Merge branch 'main' into pep621

Author: seisman

.github/workflows/cache_data.yaml

@@ -19,7 +19,7 @@ jobs:
     steps:
       # Checkout current git repository
       - name: Checkout
-        uses: actions/[email protected].1
+        uses: actions/[email protected].2
         with:
           # fecth all history so that setuptools-scm works
           fetch-depth: 0

.github/workflows/check-links.yml

@@ -15,18 +15,18 @@ jobs:
 
     steps:
     - name: Checkout the repository
-      uses: actions/[email protected].1
+      uses: actions/[email protected].2
       with:
         path: repository
 
     - name: Checkout the documentation
-      uses: actions/[email protected].1
+      uses: actions/[email protected].2
       with:
         ref: gh-pages
         path: documentation
 
     - name: Link Checker
-      uses: lycheeverse/lychee-action@v1.4.1
+      uses: lycheeverse/lychee-action@v1.5.0
       with:
         # 429: Too many requests
         args: >

.github/workflows/ci_docs.yml

@@ -49,7 +49,7 @@ jobs:
 
       # Checkout current git repository
       - name: Checkout
-        uses: actions/[email protected].1
+        uses: actions/[email protected].2
         with:
           # fecth all history so that setuptools-scm works
           fetch-depth: 0
@@ -72,15 +72,15 @@ jobs:
         run: |
           mamba install gmt=6.3.0 numpy pandas xarray netCDF4 packaging \
                         build ipython make myst-parser geopandas \
-                        sphinx sphinx-copybutton sphinx-gallery sphinx_rtd_theme
+                        sphinx sphinx-copybutton sphinx-design sphinx-gallery sphinx_rtd_theme
 
       # Show installed pkg information for postmortem diagnostic
       - name: List installed packages
         run: mamba list
 
       # Download cached remote files (artifacts) from GitHub
       - name: Download remote data from GitHub
-        uses: dawidd6/action-download-artifact@v2.19.0
+        uses: dawidd6/action-download-artifact@v2.21.0
         with:
           workflow: cache_data.yaml
           workflow_conclusion: success
@@ -107,7 +107,7 @@ jobs:
         run: make -C doc clean all
 
       - name: Checkout the gh-pages branch
-        uses: actions/[email protected].1
+        uses: actions/[email protected].2
         with:
           ref: gh-pages
           # Checkout to this folder instead of the current one

.github/workflows/ci_tests.yaml

@@ -72,7 +72,7 @@ jobs:
 
       # Checkout current git repository
       - name: Checkout
-        uses: actions/[email protected].1
+        uses: actions/[email protected].2
         with:
           # fecth all history so that setuptools-scm works
           fetch-depth: 0
@@ -105,7 +105,7 @@ jobs:
 
       # Download cached remote files (artifacts) from GitHub
       - name: Download remote data from GitHub
-        uses: dawidd6/action-download-artifact@v2.19.0
+        uses: dawidd6/action-download-artifact@v2.21.0
         with:
           workflow: cache_data.yaml
           workflow_conclusion: success
@@ -133,10 +133,16 @@ jobs:
           python -m build --sdist
           pip install dist/*
 
-      # Run the tests
-      - name: Test with pytest
+      # Run the regular tests
+      - name: Run tests
+        if: github.event.schedule != '0 0 * * 3'
         run: make test PYTEST_EXTRA="-r P"
 
+      # Run full tests including doctests on Wednesday
+      - name: Run full tests
+        if: github.event_name == 'schedule' && github.event.schedule == '0 0 * * 3'
+        run: make fulltest PYTEST_EXTRA="-r P"
+
       # Upload diff images on test failure
       - name: Upload diff images if any test fails
         uses: actions/upload-artifact@v3

.github/workflows/ci_tests_dev.yaml

@@ -17,9 +17,9 @@ on:
       - '.gitignore'
   repository_dispatch:
     types: [test-gmt-dev-command]
-  # Schedule daily tests
+  # Schedule tests on Monday/Wednesday/Friday
   schedule:
-    - cron: '0 0 * * *'
+    - cron: '0 0 * * 1,3,5'
 
 jobs:
   test_gmt_dev:
@@ -45,7 +45,7 @@ jobs:
 
       # Checkout current git repository
       - name: Checkout
-        uses: actions/[email protected].1
+        uses: actions/[email protected].2
         if: github.event_name != 'repository_dispatch'
         with:
           # fecth all history so that setuptools-scm works
@@ -62,7 +62,7 @@ jobs:
 
       # Checkout the pull request branch
       - name: Checkout
-        uses: actions/[email protected].1
+        uses: actions/[email protected].2
         if: github.event_name == 'repository_dispatch'
         with:
           token: ${{ steps.generate-token.outputs.token }}
@@ -137,7 +137,7 @@ jobs:
 
       # Download cached remote files (artifacts) from GitHub
       - name: Download remote data from GitHub
-        uses: dawidd6/action-download-artifact@v2.19.0
+        uses: dawidd6/action-download-artifact@v2.21.0
         with:
           workflow: cache_data.yaml
           workflow_conclusion: success

.github/workflows/dvc-diff.yml

@@ -13,7 +13,7 @@ jobs:
 
     steps:
     - name: Checkout
-      uses: actions/[email protected].1
+      uses: actions/[email protected].2
       with:
         # fetch all history so that dvc diff works
         fetch-depth: 0

.github/workflows/format-command.yml

@@ -14,7 +14,7 @@ jobs:
           private_key: ${{ secrets.APP_PRIVATE_KEY }}
 
       # Checkout the pull request branch
-      - uses: actions/[email protected].1
+      - uses: actions/[email protected].2
         with:
           token: ${{ steps.generate-token.outputs.token }}
           repository: ${{ github.event.client_payload.pull_request.head.repo.full_name }}

.github/workflows/publish-to-pypi.yml

@@ -23,7 +23,7 @@ jobs:
 
     steps:
     - name: Checkout
-      uses: actions/[email protected].1
+      uses: actions/[email protected].2
       with:
         # fetch all history so that setuptools-scm works
         fetch-depth: 0

.github/workflows/release-baseline-images.yml

@@ -16,7 +16,7 @@ jobs:
 
     steps:
     - name: Checkout
-      uses: actions/[email protected].1
+      uses: actions/[email protected].2
 
     - name: Setup data version control (DVC)
       uses: iterative/[email protected]

.github/workflows/release-drafter.yml

@@ -11,7 +11,7 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       # Drafts your next Release notes as Pull Requests are merged into "main"
-      - uses: release-drafter/release-drafter@v5.19.0
+      - uses: release-drafter/release-drafter@v5.20.0
         with:
           # (Optional) specify config name to use, relative to .github/. Default: release-drafter.yml
           config-name: release-drafter.yml