[Paraview] non-interactive viz on cluster

Thu Jul 23 11:44:07 EDT 2015

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<mailto:dave.demarle at kitware.com>>
Sent: 18 July 2015 02:08
To: Kharche, Sanjay
Cc: paraview at paraview.org<mailto: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<mailto: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
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