test/testFeatureIntersects.py

   1
   2 import unittest
   3 import os
   4 from erange import featureIntersects
   5
   6
   7 class TestFeatureIntersects(unittest.TestCase):
   8
   9     testInputFile = "erangeTestFeatureIntersects"
  10
  11
  12     def setUp(self):
  13         cdffile = open(self.testInputFile, "w")
  14         cdffile.write("line1\tchr1\t30\t60\n")
  15         cdffile.write("line2\tchr1\t90\t99\n")
  16         cdffile.write("line3\tchr1\t5\t80\n")
  17         cdffile.write("line4\tchr2\t10\t14\n")
  18         cdffile.write("line4\tnot to be processed\n")
  19         cdffile.write("line5\tchr2\t10\t14\n")
  20         cdffile.close()
  21
  22
  23     def tearDown(self):
  24         try:
  25             os.remove(self.testInputFile)
  26         except OSError:
  27             print "position file does not exist"
  28
  29
  30     #TODO: write test
  31     def testFeatureIntersects(self):
  32         pass
  33
  34
  35     #TODO: write test
  36     def testGetPositionList(self):
  37         pass
  38
  39
  40     #TODO: write test
  41     def testMain(self):
  42         argv = ["cdfdist"]
  43         self.assertRaises(SystemExit, featureIntersects.main, argv)
  44         argv = ["cdfdist", self.testInputFile]
  45         featureIntersects.main(argv)
  46
  47
  48     def testMakeParser(self):
  49         parser = featureIntersects.makeParser("")
  50         argv = []
  51         (options, args) = parser.parse_args(argv)
  52         self.assertEqual([], args)
  53         argv = [self.testInputFile]
  54         (options, args) = parser.parse_args(argv)
  55         self.assertEqual(self.testInputFile, args[0])
  56         self.assertEqual("TFBSCONSSITES", options.cistype)
  57         self.assertEqual(100, options.radius)
  58         argv = [self.testInputFile, "--cistype", "test", "--radius", "50"]
  59         (options, args) = parser.parse_args(argv)
  60         self.assertEqual("test", options.cistype)
  61         self.assertEqual(50, options.radius)
  62
  63
  64 def suite():
  65     suite = unittest.TestSuite()
  66     suite.addTest(unittest.makeSuite(TestFeatureIntersects))
  67
  68     return suite
  69
  70
  71 if __name__ == "__main__":
  72     #import sys;sys.argv = ['', 'Test.testName']
  73     unittest.main()