I tried reading them with XDMF 3 reader and it works fine. Thank you for the suggestions.
Nikos On Mon, Nov 20, 2017 at 2:14 PM, David E DeMarle <dave.dema...@kitware.com> wrote: > It might be that the reader doesn't like or want that both of your times > are 0.0. > ... > <Time TimeType="Single" Value="0.0"/> > ... > <Time TimeType="Single" Value="0.0"/> > ... > but your third case doesn't fit that hypothesis. > > Otherwise your file looks ok at first glance. I'ld have to debug the > reader on your data to figure out what is going wrong. > > David E DeMarle > Kitware, Inc. > Principal Engineer > 21 Corporate Drive > <https://maps.google.com/?q=21+Corporate+Drive+Clifton+Park,+NY+12065&entry=gmail&source=g> > Clifton Park, NY 12065 > <https://maps.google.com/?q=21+Corporate+Drive+Clifton+Park,+NY+12065&entry=gmail&source=g> > -8662 > Phone: 518-881-4909 <(518)%20881-4909> > > On Sun, Nov 12, 2017 at 11:15 PM, Joachim Pouderoux < > joachim.pouder...@kitware.com> wrote: > >> Nikos, >> >> It looks like you are using the Xdmf2 based reader. >> Did you give a chance to the one based on Xdmf3? >> What version of ParaView are you using? >> Can you provide a full dataset we could use to reproduce the issue? >> >> Best, >> >> >> *Joachim Pouderoux*, PhD >> >> *Technical Expert - Scientific Computing Team* >> *Kitware SAS <http://www.kitware.fr>* >> >> >> 2017-11-11 19:31 GMT+01:00 Nikolaos Beratlis <nikos.berat...@gmail.com>: >> >>> Hi, >>> >>> I have a cartesian structured grid made of two sub-domains and a two >>> snap shots in a time that I would like to read in Paraview. The data and >>> grid files are stored in HDF5 file and I use a XDMF file to read them in a >>> Paraview. The XDMF files looks like this: >>> >>> <?xml version="1.0" ?> >>> <!DOCTYPE Xdmf SYSTEM "Xdmf.dtd" []> >>> <Xdmf Version="2.2"> >>> <Domain Name="Bump"> >>> <Grid Name="TimeSeries" GridType="Collection" CollectionType="Temporal"> >>> >>> <Grid Name="0" GridType="Collection" CollectionType="Spatial"> >>> <Time TimeType="Single" Value="0.0"/> >>> >>> <Grid GridType="Uniform" Name="GridZone0001"> >>> <Topology TopologyType="3DRectMesh" Dimensions=" 2 202 267"/> >>> <Geometry GeometryType="VXVYVZ"> >>> <DataItem Dimensions=" 267" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/XC-zone0001 >>> </DataItem> >>> <DataItem Dimensions=" 202" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/YC >>> </DataItem> >>> <DataItem Dimensions=" 2" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/ZC-zone0001 >>> </DataItem> >>> </Geometry> >>> <Attribute Name="Q" AttributeType="Scalar" Center="Node"> >>> <DataItem Dimensions=" 2 202 267" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../Q_VPreg.h5sp.0001:/zone0001 >>> </DataItem> >>> </Attribute> >>> </Grid> >>> >>> <Grid GridType="Uniform" Name="GridZone0002"> >>> <Topology TopologyType="3DRectMesh" Dimensions=" 2 202 268"/> >>> <Geometry GeometryType="VXVYVZ"> >>> <DataItem Dimensions=" 268" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/XC-zone0002 >>> </DataItem> >>> <DataItem Dimensions=" 202" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/YC >>> </DataItem> >>> <DataItem Dimensions=" 2" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/ZC-zone0002 >>> </DataItem> >>> </Geometry> >>> <Attribute Name="Q" AttributeType="Scalar" Center="Node"> >>> <DataItem Dimensions=" 2 202 268" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../Q_VPreg.h5sp.0001:/zone0002 >>> </DataItem> >>> </Attribute> >>> </Grid> >>> </Grid> >>> >>> <Grid