#include "plmbase_config.h"
#include <stdlib.h>
#include <string.h>
#include "itkArray.h"
#include "itkResampleImageFilter.h"
#include "itkBSplineResampleImageFunction.h"
#include "itkTransformFileWriter.h"
#include "itkTransformFileReader.h"
#include "bspline_interpolate.h"
#include "bspline_xform.h"
#include "bspline_xform_legacy.h"
#include "file_util.h"
#include "itk_directions.h"
#include "itk_image_create.h"
#include "itk_image_load.h"
#include "itk_image_save.h"
#include "itk_resample.h"
#include "logfile.h"
#include "mha_io.h"
#include "plm_image_header.h"
#include "plm_math.h"
#include "print_and_exit.h"
#include "string_util.h"
#include "volume.h"
#include "volume_header.h"
#include "volume_resample.h"
#include "xform.h"
#include "xform_legacy.h"

Functions
static void	itk_bsp_set_grid_img (Xform xf, const Plm_image_header pih, const float *grid_spac)

static void	load_gpuit_bsp (Xform xf, const char fn)

static void	itk_xform_load (Xform xf, const char fn)

void	xform_load (Xform xf, const char fn)

void	xform_load (Xform *xf, const std::string &fn)

Xform::Pointer	xform_load (const char *fn)

Xform::Pointer	xform_load (const std::string &fn)

template<class T >
static void	itk_xform_save (const T transform, const char *filename)

void	xform_save (Xform xf, const char fn)

void	xform_save (Xform *xf, const std::string &fn)

static void	init_versor_default (Xform *xf_out)

static void	init_quaternion_default (Xform *xf_out)

static void	init_affine_default (Xform *xf_out)

static void	init_similarity_default (Xform *xf_out)

void	xform_itk_bsp_init_default (Xform *xf)

static void	xform_trn_to_vrs (Xform xf_out, const Xform xf_in)

static void	xform_trn_to_aff (Xform xf_out, const Xform xf_in)

void	xform_trn_to_sim (Xform xf_out, const Xform xf_in)

static void	xform_vrs_to_quat (Xform xf_out, const Xform xf_in)

static void	xform_vrs_to_aff (Xform xf_out, const Xform xf_in)

static void	xform_vrs_to_sim (Xform xf_out, const Xform xf_in)

void	xform_sim_to_aff (Xform xf_out, const Xform xf_in)

static void	bsp_grid_from_img_grid (BsplineTransformType::OriginType &bsp_origin, BsplineTransformType::SpacingType &bsp_spacing, BsplineTransformType::RegionType &bsp_region, BsplineTransformType::DirectionType &bsp_direction, const Plm_image_header pih, const float grid_spac)

static void	xform_trn_to_itk_bsp_bulk (Xform xf_out, const Xform xf_in, const Plm_image_header pih, const float grid_spac)

static void	xform_vrs_to_itk_bsp_bulk (Xform xf_out, const Xform xf_in, const Plm_image_header pih, const float grid_spac)

static void	xform_quat_to_itk_bsp_bulk (Xform xf_out, const Xform xf_in, const Plm_image_header pih, const float grid_spac)

static void	xform_aff_to_itk_bsp_bulk (Xform xf_out, const Xform xf_in, const Plm_image_header pih, const float grid_spac)

static void	xform_any_to_itk_bsp_nobulk (Xform xf_out, Xform xf_in, const Bspline_header *bh)

static void	xform_any_to_itk_bsp_nobulk (Xform xf_out, Xform xf_in, const Plm_image_header pih, const float grid_spac)

static void	itk_bsp_extend_to_region (Xform xf, const Plm_image_header pih, const RegionType *roi)

static void	xform_itk_bsp_to_itk_bsp (Xform xf_out, const Xform xf_in, const Plm_image_header pih, const float grid_spac)

static void	gpuit_bsp_grid_to_itk_bsp_grid (BsplineTransformType::OriginType &bsp_origin, BsplineTransformType::SpacingType &bsp_spacing, BsplineTransformType::RegionType &bsp_region, BsplineTransformType::DirectionType &bsp_direction, Bspline_xform *bxf)

