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⚡ Bolt: Optimize file loading memory usage#23

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erayfirat wants to merge 1 commit intomainfrom
bolt-optimize-file-loading-3908754972717423550
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⚡ Bolt: Optimize file loading memory usage#23
erayfirat wants to merge 1 commit intomainfrom
bolt-optimize-file-loading-3908754972717423550

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@erayfirat
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⚡ Bolt Optimization:

  • What: Switched from file.read().decode() to io.TextIOWrapper(file) for load_mgf and load_mztab.
  • Why: Reading the entire file into memory and then decoding it doubles (or triples) memory usage, which is critical for large proteomics files (MGF). Streaming the decoding is much more efficient.
  • Impact: Significant memory reduction for large file uploads.
  • Verification: Added tests/test_streaming_io.py to ensure pyteomics parsers work correctly with TextIOWrapper. Ran all tests.

PR created automatically by Jules for task 3908754972717423550 started by @erayfirat

Replaced full-file read/decode with streaming `io.TextIOWrapper` for MGF and mzTab loading. This significantly reduces memory footprint by avoiding large intermediate string allocations.

Verified with new regression test `tests/test_streaming_io.py`.

Co-authored-by: erayfirat <59361860+erayfirat@users.noreply.github.com>
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