Re: [COOT] Coot Stereo Issue

2022-03-02 Thread Pedro Matias 

Hi Jeroen,


Thanks for the update on Windows. I am glad this issue has finally been 
fixed (albeit indirectly). Still, we have now moved entirely to Linux 
systems and we keep praying for the continued good health of our 3D 
Vision emitters and glasses...



By "specs" I meant a note in the product sheet "3D Vision support - yes" 
that could be found on several Quadro cards.



Best regards,


Pedro


Em 02/03/2022 12:45, mesters escreveu:

Hi Pedro,

Zhuang's problem was finally solved by installation of the latest 
nvidia graphics card driver 511.79.


WinCoot works on windows 10, no doubt: Nvidia however stopped 
supporting the 3D Vision kit from within (professional) graphics 
drivers and instead offers a stand-alone separate 3D Vision driver 
390.41 that will not be updated in the future (only in case of 
security issues). So, how long this work-around will be useful is 
unknown. For the future this means, one probably needs to purchase 
the much more expensive GPUs...


For linux, there is an absolute requirement for the 3-pin connector 
(either build-in or attachable via bracket) as the USB-based 3D Vision 
kit was never actively supported by Nvidia under linux (and that is 
indeed a commercial decision...).


"Specs" will not help to select the GPU as even the small P400 or P620 
offers - according to specs - 3D quad-buffered openGL stereo support 
(that is, under Windows and making use of the 3D Vision kit). What you 
need under Linux is an nvidia GPU with an on-board 3-pin DIN stereo 
connector or, a GPU with a connector for the 3-pin DIN stereo bracket 
(NVIDIA 699-50764--001 or PNY 930-50764). So, for the GPU, one 
needs to pick a second hand model such as K / M /P4000, or newer 
models such as rtx 4000 or rtx a4000 (a2000 will not work)...


Cheers,

Jeroen

Am 02.03.22 um 13:07 schrieb Pedro Matias:


Hi there,


Coot stereo not working under Windows is a common problem. There 
seems to be a driver incompatibility that causes the issues you 
described. In our lab, we were able to use Coot stereo only under 
Windows 7, not on later Windows versions.



As for the Linux hardware you do need a more expensive graphics card 
- as far as I know there is no technical reason for the 3-pin 
connector requirement and it may be just a commercial decision by 
NVIDIA to require this. However, since NVIDIA discontinued the 3D 
Vision support these cards may be more difficult ro obtain. Basically 
you need a NVIDIA Quadro K4000, similar or higher specs - it should 
support 3D Vision stereo (maybe this is indicated in the specs and/or 
in the box).



Regards,


Pedro



Em 01/03/2022 14:03, Li, Zhuang escreveu:

Hi Jeroen,
Thank you so much for your response. I use a Win10 pro with Nvidia 
graphics driver 442.92 and 3D vision controller driver 390.41, and 
BenQ XL2411P 3D monitor. The IR emitter is connected to the computer 
only via USB, and together with 3D glasses, was from a 
not-so-often-heard vendor called epiphan.  It works pretty fine in 
UCSF chimera and PyMOL, so I assume the hardware and software 
configuration is correct. I did enable the stereo mode in Nvidia 
control panel.
This is the first time I setup a 3D work environment, and I used 
Win10 to make thing less complicated. Next time I would like to set 
up 3D workstation in Linux. Could you please kindly provide the 
hardware list that is guaranteed working with Linux? Could you 
please clarify what a 3-PIN connector is and how is it making things 
different?

Thank you in advance.
Zhuang


*From:* mesters 
*Sent:* Tuesday, March 1, 2022 8:42 AM
*To:* Li, Zhuang 
*Subject:* Fwd: Coot Stereo Issue
Please also check the following..

1.

On Windows 10, make sure “3D display mode” is set to “On” in
Windows settings: Settings --> Display --> Advanced

2.

Make sure OpenGL is turned on: --> Manage 3D Settings --> Global
Presets --> OpenGL rendering GPU --> 

3.

