import unittest
import os
from commons.core.utils.FileUtils import FileUtils

class Test_F_TranslateAfastaFileInAllFrameAndReplaceStopsByX(unittest.TestCase):
    
    def setUp(self):
        self._inputFile = "./datas/ConsensusTestFile_nt.fsa"
        self._outputFile = "./datas/PreprocessOuputFile"
        self._prg = "translateAfastaFileInAllFrameAndReplaceStopsByX_script.py"
        
        
    def testAcceptanceTranslateAfastaFileInAllFrameAndReplaceStopsByX_script(self):
        cmd = self._prg
        cmd += " -i %s" % ( self._inputFile )
        cmd += " -o %s" % ( self._outputFile )
        os.system( cmd )        
        self.assertTrue(FileUtils.are2FilesIdentical( self._outputFile, "./datas/ConsensusTestFile_aaWithoutStop.fsa"))
        os.system( "rm " + self._outputFile )
               
        
if __name__ == "__main__":                 
    unittest.main()