Version bump, remove old

Package-Manager: portage-2.2_rc30/cvs/Linux x86_64

6 files changed, 18 insertions, 95 deletions

diff --git a/sci-biology/infernal/Manifest b/sci-biology/infernal/Manifest
index 35173baeabab..20e01c631dfa 100644
--- a/sci-biology/infernal/Manifest
+++ b/sci-biology/infernal/Manifest
@@ -1,4 +1,4 @@
-DIST infernal.tar.gz 15032429 RMD160 3438e28ed0cd895a34d6eacc230c34f58b3f95ce SHA1 19c16b32c11fdcfd21a7ff7c5c127c0f9ead08fd SHA256 099d322c1aa1434f9a37379375f24e02cf4eceb102b12690ba1c65958a73999f
-EBUILD infernal-1.0.ebuild 824 RMD160 7456131ce610c64996ae837103b6efff665fed83 SHA1 a30750fc59fc76cc5721dec02f01a2a46a5f97c9 SHA256 8a02e8f365f88f611094cdb19d5840f3b3eb2bbb7ee41e469038cc283b345e16
-MISC ChangeLog 460 RMD160 e29df071307d4f46f9972448e01aae09788af1c1 SHA1 128c20ad89b49378f48a41429ee6da3b21e4fb88 SHA256 d404de8f00bd09a19772e82f7259c11e81fe0f439baf27158b5769a47538b19c
+DIST infernal-1.0.tar.gz 15032429 RMD160 3438e28ed0cd895a34d6eacc230c34f58b3f95ce SHA1 19c16b32c11fdcfd21a7ff7c5c127c0f9ead08fd SHA256 099d322c1aa1434f9a37379375f24e02cf4eceb102b12690ba1c65958a73999f
+EBUILD infernal-1.0.ebuild 817 RMD160 1a60a1a27bf66772e8b4d702c03670d34cf95a4f SHA1 5af02fcac039911df1d5b96a82ed2762678cbe0d SHA256 05d45e97829a5f03699e38f33dca8d95a0d998f0740c9257fada4332e276d9dc
+MISC ChangeLog 567 RMD160 42595b334a49e73b57dcdda89eb00ff36c5adcab SHA1 0759ea5b9335592512d96a82b163931cf26dcd12 SHA256 a20d6995b5b07450296db15729286573cc00fb22a2c54aaa439b253efd85e54c
 MISC metadata.xml 259 RMD160 d9d81b67d635fabd81aef8ae0edf971211ae9072 SHA1 8e32f751c67ff891fa35405a2cf6fb33752d6eb1 SHA256 541c3fbcf299d9a8ccf4132ee61f9e53a5d737cefdaa6fdc77764d8d4c7f3110
diff --git a/sci-biology/velvet/ChangeLog b/sci-biology/velvet/ChangeLog
index f31ffa15e7ce..f5dc38578daa 100644
--- a/sci-biology/velvet/ChangeLog
+++ b/sci-biology/velvet/ChangeLog
@@ -1,6 +1,12 @@
 # ChangeLog for sci-biology/velvet
 # Copyright 1999-2009 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/velvet/ChangeLog,v 1.4 2009/07/27 20:30:59 weaver Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/velvet/ChangeLog,v 1.5 2009/08/20 15:18:27 weaver Exp $
+
+*velvet-0.7.50 (20 Aug 2009)
+
+  20 Aug 2009; Andrey Kislyuk <weaver@gentoo.org> -velvet-0.7.31.ebuild,
+  -velvet-0.7.34.ebuild, -velvet-0.7.42.ebuild, +velvet-0.7.50.ebuild:
+  Version bump, remove old
 
 *velvet-0.7.47 (27 Jul 2009)
 
