[PyMOL] apbs error (Error in background function)
Hello, I just updated PyMol Open Source to version 1.7.2.0-2 via the fink package manager. Now, when I initiate the APBS Tools.1 plugin the following error occurs: Error in background function Error: 1 Exception in Tk callback Function: at 0x10cc75230> (type: ) Args: () Traceback (innermost last): File "/sw/lib/python2.7/site-packages/Pmw/Pmw_1_3_3/lib/PmwBase.py", line 1753, in __call__ return apply(self.func, args) File "/sw/lib/python2.7/site-packages/pmg_tk/startup/apbs_tools.py", line 314, in command = lambda s=self: APBSTools2(s)) File "/sw/lib/python2.7/site-packages/pmg_tk/startup/apbs_tools.py", line 680, in __init__ group.pack(fill='both',expand=1, padx=4, pady=5) File "", line 1, in pack None File "/sw/lib/python2.7/lib-tk/Tkinter.py", line 1887, in pack_configure + self._options(cnf, kw)) : cannot use geometry manager pack inside .4509565296.4509566808.4509809840.4510083120 which already has slaves managed by grid I brought this to the attention of apbs developers who suggested I post this error here as it seems related to PyMol and not apbs. Not a very savvy user here so this may be entirely my fault. Thank you! -- Slashdot TV. Video for Nerds. Stuff that matters. http://tv.slashdot.org/ ___ 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
Re: [PyMOL] Other coloring strategies based on user-provided properties
Chen, not sure if this has made it yet into the open source version, but to quote the incentive version documentation “Beginning with incentive PyMOL 1.6, arbitrary object level and atom level properties are supported. Now, for each object and each atom you can possibly have an arbitrary dictionary associated with each.” So if you are a subscriber you could make use of that feature, which could be more powerful than relying either on the B-factor or Occupancy fields. HTH Carsten From: Chen Zhao [mailto:chenzhaoh...@gmail.com] Sent: Friday, August 29, 2014 12:25 PM To: pymol-users@lists.sourceforge.net Subject: [PyMOL] Other coloring strategies based on user-provided properties Dear all, I am thinking whether it is possible to color a molecule by a specific property residue-wise or atom-wise like generally be done on B-factor? This property could be provided as numbers in a column. An obvious way might just be to change the B-factor column to the user-provided column and "color by B-factor". But I am wondering whether there are some direct ways of doing this. Best, Chen -- Slashdot TV. Video for Nerds. Stuff that matters. http://tv.slashdot.org/___ 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
