Hi Xiangan, The mcopy command can copy attributes from one molecule to several molecules, for example, mcopy #0 #1-419 copies the color, style, visibility of molecule #0 to molecules 1 through 419. It does not allow you to specify more than one molecule for the first argument -- it does not match molecule names. If all your 420 pdb files have different coloring / display style / visibility settings then to apply these to your second set of 420 pdb files you'll need 420 mcopy commands. That can be done with a Python script. If you run out of memory then the script would have to open a new pdb, copy settings, then close the original pdb before moving on to the next pdb. Or you need to work with a 64-bit Chimera (currently available only on Linux). Tom Xiangan Liu wrote:

Tom, Thank for your quick response. I have 420 pdb files for icosahedron T=7 virus capsid. All the file names is the same as the ones in previous session file. Is it possible to do it with one command? If I load all the 840 pdb files into chimera, it will be very slow and even crash my computer. Is it possible to do it without loading into Chimera? Again, thank you for implementing these commands.

Xiangan

On Tue, Mar 10, 2009 at 1:51 PM, Tom Goddard <goddard@cgl.ucsf.edu <mailto:goddard@cgl.ucsf.edu>> wrote:

Hi Xiangan,

I've added a new Chimera command "mcopy" to copy colors, display styles, coordinates and other settings from one molecule to another.

mcopy #0 #1

will copy the colors, display styles (ribbon, stick, sphere, ...), and visibility (which atoms/residues shown) from molecule #0 to molecule #1. To copy other attributes such as atom coordinates, molecule placement (transform), or labels use the "settings" option:

mcopy #0 #1 settings lxp

copies just atom/residue labels, atomic coordinates and placement. The recognized settings are: c = color, s = style, v = visibilty, l = labels, x = coords, p = placement, a = all. The default is "csv".

This command will be in tonight's Chimera builds.

http://www.cgl.ucsf.edu/chimera/alpha-downloads.html

Tom

Xiangan Liu wrote:

Tom, I asked you a question in BPS meeting regarding the implementation of copying a display configuration of a pdb file to anoth pdb with the same sequences. Did you get chance to implement it into chimera daily release? If yes, what is the command. If not, can you send me the corresponding python codes to me? Thanks,

Xiangan