Datasets:

---

introvoyz041

/

modkit

like 0

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 21 new columns ({'fw_soft_clipped_end', 'mod_code', 'alignment_end', 'ref_strand', 'ref_kmer', 'fw_soft_clipped_start', 'alignment_start', 'read_length', 'query_kmer', 'canonical_base', 'base_qual', 'modified_primary_base', 'inferred', 'mod_qual', 'flag', 'ref_position', 'forward_read_position', 'ref_mod_strand', 'read_id', 'chrom', 'mod_strand'}) and 2 missing columns ({'tag_header', 'count'}).

This happened while the csv dataset builder was generating data using

hf://datasets/introvoyz041/modkit/data/tests/resources/test_extract_include_sites_duplex_regression_expected.tsv (at revision d114c3f28bd9ba6479fbd5bd4684b6f08fec8e72), [/tmp/hf-datasets-cache/medium/datasets/29509535327495-config-parquet-and-info-introvoyz041-modkit-e02ac7c7/hub/datasets--introvoyz041--modkit/snapshots/d114c3f28bd9ba6479fbd5bd4684b6f08fec8e72/data/tests/resources/test_extract_include_sites_duplex_regression_expected.tsv (origin=hf://datasets/introvoyz041/modkit@d114c3f28bd9ba6479fbd5bd4684b6f08fec8e72/data/tests/resources/test_extract_include_sites_duplex_regression_expected.tsv), /tmp/hf-datasets-cache/medium/datasets/29509535327495-config-parquet-and-info-introvoyz041-modkit-e02ac7c7/hub/datasets--introvoyz041--modkit/snapshots/d114c3f28bd9ba6479fbd5bd4684b6f08fec8e72/data/tests/resources/test_read_calls_estimate_thresh.tsv (origin=hf://datasets/introvoyz041/modkit@d114c3f28bd9ba6479fbd5bd4684b6f08fec8e72/data/tests/resources/test_read_calls_estimate_thresh.tsv), /tmp/hf-datasets-cache/medium/datasets/29509535327495-config-parquet-and-info-introvoyz041-modkit-e02ac7c7/hub/datasets--introvoyz041--modkit/snapshots/d114c3f28bd9ba6479fbd5bd4684b6f08fec8e72/data/tests/resources/test_supplementary_calls.tsv (origin=hf://datasets/introvoyz041/modkit@d114c3f28bd9ba6479fbd5bd4684b6f08fec8e72/data/tests/resources/test_supplementary_calls.tsv), /tmp/hf-datasets-cache/medium/datasets/29509535327495-config-parquet-and-info-introvoyz041-modkit-e02ac7c7/hub/datasets--introvoyz041--modkit/snapshots/d114c3f28bd9ba6479fbd5bd4684b6f08fec8e72/data/tests/resources/test_supplementary_extract.tsv (origin=hf://datasets/introvoyz041/modkit@d114c3f28bd9ba6479fbd5bd4684b6f08fec8e72/data/tests/resources/test_supplementary_extract.tsv)]

