diff --git a/.github/workflows/python-testing.yml b/.github/workflows/python-testing.yml index 51e25caf..b6d1c180 100644 --- a/.github/workflows/python-testing.yml +++ b/.github/workflows/python-testing.yml @@ -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 diff --git a/hippunfold/config/snakebids.yml b/hippunfold/config/snakebids.yml index 60864191..00c70494 100644 --- a/hippunfold/config/snakebids.yml +++ b/hippunfold/config/snakebids.yml @@ -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