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The dataset generation failed
Error code: DatasetGenerationError
Exception: CastError
Message: Couldn't cast
id: int64
document_id: int64
chunk_index: int32
text: string
text_length: int32
page_metadata: string
bbox: string
embedding_model: string
embedding: string
created_at: timestamp[us]
updated_at: timestamp[us]
to
{'id': Value('int64'), 'relative_path': Value('string'), 'markdown': Value('string'), 'markdown_chunks_openai': Value('string'), 'table_of_contents': Value('string'), 'page_stats': Value('string'), 'num_pages': Value('int32'), 'created_at': Value('timestamp[us]'), 'updated_at': Value('timestamp[us]'), 'mineru_markdown': Value('string'), 'mineru_content': Value('string')}
because column names don't match
Traceback: Traceback (most recent call last):
File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 1404, in compute_config_parquet_and_info_response
fill_builder_info(builder, hf_endpoint=hf_endpoint, hf_token=hf_token, validate=validate)
File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 577, in fill_builder_info
) = retry_validate_get_features_num_examples_size_and_compression_ratio(
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 496, in retry_validate_get_features_num_examples_size_and_compression_ratio
validate(pf)
File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 534, in validate
raise TooBigRowGroupsError(
worker.job_runners.config.parquet_and_info.TooBigRowGroupsError: Parquet file has too big row groups. First row group has 2249861136 which exceeds the limit of 300000000
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "/usr/local/lib/python3.12/site-packages/datasets/builder.py", line 1815, in _prepare_split_single
for _, table in generator:
^^^^^^^^^
File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 691, in wrapped
for item in generator(*args, **kwargs):
^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/usr/local/lib/python3.12/site-packages/datasets/packaged_modules/parquet/parquet.py", line 106, in _generate_tables
yield f"{file_idx}_{batch_idx}", self._cast_table(pa_table)
^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/usr/local/lib/python3.12/site-packages/datasets/packaged_modules/parquet/parquet.py", line 73, in _cast_table
pa_table = table_cast(pa_table, self.info.features.arrow_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
document_id: int64
chunk_index: int32
text: string
text_length: int32
page_metadata: string
bbox: string
embedding_model: string
embedding: string
created_at: timestamp[us]
updated_at: timestamp[us]
to
{'id': Value('int64'), 'relative_path': Value('string'), 'markdown': Value('string'), 'markdown_chunks_openai': Value('string'), 'table_of_contents': Value('string'), 'page_stats': Value('string'), 'num_pages': Value('int32'), 'created_at': Value('timestamp[us]'), 'updated_at': Value('timestamp[us]'), 'mineru_markdown': Value('string'), 'mineru_content': Value('string')}
because column names don't match
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 1427, 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 993, in stream_convert_to_parquet
builder._prepare_split(
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 1858, in _prepare_split_single
raise DatasetGenerationError("An error occurred while generating the dataset") from e
datasets.exceptions.DatasetGenerationError: An error occurred while generating the datasetNeed 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 | relative_path string | markdown string | markdown_chunks_openai string | table_of_contents string | page_stats string | num_pages int32 | created_at timestamp[us] | updated_at timestamp[us] | mineru_markdown string | mineru_content string |
|---|---|---|---|---|---|---|---|---|---|---|
1 | LabDocs/Synthetic_Procedures/11-DEOXYCORTICOSTERONE_SERUM.pdf | ## **Standard Operating Procedure (SOP) for Analytical Phase of 11- Deoxycorticosterone, Serum Testing**
- Purpose: 1.
