[chimerax-users] cxc script does not execute 'surface dust' command

[Tom Goddard]

Hi Joel,

  I changed ChimeraX so when it is executing a script it updates the volume surfaces immediately instead of waiting for graphics drawing.  So your original script will work in tonight's ChimeraX builds.

	Tom

> On Apr 7, 2020, at 10:37 AM, Tom Goddard <goddard at sonic.net> wrote:
> 
> Hi Joel,
> 
>   The trouble is ChimeraX does not recompute map surfaces until they are displayed, and during a script they are not displayed.  Adding the command "volume #2 calculateSurface true" will fix it:
> 
> close all
> open map.mrc
> turn x 90
> volume erase #1 center 175,160,314 radius 100 outside true
> volume #2 calculateSurface true
> surface dust #2 size 40
> 
> This is really cryptic.  I'll see if I can make ChimeraX calculate the volume surfaces immediately when it is running in a script.  The calculateSurfaces option is described in the documentation but you would never know to look for it.
> 
> 	https://www.rbvi.ucsf.edu/chimerax/docs/user/commands/volume.html#calculateSurfaces <https://www.rbvi.ucsf.edu/chimerax/docs/user/commands/volume.html#calculateSurfaces>
> 
>   Tom
> 
> 
>> On Apr 7, 2020, at 7:09 AM, Joel Meyerson <jrm2008 at med.cornell.edu <mailto:jrm2008 at med.cornell.edu>> wrote:
>> 
>> Hi,
>> I am observing inconsistent behavior in the ‘surface dust’ command. When I launch ChimeraX and execute the following commands one-by-one at the command line everything works as expected. However, if I place the commands in a cxc script, then double click the script ChimeraX launches and the script executes, but the ‘surface dust’ command does not hide the dust. In addition, within that same session I can then enter the ‘surface dust’ command manually and it works as expected. I’m running ChimeraX Daily 0.93 (2020-04-04) on Mac OS 10.15.1.
>>  
>> Do you know why the command is not working inside a script?
>>  
>> close all
>> open map.mrc
>> turn x 90
>> volume erase #1 center 175,160,314 radius 100 outside true
>> surface dust #2 size 40
>>  
>> Thanks for the help.
>> Joel
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