Updated ensembl-perl ebuild to cvs branch 40 and added ensembl-perl-compara ebuild also branch 40

svn path=/stable/; revision=750

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 @@
+