New upstream version

Package-Manager: portage-2.1.1

4 files changed, 75 insertions, 15 deletions

diff --git a/sci-biology/bioperl/ChangeLog b/sci-biology/bioperl/ChangeLog
index 9c759516f987..cf54b1ed0d7d 100644
--- a/sci-biology/bioperl/ChangeLog
+++ b/sci-biology/bioperl/ChangeLog
@@ -1,6 +1,13 @@
 # ChangeLog for sci-biology/bioperl
 # Copyright 2002-2006 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/bioperl/ChangeLog,v 1.21 2006/08/18 02:21:58 mcummings Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/bioperl/ChangeLog,v 1.22 2006/09/13 01:41:58 ribosome Exp $
+
+*bioperl-1.5.1 (13 Sep 2006)
+
+  13 Sep 2006; Olivier Fisette <ribosome@gentoo.org> +bioperl-1.5.1.ebuild:
+  New upstream version. Thanks to Greg Wilson <gdw1@cornell.edu>, Martin
+  Mokrejs <mmokrejs@ribosome.natur.cuni.cz> and Neil Shephard
+  <nshephard@gmail.com> for their work (see bug #79459).
 
   18 Aug 2006; Michael Cummings <mcummings@gentoo.org> bioperl-1.4.ebuild:
   Marking amd64 stable
diff --git a/sci-biology/bioperl/Manifest b/sci-biology/bioperl/Manifest
index 66f22fb21581..9ff9f131262f 100644
--- a/sci-biology/bioperl/Manifest
+++ b/sci-biology/bioperl/Manifest
@@ -1,15 +1,17 @@
------BEGIN PGP SIGNED MESSAGE-----
-Hash: SHA1
-
 DIST bioperl-1.4.tar.bz2 4224508 RMD160 657170cc17655f2ab9ed5f6509cac5ae7eedd2c3 SHA1 d0683ff46ef304c04a40296561065d78baa0d787 SHA256 5ba68ce688ac4f079057e03b5bfca60f410d9eb68961d03b62ae75050718687b
+DIST bioperl-1.5.1.tar.bz2 5538613 RMD160 422bdd0dc17dd246ec1fc3ae6fe020705111892d SHA1 9841a458fd928eb9715f14eb686c7b1af3a379e7 SHA256 696c8bd162bc79fa3c75eeb63bb42f8cbcbb4b72de4dcb3bec7ea7a293506f6c
 EBUILD bioperl-1.4.ebuild 1175 RMD160 3a873722d4d53220920e4602c6bfa618ae3b9e79 SHA1 82e785042540409b671959a63b9c3a9232495d94 SHA256 dc8b5b849884b106630deedd2e5fe759f9b304e87b71ff3cb4c6b30a4a1dd560
 MD5 de99ea907d1aaae79d2ed082d3c5ffcc bioperl-1.4.ebuild 1175
 RMD160 3a873722d4d53220920e4602c6bfa618ae3b9e79 bioperl-1.4.ebuild 1175
 SHA256 dc8b5b849884b106630deedd2e5fe759f9b304e87b71ff3cb4c6b30a4a1dd560 bioperl-1.4.ebuild 1175
-MISC ChangeLog 4939 RMD160 4650b7d341fdafacc7ad8bc057d2e67f53c4bcb1 SHA1 fe943fda3b740c4d3c3c286c189780a54a191289 SHA256 1c8480b9819a443798e26b993b6d8c200caed33a01ddd902a8c31108c7e48e2d
-MD5 0b394facb896b9bd9589007965ef3100 ChangeLog 4939
-RMD160 4650b7d341fdafacc7ad8bc057d2e67f53c4bcb1 ChangeLog 4939
-SHA256 1c8480b9819a443798e26b993b6d8c200caed33a01ddd902a8c31108c7e48e2d ChangeLog 4939
+EBUILD bioperl-1.5.1.ebuild 1197 RMD160 b3a92d8eba1f2d3da639ee4a33b469619f40a0ef SHA1 d87b74cef60fdb9a8991d76efc9b8ac54c49b0a8 SHA256 2c8915c6ddc0726b277994a605ccf96082665f3968b4bb6a04348c700b7a82df
+MD5 fa4383b2076e0db29a7c0babebc2129b bioperl-1.5.1.ebuild 1197
+RMD160 b3a92d8eba1f2d3da639ee4a33b469619f40a0ef bioperl-1.5.1.ebuild 1197
+SHA256 2c8915c6ddc0726b277994a605ccf96082665f3968b4bb6a04348c700b7a82df bioperl-1.5.1.ebuild 1197
+MISC ChangeLog 5237 RMD160 45f121a54f97e27b229df8c9acb2314ced9874c9 SHA1 0f06a705640957bb273f893f08f2ebcd75b27db6 SHA256 9682b5d4b99260334ce52045726b41dc126d60c11c9156fb07b8633405c83281
+MD5 c4ecfac840042e32f78102e10d932291 ChangeLog 5237
