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.

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

reference index file incomplete #40

Closed
MarieLataretu opened this issue Jul 22, 2021 · 1 comment
Closed

reference index file incomplete #40

MarieLataretu opened this issue Jul 22, 2021 · 1 comment
Assignees
@MarieLataretu

Comments

@MarieLataretu
Copy link
Collaborator

e.g. reference = hsa+dcs, but only dcs is indexed
@MarieLataretu MarieLataretu self-assigned this Jul 22, 2021
@MarieLataretu
Copy link
Collaborator Author

It fails because bgzip is apparently not so compatible to gz as claimed, so after the cat (in concat_contamination) samtools faidx does not recognize it a bgzip compressed. Or rather index only the first entry...

MarieLataretu added a commit that referenced this issue Jul 29, 2021
@MarieLataretu
reference index file incomplete
919fb86 
Fixes #40
@MarieLataretu MarieLataretu mentioned this issue Jul 29, 2021
Merged
@hoelzer hoelzer closed this as completed Jul 30, 2021
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees

@MarieLataretu MarieLataretu

Labels
None yet
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
2 participants
@hoelzer @MarieLataretu