From fc050fe805d696c31de346196a5ca43d66387e49 Mon Sep 17 00:00:00 2001 From: Anushya Muruganujan Date: Mon, 16 Dec 2024 13:42:03 -0800 Subject: [PATCH 1/2] For #2392, geneontology/pipeline#408 --- metadata/rules/gorule-0000065.md | 2 +- pipeline/requirements.txt | 2 +- 2 files changed, 2 insertions(+), 2 deletions(-) diff --git a/metadata/rules/gorule-0000065.md b/metadata/rules/gorule-0000065.md index 8eb8a1eb..f202a779 100644 --- a/metadata/rules/gorule-0000065.md +++ b/metadata/rules/gorule-0000065.md @@ -4,7 +4,7 @@ id: GORULE:0000065 title: "Annotations to term that are candidates for obsoletion should be removed" type: report fail_mode: soft -status: approved +status: implemented contact: "go-quality@lists.stanford.edu" implementations: - language: python diff --git a/pipeline/requirements.txt b/pipeline/requirements.txt index fd6f11f4..b717e52d 100644 --- a/pipeline/requirements.txt +++ b/pipeline/requirements.txt @@ -1,5 +1,5 @@ PyYAML -ontobio==2.9.11 +ontobio==2.9.12 click pyparsing==2.4.7 antlr4-python3-runtime==4.9.3 From 3e52864e160c7c3e0cceabbeda82ae89fc75d7d2 Mon Sep 17 00:00:00 2001 From: mugitty Date: Mon, 16 Dec 2024 21:42:24 +0000 Subject: [PATCH 2/2] refreshing rules README.md file --- metadata/rules/README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/metadata/rules/README.md b/metadata/rules/README.md index 1a121d2a..217210c1 100644 --- a/metadata/rules/README.md +++ b/metadata/rules/README.md @@ -1094,7 +1094,7 @@ If an annotation has GO_REF:0000118 (GAF column 6, GPAD column 5) and the taxon ## Annotations to term that are candidates for obsoletion should be removed * id: [GORULE:0000065](https://github.com/geneontology/go-site/blob/master/metadata/rules/gorule-0000065.md) - * status: approved + * status: implemented Terms scheduled for obsoletion are identified by the subset gocheck_obsoletion_candidate.