v0.3.0

QuPath v0.3.0 is now available!

This is a major update, that introduces several new features along with many bug fixes and performance improvements.

Important! It is not recommended to switch between using QuPath v0.2.x and v0.3.x in the same project.
Please back up any older projects if you want to try them with v0.3.0.

Release highlights

• New 'Create density map' command to visualize hotspots & generate annotations based on object densities
• Many code fixes & major performance improvements - especially for pixel classification
• Revised code structure, with non-core features now separated out as optional extensions, including:
  • OMERO
    • https://github.com/qupath/qupath-extension-omero
    • Major update! New support for browsing multiple OMERO servers, importing images & exchanging annotations
  • StarDist
    • https://github.com/qupath/qupath-extension-stardist
    • Major update! No longer any need to build QuPath from source
  • TensorFlow
    • https://github.com/qupath/qupath-extension-tensorflow
    • No longer needed to run StarDist (but gives an alternative option)
  • Interactive image alignment
    • https://github.com/qupath/qupath-extension-align
    • Calculate a rigid transform between two images
  • JPen
    • https://github.com/qupath/qupath-extension-jpen
    • Adds support for (some) graphics tablets
• Rotate images in the viewer 360°
• Easier OpenCV scripting with many new methods in OpenCVTools
• New build scripts, now with continuous integration via GitHub Actions
• Groundwork for new features coming soon...

The major revision of the code structure and creation of extensions is designed to make QuPath more developer-friendly, maintainable and adaptable in the future.

Check out the CHANGELOG for a longer list.

The latest documentation is at https://qupath.readthedocs.io/

The new javadoc (API documentation) is at https://qupath.github.io/javadoc/docs/

Please report any problems at http://forum.image.sc/tag/qupath - thanks!

How to help

Please let us know what you think (and want) by completing the QuPath User Survey - it closes on 16 September!

What to download

• For Windows (two options, functionally the same)
  • QuPath-0.3.0-Windows.msi - if you want a standard Windows (local) installer
  • QuPath-0.3.0-Windows.zip - unzip it and double-click QuPath-0.3.0.exe (no further installation needed)
• For Mac
  • QuPath-0.3.0-Mac.pkg - right-click and choose Open to install. Note that this will install to /Applications/QuPath.app - if you have an older version at that location that you want to keep, you should rename it before installation.
• For Linux
  • QuPath-0.3.0-Linux.tar.xz - use chmod u+x /path/to/QuPath/bin/QuPath to make executable - and the same for QuPath.sh if you suffer pixman problems - then launching from a command line with QuPath.sh may help.

Known issues

• Security settings might want to thwart installing/running QuPath. See here for information how to run it anyway.
• On macOS, the installer may choose the generic name 'QuPath' for the installation. You may want to rename it to support different installations more easily (otherwise installations with the same name may be overwritten).