From: paraview-boun...@paraview.org [paraview-boun...@paraview.org] On Behalf
Of David E DeMarle [dave.dema...@kitware.com]
Sent: Monday, November 09, 2009 7:24 PM
To: Nehme Bilal
Cc: paraview@paraview.org
Subject: Re: [Paraview] How PV detects valid file
Hello
I have a reader creating 3 output ports (1 AMR and 2 vtkMultiBlock). Execution
is fine, but the 3 eye icons left of the objects in the pipeline browser are
now missing. My most recent CVS checkout was on December 4. Everything was
right. I updated today, and the icons are now missing.
I am following the same method I use in multi-block readers to set names of
individual grids (Extract Block in the GUI panel correctly identifies grids
by names)
The same (using Extract AMRBlock) does not name my patches. The levels are
named, but the patches are simply labeled with the
Hi everyone,
When I connect the paraview client to the server, the render windows
are shown fullscreen on the cluster nodes. But if I try to draw something,
the render windows on visualization nodes are not shown fullscreen any more.
--
Are you using tile-display mode? what version of PV are
I have tried compiling pv3.6.2 with my system's hdf5 and have run into the
following issue:
regardless of what api-version I use to configure compile hdf5 (v16 or v18),
I cannot compile pv because of the following error:
/apps-vis/ParaView3-6-2/Utilities/Xdmf2/libsrc/XdmfH5Driver.cxx:174:
Hi,
I'm currently searching for way to retrieve the coordinates of one or
more selected surface points (Select Points On functionality).
How can I display the coordinates of those points?
You need two things:
1) after selection, open up a Selection Inspector panel, the current object is
There is another software around which uses the trick of configuring Mesa
twice, first with the --with-driver=xlib option to make the lib required for
the glX* calls, and a second time to make the other calls available with
--with-driver=osmesa.
You may see details of their method here:
Hi,
I noted this problem a few days ago.
A *really* simple example:
- Add a SphereSource
- Connect to a Generate Ids filter
- Update: The information panel shows a 'Ids' array for points and for cells,
but
the Color by doesn't give the choice of cell array.
Jerome
-
I cannot
From: paraview-boun...@paraview.org [paraview-boun...@paraview.org] On Behalf
Of bastil2...@yahoo.de [bastil2...@yahoo.de]
Sent: Wednesday, March 03, 2010 11:59 PM
To: 'ParaView'; Utkarsh Ayachit
Subject: Re: [Paraview] Fwd: Re: Name query from
Hi all
How does one go about creating a ComparativeView multi-viewport in a python
script?
I tried the trace thing, but it only gave me an incomplete description, and
then it failed, when reloading, on the keywords
ComparativeRenderView2.Cues = []
I have found in simple.py the definitions
Hello
Can one write a Python Programmable Filter with multiple outputs?
I tried the obvious self.SetNumberOfOutputPorts(2), which complained, and in
any case, I wonder how it would interact with the GUI option which defines the
output Data Set Type. Since there is a single option, I guess I
ParaView has already defined a filter with the following specs:
SourceProxy name=ImageClip class=vtkImageClip label=Crop
you may find the full description in the source code at
Servers/ServerManager/Resources/filters.xml
-
Jean M. Favre
Swiss National Supercomputing Center
All,
The new link in http://www.paraview.org/paraview/resources/software.html for
the new source code access has a typographic error
Download ParaView source via Git access:
http://www.paraview.org/Wiki/ParaView/Git
links too http://www.parawiew.org/Wiki/ParaView/Git
the correct
From: paraview-boun...@paraview.org [paraview-boun...@paraview.org] On Behalf
Of Olumide [50...@web.de]
Sent: Wednesday, April 28, 2010 2:03 PM
To: paraview@paraview.org
Subject: Re: [Paraview] [Feature request] Expanding PVD File Components
Thanks.
Erm ... what does a *.vts file look like?
