AperioToQuPath.groovy

import qupath.lib.scripting.QP
import qupath.lib.geom.Point2
import qupath.lib.roi.PolygonROI
import qupath.lib.objects.PathAnnotationObject
import qupath.lib.images.servers.ImageServer


//Aperio Image Scope displays images in a different orientation
def rotated = false

def server = QP.getCurrentImageData().getServer()
def h = server.getHeight()
def w = server.getWidth()

// need to add annotations to hierarchy so qupath sees them
def hierarchy = QP.getCurrentHierarchy()


//Prompt user for exported aperio image scope annotation file
def file = getQuPath().getDialogHelper().promptForFile('xml', null, 'aperio xml file', null)
def text = file.getText()
//print(text)
def list = new XmlSlurper().parseText(text)
//println("hello world")
println(list.Annotation)
list.Annotations.each {
//    println("hello world")
    it.Annotation.each { region ->
//        println("hello world")
        def tmp_points_list = []

        region.Coordinates.Coordinate.each{ vertex ->

            if (rotated) {
                X = vertex.@Y.toDouble()
                Y = h - vertex.@X.toDouble()
            }
            else {
                X = vertex.@X.toDouble()
                Y = vertex.@Y.toDouble()
            }
            tmp_points_list.add(new Point2(X, Y))
        }

        def roi = new PolygonROI(tmp_points_list)

        def annotation = new PathAnnotationObject(roi)

        hierarchy.addPathObject(annotation, false)
    }
}

将ASAP的标注XML转为QuPath能够加载的标注.
出自于https://gist.github.com/DanaCase/9cfc23912fee48e437af03f97763d78e
做了些修改以适用于ASAP某医院的标注