How many processors are you attempting to run on? Is it possible to try a newer version of ParaView? The oldest that I have on my system is 4.4.0.
On Wed, Jul 12, 2017 at 3:33 PM, Jake Gerard <[email protected]> wrote: > Andy, > > I wasn't setting up the server or anything. I have just been connecting to > one of my preset configurations. The velocity data shows up fine but for > some reason when there is more than one processor working on the > visualization Paraview can't read it. > > Here is the error: > > ERROR: In /p/home/angel/PV/4.3.1/Build_4.3.1_osmesa/paraview/src/ > paraview/VTK/IO/Xdmf2/vtkXdmfHeavyData.cxx, line 1128 > > vtkXdmfReader (0x104ae20): Failed to read attribute data > > > The setup has just been clicking the connect icon, the system, and > choosing the number of nodes and processors per node. If it helps I'm on > Paraview 4.3.1 64-bit. Sorry I am pretty new to all of this stuff. Slowly > getting the hang of things. > > > Jake > > On Wed, Jul 12, 2017 at 1:48 PM, Andy Smith <[email protected]> wrote: > >> Jake, >> >> If I start up the remote server in parallel using something like: >> mpiexec.hydra -n 8 pvserver -sp=11111 >> >> and then connect from my workstation I am able to read an XDMF file like >> the one you posted using ParaView 5.4.0. Can you post how you are starting >> your server and the exact error that you receive? >> >> I've attached the .xmf file and a Python script to generate dummy data >> in a .h5 file that corresponds to your data structure. >> >> Note that I am using the xdmf2 reader for my testing. The xdmf3 reader >> fails to read the file (even locally in serial) with the following error: >> >> Type not one of accepted values: INTEGER in XdmfArrayType::New >> terminate called after throwing an instance of 'XdmfError' >> what(): Type not one of accepted values: INTEGER in XdmfArrayType::New >> Aborted >> >> >> -Andy >> >> On Wed, Jul 12, 2017 at 1:31 PM, Jake Gerard <[email protected]> >> wrote: >> >>> Alessandro, >>> >>> Paraview says that it failed to read the attribute data. I just mean >>> that when I connect Paraview to the machine, the pressure data does not >>> load if I select more than 1 node or process/node. >>> >>> Jake >>> >>> On Wed, Jul 12, 2017 at 11:00 AM, Alessandro De Maio <[email protected] >>> > wrote: >>> >>>> Hi Jake, >>>> when you talk about running in multi-processing are you talking >>>> about the solver that produces the data or about running Paraview in >>>> mpi-mode? >>>> Which is the error you get? >>>> >>>> Alessandro >>>> >>>> On Wed, Jul 12, 2017 at 5:28 PM, Jake Gerard <[email protected]> >>>> wrote: >>>> >>>>> Any help here would be greatly appreciated. >>>>> >>>>> On Tue, Jul 11, 2017 at 2:37 PM, Jake Gerard <[email protected]> >>>>> wrote: >>>>> >>>>>> Good Afternoon, >>>>>> >>>>>> I have been moving to an HDF5/XDMF system for analyzing big data from >>>>>> a computational fluid model. I finally got all the basic components >>>>>> working >>>>>> on my local machine but have run into problems when trying to run on an >>>>>> HPC >>>>>> system. Here is the XDMF file: >>>>>> >>>>>> <?xml version="1.0" ?> >>>>>> <!DOCTYPE Xdmf SYSTEM "Xdmf.dtd" []> >>>>>> <Xdmf xmlns:xi="http://www.w3.org/2003/XInclude"; Version="2.1"> >>>>>> <Domain> >>>>>> <Grid Name="my_Grid" GridType="Uniform"> >>>>>> <Topology TopologyType="3DCoRectMesh" Dimensions="91 19 19"> >>>>>> </Topology> >>>>>> <Geometry GeometryType="Origin_DxDyDz"> >>>>>> <DataItem Dimensions="3" NumberType="Integer" Format="XML"> >>>>>> 0 0 0 >>>>>> </DataItem> >>>>>> <DataItem Dimensions="3" NumberType="Integer" Format="XML"> >>>>>> 1 1 1 >>>>>> </DataItem> >>>>>> </Geometry> >>>>>> <Attribute Name="pressure" AttributeType="Scalar" Center="Node"> >>>>>> <DataItem Dimensions="91 19 19" NumberType="Float" >>>>>> Format="HDF"> >>>>>> out.h5:/pres_group/presmag >>>>>> </DataItem> >>>>>> </Attribute> >>>>>> <Attribute Name="velocity" AttributeType="Vector" Center="Node"> >>>>>> <DataItem ItemType="Function" Function="JOIN($0, $1, $2)" >>>>>> Dimensions="91 19 19 3"> >>>>>> <DataItem Dimensions="91 19 19" NumberType="Float" >>>>>> Format="HDF"> >>>>>> out.h5:/velo_group/x_velo >>>>>> </DataItem> >>>>>> <DataItem Dimensions="91 19 19" NumberType="Float" >>>>>> Format="HDF"> >>>>>> out.h5:/velo_group/y_velo >>>>>> </DataItem> >>>>>> <DataItem Dimensions="91 19 19" NumberType="Float" >>>>>> Format="HDF"> >>>>>> out.h5:/velo_group/z_velo >>>>>> </DataItem> >>>>>> </DataItem> >>>>>> </Attribute> >>>>>> </Grid> >>>>>> </Domain> >>>>>> </Xdmf> >>>>>> >>>>>> This has worked properly on my machine. However, when I was getting >>>>>> an error of failing to read the pressure data when I tried this on >>>>>> multiple >>>>>> processes. The vector data for velocity was fine, but the pressure data >>>>>> could not be read. I narrowed the problem down to something regarding the >>>>>> number of processes because the pressure data worked fine on the HPC >>>>>> machine if I only ran it on 1 process. Is there anything that sticks out >>>>>> that could be causing this problem? For instance, is there a different >>>>>> format for these files when they are run on multiple processes? >>>>>> >>>>>> Respectfully, >>>>>> >>>>>> Jacob Gerard >>>>>> >>>>> >>>>> >>>>> _______________________________________________ >>>>> 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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