#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 6920 of file processor.h.
|
Get the descrition of this specific processor. This function must be overwritten by a subclass.
Implements EMAN::Processor. Definition at line 6935 of file processor.h. 06936 { 06937 return "Creates a skeleton of the 3D image by considering whether density is above or below a threshold value."; 06938 }
|
|
Get the processor's name. Each processor is identified by a unique name.
Implements EMAN::Processor. Definition at line 6926 of file processor.h. References NAME. 06927 { 06928 return NAME; 06929 // return "gorgon.binary_skel"; 06930 }
|
|
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 6939 of file processor.h. References EMAN::EMObject::BOOL, EMAN::EMObject::FLOAT, EMAN::EMObject::INT, and EMAN::TypeDict::put(). 06940 { 06941 TypeDict d; 06942 d.put("threshold", EMObject::FLOAT, "Threshold value."); 06943 d.put("min_curve_width", EMObject::INT, "Minimum curve width."); 06944 d.put("min_surface_width", EMObject::INT, "Minimum surface width."); 06945 d.put("mark_surfaces", EMObject::BOOL, "Mark surfaces with a value of 2.0f, whereas curves are 1.0f."); 06946 return d; 06947 }
|
|
Definition at line 6931 of file processor.h. 06932 { 06933 return new BinarySkeletonizerProcessor(); 06934 }
|
|
Definition at line 9969 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(). 09970 { 09971 using namespace wustl_mm::GraySkeletonCPP; 09972 using namespace wustl_mm::SkeletonMaker; 09973 09974 Volume * vimage = new Volume(image); 09975 float threshold = params["threshold"]; 09976 int min_curvew = params.set_default("min_curve_width", 4); 09977 int min_srfcw = params.set_default("min_surface_width", 4); 09978 bool mark_surfaces = params.set_default("mark_surfaces", true); 09979 Volume* vskel = VolumeSkeletonizer::PerformPureJuSkeletonization(vimage, "unused", static_cast<double>(threshold), min_curvew, min_srfcw); 09980 //VolumeSkeletonizer::CleanUpSkeleton(vskel, 4, 0.01f); 09981 if (mark_surfaces) { 09982 VolumeSkeletonizer::MarkSurfaces(vskel); 09983 } 09984 09985 vskel->getVolumeData()->owns_emdata = false; //ensure the EMData object will remain when the Volume and its VolumeData object are freed 09986 EMData* skel = vskel->get_emdata(); 09987 skel->update(); 09988 return skel; 09989 }
|
|
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.
Implements EMAN::Processor. Definition at line 9991 of file processor.cpp. References process(), and EMAN::EMData::update(). 09992 { 09993 EMData* em_skel = this->process(image); 09994 //TODO: use memcpy and copy metadata explicitly 09995 *image = *em_skel; //Deep copy performed by EMData::operator= 09996 image->update(); 09997 delete em_skel; 09998 em_skel = NULL; 09999 return; 10000 }
|
|
Definition at line 6948 of file processor.h. Referenced by get_name(). |