Easier access to logs at startup with -f on the run script

Improved prompt for immediate action
Additional logging of tool names
Updated documentation
Context aware decomposition system prompt
New script to run code quality checks

docs/contributions.md

@@ -25,12 +25,25 @@ We maintain high code quality standards. **All contributions must pass our autom
 
 #### Required Code Quality Checks
 
-Before submitting any PR, run these commands:
+Before submitting any PR, run our automated quality check script:
 
 ```bash
 # Activate virtual environment first
 source venv/bin/activate
 
+# Run the comprehensive quality checks script
+./code_quality_checks.sh
+```
+
+This script automatically runs:
+- Ruff linting with auto-fix
+- Black code formatting 
+- Import sorting with isort
+- Complete unit test suite (361 tests)
+- Verification that all checks pass 100%
+
+**Manual commands** (if you prefer to run individually):
+```bash
 # Run all linting checks (MUST pass 100%)
 ruff check .
 black --check .
@@ -105,7 +118,7 @@ Your PR title MUST follow one of these formats:
 Use our [PR template](../.github/pull_request_template.md) and ensure:
 
 - [ ] PR title follows the format guidelines above
-- [ ] Activated venv and ran all linting
+- [ ] Activated venv and ran `./code_quality_checks.sh` (all checks passed 100%)
 - [ ] Self-review completed
 - [ ] Tests added for ALL changes
 - [ ] Documentation updated as needed