fwd_bem_model.cpp File Reference

Definition of the FwdBemModel Class. More...

#include "fwd_bem_model.h"
#include "fwd_bem_solution.h"
#include "fwd_eeg_sphere_model.h"
#include <mne/mne_surface.h>
#include <mne/mne_triangle.h>
#include <mne/mne_source_space.h>
#include "fwd_comp_data.h"
#include "fwd_thread_arg.h"
#include <fiff/fiff_stream.h>
#include <fiff/fiff_named_matrix.h>
#include <QFile>
#include <QList>
#include <QThread>
#include <QtConcurrent>
#include <math.h>
#include <Eigen/Dense>
#include <Eigen/Core>

Include dependency graph for fwd_bem_model.cpp:

Go to the source code of this file.

Classes
struct	FWDLIB::frameNameRec_40
	Lookup record mapping a FIFF coordinate frame integer ID to its human-readable name. More...

Namespaces
namespace	FWDLIB
	Forward modelling (BEM, MEG/EEG lead fields).

Macros
#define	_USE_MATH_DEFINES
#define	TRUE   1
#define	FALSE   0
#define	FAIL   -1
#define	OK   0
#define	X_40   0
#define	Y_40   1
#define	Z_40   2
#define	VEC_DIFF_40(from, to, diff)
#define	VEC_COPY_40(to, from)
#define	VEC_DOT_40(x, y)
#define	VEC_LEN_40(x)
#define	CROSS_PRODUCT_40(x, y, xy)
#define	MALLOC_40(x, t)
#define	ALLOC_CMATRIX_40(x, y)
#define	FREE_40(x)
#define	FREE_CMATRIX_40(m)
#define	BEM_SUFFIX   "-bem.fif"
#define	BEM_SOL_SUFFIX   "-bem-sol.fif"
#define	ARSINH(x)
#define	EPS
#define	CEPS   1e-5

Functions
void	mne_free_cmatrix_40 (float **m)
float **	mne_cmatrix_40 (int nr, int nc)
Eigen::MatrixXf	toFloatEigenMatrix_40 (float **mat, const int m, const int n)
void	fromFloatEigenMatrix_40 (const Eigen::MatrixXf &from_mat, float **&to_mat, const int m, const int n)
void	fromFloatEigenMatrix_40 (const Eigen::MatrixXf &from_mat, float **&to_mat)
float **	mne_lu_invert_40 (float **mat, int dim)
void	mne_transpose_square_40 (float **mat, int n)
float	mne_dot_vectors_40 (float *v1, float *v2, int nn)
void	mne_add_scaled_vector_to_40 (float *v1, float scale, float *v2, int nn)
void	mne_scale_vector_40 (double scale, float *v, int nn)
float **	mne_mat_mat_mult_40 (float **m1, float **m2, int d1, int d2, int d3)
const QString	mne_coord_frame_name_40 (int frame)

Detailed Description

Definition of the FwdBemModel Class.

Author

Lorenz Esch lesch.nosp@m.@mgh.nosp@m..harv.nosp@m.ard..nosp@m.edu; Matti Hamalainen msh@n.nosp@m.mr.m.nosp@m.gh.ha.nosp@m.rvar.nosp@m.d.edu; Christoph Dinh chdin.nosp@m.h@nm.nosp@m.r.mgh.nosp@m..har.nosp@m.vard..nosp@m.edu

Since

0.1.0

Date

January, 2017

LICENSE

Copyright (C) 2017, Lorenz Esch, Matti Hamalainen, Christoph Dinh. All rights reserved.

Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met:

• Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer.
• Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution.
• Neither the name of MNE-CPP authors nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission.

THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.

Definition in file fwd_bem_model.cpp.

Macro Definition Documentation

_USE_MATH_DEFINES

#define _USE_MATH_DEFINES

Definition at line 61 of file fwd_bem_model.cpp.

ALLOC_CMATRIX_40

#define ALLOC_CMATRIX_40	(		x,
			y )

Value:

mne_cmatrix_40((x),(y))

Definition at line 114 of file fwd_bem_model.cpp.

ARSINH

#define ARSINH

(

x

)

Value:

log((x) + sqrt(1.0+(x)*(x)))

Definition at line 1937 of file fwd_bem_model.cpp.

BEM_SOL_SUFFIX

#define BEM_SOL_SUFFIX   "-bem-sol.fif"

Definition at line 346 of file fwd_bem_model.cpp.

BEM_SUFFIX

#define BEM_SUFFIX   "-bem.fif"

Definition at line 345 of file fwd_bem_model.cpp.

CEPS

#define CEPS   1e-5

Definition at line 3570 of file fwd_bem_model.cpp.

CROSS_PRODUCT_40

#define CROSS_PRODUCT_40	(		x,
			y,
			xy )

Value:

{\
(xy)[X_40] =   (x)[Y_40]*(y)[Z_40]-(y)[Y_40]*(x)[Z_40];\
(xy)[Y_40] = -((x)[X_40]*(y)[Z_40]-(y)[X_40]*(x)[Z_40]);\
(xy)[Z_40] =   (x)[X_40]*(y)[Y_40]-(y)[X_40]*(x)[Y_40];\
}

Definition at line 106 of file fwd_bem_model.cpp.

