generate.py: run ruff format on generated files

Running generate.py standalone previously rewrote _ciphers.py with
formatting that differed from the committed (ruff-formatted) style,
creating spurious diffs. release.py already ran ruff after generation;
now generate.py does too, so both entry points leave the tree in the
same state.

src/aeg/raf.py

@@ -54,6 +54,7 @@ _FLAG_TRUNCATE = 0x02
 _MERKLE_HASH_MIN = 8
 _MERKLE_HASH_MAX = 64
 
+
 @runtime_checkable
 class Storage(Protocol):
     """Backing storage for RAF files. Operations must complete fully or raise OSError."""

tools/generate.py

@@ -3,6 +3,7 @@
 
 import pathlib
 import re
+import subprocess
 import sys
 from typing import Dict, Tuple
 
@@ -375,6 +376,16 @@ def main() -> int:
         print(f"Error generating Python modules: {e}", file=sys.stderr)
         return 1
 
+    print("Step 5: Formatting generated files with ruff...", file=sys.stderr)
+    result = subprocess.run(
+        ["uv", "run", "ruff", "format", str(pyaegis_dir)],
+        capture_output=True,
+        text=True,
+    )
+    if result.returncode != 0:
+        print(f"Error formatting generated files: {result.stderr}", file=sys.stderr)
+        return 1
+
     return 0