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EMAN::CoordinateMaskFileProcessor Class Reference

Multiplies the image by the specified file using pixel coordinates instead of pixel indices. More...

#include <processor.h>

Inheritance diagram for EMAN::CoordinateMaskFileProcessor:

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Collaboration diagram for EMAN::CoordinateMaskFileProcessor:

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List of all members.

Public Member Functions

virtual void process_inplace (EMData *image)
 To process an image in-place.
virtual string get_name () const
 Get the processor's name.
virtual 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

ProcessorNEW ()

Static Public Attributes

const string NAME = "mask.fromfile.sizediff"

Detailed Description

Multiplies the image by the specified file using pixel coordinates instead of pixel indices.

The images can be different size.

Parameters:
filename mask image file name

Definition at line 5455 of file processor.h.


Member Function Documentation

virtual string EMAN::CoordinateMaskFileProcessor::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 5470 of file processor.h.

05471                 {
05472                         return "Multiplies the image by the specified file using pixel coordinates instead of pixel indices. The images can be different size.";
05473                 }

virtual string EMAN::CoordinateMaskFileProcessor::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 5460 of file processor.h.

05461                 {
05462                         return NAME;
05463                 }

virtual TypeDict EMAN::CoordinateMaskFileProcessor::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 5475 of file processor.h.

References EMAN::TypeDict::put().

05476                 {
05477                         TypeDict d;
05478                         d.put("filename", EMObject::STRING, "mask image file name");
05479                         return d;
05480                 }

Processor* EMAN::CoordinateMaskFileProcessor::NEW  )  [inline, static]
 

Definition at line 5465 of file processor.h.

05466                 {
05467                         return new CoordinateMaskFileProcessor();
05468                 }

void CoordinateMaskFileProcessor::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 6249 of file processor.cpp.

References EMAN::EMData::get_attr(), EMAN::EMData::get_attr_default(), EMAN::EMData::get_data(), EMAN::EMData::get_xsize(), EMAN::EMData::get_ysize(), EMAN::EMData::get_zsize(), LOGWARN, nx, ny, EMAN::EMData::read_image(), and EMAN::EMData::update().

06250 {
06251         if (!image) {
06252                 LOGWARN("NULL Image");
06253                 return;
06254         }
06255 
06256         const char *filename = params["filename"];
06257         EMData *msk = new EMData();
06258         msk->read_image(filename);
06259 
06260         int nx = image->get_xsize();
06261         int ny = image->get_ysize();
06262         int nz = image->get_zsize();
06263 
06264         int xm = msk->get_xsize();
06265         int ym = msk->get_ysize();
06266         int zm = msk->get_zsize();
06267 
06268         float apix = image->get_attr("apix_x");
06269         float apixm = msk->get_attr("apix_x");
06270 
06271         float xo = image->get_attr_default("origin_x",0.0);
06272         float yo = image->get_attr_default("origin_y",0.0);
06273         float zo = image->get_attr_default("origin_z",0.0);
06274 
06275         float xom = msk->get_attr_default("origin_x",0.0);
06276         float yom = msk->get_attr_default("origin_y",0.0);
06277         float zom = msk->get_attr_default("origin_z",0.0);
06278 
06279         float *dp = image->get_data();
06280         float *dpm = msk->get_data();
06281         int nxy = nx * ny;
06282 
06283         for (int k = 0; k < nz; k++) {
06284                 float zc = zo + k * apix;
06285                 if (zc <= zom || zc >= zom + zm * apixm) {
06286                         memset(&(dp[k * nxy]), 0, sizeof(float) * nxy);
06287                 }
06288                 else {
06289                         int km = (int) ((zc - zom) / apixm);
06290 
06291                         for (int j = 0; j < ny; j++) {
06292                                 float yc = yo + j * apix;
06293                                 if (yc <= yom || yc >= yom + ym * apixm) {
06294                                         memset(&(dp[k * nxy + j * nx]), 0, sizeof(float) * nx);
06295                                 }
06296                                 else {
06297                                         int jm = (int) ((yc - yom) / apixm);
06298                                         size_t idx = 0;
06299                                         float xc;
06300                                         int im;
06301                                         for (int i = 0; i < nx; i++) {
06302                                                 xc = xo + i * apix;
06303                                                 idx = (size_t)k * nxy + j * nx + i;
06304                                                 if (xc <= xom || xc >= xom + xm * apixm) {
06305                                                         dp[idx] = 0;
06306                                                 }
06307                                                 else {
06308                                                         im = (int) ((xc - xom) / apixm);
06309                                                         if (dpm[km * xm * ym + jm * xm + im] <= 0) {
06310                                                                 dp[idx] = 0;
06311                                                         }
06312                                                 }
06313                                         }
06314                                 }
06315                         }
06316                 }
06317         }
06318 
06319         image->update();
06320         msk->update();
06321         if( msk )
06322         {
06323                 delete msk;
06324                 msk = 0;
06325         }
06326 }


Member Data Documentation

const string CoordinateMaskFileProcessor::NAME = "mask.fromfile.sizediff" [static]
 

Definition at line 180 of file processor.cpp.


The documentation for this class was generated from the following files:
Generated on Tue Jun 11 13:49:03 2013 for EMAN2 by  doxygen 1.3.9.1