Seg3D::ActionSpeedlineAlgo Class Reference

Inheritance diagram for Seg3D::ActionSpeedlineAlgo:

Public Types
typedef itk::Image< int, VOL_DIM_C >	MASK_IMAGE_TYPE
typedef itk::Image< int, SLICE_DIM_C >	MASK_IMAGE_TYPE_2D
typedef itk::Image< VALUE_TYPE, SLICE_DIM_C >	TYPED_IMAGE_TYPE_2D
typedef itk::LiveWireImageFunction< TYPED_IMAGE_TYPE_2D >	LiveWireType
typedef LiveWireType::OutputType	PATH_TYPE
Public Types inherited from Seg3D::ITKFilter
typedef itk::Image< unsigned short, 3 >	USHORT_IMAGE_TYPE
typedef itk::Image< unsigned int, 3 >	UINT_IMAGE_TYPE
typedef itk::Image< float, 3 >	FLOAT_IMAGE_TYPE
typedef itk::Image< unsigned char, 3 >	UCHAR_IMAGE_TYPE
typedef Core::ITKImageDataT< float >	FLOAT_CONTAINER_TYPE
typedef Core::ITKImageDataT< unsigned int >	UINT_CONTAINER_TYPE
typedef Core::ITKImageDataT< unsigned short >	USHORT_CONTAINER_TYPE
typedef Core::ITKImageDataT< unsigned char >	UCHAR_CONTAINER_TYPE

Public Member Functions
template<class TYPED_IMAGE_TYPE , class TYPED_IMAGE_TYPE_2D >
TYPED_IMAGE_TYPE_2D::Pointer	extract_2D_image (typename TYPED_IMAGE_TYPE::Pointer image)
template<class TYPED_IMAGE_TYPE_2D >
TYPED_IMAGE_TYPE_2D::IndexType	extract_2D_point (const Point &point)
template<class PATH_TYPE >
Point	build_3D_point (typename PATH_TYPE::ContinuousIndexType slice_point)
	if (StateEngine::Instance() ->get_state(this->world_path_state_id_, state_var))
this world_paths_	delete_all_paths ()
this	get_itk_image_from_layer (this->target_layer_, input_image)
livewire	SetInputImage (input_image_2D)
livewire	SetGradientMagnitudeWeight (this->grad_mag_weight_)
livewire	SetZeroCrossingWeight (this->zero_cross_weight_)
livewire	SetGradientDirectionWeight (this->grad_dir_weight_)
livewire	SetUseImageSpacing (this->image_spacing_)
livewire	SetUseFaceConnectedness (this->face_conn_)
	if (this->roi_mask_layer_id_!="<none>")
this world_paths_	set_start_point (this->vertices_[0])
this world_paths_	set_end_point (this->vertices_[end_index])
	for (size_t index=0;index< this->vertices_.size();++index)
	Application::PostEvent (boost::bind(&StateSpeedlinePath::set, world_path_state, this->world_paths_, ActionSource::NONE_E))
virtual std::string	get_filter_name () const
virtual std::string	get_layer_prefix () const
Public Member Functions inherited from Seg3D::LayerFilter
virtual void	raise_abort () override
virtual bool	check_abort () override
void	raise_stop ()
bool	check_stop ()
virtual void	abort_and_wait () override
void	connect_abort (const LayerHandle &layer)
void	connect_stop (const LayerHandle &layer)
Core::NotifierHandle	get_notifier ()
bool	find_layer (const std::string &layer_id, LayerHandle &layer)
bool	lock_for_use (LayerHandle layer)
bool	lock_for_processing (LayerHandle layer)
bool	lock_for_deletion (LayerHandle layer)
bool	create_and_lock_data_layer_from_layer (LayerHandle src_layer, LayerHandle &dst_layer)
bool	create_and_lock_data_layer (const Core::GridTransform &grid_trans, LayerHandle src_layer, LayerHandle &dst_layer)
bool	create_cropped_large_volume_layer (const Core::GridTransform &crop_trans, LayerHandle src_layer, LayerHandle &dst_layer)
bool	create_and_lock_mask_layer_from_layer (LayerHandle src_layer, LayerHandle &dst_layer)
bool	create_and_lock_mask_layer_from_layer (LayerHandle src_layer, LayerHandle &dst_layer, std::string dst_name)
bool	create_and_lock_mask_layer (const Core::GridTransform &grid_trans, LayerHandle src_layer, LayerHandle &dst_layer)
bool	dispatch_unlock_layer (LayerHandle layer)
bool	dispatch_delete_layer (LayerHandle layer)
bool	dispatch_insert_data_volume_into_layer (LayerHandle layer, Core::DataVolumeHandle data, bool update_histogram)
bool	dispatch_insert_mask_volume_into_layer (LayerHandle layer, Core::MaskVolumeHandle mask)
void	create_undo_redo_and_provenance_record (Core::ActionContextHandle context, Core::ActionHandle action, bool split_prov=false)
bool	update_provenance_action_string (Core::ActionHandle action)
void	set_sandbox (SandboxID sandbox)
SandboxID	get_sandbox ()
void	report_error (const std::string &error)
Layer::filter_key_type	get_key () const

