# input and output filenames

outputName         output/smd

set inputname      ../../system/eq
binCoordinates     $inputname.coor
binVelocities      $inputname.vel
extendedSystem     $inputname.xsc

set firsttime      0;                     # restart time

source             ../../system/glpt.inp; # other namd input parameters

# colvar script
colvars            on
colvarsConfig      colvars.conf

# simulation time = 4ns
run                2000000