mibCropObjectsController Class Reference

a controller class for the crop objects to file options of the context menu of the Get Statistics window More...

Inheritance diagram for mibCropObjectsController:

Collaboration diagram for mibCropObjectsController:

Public Member Functions
	mibCropObjectsController (mibModel, mibStatisticsController, batchModeSwitch, annotationLabels)
	constructor of the class Parameters: mibStatisticsController: a handle to the mibStatisticsController class batchModeSwitch: a logical switch to use the batch mode instead of GUI mode annotationLabels: structure with additional information about annotations .names - cell array with label (annotation) names .positions - matrix with center coordinates of patches to be cropped out from the image, it is used by mibAnnotationsController. Format: [pntId][z, x, y, t]
function	closeWindow ()
	closing mibCropObjectsController window
function	updateWidgets ()
	update widgets of the window
function	generate3DPatches_Callback ()
	callback for selection of crop 3D objects checkbox
function	selectDirBtn_Callback ()
	a callback for press of obj.View.handles.selectDirBtn to select output directory
function	dirEdit_Callback ()
	a callback for obj.View.handles.dirEdit to select output directory
function	updateBatchParameters (type, newValue)
	update obj.mibStatisticsController.BatchOpt parameters
function	generatePatches ()
	generate image patches using annotations as center coordinates. The coordinates are provided in obj.annotationLabels as structure with .names - cell array with label (annotation) names .positions - matrix with center coordinates of patches to be cropped out from the image, it is used by mibAnnotationsController.
function	cropBtn_Callback (batchModeSwitch)
	a callback for press of obj.View.handles.cropBtn to start cropping Parameters: batchModeSwitch: a logical switch indicating start of the function using the batch mode

Static Public Member Functions
static function	ViewListner_Callback (obj, src, evnt)

Public Attributes
	mibModel
	handles to the model
	mibStatisticsController
	a handle to mibStatisticsController
	View
	handle to the view
	listener
	a cell array with handles to listeners
	outputDir
	output directory
	outputVar
	output variable for export to Matlab
	storedBatchOpt
	stored BatchOpt, because some of the parameters gets overwritten in the crop function
	annotationLabels
	structure with additional information about annotations .names - cell array with label (annotation) names .positions - matrix with center coordinates of patches to be cropped out from the image, it is used by mibAnnotationsController. Format: [pntId][z, x, y, t]
EVENT	closeEvent
	> Description of events event firing when window is closed
Public Attributes inherited from handle
	addlistener
	Creates a listener for the specified event and assigns a callback function to execute when the event occurs.
	notify
	Broadcast a notice that a specific event is occurring on a specified handle object or array of handle objects.
	delete
	Handle object destructor method that is called when the object's lifecycle ends.
	disp
	Handle object disp method which is called by the display method. See the MATLAB disp function.
	display
	Handle object display method called when MATLAB software interprets an expression returning a handle object that is not terminated by a semicolon. See the MATLAB display function.
	findobj
	Finds objects matching the specified conditions from the input array of handle objects.
	findprop
	Returns a meta.property objects associated with the specified property name.
	fields
	Returns a cell array of string containing the names of public properties.
	fieldnames
	Returns a cell array of string containing the names of public properties. See the MATLAB fieldnames function.
	isvalid
	Returns a logical array in which elements are true if the corresponding elements in the input array are valid handles. This method is Sealed so you cannot override it in a handle subclass.
	eq
	Relational functions example. See details for more information.
	transpose
	Transposes the elements of the handle object array.
	permute
	Rearranges the dimensions of the handle object array. See the MATLAB permute function.
	reshape
	hanges the dimensions of the handle object array to the specified dimensions. See the MATLAB reshape function.
	sort
	ort the handle objects in any array in ascending or descending order.

