VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Fri Jul 21 2017 - 14:11:12 CDT

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/