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

Medaka #361

Closed
2 tasks
laraPPr opened this issue Jul 4, 2024 · 4 comments
Closed
2 tasks

Medaka #361

laraPPr opened this issue Jul 4, 2024 · 4 comments
Assignees
@PetrKralCZ
Labels
difficulty: easy software that should be easy to support GPU priority: medium Python site:ugent Software installation request for UGent Tier-2 update

Comments

@laraPPr
Copy link
Collaborator

laraPPr commented Jul 4, 2024 •
edited by pavelToman
Loading

  • link to support ticket: 2024070360000842
  • website: https://github.com/nanoporetech/medaka
  • installation docs: https://github.com/nanoporetech/medaka
  • toolchain: foss/2023b
  • toolchain: foss/2023a
  • easyblock to use: PythonBundle
  • required dependencies:
    • [ ]
  • optional dependencies:
    • Flye
    • Dorado
  • notes:
    • ...
  • effort: (TBD)
  • other install methods
    • conda: yes (link?) / no
    • container image: yes (link?) / no
    • pre-built binaries (RHEL8 Linux x86_64): yes (link?) / no
    • easyconfig outside EasyBuild: yes / no
@laraPPr laraPPr added difficulty: easy software that should be easy to support priority: medium Python update site:ugent Software installation request for UGent Tier-2 GPU easyconfig Easyconfig is available and removed easyconfig Easyconfig is available labels Jul 4, 2024
@laraPPr laraPPr mentioned this issue Jul 4, 2024
Closed
3 tasks
@boegel
Copy link
Contributor

boegel commented Jul 4, 2024 •
edited
Loading

duplicate of #352, see PR for CPU-only version:

GPU variant requires:

@pavelToman
Copy link
Collaborator

#362, #361 and #360 need to be compatible because the user wants to use them together

@pavelToman pavelToman mentioned this issue Jul 11, 2024
Closed
3 tasks
@PetrKralCZ PetrKralCZ self-assigned this Jul 24, 2024
@pavelToman
Copy link
Collaborator

After meeting 2/8/24 -> stick to foss/2023a not 2023b

@boegel
Copy link
Contributor

boegel commented Aug 21, 2024

PR for medaka 1.12.0 with CUDA was opened by @PetrKralCZ, and is merged:

I've also opened PRs for the latest medaka 1.12.1, which were trivial updates:

Ready for cleanup & closing!

@boegel boegel mentioned this issue Aug 21, 2024
Closed
2 tasks
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees

@PetrKralCZ PetrKralCZ

Labels
difficulty: easy software that should be easy to support GPU priority: medium Python site:ugent Software installation request for UGent Tier-2 update
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
4 participants
@boegel @PetrKralCZ @laraPPr @pavelToman