From: John Stone (johns_at_ks.uiuc.edu)
Date: Fri Jul 21 2017 - 14:20:07 CDT

Were you able to run VMD 1.9.3 without trouble on that same machine?

Cheers,
  John Stone

On Fri, Jul 21, 2017 at 03:17:35PM -0400, Janakiraman Balachandran wrote:
> 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
> [1][IMG]Â [2][IMG]
> On Fri, Jul 21, 2017 at 3:11 PM, John Stone <[3]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,
> Â John Stone
> Â [4]vmd_at_ks.uiuc.edu
> On Fri, Jul 21, 2017 at 03:06:02PM -0400, Janakiraman Balachandran
> wrote:
> >Â Â Hi John,
> >
> >Â Â I removed the experimental plugin, but I still get an error
> except that
> >Â Â this time it describes 2 Dynamically loaded plugins in directory.
> The full
> >Â Â error message is below
> >Â Â ```
> >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 2 plugins in directory:
> >Â Â Info) /Applications/VMD
> 1.9.4.app/Contents/vmd/plugins/MACOSXX86/molfile
> >Â Â VMD(11830,0xa2fe3000) malloc: *** error for object 0x78e769d4:
> 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: 11830
> >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 ```
> >Â Â Best Regards
> >Â Â Ram Balachandran
> >Â Â [1][IMG]Ã* [2][IMG]
> >Â Â On Fri, Jul 21, 2017 at 2:58 PM, John Stone
> <[3][5]johns_at_ks.uiuc.edu> wrote:
> >
> >Â Â Â Hi,
> >Â Â Â Ã*Â Thanks for your note.Ã*Â I am wondering if this is
> caused
> >Â Â Â by an experimental plugin that we added to the VMD 1.9.4a7
> test build.
> >Â Â Â Try removing this experimental plugin and see if the problem
> goes away
> >Â Â Â Using a terminal shell, cd to the directory that contains your
> VMD .app
> >Â Â Â bundle,
> >Â Â Â and then run this command:
> >Â Â Â Ã*Â mv VMD\
> >Â Â Â 1.9.4.app/Contents/vmd/plugins/MACOSXX86/molfile/orcaplugin.so
> /tmp
> >
> >Â Â Â Once you've done that, try restarting VMD and let me know if
> you still
> >Â Â Â have
> >Â Â Â the same problem or not.
> >
> >Â Â Â Best regards,
> >Â Â Â Ã*Â John Stone
> >Â Â Â Ã*Â [4][6]vmd_at_ks.uiuc.edu
> >
> >Â Â Â On Fri, Jul 21, 2017 at 02:14:22PM -0400, Janakiraman
> Balachandran
> >Â Â Â wrote:
> >Â Â Â >Ã*Â Ã*Â Hi,
> >Â Â Â >
> >Â Â Â >Ã*Â Ã*Â I installed VMD 1.9.4 in Mac OSX (10.11.6). BUt
> when I try to
> >Â Â Â open, the
> >Â Â Â >Ã*Â Ã*Â application fails to open with the following error
> >Â Â Â >
> >Â Â Â >Ã*Â Ã*Â Info) Multithreading available, 4 CPUs detected.
> >Â Â Â >Ã*Â Ã*Â Info) OpenGL renderer: Apple Software Renderer
> >Â Â Â >Ã*Â Ã*Â Info)Ã** Ã**Ã*Â Features: STENCIL MDE MTX NPOT PP
> PS GLSL(OVF)
> >Â Â Â >Ã*Â Ã*Â Info)Ã** Ã**Ã*Â Full GLSL rendering mode is
> available.
> >Â Â Â >Ã*Â Ã*Â Info)Ã** Ã**Ã*Â Textures: 2-D (16384x16384), 3-D
> >Â Â Â (16384x16384x16384),
> >Â Â Â >Ã*Â Ã*Â Multitexture (8)
> >Â Â Â >Ã*Â Ã*Â Info) Dynamically loaded 3 plugins in directory:
> >Â Â Â >Ã*Â Ã*Â Info) /Applications/VMD
