diff --git a/metadata/rules/gorule-0000020.md b/metadata/rules/gorule-0000020.md index fc2accff..87dce88f 100644 --- a/metadata/rules/gorule-0000020.md +++ b/metadata/rules/gorule-0000020.md @@ -16,8 +16,11 @@ examples: input: "FB FBgn0033449 CG1663 GO:1902361 FB:FBrf0202953|GO_REF:0000024 ISS UniProtKB:Q05516 F protein taxon:7227 20171127 FlyBase" output: "FB FBgn0033449 CG1663 GO:0006850 FB:FBrf0202953|GO_REF:0000024 ISS UniProtKB:Q05516 F protein taxon:7227 20171127 FlyBase" --- -There should be no annotations to obsolete terms or to an alternate ID. Obsolete terms that have a `replaced_by` tag and -terms annotated to one of their alternative IDs (merged terms; `alt_id` in the .obo files) will automatically be repaired to the valid term id. +There should be no annotations to obsolete terms or to an alternate ID (Column 5 of GAF, Column 4 of GPAD). As well, GO terms present in annotations also should be repaired if possible: +* with/from: Column 8 of GAF, Column 7 of GPAD +* extensions, Column 16 of GAF, Column 11 of GPAD + +Obsolete terms that have a `replaced_by` tag and terms annotated to one of their alternative IDs (merged terms; `alt_id` in the .obo files) will automatically be repaired to the valid term id. If no replacement is found, the annotation will be filtered. -Other GO terms present in annotations (with/from column, etc) also should be repaired if possible. +