Make sure Stereo is turned on: --> Manage 3D Settings --> Global
Presets --> Stereo - Enabled >

4.

if steps 1-3 do not help, rollback the driver: 12/29/2016
Version 21.21.13.7654


 Weitergeleitete Nachricht 
Betreff:Re: Coot Stereo Issue
Datum:  Tue, 1 Mar 2022 14:35:59 +0100
Von: 	mesters  


An: Li, Zhuang  



More info would be good

What windows version?
What nvidia driver version?
Monitor type?
Quadro P620? This one does not have a 3-pin connector for signal 
output


Are you by any chance trying to use "Nvidia Vision" glasses with an 
usb-emitter to view the 3D output? This option is no longer 
supported with the newer nvidia drivers


J.


Am 01.03.22 um 13:19 schrieb Li, Zhuang:

Hi guys,
When I switched mono to hardware stereo, my coot window stuck. I 
tried 0.9.7  0.9.6 0.8.7, they look all the same. I used an AMD CPU 
and Quadro P620 card, and the hardwar

Re: [COOT] Coot Stereo Issue

2022-03-02 Thread mesters 

Hi Pedro,

Zhuang's problem was finally solved by installation of the latest nvidia 
graphics card driver 511.79.


WinCoot works on windows 10, no doubt: Nvidia however stopped supporting 
the 3D Vision kit from within (professional) graphics drivers and 
instead offers a stand-alone separate 3D Vision driver 390.41 that will 
not be updated in the future (only in case of security issues). So, how 
long this work-around will be useful is unknown. For the future this 
means, one probably needs to purchase the much more expensive GPUs...


For linux, there is an absolute requirement for the 3-pin connector 
(either build-in or attachable via bracket) as the USB-based 3D Vision 
kit was never actively supported by Nvidia under linux (and that is 
indeed a commercial decision...).


"Specs" will not help to select the GPU as even the small P400 or P620 
offers - according to specs - 3D quad-buffered openGL stereo support 
(that is, under Windows and making use of the 3D Vision kit). What you 
need under Linux is an nvidia GPU with an on-board 3-pin DIN stereo 
connector or, a GPU with a connector for the 3-pin DIN stereo bracket 
(NVIDIA 699-50764--001 or PNY 930-50764). So, for the GPU, one needs 
to pick a second hand model such as K / M /P4000, or newer models such 
as rtx 4000 or rtx a4000 (a2000 will not work)...


Cheers,

Jeroen

Am 02.03.22 um 13:07 schrieb Pedro Matias:


Hi there,


Coot stereo not working under Windows is a common problem. There seems 
to be a driver incompatibility that causes the issues you described. 
In our lab, we were able to use Coot stereo only under Windows 7, not 
on later Windows versions.



As for the Linux hardware you do need a more expensive graphics card - 
as far as I know there is no technical reason for the 3-pin connector 
requirement and it may be just a commercial decision by NVIDIA to 
require this. However, since NVIDIA discontinued the 3D Vision support 
these cards may be more difficult ro obtain. Basically you need a 
NVIDIA Quadro K4000, similar or higher specs - it should support 3D 
Vision stereo (maybe this is indicated in the specs and/or in the box).



Regards,


Pedro



Em 01/03/2022 14:03, Li, Zhuang escreveu:

Hi Jeroen,
Thank you so much for your response. I use a Win10 pro with Nvidia 
graphics driver 442.92 and 3D vision controller driver 390.41, and 
BenQ XL2411P 3D monitor. The IR emitter is connected to the computer 
only via USB, and together with 3D glasses, was from a 
not-so-often-heard vendor called epiphan.  It works pretty fine in 
UCSF chimera and PyMOL, so I assume the hardware and software 
configuration is correct. I did enable the stereo mode in Nvidia 
control panel.
This is the first time I setup a 3D work environment, and I used 
Win10 to make thing less complicated. Next time I would like to set 
up 3D workstation in Linux. Could you please kindly provide the 
hardware list that is guaranteed working with Linux? Could you please 
clarify what a 3-PIN connector is and how is it making things different?

Thank you in advance.
Zhuang


*From:* mesters 
*Sent:* Tuesday, March 1, 2022 8:42 AM
*To:* Li, Zhuang 
*Subject:* Fwd: Coot Stereo Issue
Please also check the following..

1.

On Windows 10, make sure “3D display mode” is set to “On” in
Windows settings: Settings --> Display --> Advanced

2.

Make sure OpenGL is turned on: --> Manage 3D Settings --> Global
Presets --> OpenGL rendering GPU --> 

3.

