#!/bin/bash

# extraction paths
EXTRACT_PATH=/home/nvander/Documents/Optis/extract
EXTRACT_RES=$EXTRACT_PATH/res

# opti path
OPTI_PATH=/home/nvander/Documents/Optis/coman_nico/workR/Optis

# remove the old 'res' folder
if [ -d $EXTRACT_RES ]; then
	rm -rf $EXTRACT_RES
fi

# create the 'res' folder
mkdir $EXTRACT_RES

# loop on all the inputs
for var in "$@"
do
	# remove the main folder (old results)
	if [ -d $EXTRACT_RES/$var ]; then
		rm -rf $EXTRACT_RES/$var
	fi

	# create folders
	mkdir $EXTRACT_RES/$var
	mkdir $EXTRACT_RES/$var/inputs
	mkdir $EXTRACT_RES/$var/results

	# copy inputs
	cp $OPTI_PATH/$var/$var.1.db $EXTRACT_RES/$var/inputs/
	cp $OPTI_PATH/$var/OptiParams.cc $EXTRACT_RES/$var/inputs/

	# extract results
	python biorob_res_extract.py $var
done
