EMAN::RotatePrecenterAligner Class Reference

rotational alignment assuming centers are correct More...

#include <aligner.h>

Inheritance diagram for EMAN::RotatePrecenterAligner:

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Collaboration diagram for EMAN::RotatePrecenterAligner:

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List of all members.

Public Member Functions

virtual EMDataalign (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 EMDataalign (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 AlignerNEW ()

Static Public Attributes

static const string NAME = "rotate_precenter"

Detailed Description

rotational alignment assuming centers are correct

Definition at line 369 of file aligner.h.


Member Function Documentation

virtual EMData* EMAN::RotatePrecenterAligner::align ( EMData this_img,
EMData to_img 
) const [inline, virtual]

Implements EMAN::Aligner.

Definition at line 375 of file aligner.h.

References align().

00376                 {
00377                         return align(this_img, to_img, "dot", Dict());
00378                 }

EMData * RotatePrecenterAligner::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.

Parameters:
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.
Returns:
The aligned image.

Implements EMAN::Aligner.

Definition at line 479 of file aligner.cpp.

References EMAN::Util::calc_best_fft_size(), EMAN::EMData::calc_ccfx(), data, EMAN::Util::find_max(), EMAN::EMData::get_data(), EMAN::EMData::get_ysize(), ny, EMAN::EMData::process(), EMAN::EMData::set_attr(), EMAN::Transform::set_rotation(), and EMAN::EMData::unwrap().

Referenced by align().

00481 {
00482         if (!to) {
00483                 return 0;
00484         }
00485 
00486         int ny = this_img->get_ysize();
00487         int size = Util::calc_best_fft_size((int) (M_PI * ny * 1.5));
00488         EMData *e1 = this_img->unwrap(4, ny * 7 / 16, size, 0, 0, 1);
00489         EMData *e2 = to->unwrap(4, ny * 7 / 16, size, 0, 0, 1);
00490         EMData *cf = e1->calc_ccfx(e2, 0, ny);
00491 
00492         float *data = cf->get_data();
00493 
00494         float peak = 0;
00495         int peak_index = 0;
00496         Util::find_max(data, size, &peak, &peak_index);
00497         float a = (float) ((1.0f - 1.0f * peak_index / size) * 180. * 2);
00498 
00499         Transform rot;
00500         rot.set_rotation(Dict("type","2d","alpha",(float)(a*180./M_PI)));
00501         EMData* rslt = this_img->process("xform",Dict("transform",&rot));
00502         rslt->set_attr("xform.align2d",&rot);
00503 //
00504 //      Transform* t = get_set_align_attr("xform.align2d",rslt,this_img);
00505 //      t->set_rotation(Dict("type","2d","alpha",-a));
00506 //
00507 //      EMData* result this_img->transform(Dict("type","2d","alpha",(float)(a*180./M_PI)));
00508 //
00509 //      cf->set_attr("xform.align2d",t);
00510 //      delete t;
00511 //      cf->update();
00512 
00513         if( e1 )
00514         {
00515                 delete e1;
00516                 e1 = 0;
00517         }
00518 
00519         if( e2 )
00520         {
00521                 delete e2;
00522                 e2 = 0;
00523         }
00524 
00525         if (cf) {
00526                 delete cf;
00527                 cf = 0;
00528         }
00529         return rslt;
00530 }

virtual string EMAN::RotatePrecenterAligner::get_desc (  )  const [inline, virtual]

Implements EMAN::Aligner.

Definition at line 385 of file aligner.h.

00386                 {
00387                         return "Performs rotational alignment and works accurately if the image is precentered";
00388                 }

virtual string EMAN::RotatePrecenterAligner::get_name (  )  const [inline, virtual]

Get the Aligner's name.

Each Aligner is identified by a unique name.

Returns:
The Aligner's name.

Implements EMAN::Aligner.

Definition at line 380 of file aligner.h.

References NAME.

00381                 {
00382                         return NAME;
00383                 }

virtual TypeDict EMAN::RotatePrecenterAligner::get_param_types (  )  const [inline, virtual]

Implements EMAN::Aligner.

Definition at line 395 of file aligner.h.

00396                 {
00397                         TypeDict d;
00398                         return d;
00399                 }

static Aligner* EMAN::RotatePrecenterAligner::NEW (  )  [inline, static]

Definition at line 390 of file aligner.h.

00391                 {
00392                         return new RotatePrecenterAligner();
00393                 }


Member Data Documentation

const string RotatePrecenterAligner::NAME = "rotate_precenter" [static]

Definition at line 401 of file aligner.h.

Referenced by get_name().


The documentation for this class was generated from the following files:
Generated on Thu May 3 10:08:40 2012 for EMAN2 by  doxygen 1.4.7