hdf5

HDF5 Python examples

A collection of code samples to illustrate reading and writing HDF5 files from Python using the PyTables module.

What is it?

1. create_table.py: creates an HDF5 file test.h5 that has a root-level group particles containing a data set initial that holds the particles mass, x- and y-coordinates, x- and y-component of its velocity as floating point numbers, and an ID as an integer value.
2. add_table.py: adds a data set final in the particles group of test.h5.
3. add_array.py: adds a group fields to test.h5, and inserts an 2D array as data set higgs. The data is stored as a numpy array.
4. compute_avg.py: reads the higgs data set from test.h5, as numpy array, and computes the average value of all points.
5. query_table.py: select only the particles in the initial data set that have a velocity above a certain threshold, and print them.
6. particle.py: defines a class Particle.
7. test.h5: test HDF5 file.
8. write_large_dataset.py: script to create an HDF5 file with a large dataset, useful to experiment with various forms of reading the data
9. read_large_dataset.py: script to experiment with various read modes, reading an entire dataset, reading non-contiguous rows and columns
10. h5py.ipynb: Jupyter notebook illustrating the h5py package.