def input_file(self, input_file, raw):
"""Takes the parsed secondary structure and generates the Connect file
needed for RemovePseudoknots
"""
formatter = CtWriter()
formatter.write(input_file, raw)
def input_file(self, input_file, raw):
"""Takes the parsed secondary structure and generates the Connect file
needed for RemovePseudoknots
"""
formatter = CtWriter()
formatter.write(input_file, raw)