static void	gpuit_bsp_to_itk_bsp_raw (Xform xf_out, const Xform xf_in, const Plm_image_header *pih)

static void	xform_gpuit_bsp_to_itk_bsp (Xform xf_out, const Xform xf_in, const Plm_image_header pih, const float grid_spac)

static DeformationFieldType::Pointer	xform_itk_any_to_itk_vf (itk::Transform< double, 3, 3 > xf, const Plm_image_header pih)

static DeformationFieldType::Pointer	xform_itk_bsp_to_itk_vf (Xform xf_in, const Plm_image_header pih)

static DeformationFieldType::Pointer	xform_itk_vf_to_itk_vf (const DeformationFieldType::Pointer &vf, const Plm_image_header *pih)

static DeformationFieldType::Pointer	xform_gpuit_bsp_to_itk_vf (Xform xf_in, const Plm_image_header pih)

DeformationFieldType::Pointer	xform_gpuit_vf_to_itk_vf (Volume vf, const Plm_image_header pih)

static Bspline_xform *	create_gpuit_bxf (Plm_image_header pih, const float grid_spac)

void	xform_any_to_gpuit_bsp (Xform xf_out, Xform xf_in, Plm_image_header pih, const float grid_spac)

void	xform_gpuit_bsp_to_gpuit_bsp (Xform xf_out, Xform xf_in, Plm_image_header pih, const float grid_spac)

void	xform_gpuit_vf_to_gpuit_bsp (Xform xf_out, Xform xf_in, Plm_image_header pih, const float grid_spac)

static Volume::Pointer	xform_itk_any_to_gpuit_vf (itk::Transform< double, 3, 3 > xf, const Plm_image_header pih)

static Volume::Pointer	xform_gpuit_vf_to_gpuit_vf (const Volume::Pointer &vf_in, const Plm_image_header *pih)

static Volume::Pointer	xform_gpuit_bsp_to_gpuit_vf (const Xform xf_in, const Plm_image_header pih)

Volume::Pointer	xform_itk_vf_to_gpuit_vf (DeformationFieldType::Pointer itk_vf, const Plm_image_header *pih)

void	xform_to_trn (Xform xf_out, const Xform xf_in, Plm_image_header *pih)

void	xform_to_vrs (Xform xf_out, const Xform xf_in, Plm_image_header *pih)

void	xform_to_quat (Xform xf_out, const Xform xf_in, Plm_image_header *pih)

void	xform_to_aff (Xform xf_out, const Xform xf_in, Plm_image_header *pih)

Xform::Pointer	xform_to_aff (const Xform::Pointer &xf_in)

void	xform_to_similarity (Xform xf_out, const Xform xf_in, Plm_image_header *pih)

void	xform_to_itk_bsp (Xform xf_out, const Xform xf_in, Plm_image_header pih, const float grid_spac)

Xform::Pointer	xform_to_itk_bsp (const Xform::Pointer &xf_in, Plm_image_header pih, const float grid_spac)

void	xform_to_itk_bsp_nobulk (Xform xf_out, Xform xf_in, Plm_image_header pih, const float grid_spac)

Xform::Pointer	xform_to_itk_bsp_nobulk (const Xform::Pointer &xf_in, Plm_image_header pih, const float grid_spac)

void	xform_to_itk_vf (Xform xf_out, Xform xf_in, const Plm_image_header *pih)

void	xform_to_itk_vf (Xform xf_out, Xform xf_in, FloatImageType::Pointer image)

Xform::Pointer	xform_to_itk_vf (const Xform::Pointer &xf_in, Plm_image_header *pih)

void	xform_to_gpuit_bsp (Xform xf_out, Xform xf_in, Plm_image_header pih, const float grid_spac)

Xform::Pointer	xform_to_gpuit_bsp (const Xform::Pointer &xf_in, Plm_image_header pih, float grid_spac)

void	xform_to_gpuit_vf (Xform xf_out, const Xform xf_in, const Plm_image_header *pih)

Xform::Pointer	xform_to_gpuit_vf (const Xform::Pointer &xf_in, const Plm_image_header *pih)

