sci-biology/augustus: Drop old, fixes multiple QA issues, #454822

Package-Manager: portage-2.2.0_alpha161/cvs/Linux x86_64
Manifest-Sign-Key: 0x8009D6F070EB7916

6 files changed, 22 insertions, 127 deletions

diff --git a/sci-biology/augustus/ChangeLog b/sci-biology/augustus/ChangeLog
index 9788516d2361..6d864b40bdf3 100644
--- a/sci-biology/augustus/ChangeLog
+++ b/sci-biology/augustus/ChangeLog
@@ -1,6 +1,10 @@
 # ChangeLog for sci-biology/augustus
 # Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/augustus/ChangeLog,v 1.17 2013/01/31 18:42:11 ago Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/augustus/ChangeLog,v 1.18 2013/01/31 20:33:59 jlec Exp $
+
+  31 Jan 2013; Justin Lecher <jlec@gentoo.org> -augustus-2.3.1.ebuild,
+  -augustus-2.4.ebuild, -augustus-2.5.ebuild, metadata.xml:
+  Drop old, fixes multiple QA issues, #454822
 
   31 Jan 2013; Agostino Sarubbo <ago@gentoo.org> augustus-2.5.5.ebuild:
   Stable for x86, wrt bug #454842
diff --git a/sci-biology/augustus/Manifest b/sci-biology/augustus/Manifest
index 204e03837df6..77f4743c270a 100644
--- a/sci-biology/augustus/Manifest
+++ b/sci-biology/augustus/Manifest
@@ -1,11 +1,15 @@
+-----BEGIN PGP SIGNED MESSAGE-----
+Hash: SHA512
+
 AUX augustus-2.5.5-sane-build.patch 5271 SHA256 0e8692203f1cc994398bc639d101b2be915c4747a5d234d0d564cf0ada6e9ebc SHA512 5afe12b51b8ce27ef32e8e66dd72be451022757228b4c86dec938b26870885bee06712438a22801a42944d2def8ae8bf4a2d7fdb82e12455c145abcd6f0c4aa1 WHIRLPOOL f6bde27abe50c567a2a07ef61ce9c8033592261b26a61828eac9f6d6e74b104220a986d9bd57138b74375a747e2b9c619a49e7a6865be4de037a288b7882186b
-DIST augustus.2.3.1.src.tar.gz 27314034 SHA256 d8914deb74abe52d4a9922a3f976ca272bdf1f666f5a957ff4d011b5846690dd
-DIST augustus.2.4.src.tar.gz 34114141 SHA256 8b6667ef479458f16dc2b4763bfbe671ba1551cab6cc81fc0522d9b992da939c
 DIST augustus.2.5.5.tar.gz 70826249 SHA256 2bd97784fa651addf836e2100a7d4106b43e50fe06f13c664001d4625d0eab9a SHA512 33eb05d5c90200d2fc17026743d3a25e73aa3e217b8546f0bed4c94bcb460597d853377a67896e52e45ead5d736d13ed3b2c91b31fed8216da2920c825e8c20f WHIRLPOOL 875f56f10251767fb066b5e21b0c2361c952d5cc44daa811658be8119957ffa34fd4552fde7e17384d5bc916aee5ef91982ded3999d0077cf3834d5fc20e7f1a
-DIST augustus.2.5.tar.gz 54589077 SHA256 0b92eb4ec0242e97022a80dd2708140755556fb5d4a0f0b7334e81d033cb501f
-EBUILD augustus-2.3.1.ebuild 876 SHA256 244247921d68cfe58f377b3246ea8ec660d7a5c43eae78fee509677bee6b3a38 SHA512 f715083861f756718c665f3222ee677e4c9b786aa7913595936b80a0db6c760d915f1c0a9a6341371ef0eaee899c4a5eb4f2012015236c36b25c355bbc501f02 WHIRLPOOL 0512968823d2eae779c77d510c7e711bbe4fc7feebabf8a6ab6dafddea57058a6e93a05feb22f36806797274a6fb42b778360a35c4f3890de597b7f05206fda9
-EBUILD augustus-2.4.ebuild 1038 SHA256 f5194b9b5e2a79375fe8f41b7cd3fb918fa51d0cd668e57dd8cea872d6a2a7d9 SHA512 8c913bcbbf60ce583507332bbe47f9e4d9ed67b74c68fb942e3dacc1f123db1d3be801005bdbe113b9a48b13170e56a49bb7f656f1924b94d20826fa0bcb47bc WHIRLPOOL 0ca91b30590af258867ff40812053b382439279a93872f9f249f1f2cc26a151017439ae6d4c32ff4bd4a39ff0bcac91f287f1f1650b270a9e6192e5049f38e18
