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

Force creation of .snakebids file #192

Merged
merged 4 commits into from
Jun 3, 2022
Merged

Force creation of .snakebids file #192

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
4 commits
Select commit Hold shift + click to select a range
3370323
Force creation of .snakebids file
akhanf Jun 3, 2022
39fa8b6
Add force to config
akhanf Jun 3, 2022
db61e6e
Revert prev change to run.py
akhanf Jun 3, 2022
2be1780
Adds a test case
akhanf Jun 3, 2022
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
4 changes: 4 additions & 0 deletions .github/workflows/python-testing.yml
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -122,6 +122,10 @@ jobs:
- name: Test single T2w bids
run: |
poetry run hippunfold test_data/bids_singleT2w test_out participant -np --modality T2w
- name: Test running on existing folder
run: |
mkdir test_newout
poetry run hippunfold test_data/bids_singleT2w test_newout participant -np --modality T2w
- name: Test single T2w bids, right hemi
run: |
poetry run hippunfold test_data/bids_singleT2w test_out participant -np --modality T2w --hemi R
Expand Down
2 changes: 2 additions & 0 deletions hippunfold/config/snakebids.yml
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,6 +1,8 @@
bids_dir: '../test_data/bids_singleT2w'
output_dir: 'test_output' #don't use '.'

force: True

#snakemake_dir: '.' #do not modify this variable -- is used to refer to files needed by the workflow when running with CLI

#enable printing debug statements during parsing -- disable if generating dag visualization
Expand Down