Dear Sabuj,

thank you for your reply.

Unfortunately, I do not have the 3 pin mini din cable (in Europe and Asia is not included in the 3D Vision kit).

However, I have finally been successful!

The problem was that in order to find the correct Nvidia driver settings, I changed the settings and then I pressed the "apply" button looking at any changes in the visualization on the PyMOL window.

However, I found out that the changes in the Nvidia driver settings even if they are stored in the memory they are really *not* applied to the graphics card until a restart of the OS!

After a restart of the computer with the correct Nvidia settings (which I found for example in for my case the emitter turns on as soon as I opened PyMOL.

Hope this can help other users which read this mailing list.



Date: Mon, 10 May 2010 08:19:21 -0500
From: Sabuj Pattanayek <>
Subject: Re: [PyMOL] Stereoscopic visualization
Content-Type: text/plain; charset=ISO-8859-1


On Sun, May 9, 2010 at 11:16 AM, Emiliano Ippoliti
<> wrote:
Dear Users,

in my University I have an hardware system formed by:

1 - PC with Nvidia Quadro FX 4800 graphics card.
2 - 64-bit Operating system Windows 7 Professional
3 - Projector ACER H5360 DLP 720P (3D ready) connected to the PC by HDMI
4 - Nvidia GeForce 3D Vision Emitter connected to the PC by USB
5 - Nvidia GeForce 3D Vision glasses

I have successfully tested the stereoscopic visualization with some DEMOs from Nvidia. Now, I would like to use it with PyMOL.

You're not supposed to need the 3 pin mini din connected for 3d vision
in windows but go ahead and plug that in anyways since you've got that
connector on your card. Also make sure you're not hotplugging the
emitter, i.e. make sure you rebooted with all connectors (including
the 3 pin min din) plugged in and the proper 3d drivers installed.

However when I try to open PyMOL and select in the "stereo mode" menu the "Quad buffered stereo" visualization, the projector visualizes the two images for the left and right eye (I see the image is double) but the emitter does not start and so I can not see the stereoscopic effect by the glasses.

I tried to enter the Nvidia driver in order to change the default setting for PyMOL program and force explicitly to use the "3D DLP display" settings though I have had no results.

Looking at the "Tips & Tricks" manual of Nvidia GeForce 3D Vision package, I read that it currently supports only the full screen applications and cannot run in windowed mode.

Is this the problem with my hardware? Or do you think that the problem is elsewhere?

I've tested windowed stereo with 3d vision and a low end quadro 370
for pymol and chimera on win xp, but with a 120 Hz LCD. Do you have a
120Hz LCD monitor you can test with? See this page for more info:

Let us know if you get this to work.