From 56dd7e1c4254640d224132031893c687a08aff04 Mon Sep 17 00:00:00 2001 From: Andrey Kislyuk Date: Wed, 8 Apr 2009 20:45:57 +0000 Subject: Add missing deps Package-Manager: portage-2.2_rc20/cvs/Linux 2.6.26-gentoo-r4 x86_64 --- sci-biology/bioperl/ChangeLog | 8 +++- sci-biology/bioperl/Manifest | 6 +-- sci-biology/bioperl/bioperl-1.6.0-r1.ebuild | 70 ----------------------------- sci-biology/bioperl/bioperl-1.6.0-r2.ebuild | 70 +++++++++++++++++++++++++++++ sci-biology/bioperl/bioperl-9999.ebuild | 6 +-- 5 files changed, 83 insertions(+), 77 deletions(-) delete mode 100644 sci-biology/bioperl/bioperl-1.6.0-r1.ebuild create mode 100644 sci-biology/bioperl/bioperl-1.6.0-r2.ebuild diff --git a/sci-biology/bioperl/ChangeLog b/sci-biology/bioperl/ChangeLog index 7b86a9ddfaac..6a236f26ac1e 100644 --- a/sci-biology/bioperl/ChangeLog +++ b/sci-biology/bioperl/ChangeLog @@ -1,6 +1,12 @@ # ChangeLog for sci-biology/bioperl # Copyright 2002-2009 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/bioperl/ChangeLog,v 1.35 2009/03/24 21:16:31 ribosome Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-biology/bioperl/ChangeLog,v 1.36 2009/04/08 20:45:57 weaver Exp $ + +*bioperl-1.6.0-r2 (08 Apr 2009) + + 08 Apr 2009; Andrey Kislyuk -bioperl-1.6.0-r1.ebuild, + +bioperl-1.6.0-r2.ebuild, bioperl-9999.ebuild: + Revision bump - add missing dependencies 24 Mar 2009; Olivier Fisette metadata.xml: Giving up maintainership of this package. diff --git a/sci-biology/bioperl/Manifest b/sci-biology/bioperl/Manifest index 655f8a1de04d..35a3531a198b 100644 --- a/sci-biology/bioperl/Manifest +++ b/sci-biology/bioperl/Manifest @@ -3,7 +3,7 @@ DIST bioperl-1.4.tar.bz2 4224508 RMD160 657170cc17655f2ab9ed5f6509cac5ae7eedd2c3 DIST bioperl-1.5.1.tar.bz2 5538613 RMD160 422bdd0dc17dd246ec1fc3ae6fe020705111892d SHA1 9841a458fd928eb9715f14eb686c7b1af3a379e7 SHA256 696c8bd162bc79fa3c75eeb63bb42f8cbcbb4b72de4dcb3bec7ea7a293506f6c EBUILD bioperl-1.4.ebuild 1144 RMD160 7e3108360f973a5199cfe5d89471980fdf475813 SHA1 da03c6457bb8feefd939ec532c0292a31eeb3c57 SHA256 1f9f7fba2480c392b99e860af10910a881e39af8123540bc8e7e6ccf206cf741 EBUILD bioperl-1.5.1-r1.ebuild 1191 RMD160 1ad0bd41869118ce4482427e7de56829f7fe22ce SHA1 c50b157d571897c896b678d6456f0f7bbed3b60b SHA256 bdee9659d5d464c2339678c1854bac42cf83e900d20380d6c4c3f1ff1606d504 -EBUILD bioperl-1.6.0-r1.ebuild 1774 RMD160 0ce87f940879f68a3785fa4bb072617f4bcc975c SHA1 2fa752362a7d85d9957247a35e8cb8a4c9f7bc08 SHA256 f35308db34016cc432ec577b9c867452b02df7c420d0c92a89b95877a7e6ddef -EBUILD bioperl-9999.ebuild 1788 RMD160 a01f24e3d7e925336fa2d1f68d946eb48cac2256 SHA1 b559e156fb69af8db02481fa3e8780a055e3682d SHA256 6e7cde6379e4f9bf61ec935617b77cca6835ea7ce1cff57c7958b98f97e830f3 -MISC ChangeLog 7098 RMD160 bd8774628a074ed6021ebb7420101a8127d9746d SHA1 10c9db98ed3d02979b7e9a3ff3e520ed73565f6c SHA256 f64e7552641c25df76ea8eb710e84769d5e977f3d40be4070336d4798bdb7dc1 +EBUILD bioperl-1.6.0-r2.ebuild 1783 RMD160 503d876ddb59ccca1e1baf51296a1b7c302ed56f SHA1 4a160bef0a11b8e535293ce30fb48704eb4c3d03 SHA256 2e5732a31d638e845d21e40fbaae9a8591eac262106c0244fcd631a0d56e2599 +EBUILD bioperl-9999.ebuild 1797 RMD160 e90a1825c64ba884073edfc2c6ee872c16724fce SHA1 68cc3bf7832f85bee959ccece9bb2f31a5649d8c SHA256 e5366d4fef99cdc301a5feb85e944bde9b0546809aa66e841b896270bf570fe9 +MISC ChangeLog 7298 RMD160 1517eb6d35a07880aeedc0fddf427aedcd5be3a7 SHA1 8bdb93cb03a27ceae3b3652aa749657584434ba6 SHA256 07a8f6716e76443f5b38fd9da1981051005e6ad08f6bcc91510480baf3e06125 MISC metadata.xml 357 RMD160 3cd4b6e41d2a1d5ec431a90e0c59ef887f1d5706 SHA1 5a81dea20ab58342851c77d5fd7a2835053ac03b SHA256 be157b353d49731ed3ade95f20205bf367b65ff762d336042e26bca078609afa diff --git a/sci-biology/bioperl/bioperl-1.6.0-r1.ebuild b/sci-biology/bioperl/bioperl-1.6.0-r1.ebuild deleted file mode 100644 index bb96818b20e1..000000000000 --- a/sci-biology/bioperl/bioperl-1.6.0-r1.ebuild +++ /dev/null @@ -1,70 +0,0 @@ -# Copyright 1999-2009 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/bioperl/bioperl-1.6.0-r1.ebuild,v 1.1 2009/03/16 23:37:10 weaver Exp $ - -EAPI="2" - -inherit perl-module - -SUBPROJECTS="+db +network +run" - -DESCRIPTION="Perl tools for bioinformatics - Core modules" -HOMEPAGE="http://www.bioperl.org/" -SRC_URI="http://www.bioperl.org/DIST/BioPerl-${PV}.tar.bz2" - -LICENSE="Artistic GPL-2" -SLOT="0" -KEYWORDS="~amd64 ~x86" -IUSE="-minimal graphviz ${SUBPROJECTS}" - -# TODO: SVG::Graph, Convert::Binary::C - -DEPEND="virtual/perl-Module-Build - dev-perl/Data-Stag - dev-perl/libwww-perl - !minimal? ( - dev-perl/Ace - dev-perl/Bio-ASN1-EntrezGene - dev-perl/Spreadsheet-ParseExcel - dev-perl/Spreadsheet-WriteExcel - >=dev-perl/XML-SAX-0.15 - dev-perl/Graph - dev-perl/SOAP-Lite - dev-perl/Array-Compare - dev-perl/SVG - dev-perl/XML-Simple - dev-perl/XML-Parser - dev-perl/XML-Twig - >=dev-perl/HTML-Parser-3.60 - >=dev-perl/XML-Writer-0.4 - dev-perl/Clone - dev-perl/XML-DOM - dev-perl/set-scalar - dev-perl/XML-XPath - dev-perl/XML-DOM-XPath - dev-perl/Algorithm-Munkres - dev-perl/Data-Stag - dev-perl/Math-Random - dev-perl/PostScript - ) - graphviz? ( dev-perl/GraphViz )" - -RDEPEND="${DEPEND}" -PDEPEND=" - db? ( >=sci-biology/bioperl-db-${PV} ) - network? ( >=sci-biology/bioperl-network-${PV} ) - run? ( >=sci-biology/bioperl-run-${PV} )" - -S="${WORKDIR}/BioPerl-${PV}" - -src_configure() { - sed -i -e '/add_post_install_script.