Hello,
I am facing infinite runtime when using Augustus 3.3 within our BUSCO tool (https://gitlab.com/ezlab/busco/).
When it is stuck, I have this in the logs:
# Predicted genes for sequence number 1 on both strands
replaced tx with 0 MEA txs
while with 3.2.1 it starts producing output normally, and the run lasts for a few seconds.
# Predicted genes for sequence number 1 on both strands
# start gene g1
NT_033779.5 AUGUSTUS gene 21573855 21577103 0.12 + . g1
The command used is augustus --codingseq=1 --proteinprofile=metazoa_odb9/prfl/EOG091G08VB.prfl --predictionStart=21573855 --predictionEnd=21595101 --species=fly ./tmp/NT_033779.5v3_4200603825_.temp
If needed, I can provide more details, just tell me what.
Thanks
Mathieu
Augustus 3.3 stuck run
Moderator: bioinf
Re: Augustus 3.3 stuck run
Hi Mathieu,
this is an issue that Mario accidentally put into the latest AUGUSTUS release. It has actually been fixed (internally). Please contact me via e-mail in case you need the fixed version. It is not a functional issue, though. It just causes a big output to stderr. katharina dot hoff at uni-greifswald dot de
Katharina
this is an issue that Mario accidentally put into the latest AUGUSTUS release. It has actually been fixed (internally). Please contact me via e-mail in case you need the fixed version. It is not a functional issue, though. It just causes a big output to stderr. katharina dot hoff at uni-greifswald dot de
Katharina