#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 | |
Processor * | NEW () |
Static Public Attributes | |
const string | NAME = "gorgon.binary_skel" |
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Get the descrition of this specific processor. This function must be overwritten by a subclass.
Implements EMAN::Processor. Definition at line 6847 of file processor.h. 06848 { 06849 return "Creates a skeleton of the 3D image by considering whether density is above or below a threshold value."; 06850 }
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Get the processor's name. Each processor is identified by a unique name.
Implements EMAN::Processor. Definition at line 6838 of file processor.h. 06839 { 06840 return NAME; 06841 // return "gorgon.binary_skel"; 06842 }
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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 6851 of file processor.h. References EMAN::TypeDict::put(). 06852 { 06853 TypeDict d; 06854 d.put("threshold", EMObject::FLOAT, "Threshold value."); 06855 d.put("min_curve_width", EMObject::INT, "Minimum curve width."); 06856 d.put("min_surface_width", EMObject::INT, "Minimum surface width."); 06857 d.put("mark_surfaces", EMObject::BOOL, "Mark surfaces with a value of 2.0f, whereas curves are 1.0f."); 06858 return d; 06859 }
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Definition at line 6843 of file processor.h. 06844 { 06845 return new BinarySkeletonizerProcessor(); 06846 }
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Definition at line 9700 of file processor.cpp. References wustl_mm::SkeletonMaker::Volume::get_emdata(), wustl_mm::SkeletonMaker::Volume::getVolumeData(), wustl_mm::SkeletonMaker::VolumeData::owns_emdata, EMAN::Dict::set_default(), and EMAN::EMData::update(). Referenced by process_inplace(). 09701 { 09702 using namespace wustl_mm::GraySkeletonCPP; 09703 using namespace wustl_mm::SkeletonMaker; 09704 09705 Volume * vimage = new Volume(image); 09706 float threshold = params["threshold"]; 09707 int min_curvew = params.set_default("min_curve_width", 4); 09708 int min_srfcw = params.set_default("min_surface_width", 4); 09709 bool mark_surfaces = params.set_default("mark_surfaces", true); 09710 Volume* vskel = VolumeSkeletonizer::PerformPureJuSkeletonization(vimage, "unused", static_cast<double>(threshold), min_curvew, min_srfcw); 09711 //VolumeSkeletonizer::CleanUpSkeleton(vskel, 4, 0.01f); 09712 if (mark_surfaces) { 09713 VolumeSkeletonizer::MarkSurfaces(vskel); 09714 } 09715 09716 vskel->getVolumeData()->owns_emdata = false; //ensure the EMData object will remain when the Volume and its VolumeData object are freed 09717 EMData* skel = vskel->get_emdata(); 09718 skel->update(); 09719 return skel; 09720 }
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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 9722 of file processor.cpp. References process(), and EMAN::EMData::update(). 09723 { 09724 EMData* em_skel = this->process(image); 09725 //TODO: use memcpy and copy metadata explicitly 09726 *image = *em_skel; //Deep copy performed by EMData::operator= 09727 image->update(); 09728 delete em_skel; 09729 em_skel = NULL; 09730 return; 09731 }
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Definition at line 217 of file processor.cpp. |