Version bump, drop old

Package-Manager: portage-2.2_rc86/cvs/Linux x86_64

4 files changed, 14 insertions, 73 deletions

diff --git a/sci-biology/mira/ChangeLog b/sci-biology/mira/ChangeLog
index a66ffc03fb6e..38ee796eebc2 100644
--- a/sci-biology/mira/ChangeLog
+++ b/sci-biology/mira/ChangeLog
@@ -1,6 +1,12 @@
 # ChangeLog for sci-biology/mira
 # Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/mira/ChangeLog,v 1.9 2010/06/28 21:32:20 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/mira/ChangeLog,v 1.10 2010/09/26 08:16:56 weaver Exp $
+
+*mira-3.2.0 (26 Sep 2010)
+
+  26 Sep 2010; Andrey Kislyuk <weaver@gentoo.org> -mira-3.0.0.ebuild,
+  -mira-3.0.3.ebuild, +mira-3.2.0.ebuild:
+  Version bump, drop old
 
   28 Jun 2010; Justin Lecher <jlec@gentoo.org> mira-3.0.0.ebuild,
   mira-3.0.3.ebuild, mira-3.0.5.ebuild:
diff --git a/sci-biology/mira/Manifest b/sci-biology/mira/Manifest
index 8ae3f90ff49c..77f02970e1c1 100644
--- a/sci-biology/mira/Manifest
+++ b/sci-biology/mira/Manifest
@@ -1,22 +1,8 @@
------BEGIN PGP SIGNED MESSAGE-----
-Hash: SHA1
-
 AUX mira-3.0.0-asneeded.patch 1468 RMD160 5ad66bd3a1861ef984af4fb2b527755fd8901440 SHA1 f17e537e98f77eeaaf7502894f8383dd96c588bc SHA256 17dec784921baccf2c515f7c269209b5cdeb23143b3412e8ad967e74682ee71f
-DIST mira-3.0.0.tar.bz2 7323621 RMD160 ab95d728a74b101ff49bea80bc5648fa9ebb69b8 SHA1 d736b324115d24270602cdc7066feb928869a916 SHA256 564177fb9777ecdf657640f8e7ea5d7aa0e76b35cebb882ccf77e1714d2fe21d
-DIST mira-3.0.3.tar.bz2 7170009 RMD160 fa96aded8a6b232c2e62b1f67349ac5f0dfb455e SHA1 eb8b7e19852f4f55387f6485aa07fa2298266bf2 SHA256 35194676d2414765bf9556a5d8f38f9d005df269e181df140cfaac5870c6a8fb
 DIST mira-3.0.5.tar.bz2 7132355 RMD160 206f209dec8ac32f8192160a7642e3d27a42df25 SHA1 c4659ed69e8ffe328050b985a971b81d0bf73fd2 SHA256 82da77b203b17040939a39a53b6cdf874ba39a448d68770ebf70edfc53884839
-DIST mira_3rdparty_06-03-2010.tar.bz2 26882 RMD160 78dad2e93ab436843b8e5275cde9421d84c69143 SHA1 edd1629c7f91d99d3f0f807d45e9b3997d845928 SHA256 fed4ecc77f6bc63ac96864d0e10987129f64613a461715399b24f62ae0802c65
+DIST mira-3.2.0.tar.bz2 12454646 RMD160 d079e4f1fe92e423c8c8c7530d3658ec37fd18eb SHA1 c77cb19d0af618b5d98d9a30ed83a93f23e7a743 SHA256 0cd2e9d5541046c020faecd5adbbc57a32ba15cc11a36aa5f49f51096c69d15c
 DIST mira_3rdparty_17-04-2010.tar.bz2 31296 RMD160 888a38f865963b3109d3a331604e079010b55d81 SHA1 5f2fbe3e2e1bb5c5de44d414963e57b8dbcf760c SHA256 ec2c77508d75b7c28d3d26137ab69648b1ed653af93d486245ad0e4624e332b2
-DIST mira_3rdparty_31-01-2010.tar.bz2 23314 RMD160 d1edd2281693db1f7c472390128551c7f45775ab SHA1 0add918747b1d7ff50b81df767e4839463b06f06 SHA256 8b042447e7f6f7de15166c9b667477358a9f78a6c98347bb8eddf278c8a8c50b
-EBUILD mira-3.0.0.ebuild 1494 RMD160 f8b5a22cdd044a2a80c8b2d64f789df4ae6e83ba SHA1 7ecfdae1d7c51fbcdbb52dc6fad3ad6da613f5f0 SHA256 57a0c93cd62354d09a9fcb845a5a36ca1a5e5236b8bfd6fcaffce23f8402d22a
-EBUILD mira-3.0.3.ebuild 1501 RMD160 d0a244f2dd73b38c20a92c27646d058cc605e696 SHA1 50fb7e2e068c1ba434e1cbccc11f03418b1872d5 SHA256 f7641485a1f81cf86bbd43f70d74bb171437e345529207a60d972957c0ece312
 EBUILD mira-3.0.5.ebuild 1511 RMD160 2202261d79da75665535dae8998892488bb53b62 SHA1 7e91ed3e978eb25b201a404ae027978d77c9811d SHA256 1d1d6859664999c3f6a713478184d2f941e685d6e8a057cb61618da4e0868e58
-MISC ChangeLog 1417 RMD160 227deb78aa1d56a955c1d6b6a8a59c9adf09322d SHA1 af9a08c12519808b3d862f29e192cfa48b2d9b2f SHA256 c38f1d05cba9bcec8feb83ea563ef47f0755d2ec77f17752986833dd43b2b2e5
