Module to explore hierarchical parcellations of brain data The module loads a tree file from disk, and allows tree processing, visualization of seed voxel locations onto anatomy image exploration of the hierarchical tree, partition selection, and along with partition2Mesh module the projection of partitions back to the brain surface. More...

#include <WMHierchClustDisplay.h>

Inheritance diagram for WMHierchClustDisplay:

Collaboration diagram for WMHierchClustDisplay:

Classes
class	MainViewEventHandler
	Small event handler class to catch left mouse buttons clicks in the main view. More...

Public Member Functions
	WMHierchClustDisplay ()
	Constructor. More...

virtual	~WMHierchClustDisplay ()
	Destructor. More...

virtual const std::string	getName () const
	Gives back the name of this module. More...

virtual const std::string	getDescription () const
	Gives back a description of this module. More...

virtual std::shared_ptr< WModule >	factory () const
	new instance of this module Due to the prototype design pattern used to build modules, this method returns a new instance of this method. More...

Public Member Functions inherited from WModule
	WModule ()
	Constructs a new WModule instance. More...

virtual	~WModule ()
	Destructor. More...

const InputConnectorList &	getInputConnectors () const
	Gives back input connectors. More...

std::shared_ptr< WModuleInputConnector >	getInputConnector (std::string name)
	Finds the named connector for the module. More...

std::shared_ptr< WModuleInputConnector >	findInputConnector (std::string name)
	Finds the named connector for the module. More...

const OutputConnectorList &	getOutputConnectors () const
	Gives back output connectors. More...

std::shared_ptr< WModuleOutputConnector >	getOutputConnector (std::string name)
	Finds the named connector for the module. More...

std::shared_ptr< WModuleOutputConnector >	findOutputConnector (std::string name)
	Finds the named connector for the module. More...

std::shared_ptr< WModuleConnector >	getConnector (std::string name)
	Finds the named connector for the module. More...

std::shared_ptr< WModuleConnector >	findConnector (std::string name)
	Finds the named connector for the module. More...

std::shared_ptr< WProperties >	getProperties () const
	Return a pointer to the properties object of the module. More...

std::shared_ptr< WProperties >	getInformationProperties () const
	Return a pointer to the information properties object of the module. More...

const WBoolFlag &	isInitialized () const
	Determines whether the module instance is properly initialized. More...

const WBoolFlag &	isUseable () const
	Checks whether the module instance is ready to be used. More...

const WBoolFlag &	isAssociated () const
	Checks whether this module is associated with an container. More...

const WBoolFlag &	isReady () const
	Checks whether this module is ready. More...

const WBoolFlag &	isReadyOrCrashed () const
	This is the logical or of isReady and isCrashed. More...

const WBoolFlag &	isRunning () const
	Returns a flag denoting whether the thread currently is running or nor. More...

void	waitRestored ()
	This method waits for the module to be restored completely. More...

bool	isRestoreNeeded () const
	Check whether this module is in restore mode. More...

void	setRestoreNeeded (bool restore=true)
	Change the restore mode. More...

void	reportRestoreComplete ()
	Called by loaders to tell the module that loading has been completed. More...

std::shared_ptr< WModuleContainer >	getAssociatedContainer () const
	The container this module is associated with. More...

virtual boost::signals2::connection	subscribeSignal (MODULE_SIGNAL signal, t_ModuleGenericSignalHandlerType notifier)
	Connects a specified notify function with a signal this module instance is offering. More...

virtual boost::signals2::connection	subscribeSignal (MODULE_SIGNAL signal, t_ModuleErrorSignalHandlerType notifier)
	Connects a specified notify function with a signal this module instance is offering. More...

virtual std::shared_ptr< WProgressCombiner >	getRootProgressCombiner ()
	Gets the modules base progress. More...

virtual const char **	getXPMIcon () const
	Get the icon for this module in XPM format. More...

virtual MODULE_TYPE	getType () const
	Gets the type of the module. More...

void	disconnect ()
	Completely disconnects all connected connectors of this module. More...

WCombinerTypes::WDisconnectList	getPossibleDisconnections ()
	Gives a list of all WDisconnectCombiners possible. More...

boost::filesystem::path	getLocalPath () const
	Returns the local path of the module. More...

boost::filesystem::path	getLibPath () const
	Returns the absolute path to the library containing this module. More...

std::string	getPackageName () const
	Returns the name of the package the module belongs to, The package name basically is the name of the library containing this and maybe other modules. More...

bool	isDeprecated () const
	Checks whether the module was marked as deprecated. More...

std::string	getDeprecationMessage () const
	Queries the deprecation message of a module if specified. More...

virtual WModuleMetaInformation::ConstSPtr	getMetaInformation () const
	The meta information of this module. More...

const std::string &	getUUID () const
	Get the UUID of the module instance. More...

WPropString	getRuntimeName () const
	Returns the name the user has given this module. More...

const WRequirement *	checkRequirements () const
	This method checks whether all the requirements of the module are complied. More...

virtual boost::signals2::connection	subscribeSignal (THREAD_SIGNAL signal, t_ThreadErrorSignalHandlerType notifier)
	Connects a specified notify function with a signal this thread instance is offering. More...

Public Member Functions inherited from WThreadedRunner
	WThreadedRunner ()
	Default constructor. More...

virtual	~WThreadedRunner ()
	Destructor. More...

virtual void	run ()
	Run thread. More...

void	run (THREADFUNCTION f)
	Run thread. More...

void	wait (bool requestFinish=false)
	Wait for the thread to be finished. More...

virtual void	requestStop ()
	This method's purpose is to request a stop without waiting for it. More...

virtual boost::signals2::connection	subscribeSignal (THREAD_SIGNAL signal, t_ThreadErrorSignalHandlerType notifier)
	Connects a specified notify function with a signal this thread instance is offering. More...

const WBoolFlag &	isCrashed () const
	Checks whether this thread has been crashed. More...

const std::string &	getCrashMessage () const
	Get the message of the exception finally causing the crash. More...

void	setThreadName (std::string name)
	Set the name of the thread. More...

std::string	getThreadName () const
	Returns the current thread name. More...

Public Member Functions inherited from WPrototyped
	WPrototyped ()
	Default constructor. More...

virtual	~WPrototyped ()
	Destructor. More...

template<typename T >
bool	isA ()
	Checks whether the actual prototype has the specified runtime type. More...

Protected Member Functions
virtual void	moduleMain ()
	Entry point after loading the module. Runs in separate thread. More...

virtual void	connectors ()
	Initialize the connectors this module is using. More...

virtual void	properties ()
	Initialize the properties for this module. More...

Protected Member Functions inherited from WModule
void	threadMain ()
	Thread entry point. More...

virtual void	onThreadException (const WException &e)
	This method is called if an exception was caught, which came from the custom thread code. More...

void	setAssociatedContainer (std::shared_ptr< WModuleContainer > container)
	Sets the container this module is associated with. More...

virtual void	requirements ()
	Initialize requirements in this function. More...

virtual std::string	deprecated () const
	This function allows module programmers to mark their modules deprecated in a user-friendly way. More...

void	initialize ()
	Manages initialization. More...

virtual void	cleanup ()
	Called whenever the module should shutdown. More...

void	addConnector (std::shared_ptr< WModuleInputConnector > con)
	Adds the specified connector to the list of inputs. More...

void	addConnector (std::shared_ptr< WModuleOutputConnector > con)
	Adds the specified connector to the list of outputs. More...

void	removeConnectors ()
	Removes all connectors properly. More...

virtual void	activate ()
	Callback for m_active. More...

virtual const t_GenericSignalHandlerType	getSignalHandler (MODULE_CONNECTOR_SIGNAL signal)
	Gives the signal handler function responsible for a given signal. More...

virtual void	notifyConnectionEstablished (std::shared_ptr< WModuleConnector > here, std::shared_ptr< WModuleConnector > there)
	Gets called whenever a connector gets connected to the specified input. More...

virtual void	notifyConnectionClosed (std::shared_ptr< WModuleConnector > here, std::shared_ptr< WModuleConnector > there)
	Gets called whenever a connection between a remote and local connector gets closed. More...

virtual void	notifyDataChange (std::shared_ptr< WModuleConnector > input, std::shared_ptr< WModuleConnector > output)
	Gets called when the data on one input connector changed. More...

void	ready ()
	Call this whenever your module is ready and can react on property changes. More...

wlog::WStreamedLogger	infoLog () const
	Logger instance for comfortable info logging. More...

wlog::WStreamedLogger	debugLog () const
	Logger instance for comfortable debug logging. More...

wlog::WStreamedLogger	warnLog () const
	Logger instance for comfortable warning- logs. More...

wlog::WStreamedLogger	errorLog () const
	Logger instance for comfortable error logging. More...

void	setLocalPath (boost::filesystem::path path)
	Sets the local module path. More...

void	setLibPath (boost::filesystem::path path)
	Set the path to the library which contains this module. More...

void	setPackageName (std::string name)
	Set the package name. More...

Protected Member Functions inherited from WThreadedRunner
virtual void	notifyStop ()
	Gets called when the thread should be stopped. More...

void	yield () const
	Give remaining execution timeslice to another thread. More...

void	sleep (const int32_t t) const
	Sets thread asleep. More...

void	msleep (const int32_t t) const
	Sets thread asleep. More...

void	waitForStop ()
	Let the thread sleep until a stop request was given. More...

void	handleDeadlyException (const WException &e, std::string sender="WThreadedRunner")
	Handle the specified exception which was not caught in the thread, which basically means the thread has crashed. More...

Private Member Functions
void	initProperties ()
	updates property min/max values after loading a clustering file More...

bool	loadTree (boost::filesystem::path treeFile)
	loads the tree file into the tree object More...

void	initTreeData ()
	initializes properties depending on the specific tree structure loaded More...

void	colorBranch (const size_t &root, const WColor &color)
	recursive function that fills the display colors for a whole branch with a selected color More...

void	colorBranchCustom (const size_t &root, const WColor &color)
	recursive function that fills the display colors for a whole branch with a custom color from a scheme previously generated More...

void	initTexture ()
	creates a texture, assigning the colouring of the current partition to the respective seed voxels in the displayed anatomy texture. More...

void	renderCubeMesh ()
	renders the triangulated seed voxels More...

void	initWidgets ()
	inits the graphical widgets in the 3d scene More...

void	updateWidgets ()
	updates the graphical widgets in the 3d scene More...

bool	widgetClicked ()
	handles mouse clicks into the dendrogram More...

bool	dendrogramClick (const WVector2f &pos)
	handles clicks into the dendrogram More...

bool	dendrogramClickRight (const WVector2f &pos)
	handles right clicks into the dendrogram More...

void	updateSelection (const std::vector< WColor > &preloadedColors=std::vector< WColor >())
	after the active cluster list has changed this function updates the texture, cubeMesh, dendrogram and output More...

void	updateColors ()
	updates the selection colors More...

void	updateOutput2 ()
	updates the voxels coordinate output More...

void	writePartition ()
	writes partition selection(s) in an ascii file More...

void	initializeColorsSize ()
	Assigns a default color to each node travelling the tree top-down based on dividing first the biggest cluster where the biggest children keeps the color of the parent basing the algorithm on cluster size. More...

void	initializeColorsHdist ()
	Assigns a default color to each node travelling the tree top-down based on hierarchy where the biggest children keeps the color of the parent basing the algorithm on cluster size. More...

void	assignColorHierch (const size_t thisID, const WColor thisColor)
	Uses the provided node Id and color to update the current tree default coloring using hierarchical information up: each parent node will be recolored to this color as long as it is the biggest of the children down: the biggest child at each division will be also recolored to this. More...

void	clusterSelection ()
	manages cluster selection action response More...

void	colorAction ()
	manages action after the trigger of the color section has been pressed More...

void	addPartitions ()
	Adds partitions form current selections into the tree object. More...

void	recolorPartitions ()
	recolors added partitions from the tree object with current selection set of colors More...

