pynrrd

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pynrrd

pynrrd is a pure-Python module for reading and writing NRRD <http://teem.sourceforge.net/nrrd/>_ files into and from numpy arrays.

Requirements

• numpy <https://numpy.org/>_
• typing_extensions

v1.0+ requires Python 3.7 or above. If you have an older Python version, please install a v0.x release instead.

Installation

Install via pip and PyPi repository (recommended)

.. code-block:: bash

    pip install pynrrd

Install via pip and GitHub
~~~~~~~~~~~~~~~~~~~~~~~~~~
.. code-block:: bash

    pip install git+https://github.com/mhe/pynrrd.git

Install from source (recommended for contributing to pynrrd)

For developers that want to contribute to pynrrd, you can clone the pynrrd repository and install it using the following commands:

.. code-block:: bash

git clone https://github.com/mhe/pynrrd.git
cd pynrrd
pip install .

or, for the last line, instead use:

.. code-block:: bash

pip install -e .

to install in 'develop' or 'editable' mode, where changes can be made to the local working code and Python will use the updated pynrrd code.

Tests

The tests can be run via the following command from the base directory:

.. code-block:: bash

python -m unittest discover -v nrrd/tests

Format and Lint code

This repository uses pre-commit hooks to run format and lint the code and they are enforced in CI. See pre-commit

Example usage

.. code-block:: python

import numpy as np
import nrrd

# Some sample numpy data
data = np.zeros((5,4,3,2))
filename = 'testdata.nrrd'

# Write to a NRRD file
nrrd.write(filename, data)

# Read the data back from file
readdata, header = nrrd.read(filename)
print(readdata.shape)
print(header)

Next Steps

For more information, see the documentation <http://pynrrd.readthedocs.io/>_.

License

See the LICENSE <https://github.com/mhe/pynrrd/blob/master/LICENSE>_ for more information.