#include <processor.h>
Inheritance diagram for EMAN::ToMassCenterProcessor:
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 | |
Processor * | NEW () |
Static Public Attributes | |
const string | NAME = "xform.centerofmass" |
int_shift_only | set to 1 only shift by integer, no interpolation |
Definition at line 5084 of file processor.h.
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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 5099 of file processor.h. 05100 { 05101 return "ToMassCenterProcessor centers image at center of mass. Note: includes only values > mean+0.75*sigma"; 05102 }
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Get the processor's name. Each processor is identified by a unique name.
Implements EMAN::Processor. Definition at line 5089 of file processor.h. 05090 {
05091 return NAME;
05092 }
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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 5104 of file processor.h. References EMAN::TypeDict::put(). 05105 { 05106 TypeDict d; 05107 d.put("int_shift_only", EMObject::INT, "set to 1 only shift by integer, no interpolation"); 05108 // d.put("positive", EMObject::INT, "uses only densities >0 for the calculatton"); 05109 return d; 05110 }
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Definition at line 5094 of file processor.h. 05095 { 05096 return new ToMassCenterProcessor(); 05097 }
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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 5483 of file processor.cpp. References EMAN::EMData::calc_center_of_mass(), EMAN::EMObject::f, EMAN::EMData::get_attr(), EMAN::EMData::get_xsize(), EMAN::EMData::get_ysize(), EMAN::EMData::get_zsize(), LOGWARN, nx, ny, EMAN::EMData::set_attr(), EMAN::Dict::set_default(), EMAN::Transform::set_trans(), t, and EMAN::EMData::translate(). 05484 { 05485 if (!image) { 05486 LOGWARN("NULL Image"); 05487 return; 05488 } 05489 05490 int int_shift_only = params.set_default("int_shift_only",1); 05491 // int positive = params.set_default("positive",0); 05492 05493 if ((float)image->get_attr("sigma")==0.0f) return; // Can't center a constant valued image 05494 05495 FloatPoint com = image->calc_center_of_mass(); 05496 05497 int nx = image->get_xsize(); 05498 int ny = image->get_ysize(); 05499 int nz = image->get_zsize(); 05500 05501 if (int_shift_only) { 05502 int dx = -(int)(floor(com[0] + 0.5f) - nx / 2); 05503 int dy = -(int)(floor(com[1] + 0.5f) - ny / 2); 05504 int dz = 0; 05505 if (nz > 1) { 05506 dz = -(int)(floor(com[2] + 0.5f) - nz / 2); 05507 } 05508 image->translate(dx, dy, dz); 05509 05510 Transform t; 05511 t.set_trans((float)dx,(float)dy,(float)dz); 05512 05513 if (nz > 1) { 05514 image->set_attr("xform.align3d",&t); 05515 } else { 05516 image->set_attr("xform.align2d",&t); 05517 } 05518 } 05519 else { 05520 float dx = -(com[0] - nx / 2); 05521 float dy = -(com[1] - ny / 2); 05522 float dz = 0; 05523 if (nz > 1) { 05524 dz = -(com[2] - nz / 2); 05525 } 05526 image->translate(dx, dy, dz); 05527 05528 Transform t; 05529 t.set_trans(dx,dy,dz); 05530 05531 if (nz > 1) { 05532 image->set_attr("xform.align3d",&t); 05533 } else { 05534 image->set_attr("xform.align2d",&t); 05535 } 05536 } 05537 }
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Definition at line 171 of file processor.cpp. |