I am running the following project Renku and hit this warning > ls() character(0) Warning message: R graphics engine version 14 is not supported by this version of RStudio. The Plots tab will be disabled until a newer version of RStudio is installed. And indeed, when plotting > plot(1:10) I don…

Hello @lgatto , we are still waiting for jupyterhub to fix this issue in order to make rsession work properly in jupyterhub. I create another image st714/test:bioc-fix with RStudio=1.4.1717 , R=4.1.0 , bioc=3.13 and an unreleased version of jupyterhub-rsession-proxy. This image works on RenkuLab. Y…

@lgatto I am looking into how to update Rstudio and get past this error. I will post here again once I have a solution.

Hi @lgatto I see that you switched to using the renkulab image called renkulab-bioc:RELEASE_3_13-c1b18cb in your project. However this is not yet officially supported in renku - what you got there is just a development build that we used to test. Official images will not have a string of 7 random ch…

Thank you for getting back to me @tolevski . I understand the technical difficulties of keeping up with third party changes on top of all the great work you already do. I just want to highlight that it is important for R/Bioconductor users to have access to the latest version of Bioconductor, which …

Hi @lgatto , I’m not well-versed with the entire R ecosystem and I haven’t looked into this myself. However if this is a problem with the Jupyterhub based authentication of the user sessions as described by @tolevski , then we’re not talking about us keeping up with upstream changes, but rather two f…

@lgatto the reported authentication problem was actually somewhat of a red herring. docker.io/ableuler/renkulab-r:rstudio-fix should contain the current versions of r and rstudio. Can you confirm that? If yes, we should be able to release a new version of our base image which works with what’s curre…

Thanks @andreas - I’m assuming that the test implies setting FROM ableuler/renkulab-r:rstudio-fix in my Dockerfile. This is running not and I’ll let you know here how it turns out.

Sorry, I might have jumped to conclusions too quickly. While it’s quite easy to make such an image work locally (what I did above), it doesn’t yet work in a JupyterHub context. So it looks like we have to wait until this issue is resolved and there’s a new release of the jupyter rsession proxy. @tao…

Ok, thanks. And I assume that to test locally, I need to have a local renku installation, right? docker run ableuler/renkulab-r:rstudio-fix fatal: repository '//renku-env.git' does not exist find: ‘/tmp/renku-env’: No such file or directory Error: `.` is not a renku repository. To initialize this a…

No, by testing locally I mean running the image in docker directly, eg docker run --rm -ti -p 8888:8888 ableuler/renkulab-r:rstudio-fix start-notebook.sh --ip=0.0.0.0

RStudio version too old

RenkuLab

lgatto 18 August 2021 13:33 5

Hello - I was wondering if there was any update on this front? Thanks!

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RStudio version too old

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