# Multiblock domain temporal (XDMF/HDF5) animation error

**URL:** https://discourse.paraview.org/t/multiblock-domain-temporal-xdmf-hdf5-animation-error/2047
**Category:** ParaView Support
**Created:** [June 14, 2019, 2:47pm UTC](https://discourse.paraview.org/t/multiblock-domain-temporal-xdmf-hdf5-animation-error/2047 "2019-06-14T14:47:34Z")
**Posts on this page:** 1
**Page:** 1

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### Author: ![Jordi](https://discourse.paraview.org/user_avatar/discourse.paraview.org/jordi/32/1555_2.png) [@Jordi](https://discourse.paraview.org/u/Jordi)
#### Post date: [June 14, 2019, 2:47pm UTC](https://discourse.paraview.org/t/multiblock-domain-temporal-xdmf-hdf5-animation-error/2047/1 "2019-06-14T14:47:34Z")

</div>

Dear all,

I am trying to create an animation using temporal data from a CFD simulation which is stored in a HDF5 file (created using version 1.10.4) and I am getting the following error when I try to animate a contour:

```
HDF5-DIAG: Error detected in HDF5 (1.8.13) thread 0:
 H5Dread(): selection+offset not within extent
         major: Dataspace
         minor: Out of range
 vtkXdmfReader (0x82993a0): Failed to read attribute data

```

The steps that lead to this error are (here I am using Paraview 5.6, but have also tested versions 5.5.2 and 5.4.1):

1. Load an HDF5 with **multiple blocks of different sizes** using the XDMF(2) reader. The HDF5 contains point data. Further details about the hdf5 structure are provided below. The multiple sizes is critical here. _ **When all blocks have the same size, then no error occurs.** _
2. Create a Contour (for this case Paraview defaults to the ‘u’ field with a default value. This is not critical to showcase the problem).
3. Clicking the play/animate button (right facing green triangle button) starts to animate but produces the above error while trying to load any further step.

_Data that I am loading:_

- tsig.h5 HDF5 with 5 temporal steps and 4 spatial blocks. Of the spatial blocks, these have 2 different sizes, that is, blocks 1 and 2 have a size of (50,30,33) and blocks 3 and for have a size of (75,27,33). In this HDF5 file there are only stored point data values, no geometry information is here stored. (External link due to size [https://cloudstore.zih.tu-dresden.de/index.php/s/HN3GO0gJjphv7s7](https://cloudstore.zih.tu-dresden.de/index.php/s/HN3GO0gJjphv7s7) (23MB) )
- [tsig-grid.h5](https://discourse.paraview.org/uploads/default/original/2X/7/741490e9daea1ae02f6c2f23540064960c359ea4.h5) (2.7 MB) HDF5 with geometric information, namely XYZ coordinates.
- [tsig.xdmf](https://discourse.paraview.org/uploads/default/original/2X/f/fc68512761347e622cc099a6852c96b886869037.xdmf) (29.0 KB) XDMF file loaded into paraview. The structure is as follows:  
There is a temporal collection (top group) and each (time)step consists of a spatial collection. Grid topology is a 3DSMesh and coordinates are stored in XYZ format.

Note that, if in step (2) **instead** of _creating a contour,_ I just _choose as representation “Surface”_ and then click play (step (3) ), the animation is performed correctly. Thus, I seems that the data is loaded correctly (or at least the surface data).

A further test that I performed was to create XDMFs which grouped blocks of the same size, [tsig-blocks1\_2.xdmf](https://discourse.paraview.org/uploads/default/original/2X/9/981bf22eacb430d2b2a8c0ba7eaaf16978e6c342.xdmf) (15.0 KB) and [tsig-blocks3\_4.xdmf](https://discourse.paraview.org/uploads/default/original/2X/f/ff6730875857bd50c3757fa20fafcb0a526945f8.xdmf) (15.0 KB).

When I open these two xdmf individually and apply a filter to each of them, then the animation works. However, if I apply a “Group Datasets” filter and then I apply a “Contour” filter, the error appears again. Note that only the “xdmf” files changed, not the “h5” files.

Analogoursly, if I apply a “Extract Subset” filter and select an extend smaller than the size of the smallest block and then apply a contour filter, the animation works.

A further comment, although I am always referring to using the “Contour” filter. I tried to used the “Calculator” filter and I am getting the same error. Thus, I do not think that it is strictly a problem with the “Contour” filter.

On a final note, I did notice that the error thrown by Paraview stated HDF5 version 1.8 and I stated that I had used version 1.10 (I can also add that I created the h5 file using h5py with the hdf5 library compiled for parallel usage). I do not believe this version difference to be the source of the problem because, as stated, I can load the blocks correctly and animate them if I do not use any filter.

Having stated this, I believe there may be a bug/error in how the blocks sizes are transferred to the filters _when an animation is performed_.  
I would like to ask if someone else is experiencing or has experienced a similar problem.

Additionally, although I think my xdmf/h5 set-up is correct, if you spot any issues with these files, I am more than happy to learn about them.

Thank you for your help.