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pombase / pombase-chado

PomBase code for accessing Chado
MIT License
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Wild type alleles not merging for sdr1+ SPCC417.09c #1242

Closed kimrutherford closed 1 day ago

kimrutherford commented 3 days ago 
Check for two or more alleles with the same name - CHECK FAILURE:  expected 0 but got 4
name    uniquename  description allele_type canto_session

  sdr1+ SPCC417.09c:allele-2    wild type   wild_type   
  sdr1+ SPCC417.09c:allele-3    wild type   wild_type   78e9527109bc9ba8
kimrutherford commented 3 days ago

It looks like the problem is that the allele is named "SPCC417.09c+" in the session and in external_data/phaf_files/chado_load/ltp_phafs/PMID_23695302_phaf.tsv instead of "sdr1+" and the loading code isn't fixing it before trying to merge alleles. I've put in a fix. I'll check on Saturday morning.

image

https://curation.pombase.org/pombe/curs/78e9527109bc9ba8/genotype_manage/ro

kimrutherford commented 2 days ago

I've put in a fix. I'll check on Saturday morning.

I did a test load on my desktop. The fix didn't work so I'll look at the problem again next week.

kimrutherford commented 1 day ago

I did a test load on my desktop. The fix didn't work so I'll look at the problem again next week.

I had some dodgy local changes in my desktop version. The fix worked in the main nightly load on Friday night.