New package: Phylogenetic Analysis by Maximum Likelihood.

(Portage version: 2.1.2_pre3-r5)

5 files changed, 67 insertions, 0 deletions

diff --git a/sci-biology/paml/ChangeLog b/sci-biology/paml/ChangeLog
new file mode 100644
index 000000000000..94cfb9154e51
--- /dev/null
+++ b/sci-biology/paml/ChangeLog
@@ -0,0 +1,10 @@
+# ChangeLog for sci-biology/paml
+# Copyright 1999-2006 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/paml/ChangeLog,v 1.1 2006/10/21 05:57:50 dberkholz Exp $
+
+*paml-3.15 (21 Oct 2006)
+
+  21 Oct 2006; Donnie Berkholz <dberkholz@gentoo.org>; +metadata.xml,
+  +paml-3.15.ebuild:
+  New package: Phylogenetic Analysis by Maximum Likelihood.
+
diff --git a/sci-biology/paml/Manifest b/sci-biology/paml/Manifest
new file mode 100644
index 000000000000..4403b1fc791e
--- /dev/null
+++ b/sci-biology/paml/Manifest
@@ -0,0 +1,16 @@
+DIST paml3.15.tar.gz 2364043 RMD160 b38655012237f9237a1c9474746f504804395045 SHA1 0628b3557a20ba8a9a173c39fec2093f056e1050 SHA256 f698b1d57b514e5e06e746899eae1245d098e96881e2a31c9b8fc956beb4f62a
+EBUILD paml-3.15.ebuild 809 RMD160 7aaad1f7de09641d8318654c554fc8ba595c8bf9 SHA1 af2e897090b230a5d1bdca55f9ecb5322ac612d7 SHA256 3e2ee99c8367b465447914ba75bd0deaa23d2e3dbc0d3e89b7032e62b32cb368
+MD5 cd5325108d9bc9660be98012053e35c1 paml-3.15.ebuild 809
+RMD160 7aaad1f7de09641d8318654c554fc8ba595c8bf9 paml-3.15.ebuild 809
+SHA256 3e2ee99c8367b465447914ba75bd0deaa23d2e3dbc0d3e89b7032e62b32cb368 paml-3.15.ebuild 809
+MISC ChangeLog 295 RMD160 b0c4f6b1741089289ac3f8df356abe1b12d405e1 SHA1 2b0836345d24bc86e87f5dbc902b00863b2231a8 SHA256 7056d4f2c96aa851b8029acb20587dddd1f3fa3b216d3a5e16ac5e074eb1fb14
+MD5 31828dd1ab74e4621844c903b592db8c ChangeLog 295
+RMD160 b0c4f6b1741089289ac3f8df356abe1b12d405e1 ChangeLog 295
+SHA256 7056d4f2c96aa851b8029acb20587dddd1f3fa3b216d3a5e16ac5e074eb1fb14 ChangeLog 295
+MISC metadata.xml 164 RMD160 2f441200f2672ab5f1efae7cbdb08b284603903c SHA1 61a50baedfd041e663d6c2a41a28b57e22dbb6de SHA256 f0897b09e661dc603041dab249d73253034659189becf1a34cca37a7d51ef72f
+MD5 86813ca8050bc98ba326cb74e88150a5 metadata.xml 164
+RMD160 2f441200f2672ab5f1efae7cbdb08b284603903c metadata.xml 164
+SHA256 f0897b09e661dc603041dab249d73253034659189becf1a34cca37a7d51ef72f metadata.xml 164
+MD5 3537e34bb55e124c01119c5d6ee26014 files/digest-paml-3.15 229
+RMD160 773e09e87f3dc63be2b6e0f3365516145dd5d93f files/digest-paml-3.15 229
+SHA256 03086c4e10b192c5661596a8931edc6053de7945a179c154401dfa291a374253 files/digest-paml-3.15 229
diff --git a/sci-biology/paml/files/digest-paml-3.15 b/sci-biology/paml/files/digest-paml-3.15
new file mode 100644
index 000000000000..b93b6587b637
--- /dev/null
+++ b/sci-biology/paml/files/digest-paml-3.15
@@ -0,0 +1,3 @@
+MD5 c54ba7e15a66b57dc1140feea22e5695 paml3.15.tar.gz 2364043
+RMD160 b38655012237f9237a1c9474746f504804395045 paml3.15.tar.gz 2364043
+SHA256 f698b1d57b514e5e06e746899eae1245d098e96881e2a31c9b8fc956beb4f62a paml3.15.tar.gz 2364043
diff --git a/sci-biology/paml/metadata.xml b/sci-biology/paml/metadata.xml
new file mode 100644
index 000000000000..34294c65ca04
--- /dev/null
+++ b/sci-biology/paml/metadata.xml
@@ -0,0 +1,5 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
+<pkgmetadata>
+<herd>sci-biology</herd>
+</pkgmetadata>
diff --git a/sci-biology/paml/paml-3.15.ebuild b/sci-biology/paml/paml-3.15.ebuild
new file mode 100644
index 000000000000..7e2fa5e5d513
--- /dev/null
+++ b/sci-biology/paml/paml-3.15.ebuild
@@ -0,0 +1,33 @@
+# Copyright 1999-2006 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/paml/paml-3.15.ebuild,v 1.1 2006/10/21 05:57:50 dberkholz Exp $
+
+inherit toolchain-funcs
+
+MY_P="${P/-}"
+DESCRIPTION="Phylogenetic Analysis by Maximum Likelihood"
+HOMEPAGE="http://abacus.gene.ucl.ac.uk/software/paml.html"
+SRC_URI="http://abacus.gene.ucl.ac.uk/software/${MY_P}.tar.gz"
+LICENSE="free-noncomm"
+SLOT="0"
+KEYWORDS="~x86"
+IUSE=""
+RDEPEND=""
+DEPEND="${RDEPEND}"
+S="${WORKDIR}/${MY_P}"
+
+src_compile() {
+	cd src
+	emake \
+		-f Makefile.UNIX \
+		CC="$(tc-getCC)" \
+		CFLAGS="${CFLAGS}" \
+		|| die "make failed"
+}
+
+src_install() {
+	pushd "${S}"/src
+	dobin baseml codeml basemlg mcmctree pamp evolver yn00 chi2
+	popd
+	dodoc README.txt doc/*
+}