source: trunk/dports/science/tophat/Portfile

Last change on this file was 125156, checked in by khindenburg@…, 3 years ago

tophat: update homepage + add livecheck #35068

  • Property svn:eol-style set to native
  • Property svn:keywords set to Id
File size: 1.5 KB
Line 
1# -*- coding: utf-8; mode: tcl; tab-width: 4; indent-tabs-mode: nil; c-basic-offset: 4 -*- vim:fenc=utf-8:ft=tcl:et:sw=4:ts=4:sts=4
2# $Id: Portfile 125156 2014-09-08 03:10:09Z ryandesign@macports.org $
3
4PortSystem          1.0
5
6name                tophat
7version             1.2.0
8categories          science biology
9license             LGPL-3+
10platforms           darwin
11maintainers         gmail.com:haroldpimentel openmaintainer
12
13description         a fast splice junction mapper for RNA-Seq reads
14
15long_description    TopHat is ${description}. It aligns RNA-Seq reads to \
16                    mammalian-sized genomes using the ultra high-throughput \
17                    short read aligner Bowtie, and then analyzes the mapping \
18                    results to identify splice junctions between exons.
19
20homepage            http://ccb.jhu.edu/software/tophat/
21master_sites        ${homepage}downloads/
22
23checksums           sha1        0e697b16c64fa12180b93ecf87fdf25f722973a5 \
24                    rmd160      da62ddc6b2bf8deeda19a95965b1ff2cfd4b95b2
25
26use_parallel_build  no
27
28depends_lib         port:zlib \
29                    port:samtools \
30                    port:bowtie
31
32# samtools and bowtie are not universal
33universal_variant   no
34
35patchfiles          src_GList.hh.patch
36
37# defines _POSIX_SOURCE which by itself means 1003.1-1988, but uses fseeko
38# which is from 1003.1-2001, and strsep which is a BSD extension
39configure.cppflags-append -D_DARWIN_C_SOURCE
40
41livecheck.type      regex
42livecheck.url       [lindex ${master_sites} 0]
43livecheck.regex     ${name}-(\[0-9.\]+)${extract.suffix}
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