⚡ Bolt: Optimize file loading memory usage#15
⚡ Bolt: Optimize file loading memory usage#15google-labs-jules[bot] wants to merge 1 commit intomainfrom
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Replaces `io.StringIO(file.read().decode())` with `io.TextIOWrapper(file)` in `app.py`. This avoids loading the entire file content into memory as bytes and then string, significantly reducing memory pressure for large MGF and mzTab files. - Adds `test_loading_with_textiowrapper` integration test. - Updates `.gitignore` to exclude pycache. - Adds performance journal entry.
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💡 What: Replaced the inefficient file loading pattern
io.StringIO(file.read().decode('utf-8'))withio.TextIOWrapper(file, encoding='utf-8')inapp.py.🎯 Why: The original approach loaded the entire file into RAM as bytes, then decoded it into a huge string, then wrapped it in StringIO. For large proteomics files (MGF), this caused massive memory spikes (potentially 2-3x file size).
📊 Impact: Reduces peak memory usage during file loading by streaming the decoding process.
pyteomicsparses the stream directly without holding the full content in memory.🔬 Measurement: Added
tests/test_integration.py::test_loading_with_textiowrapperto verify thatload_mgfandload_mztabcorrectly handle theTextIOWrapperobject. Existing tests confirm no regression.PR created automatically by Jules for task 6572774307511972141 started by @erayfirat