update versions of miniconda and rstudio

[bgruening]

No description provided.

[bgruening]

This PR really just bumps the RStudio version and the Miniconda version.

I think the ie2 branch was the latest? Thats what I based it on and thats why the diff looks so odd.

@hexylena who do you want to proceed?

• We should rename master to main at some point.
• add some CI testing (maybe https://github.com/usegalaxy-eu/docker-divand/tree/main/.github/workflows)

[bgruening]

The last commit adds some larger restructuring.

• It uses miniforge
• activate the mamba solver by default for conda
• it removed some deps that are hopefully not needed anymore
• and it removed nginx - it seems we have not used nginx in the last release at all

I'm unsure about the PROXY_PREFIX and if this is still needed for other deployments than EU, ORG ...

The container is available here https://quay.io/repository/galaxy/docker-rstudio-notebook

[bgruening]

Its deployed on EU, if you would like to test - verson 0.3

[hexylena]

The last commit adds some larger restructuring.

very cool!

[hexylena]

I guess there's still some ongoing work to align with the Bioconductor folks, but that will probably take some more time, so, we go with this now.

[hexylena]

I'm unsure about the PROXY_PREFIX and if this is still needed for other deployments than EU, ORG ...

if we want path based proxying to work, it probably needs to be supported somehow, but I guess that's a discussion with Sveinung