From b1a8cf21a117336c86e1b443e2ad4a379970f420 Mon Sep 17 00:00:00 2001
From: Andrey Kislyuk <weaver@gentoo.org>
Date: Sat, 25 Feb 2012 18:05:05 +0000
Subject: New package, ebuild written by me

Package-Manager: portage-2.2.0_alpha74/cvs/Linux x86_64
---
 sci-biology/express/ChangeLog            | 10 ++++++++++
 sci-biology/express/Manifest             | 14 ++++++++++++++
 sci-biology/express/express-0.9.5.ebuild | 33 ++++++++++++++++++++++++++++++++
 sci-biology/express/metadata.xml         |  9 +++++++++
 4 files changed, 66 insertions(+)
 create mode 100644 sci-biology/express/ChangeLog
 create mode 100644 sci-biology/express/Manifest
 create mode 100644 sci-biology/express/express-0.9.5.ebuild
 create mode 100644 sci-biology/express/metadata.xml

(limited to 'sci-biology')

diff --git a/sci-biology/express/ChangeLog b/sci-biology/express/ChangeLog
new file mode 100644
index 000000000000..7ca8c33c22b6
--- /dev/null
+++ b/sci-biology/express/ChangeLog
@@ -0,0 +1,10 @@
+# ChangeLog for sci-biology/express
+# Copyright 1999-2012 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/express/ChangeLog,v 1.1 2012/02/25 18:05:05 weaver Exp $
+
+*express-0.9.5 (25 Feb 2012)
+
+  25 Feb 2012; Andrey Kislyuk <weaver@gentoo.org> +express-0.9.5.ebuild,
+  +metadata.xml:
+  New package, ebuild written by me
+
diff --git a/sci-biology/express/Manifest b/sci-biology/express/Manifest
new file mode 100644
index 000000000000..3812cb6499b0
--- /dev/null
+++ b/sci-biology/express/Manifest
@@ -0,0 +1,14 @@
+-----BEGIN PGP SIGNED MESSAGE-----
+Hash: SHA1
+
+DIST express-0.9.5-src.tgz 766024 RMD160 eb21c8dcde5f105b74ffd6fc702b45f5ff58933a SHA1 98e440a845aa62fd6161f7bbea857a357ef2ebe6 SHA256 e17250d62750560c2dc9cb579f58784b5076afb74088f36523ddd623e08bc022
+EBUILD express-0.9.5.ebuild 950 RMD160 38e4af9fea5fc6e0f0798924299a7bbd7ee94bda SHA1 0d109c7021be1e287c9098d5e385b43335a62a39 SHA256 f85d489d8c03ae14720138327c2dc48d887359a5945c3d465601d43f7846930d
+MISC ChangeLog 368 RMD160 214a98513b92744b117f6aa5468edfda27a23455 SHA1 1ba125cd08ac06f0893e1ea2b62777613ac88723 SHA256 4601bbe247fb5a22dc2f55b7710c99318ec9940cb1a069c300ce1587c9fd4b4b
+MISC metadata.xml 259 RMD160 d9d81b67d635fabd81aef8ae0edf971211ae9072 SHA1 8e32f751c67ff891fa35405a2cf6fb33752d6eb1 SHA256 541c3fbcf299d9a8ccf4132ee61f9e53a5d737cefdaa6fdc77764d8d4c7f3110
+-----BEGIN PGP SIGNATURE-----
+Version: GnuPG v1.4.11 (GNU/Linux)
+
+iEYEARECAAYFAk9JItcACgkQ8xSwyhbn2ObbgQCggYAJYOfbv0W5BgkMxNRC/qt1
+fC4An0waUibbdpGoYMlwCITwkIjCp+uR
+=zb0V
+-----END PGP SIGNATURE-----
diff --git a/sci-biology/express/express-0.9.5.ebuild b/sci-biology/express/express-0.9.5.ebuild
new file mode 100644
index 000000000000..56dfe3e1b520
--- /dev/null
+++ b/sci-biology/express/express-0.9.5.ebuild
@@ -0,0 +1,33 @@
+# Copyright 1999-2012 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/express/express-0.9.5.ebuild,v 1.1 2012/02/25 18:05:05 weaver Exp $
+
+EAPI=4
+
+inherit cmake-utils
+
+DESCRIPTION="Streaming RNA-Seq Analysis"
+HOMEPAGE="http://bio.math.berkeley.edu/eXpress/"
+SRC_URI="http://bio.math.berkeley.edu/eXpress/downloads/express-${PV}/express-${PV}-src.tgz"
+
+LICENSE="Artistic"
+SLOT="0"
+IUSE=""
+KEYWORDS="~amd64"
+
+DEPEND="sys-libs/zlib
+	dev-libs/boost:1.46
+	sci-biology/bamtools"
+RDEPEND="${DEPEND}"
+
+S="${WORKDIR}/${P}-src"
+
+CMAKE_USE_DIR="${S}/src"
+
+src_prepare() {
+	sed -i -e 's|"${CMAKE_CURRENT_SOURCE_DIR}/../bamtools/lib/libbamtools.a"|bamtools|' \
+		-e '1 a find_package(Boost 1.46 COMPONENTS filesystem program_options thread)' \
+		-e '1 a find_package(ZLIB)' \
+		-e '/add_executable/ a include_directories("/usr/include/bamtools")' \
+		src/CMakeLists.txt || die
+}
diff --git a/sci-biology/express/metadata.xml b/sci-biology/express/metadata.xml
new file mode 100644
index 000000000000..3302123e5718
--- /dev/null
+++ b/sci-biology/express/metadata.xml
@@ -0,0 +1,9 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
+<pkgmetadata>
+	<maintainer>
+		<email>weaver@gentoo.org</email>
+		<name>Andrey Kislyuk</name>
+	</maintainer>
+	<herd>sci-biology</herd>
+</pkgmetadata>
-- 
cgit v1.2.3-65-gdbad