[maker-devel] Troubleshooting Maker failure

[Kevin Kocot]

Hi Carson and all,

I ran Maker 3.01.03 on a chromosome-level mollusc genome assembly using some evidence I previously generated with Funannotate and BRAKER2, but Maker is not completing successfully. Every scaffold in the datastore_index.log file has both STARTED and FAILED statuses. I can't figure out where the problem lies, though. Running ./Build status indicates all the dependencies are there (I'm not using MPI). The run.log files just ends with "DIED RANK 0" and "DIED COUNT 3." Is there a way to tell which (if any) of the dependencies is misbehaving here (they all seem to run fine independently) or if my evidence .gff3 files are not correctly formatted?

I've uploaded a zipped sample output folder as well as my config files and the datastore.log file here: http://genomes.ua.edu/Kocot/2021-09-10_Maker/

Any guidance on what might be the issue would be greatly appreciated.

Thanks!
Kevin

Kevin M. Kocot
he/him/his
Associate Professor & Curator of Invertebrates
Department of Biological Sciences & Alabama Museum of Natural History
The University of Alabama<https://www.ua.edu/>
307 Mary Harmon Bryant Hall
Box 870344
Tuscaloosa, AL 35487
phone 205-348-4052<tel:205-348-4052> | fax 205-348-4039
kmkocot at ua.edu<mailto:kmkocot at ua.edu> | www.kocotlab.com<http://www.kocotlab.com/>
https://uasystem.zoom.us/j/3755490727

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