Datasets:

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SaeedLab

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dom-formula-assignment-data

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Precision Computational Health and Biomedical Data Science Lab 7

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 2 new columns ({'m/z Exp.', 'Intensity'}) and 6 missing columns ({'m/z exp.', 'Origin', 'Chem. Formula', 'm/z calc.', 'm/z error (ppm)', 'Ion type'}).

This happened while the csv dataset builder was generating data using

hf://datasets/SaeedLab/dom-formula-assignment-data/DOM_testing_set_Peaklists/PPFA/PPFA_neg_8M_0.5s_5ppm_aFTk_PeakList_Rec.csv (at revision c63e4137a82fddea8303939a8519a04653ed4849), [/tmp/hf-datasets-cache/medium/datasets/29308899271680-config-parquet-and-info-SaeedLab-dom-formula-assi-822fc594/hub/datasets--SaeedLab--dom-formula-assignment-data/snapshots/c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set/Table_Pahokee_River_Fulvic_Acid.csv (origin=hf://datasets/SaeedLab/dom-formula-assignment-data@c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set/Table_Pahokee_River_Fulvic_Acid.csv), /tmp/hf-datasets-cache/medium/datasets/29308899271680-config-parquet-and-info-SaeedLab-dom-formula-assi-822fc594/hub/datasets--SaeedLab--dom-formula-assignment-data/snapshots/c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set/Table_Suwannee_River_Fulvic_Acid_2_v2.csv (origin=hf://datasets/SaeedLab/dom-formula-assignment-data@c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set/Table_Suwannee_River_Fulvic_Acid_2_v2.csv), /tmp/hf-datasets-cache/medium/datasets/29308899271680-config-parquet-and-info-SaeedLab-dom-formula-assi-822fc594/hub/datasets--SaeedLab--dom-formula-assignment-data/snapshots/c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set/Table_Suwannee_River_Fulvic_Acid_3.csv (origin=hf://datasets/SaeedLab/dom-formula-assignment-data@c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set/Table_Suwannee_River_Fulvic_Acid_3.csv), /tmp/hf-datasets-cache/medium/datasets/29308899271680-config-parquet-and-info-SaeedLab-dom-formula-assi-822fc594/hub/datasets--SaeedLab--dom-formula-assignment-data/snapshots/c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set_Peaklists/PPFA/PPFA_neg_8M_0.5s_5ppm_aFTk_PeakList_Rec.csv (origin=hf://datasets/SaeedLab/dom-formula-assignment-data@c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set_Peaklists/PPFA/PPFA_neg_8M_0.5s_5ppm_aFTk_PeakList_Rec.csv), /tmp/hf-datasets-cache/medium/datasets/29308899271680-config-parquet-and-info-SaeedLab-dom-formula-assi-822fc594/hub/datasets--SaeedLab--dom-formula-assignment-data/snapshots/c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set_Peaklists/SRFA2/SRFA2_neg_8M_0.5s_5ppm_aFTk_PeakList_Rec.csv (origin=hf://datasets/SaeedLab/dom-formula-assignment-data@c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set_Peaklists/SRFA2/SRFA2_neg_8M_0.5s_5ppm_aFTk_PeakList_Rec.csv), /tmp/hf-datasets-cache/medium/datasets/29308899271680-config-parquet-and-info-SaeedLab-dom-formula-assi-822fc594/hub/datasets--SaeedLab--dom-formula-assignment-data/snapshots/c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set_Peaklists/SRFA3/SRFA3_neg_8M_0.5s_5ppm_aFTk_PeakList_Rec.csv (origin=hf://datasets/SaeedLab/dom-formula-assignment-data@c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set_Peaklists/SRFA3/SRFA3_neg_8M_0.5s_5ppm_aFTk_PeakList_Rec.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
              m/z Exp.: double
              Intensity: double
              -- schema metadata --
              pandas: '{"index_columns": [{"kind": "range", "name": null, "start": 0, "' + 498
              to
              {'Origin': Value('string'), 'm/z exp.': Value('float64'), 'Chem. Formula': Value('string'), 'm/z calc.': Value('float64'), 'm/z error (ppm)': Value('float64'), 'Ion type': 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 1347, 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 980, in convert_to_parquet
                  builder.download_and_prepare(
                File "/usr/local/lib/python3.12/site-packages/datasets/builder.py", line 884, in download_and_prepare
                  self._download_and_prepare(
                File "/usr/local/lib/python3.12/site-packages/datasets/builder.py", line 947, in _download_and_prepare
                  self._prepare_split(split_generator, **prepare_split_kwargs)
                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 2 new columns ({'m/z Exp.', 'Intensity'}) and 6 missing columns ({'m/z exp.', 'Origin', 'Chem. Formula', 'm/z calc.', 'm/z error (ppm)', 'Ion type'}).
              
