https://w3id.org/np/RAECOXoIYIl-ioiTtWfeuBruru5dPyce_RFCOwyytE2Jo/Head https://w3id.org/np/RAECOXoIYIl-ioiTtWfeuBruru5dPyce_RFCOwyytE2Jo http://www.nanopub.org/nschema#hasAssertion https://w3id.org/np/RAECOXoIYIl-ioiTtWfeuBruru5dPyce_RFCOwyytE2Jo/assertion https://w3id.org/np/RAECOXoIYIl-ioiTtWfeuBruru5dPyce_RFCOwyytE2Jo http://www.nanopub.org/nschema#hasProvenance https://w3id.org/np/RAECOXoIYIl-ioiTtWfeuBruru5dPyce_RFCOwyytE2Jo/provenance https://w3id.org/np/RAECOXoIYIl-ioiTtWfeuBruru5dPyce_RFCOwyytE2Jo http://www.nanopub.org/nschema#hasPublicationInfo https://w3id.org/np/RAECOXoIYIl-ioiTtWfeuBruru5dPyce_RFCOwyytE2Jo/pubinfo https://w3id.org/np/RAECOXoIYIl-ioiTtWfeuBruru5dPyce_RFCOwyytE2Jo http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://www.nanopub.org/nschema#Nanopublication https://w3id.org/np/RAECOXoIYIl-ioiTtWfeuBruru5dPyce_RFCOwyytE2Jo/assertion https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test http://purl.org/dc/terms/description analysis.py downloaded the seven source files at commit bced77dd90e6a5c67bf7a557610b19ee995db729 and the figshare docx, recorded byte size and SHA-256, and searched the docx for a numeric table or a numeric file. The archive contains four images and a caption document with zero Word tables. It then attempted to import MultiNEAT, which raised ModuleNotFoundError. No cell-state trajectory was scored. The model was not re-integrated, and the paper's reported percentages were not copied into measured. https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test http://www.w3.org/1999/02/22-rdf-syntax-ns#type https://w3id.org/delphi/ontology/Assessment https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test http://www.w3.org/2000/01/rdf-schema#comment Measured: null French-flag accuracy at step 90 with stress clamped at 0, percent (n = 0, not measured). Interpretation: Simulation-result claim. The paper says that with stress forced to 0, the tissue reached only 82.8 percent of the target at 90 steps and the red stripe died at 99 steps, whereas with stress available it reached 95.1 percent at 90 steps. Those two percentages are the bar. The quote is: "These experiments reveal that, in the absence of stress, anatomical homeostasis is not reached nor maintained during the lifetime of the cells." Red-stripe death by step 99 is recorded if the matrix contains it and does not replace the accuracy bar. A passing recomputation shows that this program produced those two figures. It does not show that an anxiolytic does this to cells. https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test http://www.w3.org/2000/01/rdf-schema#label Claim test of levin-2023-goals-06: inconclusive, confidence 0.9 https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test http://www.w3.org/2000/01/rdf-schema#seeAlso https://github.com/fractastical/delphisci/blob/bf2af6ee0a84e23ffa6414ad7a0a50a8c276506e/test-data/claim-tests/levin-papers/levin-2023-goals-06/result.json https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test http://www.w3.org/ns/prov#wasAttributedTo https://w3id.org/delphi/resource/agent/delphisci-claim-tester-grok-4-7 https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test https://w3id.org/delphi/ontology/admissibleDatasets Numeric cell-state trajectories of the same evolved tissue with stress intact and with stress clamped at 0, from the authors' code or a deposited table. A figure image and the sentence that states 82.8 and 95.1 are not admissible as the measurement. https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test https://w3id.org/delphi/ontology/assessmentType claim-test/0.1.0 https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test https://w3id.org/delphi/ontology/dataKind none https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test https://w3id.org/delphi/ontology/disconfirmingObservation Clamping stress at 0 does not lower step-90 accuracy, or the clamped run is still above 90 percent. https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test https://w3id.org/delphi/ontology/evidenceAgainst Scoring the model requires MultiNEAT, Mesa and OpenCV, which are outside the standard tooling for these tests. Importing MultiNEAT failed. https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test https://w3id.org/delphi/ontology/evidenceAgainst The committed run.py sets nb_gens = 2. The paper states 250 generations and a population of 350. That evolution