VMD User's Guide

short circuit logic, 72, 75sleepcommand, 118, 120sourcecommand, 89spaceballdriver, 11, 27MacOS X, 27Unix, 27Windows, 27modes, 27using, 27stage, 37command, 113, 120startup files, 26, 173, 176stereomode, 82cross-eyed, 82CrystalEyes, 83DTI side-by-side, 82scanline interleaved, 82side-by-side, 82off, 81parameters, 37, 83, 96, 97stop rotation, 36stride, 12surf, 12surfacemolecular, 65solvent accessible, 65Tachyon, 13Tcl, 90tclcommands,90textdisplayed, 99Tk, 90toolCAVE, 49command, 113, 120form, 48FreeVR, 49Spaceball, 49VRPN, 49tools, 50topology files, 20trajectorydraw multiple frames, 42, 110files, 20read, 34smoothing, 42, 110, 141write, 31transPython module, 141translatecommand, 114, 120translationchange atom coordinates, 160using mouse, 24transparency, 39unit cell information, 43universal sensor locator, 49usercommand, 114, 120user interfacespython, 124text, 89USL, 49variablesenv, 173, 176M PI, 153trace, 118vector commandcoordtrans, 153vecadd, 147veccross, 149vecdist, 149vecdot, 148vecinvert, 150veclength, 149veclength2, 149vecmean, 148vecnorm, 149vecscale, 148vecstddev, 148vecsub, 147vecsum, 148vectrans, 153veczero, 147vector routines, 147view, 107viewing modes185