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| author |   Johann Schmitz <ercpe@gentoo.org> | 2016-04-24 08:08:19 +0200 |
|---|---|---|
| committer | Johann Schmitz <ercpe@gentoo.org> | 2016-04-24 08:10:23 +0200 |
| commit | c3ab7823c9462b681b308ab69346acc77cea683f (patch) | |
| tree | 5ff9643ae2d0e27825509ef5f2c1b65947e4c618 /dev-java | |
| parent | Merge branch 'master' of ssh://github.com/gentoo-science/sci (diff) | |
| download | sci-c3ab7823c9462b681b308ab69346acc77cea683f.tar.gz sci-c3ab7823c9462b681b308ab69346acc77cea683f.tar.bz2 sci-c3ab7823c9462b681b308ab69346acc77cea683f.zip | |
dev-java/htsjdk: New ebuild (dependency of picard-2)
Package-Manager: portage-2.2.26
Diffstat (limited to 'dev-java')
| -rw-r--r-- | dev-java/htsjdk/Manifest | 1 | ||||
| -rw-r--r-- | dev-java/htsjdk/htsjdk-2.2.2.ebuild | 47 | ||||
| -rw-r--r-- | dev-java/htsjdk/metadata.xml | 15 |
3 files changed, 63 insertions, 0 deletions
diff --git a/dev-java/htsjdk/Manifest b/dev-java/htsjdk/Manifest new file mode 100644 index 000000000..896f512f7 --- /dev/null +++ b/dev-java/htsjdk/Manifest @@ -0,0 +1 @@ +DIST htsjdk-2.2.2.tar.gz 11459641 SHA256 5ef1b1e6b1fcdb7f13952b61de3b2af581ba800e4f6ea37762fbbd6d4e3f6904 SHA512 69c4f6be9be16669fbbbcac2e668b564c09793763908b1c4703b760ea46fdbcf747d233f87c48888de3810379b02f2e0d8ebef4d1bf48215128e02cb4053bd10 WHIRLPOOL 023f922b8a9f04c5c995bd862576b8eb19fc97357843e1709ce2b54d9b51dd666b9e7a93e5e934dfef228840d78ea09e9dd68294f8f07d29ef9937b023ed8f73 diff --git a/dev-java/htsjdk/htsjdk-2.2.2.ebuild b/dev-java/htsjdk/htsjdk-2.2.2.ebuild new file mode 100644 index 000000000..9950f1f28 --- /dev/null +++ b/dev-java/htsjdk/htsjdk-2.2.2.ebuild @@ -0,0 +1,47 @@ +# Copyright 1999-2016 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Id$ + +EAPI="6" + +JAVA_PKG_IUSE="doc source" + +inherit java-pkg-2 java-ant-2 + +DESCRIPTION="Java API for high-throughput sequencing data (HTS) formats." +HOMEPAGE="https://samtools.github.io/htsjdk/" +SRC_URI="https://github.com/samtools/htsjdk/archive/${PV}.tar.gz -> ${P}.tar.gz" + +LICENSE="MIT" +SLOT="0" +IUSE="" +KEYWORDS="~amd64 ~x86" + +CDEPEND="dev-java/commons-jexl:2 + dev-java/commons-compress:0 + dev-java/commons-logging:0" + +DEPEND=">=virtual/jdk-1.8 + ${CDEPEND}" +RDEPEND=">=virtual/jre-1.8 + ${CDEPEND}" + +EANT_BUILD_TARGET="all" +EANT_NEEDS_TOOLS="true" +JAVA_ANT_REWRITE_CLASSPATH="true" +EANT_GENTOO_CLASSPATH="commons-jexl-2,commons-compress,commons-logging" + +java_prepare() { + rm -v lib/{commons-compress,commons-jexl,commons-logging}*.jar || die +} + +src_install() { + cd dist || die + + for i in *.jar; do + java-pkg_newjar $i ${i/-[0-9]*.jar/.jar} + done + + use source && java-pkg_dosrc "${S}"/src/java/* + use doc && java-pkg_dojavadoc "${S}"/javadoc +} diff --git a/dev-java/htsjdk/metadata.xml b/dev-java/htsjdk/metadata.xml new file mode 100644 index 000000000..513e8631c --- /dev/null +++ b/dev-java/htsjdk/metadata.xml @@ -0,0 +1,15 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="person"> + <email>ercpe@gentoo.org</email> + <name>Johann Schmitz (ercpe)</name> + </maintainer> + <maintainer type="project"> + <email>sci-biology@gentoo.org</email> + <name>Gentoo Biology Project</name> + </maintainer> + <upstream> + <remote-id type="sourceforge">picard</remote-id> + </upstream> +</pkgmetadata> |