rbioc
- Docker RStudio sever with Bioconductor
git clone
git clone https://github.com/achiral/rbioc.git
change directory
cd ./rbioc
edit template
edit Dockerfile
- change Docker image (ex.
bioconductor/bioconductor_docker=>FROM docker-ID/docker-image:latest) - install R packages (see below exampe codes)
RUN install2.r pkgname1 pkgname2
RUN Rscript -e "install.packages('vector_of_package_names')"
RUN Rscript -e 'BiocManager::install("vector_of_package_names")'
edit docker-compose.yml
- rename Docker image (ex.
image: docker-ID/docker-image:latest)
user approval
- change password password:
pw=><your_password> - delete environment option:
- DISABLE_AUTH=false=>true(without password sign in)
docker compose
docker-compose up --build -d
run RStudio from web browser
localhost:8787(rstudio/pw (default) or <your_password>)
stop docker container
docker-compose stop
restart docker container
docker-compose start without update
docker-compose up --build -d with update
copy file from host to container
docker cp <host directory> <container name>:<container ditectory>
copy file from container to host
docker cp <container name>:<container directory> <host directory>