diff options
Diffstat (limited to 'sci-biology/muscle')
| -rw-r--r-- | sci-biology/muscle/ChangeLog | 12 | ||||
| -rw-r--r-- | sci-biology/muscle/Manifest | 27 | ||||
| -rw-r--r-- | sci-biology/muscle/files/digest-muscle-3.6 | 3 | ||||
| -rw-r--r-- | sci-biology/muscle/metadata.xml | 9 | ||||
| -rw-r--r-- | sci-biology/muscle/muscle-3.6.ebuild | 38 |
5 files changed, 89 insertions, 0 deletions
diff --git a/sci-biology/muscle/ChangeLog b/sci-biology/muscle/ChangeLog new file mode 100644 index 000000000000..b867b380d10f --- /dev/null +++ b/sci-biology/muscle/ChangeLog @@ -0,0 +1,12 @@ +# ChangeLog for sci-biology/muscle +# Copyright 1999-2006 Gentoo Foundation; Distributed under the GPL v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/muscle/ChangeLog,v 1.1 2006/02/21 20:06:10 spyderous Exp $ + +*muscle-3.6 (21 Feb 2006) + + 21 Feb 2006; Donnie Berkholz <spyderous@gentoo.org>; +metadata.xml, + +muscle-3.6.ebuild: + New multiple sequence alignment package. Provides a great tradeoff between + runtime and quality for global alignments; quite a bit worse on local + alignments. + diff --git a/sci-biology/muscle/Manifest b/sci-biology/muscle/Manifest new file mode 100644 index 000000000000..172eb1a4ec4d --- /dev/null +++ b/sci-biology/muscle/Manifest @@ -0,0 +1,27 @@ +MD5 74eaf8b13786493ed6220c0c33e09b28 files/add-libint-error-message.patch 722 +RMD160 526e57d715b65fedc763069be30f7e49e52dcbb8 files/add-libint-error-message.patch 722 +SHA256 63715cab509893817c7cfb22422c3724fd02a4d0fa5065bbb5a477d8d8a23390 files/add-libint-error-message.patch 722 +MD5 2ce7fc1feec78dd7428b1bfb6dca6f48 files/digest-muscle-3.6 241 +RMD160 00cdfc0a67940e555cae9b2917a3e59e4a880f44 files/digest-muscle-3.6 241 +SHA256 ff5d1ffa1cd22ba1ee71b8af23f4f92d25ae80f8fa88bf0ed303d0d8c3799cbd files/digest-muscle-3.6 241 +MD5 09ec4c47c33e46e812d1c8a09f00a91a files/digest-probcons-1.10 241 +RMD160 2d5910f5cca5eb03d3d6e7ca83954774d4080051 files/digest-probcons-1.10 241 +SHA256 6dcaf5dcb70c5db87bebfb7d61342cc1f56758d67fc2db674ae900bc685406ef files/digest-probcons-1.10 241 +MD5 dbaa3f7804f89cfbc6b41a8fceeec0ca files/digest-psi-3.2.3 232 +RMD160 36c9c50c4c7e2ef156f0f0334b2b330435968e9b files/digest-psi-3.2.3 232 +SHA256 e9a1506870d5bf1fdfb1aee4740fc584343f0e716afe52c19411d115adf0bc4c files/digest-psi-3.2.3 232 +MD5 285e67094e0841a79a32c9301c023b39 files/dont-build-libint.patch 355 +RMD160 c3b00a7edb9af349f2321fcbbdc286168d5d6db3 files/dont-build-libint.patch 355 +SHA256 57513d9f897776055dfbe14e717761de314e79409def91ccc27563a613a66e18 files/dont-build-libint.patch 355 +MD5 9ec964134fe443be4a6d6760278bea87 files/try-more-compilers.patch 401 +RMD160 550151b01cc4362d70c3e79d250a2fb2e36af64f files/try-more-compilers.patch 401 +SHA256 