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

The terra-jupyter-gatk image is not compatible with GATK #464

Open
droazen opened this issue Oct 24, 2023 · 0 comments
Open

The terra-jupyter-gatk image is not compatible with GATK #464

droazen opened this issue Oct 24, 2023 · 0 comments

Comments

@droazen
Copy link

droazen commented Oct 24, 2023 •
edited
Loading

The Python environment in the latest terra-jupyter-gatk image is not compatible with most of the Python-based GATK tools, which is causing problems for downstream GATK users and Terra/GATK workshop attendees.

Would it be possible to make older images available as an option?

The official GATK conda environment, reflecting current tool requirements, is here: https://github.com/broadinstitute/gatk/blob/master/scripts/gatkcondaenv.yml.template
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees
No one assigned
Labels
None yet
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
1 participant
@droazen