From: paraview-boun...@paraview.org [paraview-boun...@paraview.org] On Behalf
Of Eric E. Monson [emon...@cs.duke.edu]
Sent: Thursday, April 29, 2010 5:40 PM
To: Michael Jackson
Cc: ParaView list
Subject: Re: [Paraview] Extract Block from MultiBlock into
-
Jean M. Favre
Scientific Computing Research
Swiss National Supercomputing Center
CH-6928 Manno
Switzerland
From: David E DeMarle [dave.dema...@kitware.com]
Sent: Thursday, May 06, 2010 5:18 PM
To: Favre Jean
Cc: ParaView
Subject: Re
I am not able to reproduce a crash using ParaView 3.8RC2. Using the included
Python script, you may play the scene for as long as you want. Modify the file
name to read your own copy of RectGrid.vtk from the ParaViewData distribution.
run with pvpython, and it will play for ever.
From: David Borland [borl...@renci.org]
Sent: Monday, May 10, 2010 5:38 PM
To: Favre Jean
Cc: Zhanping Liu; paraview@paraview.org
Subject: Re: [Paraview] Contours of streamlines crashing
Yes, looks like I can't replicate it with RectGrid.vtk either
I have my own reader for AMR data which produces only PointData, no CellData.
When doing Contour (with a recent CVS version), I get errors like this, and
then a crash:
ERROR: In
/local/data/jfavre/ParaView3/Servers/Filters/vtkAMRDualGridHelper.cxx, line 727
vtkAMRDualGridHelper (0x2abe6e0):
if you have enabled TESTING and you have the correct VTK_DATA_ROOT set up, you
may want to try
bin/HybridCxxTests TestTDxGeo -D /local/VTKData -V
Baseline/Hybrid/TestTDxGeo.png -I
The source code is in VTK/Hybrid/Testing/Cxx/TestTDxGeo.cxx
-
Jean M. Favre
Swiss National
I was trying the same exercise for fun, and I got it done with a Python
Programmable Filter. When you import math, you also get math.pi
Here is how I did it:
1) generate a structured grid with a programmable source and your given bounds
2) remap its coordinates with a programmable filter
The file political.vtp from the VTKData directory has bounds between [-180,
180], [-90, +83], [0,0] and can be transformed to a spherical representation
with the filters proposed last week.
It has country names and regions and works well with the spreadsheet selection
in paraview.
i am having difficulty with pvbatch - compiled with Mesa 7.6 - running in
parallel and hanging after the first WriteImage in my python scripts.
I have tested several compilations on different clusters, several MPI (mvapich
and openmpi) and still cannot make this work. It writes the first
Hello
I am seeing a couple of difficulties in using the XYPlotView in python and
pvbatch, using ParaView head (3.9)
How does one specify the size of the image saved?
By default, I get a 300x300 pixels image and that is not good enough, since the
legend takes over much of the space.
I did not
May I suggest the following syntax? use a file with suffic .pvd and describe
the collection with the following list. You may specify all timestep values
explicitly
VTKFile type=Collection version=0.1 byte_order=LittleEndian
Collection
DataSet part=0 timestep=0 file=td_0.vtu/
Why is this any different from array-selection already provided by many
readers?
---
In my mind, it is quite different. At least for CFD applications, where a
hierarchy of blocks is the general case.
2 cents from my side
Jean
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I would like to be able to orientate the camera whilst running batch scripts
for generating animations, as you can do in interactive mode. However, I'm
stuck on what to use for the AnimatedProxy. I tried the following and I get
an error message:
#move
From: paraview-boun...@paraview.org [paraview-boun...@paraview.org] On Behalf
Of Tim Mardall [...@mardall.info]
Sent: Thursday, September 09, 2010 5:32 PM
To: paraview@paraview.org
Subject: [Paraview] Get Data Ranges in Python
Hello,
If I select an item
___
I would like to map an unstructured grid (describing particle data
with per particle attributes I would like interpolated onto the
regular grid) onto a regular mesh. I am trying to use the 'Resample
With Dataset' filter but have not been having much luck.
Using the maximum value of any scalar field as the threshold for an isosurface
will always give a null object. In fact, the smallest isosurface you could ever
construct is a single triangle, intersecting 3 edges connecting one vertex
greater than your threshold, and three other vertices below
The use of a programmable filter is perhaps more than you actually needed, now
that you know how to get the range of the input. I would start simply with the
Python shell, create a contour and create its representation like this:
SetActiveSource(Input) # set your input here, if not already
Hi all
I have the following definition for a home-made reader where I wish to pass 5
integers back to my python client.
IntVectorProperty
name=Windices
command=GetWindices
number_of_elements=5
default_values=0 0 0 0 0
information_only=1
Turning PARAVIEW_INSTALL_THIRD_PARTY_LIBRARIES to OFF fixes my install issue.