 EBUILD augustus-2.5.5.ebuild 1124 SHA256 354282f5a8ebdf4d8f1140fb2e0db501e66db457e252479dd9eeef8b81188aea SHA512 b2b4e4fd86deadc2835108d64775d1281b5ff9059da337417082a7ebd4fd7232dae8c453b821e6622c76ff46ae45e9d36bc83d3d63c03b0c11307dfd67a4e440 WHIRLPOOL 5575bce534451318dcbc314cfce62eb855e940fb033142f88e826b377857eaf732ce1f3f3bb4e8a35dafb279dd999a50c1cc1b8762c786d27a38c92a705bda0c
-EBUILD augustus-2.5.ebuild 1060 SHA256 4b81db588c24589b57fcb7ab4900ffbd7a4c9557f89274c7c5f41e9c93490541 SHA512 939974810ffcf9a94b188fa2e1c039b5b3faf703c00ae3779cae998a7ba4499ff16940e58c9dffc898abc2754633c499e07524503accf7d5665c409b1aca526e WHIRLPOOL 10f0d8a50dc6e94da649daafbb41bec7b5ff9eb35f6f6f1eb3da1e3c251b94f6bca9c207f2f041ec8cb30fb1cf09e7cd80fca36ac5eb3bdaf3e35160d03817c5
-MISC ChangeLog 2375 SHA256 57aa2b700e001b97c2aa1f25157dd8cb0842d46128f4d1edf1517ae1ce6aa5fd SHA512 6cafd736b7bac2dbdc07693d6b6d29b44d0835f271b4eed1138a47a7a1c316ce8204cc067c7f0e71b5c9f668ff1d0e088c2c21bc89c190aeac616eb2ae7c41d2 WHIRLPOOL 42b9780c87db71e5be49daebb857028ab0f149ec5d34fc5aa1febca5e451625f8893f4c55f28a25e9bc37508c50afa2f0471ff10bcf19c4dd4e6f710072f0281
-MISC metadata.xml 259 SHA256 541c3fbcf299d9a8ccf4132ee61f9e53a5d737cefdaa6fdc77764d8d4c7f3110 SHA512 c3aea4d69d75075af0108a03b7e109cfed6a1fe324f8ccbda3d4e5ca8a5070f1b24ddeb46b64787e10fd22252d867abcee1f31316d602f7e32fe3c990ae60d74 WHIRLPOOL e50da2f26fd4c908446d22da3edb595d60e61d72def374be46440358802a211fc34045b7ad970c4f94b57f7b17ff24cfe64dc94254fea20e047f1fbbbcae0c64
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+-----BEGIN PGP SIGNATURE-----
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+OeAAniZ0XeDYZ1HnjHtTKXi8NfkM9Q6U
+=ko5h
+-----END PGP SIGNATURE-----
diff --git a/sci-biology/augustus/augustus-2.3.1.ebuild b/sci-biology/augustus/augustus-2.3.1.ebuild
deleted file mode 100644
index 9790356ed4a8..000000000000
--- a/sci-biology/augustus/augustus-2.3.1.ebuild
+++ /dev/null
@@ -1,35 +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/augustus/augustus-2.3.1.ebuild,v 1.4 2011/06/23 14:58:14 jlec Exp $
-
-EAPI=2
-
-inherit base eutils
-
-DESCRIPTION="Eukaryotic gene predictor"
-HOMEPAGE="http://augustus.gobics.de/"
-SRC_URI="http://augustus.gobics.de/binaries/${PN}.${PV}.src.tar.gz"
-
-LICENSE="Artistic"
-SLOT="0"
-IUSE=""
-KEYWORDS="amd64 x86"
-
-DEPEND=""
-RDEPEND=""
-
-S="${WORKDIR}/${PN}"
-
-src_compile() {
-	emake -C src clean || die
-	emake -C src || die
-}
-
-src_install() {
-	dobin src/{augustus,etraining,consensusFinder,curve2hints} || die
-	insinto /usr/share/${PN}
-	doins -r config examples scripts docs || die
-	echo "AUGUSTUS_CONFIG_PATH=\"/usr/share/${PN}/config\"" > "${S}/99${PN}"
-	doenvd "${S}/99${PN}" || die
-	dodoc README*.TXT HISTORY.TXT retraining.html
-}
diff --git a/sci-biology/augustus/augustus-2.4.ebuild b/sci-biology/augustus/augustus-2.4.ebuild
