EMAN::BinarySkeletonizerProcessor Class Reference

#include <processor.h>

Inheritance diagram for EMAN::BinarySkeletonizerProcessor:

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Collaboration diagram for EMAN::BinarySkeletonizerProcessor:

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List of all members.

Public Member Functions

virtual EMDataprocess (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 ProcessorNEW ()

Static Public Attributes

static const string NAME = "gorgon.binary_skel"

Detailed Description

Definition at line 6926 of file processor.h.


Member Function Documentation

string EMAN::BinarySkeletonizerProcessor::get_desc (  )  const [inline, virtual]

Get the descrition of this specific processor.

This function must be overwritten by a subclass.

Returns:
The description of this processor.

Implements EMAN::Processor.

Definition at line 6941 of file processor.h.

06942                 {
06943                         return "Creates a skeleton of the 3D image by considering whether density is above or below a threshold value.";
06944                 }

virtual string EMAN::BinarySkeletonizerProcessor::get_name (  )  const [inline, virtual]

Get the processor's name.

Each processor is identified by a unique name.

Returns:
The processor's name.

Implements EMAN::Processor.

Definition at line 6932 of file processor.h.

References NAME.

06933                 {
06934                         return NAME;
06935 //                      return "gorgon.binary_skel";
06936                 }

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.

Returns:
A dictionary containing the parameter info.

Reimplemented from EMAN::Processor.

Definition at line 6945 of file processor.h.

References EMAN::EMObject::BOOL, EMAN::EMObject::FLOAT, EMAN::EMObject::INT, and EMAN::TypeDict::put().

06946                 {
06947                         TypeDict d;
06948                         d.put("threshold", EMObject::FLOAT, "Threshold value.");
06949                         d.put("min_curve_width", EMObject::INT, "Minimum curve width.");
06950                         d.put("min_surface_width", EMObject::INT, "Minimum surface width.");
06951                         d.put("mark_surfaces", EMObject::BOOL, "Mark surfaces with a value of 2.0f, whereas curves are 1.0f.");
06952                         return d;
06953                 }

static Processor* EMAN::BinarySkeletonizerProcessor::NEW (  )  [inline, static]

Definition at line 6937 of file processor.h.

06938                 {
06939                         return new BinarySkeletonizerProcessor();
06940                 }

EMData * BinarySkeletonizerProcessor::process ( EMData image  )  [virtual]

Definition at line 9730 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().

09731 {
09732         using namespace wustl_mm::GraySkeletonCPP;
09733         using namespace wustl_mm::SkeletonMaker;
09734 
09735         Volume * vimage = new Volume(image);
09736         float threshold = params["threshold"];
09737         int min_curvew = params.set_default("min_curve_width", 4);
09738         int min_srfcw = params.set_default("min_surface_width", 4);
09739         bool mark_surfaces = params.set_default("mark_surfaces", true);
09740         Volume* vskel = VolumeSkeletonizer::PerformPureJuSkeletonization(vimage, "unused", static_cast<double>(threshold), min_curvew, min_srfcw);
09741         //VolumeSkeletonizer::CleanUpSkeleton(vskel, 4, 0.01f);
09742         if (mark_surfaces) {
09743                 VolumeSkeletonizer::MarkSurfaces(vskel);
09744         }
09745 
09746         vskel->getVolumeData()->owns_emdata = false; //ensure the EMData object will remain when the Volume and its VolumeData object are freed
09747         EMData* skel = vskel->get_emdata();
09748         skel->update();
09749         return skel;
09750 }

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.

Parameters:
image The image to be processed.

Implements EMAN::Processor.

Definition at line 9752 of file processor.cpp.

References process(), and EMAN::EMData::update().

09753 {
09754         EMData* em_skel = this->process(image);
09755         //TODO: use memcpy and copy metadata explicitly
09756         *image = *em_skel; //Deep copy performed by EMData::operator=
09757         image->update();
09758         delete em_skel;
09759         em_skel = NULL;
09760         return;
09761 }


Member Data Documentation

const string BinarySkeletonizerProcessor::NAME = "gorgon.binary_skel" [static]

Definition at line 6954 of file processor.h.

Referenced by get_name().


The documentation for this class was generated from the following files:
Generated on Tue Jul 12 13:49:49 2011 for EMAN2 by  doxygen 1.4.7