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#!/usr/bin/env python3
import sys
import os
from pymzml.utils.utils import index_gzip
from pymzml.run import Reader
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__)
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