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author | 2006-08-23 07:19:36 +0000 | |
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committer | 2006-08-23 07:19:36 +0000 | |
commit | a9da5e4f195a419125294b6f2ef66bd910653519 (patch) | |
tree | a70389264541c91d27bce418fdb5dba1e67c3f3d /sci-biology | |
parent | Added sci-biology back into the stable overlay (diff) | |
download | overlay-a9da5e4f195a419125294b6f2ef66bd910653519.tar.gz overlay-a9da5e4f195a419125294b6f2ef66bd910653519.tar.bz2 overlay-a9da5e4f195a419125294b6f2ef66bd910653519.zip |
Updated ensembl-perl ebuild to cvs branch 40 and added ensembl-perl-compara ebuild also branch 40
svn path=/stable/; revision=750
Diffstat (limited to 'sci-biology')
-rw-r--r-- | sci-biology/ensembl-perl-compara/Manifest | 11 | ||||
-rw-r--r-- | sci-biology/ensembl-perl-compara/ensembl-perl-compara-40.ebuild (renamed from sci-biology/ensembl-perl/ensembl-perl-33.ebuild) | 26 | ||||
-rw-r--r-- | sci-biology/ensembl-perl-compara/files/Makefile.PL | 10 | ||||
-rw-r--r-- | sci-biology/ensembl-perl-compara/files/digest-ensembl-perl-compara-40 | 1 | ||||
-rw-r--r-- | sci-biology/ensembl-perl/Manifest | 18 | ||||
-rw-r--r-- | sci-biology/ensembl-perl/ensembl-perl-31.ebuild | 45 | ||||
-rw-r--r-- | sci-biology/ensembl-perl/ensembl-perl-40.ebuild (renamed from sci-biology/ensembl-perl/ensembl-perl-32.ebuild) | 20 | ||||
-rw-r--r-- | sci-biology/ensembl-perl/files/Makefile.PL | 2 | ||||
-rw-r--r-- | sci-biology/ensembl-perl/files/digest-ensembl-perl-31 | 0 | ||||
-rw-r--r-- | sci-biology/ensembl-perl/files/digest-ensembl-perl-32 | 0 | ||||
-rw-r--r-- | sci-biology/ensembl-perl/files/digest-ensembl-perl-33 | 0 | ||||
-rw-r--r-- | sci-biology/ensembl-perl/files/digest-ensembl-perl-40 | 1 |
12 files changed, 44 insertions, 90 deletions
diff --git a/sci-biology/ensembl-perl-compara/Manifest b/sci-biology/ensembl-perl-compara/Manifest new file mode 100644 index 0000000..5c064af --- /dev/null +++ b/sci-biology/ensembl-perl-compara/Manifest @@ -0,0 +1,11 @@ +AUX Makefile.PL 320 RMD160 45ad225666d7f34d5e6aaa644d0f29f95257f053 SHA1 58b9e01bf3d77ae88e99443e34de6108d7311636 SHA256 fe4422ba4d5200b0babb8b40f53a561806745287ab8dfc60a0274039f8e24071 +MD5 cb967e4c2570b2daa01f430f46f671b3 files/Makefile.PL 320 +RMD160 45ad225666d7f34d5e6aaa644d0f29f95257f053 files/Makefile.PL 320 +SHA256 fe4422ba4d5200b0babb8b40f53a561806745287ab8dfc60a0274039f8e24071 files/Makefile.PL 320 +EBUILD ensembl-perl-compara-40.ebuild 675 RMD160 48fb5af34778cd8434f8ba1955712927718e8ca3 SHA1 6a304f97930e1ac9abd59d528648dd784576e826 SHA256 5596db8d18d294e847969a92d201904800aea34fb10147b130baae6b86d82062 +MD5 da29f8f6a16eb60d4eefc31b7ef654e2 ensembl-perl-compara-40.ebuild 675 +RMD160 48fb5af34778cd8434f8ba1955712927718e8ca3 ensembl-perl-compara-40.ebuild 675 +SHA256 5596db8d18d294e847969a92d201904800aea34fb10147b130baae6b86d82062 ensembl-perl-compara-40.ebuild 675 +MD5 68b329da9893e34099c7d8ad5cb9c940 files/digest-ensembl-perl-compara-40 1 +RMD160 c0da025038ed83c687ddc430da9846ecb97f3998 files/digest-ensembl-perl-compara-40 1 +SHA256 01ba4719c80b6fe911b091a7c05124b64eeece964e09c058ef8f9805daca546b files/digest-ensembl-perl-compara-40 1 diff --git a/sci-biology/ensembl-perl/ensembl-perl-33.ebuild b/sci-biology/ensembl-perl-compara/ensembl-perl-compara-40.ebuild index bcd7ff4..fd4840e 100644 --- a/sci-biology/ensembl-perl/ensembl-perl-33.ebuild +++ b/sci-biology/ensembl-perl-compara/ensembl-perl-compara-40.ebuild @@ -1,10 +1,8 @@ -# Copyright 1999-2005 Gentoo