[Paraview] non-interactive viz on cluster
David E DeMarle
dave.demarle at kitware.com
Sat Jul 25 16:34:26 EDT 2015
Try to do this with some similar data in the python GUI's Tools->Python
Shell on your local machine.
That way you get tab completion and can see things happen in the GUI to
help you learn the syntax.
David E DeMarle
Kitware, Inc.
R&D Engineer
21 Corporate Drive
Clifton Park, NY 12065-8662
Phone: 518-881-4909
On Sat, Jul 25, 2015 at 4:29 PM, Kharche, Sanjay <S.R.Kharche at exeter.ac.uk>
wrote:
> that was one of the combinations I tried, and it didnt work.
>
>
> I am looking at the ParaView wiki right now. Appareltly there is a
> Delete(XX)
>
> which should be used to delete objects. I am trying to work out what to
>
> Delete and what not to delete.
>
>
> ------------------------------
> *From:* David E DeMarle <dave.demarle at kitware.com>
> *Sent:* 25 July 2015 08:24
>
> *To:* Kharche, Sanjay
> *Cc:* paraview at paraview.org
> *Subject:* Re: [Paraview] non-interactive viz on cluster
>
> You are making a new reader, but never connecting it to the View.
>
> not:
> HumanSAN000001_vtk = LegacyVTKReader( FileNames=['HumanSAN%06i.vtk' %
> (j)] )
> rather
> HumanSAN000001_vtk.FileNames=['HumanSAN%06i.vtk' % (j)]
>
> try that
>
>
>
> David E DeMarle
> Kitware, Inc.
> R&D Engineer
> 21 Corporate Drive
> Clifton Park, NY 12065-8662
> Phone: 518-881-4909
>
> On Sat, Jul 25, 2015 at 4:18 PM, Kharche, Sanjay <S.R.Kharche at exeter.ac.uk
> > wrote:
>
>>
>> I think I started celebrations too soon. The images are identical to the
>>
>> first image. I have tried a few combinations, but could not find any
>> solution.
>>
>>
>> The script:
>>
>>
>> try: paraview.simple
>> except: from paraview.simple import *
>> paraview.simple._DisableFirstRenderCameraReset()
>>
>> i = 1
>> RenderView1 = GetRenderView()
>> HumanSAN000001_vtk = LegacyVTKReader( FileNames=['HumanSAN%06i.vtk' %
>> (i)] )
>> RenderView1.CenterAxesVisibility = 0
>> RenderView1.OrientationAxesVisibility = 0
>> RenderView1.Background2 = [0.0, 0.0, 0.16470588235294117]
>> RenderView1.Background = [1.0, 1.0, 1.0]
>> DataRepresentation1 = Show()
>> DataRepresentation1.ScalarOpacityUnitDistance = 2.184824466829962
>> DataRepresentation1.Representation = 'Outline'
>> DataRepresentation1.EdgeColor = [0.0, 0.0, 0.5000076295109483]
>> RenderView1.CenterOfRotation = [63.5, 63.5, 59.0]
>> a1_voltage_PVLookupTable = GetLookupTableForArray( "voltage", 1,
>> NanColor=[0.25, 0.0, 0.0], RGBPoints=[0.0, 0.23, 0.299, 0.754, 1.0,
>> 0.7059976962405788, 0.016126465515202103, 0.15000112339188484],
>> VectorMode='Magnitude', ColorSpace='Diverging', LockScalarRange=1 )
>> a1_voltage_PiecewiseFunction = CreatePiecewiseFunction()
>> RenderView1.CameraPosition = [63.5, -351.65487519135064, 59.0]
>> RenderView1.CameraViewUp = [0.0, 0.0, 1.0]
>> RenderView1.CameraFocalPoint = [63.5, 63.5, 59.0]
>> RenderView1.CameraClippingRange = [284.63832643943715, 580.4496983192209]
>> RenderView1.CameraParallelScale = 107.44998836668155
>> DataRepresentation1.Representation = 'Volume'
>> DataRepresentation1.ScalarOpacityFunction = a1_voltage_PiecewiseFunction
>> DataRepresentation1.ColorArrayName = 'voltage'
>> DataRepresentation1.LookupTable = a1_voltage_PVLookupTable
>> Render()
>> WriteImage("Endo_dir_%06i.png" % (i))
>> for j in range (2,3998):
>> HumanSAN000001_vtk = LegacyVTKReader( FileNames=['HumanSAN%06i.vtk' %
>> (j)] )
>> a1_voltage_PVLookupTable = GetLookupTableForArray( "voltage", 1,
>> NanColor=[0.25, 0.0, 0.0], RGBPoints=[0.0, 0.23, 0.299, 0.754, 1.0,
>> 0.7059976962405788, 0.016126465515202103, 0.15000112339188484],
>> VectorMode='Magnitude', ColorSpace='Diverging', LockScalarRange=1 )
>> Render()
>> WriteImage("Endo_dir_%06i.png" % (j))
>>
>>
>>
>> ------------------------------
>> *From:* David E DeMarle <dave.demarle at kitware.com>
>> *Sent:* 25 July 2015 03:47
>> *To:* Kharche, Sanjay
>> *Cc:* paraview at paraview.org
>> *Subject:* Re: [Paraview] non-interactive viz on cluster
>>
>> I think your memory usage is growing with each iteration, Try moving
>> everything out of the loop and then just changing what you have to in the
>> fixed pipeline inside the loop.
