{"id":"W4412752212","doi":"10.1101/2025.07.24.666435","title":"Styx: A multi-language API Generator for Command-Line Tools","year":2025,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Scientific Computing and Data Management","field":"Decision Sciences","cited_by":1,"is_retracted":false,"has_abstract":true,"ca_institutions":"Centre for Addiction and Mental Health","funders":"National Institute of Mental Health; National Institutes of Health","keywords":"Computer science; Software portability; Debugging; Python (programming language); Software engineering; Compiler; Metadata; Workflow; Programming language; Neuroinformatics; Modular design; Documentation; World Wide Web; Data science; Database","routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow","scholarly_communication"],"consensus_categories":[],"category_scores_codex":[0.00823818,0.000731179,0.001059568,0.001014462,0.0005495871,0.003099125,0.003892844,0.0004530818,0.0001358026],"category_scores_gemma":[0.006876082,0.0006582458,0.0004669367,0.001608437,0.0001775766,0.0003227827,0.003750115,0.0006453112,0.0002404235],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002414016,"about_ca_system_score_gemma":0.0007594982,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00007565448,"about_ca_topic_score_gemma":0.0000252461,"domain_scores_codex":[0.9926274,0.0003733198,0.001597978,0.002946812,0.001570616,0.0008839137],"domain_scores_gemma":[0.9904388,0.001289439,0.0008821287,0.005552311,0.001451232,0.0003861596],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"not_applicable","study_design_scores_codex":[0.0005993791,0.003727816,0.01028819,0.002723486,0.002038786,0.0003960322,0.0005707794,0.02283088,0.2584973,0.01717206,0.67741,0.003745279],"study_design_scores_gemma":[0.004699689,0.0001878727,0.02229825,0.001147417,0.0005141909,2.733853e-8,0.0001359168,0.2518247,0.07769798,0.00006093278,0.6379901,0.003442983],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"methods","genre_gemma":"empirical","genre_scores_codex":[0.4574697,0.00293491,0.5041966,0.001677863,0.01675477,0.004500258,0.01109466,0.001276692,0.00009457392],"genre_scores_gemma":[0.8927654,0.00006212386,0.1023152,0.001471555,0.001419328,0.0006731338,0.000009284722,0.0001078761,0.001176135],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.4352957,"threshold_uncertainty_score":0.9995869,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.1211527375291644,"score_gpt":0.3543736352764755,"score_spread":0.2332208977473111,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). Scores rank; they never assert a category."}}