Skip to content
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

Segmentation fault error #14

Closed
ikkaku1005 opened this issue Apr 3, 2023 · 1 comment
Closed

Segmentation fault error #14

ikkaku1005 opened this issue Apr 3, 2023 · 1 comment

Comments

@ikkaku1005
Copy link

ikkaku1005 commented Apr 3, 2023

Hello,
I installed bamaddrg by conda and followed the usage guildline: bamaddrg [-b FILE [-s NAME [-r GROUP]]] > output.bam

I use SLRUM job to submit the work.

I already test 50G, 100G, 600G RAM and 30 and 60 cores, but it is still showing the following wrong message.

Here is the wrong message:

could not open input BAM files
/var/spool/slurmd/job01309/slurm_script: line 26: 3413432 Segmentation fault      (core dumped) bamaddrg -b ...

I check the StackOverflow and followed the first solution code, but it is still not working. Can anyone help me to solve this issue? Thanks!

@ikkaku1005
Copy link
Author

ikkaku1005 commented Apr 12, 2023

It looks like it can not read the variable ("${}") in the directory. It was solved when I used the full path.

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

No branches or pull requests

1 participant