Datasets:

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jhuapl-bio

/

microbert

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JHU Applied Physics Laboratory Biological Sciences 1

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 6 new columns ({'label_level_phylum', 'label_level_genus', 'label_level_superkingdom', 'representative_sequence', 'label_level_species', 'label_level_family'}) and 2 missing columns ({'label_level_AMR', 'Sequence'}).

This happened while the csv dataset builder was generating data using

hf://datasets/jhuapl-bio/microbert/nucl_gb_test.csv (at revision 3d4987c1c758f39e91e508941f25b12933729555)

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 1831, in _prepare_split_single
                  writer.write_table(table)
                File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/arrow_writer.py", line 644, 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 2272, in table_cast
                  return cast_table_to_schema(table, schema)
                File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/table.py", line 2218, in cast_table_to_schema
                  raise CastError(
              datasets.table.CastError: Couldn't cast
              representative_sequence: string
              label_level_superkingdom: int64
              label_level_phylum: int64
              label_level_family: int64
              label_level_genus: int64
              label_level_species: int64
              -- schema metadata --
              pandas: '{"index_columns": [{"kind": "range", "name": null, "start": 0, "' + 1086
              to
              {'Sequence': Value('string'), 'label_level_AMR': Value('int64')}
              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 1451, in compute_config_parquet_and_info_response
                  parquet_operations, partial, estimated_dataset_info = stream_convert_to_parquet(
                File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 994, in stream_convert_to_parquet
                  builder._prepare_split(
                File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/builder.py", line 1702, 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 1833, 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 6 new columns ({'label_level_phylum', 'label_level_genus', 'label_level_superkingdom', 'representative_sequence', 'label_level_species', 'label_level_family'}) and 2 missing columns ({'label_level_AMR', 'Sequence'}).
              
              This happened while the csv dataset builder was generating data using
              
              hf://datasets/jhuapl-bio/microbert/nucl_gb_test.csv (at revision 3d4987c1c758f39e91e508941f25b12933729555)
              
              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)