subject:"\[ccp4bb\] 3D stereo and pymol"

Re: [ccp4bb] 3D stereo and (pymol) Win 10/laptops

2019-02-01 Thread Philippe BENAS

Hi Jan, Pedro, CCP4ers and Cooters,

Sure Pedro, you're right: real 3D, I mean stereo due to differences in the path 
length of the pictures respectively in the left and right eye, haven't made it 
in Europe except in the UK. I think in the States as well Nvidia didn't get the 
expected success. As a result Nvidia stereo glasses are no longer made for 
about 4 years or so, even if you can still find old new ones in some 
specialized stores or second hand goggles on eBay. So the only solution might 
be to find an old Asus GX51 or GX53... And on the contrary to my previous email 
there are not running Intel core CPUs of the 2nd or 3rd generation but the 
first !

Holographic solutions seem to have been abandoned as well. The sickness some 
might suffer from while using stereo glasses does not happen with such products 
and real 3D could have been made more popular by this way. Unfortunately the 
price of holographic solutions made them unaffordable...

As for VR, it is not more than looking at your models using a perspective 
drawing, a long-time available option in many programs. VR just adds a 
perception of depth and the caveat is that your model is no longer orthographic 
but distorted to create the perspective view and hence might eventually lead to 
bad interpretations... For designing a car it might be interesting knowing that 
2D projections will be used for actually building the car. For building a 
crystallographic model it would be probably wiser to use several orthogonal 
views as many of us are doing (a lot of students indeed) or stick to stereo, 
either as side-by-side views or using stereo glasses.

Best,
Philippe

Philippe BENAS, Ph.D.

ARN UPR 9002 CNRS
IBMC Strasbourg
15, rue René Descartes
F-67084 STRASBOURG cedex
+33.3.8841.7109
E-mails: p.be...@ibmc-cnrs.unistra.fr, philippe_be...@yahoo.fr
URLs:   http://www-ibmc.u-strasbg.fr/ , http://www-ibmc.u-strasbg.fr/spip-arn/

   Le vendredi 1 février 2019 à 15:20:01 UTC+1, Pedro Matias 
 a écrit :  
 
  
Hi all,
 
Thanks Philippe, for the comprehensive discussion of the problem.
 
I may also add that about 2 years ago I inquired our local DELL reseller about 
laptops with Quadro cards (for running WinCoot in 3D stereo) because they had 
listed in the US site models that supposedly would work. Sadly, those models 
had been discontinued and replaced by a new series that no longer had a 120Hz 
display. I was unable to test whether stereo would still work with an external 
monitor but that would defeat the mobility purpose anyway.
 
Also, it seems that with the new VR trend, NVIDIA is letting 3D vision fade 
away - am I wrong?
 
 
Best, 
 
 
Pedro
 
 Às 13:20 de 01/02/2019, Philippe BENAS escreveu:
  
  Hi Georg,
 
 My first answer would be it's a bad idea for several reasons:
  
 1. PRICE/PERF
 Laptops are always much more expensive than worstations for a given 
performance and often you cannot reach the performances of a desktop or tower 
computer with a laptop.   
 2. QUADRO + 120 Hz DISPLAY
 Then if you want to use hardware stereo you will not only need a Quadro GPU as 
Pedro mentioned but also a screen with a vertical frequency of 120 Hz or higher 
and an external IR emitter. If you install Win7 it might work. If you install 
Win10 it won't with the current version of Coot (PyMol, Discovery Studio will). 
If you want to run linux as OS then you will need in addition a stereo VESA 
3-pin connector (between the graphic and the IR emitter) which I think doesn't 
exists for laptop graphic cards.  
  Using an external monitor won't make it either unless your laptop has a DVI-D 
output (very few I think were manufactured and are no longer) or a Display Port 
1.3 or 1.4 and your monitor also has a DVI-D or a DP 1.3 or 1.4 input.
  Using a Thunderbolt 3 (TB3) output will not help either because I don't think 
you will any monitor with a Thunderbolt input running at a vertical frequency 
of 120 Hz. Then even 3D Club (http://www.club-3d.com) does not make a 
Thunderbolt to DVI-D active adaptor with a refresh rate higher than 60 Hz, i.e. 
you cannot use an external monitor with a DVI-D input.
 
  So it not easy to have Quadro based hardware stereo on a laptop (I tried at 
some point to use the OpenGL drivers for GeForce that were available for 
developers and supposed to allow OpenGL 3D but without success).
 You might find old Asus or Acer laptops (intel core of the 2nd or 3rd 
generation) with screens running at 120 Hz and  built-in IR emitter but they 
are using GeForce graphic cards. At this point you might try to replace the 
GeForce by a mobile Quadro (if it can fit into the PCIe slot).
  
 Alternatively to double requirement of a Quadro and a 120 Hz monitor, you 
could make use of the WiFi mini PCIe port of any laptop and use an external 
Quadro GPU that you will have to  supply with electrical power (see 
https://www.youtube.com/watch?v=6CwuDbXsQck (FR) or 
https://www.youtube.com/watch?v=Dq0ZE8wmv-Q (EN) ) or use some commercial eGPU 
solution

Re: [ccp4bb] 3D stereo and (pymol) Win 10

2019-02-01 Thread Jan Stransky

Dear all,
thank you for the info.
I have also noticed, that NVIDIA is not supporting 3D Vision activelly.
You cannot even buy the glasses in our local distribution.
I have just learn, that Plastation VR headset should be working without
much trouble both Windows and Linux and has reasonable price.
I will let you know, once I know the results.
Best regards,
Jan

On 2/1/19 3:19 PM, Pedro Matias wrote:
> Hi all,
> 
> Thanks Philippe, for the comprehensive discussion of the problem.
> 
> I may also add that about 2 years ago I inquired our local DELL reseller
> about laptops with Quadro cards (for running WinCoot in 3D stereo)
> because they had listed in the US site models that supposedly would
> work. Sadly, those models had been discontinued and replaced by a new
> series that no longer had a 120Hz display. I was unable to test whether
> stereo would still work with an external monitor but that would defeat
> the mobility purpose anyway.
> 
> Also, it seems that with the new VR trend, NVIDIA is letting 3D vision
> fade away - am I wrong?
> 
> Best,
> 
> Pedro
> 
> Às 13:20 de 01/02/2019, Philippe BENAS escreveu:
>> Hi Georg,
>>
>> My first answer would be it's a bad idea for several reasons:
>>
>> 1. PRICE/PERF
>> Laptops are always much more expensive than worstations for a given
>> performance and often you cannot reach the performances of a desktop
>> or tower computer with a laptop.
>>
>> 2. QUADRO + 120 Hz DISPLAY
>> Then if you want to use hardware stereo you will not only need a
>> _Quadro GPU_ as Pedro mentioned but also a screen with a _vertical
>> frequency of 120 Hz_ or higher and an external IR emitter. If you
>> install Win7 it might work. If you install Win10 it won't with the
>> current version of Coot (PyMol, Discovery Studio will). If you want to
>> run linux as OS then you will need in addition a _stereo VESA 3-pin
>> connector_ (between the graphic and the IR emitter) which I think
>> doesn't exists for laptop graphic cards.
>>
>> Using an external monitor won't make it either unless your laptop has
>> a DVI-D output (very few I think were manufactured and are no longer)
>> or a Display Port 1.3 or 1.4 and your monitor also has a DVI-D or a DP
>> 1.3 or 1.4 input.
>> Using a Thunderbolt 3 (TB3) output will not help either because I
>> don't think you will any monitor with a Thunderbolt input running at a
>> vertical frequency of 120 Hz. Then even 3D Club
>> (http://www.club-3d.com) does not make a Thunderbolt to DVI-D active
>> adaptor with a refresh rate higher than 60 Hz, i.e. you cannot use an
>> external monitor with a DVI-D input.
>>
>> So it not easy to have Quadro based hardware stereo on a laptop (I
>> tried at some point to use the OpenGL drivers for GeForce that were
>> available for developers and supposed to allow OpenGL 3D but without
>> success).
>> You might find old Asus or Acer laptops (intel core of the 2nd or 3rd
>> generation) with screens running at 120 Hz and built-in IR emitter but
>> they are using GeForce graphic cards. At this point you might try to
>> replace the GeForce by a mobile Quadro (if it can fit into the PCIe slot).
>>
>> Alternatively to double requirement of a Quadro and a 120 Hz monitor,
>> you could make use of the WiFi mini PCIe port of any laptop and use an
>> external Quadro GPU that you will have to supply with electrical power
>> (see https://www.youtube.com/watch?v=6CwuDbXsQck (FR) or
>> https://www.youtube.com/watch?v=Dq0ZE8wmv-Q (EN) ) or use some
>> commercial eGPU solution (often using the TB3 port; e.g.
>> https://www.pcworld.com/article/2984716/laptop-computers/how-to-transform-your-laptop-into-a-gaming-powerhouse-with-an-external-graphics-card.html
>> ) but with their restrictions (laptop compatibility list and I'm not
>> sure it will work under linux).
>> I haven't tested these solutions as the benefit in portability of a
>> laptop ins then lost.
>>
>> And overall I think you're better of buying any cheap second hand
>> workstation, Quadro graphic card and a 27" monitor @ 120 Hz.
>>
>> Best regards,
>> Philippe
>>
>> 
>> Philippe BENAS, Ph.D.
>>
>> ARN UPR 9002 CNRS
>> IBMC Strasbourg
>> 15, rue René Descartes
>> F-67084 STRASBOURG cedex
>> +33.3.8841.7109
>> E-mails: p.be...@ibmc-cnrs.unistra.fr
>> , philippe_be...@yahoo.fr
>> 
>> URLs: http://www-ibmc.u-strasbg.fr/ ,
>> http://www-ibmc.u-strasbg.fr/spip-arn/
>> 
>>
>>
>>
>> Le vendredi 1 février 2019 à 10:11:48 UTC+1, Pedro Matias
>>  a écrit :
>>
>>
>> Hi,
>>
>> You need a laptop with a NVIDIA Quadro card that supports quadbuffered
>> 3D stereo under Linux. I found this page
>>
>> https://www.nvidia.com/en-us/design-visualization/quadro-for-mobile-workstations/
>>
>> that may help find a laptop with the needed specs.
>>
>> For example, you can find info about a DELL laptop

Re: [ccp4bb] 3D stereo and (pymol) Win 10

2019-02-01 Thread Pedro Matias

Hi all,

Thanks Philippe, for the comprehensive discussion of the problem.

I may also add that about 2 years ago I inquired our local DELL reseller
about laptops with Quadro cards (for running WinCoot in 3D stereo)
because they had listed in the US site models that supposedly would
work. Sadly, those models had been discontinued and replaced by a new
series that no longer had a 120Hz display. I was unable to test whether
stereo would still work with an external monitor but that would defeat
the mobility purpose anyway.

Also, it seems that with the new VR trend, NVIDIA is letting 3D vision
fade away - am I wrong?

