Add support for python 3.12 (#135)

Author: mirand863

.github/workflows/deploy-pypi.yml

@@ -12,7 +12,7 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        python-version: ["3.8", "3.9", "3.10", "3.11"]
+        python-version: ["3.8", "3.9", "3.10", "3.11", "3.12"]
         os: [ubuntu-latest, macOS-latest, windows-latest]
     steps:
     - uses: actions/checkout@v2
@@ -26,7 +26,9 @@ jobs:
         python -m pip install -e ".[dev]"
     - name: Test with pytest
       run: |
-        pytest -v --flake8 --pydocstyle --cov=hiclass --cov-fail-under=90 --cov-report html
+        flake8
+        pydocstyle hiclass tests
+        pytest -v --cov=hiclass --cov-fail-under=90 --cov-report html
         coverage xml
     - name: Upload Coverage to Codecov
       if: matrix.os == 'ubuntu-latest'

.github/workflows/test-pr.yml

@@ -13,7 +13,7 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        python-version: ["3.8", "3.9", "3.10", "3.11"]
+        python-version: ["3.8", "3.9", "3.10", "3.11", "3.12"]
         os: [ubuntu-latest, macOS-latest, windows-latest]
     steps:
     - uses: actions/checkout@v2
@@ -27,7 +27,9 @@ jobs:
         python -m pip install -e ".[dev]"
     - name: Test with pytest
       run: |
-        pytest -v --flake8 --pydocstyle --cov=hiclass --cov-fail-under=90 --cov-report html
+        flake8
+        pydocstyle hiclass tests
+        pytest -v --cov=hiclass --cov-fail-under=90 --cov-report html
         coverage xml
     - name: Upload Coverage to Codecov
       uses: codecov/codecov-action@v2

.pre-commit-config.yaml

@@ -9,3 +9,12 @@ repos:
     rev: 24.2.0
     hooks:
       - id: black
+  - repo: https://github.com/pycqa/flake8
+    rev: 7.1.1
+    hooks:
+      - id: flake8
+  - repo: https://github.com/pycqa/pydocstyle
+    rev: 6.3.0
+    hooks:
+    - id: pydocstyle
+      files: ^hiclass/

CONTRIBUTING.md

@@ -19,7 +19,7 @@ pip install -e ".[dev]"
 To run the tests simply execute:
 
 ```
-pytest -v --flake8 --pydocstyle --cov=hiclass --cov-fail-under=90 --cov-report html
+pytest -v --cov=hiclass --cov-fail-under=90 --cov-report html
 ```
 
 Lastly, you can set up the git hooks scripts to fix formatting errors locally during commits:

hiclass/HierarchicalClassifier.py

@@ -443,7 +443,7 @@ def _fit_node_classifier(
         self, nodes, local_mode: bool = False, use_joblib: bool = False
     ):
         def logging_wrapper(func, idx, node, node_length):
-            self.logger_.info(f"fitting node {idx+1}/{node_length}: {str(node)}")
+            self.logger_.info(f"fitting node {idx + 1}/{node_length}: {str(node)}")
             return func(self, node)
 
         if self.n_jobs > 1:
@@ -481,7 +481,7 @@ def _fit_node_calibrator(
         self, nodes, local_mode: bool = False, use_joblib: bool = False
     ):
         def logging_wrapper(func, idx, node, node_length):
-            self.logger_.info(f"calibrating node {idx+1}/{node_length}: {str(node)}")
+            self.logger_.info(f"calibrating node {idx + 1}/{node_length}: {str(node)}")
             return func(self, node)
 
         if self.n_jobs > 1:

hiclass/LocalClassifierPerLevel.py

@@ -350,7 +350,7 @@ def _fit_digraph(self, local_mode: bool = False, use_joblib: bool = False):
         self.logger_.info("Fitting local classifiers")
 
         def logging_wrapper(func, level, separator, max_level):
-            self.logger_.info(f"fitting level {level+1}/{max_level}")
+            self.logger_.info(f"fitting level {level + 1}/{max_level}")
             return func(self, level, separator)
 
         if self.n_jobs > 1:
@@ -395,7 +395,7 @@ def _calibrate_digraph(self, local_mode: bool = False, use_joblib: bool = False)
         self.logger_.info("Fitting local calibrators")
 
         def logging_wrapper(func, level, separator, max_level):
-            self.logger_.info(f"calibrating level {level+1}/{max_level}")
+            self.logger_.info(f"calibrating level {level + 1}/{max_level}")
             return func(self, level, separator)
 
         if self.n_jobs > 1:

setup.cfg

@@ -14,7 +14,7 @@ exclude = **/__init__.py,  docs/source/conf.py
 ;file.py: error
 
 [requires]
-python_version = ">=3.8,<3.12"
+python_version = ">=3.8,<3.13"
 
 # See the docstring in versioneer.py for instructions. Note that you must
 # re-run 'versioneer.py setup' after changing this section, and commit the

setup.py

@@ -23,7 +23,7 @@
 URL_ISSUES = "https://github.com/scikit-learn-contrib/hiclass/issues"
 EMAIL = "[email protected], [email protected]"
 AUTHOR = "Fabio Malcher Miranda, Niklas Koehnecke"
-REQUIRES_PYTHON = ">=3.8,<3.12"
+REQUIRES_PYTHON = ">=3.8,<3.13"
 KEYWORDS = ["hierarchical classification"]
 DACS_SOFTWARE = "https://gitlab.com/dacs-hpi"
 # What packages are required for this module to be executed?
@@ -35,11 +35,9 @@
     "ray": ["ray>=1.11.0"],
     "xai": ["shap==0.44.1", "xarray==2023.1.0"],
     "dev": [
-        "flake8==4.0.1",
-        "pytest==7.1.2",
-        "pytest-flake8==1.1.1",
-        "pydocstyle==6.1.1",
-        "pytest-pydocstyle==2.3.0",
+        "flake8",
+        "pytest",
+        "pydocstyle",
         "pytest-cov==3.0.0",
         "pyfakefs==5.3.5",
         "black==24.2.0",