Foundation +# Copyright 1999-2006 Gentoo Foundation # Distributed under the terms of the GNU General Public License v2 inherit cvs perl-module -CATEGORY="sci-biology" - DESCRIPTION="Additional perl modules for bioperl that can be used to easily access the EnsEMBL database" HOMEPAGE="http://www.ensembl.org/" @@ -13,33 +11,21 @@ SLOT="0" KEYWORDS="~x86 ~amd64" IUSE="" -ECVS_LOCALNAME="EnsEMBL" +ECVS_LOCALNAME="Compara" ECVS_SERVER="cvsro.sanger.ac.uk:/cvsroot/CVSmaster" -ECVS_MODULE="ensembl/modules/Bio/EnsEMBL" +ECVS_MODULE="ensembl-compara/modules/Bio/EnsEMBL/Compara" ECVS_BRANCH="branch-ensembl-${PV}" ECVS_USER="cvsuser" ECVS_PASS="CVSUSER" +DEPEND="=sci-biology/ensembl-perl-${PV}" -DEPEND="=sci-biology/bioperl-1.4" +S=${WORKDIR}/ src_unpack() { cvs_src_unpack - + cp ${FILESDIR}/Makefile.PL ${WORKDIR}/ } -src_compile() -{ - cd ${WORKDIR} - - perl-module_src_compile -} - -src_install() -{ - cd ${WORKDIR} - - perl-module_src_install -} diff --git a/sci-biology/ensembl-perl-compara/files/Makefile.PL b/sci-biology/ensembl-perl-compara/files/Makefile.PL new file mode 100644 index 0000000..ed6ce61 --- /dev/null +++ b/sci-biology/ensembl-perl-compara/files/Makefile.PL @@ -0,0 +1,10 @@ +use ExtUtils::MakeMaker 5.0; + +WriteMakefile( + NAME => "Bio::EnsEMBL::Compara", + VERSION => "40", + AUTHOR => "Sanger Center (ensembl-dev@ebi.ac.uk)", + ABSTRACT => "BioPerl modules to access ensembl", + INSTALLDIRS => "vendor", + PMLIBDIRS => [ "Compara" ] + ); diff --git a/sci-biology/ensembl-perl-compara/files/digest-ensembl-perl-compara-40 b/sci-biology/ensembl-perl-compara/files/digest-ensembl-perl-compara-40 new file mode 100644 index 0000000..8b13789 --- /dev/null +++ b/sci-biology/ensembl-perl-compara/files/digest-ensembl-perl-compara-40 @@ -0,0 +1 @@ + diff --git a/sci-biology/ensembl-perl/Manifest b/sci-biology/ensembl-perl/Manifest index cc791f2..84c831d 100644 --- a/sci-biology/ensembl-perl/Manifest +++ b/sci-biology/ensembl-perl/Manifest @@ -1,7 +1,11 @@ -MD5 4167bbcf0e0b05c834ac8b680e2e0955 ensembl-perl-31.ebuild 773 -MD5 92dcb9f863ac5144527c046e5b2d3746 ensembl-perl-32.ebuild 780 -MD5 92dcb9f863ac5144527c046e5b2d3746 ensembl-perl-33.ebuild 780 -MD5 b17aafa4efc4e955cbc2374091962976 files/Makefile.PL 311 -MD5 d41d8cd98f00b204e9800998ecf8427e files/digest-ensembl-perl-31 0 -MD5 d41d8cd98f00b204e9800998ecf8427e files/digest-ensembl-perl-32 0 -MD5 d41d8cd98f00b204e9800998ecf8427e files/digest-ensembl-perl-33 0 +AUX Makefile.PL 311 RMD160 4bcc4dd769ef82384a32ee9748d2ba0ac49c0ff7 SHA1 166c849404f8e8acd15bed4e5a7e8a50484b6912 SHA256 81b66e07792cb23dfd429fe1b33a02271687c236f8357a9a0e47729d547c74d3 +MD5 8a7bbfc221ea50dc4cfd96cae610a612 files/Makefile.PL 311 +RMD160 4bcc4dd769ef82384a32ee9748d2ba0ac49c0ff7 files/Makefile.PL 311 +SHA256 81b66e07792cb23dfd429fe1b33a02271687c236f8357a9a0e47729d547c74d3 files/Makefile.PL 311 +EBUILD ensembl-perl-40.ebuild 651 RMD160 9d6f5418758a3fcd167cb26344bf1d909f80faa6 SHA1 fe56c81befc4e08652ead9e67e9feecf8f584386 SHA256 1e57eba4fb4e7b8e39756de0508c1da83fb7a38ad0c815ecc8b38fd8b69d544f +MD5 1af1bc0e4f05d57f2a0e7a2ee22c4a5c ensembl-perl-40.ebuild 651 +RMD160 9d6f5418758a3fcd167cb26344bf1d909f80faa6 ensembl-perl-40.ebuild 651 +SHA256 1e57eba4fb4e7b8e39756de0508c1da83fb7a38ad0c815ecc8b38fd8b69d544f ensembl-perl-40.ebuild 651 +MD5 68b329da9893e34099c7d8ad5cb9c940 files/digest-ensembl-perl-40 1 +RMD160 c0da025038ed83c687ddc430da9846ecb97f3998 files/digest-ensembl-perl-40 1 +SHA256 01ba4719c80b6fe911b091a7c05124b64eeece964e09c058ef8f9805daca546b