Best,

Pedro

Às 13:20 de 01/02/2019, Philippe BENAS escreveu:
> Hi Georg,
>
> My first answer would be it's a bad idea for several reasons:
>
> 1. PRICE/PERF
> Laptops are always much more expensive than worstations for a given
> performance and often you cannot reach the performances of a desktop
> or tower computer with a laptop.
>
> 2. QUADRO + 120 Hz DISPLAY
> Then if you want to use hardware stereo you will not only need a
> _Quadro GPU_ as Pedro mentioned but also a screen with a _vertical
> frequency of 120 Hz_ or higher and an external IR emitter. If you
> install Win7 it might work. If you install Win10 it won't with the
> current version of Coot (PyMol, Discovery Studio will). If you want to
> run linux as OS then you will need in addition a _stereo VESA 3-pin
> connector_ (between the graphic and the IR emitter) which I think
> doesn't exists for laptop graphic cards.
>
> Using an external monitor won't make it either unless your laptop has
> a DVI-D output (very few I think were manufactured and are no longer)
> or a Display Port 1.3 or 1.4 and your monitor also has a DVI-D or a DP
> 1.3 or 1.4 input.
> Using a Thunderbolt 3 (TB3) output will not help either because I
> don't think you will any monitor with a Thunderbolt input running at a
> vertical frequency of 120 Hz. Then even 3D Club
> (http://www.club-3d.com) does not make a Thunderbolt to DVI-D active
> adaptor with a refresh rate higher than 60 Hz, i.e. you cannot use an
> external monitor with a DVI-D input.
>
> So it not easy to have Quadro based hardware stereo on a laptop (I
> tried at some point to use the OpenGL drivers for GeForce that were
> available for developers and supposed to allow OpenGL 3D but without
> success).
> You might find old Asus or Acer laptops (intel core of the 2nd or 3rd
> generation) with screens running at 120 Hz and built-in IR emitter but
> they are using GeForce graphic cards. At this point you might try to
> replace the GeForce by a mobile Quadro (if it can fit into the PCIe slot).
>
> Alternatively to double requirement of a Quadro and a 120 Hz monitor,
> you could make use of the WiFi mini PCIe port of any laptop and use an
> external Quadro GPU that you will have to supply with electrical power
> (see https://www.youtube.com/watch?v=6CwuDbXsQck (FR) or
> https://www.youtube.com/watch?v=Dq0ZE8wmv-Q (EN) ) or use some
> commercial eGPU solution (often using the TB3 port; e.g.
> https://www.pcworld.com/article/2984716/laptop-computers/how-to-transform-your-laptop-into-a-gaming-powerhouse-with-an-external-graphics-card.html
> ) but with their restrictions (laptop compatibility list and I'm not
> sure it will work under linux).
> I haven't tested these solutions as the benefit in portability of a
> laptop ins then lost.
>
> And overall I think you're better of buying any cheap second hand
> workstation, Quadro graphic card and a 27" monitor @ 120 Hz.
>
> Best regards,
> Philippe
>
> 
> Philippe BENAS, Ph.D.
>
> ARN UPR 9002 CNRS
> IBMC Strasbourg
> 15, rue René Descartes
> F-67084 STRASBOURG cedex
> +33.3.8841.7109
> E-mails: p.be...@ibmc-cnrs.unistra.fr
> , philippe_be...@yahoo.fr
> 
> URLs: http://www-ibmc.u-strasbg.fr/ ,
> http://www-ibmc.u-strasbg.fr/spip-arn/
> 
>
>
>
> Le vendredi 1 février 2019 à 10:11:48 UTC+1, Pedro Matias
>  a écrit :
>
>
> Hi,
>
> You need a laptop with a NVIDIA Quadro card that supports quadbuffered
> 3D stereo under Linux. I found this page
>
> https://www.nvidia.com/en-us/design-visualization/quadro-for-mobile-workstations/
>
> that may help find a laptop with the needed specs.
>
> For example, you can find info about a DELL laptop with a QUADRO P4200 at
>
> https://www.dell.com/en-us/work/shop/dell-laptops-and-notebooks/precision-7730-mobile-workstation/spd/precision-17-7730-laptop?view=configurations
>
> but you need to make sure the display supports 120/144 Hz refresh rate.
>
> Best regards,
>
> Pedro
>
> Às 22:52 de 31/01/2019, Georg Mlynek escreveu:
>>
>> Dear all, I am considering to buy a new laptop and would like to
>> install the latest ubuntu version and have 3D glasses. Following the
>> discussions in the lasts years, this issue seems to be

Re: [ccp4bb] 3D stereo and (pymol) Win 10

2019-02-01 Thread Philippe BENAS

Hi Georg,

My first answer would be it's a bad idea for several reasons:

1. PRICE/PERF
Laptops are always much more expensive than worstations for a given performance
and often you cannot reach the performances of a desktop or tower computer with
a laptop.
2. QUADRO + 120 Hz DISPLAY
Then if you want to use hardware stereo you will not only need a Quadro GPU as
Pedro mentioned but also a screen with a vertical frequency of 120 Hz or higher
and an external IR emitter. If you install Win7 it might work. If you install
Win10 it won't with the current version of Coot (PyMol, Discovery Studio will).
If you want to run linux as OS then you will need in addition a stereo VESA
3-pin connector (between the graphic and the IR emitter) which I think doesn't
exists for laptop graphic cards.
Using an external monitor won't make it either unless your laptop has a DVI-D
output (very few I think were manufactured and are no longer) or a Display Port
1.3 or 1.4 and your monitor also has a DVI-D or a DP 1.3 or 1.4 input.
Using a Thunderbolt 3 (TB3) output will not help either because I don't think
you will any monitor with a Thunderbolt input running at a vertical frequency
of 120 Hz. Then even 3D Club (http://www.club-3d.com) does not make a
Thunderbolt to DVI-D active adaptor with a refresh rate higher than 60 Hz, i.e.
you cannot use an external monitor with a DVI-D input.

So it not easy to have Quadro based hardware stereo on a laptop (I tried at
some point to use the OpenGL drivers for GeForce that were available for
developers and supposed to allow OpenGL 3D but without success).
You might find old Asus or Acer laptops (intel core of the 2nd or 3rd
generation) with screens running at 120 Hz and built-in IR emitter but they are
using GeForce graphic cards. At this point you might try to replace the GeForce
by a mobile Quadro (if it can fit into the PCIe slot).

Alternatively to double requirement of a Quadro and a 120 Hz monitor, you could
make use of the WiFi mini PCIe port of any laptop and use an external Quadro
GPU that you will have to supply with electrical power (see
https://www.youtube.com/watch?v=6CwuDbXsQck (FR) or
https://www.youtube.com/watch?v=Dq0ZE8wmv-Q (EN) ) or use some commercial eGPU
solution (often using the TB3 port; e.g.
https://www.pcworld.com/article/2984716/laptop-computers/how-to-transform-your-laptop-into-a-gaming-powerhouse-with-an-external-graphics-card.html
) but with their restrictions (laptop compatibility list and I'm not sure it
will work under linux).I haven't tested these solutions as the benefit in
portability of a laptop ins then lost.

And overall I think you're better of buying any cheap second hand workstation,
Quadro graphic card and a 27" monitor @ 120 Hz.

Best regards,
Philippe
Philippe BENAS, Ph.D.

ARN UPR 9002 CNRS
IBMC Strasbourg
15, rue René Descartes
F-67084 STRASBOURG cedex
+33.3.8841.7109
E-mails: p.be...@ibmc-cnrs.unistra.fr, philippe_be...@yahoo.fr
URLs: http://www-ibmc.u-strasbg.fr/ , http://www-ibmc.u-strasbg.fr/spip-arn/

Le vendredi 1 février 2019 à 10:11:48 UTC+1, Pedro Matias
a écrit :

Hi,

You need a laptop with a NVIDIA Quadro card that supports quadbuffered 3D
stereo under Linux. I found this page

https://www.nvidia.com/en-us/design-visualization/quadro-for-mobile-workstations/
that may help find a laptop with the needed specs.
For example, you can find info about a DELL laptop with a QUADRO P4200 at

https://www.dell.com/en-us/work/shop/dell-laptops-and-notebooks/precision-7730-mobile-workstation/spd/precision-17-7730-laptop?view=configurations

but you need to make sure the display supports 120/144 Hz refresh rate.

Best regards,

Pedro

Às 22:52 de 31/01/2019, Georg Mlynek escreveu:

Dear all, I am considering to buy a new laptop and would like to install the
latest ubuntu version and have 3D glasses. Following the discussions in the
lasts years, this issue seems to be not trivial. Which setup of laptop and 3D
glasses will work plug and play?

And what about VR. When is coot and pymol VR ready?

Best regards, Georg.

On 31.01.19 10:54, Philippe BENAS wrote:

Dear all,
I had an HP Z620 that was dual boot Kubuntu 14.03 and Win 10. Coot was
working in stereo mode without any problem for a year or so. But after one of
their major updates Coot crashed as soon as the built-in IR emitter of my Asus
VG278H turned on, as described Pedro and Jan.
My personal guess is that the new Win 10 kernels no longer accept some direct
exchanges from programs to hardware parts, probably for safety issues. So I
came to the same conclusion as Pedro: stick to Win 7 if you want to run Coot
under Windows or use a linux distribution or dual boot workstation.
Nevertheless PyMol was just working fine in stereo mode under Win 10. At
least until last september when I sold my Z620 for a Z820 (Kubuntu 18.04/Win7).
May be PyMol developers at Schrödinger could give their tips and tricks to

Re: [ccp4bb] 3D stereo and (pymol) Win 10

2019-02-01 Thread Pedro Matias

Hi,

You need a laptop with a NVIDIA Quadro card that supports quadbuffered
3D stereo under Linux. I found this page

https://www.nvidia.com/en-us/design-visualization/quadro-for-mobile-workstations/

that may help find a laptop with the needed specs.

For example, you can find info about a DELL laptop with a QUADRO P4200 at

https://www.dell.com/en-us/work/shop/dell-laptops-and-notebooks/precision-7730-mobile-workstation/spd/precision-17-7730-laptop?view=configurations

but you need to make sure the display supports 120/144 Hz refresh rate.