Thanks for the tip.
btw, is there any reason the hdf5 libs get installed in /fullpath/lib instead
of /fullpath/lib/paraview-3.9? There are the only libs being installed one
level up (from the rest).
Thanks
Jean
From: paraview-boun...@paraview.org [paraview-boun...@paraview.org] On Behalf
Of Andy Bauer [andy.ba...@kitware.com]
Hi Chris,
I just fixed the formatting for the python code snippets. As you noticed there
were problems of tabs and spaces intermixed
Hi there
this afternoon, I was asked to read a stack of TIFF images in ParaView. Well, I
search the archive mailing list, tried different things which led me nowhere,
and could not find a solution out of the box.
I then worked on a Python script which now works very well for our purpose. I
I suggest you look at readers.xml and look as the example for the
PNGSeriesReader
http://paraview.org/gitweb?p=ParaView.git;a=blob;f=Servers/ServerManager/Resources/readers.xml
Note also that both the PNG and the JPEG readers are enabled as FileSeries.
But one must understand the difference
[Please keep the discussion in the mailing list so that others can benefit from
it.]
The answer to the question raised below is that my PYTHONPATH includes both:
/local/apps/ParaView3Build/Utilities/VTKPythonWrapping/site-packages
and
/local/apps/ParaView3Build/VTK/Wrapping/Python
I tried
use the python shell within paraview
the following pseudo-code will get you almost there
import glob
files = glob.glob('foo_*.hdf')
files.sort()
# open the first file, set up your visualization, then get the object handle
reader = FindSource('foo_1995-03-21T01-00-00.hdf')
for i in files:
I have large multi-level hierarchies of vtkMultiBlockDataSet with FieldData and
I have tried to reproduce what you describe as a bug and was not able to do so.
My FieldData was cleanly copied (passed over) when using PointDataToCellData
followed by CellDataToPointData.
My only idea is that
Hello James
I don't believe this is a bug. I have used the ProgrammableSource and was able
to render a grid without any difficulty. What is missing in your procedure is
most likely setting the WholeExtent.
try loading this script and you'll get a rendered image
paraview --script=state.py
w = CSVWriter()
w.FileName = /local/data/tmp/foo.csv
#s1 should be of type Table
w.Input = s1
w.UpdatePipeline()
-
Jean M. Favre
Swiss National Supercomputing Center
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I believe the functionality is missing. I have looked for it for many years.
I just put together a quick hack, which seems to work fine for me. No
exhaustive testing was done. It works for my test data, which are multi-blocks
of multi-blocks. It could be generalized to multi-pieces too. I'll
The Python shell can work.
get your object:
C = FindSource('Connectivity1')
c.ListProperties()
c.ColorRegions = 0 # or 1
c.ExtractionMode = 4 # or 5
all other values 1,2,3 require an additional list of seeds or options which are
not available via python
-
Jean M. Favre
Swiss
GetRenderView() actually creates a second view, and it is empty. That is what
you see being rendered.
to get the existing view after reloading your state, I suggest using
SetActiveView(GetRenderViews()[0])
Render()
and you will get your cone and your sphere.
-
Jean M. Favre
Sounds like you are missing something like
grid-SetWholeExtent(0,i-1, 0, j-1, 0, 0);
-
Jean M. Favre
Swiss National Supercomputing Center
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min,max = slice.PointData[0].GetRange()
try this:
slice. GetDataInformation().DataInformation.GetBounds()
Jean
CSCS
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Greg,
I would not use Fetch to do what you need. Here is something that should work:
# reuse your wake_out proxy
di = wake_out.GetDataInformation()
rowInfo = di.GetRowDataInformation()
# get largest magnitude value from column 2
rowInfo.GetArrayInformation(1).GetComponentRange(0)[1]
#You
Greg,
sorry if I did not explain fully. After reading your data, it is the active
source. if you instantiate a ProgrammableFilter (PF), it takes wake_out as its
input. But you can also set it explicitly as the source.
inside the PF, you have VTK objects, so you can use VTK methods. Here is a
Hello List
I am checking my private plugins, (compiled, and tested successfully under
3.10) under the RC2 for v3.12. Configuration, compilation show no warnings or
errors. When loading manually, paraview crashes with the following message:
Plugin's signature: paraviewplugin|GNU|3.12
Plugin
The culprit is not dp, but src
GetActiveSource() most likely returns nothing
use FindSource(name), or GetSources()
-
Jean M. Favre
Swiss National Supercomputing Center
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The FindGIT.cmake file is only available with cmake version 2.8.5 or above.
you are using cmake version 2.6.4 and you need to upgrade to a newer cmake.
