Initial commit.

Package-Manager: portage-2.1.1_pre5-r2

5 files changed, 74 insertions, 0 deletions

diff --git a/sci-biology/phyml/ChangeLog b/sci-biology/phyml/ChangeLog
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index 000000000000..6f83916d7bc2
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+# ChangeLog for sci-biology/phyml
+# Copyright 1999-2006 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/phyml/ChangeLog,v 1.1 2006/08/18 19:27:04 gongloo Exp $
+
+*phyml-2.4.5 (18 Aug 2006)
+
+  18 Aug 2006; <gongloo@gentoo.org> +metadata.xml, +phyml-2.4.5.ebuild:
+  Initial commit.
+
diff --git a/sci-biology/phyml/Manifest b/sci-biology/phyml/Manifest
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index 000000000000..ffd9e1909c93
--- /dev/null
+++ b/sci-biology/phyml/Manifest
@@ -0,0 +1,16 @@
+DIST phyml_v2.4.5.tar.gz 92143 RMD160 4883cefd023a59ec6a8e6a780774b1800b37d714 SHA1 d76920654ca50c97fa7db77125ccce29f572d238 SHA256 e8a1d3980137f8e528d0e59472aff37dbac615860a7d3ee4cdb64f30dfea296e
+EBUILD phyml-2.4.5.ebuild 712 RMD160 0ccdf4983d372c366f143ff2ad48f23d3cf165c1 SHA1 344f8da1ce0e1894f01d2d4cbe3139ab6e3304e0 SHA256 1ca66e64c7a72a97abe57bd7100d1832448495743a73ed14180d4b8cbe5c2648
+MD5 e98c76ef5e33fff70cead258037268fe phyml-2.4.5.ebuild 712
+RMD160 0ccdf4983d372c366f143ff2ad48f23d3cf165c1 phyml-2.4.5.ebuild 712
+SHA256 1ca66e64c7a72a97abe57bd7100d1832448495743a73ed14180d4b8cbe5c2648 phyml-2.4.5.ebuild 712
+MISC ChangeLog 327 RMD160 fe2dc995599e9d0b9fab17e06681181579a04198 SHA1 b01084e971cc2859bb68039ef32852550fe680ad SHA256 178aeaa2e2586c066cd7ee410792b1899de58e7faa3ebaeeb98b145563417054
+MD5 dce99f45bc52ea029d073f226be62de1 ChangeLog 327
+RMD160 fe2dc995599e9d0b9fab17e06681181579a04198 ChangeLog 327
+SHA256 178aeaa2e2586c066cd7ee410792b1899de58e7faa3ebaeeb98b145563417054 ChangeLog 327
+MISC metadata.xml 564 RMD160 dc4cbace6d7f96e731e560aa5314c2de6a9ea4aa SHA1 2aaab7f56a7504822506f038d02dd4c66280e4b4 SHA256 cc398ec9629e0921a5a6cc6a48fb8335b65d50ae688084695be0e7a69b24f3bd
+MD5 41be34e91fd4f20dde9cb012b5599f89 metadata.xml 564
+RMD160 dc4cbace6d7f96e731e560aa5314c2de6a9ea4aa metadata.xml 564
+SHA256 cc398ec9629e0921a5a6cc6a48fb8335b65d50ae688084695be0e7a69b24f3bd metadata.xml 564
+MD5 f859d84d728057f03bda2f75a758456e files/digest-phyml-2.4.5 235
+RMD160 55cb97b716dd7ddd79e14a4b23f865bfdf1ceb29 files/digest-phyml-2.4.5 235
+SHA256 e02e2f7050b7712bd606568cd5fb87c20109e4a44e509708464ecdbd38edb89d files/digest-phyml-2.4.5 235
diff --git a/sci-biology/phyml/files/digest-phyml-2.4.5 b/sci-biology/phyml/files/digest-phyml-2.4.5
new file mode 100644
index 000000000000..8dc8a884bdf1
--- /dev/null
+++ b/sci-biology/phyml/files/digest-phyml-2.4.5
@@ -0,0 +1,3 @@
+MD5 0958e17f973feffb8df2f6616672a075 phyml_v2.4.5.tar.gz 92143
+RMD160 4883cefd023a59ec6a8e6a780774b1800b37d714 phyml_v2.4.5.tar.gz 92143
+SHA256 e8a1d3980137f8e528d0e59472aff37dbac615860a7d3ee4cdb64f30dfea296e phyml_v2.4.5.tar.gz 92143
diff --git a/sci-biology/phyml/metadata.xml b/sci-biology/phyml/metadata.xml
new file mode 100644
index 000000000000..67bf9cb6373d
--- /dev/null
+++ b/sci-biology/phyml/metadata.xml
@@ -0,0 +1,15 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
+<pkgmetadata>
+	<herd>sci-biology</herd>
+	<maintainer>
+		<email>gongloo@gentoo.org</email>
+		<name>Hasan Khalil</name>
+	</maintainer>
+	<longdescription lang="en">
+		 Phyml is a simple, fast, and accurate algorithm to estimate large
+		 phylogenies by maximum likelihood. Given input sequence files, it
+		 estimates phylogenies using maximum likelihood, and is capable of
+		 processing large amounts of phylogenetic data.
+	</longdescription>
+</pkgmetadata>
diff --git a/sci-biology/phyml/phyml-2.4.5.ebuild b/sci-biology/phyml/phyml-2.4.5.ebuild
new file mode 100644
index 000000000000..0d67726acd6b
--- /dev/null
+++ b/sci-biology/phyml/phyml-2.4.5.ebuild
@@ -0,0 +1,31 @@
+# Copyright 1999-2006 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/phyml/phyml-2.4.5.ebuild,v 1.1 2006/08/18 19:27:04 gongloo Exp $
+
+DESCRIPTION="A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood."
+HOMEPAGE="http://atgc.lirmm.fr/phyml/"
+SRC_URI="http://www.lirmm.fr/~guindon/${PN}_v${PV}.tar.gz"
+
+LICENSE="GPL-2"
+SLOT="0"
+KEYWORDS="~amd64 ~x86"
+IUSE=""
+
+DEPEND=""
+RDEPEND=""
+
+S=${WORKDIR}/${PN}_v${PV}
+
+src_unpack() {
+	unpack ${A}
+	cd ${S}
+	sed -i -e 's/^hello !!!//' -e 's/^CFLAGS =/#CFLAGS =/' -e 's/^CC =/#CC =/' Makefile
+}
+
+src_compile() {
+	make
+}
+
+src_install() {
+	dobin phyml
+}