was not run. https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test https://w3id.org/delphi/ontology/evidenceAgainst The figshare supplement is three figure images (energy initialization, perturbation size, random initialization) and their captions. https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test https://w3id.org/delphi/ontology/evidenceAgainst The source files were fetched. They do not contain an evolved genome or a cell-state matrix, so the pre-registered accuracy was not computed. https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test https://w3id.org/delphi/ontology/evidenceAgainst This record does not show whether the program forms a French flag, and it does not show that cells do this. https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test https://w3id.org/delphi/ontology/expectedObservation At step 90, accuracy with stress clamped at 0 is within 1 percentage point of 82.8, and accuracy with stress left intact is within 1 percentage point of 95.1. https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test https://w3id.org/delphi/ontology/failCriterion Pre-registered: refutes if the forced-zero accuracy at step 90 is greater than or equal to the intact accuracy, or if the forced-zero accuracy is > 90. Mixed if forced-zero accuracy is lower than intact accuracy but the pair is not within 1.0 percentage point of (82.8, 95.1). If the authors' code cannot be executed and no numeric cell-state matrix for the two arms can be fetched, the verdict is inconclusive with reason data-unavailable. The paper's 82.8 and 95.1 are the bar, not the measurement. https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test https://w3id.org/delphi/ontology/hasConfidence 0.9 https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test https://w3id.org/delphi/ontology/hasEvidence https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-1 https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test https://w3id.org/delphi/ontology/hasEvidence https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-2 https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test https://w3id.org/delphi/ontology/hasEvidence https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-3 https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test https://w3id.org/delphi/ontology/hasVerdict inconclusive https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test https://w3id.org/delphi/ontology/hypothesis In the evolved tissue that uses stress as an instructive signal, forcing stress to zero for the whole run lowers French-flag accuracy at step 90 from 95.1 percent to 82.8 percent. https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test https://w3id.org/delphi/ontology/inferenceMethod Two accuracies at step 90. Pass requires both to fall within 1.0 percentage point of the locked pair and the clamped arm to be lower. Refute if the clamp does not reduce accuracy or leaves it above 90. https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test https://w3id.org/delphi/ontology/passCriterion Pre-registered bar, locked before opening the supplementary file and before any developmental run: the two figures in the claim, 82.8 and 95.1. Supports only if a recomputed pair (stress forced to 0, stress intact) of French-flag accuracies at step 90 is within 1.0 percentage point of (82.8, 95.1) and the forced-zero accuracy is strictly lower. Accuracy is 100 times the fraction of cells in the target state. The same tissue is used for both arms. Forcing stress to zero means the stress value used by the cells is clamped at 0 at every step. https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test https://w3id.org/delphi/ontology/preregistered false https://w3id.org/delphi/resource/claim/levin-2023-goals-06 https://w3id.org/delphi/ontology/hasAssessment https://w3id.org/delphi/resource/assessment/levin-2023-goals-06--claim-test https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-1 http://purl.org/dc/terms/description authors' released model; nb_gens in run.py is 2 and no evolved genome is included. Not executed. The paper states 250 generations and population 350. https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-1 http://purl.org/dc/terms/license https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-1 http://www.w3.org/1999/02/22-rdf-syntax-ns#type https://w3id.org/delphi/ontology/EvidenceItem