Best regards,

Pedro

Às 22:52 de 31/01/2019, Georg Mlynek escreveu:
>
> Dear all, I am considering to buy a new laptop and would like to
> install the latest ubuntu version and have 3D glasses. Following the
> discussions in the lasts years, this issue seems to be not trivial.
> Which setup of laptop and 3D glasses will work plug and play?
>
> And what about VR. When is coot and pymol VR ready?
>
> Best regards, Georg.
>
>
> On 31.01.19 10:54, Philippe BENAS wrote:
>> Dear all,
>>
>> I had an HP Z620 that was dual boot Kubuntu 14.03 and Win 10. Coot
>> was working in stereo mode without any problem for a year or so. But
>> after one of their major updates Coot crashed as soon as the built-in
>> IR emitter of my Asus VG278H turned on, as described Pedro and Jan.
>>
>> My personal guess is that the new Win 10 kernels no longer accept
>> some direct exchanges from programs to hardware parts, probably for
>> safety issues. So I came to the same conclusion as Pedro: stick to
>> Win 7 if you want to run Coot under Windows or use a linux
>> distribution or dual boot workstation.
>>
>> Nevertheless PyMol was just working fine in stereo mode under Win 10.
>> At least until last september when I sold my Z620 for a Z820 (Kubuntu
>> 18.04/Win7). May be PyMol developers at Schrödinger could give their
>> tips and tricks to Bernard Lohkamp to whom I send my warmest
>> aknowledgments for porting Coot under Windows.
>>
>> Best regards,
>> Philippe
>>
>> 
>> Philippe BENAS, Ph.D.
>>
>> ARN UPR 9002 CNRS
>> IBMC Strasbourg
>> 15, rue René Descartes
>> F-67084 STRASBOURG cedex
>> +33.3.8841.7109
>> E-mails: p.be...@ibmc-cnrs.unistra.fr
>> , philippe_be...@yahoo.fr
>> 
>> URLs: http://www-ibmc.u-strasbg.fr/ ,
>> http://www-ibmc.u-strasbg.fr/spip-arn/
>> 
>>
>>
>>
>> Le jeudi 31 janvier 2019 à 10:18:42 UTC+1, Pedro Matias
>>  a écrit :
>>
>>
>> Hi all,
>>
>> The problem with COOT stereo and Windows 10 is that the COOT binary
>> is not compatible with the newer OpenGL drivers or somesuch in
>> Windows 10. So, COOT runs fine in Windows 10 but crashes if you enter
>> hardware stereo mode. However, PyMOL works fine in stereo in Windows 10.
>>
>> According to Bernhard Lohkamp, the Windows COOT developer, this
>> problem has not yet been fixed because he has no access to a Windows
>> 10 PC.
>>
>> Therefore, stick to Windows 7 if you want to run COOT stereo on a
>> cheap Quadro card.
>>
>> Best regards,
>>
>> Pedro
>>
>> Às 04:38 de 31/01/2019, Jim Fairman escreveu:
>>> I had a Windows 7 machine that would run Quad buffered stereo back
>>> around 2009, haven't had a chance to try with Windows 10.
>>>
>>> On Wed, Jan 30, 2019, 02:03 Jan Stransky
>>> mailto:jan.stransky.c...@gmail.com>>
>>> wrote:
>>>
>>> Dear all,
>>>
>>> I started looking into the never ending story of stereo in
>>> crystallography... As with our standardized linux setup we
>>> probably are not willing to move to X.org-world, if was
>>> wondering, if anybody was succesful to make stereo working in
>>> Windows 10. I did read some NVIDIA forum, and it seems that 3d
>>> vision is not very supported by NVIDIA, even for gamers... Was
>>> anybody able to mke it work with Geforce cards, to save few bucks?
>>>
>>> Best regards,
>>>
>>> Jan
>>>
>>> Dne 03.01.2018 v 10:42 Wim Burmeister napsal(a):
 I answer a bit late, but I repost a message on 3D graphics from
 Mai 2017 :

 Hello,

 we just wanted to share our experience in finding a
 configuration which allows to use 3D graphics under linux using
 Nvidia GeForce 3D glasses.

 We had quite a hard time to find a configurations which works
 correctly.

 We finally used Debian linux with a xfce desktop. Other recent
 desktops use a tiling which is not compatible with 3D graphics.

 The hardware consists of

   * a DELL Precision T5810  desktop computer with an Nvidia
 Quadro M4000 (8 Gbyte memory, 4 DP) graphics card
   * Nvidia GeForce 3D Vision 2 (NVIDIA GEF 3D VISION 2 GLASSES
 KIT) active stereo glasses
   * a stereo connector PNY Quadro 4000 3D for the

Re: [ccp4bb] 3D stereo and (pymol) Win 10

2019-01-31 Thread Georg Mlynek

Dear all, I am considering to buy a new laptop and would like to install 
the latest ubuntu version and have 3D glasses. Following the discussions 
in the lasts years, this issue seems to be not trivial. Which setup of 
laptop and 3D glasses will work plug and play?


And what about VR. When is coot and pymol VR ready?

Best regards, Georg.


On 31.01.19 10:54, Philippe BENAS wrote:

Dear all,

I had an HP Z620 that was dual boot Kubuntu 14.03 and Win 10. Coot was 
working in stereo mode without any problem for a year or so. But after 
one of their major updates Coot crashed as soon as the built-in IR 
emitter of my Asus VG278H turned on, as described Pedro and Jan.


My personal guess is that the new Win 10 kernels no longer accept some 
direct exchanges from programs to hardware parts, probably for safety 
issues. So I came to the same conclusion as Pedro: stick to Win 7 if 
you want to run Coot under Windows or use a linux distribution or dual 
boot workstation.


Nevertheless PyMol was just working fine in stereo mode under Win 10. 
At least until last september when I sold my Z620 for a Z820 (Kubuntu 
18.04/Win7). May be PyMol developers at Schrödinger could give their 
tips and tricks to Bernard Lohkamp to whom I send my warmest 
aknowledgments for porting Coot under Windows.


Best regards,
Philippe


Philippe BENAS, Ph.D.

ARN UPR 9002 CNRS
IBMC Strasbourg
15, rue René Descartes
F-67084 STRASBOURG cedex
+33.3.8841.7109
E-mails: p.be...@ibmc-cnrs.unistra.fr 
, philippe_be...@yahoo.fr 

URLs: http://www-ibmc.u-strasbg.fr/ , 
http://www-ibmc.u-strasbg.fr/spip-arn/





Le jeudi 31 janvier 2019 à 10:18:42 UTC+1, Pedro Matias 
 a écrit :



Hi all,

The problem with COOT stereo and Windows 10 is that the COOT binary is 
not compatible with the newer OpenGL drivers or somesuch in Windows 
10. So, COOT runs fine in Windows 10 but crashes if you enter hardware 
stereo mode. However, PyMOL works fine in stereo in Windows 10.


According to Bernhard Lohkamp, the Windows COOT developer, this 
problem has not yet been fixed because he has no access to a Windows 
10 PC.


Therefore, stick to Windows 7 if you want to run COOT stereo on a 
cheap Quadro card.


Best regards,

Pedro

Às 04:38 de 31/01/2019, Jim Fairman escreveu:
I had a Windows 7 machine that would run Quad buffered stereo back 
around 2009, haven't had a chance to try with Windows 10.


On Wed, Jan 30, 2019, 02:03 Jan Stransky > wrote:


Dear all,

I started looking into the never ending story of stereo in
crystallography... As with our standardized linux setup we
probably are not willing to move to X.org-world, if was
wondering, if anybody was succesful to make stereo working in
Windows 10. I did read some NVIDIA forum, and it seems that 3d
vision is not very supported by NVIDIA, even for gamers... Was
anybody able to mke it work with Geforce cards, to save few bucks?

Best regards,

Jan

Dne 03.01.2018 v 10:42 Wim Burmeister napsal(a):

I answer a bit late, but I repost a message on 3D graphics from
Mai 2017 :

Hello,

we just wanted to share our experience in finding a
configuration which allows to use 3D graphics under linux using
Nvidia GeForce 3D glasses.

We had quite a hard time to find a configurations which works
correctly.

We finally used Debian linux with a xfce desktop. Other recent
desktops use a tiling which is not compatible with 3D graphics.

The hardware consists of

  * a DELL Precision T5810  desktop computer with an Nvidia
Quadro M4000 (8 Gbyte memory, 4 DP) graphics card
  * Nvidia GeForce 3D Vision 2 (NVIDIA GEF 3D VISION 2 GLASSES
KIT) active stereo glasses
  * a stereo connector PNY Quadro 4000 3D for the
synchronization of graphics card and glasses
  * an ASUS 24" LED 3D - VG248QE display
  * a DisplayPort-DisplayPort cable

The Nvidia linux drivers from version 367.57 can handle the
current version of the Nvidia glasses.

For an obscure reason a direct DP-DP connection between graphics
card and display is absolutely required in order to obtain fully
working stereo. If a DP-DVI dual link adapter is used, the
stereo does not work on the top and the bottom part of the
screen. This is true for a native DELL active adaptor or generic
models. The exact reason remains unresolved, but the solution is
to use a direct DP-DP connection. This limits the available
choice of displays which require 120 Hz for 1080*1980 screen
resolution and a DP input. We have been choosing a “Nvidia 3D
ready” model.

There has been a considerate about of exchange about this problem on

Re: [ccp4bb] AW: [ccp4bb] 3D stereo and pymol

2019-01-31 Thread Jan Stransky

Awesome solution :-) I am sure, users will appreciate it. And I don't
need stereo personally :-)
Jan

On 1/31/19 9:26 AM, Hughes, Jon wrote:
> ...just open pymol, go to display - stereo mode - cross-eye then click
> stereo. it might need a little practice and it makes one look even
> sillier than one does usually, but it works, costs nothing, needs no
> updates and i'm told that it's even good for your eye muscles!
> 
> best,
> 
> jon
> 
>  
> 
> *Von:*CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] *Im Auftrag von
> *Jan Stransky
> *Gesendet:* Mittwoch, 30. Januar 2019 11:03
> *An:* CCP4BB@JISCMAIL.AC.UK
> *Betreff:* Re: [ccp4bb] 3D stereo and pymol
> 
>  
> 
> Dear all,
> 
> I started looking into the never ending story of stereo in
> crystallography... As with our standardized linux setup we probably are
> not willing to move to X.org-world, if was wondering, if anybody was
> succesful to make stereo working in Windows 10. I did read some NVIDIA
> forum, and it seems that 3d vision is not very supported by NVIDIA, even
> for gamers... Was anybody able to mke it work with Geforce cards, to
> save few bucks?
> 
> Best regards,
> 
> Jan
> 
> Dne 03.01.2018 v 10:42 Wim Burmeister napsal(a):
> 
> I answer a bit late, but I repost a message on 3D graphics from Mai
> 2017 :
> 
> Hello,
> 
> we just wanted to share our experience in finding a configuration
> which allows to use 3D graphics under linux using Nvidia GeForce 3D
> glasses.
> 
> We had quite a hard time to find a configurations which works correctly.
> 
> We finally used Debian linux with a xfce desktop. Other recent
> desktops use a tiling which is not compatible with 3D graphics.
> 
> The hardware consists of
> 
>   * a DELL Precision T5810  desktop computer with an Nvidia Quadro
> M4000 (8 Gbyte memory, 4 DP) graphics card
>   * Nvidia GeForce 3D Vision 2 (NVIDIA GEF 3D VISION 2 GLASSES KIT)
> active stereo glasses
>   * a stereo connector PNY Quadro 4000 3D for the synchronization of
> graphics card and glasses
>   * an ASUS 24" LED 3D - VG248QE display
>   * a DisplayPort-DisplayPort cable
> 
> The Nvidia linux drivers from version 367.57 can handle the current
> version of the Nvidia glasses.
> 
> For an obscure reason a direct DP-DP connection between graphics
> card and display is absolutely required in order to obtain fully
> working stereo. If a DP-DVI dual link adapter is used, the stereo
> does not work on the top and the bottom part of the screen. This is
> true for a native DELL active adaptor or generic models. The exact
> reason remains unresolved, but the solution is to use a direct DP-DP
> connection. This limits the available choice of displays which
> require 120 Hz for 1080*1980 screen resolution and a DP input. We
> have been choosing a “Nvidia 3D ready” model.
> 
> There has been a considerate about of exchange about this problem on
> 
> 
> https://devtalk.nvidia.com/default/topic/992892/linux/partially-working-stereoscopic-effect-with-3d-vision-under-debian-linux/
> 
> The setup comes with a price tag of about 1600 € free of taxes.
> 
> coot, pymol and chimera work straight without problems in hardware
> stereo mode. The experience is absolutely great.
> 
> Best
> 
> Wim
> 
> -- 
> 
> Wim Burmeister
> Professeur
> Institut de Biologie Structurale (IBS) CIBB
> 71 avenue des Martyrs
> 
> CS 20192
> 38044 Grenoble Cedex 9, FRANCE
> E-mail: wim.burmeis...@ibs.fr <mailto:wim.burmeis...@ibs.fr>
> Tel:    +33 (0) 457 42 87 41   Fax: +33 (0) 476 20 94 00
> website
> 
> <http://www.ibs.fr/research/research-groups/viral-replication-machines-group-m-jamin/team-03/article/poxvirus-replication-machinery-presentation/>
> 
>  
> 
>  
> 
> 
> 
> To unsubscribe from the CCP4BB list, click the following link:
> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB=1
> 
> 
> 
> 
> To unsubscribe from the CCP4BB list, click the following link:
> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB=1
> 