Private Attributes
std::shared_ptr< WModuleInputData< WDataSetSingle > >	m_input
	An input connector that accepts order 1 datasets. More...

std::shared_ptr< WModuleOutputData< WDataSetVector > >	m_output
	An output connector for the output scalar dsataset. More...

std::shared_ptr< WModuleOutputData< WDataSetScalar > >	m_output2
	An output connector for the output coordinate vector. More...

std::shared_ptr< WDataSetVector >	m_outData
	This is a pointer to the current output1. More...

std::shared_ptr< WDataSetScalar >	m_outData2
	This is a pointer to the current output2. More...

osgWidget::WindowManager *	m_wm
	stores a pointer to the window manager used for osg wdgets and overlay stuff More...

osg::Camera *	m_camera
	stores the camera object More...

int	m_oldViewHeight
	stores the old viewport resolution height to check whether a resize happened More...

int	m_oldViewWidth
	stores the old viewport resolution width to check whether a resize happened More...

osg::ref_ptr< WGEGroupNode >	m_moduleNode
	Pointer to the modules group node. More...

osg::ref_ptr< WGEGroupNode >	m_dendrogramNode
	Pointer to the dendrogram group node. More...

osg::ref_ptr< WGEGroupNode >	m_meshNode
	Pointer to the cube mesh group node. More...

osg::ref_ptr< WGEShader >	m_shader
	The shader. More...

std::shared_ptr< WDataSetSingle >	m_anatomy
	This is a pointer to the anatomy dataset the module is currently working on. More...

osg::ref_ptr< osg::Texture3D >	m_texture
	stores a pointer to the texture we paint in (to overlay to anatomy) More...

std::vector< size_t >	m_textureLabels
	label vector for texture creation More...

std::shared_ptr< WGridRegular3D >	m_grid
	stores a pointer to the grid we use; More...

WHtree	m_tree
	stores the tree object as loaded from file; More...

bool	m_treeDirty
	true if the dendrogram needs redrawing More...

bool	m_labelsDirty
	true if the labels need redrawing More...

size_t	m_treeZoomRoot
	control variable for tree zoom mode More...

WNonBinDendroGeode *	m_dendrogramGeode
	stores the dendrogram geode More...

float	m_horizontalLine
	to draw a horizontal line when theres distance partition cutting More...

std::vector< WColor >	m_nodeColorsCustom
	stores preset color for every tree node, so clusters keep same color through different selection More...

std::vector< WColor >	m_treeDisplayColors
	stores a the current colors each tree node should be displayed, given the current selection More...

std::map< size_t, WColor >	m_selectionColors
	stores a the current colors each cluster should be displayed, given the current selection More...

std::map< size_t, WColor >	m_selectionColorsBackup
	stores a backup of m_selectionColors More...

std::vector< std::vector< size_t > >	m_clusterVoxels
	stores the contained seed voxel IDs for each cluster, increases speed for texture drawing More...

std::vector< size_t >	m_discardedVoxels
	stores the contained seed voxel IDs for discarded elements More...

std::vector< size_t >	m_selectionClusters
	stores the currently activated clusters More...

std::vector< size_t >	m_selectionLeaves
	stores the leaves output by the selection More...

std::shared_ptr< WTriangleMesh >	m_cubeMesh
	Cube-like triangulation of the seed voxels. More...

std::shared_ptr< WTriangleMesh >	m_discardedMesh
	Cube-like triangulation of the discarded voxels. More...

std::vector< osg::ref_ptr< WOSGButton > >	m_selectionLabels
	list of buttons for the active cluster selection More...

std::shared_ptr< WCondition >	m_propTriggerChange
	A condition used to notify about changes in several properties. More...

WPropGroup	m_groupInfoSelected
	grouping the selected info More...

WPropInt	m_infoSelectedID
	Info property: clusters in current partition. More...

WPropInt	m_infoSelectedSize
	Info property: clusters in current partition. More...

WPropInt	m_infoSelectedDistance
	Info property: clusters in current partition. More...

WPropGroup	m_groupInfoPartition
	grouping the partition info More...

WPropInt	m_infoPartNumber
	Info property: clusters in current partition. More...

WPropInt	m_infoPartActive
	Info property: active clusters in current partition. More...

WPropInt	m_infoPartLeaves
	Info property: leaf clusters in current partition. More...

WPropDouble	m_infoCutValue
	Info property: cut value for current partition. More...

WPropGroup	m_groupInfoTree
	grouping the tree info More...

WPropString	m_infoTreeName
	Info property: current tree name. More...

WPropInt	m_infoCountLeaves
	Info property: number of leaves. More...

WPropInt	m_infoCountNodes
	Info property: number of nodes. More...

WPropInt	m_infoCountDiscarded
	Info property: number of discarded voxels. More...

WPropInt	m_infoMaxLevel
	Info property: maximum hierarchical level. More...

WPropDouble	m_infoCpcc
	Info property: cpcc value. More...

WPropGroup	m_groupInfoMessage
	grouping the message info More...

WPropString	m_infoPartMessage
	Info property: partition output message. More...

WPropGroup	m_groupRead
	grouping the tree loading More...

WPropFilename	m_propReadFilename
	The tree file will be loaded form this directory. More...

WPropTrigger	m_propReadTreeTrigger
	This property triggers the actual reading of the tree file. More...

WPropGroup	m_groupDendrogram
	grouping the dendrogram manipulation properties More...

WPropBool	m_propShowDendrogram
	controls the display of the dendrogram overlay More...

WPropBool	m_propDendroPlotByLevel
	controls plotting the height of a join (1 plots the tree by hierarchical level, 0 by cluster distance) More...

WPropBool	m_propTriangleLeaves
	specifies a minimum size for a cluster so that too small cluster won't get an own color More...

WPropTrigger	m_propDendroZoomIn
	zoom into tree, sets m_treeZoom true and m_zoomRoot to the currently selected cluster More...

WPropTrigger	m_propDendroZoomOut
	zooms out, m_treeZoom = false, dendrogram shows the whole tree More...

std::shared_ptr< WItemSelection >	m_propDendroSideList
	A list of dendrogram positions. More...

WPropSelection	m_propDendroSideSelector
	Selection property for dendrogram positions. More...

WPropGroup	m_groupDendroManual
	grouping the dendrogram manual resizing properties More...

WPropInt	m_propDendroSizeX
	controls the width of the dendrogram More...

WPropInt	m_propDendroSizeY
	controls the height of the dendrogram More...

WPropInt	m_propDendroOffsetX
	controls the horizontal origin of the dendrogram More...

WPropInt	m_propDendroOffsetY
	controls the vertical origin of the dendrogram More...

WPropGroup	m_groupPartition
	grouping the different selection methods More...

WPropTrigger	m_propPartRoot
	triggers the selection of root cluster More...

WPropInt	m_propSourceCluster
	the current subtree root cluster More...

WPropSelection	m_propPartitionSelector
	Selection property for clusters. More...

std::shared_ptr< WItemSelection >	m_propPartitionSelectionList
	A list of cluster selection methods. More...

WPropSelection	m_propConditionSelector
	Selection condition for clusters. More...

std::shared_ptr< WItemSelection >	m_propConditionSelectionsList
	A list of condition selection methods. More...

WPropInt	m_propPartNumClusters
	number of clusters of the desired partition More...

WPropInt	m_propPartSizeValue
	size cut value for the desired partition More...

WPropInt	m_propPartSearchDepthValue
	depth of search for optimized partitioning More...

WPropDouble	m_propPartRelativeValue
	Relative size cut value for the desired partition. More...

WPropDouble	m_propPartDistanceValue
	distance cut value for the desired partition More...

WPropInt	m_propPartHlevelValue
	hierarchical level cut value for the desired partition More...

WPropInt	m_propPreloadPartitionNr
	predefined partition to load More...

WPropBool	m_propPartExcludeLeaves
	defines if base nodes will be subdivided or not More...

WPropTrigger	m_propDoPartition
	triggers the cluster selection update More...

WPropGroup	m_groupVisualization
	grouping the different visualization options More...

WPropInt	m_propSubselectedCluster
	the currently selected cluster More...

WPropColor	m_propSubselectedcolor
	color for subselected cluster More...

std::shared_ptr< WItemSelection >	m_propColorSchemeList
	List of color schemes. More...

WPropSelection	m_propColorSchemeSelector
	selection of color schemes More...

std::shared_ptr< WItemSelection >	m_propColorActionList
	List of color schemes. More...

WPropSelection	m_propColorActionSelector
	selection of color schemes More...

WPropTrigger	m_propColorActionTrigger
	shuffle current colors More...

WPropBool	m_propShowLabels
	show info labels for selected clusters More...

std::shared_ptr< WItemSelection >	m_propLabelList
	List of label contents. More...

WPropSelection	m_propLabelInfoSelector
	selection of info on button labels More...

WPropBool	m_propShowDiscarded
	visualize also discarded voxels More...

WPropBool	m_propShowCubeMesh
	visualize voxel cube triangulation More...

WPropBool	m_propBoundaries
	visualize only parcel boundaries More...

WPropColor	m_propDiscardedColor
	color for discarded voxels More...

WPropColor	m_propBoundaryColor
	color for cluster boundaries More...

WPropColor	m_propInactiveColor
	color for inactive mesh voxels More...

WPropGroup	m_groupTreeProcess
	grouping the different tree processing methods More...

WPropSelection	m_propProcessSelector
	Selection property for processing. More...

std::shared_ptr< WItemSelection >	m_propProcessSelectionsList
	A list of cluster selection methods. More...

WPropInt	m_propSafeSize
	maximum size to be pruned More...

WPropInt	m_propPruneJoinSize
	join size for pruning process More...

WPropDouble	m_propPruneSizeRatio
	size ratio for pruning process More...

