diff --git a/.github/workflows/main_test.yaml b/.github/workflows/main_test.yaml index 26af2ce..98ba936 100644 --- a/.github/workflows/main_test.yaml +++ b/.github/workflows/main_test.yaml @@ -25,11 +25,11 @@ jobs: Linting: runs-on: ubuntu-latest steps: - - name: Checkout repository + - name: Checkout repository with submodules uses: actions/checkout@v4 - # with: - # submodules: 'recursive' # Ensures all submodules are checked out - # lfs: true # Ensures LFS objects for the main repo are pulled + with: + submodules: 'recursive' # Ensures all submodules are checked out + lfs: true # Ensures LFS objects for the main repo are pulled - name: Pull LFS objects in submodules run: | @@ -261,6 +261,7 @@ jobs: - Formatting - Linting - Testing-basic + - Testing-basic-with-slurm steps: - name: Checkout repository with submodules and LFS uses: actions/checkout@v4 @@ -298,6 +299,7 @@ jobs: - Formatting - Linting - Testing-basic + - Testing-basic-with-slurm steps: - name: Checkout repository with submodules and LFS uses: actions/checkout@v4 @@ -335,6 +337,7 @@ jobs: - Formatting - Linting - Testing-basic + - Testing-basic-with-slurm steps: - name: Checkout repository with submodules and LFS uses: actions/checkout@v4 diff --git a/config/config.yaml b/config/config.yaml index b590a41..0497c4d 100644 --- a/config/config.yaml +++ b/config/config.yaml @@ -14,7 +14,7 @@ samples_to_process: [] # -------------------------------------------------------- # Absolute path to the data location (modify as needed) -data_location: "" +data_location: ".tests/data_CHR17" # Directory to publish important data (e.g., stats, plots, counts). Leave empty if not required. publishdir: ""