- To provide a detailed and standardized protocol for the analysis and reporting of 11-deoxycorticosterone levels in serum samples. •
- Ensure consistency, accuracy, and reliability of test results. •... | {"blocks": [{"id": "/page/0/SectionHeader/0", "bbox": [112.33203125, 111.828125, 480.466796875, 139.78515625], "html": "<h2><b>Standard Operating Procedure (SOP) for Analytical Phase of 11-</b> <b>Deoxycorticosterone, Serum Testing</b></h2>", "page": 206, "images": {}, "polygon": [[112.33203125, 111.828125], [480.46679... | [{"title": "Standard Operating Procedure (SOP) for Analytical Phase of 11-\nDeoxycorticosterone, Serum Testing", "page_id": 0, "polygon": [[112.33203125, 111.828125], [480.466796875, 111.828125], [480.466796875, 139.78515625], [112.33203125, 139.78515625]], "heading_level": null}, {"title": "Document Control:\n1.", "pa... | [{"page_id": 0, "block_counts": [["Span", 121], ["Line", 61], ["ListItem", 22], ["SectionHeader", 1], ["Text", 1], ["ListGroup", 1]], "block_metadata": {"previous_text": "", "previous_type": "", "previous_order": 0, "llm_error_count": 0, "llm_tokens_used": 0, "llm_request_count": 0}, "text_extraction_method": "pdftext"... | 3 | 2025-09-07T03:25:56.869000 | 2025-09-07T06:02:16.333000 | # Standard Operating Procedure (SOP) for Analytical Phase of 11- Deoxycorticosterone, Serum Testing
Purpose: 1.
To provide a detailed and standardized protocol for the analysis• and reporting of 11-deoxycorticosterone levels in serum samples.
Ensure consistency, accuracy, and reliability of test results.•
Scope: 1.... | [{"type": "text", "text": "Standard Operating Procedure (SOP) for Analytical Phase of 11- Deoxycorticosterone, Serum Testing ", "text_level": 1, "bbox": [188, 133, 800, 166], "page_idx": 0}, {"type": "text", "text": "Purpose: 1. ", "bbox": [216, 179, 321, 196], "page_idx": 0}, {"type": "text", "text": "To provide a det... |
2 | LabDocs/Synthetic_Procedures/11-DEOXYCORTISOL_SERUM.pdf | Standard Operating Procedure (SOP) for Analytical Phase of 11- Deoxycortisol, Serum
## PURPOSE 1.
To outline the procedure for the analytical phase of generating results for 11-Deoxycortisol in serum samples, ensuring accurate and reliable test results that comply with clinical laboratory standards.
Responsibility: ... | {"blocks": [{"id": "/page/0/Text/0", "bbox": [112.1865234375, 111.828125, 458.05859375, 139.591552734375], "html": "<p block-type=\"Text\">Standard Operating Procedure (SOP) for Analytical Phase of 11- Deoxycortisol, Serum</p>", "page": 185, "images": {}, "polygon": [[112.1865234375, 111.828125], [458.05859375, 111.828... | [{"title": "PURPOSE\n1.", "page_id": 0, "polygon": [[129.60110473632812, 151.399658203125], [204.2908935546875, 151.399658203125], [204.2908935546875, 165.172607421875], [129.60110473632812, 165.172607421875]], "heading_level": null}, {"title": "SPECIMEN\n1.", "page_id": 0, "polygon": [[129.28369140625, 274.43115234375... | [{"page_id": 0, "block_counts": [["Span", 105], ["Line", 53], ["ListItem", 15], ["Text", 8], ["ListGroup", 3], ["SectionHeader", 2]], "block_metadata": {"previous_text": "", "previous_type": "", "previous_order": 0, "llm_error_count": 0, "llm_tokens_used": 0, "llm_request_count": 0}, "text_extraction_method": "pdftext"... | 3 | 2025-09-07T03:25:56.869000 | 2025-09-07T06:02:20.524000 | # Standard Operating Procedure (SOP) for Analytical Phase of 11- Deoxycortisol, Serum
# PURPOSE1.
To outline the procedure for the analytical phase of generating results for 11-Deoxycortisol in serum samples, ensuring accurate and reliable test results that comply with clinical laboratory standards.
