Add pixi support for multiple platforms

[mkitti]

Add multiple platform pixi support including for Windows.

To install pixi do the following:

curl -fsSL https://pixi.sh/install.sh | bash

The procedure to run and install the code is then as follows:

git clone [email protected]:janelia-cellmap/cellmap-segmentation-challenge.git
cd cellmap-segmentation-challenge
git checkout win-64-pixi
pixi install
pixi run csc

If you wanted to a shell similar to activating a conda environment:

pixi shell
csc

[rhoadesScholar]

• Add the pixi install to the docs as the main suggestion, keeping micromamba as an alternative

[mkitti]

I posted the revised README here:
https://github.com/mkitti/cellmap-segmentation-challenge/blob/win-64-pixi/README.md

I think we should defer GPU support and autocompletion support to a different pull request as both require more extensive testing.

[rhoadesScholar]

See request about activitating pixi environment.

[rhoadesScholar]

@mkitti Can you give the specific line to "activate" the pixi environment that was just created, so they can use it just like a mamba environment (i.e. so that the rest of the instructions are still accurate)? Thanks!

[rhoadesScholar]

Is it simply pixi shell csc?

[mkitti]

It's just pixi shell as I wrote. This will look for the local pyproject.toml and "activate" the environment based on that.

[mkitti]

Although I see there is an issue with fastremap at the moment. I'll try to address that in an hour.

[mkitti]

@rhoadesScholar Just checking in. I resolved the issue I was seeing with fastremap.

To clarify, to "activate" the environment, you have first cd cellmap-segmentation-challenge and then run pixi shell.

There's another way which is to execute the following in the shell.

eval "$(pixi shell-hook)"
csc

See more information here:
https://pixi.sh/dev/features/environment/#activation

[rhoadesScholar]

Re: conversation with @mkitti
He will investigate possibility of pixi global install such that csc <COMMAND> can be successfully executed from anywhere without activating a virtual environment, on Windows, Mac, and Linux. :)

[rhoadesScholar]

Re: conversation with @mkitti He will investigate possibility of pixi global install such that csc <COMMAND> can be successfully executed from anywhere without activating a virtual environment, on Windows, Mac, and Linux. :)

any movement on this @mkitti?

[mkitti]

I have not worked on it over the last week.

Setting up the global install is going to be quite a bit of work because it essentially means we have to package the project itself for conda.