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 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 ()

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Detailed Description

rotational alignment assuming centers are correct

Definition at line 252 of file aligner.h.

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Member Function Documentation

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 274 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().

{
        if (!to) {
                return 0;
        }

        int ny = this_img->get_ysize();
        int size = Util::calc_best_fft_size((int) (M_PI * ny * 1.5));
        EMData *e1 = this_img->unwrap(4, ny * 7 / 16, size, 0, 0, 1);
        EMData *e2 = to->unwrap(4, ny * 7 / 16, size, 0, 0, 1);
        EMData *cf = e1->calc_ccfx(e2, 0, ny);

        float *data = cf->get_data();

        float peak = 0;
        int peak_index = 0;
        Util::find_max(data, size, &peak, &peak_index);
        float a = (float) ((1.0f - 1.0f * peak_index / size) * 180. * 2);

        Transform rot;
        rot.set_rotation(Dict("type","2d","alpha",(float)(a*180./M_PI)));
        EMData* rslt = this_img->process("math.transform",Dict("transform",&rot));
        rslt->set_attr("xform.align2d",&rot);
//
//      Transform* t = get_set_align_attr("xform.align2d",rslt,this_img);
//      t->set_rotation(Dict("type","2d","alpha",-a));
//
//      EMData* result this_img->transform(Dict("type","2d","alpha",(float)(a*180./M_PI)));
//
//      cf->set_attr("xform.align2d",t);
//      delete t;
//      cf->update();

        if( e1 )
        {
                delete e1;
                e1 = 0;
        }

        if( e2 )
        {
                delete e2;
                e2 = 0;
        }

        if (cf) {
                delete cf;
                cf = 0;
        }

        return rslt;
}

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

Implements EMAN::Aligner.

Definition at line 258 of file aligner.h.

References align().

                {
                        return align(this_img, to_img, "", Dict());
                }

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 263 of file aligner.h.

                {
                        return "rotate_precenter";
                }

virtual string EMAN::RotatePrecenterAligner::get_desc

(

)

const [inline, virtual]

Implements EMAN::Aligner.

Definition at line 268 of file aligner.h.

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

static Aligner* EMAN::RotatePrecenterAligner::NEW

(

)

[inline, static]

Definition at line 273 of file aligner.h.

                {
                        return new RotatePrecenterAligner();
                }

virtual TypeDict EMAN::RotatePrecenterAligner::get_param_types

(

)

const [inline, virtual]

Implements EMAN::Aligner.

Definition at line 278 of file aligner.h.

                {
                        TypeDict d;
                        return d;
                }

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The documentation for this class was generated from the following files:

• aligner.h
• aligner.cpp