[vtkusers] [Paraview] (no subject)

Fri Aug 7 10:04:50 EDT 2015

A single data set has three FIELDs, one the collection of arrays that are
aligned with the geometry(ie points ie nodes) (vtkPointData), one the
collection of arrays that are aligned with the connectivity (aka cells aka
elements) (vtkCellData) and another the collection of arrays which are not
aligned with anything other than the data set (vtkFieldData).

You may have found a bug in the writer. Would you mind filing a bug report
and referencing the email thread?

cheers

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

On Fri, Aug 7, 2015 at 5:01 AM, Schubert, Raphael <
raphael.schubert at iwm.fraunhofer.de> wrote:

> The way I understand the file format specification it should be illegal to
> define a FIELD dataset in addition to, e.g, STRUCTURED_POINTS, as I can
> find it neither explicitly allowed (there is only mention of one dataset
> per file) nor presented in an example. It therefore seems like an
> accidental feature in vtk that I can actually read back the produced files.
>
> Am I missing something in the file format?
>
> Maybe I presented this poorly, please let me give another example with
> additional point data, also straight out of python. Here are two fields,
> one in the dataset section, and one in the point data section. By my
> reading of the file format spec, the field in the dataset section should
> not be permitted to be there, even after the details for the
> STRUCTURED_POINTS.
>
> # vtk DataFile Version 3.0
>
> ASCII
> DATASET STRUCTURED_POINTS
> FIELD FieldData 1
> Pi 1 1 double
> 3.141
> DIMENSIONS 2 2 2
> SPACING 1 1 1
> ORIGIN 0 0 0
> POINT_DATA 8
> FIELD FieldData 1
> Index 1 8 long
> 0 1 2 3 4 5 6 7
> ------------------------------
> *Von:* Dan Lipsa [dan.lipsa at kitware.com]
> *Gesendet:* Freitag, 7. August 2015 05:11
> *Bis:* Schubert, Raphael; paraview at paraview.org; vtkusers at vtk.org
> *Betreff:* Re: [Paraview] (no subject)
>
> Raphael,
> Indeed, the FIELD definitions have to be after the dataset details
> according to:
>
> http://www.vtk.org/wp-content/uploads/2015/04/file-formats.pdf
>
>
>
> On Thu, Aug 6, 2015 at 11:14 AM Schubert, Raphael <
> raphael.schubert at iwm.fraunhofer.de> wrote:
>
>> I use the following script to generate three vtk files containing
>> different dataset types and an additional FIELD.
>>
>> import numpy as np
>> import vtk
>> from vtk.util.numpy_support import numpy_to_vtk
>>
>> for dataset in (vtk.vtkStructuredPoints,
>>                 vtk.vtkRectilinearGrid,
>>                 vtk.vtkPolyData):
>>
>>     vtkData = dataset()
>>
>>     if dataset is vtk.vtkStructuredPoints:
>>         vtkWriter = vtk.vtkStructuredPointsWriter()
>>
>>         vtkData.SetOrigin(0.0, 0.0, 0.0)
>>         vtkData.SetSpacing(1.0, 1.0, 1.0)
>>         vtkData.SetExtent(0, 1, 0, 1, 0, 1)
>>
>>     elif dataset is vtk.vtkPolyData:
>>         vtkWriter = vtk.vtkPolyDataWriter()
>>
>>         vtkPoints = vtk.vtkPoints()
>>         vtkPoints.SetData(numpy_to_vtk(np.asarray(
>>             [[0.0, 0.0, 0.0],