Detailed Description

a controller class for the crop objects to file options of the context menu of the Get Statistics window

Constructor & Destructor Documentation

mibCropObjectsController()

mibCropObjectsController.mibCropObjectsController	(		mibModel,
			mibStatisticsController,
			batchModeSwitch,
			annotationLabels )

constructor of the class Parameters: mibStatisticsController: a handle to the mibStatisticsController class batchModeSwitch: a logical switch to use the batch mode instead of GUI mode annotationLabels: structure with additional information about annotations .names - cell array with label (annotation) names .positions - matrix with center coordinates of patches to be cropped out from the image, it is used by mibAnnotationsController. Format: [pntId][z, x, y, t]

References handle.addlistener, annotationLabels, mibModel, and mibStatisticsController.

Member Function Documentation

closeWindow()

function mibCropObjectsController.closeWindow

(

)

closing mibCropObjectsController window

References handle.isvalid, and handle.notify.

cropBtn_Callback()

function mibCropObjectsController.cropBtn_Callback

(

batchModeSwitch

)

a callback for press of obj.View.handles.cropBtn to start cropping
Parameters: batchModeSwitch: a logical switch indicating start of the function using the batch mode

References bitmap2amiraLabels(), bitmap2amiraMesh(), bitmap2nrrd(), max, mibImage2mrc(), mibImage2tiff(), mibUpdatePixSizeAndResolution(), min, handle.reshape, and handle.sort.

Here is the call graph for this function:

dirEdit_Callback()

function mibCropObjectsController.dirEdit_Callback

(

)

a callback for obj.View.handles.dirEdit to select output directory

generate3DPatches_Callback()

function mibCropObjectsController.generate3DPatches_Callback

(

)

callback for selection of crop 3D objects checkbox

generatePatches()

function mibCropObjectsController.generatePatches

(

)

generate image patches using annotations as center coordinates. The coordinates are provided in obj.annotationLabels as structure with .names - cell array with label (annotation) names .positions - matrix with center coordinates of patches to be cropped out from the image, it is used by mibAnnotationsController.

References bitmap2amiraLabels(), bitmap2amiraMesh(), bitmap2nrrd(), max, mibImage2mrc(), mibImage2tiff(), mibInputMultiDlg(), mibUpdatePixSizeAndResolution(), and handle.reshape.

Here is the call graph for this function:

selectDirBtn_Callback()

function mibCropObjectsController.selectDirBtn_Callback

(

)

a callback for press of obj.View.handles.selectDirBtn to select output directory

updateBatchParameters()

function mibCropObjectsController.updateBatchParameters	(		type,
			newValue )

update obj.mibStatisticsController.BatchOpt parameters

updateWidgets()

function mibCropObjectsController.updateWidgets

(

)

update widgets of the window

ViewListner_Callback()

static function mibCropObjectsController.ViewListner_Callback ( obj, src, evnt )

static

Member Data Documentation

annotationLabels

mibCropObjectsController.annotationLabels

structure with additional information about annotations .names - cell array with label (annotation) names .positions - matrix with center coordinates of patches to be cropped out from the image, it is used by mibAnnotationsController. Format: [pntId][z, x, y, t]

Referenced by mibCropObjectsController().

closeEvent

EVENT mibCropObjectsController.closeEvent

> Description of events event firing when window is closed

Events

closeEvent

listener

mibCropObjectsController.listener

a cell array with handles to listeners

mibModel

mibCropObjectsController.mibModel

handles to the model

Referenced by mibCropObjectsController().

mibStatisticsController

mibCropObjectsController.mibStatisticsController

a handle to mibStatisticsController

Referenced by mibCropObjectsController().

outputDir

mibCropObjectsController.outputDir

output directory

outputVar

mibCropObjectsController.outputVar

output variable for export to Matlab

storedBatchOpt

mibCropObjectsController.storedBatchOpt

stored BatchOpt, because some of the parameters gets overwritten in the crop function

View

mibCropObjectsController.View

handle to the view

---

The documentation for this class was generated from the following file:

• Classes/@mibCropObjectsController/mibCropObjectsController.m