Container usage

For a quick introduction to running PETFit with Docker or Apptainer, see the Quick start. This section covers advanced container options, CLI reference, and HPC integration.

PETFit provides Docker and Apptainer container images that bundle all dependencies. Both use the same command-line arguments and produce identical results.

• Docker — best for desktops and cloud servers. See Docker.

• Apptainer (formerly Singularity) — best for HPC clusters and shared systems. See Apptainer.

• Docker
  • Getting the image
  • Docker wrapper
  • Interactive mode
  • Automatic mode
  • Command-line options
  • Mount points
  • Port configuration
  • File permissions on Linux
• Apptainer
  • Building the container
  • Simplified workflow: the petfit alias
  • Interactive mode
  • Automatic mode
  • HPC integration
  • Volume mounting
  • Troubleshooting