-
Notifications
You must be signed in to change notification settings - Fork 5
New issue
Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.
By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.
Already on GitHub? Sign in to your account
rnaseq_collapse:Perhaps the program crashes due to excessive thread usage #40
Comments
its a lot of threads but it that shouldnt crash anything by itself... Can you provide the contents of the ./temp/41/720134 workdir? |
The file has been deleted. After reducing the input file to a pair of sequences, I still encountered similar errors. Caused by: Command executed: njobs= ll 03/b488e2 ll ee/72b6e2
149960 10:23 .command.err |
python3 data/egapx/ui/egapx.py data/input_D_farinae_small.local4.yaml -e docker -w ./temp -o egapx_out
[- ] process > export - [ae/0765b8] NOTE: Process
egapx:rnaseq_short_plane:rnaseq_collapse:run_rnaseq_collapse (6)
terminated with an error exit status (3) -- Execution is retried (3)[41/720134] NOTE: Process
egapx:rnaseq_short_plane:rnaseq_collapse:run_rnaseq_collapse (5)
terminated with an error exit status (3) -- Execution is retried (3) [6d/b77983] NOTE: Processegapx:rnaseq_short_plane:rnaseq_collapse:run_rnaseq_collapse (7)
terminated with an error exit status (3) -- Execution is retried (3)[66/59923f] NOTE: Process
egapx:rnaseq_short_plane:rnaseq_collapse:run_rnaseq_collapse (4)
terminated with an error exit status (3) -- Execution is retried (2)[10/c33777] NOTE: Process
egapx:rnaseq_short_plane:rnaseq_collapse:run_rnaseq_collapse (1)
terminated with an error exit status (3) -- Execution is retried (3)[54/5d8c25] NOTE: Process
egapx:rnaseq_short_plane:rnaseq_collapse:run_rnaseq_collapse (9)
terminated with an error exit status (3) -- Execution is retried (3)ERROR ~ Error executing process > 'egapx:rnaseq_short_plane:rnaseq_collapse:run_rnaseq_collapse (10)'
Caused by:
Process
egapx:rnaseq_short_plane:rnaseq_collapse:run_rnaseq_collapse (10)
terminated with an error exit status (3)Command executed:
njobs=
wc -l <job.009
if [ $njobs -lt 16 ]; then
threads=$njobs
else
threads=16
fi
The text was updated successfully, but these errors were encountered: