Open joannarifkin opened 1 month ago
oushujun
commented
1 month ago Yeah I noticed the exceptional time it may take for this step in the new version. i am still adjusting it to balance speed and accuracy. You may want to request for longer walltime for large genomes for now. Sorry for the incovenience.
Shujun
joannarifkin
commented
1 month ago Thanks!
Do you think I can run the new version of panEDTA on all my old EDTA runs? I know the old version isn't as sensitive as the new one, but it did finish, and our results were interesting. Or will I run into the same problem when it reannotates?
Cheers,
Joanna
On Tue, May 14, 2024 at 12:26 PM Shujun Ou @.***> wrote:
Yeah I noticed the exceptional time it may take for this step in the new version. i am still adjusting it to balance speed and accuracy. You may want to request for longer walltime for large genomes for now. Sorry for the incovenience.
Shujun
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-- Joanna Rifkin PhD they/them Computational biologist
Hi Shujun,
I'm trying to wrap up some work on the Hesperis matronalis genome and am having a problem with panEDTA - it keeps timing out. I've cranked up the RAM to a terabyte and it still just runs out the 2 week job - this is the latest set of error logs.
I just started a new job to run only the H. matronalis genome so I can incorporate it into panEDTA later - all the other genomes so far have annotated fine, it just gets stuck on this big one. But is there something I'm missing here?
Thank you!
Joanna
panEDTA-7128863-4294967294.log panEDTA_error-7128863-4294967294.log