WPropDouble	m_propDistanceGap
	distance gap for prunin process More...

WPropDouble	m_propFlatLimit
	distance gap for prunin process More...

WPropBool	m_propKeepBases
	dont debinarize basenodes More...

WPropInt	m_propSmoothSize
	desired cluster size fro smoothing More...

WPropInt	m_propPrunedNumber
	number of leaves to be pruned by random pruning More...

WPropInt	m_propPrunedSeed
	rng seed for random pruning More...

WPropInt	m_propCoarseRatio
	ratio of decimation More...

WPropTrigger	m_propDoProcessing
	triggers the tree processing More...

WPropGroup	m_groupSavedPartition
	grouping the partition options More...

WPropTrigger	m_propAddPartTrigger
	This property triggers the inclusion in the tree of the current partition. More...

WPropTrigger	m_propRecolorPartTrigger
	This property triggers the recoloring partition of the current partitions. More...

WPropTrigger	m_propClearPartsTrigger
	This property triggers the clearing of current partitions in the tree. More...

WPropGroup	m_groupWrite
	grouping the tree writing More...

WPropFilename	m_propWriteTreeFilename
	The tree file will be written to this location. More...

WPropTrigger	m_propWriteTreeTrigger
	This property triggers the actual writing of the tree file. More...

WPropFilename	m_propPartitionFile
	The partition file will be written to this location. More...

WPropTrigger	m_propPartitionsTrigger
	This property triggers the actual writing of the partition file. More...

Additional Inherited Members
Public Types inherited from WModule
typedef std::vector< std::shared_ptr< WModuleInputConnector > >	InputConnectorList
	The type for the list of input connectors. More...

typedef std::vector< std::shared_ptr< WModuleOutputConnector > >	OutputConnectorList
	The type for the list of output connectors. More...

typedef std::shared_ptr< WModule >	SPtr
	Shared pointer to a WModule. More...

typedef std::shared_ptr< const WModule >	ConstSPtr
	Shared pointer to a const WModule. More...

Public Types inherited from WThreadedRunner
typedef std::shared_ptr< WThreadedRunner >	SPtr
	Abbreviation to a shared_ptr to this type. More...

typedef std::shared_ptr< const WThreadedRunner >	ConstSPtr
	Abbreviation to a const shared_ptr to this type. More...

typedef boost::function< void(void) >	THREADFUNCTION
	Type used for simple thread functions. More...

Static Public Member Functions inherited from WModule
static SPtr	findByUUID (std::string uuid)
	Find a module instance by UUID. More...

Static Public Member Functions inherited from WThreadedRunner
static void	setThisThreadName (std::string name)
	Static function to set the name of the calling thread. More...

Protected Types inherited from WModule
typedef std::vector< WRequirement * >	Requirements
	The type of the requirement list. More...

Protected Attributes inherited from WModule
std::shared_ptr< WProperties >	m_properties
	The property object for the module. More...

std::shared_ptr< WProperties >	m_infoProperties
	The property object for the module containing only module whose purpose is "PV_PURPOSE_INFORMNATION". More...

std::shared_ptr< WProgressCombiner >	m_progress
	Progress indicator used as parent for all progress' of this module. More...

WBoolFlag	m_initialized
	True if everything is initialized and ready to be used. More...

WBoolFlag	m_isAssociated
	True if container got associated with this flag. More...

WBoolFlag	m_isUsable
	True if associated && initialized. More...

WBoolFlag	m_isReady
	True if ready() was called. More...

WBoolFlag	m_isReadyOrCrashed
	It is true whenever m_isReady or WThreadedRunner::m_isCrashed is true. More...

WBoolFlag	m_isRunning
	True if the module currently is running. More...

WBoolFlag	m_isLoadFinished
	Flag to denote whether the module container and the project loader have finished their work. More...

bool	m_restoreMode
	Flag denoting the current restore mode. More...

std::shared_ptr< WProgress >	m_readyProgress
	Progress indicator for the "ready" state. More...

WConditionSet	m_moduleState
	The internal state of the module. More...

std::shared_ptr< WModuleContainer >	m_container
	The container this module belongs to. More...

InputConnectorList	m_inputConnectors
	Set of input connectors associated with this module. More...

OutputConnectorList	m_outputConnectors
	Set of output connectors associated with this module. More...

WPropBool	m_active
	True whenever the module should be active. More...

WPropString	m_runtimeName
	This property holds a user specified name for the current module instance. More...

boost::filesystem::path	m_localPath
	The path where the module binary resides in. More...

boost::filesystem::path	m_libPath
	The absolute path to the library containing this module. More...

std::string	m_packageName
	The name of the lib/the package containing this module. More...

Requirements	m_requirements
	The list of requirements. More...

Protected Attributes inherited from WThreadedRunner
boost::thread	m_thread
	Thread instance. More...

WBoolFlag	m_shutdownFlag
	Condition getting fired whenever the thread should quit. More...

WBoolFlag	m_isCrashed
	True whenever an exception is thrown during threadMain. More...

std::string	m_crashMessage
	The crash message. More...

Detailed Description

Module to explore hierarchical parcellations of brain data The module loads a tree file from disk, and allows tree processing, visualization of seed voxel locations onto anatomy image exploration of the hierarchical tree, partition selection, and along with partition2Mesh module the projection of partitions back to the brain surface.

Definition at line 92 of file WMHierchClustDisplay.h.

Constructor & Destructor Documentation

◆ WMHierchClustDisplay()

WMHierchClustDisplay::WMHierchClustDisplay ( )

Constructor.

Definition at line 105 of file WMHierchClustDisplay.cpp.

Referenced by factory().

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◆ ~WMHierchClustDisplay()

WMHierchClustDisplay::~WMHierchClustDisplay ( )

virtual

Destructor.

Definition at line 114 of file WMHierchClustDisplay.cpp.

Member Function Documentation

◆ addPartitions()

void WMHierchClustDisplay::addPartitions ( )

private

Adds partitions form current selections into the tree object.

Definition at line 2499 of file WMHierchClustDisplay.cpp.

References WHnode::getID(), WHtree::getRoot(), WHtree::getSelectedColors(), WHtree::getSelectedPartitions(), WHtree::getSelectedValues(), WModule::infoLog(), WHtree::insertPartitions(), m_horizontalLine, m_propAddPartTrigger, m_propPreloadPartitionNr, m_selectionClusters, m_selectionColorsBackup, m_tree, and WPVBaseTypes::PV_TRIGGER_READY.

Referenced by moduleMain().

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◆ assignColorHierch()

void WMHierchClustDisplay::assignColorHierch	(	const size_t	thisID,
		const WColor	thisColor
	)

private

Uses the provided node Id and color to update the current tree default coloring using hierarchical information up: each parent node will be recolored to this color as long as it is the biggest of the children down: the biggest child at each division will be also recolored to this.

Parameters

thisID	ID of the reference node
thisColor	color of the reference node

Definition at line 682 of file WMHierchClustDisplay.cpp.

References WHnode::getChildren(), WHnode::getHLevel(), WHtree::getNode(), WHnode::getParent(), WHnode::isRoot(), m_nodeColorsCustom, m_tree, and WHtree::sortBySize().

Referenced by colorAction().

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◆ clusterSelection()

void WMHierchClustDisplay::clusterSelection ( )

private

manages cluster selection action response

Definition at line 2221 of file WMHierchClustDisplay.cpp.

References WHnode::getHLevel(), WHtree::getNode(), wge::getNthHSVColor(), WHtree::getSelectedColors(), WHtree::getSelectedPartitions(), WHtree::getSelectedValues(), WHnode::getSize(), WModule::infoLog(), m_horizontalLine, m_infoCutValue, m_infoPartActive, m_infoPartLeaves, m_infoPartMessage, m_infoPartNumber, WModule::m_progress, m_propConditionSelector, m_propDoPartition, m_propPartDistanceValue, m_propPartExcludeLeaves, m_propPartHlevelValue, m_propPartitionSelector, m_propPartNumClusters, m_propPartRelativeValue, m_propPartSearchDepthValue, m_propPartSizeValue, m_propPreloadPartitionNr, m_propSourceCluster, m_selectionClusters, m_selectionLeaves, m_tree, WHtreePartition::partitionClassic(), WHtreePartition::partitionOptimized(), WHtreePartition::partitionSharp(), WPVBaseTypes::PV_TRIGGER_READY, string_utils::toString(), and updateSelection().

Referenced by moduleMain().

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◆ colorAction()

void WMHierchClustDisplay::colorAction ( )

private

manages action after the trigger of the color section has been pressed

Definition at line 2411 of file WMHierchClustDisplay.cpp.

References assignColorHierch(), initializeColorsHdist(), initializeColorsSize(), m_labelsDirty, m_nodeColorsCustom, m_propColorActionSelector, m_propColorActionTrigger, m_propColorSchemeList, m_propColorSchemeSelector, m_propSubselectedCluster, m_propSubselectedcolor, m_selectionColors, m_selectionColorsBackup, WPVBaseTypes::PV_TRIGGER_READY, updateColors(), and updateSelection().

Referenced by moduleMain().

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◆ colorBranch()

void WMHierchClustDisplay::colorBranch	(	const size_t &	root,
		const WColor &	color
	)

private

recursive function that fills the display colors for a whole branch with a selected color

Parameters

root	cluster to work on
color	color to paint

Definition at line 1882 of file WMHierchClustDisplay.cpp.

References WHnode::getChildren(), WHnode::getHLevel(), WHtree::getNode(), m_tree, and m_treeDisplayColors.

Referenced by updateColors().

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◆ colorBranchCustom()

void WMHierchClustDisplay::colorBranchCustom	(	const size_t &	root,
		const WColor &	color
	)

private

recursive function that fills the display colors for a whole branch with a custom color from a scheme previously generated

Parameters

root	cluster to work on
color	color to paint

Definition at line 1903 of file WMHierchClustDisplay.cpp.

References WHnode::getChildren(), WHnode::getHLevel(), WHtree::getNode(), m_nodeColorsCustom, and m_tree.

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◆ connectors()

void WMHierchClustDisplay::connectors ( )

protectedvirtual

Initialize the connectors this module is using.

Reimplemented from WModule.

Definition at line 138 of file WMHierchClustDisplay.cpp.

References WModule::addConnector(), WModule::connectors(), m_input, m_output, and m_output2.

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◆ dendrogramClick()

bool WMHierchClustDisplay::dendrogramClick ( const WVector2f & pos )

private

handles clicks into the dendrogram

Parameters

pos	the mouse position during the click

Returns: true if it handled the click

Definition at line 1817 of file WMHierchClustDisplay.cpp.

References WNonBinDendroGeode::getClickedCluster(), WNonBinDendroGeode::inDendrogramArea(), WHtree::isLoaded(), m_dendrogramGeode, m_propShowDendrogram, m_propSourceCluster, m_tree, and m_treeZoomRoot.

