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CCP4BB Home

CCP4BB Home

CCP4BB  March 2014

CCP4BB March 2014

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Subject:

Re: Stereo monitors for use with Pymol and Coot

From:

Robert Campbell <[log in to unmask]>

Reply-To:

Robert Campbell <[log in to unmask]>

Date:

Tue, 11 Mar 2014 14:50:20 -0400

Content-Type:

text/plain

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text/plain (266 lines)

Hi Nic,

There is no reason that you have to use the Unity desktop at all.  I prefer
using the XFCE4 desktop myself.  It is easily installable from the Ubuntu
repositories and then you just have to select it at login.  In one of the
xfce4 settings options ("Window Manager Tweaks") you can disable display
compositing.

Cheers,
Rob

On Tue, 2014-03-11 14:44 EDT, Nic Steussy <[log in to unmask]> wrote:

> Matic,
> 
> I am struggling with Ubuntu on this issue.
> 
> The Nvidia driver needs the 'Composite' function disabled in order to
> function in 3D.  This required the use of the Unity-2D package to disable
> the 3D used in the Ubuntu desktop effects.  This worked fine in Ubuntu
> 12.04.  Unfortuately the developers have decided that the eye candy is
> essential to their desktop and have deprecated the Unity-2D package(since
> 13.04).  So in a more recent release of Ubuntu the 'Composite disable' in
> the xorg.conf with the Nvidia driver will yield a blank screen and a core
> dump.
> 
> I'd certainly love it if someone could offer a solution aside from
> stepping back to an older release.
> 
> Nic out
> 
> On 03/10/2014 05:23 AM, Matic Kisovec wrote:
> Dear everybody,
> 
> to my recent experience not everything is good in the stereo world. Since
> I see that others don't have these problems (and I am happy/sad to see
> that the same exact combinations work without problems) I would just like
> to add my experience.
> 
> For the past 4 months I have been struggling to configure a stereo setup
> for viewing structures in Pymol. I got the VG278HR and PNY Quadro K600
> connected over the original DVI-D cable. Since then I was unable to get
> anything in stereo on Linux (tried Ubuntu, OpenSUSE, Fedora).
> Unfortunately I get a blank/black screen whenever I use the stereo option
> in xorg.conf. Also tried changing the motherboard and CPU but got the
> same result.
> 
> In Windows the demo stuff from Nvidia works just fine but again I have
> problems with Pymol. So far the only way to see anything connected to
> molecular structures in Windows was via DVI-to-HDMI cable but due to HDMI
> restrictions the quality isn't as good as it would be over DVI-D. If I
> use DVI-D that was shipped with the monitor the quadro card is detected
> in Pymol but the monitor doesn't switch to stereo.
> 
> I have been in contact with the company that makes Quadro cards (PNY) but
> they were unable to help me. I also contacted some very kind users of
> CCP4BB and they kindly answered a bunch of question regarding specific
> setup options. Thanks again! Still there was no success so far.
> 
> I am slowly giving up on the stereo so if anybody has any ideas/thoughts
> what could be wrong/done I would greatly appreciate any insight.
> 
> Kind regards,
> Matic
>  
> 
> 
> On 06. 03. 2014 19:32, White, Mark wrote:
> Alexy
> 
> I have the ASUS 27" stereo LCD monitors with built in emitter connected
> to Linux WS with the cheaper Quadro cards. The monitor comes with a
> special DVI cable that caries the sync signal and thus it does not need
> the 3-pin connector. 
> 
> The new LCD stereo monitors produce superb 3D images that are much
> crisper than we used to get with CRT displays. 
> 
> Best regards
> Mark
> 
> Sent from my iPhone
> 
> On Mar 6, 2014, at 12:01 PM, "Alexey Rozov" <[log in to unmask]>
> wrote:
> 
> Hello,
> 
> Sorry, if this question somewhat off-top to the actual discussion, but to
> my understanding one does need the 3-pin connector to operate 3D under
> Linux even for the monitors with the built-in emitter. It appears to be
> necessary to guide the emitter, or am I wrong about it? I'd be thankful
> if anyone can advise me on that since it looks like a big problem to
> acquire the commercial connectors and cables.
> 
> I think I have seen an older discussion on CCP4BB where the importance of
> the 3-pin connector was emphasized...
> 
> Alexey
> 
> 
> On 6 March 2014 18:30, mesters <[log in to unmask]> wrote:
> Hello Moutse,
> 
> as you noted correctly, the ASUS VG278H (HR or HE) comes in two flavours,
> one with build in emitter (120 Hz, HR model) and one without (144 Hz, HE
> model).
> 
> The VG278HR (ships with one pair of shutter glasses) with build in
> emitter can be used under windows and linux with a cheap nvidia quadro
> card (the ones without a 3-pin stereo connector).
> 
