Version Bump, cleaned old

Package-Manager: portage-2.2.0_alpha26/cvs/Linux x86_64

6 files changed, 53 insertions, 67 deletions

diff --git a/sci-biology/emboss/Manifest b/sci-biology/emboss/Manifest
index cad74554c3c8..6b7541371fbd 100644
--- a/sci-biology/emboss/Manifest
+++ b/sci-biology/emboss/Manifest
@@ -1,3 +1,6 @@
+-----BEGIN PGP SIGNED MESSAGE-----
+Hash: SHA1
+
 AUX 22emboss 110 RMD160 aa416dbfca66cc7822ed162122addadde2756c66 SHA1 c77b477bfdf0e77de4f29794e4fb2e7592557e48 SHA256 cf3bd3b8d2638a0cd14e57839033d63c855114a0e12883bbc7a5106b0cfc01ad
 AUX 6.3.1_p4-unbundle-libs.patch 18988 RMD160 0ecaec78052d8c302717113f4883316db84ba49c SHA1 8d10d947492eea2f338313f3e4c8faabfac747c7 SHA256 1f6170a8f4182792d145fd21b6b23d817ea9f5ea39ba77721947ae67a6b6927d
 AUX README.Gentoo 1326 RMD160 bfaa4d7d1218d3bd4ea58d54d000da7f58b6bca6 SHA1 8cf13b8aa23c11f0af2aae06916970bf9d8a441f SHA256 33b517b977cc85824847bd6cf4113489a5554fb014f1a6b1d22d6f80c3487e9f
@@ -13,6 +16,13 @@ EBUILD emboss-4.0.0.ebuild 2943 RMD160 e94ec339e02049bc7ae895e1a586765fb8ae9a96
 EBUILD emboss-6.0.1.ebuild 3459 RMD160 52a809bfb149f18a305bcbbf746a7c428ca8f596 SHA1 586eb30b145c454f8f307b03151db7094a7b6e23 SHA256 c0f40eb3ee342fb2d3e32bd50d0d1ea521c6bcfbb13873ea1c13f5e1d7254e98
 EBUILD emboss-6.1.0-r1.ebuild 3693 RMD160 68fb935b14ee489955bfb1dcdda8eab94380194e SHA1 71c9e486fa7830c15d73317fcd45fc2c7f9f9ec0 SHA256 0cbfb11175d4836140ba4ff045046ba64637f623d2d25275bc70835fa8185d48
 EBUILD emboss-6.1.0.ebuild 3683 RMD160 0b4a09bdcab9b32a8cb7bd63fcfc11319d732acf SHA1 98d1e1c30ecff93ec73c26d0499416fa7087f54a SHA256 a9b5e8993201a7a4019cc7c4bb3dfff73a0e11168242a05969298220c23c8b9c
-EBUILD emboss-6.3.1_p4.ebuild 3527 RMD160 97f214d66ab0a60c3749ab6b0b9543cb08f51998 SHA1 cc933d06b7a3d1270405c7181eeccd743fe9cfbc SHA256 75fb116235a13c9cc93ed81883da15d3477e97d788b96ca2a4e5f7bab3e4f1c1
