=> Building biology/p5-Bio-Phylo Started : Wednesday, 18 APR 2018 at 02:13:27 UTC Platform: 5.3-DEVELOPMENT DragonFly v5.3.0.81.g32506c-DEVELOPMENT #29: Tue Apr 10 08:49:52 PDT 2018 marino@pkgbox64.dragonflybsd.org:/usr/obj/usr/src/sys/X86_64_GENERIC x86_64 -------------------------------------------------- -- Environment -------------------------------------------------- UNAME_r=5.0-SYNTH UNAME_m=x86_64 UNAME_p=x86_64 UNAME_v=DragonFly 5.0-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 -------------------------------------------------- -------------------------------------------------- -- 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-Bio-Phylo XDG_CONFIG_HOME=/construction/biology/p5-Bio-Phylo HOME=/construction/biology/p5-Bio-Phylo TMPDIR="/tmp" PATH=/construction/biology/p5-Bio-Phylo/.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 -------------------------------------------------- INSTALLDIRS="site" 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-Bio-Phylo XDG_CONFIG_HOME=/construction/biology/p5-Bio-Phylo HOME=/construction/biology/p5-Bio-Phylo TMPDIR="/tmp" PATH=/construction/biology/p5-Bio-Phylo/.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 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 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-Bio-Phylo/stage -------------------------------------------------- -- PLIST_SUB -------------------------------------------------- PORTDOCS="" PORTEXAMPLES="" OSREL=5.0 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib PERL_VERSION=5.26.1 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/Bio-Phylo" EXAMPLESDIR="share/examples/Bio-Phylo" DATADIR="share/Bio-Phylo" WWWDIR="www/Bio-Phylo" ETCDIR="etc/Bio-Phylo" -------------------------------------------------- -- SUB_LIST -------------------------------------------------- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/Bio-Phylo DOCSDIR=/usr/local/share/doc/Bio-Phylo EXAMPLESDIR=/usr/local/share/examples/Bio-Phylo WWWDIR=/usr/local/www/Bio-Phylo ETCDIR=/usr/local/etc/Bio-Phylo -------------------------------------------------- -- /etc/make.conf -------------------------------------------------- SYNTHPROFILE=Release-5.0 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=5 LICENSES_ACCEPTED= NONE HAVE_COMPAT_IA32_KERN= CONFIGURE_MAX_CMD_LEN=262144 _SMP_CPUS=8 UID=0 ARCH=x86_64 OPSYS=DragonFly DFLYVERSION=500000 OSVERSION=9999999 OSREL=5.0 _OSRELEASE=5.0-SYNTH -------------------------------------------------------------------------------- -- Phase: check-sanity -------------------------------------------------------------------------------- ===> License ART10 GPLv1+ accepted by the user -------------------------------------------------------------------------------- -- Phase: pkg-depends -------------------------------------------------------------------------------- ===> p5-Bio-Phylo-2.0.1 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.10.5.txz Installing pkg-1.10.5... Extracting pkg-1.10.5: .......... done ===> p5-Bio-Phylo-2.0.1 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of p5-Bio-Phylo-2.0.1 -------------------------------------------------------------------------------- -- Phase: fetch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: fetch -------------------------------------------------------------------------------- ===> License ART10 GPLv1+ accepted by the user ===> Fetching all distfiles required by p5-Bio-Phylo-2.0.1 for building -------------------------------------------------------------------------------- -- Phase: checksum -------------------------------------------------------------------------------- ===> License ART10 GPLv1+ accepted by the user ===> Fetching all distfiles required by p5-Bio-Phylo-2.0.1 for building => SHA256 Checksum OK for Bio-Phylo-v2.0.1.tar.gz. -------------------------------------------------------------------------------- -- Phase: extract-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: extract -------------------------------------------------------------------------------- ===> License ART10 GPLv1+ accepted by the user ===> Fetching all distfiles required by p5-Bio-Phylo-2.0.1 for building ===> Extracting for p5-Bio-Phylo-2.0.1 => SHA256 Checksum OK for Bio-Phylo-v2.0.1.tar.gz. -------------------------------------------------------------------------------- -- Phase: patch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: patch -------------------------------------------------------------------------------- ===> Patching