For some reason, my initial post did not show up on the Jmol list, so
I am sending the initial post again to try to clarify the follow up
and request that DID reach the list...
***************** Initial post was : *********************
I'm finding that in Jmol 11.1.12, measures do not appear when called
in a script, and disappear from the applet when made manually (with
the mouse), as soon as they are made.
That is, double-click an atom, you get the pink "rubberband" dotted
measure line, double-click the second atom, and the measurement
disappears.
Here's the console output with set debugscript ON, for a manual
measurement:
[NA]401.NA #2451 -1.163 58.771 -12.03
measurePending: 1.588 nm
measurePending: 1.178 nm
[ILE]279:A.CA #2020 -10.405 65.385 -8.938
measurePending: 1.178 nm
script 12 started
measure ( atomIndex = 2449 ) ( atomIndex = 2019 )
measureCompleted: [2, 2449, 2019, 1.178 nm]
Script completed
Jmol script terminated
But no measurement appears in the applet.
By accident, I did get a measurement to show up, as follows:
Double-click an atom, single click the second atom; pause, then
double-click the second atom.
Frieda
******************* Follow up was: *********************
OK, I find that if I display the atoms in spacefill at 50% the
monitor lines appear. The problem with the monitors not appearing was
a monitor between two alpha carbons that were in a cartoon display. I
can get around this by displaying the atoms at a small spacefill
size, but it would be nice if monitors showed up when alpha carbons
are measured in cartoon displays. Particularly when using the mouse,
it's kind of unnerving to have the line be there when measuring and
then simply disappear when clicking to finish. Would it be simple to
change this behavior?
Frieda
///////////////////////////////////////////
Frieda Reichsman, PhD
Molecules in Motion
Interactive Molecular Structures
http://www.moleculesinmotion.com
///////////////////////////////////////////
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