Make sure Stereo is turned on: --> Manage 3D Settings --> Global
Presets --> Stereo - Enabled >

4.

if steps 1-3 do not help, rollback the driver: 12/29/2016 Version
21.21.13.7654


 Weitergeleitete Nachricht 
Betreff:Re: Coot Stereo Issue
Datum:  Tue, 1 Mar 2022 14:35:59 +0100
Von: 	mesters  


An: Li, Zhuang  



More info would be good

What windows version?
What nvidia driver version?
Monitor type?
Quadro P620? This one does not have a 3-pin connector for signal 
output


Are you by any chance trying to use "Nvidia Vision" glasses with an 
usb-emitter to view the 3D output? This option is no longer supported 
with the newer nvidia drivers


J.


Am 01.03.22 um 13:19 schrieb Li, Zhuang:

Hi guys,
When I switched mono to hardware stereo, my coot window stuck. I 
tried 0.9.7  0.9.6 0.8.7, they look all the same. I used an AMD CPU 
and Quadro P620 card, and the hardware setup is working for PyMOL 
and UCSF Chimera.

Please see screenshot as attached, and any input would be appreciated.

Zhuang




To unsubscribe from the COOT list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=COOT&A=1 





--
*Dr. /math. et dis. nat./ Jeroen R. Mesters
*Dep

Re: [COOT] Coot Stereo Issue

2022-03-02 Thread Pedro Matias 

Hi there,


Coot stereo not working under Windows is a common problem. There seems 
to be a driver incompatibility that causes the issues you described. In 
our lab, we were able to use Coot stereo only under Windows 7, not on 
later Windows versions.



As for the Linux hardware you do need a more expensive graphics card - 
as far as I know there is no technical reason for the 3-pin connector 
requirement and it may be just a commercial decision by NVIDIA to 
require this. However, since NVIDIA discontinued the 3D Vision support 
these cards may be more difficult ro obtain. Basically you need a NVIDIA 
Quadro K4000, similar or higher specs - it should support 3D Vision 
stereo (maybe this is indicated in the specs and/or in the box).



Regards,


Pedro



Em 01/03/2022 14:03, Li, Zhuang escreveu:

Hi Jeroen,
Thank you so much for your response. I use a Win10 pro with Nvidia 
graphics driver 442.92 and 3D vision controller driver 390.41, and 
BenQ XL2411P 3D monitor. The IR emitter is connected to the computer 
only via USB, and together with 3D glasses, was from a 
not-so-often-heard vendor called epiphan.  It works pretty fine in 
UCSF chimera and PyMOL, so I assume the hardware and software 
configuration is correct. I did enable the stereo mode in Nvidia 
control panel.
This is the first time I setup a 3D work environment, and I used Win10 
to make thing less complicated. Next time I would like to set up 3D 
workstation in Linux. Could you please kindly provide the hardware 
list that is guaranteed working with Linux? Could you please clarify 
what a 3-PIN connector is and how is it making things different?

Thank you in advance.
Zhuang


*From:* mesters 
*Sent:* Tuesday, March 1, 2022 8:42 AM
*To:* Li, Zhuang 
*Subject:* Fwd: Coot Stereo Issue
Please also check the following..

1.

On Windows 10, make sure “3D display mode” is set to “On” in
Windows settings: Settings --> Display --> Advanced

2.

Make sure OpenGL is turned on: --> Manage 3D Settings --> Global
Presets --> OpenGL rendering GPU --> 

3.

Make sure Stereo is turned on: --> Manage 3D Settings --> Global
Presets --> Stereo - Enabled >

4.

if steps 1-3 do not help, rollback the driver: 12/29/2016 Version
21.21.13.7654


 Weitergeleitete Nachricht 
Betreff:Re: Coot Stereo Issue
Datum:  Tue, 1 Mar 2022 14:35:59 +0100
Von: 	mesters  


An: Li, Zhuang  



More info would be good

What windows version?
What nvidia driver version?
Monitor type?
Quadro P620? This one does not have a 3-pin connector for signal 
output


Are you by any chance trying to use "Nvidia Vision" glasses with an 
usb-emitter to view the 3D output? This option is no longer supported 
with the newer nvidia drivers


J.


