# How to use paraview to open this open source hdf5 file, is the version of the problem?
**URL:** https://discourse.paraview.org/t/how-to-use-paraview-to-open-this-open-source-hdf5-file-is-the-version-of-the-problem/12362
**Category:** ParaView Support
**Created:** [June 22, 2023, 8:01am UTC](https://discourse.paraview.org/t/how-to-use-paraview-to-open-this-open-source-hdf5-file-is-the-version-of-the-problem/12362 "2023-06-22T08:01:35Z")
**Posts on this page:** 5
**Page:** 1
### Author:  [@qinyi\_Zhang](https://discourse.paraview.org/u/qinyi_Zhang)
#### Post date: [June 22, 2023, 8:01am UTC](https://discourse.paraview.org/t/how-to-use-paraview-to-open-this-open-source-hdf5-file-is-the-version-of-the-problem/12362/1 "2023-06-22T08:01:35Z")
I would appreciate your help with the following questions!
I am reproducing an open source project on gihub( [sukjulian/segnn-hemodynamics: Implementation accompanying our FIMH 2023 paper (github.com)](https://github.com/sukjulian/segnn-hemodynamics)) and the author declares to open its hdf5 dataset with paraview. This is a dataset obtained from CFD simulation, when I open it with paraview, the software only gives two readers, i.e. Visit Chombo Reader and Visit Tetrad Reader. theoretically this dataset belongs to Chombo, but I tried both and the software reports errors, among which the chombo The errors are reported as follows:
```auto
ERROR: In C:\glr\builds\paraview\paraview-ci\build\superbuild\paraview\build\Utilities\VisItBridge\databases\vtkVisItChomboReader.cxx, line 135
vtkVisItChomboReader (000002E30FBB3ED0): The selected database type was not correct for the given file. The message from the database was Cannot be a Chombo file, does not have Chombo_global
ERROR: In C:\glr\builds\paraview\paraview-ci\build\superbuild\paraview\src\VTK\Common\ExecutionModel\vtkExecutive.cxx, line 753
vtkPVCompositeDataPipeline (000002E311D4CCF0): Algorithm vtkFileSeriesReader(000002E318D98620) returned failure for request: vtkInformation (000002E319D29ED0)
Debug: Off
Modified Time: 301643
Reference Count: 1
Registered Events: (none)
Request: REQUEST_DATA_OBJECT
FORWARD_DIRECTION: 0
ALGORITHM_AFTER_FORWARD: 1
ERROR: In C:\glr\builds\paraview\paraview-ci\build\superbuild\paraview\src\Utilities\VisItBridge\databases\AvtAlgorithms\vtkAvtSTMDFileFormatAlgorithm.cxx, line 127
vtkVisItChomboReader (000002E30FBB3ED0): Unable to find any meshes
ERROR: In C:\glr\builds\paraview\paraview-ci\build\superbuild\paraview\src\VTK\Common\ExecutionModel\vtkExecutive.cxx, line 753
vtkPVCompositeDataPipeline (000002E311D4CCF0): Algorithm vtkFileSeriesReader(000002E318D98620) returned failure for request: vtkInformation (000002E319D29ED0)
Debug: Off
Modified Time: 301643
Reference Count: 1
Registered Events: (none)
Request: REQUEST_DATA_OBJECT
FORWARD_DIRECTION: 0
ALGORITHM_AFTER_FORWARD: 1
ERROR: In C:\glr\builds\paraview\paraview-ci\build\superbuild\paraview\src\Utilities\VisItBridge\databases\AvtAlgorithms\vtkAvtSTMDFileFormatAlgorithm.cxx, line 127
vtkVisItChomboReader (000002E30FBB3ED0): Unable to find any meshes
ERROR: In C:\glr\builds\paraview\paraview-ci\build\superbuild\paraview\src\VTK\Common\ExecutionModel\vtkExecutive.cxx, line 753
vtkPVCompositeDataPipeline (000002E311D4CCF0): Algorithm vtkFileSeriesReader(000002E318D98620) returned failure for request: vtkInformation (000002E319D29ED0)
Debug: Off
Modified Time: 301643
