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Containers

Ivan Jacob Agaloos Pesigan

Source: vignettes/containers.Rmd
containers.Rmd

Docker and Apptainer are required to build the containers described below.

Apptainer/Singularity Image File

The simulation was performed using the Apptainer/Singularity manctmed.sif image file. The image is a linux container with the manCTMed package and all the dependencies pre-installed.

To build the Apptainer/Singularity image file (manctmed.sif), run the following.

apptainer pull manctmed.sif docker://ijapesigan/manctmed:latest

NOTE: For complete reproducibility of the software stack, the actual manctmed.sif used in the simulations can be requested from the maintainer of this GitHub repository.

RStudio IDE Docker Container

To facilitate exploration of the package, we created a Docker container based on the Rocker Project. The manCTMed package and all the dependencies are pre-installed and can be accessed in the browser using the Rstudio IDE.

Run

To launch Rstudio Server, run the following.

docker run --rm -ti -e PASSWORD=yourpassword -p 127.0.0.1:8787:8787 ijapesigan/manctmed

Open http://localhost:8787 on your web browser to launch Rstudio Server.

  • username: rstudio
  • password: yourpassword