for p5-Bio-Phylo-2.0.1 -------------------------------------------------------------------------------- -- Phase: build-depends -------------------------------------------------------------------------------- ===> p5-Bio-Phylo-2.0.1 depends on package: p5-Archive-Zip>=0 - not found ===> Installing existing package /packages/All/p5-Archive-Zip-1.60.txz Installing p5-Archive-Zip-1.60... `-- Installing perl5-5.26.1... `-- Extracting perl5-5.26.1: .......... done Extracting p5-Archive-Zip-1.60: .......... done Message from perl5-5.26.1: 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-Bio-Phylo-2.0.1 depends on package: p5-Archive-Zip>=0 - found ===> Returning to build of p5-Bio-Phylo-2.0.1 ===> p5-Bio-Phylo-2.0.1 depends on package: p5-BioPerl>=0 - not found ===> Installing existing package /packages/All/p5-BioPerl-1.007002.txz Installing p5-BioPerl-1.007002... `-- Installing p5-Algorithm-Munkres-0.08_1... `-- Extracting p5-Algorithm-Munkres-0.08_1: ... done `-- 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... | | | | `-- 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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 | | `-- 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......... 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 `-- 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 `-- Installing p5-IO-stringy-2.111... `-- Extracting p5-IO-stringy-2.111: .......... done `-- 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 `-- 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 `-- Installing p5-PostScript-0.06_2... `-- Extracting p5-PostScript-0.06_2: ......... done `-- Installing p5-SVG-2.84... `-- Extracting p5-SVG-2.84: .......... done `-- 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 `-- Installing p5-Set-Scalar-1.29... `-- Extracting p5-Set-Scalar-1.29: .......... done `-- Installing p5-Sort-Naturally-1.03_1... `-- Extracting p5-Sort-Naturally-1.03_1: ....... done `-- 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 `-- 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 `-- 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 `-- 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 `-- 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 `-- 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 `-- Installing p5-XML-Writer-0.625_1... `-- Extracting p5-XML-Writer-0.625_1: ... done `-- Installing p5-YAML-1.24... `-- Extracting p5-YAML-1.24: .......... done Extracting p5-BioPerl-1.007002: .......... done Message from mysql56-client-5.6.39_1: * * * * * * * * * * * * * * * * * * * * * * * * 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. * * * * * * * * * * * * * * * * * * * * * * * * 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). Message from python27-2.7.14_1: =========================================================================== 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-Bio-Phylo-2.0.1 depends on package: p5-BioPerl>=0 - found ===> Returning to build of p5-Bio-Phylo-2.0.1 ===> p5-Bio-Phylo-2.0.1 depends on package: p5-GD>=0 - found ===> p5-Bio-Phylo-2.0.1 depends on package: p5-Math-CDF>=0 - not found ===> Installing existing package /packages/All/p5-Math-CDF-0.1_2.txz Installing p5-Math-CDF-0.1_2... Extracting p5-Math-CDF-0.1_2: ..... done ===> p5-Bio-Phylo-2.0.1 depends on package: p5-Math-CDF>=0 - found ===> Returning to build of p5-Bio-Phylo-2.0.1 ===> p5-Bio-Phylo-2.0.1 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-Bio-Phylo-2.0.1 depends on package: p5-Math-Random>=0 - found ===> Returning to build of p5-Bio-Phylo-2.0.1 ===> p5-Bio-Phylo-2.0.1 depends on package: p5-PDF-API2>=0 - not found ===> Installing existing package /packages/All/p5-PDF-API2-2.033.txz Installing p5-PDF-API2-2.033... `-- Installing p5-Font-TTF-1.06... `-- Extracting p5-Font-TTF-1.06: .......... done Extracting p5-PDF-API2-2.033: .......... done ===> p5-Bio-Phylo-2.0.1 depends on package: p5-PDF-API2>=0 - found ===> Returning to build of p5-Bio-Phylo-2.0.1 ===> p5-Bio-Phylo-2.0.1 depends on package: p5-RDF-Query>=0 - not found ===> Installing existing package /packages/All/p5-RDF-Query-2.918.txz Installing p5-RDF-Query-2.918... `-- Installing p5-Data-UUID-1.221... `-- Extracting p5-Data-UUID-1.221: ....... done `-- Installing p5-DateTime-Format-W3CDTF-0.07... | `-- Installing p5-DateTime-1.48... | | `-- Installing p5-DateTime-Locale-1.18... | | `-- Installing