Moving to sci-biology/rebase

8 files changed, 1 insertions, 145 deletions

diff --git a/app-sci/emboss/Manifest b/app-sci/emboss/Manifest
index 525cc323471a..87e3b32a9144 100644
--- a/app-sci/emboss/Manifest
+++ b/app-sci/emboss/Manifest
@@ -1,4 +1,4 @@
-MD5 b80224fa1ee4c546562b1dbbaf0dd73c emboss-2.9.0.ebuild 1755
+MD5 02e17352ecec7dabbaa1aab84769e746 emboss-2.9.0.ebuild 1779
 MD5 1b0826c48804a608a2bb548e7c27dc93 ChangeLog 2789
 MD5 6051afb1f26bf343082490327784b958 metadata.xml 1013
 MD5 68e42b6377bb0887a0aeac76cf530854 files/digest-emboss-2.9.0 66
diff --git a/app-sci/rebase/ChangeLog b/app-sci/rebase/ChangeLog
deleted file mode 100644
index a95f1c62d644..000000000000
--- a/app-sci/rebase/ChangeLog
+++ /dev/null
@@ -1,46 +0,0 @@
-# ChangeLog for app-sci/rebase
-# Copyright 2000-2004 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/app-sci/rebase/ChangeLog,v 1.9 2004/12/19 22:46:13 ribosome Exp $
-
-  19 Dec 2004; Olivier Fisette <ribosome@gentoo.org> -rebase-409.ebuild:
-  Removed old version.
-
-*rebase-412 (13 Dec 2004)
-
-  13 Dec 2004; Olivier Fisette <ribosome@gentoo.org> rebase-411.ebuild,
-  +rebase-412.ebuild:
-  New version: 412. Added 411 to x86.
-
-  21 Nov 2004; Karol Wojtaszek <sekretarz@gentoo.org> rebase-411.ebuild:
-  Keyworded ~amd64, bug #71858
-
-*rebase-411 (30 Oct 2004)
-
-  30 Oct 2004; Olivier Fisette <ribosome@gentoo.org> -rebase-408.ebuild,
-  rebase-409.ebuild, +rebase-411.ebuild:
-  Removed obsolete version (408). Added to x86 (409). New version (411).
-
-*rebase-409 (29 Sep 2004)
-
-  29 Sep 2004; Olivier Fisette <ribosome@gentoo.org> -rebase-406.ebuild,
-  rebase-408.ebuild, +rebase-409.ebuild:
-  Added x86 to 408. New version 409. Removed old version.
-
-*rebase-408 (10 Aug 2004)
-
-  10 Aug 2004; Olivier Fisette <ribosome@gentoo.org>
-  rebase-406.ebuild:
-  Added to x86.
-  rebase-408.ebuild:
-  Updated package.
-
-  26 Jun 2004; David Holm <dholm@gentoo.org> rebase-406.ebuild:
-  Added to ~ppc.
-
-*rebase-406 (24 Jun 2004)
-
-  24 Jun 2004; Olivier Fisette <ribosome@gentoo.org>
-  rebase-406.ebuild, metadata.xml :
-  Initial import.  Ebuild submitted by Olivier Fisette <ribosome@gentoo.org>.
-  Reference: Gentoo Bugzilla, bug #45945
-
diff --git a/app-sci/rebase/Manifest b/app-sci/rebase/Manifest
deleted file mode 100644
index 0c79aa09d2ed..000000000000
--- a/app-sci/rebase/Manifest
+++ /dev/null
@@ -1,6 +0,0 @@
-MD5 f788d38f2421bc68d56ad2cad5624e21 rebase-411.ebuild 1113
-MD5 044a99402bef08d3bf89d19726c9ba8c ChangeLog 1456
-MD5 550f8d428f3e75690b43d32df6aa60cd metadata.xml 900
-MD5 72080e01161adc11af2862ed93092686 rebase-412.ebuild 1114
-MD5 04a9c29643e242bfdb170ef425f2a76e files/digest-rebase-411 63
-MD5 c4f5461dd83ed5a1176a07a0786a6af7 files/digest-rebase-412 63
diff --git a/app-sci/rebase/files/digest-rebase-411 b/app-sci/rebase/files/digest-rebase-411
deleted file mode 100644
index 28f675aa8dce..000000000000
--- a/app-sci/rebase/files/digest-rebase-411
+++ /dev/null
@@ -1 +0,0 @@
-MD5 b4fd60d7da0ce55eeba718fb5ec5718b rebase-411.tar.bz2 177467
diff --git a/app-sci/rebase/files/digest-rebase-412 b/app-sci/rebase/files/digest-rebase-412
deleted file mode 100644
index c804b8ca3654..000000000000
--- a/app-sci/rebase/files/digest-rebase-412
+++ /dev/null
@@ -1 +0,0 @@
-MD5 3bedf4f6541926e663dd84dee00c9518 rebase-412.tar.bz2 177515
diff --git a/app-sci/rebase/metadata.xml b/app-sci/rebase/metadata.xml
deleted file mode 100644
index 340b0984e467..000000000000
--- a/app-sci/rebase/metadata.xml
+++ /dev/null
@@ -1,20 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
-<pkgmetadata>
-	<maintainer>
-		<email>ribosome@gentoo.org</email>
-		<name>Olivier Fisette</name>
-	</maintainer>
-	<herd>sci</herd>
-	<longdescription>
-		The Restriction Enzyme data BASE is a collection of information about
-		restriction enzymes and related proteins. It is maintained by New
-		England Biolabs. It contains published and unpublished references,
-		recognition and cleavage sites, isoschizomers, commercial availability,
-		methylation sensitivity, crystal and sequence data. DNA
-		methyltransferases, homing endonucleases, nicking enzymes, specificity
-		subunits and control proteins are also included. More recently,
-		putative DNA methyltransferases and restriction enzymes, as predicted
-		from analysis of genomic sequences, are also listed.
