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weaver 10/05/07 20:00:24 |
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|
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Modified: ChangeLog |
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Added: wgs-assembler-6.1.ebuild |
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Removed: wgs-assembler-5.3.ebuild |
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Log: |
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Version bump |
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(Portage version: 2.2_rc67/cvs/Linux x86_64) |
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|
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Revision Changes Path |
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1.6 sci-biology/wgs-assembler/ChangeLog |
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|
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file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/wgs-assembler/ChangeLog?rev=1.6&view=markup |
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plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/wgs-assembler/ChangeLog?rev=1.6&content-type=text/plain |
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diff : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/wgs-assembler/ChangeLog?r1=1.5&r2=1.6 |
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|
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Index: ChangeLog |
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=================================================================== |
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RCS file: /var/cvsroot/gentoo-x86/sci-biology/wgs-assembler/ChangeLog,v |
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retrieving revision 1.5 |
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retrieving revision 1.6 |
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diff -u -r1.5 -r1.6 |
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--- ChangeLog 29 Mar 2010 09:42:24 -0000 1.5 |
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+++ ChangeLog 7 May 2010 20:00:24 -0000 1.6 |
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@@ -1,6 +1,12 @@ |
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# ChangeLog for sci-biology/wgs-assembler |
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# Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2 |
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-# $Header: /var/cvsroot/gentoo-x86/sci-biology/wgs-assembler/ChangeLog,v 1.5 2010/03/29 09:42:24 pacho Exp $ |
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+# $Header: /var/cvsroot/gentoo-x86/sci-biology/wgs-assembler/ChangeLog,v 1.6 2010/05/07 20:00:24 weaver Exp $ |
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+ |
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+*wgs-assembler-6.1 (07 May 2010) |
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+ |
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+ 07 May 2010; Andrey Kislyuk <weaver@g.o> -wgs-assembler-5.3.ebuild, |
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+ +wgs-assembler-6.1.ebuild: |
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+ Version bump |
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|
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29 Mar 2010; Pacho Ramos <pacho@g.o> wgs-assembler-5.4.ebuild: |
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amd64 stable, bug 298775 |
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|
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|
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|
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1.1 sci-biology/wgs-assembler/wgs-assembler-6.1.ebuild |
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|
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file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/wgs-assembler/wgs-assembler-6.1.ebuild?rev=1.1&view=markup |
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plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/wgs-assembler/wgs-assembler-6.1.ebuild?rev=1.1&content-type=text/plain |
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|
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Index: wgs-assembler-6.1.ebuild |
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=================================================================== |
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# Copyright 1999-2010 Gentoo Foundation |
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# Distributed under the terms of the GNU General Public License v2 |
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# $Header: /var/cvsroot/gentoo-x86/sci-biology/wgs-assembler/wgs-assembler-6.1.ebuild,v 1.1 2010/05/07 20:00:24 weaver Exp $ |
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|
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EAPI="2" |
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|
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inherit eutils toolchain-funcs |
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|
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DESCRIPTION="A de novo whole-genome shotgun DNA sequence assembler, also known as the Celera Assembler and CABOG" |
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HOMEPAGE="http://sourceforge.net/projects/wgs-assembler/" |
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SRC_URI="mirror://sourceforge/${PN}/wgs-${PV}.tar.bz2" |
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|
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LICENSE="GPL-2" |
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SLOT="0" |
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IUSE="" |
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KEYWORDS="~amd64 ~x86" |
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|
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DEPEND="x11-libs/libXt" |
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RDEPEND="${DEPEND} |
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app-shells/tcsh |
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dev-perl/Log-Log4perl" |
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|
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S="${WORKDIR}/wgs-${PV}" |
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|
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src_configure() { |
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sed -i -e "s/CC *= *gcc/CC = $(tc-getCC)/" \ |
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-e "s/CXX *= *g++/CXX = $(tc-getCXX)/" \ |
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"${S}"/src/c_make.as || die |
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sed -i -e "s/CC *:=.*/CC := $(tc-getCC)/" \ |
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-e "s/CXX *:=.*/CXX := $(tc-getCXX)/" \ |
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"${S}"/kmer/configure.sh || die |
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cd "${S}/kmer" |
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./configure.sh || die |
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} |
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|
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src_compile() { |
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# not really an install target |
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emake -C kmer -j1 install || die |
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emake -C src -j1 SITE_NAME=LOCAL || die |
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} |
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|
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src_install() { |
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OSTYPE=$(uname) |
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MACHTYPE=$(uname -m) |
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MACHTYPE=${MACHTYPE/x86_64/amd64} |
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MY_S="${OSTYPE}-${MACHTYPE}" |
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sed -i 's|#!/usr/local/bin/|#!/usr/bin/env |' $(find $MY_S -type f) || die |
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|
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sed -i '/sub getBinDirectory ()/ a return "/usr/bin";' ${MY_S}/bin/runCA* || die |
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sed -i '/sub getBinDirectoryShellCode ()/ a return "bin=/usr/bin\n";' ${MY_S}/bin/runCA* || die |
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sed -i '1 a use lib "/usr/share/'${PN}'/lib";' $(find $MY_S -name '*.p*') || die |
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|
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dobin kmer/${MY_S}/bin/* || die |
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insinto /usr/$(get_libdir)/${PN} |
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doins kmer/${MY_S}/lib/* || die |
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# Collisions |
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# dolib.a kmer/${MY_S}/lib/* || die |
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insinto /usr/include/${PN} |
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doins kmer/${MY_S}/include/* |
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|
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insinto /usr/share/${PN} |
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doins -r ${MY_S}/bin/spec |
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insinto /usr/share/${PN}/lib |
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doins -r ${MY_S}/bin/TIGR || die |
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rm -rf ${MY_S}/bin/{TIGR,spec} |
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dobin ${MY_S}/bin/* || die |
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dolib.a ${MY_S}/lib/* || die |
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dodoc README |
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} |
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