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The dataset generation failed because of a cast error
Error code: DatasetGenerationCastError
Exception: DatasetGenerationCastError
Message: An error occurred while generating the dataset
All the data files must have the same columns, but at some point there are 1 new columns ({'sequence'}) and 1 missing columns ({'seq'}).
This happened while the csv dataset builder was generating data using
hf://datasets/wanglab/rna_evaluation/modification/train.csv (at revision 4520e3890c539f292cf4be29429a71a5adf38051)
Please either edit the data files to have matching columns, or separate them into different configurations (see docs at https://hf.co/docs/hub/datasets-manual-configuration#multiple-configurations)
Traceback: Traceback (most recent call last):
File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/builder.py", line 2013, in _prepare_split_single
writer.write_table(table)
File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/arrow_writer.py", line 585, in write_table
pa_table = table_cast(pa_table, self._schema)
File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/table.py", line 2302, in table_cast
return cast_table_to_schema(table, schema)
File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/table.py", line 2256, in cast_table_to_schema
raise CastError(
datasets.table.CastError: Couldn't cast
sequence: string
label: string
-- schema metadata --
pandas: '{"index_columns": [{"kind": "range", "name": null, "start": 0, "' + 489
to
{'seq': Value(dtype='string', id=None), 'label': Value(dtype='float64', id=None)}
because column names don't match
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 1396, in compute_config_parquet_and_info_response
parquet_operations = convert_to_parquet(builder)
File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 1045, in convert_to_parquet
builder.download_and_prepare(
File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/builder.py", line 1029, in download_and_prepare
self._download_and_prepare(
File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/builder.py", line 1124, in _download_and_prepare
self._prepare_split(split_generator, **prepare_split_kwargs)
File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/builder.py", line 1884, in _prepare_split
for job_id, done, content in self._prepare_split_single(
File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/builder.py", line 2015, in _prepare_split_single
raise DatasetGenerationCastError.from_cast_error(
datasets.exceptions.DatasetGenerationCastError: An error occurred while generating the dataset
All the data files must have the same columns, but at some point there are 1 new columns ({'sequence'}) and 1 missing columns ({'seq'}).
This happened while the csv dataset builder was generating data using
hf://datasets/wanglab/rna_evaluation/modification/train.csv (at revision 4520e3890c539f292cf4be29429a71a5adf38051)
Please either edit the data files to have matching columns, or separate them into different configurations (see docs at https://hf.co/docs/hub/datasets-manual-configuration#multiple-configurations)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.
seq
string | label
float64 |
|---|---|
ACCAACATGTAATTTCCACTCTTGA | -1.781224 |
TGGTAAAATCTAGGGTTTTTTATAA | -0.275643 |
CAAAAAGTAGACGCAACATGAAAAA | -1.148226 |
TGGCCTCGTGGATAGGACATTTGGA | -1.16347 |
TAATCGGTTCTAAATACGATTAGTG | 0.629766 |
TAAAGAAGAGGTTGATGAGAAACCG | -0.056611 |
AAGCGGTGAATAACACACAGTAAAG | 0.437928 |
ATCTCTCTAGTACAGATTGTCAATA | 0.625944 |
AGACAGCTAAAACCCTACAAAATAA | 0.428996 |
CCTTCGACGACCCACGTCCGCCTTA | 0.066963 |
CGTTGATCATGGATACTTTTTTACA | -1.431016 |
GTACGCAAACCATCTCTCGATTTCT | 0.385245 |
GTTACCCCCTACTCCAGCTCATACT | 0.106418 |
TCCAATCTTTTGCACCACCCCTAGG | 0.167583 |
CTCCCTCAACAGGTGCCTCACGCTG | 0.448294 |
AGTAATGAGTTTCGGCATTTCAAAG | 0.448709 |
AGGATTGTGTCGCCAGTTCCACTGA | 0.226652 |
TAATATCATATAGTTCTTCTCCCCT | 0.091013 |
TAGAATCGGAAGGAATAGGATTCTA | 0.683043 |
GATGCTTGCACTCGAGGTCCGTGCA | 0.777959 |
GACACCACGTAAAATCCTAATCAAA | 0.722772 |
TCTATGACTCGTTCGCGTAGAATCA | -0.903231 |
CAAAATGATAAGATGGACCAAAGAT | 0.044779 |
