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

GenomicsDB on azure #8438

Merged
merged 1 commit into from
Dec 9, 2023
Merged

GenomicsDB on azure #8438

merged 1 commit into from
Dec 9, 2023

Commits on Dec 8, 2023

  1. Allow GenomicsDBImport to connect to az:// files without interference 

    * GATK's lack of support for az:// uri means that although genomicsdb can
  natively read them, parts of the java code crash when they're passed through
* Adding --avoid-nio and --header parameters
  these allow disabling all of the java codes interaction with the az:// links
  and simply pass them through to genomicsdb
  This disables some safeguards but allows operating on files in azure
* Move GenomicsDB version to released 1.5.1 for azure improved support

* There are no direct tests on azure since we do not yet have any infrastructure
  to generate the necessary tokens

---------

Co-authored-by: Nalini Ganapati <[email protected]>
Co-authored-by: Nalini Ganapati <[email protected]>
    @lbergelson @nalinigans
    3 people committed Dec 8, 2023
    Configuration menu
    Copy the full SHA
    de45517 View commit details
    Browse the repository at this point in the history