 - not found ===> Installing existing package /packages/All/p5-Error-0.17026.txz Installing p5-Error-0.17026... Extracting p5-Error-0.17026: ......... done ===> p5-BioPerl-1.007002 depends on package: p5-Error>=0 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: p5-GD>=0 - not found ===> Installing existing package /packages/All/p5-GD-2.68.txz Installing p5-GD-2.68... `-- Installing libgd-2.2.4_1,1... | `-- Installing fontconfig-2.12.6,1... | | `-- Installing expat-2.2.5... | | `-- Extracting expat-2.2.5: .......... done | | `-- Installing freetype2-2.9.1... | | `-- Extracting freetype2-2.9.1: .......... done | `-- Extracting fontconfig-2.12.6,1: .......... 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-1.5.3... | `-- Extracting jpeg-turbo-1.5.3: .......... done | `-- Installing png-1.6.34... | `-- Extracting png-1.6.34: .......... done | `-- Installing tiff-4.0.9_1... | | `-- Installing jbigkit-2.1_1... | | `-- Extracting jbigkit-2.1_1: .......... done | `-- Extracting tiff-4.0.9_1: .......... done | `-- Installing webp-1.0.0... | | `-- Installing giflib-5.1.4... | | `-- Extracting giflib-5.1.4: .......... done | `-- Extracting webp-1.0.0: .......... done `-- Extracting libgd-2.2.4_1,1: .......... done `-- Installing p5-ExtUtils-PkgConfig-1.16... | `-- Installing pkgconf-1.4.2,1... | `-- Extracting pkgconf-1.4.2,1: .......... done `-- Extracting p5-ExtUtils-PkgConfig-1.16: ...... done Extracting p5-GD-2.68: .......... done Message from freetype2-2.9.1: The 2.7.x series now uses the new subpixel hinting mode (V40 port's option) as the default, emulating a modern version of ClearType. This change inevitably leads to different rendering results, and you might change port's options to adapt it to your taste (or use the new "FREETYPE_PROPERTIES" environment variable). The environment variable "FREETYPE_PROPERTIES" can be used to control the driver properties. Example: FREETYPE_PROPERTIES=truetype:interpreter-version=35 \ cff:no-stem-darkening=1 \ autofitter:warping=1 This allows to select, say, the subpixel hinting mode at runtime for a given application. The controllable properties are listed in the section "Controlling FreeType Modules" in the reference's table of contents (/usr/local/share/doc/freetype2/reference/ft2-toc.html, if documentation was installed). ===> p5-BioPerl-1.007002 depends on package: p5-GD>=0 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: p5-Graph>=0.50 - not found ===> Installing existing package /packages/All/p5-Graph-0.9704,1.txz Installing p5-Graph-0.9704,1... `-- Installing p5-Heap-0.80_1... `-- Extracting p5-Heap-0.80_1: .......... done Extracting p5-Graph-0.9704,1: .......... done ===> p5-BioPerl-1.007002 depends on package: p5-Graph>=0.50 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: p5-GraphViz>=0 - not found ===> Installing existing package /packages/All/p5-GraphViz-2.24.txz Installing p5-GraphViz-2.24... `-- Installing graphviz-2.40.1_5... | `-- Installing cairo-1.14.8_1,2... | | `-- Installing dri2proto-2.8... | | `-- Extracting dri2proto-2.8: ....... done | | `-- Installing gettext-runtime-0.19.8.1_1... | | `-- Installing indexinfo-0.3.1... | | `-- Extracting indexinfo-0.3.1: .... done | | `-- Extracting gettext-runtime-0.19.8.1_1: .......... done | | `-- Installing glib-2.50.3_4,1... | | `-- Installing libffi-3.2.1_2... | | `-- Extracting libffi-3.2.1_2: .......... done | | `-- Installing libiconv-1.14_11... | | `-- Extracting libiconv-1.14_11: .......... done | | `-- Installing pcre-8.42... | | `-- Extracting pcre-8.42: .......... done | | `-- Installing python27-2.7.15... | | | `-- Installing readline-7.0.3_1... | | | `-- Extracting readline-7.0.3_1: .......... done | | `-- Extracting python27-2.7.15: .......... done | | `-- Extracting glib-2.50.3_4,1: .......... done No schema files found: doing nothing. | | `-- Installing glproto-1.4.17... | | `-- Extracting glproto-1.4.17: ......... done | | `-- Installing libX11-1.6.5,1... | | `-- Installing kbproto-1.0.7... | | `-- Extracting kbproto-1.0.7: .......... done | | `-- Installing libXau-1.0.8_3... | | | `-- Installing xproto-7.0.31... | | | `-- Extracting xproto-7.0.31: .......... done | | `-- Extracting libXau-1.0.8_3: .......... done | | `-- Installing libXdmcp-1.1.2... | | `-- Extracting libXdmcp-1.1.2: ......... done | | `-- Installing libxcb-1.13... | | | `-- Installing libpthread-stubs-0.4... | | | `-- Extracting libpthread-stubs-0.4: .... done | | | `-- Installing libxml2-2.9.7... | | | `-- Extracting libxml2-2.9.7: .......... done | | `-- Extracting libxcb-1.13: .......... done | | `-- Extracting libX11-1.6.5,1: .......... 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 libXrender-0.9.10... | | `-- Installing renderproto-0.11.1... | | `-- Extracting renderproto-0.11.1: ....... done | | `-- Extracting libXrender-0.9.10: .......... done | | `-- Installing mesa-libs-18.1.2... | | `-- Installing libXdamage-1.1.4_3... | | | `-- Installing damageproto-1.2.1... | | | `-- Extracting damageproto-1.2.1: ....... done | | | `-- Installing libXfixes-5.0.3... | | | `-- Installing fixesproto-5.0... | | | `-- Extracting fixesproto-5.0: ....... done | | | `-- Extracting libXfixes-5.0.3: .......... done | | `-- Extracting libXdamage-1.1.4_3: ......... 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 | | `-- Installing libdrm-2.4.92,1... | | | `-- Installing libpciaccess-0.13.5... | | | `-- Installing pciids-20180428... | | | `-- Extracting pciids-20180428: ..... done | | | `-- Extracting libpciaccess-0.13.5: ......... done | | `-- Extracting libdrm-2.4.92,1: .......... done | | `-- Installing libelf-0.8.13_3... | | `-- Extracting libelf-0.8.13_3: .......... done | | `-- Installing libxshmfence-1.2_2... | | `-- Extracting libxshmfence-1.2_2: ......... done | | `-- Extracting mesa-libs-18.1.2: .......... done | | `-- Installing pixman-0.34.0... | | `-- Extracting pixman-0.34.0: .......... done | | `-- Installing xcb-util-renderutil-0.3.9_1... | | `-- Installing xcb-util-0.4.0_2,1... | | `-- Extracting xcb-util-0.4.0_2,1: .......... done | | `-- Extracting xcb-util-renderutil-0.3.9_1: ......... done | `-- Extracting cairo-1.14.8_1,2: .......... done | `-- Installing libICE-1.0.9_1,1... | `-- Extracting libICE-1.0.9_1,1: .......... done | `-- Installing libSM-1.2.2_3,1... | `-- Extracting libSM-1.2.2_3,1: .......... done | `-- Installing libXaw-1.0.13,2... | | `-- Installing libXmu-1.1.2_3,1... | | `-- Installing libXt-1.1.5,1... | | `-- Extracting libXt-1.1.5,1: .......... done | | `-- Extracting libXmu-1.1.2_3,1: .......... done | | `-- Installing libXp-1.0.3,1... | | `-- Installing printproto-1.0.5... | | `-- Extracting printproto-1.0.5: ....... done | | `-- Extracting libXp-1.0.3,1: .......... done | | `-- Installing libXpm-3.5.12... | | `-- Extracting libXpm-3.5.12: .......... done | `-- Extracting libXaw-1.0.13,2: .......... done | `-- Installing libltdl-2.4.6... | `-- Extracting libltdl-2.4.6: .......... done | `-- Installing pango-1.42.0... | | `-- Installing encodings-1.0.4_4,1... | | `-- Installing font-util-1.3.1... | | `-- Extracting font-util-1.3.1: .......... done | | `-- Extracting encodings-1.0.4_4,1: .......... done | | `-- Installing fribidi-0.19.7... | | `-- Extracting fribidi-0.19.7: .......... done | | `-- Installing harfbuzz-1.8.2... | | `-- Installing graphite2-1.3.11... | | `-- Extracting graphite2-1.3.11: .......... done | | `-- Extracting harfbuzz-1.8.2: .......... done | | `-- Installing libXft-2.3.2_1... | | `-- Extracting libXft-2.3.2_1: .......... done | | `-- Installing xorg-fonts-truetype-7.7_1... | | `-- Installing dejavu-2.37... | | | `-- Installing mkfontdir-1.0.7... | | | `-- Installing mkfontscale-1.1.3... | | | | `-- Installing libfontenc-1.1.3_1... | | | | `-- Extracting libfontenc-1.1.3_1: ......... done | | | `-- Extracting mkfontscale-1.1.3: ..... done | | | `-- Extracting mkfontdir-1.0.7: ..... done | | `-- Extracting dejavu-2.37: .......... 