Add uv support alongside pixi - #1
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matthiaskoenig wants to merge 1 commit into
Open
matthiaskoenig wants to merge 1 commit into
matthiaskoenig wants to merge 1 commit into
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Mirror the pixi dependency set in pyproject.toml so the tutorials can also be run with uv, and document both workflows in the README. - pyproject.toml: declare the conda and pypi dependencies from pixi.toml as PyPI requirements, pinned to the same lower bounds; add .python-version - pyproject.toml: exclude tutorials/ from ruff and ty. marimo notebooks are not valid plain Python (top-level `async with app.setup()`), so they are linted with `marimo check` instead - tutorials/: assign the micropip bootstrap to a dummy variable, fixing the `error[branch-expression]` reported by `marimo check` in poincare_intro, simbio_intro and analysis - README.md: split the local setup into pixi and uv sections - .gitignore: ignore .venv/ and uv.lock Co-Authored-By: Claude Opus 5 <noreply@anthropic.com> Claude-Session: https://claude.ai/code/session_01JDjggCk5H5pJrUWb2b9ENV
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Adds a
pyproject.tomlso the tutorials can be run with uv as well as pixi. Nothing about the pixi workflow changes —pixi.toml,pixi.lockandpixi run openare untouched.What's in here
uv environment.
pyproject.tomlmirrors the dependency set frompixi.toml, with the conda-side packages declared as their PyPI equivalents (python-libsbml,pylatex) and the same lower bounds..python-versionpins 3.13.uv.lockand.venv/are gitignored.Both verified working locally.
A
marimo checkfix.poincare_intro.py,simbio_intro.pyandanalysis.pyeach reported:The playground
micropipbootstrap was the last statement in the setup cell, so marimo tried to render its result as the cell output. Applying marimo's own suggestion (_ = await micropip.install(...)) clears it.io.pywasn't affected — it has adefafter theif— but got the same treatment so all four setup cells match.marimo checkis now clean on all four notebooks.Linter config.
tutorials/is excluded from ruff and ty inpyproject.toml. The notebooks are valid marimo but not valid plain Python — the top-levelasync with app.setup()that marimo generates makes ty reportinvalid-syntax, which isn't suppressible per-rule.marimo checkis the right linter for these files.README. Local setup split into
## pixiand## uvsections.🤖 Generated with Claude Code
https://claude.ai/code/session_01JDjggCk5H5pJrUWb2b9ENV