Hi Matt, If you meant you don't want to show each command's effect separately, you can show only the combined result by putting commands together with semicolons (and this is usually done inside a Chimera command script file). For example, disp :ala rep sphere :ala color red :ala would display alanines, change them to spheres, color them red in separate steps, whereas with the following, disp :ala; rep sphere :ala; color red :ala the alanines would appear as red spheres in a single step. Chimera command scripts are just plain text files that contain the exact same commands you could enter at the Chimera Command Line. Here is more information on Chimera command files, including exqmples: <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/indexcommand.html#cmdfile
I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco On May 14, 2010, at 11:47 PM, Tom Goddard wrote:
Hi Matt, Not sure what you mean by "all my commands show during the movie". Your second problem sounds like part of the image is corrupted and that is most likely a graphics driver problem causing the saved images to be wrong. You might want to try a Chimera daily build instead of the Chimera 1.4.1 production release because the daily builds use a different image capture method that may work better on your machine.
You might also look at the 2009 movie course material which is more up-to-date than the 2008 material.
http://www.cgl.ucsf.edu/chimera/tutorials/movies09/moviemaking.html
Both 2008 and 2009 materials primarily use command scripts and that is the recommended approach.
Tom
Hello, I am fairly new to using chimera and created my first movie using command line syntax. I am mostly pleased with the results, except for two things: (1) I used the 'movie record' option and all my commands show during the movie. (2) the right hand side of the image looks like 'snow'.
I followed similar instructions to the tutorial for ligand flying into unbound conformation from: http://www.cgl.ucsf.edu/chimera/tutorials/movies08/moviemaking.html
Should I be using a script instead? Is there a better way to do this? Thanks for any help. Matt Skeels