Referenced by moduleMain().

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◆ dendrogramClickRight()

bool WMHierchClustDisplay::dendrogramClickRight ( const WVector2f & pos )

private

handles right clicks into the dendrogram

Parameters

pos	the mouse position during the click

Returns: true if it handled the click

Definition at line 1844 of file WMHierchClustDisplay.cpp.

References WNonBinDendroGeode::getClickedCluster(), WNonBinDendroGeode::inDendrogramArea(), WHtree::isLoaded(), m_dendrogramGeode, m_labelsDirty, m_propShowDendrogram, m_propSubselectedCluster, m_propSubselectedcolor, m_selectionClusters, m_selectionColors, m_selectionColorsBackup, m_tree, m_treeZoomRoot, and updateColors().

Referenced by moduleMain().

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◆ factory()

std::shared_ptr< WModule > WMHierchClustDisplay::factory ( ) const

virtual

new instance of this module Due to the prototype design pattern used to build modules, this method returns a new instance of this method.

NOTE: it should never be initialized or modified in some other way. A simple new instance is required.

Returns: the prototype used to create every module in OpenWalnut.

Implements WModule.

Definition at line 119 of file WMHierchClustDisplay.cpp.

References WMHierchClustDisplay().

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◆ getDescription()

const std::string WMHierchClustDisplay::getDescription ( ) const

virtual

Gives back a description of this module.

Returns: module description.

Implements WPrototyped.

Definition at line 131 of file WMHierchClustDisplay.cpp.

◆ getName()

const std::string WMHierchClustDisplay::getName ( ) const

virtual

Gives back the name of this module.

Returns: the module's name.

Implements WPrototyped.

Definition at line 125 of file WMHierchClustDisplay.cpp.

◆ initializeColorsHdist()

void WMHierchClustDisplay::initializeColorsHdist ( )

private

Assigns a default color to each node travelling the tree top-down based on hierarchy where the biggest children keeps the color of the parent basing the algorithm on cluster size.

Definition at line 725 of file WMHierchClustDisplay.cpp.

References WHnode::getChildren(), WHnode::getHLevel(), WHtree::getNode(), wge::getNthHSVColor(), WHtree::getNumNodes(), m_nodeColorsCustom, m_tree, and WHtree::sortBySize().

Referenced by colorAction().

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◆ initializeColorsSize()

void WMHierchClustDisplay::initializeColorsSize ( )

private

Assigns a default color to each node travelling the tree top-down based on dividing first the biggest cluster where the biggest children keeps the color of the parent basing the algorithm on cluster size.

Definition at line 763 of file WMHierchClustDisplay.cpp.

References WHnode::getChildren(), WHnode::getHLevel(), WHtree::getNode(), wge::getNthHSVColor(), WHtree::getNumNodes(), m_nodeColorsCustom, m_tree, and WHtree::sortBySize().

Referenced by colorAction(), and initTreeData().

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◆ initProperties()

void WMHierchClustDisplay::initProperties ( )

private

updates property min/max values after loading a clustering file

Definition at line 447 of file WMHierchClustDisplay.cpp.

References WHtree::getCpcc(), WHnode::getDistLevel(), WHnode::getHLevel(), WHnode::getID(), WHtree::getName(), WHtree::getNode(), WHtree::getNumDiscarded(), WHtree::getNumLeaves(), WHtree::getNumNodes(), WHtree::getRoot(), WHtree::getRootBaseNodes(), WHtree::getSelectedValues(), WHnode::getSize(), WModule::infoLog(), m_groupDendrogram, m_groupDendroManual, m_groupPartition, m_groupRead, m_groupSavedPartition, m_groupTreeProcess, m_groupVisualization, m_groupWrite, m_horizontalLine, m_infoCountDiscarded, m_infoCountLeaves, m_infoCountNodes, m_infoCpcc, m_infoCutValue, m_infoMaxLevel, m_infoPartActive, m_infoPartLeaves, m_infoPartMessage, m_infoPartNumber, m_infoSelectedID, m_infoSelectedSize, m_infoTreeName, m_labelsDirty, m_propBoundaries, m_propBoundaryColor, m_propColorActionList, m_propColorActionSelector, m_propColorSchemeList, m_propColorSchemeSelector, m_propConditionSelectionsList, m_propConditionSelector, m_propDendroPlotByLevel, m_propDendroSideList, m_propDendroSideSelector, m_propDiscardedColor, m_propDistanceGap, m_propFlatLimit, m_propInactiveColor, m_propKeepBases, m_propLabelInfoSelector, m_propLabelList, m_propPartDistanceValue, m_propPartExcludeLeaves, m_propPartHlevelValue, m_propPartitionSelectionList, m_propPartitionSelector, m_propPartNumClusters, m_propPartRelativeValue, m_propPartSearchDepthValue, m_propPartSizeValue, m_propPreloadPartitionNr, m_propProcessSelectionsList, m_propProcessSelector, m_propPrunedNumber, m_propPrunedSeed, m_propPruneJoinSize, m_propPruneSizeRatio, m_propSafeSize, m_propShowCubeMesh, m_propShowDendrogram, m_propShowDiscarded, m_propShowLabels, m_propSourceCluster, m_propSubselectedCluster, m_propTriangleLeaves, m_selectionClusters, m_selectionColors, m_selectionColorsBackup, m_selectionLeaves, m_tree, m_treeDirty, m_treeDisplayColors, m_treeZoomRoot, WHnode::printAllData(), and WHtree::sortBySize().

Referenced by moduleMain().

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◆ initTexture()

void WMHierchClustDisplay::initTexture ( )

private

creates a texture, assigning the colouring of the current partition to the respective seed voxels in the displayed anatomy texture.

(makes the partitioning visivle in the slide view (usually T1 )

Definition at line 810 of file WMHierchClustDisplay.cpp.

References WDataHandler::getDefaultSubject(), WKernel::getRunningKernel(), WKernel::getSelectionManager(), WModule::infoLog(), m_grid, WModule::m_progress, m_texture, and m_textureLabels.

Referenced by moduleMain().

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◆ initTreeData()

void WMHierchClustDisplay::initTreeData ( )

private

initializes properties depending on the specific tree structure loaded

Definition at line 603 of file WMHierchClustDisplay.cpp.

References WHtree::convert2grid(), WMarchingLegoAlgorithm::genSurfaceOneValue(), WHtree::getCoordinates4node(), WHtree::getDiscarded(), WHtree::getNumNodes(), WModule::infoLog(), initializeColorsSize(), m_clusterVoxels, m_cubeMesh, m_discardedMesh, m_discardedVoxels, m_grid, WModule::m_progress, m_tree, m_treeDisplayColors, and updateOutput2().

Referenced by moduleMain().

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◆ initWidgets()

void WMHierchClustDisplay::initWidgets ( )

private

inits the graphical widgets in the 3d scene

Definition at line 398 of file WMHierchClustDisplay.cpp.

References WKernel::getGraphicsEngine(), WKernel::getRunningKernel(), WModule::m_active, m_camera, m_dendrogramNode, WModule::m_localPath, m_meshNode, m_moduleNode, m_oldViewHeight, m_oldViewWidth, m_shader, m_wm, and updateWidgets().

Referenced by moduleMain().

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◆ loadTree()

bool WMHierchClustDisplay::loadTree ( boost::filesystem::path treeFile )

private

loads the tree file into the tree object

Parameters

treeFile the tree file path

Returns: true if the tree was successfully loaded, false otherwise

◆ moduleMain()

void WMHierchClustDisplay::moduleMain ( )

protectedvirtual

Entry point after loading the module. Runs in separate thread.

Implements WModule.

Definition at line 850 of file WMHierchClustDisplay.cpp.

References WConditionSet::add(), addPartitions(), WHtree::clearPartitions(), clusterSelection(), WHtreeProcesser::collapseTreeLinear(), colorAction(), dendrogramClick(), dendrogramClickRight(), WHtreeProcesser::flattenSelection(), WHnode::getDistLevel(), WKernel::getGraphicsEngine(), WHnode::getHLevel(), WHnode::getID(), WHtree::getName(), WHtree::getNode(), WHtree::getNumLeaves(), WHtree::getNumNodes(), WHtree::getRoot(), WKernel::getRunningKernel(), WHnode::getSize(), WModule::infoLog(), initProperties(), initTexture(), initTreeData(), initWidgets(), WModule::m_active, m_anatomy, m_grid, m_groupDendroManual, m_horizontalLine, m_infoCutValue, m_infoPartActive, m_infoPartLeaves, m_infoPartMessage, m_infoPartNumber, m_input, m_labelsDirty, m_moduleNode, WModule::m_moduleState, WModule::m_progress, m_propAddPartTrigger, m_propBoundaries, m_propBoundaryColor, m_propClearPartsTrigger, m_propColorActionTrigger, m_propColorSchemeSelector, m_propConditionSelectionsList, m_propConditionSelector, m_propDendroOffsetX, m_propDendroOffsetY, m_propDendroPlotByLevel, m_propDendroSideSelector, m_propDendroSizeX, m_propDendroSizeY, m_propDendroZoomIn, m_propDendroZoomOut, m_propDiscardedColor, m_propDistanceGap, m_propDoPartition, m_propDoProcessing, m_propFlatLimit, m_propInactiveColor, m_propKeepBases, m_propLabelInfoSelector, m_propPartDistanceValue, m_propPartHlevelValue, m_propPartitionSelector, m_propPartitionsTrigger, m_propPartNumClusters, m_propPartRelativeValue, m_propPartRoot, m_propPartSearchDepthValue, m_propPartSizeValue, m_propPreloadPartitionNr, m_propProcessSelector, m_propPrunedNumber, m_propPrunedSeed, m_propPruneJoinSize, m_propPruneSizeRatio, m_propReadFilename, m_propReadTreeTrigger, m_propRecolorPartTrigger, m_propSafeSize, m_propShowCubeMesh, m_propShowDendrogram, m_propShowDiscarded, m_propShowLabels, m_propSourceCluster, m_propSubselectedCluster, m_propSubselectedcolor, m_propTriangleLeaves, m_propTriggerChange, m_propWriteTreeFilename, m_propWriteTreeTrigger, m_selectionClusters, m_selectionColors, WThreadedRunner::m_shutdownFlag, m_tree, m_treeDirty, m_treeZoomRoot, WHtreeProcesser::pruneRandom(), WHtreeProcesser::pruneSelection(), WHtreeProcesser::pruneTree(), WPVBaseTypes::PV_TRIGGER_READY, WPVBaseTypes::PV_TRIGGER_TRIGGERED, WHtree::readTree(), WModule::ready(), recolorPartitions(), renderCubeMesh(), WConditionSet::setResetable(), string_utils::toString(), updateColors(), updateOutput2(), updateSelection(), WConditionSet::wait(), writePartition(), and WHtree::writeTree().

