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Variant List Optimizer

Setting up Conda and Conan

We use Conda for managing Python dependencies and Conan for managing C++ dependencies. Please use this link to set up Conda and Conan on Rivanna.

Installing variant-list-optimizer on Rivanna

Allocate a new compute node to do the setup.

srun -A bii_nssac -p bii --nodes=1 --ntasks-per-node=1 --cpus-per-task=40 --mem=0 -W 0 -t 1-00:00:00 --pty /bin/bash

Checkout the variant-list-optimizer code and run the setup script.

# Checkout variant-list-optimizer and install it
# along with rest of the dependencies with pip.
cd $HOME
git clone https://github.com/NSSAC/variant-list-optimizer.git
cd variant-list-optimizer
./scripts/rivanna.sh setup

Running the test script

./scripts/rivanna.sh test