cb3b404ad7725700840df7602686d651f38f3d7623857af63e3556d1317aaf08 files/try-more-compilers.patch 401 +MD5 f73030c473338710e13e3dfe3ce59463 files/try-pthread-for-blas-lapack.patch 1489 +RMD160 092e0613b7184b065bb5ffa2288ce342e84d9483 files/try-pthread-for-blas-lapack.patch 1489 +SHA256 09cf2f5bc6835697322501280de3027b932416dd939d04d0d25a9790fe02eaa5 files/try-pthread-for-blas-lapack.patch 1489 +MD5 6dc1efc685dfc6994c972eed20daf18c files/use-external-libint.patch 1359 +RMD160 560598e6d7c99d901d97dd6037480bd57c82433f files/use-external-libint.patch 1359 +SHA256 41faa20ba804e98a81cb6809c789c643fd17458b6f6bc95dbe6311dd2fb16713 files/use-external-libint.patch 1359 +MD5 5d75567eec90190cf000570cfd16c228 muscle-3.6.ebuild 813 +RMD160 7643cca1df0e58199700e15b87ac081d5b1f72b8 muscle-3.6.ebuild 813 +SHA256 8776ce3cc6abdfe998619b6be801e55f039ecfefef34f2fbe24ce6ba736812da muscle-3.6.ebuild 813 diff --git a/sci-biology/muscle/files/digest-muscle-3.6 b/sci-biology/muscle/files/digest-muscle-3.6 new file mode 100644 index 000000000000..343f62ae80b5 --- /dev/null +++ b/sci-biology/muscle/files/digest-muscle-3.6 @@ -0,0 +1,3 @@ +MD5 e721d0859da9feec3cedeb42dcee9f59 muscle3.6_src.tar.gz 185267 +RMD160 4afda92b982ec2b05853a582479c61a7d8814f51 muscle3.6_src.tar.gz 185267 +SHA256 32b818a51f421e1d687f513dc31374a330470950151a5e7df961e64781699431 muscle3.6_src.tar.gz 185267 diff --git a/sci-biology/muscle/metadata.xml b/sci-biology/muscle/metadata.xml new file mode 100644 index 000000000000..211b8bd0f0a4 --- /dev/null +++ b/sci-biology/muscle/metadata.xml @@ -0,0 +1,9 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> +<herd>sci</herd> +<maintainer> +<email>spyderous@gentoo.org</email> +<name>Donnie Berkholz</name> +</maintainer> +</pkgmetadata> diff --git a/sci-biology/muscle/muscle-3.6.ebuild b/sci-biology/muscle/muscle-3.6.ebuild new file mode 100644 index 000000000000..68c6ed8eb2ad --- /dev/null +++ b/sci-biology/muscle/muscle-3.6.ebuild @@ -0,0 +1,38 @@ +# Copyright 1999-2006 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/muscle/muscle-3.6.ebuild,v 1.1 2006/02/21 20:06:10 spyderous Exp $ + +inherit toolchain-funcs + +MY_P="${PN}${PV}_src" +DESCRIPTION="Multiple sequence comparison by log-expectation" +HOMEPAGE="http://www.drive5.com/muscle/" +SRC_URI="http://www.drive5.com/muscle/downloads${PV}/${MY_P}.tar.gz" +LICENSE="public-domain" +SLOT="0" +KEYWORDS="~x86" +IUSE="" +RDEPEND="" +DEPEND="${RDEPEND}" +S="${WORKDIR}/${MY_P}" + +src_unpack() { + unpack ${A} + sed -i \ + "s:-static::g" \ + ${S}/Makefile + sed -i \ + "/strip/d" \ + ${S}/Makefile +} + +src_compile() { + emake \ + GPP="$(tc-getCXX)" \ + CFLAGS="${CXXFLAGS}" \ + || die "make failed" +} + +src_install() { + DESTTREE="/usr" dobin muscle +} |