Enhance CLI functionality and improve common utilities

- Added new commands to the CLI for dumping regions, renaming functions by address, and setting various types of comments.
- Implemented JSON output formatting for CLI commands.
- Introduced functions for decompiling and disassembling functions, as well as retrieving cross-references.
- Enhanced common utilities with functions for reading memory regions, iterating Java items, and managing function metadata.
- Added suppress_output context manager to hide process output during Ghidra startup.
- Updated existing functions to improve error handling and output formatting.

.gitignore

@@ -15,3 +15,26 @@ Thumbs.db
 
 # Local Python environments
 .venv-pyghidra311/
+
+# Python caches, bytecode, and tooling state
+__pycache__/
+*.py[cod]
+*$py.class
+.python-version
+.pytest_cache/
+.mypy_cache/
+.ruff_cache/
+.pyre/
+.hypothesis/
+.tox/
+.nox/
+.coverage
+.coverage.*
+htmlcov/
+build/
+dist/
+*.egg-info/
+
+# Local scratch and probe files
+.tmp_*.txt
+.tmp_*.py