[Paraview] Problem when loading parallel data (SOS and XDMF)

Jerry Clarke clarke at arl.army.mil
Wed Jul 30 11:15:04 EDT 2008 

Renato,

I think it is a bug .... If the Collection Grid does not have
a "Name" nothing is read. Just give your Collection Grid a Name
and it should work.

Here's an example that works :

Spatial.xmf :::
<?xml version="1.0" ?>
<Xdmf xmlns:xi="http://www.w3.org/2001/XInclude" Version="2.0">
     <Domain>
     <Grid Name="MyCollection" GridType="Collection" 
CollectionType="Spatial" >
         <xi:include href="cube1.xmf" 
xpointer="xpointer(//Xdmf/Domain/Grid)" />
         <xi:include href="cube2.xmf" 
xpointer="xpointer(//Xdmf/Domain/Grid)" />
     </Grid>
     </Domain>
</Xdmf>
---------------------------------------------------
cube1.xmf :::
<?xml version="1.0" ?>
<Xdmf>
    <Domain>
       <Grid Name="one">
          <Topology  Type="3DCORECTMESH" Dimensions="2 2 2"/>
          <Geometry Type="ORIGIN_DXDYDZ">
             <DataItem DataType="Float" Dimensions="3" Format="XML">
                0.0 0.0 0.0
             </DataItem>
             <DataItem DataType="Float" Dimensions="3" Format="XML">
                1.0 1.0 1.0
             </DataItem>
          </Geometry>
       </Grid>
    </Domain>
</Xdmf>
--------------------------------------------------------
cube2.xmf :::
<?xml version="1.0" ?>
<Xdmf>
    <Domain>
       <Grid Name="two">
          <Topology  Type="3DCORECTMESH" Dimensions="2 2 2"/>
          <Geometry Type="ORIGIN_DXDYDZ">
             <DataItem DataType="Float" Dimensions="3" Format="XML">
                5.0 0.0 0.0
             </DataItem>
             <DataItem DataType="Float" Dimensions="3" Format="XML">
                1.0 1.0 1.0
             </DataItem>
          </Geometry>
       </Grid>
    </Domain>
</Xdmf>

