build: configure ruff from pyproject.toml (#1100)

# What does this PR do?

- Remove hardcoded configurations from pre-commit.
- Allow configuration to be set via pyproject.toml.
- Merge .ruff.toml settings into pyproject.toml.
- Ensure the linter and formatter use the defined configuration instead
of being overridden by pre-commit.

Signed-off-by: Sébastien Han <seb@redhat.com>

[//]: # (If resolving an issue, uncomment and update the line below)
[//]: # (Closes #[issue-number])

## Test Plan
[Describe the tests you ran to verify your changes with result
summaries. *Provide clear instructions so the plan can be easily
re-executed.*]

[//]: # (## Documentation)

Signed-off-by: Sébastien Han <seb@redhat.com>

llama_stack/providers/inline/agents/meta_reference/safety.py

@@ -41,7 +41,7 @@ class ShieldRunnerMixin:
                 for identifier in identifiers
             ]
         )
-        for identifier, response in zip(identifiers, responses):
+        for identifier, response in zip(identifiers, responses, strict=False):
             if not response.violation:
                 continue