Instructions for running [ops-experiments](https://github.com/imagej/ops-experiments) deconvolution on EC2

build_and_run_ops_decon.sh

# These instructions were used to create a CUDA 9.1 compatible EC2 instance for the sake of 
# running experiments with [imagej-ops-experiments]([ops-experiment](https://github.com/imagej/ops-experiments) 
# deconvolution algorithms (via YacuDecu)

# Step 1) Create Instance
# Start instance for image: https://aws.amazon.com/marketplace/pp/B07BFSMQ32
# - Choose p2.xlarge type
# - Make sure to have at least 30G of disk space

# Step 2) Install Java/Maven
sudo apt-get install default-jdk
sudo apt-get install maven

# Step 3) Install CUDA Toolkit 9.1
## From instructions to install CUDA Toolkit 9.1 (https://developer.nvidia.com/cuda-downloads?target_os=Linux&target_arch=x86_64&target_distro=Ubuntu&target_version=1604&target_type=deblocal)
wget https://developer.nvidia.com/compute/cuda/9.1/Prod/local_installers/cuda-repo-ubuntu1604-9-1-local_9.1.85-1_amd64
mv cuda-repo-ubuntu1604-9-1-local_9.1.85-1_amd64 cuda-repo-ubuntu1604-9-1-local_9.1.85-1_amd64.deb
sudo dpkg -i cuda-repo-ubuntu1604-9-1-local_9.1.85-1_amd64.deb
sudo apt-get update
sudo apt-get install cuda
cat <<EOF > ~/.bash_profile
export LD_LIBRARY_PATH=/usr/local/cuda-9.1/lib64\\
                         \${LD_LIBRARY_PATH:+:\${LD_LIBRARY_PATH}}
export PATH=/usr/local/cuda-9.1/bin\${PATH:+:\${PATH}}
EOF
source ~/.bash_profile

# Step 4) Clone ops-experiments and build
cd ~/; mkdir repos; cd repos; git clone https://github.com/imagej/ops-experiments
cd ~/repos/ops-experiments/ops-experiments-cuda
mvn install

# Step 5) Run the deconvolution test
mvn exec:java -Dexec.mainClass="net.imagej.ops.experiments.filter.deconvolve.InteractiveCudaDeconvolveTest" -P gpu 2>&1 | grep -i "total execution"
# > [INFO] Total execution time (decon) is: 2981
# > [INFO] Total execution time cuda (decon+overhead) is: 10554