Mercurial > repos > yufei-luo > s_mart
annotate smart_toolShed/commons/core/parsing/test/Test_PathNum2Id.py @ 0:e0f8dcca02ed
Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
author | yufei-luo |
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date | Thu, 17 Jan 2013 10:52:14 -0500 |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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1 import unittest |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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2 import os |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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3 from commons.core.parsing.PathNum2Id import PathNum2Id |
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4 from commons.core.utils.FileUtils import FileUtils |
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5 |
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6 |
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7 class Test_PathNum2Id(unittest.TestCase): |
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8 |
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9 def setUp(self): |
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10 self._inputFileName = "dummyInputPathFile.path" |
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11 self._outputFileName = "dummyOutputPathFile.path" |
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12 self._expectedFileName = "expectedpathFile.path" |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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13 self._pathNum2Id = PathNum2Id() |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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14 |
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15 def tearDown(self): |
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16 os.remove( self._inputFileName ) |
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17 os.remove( self._outputFileName ) |
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18 os.remove( self._expectedFileName ) |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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19 |
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20 def test_RunWhithoutReturnAtEndOfFile(self): |
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21 self._createAndFillInputFileWhithoutReturnAtTheEnd() |
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22 self._createExpectedFile() |
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23 self._pathNum2Id.setInFileName( self._inputFileName ) |
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24 self._pathNum2Id.setOutFileName( self._outputFileName ) |
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25 self._pathNum2Id.run() |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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26 fileutils = FileUtils() |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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27 self.assertTrue(fileutils.are2FilesIdentical(self._outputFileName, self._expectedFileName)) |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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28 |
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29 def test_RunWhithReturnAtEndOfFile(self): |
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30 self._createAndFillInputFileWhithReturnAtTheEnd() |
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31 self._createExpectedFile() |
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32 self._pathNum2Id.setInFileName( self._inputFileName ) |
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33 self._pathNum2Id.setOutFileName( self._outputFileName ) |
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34 self._pathNum2Id.run() |
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35 fileutils = FileUtils() |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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36 self.assertTrue(fileutils.are2FilesIdentical(self._outputFileName, self._expectedFileName)) |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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37 |
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38 def _createExpectedFile(self): |
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39 f = open(self._expectedFileName, "w") |
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40 f.write("1\tblumeria_Grouper_590_20:NoCat_1\t91\t108\tDUF234\t5\t22\t1.5\t3.2\t0\n") |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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41 f.write("2\tblumeria_Grouper_590_20:NoCat_1\t111\t119\tDUF1414\t1\t9\t6.3\t2.9\t0\n") |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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42 f.write("3\tblumeria_Grouper_590_20:NoCat_3\t30\t37\tCPW_WPC\t1\t9\t7.7\t1.5\t0\n") |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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43 f.write("4\tblumeria_Grouper_590_20:NoCat_3\t55\t69\tHECT\t341\t355\t9.2e-06\t0.0\t0\n") |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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44 f.write("5\tblumeria_Grouper_590_20:NoCat_4\t82\t91\tDUF46\t173\t182\t0.11\t6.4\t0\n") |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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45 f.write("6\tblumeria_Grouper_590_20:NoCat_5\t121\t125\tPOC4\t276\t280\t6.3\t-1.7\t0\n") |
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46 f.close() |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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47 |
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48 def _createAndFillInputFileWhithoutReturnAtTheEnd(self): |
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49 f = open(self._inputFileName, "w") |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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50 f.write("1\tblumeria_Grouper_590_20:NoCat_1\t91\t108\tDUF234\t5\t22\t1.5\t3.2\t0\n") |
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51 f.write("2\tblumeria_Grouper_590_20:NoCat_1\t111\t119\tDUF1414\t1\t9\t6.3\t2.9\t0\n") |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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52 f.write("3\tblumeria_Grouper_590_20:NoCat_3\t30\t37\tCPW_WPC\t1\t9\t7.7\t1.5\t0\n") |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
yufei-luo
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53 f.write("1\tblumeria_Grouper_590_20:NoCat_3\t55\t69\tHECT\t341\t355\t9.2e-06\t0.0\t0\n") |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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54 f.write("2\tblumeria_Grouper_590_20:NoCat_4\t82\t91\tDUF46\t173\t182\t0.11\t6.4\t0\n") |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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55 f.write("3\tblumeria_Grouper_590_20:NoCat_5\t121\t125\tPOC4\t276\t280\t6.3\t-1.7\t0") |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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56 f.close() |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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57 |
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58 def _createAndFillInputFileWhithReturnAtTheEnd(self): |
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59 f = open(self._inputFileName, "w") |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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60 f.write("1\tblumeria_Grouper_590_20:NoCat_1\t91\t108\tDUF234\t5\t22\t1.5\t3.2\t0\n") |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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61 f.write("2\tblumeria_Grouper_590_20:NoCat_1\t111\t119\tDUF1414\t1\t9\t6.3\t2.9\t0\n") |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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62 f.write("3\tblumeria_Grouper_590_20:NoCat_3\t30\t37\tCPW_WPC\t1\t9\t7.7\t1.5\t0\n") |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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63 f.write("1\tblumeria_Grouper_590_20:NoCat_3\t55\t69\tHECT\t341\t355\t9.2e-06\t0.0\t0\n") |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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64 f.write("2\tblumeria_Grouper_590_20:NoCat_4\t82\t91\tDUF46\t173\t182\t0.11\t6.4\t0\n") |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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65 f.write("3\tblumeria_Grouper_590_20:NoCat_5\t121\t125\tPOC4\t276\t280\t6.3\t-1.7\t0\n") |
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66 f.close() |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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67 |
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68 if __name__ == "__main__": |
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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
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69 unittest.main() |