EPS

#define EPS

Value:

1e-5   /* Points closer to origin than this many
meters are considered to be at the
origin */

Definition at line 3569 of file fwd_bem_model.cpp.

FAIL

#define FAIL   -1

Definition at line 79 of file fwd_bem_model.cpp.

FALSE

#define FALSE   0

Definition at line 75 of file fwd_bem_model.cpp.

FREE_40

#define FREE_40

(

x

)

Value:

if ((char *)(x) != NULL) free((char *)(x))

Definition at line 116 of file fwd_bem_model.cpp.

FREE_CMATRIX_40

#define FREE_CMATRIX_40

(

m

)

Value:

mne_free_cmatrix_40((m))

Definition at line 118 of file fwd_bem_model.cpp.

MALLOC_40

#define MALLOC_40	(		x,
			t )

Value:

(t *)malloc((x)*sizeof(t))

Definition at line 112 of file fwd_bem_model.cpp.

OK

#define OK   0

Definition at line 83 of file fwd_bem_model.cpp.

TRUE

#define TRUE   1

Definition at line 71 of file fwd_bem_model.cpp.

VEC_COPY_40

#define VEC_COPY_40	(		to,
			from )

Value:

{\
(to)[X_40] = (from)[X_40];\
(to)[Y_40] = (from)[Y_40];\
(to)[Z_40] = (from)[Z_40];\
}

Definition at line 96 of file fwd_bem_model.cpp.

VEC_DIFF_40

#define VEC_DIFF_40	(		from,
			to,
			diff )

Value:

{\
(diff)[X_40] = (to)[X_40] - (from)[X_40];\
(diff)[Y_40] = (to)[Y_40] - (from)[Y_40];\
(diff)[Z_40] = (to)[Z_40] - (from)[Z_40];\
}

Definition at line 90 of file fwd_bem_model.cpp.

VEC_DOT_40

#define VEC_DOT_40	(		x,
			y )

Value:

((x)[X_40]*(y)[X_40] + (x)[Y_40]*(y)[Y_40] + (x)[Z_40]*(y)[Z_40])

Definition at line 102 of file fwd_bem_model.cpp.

VEC_LEN_40

#define VEC_LEN_40

(

x

)

Value:

sqrt(VEC_DOT_40(x,x))

Definition at line 104 of file fwd_bem_model.cpp.

X_40

#define X_40   0

Definition at line 86 of file fwd_bem_model.cpp.

Y_40

#define Y_40   1

Definition at line 87 of file fwd_bem_model.cpp.

Z_40

#define Z_40   2

Definition at line 88 of file fwd_bem_model.cpp.

Function Documentation

fromFloatEigenMatrix_40() [1/2]

void fromFloatEigenMatrix_40	(	const Eigen::MatrixXf &	from_mat,
		float **&	to_mat )

Definition at line 181 of file fwd_bem_model.cpp.

fromFloatEigenMatrix_40() [2/2]

void fromFloatEigenMatrix_40	(	const Eigen::MatrixXf &	from_mat,
		float **&	to_mat,
		const int	m,
		const int	n )

Definition at line 174 of file fwd_bem_model.cpp.

mne_add_scaled_vector_to_40()

void mne_add_scaled_vector_to_40	(	float *	v1,
		float	scale,
		float *	v2,
		int	nn )

Definition at line 234 of file fwd_bem_model.cpp.

mne_cmatrix_40()

float ** mne_cmatrix_40	(	int	nr,
		int	nc )

Definition at line 145 of file fwd_bem_model.cpp.

mne_coord_frame_name_40()

const QString mne_coord_frame_name_40

(

int

frame

)

Definition at line 379 of file fwd_bem_model.cpp.

mne_dot_vectors_40()

float mne_dot_vectors_40	(	float *	v1,
		float *	v2,
		int	nn )

Definition at line 215 of file fwd_bem_model.cpp.

mne_free_cmatrix_40()

void mne_free_cmatrix_40

(

float **

m

)

Definition at line 120 of file fwd_bem_model.cpp.

mne_lu_invert_40()

float ** mne_lu_invert_40	(	float **	mat,
		int	dim )

Definition at line 186 of file fwd_bem_model.cpp.

mne_mat_mat_mult_40()

float ** mne_mat_mat_mult_40	(	float **	m1,
		float **	m2,
		int	d1,
		int	d2,
		int	d3 )

Definition at line 266 of file fwd_bem_model.cpp.

mne_scale_vector_40()

void mne_scale_vector_40	(	double	scale,
		float *	v,
		int	nn )

Definition at line 249 of file fwd_bem_model.cpp.

mne_transpose_square_40()

void mne_transpose_square_40	(	float **	mat,
		int	n )

Definition at line 198 of file fwd_bem_model.cpp.

toFloatEigenMatrix_40()

Eigen::MatrixXf toFloatEigenMatrix_40	(	float **	mat,
		const int	m,
		const int	n )

Definition at line 163 of file fwd_bem_model.cpp.