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inchoate added herc111 to the PyMOL Molecular Graphics System project.
2010-01-08 03:04:15 UTC by inchoate
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Hi,
I have written small application to fetch molecules stored in database and display selected with pymol. Unfortunately issuing command pymol.cmd.read_sdfstr() or pymol.cmd.load() results in "broken" molecules - just as it is on attached image. At the same time I loose ability to pick molecules via open/save dialogs, only keyboard works
My code to run pymol as thread is:
def run()...
2010-01-06 15:12:42 UTC by nobody
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I am trying to display a ligand (as sticks and balls) binding to a protein surface pocket (surface representation of protein). To make it look nice, I'd need to clip (or slab) the protein, but not the ligand. Is there a way of excluding objects from clipping? Thanks for reading this.
2009-11-25 20:23:31 UTC by nobody
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It would be nice to extend the command "set label_outline_color" by an option that allows to specify a selection like it is implemented for "set label_color". The command could look like this:
set label_outline_color, color-name, selection
Thanks. christian.
2009-11-18 16:01:43 UTC by cbiertue
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Under OSX 10.4.11, fink installation of pymol-py26 works fine, until the APBS window is triggered as a pymol plugin. Immediately, Pymol's Tcl/Tk GUI becomes 'unclickable', even after closing the APBS window again. Only solution seems to quit and restart PyMol.
Seems to be something to do with X11 (using X11 1.1.3 - XFree86 4.4.0)? I am not able to find the way to update to a newer X11 version...
2009-11-14 22:28:20 UTC by alebus
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I've installed PyMol on Centos5.4 and receive the error message below when executing the application. This happens with versions 1.1r1 and 1.2r2.
I have verified that Tcl/TK are installed.
This Executable Build integrates and extends Open-Source PyMOL 1.1r1.
OpenGL graphics engine:
GL_VENDOR: NVIDIA Corporation
GL_RENDERER: Quadro FX 3400/PCI/SSE2
GL_VERSION: 2.1.0 NVIDIA...
2009-11-05 00:29:09 UTC by nobody
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wdelano committed revision 3881 to the PyMOL Molecular Graphics System SVN repository, changing 2 files.
2009-10-29 21:22:08 UTC by wdelano
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wdelano committed revision 3880 to the PyMOL Molecular Graphics System SVN repository, changing 1 files.
2009-10-29 15:15:14 UTC by wdelano
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wdelano committed revision 3879 to the PyMOL Molecular Graphics System SVN repository, changing 3 files.
2009-10-28 23:39:10 UTC by wdelano
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wdelano committed revision 3878 to the PyMOL Molecular Graphics System SVN repository, changing 1 files.
2009-10-28 21:10:45 UTC by wdelano
