From be6eb0fd3d28bc136243d68a89d786db32f3929e Mon Sep 17 00:00:00 2001
From: Jake <37048747+Jacob-Stevens-Haas@users.noreply.github.com>
Date: Wed, 17 Apr 2024 10:05:37 -0700
Subject: [PATCH] Merge master CI

---
 .github/workflows/main.yml | 39 ++++++++++++++++++++------------------
 1 file changed, 21 insertions(+), 18 deletions(-)

diff --git a/.github/workflows/main.yml b/.github/workflows/main.yml
index d93b29d7..68385b63 100644
--- a/.github/workflows/main.yml
+++ b/.github/workflows/main.yml
@@ -1,17 +1,23 @@
 name: Tests
 
-on: [push, pull_request]
+on:
+  push:
+    branches:
+      - master
+  pull_request:
+    branches:
+      - master
 
 jobs:
   Linting:
     runs-on: ubuntu-latest
 
     steps:
-      - uses: actions/checkout@v1
-      - name: Set up Python 3.7
-        uses: actions/setup-python@v1
+      - uses: actions/checkout@v3
+      - name: Set up Python
+        uses: actions/setup-python@v3
         with:
-          python-version: 3.7
+          python-version: "3.9"
       - name: Linting
         run: |
           pip install pre-commit
@@ -23,39 +29,36 @@ jobs:
     strategy:
       max-parallel: 4
       matrix:
-        python-version: [3.7, 3.8, 3.9]
+        python-version: ["3.9", "3.11"]
 
     steps:
-    - uses: actions/checkout@v1
+    - uses: actions/checkout@v3
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v1
+      uses: actions/setup-python@v3
       with:
         python-version: ${{ matrix.python-version }}
     - name: Install dependencies
       run: |
-        pip install -r requirements-dev.txt
-        pip install sympy # needed for notebook 9, but not required for pysindy
+        pip install --upgrade pip
+        pip install .[dev,miosr,cvxpy,sbr]
     - name: Build the docs
       # Not exactly how RTD does it, but close.
       run: |
+        sudo apt-get update -y
         sudo apt-get install pandoc
+        pip install .[docs]
         cd docs
         python -m sphinx -T -E -W -b html -d _build/doctrees . _build/html
         cd ..
     - name: Test with pytest
       run: |
-        pytest test --cov=pysindy --cov-report=xml
+        coverage run --source=pysindy -m pytest test -m "not slow"  && coverage xml
     - name: Upload coverage to Codecov
-      uses: codecov/codecov-action@v1
+      uses: codecov/codecov-action@v3
       with:
         token: ${{ secrets.CODECOV_TOKEN }}
         file: ./coverage.xml
-    - name: Execute feature notebook with papermill
-      run: |
-        pip install papermill
-        cd examples
-        papermill --report-mode 1_feature_overview.ipynb out.json
-    - uses: actions/cache@v1
+    - uses: actions/cache@v3
       with:
         path: ~/.cache/pip
         key: ${{ runner.os }}-pip-${{ hashFiles('**/requirements-dev.txt') }}