[Chimera-users] imod model viewing

David G. Morgan dmorgan at ucdavis.edu
Tue May 8 16:33:40 PDT 2007


Thanks.  That makes perfect sense.

                    David Gene Morgan
             University of California at Davis
                       530 754 6891

-----Original Message-----
From: Tom Goddard [mailto:goddard at cgl.ucsf.edu]
Sent: Tue 5/8/2007 4:31 PM
To: David G. Morgan
Cc: 'Chimera BB'
Subject: Re: imod model viewing
Hi David,

  The Chimera IMOD model file reader only handles the meshes in the 
file.  My guess is that the file you made does not contain meshes.  
Maybe it only has contour lines for the spheres.  Or maybe the file 
format can contain geometric primitives like spheres without contour 
lines or meshes being specified.  I don't know enough about IMOD to be


David G. Morgan wrote:
> Tom,
> I was trying to use the new IMOD file reader and must be doing
> foolish.  I downloaded the newest chimera snapshot release (1.2392)
> the imod.zip file and made a new installation.  I can load my IMOD
> volume into chimera without any trouble.  I then "opened" the IMOD
> file (it opened as an "IMOD segmentation" type).  That works without
> trouble, but I don't ever see the model.  Even trying to use "focus"
> bring it into the field of view gives me a blank field.
> It's possible that my model is the wrong type - I'm playing with
> in preparation for needing to do something fancy, so I simply created
> set of spheres of different colors and different radii in IMOD, saved
> that model and tried to read it into chimera.  I thought I'd simply be
> able to read this into chimera and see a couple of spheres, but I
> I'm sure I'm doing something silly, but figured I'd bother you while I
> play around with it.
>                     David Gene Morgan
>              University of California at Davis

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