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

Error align local mode_exit type 2 #88

Open
gianmaz opened this issue Dec 3, 2018 · 0 comments
Open

Error align local mode_exit type 2 #88

gianmaz opened this issue Dec 3, 2018 · 0 comments

Comments

@gianmaz
Copy link

gianmaz commented Dec 3, 2018

I run successfully the prep step with my 20 samples (1-2Gb each)

When I run the align step in local mode

rail-rna align local
--gzip-intermediates --gzip-level 9
-x $bowtie_hg38_dir $bowtie2_hg38_dir
-i $prep_dir -m $manifest_file
--log $output_log -o $output_dir
-d tsv,bw,jx -f \

I get the following error:
screen shot 2018-12-03 at 14 34 06

Some of the log files contain this error:
screen shot 2018-12-03 at 14 34 34

PS:
If I keep the default value of gzip then I get the error:
gzip stout no space left on device (while there is still a lot of space available)

Have you ever encountered this issue?
What can be the cause? How can I deal with it?

I attached here a screenshot with the log errors that I got.
screen shot 2018-12-03 at 16 21 08

Thank you in advance.
Best Regards,
Gianluca

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