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Re: [ccp4bb] 3D stereo and (pymol) Win 10

2019-01-31 Thread Philippe BENAS

Dear all,
I had an HP Z620 that was dual boot Kubuntu 14.03 and Win 10. Coot was working
in stereo mode without any problem for a year or so. But after one of their
major updates Coot crashed as soon as the built-in IR emitter of my Asus VG278H
turned on, as described Pedro and Jan.
My personal guess is that the new Win 10 kernels no longer accept some direct
exchanges from programs to hardware parts, probably for safety issues. So I
came to the same conclusion as Pedro: stick to Win 7 if you want to run Coot
under Windows or use a linux distribution or dual boot workstation.
Nevertheless PyMol was just working fine in stereo mode under Win 10. At least
until last september when I sold my Z620 for a Z820 (Kubuntu 18.04/Win7). May
be PyMol developers at Schrödinger could give their tips and tricks to Bernard
Lohkamp to whom I send my warmest aknowledgments for porting Coot under Windows.

Best regards,
Philippe

Philippe BENAS, Ph.D.

Le jeudi 31 janvier 2019 à 10:18:42 UTC+1, Pedro Matias
a écrit :

Hi all,

The problem with COOT stereo and Windows 10 is that the COOT binary is not
compatible with the newer OpenGL drivers or somesuch in Windows 10. So, COOT
runs fine in Windows 10 but crashes if you enter hardware stereo mode. However,
PyMOL works fine in stereo in Windows 10.

According to Bernhard Lohkamp, the Windows COOT developer, this problem has not
yet been fixed because he has no access to a Windows 10 PC.

Therefore, stick to Windows 7 if you want to run COOT stereo on a cheap Quadro
card.

Best regards,

Pedro

Às 04:38 de 31/01/2019, Jim Fairman escreveu:

I had a Windows 7 machine that would run Quad buffered stereo back around
2009, haven't had a chance to try with Windows 10.
On Wed, Jan 30, 2019, 02:03 Jan Stransky wrote:

Dear all,

I started looking into the never ending story of stereo in crystallography...
As with our standardized linux setup we probably are not willing to move to
X.org-world, if was wondering, if anybody was succesful to make stereo working
in Windows 10. I did read some NVIDIA forum, and it seems that 3d vision is
not very supported by NVIDIA, even for gamers... Was anybody able to mke it
work with Geforce cards, to save few bucks?

Best regards,

Jan

Dne 03.01.2018 v 10:42 Wim Burmeister napsal(a):

I answer a bit late, but I repost a message on 3D graphics from Mai 2017 :

Hello,

we just wanted to share our experience in finding a configuration which allows
to use 3D graphics under linux using Nvidia GeForce 3D glasses.

We had quite a hard time to find a configurations which works correctly.

We finally used Debian linux with a xfce desktop. Other recent desktops use a
tiling which is not compatible with 3D graphics.

The hardware consists of

- a DELL Precision T5810 desktop computer with an Nvidia Quadro M4000 (8
Gbyte memory, 4 DP) graphics card
- Nvidia GeForce 3D Vision 2 (NVIDIA GEF 3D VISION 2 GLASSES KIT) active
stereo glasses
- a stereo connector PNY Quadro 4000 3D for the synchronization of graphics
card and glasses
- an ASUS 24" LED 3D - VG248QE display
- a DisplayPort-DisplayPort cable

The Nvidia linux drivers from version 367.57 can handle the current version of
the Nvidia glasses.

For an obscure reason a direct DP-DP connection between graphics card and
display is absolutely required in order to obtain fully working stereo. If a
DP-DVI dual link adapter is used, the stereo does not work on the top and the
bottom part of the screen. This is true for a native DELL active adaptor or
generic models. The exact reason remains unresolved, but the solution is to use
a direct DP-DP connection. This limits the available choice of displays which
require 120 Hz for 1080*1980 screen resolution and a DP input. We have been
choosing a “Nvidia 3D ready” model.

There has been a considerate about of exchange about this problem on

https://devtalk.nvidia.com/default/topic/992892/linux/partially-working-stereoscopic-effect-with-3d-vision-under-debian-linux/

The setup comes with a price tag of about 1600 € free of taxes.

coot, pymol and chimera work straight without problems in hardware stereo mode.
The experience is absolutely great.

Best

Wim
--

Wim Burmeister
Professeur
Institut de Biologie Structurale (IBS) CIBB
71 avenue des Martyrs
CS 20192
38044 Grenoble Cedex 9, FRANCE
E-mail: wim.burmeis...@ibs.fr
Tel: +33 (0) 457 42 87 41 Fax: +33 (0) 476 20 94 00
website

To unsubscribe from the CCP4BB list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB=1

To unsubscribe from the CCP4BB list, click the

Re: [ccp4bb] 3D stereo and pymol

2019-01-31 Thread Pedro Matias

Hi all,

The problem with COOT stereo and Windows 10 is that the COOT binary is
not compatible with the newer OpenGL drivers or somesuch in Windows 10.
So, COOT runs fine in Windows 10 but crashes if you enter hardware
stereo mode. However, PyMOL works fine in stereo in Windows 10.

According to Bernhard Lohkamp, the Windows COOT developer, this problem
has not yet been fixed because he has no access to a Windows 10 PC.

Therefore, stick to Windows 7 if you want to run COOT stereo on a cheap
Quadro card.

Best regards,

Pedro

Às 04:38 de 31/01/2019, Jim Fairman escreveu:
> I had a Windows 7 machine that would run Quad buffered stereo back
> around 2009, haven't had a chance to try with Windows 10.
>
> On Wed, Jan 30, 2019, 02:03 Jan Stransky  > wrote:
>
> Dear all,
>
> I started looking into the never ending story of stereo in
> crystallography... As with our standardized linux setup we
> probably are not willing to move to X.org-world, if was wondering,
> if anybody was succesful to make stereo working in Windows 10. I
> did read some NVIDIA forum, and it seems that 3d vision is not
> very supported by NVIDIA, even for gamers... Was anybody able to
> mke it work with Geforce cards, to save few bucks?
>
> Best regards,
>
> Jan
>
> Dne 03.01.2018 v 10:42 Wim Burmeister napsal(a):
>> I answer a bit late, but I repost a message on 3D graphics from
>> Mai 2017 :
>>
>> Hello,
>>
>> we just wanted to share our experience in finding a configuration
>> which allows to use 3D graphics under linux using Nvidia GeForce
>> 3D glasses.
>>
>> We had quite a hard time to find a configurations which works
>> correctly.
>>
>> We finally used Debian linux with a xfce desktop. Other recent
>> desktops use a tiling which is not compatible with 3D graphics.
>>
>> The hardware consists of
>>
>>   * a DELL Precision T5810  desktop computer with an Nvidia
>> Quadro M4000 (8 Gbyte memory, 4 DP) graphics card
>>   * Nvidia GeForce 3D Vision 2 (NVIDIA GEF 3D VISION 2 GLASSES
>> KIT) active stereo glasses
>>   * a stereo connector PNY Quadro 4000 3D for the synchronization
>> of graphics card and glasses
>>   * an ASUS 24" LED 3D - VG248QE display
>>   * a DisplayPort-DisplayPort cable
>>
>> The Nvidia linux drivers from version 367.57 can handle the
>> current version of the Nvidia glasses.
>>
>> For an obscure reason a direct DP-DP connection between graphics
>> card and display is absolutely required in order to obtain fully
>> working stereo. If a DP-DVI dual link adapter is used, the stereo
>> does not work on the top and the bottom part of the screen. This
>> is true for a native DELL active adaptor or generic models. The
>> exact reason remains unresolved, but the solution is to use a
>> direct DP-DP connection. This limits the available choice of
>> displays which require 120 Hz for 1080*1980 screen resolution and
>> a DP input. We have been choosing a “Nvidia 3D ready” model.
>>
>> There has been a considerate about of exchange about this problem on
>>
>> 
>> https://devtalk.nvidia.com/default/topic/992892/linux/partially-working-stereoscopic-effect-with-3d-vision-under-debian-linux/
>>
>> The setup comes with a price tag of about 1600 € free of taxes.
>>
>> coot, pymol and chimera work straight without problems in
>> hardware stereo mode. The experience is absolutely great.
>>
>> Best
>>
>> Wim
>>
>> -- 
>>
>> Wim Burmeister
>> Professeur
>> Institut de Biologie Structurale (IBS) CIBB
>> 71 avenue des Martyrs
>>
>> CS 20192
>> 38044 Grenoble Cedex 9, FRANCE
>> E-mail: wim.burmeis...@ibs.fr 
>> Tel:    +33 (0) 457 42 87 41   Fax: +33 (0) 476 20 94 00
>> website
>> 
>> 
>>
>> //
>>
>
> 
>
> To unsubscribe from the CCP4BB list, click the following link:
> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB=1
>
>
> 
>
> To unsubscribe from the CCP4BB list, click the following link:
> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB=1
>
-- 

Industry and Medicine Applied Crystallography
Macromolecular Crystallography Unit
___
Phones : (351-21) 446-9100 Ext. 1669
 (351-21) 446-9669 (direct)
 Fax   : (351-21) 441-1277 or 443-3644

email : mat...@itqb.unl.pt

http://www.itqb.unl.pt/research/biological-chemistry/industry-and-medicine-applied-crystallography
http://www.itqb.unl.pt/labs/macromolecular-crystallography-unit

Mailing address :
Instituto de Tecnologia

[ccp4bb] AW: [ccp4bb] 3D stereo and pymol

2019-01-31 Thread Hughes, Jon

...just open pymol, go to display - stereo mode - cross-eye then click stereo.
it might need a little practice and it makes one look even sillier than one
does usually, but it works, costs nothing, needs no updates and i'm told that
it's even good for your eye muscles!
best,
jon

Von: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] Im Auftrag von Jan
Stransky
Gesendet: Mittwoch, 30. Januar 2019 11:03
An: CCP4BB@JISCMAIL.AC.UK
Betreff: Re: [ccp4bb] 3D stereo and pymol

Dear all,

I started looking into the never ending story of stereo in crystallography...
As with our standardized linux setup we probably are not willing to move to
X.org-world, if was wondering, if anybody was succesful to make stereo working
in Windows 10. I did read some NVIDIA forum, and it seems that 3d vision is not
very supported by NVIDIA, even for gamers... Was anybody able to mke it work
with Geforce cards, to save few bucks?

