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.

Sign up for GitHub

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

Jump to bottom

if chunking VCF, check bam is indexed #44

Open

martinghunt opened this issue May 10, 2018 · 0 comments

Member

martinghunt commented May 10, 2018

For chunking, need the bam to be indexed because we're pulling out regions of the bam file. Add check that:

reads file is a BAM file
reads file is indexed (.bai file exists). If not, then make it.

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment