Datasets:

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NeoDiscovery

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NDD

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NeoDiscovery 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 10 new columns ({'mutant_rank', 'mut_Rank_Stab', 'mut_netchop_score_ct', 'mutant_rank_PRIME', 'mutant_other_significant_alleles', 'mutant_seq', 'seq_len', 'TAP_score', 'mutant_rank_netMHCpan', 'wt_seq'}) and 31 missing columns ({'HLA', 'anchor_mutation', 'pubmed_id', 'genomic_coord', 'mt_peptide', 'netmhcpan_rank', 'tumor_type_detail', 'netmhcstabpan_stability', 'length', 'effector_origin', 'wt_peptide', 'assay_type', 'dai_netmhcpan', 'bigmhc_im_score', 'mutation_type', 'presentation_method', 'ndd_id', 'reference_name', 'ref', 'eluted_ligand_match', 'position', 'tcga_cancer_expression_tpm_median', 'mutation', 'alt', 'prime_rank', 'driver_status', 'chromosome', 'tap_score', 'stimulation_target', 'tumor_tissue', 'netchop_score'}).

This happened while the csv dataset builder was generating data using

hf://datasets/NeoDiscovery/NDD/data/leaderboard/nip_leaderboard_train.tsv (at revision f4d033289b4846e6a9bc50efd5ed847e438bdd2e)

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 1831, in _prepare_split_single
                  writer.write_table(table)
                File "/usr/local/lib/python3.12/site-packages/datasets/arrow_writer.py", line 714, 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
              patient_id: string
              response_type: string
              gene: string
              mutant_seq: string
              wt_seq: string
              seq_len: int64
              mutant_rank_netMHCpan: double
              mutant_rank: double
              mutant_other_significant_alleles: int64
              mutant_rank_PRIME: double
              TAP_score: double
              mut_Rank_Stab: double
              mut_netchop_score_ct: double
              -- schema metadata --
              pandas: '{"index_columns": [{"kind": "range", "name": null, "start": 0, "' + 1909
              to
              {'ndd_id': Value('string'), 'patient_id': Value('string'), 'tumor_tissue': Value('string'), 'tumor_type_detail': Value('string'), 'gene': Value('string'), 'mutation_type': Value('string'), 'mutation': Value('string'), 'position': Value('string'), 'mt_peptide': Value('string'), 'wt_peptide': Value('string'), 'length': Value('int64'), 'chromosome': Value('string'), 'genomic_coord': Value('string'), 'ref': Value('string'), 'alt': Value('string'), 'HLA': Value('string'), 'response_type': Value('string'), 'assay_type': Value('string'), 'effector_origin': Value('string'), 'stimulation_target': Value('string'), 'presentation_method': Value('string'), 'netmhcpan_rank': Value('float64'), 'netmhcstabpan_stability': Value('float64'), 'prime_rank': Value('float64'), 'bigmhc_im_score': Value('float64'), 'tap_score': Value('float64'), 'netchop_score': Value('float64'), 'dai_netmhcpan': Value('float64'), 'anchor_mutation': Value('string'), 'eluted_ligand_match': Value('int64'), 'tcga_cancer_expression_tpm_median': Value('float64'), 'driver_status': Value('string'), 'pubmed_id': Value('string'), 'reference_name': 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 1455, 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 1054, in convert_to_parquet
                  builder.download_and_prepare(
                File "/usr/local/lib/python3.12/site-packages/datasets/builder.py", line 894, in download_and_prepare
                  self._download_and_prepare(
                File "/usr/local/lib/python3.12/site-packages/datasets/builder.py", line 970, in _download_and_prepare
                  self._prepare_split(split_generator, **prepare_split_kwargs)
                File "/usr/local/lib/python3.12/site-packages/datasets/builder.py", line 1702, 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 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 10 new columns ({'mutant_rank', 'mut_Rank_Stab', 'mut_netchop_score_ct', 'mutant_rank_PRIME', 'mutant_other_significant_alleles', 'mutant_seq', 'seq_len', 'TAP_score', 'mutant_rank_netMHCpan', 'wt_seq'}) and 31 missing columns ({'HLA', 'anchor_mutation', 'pubmed_id', 'genomic_coord', 'mt_peptide', 'netmhcpan_rank', 'tumor_type_detail', 'netmhcstabpan_stability', 'length', 'effector_origin', 'wt_peptide', 'assay_type', 'dai_netmhcpan', 'bigmhc_im_score', 'mutation_type', 'presentation_method', 'ndd_id', 'reference_name', 'ref', 'eluted_ligand_match', 'position', 'tcga_cancer_expression_tpm_median', 'mutation', 'alt', 'prime_rank', 'driver_status', 'chromosome', 'tap_score', 'stimulation_target', 'tumor_tissue', 'netchop_score'}).
              
              This happened while the csv dataset builder was generating data using
              
              hf://datasets/NeoDiscovery/NDD/data/leaderboard/nip_leaderboard_train.tsv (at revision f4d033289b4846e6a9bc50efd5ed847e438bdd2e)
              
              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)