p5-Dist-CheckConflicts-0.11_1... | | `-- Extracting p5-Dist-CheckConflicts-0.11_1: ....... done | | `-- Installing p5-File-ShareDir-1.104... | | | `-- Installing p5-Class-Inspector-1.32... | | | `-- Extracting p5-Class-Inspector-1.32: ......... done | | `-- Extracting p5-File-ShareDir-1.104: .......... done | | `-- Installing p5-Params-ValidationCompiler-0.27... | | | `-- Installing p5-Eval-Closure-0.14... | | | `-- Extracting p5-Eval-Closure-0.14: ....... done | | | `-- Installing p5-Exception-Class-1.44... | | | `-- Installing p5-Class-Data-Inheritable-0.08_1... | | | `-- Extracting p5-Class-Data-Inheritable-0.08_1: ....... done | | | `-- Extracting p5-Exception-Class-1.44: ......... done | | | `-- Installing p5-Specio-0.42... | | | `-- Installing p5-MRO-Compat-0.13... | | | | `-- Installing p5-Class-C3-0.33... | | | | `-- Installing p5-Algorithm-C3-0.10_1... | | | | `-- Extracting p5-Algorithm-C3-0.10_1: ....... done | | | | `-- Extracting p5-Class-C3-0.33: ......... done | | | `-- Extracting p5-MRO-Compat-0.13: ....... done | | | `-- Extracting p5-Specio-0.42: .......... done | | `-- Extracting p5-Params-ValidationCompiler-0.27: .......... done | | `-- Installing p5-namespace-autoclean-0.28... | | | `-- Installing p5-B-Hooks-EndOfScope-0.21... | | | `-- Installing p5-Module-Implementation-0.09_1... | | | `-- Extracting p5-Module-Implementation-0.09_1: ...... done | | | `-- Installing p5-Variable-Magic-0.62... | | | `-- Extracting p5-Variable-Magic-0.62: ........ done | | | `-- Extracting p5-B-Hooks-EndOfScope-0.21: .......... done | | | `-- Installing p5-Sub-Identify-0.14... | | | `-- Extracting p5-Sub-Identify-0.14: ........ done | | | `-- Installing p5-namespace-clean-0.27... | | | `-- Installing p5-Package-Stash-0.37_1... | | | | `-- Installing p5-Package-Stash-XS-0.28_2... | | | | `-- Extracting p5-Package-Stash-XS-0.28_2: ........ done | | | `-- Extracting p5-Package-Stash-0.37_1: .......... done | | | `-- Extracting p5-namespace-clean-0.27: ........ done | | `-- Extracting p5-namespace-autoclean-0.28: ....... done | | `-- Extracting p5-DateTime-Locale-1.18: .......... done | | `-- Installing p5-DateTime-TimeZone-2.13,1... | | `-- Installing p5-Class-Singleton-1.5_1... | | `-- Extracting p5-Class-Singleton-1.5_1: ....... done | | `-- Extracting p5-DateTime-TimeZone-2.13,1: .......... done | | `-- Installing p5-Params-Validate-1.29... | | `-- Extracting p5-Params-Validate-1.29: .......... done | `-- Extracting p5-DateTime-1.48: .......... done `-- Extracting p5-DateTime-Format-W3CDTF-0.07: ... done `-- Installing p5-JSON-2.97.001... `-- Extracting p5-JSON-2.97.001: .......... done `-- Installing p5-Module-Pluggable-5.2... `-- Extracting p5-Module-Pluggable-5.2: .......... done `-- Installing p5-RDF-Trine-1.015_2... | `-- Installing p5-Algorithm-Combinatorics-0.27_1... | `-- Extracting p5-Algorithm-Combinatorics-0.27_1: ........ done | `-- Installing p5-Cache-LRU-0.04_1... | `-- Extracting p5-Cache-LRU-0.04_1: ....... done | `-- Installing p5-DBD-SQLite-1.58... | `-- Extracting p5-DBD-SQLite-1.58: .......... done | `-- Installing p5-DBIx-Connector-0.56... | `-- Extracting p5-DBIx-Connector-0.56: .......... done | `-- Installing p5-Log-Log4perl-1.49... | `-- Extracting p5-Log-Log4perl-1.49: .......... done | `-- Installing p5-Moose-2.2010,1... | | `-- Installing p5-Class-Load-0.24... | | `-- Extracting p5-Class-Load-0.24: ........ done | | `-- Installing p5-Class-Load-XS-0.10... | | `-- Extracting p5-Class-Load-XS-0.10: ....... done | | `-- Installing p5-Devel-OverloadInfo-0.005... | | `-- Extracting p5-Devel-OverloadInfo-0.005: ....... done | | `-- Installing p5-Module-Runtime-Conflicts-0.003_1... | | `-- Extracting p5-Module-Runtime-Conflicts-0.003_1: ....... done | | `-- Installing p5-Package-DeprecationManager-0.17_1... | | `-- Installing p5-Sub-Name-0.21,1... | | `-- Extracting p5-Sub-Name-0.21,1: ........ done | | `-- Extracting p5-Package-DeprecationManager-0.17_1: ...... done | | `-- Installing p5-Scalar-List-Utils-1.50,1... | | `-- Extracting p5-Scalar-List-Utils-1.50,1: .......... done | `-- Extracting p5-Moose-2.2010,1: .......... done | `-- Installing p5-MooseX-ArrayRef-0.005... | `-- Extracting p5-MooseX-ArrayRef-0.005: ......... done | `-- Installing p5-Text-CSV-1.95... | `-- Extracting p5-Text-CSV-1.95: ......... done | `-- Installing p5-Text-Table-1.133... | | `-- Installing p5-Text-Aligner-0.13... | | `-- Installing p5-Term-ANSIColor-4.06... | | `-- Extracting p5-Term-ANSIColor-4.06: ........ done | | `-- Extracting p5-Text-Aligner-0.13: ...... done | `-- Extracting p5-Text-Table-1.133: ...... done | `-- Installing p5-Unicode-Escape-0.0.2_1... | | `-- Installing p5-Unicode-String-2.10... | | `-- Extracting p5-Unicode-String-2.10: .......... done | `-- Extracting p5-Unicode-Escape-0.0.2_1: ....... done | `-- Installing p5-XML-CommonNS-0.06_2... | | `-- Installing p5-XML-NamespaceFactory-1.02... | | `-- Extracting p5-XML-NamespaceFactory-1.02: ....... done | `-- Extracting p5-XML-CommonNS-0.06_2: ....... done | `-- Installing p5-XML-Namespace-0.02_1... | `-- Extracting p5-XML-Namespace-0.02_1: ....... done `-- Extracting p5-RDF-Trine-1.015_2: .......... done Extracting p5-RDF-Query-2.918: .......... done Message from p5-Moose-2.2010,1: Note that this release of p5-Moose is incompatible with older versions of the following modules: Catalyst <= 5.80017 Devel::REPL <= 1.003008 Fey::ORM <= 0.23 File::ChangeNotify <= 0.15 KiokuDB <= 0.41 MooseX::Aliases <= 0.07 MooseX::AttributeHelpers <= 0.22 MooseX::AttributeInflate <= 0.02 MooseX::Attribute::Prototype <= 0.10 MooseX::ClassAttribute <= 0.13 MooseX::FollowPBP <= 0.02 MooseX::HasDefaults <= 0.02 MooseX::InstanceTracking <= 0.04 MooseX::LazyRequire <= 0.05 MooseX::MethodAttributes <= 0.22 MooseX::NonMoose <= 0.13 MooseX::Params::Validate <= 0.05 MooseX::Role::Cmd <= 0.06 MooseX::Role::WithOverloading <= 0.07 MooseX::SemiAffordanceAccessor <= 0.05 MooseX::Singleton <= 0.22 MooseX::StrictConstructor <= 0.08 MooseX::Types <= 0.19 MooseX::UndefTolerant <= 0.04 namespace::autoclean <= 0.08 Pod::Elemental <= 0.093280 They will need to be updated. ===> p5-Bio-Phylo-2.0.1 depends on package: p5-RDF-Query>=0 - found ===> Returning to build of p5-Bio-Phylo-2.0.1 ===> p5-Bio-Phylo-2.0.1 depends on package: p5-RDF-Trine>=0 - found ===> p5-Bio-Phylo-2.0.1 depends on package: p5-SVG>=0 - found ===> p5-Bio-Phylo-2.0.1 depends on package: p5-SWF-Builder>=0 - not found ===> Installing existing package /packages/All/p5-SWF-Builder-0.16_2.txz Installing p5-SWF-Builder-0.16_2... `-- Installing p5-Math-Bezier-Convert-0.02_1... `-- Extracting p5-Math-Bezier-Convert-0.02_1: ... done `-- Installing p5-SWF-File-0.42_2,1... | `-- Installing p5-Data-TemporaryBag-0.09_1... | `-- Extracting p5-Data-TemporaryBag-0.09_1: ... done `-- Extracting p5-SWF-File-0.42_2,1: .......... done Extracting p5-SWF-Builder-0.16_2: .......... done ===> p5-Bio-Phylo-2.0.1 depends on package: p5-SWF-Builder>=0 - found ===> Returning to build of p5-Bio-Phylo-2.0.1 ===> p5-Bio-Phylo-2.0.1 depends on package: p5-XML-LibXML>=0 - found ===> p5-Bio-Phylo-2.0.1 depends on package: p5-XML-Twig>=0 - found ===> p5-Bio-Phylo-2.0.1 depends on package: p5-XML-XML2JSON>=0 - not found ===> Installing existing package /packages/All/p5-XML-XML2JSON-0.06_1.txz Installing p5-XML-XML2JSON-0.06_1... `-- Installing p5-YAML-Syck-1.27_1... `-- Extracting p5-YAML-Syck-1.27_1: ........ done Extracting p5-XML-XML2JSON-0.06_1: ....... done ===> p5-Bio-Phylo-2.0.1 depends on package: p5-XML-XML2JSON>=0 - found ===> Returning to build of p5-Bio-Phylo-2.0.1 ===> p5-Bio-Phylo-2.0.1 depends on package: p5-libxml>=0 - found ===> p5-Bio-Phylo-2.0.1 depends on package: perl5>=5.26<5.27 - found -------------------------------------------------------------------------------- -- Phase: lib-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: configure -------------------------------------------------------------------------------- ===> Configuring for p5-Bio-Phylo-2.0.1 *** The optional dependency "RDF::Trine" can't be loaded. I will continue, but some functionality will not be available. Refer to the Bio::Phylo README file for more information. *** The optional dependency "RDF::Query" can't be loaded. I will continue, but some functionality will not be available. Refer to the Bio::Phylo README file for more information. Checking if your kit is complete... Looks good Generating a Unix-style Makefile Writing Makefile for Bio::Phylo Writing MYMETA.yml and MYMETA.json -------------------------------------------------------------------------------- -- Phase: build -------------------------------------------------------------------------------- ===> Building for p5-Bio-Phylo-2.0.1 --- blib/lib/Bio/.exists --- --- blib/arch/.exists --- --- blib/lib/auto/Bio/Phylo/.exists --- --- blib/arch/auto/Bio/Phylo/.exists --- --- blib/bin/.exists --- --- blib/script/.exists --- --- blib/man1/.exists --- --- blib/man3/.exists --- --- config --- --- subdirs --- --- dynamic --- --- pm_to_blib --- --- blibdirs --- --- config --- --- dynamic --- --- linkext --- --- pm_to_blib --- cp lib/Bio/Phylo/NeXML/Meta.pm blib/lib/Bio/Phylo/NeXML/Meta.pm cp lib/Bio/Phylo/Generator.pm blib/lib/Bio/Phylo/Generator.pm cp lib/Bio/Phylo/Parsers/Abstract.pm blib/lib/Bio/Phylo/Parsers/Abstract.pm cp lib/Bio/Phylo/Taxa.pm blib/lib/Bio/Phylo/Taxa.pm cp lib/Bio/Phylo/Forest/NodeRole.pm blib/lib/Bio/Phylo/Forest/NodeRole.pm cp lib/Bio/Phylo/Models/Substitution/Dna.pm blib/lib/Bio/Phylo/Models/Substitution/Dna.pm cp lib/Bio/Phylo/ListableRole.pm blib/lib/Bio/Phylo/ListableRole.pm cp lib/Bio/Phylo/Matrices/DatumRole.pm blib/lib/Bio/Phylo/Matrices/DatumRole.pm cp lib/Bio/Phylo/Matrices/Matrix.pm blib/lib/Bio/Phylo/Matrices/Matrix.pm cp lib/Bio/Phylo/PhyloWS/Service/Tolweb.pm blib/lib/Bio/Phylo/PhyloWS/Service/Tolweb.pm cp lib/Bio/Phylo/NeXML/Meta/XMLLiteral.pm blib/lib/Bio/Phylo/NeXML/Meta/XMLLiteral.pm cp lib/Bio/Phylo/Unparsers/Nexml.pm blib/lib/Bio/Phylo/Unparsers/Nexml.pm cp lib/Bio/Phylo/Parsers/Json.pm blib/lib/Bio/Phylo/Parsers/Json.pm cp lib/Bio/Phylo/Util/StackTrace.pm blib/lib/Bio/Phylo/Util/StackTrace.pm cp lib/Bio/Phylo/Unparsers/Html.pm blib/lib/Bio/Phylo/Unparsers/Html.pm cp lib/Bio/Phylo/Treedrawer/Gif.pm blib/lib/Bio/Phylo/Treedrawer/Gif.pm cp lib/Bio/Phylo/Unparsers/Taxlist.pm blib/lib/Bio/Phylo/Unparsers/Taxlist.pm cp lib/Bio/Phylo/Unparsers/Newick.pm blib/lib/Bio/Phylo/Unparsers/Newick.pm cp lib/Bio/Phylo/Treedrawer/Png.pm blib/lib/Bio/Phylo/Treedrawer/Png.pm cp lib/Bio/Phylo/Parsers/Phylip.pm blib/lib/Bio/Phylo/Parsers/Phylip.pm cp lib/Bio/Phylo/PhyloWS/Resource/Description.pm blib/lib/Bio/Phylo/PhyloWS/Resource/Description.pm cp lib/Bio/Phylo/Parsers/Newick.pm blib/lib/Bio/Phylo/Parsers/Newick.pm cp lib/Bio/PhyloRole.pm blib/lib/Bio/PhyloRole.pm cp lib/Bio/Phylo/Unparsers/Abstract.pm blib/lib/Bio/Phylo/Unparsers/Abstract.pm cp lib/Bio/Phylo/Unparsers/Adjacency.pm blib/lib/Bio/Phylo/Unparsers/Adjacency.pm cp lib/Bio/Phylo/PhyloWS/Resource.pm blib/lib/Bio/Phylo/PhyloWS/Resource.pm cp lib/Bio/Phylo/Set.pm blib/lib/Bio/Phylo/Set.pm cp lib/Bio/Phylo/Parsers/Taxlist.pm blib/lib/Bio/Phylo/Parsers/Taxlist.pm cp lib/Bio/Phylo/Treedrawer/Swf.pm blib/lib/Bio/Phylo/Treedrawer/Swf.pm cp lib/Bio/Phylo/Forest/DrawTreeRole.pm blib/lib/Bio/Phylo/Forest/DrawTreeRole.pm cp lib/Bio/Phylo/Forest.pm blib/lib/Bio/Phylo/Forest.pm cp lib/Bio/Phylo/Models/Substitution/Dna/HKY85.pm blib/lib/Bio/Phylo/Models/Substitution/Dna/HKY85.pm cp lib/Bio/Phylo/Matrices/Datum.pm blib/lib/Bio/Phylo/Matrices/Datum.pm cp lib/Bio/Phylo/Treedrawer/Jpeg.pm blib/lib/Bio/Phylo/Treedrawer/Jpeg.pm cp lib/Bio/Phylo/Unparsers/Nexus.pm blib/lib/Bio/Phylo/Unparsers/Nexus.pm cp lib/Bio/Phylo/Models/Substitution/Dna/K80.pm blib/lib/Bio/Phylo/Models/Substitution/Dna/K80.pm cp lib/Bio/Phylo/Unparsers/Cdao.pm blib/lib/Bio/Phylo/Unparsers/Cdao.pm cp lib/Bio/Phylo.pm blib/lib/Bio/Phylo.pm cp lib/Bio/Phylo/Matrices/Datatype/Rna.pm blib/lib/Bio/Phylo/Matrices/Datatype/Rna.pm cp lib/Bio/Phylo/Parsers/Adjacency.pm blib/lib/Bio/Phylo/Parsers/Adjacency.pm cp lib/Bio/Phylo/NeXML/DOM/Document.pm blib/lib/Bio/Phylo/NeXML/DOM/Document.pm cp lib/Bio/Phylo/Forest/Node.pm blib/lib/Bio/Phylo/Forest/Node.pm cp lib/Bio/Phylo/NeXML/Writable.pm blib/lib/Bio/Phylo/NeXML/Writable.pm cp lib/Bio/Phylo/Treedrawer/Processing.pm blib/lib/Bio/Phylo/Treedrawer/Processing.pm cp lib/Bio/Phylo/PhyloWS/Service.pm blib/lib/Bio/Phylo/PhyloWS/Service.pm cp lib/Bio/Phylo/Parsers/Nexus.pm blib/lib/Bio/Phylo/Parsers/Nexus.pm cp lib/Bio/Phylo/Models/Substitution/Dna/F81.pm blib/lib/Bio/Phylo/Models/Substitution/Dna/F81.pm cp lib/Bio/Phylo/PhyloWS/Service/UbioClassificationBank.pm blib/lib/Bio/Phylo/PhyloWS/Service/UbioClassificationBank.pm cp lib/Bio/Phylo/Parsers/Ubiocbmeta.pm blib/lib/Bio/Phylo/Parsers/Ubiocbmeta.pm cp lib/Bio/Phylo/Parsers/Tnrs.pm blib/lib/Bio/Phylo/Parsers/Tnrs.pm cp lib/Bio/Phylo/Taxa/TaxaLinker.pm blib/lib/Bio/Phylo/Taxa/TaxaLinker.pm cp lib/Bio/Phylo/Unparsers/Phyloxml.pm blib/lib/Bio/Phylo/Unparsers/Phyloxml.pm cp lib/Bio/Phylo/Matrices/Datatype/Continuous.pm blib/lib/Bio/Phylo/Matrices/Datatype/Continuous.pm cp lib/Bio/Phylo/Listable.pm blib/lib/Bio/Phylo/Listable.pm cp lib/Bio/Phylo/NeXML/DOM/Document/Twig.pm blib/lib/Bio/Phylo/NeXML/DOM/Document/Twig.pm cp lib/Bio/Phylo/Unparsers/Nhx.pm blib/lib/Bio/Phylo/Unparsers/Nhx.pm cp lib/Bio/Phylo/Taxa/Taxon.pm blib/lib/Bio/Phylo/Taxa/Taxon.pm cp lib/Bio/Phylo/Parsers/Table.pm blib/lib/Bio/Phylo/Parsers/Table.pm