The select command has been enhanced in Chimera and now has dual functions. The newer function is selection. The older function is activation for motion with commands or the mouse.
The newer function of select is selection of atoms and/or surface models. The atom-spec can specify any combination of atoms and surfaces; a blank specification selects all. The effect of "select atom-spec" on an existing selection depends on the selection mode. ~Select removes the specified atoms from the selection regardless of selection mode.
select #1- select all atoms and bonds in model 1
~select :/isHelix- deselect any atoms in amino acid residues in helices
See also: namesel, arrow key shortcuts
The original function of select is indicated by use of the keyword all or the absence of a pound sign # before model_number(s). This function, now usually called activation, is to enable models to move in response to mouse manipulations or movement commands such as move and turn. The activation status of models can also be controlled in the Model Panel or by toggling the boxes under the Command Line.
The model_number(s) argument should be one or more model numbers or ranges separated by commas, not preceded by #. The keyword all indicates that all models should be activated. ~Select all will then revert to the previous activation state. This feature is convenient for switching back and forth between moving models relative to one another and global motion of all models.
select 1,5-8- activate models 1 and 5 through 8 for motion
See also: split, movie-related commands