Responsibility: ... | [{"type": "text", "text": "Standard Operating Procedure (SOP) for Analytical Phase of 11- Deoxycortisol, Serum ", "text_level": 1, "bbox": [188, 133, 763, 165], "page_idx": 0}, {"type": "text", "text": "PURPOSE1. ", "text_level": 1, "bbox": [215, 179, 337, 195], "page_idx": 0}, {"type": "text", "text": "To outline the ... |
3 | LabDocs/Synthetic_Procedures/11-DESOXYCORTISOL.pdf | ## **Protocol for Analytical Phase of Generating Results for 11- Deoxycortisol**
# **1. PURPOSE**
The purpose of this procedure is to outline the steps involved in the analytical phase of generating results for 11-Deoxycortisol in a CLIAcertified laboratory. This protocol ensures accuracy, consistency, and reliabilit... | {"blocks": [{"id": "/page/0/SectionHeader/0", "bbox": [112.1865234375, 111.725341796875, 449.328125, 140.299072265625], "html": "<h2><b>Protocol for Analytical Phase of Generating Results for 11-</b> <b>Deoxycortisol</b></h2>", "page": 180, "images": {}, "polygon": [[112.1865234375, 111.725341796875], [449.328125, 111.... | [{"title": "Protocol for Analytical Phase of Generating Results for 11-\nDeoxycortisol", "page_id": 0, "polygon": [[112.1865234375, 111.725341796875], [449.328125, 111.725341796875], [449.328125, 140.299072265625], [112.1865234375, 140.299072265625]], "heading_level": null}, {"title": "1. PURPOSE", "page_id": 0, "polyg... | [{"page_id": 0, "block_counts": [["Span", 98], ["Line", 50], ["ListItem", 13], ["Text", 11], ["SectionHeader", 6], ["ListGroup", 3]], "block_metadata": {"previous_text": "", "previous_type": "", "previous_order": 0, "llm_error_count": 0, "llm_tokens_used": 0, "llm_request_count": 0}, "text_extraction_method": "pdftext"... | 3 | 2025-09-07T03:25:56.869000 | 2025-09-07T06:02:23.611000 | # Protocol for Analytical Phase of Generating Results for 11- Deoxycortisol
# 1. PURPOSE
The purpose of this procedure is to outline the steps involved in the analytical phase of generating results for 11-Deoxycortisol in a CLIAcertified laboratory. This protocol ensures accuracy, consistency, and reliability of resu... | [{"type": "text", "text": "Protocol for Analytical Phase of Generating Results for 11- Deoxycortisol ", "text_level": 1, "bbox": [186, 133, 749, 165], "page_idx": 0}, {"type": "text", "text": "1. PURPOSE ", "text_level": 1, "bbox": [188, 171, 312, 186], "page_idx": 0}, {"type": "text", "text": "The purpose of this proc... |
4 | LabDocs/Synthetic_Procedures/11-NOR-DELTA-9-TETRAHYDROCANNABINOL-9-CARBOXYLIC_ACID_CARBOXY-THC_CONFIRMATION_CHAIN_OF_CUSTODY_MECONIUM.pdf | Standard Operating Procedure (SOP)
PURPOSE 1.
This procedure is designed to delineate the steps for the confirmation of 11-NOR-DELTA-9-TETRAHYDROCANNABINOL-9-CARBOXYLIC ACID (Carboxy-THC) in meconium, ensuring a proper chain of custody for forensic purposes. It aims to provide reliable and accurate results, consisten... | {"blocks": [{"id": "/page/0/Text/0", "bbox": [112.9140625, 111.930908203125, 315.751953125, 126.320556640625], "html": "<p block-type=\"Text\">Standard Operating Procedure (SOP)</p>", "page": 202, "images": {}, "polygon": [[112.9140625, 111.930908203125], [315.751953125, 111.930908203125], [315.751953125, 126.320556640... | null | [{"page_id": 0, "block_counts": [["Span", 115], ["Line", 58], ["ListItem", 19], ["Text", 7], ["ListGroup", 4]], "block_metadata": {"previous_text": "", "previous_type": "", "previous_order": 0, "llm_error_count": 0, "llm_tokens_used": 0, "llm_request_count": 0}, "text_extraction_method": "pdftext"}, {"page_id": 1, "blo... | 3 | 2025-09-07T03:25:56.869000 | 2025-09-07T06:02:26.658000 | Standard Operating Procedure (SOP)
