diff commons/tools/tests/Test_F_ReplaceGreaterThanSymbolInFastaHeader.py @ 31:0ab839023fe4

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/commons/tools/tests/Test_F_ReplaceGreaterThanSymbolInFastaHeader.py	Tue Apr 30 14:33:21 2013 -0400
@@ -0,0 +1,51 @@
+import unittest
+import os
+from commons.core.utils.FileUtils import FileUtils
+from commons.tools.tests.MockFastaForReplaceGreaterThanSymbolInFastaHeader import MockFastaForReplaceGreaterThanSymbolInFastaHeader_withoutGreaterThan,\
+    MockFastaForReplaceGreaterThanSymbolInFastaHeader
+from commons.tools.replaceGreaterThanSymbolInFastaHeaderProgramLauncher import replaceGreaterThanSymbolInFastaHeaderProgramLauncher
+
+class Test_F_ReplaceGreaterThanSymbolInHeader(unittest.TestCase):
+
+
+    def test_run(self):
+        inputFileName = "dummy_fasta.fsa"
+        mockInput = MockFastaForReplaceGreaterThanSymbolInFastaHeader()
+        mockInput.write(inputFileName)
+        
+        expFileName = "exp_dummy_fasta.preprocessed.fsa"
+        mockInput = MockFastaForReplaceGreaterThanSymbolInFastaHeader_withoutGreaterThan()
+        mockInput.write(expFileName)
+        
+        obsFileName = "dummy_fasta.preprocessed.fasta"
+        rgtspl = replaceGreaterThanSymbolInFastaHeaderProgramLauncher()
+        rgtspl.setInputFile(inputFileName)
+        rgtspl.run()
+        
+        self.assertTrue(FileUtils.are2FilesIdentical(expFileName, obsFileName))
+        os.remove(inputFileName)
+        os.remove(expFileName)
+        os.remove(obsFileName)
+
+    def test_run_as_script(self):
+        inputFileName = "dummy_fasta.fsa"
+        mockInput = MockFastaForReplaceGreaterThanSymbolInFastaHeader()
+        mockInput.write(inputFileName)
+        
+        expFileName = "exp_dummy_fasta.preprocessed.fsa"
+        mockInput = MockFastaForReplaceGreaterThanSymbolInFastaHeader_withoutGreaterThan()
+        mockInput.write(expFileName)
+        
+        obsFileName = "dummy_fasta.preprocessed.fasta"
+
+        cmd2Launch = "replaceGreaterThanSymbolInFastaHeaderProgramLauncher.py -i " + inputFileName
+        os.system(cmd2Launch)
+        
+        self.assertTrue(FileUtils.are2FilesIdentical(expFileName, obsFileName))
+        os.remove(inputFileName)       
+        os.remove(expFileName)
+        os.remove(obsFileName)    
+
+
+if __name__ == "__main__":
+    unittest.main()
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