Maintenance: Update CI Workflows

.github/workflows/ci.yml

@@ -13,16 +13,16 @@ jobs:
     runs-on: ubuntu-latest
     strategy:
       matrix:
-        python-version: ["3.11", "3.12"]
+        python-version: ["3.11", "3.13"]
         optional: [false]
         include:
           - python-version: "3.11"
             optional: true
 
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v6
       - name: Set up Python ${{ matrix.python-version }}
-        uses: actions/setup-python@v3
+        uses: actions/setup-python@v6
         with:
           python-version: ${{ matrix.python-version }}
       - name: Install dependencies
@@ -33,19 +33,14 @@ jobs:
           python -m pip install --upgrade pip
           pip install git+https://github.com/NREL/HOPP@develop
           if [ "${{ matrix.optional }}" = "true" ]; then
-            pip install ".[develop,gis]"
+            pip install ".[develop]"
             pip install git+https://github.com/NREL/MarineCarbonManagement.git
           else
-            pip install ".[develop,gis]"
+            pip install ".[develop]"
           fi
       - name: Create env file
         run: |
           touch .env
       - name: Run tests
         run: |
           pytest .
-      - name: Lint with flake8
-        run: |
-          # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
-          pip install flake8
-          flake8 . --count --exit-zero --statistics --ignore=E501

.github/workflows/pre-commit.yml

@@ -1,18 +1,19 @@
 name: pre-commit
 
 on:
-  pull_request:
   push:
-    branches: [main]
+    branches: [main, develop]
+  pull_request:
+    branches: [main, develop]
 
 jobs:
   pre-commit:
     runs-on: ubuntu-latest
     steps:
-    - uses: actions/checkout@v4
+    - uses: actions/checkout@v6
     - name: Set up Python
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
-        python-version: 3.9
+        python-version: 3.13
     - name: Run pre-commit
       uses: pre-commit/action@v3.0.1

.github/workflows/publish_to_pypi.yml

@@ -14,11 +14,11 @@ jobs:
     permissions:
       id-token: write
     steps:
-    - uses: actions/checkout@v4
+    - uses: actions/checkout@v6
     - name: Set up Python
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
-        python-version: 3.9
+        python-version: 3.13
     - name: Build package
       run: |
         python -m pip install --upgrade pip

.github/workflows/publish_to_test_pypi.yml

@@ -15,11 +15,11 @@ jobs:
     permissions:
       id-token: write
     steps:
-    - uses: actions/checkout@v4
+    - uses: actions/checkout@v6
     - name: Set up Python
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
-        python-version: 3.9
+        python-version: 3.13
     - name: Build package
       run: |
         python -m pip install --upgrade pip

examples/test/test_all_examples.py

@@ -1,4 +1,6 @@
+import io
 import os
+import builtins
 import importlib
 from pathlib import Path
 
@@ -10,6 +12,51 @@
 from h2integrate.core.h2integrate_model import H2IntegrateModel
 
 
+ROOT = Path(__file__).parents[1]
+print(f"{ROOT=}")
+
+
+def patch_open(open_func, files):
+    def open_patched(
+        path,
+        mode="r",
+        buffering=-1,
+        encoding=None,
+        errors=None,
+        newline=None,
+        closefd=True,
+        opener=None,
+    ):
+        if "w" in mode and not Path(path).is_file():
+            files.append(path)
+        return open_func(
+            path,
+            mode=mode,
+            buffering=buffering,
+            encoding=encoding,
+            errors=errors,
+            newline=newline,
+            closefd=closefd,
+            opener=opener,
+        )
+
+    return open_patched
+
+
+@pytest.fixture(autouse=True)
+def cleanup_files(monkeypatch):
+    files = []
+    monkeypatch.setattr(builtins, "open", patch_open(builtins.open, files))
+    monkeypatch.setattr(io, "open", patch_open(io.open, files))
+    yield
+    for f in files:
+        if (f := Path(f)).is_relative_to(ROOT):
+            try:
+                f.unlink()
+            except FileNotFoundError:
+                pass
+
+
 def test_steel_example(subtests):
     # Change the current working directory to the example's directory
     os.chdir(EXAMPLE_DIR / "01_onshore_steel_mn")