Best regards,

Jan
Dne 03.01.2018 v 10:42 Wim Burmeister napsal(a):
I answer a bit late, but I repost a message on 3D graphics from Mai 2017 :
Hello,
we just wanted to share our experience in finding a configuration which allows
to use 3D graphics under linux using Nvidia GeForce 3D glasses.
We had quite a hard time to find a configurations which works correctly.
We finally used Debian linux with a xfce desktop. Other recent desktops use a
tiling which is not compatible with 3D graphics.
The hardware consists of

* a DELL Precision T5810 desktop computer with an Nvidia Quadro M4000 (8
Gbyte memory, 4 DP) graphics card
* Nvidia GeForce 3D Vision 2 (NVIDIA GEF 3D VISION 2 GLASSES KIT) active
stereo glasses
* a stereo connector PNY Quadro 4000 3D for the synchronization of graphics
card and glasses
* an ASUS 24" LED 3D - VG248QE display
* a DisplayPort-DisplayPort cable
The Nvidia linux drivers from version 367.57 can handle the current version of
the Nvidia glasses.
For an obscure reason a direct DP-DP connection between graphics card and
display is absolutely required in order to obtain fully working stereo. If a
DP-DVI dual link adapter is used, the stereo does not work on the top and the
bottom part of the screen. This is true for a native DELL active adaptor or
generic models. The exact reason remains unresolved, but the solution is to use
a direct DP-DP connection. This limits the available choice of displays which
require 120 Hz for 1080*1980 screen resolution and a DP input. We have been
choosing a “Nvidia 3D ready” model.
There has been a considerate about of exchange about this problem on
https://devtalk.nvidia.com/default/topic/992892/linux/partially-working-stereoscopic-effect-with-3d-vision-under-debian-linux/
The setup comes with a price tag of about 1600 € free of taxes.
coot, pymol and chimera work straight without problems in hardware stereo mode.
The experience is absolutely great.
Best
Wim
--

Wim Burmeister
Professeur
Institut de Biologie Structurale (IBS) CIBB
71 avenue des Martyrs
CS 20192
38044 Grenoble Cedex 9, FRANCE
E-mail: wim.burmeis...@ibs.fr<mailto:wim.burmeis...@ibs.fr>
Tel:+33 (0) 457 42 87 41 Fax: +33 (0) 476 20 94 00
website<http://www.ibs.fr/research/research-groups/viral-replication-machines-group-m-jamin/team-03/article/poxvirus-replication-machinery-presentation/>

To unsubscribe from the CCP4BB list, click the following link:
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Re: [ccp4bb] 3D stereo and pymol

2019-01-30 Thread Jim Fairman

I had a Windows 7 machine that would run Quad buffered stereo back around
2009, haven't had a chance to try with Windows 10.

On Wed, Jan 30, 2019, 02:03 Jan Stransky 
wrote:

> Dear all,
>
> I started looking into the never ending story of stereo in
> crystallography... As with our standardized linux setup we probably are not
> willing to move to X.org-world, if was wondering, if anybody was succesful
> to make stereo working in Windows 10. I did read some NVIDIA forum, and it
> seems that 3d vision is not very supported by NVIDIA, even for gamers...
> Was anybody able to mke it work with Geforce cards, to save few bucks?
>
> Best regards,
>
> Jan
> Dne 03.01.2018 v 10:42 Wim Burmeister napsal(a):
>
> I answer a bit late, but I repost a message on 3D graphics from Mai 2017 :
>
> Hello,
>
> we just wanted to share our experience in finding a configuration which
> allows to use 3D graphics under linux using Nvidia GeForce 3D glasses.
>
> We had quite a hard time to find a configurations which works correctly.
>
> We finally used Debian linux with a xfce desktop. Other recent desktops
> use a tiling which is not compatible with 3D graphics.
>
> The hardware consists of
>
>- a DELL Precision T5810  desktop computer with an Nvidia Quadro M4000
>(8 Gbyte memory, 4 DP) graphics card
>- Nvidia GeForce 3D Vision 2 (NVIDIA GEF 3D VISION 2 GLASSES KIT)
>active stereo glasses
>- a stereo connector PNY Quadro 4000 3D for the synchronization of
>graphics card and glasses
>- an ASUS 24" LED 3D - VG248QE display
>- a DisplayPort-DisplayPort cable
>
> The Nvidia linux drivers from version 367.57 can handle the current
> version of the Nvidia glasses.
>
> For an obscure reason a direct DP-DP connection between graphics card and
> display is absolutely required in order to obtain fully working stereo. If
> a DP-DVI dual link adapter is used, the stereo does not work on the top and
> the bottom part of the screen. This is true for a native DELL active
> adaptor or generic models. The exact reason remains unresolved, but the
> solution is to use a direct DP-DP connection. This limits the available
> choice of displays which require 120 Hz for 1080*1980 screen resolution and
> a DP input. We have been choosing a “Nvidia 3D ready” model.
>
> There has been a considerate about of exchange about this problem on
>
>
> https://devtalk.nvidia.com/default/topic/992892/linux/partially-working-stereoscopic-effect-with-3d-vision-under-debian-linux/
>
> The setup comes with a price tag of about 1600 € free of taxes.
>
> coot, pymol and chimera work straight without problems in hardware stereo
> mode. The experience is absolutely great.
>
> Best
>
> Wim
> --
>
> Wim Burmeister
> Professeur
> Institut de Biologie Structurale (IBS) CIBB
> 71 avenue des Martyrs
> CS 20192
> 38044 Grenoble Cedex 9, FRANCE
> E-mail: wim.burmeis...@ibs.fr
> Tel:+33 (0) 457 42 87 41   Fax: +33 (0) 476 20 94 00
> website
> 
>
>
>
> --
>
> To unsubscribe from the CCP4BB list, click the following link:
> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB=1
>



To unsubscribe from the CCP4BB list, click the following link:
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Re: [ccp4bb] 3D stereo and pymol

2019-01-30 Thread Jan Stransky

Dear all,

I started looking into the never ending story of stereo in
crystallography... As with our standardized linux setup we probably are
not willing to move to X.org-world, if was wondering, if anybody was
succesful to make stereo working in Windows 10. I did read some NVIDIA
forum, and it seems that 3d vision is not very supported by NVIDIA, even
for gamers... Was anybody able to mke it work with Geforce cards, to
save few bucks?

Best regards,

Jan

Dne 03.01.2018 v 10:42 Wim Burmeister napsal(a):
> I answer a bit late, but I repost a message on 3D graphics from Mai
> 2017 :
>
> Hello,
>
> we just wanted to share our experience in finding a configuration
> which allows to use 3D graphics under linux using Nvidia GeForce 3D
> glasses.
>
> We had quite a hard time to find a configurations which works correctly.
>
> We finally used Debian linux with a xfce desktop. Other recent
> desktops use a tiling which is not compatible with 3D graphics.
>
> The hardware consists of
>
>   * a DELL Precision T5810  desktop computer with an Nvidia Quadro
> M4000 (8 Gbyte memory, 4 DP) graphics card
>   * Nvidia GeForce 3D Vision 2 (NVIDIA GEF 3D VISION 2 GLASSES KIT)
> active stereo glasses
>   * a stereo connector PNY Quadro 4000 3D for the synchronization of
> graphics card and glasses
>   * an ASUS 24" LED 3D - VG248QE display
>   * a DisplayPort-DisplayPort cable
>
> The Nvidia linux drivers from version 367.57 can handle the current
> version of the Nvidia glasses.
>
> For an obscure reason a direct DP-DP connection between graphics card
> and display is absolutely required in order to obtain fully working
> stereo. If a DP-DVI dual link adapter is used, the stereo does not
> work on the top and the bottom part of the screen. This is true for a
> native DELL active adaptor or generic models. The exact reason remains
> unresolved, but the solution is to use a direct DP-DP connection. This
> limits the available choice of displays which require 120 Hz for
> 1080*1980 screen resolution and a DP input. We have been choosing a
> “Nvidia 3D ready” model.
>
> There has been a considerate about of exchange about this problem on
>
> https://devtalk.nvidia.com/default/topic/992892/linux/partially-working-stereoscopic-effect-with-3d-vision-under-debian-linux/
>
> The setup comes with a price tag of about 1600 € free of taxes.
>
> coot, pymol and chimera work straight without problems in hardware
> stereo mode. The experience is absolutely great.
>
> Best
>
> Wim
>
> -- 
>
> Wim Burmeister
> Professeur
> Institut de Biologie Structurale (IBS) CIBB
> 71 avenue des Martyrs
>
> CS 20192
> 38044 Grenoble Cedex 9, FRANCE
> E-mail: wim.burmeis...@ibs.fr
> Tel:    +33 (0) 457 42 87 41   Fax: +33 (0) 476 20 94 00
> website
> 
>
> //
>



To unsubscribe from the CCP4BB list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB=1

Re: [ccp4bb] 3D stereo and pymol

2018-05-18 Thread Olson, Linda

Dear Daniel,

This was my question also. I just purchased a new Mac book pro and see that
Mantiz sells an eGPU compatible with AMD cards for Thunderbolt 3 MacOS. I
would be very interested in anyone’s experience or advice in making stereo work
on the Mac platform.

Linda

On May 18, 2018, at 8:43 AM, Daniel M. Himmel, Ph. D.
> wrote:

ATTENTION: This email originated from a sender outside of MCW. Use caution when
clicking on links or opening attachments.

If I may jump in, I wonder if there are any hardware configurations
(monitor, 3D glasses, graphics cards, etc.) that allow 3D graphics
with a MacIntosh OSX platform.

-Daniel

On Wed, Jan 3, 2018 at 4:42 AM, Wim Burmeister
> wrote:
I answer a bit late, but I repost a message on 3D graphics from Mai 2017 :

Hello,
we just wanted to share our experience in finding a configuration which allows
to use 3D graphics under linux using Nvidia GeForce 3D glasses.
We had quite a hard time to find a configurations which works correctly.
We finally used Debian linux with a xfce desktop. Other recent desktops use a
tiling which is not compatible with 3D graphics.
The hardware consists of

Wim Burmeister
Professeur
Institut de Biologie Structurale (IBS) CIBB
71 avenue des
Martyrs

CS 20192
38044 Grenoble Cedex 9, FRANCE
E-mail: wim.burmeis...@ibs.fr
Tel:+33 (0) 457 42 87 41 Fax: +33 (0) 476 20 94 00
website

Re: [ccp4bb] 3D stereo and pymol

2018-05-18 Thread Daniel M. Himmel, Ph. D.

