Oufattole meds-torch issues

Oufattole / meds-torch

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We should consider making nheads a configurable parameter in a future commit. Had to reduce 8 to 2 so that it was divisible by test data token embedding dimension.

#137 zackeberger opened 3 days ago
0
Add e2e intermediate fusion and early fusion supervised tests

#136 Oufattole closed 2 days ago
2
Adds the multimodal pytorch dataset class

#135 Oufattole closed 3 days ago
2
Multimodal Synthetic ECG data

#134 Oufattole closed 3 days ago
2
Enhance benchmark and throughput speed

#133 mmcdermott opened 6 days ago
0
Text code encoder

#132 teyaberg opened 1 week ago
2
I'm not sure these both should be `side="right"`

#131 mmcdermott opened 1 week ago
0
Throw an error when the custom_normalization.py script is run in parallel, as it require being run with only 1 worker.

#130 Oufattole opened 2 weeks ago
2
Massive Memory Usage when initializing the dataloader for large tasks

#129 Oufattole opened 2 weeks ago
0
Enable key-value caching when there is a mask

#128 Oufattole opened 2 weeks ago
0
Zero shot

#127 Oufattole opened 2 weeks ago
2
Refactor PytorchDataset class and other dataset classes to a `Window` dataclass for batches instead of a dictionary

#126 Oufattole opened 2 weeks ago
0
Enable users to define their own dataset class

#125 payalchandak opened 2 weeks ago
1
Define a Window in documentation somewhere

#124 Oufattole opened 2 weeks ago
0
Reorganize DataModule and Dataset Configuration Structure

#123 Oufattole opened 2 weeks ago
0
removed MIMICIV_TUTORIAL. updated README for MIMICIV_INDUCTIVE_EXPERI…

#122 kingrc15 opened 2 weeks ago
2
Multimodal EHR Data Processing Enhancements

#121 Oufattole closed 2 weeks ago
2
Tutorial Clarification

#120 payalchandak closed 2 weeks ago
1
Code-to-Text Integration

#119 Oufattole opened 3 weeks ago
0
Multimodal Modeling Methods to Support

#118 Oufattole opened 3 weeks ago
1
Refactor multiwindow_dataset to support single time window data loading and improve documentation

#117 Oufattole opened 3 weeks ago
0
Multimodal custom meds-transforms

#116 Oufattole opened 3 weeks ago
0
Tutorial Improvement

#115 Oufattole opened 3 weeks ago
0
API Update To Support Noise Augmentation and Masking Intermediate Stages

#114 Oufattole opened 3 weeks ago
0
MEDS death code/ Refer to MEDS-DEV tutorial

#113 rvandewater opened 3 weeks ago
1
Allow Predict Script to Include Custom Prefixed Keys in Output and Batch Indexes

#112 Oufattole opened 3 weeks ago
0
The `Module` ABC class is confusing and should be re-done as a decorator or Mixin

#111 mmcdermott opened 3 weeks ago
0
Add a prediction script that generates meds-evaluation compliant parquets.

#110 Oufattole closed 2 weeks ago
2
Add a predict script that generates embeddings

#109 Oufattole closed 2 weeks ago
0
Forecast api update

#108 Oufattole closed 2 weeks ago
3
Update the Triplet autoregressive model to perform conditional sampling of values conditioned on the code

#107 Oufattole opened 4 weeks ago
0
Unconstrained Generative evaluation

#106 Oufattole opened 4 weeks ago
0
Zero-shot evaluation

#105 Oufattole opened 4 weeks ago
0
Add API support for generation that allow generating data after a prediction time and caching both the predictions and the real data.

#104 Oufattole closed 2 weeks ago
1
Updated Slow Tests and Tuning Scripts, Cleaned Some pytorch_dataset Documentation, Improved EIC Quantile Binning

#103 Oufattole closed 3 weeks ago
4
Update to use the latest JNRT features.

#102 mmcdermott closed 1 month ago
2
The resolver for the max sequence length is not needed as it is now handled in the dataset class.

#101 mmcdermott closed 1 month ago
1
Static data is not being used in cases where it is not prepended.

#100 mmcdermott opened 1 month ago
0
The EOS max seq length adjustment should happen in the dataset, not in the config, to avoid violating the user's inputs.

#99 mmcdermott closed 1 month ago
0
Removed unused event-stream remnant function.

#98 mmcdermott closed 1 month ago
1
Reduces to a single collate function with prepending and postpending additions standardized.

#97 mmcdermott closed 1 month ago
1
Delete the unused `dynamic_only_collate`

#96 mmcdermott closed 1 month ago
0
Is the max seq len constraint not respected if postpend EOS or prepend static is enabled?

#95 mmcdermott closed 1 month ago
1
All collate functions should be the same and static data pre-pending should happen in getitem.

#94 mmcdermott closed 1 month ago
6
Add the source directory to the testpaths so that doctests run by default.

#93 mmcdermott closed 1 month ago
1
Simplify the dataset index for now to just have a subject ID and an end event index.

#92 mmcdermott opened 1 month ago
1
Doctests are not being run by github workflows

#91 mmcdermott closed 1 month ago
3
Removes the unused `out_labels` block.

#90 mmcdermott closed 1 month ago
2
Out labels is never used and should be deleted.

#89 mmcdermott closed 1 month ago
0
Simplify the task code by leveraging the reliability of the meds label schema.

#88 mmcdermott closed 1 month ago
1