Datasets:

ClarusC64
/

pharma-combination-state-coherence-profiling-v0.1

Error code:   DatasetGenerationError
Exception:    ArrowInvalid
Message:      Failed to parse string: 'score+basin+vector+flags+shift' as a scalar of type double
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 2224, in cast_table_to_schema
                  cast_array_to_feature(
                File "/usr/local/lib/python3.12/site-packages/datasets/table.py", line 1795, in wrapper
                  return pa.chunked_array([func(chunk, *args, **kwargs) for chunk in array.chunks])
                                           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
                File "/usr/local/lib/python3.12/site-packages/datasets/table.py", line 2086, in cast_array_to_feature
                  return array_cast(
                         ^^^^^^^^^^^
                File "/usr/local/lib/python3.12/site-packages/datasets/table.py", line 1797, in wrapper
                  return func(array, *args, **kwargs)
                         ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
                File "/usr/local/lib/python3.12/site-packages/datasets/table.py", line 1949, in array_cast
                  return array.cast(pa_type)
                         ^^^^^^^^^^^^^^^^^^^
                File "pyarrow/array.pxi", line 1135, in pyarrow.lib.Array.cast
                File "/usr/local/lib/python3.12/site-packages/pyarrow/compute.py", line 412, in cast
                  return call_function("cast", [arr], options, memory_pool)
                         ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
                File "pyarrow/_compute.pyx", line 604, in pyarrow._compute.call_function
                File "pyarrow/_compute.pyx", line 399, in pyarrow._compute.Function.call
                File "pyarrow/error.pxi", line 155, in pyarrow.lib.pyarrow_internal_check_status
                File "pyarrow/error.pxi", line 92, in pyarrow.lib.check_status
              pyarrow.lib.ArrowInvalid: Failed to parse string: 'score+basin+vector+flags+shift' as a scalar of type double
              
              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 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 1919, 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	combination string	indication_context string	data_sources string	baseline_state_summary string	post_combo_state_summary string	cross_system_markers string	combination_coherence_score float64	dominant_response_basin string	cross_system_alignment_vector string	early_incoherence_flags string	net_functional_shift string	notes string	constraints string	gold_checklist null
CSP-001	PD1i + CTLA4i	melanoma	tumor; cytokines; RWE	high tumor burden; baseline autoimmunity low	response up; colitis signals emerging	tumor_resp; IL6; CRP; stool	0.62	anti_tumor_gain_fragile	tumor:+; immune_toxicity:+; inflammation:+	early GI immune toxicity	net positive fragile	Under 260 words	score+basin+vector+flags+shift	null
CSP-002	SGLT2i + ARNI	HFrEF	clinical; labs; RWE	high NTproBNP; edema; low activity	NTproBNP down; edema down; function up	NTproBNP; creat; BP; steps	0.84	cardio_renal_stability	cardio:+; renal:+; function:+; BP:~	none	net positive stable	Under 260 words	score+basin+vector+flags+shift	null
CSP-003	TNFi + MTX	RA	clinical; CRP; RWE	high CRP; joint pain; anemia	CRP down; pain down; infection signals mild	CRP; pain; WBC; infections	0.76	inflammation_resolution	immune:+; symptoms:+; infection_risk:+	infection risk emerging	net positive with risk	Under 260 words	score+basin+vector+flags+shift	null
CSP-004	statin + clarithromycin	hyperlipidemia	RWE; labs	stable lipids; normal CK	CK up; weakness; liver enzymes up	CK; ALT; symptoms	0.28	toxicity_shift	muscle:-; hepatic:-; function:-	interaction toxicity	net negative	Under 260 words	score+basin+vector+flags+shift	null
CSP-005	metformin + GLP1RA	T2D obesity	clinical; labs	high HbA1c; high weight; CRP mild	HbA1c down; weight down; nausea up	HbA1c; weight; GI AEs	0.8	metabolic_flexibility_gain	metabolic:+; inflammation:+; gut:-	GI intolerance	net positive	Under 260 words	score+basin+vector+flags+shift	null
CSP-006	SSRI + NSAID	depression pain	RWE	mood low; pain high; normal Hb	Hb down; GI bleed risk up; mood slight up	Hb; stool; mood	0.4	mixed_gain_with_bleed_risk	mood:+; bleed_risk:+; inflammation:~	bleed risk	net mixed	Under 260 words	score+basin+vector+flags+shift	null

What this dataset tests

Whether a system can score multi drug combinations by system level coherence.

The focus is: cross system alignment early incoherence flags net functional shift

Required outputs

combination_coherence_score
dominant_response_basin
cross_system_alignment_vector
early_incoherence_flags
net_functional_shift

Use case

Early screening for combination therapies. Find coherent combos. Flag brittle combos before trial spend.

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