[Paraview] non-interactive viz on cluster

Thu Jul 23 12:01:33 EDT 2015

There are free and open source VNC servers. Check your system's package
lists first.

David E DeMarle
Kitware, Inc.
R&D Engineer
21 Corporate Drive
Clifton Park, NY 12065-8662
Phone: 518-881-4909

On Thu, Jul 23, 2015 at 11:44 AM, Kharche, Sanjay <S.R.Kharche at exeter.ac.uk>
wrote:

>
>  Dear All
>
>
>  I found that I can use VNC server (and which is available to me on my
> current machine) with the offscreen rendering options to paraview.
>
>
>  VNC server seems to be a proprietary software. Are there free options
> available?
>
>
>  cheers
>
> Sanjay
>
>
>
>
>  ------------------------------
> *From:* David E DeMarle <dave.demarle at kitware.com>
> *Sent:* 19 July 2015 13:46
>
> *To:* Kharche, Sanjay
> *Cc:* paraview at paraview.org
> *Subject:* Re: [Paraview] non-interactive viz on cluster
>
>  I am not wanting to do the visualisation using the PBS -X option, which
>
>>  will forward the X11 graphics from the compute mnodes to my desktop
>> screen.
>>
>> I want to do it completely non-interactively.
>>
>
>  Agreed. Don't forward X, N compute nodes sending their graphics calls
> over the network to your desktop is much worse than N times slower.
>
>   I could not find any other way of
>>
>> changing the DISPLAY variable. If there is one, please suggest.
>>
>>
>>   I think it is site specific. Talk with your sys admins about how to
> submit a job that has access to X displays on the compute nodes.
>
>
>>   In the meantime, I am trying to find out of the paraview on our
>> cluster is
>>
>> compiled to use off screen rendering. I will also try to have a go at
>> using
>>
>> some precompiled binaries (pvbatch) if I can find any.
>>
>>
>>   Sounds like a good backup plan. If that fails, you can compile
> paraview for offscreen rendering yourself and run your own binary.
>
>
>>   cheers
>>
>> Sanjay
>>
>>
>  good luck!
>
>
>>
>>  ------------------------------
>> *From:* David E DeMarle <dave.demarle at kitware.com>
>> *Sent:* 18 July 2015 02:08
>> *To:* Kharche, Sanjay
>> *Cc:* paraview at paraview.org
>> *Subject:* Re: [Paraview] non-interactive viz on cluster
>>
>>
>> The error message indicates that pv batch can not connect the xwindows.
>> If the cluster is configured to run X for you, ensure that the job has
>> the correct DISPLAY environment variable.
>> If not, you should either start X in the job ("xinit pvbatch" or
>> something like that) or recompile paraview to use offscreen rendering.
>>
>>
>> On Saturday, July 18, 2015, Kharche, Sanjay <S.R.Kharche at exeter.ac.uk>
>> wrote:
>>
>>>
>>> Dear All
>>>
>>> I need to non-interactively make png images of a series of sequentially
>>> numbered vts/vtk files. Since this is a large amount of data, I would
>>> like
>>> to do this using a cluster. The cluster has paraview and OpenFoam. I am
>>> not
>>> very familiar with OpenFoam, and have just started using Paraview in
>>> terms of python scripts. When I submit the job, I get an error. I gather
>>> that the error is because there is always a blank Paraview OpenGL window
>>> that opens when I use the script below. Can someone suggest a solution?
>>>
>>> thanks
>>> Sanjay
>>>
>>> error from the pbs job:
>>> ERROR: In
>>> /home/kitware/Kitware/ParaView-3.10/source/VTK/Rendering/vtkXOpenGLRenderWindow.cxx,
>>> line 541
>>> vtkXOpenGLRenderWindow (0x1ba5ad0): bad X server connection.
>>> DISPLAY=ERROR: In
>>> /home/kitware/Kitware/ParaView-3.10/source/VTK/Rendering/vtkXOpenGLRenderWindow.cxx,
>>> line 343
>>> vtkXOpenGLRenderWindow (0x1ba5ad0): bad X server connection. DISPLAY=
>>>
>>> My python script that I created using the GUI, and then edited for
>>> writing the png is below. I run it using the
>>> non screen rendering option:
>>>
>>> pvbatch --use-offscreen-rendering mouse2d.py &
>>>
>>> mouse2d.py is this:
>>>
>>> try: paraview.simple
>>> except: from paraview.simple import *
>>> paraview.simple._DisableFirstRenderCameraReset()
>>>
>>> # this does not make a difference to the viz.
>>> # SetActiveView(GetRenderView())
>>> # GetActiveView().UseOffscreenRenderingForScreenshots = 1
>>>
>>> # loop through all files.
>>> for i in range (1,3999):
>>>         mouse2D_SAN1_vts = XMLStructuredGridReader(
>>> FileName=['mouse2D_SAN%d.vts' % (i)] )
>>>         mouse2D_SAN1_vts.PointArrayStatus = ['Unnamed0']
>>>         RenderView1 = GetRenderView()
>>>         DataRepresentation1 = Show()
>>>         DataRepresentation1.EdgeColor = [0.0, 0.0, 0.5000076295109483]
>>>         RenderView1.CenterOfRotation = [78.0, 58.5, 0.0]
>>>         Transform1 = Transform( Transform="Transform" )
>>>         a1_Unnamed0_PVLookupTable = GetLookupTableForArray( "Unnamed0",
>>> 1, NanColor=[0.25, 0.0, 0.0], RGBPoints=[-0.01, 0.23, 0.299, 0.754, 1.0,
>>> 0.706, 0.016, 0.15], VectorMode='Magnitude', ColorSpace='Diverging',
>>> LockScalarRange=1 )
>>>         a1_Unnamed0_PiecewiseFunction = CreatePiecewiseFunction()
>>>         RenderView1.CameraPosition = [78.0, 58.5, 376.71107225273664]
>>>         RenderView1.CameraFocalPoint = [78.0, 58.5, 0.0]
>>>         RenderView1.CameraClippingRange = [372.94396153020926,
>>> 382.3617383365277]
>>>         RenderView1.CameraParallelScale = 97.5
>>>         DataRepresentation1.ColorArrayName = 'Unnamed0'
>>>         DataRepresentation1.LookupTable = a1_Unnamed0_PVLookupTable
>>>         Transform1.Transform = "Transform"
>>>         DataRepresentation2 = Show()
>>>         DataRepresentation2.ColorArrayName = 'Unnamed0'
>>>         DataRepresentation2.LookupTable = a1_Unnamed0_PVLookupTable
>>>         DataRepresentation2.EdgeColor = [0.0, 0.0, 0.5000076295109483]
>>>         DataRepresentation1.Visibility = 0
>>>
>>>         Transform1.Transform.Scale = [1.0, -1.0, 0.0]
>>>         RenderView1.CenterAxesVisibility = 0
>>>         RenderView1.CameraPosition = [78.0, -58.5, 376.71107225273664]
>>>         RenderView1.OrientationAxesVisibility = 0
>>>         RenderView1.CameraFocalPoint = [78.0, -58.5, 0.0]
>>>         RenderView1.CenterOfRotation = [78.0, -58.5, 0.0]
>>> #       Render()
>>>         WriteImage("dir_%i.png" % (i))
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>>
>>
>> --
>> David E DeMarle
>> Kitware, Inc.
>> R&D Engineer
>> 21 Corporate Drive
>> Clifton Park, NY 12065-8662
>> Phone: 518-881-4909
>>
>
>
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