If I may jump in, I wonder if there are any hardware configurations
(monitor, 3D glasses, graphics cards, etc.) that allow 3D graphics
with a MacIntosh OSX platform.

-Daniel

On Wed, Jan 3, 2018 at 4:42 AM, Wim Burmeister 
wrote:

> I answer a bit late, but I repost a message on 3D graphics from Mai 2017 :
>
> Hello,
>
> we just wanted to share our experience in finding a configuration which
> allows to use 3D graphics under linux using Nvidia GeForce 3D glasses.
>
> We had quite a hard time to find a configurations which works correctly.
>
> We finally used Debian linux with a xfce desktop. Other recent desktops
> use a tiling which is not compatible with 3D graphics.
>
> The hardware consists of
>
>- a DELL Precision T5810  desktop computer with an Nvidia Quadro M4000
>(8 Gbyte memory, 4 DP) graphics card
>- Nvidia GeForce 3D Vision 2 (NVIDIA GEF 3D VISION 2 GLASSES KIT)
>active stereo glasses
>- a stereo connector PNY Quadro 4000 3D for the synchronization of
>graphics card and glasses
>- an ASUS 24" LED 3D - VG248QE display
>- a DisplayPort-DisplayPort cable
>
> The Nvidia linux drivers from version 367.57 can handle the current
> version of the Nvidia glasses.
>
> For an obscure reason a direct DP-DP connection between graphics card and
> display is absolutely required in order to obtain fully working stereo. If
> a DP-DVI dual link adapter is used, the stereo does not work on the top and
> the bottom part of the screen. This is true for a native DELL active
> adaptor or generic models. The exact reason remains unresolved, but the
> solution is to use a direct DP-DP connection. This limits the available
> choice of displays which require 120 Hz for 1080*1980 screen resolution and
> a DP input. We have been choosing a “Nvidia 3D ready” model.
>
> There has been a considerate about of exchange about this problem on
>
> https://devtalk.nvidia.com/default/topic/992892/linux/partially-working-
> stereoscopic-effect-with-3d-vision-under-debian-linux/
>
> The setup comes with a price tag of about 1600 € free of taxes.
>
> coot, pymol and chimera work straight without problems in hardware stereo
> mode. The experience is absolutely great.
>
> Best
>
> Wim
> --
>
> Wim Burmeister
> Professeur
> Institut de Biologie Structurale (IBS) CIBB
> 71 avenue des Martyrs
> 
> CS 20192
> 38044 Grenoble Cedex 9, FRANCE
> E-mail: wim.burmeis...@ibs.fr
> Tel:+33 (0) 457 42 87 41   Fax: +33 (0) 476 20 94 00
> website
> 
>
>
>

Re: [ccp4bb] 3D stereo and pymol

2018-05-18 Thread Andrew Purkiss

Just to add that for the Dual-Link DP-DVI to work, you need an active
adaptor which includes a supplementary USB power connection.Some years
ago, we purchased some from Dell, with new machines. They are
considerably more expensive than simple passive adaptors, but we have
had no problems with a stable 3D display on older screens.
An example is available here: https://www.amazon.co.uk/Dell-BizLink-Dis
playPort-Adapter-Powered/dp/B003XYBA72
Regards,
Andrew
> > On Wed, Jan 3, 2018 at 1:42 AM, Wim
> >   Burmeister 
> >   wrote:
> > 
> >   
> > >  I answer a bit late,
> > >   but I repost a message on 3D graphics from Mai 2017
> > > : 
> > > 
> > >   
> > > 
> > >   Hello,
> > >    
> > >   we just
> > > wanted to share our experience in finding a
> > > configuration which allows to use 3D graphics
> > > under
> > > linux using Nvidia GeForce 3D glasses.
> > >    
> > >   We had quite
> > > a hard time to find a configurations which
> > > works
> > > correctly.
> > >    
> > >   We finally
> > > used Debian linux with a xfce desktop. Other
> > > recent
> > > desktops use a tiling which is not compatible
> > > with
> > > 3D graphics.
> > >    
> > >   The hardware
> > > consists of
> > >   
> > > a DELL Precision
> > > T5810  desktop computer with an Nvidia Quadro
> > > M4000
> > > (8 Gbyte memory, 4 DP) graphics card
> > > Nvidia GeForce 3D Vision 2
> > > (NVIDIA GEF 3D VISION 2 GLASSES KIT) active
> > > stereo
> > > glasses
> > > a stereo connector PNY Quadro
> > > 4000 3D for the synchronization of graphics
> > > card and
> > > glasses
> > > an ASUS 24" LED 3D - VG248QE
> > > display
> > > a DisplayPort-DisplayPort cable
> > >   
> > >   
> > >   The Nvidia
> > > linux drivers from version 367.57 can handle
> > > the
> > > current version of the Nvidia glasses.
> > >    
> > >   For an
> > > obscure reason a direct DP-DP connection
> > > between
> > > graphics card and display is absolutely
> > > required in
> > > order to obtain fully working stereo. If a
> > > DP-DVI
> > > dual link adapter is used, the stereo does
> > > not work
> > > on the top and the bottom part of the screen.
> > > This
> > > is true for a native DELL active adaptor or
> > > generic
> > > models. The exact reason remains unresolved,
> > > but the
> > > solution is to use a direct DP-DP connection.
> > > This
> > > limits the available choice of displays which
> > > require 120 Hz for 1080*1980 screen
> > > resolution and a
> > > DP input. We have been choosing a “Nvidia 3D
> > > ready”
> > > model.
> > >    
> > >   There has
> > > been a considerate about of exchange about
> > > this
> > > problem on
> > >    
> > >

Re: [ccp4bb] 3D stereo and pymol

2018-05-18 Thread Wim Burmeister

Dear Christine,
here you can find my xorg.conf file.
https://app.box.com/v/xorg-conf
I gave some replies below.
Sorry for the late answer, I do not read the ccp4bb every day.
Best
Wim

On 16/05/2018 19:56, Christine Gee
wrote:

Hi Wim

Would you mind letting me know which stereo option you
selected in your xorg.conf file,

Option "Stereo" "10"

and if you needed the option composite disable?

Yes

It would be very helpful. We are just setting up a new
system.

Regards

Christine

On Wed, Jan 3, 2018 at 1:42 AM, Wim
Burmeister
wrote:

I answer a bit late,
but I repost a message on 3D graphics from Mai 2017 :

Hello,

we just
wanted to share our experience in finding a
configuration which allows to use 3D graphics under
linux using Nvidia GeForce 3D glasses.

We had quite
a hard time to find a configurations which works
correctly.

We finally
used Debian linux with a xfce desktop. Other recent
desktops use a tiling which is not compatible with
3D graphics.

The hardware
consists of

a DELL Precision
T5810 desktop computer with an Nvidia Quadro M4000
(8 Gbyte memory, 4 DP) graphics card
Nvidia GeForce 3D Vision 2
(NVIDIA GEF 3D VISION 2 GLASSES KIT) active stereo
glasses
a stereo connector PNY Quadro
4000 3D for the synchronization of graphics card and
glasses
an ASUS 24" LED 3D - VG248QE
display
a DisplayPort-DisplayPort cable

The Nvidia
linux drivers from version 367.57 can handle the
current version of the Nvidia glasses.

For an
obscure reason a direct DP-DP connection between
graphics card and display is absolutely required in
order to obtain fully working stereo. If a DP-DVI
dual link adapter is used, the stereo does not work
on the top and the bottom part of the screen. This
is true for a native DELL active adaptor or generic
models. The exact reason remains unresolved, but the
solution is to use a direct DP-DP connection. This
limits the available choice of displays which
require 120 Hz for 1080*1980 screen resolution and a
DP input. We have been choosing a “Nvidia 3D ready”
model.

There has
been a considerate about of exchange about this
problem on

https://devtalk.nvidia.com/default/topic/992892/linux/partially-working-stereoscopic-effect-with-3d-vision-under-debian-linux/

The setup
comes with a price tag of about 1600 € free of
taxes.

coot, pymol
and chimera work straight without problems in
hardware stereo mode. The experience is absolutely
great.

Best

Wim
--
Wim Burmeister
Professeur
Institut de Biologie
Structurale (IBS) CIBB
71
avenue des Martyrs
CS 20192
38044 Grenoble Cedex 9, FRANCE
E-mail: wim.burmeis...@ibs.fr
Tel: +33 (0) 457 42 87 41 Fax: +33 (0)
476 20 94 00
website

Wim Burmeister
Professeur
Institut de

Re: [ccp4bb] 3D stereo and pymol

2018-01-03 Thread David Schuller

The Mate desktop should also work; it is a continuation of the old Gnome
2 desktop.

- dave schuller

On 01/03/18 04:42, Wim Burmeister wrote:
I answer a bit late, but I repost a message on 3D graphics from Mai
2017 :

Hello,

we just wanted to share our experience in finding a configuration
which allows to use 3D graphics under linux using Nvidia GeForce 3D
glasses.

We had quite a hard time to find a configurations which works correctly.

We finally used Debian linux with a xfce desktop. Other recent
desktops use a tiling which is not compatible with 3D graphics.

The hardware consists of

The Nvidia linux drivers from version 367.57 can handle the current
version of the Nvidia glasses.

For an obscure reason a direct DP-DP connection between graphics card
and display is absolutely required in order to obtain fully working
stereo. If a DP-DVI dual link adapter is used, the stereo does not
work on the top and the bottom part of the screen. This is true for a
native DELL active adaptor or generic models. The exact reason remains
unresolved, but the solution is to use a direct DP-DP connection. This
limits the available choice of displays which require 120 Hz for
1080*1980 screen resolution and a DP input. We have been choosing a
“Nvidia 3D ready” model.

There has been a considerate about of exchange about this problem on

https://devtalk.nvidia.com/default/topic/992892/linux/partially-working-stereoscopic-effect-with-3d-vision-under-debian-linux/

The setup comes with a price tag of about 1600 € free of taxes.

coot, pymol and chimera work straight without problems in hardware
stereo mode. The experience is absolutely great.

Best

Wim

Wim Burmeister
Professeur
Institut de Biologie Structurale (IBS) CIBB
71 avenue des Martyrs

CS 20192
38044 Grenoble Cedex 9, FRANCE
E-mail: wim.burmeis...@ibs.fr
Tel: +33 (0) 457 42 87 41 Fax: +33 (0) 476 20 94 00
website

--
===
All Things Serve the Beam
===
David J. Schuller
modern man in a post-modern world
MacCHESS, Cornell University
schul...@cornell.edu

Re: [ccp4bb] 3D stereo and pymol

2018-01-03 Thread Wim Burmeister

I answer a bit late, but I repost a message on 3D graphics from Mai
2017 :

Hello,

we just wanted to share our experience in finding
a configuration which allows to use 3D graphics under linux
using Nvidia GeForce 3D glasses.