Name="0" GridType="Collection" CollectionType="Spatial"> >>> <Time TimeType="Single" Value="0.0"/> >>> >>> <Grid GridType="Uniform" Name="GridZone0001"> >>> <Topology TopologyType="3DRectMesh" Dimensions=" 2 202 267"/> >>> <Geometry GeometryType="VXVYVZ"> >>> <DataItem Dimensions=" 267" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/XC-zone0001 >>> </DataItem> >>> <DataItem Dimensions=" 202" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/YC >>> </DataItem> >>> <DataItem Dimensions=" 2" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/ZC-zone0001 >>> </DataItem> >>> </Geometry> >>> <Attribute Name="Q" AttributeType="Scalar" Center="Node"> >>> <DataItem Dimensions=" 2 202 267" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../Q_VPreg.h5sp.0001:/zone0001 >>> </DataItem> >>> </Attribute> >>> </Grid> >>> >>> <Grid GridType="Uniform" Name="GridZone0002"> >>> <Topology TopologyType="3DRectMesh" Dimensions=" 2 202 268"/> >>> <Geometry GeometryType="VXVYVZ"> >>> <DataItem Dimensions=" 268" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/XC-zone0002 >>> </DataItem> >>> <DataItem Dimensions=" 202" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/YC >>> </DataItem> >>> <DataItem Dimensions=" 2" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/ZC-zone0002 >>> </DataItem> >>> </Geometry> >>> <Attribute Name="Q" AttributeType="Scalar" Center="Node"> >>> <DataItem Dimensions=" 2 202 268" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../Q_VPreg.h5sp.0002:/zone0002 >>> </DataItem> >>> </Attribute> >>> </Grid> >>> >>> </Grid> >>> >>> </Grid> >>> </Domain> >>> </Xdmf> >>> >>> The file is read in Paraview. When I advance in to the second instant in >>> time I get the following error: >>> >>> Failed to read attribute data. >>> >>> Paraview shows data from the first subset (zone0001), it can't read the >>> data from the second subset (zone0002). >>> >>> >>> When I read only on instant in time like this: >>> >>> <?xml version="1.0" ?> >>> <!DOCTYPE Xdmf SYSTEM "Xdmf.dtd" []> >>> <Xdmf Version="2.2"> >>> <Domain Name="Bump"> >>> <Grid Name="TimeSeries" GridType="Collection" CollectionType="Temporal"> >>> >>> <Grid Name="0" GridType="Collection" CollectionType="Spatial"> >>> <Time TimeType="Single" Value="0.0"/> >>> >>> <Grid GridType="Uniform" Name="GridZone0001"> >>> <Topology TopologyType="3DRectMesh" Dimensions=" 2 202 267"/> >>> <Geometry GeometryType="VXVYVZ"> >>> <DataItem Dimensions=" 267" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/XC-zone0001 >>> </DataItem> >>> <DataItem Dimensions=" 202" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/YC >>> </DataItem> >>> <DataItem Dimensions=" 2" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/ZC-zone0001 >>> </DataItem> >>> </Geometry> >>> <Attribute Name="Q" AttributeType="Scalar" Center="Node"> >>> <DataItem Dimensions=" 2 202 267" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../Q_VPreg.h5sp.0001:/zone0001 >>> </DataItem> >>> </Attribute> >>> </Grid> >>> >>> <Grid GridType="Uniform" Name="GridZone0002"> >>> <Topology TopologyType="3DRectMesh" Dimensions=" 2 202 268"/> >>> <Geometry GeometryType="VXVYVZ"> >>> <DataItem Dimensions=" 268" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/XC-zone0002 >>> </DataItem> >>> <DataItem Dimensions=" 202" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/YC >>> </DataItem> >>> <DataItem Dimensions=" 2" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/ZC-zone0002 >>> </DataItem> >>> </Geometry> >>> <Attribute Name="Q" AttributeType="Scalar" Center="Node"> >>> <DataItem Dimensions=" 2 202 268" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../Q_VPreg.h5sp.0001:/zone0002 >>> </DataItem> >>> </Attribute> >>> </Grid> >>> </Grid> >>> >>> </Grid> >>> </Domain> >>> </Xdmf> >>> >>> the file is read successfully and no errors show up. >>> >>> Also when I read two time instants but with only one subset (zone0001) >>> Paraview doesn't throw any errors. >>> >>> <?xml version="1.0" ?