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Issues list

build_dataset fails when aggregating timestamps into buckets
#119 opened Aug 23, 2024 by juancq
Setting min_seq_len=1 in PytorchDatasetConfig with task dataframes leads to ragged tensors index error
#118 opened Aug 19, 2024 by juancq
4
Subject ID splits can get messed up if subjects are not simple int types.
#114 opened Jun 22, 2024 by mmcdermott
4
Processing Synthetic Data with ESGPT
#113 opened Jun 17, 2024 by sujaybanerjee
1
Task to_int_index does not pass tests with more recent versions of polars
#112 opened Jun 17, 2024 by mmcdermott
end_time in task dataframes is not counted as an event (right open interval)
#110 opened May 28, 2024 by juancq
1
Could not override 'config.task_specific_params.pooling_method' when lauching wandb agent
#108 opened May 24, 2024 by Rhett-Ying
2
Nested ragged tensors integration does not respect seq_padding_side
#104 opened Apr 22, 2024 by mmcdermott
1
Getting started steps documentation Improvements or additions to documentation enhancement New feature or request
#96 opened Apr 17, 2024 by rvandewater
1
sklearn baseline pipe code should be using logger
#95 opened Apr 15, 2024 by mmcdermott
May be able to make temporal loss more stable by directly computing log-prob from pre-activation function outputs enhancement New feature or request
#93 opened Feb 19, 2024 by mmcdermott
2
Should be possible to resume pre-training and evaluate a pre-trained model post-hoc enhancement New feature or request
#91 opened Jan 2, 2024 by mmcdermott
PytorchDataset doesn't have a way to extract subject_ids, start_time, and end_time all together enhancement New feature or request
#75 opened Oct 19, 2023 by pargaw
DataLoader with num_workers > 0 increases memory consumption over time bug Something isn't working resource constraints For when the system is too resource hungry
#73 opened Oct 19, 2023 by juancq
2
Modeling Configs Should be Re-arranged for Clarity, Better Defaults, and Ease-of-use enhancement New feature or request
#61 opened Aug 25, 2023 by mmcdermott
Metrics in weights and biases should use / not _ to separate name parts. enhancement New feature or request good first issue Good for newcomers
#60 opened Aug 24, 2023 by mmcdermott
Event type vocabulary should be filtered to UNKs too. enhancement New feature or request
#43 opened Jul 24, 2023 by mmcdermott
Vocabulary serialization into configs should not include observation frequencies.
#42 opened Jul 24, 2023 by mmcdermott
Benchmark results over standard EHR tasks like diagnosis prediction enhancement New feature or request
#41 opened Jul 21, 2023 by avani17101
3
Should allow use of NLL-Beta enhancement New feature or request
#26 opened Jun 13, 2023 by mmcdermott
Possibly replace JSONableMixin with OmegaConf throughout. refactor Clean up code, testing interface, or API.
#24 opened May 30, 2023 by mmcdermott
Upgrade to python 3.11 and eliminate the custom StrEnum class. refactor Clean up code, testing interface, or API.
#23 opened May 30, 2023 by mmcdermott
Test coverage needs to be expanded and interface simplified refactor Clean up code, testing interface, or API.
#15 opened May 10, 2023 by mmcdermott
Dataset storage to disk should not rely on pickle. enhancement New feature or request
#14 opened May 10, 2023 by mmcdermott
CATEGORICAL_ONLY v. NUMERICAL_ONLY v. CATEGORICAL_AND_NUMERICAL is confusing. refactor Clean up code, testing interface, or API.
#13 opened May 9, 2023 by mmcdermott
ProTip! Adding no:label will show everything without a label.