Version bump. See bug #191867.

Package-Manager: portage-2.1.3.19

5 files changed, 68 insertions, 12 deletions

diff --git a/sci-biology/paml/ChangeLog b/sci-biology/paml/ChangeLog
index 94cfb9154e51..c2a2b9967f02 100644
--- a/sci-biology/paml/ChangeLog
+++ b/sci-biology/paml/ChangeLog
@@ -1,6 +1,11 @@
 # 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 $
+# Copyright 1999-2007 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/paml/ChangeLog,v 1.2 2007/11/22 13:26:59 markusle Exp $
+
+*paml-4a (22 Nov 2007)
+
+  22 Nov 2007; Markus Dittrich <markusle@gentoo.org> +paml-4a.ebuild:
+  Version bump. See bug #191867.
 
 *paml-3.15 (21 Oct 2006)
 
diff --git a/sci-biology/paml/Manifest b/sci-biology/paml/Manifest
index 12090f32f315..a15b4d19f0b7 100644
--- a/sci-biology/paml/Manifest
+++ b/sci-biology/paml/Manifest
@@ -1,12 +1,17 @@
 DIST paml3.15.tar.gz 2364043 RMD160 b38655012237f9237a1c9474746f504804395045 SHA1 0628b3557a20ba8a9a173c39fec2093f056e1050 SHA256 f698b1d57b514e5e06e746899eae1245d098e96881e2a31c9b8fc956beb4f62a
-EBUILD paml-3.15.ebuild 800 RMD160 ec8ef42d1ba3bf3c57e70c47a3a7c0e1da94f672 SHA1 f1e1e0fb1e52222329768086a7f6df3f89dd00f2 SHA256 b658ed0b8c6cdfecccfbc26615fd691571262c11cf7565eb91366be071f4bb22
-MD5 43810802e6e1b97bd0245c480ae9ed02 paml-3.15.ebuild 800
-RMD160 ec8ef42d1ba3bf3c57e70c47a3a7c0e1da94f672 paml-3.15.ebuild 800
-SHA256 b658ed0b8c6cdfecccfbc26615fd691571262c11cf7565eb91366be071f4bb22 paml-3.15.ebuild 800
-MISC ChangeLog 386 RMD160 ccb7d2bbc5f040bb70e4bfc36c8443289af94f44 SHA1 4dcff689b915c43abf6dd2a7d24898a9d0363f7f SHA256 c8a6e567bfddd6e1bb4d8c097ac2f65c5ad3f15500e8a93cd4038e04c293b4a1
-MD5 a6cdd89aa23575c0cf98561f10f2245f ChangeLog 386
-RMD160 ccb7d2bbc5f040bb70e4bfc36c8443289af94f44 ChangeLog 386
-SHA256 c8a6e567bfddd6e1bb4d8c097ac2f65c5ad3f15500e8a93cd4038e04c293b4a1 ChangeLog 386
+DIST paml4a.tar.gz 2377543 RMD160 5be2b6e82f0abc52e1e4251a0b8728e4cece684b SHA1 7f1d8b40f27d735385735cc1652b6bf5a7aa1c06 SHA256 436968adfad51c0b9f28a5bc1196a5e123005b8e9c6df0c4200d791b7ed90f4e
+EBUILD paml-3.15.ebuild 799 RMD160 1590abccf695a390f4ebdd875f88bea662fcaba1 SHA1 cda700a52156d4441a561078aa8c6de216d14c61 SHA256 880d7c220b0ae9f1f10f20d5a1cc7a549a29d7d918165f0a0a93d6ad4a4884f7
+MD5 98d7cd007931241c55ba8ec8a6213eab paml-3.15.ebuild 799
+RMD160 1590abccf695a390f4ebdd875f88bea662fcaba1 paml-3.15.ebuild 799
+SHA256 880d7c220b0ae9f1f10f20d5a1cc7a549a29d7d918165f0a0a93d6ad4a4884f7 paml-3.15.ebuild 799
+EBUILD paml-4a.ebuild 1091 RMD160 f9ce007b3ff4c1aeb80ff23b27b837db0954742b SHA1 ced1e66b0ed5e82f06a4d89f7b351d9e895ee830 SHA256 dcfbaafe1e62c521e91c32413811e75b60078ba167957b066537c6177e0366ae
+MD5 44cc9d8748dc09f89a1621e99345fb4a paml-4a.ebuild 1091
+RMD160 f9ce007b3ff4c1aeb80ff23b27b837db0954742b paml-4a.ebuild 1091
+SHA256 dcfbaafe1e62c521e91c32413811e75b60078ba167957b066537c6177e0366ae paml-4a.ebuild 1091
+MISC ChangeLog 513 RMD160 069df8f31d5ad77b6ad4b497088478fecadb836d SHA1 60af739cff8e1edcce3b4ec0074dd089d64285be SHA256 5156d6a6e9ccb09c7d29720f0d1284040c42b54d0deec78b505ec107265d9b40
+MD5 221fca76ca6c4ad6e3e49718875ff465 ChangeLog 513
+RMD160 069df8f31d5ad77b6ad4b497088478fecadb836d ChangeLog 513
+SHA256 5156d6a6e9ccb09c7d29720f0d1284040c42b54d0deec78b505ec107265d9b40 ChangeLog 513
 MISC metadata.xml 164 RMD160 2f441200f2672ab5f1efae7cbdb08b284603903c SHA1 61a50baedfd041e663d6c2a41a28b57e22dbb6de SHA256 f0897b09e661dc603041dab249d73253034659189becf1a34cca37a7d51ef72f
 MD5 86813ca8050bc98ba326cb74e88150a5 metadata.xml 164
 RMD160 2f441200f2672ab5f1efae7cbdb08b284603903c metadata.xml 164
@@ -14,3 +19,6 @@ SHA256 f0897b09e661dc603041dab249d73253034659189becf1a34cca37a7d51ef72f metadata
 MD5 3537e34bb55e124c01119c5d6ee26014 files/digest-paml-3.15 229
 RMD160 773e09e87f3dc63be2b6e0f3365516145dd5d93f files/digest-paml-3.15 229
 SHA256 03086c4e10b192c5661596a8931edc6053de7945a179c154401dfa291a374253 files/digest-paml-3.15 229
+MD5 2229f913749aede88f47a3e17cf12ec1 files/digest-paml-4a 223
+RMD160 2328c52f977ebe238af4caa0b1b0498eccd5be63 files/digest-paml-4a 223
+SHA256 a5840580f643c1fa79db0c736551f25f4bb59d2d0dc4423b2744c84d31f27d4c files/digest-paml-4a 223
diff --git a/sci-biology/paml/files/digest-paml-4a b/sci-biology/paml/files/digest-paml-4a
new file mode 100644
index 000000000000..dd55c75cab35
--- /dev/null
+++ b/sci-biology/paml/files/digest-paml-4a
@@ -0,0 +1,3 @@
+MD5 3cbe2e2ef633398e66443d08ccf16322 paml4a.tar.gz 2377543
+RMD160 5be2b6e82f0abc52e1e4251a0b8728e4cece684b paml4a.tar.gz 2377543
+SHA256 436968adfad51c0b9f28a5bc1196a5e123005b8e9c6df0c4200d791b7ed90f4e paml4a.tar.gz 2377543
diff --git a/sci-biology/paml/paml-3.15.ebuild b/sci-biology/paml/paml-3.15.ebuild
index 7e2fa5e5d513..4c5ab262db60 100644
--- a/sci-biology/paml/paml-3.15.ebuild
+++ b/sci-biology/paml/paml-3.15.ebuild
@@ -1,6 +1,6 @@
-# Copyright 1999-2006 Gentoo Foundation
+# Copyright 1999-2007 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 $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/paml/paml-3.15.ebuild,v 1.2 2007/11/22 13:26:59 markusle Exp $
 
