I am running OMA standalone in a large set of transcriptomes. It finished the all-all stage and is now computing orthologs for a couple of days. I noticed it started writing a warning in the error file:
WARNING: took too long (>1200 sec) to find clusters for |G|=(1670,35696) on LUCA level. Going on on lower levels
There are several entries of this same line or variations with a long string of my species names instead of LUCA. Does anyone know what is going on?
Thank you. Best, Tauana