[DUMMY PR] Wp dev/ra/labs only variant - #1184

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Multimodal-PyHealth:wp-dev/ra/labs-only-variant

Commits on Feb 20, 2026

Create multimodal_mimic4.py
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Commits on Feb 21, 2026

More updates
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Add docs
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Initial push
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Add docs
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Create test_multimodal_mimic_4.py
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Update multimodal_mimic4.py
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Commits on Mar 5, 2026

PR Review, base docstring, whitespace, unified MLP/RNN support + tests
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Add initial task setup for CXR
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Small cleanup in CXR task creation
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Commits on Mar 6, 2026

Unified embedding subpackage + unimodal reuse + unified mode for Transformer/Mamba/Jamba (#4)
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Make DEV to be a global variable
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Call it DEV_MODE instead of DEV
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Default DEV_MODE to be True
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Update multimodal task
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Commits on Mar 8, 2026

Updates with some cleanup
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Add more details for CXR
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Create pyhealth_cluster_env.yml
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Update multimodal_mimic4.py
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Merge branch 'sunlabuiuc:master' into main
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cluster bash script, yaml for conda env, docs
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Merge branch 'sunlabuiuc:master' into main
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Create pull_request_template.md
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Move template to .github root (#8)
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Merge branch 'wp/add-zero-image-tensor-to-time-image-processor' of https://github.com/Multimodal-PyHealth/PyHealth into wp/add-zero-image-tensor-to-time-image-processor
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Update tests and demo notebook
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Merge branch 'main' of https://github.com/Multimodal-PyHealth/PyHealth into clustersetup
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Add unified MIMIC IV E2E protocol, horizon task, runner, integration test, and runtime fallbacks
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Merge branch 'sunlabuiuc:master' into main
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Fix for bash script
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Commits on Mar 24, 2026

Apply suggestions from code review

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added clean install instrucitons
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Add clean install instructions, remove conda env yml
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Consolidation of horizon task into multimodal_mimic4.py, removed docs/ entry
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Add MIMIC IV unified embedding end-to-end protocol, runnable pipeline, and integration test (#11)
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Add BaseMultiModalMIMIC4Task
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Updated to add multimodal base class
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fix import errors and standardize time windows
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first commit to the start of a EHRMamba baseline here
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WP: Add time windows and create multimodal base task (#13)
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Commits on Apr 6, 2026

cluster bash script, yaml for conda env, docs

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Fix for bash script

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Apply suggestions from code review

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added clean install instrucitons

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Add clean install instructions, remove conda env yml

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Draft Bottleneck Transformer model
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Add tests, docs, and examples for Bottleneck Transformer
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Add BottleneckTransformer unified mode, extend E2E to all four heads, fix unified.py CODE pooling
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Commits on Apr 7, 2026

Add VRAM, training time, and metrics history tracking to
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Further Train/Eval Integration
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Slurm Initial Runs
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Commits on Apr 8, 2026

merge fastforward with main??
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MIMIC CXR sunlab ver. first attempt
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Jw mamba (#14)
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another commit for example runs
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Merge branch 'main' into wp/add-xray-to-multimodal-task
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Commits on Apr 10, 2026

Add F1, EHRMamba + JambaEHR support, full mimic-iv defaulting
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Add sweep scripts and summarizer updates for table2 runs
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Merge remote-tracking branch 'upstream/master'
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Added cluster bash script, yaml for conda env, setup docs (#6)
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Merge branch 'main' into wp/add-zero-image-tensor-to-time-image-processor
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Wp/add zero image tensor to time image processor (#10)
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Update multimodal_mimic4.py
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Update multimodal_mimic4.py (#18)
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Commits on Apr 11, 2026

Update multimodal_mimic4.py
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Update multimodal_mimic4.py (#19)
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update to fix CXR task
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more updates to the CXR PR
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reduce batch size because it will crash from oom
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merge
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Wp/add xray to multimodal task (#5)
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Condor + Conda setup reference
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Fix ident
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Fix ident (#20)
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Update time_image_processor.py
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Merge branch 'main' into wp/quick-fix-in-example-roots
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Update time_image_processor.py (#21)
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Update multimodal_mimic4_task_tutorial.ipynb
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Update multimodal_mimic4_task_tutorial.ipynb
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Commits on Apr 13, 2026

Add ICD specific task
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Added ICDLabsMIMIC4 Task
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Update multimodal_mimic4_task_tutorial.ipynb
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Commits on Apr 14, 2026

Distributed slurm scripts + cosmetic/qol trainer changes
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Wp/add icd labs task (#23)
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fixes
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Commits on Apr 16, 2026

Merge branch 'main' into ra/campus-cluster-slurm
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Add script to run on sunlab
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Update script
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small changes
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Update run_ehrmamba_timewindow.sh
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merge with main
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enable shared encoder usage for same tokenizers
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attempts at memory optimization
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add stats file to share
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Add ability to specify task flags
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Add CXR experiment script and fix negative observation window
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tidy up
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Add RNN Script for Sunlab
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Add run transfomrer
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Update discharge.csv
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Update diagnoses_icd.csv
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Commits on May 14, 2026

feat(scripts): YAML-driven unified training config and CLI wrapper

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fix(tasks): standardize tokenizer to Bio_ClinicalBERT across all task classes

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feat(datasets): add oversample and weighted sampling strategies

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feat(tasks): add LabsOnlyMIMIC4 EHR-only reference baseline

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feat(tasks): generalized note section extraction by note type

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Commits on May 17, 2026

Add pool='mean' option to VisionEmbeddingModel
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tests
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CXR token compression (#35)
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Update `test-resources` MIMIC synthetic data (#29)
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Some updates
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clear notebook outputs
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update test resource to make it closer to MIMIC-data
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Update multimodal_mimic4_task_tutorial.ipynb
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Commits on Jun 3, 2026

Add suggestions to Rian's PR
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Minor change
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Testing main branch protection rules
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Added updates
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Will suggestion changes to `ra-notes-regex` (#37)
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Add suggestions to Rian's PR (#38)
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Added updates (#40)
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Change File Name
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Commits on Jun 17, 2026

Merged Changes
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Clean markdown
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Updates to markdown
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Commits on Jun 24, 2026

Add content-only token_emb to UnifiedMultimodalEmbeddingModel output
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Commits on Jul 5, 2026

Merge remote-tracking branch 'origin/jc/claude-skill' into ra/labs-only-variant
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Commits on Jul 13, 2026

Add content-only token_emb to UnifiedMultimodalEmbeddingModel output (#42)
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Merge branch 'notes_repair' into ra/notes-regex
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feat(tasks): generalized note section extraction by note type (#34)
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Merge branch 'main' of https://github.com/Multimodal-PyHealth/PyHealth into ra/labs-only-variant
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Commits on Jul 14, 2026

Commits on Jul 26, 2026

Merge branch 'main' of https://github.com/Multimodal-PyHealth/PyHealth into ra/labs-only-variant
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your message here
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New updates
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Commits on Aug 1, 2026

Updates
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New Updates
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add pyhealth2 environment
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Commits on Aug 3, 2026

Added scripts for lamba labs
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Updates
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Updates
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Updates
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New Updates
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