> >Â Â Â 1.9.4.app/Contents/vmd/plugins/MACOSXX86/molfile
> >Â Â Â >Ã*Â Ã*Â VMD(10946,0xa2fe3000) malloc: *** error for object
> 0x7d0263a4:
> >Â Â Â incorrect
> >Â Â Â >Ã*Â Ã*Â checksum for freed object - object was probably
> modified after
> >Â Â Â being
> >Â Â Â >Ã*Â Ã*Â freed.
> >Â Â Â >Ã*Â Ã*Â *** set a breakpoint in malloc_error_break to debug
> >Â Â Â >Ã*Â Ã*Â /Applications/VMD
> 1.9.4.app/Contents/MacOS/startup.command: line
> >Â Â Â 7: 10946
> >Â Â Â >Ã*Â Ã*Â Abort trap: 6Ã** Ã** Ã** Ã** Ã** Ã** Ã** Ã** Ã**
> Ã**
> >Â Â Â >Ã*Â Ã*Â "$p/../Resources/VMD.app/Contents/MacOS/VMD" $*
> >Â Â Â >Ã*Â Ã*Â logout
> >Â Â Â >Ã*Â Ã*Â Saving session...
> >Â Â Â >Ã*Â Ã*Â ...copying shared history...
> >Â Â Â >Ã*Â Ã*Â ...saving history...truncating history files...
> >Â Â Â >Ã*Â Ã*Â ...completed.
> >Â Â Â >
> >Â Â Â >Ã*Â Ã*Â Best Regards
> >Â Â Â >Ã*Â Ã*Â Ram Balachandran
> >Â Â Â >Ã*Â Ã*Â [1][IMG]Ã** [2][IMG]
> >Â Â Â >
> >Â Â Â > References
> >Â Â Â >
> >Â Â Â >Ã*Â Ã*Â Visible links
> >Â Â Â >Ã*Â Ã*Â 1. [5][7]http://www.linkedin.com/in/rambalachandran
> >Â Â Â >Ã*Â Ã*Â 2. [6][8]https://twitter.com/RamBalachandran
> >Â Â Â --
> >Â Â Â NIH Center for Macromolecular Modeling and Bioinformatics
> >Â Â Â Beckman Institute for Advanced Science and Technology
> >Â Â Â University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
> >Â Â Â [7][9]http://www.ks.uiuc.edu/~johns/Ã*Â Ã*Â Ã*Â Ã*Â Ã*Â
> Ã* Phone: [8]217-244-3349
> >Â Â Â [9][10]http://www.ks.uiuc.edu/Research/vmd/
> >
> > References
> >
> >Â Â Visible links
> >Â Â 1. [11]http://www.linkedin.com/in/rambalachandran
> >Â Â 2. [12]https://twitter.com/RamBalachandran
> >Â Â 3. mailto:[13]johns_at_ks.uiuc.edu
> >Â Â 4. mailto:[14]vmd_at_ks.uiuc.edu
> >Â Â 5. [15]http://www.linkedin.com/in/rambalachandran
> >Â Â 6. [16]https://twitter.com/RamBalachandran
> >Â Â 7. [17]http://www.ks.uiuc.edu/~johns/
> >Â Â 8. file:///tmp/tel:[18]217-244-3349
> >Â Â 9. [19]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
> [20]http://www.ks.uiuc.edu/~johns/Â Â Â Â Â Â Phone:
> [21]217-244-3349
> [22]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. mailto:johns_at_ks.uiuc.edu
> 6. mailto:vmd_at_ks.uiuc.edu
> 7. http://www.linkedin.com/in/rambalachandran
> 8. https://twitter.com/RamBalachandran
> 9. http://www.ks.uiuc.edu/~johns/%C3%82
> 10. http://www.ks.uiuc.edu/Research/vmd/
> 11. http://www.linkedin.com/in/rambalachandran
> 12. https://twitter.com/RamBalachandran
> 13. mailto:johns_at_ks.uiuc.edu
> 14. mailto:vmd_at_ks.uiuc.edu
> 15. http://www.linkedin.com/in/rambalachandran
> 16. https://twitter.com/RamBalachandran
> 17. http://www.ks.uiuc.edu/~johns/
> 18. file:///tmp/tel:217-244-3349
> 19. http://www.ks.uiuc.edu/Research/vmd/
> 20. http://www.ks.uiuc.edu/~johns/
> 21. file:///tmp/tel:217-244-3349
> 22. 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/