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1 import unittest
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2 import os
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3 from commons.core.utils.FileUtils import FileUtils
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4
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5 TESTFILES_PATH = os.environ['REPET_PATH'] + '/SMART/Java/Python/TestFiles'
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6
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7 class Test_F_coordinatesToSequence(unittest.TestCase):
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8
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9 def test_run(self):
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10 cmd = "python ../coordinatesToSequence.py -i %s/testC2S.gff3 -f gff3 -s %s/testC2S.fa -o testOut.fa -v 10 " % (TESTFILES_PATH, TESTFILES_PATH)
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11 os.system(cmd)
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12 obs = 'testOut.fa'
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13 exp = 'expOut.fa'
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14 self._writeExpOut(exp)
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15 self.assertTrue(FileUtils.isRessourceExists(obs))
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16 self.assertTrue(FileUtils.are2FilesIdentical(obs, exp))
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17 os.remove(obs)
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18 os.remove(exp)
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19
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20 def _writeExpOut(self, outputFileName):
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21 f = open(outputFileName, "w")
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22 f.write(">region0\n")
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23 f.write("CAACATTAGC\n")
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24 f.write(">region1\n")
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25 f.write("TTAGCCGGCC\n")
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26 f.write(">region2\n")
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27 f.write("GGCCGGCTAA\n")
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28 f.close()
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29
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30 if __name__ == "__main__":
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31 unittest.main() |
