[3] | 1 | """ |
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| 2 | Runs a more demaniding test |
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| 3 | """ |
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| 4 | import os |
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| 5 | from genetrack import util, conf, logger, scripts |
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| 6 | from genetrack.scripts import bed2genetrack |
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| 7 | |
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| 8 | logger.disable(None) |
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| 9 | |
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| 10 | def bedfile(inpfile): |
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| 11 | basename = os.path.basename(inpfile) |
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| 12 | outfile = conf.tempdata('%s.genetrack' % basename) |
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| 13 | bed2genetrack.transform(inpfile, outfile) |
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| 14 | |
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| 15 | if __name__ == '__main__': |
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| 16 | import optparse |
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| 17 | |
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| 18 | parser = optparse.OptionParser() |
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| 19 | |
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| 20 | # setting the input file name |
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| 21 | parser.add_option( |
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| 22 | '--bed2genetrack', |
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| 23 | dest="bed2genetrack", |
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| 24 | help="run the bed2genetrack transform on a file" |
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| 25 | ) |
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| 26 | |
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| 27 | options, args = parser.parse_args() |
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| 28 | |
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| 29 | if options.bed2genetrack: |
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| 30 | bedfile(options.bed2genetrack) |
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| 31 | |
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| 32 | |
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