phamer.build

. ./tools.config

set -e

if [ ! -f ${PREFIX}/bin/diamond ]; then
    bash diamond.build
fi

if [ ! -f ${PREFIX}/bin/prodigal ]; then
    bash prodigal.build
fi

if [ ! -f ${PREFIX}/bin/python3 ]; then
    bash python.build
fi


pip3 install --upgrade pip
pip3 install torch pandas numpy 

git clone https://github.com/KennthShang/PhaMer.git
cd PhaMer

chmod 755 PhaMer_preprocessing.py PhaMer.py

sed -i "s,/usr/bin/env python3,${PREFIX}/bin/python3,g" PhaMer_preprocessing.py
sed -i "s,/usr/bin/env python3,${PREFIX}/bin/python3,g" PhaMer.py

mkdir -p ${PREFIX}/lib/phamer/
install -g ${GROUP} *.py ${PREFIX}/lib/phamer/

cd ..
rm -rf PhaMer