Add CI as a of project template

snakebids/project_template/copier.yaml

@@ -65,7 +65,7 @@ bids_version:
   when: false
 
 python_version:
-  default: ">=3.8,<4.0"
+  default: ">=3.11,<4.0"
   when: false
 
 snakebids_version:

snakebids/project_template/{% if build_system == 'poetry' %}.github{% endif %}/workflows/python-testing.yaml.jinja

@@ -0,0 +1,61 @@
+---
+# This workflow will install Python dependencies, run tests and lint with a variety of Python versions
+# For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions
+
+name: Lint and test workflow
+on:
+  push:
+  workflow_dispatch:
+
+jobs:
+  quality:
+    runs-on: ubuntu-latest
+
+    steps:
+      - name: Install non-python dependencies
+        run: |
+          sudo apt-get install -y graphviz-dev
+
+      - name: Setup Python environment
+        uses: khanlab/actions/.github/actions/action-setup_task-installPyProject@v0.3.2
+        with:
+          python-version: "3.11"
+
+      - name: isort
+        run: poetry run isort {{ app_full_name }}/*.py -c
+
+      - name: Black
+        run: poetry run black {{ app_full_name }} --check
+
+      - name: snakefmt
+        run: poetry run snakefmt {{ app_full_name }} --check
+
+  test:
+    runs-on: ubuntu-latest
+    needs: ["quality"]
+    defaults:
+      run:
+        shell: bash -l {0}
+
+
+    steps:
+      - name: checkout repository
+        uses: actions/checkout@v4
+
+      - name: Setup Miniforge and mamba
+        uses: conda-incubator/setup-miniconda@v3
+        with:
+          miniforge-variant: Miniforge3
+          miniforge-version: latest
+          mamba-version: "*"
+          use-mamba: true
+          conda-solver: libmamba
+          auto-activate-base: true
+
+      - name: Install snakebids
+        run: |
+          mamba install snakebids -c bioconda -c conda-forge -y
+
+      - name: Test
+        run: |
+          ./{{ app_full_name }}/run.py tests/data test_out participant -np