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

Add MAF write support to htsjdk #3280

Closed
droazen opened this issue Jul 17, 2017 · 2 comments
Closed

Add MAF write support to htsjdk #3280

droazen opened this issue Jul 17, 2017 · 2 comments
Assignees
@jonn-smith
Labels
Engine Funcotator HTSJDK
Milestone
Engine-2Q2018

Comments

@droazen
Copy link
Collaborator

droazen commented Jul 17, 2017

Needed by Oncotator
@droazen droazen added this to the Engine-4.0 milestone Jul 17, 2017
@magicDGS
Copy link
Contributor

If this will be implemented as a tribble codec, it may be worthy to check the general writing support for tribble that I've submit to htsjdk: samtools/htsjdk#822

@jonn-smith jonn-smith changed the title Add MAF support (both read and write) to htsjdk Add MAF write support to htsjdk Oct 17, 2017
@jonn-smith jonn-smith modified the milestones: Engine-4.0, Engine-4.1 Jan 11, 2018
@jonn-smith
Copy link
Collaborator

This issue has been addressed by creating a MafOutputRenderer as part of Funcotator.

While not part of htsjdk, the required MAF output functionality is satisfied.

Fixed in #4472

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

@jonn-smith jonn-smith

Labels
Engine Funcotator HTSJDK
Projects
None yet
Milestone
Engine-2Q2018
Development

No branches or pull requests
3 participants
@droazen @magicDGS @jonn-smith