[vtkusers] Fwd: XDMF and hyperslabs

Tue Aug 25 23:38:49 EDT 2015

Hi Victor,

ARL and Kitware are the primary developers of Xdmf, but everyone is invited
to contribute  to the project.

Yes xdmf3 has not yet replaced xdmf2 within ParaView. The binaries for the
next ParaView release (the release candidate should have it) will have both
turned on. Over the next few releases xdmf2 will be deprecated and then
removed from ParaView.

xdmf itself can be built apart from VTK. On the xdmf wiki there are links
to the repositories that you can check out to build it standalone. What you
see in VTK/Thirdparty is a clone of parts of that standalone library. The
VTK interface to it is in VTK/IO.

hth

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

On Wed, Aug 19, 2015 at 12:03 PM, victor sv <victorsv at gmail.com> wrote:

> Thanks Dan,
>
> it was an error in the XDMF file and it seems that is a valid format for
> Xdmf2. I comment the error between lines below.
>
> In a post that I sent to XDMF mailing list they say me that Xdmf3 is not
> by default in Paraview and I have to compile the sources with the correct
> options enabling Xdmf3.
>
> My problem with the versions is that the XDMF documentation and library
> versions is not "synchronized". It seems that Kitware is who is developing
> Xdmf3, but there isn't an stand-alone library, it only exists inside VTK
> project. I'm right?
>
> Thanks again,
> Víctor.
>
>
> 2015-08-18 4:09 GMT+02:00 Dan Lipsa <dan.lipsa at kitware.com>:
>
>> There are (advanced) options to enable either xdmf2 or xdmf3 in VTK.
>>
>> On Fri, Aug 14, 2015 at 6:27 AM, victor sv <victorsv at gmail.com> wrote:
>>
>>>
>>> ---------- Forwarded message ----------
>>> From: victor sv <victorsv at gmail.com>
>>> Date: 2015-08-14 12:25 GMT+02:00
>>> Subject: XDMF and hyperslabs
>>> To: vtkdev <vtk-developers at vtk.org>, vtk-users at vtk.org, "
>>> paraview at paraview.org" <paraview at paraview.org>
>>>
>>>
>>> Hello all,
>>>
>>> I'm trying to create and visualize an XDMF/HDF5 file containing a
>>> partitioned mesh using hyperslabs.
>>>
>>> Is this supported by Paraview/VTK ??
>>>
>>> The HDF5 (solution1.h5) looks as follows:
>>>
>>> GROUP "/" {
>>>    GROUP "Grid" {
>>>       DATASET "Connectivities" {
>>>          DATATYPE  H5T_STD_I32BE
>>>          DATASPACE  SIMPLE { ( 18 ) / ( 18 ) }
>>>          DATA {
>>>          (0): 0, 1, 2, 3, 2, 1, 4, 5, 6, 7, 6, 5, 6, 7, 8, 9, 8, 7
>>>          }
>>>       }
>>>       DATASET "Coordinates" {
>>>          DATATYPE  H5T_IEEE_F64BE
>>>          DATASPACE  SIMPLE { ( 20 ) / ( 20 ) }
>>>          DATA {
>>>          (0): 0, 0, 1, 0, 0, 0.5, 1, 0.5, 0, 0.5, 1, 0.5, 0, 1, 1, 1, 0,
>>> 1.5,
>>>          (18): 1, 1.5
>>>          }
>>>       }
>>>       DATASET "Solution" {
>>>          DATATYPE  H5T_IEEE_F64BE
>>>          DATASPACE  SIMPLE { ( 10 ) / ( 10 ) }
>>>          DATA {
>>>          (0): 0, 0, 0, 0, 1, 1, 1, 1, 1, 1
>>>          }
>>>       }
>>>    }
>>> }
>>>
>>> And the XDMF file to represent  a 2-triangle (4 points) piece of the
>>> full mesh is:
>>>
>>> <?xml version="1.0" encoding="utf-8"?>
>>> <Xdmf xmlns:xi="http://www.w3.org/2001/XInclude">
>>>   <Domain>
>>>     <Grid CollectionType="Spatial" GridType="Collection" Name="Mesh">
>>>       <Grid Name="Grid1">
>>>         <Topology Dimensions="6" Type="Triangle">
>>>           <DataItem ItemType="HyperSlab" Dimensions="6" Type="HyperSlab">
>>>
>>
> The problem is here, the correct dimensions are 2 (triangles) and not 6
> (integers)
>
>             <DataItem Dimensions="3 1" Format="XML"> 0 1 6 </DataItem>
>>>             <DataItem DataType="Int" Dimensions="18" Format="HDF"
>>> Precision="4">solution1.h5:Grid/Connectivities</DataItem>
>>>           </DataItem>
>>>         </Topology>
>>>         <Geometry GeometryType="XY">
>>>           <DataItem ItemType="HyperSlab" Dimensions="8" Type="HyperSlab">
>>>             <DataItem Dimensions="3 1" Format="XML"> 0 1 8 </DataItem>
>>>             <DataItem DataType="Float" Dimensions="20" Format="HDF"
>>> Precision="8">solution1.h5:Grid/Coordinates</DataItem>
>>>           </DataItem>
>>>         </Geometry>
>>>       </Grid>
>>>     </Grid>
>>>   </Domain>
>>> </Xdmf>
>>>
>>> I'm trying to use the syntax explained at the XDMF webpage (
>>> http://www.xdmf.org/index.php/XDMF_Model_and_Format ), but I'm feeling
>>> confused about the version of the documentation and current version of XDMF
>>> library included in VTK library.
>>>
>>> Can anyone give me some info about this?
>>> It is XDMFv3 already public ?
>>>
>>>
>>> Thanks in advance,
>>> Víctor.
>>>
>>>
>>>
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>>
>
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>
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>
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>
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