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.

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

Sanity-check the sample names before committing to any data processing #1349

Open
fruce-ki opened this issue Aug 2, 2024 · 0 comments
Open

Comments

@fruce-ki
Copy link

fruce-ki commented Aug 2, 2024

Description of feature

I propose that sample names should be checked for validity at the beginning of the run. The aim would be to look for common character errors that are not accepted in filenames by some of the tools, such as whitespaces, and give the user the chance to fix them before beginning any of the data work.

I just had a run crash (v3.14.0) after a whole week of processing, because picard was not ok with a space in the middle of some filenames. I do visually inspect the samplesheet metadata I receive, but things can be missed and finding out only so late in the run is very inefficient.

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Projects
None yet
Development

No branches or pull requests

1 participant