Latest from neb, with a kick from jlec.

Package-Manager: portage-2.1.6.11/cvs/Linux x86_64

6 files changed, 20 insertions, 104 deletions

diff --git a/sci-biology/rebase/ChangeLog b/sci-biology/rebase/ChangeLog
index 54edb86b2034..4f9521bba758 100644
--- a/sci-biology/rebase/ChangeLog
+++ b/sci-biology/rebase/ChangeLog
@@ -1,6 +1,11 @@
 # ChangeLog for sci-biology/rebase
-# Copyright 2000-2008 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/rebase/ChangeLog,v 1.87 2008/08/27 14:58:50 ribosome Exp $
+# Copyright 1999-2009 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/rebase/ChangeLog,v 1.88 2009/05/02 01:17:04 je_fro Exp $
+
+*rebase-905 (02 May 2009)
+
+  02 May 2009; Jeff Gardner <je_fro@gentoo.org> +rebase-905.ebuild:
+  Latest from neb, with a kick from jlec.
 
 *rebase-808 (27 Aug 2008)
 
diff --git a/sci-biology/rebase/Manifest b/sci-biology/rebase/Manifest
index c9e0b39f8bcb..0673c3688407 100644
--- a/sci-biology/rebase/Manifest
+++ b/sci-biology/rebase/Manifest
@@ -1,10 +1,6 @@
 DIST rebase-610.tar.bz2 183836 RMD160 f39b66acd481383f4b2dda932ad42d902bd23d34 SHA1 cd41f1e446139e0615179561b096b8f3ce5a9589 SHA256 f558655b399ab51cbfdf7bc3982025a7af66484528453360742bd45eac85b61d
-DIST rebase-707.tar.bz2 184790 RMD160 1f6e7f2b7e9cdba5321162e5404159edb62a35b1 SHA1 8c4e9cc212ec34992797fddf0af9353e5673b758 SHA256 556015ce9eed286a9864a1f8d051447f0daf7c2e7141575330bd855b8451a7fe
-DIST rebase-708.tar.bz2 185379 RMD160 7a70c90cec198e0bc60bb7d16d00a9080b5d11c0 SHA1 8673d254b06d64d9f1fc60594e36ea15cdf1d66d SHA256 0031da580a808a096ca596b27ec0fb1167128272d030332031b901b00115c305
-DIST rebase-808.tar.bz2 189436 RMD160 4f42c3144b6b5430df8ed9bdda0b4630c56bdd59 SHA1 8340cb3d78655c02f9ca200474a0adc94f48f1a2 SHA256 8346987b8fd655af71bde88a3e641f5e268528b025c4c9534630cb023f0ba26b
-EBUILD rebase-610.ebuild 1334 RMD160 4001cc3bdf6cf840ce5c1f3eb811d679e0ebd9ff SHA1 b50fdc5f54c7a34406deb2bf8661a331abdb317b SHA256 02d029f6a31ff99794a9e8fb3d886d67eab470696c891f3996d2754be6b9f067
-EBUILD rebase-707.ebuild 1374 RMD160 f73633b25cb23b65b7dd74a8c7d3652aa079f253 SHA1 dc209063874821546dddd0d99ff70e47df93056b SHA256 c136eebce3fd4983d046a18baeb247c59273eeae7023d801f40bf788b7a5db76
