feat: Add pixi to the template

[YurelyCamacho]

Pull Request description

Edit and create files needed to add pixi to the template

Fixes #262

Pull Request checklists

This PR is a:

• bug-fix
• new feature
• maintenance

About this PR:

• it includes tests.
• the tests are executed on CI.
• the tests generate log file(s) (path).
• pre-commit hooks were executed locally.
• this PR requires a project documentation update.

[xmnlab]

My impression is that it should be pixi install

[xmnlab]

Also here, i guess that it should be pixi install ..

[xmnlab]

https://github.com/osl-incubator/scicookie/actions/runs/10016410500/job/27689312914#step:5:5566

Not sure why it is not finding pyproject.toml .. maybe it is missing som pixi table in the pyproject.toml

[YurelyCamacho]

@xmnlab Can you help me with this please.

[xmnlab]

@YurelyCamacho , this is the error in the log:

/home/runner/work/scicookie/scicookie/tests/smoke/base.sh: line 102: ipython: command not found

that happens because pixi doesn't install the dependencies in the current environment, it creates an isolated environment for that.

so you need to activate the environment first or execute it with the pixi run command:

• https://pixi.sh/latest/features/environment/#activation
• https://pixi.sh/latest/features/environment/#traditional-conda-activate-like-activation

It is not encouraged to use the traditional conda activate-like activation, as deactivating the environment is not really possible.

so I would go with pixi run approach. In the past we used something similar for hatch, so you can use the same approach: 32704a5#diff-1c8f1585e21b07c45bdfaa5e9e131567e4c361fbae1a7fc2498a60ba061d70ddR43

[YurelyCamacho]

@xmnlab I used the approach you told me about in the previous comment and the same error remains. I also changed your suggestion of cargo build to pixi install and also python -m build and it didn't work. I made other changes based on hatch and it doesn't work either (for example, I changed pixi install to pip install “.[dev]” in the base.sh).

[YurelyCamacho]

@xmnlab I can't run the tests locally because I keep getting the error I told you before about mamba, and I have it installed in the environment

[xmnlab]

@xmnlab I can't run the tests locally because I keep getting the error I told you before about mamba, and I have it installed in the environment

let me know if you want a quick call to check that together.

about the current error on ci, the COMMAND_PREFIX is just to run the other commands with pixi run ... but you still need to install the dependencies .. so maybe with pip install should do the trick .. so you need to have both

[YurelyCamacho]

@xmnlab Yes, tomorrow would be good to verify that. What time can you do it?
I'll see if what you told me works, thanks.