--- trunk/tengDissertation/Methodology.tex 2006/06/11 03:11:06 2856 +++ trunk/tengDissertation/Methodology.tex 2006/06/16 01:53:48 2864 @@ -206,13 +206,9 @@ relaxation of the temperature to the target value. To \end{equation} In eq.(\ref{eq:nosehooverext}), $\tau_T$ is the time constant for -relaxation of the temperature to the target value. To set values -for $\tau_T$ or $T_{\mathrm{target}}$ in a simulation, one would use -the {\tt tauThermostat} and {\tt targetTemperature} keywords in the -{\tt .bass} file. The units for {\tt tauThermostat} are fs, and the -units for the {\tt targetTemperature} are degrees K. The -integration of the equations of motion is carried out in a -velocity-Verlet style 2 part algorithm: +relaxation of the temperature to the target value. The integration +of the equations of motion is carried out in a velocity-Verlet style +2 part algorithm: {\tt moveA:} \begin{align*}