Fix docstring formatting (D205/D209/D400) and suppress D107

Co-Authored-By: Claude Opus 4.6 (1M context) <noreply@anthropic.com>

Author: jmchilton

gxformat2/normalized/_format2.py

@@ -37,8 +37,10 @@
 
 
 class NormalizedWorkflowStep(BaseModel):
-    """A Format 2 workflow step with all union types resolved to their
-    canonical list form and ids guaranteed populated."""
+    """A Format 2 workflow step with all union types resolved to canonical list form.
+
+    Ids are guaranteed populated.
+    """
 
     model_config = ConfigDict(populate_by_name=True, extra="allow")
 

gxformat2/normalized/_native.py

@@ -54,8 +54,10 @@
 
 
 class NormalizedNativeStep(BaseModel):
-    """A native workflow step with all optional containers resolved to empty defaults
-    and tool_state guaranteed to be a parsed dict."""
+    """A native workflow step with optional containers resolved to empty defaults.
+
+    tool_state is guaranteed to be a parsed dict.
+    """
 
     model_config = ConfigDict(populate_by_name=True, extra="allow")
 
@@ -86,8 +88,10 @@ class NormalizedNativeStep(BaseModel):
 
 
 class NormalizedNativeWorkflow(BaseModel):
-    """A native Galaxy workflow with all optional containers resolved to empty
-    defaults and steps containing NormalizedNativeStep instances."""
+    """A native Galaxy workflow with optional containers resolved to empty defaults.
+
+    Steps contain NormalizedNativeStep instances.
+    """
 
     model_config = ConfigDict(populate_by_name=True, extra="allow")
 

gxformat2/options.py

@@ -47,7 +47,7 @@ class ConversionOptions:
     expansion control, and URL resolution.
     """
 
-    def __init__(
+    def __init__(  # noqa: D107
         self,
         workflow_directory: str | Path | None = None,
         encode_tool_state_json: bool = True,