Ci updates

.github/workflows/test.yml

@@ -1,17 +1,27 @@
 name: PyFHD pytest
 
-on:
-  push:
-    branches: [ main ]
-  pull_request:
-    branches: [ main ]
+on: [push, pull_request]
+
+concurrency:
+  group: ${{ github.workflow }}-${{ github.head_ref || github.run_id }}
+  cancel-in-progress: true
 
 jobs:
   test:
-    runs-on: ubuntu-latest
+    runs-on: ${{ matrix.os }}
     strategy:
+      fail-fast: false
       matrix:
-        python-version: [3.10.17, 3.11.12, 3.12.7, 3.13.3]
+        python-version: ["3.11", "3.12", "3.13"]
+        os: [ubuntu-latest, macos-latest] #, windows-latest] add back after healpy replaced
+        uv-options: ["--frozen"]
+        include:
+          - uv-options: "--upgrade"
+            os: ubuntu-latest
+            python-version: "3.13"
+          - uv-options: "--resolution lowest-direct"
+            os: ubuntu-latest
+            python-version: "3.11"
     steps:
       - name: Check out repository
         uses: actions/checkout@v4
@@ -23,14 +33,19 @@ jobs:
           python-version: ${{ matrix.python-version }}
 
       - name: Install the project
-        run: uv sync --frozen --all-extras --dev
+        run: uv sync ${{ matrix.uv-options }} --all-extras --dev
+
+      - name: Environment Info
+        run: |
+          uv pip list
 
       - name: Cache test data
         id: cache-test-data
         uses: actions/cache@v4
         with:
           path: PyFHD/resources/test_data/pyfhd_test_data.zip
           key: test-data-${{ hashFiles('**/pyfhd_test_data.zip') }}
+          restore-keys: test-data-
 
       - name: Download the test data from Zenodo
         if: steps.cache-test-data.outputs.cache-hit != 'true'
@@ -42,25 +57,40 @@ jobs:
           unzip PyFHD/resources/test_data/pyfhd_test_data.zip -d PyFHD/resources/test_data
 
       - name: Run tests
-        run: uv run coverage run --branch --source=PyFHD -m pytest -m github_actions --html=pyfhd_report.html --self-contained-html
+        run: |
+          uv run coverage run --branch --source=PyFHD -m pytest -m github_actions --html=pyfhd_report.html --self-contained-html
+          uv run coverage xml  -o ./coverage.xml
+
+      - name: check coverage report
+        run: |
+          ls
+          cat coverage.xml
+
+      - uses: codecov/codecov-action@v5
+        if: success()
+        with:
+          token: ${{ secrets.CODECOV_TOKEN }} #required
+          files: ./coverage.xml #optional
 
       - name: Get coverage HTML report
+        if: (matrix.os == 'ubuntu-latest' && matrix.python-version == '3.13' && matrix.uv-options == '--frozen')
         run: uv run coverage html --directory=coverage_html_report --title="PyFHD GitHub Actions Coverage Report"
 
       - name: Change Title of the Unit Test Report
+        if: (matrix.os == 'ubuntu-latest' && matrix.python-version == '3.13' && matrix.uv-options == '--frozen')
         run: |
           sed -i 's/<h1 id="title">pyfhd_report.html<\/h1>/<h1 id="title">PyFHD GitHub Actions Unit Test Report<\/h1>/' pyfhd_report.html 
           sed -i 's/<title id="head-title">pyfhd_report.html<\/title>/<title id="head-title">PyFHD GitHub Actions Unit Test Report<\/title>/' pyfhd_report.html
 
       - name: Upload Unit Test HTML Report
-        if: ${{ matrix.python-version == '3.13.3' }}
+        if: (matrix.os == 'ubuntu-latest' && matrix.python-version == '3.13' && matrix.uv-options == '--frozen')
         uses: actions/upload-artifact@v4
         with:
           name: unit-test-report
           path: pyfhd_report.html
 
       - name: Upload Coverage HTML Report Directory
-        if: ${{ matrix.python-version == '3.13.3' }}
+        if: (matrix.os == 'ubuntu-latest' && matrix.python-version == '3.13' && matrix.uv-options == '--frozen')
         uses: actions/upload-artifact@v4
         with:
           name: coverage-html-report

environment.yml

@@ -3,21 +3,21 @@ channels:
   - conda-forge
   - defaults
 dependencies:
-  - python
-  - astropy
-  - configargparse
-  - matplotlib
-  - numba
-  - numpy
-  - pytest
-  - scipy
+  - astropy>=6.1.7
+  - black
+  - colorama>=0.4.6
+  - configargparse>=1.7
+  - h5py>=3.13.0
+  - importlib_resources>=6.5.2
+  - matplotlib>=3.10.3
+  - numba>=0.61.2
+  - numpy>=2.2.5
+  - pyuvdata>=3.2.1
+  - pytest>=8.3.5
+  - scipy>=1.15.3
   - setuptools
-  - sphinx
-  - colorama
-  - importlib_resources
-  - h5py
+  - sphinx>=8.1.3
   - pre-commit
-  - black
   - pip
   - pyinstrument
   - pip:
@@ -28,5 +28,5 @@ dependencies:
     - pytest-html
     - pytest-html-merger
     - myst-parser
-    - healpy
+    - healpy>=1.18.1
 

pyproject.toml

@@ -9,7 +9,7 @@ authors = [
     { name = "Jack Line (JLBLine)", email = "jack.line@curtin.edu.au"},
     { name = "Nichole Barry (nicholebarry)", email = "nichole.barry@unsw.edu.au"}
 ]
-requires-python = ">=3.10"
+requires-python = ">=3.11"
 classifiers = [
     "Development Status :: 4 - Beta",
     "Intended Audience :: Science/Research",