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◆ properties()

void WMHierchClustDisplay::properties ( )

protectedvirtual

Initialize the properties for this module.

Reimplemented from WModule.

Definition at line 156 of file WMHierchClustDisplay.cpp.

References WPropertyHelper::PC_SELECTONLYONE::addTo(), m_groupDendrogram, m_groupDendroManual, m_groupInfoMessage, m_groupInfoPartition, m_groupInfoSelected, m_groupInfoTree, m_groupPartition, m_groupRead, m_groupSavedPartition, m_groupTreeProcess, m_groupVisualization, m_groupWrite, m_infoCountDiscarded, m_infoCountLeaves, m_infoCountNodes, m_infoCpcc, m_infoCutValue, m_infoMaxLevel, m_infoPartActive, m_infoPartLeaves, m_infoPartMessage, m_infoPartNumber, WModule::m_infoProperties, m_infoSelectedDistance, m_infoSelectedID, m_infoSelectedSize, m_infoTreeName, m_propAddPartTrigger, m_propBoundaries, m_propBoundaryColor, m_propClearPartsTrigger, m_propColorActionList, m_propColorActionSelector, m_propColorActionTrigger, m_propColorSchemeList, m_propColorSchemeSelector, m_propConditionSelectionsList, m_propConditionSelector, m_propDendroOffsetX, m_propDendroOffsetY, m_propDendroPlotByLevel, m_propDendroSideList, m_propDendroSideSelector, m_propDendroSizeX, m_propDendroSizeY, m_propDendroZoomIn, m_propDendroZoomOut, m_propDiscardedColor, m_propDistanceGap, m_propDoPartition, m_propDoProcessing, WModule::m_properties, m_propFlatLimit, m_propInactiveColor, m_propKeepBases, m_propLabelInfoSelector, m_propLabelList, m_propPartDistanceValue, m_propPartExcludeLeaves, m_propPartHlevelValue, m_propPartitionFile, m_propPartitionSelectionList, m_propPartitionSelector, m_propPartitionsTrigger, m_propPartNumClusters, m_propPartRelativeValue, m_propPartRoot, m_propPartSearchDepthValue, m_propPartSizeValue, m_propPreloadPartitionNr, m_propProcessSelectionsList, m_propProcessSelector, m_propPrunedNumber, m_propPrunedSeed, m_propPruneJoinSize, m_propPruneSizeRatio, m_propReadFilename, m_propReadTreeTrigger, m_propRecolorPartTrigger, m_propSafeSize, m_propShowCubeMesh, m_propShowDendrogram, m_propShowDiscarded, m_propShowLabels, m_propSourceCluster, m_propSubselectedCluster, m_propSubselectedcolor, m_propTriangleLeaves, m_propTriggerChange, m_propWriteTreeFilename, m_propWriteTreeTrigger, WModule::properties(), and WPVBaseTypes::PV_TRIGGER_READY.

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◆ recolorPartitions()

void WMHierchClustDisplay::recolorPartitions ( )

private

recolors added partitions from the tree object with current selection set of colors

Definition at line 2546 of file WMHierchClustDisplay.cpp.

References WHtree::getSelectedColors(), WHtree::getSelectedPartitions(), WHtree::getSelectedValues(), WModule::infoLog(), WHtree::insertPartitions(), m_nodeColorsCustom, m_propRecolorPartTrigger, m_tree, and WPVBaseTypes::PV_TRIGGER_READY.

Referenced by moduleMain().

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◆ renderCubeMesh()

void WMHierchClustDisplay::renderCubeMesh ( )

private

renders the triangulated seed voxels

Definition at line 1468 of file WMHierchClustDisplay.cpp.

References WHtree::getNumNodes(), m_cubeMesh, m_discardedMesh, m_grid, m_meshNode, WModule::m_progress, m_propBoundaryColor, m_propDiscardedColor, m_propInactiveColor, m_propShowCubeMesh, m_propShowDiscarded, m_selectionColors, m_textureLabels, and m_tree.

Referenced by moduleMain().

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◆ updateColors()

void WMHierchClustDisplay::updateColors ( )

private

updates the selection colors

Definition at line 1995 of file WMHierchClustDisplay.cpp.

References colorBranch(), WHnode::getID(), WHtree::getNumNodes(), WHtree::getRoot(), m_anatomy, m_clusterVoxels, m_discardedVoxels, m_grid, WModule::m_progress, m_propBoundaries, m_propBoundaryColor, m_propDiscardedColor, m_propShowDiscarded, m_selectionColors, m_texture, m_textureLabels, and m_tree.

Referenced by colorAction(), dendrogramClickRight(), moduleMain(), updateSelection(), and updateWidgets().

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◆ updateOutput2()

void WMHierchClustDisplay::updateOutput2 ( )

private

updates the voxels coordinate output

Definition at line 2155 of file WMHierchClustDisplay.cpp.

References WHtree::getDiscarded(), WHtree::getRoi(), WModule::m_progress, m_propShowDiscarded, and m_tree.

Referenced by initTreeData(), and moduleMain().

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◆ updateSelection()

void WMHierchClustDisplay::updateSelection ( const std::vector< WColor > & preloadedColors = std::vector< WColor >() )

private

after the active cluster list has changed this function updates the texture, cubeMesh, dendrogram and output

Parameters

preloadedColors a vector with cluster colors preloaded form the tree file

Definition at line 1925 of file WMHierchClustDisplay.cpp.

References wge::getNthHSVColor(), WModule::infoLog(), m_labelsDirty, m_nodeColorsCustom, WModule::m_progress, m_propColorSchemeSelector, m_selectionClusters, m_selectionColors, m_selectionColorsBackup, m_tree, WHtree::sortBySize(), and updateColors().

Referenced by clusterSelection(), colorAction(), and moduleMain().

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◆ updateWidgets()

void WMHierchClustDisplay::updateWidgets ( )

private

updates the graphical widgets in the 3d scene

Definition at line 1648 of file WMHierchClustDisplay.cpp.

References WHnode::getDistLevel(), WKernel::getGraphicsEngine(), WHnode::getHLevel(), WHnode::getID(), WHtree::getNode(), WKernel::getRunningKernel(), WHnode::getSize(), m_camera, m_dendrogramGeode, m_horizontalLine, m_labelsDirty, m_oldViewHeight, m_oldViewWidth, WModule::m_progress, m_propDendroOffsetX, m_propDendroOffsetY, m_propDendroPlotByLevel, m_propDendroSideSelector, m_propDendroSizeX, m_propDendroSizeY, m_propLabelInfoSelector, m_propShowDendrogram, m_propShowLabels, m_propSubselectedCluster, m_propSubselectedcolor, m_propTriangleLeaves, m_selectionColors, m_selectionColorsBackup, m_selectionLabels, m_tree, m_treeDirty, m_treeDisplayColors, m_treeZoomRoot, m_wm, and updateColors().

Referenced by initWidgets().

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◆ widgetClicked()

bool WMHierchClustDisplay::widgetClicked ( )

private

handles mouse clicks into the dendrogram

Returns: true if handled

◆ writePartition()

void WMHierchClustDisplay::writePartition ( )

private

writes partition selection(s) in an ascii file

Definition at line 2192 of file WMHierchClustDisplay.cpp.

References WModule::errorLog(), WHtree::getCoordinates4node(), WHnode::getID(), WHtree::getNode(), WModule::infoLog(), m_propPartitionFile, m_selectionClusters, and m_tree.

Referenced by moduleMain().

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Member Data Documentation

◆ m_anatomy

std::shared_ptr< WDataSetSingle > WMHierchClustDisplay::m_anatomy

private

This is a pointer to the anatomy dataset the module is currently working on.

Definition at line 331 of file WMHierchClustDisplay.h.

Referenced by moduleMain(), and updateColors().

◆ m_camera

osg::Camera* WMHierchClustDisplay::m_camera

private

stores the camera object

Definition at line 318 of file WMHierchClustDisplay.h.

Referenced by initWidgets(), and updateWidgets().

◆ m_clusterVoxels

std::vector<std::vector<size_t> > WMHierchClustDisplay::m_clusterVoxels

private

stores the contained seed voxel IDs for each cluster, increases speed for texture drawing

Definition at line 349 of file WMHierchClustDisplay.h.

Referenced by initTreeData(), and updateColors().

◆ m_cubeMesh

std::shared_ptr< WTriangleMesh > WMHierchClustDisplay::m_cubeMesh

private

Cube-like triangulation of the seed voxels.

Definition at line 355 of file WMHierchClustDisplay.h.

Referenced by initTreeData(), and renderCubeMesh().

◆ m_dendrogramGeode

WNonBinDendroGeode* WMHierchClustDisplay::m_dendrogramGeode

private

stores the dendrogram geode

Definition at line 341 of file WMHierchClustDisplay.h.

Referenced by dendrogramClick(), dendrogramClickRight(), and updateWidgets().

◆ m_dendrogramNode

osg::ref_ptr< WGEGroupNode > WMHierchClustDisplay::m_dendrogramNode

private

Pointer to the dendrogram group node.

Definition at line 323 of file WMHierchClustDisplay.h.

Referenced by initWidgets().

◆ m_discardedMesh

std::shared_ptr< WTriangleMesh > WMHierchClustDisplay::m_discardedMesh

private

Cube-like triangulation of the discarded voxels.

Definition at line 356 of file WMHierchClustDisplay.h.

Referenced by initTreeData(), and renderCubeMesh().

◆ m_discardedVoxels

std::vector<size_t> WMHierchClustDisplay::m_discardedVoxels

private

stores the contained seed voxel IDs for discarded elements

Definition at line 350 of file WMHierchClustDisplay.h.

Referenced by initTreeData(), and updateColors().

◆ m_grid

std::shared_ptr< WGridRegular3D > WMHierchClustDisplay::m_grid

private

stores a pointer to the grid we use;

Definition at line 334 of file WMHierchClustDisplay.h.

Referenced by initTexture(), initTreeData(), moduleMain(), renderCubeMesh(), and updateColors().

◆ m_groupDendrogram

WPropGroup WMHierchClustDisplay::m_groupDendrogram

private

grouping the dendrogram manipulation properties

Definition at line 390 of file WMHierchClustDisplay.h.

Referenced by initProperties(), and properties().

◆ m_groupDendroManual

WPropGroup WMHierchClustDisplay::m_groupDendroManual

private

grouping the dendrogram manual resizing properties

Definition at line 398 of file WMHierchClustDisplay.h.

Referenced by initProperties(), moduleMain(), and properties().

◆ m_groupInfoMessage

WPropGroup WMHierchClustDisplay::m_groupInfoMessage

private

grouping the message info

Definition at line 383 of file WMHierchClustDisplay.h.

Referenced by properties().

◆ m_groupInfoPartition

WPropGroup WMHierchClustDisplay::m_groupInfoPartition

private

grouping the partition info

Definition at line 369 of file WMHierchClustDisplay.h.