Am 01.03.22 um 13:19 schrieb Li, Zhuang:

Hi guys,
When I switched mono to hardware stereo, my coot window stuck. I 
tried 0.9.7  0.9.6  0.8.7, they look all the same. I used an AMD CPU 
and Quadro P620 card, and the hardware setup is working for PyMOL and 
UCSF Chimera.

Please see screenshot as attached, and any input would be appreciated.

Zhuang




To unsubscribe from the COOT list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=COOT&A=1 





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

Visiting Professorship (South Bohemian University 
) in Biophysics


*University of Lübeck*
Center for Structural and Cell Biology in Medicine*
Institute of Biochemistry*

Tel  +49 451 3101 3105 (Secretariate 3101)
Fax +49 451 3101 3104 *
*jeroen.mest...@uni-luebeck.de 
https://www.biochem.uni-luebeck.de 
https://orcid.org/-0001-8532-6699 



*Ratzeburger Allee 160
23538 Lübeck, Schleswig-Holstein
Germany*



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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

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http://www.itqb.unl.pt/labs/macromolecular-crystallography-unit

Mai

Re: [COOT] Coot Stereo Issue

2022-03-01 Thread Li, Zhuang 
Hi Jeroen,
Thank you so much for your response. I use a Win10 pro with Nvidia graphics 
driver 442.92 and 3D vision controller driver 390.41, and BenQ XL2411P 3D 
monitor. The IR emitter is connected to the computer only via USB, and together 
with 3D glasses, was from a not-so-often-heard vendor called epiphan.  It works 
pretty fine in UCSF chimera and PyMOL, so I assume the hardware and software 
configuration is correct. I did enable the stereo mode in Nvidia control panel.
This is the first time I setup a 3D work environment, and I used Win10 to make 
thing less complicated. Next time I would like to set up 3D workstation in 
Linux. Could you please kindly provide the hardware list that is guaranteed 
working with Linux? Could you please clarify what a 3-PIN connector is and how 
is it making things different?
Thank you in advance.
Zhuang


From: mesters 
Sent: Tuesday, March 1, 2022 8:42 AM
To: Li, Zhuang 
Subject: Fwd: Coot Stereo Issue

Please also check the following..


  1.  On Windows 10, make sure “3D display mode” is set to “On” in Windows 
settings: Settings --> Display --> Advanced

  2.  Make sure OpenGL is turned on: --> Manage 3D Settings --> Global Presets 
--> OpenGL rendering GPU --> 

  3.  Make sure Stereo is turned on: --> Manage 3D Settings --> Global Presets 
--> Stereo - Enabled >

  4.  if steps 1-3 do not help, rollback the driver: 12/29/2016 Version 
21.21.13.7654

 Weitergeleitete Nachricht 
Betreff:Re: Coot Stereo Issue
Datum:  Tue, 1 Mar 2022 14:35:59 +0100
Von:mesters 

An: Li, Zhuang 


More info would be good

What windows version?
What nvidia driver version?
Monitor type?
Quadro P620? This one does not have a 3-pin connector for signal output

Are you by any chance trying to use "Nvidia Vision" glasses with an usb-emitter 
to view the 3D output? This option is no longer supported with the newer nvidia 
drivers

J.


Am 01.03.22 um 13:19 schrieb Li, Zhuang:
Hi guys,
When I switched mono to hardware stereo, my coot window stuck. I tried 0.9.7  
0.9.6  0.8.7, they look all the same. I used an AMD CPU and Quadro P620 card, 
and the hardware setup is working for PyMOL and UCSF Chimera.
Please see screenshot as attached, and any input would be appreciated.

Zhuang




To unsubscribe from the COOT list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=COOT&A=1


--
Dr. math. et dis. nat. Jeroen R. Mesters
Deputy, Lecturer, Program Coordinator Infection 
Biology
Visiting Professorship (South Bohemian 
University) in Biophysics

University of Lübeck
Center for Structural and Cell Biology in Medicine
Institute of Biochemistry

Tel  +49 451 3101 3105 (Secretariate 3101)
Fax +49 451 3101 3104
jeroen.mest...@uni-luebeck.de
https://www.biochem.uni-luebeck.de
https://orcid.org/-0001-8532-6699

Ratzeburger Allee 160
23538 Lübeck, Schleswig-Holstein
Germany



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