Eric Martz wrote:
Dear Bob,
Please add these to the manual (or corrected/improved versions if
these are not quite right/clear).
RESTRICT
For wireframe and backbone, "restrict" unconditionally follows "set
bondmode or", thereby ignoring the actual "set bondmode" setting. That
is, it unconditionally hides bonds (or backbone rods) connecting to
all atoms not included in the restricted set.
[Presently under RESTRICT it says: "NOTE: This command cannot be
reversed without reloading the model!". As far as I understand, this
is incorrect and should be removed. That is, "restrict not x" followed
by "select x; {display}" re-displays x.]
right, thanks. Will do.
SET BONDMODE
The bondmode setting applies only to the wireframe and backbone displays.
I've added something a bit more specific:
AND: When script commands affect a set of atoms, BOTH atoms must be in
the set for the bonds also to be affected. Similarly affects the display
of backbone units in the selection of protein residues and nucleic acid
bases.
OR: When script commands affect a set of atoms, EITHER atom may be in
the set for the bonds also to be affected. Similarly affects the display
of backbone units in the selection of protein residues and nucleic acid
bases.
BACKBONE
The "backbone" command obeys the bondmode setting (see "set bondmode").
I revised:
Shows the backbone of a protein or nucleic acid macromolecule by
connecting the alpha carbons. The selection of backbone units to display
depends upon the currently selected atoms and the {#.set (bond
styles)~bondmode} setting.
Bob Hanson
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