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The dataset generation failed
Error code:   DatasetGenerationError
Exception:    CastError
Message:      Couldn't cast
id: string
pmid: string
task: string
question: string
context: string
ground_truth: struct<decision: string, answer: string, evidence: list<item: string>, uncertainty: string, limitati (... 22 chars omitted)
  child 0, decision: string
  child 1, answer: string
  child 2, evidence: list<item: string>
      child 0, item: string
  child 3, uncertainty: string
  child 4, limitations: list<item: null>
      child 0, item: null
messages: list<item: struct<role: string, content: string>>
  child 0, item: struct<role: string, content: string>
      child 0, role: string
      child 1, content: string
to
{'id': Value('string'), 'task': Value('string'), 'pmid': Value('string'), 'messages': List({'role': Value('string'), 'content': Value('string')})}
because column names don't match
Traceback:    Traceback (most recent call last):
                File "/usr/local/lib/python3.14/site-packages/datasets/builder.py", line 1827, in _prepare_split_single
                  for key, table in generator:
                                    ^^^^^^^^^
                File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 613, in wrapped
                  for item in generator(*args, **kwargs):
                              ~~~~~~~~~^^^^^^^^^^^^^^^^^
                File "/usr/local/lib/python3.14/site-packages/datasets/packaged_modules/json/json.py", line 343, in _generate_tables
                  self._cast_table(pa_table, json_field_paths=json_field_paths),
                  ~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
                File "/usr/local/lib/python3.14/site-packages/datasets/packaged_modules/json/json.py", line 132, in _cast_table
                  pa_table = table_cast(pa_table, self.info.features.arrow_schema)
                File "/usr/local/lib/python3.14/site-packages/datasets/table.py", line 2378, in table_cast
                  return cast_table_to_schema(table, schema)
                File "/usr/local/lib/python3.14/site-packages/datasets/table.py", line 2306, in cast_table_to_schema
                  raise CastError(
                  ...<3 lines>...
                  )
              datasets.table.CastError: Couldn't cast
              id: string
              pmid: string
              task: string
              question: string
              context: string
              ground_truth: struct<decision: string, answer: string, evidence: list<item: string>, uncertainty: string, limitati (... 22 chars omitted)
                child 0, decision: string
                child 1, answer: string
                child 2, evidence: list<item: string>
                    child 0, item: string
                child 3, uncertainty: string
                child 4, limitations: list<item: null>
                    child 0, item: null
              messages: list<item: struct<role: string, content: string>>
                child 0, item: struct<role: string, content: string>
                    child 0, role: string
                    child 1, content: string
              to
              {'id': Value('string'), 'task': Value('string'), 'pmid': Value('string'), 'messages': List({'role': Value('string'), '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 1369, in compute_config_parquet_and_info_response
                  parquet_operations, partial, estimated_dataset_info = stream_convert_to_parquet(
                                                                        ~~~~~~~~~~~~~~~~~~~~~~~~~^
                      builder, max_dataset_size_bytes=max_dataset_size_bytes
                      ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
                  )
                  ^
                File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 948, in stream_convert_to_parquet
                  builder._prepare_split(split_generator=splits_generators[split], file_format="parquet")
                  ~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
                File "/usr/local/lib/python3.14/site-packages/datasets/builder.py", line 1694, in _prepare_split
                  for job_id, done, content in self._prepare_split_single(
                                               ~~~~~~~~~~~~~~~~~~~~~~~~~~^
                      gen_kwargs=gen_kwargs, job_id=job_id, **_prepare_split_args
                      ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
                  ):
                  ^
                File "/usr/local/lib/python3.14/site-packages/datasets/builder.py", line 1879, in _prepare_split_single
                  raise DatasetGenerationError("An error occurred while generating the dataset") from e
              datasets.exceptions.DatasetGenerationError: An error occurred while generating the dataset