diff --git a/sci-biology/velvet/Manifest b/sci-biology/velvet/Manifest
index 2978688b539f..40d1a0893617 100644
--- a/sci-biology/velvet/Manifest
+++ b/sci-biology/velvet/Manifest
@@ -1,10 +1,6 @@
-DIST velvet_0.7.31.tgz 3423497 RMD160 f0d7b0c67e500417f8ecb8dd456fa5213f34d14b SHA1 f5693eefd0e9b6aace3edb9c2c9139d10d3c8449 SHA256 a1f3e20090e630aeaf76622680d1f1df53d0824dc20c7120976c53f889038430
-DIST velvet_0.7.34.tgz 3761893 RMD160 083ce77b25bfa6b63322035a018a2ee438a73eae SHA1 b2a64ccee05a73890ecad4506ace3547dbd6ccae SHA256 30e0f393f3a346bed2dc1c8fc2fd28d2cda6b76a11dded67b58a4777f1370598
-DIST velvet_0.7.42.tgz 3448763 RMD160 c8ec551994c924844be384a42a1227313c09e784 SHA1 bb25d3c4a4af864b37b9e3e486777be858d73d10 SHA256 451e859e61e02c902dabe9e7cebfc57566e58e770382ec7686f68acd5728198a
 DIST velvet_0.7.47.tgz 3451922 RMD160 252c29e0c4d9626a325c8674745cf033b9cb36d1 SHA1 36b03c51c03000ecf478a0078bc6e343000e92b6 SHA256 391610df2e730c46379216ef4c8e803b6906a09894a6c62cb89e4f863837d616
-EBUILD velvet-0.7.31.ebuild 1064 RMD160 01079600826ecda926519a44f6f86e484e56e9b6 SHA1 d3784dd2fd7165cad98d639affdbefc283b4fb1b SHA256 05e679ba5d768304b365d41640005c986baf2fc83655cedf0332691728380293
-EBUILD velvet-0.7.34.ebuild 1064 RMD160 6604b6426e6881239e66322e39b33bbc37cc9159 SHA1 1ab3a11a2fbd71b1bee9aad137093059a6f0983f SHA256 e7f657d0d9d774bd41930845c548c8016ee6c74b4f0e6341cb91e2e23677b7e1
-EBUILD velvet-0.7.42.ebuild 1056 RMD160 5ed3c5347641690c68e2657dfe7805d9d9fa7fdb SHA1 567483e45062fd9bffb2fa173ccd34e741dda52c SHA256 00de5aac80c2f7f1ba58d67fcfa12254bcf365c1b22438be65a2f41964fca675
+DIST velvet_0.7.50.tgz 3459899 RMD160 cb516e1580d121bcc4c16a3a57372b008a7a7ad0 SHA1 29e8df5acd47b3cbaed02525b9edba7c205a5816 SHA256 fb12352872cc7ef4b482731dd6c82edc199a2f6ccd53728027735deac802842c
 EBUILD velvet-0.7.47.ebuild 1056 RMD160 2e2f2a365ba67943d099973f165a258d2dd7572c SHA1 8a077af4b99fc520312dcec3f53ac98e951ff48c SHA256 96ddf35f6d7f3af0f52c1d67de26a2a919b91c9231f377e7f21ef34048859066
-MISC ChangeLog 723 RMD160 a4ba48320dbbd3fa4ea58af72f5c4fb9339a120a SHA1 d052335c1c15bbb96315fa49164632acb6c19a14 SHA256 4bdd93be7551e500bfa6e1ca6534d431c5467f7e5662f21e2854a94bdd55b516
+EBUILD velvet-0.7.50.ebuild 1145 RMD160 df35af8f2ea52700b7951daa24de167e45a50442 SHA1 ffbb71058f5858705caecb887004e43e5c4deacb SHA256 61e9f5315f8616203cc263a99acc1ab64e479af02cd6ab637bf34f7588a149cb
+MISC ChangeLog 925 RMD160 b098fa1a06bfc7b36ebf3b3c7f262833dbbfbcd9 SHA1 0962d9a9475e67f6ce8816d49def070bb68d64ba SHA256 b75bc93469c824c579455cc14b1dc99004a16100acd35ba7abac0f99196056cb
 MISC metadata.xml 259 RMD160 d9d81b67d635fabd81aef8ae0edf971211ae9072 SHA1 8e32f751c67ff891fa35405a2cf6fb33752d6eb1 SHA256 541c3fbcf299d9a8ccf4132ee61f9e53a5d737cefdaa6fdc77764d8d4c7f3110
diff --git a/sci-biology/velvet/velvet-0.7.31.ebuild b/sci-biology/velvet/velvet-0.7.31.ebuild
deleted file mode 100644
index 71e80531fd29..000000000000
--- a/sci-biology/velvet/velvet-0.7.31.ebuild
+++ /dev/null
@@ -1,40 +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/velvet/velvet-0.7.31.ebuild,v 1.1 2009/06/05 10:06:43 weaver Exp $
-
-EAPI="2"
-
-MY_P="${PN}_${PV}"
-