-EBUILD rebase-708.ebuild 1374 RMD160 b8b2ed660c02088f6515644c821af6e43a6d8eaf SHA1 0ee36dcb5a982731d70bb68955ce1fb26961ac6b SHA256 078541ea7d04234955175525b723897afe72c803bb7e0c505a963445f8044e1d
-EBUILD rebase-808.ebuild 1374 RMD160 737a5cf2fe5f2dd5fb74aca1c3da07301cb13556 SHA1 1b78ce1a73278a3ad4e74d5a9d1dd0e73912f09d SHA256 00885f656fd9d2c9765fa11dc5425574e735b5db78ebbfc8f72d0b6aaca28eb7
-MISC ChangeLog 11746 RMD160 c5c3ff4d8a30e3a1a4d8a82d3033e33a36dcffff SHA1 d73dae12676a8964b9411008c230754e7b3f8b2c SHA256 1bc8ff38dc0bdb61b94b2876ca3ef70563fa85a2a20c94f0739ec4ce765c03e1
+DIST rebase-905.tar.bz2 202327 RMD160 1a279af4eb6b1d8e24c38d4bd6535b9f6f2e78c4 SHA1 71cc979bf44c7ccdea6cddb70fa82b2d06492ad0 SHA256 74f67c880ca27d05d514ae7fbef84c32086c2dbbebcfa5542c79b748afb889a6
+EBUILD rebase-610.ebuild 1355 RMD160 2dd6a2fcdcd7c3cf0c360eac6d61706819be1630 SHA1 d1c78615a12043103074b6836869ed6a021d1a0f SHA256 53f4cc1414bcac2d724a17127789a256a90bf54cd6871a02745686cf0193e6c1
+EBUILD rebase-905.ebuild 1479 RMD160 498947de12daee8cb14bf4a2ce42a9ac6525d17b SHA1 c2b81ae32da44e891c9071755377e18522ddc048 SHA256 4c0d90d7556b9512c3c2a5001a0632b3c7ed7f9d0c99dcadb6fa26203134af03
+MISC ChangeLog 11882 RMD160 67949190392346acac0028a4d4a30e99f08297f5 SHA1 4bd361cc29779d8bd9d513d59bcab7cd1716f37c SHA256 080cf767ef29879a8e41eb0c7f65d96094568259cdce54fcb6b12c254bf13cf1
 MISC metadata.xml 908 RMD160 c4dc96997a4563391f74a006ccecebd04b4ea8a3 SHA1 32a6173a7ffa2900bb3ae75267684c3c4901ba1d SHA256 cbff81a8c24eb49cf76d5e9a61a86415d79c60e2e8a15594975273ba0d0f35af
diff --git a/sci-biology/rebase/rebase-610.ebuild b/sci-biology/rebase/rebase-610.ebuild
index 60b7a34e480d..314f4e6ee5f3 100644
--- a/sci-biology/rebase/rebase-610.ebuild
+++ b/sci-biology/rebase/rebase-610.ebuild
@@ -1,6 +1,6 @@
-# Copyright 1999-2006 Gentoo Foundation
+# Copyright 1999-2009 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/rebase/rebase-610.ebuild,v 1.6 2006/11/20 20:56:47 blubb Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/rebase/rebase-610.ebuild,v 1.7 2009/05/02 01:17:04 je_fro Exp $
 
