[Chimera-users] Chimera ac Im command not working

[Tom Goddard]

Hi Wayne,

  Chimera crashes usually are caused by graphics driver bugs or running out of memory.  How large is your map?

  By the way, we stopped developing Chimera more than 6 years ago and you would be better off using ChimeraX which is the modern version of Chimera which we actively develop.

	Tom

> On Aug 26, 2022, at 4:51 AM, Wayne Lim <wayne.lim at student.manchester.ac.uk> wrote:
> 
> Dear Tom,
> 
> I just tried this and over multiple times chimera 1.6 crashed and returned this error message:
> 
> chimera exited abnormally, the exit code was: -1073741819
> 
> Not sure why it's doing that, any ideas as to what that code means?
> 
> BW,
> 
> Wayne
> From: Tom Goddard <goddard at sonic.net>
> Sent: Thursday, August 25, 2022 11:50 PM
> To: Wayne Lim <wayne.lim at student.manchester.ac.uk>
> Cc: chimera-users at cgl.ucsf.edu <chimera-users at cgl.ucsf.edu>
> Subject: Re: [Chimera-users] Chimera ac Im command not working
>  
> Hi Wayne,
> 
>   I guess you mean you tried the current Chimera version 1.16.  To change the sign of the map values use command
> 
> vop scale #0 factor -1
> 
> I don't know what is wrong if the graphics is black after that, but I would start looking at the histogram in the Volume Viewer window and see if the yellow brightness curve is in the right place.  Below is an image with Chimera 1.16 and map EMDB 1273 showing the histograms for the original and inverted map and it displays correctly on my Mac.
> 
> Tom
> 
> <invertmap.png>
>> On Aug 25, 2022, at 8:39 AM, Wayne Lim via Chimera-users <chimera-users at cgl.ucsf.edu <mailto:chimera-users at cgl.ucsf.edu>> wrote:
>> 
>> Dear Chimera team,
>>  
>> I am using Chimera to view the surface pane of my TEM images in attempts to see the features of the image in 3D. Since I stained it positively, I have to invert the map values so I can properly view it under “surface”. However, when I do so in Chimera 1.5, it displays an “unexpected python error”. When tried in Chimera 1.6, the result is simply a black screen. I am stumped as to how to solve this issue. A colleague of mine done it and I followed the same procedure he has done, but to no avail.
>>  
>> Best,
>> 
>> Wayne 
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