Robert Hubley
Robert Hubley
Something appears to be wrong with your input to calcDivergenceFromAlign.pl. Kimura divergences should not be negative. Do you mind sharing your alignment data so that I can try to reproduce...
Closing this for now. Please let me know if you continue to have problems.
I would understand placing the unaligned bases in the MSA if this was a global alignment, however with a local alignment wouldn't those simply be omitted from the output? What...
Can you share your part_1.fa.cat.gz file with me?
Ok...this exercises a bug in ProcessRepeats that is pretty rare. I have fixed the problem and it will make it into the next release due out in a few days....
Well, that looks good. Without access to your sequence and library it's hard to reproduce these alignments. My suggestion is to use the latest version of RepeatMasker ( 4.1.7-p1 ),...
I am closing this for now. Please let me know if you have any further problems.
We use clusters at UCSC, Texas Tech and Univ of Arizona and I haven't seen an issue with batch overhead, but perhaps your cluster has some restrictive quotas that are...
That's exactly what it's meant to do. We regularly run it on 100's of nodes. There is an option "--cluster" that currently accepts either "local" or one of several cluster...
This depends on your cluster's architecture. Most often the individual compute nodes have hard drive (or SSD) attached. The administrator may have decided not to make that accessible to jobs...