ImageJ-op vs ImageJ plugins

[xp1632]

The main difference between ij.op and ij.plugins is that ij.op is a part of the ImageJ2 API, which is a more modern and extensible API for ImageJ, while ij.plugins is a part of the original ImageJ API, which is less flexible and more limited in its capabilities. Here are some more details:

ij.op:

• ij.op is a part of the ImageJ2 API, which is a more modern and extensible API for ImageJ.
• ij.op provides a set of interfaces and classes for performing image processing operations in a flexible and extensible way.
• ij.op is designed to work with the ImgLib2 data model, which provides a more flexible and efficient way to represent images.
• ij.op is more modular and allows for more fine-grained control over the processing pipeline.
• ij.op is more suitable for advanced users and developers who need to perform complex image processing tasks.

ij.plugins:

• ij.plugins is a part of the original ImageJ API, which is less flexible and more limited in its capabilities.
• ij.plugins provides a set of pre-built plugins for performing common image processing tasks, such as filtering, thresholding, and segmentation.
• ij.plugins is designed to work with the ImagePlus data model, which is less flexible and efficient than the ImgLib2 data model.
• ij.plugins is less modular and provides less fine-grained control over the processing pipeline.
• ij.plugins is more suitable for casual users who need to perform simple image processing tasks.

In summary, ij.op is a part of the ImageJ2 API and provides a more modern and extensible way to perform image processing operations, while ij.plugins is a part of the original ImageJ API and provides a set of pre-built plugins for common image processing tasks.

Citations: [1] https://forum.image.sc/t/structuring-ij-developer-wiki/28 [2] https://imagej.net/develop/ij1-plugins [3] https://www.cas.miamioh.edu/~meicenrd/anatomy/Ch14_IndependentInvestigation/ImageJ/ij-docs/ij-docs/developer/api/ij/plugin/class-use/PlugIn.html [4] https://imagej.net/ij/developer/api/ij/ij/plugin/tool/package-use.html [5] https://ij-plugins.sourceforge.net/plugins/toolkit.html [6] https://ij-plugins.sourceforge.net

[xp1632]

Part of Fiji's plugins are the older version- ImageJ API

Fiji builds on top of the ImageJ2 core, which is licensed under the permissive BSD 2-Clause license.

Fiji also includes the original ImageJ, which is free of copyright.

[Max-ChenFei]

How to call the functions from

[Max-ChenFei]

How to call the functions from

[xp1632]

ImageJ plugins bundle

https://github.com/ij-plugins/ij-plugins-bundle

IJP Toolkit including Segmentation

https://github.com/ij-plugins/ijp-toolkit/wiki/Segmentation

[xp1632]

Some ops are extended ops:

https://github.com/imagej/tutorials/blob/master/notebooks/2-Extending-ImageJ/2-Ops.ipynb

which is not in the OpService class ,so we could not run it simply by

ij.op().filter().gauss

we need to run it as an extended Ops from third party plugins package:

Img<FloatType> output = ij.op().run("trainableSegmentation", img, classifierPath, classes, featureChannels, sigma, threshold);

for example, I used the ops.run() method to run the DefaultDetectRidges operation from the net.imagej.ops.segment package, which is not a built-in operation provided by the OpService class.

[xp1632]

Now I know, op is also a form of plugin in ImageJ

[xp1632]

Another difference I noticed between ops and command plugins :

• op is designed to be ImageJ UI- free

  • op always offers output parameters with type ItemIO.OUTPUT
  • which allows us to use the output to print/show in the jupyter or somewhere

• while some command plugins have no output parameters

  • the result is shown with ij.ui defined in their plugin
  • which requires more effort if we want to use the output of the plugin
  • we should avoid this type of plugins