VMD-L Mailing List

From: Janakiraman Balachandran (janarcs_at_umich.edu)
Date: Fri Jul 21 2017 - 14:17:35 CDT

The graphics card in my machine is Intel HD Graphics 5000 1536 MB. I'm
trying to install and use it locally,

Best Regards
Ram Balachandran
<http://www.linkedin.com/in/rambalachandran>
<https://twitter.com/RamBalachandran>

On Fri, Jul 21, 2017 at 3:11 PM, John Stone <johns_at_ks.uiuc.edu> wrote:

> Thanks, that is very helpful. Next question: What kind of graphics
> hardware
> is in your Mac? Is it AMD or Intel hardware? I ask because I notice that
> you're getting a very strange "Apple Software Renderer" shown as the OpenGL
> Renderer when you're running VMD. Are you running VMD locally, or via some
> sort of remote desktop?
>
> Cheers,
> John Stone
> vmd_at_ks.uiuc.edu
>
> On Fri, Jul 21, 2017 at 03:06:02PM -0400, Janakiraman Balachandran wrote:
> > Hi John,
> >
> > I removed the experimental plugin, but I still get an error except
> that
> > this time it describes 2 Dynamically loaded plugins in directory. The
> full
> > error message is below
> > ```
> > Info) Multithreading available, 4 CPUs detected.
> > Info) OpenGL renderer: Apple Software Renderer
> > Info)Â Â Features: STENCIL MDE MTX NPOT PP PS GLSL(OVF)
> > Info)Â Â Full GLSL rendering mode is available.
> > Info)Â Â Textures: 2-D (16384x16384), 3-D (16384x16384x16384),
> > Multitexture (8)
> > Info) Dynamically loaded 2 plugins in directory:
> > Info) /Applications/VMD 1.9.4.app/Contents/vmd/
> plugins/MACOSXX86/molfile
> > VMD(11830,0xa2fe3000) malloc: *** error for object 0x78e769d4:
> incorrect
> > checksum for freed object - object was probably modified after being
> > freed.
> > *** set a breakpoint in malloc_error_break to debug
> > /Applications/VMD 1.9.4.app/Contents/MacOS/startup.command: line 7:
> 11830
> > Abort trap: 6Â Â Â Â Â Â Â Â Â Â
> > "$p/../Resources/VMD.app/Contents/MacOS/VMD" $*
> > logout
> > Saving session...
> > ...copying shared history...
> > ...saving history...truncating history files...
> > ...completed.
> > ```
> > Best Regards
> > Ram Balachandran
> > [1][IMG]Â [2][IMG]
> > On Fri, Jul 21, 2017 at 2:58 PM, John Stone <[3]johns_at_ks.uiuc.edu>
> wrote:
> >
> > Hi,
> >  Thanks for your note. I am wondering if this is caused
> > by an experimental plugin that we added to the VMD 1.9.4a7 test
> build.
> > Try removing this experimental plugin and see if the problem goes
> away
> > Using a terminal shell, cd to the directory that contains your VMD
> .app
> > bundle,
> > and then run this command:
> > Â mv VMD\
> > 1.9.4.app/Contents/vmd/plugins/MACOSXX86/molfile/orcaplugin.so /tmp
> >
> > Once you've done that, try restarting VMD and let me know if you
> still
> > have
> > the same problem or not.
> >
> > Best regards,
> > Â John Stone
> > Â [4]vmd_at_ks.uiuc.edu
> >
> > On Fri, Jul 21, 2017 at 02:14:22PM -0400, Janakiraman Balachandran
> > wrote:
> > >Â Â Hi,
> > >
> > >Â Â I installed VMD 1.9.4 in Mac OSX (10.11.6). BUt when I try to
> > open, the
> > >Â Â application fails to open with the following error
> > >
> > >Â Â Info) Multithreading available, 4 CPUs detected.
> > >Â Â Info) OpenGL renderer: Apple Software Renderer
> > >Â Â Info)Ã* Ã*Â Features: STENCIL MDE MTX NPOT PP PS GLSL(OVF)
> > >Â Â Info)Ã* Ã*Â Full GLSL rendering mode is available.
> > >Â Â Info)Ã* Ã*Â Textures: 2-D (16384x16384), 3-D
> > (16384x16384x16384),
> > >Â Â Multitexture (8)
> > >Â Â Info) Dynamically loaded 3 plugins in directory:
> > >Â Â Info) /Applications/VMD
> > 1.9.4.app/Contents/vmd/plugins/MACOSXX86/molfile
> > >Â Â VMD(10946,0xa2fe3000) malloc: *** error for object
> 0x7d0263a4:
> > incorrect
> > >Â Â checksum for freed object - object was probably modified
> after
> > being
> > >Â Â freed.
> > >Â Â *** set a breakpoint in malloc_error_break to debug
> > >Â Â /Applications/VMD 1.9.4.app/Contents/MacOS/startup.command:
> line
> > 7: 10946
> > >Â Â Abort trap: 6Ã* Ã* Ã* Ã* Ã* Ã* Ã* Ã* Ã* Ã*
> > >Â Â "$p/../Resources/VMD.app/Contents/MacOS/VMD" $*
> > >Â Â logout
> > >Â Â Saving session...
> > >Â Â ...copying shared history...
> > >Â Â ...saving history...truncating history files...
> > >Â Â ...completed.
> > >
> > >Â Â Best Regards
> > >Â Â Ram Balachandran
> > >Â Â [1][IMG]Ã* [2][IMG]
> > >
> > > References
> > >
> > >Â Â Visible links
> > >Â Â 1. [5]http://www.linkedin.com/in/rambalachandran
> > >Â Â 2. [6]https://twitter.com/RamBalachandran
> > --
> > NIH Center for Macromolecular Modeling and Bioinformatics
> > Beckman Institute for Advanced Science and Technology
> > University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
> > [7]http://www.ks.uiuc.edu/~johns/Â Â Â Â Â Â Phone:
> [8]217-244-3349
> > [9]http://www.ks.uiuc.edu/Research/vmd/
> >
> > References
> >
> > Visible links
> > 1. http://www.linkedin.com/in/rambalachandran
> > 2. https://twitter.com/RamBalachandran
> > 3. mailto:johns_at_ks.uiuc.edu
> > 4. mailto:vmd_at_ks.uiuc.edu
> > 5. http://www.linkedin.com/in/rambalachandran
> > 6. https://twitter.com/RamBalachandran
> > 7. http://www.ks.uiuc.edu/~johns/
> > 8. file:///tmp/tel:217-244-3349
> > 9. http://www.ks.uiuc.edu/Research/vmd/
>
> --
> NIH Center for Macromolecular Modeling and Bioinformatics
> Beckman Institute for Advanced Science and Technology
> University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
> http://www.ks.uiuc.edu/~johns/ Phone: 217-244-3349
> http://www.ks.uiuc.edu/Research/vmd/
>