              This happened while the csv dataset builder was generating data using
              
              hf://datasets/SaeedLab/dom-formula-assignment-data/DOM_testing_set_Peaklists/PPFA/PPFA_neg_8M_0.5s_5ppm_aFTk_PeakList_Rec.csv (at revision c63e4137a82fddea8303939a8519a04653ed4849), [/tmp/hf-datasets-cache/medium/datasets/29308899271680-config-parquet-and-info-SaeedLab-dom-formula-assi-822fc594/hub/datasets--SaeedLab--dom-formula-assignment-data/snapshots/c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set/Table_Pahokee_River_Fulvic_Acid.csv (origin=hf://datasets/SaeedLab/dom-formula-assignment-data@c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set/Table_Pahokee_River_Fulvic_Acid.csv), /tmp/hf-datasets-cache/medium/datasets/29308899271680-config-parquet-and-info-SaeedLab-dom-formula-assi-822fc594/hub/datasets--SaeedLab--dom-formula-assignment-data/snapshots/c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set/Table_Suwannee_River_Fulvic_Acid_2_v2.csv (origin=hf://datasets/SaeedLab/dom-formula-assignment-data@c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set/Table_Suwannee_River_Fulvic_Acid_2_v2.csv), /tmp/hf-datasets-cache/medium/datasets/29308899271680-config-parquet-and-info-SaeedLab-dom-formula-assi-822fc594/hub/datasets--SaeedLab--dom-formula-assignment-data/snapshots/c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set/Table_Suwannee_River_Fulvic_Acid_3.csv (origin=hf://datasets/SaeedLab/dom-formula-assignment-data@c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set/Table_Suwannee_River_Fulvic_Acid_3.csv), /tmp/hf-datasets-cache/medium/datasets/29308899271680-config-parquet-and-info-SaeedLab-dom-formula-assi-822fc594/hub/datasets--SaeedLab--dom-formula-assignment-data/snapshots/c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set_Peaklists/PPFA/PPFA_neg_8M_0.5s_5ppm_aFTk_PeakList_Rec.csv (origin=hf://datasets/SaeedLab/dom-formula-assignment-data@c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set_Peaklists/PPFA/PPFA_neg_8M_0.5s_5ppm_aFTk_PeakList_Rec.csv), /tmp/hf-datasets-cache/medium/datasets/29308899271680-config-parquet-and-info-SaeedLab-dom-formula-assi-822fc594/hub/datasets--SaeedLab--dom-formula-assignment-data/snapshots/c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set_Peaklists/SRFA2/SRFA2_neg_8M_0.5s_5ppm_aFTk_PeakList_Rec.csv (origin=hf://datasets/SaeedLab/dom-formula-assignment-data@c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set_Peaklists/SRFA2/SRFA2_neg_8M_0.5s_5ppm_aFTk_PeakList_Rec.csv), /tmp/hf-datasets-cache/medium/datasets/29308899271680-config-parquet-and-info-SaeedLab-dom-formula-assi-822fc594/hub/datasets--SaeedLab--dom-formula-assignment-data/snapshots/c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set_Peaklists/SRFA3/SRFA3_neg_8M_0.5s_5ppm_aFTk_PeakList_Rec.csv (origin=hf://datasets/SaeedLab/dom-formula-assignment-data@c63e4137a82fddea8303939a8519a04653ed4849/DOM_testing_set_Peaklists/SRFA3/SRFA3_neg_8M_0.5s_5ppm_aFTk_PeakList_Rec.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)