cp lib/Bio/Phylo/EvolutionaryModels.pm blib/lib/Bio/Phylo/EvolutionaryModels.pm cp lib/Bio/Phylo/Parsers/Ubiosearch.pm blib/lib/Bio/Phylo/Parsers/Ubiosearch.pm cp lib/Bio/Phylo/Parsers/Tolweb.pm blib/lib/Bio/Phylo/Parsers/Tolweb.pm cp lib/Bio/Phylo/NeXML/DOM/Document/Libxml.pm blib/lib/Bio/Phylo/NeXML/DOM/Document/Libxml.pm cp lib/Bio/Phylo/Matrices.pm blib/lib/Bio/Phylo/Matrices.pm cp lib/Bio/Phylo/Unparsers/Rss1.pm blib/lib/Bio/Phylo/Unparsers/Rss1.pm cp lib/Bio/Phylo/Unparsers/Mrp.pm blib/lib/Bio/Phylo/Unparsers/Mrp.pm cp lib/Bio/Phylo/NeXML/DOM/Element/Twig.pm blib/lib/Bio/Phylo/NeXML/DOM/Element/Twig.pm cp lib/Bio/Phylo/Matrices/Datatype/Standard.pm blib/lib/Bio/Phylo/Matrices/Datatype/Standard.pm cp lib/Bio/Phylo/Matrices/Datatype/Protein.pm blib/lib/Bio/Phylo/Matrices/Datatype/Protein.pm cp lib/Bio/Phylo/Util/IDPool.pm blib/lib/Bio/Phylo/Util/IDPool.pm cp lib/Bio/Phylo/IO.pm blib/lib/Bio/Phylo/IO.pm cp lib/Bio/Phylo/Treedrawer/Svg.pm blib/lib/Bio/Phylo/Treedrawer/Svg.pm cp lib/Bio/Phylo/Unparsers/Json.pm blib/lib/Bio/Phylo/Unparsers/Json.pm cp lib/Bio/Phylo/Unparsers/Fasta.pm blib/lib/Bio/Phylo/Unparsers/Fasta.pm cp lib/Bio/Phylo/PhyloWS.pm blib/lib/Bio/Phylo/PhyloWS.pm cp lib/Bio/Phylo/Unparsers/Pagel.pm blib/lib/Bio/Phylo/Unparsers/Pagel.pm cp lib/Bio/Phylo/NeXML/DOM/Element.pm blib/lib/Bio/Phylo/NeXML/DOM/Element.pm cp lib/Bio/Phylo/Forest/Tree.pm blib/lib/Bio/Phylo/Forest/Tree.pm cp lib/Bio/Phylo/Treedrawer/Pdf.pm blib/lib/Bio/Phylo/Treedrawer/Pdf.pm cp lib/Bio/Phylo/PhyloWS/Client.pm blib/lib/Bio/Phylo/PhyloWS/Client.pm cp lib/Bio/Phylo/Util/Dependency.pm blib/lib/Bio/Phylo/Util/Dependency.pm cp lib/Bio/Phylo/Models/Substitution/Dna/JC69.pm blib/lib/Bio/Phylo/Models/Substitution/Dna/JC69.pm cp lib/Bio/Phylo/Parsers/Figtree.pm blib/lib/Bio/Phylo/Parsers/Figtree.pm cp lib/Bio/Phylo/Forest/TreeRole.pm blib/lib/Bio/Phylo/Forest/TreeRole.pm cp lib/Bio/Phylo/Matrices/Datatype/Mixed.pm blib/lib/Bio/Phylo/Matrices/Datatype/Mixed.pm cp lib/Bio/Phylo/Parsers/Cdao.pm blib/lib/Bio/Phylo/Parsers/Cdao.pm cp lib/Bio/Phylo/Util/CONSTANT/Int.pm blib/lib/Bio/Phylo/Util/CONSTANT/Int.pm cp lib/Bio/Phylo/Util/Exceptions.pm blib/lib/Bio/Phylo/Util/Exceptions.pm cp lib/Bio/Phylo/Matrices/Datatype.pm blib/lib/Bio/Phylo/Matrices/Datatype.pm cp lib/Bio/Phylo/NeXML/XML2JSON.pm blib/lib/Bio/Phylo/NeXML/XML2JSON.pm cp lib/Bio/Phylo/Parsers/Nhx.pm blib/lib/Bio/Phylo/Parsers/Nhx.pm cp lib/Bio/Phylo/NeXML/DOM/Element/Libxml.pm blib/lib/Bio/Phylo/NeXML/DOM/Element/Libxml.pm cp lib/Bio/Phylo/Forest/DrawNodeRole.pm blib/lib/Bio/Phylo/Forest/DrawNodeRole.pm cp lib/Bio/Phylo/Matrices/TypeSafeData.pm blib/lib/Bio/Phylo/Matrices/TypeSafeData.pm cp lib/Bio/Phylo/Matrices/Datatype/Sanger.pm blib/lib/Bio/Phylo/Matrices/Datatype/Sanger.pm cp lib/Bio/Phylo/Util/CONSTANT.pm blib/lib/Bio/Phylo/Util/CONSTANT.pm cp lib/Bio/Phylo/Util/MOP.pm blib/lib/Bio/Phylo/Util/MOP.pm cp lib/Bio/Phylo/Matrices/Datatype/Restriction.pm blib/lib/Bio/Phylo/Matrices/Datatype/Restriction.pm cp lib/Bio/Phylo/Matrices/Character.pm blib/lib/Bio/Phylo/Matrices/Character.pm cp lib/Bio/Phylo/Matrices/MatrixRole.pm blib/lib/Bio/Phylo/Matrices/MatrixRole.pm cp lib/Bio/Phylo/Unparsers/Figtree.pm blib/lib/Bio/Phylo/Unparsers/Figtree.pm cp lib/Bio/Phylo/NeXML/Entities.pm blib/lib/Bio/Phylo/NeXML/Entities.pm cp lib/Bio/Phylo/Parsers/Fastq.pm blib/lib/Bio/Phylo/Parsers/Fastq.pm cp lib/Bio/Phylo/Parsers/Fasta.pm blib/lib/Bio/Phylo/Parsers/Fasta.pm cp lib/Bio/Phylo/Util/Logger.pm blib/lib/Bio/Phylo/Util/Logger.pm cp lib/Bio/Phylo/Unparsers/Hennig86.pm blib/lib/Bio/Phylo/Unparsers/Hennig86.pm cp lib/Bio/Phylo/Matrices/Datatype/Solexa.pm blib/lib/Bio/Phylo/Matrices/Datatype/Solexa.pm cp lib/Bio/Phylo/Parsers/Nexml.pm blib/lib/Bio/Phylo/Parsers/Nexml.pm cp lib/Bio/Phylo/Taxa/TaxonLinker.pm blib/lib/Bio/Phylo/Taxa/TaxonLinker.pm cp lib/Bio/Phylo/Models/Substitution/Binary.pm blib/lib/Bio/Phylo/Models/Substitution/Binary.pm cp lib/Bio/Phylo/NeXML/DOM.pm blib/lib/Bio/Phylo/NeXML/DOM.pm cp lib/Bio/Phylo/Manual.pod blib/lib/Bio/Phylo/Manual.pod cp lib/Bio/Phylo/Mediators/TaxaMediator.pm blib/lib/Bio/Phylo/Mediators/TaxaMediator.pm cp lib/Bio/Phylo/Factory.pm blib/lib/Bio/Phylo/Factory.pm cp lib/Bio/Phylo/Treedrawer/Abstract.pm blib/lib/Bio/Phylo/Treedrawer/Abstract.pm cp lib/Bio/Phylo/Util/OptionalInterface.pm blib/lib/Bio/Phylo/Util/OptionalInterface.pm cp lib/Bio/Phylo/Parsers/Phyloxml.pm blib/lib/Bio/Phylo/Parsers/Phyloxml.pm cp lib/Bio/Phylo/Matrices/Datatype/Illumina.pm