From 53bd9396674d3478acdad6c2ef3c8b6049a2a73f Mon Sep 17 00:00:00 2001 From: Patrick Kalita Date: Wed, 4 Dec 2024 16:47:08 -0800 Subject: [PATCH] Update test input files --- tests/input/Model-63f809ec00000701.yaml | 87 +++++++------------------ tests/input/Model-6606056e00002011.yaml | 59 ----------------- 2 files changed, 22 insertions(+), 124 deletions(-) diff --git a/tests/input/Model-63f809ec00000701.yaml b/tests/input/Model-63f809ec00000701.yaml index eda5ec3..c3ce4ca 100644 --- a/tests/input/Model-63f809ec00000701.yaml +++ b/tests/input/Model-63f809ec00000701.yaml @@ -5,41 +5,9 @@ title: tRNA repair and recycling by ANKZF1, ELAC1 and TRNT1 following activity o taxon: NCBITaxon:9606 status: production activities: -- id: gomodel:63f809ec00000701/63f809ec00000742 - enabled_by: - type: EnabledByGeneProductAssociation - evidence: [] - provenances: [] - term: UniProtKB:Q96Q11 - molecular_function: - type: MolecularFunctionAssociation - evidence: - - term: ECO:0000314 - reference: PMID:32075755 - provenances: - - contributor: https://orcid.org/0000-0001-7299-6685 - date: '2023-03-01' - provenances: [] - term: GO:0004810 - part_of: - type: BiologicalProcessAssociation - evidence: - - term: ECO:0000314 - reference: PMID:32075755 - provenances: - - contributor: https://orcid.org/0000-0001-7299-6685 - date: '2023-03-01' - provenances: [] - term: GO:0001680 - has_input: [] - has_output: [] - causal_associations: [] - provenances: [] - id: gomodel:63f809ec00000701/63f809ec00000726 enabled_by: type: EnabledByGeneProductAssociation - evidence: [] - provenances: [] term: UniProtKB:Q9H8Y5 molecular_function: type: MolecularFunctionAssociation @@ -49,7 +17,6 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7299-6685 date: '2023-03-01' - provenances: [] term: GO:0004521 part_of: type: BiologicalProcessAssociation @@ -59,9 +26,7 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7299-6685 date: '2023-03-01' - provenances: [] term: GO:0072344 - has_input: [] has_output: - type: MoleculeAssociation evidence: @@ -70,7 +35,6 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7299-6685 date: '2023-03-01' - provenances: [] term: CHEBI:10668 causal_associations: - type: CausalAssociation @@ -80,15 +44,33 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7299-6685 date: '2023-03-01' - provenances: [] predicate: RO:0002629 downstream_activity: gomodel:63f809ec00000701/63f809ec00000735 - provenances: [] +- id: gomodel:63f809ec00000701/63f809ec00000742 + enabled_by: + type: EnabledByGeneProductAssociation + term: UniProtKB:Q96Q11 + molecular_function: + type: MolecularFunctionAssociation + evidence: + - term: ECO:0000314 + reference: PMID:32075755 + provenances: + - contributor: https://orcid.org/0000-0001-7299-6685 + date: '2023-03-01' + term: GO:0004810 + part_of: + type: BiologicalProcessAssociation + evidence: + - term: ECO:0000314 + reference: PMID:32075755 + provenances: + - contributor: https://orcid.org/0000-0001-7299-6685 + date: '2023-03-01' + term: GO:0001680 - id: gomodel:63f809ec00000701/63f809ec00000735 enabled_by: type: EnabledByGeneProductAssociation - evidence: [] - provenances: [] term: UniProtKB:Q9H777 molecular_function: type: MolecularFunctionAssociation @@ -98,7 +80,6 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7299-6685 date: '2023-03-01' - provenances: [] term: GO:0004549 part_of: type: BiologicalProcessAssociation @@ -108,7 +89,6 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7299-6685 date: '2023-03-01' - provenances: [] term: GO:0042780 has_input: - type: MoleculeAssociation @@ -118,9 +98,7 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7299-6685 date: '2023-03-01' - provenances: [] term: CHEBI:10668 - has_output: [] causal_associations: - type: CausalAssociation evidence: @@ -129,15 +107,11 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7299-6685 date: '2023-03-01' - provenances: [] predicate: RO:0002629 downstream_activity: gomodel:63f809ec00000701/63f809ec00000742 - provenances: [] - id: gomodel:63f809ec00000701/63f809ec00000706 enabled_by: type: EnabledByGeneProductAssociation - evidence: [] - provenances: [] term: UniProtKB:O60524 molecular_function: type: MolecularFunctionAssociation @@ -147,7 +121,6 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7299-6685 date: '2023-03-01' - provenances: [] term: GO:1904678 occurs_in: type: CellularAnatomicalEntityAssociation @@ -157,7 +130,6 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7299-6685 date: '2023-03-01' - provenances: [] term: GO:0022626 part_of: type: BiologicalProcessAssociation @@ -167,19 +139,7 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7299-6685 date: '2023-03-01' - provenances: [] term: GO:0140708 - has_input: - - type: MoleculeAssociation - evidence: - - term: ECO:0000314 - reference: PMID:33909987 - provenances: - - contributor: https://orcid.org/0000-0001-7299-6685 - date: '2023-03-01' - provenances: [] - term: CHEBI:17732 - has_output: [] causal_associations: - type: CausalAssociation evidence: @@ -188,10 +148,8 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7299-6685 