Package ch.epfl.biop.qupath.utils.internal

Class ImageJMacroRunner

  • All Implemented Interfaces:
    qupath.lib.plugins.PathPlugin<java.awt.image.BufferedImage>
    public class ImageJMacroRunner
extends qupath.lib.plugins.AbstractPlugin<java.awt.image.BufferedImage>
    QuPath plugin for running ImageJ macros & returning detected regions. TODO: Support script recording.

    • Constructor Summary

      Constructors 
      Constructor Description
      ImageJMacroRunner​(qupath.lib.gui.QuPathGUI qupath)
      Constructor.

    • Method Summary

      All Methods Static Methods Instance Methods Concrete Methods 
      Modifier and Type Method Description
      protected void addRunnableTasks​(qupath.lib.images.ImageData<java.awt.image.BufferedImage> imageData, qupath.lib.objects.PathObject parentObject, java.util.List<java.lang.Runnable> tasks)  
      java.lang.String getDescription()  
      java.lang.String getLastResultsDescription()  
      java.lang.String getName()  
      qupath.lib.plugins.parameters.ParameterList getParameterList​(qupath.lib.images.ImageData<java.awt.image.BufferedImage> imageData)  
      protected java.util.Collection<? extends qupath.lib.objects.PathObject> getParentObjects​(qupath.lib.plugins.PluginRunner<java.awt.image.BufferedImage> runner)  
      protected java.util.Collection<java.lang.Class<? extends qupath.lib.objects.PathObject>> getSupportedParentObjectClasses()  
      protected boolean parseArgument​(qupath.lib.images.ImageData<java.awt.image.BufferedImage> imageData, java.lang.String arg)  
      static void runMacro​(qupath.lib.plugins.parameters.ParameterList params, qupath.lib.images.ImageData<java.awt.image.BufferedImage> imageData, qupath.lib.display.ImageDisplay imageDisplay, qupath.lib.objects.PathObject pathObject, java.lang.String macroText)  
      boolean runPlugin​(qupath.lib.plugins.PluginRunner<java.awt.image.BufferedImage> runner, java.lang.String arg)  

      • Methods inherited from class qupath.lib.plugins.AbstractPlugin

        addWorkflowStep, getHierarchy, getServer, getTasks, postprocess, preprocess, rearrangeByStride, requestHierarchyUpdate

      • Methods inherited from class java.lang.Object

        clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

    • Constructor Detail

      • ImageJMacroRunner

        public ImageJMacroRunner​(qupath.lib.gui.QuPathGUI qupath)
        Constructor.
        Parameters:
        qupath - QuPath instance where the command should be installed.

    • Method Detail

      • getName

        public java.lang.String getName()

      • getDescription

        public java.lang.String getDescription()

      • runPlugin

        public boolean runPlugin​(qupath.lib.plugins.PluginRunner<java.awt.image.BufferedImage> runner,
                         java.lang.String arg)
        Specified by:
        runPlugin in interface qupath.lib.plugins.PathPlugin<java.awt.image.BufferedImage>
        Overrides:
        runPlugin in class qupath.lib.plugins.AbstractPlugin<java.awt.image.BufferedImage>

      • runMacro

        public static void runMacro​(qupath.lib.plugins.parameters.ParameterList params,
                            qupath.lib.images.ImageData<java.awt.image.BufferedImage> imageData,
                            qupath.lib.display.ImageDisplay imageDisplay,
                            qupath.lib.objects.PathObject pathObject,
                            java.lang.String macroText)

      • parseArgument

        protected boolean parseArgument​(qupath.lib.images.ImageData<java.awt.image.BufferedImage> imageData,
                                java.lang.String arg)
        Specified by:
        parseArgument in class qupath.lib.plugins.AbstractPlugin<java.awt.image.BufferedImage>

      • getLastResultsDescription

        public java.lang.String getLastResultsDescription()

      • getParameterList

        public qupath.lib.plugins.parameters.ParameterList getParameterList​(qupath.lib.images.ImageData<java.awt.image.BufferedImage> imageData)

      • getSupportedParentObjectClasses

        protected java.util.Collection<java.lang.Class<? extends qupath.lib.objects.PathObject>> getSupportedParentObjectClasses()

      • addRunnableTasks

        protected void addRunnableTasks​(qupath.lib.images.ImageData<java.awt.image.BufferedImage> imageData,
                                qupath.lib.objects.PathObject parentObject,
                                java.util.List<java.lang.Runnable> tasks)
        Specified by:
        addRunnableTasks in class qupath.lib.plugins.AbstractPlugin<java.awt.image.BufferedImage>

      • getParentObjects

        protected java.util.Collection<? extends qupath.lib.objects.PathObject> getParentObjects​(qupath.lib.plugins.PluginRunner<java.awt.image.BufferedImage> runner)
        Specified by:
        getParentObjects in class qupath.lib.plugins.AbstractPlugin<java.awt.image.BufferedImage>