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ML4H merge: tranche 1
- #1185
#1185
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will-pang
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ML4H merge: tranche 1
#1185
will-pang
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Commits on Aug 11, 2026
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Commits on Aug 17, 2026
Stop emitting fake missing-event placeholders.
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Keep frozen text encoders in eval when Trainer calls train().
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Cache frozen [CLS] embeddings keyed on real tokens, not padded rows.
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Commits on Aug 18, 2026
Restore BaseDataset parquet scanning that MEDS still calls.
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Fill attention masks with dtype min and use fused SDPA.
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Record batch padding and skip those slots in the unified sequence.
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Keep padding_idx=0 on nested code embeddings.
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Accept resized_images and write sunlab CXR metadata to cache.
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Refuse unknown amp_dtype instead of silently selecting fp16.
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Thread collate pad_mask through the unified MLP path.
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Fit lab z-scores on observed train rows via region_of_interest.
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Write run_config.json next to the metrics of a finished run.
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Stop dropping later stays against the first admission's CXR window.
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Keep paired runs from overwriting each other or reporting train as test.
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Give NotesLabs a 24h window and put concatenated stays on one timeline.
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Give time embeddings a 10-year span and drop ICDLabsMIMIC4.
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Point the old unified_embedding import at the package copy.
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Point AMP autocast at the trainer device instead of hardcoding CUDA.
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Default to a full stay and stamp admission-context notes at admit.
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Commits on Aug 25, 2026
Merge branch 'sunlabuiuc:master' into ml4h-merge-tranche-1
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