blib/lib/Bio/Phylo/Matrices/Datatype/Illumina.pm cp lib/Bio/Phylo/Unparsers/Phylip.pm blib/lib/Bio/Phylo/Unparsers/Phylip.pm cp lib/Bio/Phylo/Util/Math.pm blib/lib/Bio/Phylo/Util/Math.pm cp lib/Bio/Phylo/Parsers/Dwca.pm blib/lib/Bio/Phylo/Parsers/Dwca.pm cp lib/Bio/Phylo/Unparsers/Nwmsrdf.pm blib/lib/Bio/Phylo/Unparsers/Nwmsrdf.pm cp lib/Bio/Phylo/Matrices/Datatype/Custom.pm blib/lib/Bio/Phylo/Matrices/Datatype/Custom.pm cp lib/Bio/Phylo/PhyloWS/Service/UbioNameBank.pm blib/lib/Bio/Phylo/PhyloWS/Service/UbioNameBank.pm cp lib/Bio/Phylo/Project.pm blib/lib/Bio/Phylo/Project.pm cp lib/Bio/Phylo/Parsers/Ubiometa.pm blib/lib/Bio/Phylo/Parsers/Ubiometa.pm cp lib/Bio/Phylo/Treedrawer.pm blib/lib/Bio/Phylo/Treedrawer.pm cp lib/Bio/Phylo/Matrices/Characters.pm blib/lib/Bio/Phylo/Matrices/Characters.pm cp lib/Bio/Phylo/Models/Substitution/Dna/GTR.pm blib/lib/Bio/Phylo/Models/Substitution/Dna/GTR.pm cp lib/Bio/Phylo/Matrices/Datatype/Dna.pm blib/lib/Bio/Phylo/Matrices/Datatype/Dna.pm cp lib/Bio/Phylo/PhyloWS/Service/Timetree.pm blib/lib/Bio/Phylo/PhyloWS/Service/Timetree.pm cp lib/Bio/Phylo/Treedrawer/Canvas.pm blib/lib/Bio/Phylo/Treedrawer/Canvas.pm cp lib/Bio/Phylo/Identifiable.pm blib/lib/Bio/Phylo/Identifiable.pm --- pure_all --- --- manifypods --- Manifying 132 pod documents --- all --- -------------------------------------------------------------------------------- -- Phase: run-depends -------------------------------------------------------------------------------- ===> p5-Bio-Phylo-2.0.1 depends on package: p5-Archive-Zip>=0 - found ===> p5-Bio-Phylo-2.0.1 depends on package: p5-BioPerl>=0 - found ===> p5-Bio-Phylo-2.0.1 depends on package: p5-GD>=0 - found ===> p5-Bio-Phylo-2.0.1 depends on package: p5-Math-CDF>=0 - found ===> p5-Bio-Phylo-2.0.1 depends on package: p5-Math-Random>=0 - found ===> p5-Bio-Phylo-2.0.1 depends on package: p5-PDF-API2>=0 - found ===> p5-Bio-Phylo-2.0.1 depends on package: p5-RDF-Query>=0 - found ===> p5-Bio-Phylo-2.0.1 depends on package: p5-RDF-Trine>=0 - found ===> p5-Bio-Phylo-2.0.1 depends on package: p5-SVG>=0 - found ===> p5-Bio-Phylo-2.0.1 depends on package: p5-SWF-Builder>=0 - found ===> p5-Bio-Phylo-2.0.1 depends on package: p5-XML-LibXML>=0 - found ===> p5-Bio-Phylo-2.0.1 depends on package: p5-XML-Twig>=0 - found ===> p5-Bio-Phylo-2.0.1 depends on package: p5-XML-XML2JSON>=0 - found ===> p5-Bio-Phylo-2.0.1 depends on package: p5-libxml>=0 - found ===> p5-Bio-Phylo-2.0.1 depends on package: perl5>=5.26<5.27 - found -------------------------------------------------------------------------------- -- Phase: stage -------------------------------------------------------------------------------- ===> Staging for p5-Bio-Phylo-2.0.1 ===> Generating temporary packing list Manifying 132 pod documents Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/PhyloRole.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Identifiable.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Generator.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/PhyloWS.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Manual.pod Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Factory.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Forest.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/IO.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Project.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Matrices.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Taxa.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Listable.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/EvolutionaryModels.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/ListableRole.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Treedrawer.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Set.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/PhyloWS/Resource.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/PhyloWS/Service.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/PhyloWS/Client.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/PhyloWS/Resource/Description.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/PhyloWS/Service/Tolweb.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/PhyloWS/Service/UbioClassificationBank.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/PhyloWS/Service/Timetree.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/PhyloWS/Service/UbioNameBank.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Unparsers/Adjacency.