Public Attributes
std::string	target_layer_id_
std::string	output_mask_layer_id_
std::string	roi_mask_layer_id_
int	slice_type_
size_t	slice_number_
std::vector< Point >	vertices_
DataLayerHandle	target_layer_
MaskLayerHandle	roi_mask_layer_
MaskLayerHandle	output_mask_layer_
double	grad_mag_weight_
double	zero_cross_weight_
double	grad_dir_weight_
bool	image_spacing_
bool	face_conn_
std::string	world_path_state_id_
StateSpeedlinePathHandle	world_path_state
StateBaseHandle	state_var
ITKImageDataT< int >::Handle	roi_mask_image
ITKImageDataT< VALUE_TYPE >::Handle	input_image
TYPED_IMAGE_TYPE_2D::Pointer	input_image_2D
LiveWireType::Pointer	livewire = LiveWireType::New()
const size_t	num_of_vertices = this->vertices_.size()
const size_t	end_index = num_of_vertices - 1

Additional Inherited Members
Static Public Member Functions inherited from Core::Runnable
static void	Start (RunnableHandle runnable)
Protected Member Functions inherited from Seg3D::ITKFilter
template<class T >
bool	get_itk_image_from_layer (const LayerHandle &layer, typename Core::ITKImageDataT< T >::Handle &image, bool invert=false)
template<class T >
bool	get_itk_image_from_mask_layer (const LayerHandle &layer, typename Core::ITKImageDataT< T >::Handle &image, double label=1.0)
template<class T >
bool	insert_itk_image_into_layer (const LayerHandle &layer, typename itk::Image< T, 3 > *itk_image)
template<class T >
bool	insert_itk_image_pointer_into_layer (const LayerHandle &layer, typename itk::Image< T, 3 >::Pointer itk_image)
template<class T >
bool	insert_itk_positive_labels_into_mask_layer (const LayerHandle &layer, typename itk::Image< T, 3 > *itk_image, bool invert=false)
template<class T >
bool	insert_itk_positive_labels_pointer_into_mask_layer (const LayerHandle &layer, typename itk::Image< T, 3 >::Pointer itk_image, bool invert=false)
template<class T >
bool	insert_itk_label_into_mask_layer (const LayerHandle &layer, typename itk::Image< T, 3 > *itk_image, T label)
template<class T >
bool	insert_itk_label_pointer_into_mask_layer (const LayerHandle &layer, typename itk::Image< T, 3 >::Pointer itk_image, T label)
template<class T >
bool	convert_and_insert_itk_image_into_layer (const LayerHandle &layer, typename itk::Image< T, 3 > *itk_image, Core::DataType data_type)
template<class T >
bool	convert_and_insert_itk_image_pointer_into_layer (const LayerHandle &layer, typename itk::Image< T, 3 >::Pointer itk_image, Core::DataType data_type)
template<class T >
void	forward_abort_to_filter (T filter_pointer, LayerHandle layer)
template<class T >
void	observe_itk_progress (T filter_pointer, const LayerHandle &layer, float progress_start=0.0, float progress_amount=1.0)
template<class T >
void	observe_itk_iterations (T filter_pointer, boost::function< void(itk::Object *) > iteration_fcn)
template<class T >
void	limit_number_of_itk_threads (T filter_pointer)
virtual void	handle_abort ()
virtual void	handle_stop ()
Protected Member Functions inherited from Seg3D::LayerFilter
virtual void	run_filter ()=0
virtual void	run ()

Member Function Documentation

virtual std::string Seg3D::ActionSpeedlineAlgo::get_filter_name ( ) const

inlinevirtual

GET_FILTER_NAME: This functions returns the name of the filter that is used in the error report.

Implements Seg3D::LayerFilter.

virtual std::string Seg3D::ActionSpeedlineAlgo::get_layer_prefix ( ) const

inlinevirtual

GET_LAYER_PREFIX: This function returns the name of the filter. The latter is prepended to the new layer name, when a new layer is generated.

Implements Seg3D::LayerFilter.

Member Data Documentation

TYPED_IMAGE_TYPE_2D::Pointer Seg3D::ActionSpeedlineAlgo::input_image_2D

Initial value:

=
      extract_2D_image< TYPED_IMAGE_TYPE, TYPED_IMAGE_TYPE_2D >( input_image->get_image() )

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

• Application/Tools/Actions/ActionSpeedline.cc