Select Git revision
prepare_namelist.py
ubuntu-cuda-opencl-openmpi.def 15.86 KiB
Bootstrap: debootstrap
MirrorURL: http://us.archive.ubuntu.com/ubuntu
OSVersion: xenial
%labels
APPLICATION_NAME ubuntu + cuda + opencl + openmpi
APPLICATION_VERSION 16.04 + 9.2.88 + 16.1.2 + 1.8.4
APPLICATION_URL https://software.intel.com/en-us/articles/opencl-drivers#latest_CPU_runtime
SYSTEM_NAME comet
SYSTEM_SINGULARITY_VERSION 2.6.1
SYSTEM_URL http://www.sdsc.edu/support/user_guides/comet.html
SINGULARITY_IMAGE_SIZE 8192
AUTHOR_NAME Marty Kandes
AUTHOR_EMAIL mkandes@sdsc.edu
LAST_UPDATED 20190814
%setup
%environment
# Set system locale
export LC_ALL=C
# Set paths to CUDA binaries and libraries
export PATH="/usr/local/cuda-9.2/bin${PATH:+:${PATH}}"
export LD_LIBRARY_PATH="/usr/local/cuda-9.2/lib64${LD_LIBRARY_PATH:+:${LD_LIBRARY_PATH}}"
export LD_LIBRARY_PATH="${LD_LIBRARY_PATH}:/usr/local/cuda/extras/CUPTI/lib64"
# Set paths to OpenMPI binaries and libraries
export PATH="/opt/openmpi-1.8.4/bin:${PATH}"
export LD_LIBRARY_PATH="/opt/openmpi-1.8.4/lib:${LD_LIBRARY_PATH}"
# Set default miniconda environment
export PATH="/opt/miniconda3/bin:${PATH}"
%post -c /bin/bash
# Set system locale
export LC_ALL=C
# Install system metapackages
apt-get -y install ubuntu-standard
apt-get -y install ubuntu-server
# Add repositories
add-apt-repository -y "deb ${MIRRORURL} ${OSVERSION} main"
add-apt-repository -y "deb ${MIRRORURL} ${OSVERSION} universe"
add-apt-repository -y "deb ${MIRRORURL} ${OSVERSION} multiverse"
add-apt-repository -y "deb ${MIRRORURL} ${OSVERSION} restricted"
add-apt-repository -y "deb ${MIRRORURL} ${OSVERSION}-updates main"
add-apt-repository -y "deb ${MIRRORURL} ${OSVERSION}-updates universe"
add-apt-repository -y "deb ${MIRRORURL} ${OSVERSION}-updates multiverse"
add-apt-repository -y "deb ${MIRRORURL} ${OSVERSION}-updates restricted"
add-apt-repository -y "deb ${MIRRORURL} ${OSVERSION}-backports main"
add-apt-repository -y "deb ${MIRRORURL} ${OSVERSION}-backports universe"
add-apt-repository -y "deb ${MIRRORURL} ${OSVERSION}-backports multiverse"
add-apt-repository -y "deb ${MIRRORURL} ${OSVERSION}-backports restricted"
add-apt-repository -y "deb ${MIRRORURL} ${OSVERSION}-security main"
add-apt-repository -y "deb ${MIRRORURL} ${OSVERSION}-security universe"
add-apt-repository -y "deb ${MIRRORURL} ${OSVERSION}-security multiverse"
add-apt-repository -y "deb ${MIRRORURL} ${OSVERSION}-security restricted"
# Upgrade all packages to their latest versions
apt-get -y update && apt-get -y upgrade
# Install common packages from 'main'
apt-get -y install autoconf
apt-get -y install automake
apt-get -y install build-essential
apt-get -y install cmake
apt-get -y install libtool
apt-get -y install gfortran
apt-get -y install pkg-config
apt-get -y install wget
apt-get -y install zip
# Install expect to automate responses for interactive build questions
apt-get -y install expect
# Make filesystem mount points
mkdir /cvmfs /oasis /projects /scratch
# Use /tmp to store temporary files within the container during the
# bootstraping process
cd /tmp
# Install miniconda2
wget https://repo.continuum.io/miniconda/Miniconda2-latest-Linux-x86_64.sh
chmod +x Miniconda2-latest-Linux-x86_64.sh
./Miniconda2-latest-Linux-x86_64.sh -b -p /opt/miniconda2
# Install miniconda3
wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh
chmod +x Miniconda3-latest-Linux-x86_64.sh
./Miniconda3-latest-Linux-x86_64.sh -b -p /opt/miniconda3
# Location of NVIDIA repositories
declare -r NVIDIA_ROOT_URL='http://developer.download.nvidia.com/compute'
declare -r CUDA_REPO_URL="${NVIDIA_ROOT_URL}/cuda/repos/ubuntu1604/x86_64"
declare -r ML_REPO_URL="${NVIDIA_ROOT_URL}/machine-learning/repos/ubuntu1604/x86_64/"
# Install NVIDIA package dependencies
apt-get -y install x11-common
apt-get -y install xserver-xorg-core
apt-get -y install xserver-xorg-legacy
apt-get -y install cmake
apt-get -y install make
apt-get -y install dkms
apt-get -y install linux-libc-dev
apt-get -y install libc6-dev
apt-get -y install lib32gcc1
apt-get -y install libc6-i386
apt-get -y install libgl1
apt-get -y install libwayland-client0
apt-get -y install libwayland-server0
apt-get -y install pkg-config
apt-get -y install screen-resolution-extra
apt-get -y install libvdpau1
apt-get -y install libatk1.0-0
apt-get -y install libcairo-gobject2
apt-get -y install libcairo2
apt-get -y install libfontconfig1
apt-get -y install libgdk-pixbuf2.0-0
apt-get -y install libgtk-3-0
apt-get -y install libgtk2.0-0
apt-get -y install libjansson4
apt-get -y install freeglut3-dev
apt-get -y install libx11-dev
apt-get -y install libxmu-dev
apt-get -y install libxi-dev
apt-get -y install libglu1-mesa
apt-get -y install libglu1-mesa-dev apt-get -y install default-jre
