Tom, I'm still trying to puzzle things out. There is an IMOD command that takes a model file and turns it into a mesh. When I run this on my model that was simple spheres, the starting and final files are identical and I still can't see anything in chimera. When I started with a more complex model (still a mix of spheres but also some contours), the conversion has an effect at the level of the binary data. However, I still don't see anything in chimera. I'm attaching that model to this e-mail. Can you take a look and make sure that your chimera also will not display it? I've renamed the file from "model.mod" to "model.doc" in the hope that if you have spam filters on your end, this will pass through the filters - around here, we can hardly trade work related files because of the filters! Also, if you can share the model you showed here Friday, would it be possible for you to e-mail it to me? Thanks for the help. David Gene Morgan University of California at Davis 530 754 6891 -----Original Message----- From: Tom Goddard [mailto:goddard@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 sure. Tom David G. Morgan wrote:
Tom,
I was trying to use the new IMOD file reader and must be doing something foolish. I downloaded the newest chimera snapshot release (1.2392) and 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 model 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" to 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 chimera in preparation for needing to do something fancy, so I simply created a 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 don't. 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