fix: more pylint stuff

.pylintrc

@@ -24,7 +24,7 @@ ignore=CVS
 
 # Add files or directories matching the regex patterns to the ignore-list. The
 # regex matches against paths and can be in Posix or Windows format.
-ignore-paths=
+ignore-paths=^src/fasthep_flow/_version.py$
 
 # Files or directories matching the regex patterns are skipped. The regex
 # matches against base names, not paths.
@@ -87,7 +87,8 @@ disable=raw-checker-failed,
         deprecated-pragma,
         use-symbolic-message-instead,
         import-outside-toplevel,
-        fixme
+        fixme,
+        super-init-not-called
 
 # Enable the message, report, category or checker with the given id(s). You can
 # either give multiple identifier separated by comma (,) or put this option

src/fasthep_flow/_version.pyi

@@ -1,3 +1,4 @@
+"""Type hints for the version module."""
 from __future__ import annotations
 
 version: str

src/fasthep_flow/cli.py

@@ -1,3 +1,4 @@
+"""Command line interface for fasthep-flow."""
 from __future__ import annotations
 
 from pathlib import Path

src/fasthep_flow/config.py

@@ -1,3 +1,5 @@
+"""Definitions for the configuration for describing the workflow."""
+
 from __future__ import annotations
 
 import importlib
@@ -22,20 +24,21 @@ class StageConfig:
 
     @field_validator("type")
     @classmethod
-    def validate_type(cls, v: str) -> str:
-        """Validate the type field. Any specified type needs to be a Python class that can be imported"""
+    def validate_type(cls, value: str) -> str:
+        """Validate the type field
+        Any specified type needs to be a Python class that can be imported"""
         # Split the string to separate the module from the class name
-        module_path, class_name = v.rsplit(".", 1)
+        module_path, class_name = value.rsplit(".", 1)
         try:
             # Import the module
             mod = importlib.import_module(module_path)
             # this must be a class
             getattr(mod, class_name)
-        except ImportError as e:
+        except ImportError as previous_error:
             msg = f"Could not import {module_path}.{class_name}"
-            raise ValueError(msg) from e
+            raise ValueError(msg) from previous_error
         # Return the original string if everything is fine
-        return v
+        return value
 
     def resolve(self) -> Any:
         """Resolve the stage to a class."""

src/fasthep_flow/operators/__init__.py

@@ -1,3 +1,4 @@
+"""Module for defining basic operators."""
 from __future__ import annotations
 
 from .base import Operator

src/fasthep_flow/operators/base.py

@@ -1,11 +1,13 @@
+"""Definition of the Operator protocol."""
 from __future__ import annotations
 
 from typing import Any, Protocol
 
 
 class Operator(Protocol):
     """The base class for all operators.
-    Only named parameters are allowed, since we need to have a way to pass the YAML configuration to the operator.
+    Only named parameters are allowed,
+    since we need to have a way to pass the YAML configuration to the operator.
     """
 
     def __call__(self, **kwargs: Any) -> dict[str, Any]:

src/fasthep_flow/operators/bash.py

@@ -1,3 +1,4 @@
+"""Bash related operators."""
 from __future__ import annotations
 
 from typing import Any

src/fasthep_flow/workflow.py

@@ -1,3 +1,4 @@
+"""Workflow and Task classes to define and execute a compute graph."""
 from __future__ import annotations
 
 from dataclasses import dataclass