ea14084398
GMAP/GSNAP is a widely used tool for alignment of high-throughput sequence data. See details about GMAP/GSNAP here: http://research-pub.gene.com/gmap Here is the referencable peer-reviewed paper: Thomas D. Wu and Colin K. Watanabe GMAP: a genomic mapping and alignment program for mRNA and EST sequences Bioinformatics 2005 21:1859-1875 PUBMED ID 15728110 full citation at http://www.ncbi.nlm.nih.gov/pubmed/15728110 Signed-off-by: Adam Vandenberg <flangy@gmail.com>
31 lines
757 B
Ruby
31 lines
757 B
Ruby
require 'formula'
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class GmapGsnap < Formula
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homepage 'http://research-pub.gene.com/gmap'
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url 'http://research-pub.gene.com/gmap/src/gmap-gsnap-2012-04-10.tar.gz'
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md5 'acd1731524eb3517f6e82147c646d27d'
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version "2012-04-10"
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depends_on "samtools"
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def install
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ENV['CC'] = "#{ENV.cc} -O3 -m#{MacOS.prefer_64_bit? ? 64 : 32}"
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system "./configure", "--prefix=#{prefix}"
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system "make"
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system "make install"
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end
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def caveats; <<-EOF.undent
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You will need to either download or build indexed search databases.
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See the readme file for how to do this:
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http://research-pub.gene.com/gmap/src/README
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Databases will be installed to:
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#{share}
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EOF
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end
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def test
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system "#{bin}/gsnap --version"
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end
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end
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