deprecate 3.9 python

Author: stefdoerr

.github/workflows/docs.yml

@@ -31,7 +31,7 @@ jobs:
 
       - name: Install conda deps
         run: |
-          conda install -y -q --file extra_requirements.txt nbconvert sphinx=6.1.3 python=3.9
+          conda install -y -q --file extra_requirements.txt nbconvert sphinx=6.1.3 python=3.10
           pip install pydata-sphinx-theme==0.13.1 sphinx-argparse sphinx-notfound-page sphinx-sitemap sphinx-autodoc-typehints
           pip install .
           # pdb2pqr is downgrading docutils for some reason and causes failures

.github/workflows/test.yml

@@ -12,7 +12,7 @@ jobs:
       fail-fast: false
       matrix:
         os: ["ubuntu-latest", "macos-latest", "windows-2022"]
-        python-version: ["3.9", "3.10", "3.11", "3.12", "3.13"]
+        python-version: ["3.10", "3.11", "3.12", "3.13"]
 
     defaults: # Needed for conda
       run:

package/moleculekit/variants.yaml

@@ -1,5 +1,4 @@
 python:
-  - 3.9
   - 3.10
   - 3.11
   - 3.12

package/moleculekit/windows_variants.yaml

@@ -5,7 +5,6 @@ c_stdlib:
 cxx_compiler:
   - vs2019
 python:
-  - 3.9
   - 3.10
   - 3.11
   - 3.12

pyproject.toml

@@ -50,7 +50,12 @@ requires = [
 build-backend = "setuptools.build_meta"
 
 [dependency-groups]
-dev = ["ipython>=8.18.1", "pytest>=8.4.2"]
+dev = [
+    "ipython>=8.18.1",
+    "pymol-open-source>=3.2.0a0",
+    "pyqt5>=5.15.11",
+    "pytest>=8.4.2",
+]
 
 [tool.pytest.ini_options]
 python_functions = "_test*"