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 font-misc-meltho-1.0.3_3... | | `-- Extracting font-misc-meltho-1.0.3_3: .......... done | `-- Extracting pango-1.42.0: .......... done `-- Extracting graphviz-2.40.1_5: .......... done `-- Installing p5-IPC-Run-0.99... | `-- Installing p5-IO-Tty-1.12_2... | `-- Extracting p5-IO-Tty-1.12_2: .......... done `-- Extracting p5-IPC-Run-0.99: .......... done `-- Installing p5-Parse-RecDescent-1.967.009_2... `-- Extracting p5-Parse-RecDescent-1.967.009_2: .......... done `-- Installing p5-XML-Twig-3.52... | `-- Installing p5-HTML-Tree-5.07... | | `-- Installing p5-libwww-6.33... | | `-- 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 | | `-- Installing p5-Encode-Locale-1.05... | | `-- Extracting p5-Encode-Locale-1.05: ....... done | | `-- Installing p5-File-Listing-6.04_1... | | | `-- Installing p5-HTTP-Date-6.02_1... | | | `-- Extracting p5-HTTP-Date-6.02_1: ....... done | | `-- Extracting p5-File-Listing-6.04_1: ....... done | | `-- Installing p5-HTTP-Cookies-6.04... | | | `-- Installing p5-HTTP-Message-6.18... | | | `-- Installing p5-IO-HTML-1.001_1... | | | `-- Extracting p5-IO-HTML-1.001_1: ....... done | | | `-- Installing p5-LWP-MediaTypes-6.02_1... | | | `-- Extracting p5-LWP-MediaTypes-6.02_1: ........ done | | | `-- Installing p5-URI-1.74... | | | `-- Extracting p5-URI-1.74: .......... done | | | `-- Extracting p5-HTTP-Message-6.18: .......... done | | `-- Extracting p5-HTTP-Cookies-6.04: .......... done | | `-- Installing p5-HTTP-Daemon-6.01_1... | | `-- 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-Net-HTTP-6.18... | | | `-- Installing p5-IO-Socket-SSL-2.056... | | | `-- Installing p5-Mozilla-CA-20180117... | | | `-- Extracting p5-Mozilla-CA-20180117: ........ done | | | `-- Installing p5-Net-SSLeay-1.85... | | | `-- Extracting p5-Net-SSLeay-1.85: .......... done | | | `-- Extracting p5-IO-Socket-SSL-2.056: .......... done | | `-- Extracting p5-Net-HTTP-6.18: .......... done | | `-- Installing p5-Try-Tiny-0.28... | | `-- Extracting p5-Try-Tiny-0.28: ...... done | | `-- Installing p5-WWW-RobotRules-6.02_1... | | `-- Extracting p5-WWW-RobotRules-6.02_1: ......... done | | `-- Extracting p5-libwww-6.33: .......... done | `-- Extracting p5-HTML-Tree-5.07: .......... done | `-- Installing p5-Text-Iconv-1.7_3... | `-- Extracting p5-Text-Iconv-1.7_3: ......... done | `-- Installing p5-Tie-IxHash-1.23_1... | `-- Extracting p5-Tie-IxHash-1.23_1: ....... done | `-- Installing p5-XML-Parser-2.44... | `-- Extracting p5-XML-Parser-2.44: .......... done | `-- Installing p5-XML-XPath-1.42... | `-- Extracting p5-XML-XPath-1.42: .......... done `-- Extracting p5-XML-Twig-3.52: .......... done Extracting p5-GraphViz-2.24: .......... done Message from python27-2.7.15: =========================================================================== 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-2.37: 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-1.007002 depends on package: p5-GraphViz>=0 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: p5-HTML-Parser>=3 - found ===> p5-BioPerl-1.007002 depends on package: p5-HTML-TableExtract>=0 - not found ===> Installing existing package /packages/All/p5-HTML-TableExtract-2.15.txz