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This processing will be needed to compute the traps mask This code needs to be cleaned |
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README.md
lipase
An image processing software suite for the project lipase (Véronique Vié, Institut de Physique de Rennes)
This software suite is developed as a python script for fiji (an image processing package based on imageJ).
What it does
As the development is at its early stages, it does not much at the moment:
- loads a sequence of images into fiji in the form of an hyperstack (5d images : width, height, depth, channels, time)
How to use
- make sure that fiji is installed on your computer. If not, get it from https://fiji.sc/
- make sure that fiji has the IJ-OpenCV-plugins
- in Fiji, select the Help->Update... menu item
- in the Manage update sites window, tick the IJ-OpenCV-plugins (URL = http://sites.imagej.net/IJ-OpenCV/) if it's not ticked.
- click the close button of the Manage update sites window
- click "Apply changes" button in the ImageJ Updater window
- wait until the plugins are installed and quit Fiji
- Install lipase
- lipase is released as a package named "lipase-.zip". This package can be build from sources using the 'make package' command, provided you have all the build tools on your machine (make, javac, zip).
- simply unzip the package "lipase-.zip" in Fiji root directory
- launch fiji and check that you have lipase tools in the menu Plugins/Ipr/Lipase