diff --git a/images/picard/Dockerfile b/images/picard/Dockerfile index 753d5efe..64e0c3e2 100644 --- a/images/picard/Dockerfile +++ b/images/picard/Dockerfile @@ -31,14 +31,15 @@ RUN wget -qO- https://micro.mamba.pm/api/micromamba/linux-64/latest | \ tar -xvj -C /usr/local/bin --strip-components=1 bin/micromamba && \ chmod +x /usr/local/bin/micromamba -# Install samtools, gcloud-sdk, and the Java Runtime (JRE) +# Install samtools, gcloud-sdk, R, and the Java Runtime (JRE) # We use 'openjdk' here because the JAR needs a Java environment to run. RUN mkdir -p ${MAMBA_ROOT_PREFIX} && \ micromamba install -y --prefix ${MAMBA_ROOT_PREFIX} \ -c bioconda -c conda-forge \ samtools \ google-cloud-sdk \ - openjdk=17 && \ + openjdk=17 \ + r-base && \ micromamba clean --all --yes # Copy the JAR from the builder stage and set up the entrypoint script