Merge branch 'master' into add-printOrigProblem

Author: Joao-Dionisio

.github/workflows/build_wheels.yml

@@ -1,9 +1,23 @@
-name: Build
+name: Build wheels
 
 on:
-  push:
-    tags: 
-      - 'v[0-9]+.[0-9]+.[0-9]+'
+  workflow_dispatch:
+      inputs:
+          # scip_version:
+          #     type: string
+          #     description: SCIPOptSuite deployment version
+          #     required: true
+          #     default: "v0.4.0"
+          upload_to_pypi:
+              type: boolean
+              description: Should upload
+              required: false
+              default: true
+          test_pypi:
+              type: boolean
+              description: Use Test PyPI
+              required: false
+              default: true
 
 jobs:
   build_wheels:
@@ -16,7 +30,7 @@ jobs:
             arch: x86_64
           - os: macos-14
             arch: arm64
-          - os: macos-latest
+          - os: macos-13
             arch: x86_64
           - os: windows-latest
             arch: AMD64
@@ -27,41 +41,63 @@ jobs:
       - uses: actions/checkout@v4
 
       - name: Build wheels
-        uses: pypa/cibuildwheel@v2.16.5
+        uses: pypa/cibuildwheel@v2.21.1
         env:
           CIBW_ARCHS: ${{ matrix.arch }}
           CIBW_TEST_REQUIRES: pytest
           CIBW_TEST_COMMAND: "pytest {project}/tests"
+          CIBW_MANYLINUX_*_IMAGE: manylinux_2_28
 
-      - uses: actions/upload-artifact@v3
+      - uses: actions/upload-artifact@v4
         with:
+          name: wheels-${{ matrix.os}}-${{ matrix.arch }}
           path: ./wheelhouse/*.whl
 
   build_sdist:
     name: Build source distribution
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
 
       - name: Build sdist
         shell: bash -l {0}
         run: pipx run build --sdist
 
-      - uses: actions/upload-artifact@v3
+      - uses: actions/upload-artifact@v4
         with:
+          name: source-distribution
           path: dist/*.tar.gz
 
-  upload_pypi:
+  merge_artifacts:
+    name: Merge Artifacts
     needs: [build_wheels, build_sdist]
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/download-artifact@v3
+      - name: Merge Artifacts
+        uses: actions/upload-artifact/merge@v4
+
+  upload_pypi:
+    needs: [build_wheels, build_sdist, merge_artifacts]
+    runs-on: ubuntu-latest
+    if: github.event.inputs.upload_to_pypi == 'true'
+    steps:
+      - uses: actions/download-artifact@v4
         with:
-          name: artifact
+          name: merged-artifacts
           path: dist
 
       - uses: pypa/gh-action-pypi-publish@release/v1
+        if: github.event.inputs.test_pypi == 'false'
         with:
           user: __token__
           password: ${{ secrets.PYPI_API_TOKEN }}
           verbose: true
+    
+      - uses: pypa/gh-action-pypi-publish@release/v1
+        if: github.event.inputs.test_pypi == 'true'
+        with:
+          repository-url: https://test.pypi.org/legacy/
+          user: __token__
+          password: ${{ secrets.TESTPYPI_API_TOKEN }}
+          verbose: true
+

.github/workflows/coverage.yml

@@ -1,6 +1,6 @@
 name: Run tests with coverage
 env:
-  version: 9.0.0
+  version: 9.1.0
 
 on:
   push:

.github/workflows/generate_docs.yml

@@ -0,0 +1,16 @@
+name: Generate documentation
+
+on:
+  workflow_dispatch:
+      inputs: {}
+
+jobs:
+  generate-documentation:
+    runs-on: ubuntu-20.04
+    steps:
+      - uses: actions/checkout@v3
+
+      - name: Generate documentation
+        run: |
+          sudo apt-get install doxygen graphviz
+          bash -ex generate-docs.sh "${{ secrets.GITHUB_TOKEN }}" "gh-pages"

.github/workflows/integration-test.yml

@@ -1,13 +1,16 @@
 name: Integration test
 
 env:
-  version: 9.0.0
+  version: 9.1.0
 
 # runs on branches and pull requests; doesn't run on tags.
 on:
   push:
     branches:
       - 'master'
+  pull_request:
+    branches:
+      - 'master'
 
 jobs:
 
@@ -109,7 +112,7 @@ jobs:
       - name: Install dependencies (SCIPOptSuite)
         if: steps.cache-scip.outputs.cache-hit != 'true'
         run: |
-          brew install tbb boost
+          brew install tbb boost bison
           wget --quiet --no-check-certificate https://github.com/scipopt/scip/releases/download/$(echo "v${{env.version}}" | tr -d '.')/scipoptsuite-${{ env.version }}.tgz
           tar xfz scipoptsuite-${{ env.version }}.tgz
           cd scipoptsuite-${{ env.version }}

.gitignore

@@ -81,6 +81,7 @@ instance/
 
 # Sphinx documentation
 docs/_build/
+docs/_autosummary/
 
 # PyBuilder
 target/

.readthedocs.yaml

@@ -0,0 +1,16 @@
+version: 2
+
+sphinx:
+  builder: html
+  configuration: docs/conf.py
+
+build:
+  os: "ubuntu-22.04"
+  tools:
+    python: "3.11"
+
+formats: all
+
+python:
+  install:
+    - requirements: docs/requirements.txt