Mercurial > repos > yufei-luo > s_mart
comparison commons/launcher/tests/Test_launchTEclass.py @ 18:94ab73e8a190
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| author | m-zytnicki |
|---|---|
| date | Mon, 29 Apr 2013 03:20:15 -0400 |
| parents | |
| children |
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| 17:b0e8584489e6 | 18:94ab73e8a190 |
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| 1 import unittest | |
| 2 import os | |
| 3 from commons.core.utils.FileUtils import FileUtils | |
| 4 from commons.launcher import launchTEclass | |
| 5 | |
| 6 | |
| 7 class Test_launchTEclass( unittest.TestCase ): | |
| 8 | |
| 9 def test_parseFastaFileFromTEclass( self ): | |
| 10 inFile = "dummyLibFile.fa" | |
| 11 inHandler = open( inFile, "w" ) | |
| 12 inHandler.write( ">1360|TEclass result: DNA|ORFs: 1360..2226:+1\n" ) | |
| 13 inHandler.write( "AGCATGACGCA\n" ) | |
| 14 inHandler.write( ">FB|TEclass result: unclear\n" ) | |
| 15 inHandler.write( "GCATGCAGCGACGCGAC\n" ) | |
| 16 inHandler.close() | |
| 17 | |
| 18 expFile = "dummyExpFile.map" | |
| 19 expHandler = open( expFile, "w" ) | |
| 20 expHandler.write( "DNA\t1360\t1\t11\n" ) | |
| 21 expHandler.write( "unclear\tFB\t1\t17\n" ) | |
| 22 expHandler.close() | |
| 23 | |
| 24 obsFile = "dummyObsFile.map" | |
| 25 | |
| 26 launchTEclass.parseFastaFileFromTEclass( inFile, obsFile ) | |
| 27 | |
| 28 self.assertTrue( FileUtils.are2FilesIdentical( expFile, obsFile ) ) | |
| 29 | |
| 30 for f in [ inFile, expFile, obsFile ]: | |
| 31 os.remove( f ) | |
| 32 | |
| 33 if __name__ == "__main__": | |
| 34 unittest.main() |