> >>> <!DOCTYPE Xdmf SYSTEM "Xdmf.dtd" []> >>> <Xdmf Version="2.2"> >>> <Domain Name="Bump"> >>> <Grid Name="TimeSeries" GridType="Collection" CollectionType="Temporal"> >>> >>> <Grid Name="0" GridType="Collection" CollectionType="Spatial"> >>> <Time TimeType="Single" Value="0.0"/> >>> >>> <Grid GridType="Uniform" Name="GridZone0001"> >>> <Topology TopologyType="3DRectMesh" Dimensions=" 2 202 267"/> >>> <Geometry GeometryType="VXVYVZ"> >>> <DataItem Dimensions=" 267" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/XC-zone0001 >>> </DataItem> >>> <DataItem Dimensions=" 202" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/YC >>> </DataItem> >>> <DataItem Dimensions=" 2" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/ZC-zone0001 >>> </DataItem> >>> </Geometry> >>> <Attribute Name="Q" AttributeType="Scalar" Center="Node"> >>> <DataItem Dimensions=" 2 202 267" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../Q_VPreg.h5sp.0001:/zone0001 >>> </DataItem> >>> </Attribute> >>> </Grid> >>> >>> <Grid Name="0" GridType="Collection" CollectionType="Spatial"> >>> <Time TimeType="Single" Value="0.0"/> >>> >>> <Grid GridType="Uniform" Name="GridZone0001"> >>> <Topology TopologyType="3DRectMesh" Dimensions=" 2 202 267"/> >>> <Geometry GeometryType="VXVYVZ"> >>> <DataItem Dimensions=" 267" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/XC-zone0001 >>> </DataItem> >>> <DataItem Dimensions=" 202" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/YC >>> </DataItem> >>> <DataItem Dimensions=" 2" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../grid_VPreg_vxvyvz.h5sp:/ZC-zone0001 >>> </DataItem> >>> </Geometry> >>> <Attribute Name="Q" AttributeType="Scalar" Center="Node"> >>> <DataItem Dimensions=" 2 202 267" NumberType="Float" Precision="4" >>> Format="HDF"> >>> ../Q_VPreg.h5sp.0001:/zone0001 >>> </DataItem> >>> </Attribute> >>> </Grid> >>> >>> </Grid> >>> >>> </Grid> >>> </Domain> >>> </Xdmf> >>> >>> >>> Does anyone see the problem in the code? >>> >>> Kind regards, >>> >>> Nikos >>> >>> >>> _______________________________________________ >>> Powered by www.kitware.com >>> >>> Visit other Kitware open-source projects at >>> http://www.kitware.com/opensource/opensource.html >>> >>> Please keep messages on-topic and check the ParaView Wiki at: >>> http://paraview.org/Wiki/ParaView >>> >>> Search the list archives at: http://markmail.org/search/?q=ParaView >>> >>> Follow this link to subscribe/unsubscribe: >>> http://public.kitware.com/mailman/listinfo/paraview >>> >>> >> >> _______________________________________________ >> Powered by www.kitware.com >> >> Visit other Kitware open-source projects at >> http://www.kitware.com/opensource/opensource.html >> >> Please keep messages on-topic and check the ParaView Wiki at: >> http://paraview.org/Wiki/ParaView >> >> Search the list archives at: http://markmail.org/search/?q=ParaView >> >> Follow this link to subscribe/unsubscribe: >> http://public.kitware.com/mailman/listinfo/paraview >> >> >
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