-MISC ChangeLog 10800 RMD160 0dad1c8b5d4a6fd810e0d82341e55c85a07f767f SHA1 0249c44bd922783852c0145f6dd9eeb87c5b360e SHA256 de18a513b10d7f4ba5b5c6463f44e9109946c0985fdf57503b95a9f27c3c8c81
-MISC metadata.xml 993 RMD160 3204ba9b28338878f0068a8ab5ca7ac6134ce154 SHA1 1bff78caf4aedfc122f0fb01cea4681cf7f3f62e SHA256 1d85e05e979f1657baffabec8dd148786a0cb2eb6b3c0948068290ff877cee2a
+EBUILD emboss-6.3.1_p4.ebuild 3498 RMD160 deabfb1c06f2b11e2b53b0417cf3921bace9bc46 SHA1 d4eba199ea0f02f5491d7f55dc8ce56b7309e764 SHA256 910c57dbaf873904611f2d9d1deb0da706d16b7e95628fce23c7627a15b69513
+MISC ChangeLog 10934 RMD160 48117a820a4b96d4a119ef05ebf489b26dc67119 SHA1 a40d8f3cb3a441aac98ce09116f319f3b0150ece SHA256 20d1c1001b5b1867a6784f3a704e0c9aed5845088fd932f8acb54990eb22db89
+MISC metadata.xml 924 RMD160 0012a7f8446b6e3ade6b18e2b015bfb80c546712 SHA1 3d47f955e2c7e10fe71ba427c19cc51000990caf SHA256 9a25a29f9ad98792903c439ad7dd4ec485e44e60e23beaf1fa4c209ea89be49b
+-----BEGIN PGP SIGNATURE-----
+Version: GnuPG v2.0.17 (GNU/Linux)
+
+iEYEARECAAYFAk15ydMACgkQgAnW8HDreRbvrQCdG3WrmZf2oCvV8fkxiDTqH5M7
+z3QAn38qejLgjpYTuJTKJnp+wflzI2R0
+=euCX
+-----END PGP SIGNATURE-----
diff --git a/sci-biology/rebase/ChangeLog b/sci-biology/rebase/ChangeLog
index ebcfe81d4b38..7ad91b7ce412 100644
--- a/sci-biology/rebase/ChangeLog
+++ b/sci-biology/rebase/ChangeLog
@@ -1,6 +1,12 @@
 # ChangeLog for sci-biology/rebase
 # Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/rebase/ChangeLog,v 1.101 2011/03/09 19:01:35 armin76 Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/rebase/ChangeLog,v 1.102 2011/03/11 07:04:22 jlec Exp $
+
+*rebase-1103 (11 Mar 2011)
+
+  11 Mar 2011; Justin Lecher <jlec@gentoo.org> -rebase-610.ebuild,
+  -rebase-905.ebuild, rebase-1006.ebuild, +rebase-1103.ebuild:
+  Version Bump, cleaned old
 
