[gentoo-commits] proj/sci:master commit in: sci-biology/geneid/, sci-biology/geneid/files/

[gentoo-commits] proj/sci:master commit in: sci-biology/geneid/, sci-biology/geneid/files/

[Martin Mokrejs]

commit:     e1f1667c293f69f7ae354b3b96fd62b16bc6f141
Author:     Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Tue Jun 17 10:06:04 2014 +0000
Commit:     Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Tue Jun 17 10:06:04 2014 +0000
URL:        http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=e1f1667c

sci-biology/geneid: new package, works

Package-Manager: portage-2.2.7

---
 sci-biology/geneid/ChangeLog            |  9 +++++++++
 sci-biology/geneid/files/Makefile.patch | 11 +++++++++++
 sci-biology/geneid/geneid-1.4.4.ebuild  | 32 ++++++++++++++++++++++++++++++++
 sci-biology/geneid/metadata.xml         |  9 +++++++++
 4 files changed, 61 insertions(+)

diff --git a/sci-biology/geneid/ChangeLog b/sci-biology/geneid/ChangeLog
new file mode 100644
index 0000000..d140912
--- /dev/null
+++ b/sci-biology/geneid/ChangeLog
@@ -0,0 +1,9 @@
+# ChangeLog for sci-biology/geneid
+# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
+# $Header: $
+
+*geneid-1.4.4 (17 Jun 2014)
+
+  17 Jun 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
+  +files/Makefile.patch, +geneid-1.4.4.ebuild, +metadata.xml:
+  sci-biology/geneid: new package, works

diff --git a/sci-biology/geneid/files/Makefile.patch b/sci-biology/geneid/files/Makefile.patch
new file mode 100644
index 0000000..bd6a866
--- /dev/null
+++ b/sci-biology/geneid/files/Makefile.patch
@@ -0,0 +1,11 @@
+--- geneid/Makefile	2014-06-17 11:37:07.000000000 +0200
++++ geneid/Makefile	2014-06-17 11:37:27.000000000 +0200
+@@ -13,7 +13,7 @@
+ PROGRAM= geneid
+ PRODUCT= $(BIN)/$(PROGRAM)
+ CC=gcc
+-OPTS=-I$(INCLUDE) -Wall -O3
++OPTS=$(CFLAGS) -I$(INCLUDE)
+ #OPTS=-I$(INCLUDE) -Wall -g
+ #######
+ 

diff --git a/sci-biology/geneid/geneid-1.4.4.ebuild b/sci-biology/geneid/geneid-1.4.4.ebuild
new file mode 100644
index 0000000..48bda66
--- /dev/null
+++ b/sci-biology/geneid/geneid-1.4.4.ebuild
@@ -0,0 +1,32 @@
+# Copyright 1999-2014 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: $
+
+EAPI=5
+
+inherit eutils
+
+DESCRIPTION="An ab initio exon/gene finding program"
+HOMEPAGE="http://genome.crg.es/software/geneid"
+SRC_URI="ftp://genome.crg.es/pub/software/geneid/geneid_v1.4.4.Jan_13_2011.tar.gz"
+
+LICENSE="GPL-2"
+SLOT="0"
+KEYWORDS="~amd64 ~x86"
+IUSE=""
+
+DEPEND=""
+RDEPEND="${DEPEND}"
+
+S="${WORKDIR}"/"${PN}"
+
+src_prepare() {
+	epatch "${FILESDIR}"/Makefile.patch
+}
+
+src_install() {
+	dobin bin/geneid
+	dohtml docs/*.html 
+	dohtml -r docs/chapter*
+	dohtml -r docs/images
+}

diff --git a/sci-biology/geneid/metadata.xml b/sci-biology/geneid/metadata.xml
new file mode 100644
index 0000000..2bc8930
--- /dev/null
+++ b/sci-biology/geneid/metadata.xml
@@ -0,0 +1,9 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
+<pkgmetadata>
+  <herd>sci-biology</herd>
+  <maintainer>
+    <email>mmokrejs@fold.natur.cuni.cz</email>
+    <name>Martin Mokrejs</name>
+  </maintainer>
+</pkgmetadata>