qiprofile

# TODO - capture this file on a xtk branch and delete it from # the mainline. # TODO - if XTK is resurrected, then uncomment this. # define ['angular', 'file', 'slider', 'xtk'], (ng) -> # volumeDisplay = ng.module 'qiprofile.volumedisplay', ['qiprofile.file', 'vr.directives.slider'] # # volumedisplay.factory 'VolumeDisplay', ['$rootScope', '$q', 'File', ($rootScope, $q, File) -> # ### This class is broken after the AngularJS 1.4.9 update. ### # # TODO - revisit if XNAT is resurrected. # # # # TODO - dynamically load XTK. See, e.g., # # http://www.bennadel.com/blog/2554-loading-angularjs-components-with-requirejs-after-application-bootstrap.htm # # and # # http://stackoverflow.com/questions/18591966/inject-module-dynamically-only-if-required # # # # The Volume class encapsulates a volume with the following properties: # # * volume - the image scan or registration volume object # # * number - the one-based image volume number # # * state - one of 'unloaded', 'loading' or 'loaded' # # * volume - the XTK volume object # # * load() - read the image file # # * open(element) - render the image # # * isOverlayVisible() - whether there is an associated label map file # # * selectOverlay() - show the overlay # # * deselectOverlay() - hide the overlay # # # # This class is private within the VolumeDisplay service scope. # class VolumeDisplay # # Transfers the file content to the data properties. # # The image state loading flag is set to true while the # # files are being read. # # # # @returns a promise which resolves to this image object # # when the file is loaded # load: -> # super().then (data) -> # # The XTK image to render.extendImageSequence # @xtkVolume = new X.volume() # @xtkVolume.file = @location # @xtkVolume.filedata = data # data # # # Renders the image in the given parent element. # # # # @param element the Angular jqLite element # open: (element) -> # # The XTK renderer for this volume. # renderer = new X.renderer3D() # # The image is rendered within the given element. # renderer.container = element[0] # # Build the renderer. # renderer.init() # renderer.add(@xtkVolume) # # # Set the volume threshold levels to defaults. # # These must be set here for the slider controls to load with the # # correct values. # @xtkVolume.lowerThreshold = 0 # @xtkVolume.upperThreshold = 445 # # # Adjust the camera position. # renderer.camera.position = [0, 0, 240] # # # Render the volume. # renderer.render() # # # Returns whether the XTK volume has a visible label map. This # # function is required to work around the XTK bug described in # # image-controls.jade. # isOverlayVisible: -> # @xtkVolume._labelmap? and @xtkVolume._labelmap._children? and # @xtkVolume._labelmap._children.length and @xtkVolume._labelmap.visible # # # Deselects an existing overlay as follows: # # * If the image volume has a label map, then the label map visible # # flag is set to false. # # Otherwise, this function is a no-op. # # # # @param image the selected PK modeling parameter name, or 'none' to # # remove an existing overlay # deselectOverlay: -> # @xtkVolume.labelmap.visible = false if @isOverlayVisible() # # # Changes the overlay label map and color lookup table as follows: # # * Fetch the overlay files. # # * Set the volume label map properties. # # * Display the overlay. # # # # @param labelMap the selected label map {name, colorTable} # # object # selectOverlay: (labelMap) -> # # Note: XTK labelmaps are treacherous territory; proceed with caution. # # Specifically, XTK places the renderer in the browser event loop, so # # that XTK renders and rerenders continuously and asynchronously. # # Hopefully, the XTK render function checks for a state change and # # only schedules a browser paint if necessary. Whether this state # # change check is performed is unknown. # # # # Furthermore, XTK implicitly expects that its volume is complete and # # consistent when it is rendered. For a labelmap, XTK checks the XTK # # volume._labelmap. If it exists and the labelmap visible flag is set, # # then XTK expects the labelmap data to be fully loaded and renders # # the labelmap. # # # # However, simply checking the existing XTK volume.labelmap # # property automatically creates the XTK volume._labelmap object. # # Furthermore, the newly created empty XTK volume._labelmap.visible # # flag is set to true by default. Thus, a naive implementation that # # checks for an existing labelmap and then asynchronously loads the # # labelmap file results in the following XTK render error: # # # # Uncaught TypeError: Cannot read property '_id' of null # # # # The work-around is as follows: # # * If checking for an existing labelmap, bypass accessing the # # XTK volume.labelmap property and check the XTK volume._labelmap # # variable instead. # # * If an overlay is selected which differs from the existing overlay, # # then set the XTK volume.labelmap.visible property to false before # # anything else. Although referencing the XTK volume.labelmap property # # creates the XTK volume._labelmap object with incomplete and # # inconsistent content, the visible flag set to false prevents XTK # # from attempting to render the incomplete labelmap. # # * Set the XTK volume.labelmap content as appropriate, e.g. the file # # and colortable.file. # # * Load the label map and color table asynchronously. # # * When both are loaded, then finally set the XTK volume.labelmap.visible # # property to true. Setting visible to true triggers a repaint with the # # overlay. # # # The XTK volume labelmap file, or null if there is no labelmap. # xtkLabelMapFile = @xtkVolume._labelmap.file if @xtkVolume._labelmap? # # If the label map was not changed from the last value, then we only # # need to set the visible flag. # if xtkLabelMapFile is labelMap.name # @xtkVolume.labelmap.visible = true # return # # # The label map must have a color table. # if not labelMap.colorTable? # throw new ValueError("The label map is missing a color table:" + # " #{ labelMap.name } ") # # # Set the XTK volume labelmap visible flag to false. # # See the function Note comment above. # @xtkVolume.labelmap.visible = false # # Set the volume label map file name property. # @xtkVolume.labelmap.file = labelMap.name # # Set the volume color table file name property. # @xtkVolume.labelmap.colortable.file = labelMap.colorTable # # # Retrieve the overlay layer map and color table. # loadLabelMap = File.readBinary(labelMap.name).then (data) -> # # Set the volume label map data property. # @xtkVolume.labelmap.filedata = data # loadColorTable = File.readBinary(labelMap.colorTable).then (data) -> # # Set the volume color table data property. # @xtkVolume.labelmap.colortable.filedata = data # # # Join the two promises into a single promise. # loaded = $q.all(loadLabelMap, loadColorTable) # loaded.then -> # # Turn on the label map. This triggers a redisplay of the volume # # with the new overlay. # @xtkVolume.labelmap.visible = true # # # @param volume the scan or registration image volume # # (not the XTK volume) # extend: (volume) -> # throw new Error("Not yet implemented") # ]