[Chimera-users] odd chimera benchmark performance

Dan Lin asolarian at gmail.com
Thu Aug 13 17:13:34 PDT 2015


Hi Tom, Greg:

Thanks for replying.

I am pretty sure I do have proprietary driver installed.

I checked in the report a bug dialog and got:

OpenGL Vendor: NVIDIA Corporation
OpenGL Renderer: GeForce GTX 560 Ti/PCIe/SSE2
OpenGL Version: 4.2.0 NVIDIA 304.116

However, I was checking if there was anything else that would affect
performance, and it looks like my version of chimera has silhouettes and
depth cueing on by default. When I turned both those effects off I saw some
pretty big improvements in benchmark and real-life performance:

Old molecule benchmarks:
6249.5 158.7 1.5 0.9 27.4 0.4 89.3

New molecule benchmarks:
369581.3 164.7 201.1 130.3 2145.8 51.3 103.3

Which I guess explains the performance differences, unless the benchmarks
on the website were with both of those effects on as well. Are there
perhaps any other effects I could be on the lookout for that would also
drain performance when dealing with millions of atoms?

Cheers,
Dan

On Thu, Aug 13, 2015 at 4:59 PM Tom Goddard <goddard at sonic.net> wrote:

> You probably don’t have the Nvidia graphics driver installed, so you are
> getting slow Mesa rendering.  To check this use Chimera menu Help / Report
> a Bug… and look in the “Gathered Information” box where it will identify
> the OpenGL renderer.  For instance on my Mac it says:
>
> OpenGL Vendor: NVIDIA Corporation
> OpenGL Renderer: NVIDIA GeForce GTX 680MX OpenGL Engine
> OpenGL Version: 2.1 NVIDIA-10.4.2 310.41.35f01
>
>   Tom
>
>
> > On Aug 12, 2015, at 11:53 PM, Dan Lin wrote:
> >
> > Hello:
> >
> > I was wondering if anyone had any experience tracking down performance
> problems in chimera.
> >
> > I've noticed that I am getting really sluggish performance when managing
> a lot of atoms, even when everything is shown as backbone traces only.
> >
> > To take a look at the performance, I ran the benchmark and got the
> following numbers:
> >
> > Volume benchmark scores
> >  surface    mesh  contour  solid  recolor
> >      981    1291     280     589     393
> >
> > Null  Wire    Stick   BStick  Ribbon  Sphere  Ops
> > 6249.5        158.7   1.5     0.9     27.4    0.4     89.3
> >
> >
> > compared to a benchmark posted on the website of the same graphics card:
> >
> > 2125 2026 302 512 491
> >
> > 213 492 452 3259 169 128
> >
> > Apparently I'm getting awful benchmarks for most of the molecule
> benchmarks, while the volume performance is pretty comparable. I re-ran the
> molecule benchmarks to make sure they were reproducible and got pretty much
> the same numbers.
> >
> > Would anybody have any suggestions for figuring out what's going on?
> >
> > For reference, I'm running ubuntu 12.04 with up to date nvidia drivers
> for a GTX 560 Ti.
> >
> > Thanks,
> > Dan
> >
> >
> > _______________________________________________
> > Chimera-users mailing list
> > Chimera-users at cgl.ucsf.edu
> > http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users
>
>
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