Hi Lee, The full list of commands with short descriptions is http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/framecommand.html and the subset with frame arguments (so that you can spread something, such as a motion, over several frames) are listed in http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/recorder/ moviecommands.html (this also links to an example command file, 1gfl.com) These manual pages pertain to recent releases (Sept/Oct 2005). To address your question more specifically, display - turns on display of the specified atoms (~display turns them off) show - turns on display of the specified atoms, turns off other atoms modeldisplay - toggles display of the whole model without changing atom display status (e.g., if you had only the backbone shown, you could hide the model with ~modeldisplay and turn it back on with modeldisplay, which would not turn on all the other atoms) represent - changes amongst wire/stick/ball&stick/sphere ribbon - shows ribbon ribrepr - changes ribbon style amongst flat/edged/round color - changes color colordef - defines a new color select - can be used to toggle activation status of a model (whether it can move or not; useful if you want to move a model around while another is held fixed) Some of these are used in the example command file mentioned above. Most commands, however, do not have frame arguments, so you cannot easily display/undisplay or color anything *gradually* using only Chimera commands (except for 2dlabels). For example, to make a molecule increasingly transparent, it would be necessary to keep using "colordef" to define an increasingly transparent color. Some of these fancier operations can be done with looping in python. The python file can be called from the command file (e.g., "open myfile.py"). You can get the python translations of commands by using those commands, then opening the Command History (use black triangle to the right of the command line), highlighting the set of commands of interest, clicking "Record..." and then choosing the option to record those commands as "Python commands". I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. meng@cgl.ucsf.edu UCSF Computer Graphics Lab and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco http://www.cgl.ucsf.edu/home/meng/index.html On Oct 5, 2005, at 9:49 AM, Pullan, Lee wrote:
Hi,
I am using the movie recorder in Chimera with the command line file, as suggested in the tutorial. What do I enter into the command file in order to switch objects on and off and also how do I change properties like transparencies/ colors?
Thanks
Lee Pullan, PhD Center for Structural Biology Department of Biochemistry and Molecular Biology University of Texas - Houston Medical School Houston TX 77030 Tel: 713 500 6121
_______________________________________________ Chimera-users mailing list Chimera-users@cgl.ucsf.edu http://www.cgl.ucsf.edu/mailman/listinfo/chimera-users