The ImageJ extension of requires ImageJ to be installed and additionally to be configured correctly.

To prepare ImageJ for the use in , perform the following steps:

  1. Create a folder which can be fully accessed without Windows administrator rights.
  2. Install ImageJ in the created folder. Check for ImageJ updates after installation.
  3. We recommend to use the Fiji distribution, which includes all required plugins. If you use Fiji, you can skip the next two steps.
  4. Download the OME Bio-Formats library (LOCI Plugins for ImageJ).
  5. Copy the downloaded file loci_tools.jar to the ImageJ\plugins folder.
  6. Make sure that Run single instance listener is activated in ImageJ.
  7. You find it under the Edit > Options > Misc…

ImageJ is now correctly installed and prepared to work with the software. If you have several ImageJ installations on your computer, make sure to direct the software to the above installation using the General Options dialog.