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authorMartin Mokrejš <mmokrejs@fold.natur.cuni.cz>2016-10-17 17:21:39 +0200
committerMartin Mokrejš <mmokrejs@fold.natur.cuni.cz>2016-10-17 17:21:39 +0200
commit02cb4dded41609783964b8a0f6d01dde60455535 (patch)
tree9619d8d60eb13beb8b21c1d395a4ed84f236968d
parentsci-biology/mothur: shutdown QC error about IUSE=boost missing (diff)
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sci-biology/kat: new package
Boost library is not found during linking step Package needs >=python-3.1 as the default python interpreter (for what?) The bundled jellyfish code seems to result in a renamed library and *.pc file so probably it will not clash with system-wide jellyfish Package-Manager: portage-2.3.0
-rw-r--r--sci-biology/kat/Manifest1
-rw-r--r--sci-biology/kat/kat-2.1.1.ebuild29
-rw-r--r--sci-biology/kat/kat-9999.ebuild29
-rw-r--r--sci-biology/kat/metadata.xml12
4 files changed, 71 insertions, 0 deletions
diff --git a/sci-biology/kat/Manifest b/sci-biology/kat/Manifest
new file mode 100644
index 000000000..c33dfec6b
--- /dev/null
+++ b/sci-biology/kat/Manifest
@@ -0,0 +1 @@
+DIST kat-2.1.1.tar.gz 13857577 SHA256 8756ea5712b11dc48e4bb56816c59e1c5a566beda41a15e344270611b304d41c SHA512 3b54f709b46933b840f94236e141ed389e9e147fd9c28977532a56aec23bb556d3007d6ab9f00ae6003e11a9b4393e766a0327802163044873bd1f858be110ae WHIRLPOOL 146a869d1e34bb7fad8bcf745c544271108fac257dcb25f9f3ae1aa3e79f867f35258f3c76b36685050619449504df1c9535dc42a695362f67cecc199418a608
diff --git a/sci-biology/kat/kat-2.1.1.ebuild b/sci-biology/kat/kat-2.1.1.ebuild
new file mode 100644
index 000000000..3a184c9cc
--- /dev/null
+++ b/sci-biology/kat/kat-2.1.1.ebuild
@@ -0,0 +1,29 @@
+# Copyright 1999-2016 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=6
+
+PYTHON_COMPAT=( python{3_4,3_5} ) # requires python >= 3.1
+
+DESCRIPTION="K-mer Analysis Toolkit (histogram, filter, compare sets, plot)"
+HOMEPAGE="https://github.com/TGAC/KAT"
+SRC_URI="https://github.com/TGAC/KAT/archive/Release-${PV}.tar.gz -> ${P}.tar.gz"
+
+LICENSE="GPL-3+"
+SLOT="0"
+KEYWORDS=""
+IUSE=""
+
+DEPEND="dev-libs/boost:0
+ dev-python/matplotlib
+ sci-visualization/gnuplot"
+RDEPEND="${DEPEND}"
+# contains bundled modified version of jellyfish-2.2.
+
+S="${WORKDIR}"/KAT-Release-"${PV}"
+
+src_prepare(){
+ sh ./autogen.sh . || die
+ default
+}
diff --git a/sci-biology/kat/kat-9999.ebuild b/sci-biology/kat/kat-9999.ebuild
new file mode 100644
index 000000000..e8735e4d0
--- /dev/null
+++ b/sci-biology/kat/kat-9999.ebuild
@@ -0,0 +1,29 @@
+# Copyright 1999-2016 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=6
+
+PYTHON_COMPAT=( python{3_4,3_5} ) # requires python >= 3.1
+
+inherit git-r3
+
+DESCRIPTION="K-mer Analysis Toolkit (histogram, filter, compare sets, plot)"
+HOMEPAGE="https://github.com/TGAC/KAT"
+EGIT_REPO_URI="https://github.com/TGAC/KAT.git"
+
+LICENSE="GPL-3+"
+SLOT="0"
+KEYWORDS=""
+IUSE=""
+
+DEPEND="dev-libs/boost:0
+ dev-python/matplotlib
+ sci-visualization/gnuplot"
+RDEPEND="${DEPEND}"
+# contains bundled a modified version of jellyfish-2.2.0
+
+src_prepare(){
+ sh ./autogen.sh . || die
+ default
+}
diff --git a/sci-biology/kat/metadata.xml b/sci-biology/kat/metadata.xml
new file mode 100644
index 000000000..f68a1b6fa
--- /dev/null
+++ b/sci-biology/kat/metadata.xml
@@ -0,0 +1,12 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
+<pkgmetadata>
+ <maintainer type="person">
+ <email>mmokrejs@fold.natur.cuni.cz</email>
+ <name>Martin Mokrejs</name>
+ </maintainer>
+ <maintainer type="project">
+ <email>sci-biology@gentoo.org</email>
+ <name>Gentoo Biology Project</name>
+ </maintainer>
+</pkgmetadata>