#include <processor.h>
Inheritance diagram for EMAN::BinarySkeletonizerProcessor:
Public Member Functions | |
virtual EMData * | process (EMData *image) |
virtual void | process_inplace (EMData *image) |
To process an image in-place. | |
virtual string | get_name () const |
Get the processor's name. | |
string | get_desc () const |
Get the descrition of this specific processor. | |
virtual TypeDict | get_param_types () const |
Get processor parameter information in a dictionary. | |
Static Public Member Functions | |
static Processor * | NEW () |
Static Public Attributes | |
static const string | NAME = "gorgon.binary_skel" |
Definition at line 6960 of file processor.h.
string EMAN::BinarySkeletonizerProcessor::get_desc | ( | ) | const [inline, virtual] |
Get the descrition of this specific processor.
This function must be overwritten by a subclass.
Implements EMAN::Processor.
Definition at line 6975 of file processor.h.
06976 { 06977 return "Creates a skeleton of the 3D image by considering whether density is above or below a threshold value."; 06978 }
virtual string EMAN::BinarySkeletonizerProcessor::get_name | ( | ) | const [inline, virtual] |
Get the processor's name.
Each processor is identified by a unique name.
Implements EMAN::Processor.
Definition at line 6966 of file processor.h.
References NAME.
06967 { 06968 return NAME; 06969 // return "gorgon.binary_skel"; 06970 }
virtual TypeDict EMAN::BinarySkeletonizerProcessor::get_param_types | ( | ) | const [inline, virtual] |
Get processor parameter information in a dictionary.
Each parameter has one record in the dictionary. Each record contains its name, data-type, and description.
Reimplemented from EMAN::Processor.
Definition at line 6979 of file processor.h.
References EMAN::EMObject::BOOL, EMAN::EMObject::FLOAT, EMAN::EMObject::INT, and EMAN::TypeDict::put().
06980 { 06981 TypeDict d; 06982 d.put("threshold", EMObject::FLOAT, "Threshold value."); 06983 d.put("min_curve_width", EMObject::INT, "Minimum curve width."); 06984 d.put("min_surface_width", EMObject::INT, "Minimum surface width."); 06985 d.put("mark_surfaces", EMObject::BOOL, "Mark surfaces with a value of 2.0f, whereas curves are 1.0f."); 06986 return d; 06987 }
static Processor* EMAN::BinarySkeletonizerProcessor::NEW | ( | ) | [inline, static] |
Definition at line 6971 of file processor.h.
06972 { 06973 return new BinarySkeletonizerProcessor(); 06974 }
Definition at line 10076 of file processor.cpp.
References wustl_mm::SkeletonMaker::Volume::get_emdata(), wustl_mm::SkeletonMaker::Volume::getVolumeData(), wustl_mm::SkeletonMaker::VolumeData::owns_emdata, EMAN::Processor::params, EMAN::Dict::set_default(), and EMAN::EMData::update().
Referenced by process_inplace().
10077 { 10078 using namespace wustl_mm::GraySkeletonCPP; 10079 using namespace wustl_mm::SkeletonMaker; 10080 10081 Volume * vimage = new Volume(image); 10082 float threshold = params["threshold"]; 10083 int min_curvew = params.set_default("min_curve_width", 4); 10084 int min_srfcw = params.set_default("min_surface_width", 4); 10085 bool mark_surfaces = params.set_default("mark_surfaces", true); 10086 Volume* vskel = VolumeSkeletonizer::PerformPureJuSkeletonization(vimage, "unused", static_cast<double>(threshold), min_curvew, min_srfcw); 10087 //VolumeSkeletonizer::CleanUpSkeleton(vskel, 4, 0.01f); 10088 if (mark_surfaces) { 10089 VolumeSkeletonizer::MarkSurfaces(vskel); 10090 } 10091 10092 vskel->getVolumeData()->owns_emdata = false; //ensure the EMData object will remain when the Volume and its VolumeData object are freed 10093 EMData* skel = vskel->get_emdata(); 10094 skel->update(); 10095 return skel; 10096 }
void BinarySkeletonizerProcessor::process_inplace | ( | EMData * | image | ) | [virtual] |
To process an image in-place.
For those processors which can only be processed out-of-place, override this function to just print out some error message to remind user call the out-of-place version.
image | The image to be processed. |
Implements EMAN::Processor.
Definition at line 10098 of file processor.cpp.
References process(), and EMAN::EMData::update().
10099 { 10100 EMData* em_skel = this->process(image); 10101 //TODO: use memcpy and copy metadata explicitly 10102 *image = *em_skel; //Deep copy performed by EMData::operator= 10103 image->update(); 10104 delete em_skel; 10105 em_skel = NULL; 10106 return; 10107 }
const string BinarySkeletonizerProcessor::NAME = "gorgon.binary_skel" [static] |