NOTE: aicspylibczi This project has been forked and made into a much more general tool for reading czi files by developers at the Allen Institute for Cell Science at the Allen Institute. Please try this version with pip install aicspylibczi
or visit the fork homepage.
Python module to expose libCZI functionality for reading (subset of) Zeiss CZI files and meta-data.
The preferred installation method is with pip install
.
This will intall the pylibczi python module and extension binaries (hosted on PyPI):
pip install pylibczi
For example usage, see sample.py
.
In the first example, replace test.czi
with your own CZI file containing scenes.
In the second example, replace test2.czi
with your own CZI file containing grayscale or BGR48 image data.
The latter is a more generic reader for reading and assembling all subblocks.
Documentation is available on readthedocs.
Use these steps to build and install pylibczi locally:
--recurse-submodules
).pip install -r requirements.txt
pip install -r dev-requirements.txt
python setup.py install