Missing line in SGD output GAF file

[pgaudet]

Hello,

On today's QC call we noticed that this line:

SGD S000000892 TRP2 GO:0005950 PMID:3881257 IPI C Anthranilate synthase YER090W|anthranilate synthase TRP2 gene taxon:559292 20050126 SGD

is present in the sgd-src-gaf file but NOT in the sgd_valid.gaf file.

One observation is that this line fails gorule-0000018 but we don't know whether there is any causal link.

@dougli1sqrd Do you know what happened to this annotation?

@kltm

Thanks, Pascale

[kltm]

To reiterate, for the given GAF line in the input sgd-src.gaf:
SGD S000000892 TRP2 GO:0005950 PMID:3881257 IPI C Anthranilate synthase YER090W|anthranilate synthase TRP2 gene taxon:559292 20050126 SGD
It is expected that this should have a corresponding output in sgd_valid.gaf. There is confusion in that GO rule 0000018 is interpreted as a warning, so should not have filtered the rule.

This item is meant to trace the exact "removal" of this line.

[dougli1sqrd]

I found the culprit. This is being filtered by mistake. The work will continue along this ticket: biolink/ontobio#329. This is an easy fix, and will be corrected shortly.