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linsalrob/ComputationalGenomicsManual · Linux/AWS_SAGC2021_Setup.sh:229
export PATH=$PATH:/usr/local/bin
# check superfocus
which superfocus
# if this doesn't work, don't proceed!
mkdir ~/superfocus
cd ~/superfocus
FDIR=$(which superfocus | sed -e 's#bin/superfocus$#lib/python3.8/site-packages/superfocus_app/db/#')
curl -LO https://edwards.sdsu.edu/SUPERFOCUS/downloads/conda/diamond_v3/90_clusters.db.dmnd.zip
mkdir -p $FDIR/static/diamond
unzip -d $FDIR/static/diamond 90_clusters.db.dmnd.zip
if [ ! -e $FDIR/database_PKs.txt ]; then curl -Lo $FDIR/database_PKs.txt https://edwards.sdsu.edu/SUPERFOCUS/downloads/database_PKs.txt; fi
mkdir -p $FDIR/tmp
chmod 777 $FDIR/tmp/