Get Gentoo!
gentoo.org sites
gentoo.org Wiki Bugs Forums Packages
Planet Archives Sources
Infra Status

Gentoo Archives: gentoo-commits

From: "Andrey Kislyuk (weaver)" <weaver@g.o>
To: gentoo-commits@l.g.o
Subject: [gentoo-commits] gentoo-x86 commit in sci-biology/tophat: ChangeLog tophat-1.3.3.ebuild tophat-1.4.1.ebuild tophat-1.3.2.ebuild
Date: Sat, 04 Feb 2012 23:42:08
Message-Id: 20120204234154.475572004B@flycatcher.gentoo.org
1 weaver 12/02/04 23:41:54
2
3 Modified: ChangeLog
4 Added: tophat-1.3.3.ebuild tophat-1.4.1.ebuild
5 Removed: tophat-1.3.2.ebuild
6 Log:
7 filter as-needed, version bump, fixes bug 401227
8
9 (Portage version: 2.2.0_alpha74/cvs/Linux x86_64)
10
11 Revision Changes Path
12 1.6 sci-biology/tophat/ChangeLog
13
14 file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/tophat/ChangeLog?rev=1.6&view=markup
15 plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/tophat/ChangeLog?rev=1.6&content-type=text/plain
16 diff : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/tophat/ChangeLog?r1=1.5&r2=1.6
17
18 Index: ChangeLog
19 ===================================================================
20 RCS file: /var/cvsroot/gentoo-x86/sci-biology/tophat/ChangeLog,v
21 retrieving revision 1.5
22 retrieving revision 1.6
23 diff -u -r1.5 -r1.6
24 --- ChangeLog 26 Sep 2011 15:33:22 -0000 1.5
25 +++ ChangeLog 4 Feb 2012 23:41:53 -0000 1.6
26 @@ -1,6 +1,16 @@
27 # ChangeLog for sci-biology/tophat
28 -# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
29 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/tophat/ChangeLog,v 1.5 2011/09/26 15:33:22 weaver Exp $
30 +# Copyright 1999-2012 Gentoo Foundation; Distributed under the GPL v2
31 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/tophat/ChangeLog,v 1.6 2012/02/04 23:41:53 weaver Exp $
32 +
33 +*tophat-1.4.1 (04 Feb 2012)
34 +*tophat-1.3.3 (04 Feb 2012)
35 +
36 + 04 Feb 2012; Andrey Kislyuk <weaver@g.o> -tophat-1.3.2.ebuild,
37 + +tophat-1.3.3.ebuild, +tophat-1.4.1.ebuild:
38 + version bump
39 +
40 + 04 Feb 2012; Andrey Kislyuk <weaver@g.o> tophat-1.3.2.ebuild:
41 + filter as-needed
42
43 *tophat-1.3.2 (26 Sep 2011)
44
45
46
47
48 1.1 sci-biology/tophat/tophat-1.3.3.ebuild
49
50 file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/tophat/tophat-1.3.3.ebuild?rev=1.1&view=markup
51 plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/tophat/tophat-1.3.3.ebuild?rev=1.1&content-type=text/plain
52
53 Index: tophat-1.3.3.ebuild
54 ===================================================================
55 # Copyright 1999-2012 Gentoo Foundation
56 # Distributed under the terms of the GNU General Public License v2
57 # $Header: /var/cvsroot/gentoo-x86/sci-biology/tophat/tophat-1.3.3.ebuild,v 1.1 2012/02/04 23:41:53 weaver Exp $
58
59 EAPI=4
60
61 inherit flag-o-matic
62
63 DESCRIPTION="A fast splice junction mapper for RNA-Seq reads"
64 HOMEPAGE="http://tophat.cbcb.umd.edu/"
65 SRC_URI="http://tophat.cbcb.umd.edu/downloads/${P}.tar.gz"
66
67 LICENSE="Artistic"
68 SLOT="0"
69 IUSE="+bam"
70 KEYWORDS="~amd64 ~x86"
71
72 DEPEND="bam? ( sci-biology/samtools )"
73 RDEPEND="${DEPEND}
74 sci-biology/bowtie"
75
76 MAKEOPTS="${MAKEOPTS} -j1"
77
78 src_prepare() {
79 filter-ldflags -Wl,--as-needed
80 }
81
82 src_configure() {
83 econf \
84 $(use_with bam) || die
85 }
86
87 src_install() {
88 einstall || die
89 dodoc AUTHORS NEWS THANKS
90 }
91
92
93
94 1.1 sci-biology/tophat/tophat-1.4.1.ebuild
95
96 file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/tophat/tophat-1.4.1.ebuild?rev=1.1&view=markup
97 plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/tophat/tophat-1.4.1.ebuild?rev=1.1&content-type=text/plain
98
99 Index: tophat-1.4.1.ebuild
100 ===================================================================
101 # Copyright 1999-2012 Gentoo Foundation
102 # Distributed under the terms of the GNU General Public License v2
103 # $Header: /var/cvsroot/gentoo-x86/sci-biology/tophat/tophat-1.4.1.ebuild,v 1.1 2012/02/04 23:41:54 weaver Exp $
104
105 EAPI=4
106
107 inherit flag-o-matic autotools
108
109 DESCRIPTION="A fast splice junction mapper for RNA-Seq reads"
110 HOMEPAGE="http://tophat.cbcb.umd.edu/"
111 SRC_URI="http://tophat.cbcb.umd.edu/downloads/${P}.tar.gz"
112
113 LICENSE="Artistic"
114 SLOT="0"
115 IUSE="+bam"
116 KEYWORDS="~amd64 ~x86"
117
118 DEPEND="bam? ( sci-biology/samtools )"
119 RDEPEND="${DEPEND}
120 sci-biology/bowtie"
121
122 MAKEOPTS="${MAKEOPTS} -j1"
123
124 src_prepare() {
125 filter-ldflags -Wl,--as-needed
126 eautoreconf
127 }
128
129 src_configure() {
130 econf \
131 $(use_with bam) || die
132 }
133
134 src_install() {
135 einstall || die
136 dodoc AUTHORS NEWS THANKS
137 }
Report Message
Find on MARC Find on Google Groups