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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 4 new columns ({'unit', 'result', 'marker', 'value'}) and 16 missing columns ({'EGFR_result', 'TTF1_result', 'ROS1_result', 'label', 'BRAF_result', 'P63_result', 'P40_result', 'valid', 'CK7_result', 'NAPSINA_result', 'ALK_result', 'HER2_result', 'CK5_6_result', 'PDL1_TPS_unit', 'PDL1_TPS', 'KRAS_result'}).
This happened while the csv dataset builder was generating data using
hf://datasets/andreasenz/TRUTH-LUNG/histo_markers_long.csv (at revision aefd6cf7b1d833faf2e6f4266943a6f401d0f67b), ['hf://datasets/andreasenz/TRUTH-LUNG@aefd6cf7b1d833faf2e6f4266943a6f401d0f67b/histo_dataset_wide.csv', 'hf://datasets/andreasenz/TRUTH-LUNG@aefd6cf7b1d833faf2e6f4266943a6f401d0f67b/histo_markers_long.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/python3.12/site-packages/datasets/builder.py", line 1887, in _prepare_split_single
writer.write_table(table)
File "/usr/local/lib/python3.12/site-packages/datasets/arrow_writer.py", line 675, in write_table
pa_table = table_cast(pa_table, self._schema)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/usr/local/lib/python3.12/site-packages/datasets/table.py", line 2272, in table_cast
return cast_table_to_schema(table, schema)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/usr/local/lib/python3.12/site-packages/datasets/table.py", line 2218, in cast_table_to_schema
raise CastError(
datasets.table.CastError: Couldn't cast
id: int64
marker: string
result: string
value: double
unit: string
-- schema metadata --
pandas: '{"index_columns": [{"kind": "range", "name": null, "start": 0, "' + 805
to
{'id': Value('int64'), 'valid': Value('bool'), 'label': Value('string'), 'PDL1_TPS': Value('float64'), 'PDL1_TPS_unit': Value('string'), 'TTF1_result': Value('string'), 'CK7_result': Value('string'), 'CK5_6_result': Value('string'), 'P40_result': Value('string'), 'P63_result': Value('float64'), 'NAPSINA_result': Value('string'), 'ALK_result': Value('float64'), 'ROS1_result': Value('float64'), 'EGFR_result': Value('float64'), 'HER2_result': Value('string'), 'KRAS_result': Value('float64'), 'BRAF_result': Value('float64')}
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 1342, 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 907, in stream_convert_to_parquet
builder._prepare_split(split_generator=splits_generators[split], file_format="parquet")
File "/usr/local/lib/python3.12/site-packages/datasets/builder.py", line 1736, in _prepare_split
for job_id, done, content in self._prepare_split_single(
^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/usr/local/lib/python3.12/site-packages/datasets/builder.py", line 1889, 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 4 new columns ({'unit', 'result', 'marker', 'value'}) and 16 missing columns ({'EGFR_result', 'TTF1_result', 'ROS1_result', 'label', 'BRAF_result', 'P63_result', 'P40_result', 'valid', 'CK7_result', 'NAPSINA_result', 'ALK_result', 'HER2_result', 'CK5_6_result', 'PDL1_TPS_unit', 'PDL1_TPS', 'KRAS_result'}).
This happened while the csv dataset builder was generating data using
hf://datasets/andreasenz/TRUTH-LUNG/histo_markers_long.csv (at revision aefd6cf7b1d833faf2e6f4266943a6f401d0f67b), ['hf://datasets/andreasenz/TRUTH-LUNG@aefd6cf7b1d833faf2e6f4266943a6f401d0f67b/histo_dataset_wide.csv', 'hf://datasets/andreasenz/TRUTH-LUNG@aefd6cf7b1d833faf2e6f4266943a6f401d0f67b/histo_markers_long.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)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.