Renato N. Elias wrote:
> 
> So, I suppose it's not possible to load parallel xdmf files in PV yet  :o(
> 
> Renato.
> 
> Jerry Clarke wrote:
>> I think what is happening is that the Xinclude/XPointer interfaces are 
>> more particular. Technically, if the
>> XML specifies a DTD it should be there, but it had been ignored in the
>> past. So I guess we're all doing it wrong, technically.
>>
>> Jerry
>>
>> Renato N. Elias wrote:
>>>
>>> Ok, I commented all <!DOCTYPE Xdmf SYSTEM "Xdmf.dtd" []> clauses and 
>>> now PV does not complain about DTD anymore but nothing is loaded :o(
>>>
>>> Am I doing something wrong? I can load the domain pieces individually 
>>> which make me believe that the XDMF files are correct.
>>>
>>> Renato.
>>>
>>>
>>> Jerry Clarke wrote:
>>>> Renato,
>>>>
>>>> I think I've seen this before. The XML parser is trying to validate
>>>> the XML.
>>>>
>>>> As a test, try removing "<!DOCTYPE Xdmf SYSTEM "Xdmf.dtd" []>" from the
>>>> xml file or creating an empty Xdmf.dtd (I'll dig up the actual DTD).
>>>>
>>>> Jerry
>>>>
>>>>
>>>> Renato N. Elias wrote:
>>>>>
>>>>> Oops, my mistake Berk. It's not the first time I mismatch 
>>>>> versions... (it's easy to get confused when you have 6 different PV 
>>>>> versions installed).
>>>>>
>>>>> Ok, now I can load SOS but it seems that time support is not 
>>>>> available yet (besides some important parallel filters such as 
>>>>> "clean to grid"). Is it correct?!
>>>>>
>>>>> For the XDMF file I've had no success. I've tried to load the 
>>>>> following file:
>>>>>
>>>>> <?xml version="1.0" ?>
>>>>> <!DOCTYPE Xdmf SYSTEM "Xdmf.dtd" []>
>>>>> <Xdmf xmlns:xi="http://www.w3.org/2001/XInclude" Version="2.0">
>>>>>   <Domain>
>>>>>      <Grid GridType="Collection" CollectionType="Spatial">
>>>>>         <xi:include href="cav_4_000.xmf" 
>>>>> xpointer="xpointer(//Xdmf/Domain/Grid)" />
>>>>>         <xi:include href="cav_4_001.xmf" 
>>>>> xpointer="xpointer(//Xdmf/Domain/Grid)" />
>>>>>         <xi:include href="cav_4_002.xmf" 
>>>>> xpointer="xpointer(//Xdmf/Domain/Grid)" />
>>>>>         <xi:include href="cav_4_003.xmf" 
>>>>> xpointer="xpointer(//Xdmf/Domain/Grid)" />
>>>>>      </Grid>
>>>>>   </Domain>
>>>>> </Xdmf>
>>>>>
>>>>> Started PV client and launched PV server with the command (mpiexec 
>>>>> -n 4 pvserver -rc -ch=localhost) and got the following error:
>>>>>
>>>>> file:///C%3A/users/Renato/svn/EdgeCFD-HEAD/bin/cav31/P2P/cav_4_000.xmf:2: 
>>>>> I/O wa
>>>>> rning : failed to load external entity 
>>>>> "file:///C%3A/users/Renato/svn/EdgeCFD-HEAD/bin/cav31/P2P/Xdmf.dtd"
>>>>> <!DOCTYPE Xdmf SYSTEM "Xdmf.dtd" []>
>>>>>                                    ^
>>>>> file:///C%3A/users/Renato/svn/EdgeCFD-HEAD/bin/cav31/P2P/cav_4_001.xmf:2: 
>>>>> I/O wa
>>>>> rning : failed to load external entity 
>>>>> "file:///C%3A/users/Renato/svn/EdgeCFD-HEAD/bin/cav31/P2P/Xdmf.dtd"
>>>>> <!DOCTYPE Xdmf SYSTEM "Xdmf.dtd" []>
>>>>>                                    ^
>>>>> file:///C%3A/users/Renato/svn/EdgeCFD-HEAD/bin/cav31/P2P/cav_4_002.xmf:2: 
>>>>> I/O wa
>>>>> rning : failed to load external entity 
>>>>> "file:///C%3A/users/Renato/svn/EdgeCFD-HEAD/bin/cav31/P2P/Xdmf.dtd"
>>>>> <!DOCTYPE Xdmf SYSTEM "Xdmf.dtd" []>
>>>>>                                    ^
>>>>> file:///C%3A/users/Renato/svn/EdgeCFD-HEAD/bin/cav31/P2P/cav_4_003.xmf:2: 
>>>>> I/O wa
>>>>> rning : failed to load external entity 
>>>>> "file:///C%3A/users/Renato/svn/EdgeCFD-HEAD/bin/cav31/P2P/Xdmf.dtd"
>>>>> <!DOCTYPE Xdmf SYSTEM "Xdmf.dtd" []>
>>>>>                                    ^
>>>>> file:///C%3A/users/Renato/svn/EdgeCFD-HEAD/bin/cav31/P2P/cav_4_000.xmf:2: 
>>>>> I/O wa
>>>>> rning : failed to load external entity 
>>>>> "file:///C%3A/users/Renato/svn/EdgeCFD-HEAD/bin/cav31/P2P/Xdmf.dtd"
>>>>> <!DOCTYPE Xdmf SYSTEM "Xdmf.dtd" []>
>>>>>
>>>>> ...
>>>>>
>>>>> I also tried substituting the "xi:include..." statements by the 
>>>>> corresponding XML extended portions. The model was not loaded, but 
>>>>> the error message disappeared ;o)
>>>>>
>>>>> Regards
>>>>>
>>>>> Renato.
>>>>>
>>>>>
>>>>> Berk Geveci wrote:
>>>>>> I am pretty sure this is due to client/server version 
>>>>>> incompatibility.
>>>>>>
>>>>>> -berk
>>>>>>
>>>>>> On Tue, Jul 29, 2008 at 3:42 PM, Renato N. Elias 
>>>>>> <rnelias at nacad.ufrj.br> wrote:
>>>>>>  
>>>>>>> I'm trying to load XDMF and Ensight SOS parallel data in PV3 
>>>>>>> (CVS's HEAD)
>>>>>>> which is returning me the following error message:
>>>>>>>
>>>>>>> ERROR: In
>>>>>>> C:\berk\ReleaseBuilds\ParaView3\Servers\Common\vtkPVDataInformation.cxx, 
>>>>>>>
>>>>>>> line 991
>>>>>>> vtkPVDataInformation (062A6ED8): Error parsing bounds.
>>>>>>> (...It's funny read error messages pointing to Berk's paths :oD  )
>>>>>>>
>>>>>>> The same problem occur with SOS and XDMF as well. Any hint?
>>>>>>>
>>>>>>> Regards
>>>>>>>
>>>>>>> Renato.
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> _______________________________________________
>>>>>>> ParaView mailing list
>>>>>>> ParaView at paraview.org
>>>>>>> http://www.paraview.org/mailman/listinfo/paraview
>>>>>>>
>>>>>>>     
>>>>>>
>>>>>>   
>>>>>
>>>>> _______________________________________________
>>>>> ParaView mailing list
>>>>> ParaView at paraview.org
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>>>>
>>>
>>
>

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