stan-cmdstanr-gpu-docker
Table of Contents
Introduction
A Docker image to run Stan, cmdstanr, and brms for Bayesian statistical modelling - with GPU support.
Launch an RStudio webserver using bash stan_up.sh.
Execute bash docker_pull.sh to pull the image.
To convert the image into an Apptainer image, run bash apptainer_pull.sh.
Stan
The following packages are installed during the image build process:
- Stan
- rstan
- rstanarm
- cmdstan
- brms
- posterior
- tidybayes
- bayesplot
- posterior
- rstantools
- projpred
- shinystan
The brms_within_chain_parallelization.R script can be executed within the Docker container to evaluate whether within-chain parallelization, CmdStan, brms, and OpenCL are working properly.
Docker
This Docker image extends from rocker/tidyverse. Click this link for more information about the Rocker project.
Running the Docker container will launch an RStudio web server. You can access RStudio by visiting localhost:$R_STUDIO_PORT on your web browser. See .env for the defined environment variables.
Running docker-compose will bind a volume, mapping the container’s home directory to a local r_home directory.
See the Dockerfile for the instructions executed during the build of the Docker image.
View docker-compose.yaml to see the definition for the Stan service.