files/digest-ensembl-perl-40 1 diff --git a/sci-biology/ensembl-perl/ensembl-perl-31.ebuild b/sci-biology/ensembl-perl/ensembl-perl-31.ebuild deleted file mode 100644 index d00116e..0000000 --- a/sci-biology/ensembl-perl/ensembl-perl-31.ebuild +++ /dev/null @@ -1,45 +0,0 @@ -# Copyright 1999-2005 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 - -inherit cvs perl-module - -CATEGORY="sci-biology" - -DESCRIPTION="Additional perl modules for bioperl that can be used to easily access the EnsEMBL database" -HOMEPAGE="http://www.ensembl.org/" - -LICENSE="GPL-2" -SLOT="0" -KEYWORDS="~x86" -IUSE="" - -ECVS_LOCALNAME="EnsEMBL" -ECVS_SERVER="cvsro.sanger.ac.uk:/cvsroot/CVSmaster" -ECVS_MODULE="ensembl/modules/Bio/EnsEMBL" -ECVS_BRANCH="branch-ensembl-${PV}" -ECVS_USER="cvsuser" -ECVS_PASS="CVSUSER" - - -DEPEND="=sci-biology/bioperl-1.4" - -src_unpack() -{ - cvs_src_unpack - - cp ${FILESDIR}/Makefile.PL ${WORKDIR}/ -} - -src_compile() -{ - cd ${WORKDIR} - - perl-module_src_compile -} - -src_install() -{ - cd ${WORKDIR} - - perl-module_src_install -} diff --git a/sci-biology/ensembl-perl/ensembl-perl-32.ebuild b/sci-biology/ensembl-perl/ensembl-perl-40.ebuild index bcd7ff4..7a8317f 100644 --- a/sci-biology/ensembl-perl/ensembl-perl-32.ebuild +++ b/sci-biology/ensembl-perl/ensembl-perl-40.ebuild @@ -1,10 +1,8 @@ -# Copyright 1999-2005 Gentoo Foundation +# Copyright 1999-2006 Gentoo Foundation # Distributed under the terms of the GNU General Public License v2 inherit cvs perl-module -CATEGORY="sci-biology" - DESCRIPTION="Additional perl modules for bioperl that can be used to easily access the EnsEMBL database" HOMEPAGE="http://www.ensembl.org/" @@ -20,9 +18,10 @@ ECVS_BRANCH="branch-ensembl-${PV}" ECVS_USER="cvsuser" ECVS_PASS="CVSUSER" - DEPEND="=sci-biology/bioperl-1.4" +S=${WORKDIR}/ + src_unpack() { cvs_src_unpack @@ -30,16 +29,3 @@ src_unpack() cp ${FILESDIR}/Makefile.PL ${WORKDIR}/ } -src_compile() -{ - cd ${WORKDIR} - - perl-module_src_compile -} - -src_install() -{ - cd ${WORKDIR} - - perl-module_src_install -} diff --git a/sci-biology/ensembl-perl/files/Makefile.PL b/sci-biology/ensembl-perl/files/Makefile.PL index cafb2aa..e21ee0c 100644 --- a/sci-biology/ensembl-perl/files/Makefile.PL +++ b/sci-biology/ensembl-perl/files/Makefile.PL @@ -2,7 +2,7 @@ use ExtUtils::MakeMaker 5.0; WriteMakefile( NAME => "Bio::EnsEMBL", - VERSION => "31", + VERSION => "40", AUTHOR => "Sanger Center (ensembl-dev@ebi.ac.uk)", ABSTRACT => "BioPerl modules to access ensembl", INSTALLDIRS => "vendor", diff --git a/sci-biology/ensembl-perl/files/digest-ensembl-perl-31 b/sci-biology/ensembl-perl/files/digest-ensembl-perl-31 deleted file mode 100644 index e69de29..0000000 --- a/sci-biology/ensembl-perl/files/digest-ensembl-perl-31 +++ /dev/null diff --git a/sci-biology/ensembl-perl/files/digest-ensembl-perl-32 b/sci-biology/ensembl-perl/files/digest-ensembl-perl-32 deleted file mode 100644 index e69de29..0000000 --- a/sci-biology/ensembl-perl/files/digest-ensembl-perl-32 +++ /dev/null diff --git a/sci-biology/ensembl-perl/files/digest-ensembl-perl-33 b/sci-biology/ensembl-perl/files/digest-ensembl-perl-33 deleted file mode 100644 index e69de29..0000000 --- a/sci-biology/ensembl-perl/files/digest-ensembl-perl-33 +++ /dev/null diff --git a/sci-biology/ensembl-perl/files/digest-ensembl-perl-40 b/sci-biology/ensembl-perl/files/digest-ensembl-perl-40 new file mode 100644 index 0000000..8b13789 --- /dev/null +++ b/sci-biology/ensembl-perl/files/digest-ensembl-perl-40 @@ -0,0 +1 @@ + |