[148375] trunk/dports/science

[khindenburg at macports.org]

Revision: 148375
          https://trac.macports.org/changeset/148375
Author:   khindenburg at macports.org
Date:     2016-05-06 06:42:29 -0700 (Fri, 06 May 2016)
Log Message:
-----------
bowtie2: new port #51018

Added Paths:
-----------
    trunk/dports/science/bowtie2/
    trunk/dports/science/bowtie2/Portfile
    trunk/dports/science/bowtie2/files/

Added: trunk/dports/science/bowtie2/Portfile
===================================================================
--- trunk/dports/science/bowtie2/Portfile	                        (rev 0)
+++ trunk/dports/science/bowtie2/Portfile	2016-05-06 13:42:29 UTC (rev 148375)
@@ -0,0 +1,65 @@
+# -*- 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
+# $Id$
+
+PortSystem          1.0
+PortGroup           github 1.0
+
+github.setup        BenLangmead bowtie2 2.2.9 v
+
+categories          science biology
+platforms           darwin
+license             GPL-3
+maintainers         mit.edu:gaberoo \
+                    openmaintainer
+
+description         Bowtie 2: Fast and sensitive read alignment
+long_description    Bowtie 2 is an ultrafast and memory-efficient tool \
+                    for aligning sequencing reads to long reference \
+                    sequences. It is particularly good at aligning reads \
+                    of about 50 up to 100s or 1,000s of characters, and \
+                    particularly good at aligning to relatively long \
+                    (e.g. mammalian) genomes. Bowtie 2 indexes the genome \
+                    with an FM Index to keep its memory footprint small: \
+                    for the human genome, its memory footprint is \
+                    typically around 3.2 GB. Bowtie 2 supports gapped, \
+                    local, and paired-end alignment modes.
+
+homepage            http://bowtie-bio.sourceforge.net/bowtie2/index.shtml
+
+checksums           rmd160  4d385888f4cc1dc465cdd74b2e735ca2baed90e8 \
+                    sha256  435c27c33807be6227b5370f53146a3e7f890534db650d3d0f5e86570f9d5170
+
+patchfiles          patch-src-Makefile.diff
+
+use_configure       no
+universal_variant   no
+
+build.args-append   CC=${configure.cc} \
+                    CXX=${configure.cxx} \
+                    CPP=${configure.cpp}
+
+destroot {
+    xinstall -m 755 -W ${worksrcpath} \
+        bowtie2 \
+        bowtie2-align-s \
+        bowtie2-align-l \
+        bowtie2-build \
+        bowtie2-build-s \
+        bowtie2-build-l \
+        bowtie2-inspect \
+        bowtie2-inspect-s \
+        bowtie2-inspect-l \
+        ${destroot}${prefix}/bin
+
+    xinstall -m 755 -d ${destroot}${prefix}/share/doc/${name}
+    xinstall -m 644 -W ${worksrcpath} \
+        VERSION \
+        TUTORIAL \
+        README \
+        NEWS \
+        MANUAL.markdown \
+        MANUAL \
+        LICENSE \
+        AUTHORS \
+        ${destroot}${prefix}/share/doc/${name}
+}


Property changes on: trunk/dports/science/bowtie2/Portfile
___________________________________________________________________
Added: svn:keywords
   + Id
Added: svn:eol-style
   + native
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