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commit: 178526185526bc8e42c47646d3d00af81072a31d |
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Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> |
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AuthorDate: Thu Sep 1 10:05:22 2016 +0000 |
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Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> |
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CommitDate: Thu Sep 1 10:05:22 2016 +0000 |
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URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=17852618 |
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|
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sci-biology/brat_nova: yet another rewrite of sci-biology/brat and brat_bw |
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|
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Package-Manager: portage-2.3.0 |
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|
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sci-biology/brat_nova/brat_nova-20160103.ebuild | 38 +++++++++++++++++++++++++ |
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sci-biology/brat_nova/metadata.xml | 8 ++++++ |
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2 files changed, 46 insertions(+) |
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|
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diff --git a/sci-biology/brat_nova/brat_nova-20160103.ebuild b/sci-biology/brat_nova/brat_nova-20160103.ebuild |
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new file mode 100644 |
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index 0000000..3a3fa2b |
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--- /dev/null |
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+++ b/sci-biology/brat_nova/brat_nova-20160103.ebuild |
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@@ -0,0 +1,38 @@ |
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+# Copyright 1999-2016 Gentoo Foundation |
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+# Distributed under the terms of the GNU General Public License v2 |
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+# $Id$ |
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+ |
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+EAPI=5 |
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+ |
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+inherit toolchain-funcs |
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+ |
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+DESCRIPTION="Bisulfite-aware short read mapper, FM-index, no InDel support (improved brat_bw)" |
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+HOMEPAGE="http://compbio.cs.ucr.edu/brat/" |
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+SRC_URI="http://compbio.cs.ucr.edu/brat/downloads/brat_nova.tar.gz -> ${P}.tar.gz" |
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+ |
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+LICENSE="GPL-3" |
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+SLOT="0" |
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+IUSE="" |
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+KEYWORDS="~amd64 ~x86" |
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+ |
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+DEPEND="" |
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+RDEPEND="!sci-biology/brat |
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+ !sci-biology/brat_bw" |
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+ |
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+S="${WORKDIR}"/"${PN}" |
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+ |
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+src_prepare() { |
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+ sed \ |
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+ -e "s:g++:$(tc-getCXX):g" \ |
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+ -e "s:-O3 -w:${CFLAGS} ${LDFLAGS}:g" \ |
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+ -i Makefile || die |
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+} |
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+ |
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+src_install() { |
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+ dobin brat_bw build_bw trim acgt-count remove-dupl |
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+ # possible FILE_COLLISION |
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+ # on these with with sci-biology/brat |
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+ # trim acgt-count remove-dupl |
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+ # on these with sci-biology/brat_bw |
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+ # brat_bw build_bw trim acgt-count remove-dupl |
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+} |
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|
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diff --git a/sci-biology/brat_nova/metadata.xml b/sci-biology/brat_nova/metadata.xml |
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new file mode 100644 |
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index 0000000..004c995 |
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--- /dev/null |
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+++ b/sci-biology/brat_nova/metadata.xml |
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@@ -0,0 +1,8 @@ |
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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 type="project"> |
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+ <email>sci-biology@g.o</email> |
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+ <name>Gentoo Biology Project</name> |
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+ </maintainer> |
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+ </pkgmetadata> |
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