gatk4 to tb-profiler container

Pathogen-Genomics-Cymru · Jan 11, 2024 · 84f137d · 84f137d
1 parent 3d266f5
commit 84f137d
Showing 1 changed file with 1 addition and 0 deletions.
diff --git a/docker/Dockerfile.tbprofiler-0.9.8 b/docker/Dockerfile.tbprofiler-0.9.8
@@ -36,6 +36,7 @@ RUN apt-get update && apt-get install -y --no-install-recommends \
 # install tb-profiler via bioconda; install into 'base' conda env
 RUN micromamba install --yes --name base --channel conda-forge --channel bioconda  \
     tb-profiler=${TBPROFILER_VER} && \
+    micromamba install -c bioconda -c conda-forge gatk4 && \
     micromamba clean --all --yes
 
 # hardcode 'base' env bin into PATH, so conda env does not have to be "activated" at run time