Version bump, drop old

Package-Manager: portage-2.2.0_alpha45/cvs/Linux x86_64

5 files changed, 49 insertions, 61 deletions

diff --git a/sci-biology/gmap/ChangeLog b/sci-biology/gmap/ChangeLog
index 5b42b51a3711..68263afbdb6c 100644
--- a/sci-biology/gmap/ChangeLog
+++ b/sci-biology/gmap/ChangeLog
@@ -1,6 +1,12 @@
 # ChangeLog for sci-biology/gmap
 # Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/gmap/ChangeLog,v 1.10 2011/09/25 21:57:32 weaver Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/gmap/ChangeLog,v 1.11 2011/10/08 22:39:22 weaver Exp $
+
+*gmap-2011.10.07 (08 Oct 2011)
+
+  08 Oct 2011; Andrey Kislyuk <weaver@gentoo.org> -gmap-2007.09.28.ebuild,
+  -gmap-2010.03.09.ebuild, +gmap-2011.10.07.ebuild:
+  Version bump, drop old
 
 *gmap-2011.09.14 (25 Sep 2011)
 
diff --git a/sci-biology/gmap/Manifest b/sci-biology/gmap/Manifest
index 383fd5455225..d96102b980b8 100644
--- a/sci-biology/gmap/Manifest
+++ b/sci-biology/gmap/Manifest
@@ -1,22 +1,20 @@
 -----BEGIN PGP SIGNED MESSAGE-----
 Hash: SHA1
 
-DIST gmap-2007-09-28.tar.gz 969056 RMD160 fa6b49190872ffddeca711c6679ab900f9893224 SHA1 fe38e2dfb58118d9ffd591147a2c411c44dd89fa SHA256 3654a59e733a2f9c343c503fc1a78a789a07b1360fe05ec3385e84a52af32f5b
-DIST gmap-gsnap-2010-03-09.tar.gz 1916935 RMD160 9e9ed3a622e9d6551d1ebc042c535ef14e89231c SHA1 cb19768cea5368b5264ae2f793305f94a7706962 SHA256 da762507e3d723ae6932a6856d44bf55d49b607a5a0e229892c664c6d91f0c77
 DIST gmap-gsnap-2010-07-27.tar.gz 1929625 RMD160 0b8817d59b0d8483dfd1c635bfaf6011c80cfd29 SHA1 25d8633c2dacc7e7b9c13100b25ff1d4662bcd69 SHA256 a001b9c82332edb9a75e98580d38756b068071a59fa3e982463b56272a58895b
 DIST gmap-gsnap-2011-03-28.tar.gz 2935148 RMD160 729b58decf574184efe3adcff26919443233b2ec SHA1 47d11f587ef288ad6eb85ac3dadc64a45ec7a11c SHA256 449126e9791168091b840df5e2e5f8f16b0c33aa4c1985520b5a96d46fcaf511
 DIST gmap-gsnap-2011-09-14.tar.gz 3367284 RMD160 b920b5a0181126e93253122738fdf20426c418fa SHA1 e348b59528c1f8a8205e996e252fcb246170c545 SHA256 dfea9700c49041c3ed73eeb86f38e61f635ca5b84b1072567023180adab3187b
-EBUILD gmap-2007.09.28.ebuild 695 RMD160 7918f6fb0ef8a999d4d11de5d4c5c723e69c4888 SHA1 8b707fdcb5e8d130ec13ca5833ccbab2a3334c61 SHA256 cbc5178d6cfd30764e34f1ce7161287cdacac9d808a1881e71c98568f911fdfc
-EBUILD gmap-2010.03.09.ebuild 622 RMD160 49ae75dcc5e1a3b73a2ea8eb4bbfd2efe318eabc SHA1 a3907110962af712f596ae73f35a6de6e0a755f5 SHA256 4cd68447228ede838e17ac2515b6b309bbe8d75c424533638cf0b518b1e73872
+DIST gmap-gsnap-2011-10-07.tar.gz 3404351 RMD160 a47f7a60fc278e9596011a8870430c379815a53d SHA1 0480c0a2c2040b0888754ad68ac4ca84d442de5c SHA256 e508009592d5dd3442345dc5ce6fd9930366e008efa32e4c72dc243a495f3f20
 EBUILD gmap-2010.07.27.ebuild 663 RMD160 c87e68fc1eff7dc88b460b58df40ec3dcf631570 SHA1 0ac8b596cd5bfac2977ffd4dfeb3348503d80269 SHA256 193df440a1e595dcac8a2e0f6a13e779d214c11fb4eff72953516bc4e0ae0557
 EBUILD gmap-2011.03.28.ebuild 765 RMD160 6a1bfe4fd09c2aa0a16ddeb33fc92fe9160f4b38 SHA1 f2a88133f322b3bf47b873f83ed6b9d167d0167b SHA256 f10febfc8a637875aecd386a08c12ceceedb37549d2ff9c67b9b18b883c8d74a
 EBUILD gmap-2011.09.14.ebuild 831 RMD160 e3db81dbc08b9b783ad9808c21c59b4649963bfe SHA1 c0c57fd73e0a098e7bb98635fe6cb8c126087d6a SHA256 da3d588ee29c751d786205309c61fe76ee95d7cb3362403bdb0a3263cc2cc58b
-MISC ChangeLog 1475 RMD160 6f833bc1f3a6aa34dbd132eadb1d7e427bebe083 SHA1 85c667f89500d22db8a4c8863a298c810d12af02 SHA256 ecf5cd607a36d3aeedb1d4cf0b3f80ce82d4d52332e5adfd5c89363b025c0b85
+EBUILD gmap-2011.10.07.ebuild 831 RMD160 939cd003858f857f70043e636aa8114048129ffa SHA1 390864472818b55eaadd91d3595c2d3cbafc2148 SHA256 c4147e11602c2e504206da0d8f8c8091b80953036a379395eb63618cb43cc5ad
+MISC ChangeLog 1660 RMD160 96a54373f1f3dd5a81da9179f5d6412aaf172c73 SHA1 9b2af30e9c9f98a4880d4b8b2a9366725bbabf03 SHA256 4049c7d0daea6880572b49c7a84284d8a23cb4c09f3b465c86827d2409bb25b6
 MISC metadata.xml 386 RMD160 a6cc3fa0c035e5685faeb01e9dea9a528464d1cf SHA1 20bfa40ebc22c3322b1acac8f91239db90bd4ebb SHA256 e0556b9727978ba0f63953e2877148239075107626cc665d75c56645432d5d60
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 Version: GnuPG v1.4.11 (GNU/Linux)
 
