REPOSITORY STATUS - DEPRECATION NOTICE

Warning

The OMERO-RAW extension is now DEPRECATED and NOT SUPPORTED ANYMORE on QuPath 0.6.x. The latest version of QuPath compatible with this extension is 0.5.1. We strongly recommend to use the official extension. In order to transfer your OMERO-QuPath projects to be compatible with the new extension, please visit our wiki page to run a migration script in QuPath and follow the step-by-step instructions written at the beginning of the script.

Warning

For QuPath 0.5.x users, the qupath-extension-biop-omero will not be developed further, except to fix major bugs on QuPath 0.5.x Please see below for the installation / documentation

QuPath BIOP-OMERO extension

Welcome to the BIOP-OMERO extension for QuPath!

This adds support for accessing images hosted on an OMERO server through simple-omero-client API, based on OMERO-ICE API.

The extension is intended for QuPath v0.5.x (at the time of writing). It is NOT compatible with later QuPath versions.

Installing

Please follow the installation instructions explained on our wiki

Documentation

• You can find all the documentation on how to use this extension on our wiki page.
• The JavaDoc of this project is available on the GitHub Page.

Template scripts

• All QuPath-OMERO commands can be used in QuPath scripts (groovy language). Template scripts that make the use of the scripting API are available on our GitHub - qupath-scripts.

Building

You can build the extension using OpenJDK 17 or later with

gradlew clean build

The output will be under build/libs. You can drag the jar file on top of QuPath to install the extension.