I thought I'd broken AIP, but I no longer think that's the case (sigh of relief) - AIP reports suddenly contain no variants, and I've tracked this down to the pedigree being by target.write_ped_file suddenly marking all participant phenotypes as missing (0)
In addition the current data has lost all family structure, and the family ID is coming through as the external ID instead of the internal numeric ID which was previously the case. I'm guessing this issue has probably arisen on the Metamist side
MattWellie
commented
1 month ago
I thought I'd broken AIP, but I no longer think that's the case (sigh of relief) - AIP reports suddenly contain no variants, and I've tracked this down to the pedigree being by
target.write_ped_filesuddenly marking all participant phenotypes as missing (0)In addition the current data has lost all family structure, and the family ID is coming through as the external ID instead of the internal numeric ID which was previously the case. I'm guessing this issue has probably arisen on the Metamist side