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1 from commons.core.sql.DbFactory import DbFactory
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2 from commons.core.utils.FileUtils import FileUtils
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3 from commons.pyRepetUnit.convCoord.ConvSetChr2Chunk import ConvSetChr2Chunk
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4 import unittest
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5 import os
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6
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7 class Test_ConvSetChr2Chunk(unittest.TestCase):
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8
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9 def setUp(self):
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10 self._setfilename="dummy.set"
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11 self._settablename="dummy_set"
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12
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13 self._chunkmapfilename="chunk.map"
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14 self._chunkmaptable="test_chunk_map"
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15
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16 self._resfilename="dummy_res.set"
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17
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18 map4convData="chunk1\tchr1\t1\t100\n"
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19 map4convData+="chunk2\tchr1\t90\t200\n"
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20 map4convData+="chunk3\tchr1\t190\t300\n"
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21
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22 map4conv=open(self._chunkmapfilename,"w")
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23 map4conv.write(map4convData)
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24 map4conv.close()
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25
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26 self._db = DbFactory.createInstance()
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27 self._db.createTable(self._chunkmaptable, "map", self._chunkmapfilename, True)
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28
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29 set2convData="1\treg1\tchr1\t10\t80\n"
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30 set2convData+="1\treg1\tchr1\t90\t110\n"
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31 set2convData+="2\treg2\tchr1\t150\t160\n"
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32
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33 set2convData+="3\treg3\tchr1\t70\t210\n"
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34 set2convData+="4\treg4\tchr1\t85\t100\n"
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35 set2convData+="5\treg5\tchr1\t85\t110\n"
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36
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37 set2convData+="6\treg6\tchr1\t80\t10\n"
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38 set2convData+="6\treg6\tchr1\t110\t90\n"
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39 set2convData+="7\treg7\tchr1\t160\t150\n"
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40 set2convData+="8\treg8\tchr1\t190\t300\n"
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41
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42 set2convData+="9\treg9\tchr1\t210\t70\n"
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43 set2convData+="10\treg10\tchr1\t100\t85\n"
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44 set2convData+="11\treg11\tchr1\t110\t85\n"
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45 set2convData+="12\treg12\tchr1\t300\t190\n"
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46
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47 set2conv=open(self._setfilename,"w")
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48 set2conv.write(set2convData)
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49 set2conv.close()
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50
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51 self._db.createTable(self._settablename, "set", self._setfilename, True)
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52
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53 setResData="1\treg1\tchunk1\t10\t80\n"
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54 setResData+="1\treg1\tchunk1\t90\t100\n"
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55 setResData+="1\treg1\tchunk2\t1\t21\n"
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56 setResData+="2\treg2\tchunk2\t61\t71\n"
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57
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58 setResData+="3\treg3\tchunk1\t70\t100\n"
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59 setResData+="3\treg3\tchunk2\t1\t111\n"
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60 setResData+="3\treg3\tchunk3\t1\t21\n"
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61
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62 setResData+="4\treg4\tchunk1\t85\t100\n"
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63 setResData+="4\treg4\tchunk2\t1\t11\n"
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64 setResData+="5\treg5\tchunk1\t85\t100\n"
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65 setResData+="5\treg5\tchunk2\t1\t21\n"
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66
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67 setResData+="6\treg6\tchunk1\t80\t10\n"
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68 setResData+="6\treg6\tchunk1\t100\t90\n"
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69 setResData+="6\treg6\tchunk2\t21\t1\n"
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70 setResData+="7\treg7\tchunk2\t71\t61\n"
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71 setResData+="8\treg8\tchunk2\t101\t111\n"
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72 setResData+="8\treg8\tchunk3\t1\t111\n"
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73
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74 setResData+="9\treg9\tchunk1\t100\t70\n"
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75 setResData+="9\treg9\tchunk2\t111\t1\n"
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76 setResData+="9\treg9\tchunk3\t21\t1\n"
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77
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78 setResData+="10\treg10\tchunk1\t100\t85\n"
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79 setResData+="10\treg10\tchunk2\t11\t1\n"
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80 setResData+="11\treg11\tchunk1\t100\t85\n"
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81 setResData+="11\treg11\tchunk2\t21\t1\n"
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82 setResData+="12\treg12\tchunk2\t111\t101\n"
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83 setResData+="12\treg12\tchunk3\t111\t1\n"
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84
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85 setRes=open(self._resfilename,"w")
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86 setRes.write(setResData)
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87 setRes.close()
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88
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89 def tearDown(self):
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90 self._db.dropTable(self._chunkmaptable)
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91 self._db.dropTable(self._settablename)
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92 self._db.close()
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93 os.remove(self._resfilename)
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94 os.remove(self._setfilename)
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95 os.remove(self._chunkmapfilename)
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96
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97 def test_convert(self):
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98 conv = ConvSetChr2Chunk(self._db,self._settablename, self._chunkmaptable, self._settablename+"_onchk")
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99 conv.convert()
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100 obsFileName = "dummy_set.onchk"
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101 self._db.exportDataToFile("dummy_set_onchk", obsFileName)
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102 self._db.dropTable("dummy_set_onchk")
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103 self.assertTrue(FileUtils.are2FilesIdentical(self._resfilename, obsFileName))
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104 os.remove(obsFileName)
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105
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106 test_suite = unittest.TestSuite()
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107 test_suite.addTest( unittest.makeSuite( Test_ConvSetChr2Chunk ) )
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108 if __name__ == '__main__':
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109 unittest.TextTestRunner(verbosity=2).run( test_suite ) |
