Regression, broken parsing of pyproject.toml

[akhmerov]

Checks

• I have checked that this issue has not already been reported.

• I have confirmed this bug exists on the latest version of pixi, using pixi --version.

Reproducible example

mkdir tmp && cd tmp
pixi self-update # Version 0.40.1
wget https://gitlab.kwant-project.org/qt/pymablock/-/raw/main/pyproject.toml
pixi install

Issue description

pyproject.toml file parsing seems broken in latest pixi.

The reproduction script above produces

Error: 
  × failed to parse project from tmp/pyproject.toml: duplicate key: `lint`

The same pyproject.toml used to be correctly parse by pixi ~0.39.0 😢

Expected behavior

Parsing works 😭 (no other tools complain about the file content)

[baszalmstra]

This is caused by EmbarkStudios/toml-span#8 .

Ill see if I can fix it there!

[baszalmstra]

A workaround for the issue for now is to not use dotted syntax and table syntax at the same time:

[tool.ruff.lint]
extend-select = [
  "N",
  "D",
  "W",
  "I",
  "T10",
  "Q",
  "RSE",
  "RET",
  "TCH",
  "INT",
  "ARG",
  "R",
  "FLY",
  "RUF",
]
ignore = [
"N802",  # invalid-function-name
"N803",  # invalid-argument-name
"N806",  # non-lowercase-variable-in-function
]
fixable = ["ALL"]
unfixable = []

[tool.ruff.lint.extend-per-file-ignores]
"pymablock/block_diagonalization.py" = [
  "RET503",  # implicit-return
  "RET504",  # unnecessary-assign
]