We had quite a hard time to find a configurations
which works correctly.

We finally used Debian linux with a xfce desktop.
Other recent desktops use a tiling which is not compatible
with 3D graphics.

The hardware consists of

a DELL Precision T5810
desktop computer with an Nvidia Quadro M4000 (8 Gbyte memory,
4 DP) graphics card
Nvidia
GeForce 3D Vision 2 (NVIDIA GEF 3D VISION 2 GLASSES KIT)
active stereo glasses
a stereo
connector PNY Quadro 4000 3D for the synchronization of
graphics card and glasses
an ASUS 24"
LED 3D - VG248QE display
a
DisplayPort-DisplayPort cable

The Nvidia linux drivers from version 367.57 can
handle the current version of the Nvidia glasses.

For an obscure reason a direct DP-DP connection
between graphics card and display is absolutely required in
order to obtain fully working stereo. If a DP-DVI dual link
adapter is used, the stereo does not work on the top and the
bottom part of the screen. This is true for a native DELL
active adaptor or generic models. The exact reason remains
unresolved, but the solution is to use a direct DP-DP
connection. This limits the available choice of displays which
require 120 Hz for 1080*1980 screen resolution and a DP input.
We have been choosing a “Nvidia 3D ready” model.

There has been a considerate about of exchange
about this problem on

https://devtalk.nvidia.com/default/topic/992892/linux/partially-working-stereoscopic-effect-with-3d-vision-under-debian-linux/

The setup comes with a price tag of about 1600 €
free of taxes.

coot, pymol and chimera work straight without
problems in hardware stereo mode. The experience is absolutely
great.

Best

Wim
--
Wim Burmeister
Professeur
Institut de Biologie Structurale (IBS) CIBB
71 avenue des Martyrs
CS 20192
38044 Grenoble Cedex 9, FRANCE
E-mail: wim.burmeis...@ibs.fr
Tel: +33 (0) 457 42 87 41 Fax: +33 (0) 476 20 94 00
website

Re: [ccp4bb] 3D stereo and pymol

2017-12-18 Thread Matic Kisovec

Dear all,

in case anybody is interested in a used 3D setup for crystallography one is 
still available:
See here for more details: 
https://www.mail-archive.com/ccp4bb@jiscmail.ac.uk/msg41144.html

Kind regards,
Matic.

On 12. 12. 2017 08:39, Jim Fairman wrote:
Reporting in a setup that we just made: Quadro P4000 + 3 pin stereo bracket + 
3d vision 2 kit + ASUS VG248QE.

Running System76's PoPOS Ubuntu 17.10 distro - you'll have to install a desktop 
environment that supports non-compositing (ie: XFCE).

Works beautifully.

--
Jim Fairman
C: 1-240-479-6575

On Tue, Nov 28, 2017 at 6:40 AM, mesters 
> wrote:
Hi,

yes, consumer cards do have OpenGL implemented on a chip but the Nvidia driver 
did not allow OpenGL 3D to work until February 2013. As of Nvidia driver 
version 314.07, Nvidia added OpenGL quad buffered 3D Stereo for GeForce cards 
(at least under MS Windows 7/8). However, this was never officially announced 
and officially supported and only works if the monitor is preset to run at 120 
Hz and the software automatically switches into full-screen mode. Sadly, 
windowed applications will not work. Under MS Windows 10, it does not seem to 
work anymore.

We have a monitor with a build in emitter and that one works with the 
smaller/cheaper Quadro cards without the 3-pin connector but, it is virtually 
impossible nowadays to get such a monitor in order to avoid needing to buy an 
expensive Nvidia card with a 3-pin connector.

To enjoy OpenGL quad buffered 3D Stereo, you will at least need a Quadro 
K4000/P4000/4000 with separate 3-pin bracket (all-in-all very expensive 
solution) or you will need to buy an older FX model such as the FX3700 with 
build-in 3-pin connector.

At the Bay in the USA, unused / brand-new FX3700s are being offered right now 
for about 90-110 US$. That's the cheapest way out and 512 MB memory is 
sufficient unless you are trying work with VERY big PDB files. If so, try to 
get your hands on a "new, see details" Quadro 4000 and a separate PNY 3-pin 
mini DIN stereo bracket (930-50764--000 C for about 20 US$) or a "new, see 
details" Quadro 5000 with build-in emitter.

Good luck

Jeroen.

Am 28.11.17 um 10:50 schrieb Johannes Cramer:
Hi Christine,

as far as I know, it does not work at all with Geforce cards. The Nvidia 
drivers do not support windowed quad buffered GL, which you need for 
coot/pymol. It does not matter whether you use Windows or Linux.
But this is based on my personal experience from around Oct. 2016. Maybe 
something changed quietly since then. Again, as far as I know, you need a 
Quadro card.

Cheers,
Johannes

2017-11-06 21:24 GMT+01:00 Christine Gee 
>:
Hi,

I have looked in the archive for posts about this, but there hasn't been one 
for about a year. Can anyone comment on whether they have managed to get a 
linux flavor and GeForce cards to work with pymol and/or coot 3D stereo? 
Geforce cards supposedly support openGL, but posts from October last year on 
the BB suggests that it only works in windows unless you have a monitor with a 
built in emitter. I would appreciate any feedback.

Regards
Christine

--
Dr. math. et dis. nat. Jeroen R. Mesters
Deputy, Senior Researcher & Lecturer
Program Coordinator Infection 
Biology

Institute of Biochemistry, University of Lübeck
Ratzeburger Allee 
160, 
23538 Lübeck, Germany
phone: +49-451-31013105 (secretariate -31013101)
fax: +49-451-31013104

[http://jobs.zeit.de/image-upload/logo_10564.jpg]
http://www.biochem.uni-luebeck.de
http://www.eine-stadt-sieht-gelb.de
http://www.uni-luebeck.de/studium/studiengaenge/infection-biology
http://www.iobcr.org
Visiting Professorship in Biophysics, University of South Bohemia (CZ)
President of the International Organization for Biological Crystallization 
(IOBCr)
--
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 Macbeth, Act 
I, Scene 3)
--
"Aujourd'hui je sais qu'il n'y a pas de limites à la bêtise humaine - qu'elle 
est infinie." (Gustave Flaubert, French novelist, 1821-1880)
--
It is invariably the case that high resolution X-ray structures show 
significantly better agreement with solution observables such as coupling 
constants, 13C chemical shifts, and proton chemical shifts, than the 
corresponding NMR structures, including the very best ones. Hence, in most 
cases, a high-resolution crystal structure (< 2.0 Å) will provide a better 
description of the structure in solution than the corresponding NMR structure  
(Kuszewski, Gronenborn & Clore, 1996, Protein Science 5:1067-80)
--

Re: [ccp4bb] 3D stereo and pymol

2017-12-11 Thread Jim Fairman

Reporting in a setup that we just made: Quadro P4000 + 3 pin stereo bracket
+ 3d vision 2 kit + ASUS VG248QE.

Running System76's PoPOS Ubuntu 17.10 distro - you'll have to install a
desktop environment that supports non-compositing (ie: XFCE).

Works beautifully.



--
Jim Fairman
C: 1-240-479-6575

On Tue, Nov 28, 2017 at 6:40 AM, mesters 
wrote:

> Hi,
>
> yes, consumer cards do have OpenGL implemented on a chip but the Nvidia
> driver did not allow OpenGL 3D to work until February 2013. As of Nvidia
> driver version 314.07, Nvidia added OpenGL quad buffered 3D Stereo for
> GeForce cards (at least under MS Windows 7/8). However, this was never
> officially announced and officially supported and only works if the monitor
> is preset to run at 120 Hz and the software automatically switches into
> full-screen mode. Sadly, windowed applications will not work. Under MS
> Windows 10, it does not seem to work anymore.
>
> We have a monitor with a build in emitter and that one works with the
> smaller/cheaper Quadro cards without the 3-pin connector but, it is
> virtually impossible nowadays to get such a monitor in order to avoid
> needing to buy an expensive Nvidia card with a 3-pin connector.
>
> To enjoy OpenGL quad buffered 3D Stereo, you will at least need a Quadro
> K4000/P4000/4000 with separate 3-pin bracket (all-in-all very expensive
> solution) or you will need to buy an older FX model such as the FX3700 with
> build-in 3-pin connector.
>
> At the Bay in the USA, unused / brand-new FX3700s are being offered right
> now for about 90-110 US$. That's the cheapest way out and 512 MB memory is
> sufficient unless you are trying work with VERY big PDB files. If so, try
> to get your hands on a "new, see details" Quadro 4000 and a separate PNY
> 3-pin mini DIN stereo bracket (930-50764--000 C for about 20 US$) or a
> "new, see details" Quadro 5000 with build-in emitter.
>
> Good luck
>
> Jeroen.
>
>
> Am 28.11.17 um 10:50 schrieb Johannes Cramer:
>
> Hi Christine,
>
> as far as I know, it does not work at all with Geforce cards. The Nvidia
> drivers do not support windowed quad buffered GL, which you need for
> coot/pymol. It does not matter whether you use Windows or Linux.
> But this is based on my personal experience from around Oct. 2016. Maybe
> something changed quietly since then. Again, as far as I know, you need a
> Quadro card.
>
> Cheers,
> Johannes
>
> 2017-11-06 21:24 GMT+01:00 Christine Gee :
>
>> Hi,
>>
>> I have looked in the archive for posts about this, but there hasn't been
>> one for about a year. Can anyone comment on whether they have managed to
>> get a linux flavor and GeForce cards to work with pymol and/or coot 3D
>> stereo? Geforce cards supposedly support openGL, but posts from October
>> last year on the BB suggests that it only works in windows unless you have
>> a monitor with a built in emitter. I would appreciate any feedback.
>>
>> Regards
>> Christine
>>
>>
>
> --
> Dr. math. et dis. nat. Jeroen R. Mesters
> Deputy, Senior Researcher & Lecturer
> Program Coordinator *Infection Biology*
> 
>
> Institute of Biochemistry, University of Lübeck
> Ratzeburger Allee 160
> ,
> 23538 Lübeck, Germany
> phone: +49-451-31013105 <+49%20451%2031013105> (secretariate -31013101)
> fax: +49-451-31013104 <+49%20451%2031013104>
>
> [image: http://jobs.zeit.de/image-upload/logo_10564.jpg]
> http://www.biochem.uni-luebeck.de 
> http://www.eine-stadt-sieht-gelb.de 
> http://www.uni-luebeck.de/studium/studiengaenge/infection-biology
> http://www.iobcr.org 
>
> Visiting Professorship in Biophysics, University of South Bohemia (CZ)
> President of the International Organization for Biological Crystallization
> (IOBCr)
> --
> 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
> Macbeth, Act I, Scene 3)
> --
> "Aujourd'hui je sais qu'il n'y a pas de limites à la bêtise humaine -
> qu'elle est infinie." (Gustave Flaubert, French novelist, 1821-1880)
> --
> It is invariably the case that high resolution X-ray structures show
> significantly better agreement with solution observables such as coupling
> constants, 13C chemical shifts, and proton chemical shifts, than the
> corresponding NMR structures, including the very best ones. Hence, in most
> cases, a high-resolution crystal structure (< 2.0 Å) will provide a
> better description of the structure in solution than the corresponding NMR
> structure  (Kuszewski, Gronenborn & Clore, 1996, Protein Science 5
> :1067-80)
> --
> Disclaimer
> * This message contains confidential information and is intended only for
> the individual named. If you are not the named addressee you should not
>

Re: [ccp4bb] 3D stereo and pymol

2017-11-28 Thread mesters

sorry, small correction, it should read "or a "new, see details" Quadro 
5000with build-in*3-pin**.*"


Am 28.11.17 um 15:40 schrieb mesters:

Hi,

yes, consumer cards do have OpenGL implemented on a chip but the 
Nvidia driver did not allow OpenGL 3D to work until February 2013. As 
of Nvidia driver version 314.07, Nvidia added OpenGL quad buffered 3D 
Stereo for GeForce cards (at least under MS Windows 7/8). However, 
this was never officially announced and officially supported and only 
works if the monitor is preset to run at 120 Hz and the software 
automatically switches into full-screen mode. Sadly, windowed 
applications will not work. Under MS Windows 10, it does not seem to 
work anymore.


