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commit: 691de03a081a82665985b69eb879c6be3ecd7f7e |
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Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> |
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AuthorDate: Tue Jul 12 16:31:39 2016 +0000 |
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Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> |
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CommitDate: Tue Jul 12 16:31:39 2016 +0000 |
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URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=691de03a |
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|
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dev-java/htsjdk: added 2.1.0 version needed=bundled so far in cramtools-3.0 |
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|
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Package-Manager: portage-2.2.28 |
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|
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dev-java/htsjdk/htsjdk-2.1.0.ebuild | 48 +++++++++++++++++++++++++++++++++++++ |
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1 file changed, 48 insertions(+) |
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|
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diff --git a/dev-java/htsjdk/htsjdk-2.1.0.ebuild b/dev-java/htsjdk/htsjdk-2.1.0.ebuild |
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new file mode 100644 |
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index 0000000..ca2cdd9 |
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--- /dev/null |
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+++ b/dev-java/htsjdk/htsjdk-2.1.0.ebuild |
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@@ -0,0 +1,48 @@ |
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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="6" |
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+ |
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+JAVA_PKG_IUSE="doc source" |
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+ |
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+inherit java-pkg-2 java-ant-2 |
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+ |
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+DESCRIPTION="Java API for high-throughput sequencing data (HTS) formats." |
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+HOMEPAGE="https://samtools.github.io/htsjdk/" |
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+SRC_URI="https://github.com/samtools/htsjdk/archive/${PV}.tar.gz -> ${P}.tar.gz" |
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+ |
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+LICENSE="MIT" |
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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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+CDEPEND="dev-java/commons-jexl:2 |
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+ dev-java/commons-compress:0 |
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+ dev-java/commons-logging:0" |
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+ |
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+DEPEND=">=virtual/jdk-1.8 |
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+ ${CDEPEND}" |
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+RDEPEND=">=virtual/jre-1.8 |
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+ ${CDEPEND}" |
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+ |
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+EANT_BUILD_TARGET="all" |
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+EANT_NEEDS_TOOLS="true" |
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+JAVA_ANT_REWRITE_CLASSPATH="true" |
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+EANT_GENTOO_CLASSPATH="commons-jexl-2,commons-compress,commons-logging" |
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+ |
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+java_prepare() { |
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+ default |
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+ rm -v lib/{commons-compress,commons-jexl,commons-logging}*.jar || die |
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+} |
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+ |
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+src_install() { |
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+ cd dist || die |
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+ |
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+ for i in *.jar; do |
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+ java-pkg_newjar $i ${i/-[0-9]*.jar/.jar} |
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+ done |
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+ |
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+ use source && java-pkg_dosrc "${S}"/src/java/* |
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+ use doc && java-pkg_dojavadoc "${S}"/javadoc |
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+} |