Open LinearParadox opened 7 months ago
Setting up the environment is handled by {basilisk}, so that would need to be handled there https://github.com/LTLA/basilisk.
I think the latest version of conda now uses mamba by default so it might be enough to update that within {basilisk}.
Happy to take a PR to update the default miniconda version. Though I tried to do that last time and the BioC build machines kept timing out, so that would have to be resolved.
Just seeing this now. I'd like to help move this forward. Using the 3.18 bioconductor_docker container, I see that the miniconda version used by basilisk is
https://repo.anaconda.com/miniconda/Miniconda3-py39_4.12.0-Linux-x86_64.sh
What is a preferred Miniconda version for use in 3.19? We will try to establish a PR and prepare the build system so that a timeout does not occur.
I think we'd basically want to go to whatever the latest is - based on https://repo.anaconda.com/miniconda/, it seems to be py311_23.11.0-2
. Probably need to discuss this on Slack to notify all maintainers, because there's a non-zero chance that everything breaks, and people would probably want a heads-up.
The mamba solver is much faster than the default conda solver and would likely speed up the building environment step. Is it possible to support at least a toggle for this?