diff options
author | Andrey Kislyuk <weaver@gentoo.org> | 2009-01-04 00:26:13 +0000 |
---|---|---|
committer | Andrey Kislyuk <weaver@gentoo.org> | 2009-01-04 00:26:13 +0000 |
commit | d7bf4a6b3db37b5f1c975676f14bc2f46d37c0b7 (patch) | |
tree | fd1fc0debc555e3ee1d3028492ea2ff7ac6b527a /sci-biology | |
parent | Avoid uselessly loading background, bug #251350. (diff) | |
download | historical-d7bf4a6b3db37b5f1c975676f14bc2f46d37c0b7.tar.gz historical-d7bf4a6b3db37b5f1c975676f14bc2f46d37c0b7.tar.bz2 historical-d7bf4a6b3db37b5f1c975676f14bc2f46d37c0b7.zip |
Initial commit
Package-Manager: portage-2.2_rc12/cvs/Linux 2.6.26-tuxonice i686
Diffstat (limited to 'sci-biology')
-rw-r--r-- | sci-biology/augustus/ChangeLog | 11 | ||||
-rw-r--r-- | sci-biology/augustus/Manifest | 6 | ||||
-rw-r--r-- | sci-biology/augustus/augustus-2.0.3.ebuild | 37 | ||||
-rw-r--r-- | sci-biology/augustus/files/augustus-2.0.3-cflags.patch | 20 | ||||
-rw-r--r-- | sci-biology/augustus/files/augustus-2.0.3-gcc4.3.patch | 26 | ||||
-rw-r--r-- | sci-biology/augustus/metadata.xml | 9 |
6 files changed, 109 insertions, 0 deletions
diff --git a/sci-biology/augustus/ChangeLog b/sci-biology/augustus/ChangeLog new file mode 100644 index 000000000000..0ce7baab6336 --- /dev/null +++ b/sci-biology/augustus/ChangeLog @@ -0,0 +1,11 @@ +# ChangeLog for sci-biology/augustus +# Copyright 1999-2009 Gentoo Foundation; Distributed under the GPL v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/augustus/ChangeLog,v 1.1 2009/01/04 00:26:13 weaver Exp $ + +*augustus-2.0.3 (04 Jan 2009) + + 04 Jan 2009; weaver <weaver@gentoo.org> + +files/augustus-2.0.3-cflags.patch, +files/augustus-2.0.3-gcc4.3.patch, + +metadata.xml, +augustus-2.0.3.ebuild: + Initial commit, ebuild written by me + diff --git a/sci-biology/augustus/Manifest b/sci-biology/augustus/Manifest new file mode 100644 index 000000000000..edfd67547067 --- /dev/null +++ b/sci-biology/augustus/Manifest @@ -0,0 +1,6 @@ +AUX augustus-2.0.3-cflags.patch 646 RMD160 a83852c8520ac12782dfe114fbd7618ce732bdc7 SHA1 1ee661682a11b99178ed77f1dec23b6241d2e8e7 SHA256 ef50cdbce090aa8404fd48ab98de2ab9bfe239bf352914bee3eceea3f466e87e +AUX augustus-2.0.3-gcc4.3.patch 726 RMD160 1d6df43e6dd96c365bd3a0ca17136b13d38a789e SHA1 42bb3c4f1d9dcb4ebf5bd1c4fc6f2464cd62230c SHA256 c548b0ed5d63c9e81e6ebf8dd799bdbccb5096350b0d6253129d0529fb55defa +DIST augustus.2.0.3.src.tar.gz 24488810 RMD160 6cb81134a6e554f3e9e436ebc8c9de0cc80e4d58 SHA1 c4039781493f2de6e507a6afb80b8393e60e8155 SHA256 b0964585247eae16752db17fc7d7b89667edb928dde53119ceb7dde265a696e5 +EBUILD augustus-2.0.3.ebuild 828 RMD160 6f0df726c96f8c92883682cb9dfa5c2d688963c2 SHA1 73f70ab5f96a6a2ea5a5e54ed9d2faa6900ebdbf SHA256 6bdb1bcefe48ad606d49af22673f0d6ee246dd32b0f2d188f0f1d8a827a5c243 +MISC ChangeLog 441 RMD160 474ab0b70b8f7859a5262e87fe25d7ec16ef78aa SHA1 1e29b2b0878d44b31e6e8b49587b68c06ff5f013 SHA256 4c3c263b59dd6faf9f2c5592455d34709ff4b5670116321b494060e7f8a6e5f4 +MISC metadata.xml 259 RMD160 d9d81b67d635fabd81aef8ae0edf971211ae9072 SHA1 8e32f751c67ff891fa35405a2cf6fb33752d6eb1 SHA256 541c3fbcf299d9a8ccf4132ee61f9e53a5d737cefdaa6fdc77764d8d4c7f3110 diff --git a/sci-biology/augustus/augustus-2.0.3.ebuild b/sci-biology/augustus/augustus-2.0.3.ebuild new file mode 100644 index 000000000000..44828a0c4745 --- /dev/null +++ b/sci-biology/augustus/augustus-2.0.3.ebuild @@ -0,0 +1,37 @@ +# Copyright 1999-2009 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/augustus/augustus-2.0.3.ebuild,v 1.1 2009/01/04 00:26:13 weaver Exp $ + +inherit eutils + +DESCRIPTION="Eukaryotic gene predictor" +HOMEPAGE="http://augustus.gobics.de/" +SRC_URI="http://augustus.gobics.de/binaries/${PN}.