Description

Turns out my fix in #4912 was incomplete
I missed a second spot where the path gets canonicalized.

The absolute_path() method I added does the right thing, but Workspace::from_manifests() was still calling
dunce::canonicalize() directly on the manifest path before computing the workspace root.

This PR makes the workspace code use absolute_path() instead, which actually fixes the dotfiles workflow I
was trying to support in the first place.

I added a test that specifically verifies the workspace root ends up in the right place when using a
symlinked manifest but happy to remove or consolidate somehow (could use guidance here) if thats better.

Fixes the remaining issue from #4907.

How Has This Been Tested?

$ /home/clay/git/forks/pixi/target/pixi/release/pixi --version
pixi 0.60.0-fix-symlink-9942be0f

$ ls -la ~/pixi.toml
lrwxrwxrwx - clay  3 Dec 18:52 /home/clay/pixi.toml -> /home/clay/dotfiles/pixi.toml

$ /home/clay/git/forks/pixi/target/pixi/release/pixi run python -c "import sys; print('sys_executable', sys.executable); print('sys_exec_prefix', sys.exec_prefix)"
sys_executable /home/clay/.pixi/envs/default/bin/python
sys_exec_prefix /home/clay/.pixi/envs/default

AI Disclosure

• This PR contains AI-generated content.
  • I have tested any AI-generated content in my PR.
  • I take responsibility for any AI-generated content in my PR.

Tools: Claude Opus 4.5

Checklist:

• I have performed a self-review of my own code
• I have commented my code, particularly in hard-to-understand areas
• I have made corresponding changes to the documentation
• I have added sufficient tests to cover my changes.
• I have verified that changes that would impact the JSON schema have been made in schema/model.py.