Redirecting from an issue I filed on the RStudio issues tracker:
I have a docker image on which I'm running RStudio Server (as well as some other things). Essential details I believe are:
- Docker is using a persistent mount of my home directory (in particular the
.rstudio
config folder is persistent across Docker images) - After docker image is created, a run is triggered of a
bootstrap.sh
script which is where RStudio Server is started viagdebi
of a persistent.deb
file - The Docker image installs
conda
R; I don't have as much control over the details of theDockerfile
.bootstrap.sh
is where GNU R and my package library are installed.
At some point in this admittedly messy setup, something happens to RStudio Server that prevents rJava
from configuring correctly & the initial instance is doomed. No amount of restarting or R CMD javareconf
can save it.
However, after the bootstrap.sh
script runs, if I rstudio-server stop
and then restart, the problem goes away.
I suspect there are some stale files being cached in my .rstudio
folder; if I could identify these and include an rm
of them in my bootstrap.sh
folder, I think all would be well.
(I could also just rm -rf .rstudio
but that would mean tossing the baby with the bathwater -- that folder also keeps my Global Options
such as visual theme)
Any ideas of what might be causing the issue? Here are the contents of that folder:
ls -hl .rstudio/
total 36K
-rw-r--r-- 1 michael.chirico michael.chirico 3 Sep 17 07:01 addin_registry
drwxrwxr-x 2 michael.chirico michael.chirico 130 Sep 17 07:01 client-state
drwxr-xr-x 2 michael.chirico michael.chirico 58 Sep 17 06:37 console06
drwxr-xr-x 2 michael.chirico michael.chirico 6 Sep 17 07:01 ctx
drwxr-xr-x 4 michael.chirico michael.chirico 42 Sep 7 07:54 dictionaries
-rw-r--r-- 1 michael.chirico michael.chirico 15K Sep 17 06:29 history_database
drwxr-xr-x 6 michael.chirico michael.chirico 82 Sep 7 07:51 monitored
drwxr-xr-x 2 michael.chirico michael.chirico 31 Sep 7 07:51 notebooks
drwxrwxr-x 2 michael.chirico michael.chirico 140 Sep 17 07:01 pcs
-rw-r--r-- 1 michael.chirico michael.chirico 442 Sep 17 06:27 persistent-state
drwxr-xr-x 2 michael.chirico michael.chirico 6 Sep 7 07:51 presentation
drwxr-xr-x 2 michael.chirico michael.chirico 6 Sep 7 07:51 profiles-cache
drwxr-xr-x 2 michael.chirico michael.chirico 59 Sep 17 03:51 projects_settings
drwxr-xr-x 2 michael.chirico michael.chirico 86 Sep 7 07:56 rversion-settings
-rw-r--r-- 1 michael.chirico michael.chirico 27 Sep 17 07:01 saved_source_markers
drwxr-xr-x 3 michael.chirico michael.chirico 20 Sep 7 07:51 sessions
drwxr-xr-x 4 michael.chirico michael.chirico 35 Sep 17 04:03 sources
sources
folder seemed pretty promising... Are internals documented somewhere where I could check what each of these objects/folders is intended for?