> With the VG278HE under windows and a cheap nvidia quadro, you will need
> the nvidia emitter that uses a usb port for driving the emitter. To
> operate the VG278HE under linux requires a truely expensive quadro card
> (k4000 and upwards) with an optional (!) 3-pin connector or, purchase an
> old refurbished quadro card with 3-pin.
> 
> Have a look at the following link
> http://www.nvidia.com/object/3d-vision-pro-requirements.html, especially
> the table at the end with the small print explanation "2" and "3"
> 
> - J. -
> 
> 
> Am 06.03.14 17:41, schrieb Mouts Ranaivoson:
> Hi, 
> 
> I am currently also looking for a 3D monitor, and I am particularly
> attentive to this particular discussion. My interrogation is that does
> the  Asus VG278HE model work under linux ? From previous ccp4bb
> discussions I understood that only built-in emmitter (like the  Asus
> VG278HR) are suitable for that, but maybe I misunderstood...
> 
> Thank you very much for your help,
> 
> Moutse.
> 
> 
> ------------------------------------------------
> Date: Thu, 6 Mar 2014 09:55:15 &#43;0100
> From: [log in to unmask]
> 
> Subject: Re: [ccp4bb] Stereo monitors for use with Pymol and Coot
> To: [log in to unmask]
> 
> 
> Hi,
> 
> this is probaly due to the transition from old TFT style to new IPS panel
> based monitors... Several new passive 3d monitors are hitting the market
> such as AOC d2769Vh and the Philips Gioco 278G4. Both are based on 27"
> IPS Monitor panels.
> 
> A list of possible monitors can be found at Tridef (many are old but new
> models are listed),  https://www.tridef.com/products/pc-licensed-products.
> 
> Problem with passive stereo is, you will half the resolution in the
> vertical direction. It is a problem if you are looking at wire-models of
> structures in pymol and especially fine-wire electron density mesh and
> models in coot as those noticably loose resolution compared to active
> stereo screens. Also, passive screens have a pol-filter in place, the
> fine lines of which you will observe on a white background, the more
> disturbing the closer the viewing distance to the screen is. So, for
> general office applications (writing text), the screens are less useful.
> This is not to big a problem for viewing full screen pictures, games and
> movies (increased distance to the screen...).
> 
> Moreover, with passive monitors, as the stereo effect increases with the
> screen size, the picture looks more "pixeled" compared to active stereo
> screens. I personally own a AOC d2769Vh and for 3D movies it is great,
> for coot not that useful if you plan longer sessions. At work, we operate
> an ASUS VG278HR (active stereo and build in emitter for glasses). Many
> hardware testers consider this screen the best one available on the
> market.
> 
> If you mainly need it for coot, I recommend to change your priorities and
> buy an active stereo screen such as Asus VG248QE or Asus VG278HR. You do
> not need an expensive quadro card (600 will do fine) as the VG278HR has
> build-in emitter for operation with cheap nvidia glasses. It pays off in
> the long run to invest a few more dollars as you (I assume) will spend a
> lot of time in front of the this device (so buy the best as you only have
> one pair of eyes....).
> 
> - J. -
> 
> 
> 
> 
> Am 05.03.14 23:46, schrieb Shaun Lott:
> A rather US-centric question on passive 3D monitors...
> 
> I'm just getting set up in the US, and I'm surprised on how few passive
> 3D monitors seem to be around - many models seem listed as 'out of stock'
> when looking in the usual places (Amazon, NewEgg, BestBuys, Walmart etc.)
> 
> The best deal I have found is for an LG D2343PB-BN
> (http://www.lg.com/us/commercial/lcd-computer-monitors/lg-D2343PB-BN) at
> US$274
> 
> Does anyone have any experience with this model, or any suggestion about
> where best to buy 3D monitors in the US?
> 
> many thanks in advance
> 
> Shaun
> 
> 
> --
> Dr. Jeroen R. Mesters
> Deputy, Senior Researcher & Lecturer
> 
> Institute of Biochemistry, University of Lübeck
> Ratzeburger Allee 160, 23538 Lübeck, Germany
> 
> phone: &#43;49-451-5004065 (secretariate 5004061)
> fax: &#43;49-451-5004068
> 
> http://www.biochem.uni-luebeck.de
> http://www.iobcr.org
> 
> <mime-attachment.png>     
> --
> If you can look into the seeds of time and tell which grain will grow and
> which will not, speak then to me who neither beg nor fear (Shakespeare's
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-- 
Robert L. Campbell, Ph.D.
Senior Research Associate/Adjunct Assistant Professor
Dept. of Biomedical & Molecular Sciences
Botterell Hall Rm 644
Queen's University, 
Kingston, ON K7L 3N6  Canada
Tel: 613-533-6821
<[log in to unmask]>    http://pldserver1.biochem.queensu.ca/~rlc

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