BEAST 2 Docker and Apptainer

Docker and Apptainer setup for the BEAST 2 software

Table of contents

• BEAST 2 Docker and Apptainer
• Table of contents
• Docker
• Apptainer

Docker

Pull the Docker image:

./workspace/scripts/pull.sh 

Run BEAST2:

cd workspace
./scripts/run.sh examples/testRNA.xml

Run BEAST2 with BEAGLE:

cd workspace
./scripts/run.sh -beagle -beagle_SSE -beagle_CPU -threads 4 examples/testRNA.xml

Apptainer

Build the Apptainer image:

./workspace/scripts/apptainer_build.sh 

Run BEAST2:

./beast2.sif workspace/examples/testRNA.xml

Run BEAST2 with BEAGLE:

./beast2.sif -beagle -beagle_SSE -beagle_CPU -threads 4 workspace/examples/testRNA.xml