From: | "Andrey Kislyuk (weaver)" <weaver@g.o> |
---|---|
To: | gentoo-commits@l.g.o |
Subject: | [gentoo-commits] gentoo-x86 commit in sci-biology/shrimp: shrimp-2.1.0.ebuild ChangeLog shrimp-1.2.1.ebuild |
Date: | Thu, 03 Feb 2011 00:14:00 |
Message-Id: | 20110203001349.35BA420054@flycatcher.gentoo.org |
1 | weaver 11/02/03 00:13:49 |
2 | |
3 | Modified: ChangeLog |
4 | Added: shrimp-2.1.0.ebuild |
5 | Removed: shrimp-1.2.1.ebuild |
6 | Log: |
7 | Version bump, drop old |
8 | |
9 | (Portage version: 2.2_rc86/cvs/Linux x86_64) |
10 | |
11 | Revision Changes Path |
12 | 1.12 sci-biology/shrimp/ChangeLog |
13 | |
14 | file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/shrimp/ChangeLog?rev=1.12&view=markup |
15 | plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/shrimp/ChangeLog?rev=1.12&content-type=text/plain |
16 | diff : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/shrimp/ChangeLog?r1=1.11&r2=1.12 |
17 | |
18 | Index: ChangeLog |
19 | =================================================================== |
20 | RCS file: /var/cvsroot/gentoo-x86/sci-biology/shrimp/ChangeLog,v |
21 | retrieving revision 1.11 |
22 | retrieving revision 1.12 |
23 | diff -u -r1.11 -r1.12 |
24 | --- ChangeLog 9 Aug 2010 18:19:28 -0000 1.11 |
25 | +++ ChangeLog 3 Feb 2011 00:13:49 -0000 1.12 |
26 | @@ -1,6 +1,12 @@ |
27 | # ChangeLog for sci-biology/shrimp |
28 | -# Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2 |
29 | -# $Header: /var/cvsroot/gentoo-x86/sci-biology/shrimp/ChangeLog,v 1.11 2010/08/09 18:19:28 xarthisius Exp $ |
30 | +# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2 |
31 | +# $Header: /var/cvsroot/gentoo-x86/sci-biology/shrimp/ChangeLog,v 1.12 2011/02/03 00:13:49 weaver Exp $ |
32 | + |
33 | +*shrimp-2.1.0 (03 Feb 2011) |
34 | + |
35 | + 03 Feb 2011; Andrey Kislyuk <weaver@g.o> -shrimp-1.2.1.ebuild, |
36 | + +shrimp-2.1.0.ebuild: |
37 | + Version bump, drop old |
38 | |
39 | 09 Aug 2010; Kacper Kowalik <xarthisius@g.o> shrimp-2.0.1.ebuild: |
40 | Fix dependency on openmp. |
41 | |
42 | |
43 | |
44 | 1.1 sci-biology/shrimp/shrimp-2.1.0.ebuild |
45 | |
46 | file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/shrimp/shrimp-2.1.0.ebuild?rev=1.1&view=markup |
47 | plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/shrimp/shrimp-2.1.0.ebuild?rev=1.1&content-type=text/plain |
48 | |
49 | Index: shrimp-2.1.0.ebuild |
50 | =================================================================== |
51 | # Copyright 1999-2011 Gentoo Foundation |
52 | # Distributed under the terms of the GNU General Public License v2 |
53 | # $Header: /var/cvsroot/gentoo-x86/sci-biology/shrimp/shrimp-2.1.0.ebuild,v 1.1 2011/02/03 00:13:49 weaver Exp $ |
54 | |
55 | EAPI="2" |
56 | |
57 | inherit flag-o-matic toolchain-funcs |
58 | |
59 | MY_PV=${PV//./_} |
60 | |
61 | DESCRIPTION="SHort Read Mapping Package" |
62 | HOMEPAGE="http://compbio.cs.toronto.edu/shrimp/" |
63 | SRC_URI="http://compbio.cs.toronto.edu/shrimp/releases/SHRiMP_${MY_PV}.src.tar.gz" |
64 | |
65 | LICENSE="as-is" |
66 | SLOT="0" |
67 | IUSE="" |
68 | KEYWORDS="~amd64 ~x86" |
69 | |
70 | DEPEND=">=sys-devel/gcc-4.3[openmp]" |
71 | RDEPEND="${DEPEND}" # -lgomp |
72 | |
73 | S=${WORKDIR}/SHRiMP_${MY_PV} |
74 | |
75 | pkg_setup() { |
76 | tc-has-openmp || die "At least gcc-4.3 is required for openmp support." |
77 | } |
78 | |
79 | src_prepare() { |
80 | sed -i -e '1 a #include <stdint.h>' common/dag_glue.cpp || die #294811 |
81 | # respect LDFLAGS wrt 331823 |
82 | sed -i -e "s/LDFLAGS/LIBS/" -e "s/\$(LD)/& \$(LDFLAGS)/" \ |
83 | -e 's/-static//' Makefile || die |
84 | } |
85 | |
86 | src_compile() { |
87 | append-flags -fopenmp -O3 # per instructions in BUILDING |
88 | tc-export CXX |
89 | emake CXXFLAGS="${CXXFLAGS}" LDFLAGS="${LDFLAGS}" || die |
90 | } |
91 | |
92 | src_install() { |
93 | dobin bin/* || die |
94 | insinto /usr/share/${PN} |
95 | doins -r utils || die |
96 | dodoc HISTORY README TODO SPLITTING_AND_MERGING || die |
97 | } |