mtav / h5utils

The tools in the h5utils package allow converting other formats from and to HDF5 and to visualize HDF5 files.

h5utils Package

h5utils is a python package adding extra functionality missing from MIT/nanoComp's h5utils (which is not a python package and is available at https://github.com/NanoComp/h5utils). .

HDF5 (Hierarchical Data Format 5) is a file format for storing scientific data.

The tools in the h5utils package allow converting other formats from and to HDF5 and to visualize HDF5 files.

They include:

• h5tovts, which converts HDF5 files to structured VTK files for visualization with VTK-aware programs. This is particularly useful to visualize HDF5 output files from MPB.

For more documentation, please see https://h5utils.readthedocs.io.

Installation:

pip install h5utils

Usage:

To convert an .h5 files to .vts, simply run:

h5tovts example.h5

For more help:

h5tovts --help

Development setup:

git clone https://github.com/mtav/h5utils.git
cd h5utils
pipx install --editable .

h5utils's Issues

h5tovts error

Hello,

I am trying to generate a .vts file from .h5 file using h5tovts command. My .h5 file contains CFD data.

command = h5tovts filename.h5

The command executes and shows me what is inside the hdf5 file but at the end it is not generating the .vts file.
I am getting this message at the end:

raise Exception('Data of dimension {}. Only 3D data supported at the moment.'.format(len(data.shape))) Exception: Data of dimension 2. Only 3D data supported at the moment.

The hdf5 file contains 60000 groups.Each group contains 4 datasets. The structure looks as given below:

/Time_9700               Group
/Time_9700/LatTyp        Dataset {501, 83}
/Time_9700/Rho           Dataset {501, 83}
/Time_9700/Ux            Dataset {501, 83}
/Time_9700/Uy            Dataset {501, 83}

Any help would be appreciated.