Mercurial > repos > yufei-luo > s_mart

comparison SMART/Java/Python/test/Test_F_coordinatesToSequence.py @ 18:94ab73e8a190

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author m-zytnicki
date Mon, 29 Apr 2013 03:20:15 -0400
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17:b0e8584489e6 18:94ab73e8a190
1 import unittest
2 import os
3 from commons.core.utils.FileUtils import FileUtils
4
5 TESTFILES_PATH = os.environ['REPET_PATH'] + '/SMART/Java/Python/TestFiles'
6
7 class Test_F_coordinatesToSequence(unittest.TestCase):
8
9 def test_run(self):
10 cmd = "python ../coordinatesToSequence.py -i %s/testC2S.gff3 -f gff3 -s %s/testC2S.fa -o testOut.fa -v 10 " % (TESTFILES_PATH, TESTFILES_PATH)
11 os.system(cmd)
12 obs = 'testOut.fa'
13 exp = 'expOut.fa'
14 self._writeExpOut(exp)
15 self.assertTrue(FileUtils.isRessourceExists(obs))
16 self.assertTrue(FileUtils.are2FilesIdentical(obs, exp))
17 os.remove(obs)
18 os.remove(exp)
19
20 def _writeExpOut(self, outputFileName):
21 f = open(outputFileName, "w")
22 f.write(">region0\n")
23 f.write("CAACATTAGC\n")
24 f.write(">region1\n")
25 f.write("TTAGCCGGCC\n")
26 f.write(">region2\n")
27 f.write("GGCCGGCTAA\n")
28 f.close()
29
30 if __name__ == "__main__":
31 unittest.main()