VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Fri Dec 12 2014 - 15:48:57 CST

Hi,
  Up to this point, the Yosemite problems I've heard about seem largely
(but not entirely) focused on recent Mac laptops that use Intel graphics.
I have had one person report a problem on a machine that uses a combination
of Intel graphics with NVIDIA graphics, but there are others with similar
hardware that haven't experienced problems under Yosemite. Thus far I
haven't heard any problem reports from Yosemite users that have machines
that contain only ATI/AMD or NVIDIA graphics. This leads me to the
conclusion that the Yosemite problems people have reported are caused
by video-hardware-specific bugs in Yosemite display drivers, and not due to
any specific issue with VMD itself. I have colllected debugging tracebacks
two users that indeed show that the problems go very deep into the internals
of the display/video drivers, but there didn't seem to be
anything uniquely VMD-related going on therein. At this moment I don't have
any suggested workaround for the problem, as the machines we have running
Yosemite here all run VMD fine without any problems (at least thus far).
I will let people know if we come up with any scheme to get around the
problems. In the short term, it would be helpful if Yosemite users that
are experiencing the problem report it to Apple along with the details
of the Mac hardware they are running on.

Cheers,
  John Stone
  vmd_at_ks.uiuc.edu

On Wed, Dec 10, 2014 at 09:18:22AM +0000, gergely.gyimesi_at_ibmm.unibe.ch wrote:
> Update: loading a molecule from the TCL shell seems to work, so this indeed might be related to Finder window problems.
>
> Best,
> Gergely
>
> --
> Gergely Gyimesi, PhD
> Postdoctoral Research Fellow
> Institute of Biochemistry and Molecular Medicine
> University of Bern
> Bühlstrasse 28
> CH-3012 Bern | phone: +41 (0)31 631 4739
> Switzerland | mailto:gergely.gyimesi_at_ibmm.unibe.ch
>
>
> > Am 10.12.2014 um 09:38 schrieb gergely.gyimesi_at_ibmm.unibe.ch:
> >
> > Dear VMD-L users,
> >
> > I have recently installed VMD 1.9.1 (non-CUDA) and 1.9.2beta1 (CUDA) pre-built binaries on a MacBook Air 11??? running OS X Yosemite and right after loading any PDB structure, the OpenGL window becomes unresponsive (i.e. does not freeze, but the splash animation stops, molecule does not show and rotation/translation don???t work). Neither VMD versions work.
> > I???ve seen the thread about problems in Yosemite beta in September, but now Yosemite???s out, and I wonder if those issues have been resolved. Plus, my issue seems different as I don???t get freezes in the Finder window, in fact everything else seems to work apart from the OpenGL.
> > The Mac is a MacBookAir6,1 with Intel HD Graphics 5000.
> >
> > Has anyone experienced a similar issue before?
> > Is there anything I can try to resolve this? (e.g. a more recent build of VMD?)
> >
> > Thanks for the help.
> >
> > Best,
> > Gergely Gyimesi
> >
> > --
> > Gergely Gyimesi, PhD
> > Postdoctoral Research Fellow
> > Institute of Biochemistry and Molecular Medicine
> > University of Bern
> > Bühlstrasse 28
> > CH-3012 Bern | phone: +41 (0)31 631 4739
> > Switzerland | mailto:gergely.gyimesi_at_ibmm.unibe.ch
> >
> >
> >
> 

-- 
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/