pyminc 0.43

Python interface to libminc

Pyminc is a python interface to the MINC 2 library, allowing use of numpy arrays to access MINC data, and other such similar goodies, developed by Jason Lerch.

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Documentation can be found in the tutorial section of the MINC Wikibooks (Programming with MINC2 in Python):

http://en.wikibooks.org/wiki/MINC/Tutorials

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Requirements:

Pyminc is compatible with both Python 2 and Python 3. It requires numpy (the python numerical arrays package) to work; this can be installed automatically from PyPI via setuptools. Also, it needs MINC2 compiled as a shared object and accessible through the standard search paths. For the tests, you also need the minc-tools suite of command-line utilities.

Currently pyminc is geared towards the develop branch of libminc, because that is the version of MINC that is installed through the minc-toolkit (https://github.com/BIC-MNI/minc-toolkit). There are some substantial differences between that branch and the master branch of libminc in terms of the argument types of several functions.

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Installing pyminc:

Pyminc is installable from PyPI via setuptools, pip, etc. To install from source:

1. Untar the tarball if applicable

2. Run ‘python setup.py install’ with an optional –prefix if you want to install it in a non-default location.

3. Test the installation. To test the installation of pyminc library, run “python setup.py test”. At your option, also run the pyminc_test2.py script in the scripts folder. This program has 3 arguments: a minc file, a method for smoothing the volume (numpy, blitz or weave) and an output file name.