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-PA8AoLGCvOWG2Kqj+QPYg0jjuZxaSjGR
-=c+np
+iEYEARECAAYFAk6Q0R8ACgkQ8xSwyhbn2OagMACgnyTGz8KKyPJxE1E7wvGinlzR
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diff --git a/sci-biology/gmap/gmap-2007.09.28.ebuild b/sci-biology/gmap/gmap-2007.09.28.ebuild
deleted file mode 100644
index deb2be7163dd..000000000000
--- a/sci-biology/gmap/gmap-2007.09.28.ebuild
+++ /dev/null
@@ -1,26 +0,0 @@
-# Copyright 1999-2009 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/gmap/gmap-2007.09.28.ebuild,v 1.3 2009/03/22 16:32:22 maekke Exp $
-
-inherit versionator
-
-MY_PV=$(replace_all_version_separators '-')
-
-DESCRIPTION="A Genomic Mapping and Alignment Program for mRNA and EST Sequences"
-HOMEPAGE="http://www.gene.com/share/gmap/"
-SRC_URI="http://www.gene.com/share/gmap/src/gmap-${MY_PV}.tar.gz"
-
-LICENSE="gmap"
-SLOT="0"
-IUSE=""
-KEYWORDS="amd64 x86"
-
-DEPEND=""
-RDEPEND=""
-
-S="${WORKDIR}/gmap-${MY_PV}"
-
-src_install() {
-	emake install DESTDIR="${D}" || die "emake install failed"
-	dodoc AUTHORS ChangeLog README
-}
diff --git a/sci-biology/gmap/gmap-2010.03.09.ebuild b/sci-biology/gmap/gmap-2010.03.09.ebuild
deleted file mode 100644
index 1dcd26db992e..000000000000
--- a/sci-biology/gmap/gmap-2010.03.09.ebuild
+++ /dev/null
@@ -1,26 +0,0 @@
-# Copyright 1999-2010 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/gmap/gmap-2010.03.09.ebuild,v 1.3 2010/07/16 21:51:32 hwoarang Exp $
-
-EAPI="2"
-
-MY_PV=${PV//./-}
-
-DESCRIPTION="A Genomic Mapping and Alignment Program for mRNA and EST Sequences"
-HOMEPAGE="http://www.gene.com/share/gmap/"
-SRC_URI="http://www.gene.com/share/gmap/src/gmap-gsnap-${MY_PV}.tar.gz"
-
-LICENSE="gmap"
-SLOT="0"
-IUSE=""
-KEYWORDS="amd64 x86"
-
-DEPEND=""
-RDEPEND=""
-
-S="${WORKDIR}/gmap-${MY_PV}"
-
-src_install() {
-	einstall || die
-	dodoc AUTHORS ChangeLog README
-}
diff --git a/sci-biology/gmap/gmap-2011.10.07.ebuild b/sci-biology/gmap/gmap-2011.10.07.ebuild
new file mode 100644
index 000000000000..b7bd3d1d88ad
--- /dev/null
+++ b/sci-biology/gmap/gmap-2011.10.07.ebuild
@@ -0,0 +1,36 @@
+# Copyright 1999-2011 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/gmap/gmap-2011.10.07.ebuild,v 1.1 2011/10/08 22:39:22 weaver Exp $
+
+EAPI="2"
+
+MY_PV=${PV//./-}
+
+DESCRIPTION="A Genomic Mapping and Alignment Program for mRNA and EST Sequences"
+HOMEPAGE="http://www.gene.com/share/gmap/"
+SRC_URI="http://research-pub.gene.com/gmap/src/gmap-gsnap-${MY_PV}.tar.gz"
+
+LICENSE="gmap"
+SLOT="0"
+IUSE="+samtools +goby"
+KEYWORDS="~amd64 ~x86"
+
+DEPEND="samtools? ( sci-biology/samtools )
+	goby? ( sci-biology/goby-cpp )"
+RDEPEND="${DEPEND}"
+
+S="${WORKDIR}/gmap-${MY_PV}"
+
+src_configure() {
+	econf $(use_with samtools) \
+		$(use_with goby goby /usr)
+}
+
+src_install() {
+	einstall || die
+	dodoc AUTHORS ChangeLog README
+}
+
+src_test() {
+	emake check || die
+}