#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 807 of file aligner.h.
virtual EMData* EMAN::RotateTranslateFlipAligner::align | ( | EMData * | this_img, | |
EMData * | to_img | |||
) | const [inline, virtual] |
Implements EMAN::Aligner.
Definition at line 812 of file aligner.h.
References align().
00813 { 00814 return align(this_img, to_img, "sqeuclidean", Dict()); 00815 }
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 778 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().
00780 { 00781 // Get the non flipped rotational, tranlsationally aligned image 00782 Dict rt_params("maxshift", params["maxshift"], "rfp_mode", params.set_default("rfp_mode",2),"useflcf",params.set_default("useflcf",0)); 00783 EMData *rot_trans_align = this_img->align("rotate_translate",to,rt_params,cmp_name, cmp_params); 00784 00785 // Do the same alignment, but using the flipped version of the image 00786 EMData *flipped = params.set_default("flip", (EMData *) 0); 00787 bool delete_flag = false; 00788 if (flipped == 0) { 00789 flipped = to->process("xform.flip", Dict("axis", "x")); 00790 delete_flag = true; 00791 } 00792 00793 EMData * rot_trans_align_flip = this_img->align("rotate_translate", flipped, rt_params, cmp_name, cmp_params); 00794 Transform * t = rot_trans_align_flip->get_attr("xform.align2d"); 00795 t->set_mirror(true); 00796 rot_trans_align_flip->set_attr("xform.align2d",t); 00797 delete t; 00798 00799 // Now finally decide on what is the best answer 00800 float cmp1 = rot_trans_align->cmp(cmp_name, to, cmp_params); 00801 float cmp2 = rot_trans_align_flip->cmp(cmp_name, flipped, cmp_params); 00802 00803 if (delete_flag){ 00804 if(flipped) { 00805 delete flipped; 00806 flipped = 0; 00807 } 00808 } 00809 00810 EMData *result = 0; 00811 if (cmp1 < cmp2 ) { 00812 00813 if( rot_trans_align_flip ) { 00814 delete rot_trans_align_flip; 00815 rot_trans_align_flip = 0; 00816 } 00817 result = rot_trans_align; 00818 } 00819 else { 00820 if( rot_trans_align ) { 00821 delete rot_trans_align; 00822 rot_trans_align = 0; 00823 } 00824 result = rot_trans_align_flip; 00825 result->process_inplace("xform.flip",Dict("axis","x")); 00826 } 00827 00828 return result; 00829 }
virtual string EMAN::RotateTranslateFlipAligner::get_desc | ( | ) | const [inline, virtual] |
Implements EMAN::Aligner.
Definition at line 822 of file aligner.h.
00823 { 00824 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"; 00825 }
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 832 of file aligner.h.
References static_get_param_types().
00833 { 00834 return static_get_param_types(); 00835 }
static Aligner* EMAN::RotateTranslateFlipAligner::NEW | ( | ) | [inline, static] |
static TypeDict EMAN::RotateTranslateFlipAligner::static_get_param_types | ( | ) | [inline, static] |
Definition at line 837 of file aligner.h.
References EMAN::EMObject::EMDATA, EMAN::EMObject::INT, and EMAN::TypeDict::put().
Referenced by get_param_types().
00837 { 00838 TypeDict d; 00839 00840 d.put("flip", EMObject::EMDATA); 00841 d.put("usedot", EMObject::INT); 00842 d.put("maxshift", EMObject::INT, "Maximum translation in pixels"); 00843 d.put("rfp_mode", EMObject::INT,"Either 0,1 or 2. A temporary flag for testing the rotational foot print"); 00844 d.put("useflcf", EMObject::INT,"Use Fast Local Correlation Function rather than CCF for translational alignment"); 00845 return d; 00846 }
const string RotateTranslateFlipAligner::NAME = "rotate_translate_flip" [static] |