deleted file mode 100644
index b12297409483..000000000000
--- a/sci-biology/augustus/augustus-2.4.ebuild
+++ /dev/null
@@ -1,38 +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/augustus/augustus-2.4.ebuild,v 1.7 2011/06/23 14:58:14 jlec Exp $
-
-EAPI=2
-
-inherit base eutils
-
-DESCRIPTION="Eukaryotic gene predictor"
-HOMEPAGE="http://augustus.gobics.de/"
-SRC_URI="http://augustus.gobics.de/binaries/old/${PN}.${PV}.src.tar.gz"
-
-LICENSE="Artistic"
-SLOT="0"
-IUSE=""
-KEYWORDS="amd64 x86"
-
-DEPEND=""
-RDEPEND=""
-
-src_prepare() {
-	sed -i 's/${CFLAGS}/${CFLAGS} ${LDFLAGS}/' src/Makefile || die
-	sed -i -e 's/CFLAGS :=/CFLAGS +=/' -e 's/gcc $(CFLAGS)/gcc $(CFLAGS) $(LDFLAGS)/' scripts/*/Makefile || die
-}
-
-src_compile() {
-	emake -C src clean || die
-	emake -C src || die
-}
-
-src_install() {
-	dobin src/{augustus,etraining,consensusFinder,curve2hints} || die
-	insinto /usr/share/${PN}
-	doins -r config examples scripts docs || die
-	echo "AUGUSTUS_CONFIG_PATH=\"/usr/share/${PN}/config\"" > "${S}/99${PN}"
-	doenvd "${S}/99${PN}" || die
-	dodoc README.TXT HISTORY.TXT docs/*
-}
diff --git a/sci-biology/augustus/augustus-2.5.ebuild b/sci-biology/augustus/augustus-2.5.ebuild
deleted file mode 100644
index 33db1bfc1c8c..000000000000
--- a/sci-biology/augustus/augustus-2.5.ebuild
+++ /dev/null
@@ -1,40 +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/augustus/augustus-2.5.ebuild,v 1.5 2011/06/23 14:58:14 jlec Exp $
-
-EAPI=2
-
-inherit base eutils
-
-DESCRIPTION="Eukaryotic gene predictor"
-HOMEPAGE="http://augustus.gobics.de/"
-SRC_URI="http://augustus.gobics.de/binaries/${PN}.${PV}.tar.gz"
-
-LICENSE="Artistic"
-SLOT="0"
-IUSE=""
-KEYWORDS="~amd64 ~x86"
-
-DEPEND=""
-RDEPEND=""
-
-S="${WORKDIR}/${PN}.${PV}"
-
-src_prepare() {
-	sed -i 's/${CFLAGS}/${CFLAGS} ${LDFLAGS}/' src/Makefile || die
-	sed -i -e 's/CFLAGS :=/CFLAGS +=/' -e 's/gcc $(CFLAGS)/gcc $(CFLAGS) $(LDFLAGS)/' scripts/*/Makefile || die
-}
-
-src_compile() {
-	emake -C src clean || die
-	emake -C src || die
-}
-
-src_install() {
-	dobin src/{augustus,etraining,consensusFinder,curve2hints} || die
-	insinto /usr/share/${PN}
-	doins -r config examples scripts docs || die
-	echo "AUGUSTUS_CONFIG_PATH=\"/usr/share/${PN}/config\"" > "${S}/99${PN}"
-	doenvd "${S}/99${PN}" || die
-	dodoc README.TXT HISTORY.TXT docs/*
-}
diff --git a/sci-biology/augustus/metadata.xml b/sci-biology/augustus/metadata.xml
index 3302123e5718..fc7c76942a10 100644
--- a/sci-biology/augustus/metadata.xml
+++ b/sci-biology/augustus/metadata.xml
@@ -1,9 +1,9 @@
 <?xml version="1.0" encoding="UTF-8"?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
-	<maintainer>
-		<email>weaver@gentoo.org</email>
-		<name>Andrey Kislyuk</name>
-	</maintainer>
-	<herd>sci-biology</herd>
+  <maintainer>
+    <email>weaver@gentoo.org</email>
+    <name>Andrey Kislyuk</name>
+  </maintainer>
+  <herd>sci-biology</herd>
 </pkgmetadata>