Source code for gzip_mzml

#!/usr/bin/env python3.4

import sys
import os
from pymzml.utils.utils import index_gzip
from pymzml.run import Reader


[docs]def main(mzml_path, out_path): """ Create and indexed gzip mzML file from a plain mzML. Usage: python3 gzip_mzml.py <path/to/mzml> <path/to/output> """ with open(mzml_path) as fin: fin.seek(0,2) max_offset_len = fin.tell() max_spec_no = Reader(mzml_path).get_spectrum_count() + 10 index_gzip( mzml_path, out_path, max_idx = max_spec_no, idx_len = len(str(max_offset_len)) )
if __name__ == '__main__': if len(sys.argv) > 2: main( sys.argv[1], sys.argv[2] ) else: print(main.__doc__)