Hi Martin, is it the transform=0 argument what you are looking for?
http://pymolwiki.org/index.php/Align#PYMOL_API x = cmd.align('foo', 'bar', transform=0) print 'RMSD:', x[0] About the "some kind of refinement": There are arguments "cutoff" and "cycles" that control this behaviour. Cheers, Thomas On 11/11/2011 02:46 PM, Martin Hediger wrote: > Dear List. > When aligning two structures using the PyMOL align command, one gets a > final RMS value indicating some kind of "convergence" i would say. Can I > somehow access the function for calculating this value directly from the > pymol prompt without aligning? > > Thanks for hints > Martin -- Thomas Holder MPI for Developmental Biology ------------------------------------------------------------------------------ RSA(R) Conference 2012 Save $700 by Nov 18 Register now http://p.sf.net/sfu/rsa-sfdev2dev1 _______________________________________________ PyMOL-users mailing list ([email protected]) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/[email protected]