date: '2023-03-02' - provenances: [] predicate: RO:0002304 downstream_activity: gomodel:63f809ec00000701/63f809ec00000726 - provenances: [] objects: - id: GO:1904678 label: alpha-aminoacyl-tRNA binding @@ -241,5 +199,4 @@ objects: - id: GO:0001680 label: tRNA 3'-terminal CCA addition type: gocam:Object -provenances: [] diff --git a/tests/input/Model-6606056e00002011.yaml b/tests/input/Model-6606056e00002011.yaml index 4b3be1a..66b03e0 100644 --- a/tests/input/Model-6606056e00002011.yaml +++ b/tests/input/Model-6606056e00002011.yaml @@ -7,8 +7,6 @@ activities: - id: gomodel:6606056e00002011/662af8fa00002857 enabled_by: type: EnabledByProteinComplexAssociation - evidence: [] - provenances: [] term: GO:0019815 members: - UniProtKB:P40259 @@ -23,7 +21,6 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7646-0052 date: '2024-05-07' - provenances: [] term: GO:0004888 occurs_in: type: CellularAnatomicalEntityAssociation @@ -33,7 +30,6 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7646-0052 date: '2024-05-07' - provenances: [] term: GO:0005886 part_of: type: BiologicalProcessAssociation @@ -45,21 +41,7 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7646-0052 date: '2024-05-07' - provenances: [] term: GO:0050853 - has_input: - - type: MoleculeAssociation - evidence: - - term: ECO:0000250 - reference: GO_REF:0000024 - with_objects: - - MGI:96892 - provenances: - - contributor: https://orcid.org/0000-0001-7646-0052 - date: '2024-05-07' - provenances: [] - term: UniProtKB:P07948 - has_output: [] causal_associations: - type: CausalAssociation evidence: @@ -70,15 +52,11 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7646-0052 date: '2024-05-07' - provenances: [] predicate: RO:0002629 downstream_activity: gomodel:6606056e00002011/6606056e00002040 - provenances: [] - id: gomodel:6606056e00002011/6606056e00002049 enabled_by: type: EnabledByGeneProductAssociation - evidence: [] - provenances: [] term: UniProtKB:P29350 molecular_function: type: MolecularFunctionAssociation @@ -88,7 +66,6 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7646-0052 date: '2024-04-09' - provenances: [] term: GO:0004725 occurs_in: type: CellularAnatomicalEntityAssociation @@ -98,7 +75,6 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7646-0052 date: '2024-04-09' - provenances: [] term: GO:0005737 part_of: type: BiologicalProcessAssociation @@ -108,17 +84,10 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7646-0052 date: '2024-04-09' - provenances: [] term: GO:0050859 - has_input: [] - has_output: [] - causal_associations: [] - provenances: [] - id: gomodel:6606056e00002011/6606056e00002040 enabled_by: type: EnabledByGeneProductAssociation - evidence: [] - provenances: [] term: UniProtKB:P07948 molecular_function: type: MolecularFunctionAssociation @@ -128,7 +97,6 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7646-0052 date: '2024-04-09' - provenances: [] term: GO:0004713 occurs_in: type: CellularAnatomicalEntityAssociation @@ -138,7 +106,6 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7646-0052 date: '2024-04-09' - provenances: [] term: GO:0005886 part_of: type: BiologicalProcessAssociation @@ -150,21 +117,7 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7646-0052 date: '2024-04-09' - provenances: [] term: GO:0001782 - has_input: - - type: MoleculeAssociation - evidence: - - term: ECO:0000250 - reference: GO_REF:0000024 - with_objects: - - MGI:96892 - provenances: - - contributor: https://orcid.org/0000-0001-7646-0052 - date: '2024-05-07' - provenances: [] - term: UniProtKB:P21854 - has_output: [] causal_associations: - type: CausalAssociation evidence: @@ -173,15 +126,11 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7646-0052 date: '2024-04-09' - provenances: [] predicate: RO:0002629 downstream_activity: gomodel:6606056e00002011/6606056e00002014 - provenances: [] - id: gomodel:6606056e00002011/6606056e00002014 enabled_by: type: EnabledByGeneProductAssociation - evidence: [] - provenances: [] term: UniProtKB:P21854 molecular_function: type: MolecularFunctionAssociation @@ -191,7 +140,6 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7646-0052 date: '2024-04-09' - provenances: [] term: GO:0004888 occurs_in: type: CellularAnatomicalEntityAssociation @@ -201,7 +149,6 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7646-0052 date: '2024-04-09' - provenances: [] term: GO:0005886 part_of: type: BiologicalProcessAssociation @@ -211,10 +158,7 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7646-0052 date: '2024-04-09' - provenances: [] term: GO:0050859 - has_input: [] - has_output: [] causal_associations: - type: CausalAssociation evidence: @@ -223,10 +167,8 @@ activities: provenances: - contributor: https://orcid.org/0000-0001-7646-0052 date: '2024-04-09' - provenances: [] predicate: RO:0002629 downstream_activity: gomodel:6606056e00002011/6606056e00002049 - provenances: [] objects: - id: GO:0005615 label: extracellular space @@ -282,5 +224,4 @@ objects: - id: CHEBI:166824 label: peptide antigen type: gocam:Object -provenances: []