Hi Calem, Chimera has an "export" command, see: <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/export.html> Note the OBJ export only includes surfaces. The Chimera programmer's guide has some explanation of how to loop over multiple files: <http://www.cgl.ucsf.edu/chimera/docs/ProgrammersGuide/basicPrimer.html> First you would try entering commands directly into the Command Line to figure out what commands you want to use on each structure. Then you would imbed those commands in a looping script. Best, 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 Aug 9, 2012, at 7:19 PM, Calem Bendell wrote:
I’d like to convert PDB to VMRL and OBJ (for some reason hydrophobicity exports well as obj and ribbon as wrl, other than those file formats, I usually get file errors from Blender?) using Chimera via command-line call (doing them one by one will be a pain for several thousand pdb files!).
How would I do this? Would I need to modify the Chimera source? (if necessary, I can do this, but it seems like it’d be pretty time consuming)
Thank you guys!!!
-- Calem Bendell Computer Science Dept McGill University Immunology and Microbiology Dept McGill University
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