We have a monitor with a build in emitter and that one works with the 
smaller/cheaper Quadro cards without the 3-pin connector but, it is 
virtually impossible nowadays to get such a monitor in order to avoid 
needing to buy an expensive Nvidia card with a 3-pin connector.


To enjoy OpenGL quad buffered 3D Stereo, you will at least need a 
Quadro K4000/P4000/4000 with separate 3-pin bracket (all-in-all very 
expensive solution) or you will need to buy an older FX model such as 
the FX3700 with build-in 3-pin connector.


At the Bay in the USA, unused / brand-new FX3700s are being offered 
right now for about 90-110 US$. That's the cheapest way out and 512 MB 
memory is sufficient unless you are trying work with VERY big PDB 
files. If so, try to get your hands on a "new, see details" Quadro 
4000 and a separate PNY 3-pin mini DIN stereo bracket 
(930-50764--000 C for about 20 US$) or a "new, see details" Quadro 
5000with build-in emitter.


Good luck

Jeroen.


Am 28.11.17 um 10:50 schrieb Johannes Cramer:

Hi Christine,

as far as I know, it does not work at all with Geforce cards. The 
Nvidia drivers do not support windowed quad buffered GL, which you 
need for coot/pymol. It does not matter whether you use Windows or 
Linux.
But this is based on my personal experience from around Oct. 2016. 
Maybe something changed quietly since then. Again, as far as I know, 
you need a Quadro card.


Cheers,
Johannes

2017-11-06 21:24 GMT+01:00 Christine Gee >:


Hi,

I have looked in the archive for posts about this, but there
hasn't been one for about a year. Can anyone comment on whether
they have managed to get a linux flavor and GeForce cards to work
with pymol and/or coot 3D stereo? Geforce cards supposedly
support openGL, but posts from October last year on the BB
suggests that it only works in windows unless you have a monitor
with a built in emitter. I would appreciate any feedback.

Regards
Christine




--
Dr.math. et dis. nat. Jeroen R. Mesters
Deputy, Senior Researcher & Lecturer
Program Coordinator /Infection Biology/ 



Institute of Biochemistry, University of Lübeck
Ratzeburger Allee 160, 23538 Lübeck, Germany
phone: +49-451-31013105 (secretariate -31013101)
fax: +49-451-31013104

http://jobs.zeit.de/image-upload/logo_10564.jpg
http://www.biochem.uni-luebeck.de 
http://www.eine-stadt-sieht-gelb.de 
http://www.uni-luebeck.de/studium/studiengaenge/infection-biology
http://www.iobcr.org 

Visiting Professorship in Biophysics, University of South Bohemia (CZ)
President of the International Organization for Biological 
Crystallization (IOBCr)

--
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 Macbeth, Act I, Scene 3)

--
"Aujourd'hui je sais qu'il n'y a pas de limites à la bêtise humaine - 
qu'elle est infinie." (Gustave Flaubert, French novelist, 1821-1880)

--
It is invariably the case that high resolution X-ray structures show 
significantly better agreement with solution observables such as 
coupling constants, 13C chemical shifts, and proton chemical shifts, 
than the corresponding NMR structures, including the very best ones. 
Hence, in most cases, a high-resolution crystal structure (< 2.0 
Å)will provide a better description of the structure in solution than 
the corresponding NMR structure  (Kuszewski, Gronenborn & Clore, 1996, 
Protein Science 5:1067-80)

--
Disclaimer
* This message contains confidential information and is intended only 
for the individual named. If you are not the named addressee you 
should not disseminate, distribute or copy this e-mail. Please notify 
the sender immediately by e-mail if you have received this e-mail by 
mistake and delete this e-mail from your system.
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arrive late or incomplete, or contain viruses. The sender therefore 
does not accept liability for any errors or omissions in the contents 
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Re: [ccp4bb] 3D stereo and pymol

2017-11-28 Thread mesters


Hi,

yes, consumer cards do have OpenGL implemented on a chip but the Nvidia 
driver did not allow OpenGL 3D to work until February 2013. As of Nvidia 
driver version 314.07, Nvidia added OpenGL quad buffered 3D Stereo for 
GeForce cards (at least under MS Windows 7/8). However, this was never 
officially announced and officially supported and only works if the 
monitor is preset to run at 120 Hz and the software automatically 
switches into full-screen mode. Sadly, windowed applications will not 
work. Under MS Windows 10, it does not seem to work anymore.


We have a monitor with a build in emitter and that one works with the 
smaller/cheaper Quadro cards without the 3-pin connector but, it is 
virtually impossible nowadays to get such a monitor in order to avoid 
needing to buy an expensive Nvidia card with a 3-pin connector.


To enjoy OpenGL quad buffered 3D Stereo, you will at least need a Quadro 
K4000/P4000/4000 with separate 3-pin bracket (all-in-all very expensive 
solution) or you will need to buy an older FX model such as the FX3700 
with build-in 3-pin connector.


At the Bay in the USA, unused / brand-new FX3700s are being offered 
right now for about 90-110 US$. That's the cheapest way out and 512 MB 
memory is sufficient unless you are trying work with VERY big PDB files. 
If so, try to get your hands on a "new, see details" Quadro 4000 and a 
separate PNY 3-pin mini DIN stereo bracket (930-50764--000 C for 
about 20 US$) or a "new, see details" Quadro 5000with build-in emitter.


Good luck

Jeroen.


Am 28.11.17 um 10:50 schrieb Johannes Cramer:

Hi Christine,

as far as I know, it does not work at all with Geforce cards. The 
Nvidia drivers do not support windowed quad buffered GL, which you 
need for coot/pymol. It does not matter whether you use Windows or Linux.
But this is based on my personal experience from around Oct. 2016. 
Maybe something changed quietly since then. Again, as far as I know, 
you need a Quadro card.


Cheers,
Johannes

2017-11-06 21:24 GMT+01:00 Christine Gee >:


Hi,

I have looked in the archive for posts about this, but there
hasn't been one for about a year. Can anyone comment on whether
they have managed to get a linux flavor and GeForce cards to work
with pymol and/or coot 3D stereo? Geforce cards supposedly support
openGL, but posts from October last year on the BB suggests that
it only works in windows unless you have a monitor with a built in
emitter. I would appreciate any feedback.

Regards
Christine




--
Dr.math. et dis. nat. Jeroen R. Mesters
Deputy, Senior Researcher & Lecturer
Program Coordinator /Infection Biology/ 



Institute of Biochemistry, University of Lübeck
Ratzeburger Allee 160, 23538 Lübeck, Germany
phone: +49-451-31013105 (secretariate -31013101)
fax: +49-451-31013104

http://jobs.zeit.de/image-upload/logo_10564.jpg
http://www.biochem.uni-luebeck.de 
http://www.eine-stadt-sieht-gelb.de 
http://www.uni-luebeck.de/studium/studiengaenge/infection-biology
http://www.iobcr.org 

Visiting Professorship in Biophysics, University of South Bohemia (CZ)
President of the International Organization for Biological 
Crystallization (IOBCr)

--
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 Macbeth, Act I, Scene 3)

--
"Aujourd'hui je sais qu'il n'y a pas de limites à la bêtise humaine - 
qu'elle est infinie." (Gustave Flaubert, French novelist, 1821-1880)

--
It is invariably the case that high resolution X-ray structures show 
significantly better agreement with solution observables such as 
coupling constants, 13C chemical shifts, and proton chemical shifts, 
than the corresponding NMR structures, including the very best ones. 
Hence, in most cases, a high-resolution crystal structure (< 2.0 Å)will 
provide a better description of the structure in solution than the 
corresponding NMR structure  (Kuszewski, Gronenborn & Clore, 1996, 
Protein Science 5:1067-80)

--
Disclaimer
* This message contains confidential information and is intended only 
for the individual named. If you are not the named addressee you should 
not disseminate, distribute or copy this e-mail. Please notify the 
sender immediately by e-mail if you have received this e-mail by mistake 
and delete this e-mail from your system.
* E-mail transmission cannot be guaranteed to be secure or error-free as 
information could be intercepted, corrupted, lost, destroyed, arrive 
late or incomplete, or contain viruses. The sender therefore does not 
accept liability for any errors or omissions in the contents of this 
message, which arise as a result of e-mail transmission. If verification 
is required please request a hard-copy version. Please send us by fax 
any message containing deadlines as incoming e-mails are

Re: [ccp4bb] 3D stereo and pymol

2017-11-28 Thread Johannes Cramer

Hi Christine,

as far as I know, it does not work at all with Geforce cards. The Nvidia
drivers do not support windowed quad buffered GL, which you need for
coot/pymol. It does not matter whether you use Windows or Linux.
But this is based on my personal experience from around Oct. 2016. Maybe
something changed quietly since then. Again, as far as I know, you need a
Quadro card.

Cheers,
Johannes

2017-11-06 21:24 GMT+01:00 Christine Gee :

> Hi,
>
> I have looked in the archive for posts about this, but there hasn't been
> one for about a year. Can anyone comment on whether they have managed to
> get a linux flavor and GeForce cards to work with pymol and/or coot 3D
> stereo? Geforce cards supposedly support openGL, but posts from October
> last year on the BB suggests that it only works in windows unless you have
> a monitor with a built in emitter. I would appreciate any feedback.
>
> Regards
> Christine
>
>

[ccp4bb] 3D stereo and pymol

2017-11-06 Thread Christine Gee

Hi,

I have looked in the archive for posts about this, but there hasn't been
one for about a year. Can anyone comment on whether they have managed to
get a linux flavor and GeForce cards to work with pymol and/or coot 3D
stereo? Geforce cards supposedly support openGL, but posts from October
last year on the BB suggests that it only works in windows unless you have
a monitor with a built in emitter. I would appreciate any feedback.

Regards
Christine

Re: [ccp4bb] 3D stereo and (pymol) Win 10/laptops

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[ccp4bb] 3D stereo and pymol

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