id int64 | valid bool | label string | PDL1_TPS float64 | PDL1_TPS_unit string | TTF1_result string | CK7_result string | CK5_6_result string | P40_result string | P63_result null | NAPSINA_result null | ALK_result null | ROS1_result null | EGFR_result null | HER2_result null | KRAS_result null | BRAF_result null |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
3,332,610 | true | adenocarcinoma | 50 | % | positive | positive | negative | negative | null | null | null | null | null | null | null | null |
3,332,844 | true | benign_or_inflammatory | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,333,767 | false | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,338,147 | true | benign_or_inflammatory | null | null | positive | positive | null | null | null | null | null | null | null | null | null | null |
3,338,169 | true | squamous_carcinoma | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,338,301 | true | squamous_carcinoma | null | null | positive | positive | positive | positive | null | null | null | null | null | null | null | null |
3,338,347 | true | adenocarcinoma | 50 | % | positive | positive | positive | negative | null | null | null | null | null | null | null | null |
3,339,821 | false | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,339,822 | true | adenocarcinoma | 50 | % | positive | positive | positive | negative | null | null | null | null | null | null | null | null |
3,341,362 | false | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,343,137 | false | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,344,707 | true | null | null | null | negative | null | negative | negative | null | null | null | null | null | null | null | null |
3,345,400 | false | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,350,015 | false | benign_or_inflammatory | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,350,385 | true | benign_or_inflammatory | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,350,963 | true | squamous_carcinoma | 1 | % | negative | null | positive | positive | null | null | null | null | null | null | null | null |
3,352,180 | false | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,355,627 | false | benign_or_inflammatory | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,356,038 | true | adenocarcinoma | 50 | % | positive | positive | null | negative | null | null | null | null | null | null | null | null |
3,357,554 | true | adenocarcinoma | 50 | % | null | null | null | null | null | null | null | null | null | null | null | null |
3,357,968 | true | adenocarcinoma | 1 | % | positive | positive | null | null | null | null | null | null | null | null | null | null |
3,359,577 | false | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,359,678 | true | null | null | null | negative | positive | positive | negative | null | null | null | null | null | null | null | null |
3,362,859 | true | squamous_carcinoma | null | null | negative | positive | positive | positive | null | null | null | null | null | null | null | null |
3,363,068 | true | adenocarcinoma | null | null | positive | null | null | positive | null | null | null | null | null | null | null | null |
3,365,532 | false | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,366,544 | true | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,368,239 | true | carcinoid_tumor | null | null | positive | null | null | null | null | null | null | null | null | null | null | null |
3,369,153 | true | null | null | null | null | negative | null | null | null | null | null | null | null | null | null | null |
3,369,976 | true | adenocarcinoma | null | null | positive | positive | positive | null | null | null | null | null | null | null | null | null |
3,372,968 | false | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,373,760 | true | adenocarcinoma | 50 | % | positive | positive | null | null | null | null | null | null | null | null | null | null |
3,373,767 | false | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,374,265 | false | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,377,595 | true | adenocarcinoma | null | null | negative | negative | null | null | null | null | null | null | null | null | null | null |
3,381,105 | true | benign_or_inflammatory | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,381,215 | true | null | null | null | null | null | negative | negative | null | null | null | null | null | null | null | null |
3,383,921 | true | squamous_carcinoma | null | null | negative | null | positive | positive | null | null | null | null | null | null | null | null |
3,388,132 | false | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,389,412 | true | null | null | null | negative | positive | null | negative | null | null | null | null | null | null | null | null |
3,389,592 | true | squamous_carcinoma | null | null | negative | null | positive | positive | null | null | null | null | null | null | null | null |
3,389,695 | false | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,391,619 | true | null | null | null | positive | positive | null | null | null | null | null | null | null | null | null | null |
3,392,211 | true | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,392,678 | true | adenocarcinoma | null | null | negative | negative | null | negative | null | null | null | null | null | null | null | null |
3,392,883 | true | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,397,524 | true | squamous_carcinoma | null | null | null | positive | positive | null | null | null | null | null | null | null | null | null |
