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weaver 08/09/07 13:11:14 |
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Added: metadata.xml Manifest glimmerhmm-3.0.1.ebuild |
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ChangeLog |
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Log: |
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Import from science overlay |
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(Portage version: 2.2_rc8/cvs/Linux 2.6.26-tuxonice i686) |
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Revision Changes Path |
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1.1 sci-biology/glimmerhmm/metadata.xml |
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file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmerhmm/metadata.xml?rev=1.1&view=markup |
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plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmerhmm/metadata.xml?rev=1.1&content-type=text/plain |
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Index: metadata.xml |
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=================================================================== |
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<?xml version="1.0" encoding="UTF-8"?> |
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<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
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<pkgmetadata> |
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<maintainer> |
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<email>weaver@g.o</email> |
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<name>Andrey Kislyuk</name> |
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</maintainer> |
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<herd>sci-biology</herd> |
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</pkgmetadata> |
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1.1 sci-biology/glimmerhmm/Manifest |
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file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmerhmm/Manifest?rev=1.1&view=markup |
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plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmerhmm/Manifest?rev=1.1&content-type=text/plain |
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Index: Manifest |
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=================================================================== |
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DIST GlimmerHMM-3.0.1.tar.gz 45475952 RMD160 273cb74458e3f444cd9f8ca9f6618335aea5465f SHA1 6caf10a3fb79660e48d88560869dee0394961f1a SHA256 c956838a398483003ff1af867c65aca082b82340d8b302b9ada77d1b246954e4 |
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EBUILD glimmerhmm-3.0.1.ebuild 1256 RMD160 049d1518fd52df807711eb0f1f6ea786b0a28810 SHA1 b2ba513811da89a032bf458d7e59a76a27247259 SHA256 e7b5d7d8552b3815c3494691f09fcbeef3211087947e79a30187a375ca53da2e |
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MISC ChangeLog 272 RMD160 9973a96edc8f75ca7d4e6122a7d6d5193b1fab95 SHA1 b0260de4de4510a34c289951d241e1406e3a58d3 SHA256 1524f8b5953a9a63c4223b6aeb5a8734016126346dad13e11386d9ab30d1ef03 |
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MISC metadata.xml 259 RMD160 d9d81b67d635fabd81aef8ae0edf971211ae9072 SHA1 8e32f751c67ff891fa35405a2cf6fb33752d6eb1 SHA256 541c3fbcf299d9a8ccf4132ee61f9e53a5d737cefdaa6fdc77764d8d4c7f3110 |
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1.1 sci-biology/glimmerhmm/glimmerhmm-3.0.1.ebuild |
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file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmerhmm/glimmerhmm-3.0.1.ebuild?rev=1.1&view=markup |
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plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmerhmm/glimmerhmm-3.0.1.ebuild?rev=1.1&content-type=text/plain |
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Index: glimmerhmm-3.0.1.ebuild |
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=================================================================== |
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# Copyright 1999-2008 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/glimmerhmm/glimmerhmm-3.0.1.ebuild,v 1.1 2008/09/07 13:11:13 weaver Exp $ |
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MY_P=GlimmerHMM |
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DESCRIPTION="An eukaryotic gene finding system from TIGR" |
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HOMEPAGE="http://www.cbcb.umd.edu/software/GlimmerHMM/" |
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SRC_URI="ftp://ftp.cbcb.umd.edu/pub/software/glimmerhmm/${MY_P}-${PV}.tar.gz" |
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LICENSE="Artistic" |
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SLOT="0" |
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IUSE="" |
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KEYWORDS="~x86" |
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DEPEND="" |
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RDEPEND="" |
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S=${WORKDIR}/${MY_P} |
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src_compile() { |
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sed -i -e 's|\(my $scriptdir=\)$FindBin::Bin|\1"/usr/share/'${PN}'/training_utils"|' \ |
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-e 's|\(use lib\) $FindBin::Bin|\1 "/usr/share/'${PN}'/lib"|' train/trainGlimmerHMM || die "sed failed" |
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sed -i 's/^CFLAGS[ ]*=.*//' */makefile |
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cd sources |
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emake || die "emake failed in sources" |
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cd "${S}/train" || die "failed to cd" |
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emake || die "emake failed in train" |
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} |
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src_install() { |
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dobin sources/glimmerhmm train/trainGlimmerHMM |
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dodir /usr/share/${PN}/{lib,models,training_utils} |
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insinto /usr/share/${PN}/lib |
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doins train/*.pm |
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insinto /usr/share/${PN}/models |
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doins -r trained_dir/* |
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insinto /usr/share/${PN}/training_utils |
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insopts -m755 |
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doins train/{build{1,2,-icm,-icm-noframe},erfapp,falsecomp,findsites,karlin,score,score{2,ATG,ATG2,STOP,STOP2},splicescore} |
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dodoc README.first train/readme.train |
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} |
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1.1 sci-biology/glimmerhmm/ChangeLog |
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file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmerhmm/ChangeLog?rev=1.1&view=markup |
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plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmerhmm/ChangeLog?rev=1.1&content-type=text/plain |
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Index: ChangeLog |
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=================================================================== |
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# ChangeLog for sci-biology/glimmerhmm |
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# Copyright 1999-2008 Gentoo Foundation; Distributed under the GPL v2 |
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# $Header: /var/cvsroot/gentoo-x86/sci-biology/glimmerhmm/ChangeLog,v 1.1 2008/09/07 13:11:13 weaver Exp $ |
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*glimmerhmm-3.0.1 (07 Sep 2008) |
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07 Sep 2008; weaver <weaver@g.o> +metadata.xml, |
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+glimmerhmm-3.0.1.ebuild: |
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Import from science overlay |
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