def testTCGAMAFAsInput(self):
     """ Test that we can take in a TCGA MAF (using MAFLITE), do no annotations, and still render it properly """
     tmp = MafliteInputMutationCreator("testdata/maf/Patient0.maf.annotated", 'configs/maflite_input.config')
     muts = tmp.createMutations()
     
     outputFilename = "out/testTCGAMAFAsInput.tsv"
     outputRenderer = TcgaMafOutputRenderer(outputFilename, 'configs/tcgaMAF2.4_output.config')
     outputRenderer.renderMutations(muts, tmp.getComments())
    def testTCGAMAFAsInput(self):
        """ Test that we can take in a TCGA MAF (using MAFLITE), do no annotations, and still render it properly """
        tmp = MafliteInputMutationCreator(
            "testdata/maf/Patient0.maf.annotated", None,
            'configs/maflite_input.config')
        muts = tmp.createMutations()

        outputFilename = "out/testTCGAMAFAsInput.tsv"
        outputRenderer = TcgaMafOutputRenderer(
            outputFilename, 'configs/tcgaMAF2.4_output.config')
        outputRenderer.renderMutations(muts, tmp.getComments())