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

Optitype fails to run silently and does not generate the resulting TSV file #126

Open
b-niu opened this issue Mar 2, 2022 · 0 comments
Open

Comments

@b-niu
Copy link

b-niu commented Mar 2, 2022

Dear author, thank you for such an excellent tool for HLA typing. It has been running normally in my previous work.

Recently I encountered a strange problem. Optitype failed to run on more than half of the WES samples without any error information. BAM and FASTQ files were generated, but there was no TSV result file. Less than half of the samples can get TSV files.

image

The size of a pair of FASTQ files is about 30GB, which are the original input.

The fished FASTQ files are about 180MB.

Memory usage seems to be a big problem on my server, which has 128MB of memory.

image

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