>>
>>
>> i = 415
>> RenderView1 = GetRenderView()
>> …
>> Render()
>> WriteImage("Endo_dir_%06i.png" % (i))
>> for i in range(416…):
>> HumanSAN000001_vtk.FileName='HumanSAN%06i.vtk' % (i)
>> a1_voltage_PVLookupTable = GetLookupTableForArray( "voltage", 1,
>> NanColor=[0.25, 0.0, 0.0], RGBPoints=[0.0, 0.23, 0.299, 0.754, 1.0,
>> 0.7059976962405788, 0.016126465515202103, 0.15000112339188484],
>> VectorMode='Magnitude', ColorSpace='Diverging', LockScalarRange=1 )
>> Render()
>> WriteImage…
>>
>>
>> David E DeMarle
>> Kitware, Inc.
>> R&D Engineer
>> 21 Corporate Drive
>> Clifton Park, NY 12065-8662
>> Phone: 518-881-4909
>>
>> On Sat, Jul 25, 2015 at 11:30 AM, Kharche, Sanjay <
>> S.R.Kharche at exeter.ac.uk> wrote:
>>
>>>
>>> Dear David, All
>>>
>>> I am now using VNC and got my scripts to do non-interactive viz, i.e.
>>> making of png files using the script below. However, I have a question
>>> regarding efficiency of the run.
>>>
>>> As of now, I am doing a serial run. The first several png files are
>>> produced
>>> swiftly. However, eventually, the run slows down considerably.
>>> e.g. files 1 to 200 are at a rate of 10 per second
>>> but files 300 to 35 are almost 1 every 2 minutes.#
>>>
>>> Any ideas why this is, and how to rectify this? Isthis a memory leak and
>>> if so
>>> how not do introduce this when making the .py script using the trace
>>> option
>>> in the GUI?
>>>
>>> cheers
>>> Sanjay
>>>
>>>
>>> line in pbs script:
>>>
>>> # now any X11 traffic is sent to the VNC server.
>>> pvbatch --use-offscreen-rendering sk3d.py &
>>>
>>>
>>> my sk3d.py script:
>>>
>>> try: paraview.simple
>>> except: from paraview.simple import *
>>> paraview.simple._DisableFirstRenderCameraReset()
>>>
>>> for i in range (415,3998):
>>> RenderView1 = GetRenderView()
>>> HumanSAN000001_vtk = LegacyVTKReader( FileNames=['HumanSAN%06i.vtk'
>>> % (i)] )
>>> RenderView1.CenterAxesVisibility = 0
>>> RenderView1.OrientationAxesVisibility = 0
>>> RenderView1.Background2 = [0.0, 0.0, 0.16470588235294117]
>>> RenderView1.Background = [1.0, 1.0, 1.0]
>>> DataRepresentation1 = Show()
>>> DataRepresentation1.ScalarOpacityUnitDistance = 2.184824466829962
>>> DataRepresentation1.Representation = 'Outline'
>>> DataRepresentation1.EdgeColor = [0.0, 0.0, 0.5000076295109483]
>>> RenderView1.CenterOfRotation = [63.5, 63.5, 59.0]
>>> a1_voltage_PVLookupTable = GetLookupTableForArray( "voltage", 1,
>>> NanColor=[0.25, 0.0, 0.0], RGBPoints=[0.0, 0.23, 0.299, 0.754, 1.0,
>>> 0.7059976962405788, 0.016126465515202103, 0.15000112339188484],
>>> VectorMode='Magnitude', ColorSpace='Diverging', LockScalarRange=1 )
>>> a1_voltage_PiecewiseFunction = CreatePiecewiseFunction()
>>> RenderView1.CameraPosition = [63.5, -351.65487519135064, 59.0]
>>> RenderView1.CameraViewUp = [0.0, 0.0, 1.0]
>>> RenderView1.CameraFocalPoint = [63.5, 63.5, 59.0]
>>> RenderView1.CameraClippingRange = [284.63832643943715,
>>> 580.4496983192209]
>>> RenderView1.CameraParallelScale = 107.44998836668155
>>> DataRepresentation1.Representation = 'Volume'
>>> DataRepresentation1.ScalarOpacityFunction =
>>> a1_voltage_PiecewiseFunction
>>> DataRepresentation1.ColorArrayName = 'voltage'
>>> DataRepresentation1.LookupTable = a1_voltage_PVLookupTable
>>> Render()
>>> WriteImage("Endo_dir_%06i.png" % (i))
>>>
>>
>>
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://public.kitware.com/pipermail/paraview/attachments/20150725/b05cc0f4/attachment.html>
More information about the ParaView
mailing list