# PURPOSE1.
This procedure is designed to delineate the steps for the confirmation of 11-NOR-DELTA-9-TETRAHYDROCANNABINOL-9-CARBOXYLIC ACID (Carboxy-THC) in meconium, ensuring a proper chain of custody for forensic purposes. It aims to provide reliable and accurate results, consiste... | [{"type": "text", "text": "Standard Operating Procedure (SOP) ", "bbox": [189, 133, 526, 149], "page_idx": 0}, {"type": "text", "text": "PURPOSE1. ", "text_level": 1, "bbox": [216, 162, 337, 179], "page_idx": 0}, {"type": "text", "text": "This procedure is designed to delineate the steps for the confirmation of 11-NOR-... |
5 | "LabDocs/Synthetic_Procedures/11-NOR-DELTA-9-TETRAHYDROCANNABINOL-9-CARBOXYLIC_ACID_CARBOXY-THC_CONF(...TRUNCATED) | "## **Standard Operating Procedure (SOP): Analytical Phase for 11- NOR-DELTA-9-TETRAHYDROCANNABINOL-(...TRUNCATED) | "{\"blocks\": [{\"id\": \"/page/0/SectionHeader/0\", \"bbox\": [111.458984375, 111.4169921875, 469.6(...TRUNCATED) | "[{\"title\": \"Standard Operating Procedure (SOP): Analytical Phase for 11-\\nNOR-DELTA-9-TETRAHYDR(...TRUNCATED) | "[{\"page_id\": 0, \"block_counts\": [[\"Span\", 121], [\"Line\", 60], [\"ListItem\", 18], [\"Sectio(...TRUNCATED) | 3 | 2025-09-07T03:25:56.869000 | 2025-09-07T06:02:30.268000 | "# Standard Operating Procedure (SOP): Analytical Phase for 11- NOR-DELTA-9-TETRAHYDROCANNABINOL-9-C(...TRUNCATED) | "[{\"type\": \"text\", \"text\": \"Standard Operating Procedure (SOP): Analytical Phase for 11- NOR-(...TRUNCATED) |
6 | LabDocs/Synthetic_Procedures/14-3-3_PROTEIN_CEREBROSPINAL_FLUID_CSF_.pdf | "#### **Standard Operating Procedure (SOP) for the Analytical Phase of Generating Results for 14-3-3(...TRUNCATED) | "{\"blocks\": [{\"id\": \"/page/0/SectionHeader/0\", \"bbox\": [112.041015625, 110.80029296875, 483.(...TRUNCATED) | "[{\"title\": \"Standard Operating Procedure (SOP) for the Analytical Phase of\\nGenerating Results (...TRUNCATED) | "[{\"page_id\": 0, \"block_counts\": [[\"Span\", 101], [\"Line\", 51], [\"ListItem\", 12], [\"Sectio(...TRUNCATED) | 3 | 2025-09-07T03:25:56.869000 | 2025-09-07T06:02:33.317000 | "# Standard Operating Procedure (SOP) for the Analytical Phase of Generating Results for 14-3-3 Prot(...TRUNCATED) | "[{\"type\": \"text\", \"text\": \"Standard Operating Procedure (SOP) for the Analytical Phase of Ge(...TRUNCATED) |
7 | LabDocs/Synthetic_Procedures/17-HYDROXYPREGNENOLONE_SERUM.pdf | "Standard Operating Procedure (SOP) for the Analysis of 17- HYDROXYPREGNENOLONE, SERUM\n\nPURPOSE Th(...TRUNCATED) | "{\"blocks\": [{\"id\": \"/page/0/Text/0\", \"bbox\": [112.4775390625, 112.342041015625, 434.7773437(...TRUNCATED) | null | "[{\"page_id\": 0, \"block_counts\": [[\"Span\", 117], [\"Line\", 59], [\"ListItem\", 20], [\"Text\"(...TRUNCATED) | 3 | 2025-09-07T03:25:56.869000 | 2025-09-07T06:02:36.354000 | "# Standard Operating Procedure (SOP) for the Analysis of 17- HYDROXYPREGNENOLONE, SERUM\n\nPURPOSE (...TRUNCATED) | "[{\"type\": \"text\", \"text\": \"Standard Operating Procedure (SOP) for the Analysis of 17- HYDROX(...TRUNCATED) |
