Fix/pep8

.github/workflows/development_CI.yaml

@@ -16,10 +16,10 @@ jobs:
     steps:
     - uses: actions/checkout@v2
 
-    - name: Set up Python 3.8
+    - name: Set up Python 3.9
       uses: actions/setup-python@v2
       with:
-        python-version: 3.8
+        python-version: 3.9
 
     - name: Install dependencies
       run: |

Makefile

@@ -18,16 +18,14 @@ test-unit:
 	pytest tests
 	@echo 'unit tests OK'
 
-lint:
-	pylint cobra
-	@echo 'lint OK'
+black-check:
+	black --diff cobra/
 
-lint-minimal:
-	pylint E cobra
-	@echo 'lint minimal OK'
+black:
+	black cobra/
 
 typecheck:
-	mypy cobra
+	mypy cobra --allow-redefinition --allow-untyped-globals --ignore-missing-imports
 	@echo 'typecheck OK'
 
 codestyle:
@@ -38,4 +36,4 @@ docstyle:
 	pydocstyle cobra
 	@echo 'docstyle OK'
 
-code-qa: typecheck codestyle docstyle lint-minimal
+code-qa: typecheck codestyle docstyle

cobra/__init__.py

@@ -1 +1,3 @@
-from .version import __version__
+"""Cobra module."""
+
+from .version import __version__

cobra/evaluation/__init__.py

@@ -1,3 +1,5 @@
+"""The evaluation module includes utils and plots to evaluate a created model."""
+
 from .pigs_tables import generate_pig_tables
 from .pigs_tables import compute_pig_table
 from .pigs_tables import plot_incidence
@@ -11,12 +13,14 @@
 # from .evaluator import Evaluator
 from .evaluator import ClassificationEvaluator, RegressionEvaluator
 
-__all__ = ["generate_pig_tables",
-           "compute_pig_table",
-           "plot_incidence",
-           "plot_performance_curves",
-           "plot_variable_importance",
-           "plot_univariate_predictor_quality",
-           "plot_correlation_matrix",
-           "ClassificationEvaluator",
-           "RegressionEvaluator"]
+__all__ = [
+    "generate_pig_tables",
+    "compute_pig_table",
+    "plot_incidence",
+    "plot_performance_curves",
+    "plot_variable_importance",
+    "plot_univariate_predictor_quality",
+    "plot_correlation_matrix",
+    "ClassificationEvaluator",
+    "RegressionEvaluator",
+]