 inherit toolchain-funcs
 
diff --git a/sci-biology/paml/paml-4a.ebuild b/sci-biology/paml/paml-4a.ebuild
new file mode 100644
index 000000000000..ded1fad3745c
--- /dev/null
+++ b/sci-biology/paml/paml-4a.ebuild
@@ -0,0 +1,40 @@
+# Copyright 1999-2007 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/paml/paml-4a.ebuild,v 1.1 2007/11/22 13:26:59 markusle Exp $
+
+inherit toolchain-funcs
+
+MY_PV="${PV:0:1}"
+MY_P="${PN}${MY_PV}"
+DESCRIPTION="Phylogenetic Analysis by Maximum Likelihood"
+HOMEPAGE="http://abacus.gene.ucl.ac.uk/software/paml.html"
+SRC_URI="http://abacus.gene.ucl.ac.uk/software/${PN}${PV}.tar.gz"
+LICENSE="free-noncomm"
+SLOT="0"
+KEYWORDS="~x86"
+IUSE=""
+RDEPEND=""
+DEPEND="${RDEPEND}"
+S="${WORKDIR}/${MY_P}"
+
+src_compile() {
+	cd src
+	emake \
+		-f Makefile.UNIX \
+		CC="$(tc-getCC)" \
+		CFLAGS="${CFLAGS}" \
+		|| die "make failed"
+}
+
+src_install() {
+	pushd "${S}"/src
+	dobin baseml codeml basemlg mcmctree pamp evolver yn00 chi2
+	popd
+	dodoc README.txt doc/*
+	insinto /usr/share/${PN}/control
+	doins *.ctl || die "Failed to install control files"
+	insinto /usr/share/${PN}/dat
+	doins stewart* *.dat dat/* || die "Failed to install data files"
+	insinto /usr/share/${PN}
+	doins -r examples/ || die "Failed to install examples"
+}