Merge pull request #142 from HARPgroup/testx

Testing framework base deployment

.github/workflows/hsp2-conda-install-test-dev.yml

@@ -0,0 +1,47 @@
+name: Python conda dev application
+# this is a standard setup copied from 
+# https://docs.github.com/en/[email protected]/actions/automating-builds-and-tests/building-and-testing-python
+on:
+  push:
+    branches: [ "master" ]
+  pull_request:
+    branches: [ "master", "develop-tests", "develop-specact-speed-eq" ]
+
+permissions:
+  contents: read
+
+jobs:
+  build:
+    runs-on: ubuntu-latest
+
+    steps:
+    - uses: actions/checkout@v4
+    - name: Set up Python 3.11
+      uses: actions/setup-python@v4
+      with:
+        python-version: "3.11"
+    - name: Install dependencies
+      run: |
+        $CONDA/bin/conda env update --file environment_dev.yml --name base
+        $CONDA/bin/conda install flake8
+    - name: Install hsp2
+      run: |
+        # install the hsp2 executable using dev environment
+        $CONDA/bin/conda-develop ./
+    - name: Lint with flake8
+      run: |
+        # stop the build if there are Python syntax errors or undefined names
+        $CONDA/bin/flake8 . --count --select=E9,F63,F7,F82 --ignore=F821 --show-source --statistics --exclude=HSP2/ACIDPH.py,build/lib/HSP2/ACIDPH.py
+        # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
+        $CONDA/bin/flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics
+    - name: Test with pytest 
+      run: |
+        $CONDA/bin/conda install pytest
+        $CONDA/bin/pytest tests/ptest/test_sysexit.py
+        # Add more tests here.  Example (note, benchmark takes a long time to run and could crush the free monthly 2,000 minutes during times of high activity)
+        # $CONDA/bin/pytest tests/testcbp/HSP2results/benchmark.py
+    - name: Run hsp2 test10
+      run: |
+        cd tests/test10/HSP2results
+        hsp2 import_uci test10.uci test10.h5
+        hsp2 run test10.h5

.github/workflows/hsp2-pip-install-test-dev.yml

@@ -0,0 +1,47 @@
+name: Python dev application
+# this is a standard setup copied from 
+# https://docs.github.com/en/[email protected]/actions/automating-builds-and-tests/building-and-testing-python
+on:
+  push:
+    branches: [ "master" ]
+  pull_request:
+    branches: [ "master", "develop-tests", "develop-specact-speed-eq" ]
+
+permissions:
+  contents: read
+
+jobs:
+  build:
+    runs-on: ubuntu-latest
+
+    steps:
+    - uses: actions/checkout@v4
+    - name: Set up Python 3.11
+      uses: actions/setup-python@v4
+      with:
+        python-version: "3.11"
+    - name: Install dependencies
+      run: |
+        python -m pip install --upgrade pip
+        pip install flake8 pytest
+        if [ -f requirements.txt ]; then pip install -r requirements.txt; fi
+    - name: Install hsp2
+      run: |
+        # install the hsp2 executable using dev environment
+        sudo pip install -e .[dev]
+    - name: Lint with flake8
+      run: |
+        # stop the build if there are Python syntax errors or undefined names
+        flake8 . --count --select=E9,F63,F7,F82 --ignore=F821 --show-source --statistics --exclude=HSP2/ACIDPH.py,build/lib/HSP2/ACIDPH.py
+        # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
+        flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics
+    - name: Test with pytest 
+      run: |
+        pytest tests/ptest/test_sysexit.py
+        # Add more tests here.  Example (note, benchmark takes a long time to run and could crush the free monthly 2,000 minutes during times of high activity)
+        # pytest tests/testcbp/HSP2results/benchmark.py
+    - name: Run hsp2 test10
+      run: |
+        cd tests/test10/HSP2results
+        hsp2 import_uci test10.uci test10.h5
+        hsp2 run test10.h5

.github/workflows/hsp2-pip-install-test.yml

@@ -0,0 +1,47 @@
+name: Python application
+# this is a standard setup copied from 
+# https://docs.github.com/en/[email protected]/actions/automating-builds-and-tests/building-and-testing-python
+on:
+  push:
+    branches: [ "master" ]
+  pull_request:
+    branches: [ "master", "develop-tests", "develop-specact-speed-eq" ]
+
+permissions:
+  contents: read
+
+jobs:
+  build:
+    runs-on: ubuntu-latest
+
+    steps:
+    - uses: actions/checkout@v4
+    - name: Set up Python 3.8
+      uses: actions/setup-python@v4
+      with:
+        python-version: "3.8"
+    - name: Install dependencies
+      run: |
+        python -m pip install --upgrade pip
+        pip install flake8 pytest
+        if [ -f requirements.txt ]; then pip install -r requirements.txt; fi
+    - name: Install hsp2
+      run: |
+        # install the hsp2 executable
+        pip install .
+    - name: Lint with flake8
+      run: |
+        # stop the build if there are Python syntax errors or undefined names
+        flake8 . --count --select=E9,F63,F7,F82 --ignore=F821 --show-source --statistics --exclude=HSP2/ACIDPH.py,build/lib/HSP2/ACIDPH.py
+        # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
+        flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics
+    - name: Test with pytest 
+      run: |
+        pytest tests/ptest/test_sysexit.py
+        # add additional test, ex:
+        # pytest tests/testcbp/HSP2results/benchmark.py
+    - name: Run hsp2 test10
+      run: |
+        cd tests/test10/HSP2results
+        hsp2 import_uci test10.uci test10.h5
+        hsp2 run test10.h5

tests/ptest/test_sysexit.py

@@ -0,0 +1,12 @@
+# content of test_sysexit.py
+# this is a very basic pytest file
+import pytest
+
+
+def f():
+    raise SystemExit(1)
+
+
+def test_mytest():
+    with pytest.raises(SystemExit):
+        f()

tests/test10/HSP2results/pytest10.py

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+
+import pytest
+import os
+
+def test_h5_file_exists():
+    assert os.path.exists('test10.h5')
+
+# uncomment if you want to see how to break the test
+#def test_that_should_fail():
+#    assert os.path.exists('test100000.h5')