Installing p5-HTML-TableExtract-2.15... `-- Installing p5-HTML-Element-Extended-1.18_1... `-- Extracting p5-HTML-Element-Extended-1.18_1: ......... done Extracting p5-HTML-TableExtract-2.15: ....... done ===> p5-BioPerl-1.007002 depends on package: p5-HTML-TableExtract>=0 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: p5-HTTP-Message>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-IO-String>=0 - found ===> p5-BioPerl-1.007002 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-1.007002 depends on package: p5-IO-stringy>=0 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: p5-Inline-C>=0.67 - not found ===> Installing existing package /packages/All/p5-Inline-C-0.78.txz Installing p5-Inline-C-0.78... `-- Installing p5-Inline-0.80... `-- Extracting p5-Inline-0.80: .......... done `-- Installing p5-Pegex-0.64... | `-- Installing p5-JSON-XS-3.04... | | `-- Installing p5-Types-Serialiser-1.0_1... | | `-- Installing p5-common-sense-3.74... | | `-- Extracting p5-common-sense-3.74: ........ done | | `-- Extracting p5-Types-Serialiser-1.0_1: ......... done | `-- Extracting p5-JSON-XS-3.04: .......... done | `-- Installing p5-YAML-LibYAML-0.67... | `-- Extracting p5-YAML-LibYAML-0.67: .......... done `-- Extracting p5-Pegex-0.64: .......... done Extracting p5-Inline-C-0.78: .......... done ===> p5-BioPerl-1.007002 depends on package: p5-Inline-C>=0.67 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: p5-List-MoreUtils>=0 - not found ===> Installing existing package /packages/All/p5-List-MoreUtils-0.428.txz Installing p5-List-MoreUtils-0.428... `-- Installing p5-List-MoreUtils-XS-0.428... `-- Extracting p5-List-MoreUtils-XS-0.428: ....... done Extracting p5-List-MoreUtils-0.428: .......... done ===> p5-BioPerl-1.007002 depends on package: p5-List-MoreUtils>=0 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 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-1.007002 depends on package: p5-PostScript>=0 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: p5-SVG>=2.26 - not found ===> Installing existing package /packages/All/p5-SVG-2.84.txz Installing p5-SVG-2.84... Extracting p5-SVG-2.84: .......... done ===> p5-BioPerl-1.007002 depends on package: p5-SVG>=2.26 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: p5-SVG-Graph>=0.01 - not found ===> Installing existing package /packages/All/p5-SVG-Graph-0.04_1.txz Installing p5-SVG-Graph-0.04_1... `-- Installing p5-Math-Spline-0.02_1... | `-- Installing p5-Math-Derivative-1.01... | `-- Extracting p5-Math-Derivative-1.01: ....... done `-- Extracting p5-Math-Spline-0.02_1: ....... done `-- Installing p5-Statistics-Descriptive-3.0609_1... `-- Extracting p5-Statistics-Descriptive-3.0609_1: ......... done `-- Installing p5-Tree-DAG_Node-1.31... | `-- Installing p5-File-Slurp-Tiny-0.004... | `-- Extracting p5-File-Slurp-Tiny-0.004: ....... done `-- Extracting p5-Tree-DAG_Node-1.31: ....... done Extracting p5-SVG-Graph-0.04_1: .......... done ===> p5-BioPerl-1.007002 depends on package: p5-SVG-Graph>=0.01 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: p5-Set-Scalar>=0 - not found ===> Installing existing package /packages/All/p5-Set-Scalar-1.29.txz Installing p5-Set-Scalar-1.29... Extracting p5-Set-Scalar-1.29: .......... done ===> p5-BioPerl-1.007002 depends on package: p5-Set-Scalar>=0 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: p5-Sort-Naturally>=0 - 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-1.007002 depends on package: p5-Sort-Naturally>=0 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 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-Crypt-RC4-2.02_1... `-- Extracting p5-Crypt-RC4-2.02_1: ... done `-- Installing