Merge branch 'master' into issue-2210-fix-panther-id-syntax

geneontology · Jul 19, 2024 · a1e78f7 · a1e78f7
2 parents cb97976 + f6310a3
commit a1e78f7
Show file tree

Hide file tree

Showing 6 changed files with 15,878 additions and 14,821 deletions.
diff --git a/docs/gorules_test_errors.gaf b/docs/gorules_test_errors.gaf
@@ -1,7 +1,8 @@
 !gaf-version: 2.2															
 !generated-by: GOC															
-!date-generated: 2023-11-09															
-! Dummy GAF file containing deliberate errors to test that GO rules are correctly implemented. 															
+!date-generated: 2024-07-14
+! Dummy GAF file containing deliberate errors to test that GO rules are correctly implemented. 	
+! Should be equivalent to https://github.com/geneontology/go-site/blob/master/docs/gorules_test_errors.gpad when the rule applies.													
 ! FAILS GORULE:0000001 - empty col1 and col2															
 		ypf1	is_active_in	GO:0005634	GO_REF:0000024	ISO	SGD:S000001583	C	GORULE:0000001-1 intramembrane aspartyl protease of the perinuclear ER membrane Ypf1 (predicted)	ppp81	protein	taxon:4896	20150305	PomBase	
 ! FAILS GORULE:0000001 - No gene symbol (Column 3)															
@@ -197,7 +198,7 @@ UniProtKB	F1N2N9	ODAD1	part_of	GO:0120228	PMID:34715025	ISO	UniProtKB:F1N2N9	C	G
 ! FAILS GORULE:0000050 - TEST 3 - self-referential ISA annotations 															
 UniProtKB	F1N2N9	ODAD1	part_of	GO:0120228	PMID:34715025	ISA	UniProtKB:F1N2N9	C	GORULE_TEST:0000050-3 Outer dynein arm-docking complex subunit 1	ODAD1|CCDC114	protein	taxon:9913	20220422	GO_Central	
 ! SHOULD PASS GORULE:0000051 - Pass RULE 51 - Annotation extension for certain GO terms - protein binding; GO:0005515															
-UniProtKB	O76187	darA	enables	GO:0005515	PMID:9802899	IPI	UniProtKB:P34149	F	GORULE_TEST:0000051-PASS1 Darlin	darA	protein	taxon:44689	20100205	GO_Central	has_input(GO:0003674)|occurs_in(CL:123456)
+UniProtKB	O76187	darA	enables	GO:0005515	PMID:9802899	IPI	UniProtKB:P34149	F	GORULE_TEST:0000051-PASS1 Darlin	darA	protein	taxon:44689	20100205	GO_Central	has_input(GO:0003674)|occurs_in(CL:1234567)
 ! FAILS GORULE:0000051 - TEST 1 - also fails GORULE:0000008 - Annotation extension is required for certain terms - binding GO:0005488 															
 UniProtKB	O76187	darA	enables	GO:0005488	PMID:9802899	IPI	UniProtKB:P34149	F	GORULE_TEST:0000051-1 Darlin	darA	protein	taxon:44689	20100205	GO_Central	
 ! FAILS GORULE:0000055 - TEST 1 - Two references in the same ID space - PMID