[Bioc-devel] Announcing Docker containers for Bioconductor
----- Original Message -----
From: "Elena Grassi" <grassi.e at gmail.com> To: bioc-devel at r-project.org Sent: Thursday, January 8, 2015 5:11:50 AM Subject: Re: [Bioc-devel] Announcing Docker containers for Bioconductor Thanks, this is really useful and I was looking forward to it after having used rocker! I have a strange (ok, at least to me :) ) issue concerning volumes. On a machine (debian testing/unstable up to date) everything works smoothly when I do something like: data at decoder:~$ docker run -v /home/data/Dropbox/work/ matrix/mr_bioc/matrix_rider/:/opt/matrix_rider -p 8787:8787 9f40f8036ad4 (in /home/data/Dropbox/work/matrix/mr_bioc/matrix_rider/ I have a Rstudio project)
What image is 9f40f8036ad4? Why are you not using the user/repository name for the image? Is it a rocker image or a Bioconductor image?
The same command on another machine (more or less the same debian as before) leads me to being unable to open the project with Rstudio as long as the directory is not writeable. The only relevant difference seems to be my user UID which is 1000 on the first machine but different on the other one. I tried to use -e as suggested here https://github.com/rocker-org/rocker/wiki/Sharing-files-with-host-machine with no luck. Does anyone more docker-savy than me have a suggestion? (maybe the volumes approach is not the best one here).
Note that Rstudio Server runs as a user called rstudio, not necessarily a privileged user. So the directory you are trying to mount should probably be writable (and readable) by all. so try chmod -R a+rw /home/data/Dropbox/work/matrix/mr_bioc/matrix_rider/ Dan
Thanks, E. p.s. sorry Dan for the first mail sent only to you
_______________________________________________ Bioc-devel at r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel