Avoid adding conda on system env variable

Question

Avoid adding conda on system env variable

Closed this issue a year ago · 5 comments

Having to add conda on the systen env is a little bit annoying. It should be possible to do as @lacan does in QuPath and @jytinevez does in trackmate: simply specifying the python executable location should be enough to execute a background task on the proper conda env.

This needs to be tested ideally on all platform, and with or without gpu (grmpflm rogntudju).

This change may be a little annoying for bwd compatibility... Ideally we find a way to fix the wrong path automatically.

Also: it should be possible to get rid of the disctinction between conda and venv with this modification.

Potentially expected pitfalls: if the env needs to override system env variable, it could be that running the python executable skips this part. Hopefully there's a chance that we don't care.

Answer 1 · 2023-10-15T16:39:48.000Z

When implementing this for DeepSlice, it seems that I get this kind of error:
https://stackoverflow.com/questions/36778066/importerror-dll-load-failed-when-importing-numpy-installed-in-conda-virtual-env

maybe the option is to add the msvc_runtime in the conda env. Not sure

Answer 2 · 2023-10-15T16:40:44.000Z

And I can't even conda install msvc_runtime in the deepslice env

Answer 3 · 2023-10-15T17:37:27.000Z

cf https://stackoverflow.com/questions/36778066/importerror-dll-load-failed-when-importing-numpy-installed-in-conda-virtual-env

Answer 4 · 2023-10-16T22:02:51.000Z

Small modification done in ad8f6e7
This will allow overriding the conda location in the abba installer

Answer 5 · 2023-12-22T12:38:09.000Z

This does not work because activating the conda env does more than simply executing python, it also sets some env variables. DeepSlice does not work outside conda activate for instance. (ping @lacan)