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commit: e4f568402bfead6e32904c59ce41578b7617b851 |
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Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> |
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AuthorDate: Sat Jan 20 21:35:57 2018 +0000 |
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Commit: Justin Lecher <jlec <AT> gentoo <DOT> org> |
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CommitDate: Sat Jan 20 21:35:57 2018 +0000 |
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URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=e4f56840 |
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|
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sci-biology/pilon-bin: new, albeit binary package |
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|
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The sources are in scala language, btw. |
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|
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Package-Manager: Portage-2.3.19, Repoman-2.3.6 |
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|
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sci-biology/pilon-bin/metadata.xml | 12 ++++++++++++ |
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sci-biology/pilon-bin/pilon-bin-1.22.ebuild | 30 +++++++++++++++++++++++++++++ |
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2 files changed, 42 insertions(+) |
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|
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diff --git a/sci-biology/pilon-bin/metadata.xml b/sci-biology/pilon-bin/metadata.xml |
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new file mode 100644 |
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index 000000000..138cb7705 |
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--- /dev/null |
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+++ b/sci-biology/pilon-bin/metadata.xml |
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@@ -0,0 +1,12 @@ |
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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="person"> |
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+ <email>mmokrejs@×××××××××××××××.cz</email> |
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+ <name>Martin Mokrejs</name> |
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+ </maintainer> |
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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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|
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diff --git a/sci-biology/pilon-bin/pilon-bin-1.22.ebuild b/sci-biology/pilon-bin/pilon-bin-1.22.ebuild |
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new file mode 100644 |
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index 000000000..2284e6418 |
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--- /dev/null |
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+++ b/sci-biology/pilon-bin/pilon-bin-1.22.ebuild |
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@@ -0,0 +1,30 @@ |
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+# Copyright 1999-2018 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=6 |
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+ |
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+inherit java-pkg-2 |
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+ |
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+DESCRIPTION="Fix assembled reference using BAM-aligned reads, call SNPs" |
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+HOMEPAGE="https://github.com/broadinstitute/pilon |
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+ https://github.com/broadinstitute/pilon/wiki" |
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+SRC_URI="https://github.com/broadinstitute/pilon/releases/download/v${PV}/pilon-${PV}.jar" |
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+ |
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+LICENSE="GPL-2" |
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+SLOT="0" |
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+KEYWORDS="~amd64" |
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+IUSE="" |
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+ |
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+DEPEND="dev-java/sbt |
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+ >=virtual/jdk-1.5:*" |
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+RDEPEND="${DEPEND} |
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+ >=virtual/jre-1.5:* |
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+ >=dev-java/htsjdk-1.130" |
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+ |
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+S="${WORKDIR}" |
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+ |
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+src_install(){ |
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+ cp -p "${DISTDIR}"/pilon-${PV}.jar . || die |
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+ java-pkg_dojar pilon-${PV}.jar |
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+} |