runIndex.sh

#!/bin/bash

for i in receptor/*.pdb; do
        name=`echo $i | cut -d'/' -f2 | cut -d'.' -f1`
        echo $name
        ./activation_index.py -structure $i -chain X -muscle ./muscle3.8.31_i86linux64
        -TM1_50 86
        -TM2_50 114
        -TM3_50 165
        -TM4_50 192
        -TM5_50 244
        -TM6_50 295
        -TM7_50 333 -v > $name.txt
done