VMD-L Mailing List

From: Ryan P Steele (Ryan.Steele_at_utah.edu)
Date: Mon Mar 20 2017 - 23:20:27 CDT

Thanks, John. Yes, previous xquartz versions worked correctly when
connecting to the same linux system. I believe that xquartz is the
culprit, and our cluster folks tell me that 2.7.8 was the most recent
version that played nicely. I have no particular affinity to the more
recent ones, so I'll roll it back in the morning and stay there until I
hear of improvements (or am forced to update by Mac). I'll pass along
your comments about the missing driver error, though, and see if it
trips any changes on the linux end of things.

Ryan

On 3/17/17 1:25 PM, John Stone wrote:
> Hi Ryan,
> I bounced a copy of your reply to VMD-L so that others using VMD on
> MacOS X and and/or with XQuartz can see it as well. The errors you get
> when you run 'glxinfo' and 'glxgears' on the remote linux machine indicate
> that the XQuartz window server on your Mac is (for some reason) failing to
> respond to GLX protocol requests being performed on the remote Linux system.
> GLX is that part of OpenGL responsible for managing graphics resources
> and negotiating how the OpenGL framebuffer is mapped onto the
> windows and shown on the physical display. I'm most concerned with the fact
> that 'glxinfo' doesn't run, since that is the simplest test of whether the
> X server has an operable OpenGL interface, and that is failing too.
> I note that your libGL implementation on the Linux server is emitting
> some errors about "failed to load driver: swrast", which makes me wonder
> if the OpenGL system software on your Linux machine is complete or if there
> are some software components missing. It is possible that the source of
> trouble is actually the Linux machine rather than the XQuartz server,
> but you may be able to determine that better based on what configurations
> had worked for you in the past vs. the specific details of the software
> configurations you're trying to use here. Did a previous version of
> XQuartz work properly with the same Linux system? Does a different Linux
> system work with this XQuartz version? Is XQuartz the only thing that
> changed vs. the setup that had worked previously?
>
> Cheers,
> John Stone
> vmd_at_ks.uiuc.edu
>
> On Thu, Mar 16, 2017 at 02:28:19PM -0600, Ryan P. Steele wrote:
>> Thanks for the response, John.
>>
>> When I run those two commands, I receive the following:
>>
>> kingspeak1 > glxinfo
>> name of display: 10.242.128.31:20.0
>> libGL error: No matching fbConfigs or visuals found
>> libGL error: failed to load driver: swrast
>> X Error of failed request: GLXBadContext
>> Major opcode of failed request: 149 (GLX)
>> Minor opcode of failed request: 6 (X_GLXIsDirect)
>> Serial number of failed request: 23
>> Current serial number in output stream: 22
>>
>> kingspeak1 > glxgears
>> libGL error: No matching fbConfigs or visuals found
>> libGL error: failed to load driver: swrast
>> X Error of failed request: BadValue (integer parameter out of range
>> for operation)
>> Major opcode of failed request: 149 (GLX)
>> Minor opcode of failed request: 3 (X_GLXCreateContext)
>> Value in failed request: 0x0
>> Serial number of failed request: 28
>> Current serial number in output stream: 30
>>
>>
>> It certainly sounds like something isn't working here, but I'm not
>> familiar with these sorts of display configurations.
>>
>> Ryan
>>
>>
>>
>>
>> On 3/16/17 1:56 PM, John Stone wrote:
>>> Ryan,
>>> Are you able to run either 'glxinfo' or 'glxgears' on this system in
>>> the same way that you tried running VMD? If so, do they work, or do they
>>> fail?
>>>
>>> Cheers,
>>> John Stone
>>> vmd_at_ks.uiuc.edu
>>>
>>> On Thu, Mar 16, 2017 at 01:50:53PM -0600, Ryan P. Steele wrote:
>>>> Hi, folks -
>>>>
>>>> We seem to be having an issue with Mac users when running a server-side
