Update workflow.

Author: JoeZiminski

.github/workflows/code_test_and_deploy.yml

@@ -51,25 +51,27 @@ jobs:
     steps:
       - uses: actions/checkout@v6
       - name: Set up Conda
-        uses: conda-incubator/setup-miniconda@v3
+        uses: conda-incubator/setup-miniconda@v4
         with:
           python-version: ${{ matrix.python-version }}
           auto-update-conda: true
           channels: conda-forge
           activate-environment: "datashuttle-test"
 
+      - name: Install pip  # ← add this right after
+        run: conda install pip
+
       # The recommended installation is via conda, but we need to test
       # against dependencies from the pyproject.toml on the branch
       # to ensure dependency changes in a PR are reflected.
       - name: Install rclone
         run: |
-          conda activate datashuttle-test
           conda install -c conda-forge rclone
 
       - name: Install datashuttle from repo
         run: |
           python -m pip install --upgrade pip
-          pip install .[dev]
+          python -m pip install .[dev]
 
       - name: Install pass on Linux
         # this is required for Rclone config encryption
@@ -122,6 +124,12 @@ jobs:
         run: |
           pytest tests/tests_transfers/aws
 
+      - name: Upload coverage reports to Codecov
+        uses: codecov/codecov-action@v5
+        with:
+          token: ${{ secrets.CODECOV_TOKEN }}
+          slug: neuroinformatics-unit/datashuttle
+
   build_sdist_wheels:
     name: Build source distribution
     needs: [test]