Oxer11/ESM-S
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Dataset Viewer
The dataset viewer is not available for this subset.
Cannot get the split names for the config 'default' of the dataset.
Exception: SplitsNotFoundError
Message: The split names could not be parsed from the dataset config.
Traceback: Traceback (most recent call last):
File "/src/services/worker/src/worker/job_runners/config/split_names.py", line 159, in compute
compute_split_names_from_info_response(
File "/src/services/worker/src/worker/job_runners/config/split_names.py", line 131, in compute_split_names_from_info_response
config_info_response = get_previous_step_or_raise(kind="config-info", dataset=dataset, config=config)
File "/src/libs/libcommon/src/libcommon/simple_cache.py", line 567, in get_previous_step_or_raise
raise CachedArtifactError(
libcommon.simple_cache.CachedArtifactError: The previous step failed.
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/inspect.py", line 499, in get_dataset_config_info
for split_generator in builder._split_generators(
File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/packaged_modules/webdataset/webdataset.py", line 88, in _split_generators
raise ValueError(
ValueError: The TAR archives of the dataset should be in WebDataset format, but the files in the archive don't share the same prefix or the same types.
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File "/src/services/worker/src/worker/job_runners/config/split_names.py", line 75, in compute_split_names_from_streaming_response
for split in get_dataset_split_names(
File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/inspect.py", line 572, in get_dataset_split_names
info = get_dataset_config_info(
File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/inspect.py", line 504, in get_dataset_config_info
raise SplitsNotFoundError("The split names could not be parsed from the dataset config.") from err
datasets.inspect.SplitsNotFoundError: The split names could not be parsed from the dataset config.Need help to make the dataset viewer work? Make sure to review how to configure the dataset viewer, and open a discussion for direct support.
Dataset Summary
This is a protein structure and protein prediction dataset for the papers GearNet (https://arxiv.org/abs/2203.06125), ESM-GearNet (https://arxiv.org/abs/2303.06275), ESM-S (https://arxiv.org/abs/2402.05856) and ProtIR (). The dataset is first processed by DeepFRI (https://www.nature.com/articles/s41467-021-23303-9) and then collected by CDConv (https://openreview.net/forum?id=P5Z-Zl9XJ7). The original files can also be downloaded from the github of CDConv (https://github.com/hehefan/Continuous-Discrete-Convolution). We upload the dataset here for the ease of downloading.
The details are shown in the following table.
| Dataset | #Train | #Valid | #Test 95% | #Test 50% | #Test 30% |
|---|---|---|---|---|---|
| EnzymeCommission | 15,550 | 1,729 | 1,919 | 1,117 | 720 |
| GeneOntology | 29,898 | 3,322 | 3,416 | 2,199 | 1,717 |
| Fold | 12,312 | 736 | 1,272 (Family) | 1,254 (Superfamily) | 718 (Fold) |
Evaluation Pipeline
Please refer to ESM-S (https://github.com/DeepGraphLearning/esm-s) for the training and evaluation code.
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Models trained or fine-tuned on Oxer11/Protein-Function-Annotation