 DESCRIPTION="A restriction enzyme database"
 LICENSE="public-domain"
@@ -14,6 +14,7 @@ IUSE="emboss minimal"
 KEYWORDS="amd64 ppc ppc64 ~sparc x86"
 
 DEPEND="emboss? ( >=sci-biology/emboss-3.0.0-r1 )"
+RDEPEND="${DEPEND}"
 
 src_compile() {
 	if use emboss; then
diff --git a/sci-biology/rebase/rebase-708.ebuild b/sci-biology/rebase/rebase-708.ebuild
deleted file mode 100644
index 629da51a1150..000000000000
--- a/sci-biology/rebase/rebase-708.ebuild
+++ /dev/null
@@ -1,44 +0,0 @@
-# Copyright 1999-2007 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/rebase/rebase-708.ebuild,v 1.1 2007/08/20 17:25:03 ribosome Exp $
-
-DESCRIPTION="A restriction enzyme database"
-LICENSE="public-domain"
-HOMEPAGE="http://rebase.neb.com"
-SRC_URI="mirror://gentoo/${P}.tar.bz2"
-
-SLOT="0"
-# Minimal build keeps only the indexed files (if applicable) and the
-# documentation. The non-indexed database is not installed.
-IUSE="emboss minimal"
-KEYWORDS="~amd64 ~ppc ~ppc64 ~sparc ~x86"
-
-DEPEND="emboss? ( >=sci-biology/emboss-5.0.0 )"
-
-src_compile() {
-	if use emboss; then
-		echo; einfo "Indexing Rebase for usage with EMBOSS."
-		mkdir REBASE
-		EMBOSS_DATA="." rebaseextract -auto -infile withrefm.${PV} \
-				-protofile proto.${PV} -equivalences \
-				|| die "Indexing Rebase failed."
-		echo
-	fi
-}
-
-src_install() {
-	if ! use minimal; then
-		insinto /usr/share/${PN}
-		doins withrefm.${PV} proto.${PV} || die \
-				"Failed to install raw database."
-	fi
-	newdoc REBASE.DOC README || die "Failed to install documentation."
-	if use emboss; then
-		insinto /usr/share/EMBOSS/data/REBASE
-		doins REBASE/embossre.{enz,ref,sup} || die \
-				"Failed to install EMBOSS data files."
-		insinto /usr/share/EMBOSS/data
-		doins REBASE/embossre.equ \
-				|| die "Failed to install enzyme prototypes file."
-	fi
-}
diff --git a/sci-biology/rebase/rebase-808.ebuild b/sci-biology/rebase/rebase-808.ebuild
deleted file mode 100644
index f0c9ca09d672..000000000000
--- a/sci-biology/rebase/rebase-808.ebuild
+++ /dev/null
@@ -1,44 +0,0 @@
-# Copyright 1999-2008 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/rebase/rebase-808.ebuild,v 1.1 2008/08/27 14:58:50 ribosome Exp $
-
-DESCRIPTION="A restriction enzyme database"
-LICENSE="public-domain"
-HOMEPAGE="http://rebase.neb.com"
-SRC_URI="mirror://gentoo/${P}.tar.bz2"
-
-SLOT="0"
-# Minimal build keeps only the indexed files (if applicable) and the
-# documentation. The non-indexed database is not installed.
-IUSE="emboss minimal"
-KEYWORDS="~amd64 ~ppc ~ppc64 ~sparc ~x86"
-
-DEPEND="emboss? ( >=sci-biology/emboss-5.0.0 )"
-
-src_compile() {
-	if use emboss; then
-		echo; einfo "Indexing Rebase for usage with EMBOSS."
-		mkdir REBASE
-		EMBOSS_DATA="." rebaseextract -auto -infile withrefm.${PV} \
-				-protofile proto.${PV} -equivalences \
-				|| die "Indexing Rebase failed."
-		echo
-	fi
-}
-
-src_install() {
-	if ! use minimal; then
-		insinto /usr/share/${PN}
-		doins withrefm.${PV} proto.${PV} || die \
-				"Failed to install raw database."
-	fi
-	newdoc REBASE.DOC README || die "Failed to install documentation."
-	if use emboss; then
-		insinto /usr/share/EMBOSS/data/REBASE
-		doins REBASE/embossre.{enz,ref,sup} || die \
-				"Failed to install EMBOSS data files."
-		insinto /usr/share/EMBOSS/data
-		doins REBASE/embossre.equ \
-				|| die "Failed to install enzyme prototypes file."
-	fi
-}
diff --git a/sci-biology/rebase/rebase-707.ebuild b/sci-biology/rebase/rebase-905.ebuild
index 3602affd4b3b..02512cfaa604 100644
--- a/sci-biology/rebase/rebase-707.ebuild
+++ b/sci-biology/rebase/rebase-905.ebuild
@@ -1,11 +1,12 @@
-# Copyright 1999-2007 Gentoo Foundation
+# Copyright 1999-2009 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/rebase/rebase-707.ebuild,v 1.1 2007/07/18 00:56:28 ribosome Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/rebase/rebase-905.ebuild,v 1.1 2009/05/02 01:17:04 je_fro Exp $
 
 DESCRIPTION="A restriction enzyme database"
 LICENSE="public-domain"
 HOMEPAGE="http://rebase.neb.com"
-SRC_URI="mirror://gentoo/${P}.tar.bz2"
+#SRC_URI="mirror://gentoo/${P}.tar.bz2"
+SRC_URI="http://dev.gentooexperimental.org/~jlec/science-dist/${P}.tar.bz2"
 
 SLOT="0"
 # Minimal build keeps only the indexed files (if applicable) and the
@@ -14,6 +15,7 @@ IUSE="emboss minimal"
 KEYWORDS="~amd64 ~ppc ~ppc64 ~sparc ~x86"
 
 DEPEND="emboss? ( >=sci-biology/emboss-5.0.0 )"
+RDEPEND="${DEPEND}"
 
 src_compile() {
 	if use emboss; then
@@ -29,7 +31,7 @@ src_compile() {
 src_install() {
 	if ! use minimal; then
 		insinto /usr/share/${PN}
-		doins withrefm.${PV} proto.${PV} || die \
+		doins withrefm.${PV} proto.${PV} gcg.${PV} || die \
 				"Failed to install raw database."
 	fi
 	newdoc REBASE.DOC README || die "Failed to install documentation."