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Unparsers/Rss1.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Unparsers/Fasta.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Unparsers/Json.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Unparsers/Nexml.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Unparsers/Nexus.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Unparsers/Cdao.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Unparsers/Taxlist.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Unparsers/Phyloxml.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Unparsers/Html.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Unparsers/Mrp.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Unparsers/Phylip.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Unparsers/Figtree.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Unparsers/Abstract.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Unparsers/Newick.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Unparsers/Hennig86.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Unparsers/Nwmsrdf.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Unparsers/Pagel.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Unparsers/Nhx.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Util/StackTrace.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Util/CONSTANT.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Util/OptionalInterface.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Util/Dependency.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Util/MOP.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Util/IDPool.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Util/Exceptions.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Util/Math.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Util/Logger.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Util/CONSTANT/Int.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Matrices/Character.pm Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/Bio/Phylo/Matrices/MatrixRole.pm Installing 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Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Phylo::Forest::Tree.3 Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Phylo::Treedrawer::Abstract.3 Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Phylo::Treedrawer::Swf.3 Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Phylo::Models::Substitution::Dna::K80.3 Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Phylo::Unparsers::Nwmsrdf.3 Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Phylo::Matrices::Datatype::Sanger.3 Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Phylo::Unparsers::Html.3 Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Phylo::Taxa.3 Installing 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/construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Phylo::Matrices::Datatype::Rna.3 Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Phylo::NeXML::XML2JSON.3 Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Phylo::Treedrawer::Jpeg.3 Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Phylo::Unparsers::Abstract.3 Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Phylo::Parsers::Ubiocbmeta.3 Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Phylo::Treedrawer.3 Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Phylo::Unparsers::Phylip.3 Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Phylo::NeXML::Meta::XMLLiteral.3 Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Phylo::Parsers::Dwca.3 Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Phylo::Project.3 Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Phylo::Treedrawer::Gif.3 Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Phylo::Forest::TreeRole.3 Installing /construction/biology/p5-Bio-Phylo/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Phylo::Util::Dependency.3 ====> Compressing man pages (compress-man) -------------------------------------------------------------------------------- -- Phase: package -------------------------------------------------------------------------------- ===> Building package for p5-Bio-Phylo-2.0.1 file sizes/checksums [269]: ... done packing files [269]: ... done packing directories [0]: . done -------------------------------------------------- -- Termination -------------------------------------------------- Finished: Wednesday, 18 APR 2018 at 02:14:16 UTC Duration: 00:00:49