Update samtools to 1.18 and include Python dill package (#119)

Dill is required in order to run Hail Python jobs on this image.
populationgenomics · Nov 17, 2023 · dd256fd · dd256fd
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commit dd256fd
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Showing 2 changed files with 3 additions and 3 deletions.
diff --git a/images.toml b/images.toml
@@ -22,7 +22,7 @@ reviewer_bw2 = '0.2.7-bw2-fork-0.2'
 saige-qtl = '1bdfe8408a17f7da8b0453a697a867f412f48bcc'
 sambamba = '1.0.1'
 samblaster = '0.1.26'
-samtools = '1.16.1'
+samtools = '1.18'
 scanpy = '1.9.3'
 somalier = '0.2.15'
 star = '2.7.10b'

diff --git a/images/samtools/Dockerfile b/images/samtools/Dockerfile
@@ -2,13 +2,13 @@ FROM debian:buster-slim
 
 ENV MAMBA_ROOT_PREFIX /root/micromamba
 ENV PATH $MAMBA_ROOT_PREFIX/bin:$PATH
-ARG VERSION=${VERSION:-1.16.1}
+ARG VERSION=${VERSION:-1.18}
 
 RUN apt-get update && apt-get install -y git wget bash bzip2 zip && \
     rm -r /var/lib/apt/lists/* && \
     rm -r /var/cache/apt/* && \
     wget -qO- https://api.anaconda.org/download/conda-forge/micromamba/0.8.2/linux-64/micromamba-0.8.2-he9b6cbd_0.tar.bz2 | tar -xvj -C /usr/local bin/micromamba && \
     mkdir ${MAMBA_ROOT_PREFIX} && \
     micromamba install -y --prefix ${MAMBA_ROOT_PREFIX} -c bioconda -c conda-forge \
-    samtools=${VERSION} google-cloud-sdk && \
+    samtools=${VERSION} google-cloud-sdk dill && \
     rm -r /root/micromamba/pkgs