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

Re-enable IntelDeflater on Spark #1969

Open
akiezun opened this issue Jul 1, 2016 · 3 comments
Open

Re-enable IntelDeflater on Spark #1969

akiezun opened this issue Jul 1, 2016 · 3 comments
Labels
performance Spark
Milestone
Engine-Q12019

Comments

@akiezun
Copy link
Contributor

akiezun commented Jul 1, 2016

in htsjdk 2.5.0, the deflater factory needs to be set up by hand. Hadoop-BAM needs to be updated to allow this and when it is (HadoopGenomics/Hadoop-BAM#109), gatk should use the API to specify the IntelDeflater
@droazen droazen mentioned this issue Jul 1, 2016
Closed
@droazen droazen added this to the 4.0 release milestone Mar 22, 2017
@droazen
Copy link
Contributor

droazen commented Mar 22, 2017

For @gspowley

@droazen droazen modified the milestones: beta, 4.0 release Mar 22, 2017
@droazen droazen modified the milestones: 4.0 release, beta Apr 3, 2017
@droazen
Copy link
Contributor

droazen commented Oct 17, 2017

@lbergelson might be useful towards #3706

@droazen droazen modified the milestones: Engine-4.0, Engine-4.1 Jan 16, 2018
@droazen droazen modified the milestones: Engine-2Q2018, Engine-Q42018 Oct 4, 2018
@droazen
Copy link
Contributor

droazen commented Oct 15, 2018

This should be done on Disq, once Disq is hooked up to GATK.

@droazen droazen modified the milestones: Engine-Q42018, Engine-Q12019 Feb 4, 2019
@tomwhite tomwhite removed their assignment Oct 28, 2019
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees
No one assigned
Labels
performance Spark
Projects
None yet
Milestone
Engine-Q12019
Development

No branches or pull requests
5 participants
@tomwhite @droazen @akiezun @lbergelson @gspowley