peptide.colvars
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			# collective variable example: monitor distances

			colvarsTrajFrequency 10 # output every 10 steps
			colvarsRestartFrequency 100

			colvar {
			name groups_distance

			outputSystemForce no
			outputAppliedForce yes

			distance {
			group1 {
			atomNumbers 1 2 3
			}
			group2 {
			atomNumbers 4 5 6
			}
			}
			}

			harmonic {
			name h_pot
			colvars groups_distance
			centers 1.78
			targetCenters 5.0
			targetNumSteps 300
			targetNumStages 0
			forceConstant 1000.0
			}

lammps/examples/USER/colvars/peptide.colvars82a43ae07818master