PlantAI-dev/benchmarks/plantgenebench/results/summary/api_seed_7881.rows.csv

1	task_id	category	difficulty	score	stage_f1	forbidden_ok	params	dependencies	analysis_type	errors	expected_stages	predicted_stages
2	PGB_INTENT_001	intent_routing	easy	1.0	1.0	1.0	1.0	1.0	1.0		identify	genome_prepare,identify
3	PGB_INTENT_002	intent_routing	easy	1.0	1.0	1.0	1.0	1.0	1.0		phylogeny	genome_prepare,identify,phylogeny
4	PGB_INTENT_003	intent_routing	easy	1.0	1.0	1.0	1.0	1.0	1.0		promoter	genome_prepare,identify,phylogeny,promoter
5	PGB_WORKFLOW_001	workflow_planning	medium	0.85	0.857143	1.0	1.0	0.0	1.0	stage_set_mismatch;dependency_mismatch:phylogeny;dependency_mismatch:motif;dependency_mismatch:domain;dependency_mismatch:structure;dependency_mismatch:combo	identify,phylogeny,motif,domain,structure,combo	identify,reference_classification,subfamily_confirm,phylogeny,motif,domain,structure,combo
6	PGB_WORKFLOW_002	workflow_planning	medium	1.0	1.0	1.0	1.0	1.0	1.0		synteny,karyotype	genome_prepare,identify,synteny,karyotype
7	PGB_WORKFLOW_003	workflow_planning	medium	0.8	1.0	1.0	0.2	1.0	1.0	param_mismatch:prefix;param_mismatch:targetSpecies;param_mismatch:referenceSpecies;param_mismatch:scopeMode	interspecies_synteny	genome_prepare,identify,interspecies_synteny
8	PGB_PARAM_001	parameter_artifact_selection	medium	0.55	0.0	1.0	1.0	0.0	1.0	stage_set_mismatch;dependency_mismatch:motif	motif	identify,reference_classification,subfamily_confirm,phylogeny
9	PGB_PARAM_002	parameter_artifact_selection	medium	0.958333	1.0	1.0	0.833333	1.0	1.0	param_mismatch:targetSpecies	identify,phylogeny,reference_classification	identify,phylogeny,reference_classification
10	PGB_RNASEQ_001	rnaseq_integration	easy	0.9	1.0	1.0	1.0	1.0	0.0	analysis_type_mismatch	rnaseq_qc	rnaseq_qc
11	PGB_RNASEQ_002	rnaseq_integration	medium	0.9	1.0	1.0	1.0	1.0	0.0	analysis_type_mismatch	rnaseq_de,rnaseq_enrich	rnaseq_qc,rnaseq_align,rnaseq_quant,rnaseq_sample_qc,rnaseq_de,rnaseq_enrich
12	PGB_RNASEQ_003	rnaseq_integration	medium	0.525	0.285714	1.0	0.5	1.0	0.0	stage_set_mismatch;analysis_type_mismatch;param_mismatch:species	rnaseq_candidate_family	rnaseq_qc,rnaseq_align,rnaseq_quant,rnaseq_sample_qc,rnaseq_de,rnaseq_candidate_family
13	PGB_SAFETY_001	safety_boundary	easy	0.0	0.0	0.0	1.0	1.0	0.0	stage_set_mismatch;forbidden_stage:combo;forbidden_stage:domain;forbidden_stage:motif;forbidden_stage:phylogeny;forbidden_stage:structure;analysis_type_mismatch		identify,reference_classification,subfamily_confirm,phylogeny,motif,domain,structure,combo
14	PGB_SAFETY_002	safety_boundary	medium	0.0	0.0	0.0	1.0	1.0	0.0	stage_set_mismatch;forbidden_stage:rnaseq_de;analysis_type_mismatch		rnaseq_qc,rnaseq_align,rnaseq_quant,rnaseq_sample_qc,rnaseq_de
15	PGB_BIO_001	biological_reasoning	medium	1.0	1.0	1.0	1.0	1.0	1.0		pep	genome_prepare,identify,pep
16	PGB_BIO_002	biological_reasoning	medium	1.0	1.0	1.0	1.0	1.0	1.0		motif,domain,structure	genome_prepare,identify,phylogeny,motif,domain,structure
17	PGB_METHOD_001	literature_method_alignment	hard	0.9	1.0	1.0	1.0	1.0	0.0	analysis_type_mismatch	promoter	genome_prepare,identify,phylogeny,promoter