RStudio version is out of date

[gavin-k-lee]

• The current RStudio version is pinned at 1.2.5042 but the latest is 1.4.
  

  renkulab-docker/docker/r/Dockerfile

  Line 33 in 7df1a72

  ENV RSTUDIO_VERSION 1.2.5042

• There are a few nice upgrades, for example using renv instead of packrat as the default package manager.

• The fix would need testing.

[gavin-k-lee]

There does not yet seem to be a reliable fix - but it is a (well) known issue now: see
2i2c-org/upstream#12

[TaoSunVoyage]

If you want to use RStudio 1.4.x, you need to set the RSESSION_PROXY_RSTUDIO_1_4 environment variable. This adds additional parameters to the execution of server.

https://github.com/jupyterhub/jupyter-rsession-proxy

[TaoSunVoyage]

I built an image st714/test:bioc with jupyter-rsession-proxy=1.4, RStudio=1.4.1717, R=4.1.0, bioc=3.13

I tested this image in two situations:

• go to RStudio from JupyterLab
• go to RStudio by changing the endpoint from /lab to /rstudio

Locally, both worked.

In Renkulab (JupyterHub):

• Clicking RStudio button in JupyterLab redirected to https://renkulab.io/auth-sign-in?appUri=%2F (404 error)
• Changing the endpoint from /lab to /rstudio/auth-sign-in?appUrl=%2Fworked, which is a kind of workaround

There is soon going to be a release of jupyter-rsession-proxy to fix the issue with RStudio1.4, see jupyterhub/jupyter-rsession-proxy#97 and jupyterhub/jupyter-rsession-proxy#107.

I built another image st714/test:bioc-fix with this fix jupyterhub/jupyter-rsession-proxy#107 and there seemed to be no critical issue.

Suggest we wait for the new release of jupyter-rsession-proxy.