PyMOL Molecular Graphics System
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Programming Languages: C, Python, Tcl
License: Python License (CNRI Python License)
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last commit on 2012-05-02
svn co https://pymol.svn.sourceforge.net/svnroot/pymol pymol
What's happening?
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enable vmd plugins by default
They are really useful, and I see no reason why they are commented out in setup.py. Also it would be nice to have them in the case of non-Fink setup of "darwin" systems.
2012-05-05 08:25:17 PDT by mretegan
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vmd plugins fail to compile
This might be related to the vmd plugin update from a few revisions ago. :info:destroot /opt/local/bin/gcc-mp-4.6 -fno-strict-aliasing -fno-common -dynamic -pipe -O2 -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes - D_PYMOL_MODULE -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -DNO_MMLIBS -...
2012-05-05 08:20:22 PDT by mretegan
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PyMOL Molecular G...
inchoate committed revision 3998 to the PyMOL Molecular Graphics System SVN repository, changing 2 files.
2012-05-02 06:14:28 PDT by inchoate
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PyMOL Molecular G...
inchoate committed revision 3997 to the PyMOL Molecular Graphics System SVN repository, changing 11 files.
2012-04-30 09:11:57 PDT by inchoate
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get_names_of_type error when deleting objects
I recently occasionally encounter an error when deleting or renaming objects, on Linux and Windows. Looks like "get_names_of_type" is not thread safe. PyMOL>set_name foo, morph_in Cmd-Error: unrecognized name. CmdException Exception in Tk callback Function: <function callit at 0x0000000005193518> (type: <type 'function'>) Args: () Traceback (innermost last):
2012-04-20 05:30:22 PDT by speleo3
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Comment: Splash screen displays wrong version
Fixed in revision 3995. Thanks, Jared.
2012-04-09 04:30:21 PDT by inchoate
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PyMOL Molecular G...
inchoate committed revision 3996 to the PyMOL Molecular Graphics System SVN repository, changing 2 files.
2012-04-06 09:50:31 PDT by inchoate
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PyMOL Molecular G...
inchoate committed revision 3995 to the PyMOL Molecular Graphics System SVN repository, changing 5 files.
2012-04-05 14:28:24 PDT by inchoate
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Splash screen displays wrong version
In Open Source PyMOL 1.5.0.2 (and I assume all 1.4.x as well) the splash screen on startup displays the version as "1.3.x". This has been mentioned on the BB, but I couldn't find it in the bug tracker. Low priority, but it always makes me balk and scroll back to check the version to make sure I haven't somehow launched an older version. If the original graphics file is around...
2012-04-05 06:55:11 PDT by jaredsampson
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cmd.get_unused_name non-safe chars checking
cmd.get_unused_name checks for non-safe chars after checking if the name is already in use. Test case: PyMOL>fab AAA, foo_bar PyMOL>print cmd.get_unused_name('foo bar', 0) foo_bar The returned name is already in use, which must not happen. Patch attached. This patch also uses a set instead of a dict.
2012-03-31 08:38:24 PDT by speleo3
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