-	</longdescription>
-</pkgmetadata>
diff --git a/app-sci/rebase/rebase-411.ebuild b/app-sci/rebase/rebase-411.ebuild
deleted file mode 100644
index 440a7c0b1f6e..000000000000
--- a/app-sci/rebase/rebase-411.ebuild
+++ /dev/null
@@ -1,35 +0,0 @@
-# Copyright 1999-2004 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/app-sci/rebase/rebase-411.ebuild,v 1.3 2004/12/14 00:49:03 ribosome Exp $
-
-DESCRIPTION="A restriction enzyme database"
-HOMEPAGE="http://${PN}.neb.com"
-SRC_URI="mirror://gentoo/${P}.tar.bz2"
-LICENSE="public-domain"
-
-SLOT="0"
-KEYWORDS="x86 ~ppc ~amd64"
-IUSE="no-emboss no-rawdb"
-
-src_compile() {
-	# Index the database for use with emboss if emboss is installed and
-	# the user did not explicitly request not to index the database.
-	if [ -e /usr/bin/rebaseextract ] && ! use no-emboss; then
-		einfo "Indexing ${PN} for usage with EMBOSS."
-		mkdir REBASE
-		EMBOSS_DATA=. rebaseextract -auto -infile withrefm.${PV} \
-			-protofile proto.${PV} || die "Indexing ${PN} failed."
-	fi
-}
-
-src_install() {
-	if ! use no-rawdb; then
-		insinto /usr/share/${PN}
-		doins withrefm.${PV} proto.${PV}
-	fi
-	newdoc REBASE.DOC README
-	if [ -e /usr/bin/rebaseextract ] && ! use no-emboss; then
-		insinto /usr/share/EMBOSS/data/REBASE
-		doins REBASE/{embossre.enz,embossre.ref,embossre.sup}
-	fi
-}
diff --git a/app-sci/rebase/rebase-412.ebuild b/app-sci/rebase/rebase-412.ebuild
deleted file mode 100644
index c19103618ef6..000000000000
--- a/app-sci/rebase/rebase-412.ebuild
+++ /dev/null
@@ -1,35 +0,0 @@
-# Copyright 1999-2004 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/app-sci/rebase/rebase-412.ebuild,v 1.1 2004/12/14 00:49:03 ribosome Exp $
-
-DESCRIPTION="A restriction enzyme database"
-HOMEPAGE="http://${PN}.neb.com"
-SRC_URI="mirror://gentoo/${P}.tar.bz2"
-LICENSE="public-domain"
-
-SLOT="0"
-KEYWORDS="~x86 ~ppc ~amd64"
-IUSE="no-emboss no-rawdb"
-
-src_compile() {
-	# Index the database for use with emboss if emboss is installed and
-	# the user did not explicitly request not to index the database.
-	if [ -e /usr/bin/rebaseextract ] && ! use no-emboss; then
-		einfo "Indexing ${PN} for usage with EMBOSS."
-		mkdir REBASE
-		EMBOSS_DATA=. rebaseextract -auto -infile withrefm.${PV} \
-			-protofile proto.${PV} || die "Indexing ${PN} failed."
-	fi
-}
-
-src_install() {
-	if ! use no-rawdb; then
-		insinto /usr/share/${PN}
-		doins withrefm.${PV} proto.${PV}
-	fi
-	newdoc REBASE.DOC README
-	if [ -e /usr/bin/rebaseextract ] && ! use no-emboss; then
-		insinto /usr/share/EMBOSS/data/REBASE
-		doins REBASE/{embossre.enz,embossre.ref,embossre.sup}
-	fi
-}