+EBUILD mira-3.2.0.ebuild 1516 RMD160 219b6ebe2b74b36f7ba8538e7e467f93050ed8e9 SHA1 91445302a78ca9cdd3497a3ecf9ab3bf6d16029a SHA256 d6c9dec85881ac6c7bc16ed03b49e709e179abaae6b8b41ae93d53f3e3f59f94
+MISC ChangeLog 1585 RMD160 b9e96405bece35d100cdcf2e88758cf827009574 SHA1 6e8e6d14547b0dd6e413bbda757fa6c732e1abc0 SHA256 181736f9b063b2253be1f210fe4dc93e49666b100bd42439433f77786b71f815
 MISC metadata.xml 259 RMD160 d9d81b67d635fabd81aef8ae0edf971211ae9072 SHA1 8e32f751c67ff891fa35405a2cf6fb33752d6eb1 SHA256 541c3fbcf299d9a8ccf4132ee61f9e53a5d737cefdaa6fdc77764d8d4c7f3110
------BEGIN PGP SIGNATURE-----
-Version: GnuPG v2.0.15 (GNU/Linux)
-
-iEYEARECAAYFAkwpFOsACgkQgAnW8HDreRYhLwCfUNfi1igrzpXHenb6sGr1OQ4A
-axQAn1qfv1lTa+fQYTFqpwQyLXUrIr6f
-=TaCS
------END PGP SIGNATURE-----
diff --git a/sci-biology/mira/mira-3.0.0.ebuild b/sci-biology/mira/mira-3.0.0.ebuild
deleted file mode 100644
index 3e2c7b2a8e47..000000000000
--- a/sci-biology/mira/mira-3.0.0.ebuild
+++ /dev/null
@@ -1,51 +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/mira/mira-3.0.0.ebuild,v 1.5 2010/06/28 21:32:20 jlec Exp $
-
-EAPI="3"
-
-MIRA_3RDPARTY_PV="31-01-2010"
-
-inherit autotools base multilib
-
-DESCRIPTION="Whole Genome Shotgun and EST Sequence Assembler for Sanger, 454 and Solexa / Illumina"
-HOMEPAGE="http://www.chevreux.org/projects_mira.html"
-SRC_URI="mirror://sourceforge/mira-assembler/${P}.tar.bz2
-	mirror://sourceforge/mira-assembler/mira_3rdparty_${MIRA_3RDPARTY_PV}.tar.bz2"
-
-LICENSE="GPL-2"
-SLOT="0"
-IUSE="doc"
-KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux ~x86-macos"
-
-CDEPEND=">=dev-libs/boost-1.35.0"
-DEPEND="${CDEPEND}
-	dev-libs/expat
-	doc? ( >=app-text/texlive-core-2009 )"
-RDEPEND="${CDEPEND}"
-
-src_prepare() {
-	find -name 'configure*' -or -name 'Makefile*' | xargs sed -i 's/flex++/flex -+/' || die
-	epatch "${FILESDIR}"/${P}-asneeded.patch
-	AT_M4DIR="config/m4" eautoreconf
-}
-
-src_configure() {
-	econf \
-		--with-boost="${EPREFIX}"/usr/$(get_libdir) \
-		--with-boost-libdir="${EPREFIX}"/usr/$(get_libdir) \
-		--with-boost-thread=boost_thread-mt
-}
-
-src_compile() {
-	base_src_compile
-	if use doc; then emake -C doc clean docs || die; fi
-}
-
-src_install() {
-	einstall || die
-	dodoc AUTHORS GETTING_STARTED NEWS README* HELP_WANTED THANKS INSTALL
-	find doc/docs/man -type f | xargs doman
-	find doc/docs/texinfo -type f | xargs doinfo
-	dobin "${WORKDIR}"/3rdparty/{sff_extract,*.pl}
-}
diff --git a/sci-biology/mira/mira-3.0.3.ebuild b/sci-biology/mira/mira-3.2.0.ebuild
index e4c046f191e3..792894fb38f8 100644
--- a/sci-biology/mira/mira-3.0.3.ebuild
+++ b/sci-biology/mira/mira-3.2.0.ebuild
@@ -1,10 +1,10 @@
 # Copyright 1999-2010 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/mira/mira-3.0.3.ebuild,v 1.2 2010/06/28 21:32:20 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/mira/mira-3.2.0.ebuild,v 1.1 2010/09/26 08:16:56 weaver Exp $
 
 EAPI="3"
 
-MIRA_3RDPARTY_PV="06-03-2010"
+MIRA_3RDPARTY_PV="17-04-2010"
 
 inherit autotools base multilib
 
@@ -18,7 +18,7 @@ SLOT="0"
 IUSE="doc"
 KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux ~x86-macos"
 
-CDEPEND=">=dev-libs/boost-1.35.0"
+CDEPEND=">=dev-libs/boost-1.41.0-r3"
 DEPEND="${CDEPEND}
 	dev-libs/expat
 	doc? ( >=app-text/texlive-core-2009 )"
@@ -47,5 +47,5 @@ src_install() {
 	dodoc AUTHORS GETTING_STARTED NEWS README* HELP_WANTED THANKS INSTALL
 	find doc/docs/man -type f | xargs doman
 	find doc/docs/texinfo -type f | xargs doinfo
-	dobin "${WORKDIR}"/3rdparty/{sff_extract,*.pl}
+	dobin "${WORKDIR}"/3rdparty/{sff_extract,qual2ball,*.pl}
 }