Referenced by properties().

◆ m_groupInfoSelected

WPropGroup WMHierchClustDisplay::m_groupInfoSelected

private

grouping the selected info

Definition at line 364 of file WMHierchClustDisplay.h.

Referenced by properties().

◆ m_groupInfoTree

WPropGroup WMHierchClustDisplay::m_groupInfoTree

private

grouping the tree info

Definition at line 375 of file WMHierchClustDisplay.h.

Referenced by properties().

◆ m_groupPartition

WPropGroup WMHierchClustDisplay::m_groupPartition

private

grouping the different selection methods

Definition at line 404 of file WMHierchClustDisplay.h.

Referenced by initProperties(), and properties().

◆ m_groupRead

WPropGroup WMHierchClustDisplay::m_groupRead

private

grouping the tree loading

Definition at line 386 of file WMHierchClustDisplay.h.

Referenced by initProperties(), and properties().

◆ m_groupSavedPartition

WPropGroup WMHierchClustDisplay::m_groupSavedPartition

private

grouping the partition options

Definition at line 454 of file WMHierchClustDisplay.h.

Referenced by initProperties(), and properties().

◆ m_groupTreeProcess

WPropGroup WMHierchClustDisplay::m_groupTreeProcess

private

grouping the different tree processing methods

Definition at line 439 of file WMHierchClustDisplay.h.

Referenced by initProperties(), and properties().

◆ m_groupVisualization

WPropGroup WMHierchClustDisplay::m_groupVisualization

private

grouping the different visualization options

Definition at line 421 of file WMHierchClustDisplay.h.

Referenced by initProperties(), and properties().

◆ m_groupWrite

WPropGroup WMHierchClustDisplay::m_groupWrite

private

grouping the tree writing

Definition at line 459 of file WMHierchClustDisplay.h.

Referenced by initProperties(), and properties().

◆ m_horizontalLine

float WMHierchClustDisplay::m_horizontalLine

private

to draw a horizontal line when theres distance partition cutting

Definition at line 342 of file WMHierchClustDisplay.h.

Referenced by addPartitions(), clusterSelection(), initProperties(), moduleMain(), and updateWidgets().

◆ m_infoCountDiscarded

WPropInt WMHierchClustDisplay::m_infoCountDiscarded

private

Info property: number of discarded voxels.

Definition at line 379 of file WMHierchClustDisplay.h.

Referenced by initProperties(), and properties().

◆ m_infoCountLeaves

WPropInt WMHierchClustDisplay::m_infoCountLeaves

private

Info property: number of leaves.

Definition at line 377 of file WMHierchClustDisplay.h.

Referenced by initProperties(), and properties().

◆ m_infoCountNodes

WPropInt WMHierchClustDisplay::m_infoCountNodes

private

Info property: number of nodes.

Definition at line 378 of file WMHierchClustDisplay.h.

Referenced by initProperties(), and properties().

◆ m_infoCpcc

WPropDouble WMHierchClustDisplay::m_infoCpcc

private

Info property: cpcc value.

Definition at line 381 of file WMHierchClustDisplay.h.

Referenced by initProperties(), and properties().

◆ m_infoCutValue

WPropDouble WMHierchClustDisplay::m_infoCutValue

private

Info property: cut value for current partition.

Definition at line 373 of file WMHierchClustDisplay.h.

Referenced by clusterSelection(), initProperties(), moduleMain(), and properties().

◆ m_infoMaxLevel

WPropInt WMHierchClustDisplay::m_infoMaxLevel

private

Info property: maximum hierarchical level.

Definition at line 380 of file WMHierchClustDisplay.h.

Referenced by initProperties(), and properties().

◆ m_infoPartActive

WPropInt WMHierchClustDisplay::m_infoPartActive

private

Info property: active clusters in current partition.

Definition at line 371 of file WMHierchClustDisplay.h.

Referenced by clusterSelection(), initProperties(), moduleMain(), and properties().

◆ m_infoPartLeaves

WPropInt WMHierchClustDisplay::m_infoPartLeaves

private

Info property: leaf clusters in current partition.

Definition at line 372 of file WMHierchClustDisplay.h.

Referenced by clusterSelection(), initProperties(), moduleMain(), and properties().

◆ m_infoPartMessage

WPropString WMHierchClustDisplay::m_infoPartMessage

private

Info property: partition output message.

Definition at line 384 of file WMHierchClustDisplay.h.

Referenced by clusterSelection(), initProperties(), moduleMain(), and properties().

◆ m_infoPartNumber

WPropInt WMHierchClustDisplay::m_infoPartNumber

private

Info property: clusters in current partition.

Definition at line 370 of file WMHierchClustDisplay.h.

Referenced by clusterSelection(), initProperties(), moduleMain(), and properties().

◆ m_infoSelectedDistance

WPropInt WMHierchClustDisplay::m_infoSelectedDistance

private

Info property: clusters in current partition.

Definition at line 367 of file WMHierchClustDisplay.h.

Referenced by properties().

◆ m_infoSelectedID

WPropInt WMHierchClustDisplay::m_infoSelectedID

private

Info property: clusters in current partition.

Definition at line 365 of file WMHierchClustDisplay.h.

Referenced by initProperties(), and properties().

◆ m_infoSelectedSize

WPropInt WMHierchClustDisplay::m_infoSelectedSize

private

Info property: clusters in current partition.

Definition at line 366 of file WMHierchClustDisplay.h.

Referenced by initProperties(), and properties().

◆ m_infoTreeName

WPropString WMHierchClustDisplay::m_infoTreeName

private

Info property: current tree name.

Definition at line 376 of file WMHierchClustDisplay.h.

Referenced by initProperties(), and properties().

◆ m_input

std::shared_ptr< WModuleInputData< WDataSetSingle > > WMHierchClustDisplay::m_input

private

An input connector that accepts order 1 datasets.

Definition at line 311 of file WMHierchClustDisplay.h.

Referenced by connectors(), and moduleMain().

◆ m_labelsDirty

bool WMHierchClustDisplay::m_labelsDirty

private

true if the labels need redrawing

Definition at line 338 of file WMHierchClustDisplay.h.

Referenced by colorAction(), dendrogramClickRight(), initProperties(), moduleMain(), updateSelection(), and updateWidgets().

◆ m_meshNode

osg::ref_ptr< WGEGroupNode > WMHierchClustDisplay::m_meshNode

private

Pointer to the cube mesh group node.

Definition at line 324 of file WMHierchClustDisplay.h.

Referenced by initWidgets(), and renderCubeMesh().

◆ m_moduleNode

osg::ref_ptr< WGEGroupNode > WMHierchClustDisplay::m_moduleNode

private

Pointer to the modules group node.

Definition at line 322 of file WMHierchClustDisplay.h.

Referenced by initWidgets(), and moduleMain().

◆ m_nodeColorsCustom

std::vector< WColor > WMHierchClustDisplay::m_nodeColorsCustom

private

stores preset color for every tree node, so clusters keep same color through different selection

Definition at line 344 of file WMHierchClustDisplay.h.

Referenced by assignColorHierch(), colorAction(), colorBranchCustom(), initializeColorsHdist(), initializeColorsSize(), recolorPartitions(), and updateSelection().

◆ m_oldViewHeight

int WMHierchClustDisplay::m_oldViewHeight

private

stores the old viewport resolution height to check whether a resize happened

Definition at line 319 of file WMHierchClustDisplay.h.

Referenced by initWidgets(), and updateWidgets().

◆ m_oldViewWidth

int WMHierchClustDisplay::m_oldViewWidth

private

stores the old viewport resolution width to check whether a resize happened

Definition at line 320 of file WMHierchClustDisplay.h.

Referenced by initWidgets(), and updateWidgets().

◆ m_outData

std::shared_ptr< WDataSetVector > WMHierchClustDisplay::m_outData

private

This is a pointer to the current output1.

Definition at line 314 of file WMHierchClustDisplay.h.

◆ m_outData2

std::shared_ptr< WDataSetScalar > WMHierchClustDisplay::m_outData2

private

This is a pointer to the current output2.

Definition at line 315 of file WMHierchClustDisplay.h.

◆ m_output

std::shared_ptr< WModuleOutputData< WDataSetVector > > WMHierchClustDisplay::m_output

private

An output connector for the output scalar dsataset.

Definition at line 312 of file WMHierchClustDisplay.h.

Referenced by connectors().

◆ m_output2

std::shared_ptr< WModuleOutputData< WDataSetScalar > > WMHierchClustDisplay::m_output2

private

An output connector for the output coordinate vector.

Definition at line 313 of file WMHierchClustDisplay.h.

Referenced by connectors().

◆ m_propAddPartTrigger

WPropTrigger WMHierchClustDisplay::m_propAddPartTrigger

private

This property triggers the inclusion in the tree of the current partition.

Definition at line 455 of file WMHierchClustDisplay.h.

Referenced by addPartitions(), moduleMain(), and properties().

◆ m_propBoundaries

WPropBool WMHierchClustDisplay::m_propBoundaries

private

visualize only parcel boundaries

Definition at line 434 of file WMHierchClustDisplay.h.

Referenced by initProperties(), moduleMain(), properties(), and updateColors().

◆ m_propBoundaryColor

WPropColor WMHierchClustDisplay::m_propBoundaryColor

private

color for cluster boundaries

Definition at line 436 of file WMHierchClustDisplay.h.

Referenced by initProperties(), moduleMain(), properties(), renderCubeMesh(), and updateColors().

◆ m_propClearPartsTrigger

WPropTrigger WMHierchClustDisplay::m_propClearPartsTrigger

private

This property triggers the clearing of current partitions in the tree.

Definition at line 457 of file WMHierchClustDisplay.h.

Referenced by moduleMain(), and properties().

◆ m_propCoarseRatio

WPropInt WMHierchClustDisplay::m_propCoarseRatio

private

ratio of decimation

Definition at line 451 of file WMHierchClustDisplay.h.

◆ m_propColorActionList

std::shared_ptr< WItemSelection > WMHierchClustDisplay::m_propColorActionList

private

List of color schemes.

Definition at line 426 of file WMHierchClustDisplay.h.

Referenced by initProperties(), and properties().

◆ m_propColorActionSelector

WPropSelection WMHierchClustDisplay::m_propColorActionSelector

private

selection of color schemes

Definition at line 427 of file WMHierchClustDisplay.h.

Referenced by colorAction(), initProperties(), and properties().

◆ m_propColorActionTrigger

WPropTrigger WMHierchClustDisplay::m_propColorActionTrigger

private

shuffle current colors

Definition at line 428 of file WMHierchClustDisplay.h.

Referenced by colorAction(), moduleMain(), and properties().

◆ m_propColorSchemeList

std::shared_ptr< WItemSelection > WMHierchClustDisplay::m_propColorSchemeList

private

List of color schemes.