${PV}.src.tar.gz" + +LICENSE="Artistic" +SLOT="0" +IUSE="" +KEYWORDS="~amd64 ~x86" + +DEPEND="" +RDEPEND="" + +S="${WORKDIR}/${PN}" + +src_unpack() { + unpack ${A} + epatch "${FILESDIR}"/${P}-*.patch +} + +src_compile() { + emake -C src +} + +src_install() { + dobin src/{augustus,etraining} + insinto /usr/share/${PN} + doins -r config examples scripts + echo "AUGUSTUS_CONFIG_PATH=\"/usr/share/${PN}/config\"" > "${S}/99${PN}" + doenvd "${S}/99${PN}" + dodoc README.TXT HISTORY.TXT +} diff --git a/sci-biology/augustus/files/augustus-2.0.3-cflags.patch b/sci-biology/augustus/files/augustus-2.0.3-cflags.patch new file mode 100644 index 000000000000..203e100a313e --- /dev/null +++ b/sci-biology/augustus/files/augustus-2.0.3-cflags.patch @@ -0,0 +1,20 @@ +diff -rc augustus.orig/src/Makefile augustus/src/Makefile +*** augustus.orig/src/Makefile 2009-01-03 18:26:17.000000000 -0500 +--- augustus/src/Makefile 2009-01-03 18:38:35.000000000 -0500 +*************** +*** 3,9 **** + # + + CC = g++ +! CFLAGS = -Wall -ansi -pedantic -O2 -g -ggdb # -O2 -g -pg -ggdb -DDEBUG -static -DDEBUG -pg + INCLS = -I../include -I. + LIBS = # -lcwd + OBJS = genbank.o properties.o statemodel.o \ +--- 3,9 ---- + # + + CC = g++ +! CFLAGS := -Wall -ansi -pedantic -O2 -g -ggdb ${CFLAGS} # -O2 -g -pg -ggdb -DDEBUG -static -DDEBUG -pg + INCLS = -I../include -I. + LIBS = # -lcwd + OBJS = genbank.o properties.o statemodel.o \ diff --git a/sci-biology/augustus/files/augustus-2.0.3-gcc4.3.patch b/sci-biology/augustus/files/augustus-2.0.3-gcc4.3.patch new file mode 100644 index 000000000000..8f6dc33ad276 --- /dev/null +++ b/sci-biology/augustus/files/augustus-2.0.3-gcc4.3.patch @@ -0,0 +1,26 @@ +diff -rc augustus.orig/include/help.hh augustus/include/help.hh +*** augustus.orig/include/help.hh 2009-01-03 18:26:17.000000000 -0500 +--- augustus/include/help.hh 2009-01-03 18:36:30.000000000 -0500 +*************** +*** 23,28 **** +--- 23,29 ---- + #include <cmath> + #include <cstring> + #include <cctype> ++ #include <stdlib.h> + + #include "types.hh" + #include "projecterror.hh" +diff -rc augustus.orig/include/types.hh augustus/include/types.hh +*** augustus.orig/include/types.hh 2009-01-03 18:26:17.000000000 -0500 +--- augustus/include/types.hh 2009-01-03 18:36:39.000000000 -0500 +*************** +*** 21,26 **** +--- 21,27 ---- + #define _TYPES_HH + + #include <string> ++ #include <limits.h> + + #include "lldouble.hh" + diff --git a/sci-biology/augustus/metadata.xml b/sci-biology/augustus/metadata.xml new file mode 100644 index 000000000000..3302123e5718 --- /dev/null +++ b/sci-biology/augustus/metadata.xml @@ -0,0 +1,9 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer> + <email>weaver@gentoo.org</email> + <name>Andrey Kislyuk</name> + </maintainer> + <herd>sci-biology</herd> +</pkgmetadata> |