p5-Digest-Perl-MD5-1.9_1... `-- Extracting p5-Digest-Perl-MD5-1.9_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-1.007002 depends on package: p5-Spreadsheet-ParseExcel>=0 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 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-XML-RegExp-0.04_1... `-- Extracting p5-XML-RegExp-0.04_1: ....... done `-- Installing p5-libxml-0.08_1... `-- Extracting p5-libxml-0.08_1: .......... done Extracting p5-XML-DOM-1.44_1: .......... done ===> p5-BioPerl-1.007002 depends on package: p5-XML-DOM>=0 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 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-1.007002 depends on package: p5-XML-DOM-XPath>=0 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: p5-XML-LibXML>=0 - not found ===> Installing existing package /packages/All/p5-XML-LibXML-2.0132,1.txz Installing p5-XML-LibXML-2.0132,1... `-- Installing p5-XML-NamespaceSupport-1.12... `-- Extracting p5-XML-NamespaceSupport-1.12: ....... done `-- Installing p5-XML-SAX-1.00... | `-- Installing p5-XML-SAX-Base-1.09... | `-- Extracting p5-XML-SAX-Base-1.09: .......... done `-- Extracting p5-XML-SAX-1.00: .......... done could not find ParserDetails.ini in /usr/local/lib/perl5/site_perl/XML/SAX Extracting p5-XML-LibXML-2.0132,1: .......... done ===> p5-BioPerl-1.007002 depends on package: p5-XML-LibXML>=0 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: p5-XML-Parser>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-XML-SAX>=0.15 - found ===> p5-BioPerl-1.007002 depends on package: p5-XML-SAX-Writer>=0 - not found ===> Installing existing package /packages/All/p5-XML-SAX-Writer-0.57.txz Installing p5-XML-SAX-Writer-0.57... `-- Installing p5-XML-Filter-BufferText-1.01_1... `-- Extracting p5-XML-Filter-BufferText-1.01_1: ....... done Extracting p5-XML-SAX-Writer-0.57: ......... done ===> p5-BioPerl-1.007002 depends on package: p5-XML-SAX-Writer>=0 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: p5-XML-Simple>=0 - not found ===> Installing existing package /packages/All/p5-XML-Simple-2.25.txz Installing p5-XML-Simple-2.25... `-- Installing p5-XML-SAX-Expat-0.51_1... `-- Extracting p5-XML-SAX-Expat-0.51_1: ....... done Extracting p5-XML-Simple-2.25: ......... done ===> p5-BioPerl-1.007002 depends on package: p5-XML-Simple>=0 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: p5-XML-Twig>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-XML-Writer>=0.400 - 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-1.007002 depends on package: p5-XML-Writer>=0.400 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: p5-YAML>=0 - not found ===> Installing existing package /packages/All/p5-YAML-1.24.txz Installing p5-YAML-1.24... Extracting p5-YAML-1.24: .......... done ===> p5-BioPerl-1.007002 depends on package: p5-YAML>=0 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: p5-libwww>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-libxml>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-Module-Build>=0.4206 - not found ===> Installing existing package /packages/All/p5-Module-Build-0.4224.txz Installing p5-Module-Build-0.4224... Extracting p5-Module-Build-0.4224: .......... done ===> p5-BioPerl-1.007002 depends on package: p5-Module-Build>=0.4206 - found ===> Returning to build of p5-BioPerl-1.007002 ===> p5-BioPerl-1.007002 depends on package: perl5>=5.26<5.27 - found -------------------------------------------------------------------------------- -- Phase: lib-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: configure -------------------------------------------------------------------------------- ===> Configuring for p5-BioPerl-1.007002 Checking prerequisites... build_requires: ! Test::Most is not