test/testErange.py

   1 '''
   2 Runs all unit test for Erange.
   3 Functionality will eventually be incorporated into unittest in Python 2.7+
   4 Uses test suites until then
   5
   6 Created on Sep 8, 2010
   7
   8 @author: sau
   9 '''
  10
  11 import sys
  12 import unittest
  13 import testAnalyzeGO
  14 import testBedToRegion
  15 import testBinsToCdf
  16 import testCdfDist
  17 import testChksnp
  18 import testColsum
  19 import testCommoncode
  20 import testFeatureIntersects
  21 import testGeneMrnaCounts
  22 import testGeneMrnaCountsWeighted
  23 #import testGetFasta
  24 import testGetNovelSNPs
  25 import testGetSNPGeneInfo
  26 import testGetSNPs
  27 import testMakeBamFromRds
  28 import testmakebedfromrds
  29 #import testMakeGraphs
  30 import testMakeRdsFromBam
  31 import testMakeSiteTrack
  32 import testMakeSNPTrack
  33 import testMarkLinkers
  34 import testPeak
  35 import testPeaksToRegion
  36 import testProcessVelvet
  37 import testReadDataset
  38 import testRnaAToIFilter
  39 import testRnaEditing
  40 import testRNAPATH
  41 #import testTranscripts
  42
  43
  44 def main(argv=None):
  45     if not argv:
  46         argv = sys.argv
  47
  48     suite = unittest.TestSuite()
  49     suite.addTest(testAnalyzeGO.suite())
  50     suite.addTest(testBedToRegion.suite())
  51     suite.addTest(testBinsToCdf.suite())
  52     suite.addTest(testCdfDist.suite())
  53     suite.addTest(testChksnp.suite())
  54     suite.addTest(testColsum.suite())
  55     suite.addTest(testCommoncode.suite())
  56     suite.addTest(testFeatureIntersects.suite())
  57     suite.addTest(testGeneMrnaCounts.suite())
  58     suite.addTest(testGeneMrnaCountsWeighted.suite())
  59     #suite.addTest(testGetFasta.suite())
  60     suite.addTest(testGetNovelSNPs.suite())
  61     suite.addTest(testGetSNPGeneInfo.suite())
  62     suite.addTest(testGetSNPs.suite())
  63     suite.addTest(testMakeBamFromRds.suite())
  64     suite.addTest(testmakebedfromrds.suite())
  65     #suite.addTest(testMakeGraphs.suite())
  66     suite.addTest(testMakeRdsFromBam.suite())
  67     suite.addTest(testMakeSiteTrack.suite())
  68     suite.addTest(testMakeSNPTrack.suite())
  69     suite.addTest(testMarkLinkers.suite())
  70     suite.addTest(testPeak.suite())
  71     suite.addTest(testPeaksToRegion.suite())
  72     suite.addTest(testProcessVelvet.suite())
  73     suite.addTest(testReadDataset.suite())
  74     suite.addTest(testRnaAToIFilter.suite())
  75     suite.addTest(testRnaEditing.suite())
  76     suite.addTest(testRNAPATH.suite())
  77     #suite.addTest(testTranscripts.suite())
  78
  79     unittest.TextTestRunner(verbosity=2).run(suite)
  80
  81 if __name__ == '__main__':
  82     main(sys.argv)