#include <aligner.h>
Inheritance diagram for EMAN::RotateTranslateFlipAligner:
Public Member Functions | |
virtual EMData * | align (EMData *this_img, EMData *to_img, const string &cmp_name="dot", const Dict &cmp_params=Dict()) const |
To align 'this_img' with another image passed in through its parameters. | |
virtual EMData * | align (EMData *this_img, EMData *to_img) const |
virtual string | get_name () const |
Get the Aligner's name. | |
virtual string | get_desc () const |
virtual TypeDict | get_param_types () const |
Static Public Member Functions | |
Aligner * | NEW () |
TypeDict | static_get_param_types () |
Static Public Attributes | |
const string | NAME = "rotate_translate_flip" |
flip | ||
usedot | ||
maxshift | Maximum translation in pixels | |
rfp_mode | Either 0,1 or 2. A temporary flag for testing the rotational foot print |
Definition at line 568 of file aligner.h.
|
Implements EMAN::Aligner. Definition at line 573 of file aligner.h. References align(). 00574 { 00575 return align(this_img, to_img, "sqeuclidean", Dict()); 00576 }
|
|
To align 'this_img' with another image passed in through its parameters. The alignment uses a user-given comparison method to compare the two images. If none is given, a default one is used.
Implements EMAN::Aligner. Definition at line 505 of file aligner.cpp. References EMAN::EMData::align(), EMAN::EMData::cmp(), EMAN::EMData::get_attr(), EMAN::EMData::process(), EMAN::EMData::process_inplace(), EMAN::EMData::set_attr(), EMAN::Dict::set_default(), EMAN::Transform::set_mirror(), and t. 00507 { 00508 // Get the non flipped rotational, tranlsationally aligned image 00509 Dict rt_params("maxshift", params["maxshift"], "rfp_mode", params.set_default("rfp_mode",0),"useflcf",params.set_default("useflcf",0)); 00510 EMData *rot_trans_align = this_img->align("rotate_translate",to,rt_params,cmp_name, cmp_params); 00511 00512 // Do the same alignment, but using the flipped version of the image 00513 EMData *flipped = params.set_default("flip", (EMData *) 0); 00514 bool delete_flag = false; 00515 if (flipped == 0) { 00516 flipped = to->process("xform.flip", Dict("axis", "x")); 00517 delete_flag = true; 00518 } 00519 00520 EMData * rot_trans_align_flip = this_img->align("rotate_translate", flipped, rt_params, cmp_name, cmp_params); 00521 Transform* t = rot_trans_align_flip->get_attr("xform.align2d"); 00522 t->set_mirror(true); 00523 rot_trans_align_flip->set_attr("xform.align2d",t); 00524 delete t; 00525 00526 // Now finally decide on what is the best answer 00527 float cmp1 = rot_trans_align->cmp(cmp_name, to, cmp_params); 00528 float cmp2 = rot_trans_align_flip->cmp(cmp_name, flipped, cmp_params); 00529 00530 if (delete_flag){ 00531 if(flipped) { 00532 delete flipped; 00533 flipped = 0; 00534 } 00535 } 00536 00537 EMData *result = 0; 00538 if (cmp1 < cmp2 ) { 00539 00540 if( rot_trans_align_flip ) { 00541 delete rot_trans_align_flip; 00542 rot_trans_align_flip = 0; 00543 } 00544 result = rot_trans_align; 00545 } 00546 else { 00547 if( rot_trans_align ) { 00548 delete rot_trans_align; 00549 rot_trans_align = 0; 00550 } 00551 result = rot_trans_align_flip; 00552 result->process_inplace("xform.flip",Dict("axis","x")); 00553 } 00554 00555 return result; 00556 }
|
|
Implements EMAN::Aligner. Definition at line 583 of file aligner.h. 00584 { 00585 return " Does two 'rotate_translate' alignments, one to accommodate for possible handedness change. Decided which alignment is better using a comparitor and returns the aligned image as the solution"; 00586 }
|
|
Get the Aligner's name. Each Aligner is identified by a unique name.
Implements EMAN::Aligner. Definition at line 578 of file aligner.h. 00579 {
00580 return NAME;
00581 }
|
|
Implements EMAN::Aligner. Definition at line 593 of file aligner.h. 00594 { 00595 return static_get_param_types(); 00596 }
|
|
Definition at line 588 of file aligner.h. 00589 { 00590 return new RotateTranslateFlipAligner(); 00591 }
|
|
Definition at line 598 of file aligner.h. References EMAN::TypeDict::put(). 00598 { 00599 TypeDict d; 00600 00601 d.put("flip", EMObject::EMDATA); 00602 d.put("usedot", EMObject::INT); 00603 d.put("maxshift", EMObject::INT, "Maximum translation in pixels"); 00604 d.put("rfp_mode", EMObject::INT,"Either 0,1 or 2. A temporary flag for testing the rotational foot print"); 00605 d.put("useflcf", EMObject::INT,"Use Fast Local Correlation Function rather than CCF for translational alignment"); 00606 return d; 00607 }
|
|
Definition at line 62 of file aligner.cpp. |