Merge pull request #112 from compomics/update-python-versions

Remove support for Python 3.7; test support for 3.12 and 3.13

Author: RalfG

.github/workflows/test.yml

@@ -46,7 +46,7 @@ jobs:
     runs-on: ubuntu-latest
     strategy:
       matrix:
-        python-version: ["3.8", "3.9", "3.10", "3.11"]
+        python-version: ["3.8", "3.9", "3.10", "3.11", "3.12", "3.13"]
     steps:
       - uses: actions/checkout@v4
 
@@ -58,7 +58,11 @@ jobs:
       - name: Install package and its dependencies
         run: |
           python -m pip install --upgrade pip
-          pip install .[dev,idxml]
+          pip install .[dev]
+
+      - name: Install optional dependencies that might not be available
+        continue-on-error: true
+        run: pip install .[idxml]
 
       - name: Test imports
         run: python -c "import psm_utils"

pyproject.toml

@@ -18,7 +18,7 @@ classifiers = [
     "Development Status :: 4 - Beta",
 ]
 dynamic = ["version"]
-requires-python = ">=3.7"
+requires-python = ">=3.8"
 dependencies = [
     "click",
     "lxml",
@@ -71,8 +71,8 @@ profile = "black"
 
 [tool.black]
 line-length = 99
-target-version = ['py37']
+target-version = ['py38']
 
 [tool.ruff]
 line-length = 99
-target-version = "py37"
+target-version = "py38"

tests/test_io/test_idxml.py

@@ -2,11 +2,15 @@
 
 import hashlib
 
+import pytest
+
 from psm_utils.io.idxml import IdXMLReader, IdXMLWriter
 from psm_utils.io.sage import SageTSVReader
 from psm_utils.peptidoform import Peptidoform
 from psm_utils.psm import PSM
 
+pyopenms = pytest.importorskip("pyopenms")
+
 
 class TestIdXMLReader:
     def test__parse_peptidoform(self):