Jean
CSCS
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Hello List
after the migration from 3.10 to 3.12, we are experiencing crashes with D3 when
using Duplicate cells and I wonder if anyone has had issues.
I filled up a big report already a couple of weeks ago, but did not see any
message relating problems.
Hello all
I have been fighting all afternoon with a crash, which I can now avoid, or
replicate on demand. Here is the scenario, a simple pipeline to do streamlines,
runing with 16 pvservers, so everything is parallel. (version 3.12)
XDMF reader - vector field omega is read
Calculator -
this is the URL I use:
http://paraview.org/files/v3.14
-
Jean
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Please keep messages on-topic and check the
I am seeing this bug too with my own compilation.
Has there been a patch issued for it?
TIA
Jean
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Please keep messages
Hello folks
what is the status of the multi-clients support in 3.98?
I have tried different hosts, different setups and it always results in
crashes, seg faults. I wanted to know if this is related to my setup, or some
known issues.?
The wiki page
Hello
I have an hexahedral grid, in a *vtu file. When read on a local client, the
Connectivity filter *correctly* detects that there is a single region (with
Extract All Regions).
The same *vtu file, when read in parallel, shows multiple regions, with *some*
region boundaries matching
If you are looking for the Centroid of the dataset, then I would propose 3
lines of python in a Programmable Filter, using numpy's mean. Cut and paste in
the script section of a PF:
from paraview.vtk.dataset_adapter import numpyTovtkDataArray
coords = inputs[0].Points
print mean(coords)
Hello
where did the vtkProbeFilter go in 3.98? I cannot reproduce the example of the
User Guide
http://paraview.org/Wiki/index.php?title=ParaView/Users_Guide/Python_Programmable_Filter
I need to use a Programmable Filter with a vtkProbeFilter to do an azimuthal
average, giving it a circle
CALL FOR PAPERS
VMV 2013
18th International Workshop on Vision, Modeling and Visualization
September 11-13, 2013
Lugano, Switzerland
Paper Submission Deadline: June 21, 2013
vmv2013.inf.usi.ch
In Cooperation with
Eurographics Association
The VMV workshop series, which covers the fields of
Hello there,
I have a time-dependent dataset with 1467 timesteps, going from t=0.0 to t=7.3
with fixed increments of 0.005 seconds
I am only partly successful in using ParticlePath. The pathes drawn are too
short. I have seen the previous postings but did not find much help.
Even though I set
I read on the wiki about a script to execute and display the hostname and
DISPLAY of each rank of a parallel pvserver job.
import os
import subprocess
display = os.getenv('DISPLAY')
hostname = subprocess.Popen(['hostname'],
stdout=subprocess.PIPE).communicate()[0].strip()
print hostname,
Bingo!
using '/bin/hostname' did the trick.
thanks Utkarsh.
-
Jean
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I'd be interested to know if your simulation uses a Yin-Yan grid configuration
and if you have a native reader for it, or if you are using a different grid
setup, maybe icosahedron, or tetrahedron, etc...
I have worked with scientists doing similar simulations of mantle convection
with the
I am using the RC2, but am puzzled by the following:
I can run paraview and create a sphere, and in the python shell, I do this
(without any problem)
s = FindSource('Sphere1')
dp = GetDisplayProperties(s)
dp.OpacityTableValues
I use save state and the python code sets OpacityTableValues
if
Utkarsh
you are right about OpacityTableValues coming from the PointSprite plugin.
What really caught me is the fact that my script only works if I load the
PointSprite plugin last.
I used to have the following lines (which create the error)
cut and paste error in my previous mail:
I used to have the following lines (which create the error)
LoadPlugin(/local/apps/ParaView-v4.1.0Build/lib/libPointSprite_Plugin.so,
ns=globals())
LoadPlugin(/local/apps/ParaView-v4.1.0Build/lib/libH5PartReader.so,
ns=globals())
I then reverted the
Nice work on releasing 4.1! Thanks to all.
