This is the repository for the source code of *Maven template plugin*, a plugin for the [bioimage analysis software Icy](http://icy.bioimageanalysis.org/), which was developed by members or former members of the [Biological Image Analysis unit at Institut Pasteur](https://research.pasteur.fr/en/team/bioimage-analysis/). This plugin is licensed under GPL3 license.
Icy is developed and maintained by [Biological Image Analysis unit at Institut Pasteur](https://research.pasteur.fr/en/team/bioimage-analysis/). The [source code of Icy](https://gitlab.pasteur.fr/bia/icy) is also licensed under a GPL3 license.
## Plugin description
This repository serves as a template for your future Icy plugin. If you want to create a new Icy plugin using **maven** for dependency management, just clone this repository, and edit it to your needs. The following gives hints about what to edit and how.
A more detailed user documentation can be found on the Maven template plugin documentation page on the Icy website: http://icy.bioimageanalysis.org/developer/create-a-new-icy-plugin/
## What to edit.
### The `pom.xml` file.
...
...
@@ -98,3 +111,35 @@ The two examples in this repository are inspired by it. You will find:
The example image found in the `samples` folder is courtesy of Jakub Sedzinsky, University of Copenhagen. It is an epithelium of the neural plate of _Xenopus laevis_ visualized by utrophin-GFP.
## Installation instructions
For end-users, refer to the documentation on the Icy website on [how to install an Icy plugin](http://icy.bioimageanalysis.org/tutorial/how-to-install-an-icy-plugin/).
For developers, see our [Contributing guidelines](https://gitlab.pasteur.fr/bia/icy/-/blob/master/CONTRIBUTING.md) and [Code of Conduct](https://gitlab.pasteur.fr/bia/icy/-/blob/master/CODE-OF-CONDUCT.md).
## Main functions and usage
<!-- list main functions, explain architecture, classname, give info on how to get started with the plugin. If applicable, how the package compares to other similar packages and/or how it relates to other packages -->
Classname: `plugins.authorname.MyIcyPlugin` or `plugins.authorname.MyEzPlugIcyPlugin`
## Citation
Please cite this plugins as follows:
Please also cite the Icy software and mention the version of Icy you used (bottom right corner of the GUI or first lines of the Output tab):
de Chaumont, F. et al. (2012) Icy: an open bioimage informatics platform for extended reproducible research, [Nature Methods](https://www.nature.com/articles/nmeth.2075), 9, pp. 690-696
