Version bump

Package-Manager: portage-2.2.0_alpha74/cvs/Linux x86_64

3 files changed, 90 insertions, 3 deletions

diff --git a/sci-biology/wgs-assembler/ChangeLog b/sci-biology/wgs-assembler/ChangeLog
index 02a3263bcd64..59f24db3285d 100644
--- a/sci-biology/wgs-assembler/ChangeLog
+++ b/sci-biology/wgs-assembler/ChangeLog
@@ -1,6 +1,11 @@
 # ChangeLog for sci-biology/wgs-assembler
-# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/wgs-assembler/ChangeLog,v 1.8 2011/03/20 20:19:27 weaver Exp $
+# Copyright 1999-2012 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/wgs-assembler/ChangeLog,v 1.9 2012/02/06 09:12:38 weaver Exp $
+
+*wgs-assembler-7.0 (06 Feb 2012)
+
+  06 Feb 2012; Andrey Kislyuk <weaver@gentoo.org> +wgs-assembler-7.0.ebuild:
+  Version bump
 
   20 Mar 2011; Andrey Kislyuk <weaver@gentoo.org> wgs-assembler-5.4.ebuild,
   wgs-assembler-6.1.ebuild:
diff --git a/sci-biology/wgs-assembler/Manifest b/sci-biology/wgs-assembler/Manifest
index 7f655afa0d9d..d915b6ff3170 100644
--- a/sci-biology/wgs-assembler/Manifest
+++ b/sci-biology/wgs-assembler/Manifest
@@ -1,6 +1,18 @@
+-----BEGIN PGP SIGNED MESSAGE-----
+Hash: SHA1
+
 DIST wgs-5.4.tar.bz2 1876180 RMD160 1f8a82f7523509ef271c7e99d560f68367ab16a1 SHA1 2dbc316c8307181246a22d622c824885be373333 SHA256 698b22bd63fa2bb4fe7f164a92c92f82474bc8fc64c37704258ebb3bdc86d7bf
 DIST wgs-6.1.tar.bz2 1900084 RMD160 2b5b6df38d02da83cad630059cbbe798ea669a58 SHA1 d29401223a0b2e1a65b6f9db40441ad41e2d10ec SHA256 e00c1b64e857ea01f7e9a9f115dd91e290a380ccda217dd6a386f57754a3cff8
+DIST wgs-7.0.tar.bz2 1952253 RMD160 3139986af5390f0f2002fc0b8c12a7fc51e96757 SHA1 a5148b73040d94d80ed48df57b61f6d64504f1b4 SHA256 fee425cf2ec6aec6e98d580cc7e43b53eb37abd7ca14e3edc1f953d2c09b3a6c
 EBUILD wgs-assembler-5.4.ebuild 2010 RMD160 f59d580a891e0db214a81f35ae52706b011fb474 SHA1 2a3bda4686bc0d6f3bb75a79457c2d9142397f6f SHA256 b35743c719a04bb64e74a14994206b1d38acb3908e35f9fe1d686aca03ba64a0
 EBUILD wgs-assembler-6.1.ebuild 2011 RMD160 b05616deab49b204c07b1deacbe51267e8778d2e SHA1 4c3950949cac9156366962c379582e25b6babd4e SHA256 ca1335800b5c37c702c00b930b0a28b48fc47383363e3b0f573a48abfeeae6f0
-MISC ChangeLog 1342 RMD160 e394c46daba0ebba5c40129c0f2ae74f7a62f926 SHA1 4d40898ca07a83e440cadf125ffbf80c967dfd73 SHA256 1c4fefb87605fc7674971f427a6e860b1db091238bc06c2229c9a7689f69a32d
+EBUILD wgs-assembler-7.0.ebuild 2012 RMD160 903b1eaf9bbf15b206b65ca3a4cfda1b51dbb466 SHA1 7110785a74c1391cf602c095b323b14c4e09567d SHA256 6a9b7459f525bbb7efe35ff4f68f12ae1f3042e1220405bbf9256462ef4e38ea
+MISC ChangeLog 1469 RMD160 40c538535bff82f96cb82911f3087c25a3339876 SHA1 d2f5a491ce92463cb11e263b8e8a93b6836858ba SHA256 7c7b71c07a9dd9d1ca16782feab1d4269daf1cb05d7985ab04da56d1478947cd