I read with interest the discussion about server-side plugins, and modified my
custom plugins accordingly.
http://www.kitware.com/blog/home/post/594
installed a windows 64-bit pre-compiled, connected to my server, and indeed, I
can visualize custom
Folks
I have a paraview installed on a server, without the GUI compiled, i.e. only
pvserver, and pvbatch.
Without any error, I can use my desktop pvpython, and do
from paraview.simple import *
paraview version 4.1.0
Connect(pilatus25.abc.abc.ch)
Connection (cs://pilatus25.abc.abc.ch:1) [2]
Hello
I have some reverse-connect configurations running very smoothly from the
paraview GUI.
I would now like to add the Connect() call in my python scripts to make
everything fully automatic, but cannot find out if it is possible.
Josh
you'll find details here:
http://paraview.org/Wiki/ParaView/Simple_ParaView_3_Python_Filters
I am guessing that what you really want to create is a regular cartesian grid
your example, would look like that:
Get a programmable Source
Set the output type to vtkImageData
fill in the Script
hello
I have multiple production machines where PV is installed, some with GPUs, some
with mesa-rendering. Even so, operating systems differ on the different
machines.
The problem I have is that PV is installed in application directories on a
filesystem shared by all production machines. And
Allow me to add my 2 cents to this thread, since Dave talks about a new
generation xdmf reader/writer in the making.
I too use a series of files for each timestep ( one XMF file and one HDF5 file
per step), since I have discovered that creating temporal collections does not
work correctly if
We're running ParaView on our Cray XC30, with GPU rendering
here's my cmake line:
cmake -DMPI_C_COMPILER=/opt/cray/craype/2.1.0/bin/cc
-DMPI_CXX_COMPILER=/opt/cray/craype/2.1.0/bin/CC
-DMPI_CXX_LIBRARIES=/opt/cray/mpt/6.3.0/gni/mpich2-gnu/48/lib/libmpichcxx.so
Hi there
I am using PV4.1 on a GPU-based machine, in client-server mode (remote render
threshold=0).
LIC, as another example of a GPU-enabled representation, works fine. But when I
try the PointSprite plugin, I get a seg fault. I even tried a single task
pvserver, and it always seg faults. my
here is a follow-up. I installed the latest git checkout on our Cray, and I
can now do Point Sprite rendering. I tested with 8.5 billion particles on 128
GPUs.
I still see some error message, but it is not breaking and not stopping me.
That error message comes from the client on my desktop.
I had the same crash yesterday on our Cray XC30 while connecting a 4.1 client
with a 4.2 server. Everything worked fine (i.e. I am now using the latest git
checkout) after I updated both sides.
-
Jean
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I'd recommend you use the Trace tools to see how to write the python code.
Get your data, apply the slice filter, and see how its arguments are set.
you'll end up with something like:
data = PhastaReader(FileName=view.pht)
Show(data)
slice = Slice(Input=data)
slice.SliceType = 'Plane'
thanks for the tip. I got the new reader compiled, but I am disappointed to see
that it crashes immediately on my existing data (which can be read in parallel,
with the old xdmf2 reader).
ERROR: In
/apps/pilatus/ParaView/src/ParaView/VTK/Common/Core/vtkDataArrayTemplate.txx,
line 148
as discussed with Utkarsh, this is most likely related to a bug about
structured extents in version 4.2
I created a reproducer and filled a bug
http://www.paraview.org/Bug/view.php?id=15022
-
Jean/CSCS
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I cannot find information about reading a collection of binary time-dependent
PLY files. My files are numbered with leading zeroes and *.ply extension
the GUI shows me filename-00* but ParaView does not recognize the series as a
time collection. It only shows the first file.
Hi there
I have particle data, which I read with the H5PartReader plugin
I need to extract the particles whose distances from an x axis offset are
within a given threshold on the first timestep, and then follow only these as
time goes on.
the first thing is trivial. I use a python calculator
#Suppose you're displaying a variable called scalar
scalarLUT = GetColorTransferFunction('scalar')
view = GetRenderView()
sBAR = GetScalarBar(scalarLUT, view)
sBAR.LabelColor=[0.,0.,0.]
