openmicroscopy/ome-files-py-u1604 repository overview

⁠ome-files-py

Python bindings for https://github.com/ome/ome-files-cpp⁠

⁠Building

• Build the C++ libraries (ome-common, ome-files, ome-xml) and install them to a PREFIX
• Run python setup.py build_ext -I${PREFIX}/include -L${PREFIX}/lib -R${PREFIX}/lib followed by python setup.py build

Alternatively, you can use the Docker images (CentOS 7⁠, Ubuntu 16.04⁠).

⁠Examples

dump_planes.py is a sample script that reads an OME-TIFF file and writes one plain TIFF image for each plane in the input file. For instance, from the examples directory, you can run:

python dump_planes.py ../test/data/multi-channel-4D-series.companion.ome

You can also run a sample Jupyter notebook with the ome-files-jupyter Docker image⁠. See https://github.com/openmicroscopy/ome-files-jupyter-docker⁠ for instructions.