# Download NVIDIA drivers, libraries, and packages
wget --wait=10 "${CUDA_REPO_URL}/nvidia-396_396.26-0ubuntu1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/nvidia-396-dev_396.26-0ubuntu1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/nvidia-modprobe_396.26-0ubuntu1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/libcuda1-396_396.26-0ubuntu1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/nvidia-libopencl1-396_396.26-0ubuntu1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/nvidia-opencl-icd-396_396.26-0ubuntu1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/libxnvctrl0_396.26-0ubuntu1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/nvidia-settings_396.26-0ubuntu1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-drivers_396.26-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-license-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-misc-headers-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-nvcc-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-cuobjdump-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-nvprune-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-compiler-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-core-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-cudart-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-driver-dev-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-cudart-dev-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-nvdisasm-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-gdb-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-nvprof-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-memcheck-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-cupti-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-gpu-library-advisor-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-nvtx-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-command-line-tools-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-nvrtc-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-nvrtc-dev-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-nvml-dev-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-nvgraph-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-nvgraph-dev-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-cusolver-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-cusolver-dev-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-cublas-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-cublas-dev-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-cufft-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-cufft-dev-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-curand-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-curand-dev-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-cusparse-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-cusparse-dev-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-npp-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-npp-dev-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-samples-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-documentation-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-nsight-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-nvvp-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-visual-tools-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-tools-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-libraries-dev-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-toolkit-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-libraries-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-runtime-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${CUDA_REPO_URL}/cuda-demo-suite-9-2_9.2.88-1_amd64.deb"
wget --wait=10 "${ML_REPO_URL}/libcudnn7_7.2.1.38-1+cuda9.2_amd64.deb"
wget --wait=10 "${ML_REPO_URL}/libcudnn7-dev_7.2.1.38-1+cuda9.2_amd64.deb"
wget --wait=10 "${ML_REPO_URL}/libnccl2_2.3.4-1+cuda9.2_amd64.deb"
wget --wait=10 "${ML_REPO_URL}/libnccl-dev_2.3.4-1+cuda9.2_amd64.deb"
# Fix for "update-alternatives: error: error creating symbolic link '/usr/lib/nvidia/alternate-install-present.dpkg-tmp': No such file or directory"
mkdir -p /usr/lib/nvidia
# Install NVIDIA drivers, libraries, and packages dpkg -i nvidia-396_396.26-0ubuntu1_amd64.deb
dpkg -i nvidia-396-dev_396.26-0ubuntu1_amd64.deb
dpkg -i nvidia-modprobe_396.26-0ubuntu1_amd64.deb
dpkg -i libcuda1-396_396.26-0ubuntu1_amd64.deb
dpkg -i nvidia-libopencl1-396_396.26-0ubuntu1_amd64.deb
dpkg -i nvidia-opencl-icd-396_396.26-0ubuntu1_amd64.deb
dpkg -i libxnvctrl0_396.26-0ubuntu1_amd64.deb
dpkg -i nvidia-settings_396.26-0ubuntu1_amd64.deb
dpkg -i cuda-drivers_396.26-1_amd64.deb
dpkg -i cuda-license-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-misc-headers-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-nvcc-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-cuobjdump-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-nvprune-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-compiler-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-core-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-cudart-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-driver-dev-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-cudart-dev-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-nvdisasm-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-gdb-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-nvprof-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-memcheck-