Remove flake8 and pydocstyle from pytest command

Author: mirand863

.github/workflows/deploy-pypi.yml

@@ -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
+        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

@@ -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

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.py

@@ -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",