Using the Script Editor

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Script Editor (ImageJ)
Author Johannes Schindelin, Sumit Dubey (Google Summer of Code 2009)
Maintainer Johannes Schindelin
Source on GitHub
Initial release 11 Sep 2008
Development status active

The script editor is an invaluable help when writing scripts in any of ImageJ's supported languages.

Notice.png As announced in June 2014, the Fiji script editor became the ImageJ2 script editor. It now forms the basis of all of ImageJ2's scripting capabilities.




Multithreaded Processing



Text Editing
  • Full undo support
  • Auto-indent
  • Configurable white-space options
  • Syntax highlighting
  • Output console
  • Git integration (file being edited must be part of a Git repository)
  • Language specific templates
  • Find and replace using regex patterns
  • Automatic brace highlighting
  • Line numbers
Language specific tools
  • Bookmarks
  • Tabs for easy switching between open files
  • Navigation shortcuts


Starting the editor

To get started, start up the script editor:


There is also the keyboard shortcut { (open curly bracket) to open the editor.

Choosing a language

Then choose a language from the language menu:


Now you can write your script. In this tutorial, Jython was chosen as scripting language, but the process is really the same for all scripting languages.


Running the script

Once you are satisfied with the script, run it. This does not require saving, but of course you should save your script later when it works.


Note that while the script is running, the window title shows the tell-tale (Running).

You can use all of ImageJ's classes right away. Here is an example that shows a dialog where the user can input a number. For details how to write dialogs in the different scripting languages, see Scripting comparisons


Further reading

See the Scripting Help page for an introduction to scripting. For more information about each specific language, see the Languages section of top right sidebar.