[maker-devel] Further split genome questions

[Jeanne Wilbrandt]

Hi Carson, 

I ran into more conspicuous behavior running maker 2.31 on a genome which is split into
20 parts, using the -g flag and the same basename.
Most of the jobs ran simultaneously on the same node, 17 seemed to finish normally, while
the remaining three seemed to be stalled and produced 0B of output. Do you have any
suggestion why this is happening?

After I stopped these stalled jobs, I checked the index.log and found that of 38.384
mentioned scaffolds, 154 appear only once in the log. The surprise is, that 2/3 of these
only appear as FINISHED (the rest only started). There are no models for these 'finished'
scaffolds stored in the .db and they are distributed over all parts of the genome (i.e.,
each of the 20 jobs contained scaffolds that 'did not start' but 'finished')
Should this be an issue of concern?
It might be a NFS lock problem, as NFS is heavily loaded, but the NFS files look good, so
we suspect something fishy going on...

Hope you can help,
best wishes,
Jeanne Wilbrandt

zmb // ZFMK // University of Bonn