>>>> VMD window.\001 This version of VMD is a 'common' installation for all
>>>> users on a cluster.\001 With Windows or all tested Linux terminals, things
>>>> work fine when running it through tunneled x connections.\001 However, the
>>>> recent version of XQuartz on OS X does not work.\001
>>>>
>>>> Upon startup, VMD gives the error copied below (the errors shown here are
>>>> for a user-installed version, but the common version behaves the same
>>>> way).\001 A locally installed version on the same Mac machine works fine,
>>>> and the server version, when run in text-only mode, also works fine.\001
>>>> It seems as though the x-tunneled graphics are not playing nicely with
>>>> XQuartz.
>>>>
>>>> Any suggestions?
>>>>
>>>> Thanks -
>>>> Ryan
>>>>
>>>> > vmd
>>>> /uufs/chpc.utah.edu/common/home/u0764443/mybin/vmd2/lib/vmd_LINUXAMD64:
>>>> /usr/lib64/libGL.so.1: no version information available (required by
>>>> /uufs/chpc.utah.edu/common/home/u0764443/mybin/vmd2/lib/vmd_LINUXAMD64)
>>>> Info) VMD for LINUXAMD64, version 1.9.3 (November 30, 2016)
>>>> Info) [1]http://www.ks.uiuc.edu/Research/vmd/
>>>> Info) Email questions and bug reports to [2]vmd_at_ks.uiuc.edu
>>>> Info) Please include this reference in published work using VMD:
>>>> Info)\001\001\001 Humphrey, W., Dalke, A. and Schulten, K., `VMD - Visual
>>>> Info)\001\001\001 Molecular Dynamics', J. Molec. Graphics 1996, 14.1,
>>>> 33-38.
>>>> Info) -------------------------------------------------------------
>>>> Info) Multithreading available, 32 CPUs detected.
>>>> Info)\001\001 CPU features: SSE2 AVX
>>>> Info) Free system memory: 43GB (67%)
>>>> NVIDIA: no NVIDIA devices found
>>>> Info) No CUDA accelerator devices available.
>>>> libGL error: No matching fbConfigs or visuals found
>>>> libGL error: failed to load driver: swrast
>>>> XRequest.149: BadValue (integer parameter out of range for operation) 0x0
>>>> XRequest.149: GLXBadContext 0xa00001
>>>> XRequest.149: 0 0x0
>>>> Info) OpenGL renderer: ErrorUnknown
>>>> Info)\001\001 Features: STENCIL
>>>> Info)\001\001 GLSL rendering mode is NOT available.
>>>> XRequest.149: BadMatch (invalid parameter attributes) 0xa00009
>>>> NVIDIA: no NVIDIA devices found
>>>> NVIDIA: no NVIDIA devices found
>>>> Info) Dynamically loaded 2 plugins in directory:
>>>> Info)
>>>> /uufs/chpc.utah.edu/common/home/u0764443/mybin/vmd2/lib/plugins/LINUXAMD64/molfile
>>>> XRequest.149: GLXBadContext 0xa00001
>>>> XRequest.149: 0 0x0
>>>> XRequest.149: BadMatch (invalid parameter attributes) 0xa00009
>>>> XRequest.149: GLXBadContext 0xa00001
>>>> XRequest.149: 0 0x0
>>>> XRequest.149: BadMatch (invalid parameter attributes) 0xa00009
>>>> XRequest.149: GLXBadContext 0xa00001
>>>> XRequest.149: 0 0x0
>>>> XRequest.149: BadMatch (invalid parameter attributes) 0xa00009
>>>> XRequest.149: GLXBadContext 0xa00001
>>>>
>>>> (repeats thousands of times...)
>>>>
>>>> --
>>>> ==========================
>>>> Ryan P. Steele
>>>> Assistant Professor
>>>> University of Utah
>>>> Dept. of Chemistry
>>>> 315 South 1400 East
>>>> Salt Lake City, UT 84112
>>>> Phone : 801-587-3800
>>>> Office: Thatcher 4611
>>>> ==========================
>>>>
>>>> References
>>>>
>>>> Visible links
>>>> 1. http://www.ks.uiuc.edu/Research/vmd/
>>>> 2. mailto:vmd_at_ks.uiuc.edu
>> --
>> ==========================
>> Ryan P. Steele
>> Assistant Professor
>> University of Utah
>> Dept. of Chemistry
>> 315 South 1400 East
>> Salt Lake City, UT 84112
>> Phone : 801-587-3800
>> Office: Thatcher 4611
>> ========================== 

-- 
==========================
  Ryan P. Steele
  Assistant Professor
  University of Utah
  Dept. of Chemistry
  315 South 1400 East
  Salt Lake City, UT 84112
  Phone : 801-587-3800
  Office: Thatcher 4611
==========================