#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 | |
static Aligner * | NEW () |
static TypeDict | static_get_param_types () |
Static Public Attributes | |
static 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 621 of file aligner.h.
virtual EMData* EMAN::RotateTranslateFlipAligner::align | ( | EMData * | this_img, | |
EMData * | to_img | |||
) | const [inline, virtual] |
Implements EMAN::Aligner.
Definition at line 626 of file aligner.h.
References align().
00627 { 00628 return align(this_img, to_img, "sqeuclidean", Dict()); 00629 }
EMData * RotateTranslateFlipAligner::align | ( | EMData * | this_img, | |
EMData * | to_img, | |||
const string & | cmp_name = "dot" , |
|||
const Dict & | cmp_params = Dict() | |||
) | const [virtual] |
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.
this_img | The image to be compared. | |
to_img | 'this_img" is aligned with 'to_img'. | |
cmp_name | The comparison method to compare the two images. | |
cmp_params | The parameter dictionary for comparison method. |
Implements EMAN::Aligner.
Definition at line 614 of file aligner.cpp.
References EMAN::EMData::align(), EMAN::EMData::cmp(), cmp1(), cmp2(), EMAN::EMData::get_attr(), EMAN::Aligner::params, EMAN::EMData::process(), EMAN::EMData::process_inplace(), EMAN::EMData::set_attr(), EMAN::Dict::set_default(), and t.
Referenced by align().
00616 { 00617 // Get the non flipped rotational, tranlsationally aligned image 00618 Dict rt_params("maxshift", params["maxshift"], "rfp_mode", params.set_default("rfp_mode",0),"useflcf",params.set_default("useflcf",0)); 00619 EMData *rot_trans_align = this_img->align("rotate_translate",to,rt_params,cmp_name, cmp_params); 00620 00621 // Do the same alignment, but using the flipped version of the image 00622 EMData *flipped = params.set_default("flip", (EMData *) 0); 00623 bool delete_flag = false; 00624 if (flipped == 0) { 00625 flipped = to->process("xform.flip", Dict("axis", "x")); 00626 delete_flag = true; 00627 } 00628 00629 EMData * rot_trans_align_flip = this_img->align("rotate_translate", flipped, rt_params, cmp_name, cmp_params); 00630 Transform* t = rot_trans_align_flip->get_attr("xform.align2d"); 00631 t->set_mirror(true); 00632 rot_trans_align_flip->set_attr("xform.align2d",t); 00633 delete t; 00634 00635 // Now finally decide on what is the best answer 00636 float cmp1 = rot_trans_align->cmp(cmp_name, to, cmp_params); 00637 float cmp2 = rot_trans_align_flip->cmp(cmp_name, flipped, cmp_params); 00638 00639 if (delete_flag){ 00640 if(flipped) { 00641 delete flipped; 00642 flipped = 0; 00643 } 00644 } 00645 00646 EMData *result = 0; 00647 if (cmp1 < cmp2 ) { 00648 00649 if( rot_trans_align_flip ) { 00650 delete rot_trans_align_flip; 00651 rot_trans_align_flip = 0; 00652 } 00653 result = rot_trans_align; 00654 } 00655 else { 00656 if( rot_trans_align ) { 00657 delete rot_trans_align; 00658 rot_trans_align = 0; 00659 } 00660 result = rot_trans_align_flip; 00661 result->process_inplace("xform.flip",Dict("axis","x")); 00662 } 00663 00664 return result; 00665 }
virtual string EMAN::RotateTranslateFlipAligner::get_desc | ( | ) | const [inline, virtual] |
Implements EMAN::Aligner.
Definition at line 636 of file aligner.h.
00637 { 00638 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"; 00639 }
virtual string EMAN::RotateTranslateFlipAligner::get_name | ( | ) | const [inline, virtual] |
virtual TypeDict EMAN::RotateTranslateFlipAligner::get_param_types | ( | ) | const [inline, virtual] |
Implements EMAN::Aligner.
Definition at line 646 of file aligner.h.
References static_get_param_types().
00647 { 00648 return static_get_param_types(); 00649 }
static Aligner* EMAN::RotateTranslateFlipAligner::NEW | ( | ) | [inline, static] |
static TypeDict EMAN::RotateTranslateFlipAligner::static_get_param_types | ( | ) | [inline, static] |
Definition at line 651 of file aligner.h.
References EMAN::EMObject::EMDATA, EMAN::EMObject::INT, and EMAN::TypeDict::put().
Referenced by get_param_types().
00651 { 00652 TypeDict d; 00653 00654 d.put("flip", EMObject::EMDATA); 00655 d.put("usedot", EMObject::INT); 00656 d.put("maxshift", EMObject::INT, "Maximum translation in pixels"); 00657 d.put("rfp_mode", EMObject::INT,"Either 0,1 or 2. A temporary flag for testing the rotational foot print"); 00658 d.put("useflcf", EMObject::INT,"Use Fast Local Correlation Function rather than CCF for translational alignment"); 00659 return d; 00660 }
const string RotateTranslateFlipAligner::NAME = "rotate_translate_flip" [static] |