   09 Mar 2011; Raúl Porcel <armin76@gentoo.org> rebase-610.ebuild,
   rebase-905.ebuild, rebase-1006.ebuild:
diff --git a/sci-biology/rebase/Manifest b/sci-biology/rebase/Manifest
index 9b345afcd11d..39796a11e2ec 100644
--- a/sci-biology/rebase/Manifest
+++ b/sci-biology/rebase/Manifest
@@ -1,8 +1,16 @@
+-----BEGIN PGP SIGNED MESSAGE-----
+Hash: SHA1
+
 DIST rebase-1006.tar.xz 21163928 RMD160 98fd3a9d8a82a663e420fc2948de0280b44d0f1c SHA1 095b8030cb5ab47d2e519ce5f7046eeef0522e3d SHA256 9d5dd0429f4000cd0a4a96a9631d48eeea8fd4e6868b344a4e636cc43e1c7fdd
-DIST rebase-610.tar.bz2 183836 RMD160 f39b66acd481383f4b2dda932ad42d902bd23d34 SHA1 cd41f1e446139e0615179561b096b8f3ce5a9589 SHA256 f558655b399ab51cbfdf7bc3982025a7af66484528453360742bd45eac85b61d
-DIST rebase-905.tar.bz2 202327 RMD160 1a279af4eb6b1d8e24c38d4bd6535b9f6f2e78c4 SHA1 71cc979bf44c7ccdea6cddb70fa82b2d06492ad0 SHA256 74f67c880ca27d05d514ae7fbef84c32086c2dbbebcfa5542c79b748afb889a6
-EBUILD rebase-1006.ebuild 1530 RMD160 0f2bb3314f17aecaef7ffac99ee181c243935007 SHA1 78b97999a199c247aacb74f9d5b194baa6bdfde7 SHA256 239ae3af95626b928c752fae609737967612e09f2757de040561ae13a5a677cd
-EBUILD rebase-610.ebuild 1376 RMD160 ca896b8b9c57216aecdf90a0e045199b4a0fdcc5 SHA1 80e691dfeb13be4cf4e0421ae370d3bdfc57870e SHA256 96faaa68667a1794bea37adc3f1a920fc0aaf874f97119e56456075bb0ffc09c
-EBUILD rebase-905.ebuild 1421 RMD160 a2058ab7cff48314e9630cc13a7122f914a58511 SHA1 a00f3acdff0821c09d72263ace46dcb46980cf04 SHA256 c0a6f516a95e80413706a83c7ece4758b97d9d69fd18284ade6bbb1b2b4863f4
-MISC ChangeLog 13320 RMD160 8a6071b1a4e4e34f960c00cda76967ba47334ff2 SHA1 7caf8f100d140b4feb7c51ad9c3280f6f01a9a04 SHA256 d2581928b5cb0ab0d2e44ff420ad21b2abf39a912b9c2ec2800229d196b09012
+DIST rebase-1103.tar.xz 18171976 RMD160 8d96576b56112ebe90a8bf4e8f5a45164573e9f5 SHA1 02bc451d06c4b821b13d4ee4e9fcecc0bc59e2a5 SHA256 241b8ee9e8840b33545996e39529e9ec1cf54723f5c599a050907da8f5f837cf
+EBUILD rebase-1006.ebuild 1508 RMD160 5ce7f179e01935bb02605e545b9f5484c2cac0fc SHA1 e13678167b2e6d6dace889133fcd93ce93082c48 SHA256 439ee7b7f5505d085feb28d39aab5b46f7ef51d67439c6d509a3242079bd4527
+EBUILD rebase-1103.ebuild 1565 RMD160 0e4e4761845b67721cbff8702691dc0863aaf8cc SHA1 d949baf0e584399fdaf3ebf46d00d011c363c3c2 SHA256 89653974413b5b4b5a5c9bad51df656923ca61a82909cdc55bbdb34475077a18
+MISC ChangeLog 13504 RMD160 3d53c4c8093563914cf9b659b5c3e5b4f2278cbb SHA1 b566ba52a16897ea449a0b2f9d6cd1cafa77c93d SHA256 69cb94087ce530b10cc14395ecc801e6bf960296f31521872f1c7278aec3c029
 MISC metadata.xml 811 RMD160 f1dd0a77488312defebf403ac55aa57e4d15bcdc SHA1 6fefbf2aa855c5aba0ff15dfb9c3ea90bd104482 SHA256 65603e5b252a8afc1f9e2a5db69d8dcac525f6dc669cbe1eb23bc47624c8bde2
+-----BEGIN PGP SIGNATURE-----
+Version: GnuPG v2.0.17 (GNU/Linux)
+
+iEYEARECAAYFAk15yXsACgkQgAnW8HDreRZjtACbB5mogiNq//ighZRdNbMuO4/o
+QD8AoKuC/KopG/4nCy6L1uMXdXN0gcON
+=kcjF
+-----END PGP SIGNATURE-----
diff --git a/sci-biology/rebase/rebase-1006.ebuild b/sci-biology/rebase/rebase-1006.ebuild
index 82a49b263514..95336c8a9898 100644
--- a/sci-biology/rebase/rebase-1006.ebuild
+++ b/sci-biology/rebase/rebase-1006.ebuild
@@ -1,13 +1,12 @@
 # Copyright 1999-2011 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/rebase/rebase-1006.ebuild,v 1.8 2011/03/09 19:01:35 armin76 Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/rebase/rebase-1006.ebuild,v 1.9 2011/03/11 07:04:21 jlec Exp $
 