Function Documentation

◆ bsp_grid_from_img_grid()

static void bsp_grid_from_img_grid	(	BsplineTransformType::OriginType &	bsp_origin,
		BsplineTransformType::SpacingType &	bsp_spacing,
		BsplineTransformType::RegionType &	bsp_region,
		BsplineTransformType::DirectionType &	bsp_direction,
		const Plm_image_header *	pih,
		const float *	grid_spac )

static

◆ create_gpuit_bxf()

static Bspline_xform * create_gpuit_bxf	(	Plm_image_header *	pih,
		const float *	grid_spac )

static

◆ gpuit_bsp_grid_to_itk_bsp_grid()

static void gpuit_bsp_grid_to_itk_bsp_grid	(	BsplineTransformType::OriginType &	bsp_origin,
		BsplineTransformType::SpacingType &	bsp_spacing,
		BsplineTransformType::RegionType &	bsp_region,
		BsplineTransformType::DirectionType &	bsp_direction,
		Bspline_xform *	bxf )

static

◆ gpuit_bsp_to_itk_bsp_raw()

static void gpuit_bsp_to_itk_bsp_raw	(	Xform *	xf_out,
		const Xform *	xf_in,
		const Plm_image_header *	pih )

static

◆ init_affine_default()

static void init_affine_default ( Xform * xf_out )

static

◆ init_quaternion_default()

static void init_quaternion_default ( Xform * xf_out )

static

◆ init_similarity_default()

static void init_similarity_default ( Xform * xf_out )

static

◆ init_versor_default()

static void init_versor_default ( Xform * xf_out )

static

◆ itk_bsp_extend_to_region()

static void itk_bsp_extend_to_region	(	Xform *	xf,
		const Plm_image_header *	pih,
		const RegionType *	roi )

static

◆ itk_bsp_set_grid_img()

static void itk_bsp_set_grid_img	(	Xform *	xf,
		const Plm_image_header *	pih,
		const float *	grid_spac )

static

◆ itk_xform_load()

static void itk_xform_load	(	Xform *	xf,
		const char *	fn )

static

◆ itk_xform_save()

template<class T >

static void itk_xform_save	(	const T	transform,
		const char *	filename )

static

◆ load_gpuit_bsp()

static void load_gpuit_bsp	(	Xform *	xf,
		const char *	fn )

static

◆ xform_aff_to_itk_bsp_bulk()

static void xform_aff_to_itk_bsp_bulk	(	Xform *	xf_out,
		const Xform *	xf_in,
		const Plm_image_header *	pih,
		const float *	grid_spac )

static

◆ xform_any_to_gpuit_bsp()

void xform_any_to_gpuit_bsp	(	Xform *	xf_out,
		Xform *	xf_in,
		Plm_image_header *	pih,
		const float *	grid_spac )

◆ xform_any_to_itk_bsp_nobulk() [1/2]

static void xform_any_to_itk_bsp_nobulk	(	Xform *	xf_out,
		Xform *	xf_in,
		const Bspline_header *	bh )

static

◆ xform_any_to_itk_bsp_nobulk() [2/2]

static void xform_any_to_itk_bsp_nobulk	(	Xform *	xf_out,
		Xform *	xf_in,
		const Plm_image_header *	pih,
		const float *	grid_spac )

static

◆ xform_gpuit_bsp_to_gpuit_bsp()

void xform_gpuit_bsp_to_gpuit_bsp	(	Xform *	xf_out,
		Xform *	xf_in,
		Plm_image_header *	pih,
		const float *	grid_spac )

◆ xform_gpuit_bsp_to_gpuit_vf()

static Volume::Pointer xform_gpuit_bsp_to_gpuit_vf	(	const Xform *	xf_in,
		const Plm_image_header *	pih )

static

◆ xform_gpuit_bsp_to_itk_bsp()

static void xform_gpuit_bsp_to_itk_bsp	(	Xform *	xf_out,
		const Xform *	xf_in,
		const Plm_image_header *	pih,
		const float *	grid_spac )

static

◆ xform_gpuit_bsp_to_itk_vf()

static DeformationFieldType::Pointer xform_gpuit_bsp_to_itk_vf	(	Xform *	xf_in,
		const Plm_image_header *	pih )

static

◆ xform_gpuit_vf_to_gpuit_bsp()

void xform_gpuit_vf_to_gpuit_bsp	(	Xform *	xf_out,
		Xform *	xf_in,
		Plm_image_header *	pih,
		const float *	grid_spac )

