Skip to content

fix(qpx): emit dataset as qpx_output/* files instead of a directory #39

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

Merged
ypriverol merged 1 commit into from
Jun 2, 2026
Merged

fix(qpx): emit dataset as qpx_output/* files instead of a directory #39

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
1 commit
Select commit
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
2 changes: 1 addition & 1 deletion modules/bigbio/qpx/main.nf
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -16,7 +16,7 @@ process QPX_EXPORT {
val(project_accession)

output:
path "qpx_output/" , emit: qpx_dataset
path "qpx_output/*", emit: qpx_dataset
path "*.h5mu" , emit: mudata
path "versions.yml", emit: versions

Expand Down
8 changes: 4 additions & 4 deletions modules/bigbio/qpx/meta.yml
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -41,10 +41,10 @@ input:
description: PRIDE project accession (e.g. PXD026600) used as output prefix
output:
qpx_dataset:
- "qpx_output/":
type: directory
description: QPX Parquet dataset directory
pattern: "qpx_output/"
- "qpx_output/*":
type: file
description: QPX Parquet dataset files
pattern: "qpx_output/*"
mudata:
- "*.h5mu":
type: file
Expand Down
Loading