-DESCRIPTION="A sequence assembler for very short reads"
-HOMEPAGE="http://www.ebi.ac.uk/~zerbino/velvet/"
-SRC_URI="http://www.ebi.ac.uk/~zerbino/velvet/${MY_P}.tgz"
-
-LICENSE="GPL-2"
-SLOT="0"
-IUSE=""
-KEYWORDS="~amd64 ~x86"
-
-DEPEND=""
-RDEPEND="${DEPEND}"
-
-S="${WORKDIR}/${MY_P}"
-
-src_prepare() {
-	rm -rf "${S}"/third-party/zlib*
-	sed -i -e '/\(CFLAGS\|LDFLAGS\|Z_LIB_DIR\|Z_LIB_FILES\) *= */d' \
-		-e '1 a CFLAGS+= -Wall' -e '1 a LDFLAGS+= -lm -lz' \
-		-e '/default :/ s/zlib//' -e '/color :/ s/zlib//' \
-		"${S}"/Makefile || die
-	sed -i -e '/zlib.h/d' -e '1 i #include <zlib.h>' "${S}"/src/readSet.c || die
-}
-
-src_compile() {
-	emake -j1 || die
-	emake -j1 color || die
-}
-
-src_install() {
-	dobin velvet{g,h,g_de,h_de} third-party/layout/graph2.py third-party/afg_handling/*.pl || die
-	dodoc Manual.pdf CREDITS.txt
-}
diff --git a/sci-biology/velvet/velvet-0.7.34.ebuild b/sci-biology/velvet/velvet-0.7.34.ebuild
deleted file mode 100644
index 1caac6c8fcc8..000000000000
--- a/sci-biology/velvet/velvet-0.7.34.ebuild
+++ /dev/null
@@ -1,40 +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/velvet/velvet-0.7.34.ebuild,v 1.1 2009/06/21 14:49:00 weaver Exp $
-
-EAPI="2"
-
-MY_P="${PN}_${PV}"
-
-DESCRIPTION="A sequence assembler for very short reads"
-HOMEPAGE="http://www.ebi.ac.uk/~zerbino/velvet/"
-SRC_URI="http://www.ebi.ac.uk/~zerbino/velvet/${MY_P}.tgz"
-
-LICENSE="GPL-2"
-SLOT="0"
-IUSE=""
-KEYWORDS="~amd64 ~x86"
-
-DEPEND=""
-RDEPEND="${DEPEND}"
-
-S="${WORKDIR}/${MY_P}"
-
-src_prepare() {
-	rm -rf "${S}"/third-party/zlib*
-	sed -i -e '/\(CFLAGS\|LDFLAGS\|Z_LIB_DIR\|Z_LIB_FILES\) *= */d' \
-		-e '1 a CFLAGS+= -Wall' -e '1 a LDFLAGS+= -lm -lz' \
-		-e '/default :/ s/zlib//' -e '/color :/ s/zlib//' \
-		"${S}"/Makefile || die
-	sed -i -e '/zlib.h/d' -e '1 i #include <zlib.h>' "${S}"/src/readSet.c || die
-}
-
-src_compile() {
-	emake -j1 || die
-	emake -j1 color || die
-}
-
-src_install() {
-	dobin velvet{g,h,g_de,h_de} third-party/layout/graph2.py third-party/afg_handling/*.pl || die
-	dodoc Manual.pdf CREDITS.txt
-}
diff --git a/sci-biology/velvet/velvet-0.7.42.ebuild b/sci-biology/velvet/velvet-0.7.50.ebuild
index 3cbe310605d3..7143d138e84f 100644
--- a/sci-biology/velvet/velvet-0.7.42.ebuild
+++ b/sci-biology/velvet/velvet-0.7.50.ebuild
@@ -1,6 +1,6 @@
 # Copyright 1999-2009 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/velvet/velvet-0.7.42.ebuild,v 1.1 2009/07/08 04:12:05 weaver Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/velvet/velvet-0.7.50.ebuild,v 1.1 2009/08/20 15:18:27 weaver Exp $
 
 EAPI="2"
 
@@ -12,11 +12,11 @@ SRC_URI="http://www.ebi.ac.uk/~zerbino/velvet/${MY_P}.tgz"
 
 LICENSE="GPL-2"
 SLOT="0"
-IUSE=""
+IUSE="-doc"
 KEYWORDS="~amd64 ~x86"
 
-DEPEND=""
-RDEPEND="${DEPEND}"
+DEPEND="doc? ( virtual/latex-base )"
+RDEPEND=""
 
 S="${WORKDIR}/${MY_P}"
 
@@ -26,6 +26,7 @@ src_prepare() {
 		-e '1 a CFLAGS+= -Wall' -e '1 a LDFLAGS+= -lm -lz' \
 		-e '/default :/ s/zlib//' -e '/color :/ s/zlib//' \
 		"${S}"/Makefile || die
+	use doc || sed -i -e '/default :/ s/doc//' "${S}"/Makefile || die
 	sed -i -e '/zlib.h/d' -e '1 i #include <zlib.h>' "${S}"/src/readSet.c || die
 }