Render()
-
Jean/CSCS
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try this:
bk2_cube = GaussianCubeReader( guiName=bk2.cube, FileName='/sandbox/bk2.cube'
)
contour1 = Contour(Input=servermanager.OutputPort(bk2_cube, 1))
-
Jean/CSCS
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The same example can be trivially done in ParaView using a ProgrammableSource
programmableSource1 = ProgrammableSource()
programmableSource1.OutputDataSetType = 'vtkImageData'
programmableSource1.Script = 'import numpy as np\nimport zipfile\n\nexecutive =
self.GetExecutive()\noutInfo =
I have just a few days ago gotten to the same conclusion. Reading some large
PLY files on our Cray nodes which only have 32Gb of memory, I would run out of
memory and crash. Checking memory usage with the Memory Inspector will show
that everything is loaded on rank 0.
Using the D3 filter
you have one error in the definition of the topology.
the first line wrongly defines the Dimensions as 54653 4
Topology Dimensions=54653 4 TopologyType=Tetrahedron
the correct syntax is:
Topology Dimensions=54653 TopologyType=Tetrahedron
as in:
Topology Dimensions=54653
Folks,
there has been several requests to push the deadline for submission of the
Supercomputing`15 Scientific Visualization Showcase;
A new and final deadline for submission has been set to 2015-08-21 23:59, AOE
see details at;
Folks
We have some great news. The deadline for submission has been pushed back to
August 7. Take advantage of the extra time to submit the best visualizations
ever.
Jean,
SC15, Scientific Visualization Showcase Chair
From: ParaView
putting the following code in your ScriptRequestInformation should tell
ParaView that you can handle sub-divisions:
executive = self.GetExecutive ()
outInfo = executive.GetOutputInformation(0)
outInfo.Set(vtk.vtkAlgorithm.CAN_PRODUCE_SUB_EXTENT(), 1)
it is then up to you, to correctly handle
>> Sources -> Programmable Source -> Choose vtkTable as Output Data Set Type
Programmable Sources have no input. What you probably wish to use is a
Programmable Filter
Jean/CSCS
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Incidentally, I tried to achieve this with a Python programmable filter since
that was Alan's question.
I did not succeed. I am removing the TIME_STEPS() and TIME_RANGE() in the
RequestInformationScript script. I am setting a different UPDATE_TIME_STEP() at
each iteration of the
You are missing a RequestInformation Script to indicate the dimensions of the
grid you wish to create.
Set the type of the Output Data to "vtkStructuredGrid"
you will need, at the minimum, the following two sections of python code
in the "Script"
mbds = inputs[0]
block0 = mbds.GetBlock(0)
I have tested the following solution which consists in using a Python
programmable filter, copying the non-spatial data attributes, and creating a
new coordinate array with the spatial attributes (x, x and z)
see the included python code. I suggest using ParaView 4.4 or 5.0RC1.
Note that the
What you need can be simply implemented with a Python Programmable Filter,
extracting the 3 coordinate arrays from the PointData fields, making a vector
with algs.make_vector(), assigning it to output.Points, and appending all the
other attributes from inputs[0].PointData
if you supply a small
My advice is that you use the new features of ParaView master branch.
it includes new SPH interpolators under the Category "Filters->Point
Interpolation". You have the choice to sample you rPSH points onto a high
resolution 1D line, a 2D cutting plane, or a 3D volume.
-
Jean/
>>Could you give me any recommendation?
yes, I can: see Utkarsh's posting:
<<
ParaView 5.1.0-RC1 has been tagged.
Git tag name: v5.1.0-RC1
Source tar/zip files are available for download:
http://www.paraview.org/download/
Binaries will be available for testing within the next few days.
I am prototyping an AMR output, using programmable source.
having trouble setting up the GhostArray. The following returns None:
grid0 = vtk.vtkUniformGrid() grid0.GenerateGhostArray(exts, True)
ga = grid0.GetCellGhostArray()
I am setting it this way instead of using vtkAMRBox because my
I checked out ospray release-0.9, and the dev branch of pvOSPRay and do not
have issue other than the high memory cost.
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Jean/CSCS
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>> I would like to get an average over an entire cut plane (over time).
David
This sounds like a perfect case for a Python Programmable Filter, looping over
timesteps, accumulating data, doing the average, and setting it as a new field.
Here is a script I have tested on a single block of data
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