 EAPI="3"
 
 MY_PV=${PV#1}
 
 DESCRIPTION="A restriction enzyme database"
-LICENSE="public-domain"
 HOMEPAGE="http://rebase.neb.com"
 SRC_URI="mirror://gentoo/${P}.tar.xz"
 
@@ -16,10 +15,10 @@ SLOT="0"
 # documentation. The non-indexed database is not installed.
 IUSE="emboss minimal"
 KEYWORDS="amd64 ppc ppc64 x86 ~amd64-linux ~x86-linux ~ppc-macos ~sparc-solaris ~x86-solaris"
+LICENSE="public-domain"
 
 RDEPEND="emboss? ( >=sci-biology/emboss-5.0.0 )"
-DEPEND="${RDEPEND}
-	app-arch/xz-utils"
+DEPEND="${RDEPEND}"
 
 RESTRICT="binchecks strip"
 
diff --git a/sci-biology/rebase/rebase-905.ebuild b/sci-biology/rebase/rebase-1103.ebuild
index 901251d22cc5..fc7a992d1b14 100644
--- a/sci-biology/rebase/rebase-905.ebuild
+++ b/sci-biology/rebase/rebase-1103.ebuild
@@ -1,28 +1,35 @@
 # Copyright 1999-2011 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/rebase/rebase-905.ebuild,v 1.5 2011/03/09 19:01:35 armin76 Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/rebase/rebase-1103.ebuild,v 1.1 2011/03/11 07:04:22 jlec Exp $
+
+EAPI="3"
+
+MY_PV=${PV#1}
 
 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.xz
+	http://dev.gentoo.org/~jlec/distfiles/${P}.tar.xz"
 
 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 x86"
+LICENSE="public-domain"
+KEYWORDS="~amd64 ~ppc ~ppc64 ~x86 ~amd64-linux ~x86-linux ~ppc-macos ~sparc-solaris ~x86-solaris"
 
-DEPEND="emboss? ( >=sci-biology/emboss-5.0.0 )"
-RDEPEND="${DEPEND}"
+RDEPEND="emboss? ( >=sci-biology/emboss-5.0.0 )"
+DEPEND="${RDEPEND}"
 
 RESTRICT="binchecks strip"
+
 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 \
+		EMBOSS_DATA="." rebaseextract -auto -infile withrefm.${MY_PV} \
+				-protofile proto.${MY_PV} -equivalences \
 				|| die "Indexing Rebase failed."
 		echo
 	fi
@@ -31,7 +38,7 @@ src_compile() {
 src_install() {
 	if ! use minimal; then
 		insinto /usr/share/${PN}
-		doins withrefm.${PV} proto.${PV} gcg.${PV} || die \
+		doins withrefm.${MY_PV} proto.${MY_PV} || die \
 				"Failed to install raw database."
 	fi
 	newdoc REBASE.DOC README || die "Failed to install documentation."
diff --git a/sci-biology/rebase/rebase-610.ebuild b/sci-biology/rebase/rebase-610.ebuild
deleted file mode 100644
index 5d129a9ff990..000000000000
--- a/sci-biology/rebase/rebase-610.ebuild
+++ /dev/null
@@ -1,44 +0,0 @@
-# Copyright 1999-2011 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 1.9 2011/03/09 19:01:35 armin76 Exp $
-
-DESCRIPTION="A restriction enzyme database"
-LICENSE="public-domain"
-HOMEPAGE="http://rebase.neb.com"
-SRC_URI="mirror://gentoo/${P}.tar.bz2"
-
-SLOT="0"
-# Minimal build keeps only the indexed files (if applicable) and the
-# documentation. The non-indexed database is not installed.
-IUSE="emboss minimal"
-KEYWORDS="amd64 ppc ppc64 x86"
-
-DEPEND="emboss? ( >=sci-biology/emboss-3.0.0-r1 )"
-RDEPEND="${DEPEND}"
-
-RESTRICT="binchecks strip"
-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} || 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 embossre.equ || die "Failed to install enzyme prototypes file."
-	fi
-}