WorkingDir /root

/root

PATH=/usr/local/parabricks:/usr/local/nvidia/bin:/usr/local/cuda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/cuda/bin

DEBIAN_FRONTEND=noninteractive if test -e /usr/local/parabricks/binaries/bin/collectmultiplemetrics ; then python3 -m pip install matplotlib ; fi

DEBIAN_FRONTEND=noninteractive if test -e /usr/local/parabricks/TiedHash.pm ; then mv /usr/local/parabricks/TiedHash.pm /etc/perl/ ; fi

LD_LIBRARY_PATH=/usr/local/parabricks/binaries/lib:/usr/local/parabricks/binaries/deepvariant_libs:/usr/local/parabricks/binaries/tensorrt_libs:/usr/local/nvidia/lib:/usr/local/nvidia/lib64

DEBIAN_FRONTEND=noninteractive wget https://developer.download.nvidia.com/compute/nvcomp/3.0.5/local_installers/nvcomp_3.0.5_SBSA_12.x.tgz -O /tmp/nvcomp_3.0.5_SBSA_12.x.tgz &&
  tar -xzf /tmp/nvcomp_3.0.5_SBSA_12.x.tgz --directory /tmp &&
  cp --recursive /tmp/nvcomp-3.0.5-ctk-12.2/lib/* /usr/local/parabricks/binaries/lib &&
  rm -rf /tmp/*

DEBIAN_FRONTEND=noninteractive apt-get update &&
  apt-get install --no-install-recommends -y wget less yasm vim python3 python3-distlib python3-pip zlib1g libbz2-1.0 liblzma5 perl libtcmalloc-minimal4 libisal2 libjemalloc-dev libboost-filesystem1.74.0 libboost-program-options1.74.0 libboost-iostreams1.74.0 libboost-system1.74.0 libcufile-dev-12-2 gds-tools-12-2 bcftools samtools libgomp1

TZ=America/New_York

DEBIAN_FRONTEND=noninteractive