 MISC metadata.xml 259 RMD160 d9d81b67d635fabd81aef8ae0edf971211ae9072 SHA1 8e32f751c67ff891fa35405a2cf6fb33752d6eb1 SHA256 541c3fbcf299d9a8ccf4132ee61f9e53a5d737cefdaa6fdc77764d8d4c7f3110
+-----BEGIN PGP SIGNATURE-----
+Version: GnuPG v1.4.11 (GNU/Linux)
+
+iEYEARECAAYFAk8vmYsACgkQ8xSwyhbn2OYYtQCdHaFXQjhj4zZHVRIe4qzxwqqe
+CwAAnRPEpLcP8s/RqU9ZuBa9cxBBO4YF
+=3IXX
+-----END PGP SIGNATURE-----
diff --git a/sci-biology/wgs-assembler/wgs-assembler-7.0.ebuild b/sci-biology/wgs-assembler/wgs-assembler-7.0.ebuild
new file mode 100644
index 000000000000..ddb80f0c3b09
--- /dev/null
+++ b/sci-biology/wgs-assembler/wgs-assembler-7.0.ebuild
@@ -0,0 +1,70 @@
+# Copyright 1999-2012 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/wgs-assembler/wgs-assembler-7.0.ebuild,v 1.1 2012/02/06 09:12:38 weaver Exp $
+
+EAPI="2"
+
+inherit eutils toolchain-funcs
+
+DESCRIPTION="A de novo whole-genome shotgun DNA sequence assembler, also known as the Celera Assembler and CABOG"
+HOMEPAGE="http://sourceforge.net/projects/wgs-assembler/"
+SRC_URI="mirror://sourceforge/${PN}/wgs-${PV}.tar.bz2"
+
+LICENSE="GPL-2"
+SLOT="0"
+IUSE=""
+KEYWORDS="~amd64 ~x86"
+
+DEPEND="x11-libs/libXt
+	!x11-terms/terminator"
+RDEPEND="${DEPEND}
+	app-shells/tcsh
+	dev-perl/Log-Log4perl"
+
+S="${WORKDIR}/wgs-${PV}"
+
+src_configure() {
+	sed -i -e "s/CC *= *gcc/CC = $(tc-getCC)/" \
+		-e "s/CXX *= *g++/CXX = $(tc-getCXX)/" \
+		"${S}"/src/c_make.as || die
+	sed -i -e "s/CC *:=.*/CC := $(tc-getCC)/" \
+		-e "s/CXX *:=.*/CXX := $(tc-getCXX)/" \
+		"${S}"/kmer/configure.sh || die
+	cd "${S}/kmer"
+	./configure.sh || die
+}
+
+src_compile() {
+	# not really an install target
+	emake -C kmer -j1 install || die
+	emake -C src -j1 SITE_NAME=LOCAL || die
+}
+
+src_install() {
+	OSTYPE=$(uname)
+	MACHTYPE=$(uname -m)
+	MACHTYPE=${MACHTYPE/x86_64/amd64}
+	MY_S="${OSTYPE}-${MACHTYPE}"
+	sed -i 's|#!/usr/local/bin/|#!/usr/bin/env |' $(find $MY_S -type f) || die
+
+	sed -i '/sub getBinDirectory ()/ a return "/usr/bin";' ${MY_S}/bin/runCA* || die
+	sed -i '/sub getBinDirectoryShellCode ()/ a return "bin=/usr/bin\n";' ${MY_S}/bin/runCA* || die
+	sed -i '1 a use lib "/usr/share/'${PN}'/lib";' $(find $MY_S -name '*.p*') || die
+
+	dobin kmer/${MY_S}/bin/* || die
+	insinto /usr/$(get_libdir)/${PN}
+	doins kmer/${MY_S}/lib/* || die
+	# Collisions
+	# dolib.a kmer/${MY_S}/lib/* || die
+	insinto /usr/include/${PN}
+	doins kmer/${MY_S}/include/*
+
+	insinto /usr/share/${PN}
+	doins -r ${MY_S}/bin/spec
+	insinto /usr/share/${PN}/lib
+	doins -r ${MY_S}/bin/TIGR || die
+	rm -rf ${MY_S}/bin/{TIGR,spec}
+	dobin ${MY_S}/bin/* || die
+	dolib.a ${MY_S}/lib/* || die
+	dodoc README
+}