paml, mafft: merged to gentoo-x86

9 files changed, 0 insertions, 96 deletions

diff --git a/sci-biology/mafft/Manifest b/sci-biology/mafft/Manifest
deleted file mode 100644
index e917947..0000000
--- a/sci-biology/mafft/Manifest
+++ /dev/null
@@ -1,8 +0,0 @@
-DIST mafft-5.861-src.tgz 294337 RMD160 120130662e7353f8f310911a5b52657520ffe5cf SHA1 f140a579ecf81474ff5205a651155050655baa40 SHA256 c76466406797bcf13e07a4d877ba2053d06585116a498775f03252aa9843c5d9
-EBUILD mafft-5.861.ebuild 751 RMD160 2588c05996fcaad479831387d1a660425a174591 SHA1 a488ab23141b7ae6e7b36256e6eebcac3fb06e8c SHA256 fcac32dc8f7bf8b6b51ebaf4c3b7702e0241ddd04cdc0b9bed76c6ed4176d0a1
-MD5 917c58e30c222694b9e31c76856029cb mafft-5.861.ebuild 751
-RMD160 2588c05996fcaad479831387d1a660425a174591 mafft-5.861.ebuild 751
-SHA256 fcac32dc8f7bf8b6b51ebaf4c3b7702e0241ddd04cdc0b9bed76c6ed4176d0a1 mafft-5.861.ebuild 751
-MD5 28084e84b316686364a0cb65cd3d4ccd files/digest-mafft-5.861 238
-RMD160 bcd6dac755d56b2249729fd0416aa47161a2795c files/digest-mafft-5.861 238
-SHA256 670acf7b68f6a75a05585012bafbce04b52bddcef5e80aa9ca3ed7ef63d5b1ad files/digest-mafft-5.861 238
diff --git a/sci-biology/mafft/files/digest-mafft-5.861 b/sci-biology/mafft/files/digest-mafft-5.861
deleted file mode 100644
index 2b72d7e..0000000
--- a/sci-biology/mafft/files/digest-mafft-5.861
+++ /dev/null
@@ -1,3 +0,0 @@
-MD5 49612721f7095be702cbbf6c6b495fc1 mafft-5.861-src.tgz 294337
-RMD160 120130662e7353f8f310911a5b52657520ffe5cf mafft-5.861-src.tgz 294337
-SHA256 c76466406797bcf13e07a4d877ba2053d06585116a498775f03252aa9843c5d9 mafft-5.861-src.tgz 294337
diff --git a/sci-biology/mafft/mafft-5.861.ebuild b/sci-biology/mafft/mafft-5.861.ebuild
deleted file mode 100644
index b109b60..0000000
--- a/sci-biology/mafft/mafft-5.861.ebuild
+++ /dev/null
@@ -1,29 +0,0 @@
-# Copyright 1999-2005 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/app-misc/colordiff/colordiff-1.0.5-r2.ebuild,v 1.7 2005/08/17 18:08:02 grobian Exp $
-
-inherit toolchain-funcs
-
-DESCRIPTION="Multiple sequence alignments using a variety of algorithms"
-HOMEPAGE="http://www.biophys.kyoto-u.ac.jp/~katoh/programs/align/mafft/"
-SRC_URI="http://www.biophys.kyoto-u.ac.jp/~katoh/programs/align/mafft/${P}-src.tgz"
-LICENSE="free-noncomm"
-SLOT="0"
-KEYWORDS="~x86"
-IUSE=""
-RDEPEND=""
-DEPEND="${RDEPEND}"
-
-src_compile() {
-	cd src
-	emake \
-		CC="$(tc-getCC)" \
-		CFLAG="${CFLAGS}" \
-		|| die "make failed"
-}
-
-src_install() {
-	exeinto /usr/bin
-	doexe scripts/* binaries/*
-	dodoc readme
-}
diff --git a/sci-biology/paml/Manifest b/sci-biology/paml/Manifest
deleted file mode 100644
index 300647e..0000000
--- a/sci-biology/paml/Manifest
+++ /dev/null
@@ -1,20 +0,0 @@
-DIST paml3.15.tar.gz 2364043 RMD160 b38655012237f9237a1c9474746f504804395045 SHA1 0628b3557a20ba8a9a173c39fec2093f056e1050 SHA256 f698b1d57b514e5e06e746899eae1245d098e96881e2a31c9b8fc956beb4f62a
-EBUILD paml-3.15.ebuild 809 RMD160 72b5e2a97671ff55efa69365ae041ed2d22201b9 SHA1 621459e85c4acea690dab4954d0368d8e65d0f00 SHA256 36bb72086a0cdbdb4531094c5d88841068a36d000c34f469135a1c6886cfb862
-MD5 bcb9b1d29e969412427c7b8ef8028f73 paml-3.15.ebuild 809
-RMD160 72b5e2a97671ff55efa69365ae041ed2d22201b9 paml-3.15.ebuild 809
-SHA256 36bb72086a0cdbdb4531094c5d88841068a36d000c34f469135a1c6886cfb862 paml-3.15.ebuild 809
-MISC rst 0 RMD160 9c1185a5c5e9fc54612808977ee8f548b2258d31 SHA1 da39a3ee5e6b4b0d3255bfef95601890afd80709 SHA256 e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855
-MD5 d41d8cd98f00b204e9800998ecf8427e rst 0
-RMD160 9c1185a5c5e9fc54612808977ee8f548b2258d31 rst 0
-SHA256 e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855 rst 0
-MISC rst1 0 RMD160 9c1185a5c5e9fc54612808977ee8f548b2258d31 SHA1 da39a3ee5e6b4b0d3255bfef95601890afd80709 SHA256 e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855
-MD5 d41d8cd98f00b204e9800998ecf8427e rst1 0
-RMD160 9c1185a5c5e9fc54612808977ee8f548b2258d31 rst1 0
-SHA256 e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855 rst1 0
-MISC rub 0 RMD160 9c1185a5c5e9fc54612808977ee8f548b2258d31 SHA1 da39a3ee5e6b4b0d3255bfef95601890afd80709 SHA256 e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855
-MD5 d41d8cd98f00b204e9800998ecf8427e rub 0
-RMD160 9c1185a5c5e9fc54612808977ee8f548b2258d31 rub 0
-SHA256 e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855 rub 0
-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
deleted file mode 100644
index b93b658..0000000
--- a/sci-biology/paml/files/digest-paml-3.15
+++ /dev/null
@@ -1,3 +0,0 @@
-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/paml-3.15.ebuild b/sci-biology/paml/paml-3.15.ebuild
deleted file mode 100644
index 3c3c07d..0000000
--- a/sci-biology/paml/paml-3.15.ebuild
+++ /dev/null
@@ -1,33 +0,0 @@
-# Copyright 1999-2005 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/app-misc/colordiff/colordiff-1.0.5-r2.ebuild,v 1.7 2005/08/17 18:08:02 grobian 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/*
-}
diff --git a/sci-biology/paml/rst b/sci-biology/paml/rst
deleted file mode 100644
index e69de29..0000000
--- a/sci-biology/paml/rst
+++ /dev/null
diff --git a/sci-biology/paml/rst1 b/sci-biology/paml/rst1
deleted file mode 100644
index e69de29..0000000
--- a/sci-biology/paml/rst1
+++ /dev/null
diff --git a/sci-biology/paml/rub b/sci-biology/paml/rub
deleted file mode 100644
index e69de29..0000000
--- a/sci-biology/paml/rub
+++ /dev/null