installed 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 '1.007002' -------------------------------------------------------------------------------- -- Phase: build -------------------------------------------------------------------------------- ===> Building for p5-BioPerl-1.007002 Building BioPerl -------------------------------------------------------------------------------- -- Phase: run-depends -------------------------------------------------------------------------------- ===> p5-BioPerl-1.007002 depends on package: p5-Algorithm-Munkres>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-Array-Compare>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-CGI>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-Clone>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-Convert-Binary-C>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-DBD-mysql>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-DBI>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-Data-Stag>=0.11 - found ===> p5-BioPerl-1.007002 depends on package: p5-Error>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-GD>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-Graph>=0.50 - found ===> p5-BioPerl-1.007002 depends on package: p5-GraphViz>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-HTML-Parser>=3 - found ===> p5-BioPerl-1.007002 depends on package: p5-HTML-TableExtract>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-HTTP-Message>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-IO-String>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-IO-stringy>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-Inline-C>=0.67 - found ===> p5-BioPerl-1.007002 depends on package: p5-List-MoreUtils>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-PostScript>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-SVG>=2.26 - found ===> p5-BioPerl-1.007002 depends on package: p5-SVG-Graph>=0.01 - found ===> p5-BioPerl-1.007002 depends on package: p5-Set-Scalar>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-Sort-Naturally>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-Spreadsheet-ParseExcel>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-XML-DOM>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-XML-DOM-XPath>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-XML-LibXML>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-XML-Parser>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-XML-SAX>=0.15 - found ===> p5-BioPerl-1.007002 depends on package: p5-XML-SAX-Writer>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-XML-Simple>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-XML-Twig>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-XML-Writer>=0.400 - found ===> p5-BioPerl-1.007002 depends on package: p5-YAML>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-libwww>=0 - found ===> p5-BioPerl-1.007002 depends on package: p5-libxml>=0 - found ===> p5-BioPerl-1.007002 depends on package: perl5>=5.26<5.27 - found -------------------------------------------------------------------------------- -- Phase: stage -------------------------------------------------------------------------------- ===> Staging for p5-BioPerl-1.007002 ===> Generating temporary packing list Building BioPerl Reading skip patterns from 'INSTALL.SKIP'. Installing /construction/biology/p5-BioPerl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_nexus2nh.pl.1 Installing /construction/biology/p5-BioPerl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_split_seq.pl.1 Installing /construction/biology/p5-BioPerl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_search2gff.pl.1 Installing /construction/biology/p5-BioPerl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_composite_LD.pl.1 Installing /construction/biology/p5-BioPerl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_seqret.pl.1 Installing /construction/biology/p5-BioPerl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_filter_search.pl.1 Installing /construction/biology/p5-BioPerl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_search2tribe.pl.1 Installing /construction/biology/p5-BioPerl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_remote_blast.pl.1 Installing /construction/biology/p5-BioPerl/stage/usr/local/lib/perl5/site_perl/man/man1/bp_download_query_genbank.pl.1 Installing 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/construction/biology/p5-BioPerl/stage/usr/local/bin/bp_tree2pag.pl Installing /construction/biology/p5-BioPerl/stage/usr/local/bin/bp_mask_by_search.pl Installing /construction/biology/p5-BioPerl/stage/usr/local/bin/bp_composite_LD.pl Installing /construction/biology/p5-BioPerl/stage/usr/local/bin/bp_chaos_plot.pl Installing /construction/biology/p5-BioPerl/stage/usr/local/bin/bp_unflatten_seq.pl Installing /construction/biology/p5-BioPerl/stage/usr/local/bin/bp_nexus2nh.pl Installing /construction/biology/p5-BioPerl/stage/usr/local/bin/bp_fastam9_to_table.pl Installing /construction/biology/p5-BioPerl/stage/usr/local/bin/bp_local_taxonomydb_query.pl Installing /construction/biology/p5-BioPerl/stage/usr/local/bin/bp_seqfeature_gff3.pl Writing /construction/biology/p5-BioPerl/stage/usr/local/lib/perl5/site_perl/mach/5.26/auto/Bio/.packlist /bin/cp -R /construction/biology/p5-BioPerl/BioPerl-1.007002/scripts /construction/biology/p5-BioPerl/BioPerl-1.007002/models /construction/biology/p5-BioPerl/stage/usr/local/share/BioPerl install -m 0644 /construction/biology/p5-BioPerl/BioPerl-1.007002/AUTHORS /construction/biology/p5-BioPerl/stage/usr/local/share/doc/BioPerl install -m 0644 /construction/biology/p5-BioPerl/BioPerl-1.007002/BUGS /construction/biology/p5-BioPerl/stage/usr/local/share/doc/BioPerl install -m 0644 /construction/biology/p5-BioPerl/BioPerl-1.007002/Changes /construction/biology/p5-BioPerl/stage/usr/local/share/doc/BioPerl install -m 0644 /construction/biology/p5-BioPerl/BioPerl-1.007002/DEPENDENCIES /construction/biology/p5-BioPerl/stage/usr/local/share/doc/BioPerl install -m 0644 /construction/biology/p5-BioPerl/BioPerl-1.007002/DEPRECATED /construction/biology/p5-BioPerl/stage/usr/local/share/doc/BioPerl install -m 0644 /construction/biology/p5-BioPerl/BioPerl-1.007002/INSTALL.md /construction/biology/p5-BioPerl/stage/usr/local/share/doc/BioPerl install -m 0644 /construction/biology/p5-BioPerl/BioPerl-1.007002/MANIFEST /construction/biology/p5-BioPerl/stage/usr/local/share/doc/BioPerl install -m 0644 /construction/biology/p5-BioPerl/BioPerl-1.007002/README.md /construction/biology/p5-BioPerl/stage/usr/local/share/doc/BioPerl /bin/cp -R /construction/biology/p5-BioPerl/BioPerl-1.007002/deobfuscator /construction/biology/p5-BioPerl/stage/usr/local/share/doc/BioPerl /bin/cp -R /construction/biology/p5-BioPerl/BioPerl-1.007002/examples/* /construction/biology/p5-BioPerl/stage/usr/local/share/examples/BioPerl ====> Compressing man pages (compress-man) -------------------------------------------------------------------------------- -- Phase: package -------------------------------------------------------------------------------- ===> Building package for p5-BioPerl-1.007002 file sizes/checksums [1882]: .......... done packing files [1882]: .......... done packing directories [0]: . done -------------------------------------------------- -- Termination -------------------------------------------------- Finished: Thursday, 30 AUG 2018 at 07:55:57 UTC Duration: 00:01:45