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src/b/i/biopython-1.63/Tests/test_Emboss.py   biopython(Download)
    def test_needle_file(self):
        """needle with the asis trick, output to a file."""
        #Setup,
        cline = NeedleCommandline(cmd=exes["needle"])
        cline.set_parameter("-asequence", "asis:ACCCGGGCGCGGT")
        cline.set_parameter("-bsequence", "asis:ACCCGAGCGCGGT")
        cline.set_parameter("-gapopen", "10")
        cline.set_parameter("-gapextend", "0.5")
        #EMBOSS would guess this, but let's be explicit:
        cline.set_parameter("-snucleotide", "True")

src/b/i/biopython-HEAD/Tests/test_Emboss.py   biopython(Download)
    def test_needle_file(self):
        """needle with the asis trick, output to a file."""
        #Setup,
        cline = NeedleCommandline(cmd=exes["needle"])
        cline.set_parameter("-asequence", "asis:ACCCGGGCGCGGT")
        cline.set_parameter("-bsequence", "asis:ACCCGAGCGCGGT")
        cline.set_parameter("-gapopen", "10")
        cline.set_parameter("-gapextend", "0.5")
        #EMBOSS would guess this, but let's be explicit:
        cline.set_parameter("-snucleotide", "True")