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

Pydantic model for cbioportal_export incomplete #600

Closed
mbenary opened this issue Jan 30, 2025 · 0 comments · Fixed by #603
Closed

Pydantic model for cbioportal_export incomplete #600

mbenary opened this issue Jan 30, 2025 · 0 comments · Fixed by #603
Assignees
@mbenary
Labels
bug Something isn't working

Comments

@mbenary
Copy link
Contributor

mbenary commented Jan 30, 2025

The pydantic model for cbioportal_export only allows bwa for ngs mapping. This leads to potentially rerunning all snappy workflows.

Expected behavior
The model should also allow for other mapping approaches, like mbcs or bwa_mem2.

Additional context
There might be further model issues along the line.
@mbenary mbenary self-assigned this Jan 30, 2025
@tedil tedil added the bug Something isn't working label Jan 30, 2025
@tedil tedil mentioned this issue Feb 5, 2025
Merged
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees

@mbenary mbenary

Labels
bug Something isn't working
Projects
None yet
Milestone
No milestone
2 participants
@tedil @mbenary