VMD User's Guide

• kill: Disconnect from the simulation and also cause it to halt.• pause < on | off | toggle >: Pause, unpause or toggle the paused state of the remotesimulation.• transfer rate: Set the rate at which new coordinates are sent by the remote simulation toVMD to the specified value.• keep rate: Set the keep rate, i.e. the frequency at which VMD saves simulation frames tomemory, to the specified value.8.3.13 labelTurn on or off labels for the four categories: atoms, bonds, angles, or dihedral angles; create anddestroy simulated springs. Once a label is created (given the list of associated atoms) it can beturned on or off until it is deleted. Also, the value of the label over the trajectory can be saved toa file and viewed with an external program such as xmgrace. In the following, category implies oneof [Atoms—Bonds—Angles—Dihedrals].• list: Return a list of available categories.• list category: List all labels in the given category.• add category molID1/atomID1 [ molID2/atomID2... ]: Add a label involving the atom(s)atomID of the molecule molID to the given category.• show category < all | label number >: Turn on labels in the given category.• hide category < all | label number >: Turn off labels in the given category.• delete category < all |label number>: Delete labels in the given category.• graph category label number [filename]: Retrieve the values of the labels for all timesteps.If the optional filename is given, the data will be written to that file; otherwise it will bereturned as a list. You can use the Tcl exec command to launch an external graphing programto plot the data if you wish.• addspring molID1 atomID1 atomID2 k: Add a spring connecting the atom(s) atomID andatomID2 of the molecule molID. The spring will have spring constant k.• textsize [newsize]: Get/set the text size for all labels, which is 1.0 by default. newsize shouldbe a decimal value greater than zero.8.3.14 lightThere are four light sources, numbered 0 to 3, which are used to illuminate graphical objects. Theyare point sources located at infinity, so setting their positions places them along a ray from theorigin through the given point.• num: Return the number of lights available.101