eead-csic-compbio

Hi @guignonv , many thanks for taking the time to write this! As you can see your commits currently conflict with my proposed solution, which involved creating a new subroutine...

> I need time to process those changes. However, regarding your comment 2. ("names are not conserved"), I can say that I also noticed the same problem in the genomes...

Hi @Pirxtrurl , your error message seems to come from this line: https://github.com/eead-csic-compbio/get_homologues/blob/5ecfd035dddb9157b396324097bd268eab60d6cb/lib/marfil_homology.pm#L2795 The comments in that part of the code indicate that sometimes disk latency might cause trouble as...

If you don't mind sharing your input .gbk files I can try and run it here and see how taht goes, it is still possible that some code needs fixing,...

Sure

Available RAM for this job was 32GB

Using only a quarter of the reads I got a coverage of 33x, please see http://genomescope.org/genomescope2.0/analysis.php?code=VqzczOczSTg55wiOzlTR

> That doesn't look a reasonable estimate, there is no peak for non-noise k-mers, genomescope's fit is very poor. I wouldn't trust any of those estimates. Based on #2309 this...