>>              [1.0, 0.0, 0.0],
>>              [0.0, 1.0, 0.0],
>>              [1.0, 1.0, 0.0],
>>              [0.0, 0.0, 1.0],
>>              [1.0, 0.0, 1.0],
>>              [0.0, 1.0, 1.0],
>>              [1.0, 1.0, 1.0]])))
>>         vtkData.SetPoints(vtkPoints)
>>
>>     elif dataset is vtk.vtkRectilinearGrid:
>>         vtkWriter = vtk.vtkRectilinearGridWriter()
>>
>>         vtkData.SetDimensions(2,2,2)
>>         vtkData.SetXCoordinates(numpy_to_vtk(np.asarray([0.0, 1.0])))
>>         vtkData.SetYCoordinates(numpy_to_vtk(np.asarray([0.0, 1.0])))
>>         vtkData.SetZCoordinates(numpy_to_vtk(np.asarray([0.0, 1.0])))
>>
>>     # file scope definition of Pi
>>     vtkArray = numpy_to_vtk(np.asarray(3.141).reshape(1,1),deep=1)
>>     vtkArray.SetName("Pi")
>>     vtkData.GetFieldData().AddArray(vtkArray)
>>
>>     vtkWriter.SetFileName(str(dataset) + ".vtk")
>>     vtkWriter.SetHeader("")
>>     vtkWriter.SetFileTypeToASCII()
>>
>>     vtkWriter.SetInput(vtkData)
>>     vtkWriter.Write()
>>
>> /endscript
>>
>> The files generated from this are
>> # vtk DataFile Version 3.0
>>
>> ASCII
>> DATASET POLYDATA
>> FIELD FieldData 1
>> Pi 1 1 double
>> 3.141
>> POINTS 8 double
>> 0 0 0 1 0 0 0 1 0
>> 1 1 0 0 0 1 1 0 1
>> 0 1 1 1 1 1
>>
>> # vtk DataFile Version 3.0
>>
>> ASCII
>> DATASET RECTILINEAR_GRID
>> FIELD FieldData 1
>> Pi 1 1 double
>> 3.141
>> DIMENSIONS 2 2 2
>> X_COORDINATES 2 double
>> 0 1
>> Y_COORDINATES 2 double
>> 0 1
>> Z_COORDINATES 2 double
>> 0 1
>>
>> # vtk DataFile Version 3.0
>>
>> ASCII
>> DATASET STRUCTURED_POINTS
>> FIELD FieldData 1
>> Pi 1 1 double
>> 3.141
>> DIMENSIONS 2 2 2
>> SPACING 1 1 1
>> ORIGIN 0 0 0
>>
>> Note the FIELD preceding the dataset details. All files can be read back
>> into python without problems, but when trying to view each file in using
>> Paraview 4.3.1, things get interesting:
>>
>> - POLYDATA works.
>> - RECTILINEAR_GRID produces an error (which, btw, contains a typo),
>> refuses to render anything but displays everything correctly in the
>> Information tab.
>>
>> ERROR: In
>> /home/kitware/Dashboards/buildbot/paraview-debian4dash-linux-shared-release_qt4_superbuild/source-paraview/VTK/IO/Parallel/vtkPDataSetReader.cxx,
>> line 701
>> vtkPDataSetReader (0x8874010): Expecting 'DIMENSIONS' insted of: FIELD
>>
>> - STRUCTURED_POINTS does not produce any errors, still refuses to render
>> but displays everything correctly in the Information tab.
>>
>> If I now (manually) put the FIELDS definition after the dataset details,
>> everything works fine.
>>
>> Is this  problem with Paraview, or am I doing something with the vtk
>> format that should not be possible at all? I got the idea from
>> http://www.visitusers.org/index.php?title=Time_and_Cycle_in_VTK_files.
>>
>> Thanks
>> Raphael
>>
>> Software versions:
>>
>> Paraview 4.3.1 Linux 64bit
>>
>> Python 2.7.8 |Anaconda 2.1.0 (64-bit)| (default, Aug 21 2014, 18:22:21)
>> [GCC 4.4.7 20120313 (Red Hat 4.4.7-1)] on linux2
>>
>> vtk.vtkVersion().GetVTKVersion()
>> '5.10.1'
>>
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