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id
string
task
string
pmid
string
messages
list
bioev_pubmedqa_16428354
evidence_qa
16428354
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_25859857
evidence_qa
25859857
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_17890090
evidence_qa
17890090
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_16498158
evidence_qa
16498158
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_19640728
evidence_qa
19640728
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_18540901
evidence_qa
18540901
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_16991071
evidence_qa
16991071
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_26126304
evidence_qa
26126304
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_medquad_0000002_7
medical_explanation
null
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_27184293
evidence_qa
27184293
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_23359100
evidence_qa
23359100
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_24995509
evidence_qa
24995509
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_25636371
evidence_qa
25636371
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_9616411
evidence_qa
9616411
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_22348433
evidence_qa
22348433
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_17704864
evidence_qa
17704864
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_25499207
evidence_qa
25499207
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmed_42772911
evidence_summary
42772911
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_15597845
evidence_qa
15597845
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_21190419
evidence_qa
21190419
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_25957366
evidence_qa
25957366
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_17445978
evidence_qa
17445978
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_23677366
evidence_qa
23677366
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_23949294
evidence_qa
23949294
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_19142546
evidence_qa
19142546
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_10456814
evidence_qa
10456814
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_20011163
evidence_qa
20011163
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_22867778
evidence_qa
22867778
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_26818046
evidence_qa
26818046
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_23264436
evidence_qa
23264436
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_19230985
evidence_qa
19230985
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_17595200
evidence_qa
17595200
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_27818079
evidence_qa
27818079
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_9100537
evidence_qa
9100537
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_23240452
evidence_qa
23240452
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_25079920
evidence_qa
25079920
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_14627582
evidence_qa
14627582
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_26222664
evidence_qa
26222664
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_26820719
evidence_qa
26820719
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_24476003
evidence_qa
24476003
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_19931500
evidence_qa
19931500
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_24446763
evidence_qa
24446763
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_22227642
evidence_qa
22227642
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_20537205
evidence_qa
20537205
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_26163474
evidence_qa
26163474
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_24013712
evidence_qa
24013712
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
bioev_pubmedqa_10473855
evidence_qa
10473855
[ { "role": "system", "content": "You are BioEvidence-LLM, an expert biomedical literature analysis assistant.\nYour role is to analyze biomedical questions and provided source evidence strictly and accurately.\n\nCRITICAL OPERATIONAL RULES:\n1. EVIDENCE BEFORE GENERATION: Base all claims solely on the provid...
End of preview.

YAML Metadata Warning:The task_categories "text2text-generation" is not in the official list: text-classification, token-classification, table-question-answering, question-answering, zero-shot-classification, translation, summarization, feature-extraction, text-generation, fill-mask, sentence-similarity, text-to-speech, text-to-audio, automatic-speech-recognition, audio-to-audio, audio-classification, audio-text-to-text, voice-activity-detection, depth-estimation, image-classification, object-detection, image-segmentation, text-to-image, image-to-text, image-to-image, image-to-video, unconditional-image-generation, video-classification, reinforcement-learning, robotics, tabular-classification, tabular-regression, tabular-to-text, table-to-text, multiple-choice, text-ranking, text-retrieval, time-series-forecasting, text-to-video, image-text-to-text, image-text-to-image, image-text-to-video, visual-question-answering, document-question-answering, zero-shot-image-classification, graph-ml, mask-generation, zero-shot-object-detection, text-to-3d, image-to-3d, image-feature-extraction, video-text-to-text, keypoint-detection, visual-document-retrieval, any-to-any, video-to-video, other

Dataset Card: BioEvidence-SFT & BioEvidence-Eval

Dataset Summary

The BioEvidence-SFT and BioEvidence-Eval datasets are curated instruction-tuning and benchmarking corpora designed for evidence-grounded biomedical NLP tasks.

Subsets & Splits

  • BioEvidence-SFT-v0.1: 100 balanced pilot samples across all 7 taxonomy tasks (100% human-rubric validated).
  • BioEvidence-SFT-full: 880 multi-source training samples formatted in ChatML format.
  • BioEvidence-Eval-v0.1: 156 held-out evaluation samples with zero article/PMID overlap with training data.

Provenance & Sources

  1. PubMedQA (MIT License): Expert-annotated research questions with yes/no/maybe decisions.
  2. MedQuAD (NIH Public Domain): 12 NIH institute consumer and clinician health resources.
  3. PubMed (NCBI E-utilities): Controlled queries for randomized clinical trials.
  4. PMC Open Access (CC-BY): Full-text open-access articles via the BioC API.

Leakage Prevention

All splits are grouped strictly by PubMed ID (PMID) or PubMed Central ID (PMCID). No articles or abstracts exist in both training and evaluation subsets.

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Models trained or fine-tuned on Bhupati1998/BioEvidence-Datasets