Errors not reported by gorule-0000027

[pgaudet]

• FAILS GORULE:0000027 - TEST 6 - Prefix in column 1 ("WormBase") is a synonyms in /db-xrefs.yaml and IS REPAIRED

  WormBase WBGene00000002 aat-1 part_of GO:1990184 PMID:14668347 IPI WB:WBGene00000225 C GORULE_TEST:0000027-6 F27C8.1 gene taxon:6239 20131022 GO_Central

This is correctly repaired (resumably), but there is no message in the report saying that an error was found (and repaired)

• ! FAILS GORULE:0000027 - TEST 7 - bad id syntax: WB needs 8 digits, has only 7

  WB WBGene0000002 aat-1 part_of GO:1990184 WB_REF:WBPaper00006408|PMID:14668347 IPI WB:WBGene00000225 C GORULE_TEST:0000027-7 F27C8.1 gene taxon:6239 20131022 GO_Central

Not detected

• ! SHOULD PASS GORULE:0000027 - TEST 21 - WB_REF should be allowed

  WB WBGene00000002 aat-1 part_of GO:1990184 WB_REF:WBPaper00006408|PMID:14668347 IPI WB:WBGene00000225 C GORULE_TEST:0000027-21 F27C8.1 gene taxon:6239 20131022 GO_Central

WB_REF was missing from the db-refs.yaml last time we looked (2024-07-26). This test should not fail

• ! FAILS GORULE:0000027 - TEST 14 - 'bad with' id syntax - should have 7 digits, has 8

- FB FBgn0020238 14-3-3epsilon involved_in GO:0006401 PMID:16931762 IGI FB:FBgn10004907 P GORULE_TEST:0000027-14 14-3-3epsilon 14-3-3|14-3-3 epsilon|14-3-3 protein epsilon protein taxon:7227 20220606 GO_Central

Incorrect regex is with not picked up, probably because Pascale incorrectly used FLYBASE as namespace in the original test. Test had been updated 2024-08-30, show now behave correctly.

• WARNING - Invalid identifier:GORULE:0000027: FBrf0180198 does not match any id_syntax patterns for FB in dbxrefs--FB FBgn0024811 Crk involved_in GO:0048010 FB:FBrf0180198|PMID:15457211 IMP P GORULE_TEST:0000027-15 Crk oncogene CED-2|CG1587|CRK|D-CRK|D-Crk|DCrk|Dcrk|crk|dCRK|dCrk protein taxon:7227 20180912 GO_Central

Incorrectly picking up FBrf0180198 as not matching ID syntax pattern, but it's compliant with the syntax