TGCATGATCTGTAGCATTTGCTGCT | -0.282712 |
GCATGACCAGCCTGTTTAGATAGAA | -0.8849 |
AGAAAGATAACAAACCACCCGTATG | 0.531101 |
GACCCCTTTACGCAACCTATTGAAC | 0.738194 |
GCCCCTACACTCTGTTTTTTGATCC | 0.462663 |
GGATAAATAAATCTGAGATCAGAAA | 0.576403 |
CCCTGTTGCCAGCCGCATAATCATC | 0.507246 |
GCAGCACGCTTACAGTCCCTCAGAC | 0.588532 |
CTTTTTCCTTACTCGTGATACTATC | 0.354998 |
GTAAACCCAGATCTAGTTTGACTGT | 0.434046 |
CACGCTGCACACCGAACAGCCCAAA | -0.006064 |
ACTCCGACACCATCTTCATTACAAT | 0.409271 |
TACATGGAACTGTCCCTTCTTACCG | -0.842205 |
GACCCTCCTATTATCAACCAAGATA | 0.208579 |
AGAGTGAGAGCGCGACAAATCACTG | 0.677526 |
CCGATTGGCGCCCTTTGGCCGGGAG | 0.066205 |
GAGATGAGAAGTCGTGCGAAATAAC | -1.532364 |
GTCCTCGCGACAACTGTCCCAAACC | 0.290489 |
TTCTGATCGGTGTTCCTCCGTTCTG | 0.488669 |
TCTAGTCGTTTCTAGCATAGACTATA | 0.668242 |
GCAATGCATCCATTCCAATGCCTACT | -1.191314 |
ACCTTGCCGCATCCCACTTGCCTGCA | 0.458991 |
CAAACTGGGCCCATTTCTATACCAAT | 0.178165 |
ACGAGAGTAACAGATCCAACCTAAA | 0.601949 |
CCTACGCGGGATGCTCTTTTTTATAG | -1.168753 |
GATCCAGGAGACAGAAACCATCTACC | 0.473869 |
TCGCAAAGAAGAACCTATTTTAAGA | 0.701898 |
TATAATTACGCTTTTCCGTGTATGG | -0.372049 |
TCAATTACAGCTCGACTTCCATGATC | 0.275457 |
AAGCCGTTCTTTAAATCCACACATTT | 0.283248 |
AGTCCATCCTCGCGGCCTCACACCA | -0.167843 |
AGTCCCGTCCTACACGCTCGGTCCG | 0.313519 |
CCCCATATCCGATTATCTGCTGGAC | 0.567311 |
CGTAGTGGCGCAGGACCGTCAATTA | 0.373652 |
CTCTGCTATGCCCCACCACTCAACA | 0.512616 |
ATCCACCAATCCCTACATTCATCTTC | 0.511226 |
GAGAGTGTCGCCGAAGCACAAGCCGA | 0.469389 |
CCTGTCGATCTAGGTCCTATTGTCCG | 0.64964 |
ATTTCTAACTTCTTCTGGCAACGACA | 0.506169 |
ATATACGGCAACACGCCCGAACCAGA | 0.211927 |
CCTCGTTAATCCTTCCCTTGTCTCCC | 0.164064 |
TCCCCGCCACGCCCGGTATCCGACTA | -0.031521 |
GAAACTCGTGTTTATTCTCGTCGAT | 0.704065 |
AAGAAAACATACAAGTCTGTTCACT | 0.629363 |
GTGTGGAGGTCAACCTCCAAGCCCAC | -0.55043 |
TCGGCTTTAACCAAACCACAATCAG | 0.381884 |
ACCCTCCCAGTGCTCTTATGTTATT | -0.149688 |
CATTCTTACCTCTCAACAATACACCT | 0.349633 |
CACCCCCAACACCGGCGATTAGCATG | 0.541199 |
TTCCAAACCGATACCTCCCCGGATG | 0.371439 |
GCAAAGTTCCCCTTTGAACTTCTAC | 0.397569 |
CATTGACTATAATATCACTCAACAAT | 0.54906 |
TTGCTCGATCGCCATTTCACGATAGT | 0.56468 |
TTTCTTCTTGTTTTCTTTCTTCATG | 0.637018 |
GGATTTTTCGAACTGACTTTCCGGG | 0.467954 |
CGTGCGCATCCCGTACACTCCCCGAC | 0.349608 |
CAACCCTAATCTCGGGAATGAATCTG | 0.657489 |
ACTGGGTTTATCCGTGATCTATGCGA | 0.669683 |
CCACCTCACCACCCCCTGCCCCCAC | -0.481141 |
ACATAGCACTAGCGCCTAGAAGTTG | 0.279536 |
GACCGAAGCCTTGAAAGTGAGTGTA | 0.442718 |
CTTCCCTCCCCTCTTCACTAACAAT | 0.237183 |
TGCCCTAGCCCTCCTCCACCCTCTGC | -0.361143 |
ACGACAAAACGGGCACAAACTCAAT | 0.195673 |
TTTATCGGTGAAACTCGCAGTCGTAC | 0.484793 |
GCCCTCCGCTCTCCGCAACAAATATA | 0.08587 |
TCTACCCACCTCCGCGATAAGCTGC | 0.367422 |
GTCTGAAGTCCCATATAGCTTTCTTT | 0.366798 |
ACGAACTTGCGTAGAGAGCACCGAA | 0.51533 |
TGCCTCCATTCCGATCCTTGAACGG | -0.849736 |
AGTAATTAGGTGTAAAGCTACTAGA | 0.611746 |
AAACCTTCCTTAGCCCGGAAAGAACG | 0.066533 |
GTGAACTCTGCATCACACCGTCCTA | 0.305046 |
TAGAACTTTCGAGCAATTCTATAATC | 0.589372 |
AACAAAGAGCTTACAAAAAACTAAA | 0.540199 |
CACTCCCGACAAGAGAGCTCCGATC | 0.404448 |
TGTATACTTCCGGAGATATCCTCTTT | 0.9295 |
End of preview.
YAML Metadata
Warning:
empty or missing yaml metadata in repo card
(https://huggingface.co/docs/hub/datasets-cards)
RNA Evalaution Tasks
Obtained from BEACON: Benchmark for Comprehensive RNA Tasks and Language Models
Tasks
- Mean Ribosome Loading
- Modification
- ncRNA Family
- Secondary Structure
- Splicing
Citation
If you find this repo useful for your research, please consider citing the paper
@misc{ren2024beacon,
title={BEACON: Benchmark for Comprehensive RNA Tasks and Language Models},
author={Yuchen Ren and Zhiyuan Chen and Lifeng Qiao and Hongtai Jing and Yuchen Cai and Sheng Xu and Peng Ye and Xinzhu Ma and Siqi Sun and Hongliang Yan and Dong Yuan and Wanli Ouyang and Xihui Liu},
year={2024},
eprint={2406.10391},
archivePrefix={arXiv},
primaryClass={id='q-bio.QM' full_name='Quantitative Methods' is_active=True alt_name=None in_archive='q-bio' is_general=False description='All experimental, numerical, statistical and mathematical contributions of value to biology'}
}
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