Python rc_fasta_file示例

示例#1

文件： adjust_seq_orientation.py 项目： Honglongwu/qiime

def main():
    option_parser, opts, args = parse_command_line_parameters(**script_info)

    verbose = opts.verbose

    input_fasta_fp = opts.input_fasta_fp
    output_fp = opts.output_fp
    retain_seq_id = opts.retain_seq_id

    if retain_seq_id:
        seq_desc_mapper = null_seq_desc_mapper
    else:
        seq_desc_mapper = append_rc

    if not output_fp:
        input_file_basename, input_file_ext = splitext(split(input_fasta_fp)[1])
        output_fp = "%s_rc%s" % (input_file_basename, input_file_ext)

    rc_fasta_file(input_fasta_fp, output_fp, seq_desc_mapper)

示例#2

def main():
    option_parser, opts, args = parse_command_line_parameters(**script_info)

    verbose = opts.verbose

    input_fasta_fp = opts.input_fasta_fp
    output_fp = opts.output_fp
    retain_seq_id = opts.retain_seq_id

    if retain_seq_id:
        seq_desc_mapper = null_seq_desc_mapper
    else:
        seq_desc_mapper = append_rc

    if not output_fp:
        input_file_basename, input_file_ext = \
            splitext(split(input_fasta_fp)[1])
        output_fp = '%s_rc%s' % (input_file_basename, input_file_ext)

    rc_fasta_file(input_fasta_fp, output_fp, seq_desc_mapper)