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

add full FastQC output to toil-rnaseq #404

Closed
Jeltje opened this issue Aug 9, 2016 · 4 comments
Closed

add full FastQC output to toil-rnaseq #404

Jeltje opened this issue Aug 9, 2016 · 4 comments
Assignees
@jvivian

Comments

@Jeltje
Copy link
Contributor

Jeltje commented Aug 9, 2016

Currently, fastqc: true results in a single HTML file per input fastq. However, we're working on a cohort QC pipeline that uses both the fastqc_data.txt file and the separate .png image files for each sample. Can these be added to the tar file?
@jvivian
Copy link
Collaborator

jvivian commented Aug 9, 2016

FastQC only has options for saving output as a zip — that ok?

@Jeltje
Copy link
Contributor Author

Jeltje commented Aug 9, 2016

Sure!

@jvivian
Copy link
Collaborator

jvivian commented Aug 9, 2016

@Jeltje — I'm guessing you need this as part of the 2.0.x release?

@Jeltje
Copy link
Contributor Author

Jeltje commented Aug 9, 2016

@jvivian Yes, because the first batch we plan to run is for CKCC and they care.

fnothaft added a commit that referenced this issue Aug 9, 2016
@fnothaft
Merge pull request #407 from /issues/404-add-full-fastqc-output
97a7ed9 
Add fastqc zip to output (resolves #404)
@jpfeil jpfeil removed the in progress label Aug 9, 2016
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees

@jvivian jvivian

Labels
None yet
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
3 participants
@Jeltje @jvivian @jpfeil