Definition at line 424 of file WMHierchClustDisplay.h.

Referenced by colorAction(), initProperties(), and properties().

◆ m_propColorSchemeSelector

WPropSelection WMHierchClustDisplay::m_propColorSchemeSelector

private

selection of color schemes

Definition at line 425 of file WMHierchClustDisplay.h.

Referenced by colorAction(), initProperties(), moduleMain(), properties(), and updateSelection().

◆ m_propConditionSelectionsList

std::shared_ptr< WItemSelection > WMHierchClustDisplay::m_propConditionSelectionsList

private

A list of condition selection methods.

Definition at line 410 of file WMHierchClustDisplay.h.

Referenced by initProperties(), moduleMain(), and properties().

◆ m_propConditionSelector

WPropSelection WMHierchClustDisplay::m_propConditionSelector

private

Selection condition for clusters.

Definition at line 409 of file WMHierchClustDisplay.h.

Referenced by clusterSelection(), initProperties(), moduleMain(), and properties().

◆ m_propDendroOffsetX

WPropInt WMHierchClustDisplay::m_propDendroOffsetX

private

controls the horizontal origin of the dendrogram

Definition at line 401 of file WMHierchClustDisplay.h.

Referenced by moduleMain(), properties(), and updateWidgets().

◆ m_propDendroOffsetY

WPropInt WMHierchClustDisplay::m_propDendroOffsetY

private

controls the vertical origin of the dendrogram

Definition at line 402 of file WMHierchClustDisplay.h.

Referenced by moduleMain(), properties(), and updateWidgets().

◆ m_propDendroPlotByLevel

WPropBool WMHierchClustDisplay::m_propDendroPlotByLevel

private

controls plotting the height of a join (1 plots the tree by hierarchical level, 0 by cluster distance)

Definition at line 392 of file WMHierchClustDisplay.h.

Referenced by initProperties(), moduleMain(), properties(), and updateWidgets().

◆ m_propDendroSideList

std::shared_ptr< WItemSelection > WMHierchClustDisplay::m_propDendroSideList

private

A list of dendrogram positions.

Definition at line 396 of file WMHierchClustDisplay.h.

Referenced by initProperties(), and properties().

◆ m_propDendroSideSelector

WPropSelection WMHierchClustDisplay::m_propDendroSideSelector

private

Selection property for dendrogram positions.

Definition at line 397 of file WMHierchClustDisplay.h.

Referenced by initProperties(), moduleMain(), properties(), and updateWidgets().

◆ m_propDendroSizeX

WPropInt WMHierchClustDisplay::m_propDendroSizeX

private

controls the width of the dendrogram

Definition at line 399 of file WMHierchClustDisplay.h.

Referenced by moduleMain(), properties(), and updateWidgets().

◆ m_propDendroSizeY

WPropInt WMHierchClustDisplay::m_propDendroSizeY

private

controls the height of the dendrogram

Definition at line 400 of file WMHierchClustDisplay.h.

Referenced by moduleMain(), properties(), and updateWidgets().

◆ m_propDendroZoomIn

WPropTrigger WMHierchClustDisplay::m_propDendroZoomIn

private

zoom into tree, sets m_treeZoom true and m_zoomRoot to the currently selected cluster

Definition at line 394 of file WMHierchClustDisplay.h.

Referenced by moduleMain(), and properties().

◆ m_propDendroZoomOut

WPropTrigger WMHierchClustDisplay::m_propDendroZoomOut

private

zooms out, m_treeZoom = false, dendrogram shows the whole tree

Definition at line 395 of file WMHierchClustDisplay.h.

Referenced by moduleMain(), and properties().

◆ m_propDiscardedColor

WPropColor WMHierchClustDisplay::m_propDiscardedColor

private

color for discarded voxels

Definition at line 435 of file WMHierchClustDisplay.h.

Referenced by initProperties(), moduleMain(), properties(), renderCubeMesh(), and updateColors().

◆ m_propDistanceGap

WPropDouble WMHierchClustDisplay::m_propDistanceGap

private

distance gap for prunin process

Definition at line 445 of file WMHierchClustDisplay.h.

Referenced by initProperties(), moduleMain(), and properties().

◆ m_propDoPartition

WPropTrigger WMHierchClustDisplay::m_propDoPartition

private

triggers the cluster selection update

Definition at line 419 of file WMHierchClustDisplay.h.

Referenced by clusterSelection(), moduleMain(), and properties().

◆ m_propDoProcessing

WPropTrigger WMHierchClustDisplay::m_propDoProcessing

private

triggers the tree processing

Definition at line 452 of file WMHierchClustDisplay.h.

Referenced by moduleMain(), and properties().

◆ m_propFlatLimit

WPropDouble WMHierchClustDisplay::m_propFlatLimit

private

distance gap for prunin process

Definition at line 446 of file WMHierchClustDisplay.h.

Referenced by initProperties(), moduleMain(), and properties().

◆ m_propInactiveColor

WPropColor WMHierchClustDisplay::m_propInactiveColor

private

color for inactive mesh voxels

Definition at line 437 of file WMHierchClustDisplay.h.

Referenced by initProperties(), moduleMain(), properties(), and renderCubeMesh().

◆ m_propKeepBases

WPropBool WMHierchClustDisplay::m_propKeepBases

private

dont debinarize basenodes

Definition at line 447 of file WMHierchClustDisplay.h.

Referenced by initProperties(), moduleMain(), and properties().

◆ m_propLabelInfoSelector

WPropSelection WMHierchClustDisplay::m_propLabelInfoSelector

private

selection of info on button labels

Definition at line 431 of file WMHierchClustDisplay.h.

Referenced by initProperties(), moduleMain(), properties(), and updateWidgets().

◆ m_propLabelList

std::shared_ptr< WItemSelection > WMHierchClustDisplay::m_propLabelList

private

List of label contents.

Definition at line 430 of file WMHierchClustDisplay.h.

Referenced by initProperties(), and properties().

◆ m_propPartDistanceValue

WPropDouble WMHierchClustDisplay::m_propPartDistanceValue

private

distance cut value for the desired partition

Definition at line 415 of file WMHierchClustDisplay.h.

Referenced by clusterSelection(), initProperties(), moduleMain(), and properties().

◆ m_propPartExcludeLeaves

WPropBool WMHierchClustDisplay::m_propPartExcludeLeaves

private

defines if base nodes will be subdivided or not

Definition at line 418 of file WMHierchClustDisplay.h.

Referenced by clusterSelection(), initProperties(), and properties().

◆ m_propPartHlevelValue

WPropInt WMHierchClustDisplay::m_propPartHlevelValue

private

hierarchical level cut value for the desired partition

Definition at line 416 of file WMHierchClustDisplay.h.

Referenced by clusterSelection(), initProperties(), moduleMain(), and properties().

◆ m_propPartitionFile

WPropFilename WMHierchClustDisplay::m_propPartitionFile

private

The partition file will be written to this location.

Definition at line 462 of file WMHierchClustDisplay.h.

Referenced by properties(), and writePartition().

◆ m_propPartitionSelectionList

std::shared_ptr< WItemSelection > WMHierchClustDisplay::m_propPartitionSelectionList

private

A list of cluster selection methods.

Definition at line 408 of file WMHierchClustDisplay.h.

Referenced by initProperties(), and properties().

◆ m_propPartitionSelector

WPropSelection WMHierchClustDisplay::m_propPartitionSelector

private

Selection property for clusters.

Definition at line 407 of file WMHierchClustDisplay.h.

Referenced by clusterSelection(), initProperties(), moduleMain(), and properties().

◆ m_propPartitionsTrigger

WPropTrigger WMHierchClustDisplay::m_propPartitionsTrigger

private

This property triggers the actual writing of the partition file.

Definition at line 463 of file WMHierchClustDisplay.h.

Referenced by moduleMain(), and properties().

◆ m_propPartNumClusters

WPropInt WMHierchClustDisplay::m_propPartNumClusters

private

number of clusters of the desired partition

Definition at line 411 of file WMHierchClustDisplay.h.

Referenced by clusterSelection(), initProperties(), moduleMain(), and properties().

◆ m_propPartRelativeValue

WPropDouble WMHierchClustDisplay::m_propPartRelativeValue

private

Relative size cut value for the desired partition.

Definition at line 414 of file WMHierchClustDisplay.h.

Referenced by clusterSelection(), initProperties(), moduleMain(), and properties().

◆ m_propPartRoot

WPropTrigger WMHierchClustDisplay::m_propPartRoot

private

triggers the selection of root cluster

Definition at line 405 of file WMHierchClustDisplay.h.

Referenced by moduleMain(), and properties().

◆ m_propPartSearchDepthValue

WPropInt WMHierchClustDisplay::m_propPartSearchDepthValue

private

depth of search for optimized partitioning

Definition at line 413 of file WMHierchClustDisplay.h.

Referenced by clusterSelection(), initProperties(), moduleMain(), and properties().

◆ m_propPartSizeValue

WPropInt WMHierchClustDisplay::m_propPartSizeValue

private

size cut value for the desired partition

Definition at line 412 of file WMHierchClustDisplay.h.

Referenced by clusterSelection(), initProperties(), moduleMain(), and properties().

◆ m_propPreloadPartitionNr

WPropInt WMHierchClustDisplay::m_propPreloadPartitionNr

private

predefined partition to load

Definition at line 417 of file WMHierchClustDisplay.h.

Referenced by addPartitions(), clusterSelection(), initProperties(), moduleMain(), and properties().

◆ m_propProcessSelectionsList

std::shared_ptr< WItemSelection > WMHierchClustDisplay::m_propProcessSelectionsList

private

A list of cluster selection methods.

Definition at line 441 of file WMHierchClustDisplay.h.

Referenced by initProperties(), and properties().

◆ m_propProcessSelector

WPropSelection WMHierchClustDisplay::m_propProcessSelector

private

Selection property for processing.

Definition at line 440 of file WMHierchClustDisplay.h.

Referenced by initProperties(), moduleMain(), and properties().

◆ m_propPrunedNumber

WPropInt WMHierchClustDisplay::m_propPrunedNumber

private

number of leaves to be pruned by random pruning

Definition at line 449 of file WMHierchClustDisplay.h.

Referenced by initProperties(), moduleMain(), and properties().

◆ m_propPrunedSeed

WPropInt WMHierchClustDisplay::m_propPrunedSeed

private

rng seed for random pruning

Definition at line 450 of file WMHierchClustDisplay.h.

Referenced by initProperties(), moduleMain(), and properties().

◆ m_propPruneJoinSize

WPropInt WMHierchClustDisplay::m_propPruneJoinSize

private

join size for pruning process

Definition at line 443 of file WMHierchClustDisplay.h.

Referenced by initProperties(), moduleMain(), and properties().

◆ m_propPruneSizeRatio

WPropDouble WMHierchClustDisplay::m_propPruneSizeRatio

private

size ratio for pruning process

Definition at line 444 of file WMHierchClustDisplay.h.

