[Chimera-users] Volume Eraser with "erase outside" shortcut

[JOHN FLANAGAN]

Thanks, I think that I figured it out.
CheersJohn

On Thu, Mar 21, 2019 01:48 PM, "chimera-users at cgl.ucsf.edu BB"
<chimera-users at cgl.ucsf.edu> wrote:
>
Hi John,
>I could not reproduce your problem:  I opened a map, started Volume Eraser and
>moved the sphere, and then used command “ac eo” and it erased the density
>outside of the sphere.  (The “ac” command allows using shortcuts
>without switching into that mode, but otherwise should be the same as using
>“eo” by itself when you are in shortcut mode.)
><http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/ac.html>
>
>Otherwise I can only suggest to doublecheck what Juraj suggests.  You can see
>which map models are present and show/hide them with the Model Panel (open
>from Favorites menu), and the “active” or “current” map is the one
>with name highlighted in the Volume Viewer dialog.
><http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/modelpanel.html>
><http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/volumeviewer/framevolumeviewer.html>
>
>I hope this helps,
>Elaine
>-----
>Elaine C. Meng, Ph.D.
>UCSF Chimera(X) team
>Department of Pharmaceutical Chemistry
>University of California, San Francisco
>
>> On Mar 21, 2019, at 7:02 AM, Ahel,Juraj <juraj.ahel at imp.ac.at> wrote:
>> 
>> Hi John,
>> 
>> this tends to work reliably normally, but sometimes it happens you trick yourself into thinking it's not working, usually when you have multiple densities loaded. Make sure that you:
>> 
>> 1) have the right density active when you do the erasing
>> 2) don't have other overlapping densities visible (typically a copy of the same density, since the erasing procedure generates a copy it works on rather than working on the loaded original) Since they are identical, you wouldn't notice that your erased volume has changed.
>> 
>> Best
>> 
>> J
>> From: Chimera-users <chimera-users-bounces at cgl.ucsf.edu> on behalf of JOHN FLANAGAN <jmf27 at psu.edu>
>> Sent: Thursday, March 21, 2019 1:04 PM
>> To: UCSF Chimera Mailing List
>> Subject: [Chimera-users] (no subject)
>>  
>> Hi
>>   I was trying to use the volume eraser to remove density outside of a sphere on my em map.  When I enabled keyboard shortcuts and then used the shortcut command eo what I got back was an identical copy to the original, i.e. no erasure.  If I used es then everything in the circle was erased as expected.  Am I missing something?
>> 
>> Cheers
>> John
>> 
>> John M. Flanagan PhD.
>> Professor
>> Department of Biochemistry and Molecular Biology
>> Penn St. College of Medicine
>> Milton Hershey Medical Center
>> Hershey PA, 17033
>
>
>
>
>

John M. Flanagan PhD.
Professor
Department of Biochemistry and Molecular Biology
Penn St. College of Medicine
Milton Hershey Medical Center
Hershey PA, 17033



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