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-cupti-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-gpu-library-advisor-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-nvtx-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-command-line-tools-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-nvrtc-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-nvrtc-dev-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-nvml-dev-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-nvgraph-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-nvgraph-dev-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-cusolver-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-cusolver-dev-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-cublas-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-cublas-dev-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-cufft-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-cufft-dev-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-curand-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-curand-dev-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-cusparse-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-cusparse-dev-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-npp-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-npp-dev-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-samples-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-documentation-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-nsight-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-nvvp-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-visual-tools-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-tools-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-libraries-dev-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-toolkit-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-libraries-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-runtime-9-2_9.2.88-1_amd64.deb
dpkg -i cuda-demo-suite-9-2_9.2.88-1_amd64.deb
dpkg -i libcudnn7_7.2.1.38-1+cuda9.2_amd64.deb
dpkg -i libcudnn7-dev_7.2.1.38-1+cuda9.2_amd64.deb
dpkg -i libnccl2_2.3.4-1+cuda9.2_amd64.deb
dpkg -i libnccl-dev_2.3.4-1+cuda9.2_amd64.deb
# Set paths to CUDA binaries and libraries
export PATH="/usr/local/cuda-9.2/bin${PATH:+:${PATH}}"
export LD_LIBRARY_PATH="/usr/local/cuda-9.2/lib64${LD_LIBRARY_PATH:+:${LD_LIBRARY_PATH}}"
export LD_LIBRARY_PATH="${LD_LIBRARY_PATH}:/usr/local/cuda/extras/CUPTI/lib64"
# Location of Intel repository
declare -r INTEL_ROOT_URL='http://registrationcenter-download.intel.com'
# Install generic OpenCL packages
apt-get -y install ocl-icd-libopencl1
apt-get -y install opencl-headers
apt-get -y install clinfo
apt-get -y install ocl-icd-opencl-dev
# Install packages for turing rpm into deb
apt-get -y install rpm
apt-get -y install alien
apt-get -y install libnuma1
# Download OpenCL runtime rpm, convert to deb, then install
wget "${INTEL_ROOT_URL}/akdlm/irc_nas/12556/opencl_runtime_16.1.2_x64_rh_6.4.0.37.tgz"
tar -xzf opencl_runtime_16.1.2_x64_rh_6.4.0.37.tgz
cd opencl_runtime_16.1.2_x64_rh_6.4.0.37/rpm
fakeroot alien --to-deb opencl-1.2-base-6.4.0.37-1.x86_64.rpm
fakeroot alien --to-deb opencl-1.2-intel-cpu-6.4.0.37-1.x86_64.rpm
dpkg -i opencl-1.2-base_6.4.0.37-2_amd64.deb
dpkg -i opencl-1.2-intel-cpu_6.4.0.37-2_amd64.deb
# Add path to clinfo
echo '/opt/intel/opencl-1.2-6.4.0.37/lib64/clinfo' > /etc/ld.so.conf.d/intelOpenCL.conf
# Create a vendors dir and add intel.icd
mkdir -p /etc/OpenCL/vendors
ln /opt/intel/opencl-1.2-6.4.0.37/etc/intel64.icd /etc/OpenCL/vendors/intel64.icd
ldconfig
# Test OpenCL installation
clinfo
# Install basic drivers for user space access to Ethernet, RDMA,
# and Infiniband. See https://community.mellanox.com/docs/DOC-2431
apt-get -y install dkms
apt-get -y install infiniband-diags
apt-get -y install libibverbs-dev
apt-get -y install ibacm
apt-get -y install librdmacm-dev
apt-get -y install libmlx4-dev
apt-get -y install libmlx5-dev
apt-get -y install mstflint
apt-get -y install libibcm-dev
apt-get -y install libibmad-dev
apt-get -y install libibumad-dev
apt-get -y install opensm
apt-get -y install srptools
# Install additional tools
apt-get -y install ibutils
apt-get -y install ibverbs-utils
apt-get -y install rdmacm-utils
apt-get -y install perftest
apt-get -y install numactl
apt-get -y install libnuma-dev
# Install libnl
apt-get -y install libnl-3-200
apt-get -y install libnl-route-3-200
apt-get -y install libnl-route-3-dev
apt-get -y install libnl-utils
# Install OpenMPI dependencies
apt-get -y install zlib1g-dev
# Download, build, and install CUDA-aware OpenMPI
wget https://www.open-mpi.org/software/ompi/v1.8/downloads/openmpi-1.8.4.tar.gz tar -xzvf openmpi-1.8.4.tar.gz
cd openmpi-1.8.4
./configure --prefix=/opt/openmpi-1.8.4 --with-cuda
make all install
# Update database for mlocate
updatedb
%files
%runscript
echo " "
echo " __________________ __ _______________ "
echo " -----/ ____/ __ \/ |/ / ____/_ __/ "
echo " --/ / / / / / /|_/ / __/ / / "
echo " / /___/ /_/ / / / / /___ / / "
echo " \____/\____/_/ /_/_____/ /_/ "
echo " "
%test