mugitty
mugitty
@kltm , I did not realized that we wanted a flag to determine if the test should be run. So, it would only be in ontobio-parse-assocs.py as a parameter? For...
@kltm, @pgaudet confirmed that this was the feature request
@kltm, If the rule is valid, then we need to ensure it is implemented correctly and @pgaudet will add tests. When I discussed with @dustine32, he indicated that the rule...
I know how to remove the rule so that it does not appear in the reports. @pgaudet has deprecated the rule, however @kltm may want to keep it. I am...
#https://github.com/biolink/ontobio/pull/667
I used @cmungall's example and was able to reproduce. The parser is doing a lookup and defaulting to gene_product (as given in the specs). Currently, there is an entry for...
Thanks @pgaudet , I will update to use this list and output a warning, if defaulting to gene_product.
@kltm, @pgaudet's wants to only use the terms in the attachment. All others will default to gene_product with gorule-0000001 warning. Based on the number of warnings, the list may be...
@pgaudet , I noticed a test for MGI that was failing with the proposed code update. For example, if there is a GAF line as follows: gaf = ["MGI", "MGI:1923503",...
@pgaudet, do you still want me to output the types for each file or is @kltm 's output good enough for now?