Referenced by initProperties(), moduleMain(), and properties().

◆ m_propReadFilename

WPropFilename WMHierchClustDisplay::m_propReadFilename

private

The tree file will be loaded form this directory.

Definition at line 387 of file WMHierchClustDisplay.h.

Referenced by moduleMain(), and properties().

◆ m_propReadTreeTrigger

WPropTrigger WMHierchClustDisplay::m_propReadTreeTrigger

private

This property triggers the actual reading of the tree file.

Definition at line 388 of file WMHierchClustDisplay.h.

Referenced by moduleMain(), and properties().

◆ m_propRecolorPartTrigger

WPropTrigger WMHierchClustDisplay::m_propRecolorPartTrigger

private

This property triggers the recoloring partition of the current partitions.

Definition at line 456 of file WMHierchClustDisplay.h.

Referenced by moduleMain(), properties(), and recolorPartitions().

◆ m_propSafeSize

WPropInt WMHierchClustDisplay::m_propSafeSize

private

maximum size to be pruned

Definition at line 442 of file WMHierchClustDisplay.h.

Referenced by initProperties(), moduleMain(), and properties().

◆ m_propShowCubeMesh

WPropBool WMHierchClustDisplay::m_propShowCubeMesh

private

visualize voxel cube triangulation

Definition at line 433 of file WMHierchClustDisplay.h.

Referenced by initProperties(), moduleMain(), properties(), and renderCubeMesh().

◆ m_propShowDendrogram

WPropBool WMHierchClustDisplay::m_propShowDendrogram

private

controls the display of the dendrogram overlay

Definition at line 391 of file WMHierchClustDisplay.h.

Referenced by dendrogramClick(), dendrogramClickRight(), initProperties(), moduleMain(), properties(), and updateWidgets().

◆ m_propShowDiscarded

WPropBool WMHierchClustDisplay::m_propShowDiscarded

private

visualize also discarded voxels

Definition at line 432 of file WMHierchClustDisplay.h.

Referenced by initProperties(), moduleMain(), properties(), renderCubeMesh(), updateColors(), and updateOutput2().

◆ m_propShowLabels

WPropBool WMHierchClustDisplay::m_propShowLabels

private

show info labels for selected clusters

Definition at line 429 of file WMHierchClustDisplay.h.

Referenced by initProperties(), moduleMain(), properties(), and updateWidgets().

◆ m_propSmoothSize

WPropInt WMHierchClustDisplay::m_propSmoothSize

private

desired cluster size fro smoothing

Definition at line 448 of file WMHierchClustDisplay.h.

◆ m_propSourceCluster

WPropInt WMHierchClustDisplay::m_propSourceCluster

private

the current subtree root cluster

Definition at line 406 of file WMHierchClustDisplay.h.

Referenced by clusterSelection(), dendrogramClick(), initProperties(), moduleMain(), and properties().

◆ m_propSubselectedCluster

WPropInt WMHierchClustDisplay::m_propSubselectedCluster

private

the currently selected cluster

Definition at line 422 of file WMHierchClustDisplay.h.

Referenced by colorAction(), dendrogramClickRight(), initProperties(), moduleMain(), properties(), and updateWidgets().

◆ m_propSubselectedcolor

WPropColor WMHierchClustDisplay::m_propSubselectedcolor

private

color for subselected cluster

Definition at line 423 of file WMHierchClustDisplay.h.

Referenced by colorAction(), dendrogramClickRight(), moduleMain(), properties(), and updateWidgets().

◆ m_propTriangleLeaves

WPropBool WMHierchClustDisplay::m_propTriangleLeaves

private

specifies a minimum size for a cluster so that too small cluster won't get an own color

Definition at line 393 of file WMHierchClustDisplay.h.

Referenced by initProperties(), moduleMain(), properties(), and updateWidgets().

◆ m_propTriggerChange

std::shared_ptr< WCondition > WMHierchClustDisplay::m_propTriggerChange

private

A condition used to notify about changes in several properties.

Definition at line 362 of file WMHierchClustDisplay.h.

Referenced by moduleMain(), and properties().

◆ m_propWriteTreeFilename

WPropFilename WMHierchClustDisplay::m_propWriteTreeFilename

private

The tree file will be written to this location.

Definition at line 460 of file WMHierchClustDisplay.h.

Referenced by moduleMain(), and properties().

◆ m_propWriteTreeTrigger

WPropTrigger WMHierchClustDisplay::m_propWriteTreeTrigger

private

This property triggers the actual writing of the tree file.

Definition at line 461 of file WMHierchClustDisplay.h.

Referenced by moduleMain(), and properties().

◆ m_selectionClusters

std::vector<size_t> WMHierchClustDisplay::m_selectionClusters

private

stores the currently activated clusters

Definition at line 352 of file WMHierchClustDisplay.h.

Referenced by addPartitions(), clusterSelection(), dendrogramClickRight(), initProperties(), moduleMain(), updateSelection(), and writePartition().

◆ m_selectionColors

std::map< size_t, WColor > WMHierchClustDisplay::m_selectionColors

private

stores a the current colors each cluster should be displayed, given the current selection

Definition at line 346 of file WMHierchClustDisplay.h.

Referenced by colorAction(), dendrogramClickRight(), initProperties(), moduleMain(), renderCubeMesh(), updateColors(), updateSelection(), and updateWidgets().

◆ m_selectionColorsBackup

std::map< size_t, WColor > WMHierchClustDisplay::m_selectionColorsBackup

private

stores a backup of m_selectionColors

Definition at line 347 of file WMHierchClustDisplay.h.

Referenced by addPartitions(), colorAction(), dendrogramClickRight(), initProperties(), updateSelection(), and updateWidgets().

◆ m_selectionLabels

std::vector< osg::ref_ptr<WOSGButton> > WMHierchClustDisplay::m_selectionLabels

private

list of buttons for the active cluster selection

Definition at line 358 of file WMHierchClustDisplay.h.

Referenced by updateWidgets().

◆ m_selectionLeaves

std::vector<size_t> WMHierchClustDisplay::m_selectionLeaves

private

stores the leaves output by the selection

Definition at line 353 of file WMHierchClustDisplay.h.

Referenced by clusterSelection(), and initProperties().

◆ m_shader

osg::ref_ptr< WGEShader > WMHierchClustDisplay::m_shader

private

The shader.

Definition at line 329 of file WMHierchClustDisplay.h.

Referenced by initWidgets().

◆ m_texture

osg::ref_ptr<osg::Texture3D> WMHierchClustDisplay::m_texture

private

stores a pointer to the texture we paint in (to overlay to anatomy)

Definition at line 332 of file WMHierchClustDisplay.h.

Referenced by initTexture(), and updateColors().

◆ m_textureLabels

std::vector< size_t > WMHierchClustDisplay::m_textureLabels

private

label vector for texture creation

Definition at line 333 of file WMHierchClustDisplay.h.

Referenced by initTexture(), renderCubeMesh(), and updateColors().

◆ m_tree

WHtree WMHierchClustDisplay::m_tree

private

stores the tree object as loaded from file;

Definition at line 336 of file WMHierchClustDisplay.h.

Referenced by addPartitions(), assignColorHierch(), clusterSelection(), colorBranch(), colorBranchCustom(), dendrogramClick(), dendrogramClickRight(), initializeColorsHdist(), initializeColorsSize(), initProperties(), initTreeData(), moduleMain(), recolorPartitions(), renderCubeMesh(), updateColors(), updateOutput2(), updateSelection(), updateWidgets(), and writePartition().

◆ m_treeDirty

bool WMHierchClustDisplay::m_treeDirty

private

true if the dendrogram needs redrawing

Definition at line 337 of file WMHierchClustDisplay.h.

Referenced by initProperties(), moduleMain(), and updateWidgets().

◆ m_treeDisplayColors

std::vector< WColor > WMHierchClustDisplay::m_treeDisplayColors

private

stores a the current colors each tree node should be displayed, given the current selection

Definition at line 345 of file WMHierchClustDisplay.h.

Referenced by colorBranch(), initProperties(), initTreeData(), and updateWidgets().

◆ m_treeZoomRoot

size_t WMHierchClustDisplay::m_treeZoomRoot

private

control variable for tree zoom mode

Definition at line 339 of file WMHierchClustDisplay.h.

Referenced by dendrogramClick(), dendrogramClickRight(), initProperties(), moduleMain(), and updateWidgets().

◆ m_wm

osgWidget::WindowManager* WMHierchClustDisplay::m_wm

private

stores a pointer to the window manager used for osg wdgets and overlay stuff

Definition at line 317 of file WMHierchClustDisplay.h.

Referenced by initWidgets(), and updateWidgets().

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

Classes

Public Member Functions

Protected Member Functions

Private Member Functions

Private Attributes

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

◆ WMHierchClustDisplay()

◆ ~WMHierchClustDisplay()

Member Function Documentation

◆ addPartitions()

◆ assignColorHierch()

◆ clusterSelection()

◆ colorAction()

◆ colorBranch()

◆ colorBranchCustom()

◆ connectors()

◆ dendrogramClick()

◆ dendrogramClickRight()

◆ factory()

◆ getDescription()

◆ getName()

◆ initializeColorsHdist()

◆ initializeColorsSize()

◆ initProperties()

◆ initTexture()

◆ initTreeData()

◆ initWidgets()

◆ loadTree()

◆ moduleMain()

◆ properties()

◆ recolorPartitions()

◆ renderCubeMesh()

◆ updateColors()

◆ updateOutput2()

◆ updateSelection()

◆ updateWidgets()

◆ widgetClicked()

◆ writePartition()

Member Data Documentation

◆ m_anatomy

◆ m_camera

◆ m_clusterVoxels

◆ m_cubeMesh

◆ m_dendrogramGeode

◆ m_dendrogramNode

◆ m_discardedMesh

◆ m_discardedVoxels

◆ m_grid

◆ m_groupDendrogram

◆ m_groupDendroManual

◆ m_groupInfoMessage

◆ m_groupInfoPartition

◆ m_groupInfoSelected

◆ m_groupInfoTree

◆ m_groupPartition

◆ m_groupRead

◆ m_groupSavedPartition

◆ m_groupTreeProcess

◆ m_groupVisualization

◆ m_groupWrite

◆ m_horizontalLine

◆ m_infoCountDiscarded

◆ m_infoCountLeaves

◆ m_infoCountNodes

◆ m_infoCpcc

◆ m_infoCutValue

◆ m_infoMaxLevel

◆ m_infoPartActive

◆ m_infoPartLeaves

◆ m_infoPartMessage

◆ m_infoPartNumber

◆ m_infoSelectedDistance

◆ m_infoSelectedID

◆ m_infoSelectedSize

◆ m_infoTreeName

◆ m_input

◆ m_labelsDirty

◆ m_meshNode