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 1800, in _prepare_split_single
                  writer.write_table(table)
                File "/usr/local/lib/python3.12/site-packages/datasets/arrow_writer.py", line 765, in write_table
                  self._write_table(pa_table, writer_batch_size=writer_batch_size)
                File "/usr/local/lib/python3.12/site-packages/datasets/arrow_writer.py", line 773, in _write_table
                  pa_table = table_cast(pa_table, self._schema)
                             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
                File "/usr/local/lib/python3.12/site-packages/datasets/table.py", line 2281, in table_cast
                  return cast_table_to_schema(table, schema)
                         ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
                File "/usr/local/lib/python3.12/site-packages/datasets/table.py", line 2227, in cast_table_to_schema
                  raise CastError(
              datasets.table.CastError: Couldn't cast
              read_id: string
              forward_read_position: int64
              ref_position: int64
              chrom: string
              mod_strand: string
              ref_strand: string
              ref_mod_strand: string
              fw_soft_clipped_start: int64
              fw_soft_clipped_end: int64
              alignment_start: int64
              alignment_end: int64
              read_length: int64
              mod_qual: double
              mod_code: string
              base_qual: int64
              ref_kmer: string
              query_kmer: string
              canonical_base: string
              modified_primary_base: string
              inferred: bool
              flag: int64
              -- schema metadata --
              pandas: '{"index_columns": [{"kind": "range", "name": null, "start": 0, "' + 2827
              to
              {'tag_header': Value('string'), 'count': 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 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 882, in download_and_prepare
                  self._download_and_prepare(
                File "/usr/local/lib/python3.12/site-packages/datasets/builder.py", line 943, in _download_and_prepare
                  self._prepare_split(split_generator, **prepare_split_kwargs)
                File "/usr/local/lib/python3.12/site-packages/datasets/builder.py", line 1646, 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 1802, 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 21 new columns ({'fw_soft_clipped_end', 'mod_code', 'alignment_end', 'ref_strand', 'ref_kmer', 'fw_soft_clipped_start', 'alignment_start', 'read_length', 'query_kmer', 'canonical_base', 'base_qual', 'modified_primary_base', 'inferred', 'mod_qual', 'flag', 'ref_position', 'forward_read_position', 'ref_mod_strand', 'read_id', 'chrom', 'mod_strand'}) and 2 missing columns ({'tag_header', 'count'}).
              
              This happened while the csv dataset builder was generating data using
              
              hf://datasets/introvoyz041/modkit/data/tests/resources/test_extract_include_sites_duplex_regression_expected.tsv (at revision d114c3f28bd9ba6479fbd5bd4684b6f08fec8e72), [/tmp/hf-datasets-cache/medium/datasets/29509535327495-config-parquet-and-info-introvoyz041-modkit-e02ac7c7/hub/datasets--introvoyz041--modkit/snapshots/d114c3f28bd9ba6479fbd5bd4684b6f08fec8e72/data/tests/resources/test_extract_include_sites_duplex_regression_expected.tsv (origin=hf://datasets/introvoyz041/modkit@d114c3f28bd9ba6479fbd5bd4684b6f08fec8e72/data/tests/resources/test_extract_include_sites_duplex_regression_expected.tsv), /tmp/hf-datasets-cache/medium/datasets/29509535327495-config-parquet-and-info-introvoyz041-modkit-e02ac7c7/hub/datasets--introvoyz041--modkit/snapshots/d114c3f28bd9ba6479fbd5bd4684b6f08fec8e72/data/tests/resources/test_read_calls_estimate_thresh.tsv (origin=hf://datasets/introvoyz041/modkit@d114c3f28bd9ba6479fbd5bd4684b6f08fec8e72/data/tests/resources/test_read_calls_estimate_thresh.tsv), /tmp/hf-datasets-cache/medium/datasets/29509535327495-config-parquet-and-info-introvoyz041-modkit-e02ac7c7/hub/datasets--introvoyz041--modkit/snapshots/d114c3f28bd9ba6479fbd5bd4684b6f08fec8e72/data/tests/resources/test_supplementary_calls.tsv (origin=hf://datasets/introvoyz041/modkit@d114c3f28bd9ba6479fbd5bd4684b6f08fec8e72/data/tests/resources/test_supplementary_calls.tsv), /tmp/hf-datasets-cache/medium/datasets/29509535327495-config-parquet-and-info-introvoyz041-modkit-e02ac7c7/hub/datasets--introvoyz041--modkit/snapshots/d114c3f28bd9ba6479fbd5bd4684b6f08fec8e72/data/tests/resources/test_supplementary_extract.tsv (origin=hf://datasets/introvoyz041/modkit@d114c3f28bd9ba6479fbd5bd4684b6f08fec8e72/data/tests/resources/test_supplementary_extract.tsv)]
              
              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)