I think if Jason provides a full complement of auto_show_* for the representations, this should be partially possible without an additional setting.
By default, pymol seems to have these settings: auto_show_lines=on auto_show_nonbonded=on auto_show_spheres=off Some quick testing of changing these settings by putting lines in my .pymolrc shows that I can instead have only spheres be shown in the file I'm opening with pymol by doing: set auto_show_lines, off set auto_show_nonbonded, offf set auto_show_spheres What is missing is the ability to have a default coloring. Is that possible? The auto_color setting is already taken for whether or not pymol loops through the list of colors in layer1/Color.c ... What might be interesting is a callback that could be run on an object whenever a user loads a file. Then you can do whatever you wanted. -David On Tue, Mar 16, 2010 at 3:45 AM, Gerebtzoff, Gregori <gregori.gerebtz...@roche.com> wrote: > I second Tsjerk on this, maybe in the .pymolrc? > And auto_show_sticks would be very useful to me! > > Cheers, > > Greg > > -----Original Message----- > From: Tsjerk Wassenaar [mailto:tsje...@gmail.com] > Sent: Tuesday, March 16, 2010 6:17 AM > To: Jason Vertrees > Cc: pymol-users@lists.sourceforge.net; David Hall > Subject: Re: [PyMOL] PyMOL on the Mac > > Hi Jason, > > Along those lines, would it be possible to have a 'default' which can > be set to a list of settings related to appearance? That might be more > concise than to have everything in a separate setting. > > set default,[cartoon, lines, nonbonded, cbaw] > > The default value as pymol starts up now would be [lines, nonbonded, cbag]. > > Just my 2 eurocents... > > Cheers, > > Tsjerk > > > On Tue, Mar 16, 2010 at 12:53 AM, Jason Vertrees > <jason.vertr...@schrodinger.com> wrote: >> David, >> >> You may remember writing: >> >>> A Pymol Quicklook plugin. My primary purpose would be for pses, but you >>> might as well pick up pdbs and other formats supported by pymol along the >>> way. >>> For pdb files, I wouldn't want the default pymol view of lines colored by >>> atom with green carbons being what I quicklook to, so either reading >>> .pymolrc to get a default view or some variant ( .pymolqlrc ?) would be >>> nice to allow users to customize their views. Also, maybe default to a >>> cartoon representation colored by chains with het atoms as sticks and >>> metals as spheres, but that's probably just forcing the view I want on >>> others when I could just stick that in my personal .pymolqlrc type file. >> >> Well, reading through the source today, I found a couple settings that >> few know about--and I might add more similar settings: >> >> auto_show_lines == show a newly loaded object with lines representation? >> auto_show_spheres == show a newly loaded object with spheres representation? >> auto_show_nonbonded == show newly loaded non-bonded? >> >> If these are considered useful, I can add others like: >> >> auto_show_cartoon(s) >> >> # example >> set auto_show_spheres >> fetch 1cll >> >> This offers some more flexibility for the user to choose lines or >> other default representation. >> >> Cheers, >> >> -- Jason >> >> -- >> Jason Vertrees, PhD >> PyMOL Product Manager >> Schrodinger, LLC >> >> (e) jason.vertr...@schrodinger.com >> (o) +1 (603) 374-7120 >> >> ------------------------------------------------------------------------------ >> 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 >> > > > > -- > Tsjerk A. Wassenaar, Ph.D. > > Computational Chemist > Medicinal Chemist > Neuropharmacologist > > > > ------------------------------------------------------------------------------ > 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