3,403,398 | true | adenocarcinoma | 1 | % | positive | null | null | negative | null | null | null | null | null | null | null | null |
3,409,330 | true | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,409,849 | true | null | null | null | negative | positive | positive | negative | null | null | null | null | null | null | null | null |
3,414,061 | true | null | null | null | positive | positive | null | null | null | null | null | null | null | null | null | null |
3,415,502 | true | squamous_carcinoma | 50 | % | negative | null | positive | positive | null | null | null | null | null | null | null | null |
3,415,604 | true | adenocarcinoma | null | null | negative | positive | null | null | null | null | null | null | null | null | null | null |
3,416,527 | true | adenocarcinoma | 50 | % | positive | positive | positive | negative | null | null | null | null | null | null | null | null |
3,418,663 | false | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,419,159 | false | benign_or_inflammatory | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,420,749 | true | benign_or_inflammatory | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,420,788 | true | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,422,563 | true | squamous_carcinoma | null | null | null | null | positive | positive | null | null | null | null | null | null | null | null |
3,422,566 | true | null | null | null | positive | positive | negative | negative | null | null | null | null | null | null | null | null |
3,424,127 | true | squamous_carcinoma | 1 | % | null | null | positive | positive | null | null | null | null | null | null | null | null |
3,424,388 | false | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,429,369 | true | null | 1 | % | negative | positive | positive | negative | null | null | null | null | null | null | null | null |
3,430,472 | true | benign_or_inflammatory | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,435,399 | true | benign_or_inflammatory | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,437,447 | true | benign_or_inflammatory | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,438,237 | true | benign_or_inflammatory | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,438,744 | true | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,444,716 | false | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,444,963 | true | adenocarcinoma | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,449,262 | false | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,452,952 | true | squamous_carcinoma | null | null | null | null | positive | positive | null | null | null | null | null | null | null | null |
3,453,421 | true | metastasis | null | null | negative | negative | positive | null | null | null | null | null | null | null | null | null |
3,466,708 | false | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,466,709 | true | adenocarcinoma | null | null | positive | positive | null | null | null | null | null | null | null | null | null | null |
3,470,803 | true | adenocarcinoma | null | null | positive | positive | negative | negative | null | null | null | null | null | null | null | null |
3,471,977 | false | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,472,498 | true | benign_or_inflammatory | null | null | positive | positive | null | null | null | null | null | null | null | null | null | null |
3,478,237 | true | null | null | null | null | positive | null | null | null | null | null | null | null | null | null | null |
3,486,353 | true | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,487,972 | false | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,493,513 | true | benign_or_inflammatory | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,497,948 | true | adenocarcinoma | null | null | positive | positive | null | positive | null | null | null | null | null | null | null | null |
3,501,614 | true | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,503,763 | true | null | null | null | null | null | positive | null | null | null | null | null | null | null | null | null |
3,504,703 | true | adenocarcinoma | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,505,040 | true | benign_or_inflammatory | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,510,901 | true | adenocarcinoma | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,518,420 | true | null | null | null | null | positive | null | null | null | null | null | null | null | null | null | null |
3,518,426 | true | adenocarcinoma | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,519,511 | false | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,522,989 | true | adenocarcinoma | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,525,774 | true | adenocarcinoma | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,526,249 | true | squamous_carcinoma | 50 | % | null | null | null | null | null | null | null | null | null | null | null | null |
3,528,207 | true | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,528,724 | true | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,531,808 | true | null | 1 | % | null | null | null | null | null | null | null | null | null | null | null | null |
3,534,966 | true | adenocarcinoma | 50 | % | null | null | null | null | null | null | null | null | null | null | null | null |
3,536,529 | true | null | null | null | null | null | null | null | null | null | null | null | null | null | null | null |
3,540,199 | true | adenocarcinoma | 50 | % | positive | positive | positive | negative | null | null | null | null | null | null | null | null |
End of preview.