+RMD160 45f121a54f97e27b229df8c9acb2314ced9874c9 ChangeLog 5237
+SHA256 9682b5d4b99260334ce52045726b41dc126d60c11c9156fb07b8633405c83281 ChangeLog 5237
 MISC metadata.xml 262 RMD160 4eabcbcb990d4d5e3b34db8c27bcd2c0cfcf7501 SHA1 3c024ca60a2b93ed0e0311f6b05ef5ef117bee31 SHA256 89af818a993faf14a4a87e2f254943420156c2a317c385480a9533ba682b650f
 MD5 5f35ae4b4cb1cd144db7c7c093d3fd80 metadata.xml 262
 RMD160 4eabcbcb990d4d5e3b34db8c27bcd2c0cfcf7501 metadata.xml 262
@@ -17,10 +19,6 @@ SHA256 89af818a993faf14a4a87e2f254943420156c2a317c385480a9533ba682b650f metadata
 MD5 4615cdeb82040a54abfe906737fbbe80 files/digest-bioperl-1.4 241
 RMD160 be4f220380af8e6d9050fb970f4afa9007cc5322 files/digest-bioperl-1.4 241
 SHA256 7f2cfe5a68d98c143ebc904b1c54de78d21218c225a93870256ea74c3d043fd1 files/digest-bioperl-1.4 241
------BEGIN PGP SIGNATURE-----
-Version: GnuPG v1.4.4 (GNU/Linux)
-
-iD8DBQFE5SRMtG5z4I8BtQoRAknVAJ92Zxq8vCg/QkldP76xVbLbJwEnMwCfYidy
-QuBy3b+onXSYCsQQ+KN8brs=
-=IaNG
------END PGP SIGNATURE-----
+MD5 970b42591ef0cc641b037271250cb250 files/digest-bioperl-1.5.1 247
+RMD160 772c74652407b0ed6de23eb6b5c4a524134dacd2 files/digest-bioperl-1.5.1 247
+SHA256 92906734ae731b92c7acee45ed4a0e7827a47f6e4dc4a214e6049ac95734f1d3 files/digest-bioperl-1.5.1 247
diff --git a/sci-biology/bioperl/bioperl-1.5.1.ebuild b/sci-biology/bioperl/bioperl-1.5.1.ebuild
new file mode 100644
index 000000000000..1053a8daeeeb
--- /dev/null
+++ b/sci-biology/bioperl/bioperl-1.5.1.ebuild
@@ -0,0 +1,52 @@
+# Copyright 1999-2006 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/bioperl/bioperl-1.5.1.ebuild,v 1.1 2006/09/13 01:41:58 ribosome Exp $
+
+inherit perl-module eutils
+
+CATEGORY="sci-biology"
+
+DESCRIPTION="collection of tools for bioinformatics, genomics and life science research"
+HOMEPAGE="http://www.bioperl.org/"
+SRC_URI="http://www.bioperl.org/DIST/${P}.tar.bz2"
+
+LICENSE="Artistic GPL-2"
+SLOT="0"
+KEYWORDS="~alpha ~amd64 ~ia64 ~ppc ~sparc ~x86"
+IUSE="mysql gd"
+
+DEPEND="
+	perl-core/File-Temp
+	dev-perl/HTML-Parser
+	dev-perl/IO-String
+	dev-perl/IO-stringy
+	dev-perl/SOAP-Lite
+	perl-core/Storable
+	dev-perl/XML-DOM
+	dev-perl/XML-Parser
+	dev-perl/XML-Writer
+	dev-perl/XML-Twig
+	dev-perl/libxml-perl
+	dev-perl/libwww-perl
+	dev-perl/Graph
+	dev-perl/Text-Shellwords
+	gd? (
+			>=dev-perl/GD-1.32-r1
+			dev-perl/SVG
+			dev-perl/GD-SVG
+		)
+	mysql? ( >=dev-perl/DBD-mysql-2.1004-r3 )"
+
+src_compile() {
+	yes "" | perl Makefile.PL ${myconf} \
+	         PREFIX=${D}/usr INSTALLDIRS=vendor
+}
+
+src_test() {
+	perl-module_src_test || die "Test failed"
+}
+
+src_install() {
+	mydoc="AUTHORS BUGS FAQ"
+	perl-module_src_install
+}
diff --git a/sci-biology/bioperl/files/digest-bioperl-1.5.1 b/sci-biology/bioperl/files/digest-bioperl-1.5.1
new file mode 100644
index 000000000000..299158ff7ff2
--- /dev/null
+++ b/sci-biology/bioperl/files/digest-bioperl-1.5.1
@@ -0,0 +1,3 @@
+MD5 ba24f59a00c9919840a9b58f7fbd4d94 bioperl-1.5.1.tar.bz2 5538613
+RMD160 422bdd0dc17dd246ec1fc3ae6fe020705111892d bioperl-1.5.1.tar.bz2 5538613
+SHA256 696c8bd162bc79fa3c75eeb63bb42f8cbcbb4b72de4dcb3bec7ea7a293506f6c bioperl-1.5.1.tar.bz2 5538613