*symlink_script.pl/d' \ - -e "/'CPAN' *=> *1.81/d" "${S}/Build.PL" || die - if use minimal && use graphviz; then die "USE flags minimal and graphviz cannot be used together"; fi - perl-module_src_configure -} - -src_install() { - mydoc="AUTHORS BUGS FAQ" - perl-module_src_install -} diff --git a/sci-biology/bioperl/bioperl-1.6.0-r2.ebuild b/sci-biology/bioperl/bioperl-1.6.0-r2.ebuild new file mode 100644 index 000000000000..43686f6b24ba --- /dev/null +++ b/sci-biology/bioperl/bioperl-1.6.0-r2.ebuild @@ -0,0 +1,70 @@ +# Copyright 1999-2009 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/bioperl/bioperl-1.6.0-r2.ebuild,v 1.1 2009/04/08 20:45:57 weaver Exp $ + +EAPI="2" + +inherit perl-module + +SUBPROJECTS="+db +network +run" + +DESCRIPTION="Perl tools for bioinformatics - Core modules" +HOMEPAGE="http://www.bioperl.org/" +SRC_URI="http://www.bioperl.org/DIST/BioPerl-${PV}.tar.bz2" + +LICENSE="Artistic GPL-2" +SLOT="0" +KEYWORDS="~amd64 ~x86" +IUSE="-minimal graphviz ${SUBPROJECTS}" + +DEPEND="virtual/perl-Module-Build + dev-perl/Data-Stag + dev-perl/libwww-perl + !minimal? ( + dev-perl/Ace + dev-perl/Bio-ASN1-EntrezGene + dev-perl/Spreadsheet-ParseExcel + dev-perl/Spreadsheet-WriteExcel + >=dev-perl/XML-SAX-0.15 + dev-perl/Graph + dev-perl/SOAP-Lite + dev-perl/Array-Compare + dev-perl/SVG + dev-perl/XML-Simple + dev-perl/XML-Parser + dev-perl/XML-Twig + >=dev-perl/HTML-Parser-3.60 + >=dev-perl/XML-Writer-0.4 + dev-perl/Clone + dev-perl/XML-DOM + dev-perl/set-scalar + dev-perl/XML-XPath + dev-perl/XML-DOM-XPath + dev-perl/Algorithm-Munkres + dev-perl/Data-Stag + dev-perl/Math-Random + dev-perl/PostScript + dev-perl/Convert-Binary-C + dev-perl/SVG-Graph + ) + graphviz? ( dev-perl/GraphViz )" + +RDEPEND="${DEPEND}" +PDEPEND=" + db? ( >=sci-biology/bioperl-db-${PV} ) + network? ( >=sci-biology/bioperl-network-${PV} ) + run? ( >=sci-biology/bioperl-run-${PV} )" + +S="${WORKDIR}/BioPerl-${PV}" + +src_configure() { + sed -i -e '/add_post_install_script.*symlink_script.pl/d' \ + -e "/'CPAN' *=> *1.81/d" "${S}/Build.PL" || die + if use minimal && use graphviz; then die "USE flags minimal and graphviz cannot be used together"; fi + perl-module_src_configure +} + +src_install() { + mydoc="AUTHORS BUGS FAQ" + perl-module_src_install +} diff --git a/sci-biology/bioperl/bioperl-9999.ebuild b/sci-biology/bioperl/bioperl-9999.ebuild index be107a8fbbdb..8a6ba630628c 100644 --- a/sci-biology/bioperl/bioperl-9999.ebuild +++ b/sci-biology/bioperl/bioperl-9999.ebuild @@ -1,6 +1,6 @@ # Copyright 1999-2009 Gentoo Foundation # Distributed under the terms of the GNU General Public License v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/bioperl/bioperl-9999.ebuild,v 1.1 2009/03/16 23:37:10 weaver Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-biology/bioperl/bioperl-9999.ebuild,v 1.2 2009/04/08 20:45:57 weaver Exp $ EAPI="2" @@ -18,8 +18,6 @@ SLOT="0" KEYWORDS="" IUSE="-minimal graphviz ${SUBPROJECTS}" -# TODO: SVG::Graph, Convert::Binary::C - DEPEND="virtual/perl-Module-Build dev-perl/Data-Stag dev-perl/libwww-perl @@ -47,6 +45,8 @@ DEPEND="virtual/perl-Module-Build dev-perl/Data-Stag dev-perl/Math-Random dev-perl/PostScript + dev-perl/Convert-Binary-C + dev-perl/SVG-Graph ) graphviz? ( dev-perl/GraphViz )" -- cgit v1.2.3-65-gdbad