Import from Science overlay, bug 114094

Package-Manager: portage-2.2_rc12/cvs/Linux 2.6.26-tuxonice i686

4 files changed, 72 insertions, 0 deletions

diff --git a/sci-biology/phrap/ChangeLog b/sci-biology/phrap/ChangeLog
new file mode 100644
index 000000000000..611942cb2297
--- /dev/null
+++ b/sci-biology/phrap/ChangeLog
@@ -0,0 +1,11 @@
+# ChangeLog for sci-biology/phrap
+# Copyright 1999-2008 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/phrap/ChangeLog,v 1.1 2008/12/31 00:28:51 weaver Exp $
+
+*phrap-1.080812 (31 Dec 2008)
+
+  31 Dec 2008; weaver <weaver@gentoo.org> +metadata.xml,
+  +phrap-1.080812.ebuild:
+  Import from Science overlay, bug 114094. Thanks to Brady Catherman and Martin
+  Mokrejs.
+
diff --git a/sci-biology/phrap/Manifest b/sci-biology/phrap/Manifest
new file mode 100644
index 000000000000..3c1fcf45fc63
--- /dev/null
+++ b/sci-biology/phrap/Manifest
@@ -0,0 +1,4 @@
+DIST phrap-1.080812-distrib.tar.gz 317350 RMD160 9ac2e6209b4b681fd8099c49be5fbd511a5da1a8 SHA1 0f63613324dbce931c9b38b84d8ede314730dc87 SHA256 7025f3cb30e5a3305a13d150f39a85580ade0bbf8169b25db65cbe396e201052
+EBUILD phrap-1.080812.ebuild 1437 RMD160 540efacfb3ed57ca5b8b0bb5e6c31b46bd4be851 SHA1 c95a680d5152406812cad333b86ce5b6425ba945 SHA256 8a2f3e9069e3d9f7d54b68b01436618471f0d9972f92191de485e23f25071383
+MISC ChangeLog 413 RMD160 b7e9bf3cc01af15f399acce3a2cf9bf211d2e9ff SHA1 07517cb6a51c7b8d670bbd0e255dd61ba3c0a189 SHA256 7c8553d5640e22e92d06483b6838b24c0f25b9c3d5acaa2968a039d10ed7e978
+MISC metadata.xml 259 RMD160 d9d81b67d635fabd81aef8ae0edf971211ae9072 SHA1 8e32f751c67ff891fa35405a2cf6fb33752d6eb1 SHA256 541c3fbcf299d9a8ccf4132ee61f9e53a5d737cefdaa6fdc77764d8d4c7f3110
diff --git a/sci-biology/phrap/metadata.xml b/sci-biology/phrap/metadata.xml
new file mode 100644
index 000000000000..3302123e5718
--- /dev/null
+++ b/sci-biology/phrap/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>
diff --git a/sci-biology/phrap/phrap-1.080812.ebuild b/sci-biology/phrap/phrap-1.080812.ebuild
new file mode 100644
index 000000000000..8b1d86ffc2e2
--- /dev/null
+++ b/sci-biology/phrap/phrap-1.080812.ebuild
@@ -0,0 +1,48 @@
+# Copyright 1999-2008 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/phrap/phrap-1.080812.ebuild,v 1.1 2008/12/31 00:28:51 weaver Exp $
+
+DESCRIPTION="Phrap, swat, cross_match: Shotgun assembly and alignment utilities"
+HOMEPAGE="http://www.phrap.org/"
+SRC_URI="phrap-${PV}-distrib.tar.gz"
+
+LICENSE="phrap"
+SLOT="0"
+KEYWORDS="~x86"
+IUSE=""
+
+DEPEND=""
+RDEPEND=""
+
+S="${WORKDIR}"
+
+RESTRICT="fetch"
+
+pkg_nofetch() {
+	einfo "Please visit http://www.phrap.org/phredphrapconsed.html and obtain the file"
+	einfo "\"distrib.tar.gz\", then rename it to \"phrap-${PV}-distrib.tar.gz\""
+	einfo "and put it in ${DISTDIR}"
+}
+
+src_compile() {
+	sed -i 's/CFLAGS=/#CFLAGS=/' makefile
+	sed -i 's|#!/usr/local/bin/perl|#!/usr/bin/env perl|' phrapview
+	emake || die "emake failed"
+}
+
+src_install() {
+	dobin cluster cross_match loco phrap phrapview swat
+	for i in {general,phrap,swat}.doc ; do
+		newdoc ${i} ${i}.txt
+	done
+}
+
+pkg_postinst() {
+	elog If you are operating a non-commercial \(academic or government\)
+	elog computer facility which provides access to several independent
+	elog investigators, you are required by the licensing agreement to set the
+	elog permissions on the executables and source code to allow execute but
+	elog not read access, so that the programs may not be copied.
+	elog
+	elog Phrap documentation is installed in ${ROOT}/usr/share/doc/${P}.
+}