[gentoo-commits] proj/sci:master commit in: sci-biology/annovar/

[gentoo-commits] proj/sci:master commit in: sci-biology/annovar/

[Martin Mokrejs]

commit:     b0f5561f3b3b53e33778bc22d9ad4792fb593ca3
Author:     Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Wed Dec  7 13:07:25 2016 +0000
Commit:     Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Wed Dec  7 13:07:25 2016 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=b0f5561f

sci-biology/annovar: new package

Package-Manager: portage-2.3.2

 sci-biology/annovar/annovar-20160201.ebuild | 38 +++++++++++++++++++++++++++++
 sci-biology/annovar/metadata.xml            | 12 +++++++++
 2 files changed, 50 insertions(+)

diff --git a/sci-biology/annovar/annovar-20160201.ebuild b/sci-biology/annovar/annovar-20160201.ebuild
new file mode 100644
index 0000000..79ddbd1
--- /dev/null
+++ b/sci-biology/annovar/annovar-20160201.ebuild
@@ -0,0 +1,38 @@
+# Copyright 1999-2016 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=6
+
+DESCRIPTION="Annotate variation data in input VCF files"
+HOMEPAGE="http://annovar.openbioinformatics.org"
+SRC_URI="annovar-20160201.tar.gz
+	annovar-20160201_table_annovar.pl"
+
+LICENSE="annovar_personal_only"
+SLOT="0"
+KEYWORDS="~amd64 ~x86"
+IUSE=""
+
+DEPEND=""
+RDEPEND="dev-lang/perl
+	${DEPEND}"
+
+RESTRICT="fetch"
+
+S="${WORKDIR}"/"${PN}"
+
+pkg_nofetch() {
+	einfo "Please visit ${HOMEPAGE} and obtain the file"
+	einfo "\"${P}.tar.gz\" and place it in ${DISTDIR}."
+	einfo "Also fetch an updated version of http://www.openbioinformatics.org/annovar/download/table_annovar.pl"
+	einfo "and place it into ${DISTDIR} as ${P}__table_annovar.pl."
+}
+
+src_install(){
+	dobin *.pl
+	# install a "patch" from table_annovar.pl
+	newbin "${DISTDIR}"/${P}_table_annovar.pl table_annovar.pl
+	insinto /usr/share/"${PN}"
+	doins -r example humandb
+}

diff --git a/sci-biology/annovar/metadata.xml b/sci-biology/annovar/metadata.xml
new file mode 100644
index 0000000..f68a1b6
--- /dev/null
+++ b/sci-biology/annovar/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>

[gentoo-commits] proj/sci:master commit in: sci-biology/annovar/

[Justin Lecher]

commit:     38747acc6b11e00d4c075a07a026a6de0c6e521a
Author:     Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Sat Dec 17 18:11:22 2016 +0000
Commit:     Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Sat Dec 17 18:11:22 2016 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=38747acc

License missing and fetch restricted

Signed-off-by: Justin Lecher <jlec <AT> gentoo.org>

 sci-biology/annovar/annovar-20160201.ebuild | 38 -----------------------------
 sci-biology/annovar/metadata.xml            | 12 ---------
 2 files changed, 50 deletions(-)

diff --git a/sci-biology/annovar/annovar-20160201.ebuild b/sci-biology/annovar/annovar-20160201.ebuild
deleted file mode 100644
index 79ddbd1..0000000
--- a/sci-biology/annovar/annovar-20160201.ebuild
+++ /dev/null
@@ -1,38 +0,0 @@
-# Copyright 1999-2016 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Id$
-
-EAPI=6
-
-DESCRIPTION="Annotate variation data in input VCF files"
-HOMEPAGE="http://annovar.openbioinformatics.org"
-SRC_URI="annovar-20160201.tar.gz
-	annovar-20160201_table_annovar.pl"
-
-LICENSE="annovar_personal_only"
-SLOT="0"
-KEYWORDS="~amd64 ~x86"
-IUSE=""
-
-DEPEND=""
-RDEPEND="dev-lang/perl
-	${DEPEND}"
-
-RESTRICT="fetch"
-
-S="${WORKDIR}"/"${PN}"
-
-pkg_nofetch() {
-	einfo "Please visit ${HOMEPAGE} and obtain the file"
-	einfo "\"${P}.tar.gz\" and place it in ${DISTDIR}."
-	einfo "Also fetch an updated version of http://www.openbioinformatics.org/annovar/download/table_annovar.pl"
-	einfo "and place it into ${DISTDIR} as ${P}__table_annovar.pl."
-}
-
-src_install(){
-	dobin *.pl
-	# install a "patch" from table_annovar.pl
-	newbin "${DISTDIR}"/${P}_table_annovar.pl table_annovar.pl
-	insinto /usr/share/"${PN}"
-	doins -r example humandb
-}

diff --git a/sci-biology/annovar/metadata.xml b/sci-biology/annovar/metadata.xml
deleted file mode 100644
index f68a1b6..0000000
--- a/sci-biology/annovar/metadata.xml
+++ /dev/null
@@ -1,12 +0,0 @@
-<?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>