def command_line(self):
file_format=self.guess_sequence_input_file_format(self.read_file)<EOL>logging.debug("<STR_LIT>" % file_format)<EOL>if file_format == self.FORMAT_FASTA:<EOL><INDENT>cmd="""<STR_LIT>""" % (self.read_file)<EOL><DEDENT>elif file_format == self.FORMAT_FASTQ_GZ:<EOL><INDENT>cmd="""<STR_LIT>""" % (self.read_file)<EOL><DEDENT>elif file_format == self.FORMAT_FASTA_GZ:<EOL><INDENT>cmd="""<STR_LIT>""" % (self.read_file)<EOL><DEDENT>elif file_format == self.FORMAT_FASTQ:<EOL><INDENT>cmd="""<STR_LIT>""" % (self.read_file)<EOL><DEDENT>logging.debug("<STR_LIT>" % cmd)<EOL>return cmd<EOL>
Return a string to open read files with