https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-1 http://www.w3.org/2000/01/rdf-schema#label Dataset: Pio-Lopez and Levin neural cellular automaton source, ES-HyperNEAT French-flag experiment https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-1 http://www.w3.org/ns/prov#atLocation https://raw.githubusercontent.com/LPioL/scalefreecognition/bced77dd90e6a5c67bf7a557610b19ee995db729/analysis.py https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-1 http://www.w3.org/ns/prov#atLocation https://raw.githubusercontent.com/LPioL/scalefreecognition/bced77dd90e6a5c67bf7a557610b19ee995db729/multicellularity/agents.py https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-1 http://www.w3.org/ns/prov#atLocation https://raw.githubusercontent.com/LPioL/scalefreecognition/bced77dd90e6a5c67bf7a557610b19ee995db729/multicellularity/model_for_analysis.py https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-1 http://www.w3.org/ns/prov#atLocation https://raw.githubusercontent.com/LPioL/scalefreecognition/bced77dd90e6a5c67bf7a557610b19ee995db729/multicellularity/schedule.py https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-1 http://www.w3.org/ns/prov#atLocation https://raw.githubusercontent.com/LPioL/scalefreecognition/bced77dd90e6a5c67bf7a557610b19ee995db729/multicellularity/server.py https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-1 http://www.w3.org/ns/prov#atLocation https://raw.githubusercontent.com/LPioL/scalefreecognition/bced77dd90e6a5c67bf7a557610b19ee995db729/multicellularity/visualize.py https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-1 http://www.w3.org/ns/prov#atLocation https://raw.githubusercontent.com/LPioL/scalefreecognition/bced77dd90e6a5c67bf7a557610b19ee995db729/run.py https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-1 http://www.w3.org/ns/prov#wasDerivedFrom https://github.com/LPioL/scalefreecognition https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-1 https://w3id.org/delphi/ontology/hasChecksum sha256:0340609bbda69b0a77fb171332d18a24664ca72281437e213850d08d581cc42f https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-1 https://w3id.org/delphi/ontology/hasChecksum sha256:80007d10f78613bff14db5eac62443c59369d714f25385ba964bcd5c80662546 https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-1 https://w3id.org/delphi/ontology/hasChecksum sha256:bf05e91b35b0400842855cebf108d4036d15236554aa8362eaac25d09bbaa751 https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-1 https://w3id.org/delphi/ontology/hasChecksum sha256:ca94cb5e472c94a7b77f10c6e152c5c04d75498b3da29caab15c3c299ebc87bc https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-1 https://w3id.org/delphi/ontology/hasChecksum sha256:e9b4b6fc59a884b119a686e521f2f8a31e6e76fa735130ecca4d1022f5e16a3b https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-1 https://w3id.org/delphi/ontology/hasChecksum sha256:ebd87f69e0cda6a4939fc1c5e876e5d48cb505f52b213262e1314ba45c535a85 https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-1 https://w3id.org/delphi/ontology/hasChecksum sha256:f2889d99911b3e424b794e8bc4369a665b68504f2e7b6264baef9f1b12fc0de1 https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-2 http://purl.org/dc/terms/description checked for a deposited cell-state or stress matrix; 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not used as the measurement https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-3 http://purl.org/dc/terms/license CC BY https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-3 http://www.w3.org/1999/02/22-rdf-syntax-ns#type https://w3id.org/delphi/ontology/EvidenceItem https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-3 http://www.w3.org/2000/01/rdf-schema#label Dataset: Pio-Lopez L, Bischof J, LaPalme JV, Levin M (2023) The scaling of goals from cellular to anatomical homeostasis https://w3id.org/delphi/resource/evidence/levin-2023-goals-06--claim-test--dataset-3 http://www.w3.org/ns/prov#wasDerivedFrom https://doi.org/10.1098/rsfs.2022.0072 https://w3id.org/np/RAECOXoIYIl-ioiTtWfeuBruru5dPyce_RFCOwyytE2Jo/provenance https://w3id.org/delphi/resource/agent/delphisci-claim-tester-grok-4-7 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://www.w3.org/ns/prov#SoftwareAgent https://w3id.org/delphi/resource/agent/delphisci-claim-tester-grok-4-7 http://www.w3.org/2000/01/rdf-schema#label delphisci claim tester (grok-4.7; 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