Reference Count: 1
Registered Events: (none)
Request: REQUEST_DATA_OBJECT
FORWARD_DIRECTION: 0
ALGORITHM_AFTER_FORWARD: 1
```
I also used matlab to look at the data structure inside:
```auto
Group '/sample-0000'
Dataset 'face'
Size: 3x43402
MaxSize: 3x43402
Datatype: H5T_IEEE_F32LE (single)
ChunkSize: []
Filters: none
FillValue: 0.000000
Dataset 'inlet_idcs'
Size: 1472
MaxSize: 1472
Datatype: H5T_STD_I32LE (int32)
ChunkSize: []
Filters: none
FillValue: 0
Dataset 'lumen_wall_idcs'
Size: 18960
MaxSize: 18960
Datatype: H5T_STD_I32LE (int32)
ChunkSize: []
Filters: none
FillValue: 0
Dataset 'outlets_idcs'
Size: 1271
MaxSize: 1271
Datatype: H5T_STD_I32LE (int32)
ChunkSize: []
Filters: none
FillValue: 0
Dataset 'pos_tets'
Size: 3x236575
MaxSize: 3x236575
Datatype: H5T_IEEE_F32LE (single)
ChunkSize: []
Filters: none
FillValue: 0.000000
Dataset 'pressure'
Size: 236575
MaxSize: 236575
Datatype: H5T_IEEE_F32LE (single)
ChunkSize: []
Filters: none
FillValue: 0.000000
Dataset 'surface_idcs'
Size: 21703
MaxSize: 21703
Datatype: H5T_STD_I32LE (int32)
ChunkSize: []
Filters: none
FillValue: 0
Dataset 'tets'
Size: 4x1402652
MaxSize: 4x1402652
Datatype: H5T_STD_I32LE (int32)
ChunkSize: []
Filters: none
FillValue: 0
Dataset 'velocity'
Size: 3x236575
MaxSize: 3x236575
Datatype: H5T_IEEE_F32LE (single)
ChunkSize: []
Filters: none
FillValue: 0.000000
Dataset 'wss'
Size: 3x21703
MaxSize: 3x21703
Datatype: H5T_IEEE_F32LE (single)
ChunkSize: []
Filters: none
FillValue: 0.000000
```
---
### Author:  [@mwestphal](https://discourse.paraview.org/u/mwestphal)
#### Post date: [June 22, 2023, 3:25pm UTC](https://discourse.paraview.org/t/how-to-use-paraview-to-open-this-open-source-hdf5-file-is-the-version-of-the-problem/12362/2 "2023-06-22T15:25:13Z")
Please share the dataset you are trying to open, I dont see any in the github link.
---
### Author:  [@qinyi\_Zhang](https://discourse.paraview.org/u/qinyi_Zhang)
#### Post date: [June 23, 2023, 4:32am UTC](https://discourse.paraview.org/t/how-to-use-paraview-to-open-this-open-source-hdf5-file-is-the-version-of-the-problem/12362/3 "2023-06-23T04:32:00Z")
Sorry, I forgot to upload the dedicated link to the dataset, which is hidden by the author in the github link. I apologize for my ignorance and I greatly appreciate your eagerness to help. Here is the link to the dataset: [lumen\_tiny.hdf5 - Google Cloud Drive](https://drive.google.com/file/d/10p_O9R0op7zLwo1w6qGv8FjK3S-EXBNn/view)
---
### Author:  [@mwestphal](https://discourse.paraview.org/u/mwestphal)
#### Post date: [June 23, 2023, 10:41am UTC](https://discourse.paraview.org/t/how-to-use-paraview-to-open-this-open-source-hdf5-file-is-the-version-of-the-problem/12362/4 "2023-06-23T10:41:30Z")
Indeed, HDF5 is not a format, just a container and the github user never specify the format. No idea how it was opened. Ask the person ?
---
### Author:  [@Kenichiro-Yoshimi](https://discourse.paraview.org/u/Kenichiro-Yoshimi)
#### Post date: [June 26, 2023, 2:26am UTC](https://discourse.paraview.org/t/how-to-use-paraview-to-open-this-open-source-hdf5-file-is-the-version-of-the-problem/12362/5 "2023-06-26T02:26:58Z")
Follow the instructions in the **Getting started** section of segnn-hemodynamics and execute the following command
`python main.py --num_epochs 0`
This will output
- visuals\_idx\_000018.vtu
- visuals\_idx\_000019.vtu
which can be loaded into ParaView.