Command List

Command usage of jV follows that of Rasmol with some modifications. In the following part, command arguments that can take an arbitrary value are denoted as for example, arguments restricted to several possible values are listed with / as a delimiter, and arguments that can be omitted are put in brackets {}.

anim
anim forward { } Starts animation forward. If the is given, just move frames forward by the specified amount.

anim backward { } Starts animation backward. If the is given, just move frames backward by the specified amount.

anim stop Stops animation.

animframe
animframe {} Sets the frame of all animation files for the specified value. When  is given, only the specified file is processed.

animmode
animmode once Sets the behavior of animation for 'once'. When the frame reaches the last one, animation is stopped.

animmode loop Sets the behavior of animation for 'loop'. When the frame reaches the last one, animation is reset to the first frame and continues playing.

animmode swing Sets the behavior of animation for 'swing'. When the frame reaches the last one, the direction of animation is reversed.

animrange
animrange - {} Sets the range of all animation files. When is given, only the specified file is processed.

animselect
animselect {-a/-r}  Selects the specified files and makes the others not selected. More than one file IDs can be specified by putting commas as the delimiter. When the option -a or -r is specified, only the selection status of the specified files are modified, selected or not selected, respectively, and the others remain unchanged.

animspeed
animspeed Sets the animation speed. The argument should be an integer value from 1 to 20.

animstep
animstep {} Sets the step of all animation files for the specified value. When  is given, only the specified file is processed.

backbone
backbone {on/true} Turns on the selected backbone bonds.

backbone off/false Turns off the selected backbone bonds.

backbone Turns on the selected backbone bonds with the specified raidus (angstrom or Rasmol unit). The maximum parameter value is 2.0.

background
background Changes the background color. The color may be given as RGB values [r,g,b], or predefined color names.

cartoon
cartoon {on/true} Turns on the thick ribbons for the selected residues.

cartoon off/false Turns off the thick ribbons for the selected residues.

cartoon  Turns on the thick ribbons for the selected residues with the specified half width (angstrom or Rasmol unit). The maximum parameter value is 4.0.

center
center {-r/-s} {} Sets the center of rotation and the center of the screen to the center of a group of atoms specified by the atom expression. When the option -r or -s is specified, only the center of rotation or the center of the screen is modified, respectively.

center {-r} [x, y, z] Moves the center of rotation and the center of the screen from the current position by the specified amount. When the option -r is specified, only the center of rotation is modified.

center {-r} {x, y, z} Sets the center of rotation and the center of the screen to the specified coordinates. When the option -r is specified, only the center of rotation is modified.

center -s [x, y] Moves the center of the screen from the current position by the specified amount.

center -s {x, y} Sets the center of the screen to the specified coordinates.