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funlab

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DBNascent

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Functional Genomics Lab 4

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 9 new columns ({'Other seq', '3D seq', 'Published?', 'Median QC score', 'Protocols', 'ChIP-seq', 'ATAC-seq', 'RNA-seq', 'Organisms'}) and 8 missing columns ({'Sample name', 'Read depth', 'Treatment', 'QC score', 'Replicate', 'Protocol', 'Cell type', 'Organism'}).

This happened while the csv dataset builder was generating data using

hf://datasets/funlab/DBNascent/datasets.csv (at revision 2b150727f77de6fa2e9f105d664e2ff4e69efa38)

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 2011, 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
              Paper identifier: string
              Protocols: string
              Organisms: string
              Published?: string
              Median QC score: double
              ATAC-seq: string
              RNA-seq: string
              ChIP-seq: string
              3D seq: string
              Other seq: string
              -- schema metadata --
              pandas: '{"index_columns": [{"kind": "range", "name": null, "start": 0, "' + 1456
              to
              {'Sample name': Value(dtype='string', id=None), 'Paper identifier': Value(dtype='string', id=None), 'Organism': Value(dtype='string', id=None), 'Protocol': Value(dtype='string', id=None), 'Cell type': Value(dtype='string', id=None), 'Treatment': Value(dtype='string', id=None), 'Replicate': Value(dtype='int64', id=None), 'Read depth': Value(dtype='string', id=None), 'QC score': Value(dtype='int64', 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 1577, 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 1191, in convert_to_parquet
                  builder.download_and_prepare(
                File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/builder.py", line 1027, in download_and_prepare
                  self._download_and_prepare(
                File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/builder.py", line 1122, 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 1882, 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 2013, 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 9 new columns ({'Other seq', '3D seq', 'Published?', 'Median QC score', 'Protocols', 'ChIP-seq', 'ATAC-seq', 'RNA-seq', 'Organisms'}) and 8 missing columns ({'Sample name', 'Read depth', 'Treatment', 'QC score', 'Replicate', 'Protocol', 'Cell type', 'Organism'}).
              
              This happened while the csv dataset builder was generating data using
              
              hf://datasets/funlab/DBNascent/datasets.csv (at revision 2b150727f77de6fa2e9f105d664e2ff4e69efa38)
              
              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)