diff --git a/.github/workflows/python.yaml b/.github/workflows/python.yaml index df3b31ac..ec8124bc 100644 --- a/.github/workflows/python.yaml +++ b/.github/workflows/python.yaml @@ -19,8 +19,7 @@ jobs: runs-on: ${{ matrix.os }} env: - ECAT_TEST_FOLDER: "OpenNeuroPET-Phantoms/sourcedata/SiemensHRRT-JHU" - REAL_TEST_ECAT_PATH: Hoffman.v + REAL_ECAT_TEST_PATH: ${{ github.workspace }}/OpenNeuroPET-Phantoms/sourcedata/SiemensHRRT-JHU/Hoffman.v SMALLER_ECAT_PATH: ${{ github.workspace }}/ecat_validation/ECAT7_multiframe.v.gz TEST_ECAT_PATH: ${{ github.workspace }}/ecat_validation/ECAT7_multiframe.v OUTPUT_NIFTI_PATH: ${{ github.workspace}}/pypet2bids/tests/ECAT7_multiframe.nii @@ -73,7 +72,7 @@ jobs: - name: Test CLI Ecat Dump run: | cd pypet2bids/ - poetry run python3 -m pypet2bids.ecat_cli ../${{ env.ECAT_TEST_FOLDER}}/${{ env.REAL_TEST_ECAT_PATH }} --dump + poetry run python3 -m pypet2bids.ecat_cli ${{ env.REAL_TEST_ECAT_PATH }} --dump # the larger real data file uses too much ram for the github runner, we use the small file for # heavy io operations instead