From cc722c19d7ac6a75bb874fdf094b151f76484344 Mon Sep 17 00:00:00 2001 From: Robert Hoehndorf Date: Fri, 31 Jul 2026 19:51:24 +0300 Subject: [PATCH 1/2] uo: update license to CC BY 4.0 and add usages The UO repository's LICENSE.md is CC BY 4.0, but this registry entry still said CC BY 3.0 (and README.md/uo-odk.yaml said CC BY 2.0). The maintainers have settled on CC BY 4.0 and the ontology header now declares dcterms:license https://creativecommons.org/licenses/by/4.0/, so the registry needs to match or the Open check fails on a license mismatch. Also adds a usages block for FP09. The three listed users all demonstrably reference UO terms: OBI, the HUPO-PSI mass spectrometry CV, and STATO. --- ontology/uo.md | 22 ++++++++++++++++++++-- 1 file changed, 20 insertions(+), 2 deletions(-) diff --git a/ontology/uo.md b/ontology/uo.md index 23fd91980..637844c52 100644 --- a/ontology/uo.md +++ b/ontology/uo.md @@ -11,8 +11,8 @@ description: Metrical units for use in conjunction with PATO domain: phenotype homepage: https://github.com/bio-ontology-research-group/unit-ontology license: - label: CC BY 3.0 - url: http://creativecommons.org/licenses/by/3.0/ + label: CC BY 4.0 + url: https://creativecommons.org/licenses/by/4.0/ preferredPrefix: UO products: - id: uo.owl @@ -23,6 +23,24 @@ publications: title: 'The Units Ontology: a tool for integrating units of measurement in science' repository: https://github.com/bio-ontology-research-group/unit-ontology tracker: https://github.com/bio-ontology-research-group/unit-ontology/issues +usages: +- user: http://obi-ontology.org/ + type: ontology + description: The Ontology for Biomedical Investigations (OBI) uses UO terms to specify + the units of measurement values recorded in investigations. +- user: https://www.psidev.info/ + type: ontology + description: The HUPO-PSI mass spectrometry controlled vocabulary (PSI-MS) uses UO + terms as the units of the quantitative terms it defines for the mzML and related + PSI data standards. + publications: + - id: https://www.ncbi.nlm.nih.gov/pubmed/23482073 + title: 'The HUPO proteomics standards initiative- mass spectrometry controlled + vocabulary' +- user: http://stato-ontology.org/ + type: ontology + description: STATO, the statistical methods ontology, uses UO terms to type the units + of the statistical measures and parameters it defines. activity_status: active --- From 16e4d34b6bd553256c0c6393f95ef18854d9ed3b Mon Sep 17 00:00:00 2001 From: Robert Hoehndorf Date: Fri, 31 Jul 2026 19:54:06 +0300 Subject: [PATCH 2/2] Standardize uo.md metadata formatting Run 'python -m obofoundry.standardize_metadata' so the usages block matches the canonical key ordering enforced by TestStandardizedYaml. --- ontology/uo.md | 21 ++++++++------------- 1 file changed, 8 insertions(+), 13 deletions(-) diff --git a/ontology/uo.md b/ontology/uo.md index 637844c52..641aba974 100644 --- a/ontology/uo.md +++ b/ontology/uo.md @@ -24,23 +24,18 @@ publications: repository: https://github.com/bio-ontology-research-group/unit-ontology tracker: https://github.com/bio-ontology-research-group/unit-ontology/issues usages: -- user: http://obi-ontology.org/ +- description: The Ontology for Biomedical Investigations (OBI) uses UO terms to specify the units of measurement values recorded in investigations. type: ontology - description: The Ontology for Biomedical Investigations (OBI) uses UO terms to specify - the units of measurement values recorded in investigations. -- user: https://www.psidev.info/ - type: ontology - description: The HUPO-PSI mass spectrometry controlled vocabulary (PSI-MS) uses UO - terms as the units of the quantitative terms it defines for the mzML and related - PSI data standards. + user: http://obi-ontology.org/ +- description: The HUPO-PSI mass spectrometry controlled vocabulary (PSI-MS) uses UO terms as the units of the quantitative terms it defines for the mzML and related PSI data standards. publications: - id: https://www.ncbi.nlm.nih.gov/pubmed/23482073 - title: 'The HUPO proteomics standards initiative- mass spectrometry controlled - vocabulary' -- user: http://stato-ontology.org/ + title: The HUPO proteomics standards initiative- mass spectrometry controlled vocabulary + type: ontology + user: https://www.psidev.info/ +- description: STATO, the statistical methods ontology, uses UO terms to type the units of the statistical measures and parameters it defines. type: ontology - description: STATO, the statistical methods ontology, uses UO terms to type the units - of the statistical measures and parameters it defines. + user: http://stato-ontology.org/ activity_status: active ---