Datasets:

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RomeroLab-Duke

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protein-fitness-datasets-for-benchmarking-ft-esm2-strategies

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Romero Lab at Duke University 5

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 4 new columns ({'num_mutations', 'mutations', 'functional_score', 'sequence'}) and 12 missing columns ({'log_rep2', 'log_rep1', 'Mutations', 'log_mean', 'log_rep3', 'mean', 'Sequence', 'ID', 'Cluster', 'rep2', 'rep3', 'rep1'}).

This happened while the csv dataset builder was generating data using

hf://datasets/RomeroLab-Duke/protein-fitness-datasets-for-benchmarking-ft-esm2-strategies/test_avgfp_mutants.csv (at revision 15339dfaf7b39f629148cc2361b47e5d498d760a), ['hf://datasets/RomeroLab-Duke/protein-fitness-datasets-for-benchmarking-ft-esm2-strategies@15339dfaf7b39f629148cc2361b47e5d498d760a/test_CreiLOV_mutants.csv', 'hf://datasets/RomeroLab-Duke/protein-fitness-datasets-for-benchmarking-ft-esm2-strategies@15339dfaf7b39f629148cc2361b47e5d498d760a/test_avgfp_mutants.csv', 'hf://datasets/RomeroLab-Duke/protein-fitness-datasets-for-benchmarking-ft-esm2-strategies@15339dfaf7b39f629148cc2361b47e5d498d760a/test_ube4b_mutants.csv']

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 "/usr/local/lib/python3.14/site-packages/datasets/builder.py", line 1837, in _prepare_split_single
                  writer.write_table(table)
                  ~~~~~~~~~~~~~~~~~~^^^^^^^
                File "/usr/local/lib/python3.14/site-packages/datasets/arrow_writer.py", line 765, in write_table
                  self._write_table(pa_table, writer_batch_size=writer_batch_size)
                  ~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
                File "/usr/local/lib/python3.14/site-packages/datasets/arrow_writer.py", line 773, in _write_table
                  pa_table = table_cast(pa_table, self._schema)
                File "/usr/local/lib/python3.14/site-packages/datasets/table.py", line 2369, in table_cast
                  return cast_table_to_schema(table, schema)
                File "/usr/local/lib/python3.14/site-packages/datasets/table.py", line 2297, in cast_table_to_schema
                  raise CastError(
                  ...<3 lines>...
                  )
              datasets.table.CastError: Couldn't cast
              sequence: string
              mutations: string
              num_mutations: int64
              functional_score: double
              MutationCount: int64
              mean_pooled: string
              cls_token: string
              all_tokens: string
              -- schema metadata --
              pandas: '{"index_columns": [{"kind": "range", "name": null, "start": 0, "' + 1252
              to
              {'ID': Value('string'), 'rep1': Value('float64'), 'rep2': Value('float64'), 'rep3': Value('float64'), 'mean': Value('float64'), 'log_rep1': Value('float64'), 'log_rep2': Value('float64'), 'log_rep3': Value('float64'), 'log_mean': Value('float64'), 'Mutations': Value('string'), 'Sequence': Value('string'), 'Cluster': Value('int64'), 'MutationCount': Value('int64'), 'mean_pooled': Value('string'), 'cls_token': Value('string'), 'all_tokens': Value('string')}
              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 1369, in compute_config_parquet_and_info_response
                  parquet_operations, partial, estimated_dataset_info = stream_convert_to_parquet(
                                                                        ~~~~~~~~~~~~~~~~~~~~~~~~~^
                      builder, max_dataset_size_bytes=max_dataset_size_bytes
                      ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
                  )
                  ^
                File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 948, in stream_convert_to_parquet
                  builder._prepare_split(split_generator=splits_generators[split], file_format="parquet")
                  ~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
                File "/usr/local/lib/python3.14/site-packages/datasets/builder.py", line 1683, in _prepare_split
                  for job_id, done, content in self._prepare_split_single(
                                               ~~~~~~~~~~~~~~~~~~~~~~~~~~^
                      gen_kwargs=gen_kwargs, job_id=job_id, **_prepare_split_args
                      ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
                  ):
                  ^
                File "/usr/local/lib/python3.14/site-packages/datasets/builder.py", line 1839, in _prepare_split_single
                  raise DatasetGenerationCastError.from_cast_error(
                  ...<4 lines>...
                  )
              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 4 new columns ({'num_mutations', 'mutations', 'functional_score', 'sequence'}) and 12 missing columns ({'log_rep2', 'log_rep1', 'Mutations', 'log_mean', 'log_rep3', 'mean', 'Sequence', 'ID', 'Cluster', 'rep2', 'rep3', 'rep1'}).
              
              This happened while the csv dataset builder was generating data using
              
              hf://datasets/RomeroLab-Duke/protein-fitness-datasets-for-benchmarking-ft-esm2-strategies/test_avgfp_mutants.csv (at revision 15339dfaf7b39f629148cc2361b47e5d498d760a), ['hf://datasets/RomeroLab-Duke/protein-fitness-datasets-for-benchmarking-ft-esm2-strategies@15339dfaf7b39f629148cc2361b47e5d498d760a/test_CreiLOV_mutants.csv', 'hf://datasets/RomeroLab-Duke/protein-fitness-datasets-for-benchmarking-ft-esm2-strategies@15339dfaf7b39f629148cc2361b47e5d498d760a/test_avgfp_mutants.csv', 'hf://datasets/RomeroLab-Duke/protein-fitness-datasets-for-benchmarking-ft-esm2-strategies@15339dfaf7b39f629148cc2361b47e5d498d760a/test_ube4b_mutants.csv']
              
              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)