8 | LabDocs/Synthetic_Procedures/17-HYDROXYPROGESTERONE_SERUM.pdf | "Standard Operating Procedure (SOP)\n\nTitle: Analytical Phase Protocol for Generating Results for S(...TRUNCATED) | "{\"blocks\": [{\"id\": \"/page/0/Text/0\", \"bbox\": [112.623046875, 112.44482421875, 315.169921875(...TRUNCATED) | "[{\"title\": \"METHOD LIMITATIONS\\n1.\", \"page_id\": 2, \"polygon\": [[128.7744140625, 290.465332(...TRUNCATED) | "[{\"page_id\": 0, \"block_counts\": [[\"Span\", 107], [\"Line\", 54], [\"ListItem\", 16], [\"Text\"(...TRUNCATED) | 3 | 2025-09-07T03:25:56.869000 | 2025-09-07T06:02:39.322000 | "Standard Operating Procedure (SOP)\n\n# Title: Analytical Phase Protocol for Generating Results for(...TRUNCATED) | "[{\"type\": \"text\", \"text\": \"Standard Operating Procedure (SOP) \", \"bbox\": [189, 133, 526, (...TRUNCATED) |
9 | LabDocs/Synthetic_Procedures/18-HYDROXYCORTICOSTERONE_SERUM.pdf | "## **Protocol for the Analytical Phase of Generating Results for 18- Hydroxycorticosterone, Serum**(...TRUNCATED) | "{\"blocks\": [{\"id\": \"/page/0/SectionHeader/0\", \"bbox\": [111.6044921875, 111.4169921875, 470.(...TRUNCATED) | "[{\"title\": \"Protocol for the Analytical Phase of Generating Results for 18-\\nHydroxycorticoster(...TRUNCATED) | "[{\"page_id\": 0, \"block_counts\": [[\"Span\", 104], [\"Line\", 53], [\"ListItem\", 14], [\"Sectio(...TRUNCATED) | 3 | 2025-09-07T03:25:56.870000 | 2025-09-07T06:02:42.431000 | "# Protocol for the Analytical Phase of Generating Results for 18- Hydroxycorticosterone, Serum\n\n#(...TRUNCATED) | "[{\"type\": \"text\", \"text\": \"Protocol for the Analytical Phase of Generating Results for 18- H(...TRUNCATED) |
10 | LabDocs/Synthetic_Procedures/1P_19Q_DELETION_IN_GLIOMAS_FISH_TISSUE.pdf | "1p/19q Deletion in Gliomas, FISH, Tissue - Standard Operating Procedure (SOP)\n\nPURPOSE 1.\n\nThe (...TRUNCATED) | "{\"blocks\": [{\"id\": \"/page/0/Text/0\", \"bbox\": [112.1865234375, 112.2392578125, 451.07421875,(...TRUNCATED) | "[{\"title\": \"SCOPE\\n1.\", \"page_id\": 0, \"polygon\": [[128.70166015625, 241.95166015625], [187(...TRUNCATED) | "[{\"page_id\": 0, \"block_counts\": [[\"Span\", 99], [\"Line\", 50], [\"ListItem\", 14], [\"Text\",(...TRUNCATED) | 4 | 2025-09-07T03:25:56.870000 | 2025-09-07T06:02:46.408000 | "1p/19q Deletion in Gliomas, FISH, Tissue - Standard Operating Procedure (SOP)\n\n# PURPOSE1.\n\nThe(...TRUNCATED) | "[{\"type\": \"text\", \"text\": \"1p/19q Deletion in Gliomas, FISH, Tissue - Standard Operating Pro(...TRUNCATED) |
End of preview.
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