Pre-commit options in pyproject.toml should be committed first

Description

When modifying the pyproject.toml file to add special options for pre-commit, those options are not taken into account until the pyproject.toml has been committed.

Example

[tool.ruff]  
line-length = 120  
indent-width = 4  
target-version = "py311"  
extend-unsafe-fixes = ["D"]  
  
[tool.ruff.lint]  
ignore = [  
    # Use `.to_numpy()` instead of `.values` (even when not referring to a pandas DataFrame)  
    "PD011"
]

before commit:

ruff.....................................................................Failed
- hook id: ruff
- exit code: 1
 
test.py:5:23: PD011 Use `.to_numpy()` instead of `.values`