See http://www.pymolwiki.org/index.php/Intra_Rms#USER_EXAMPLES.2FCOMMENTS comments that start with "Fit, Rms, Rms_Cur are finicky and only work..." as that likely explains your problem and a possible solution.
But I agree that pymol's behavior with this command can be extremely annoying. -David On Tue, Mar 16, 2010 at 7:33 AM, Alan <alanwil...@gmail.com> wrote: > Hello there, > I am very frustrated with a very simple command, let me show: > PyMOL>rms (out and not hydrogen), (018.none_neutral.pdb_NEW and not > hydrogen) > ExecutiveRMS-Error: No atoms selected. > PyMOL>sele r, (018.none_neutral.pdb_NEW and not hydrogen) > Selector: selection "r" defined with 20 atoms. > PyMOL>select o, (out and not hydrogen) > Selector: selection "o" defined with 20 atoms. > PyMOL>rms o, r > ExecutiveRMS-Error: No atoms selected. > As you can see, I can select properly but no way of using 'rms' command. > Or "help rms" is missing something? > PyMOL>help rms > DESCRIPTION > "rms" computes a RMS fit between two atom selections, but does not > tranform the models after performing the fit. > USAGE > rms (selection), (target-selection) > EXAMPLES > fit ( mutant and name ca ), ( wildtype and name ca ) > SEE ALSO > fit, rms_cur, intra_fit, intra_rms, intra_rms_cur, pair_fit > Thanks > Alan > -- > Alan Wilter Sousa da Silva, D.Sc. > PDBe group, PiMS project http://www.pims-lims.org/ > EMBL - EBI, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK > +44 (0)1223 492 583 (office) > > ------------------------------------------------------------------------------ > Download Intel® Parallel Studio Eval > Try the new software tools for yourself. Speed compiling, find bugs > proactively, and fine-tune applications for parallel performance. > See why Intel Parallel Studio got high marks during beta. > http://p.sf.net/sfu/intel-sw-dev > _______________________________________________ > PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > ------------------------------------------------------------------------------ Download Intel® Parallel Studio Eval Try the new software tools for yourself. Speed compiling, find bugs proactively, and fine-tune applications for parallel performance. See why Intel Parallel Studio got high marks during beta. http://p.sf.net/sfu/intel-sw-dev _______________________________________________ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
