[Chimera-users] how to run the command line chimera without actually opening the GUI
pett at cgl.ucsf.edu
Thu Oct 20 15:39:07 PDT 2011
On Oct 20, 2011, at 11:46 AM, Tom Goddard wrote:
> Here are two problems. 1) The Chimera command script always writes
> the same file "aligned.pdb". There is no way I could see to specify
> output file name in the command or have it write "aligned_3h47.pdb",
> any other name that depends on the input files.
That's true, though typically after the "chimera --nogui ..." command
you when then just do "mv aligned.pdb bettername.pdb" using whatever
scripting magic your shell supports.
> 2) You asked that both
> the aligned model and reference model are written to one PDB file.
> Chimera "write" command can only write one model to a PDB file
> a Chimera dialog can write both).
Right. Might get improved someday.
UCSF Computer Graphics Lab
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