◆ xform_gpuit_vf_to_gpuit_vf()

static Volume::Pointer xform_gpuit_vf_to_gpuit_vf	(	const Volume::Pointer &	vf_in,
		const Plm_image_header *	pih )

static

◆ xform_gpuit_vf_to_itk_vf()

DeformationFieldType::Pointer xform_gpuit_vf_to_itk_vf	(	Volume *	vf,
		const Plm_image_header *	pih )

◆ xform_itk_any_to_gpuit_vf()

static Volume::Pointer xform_itk_any_to_gpuit_vf	(	itk::Transform< double, 3, 3 > *	xf,
		const Plm_image_header *	pih )

static

◆ xform_itk_any_to_itk_vf()

static DeformationFieldType::Pointer xform_itk_any_to_itk_vf	(	itk::Transform< double, 3, 3 > *	xf,
		const Plm_image_header *	pih )

static

◆ xform_itk_bsp_init_default()

void xform_itk_bsp_init_default ( Xform * xf )

◆ xform_itk_bsp_to_itk_bsp()

static void xform_itk_bsp_to_itk_bsp	(	Xform *	xf_out,
		const Xform *	xf_in,
		const Plm_image_header *	pih,
		const float *	grid_spac )

static

◆ xform_itk_bsp_to_itk_vf()

static DeformationFieldType::Pointer xform_itk_bsp_to_itk_vf	(	Xform *	xf_in,
		const Plm_image_header *	pih )

static

◆ xform_itk_vf_to_gpuit_vf()

Volume::Pointer xform_itk_vf_to_gpuit_vf	(	DeformationFieldType::Pointer	itk_vf,
		const Plm_image_header *	pih )

◆ xform_itk_vf_to_itk_vf()

static DeformationFieldType::Pointer xform_itk_vf_to_itk_vf	(	const DeformationFieldType::Pointer &	vf,
		const Plm_image_header *	pih )

static

◆ xform_load() [1/4]

Xform::Pointer xform_load ( const char * fn )

◆ xform_load() [2/4]

Xform::Pointer xform_load ( const std::string & fn )

◆ xform_load() [3/4]

void xform_load	(	Xform *	xf,
		const char *	fn )

◆ xform_load() [4/4]

void xform_load	(	Xform *	xf,
		const std::string &	fn )

◆ xform_quat_to_itk_bsp_bulk()

static void xform_quat_to_itk_bsp_bulk	(	Xform *	xf_out,
		const Xform *	xf_in,
		const Plm_image_header *	pih,
		const float *	grid_spac )

static

◆ xform_save() [1/2]

void xform_save	(	Xform *	xf,
		const char *	fn )

◆ xform_save() [2/2]

void xform_save	(	Xform *	xf,
		const std::string &	fn )

◆ xform_sim_to_aff()

void xform_sim_to_aff	(	Xform *	xf_out,
		const Xform *	xf_in )

◆ xform_to_aff() [1/2]

Xform::Pointer xform_to_aff ( const Xform::Pointer & xf_in )

◆ xform_to_aff() [2/2]

void xform_to_aff	(	Xform *	xf_out,
		const Xform *	xf_in,
		Plm_image_header *	pih )

◆ xform_to_gpuit_bsp() [1/2]

Xform::Pointer xform_to_gpuit_bsp	(	const Xform::Pointer &	xf_in,
		Plm_image_header *	pih,
		float *	grid_spac )

◆ xform_to_gpuit_bsp() [2/2]

void xform_to_gpuit_bsp	(	Xform *	xf_out,
		Xform *	xf_in,
		Plm_image_header *	pih,
		const float *	grid_spac )

◆ xform_to_gpuit_vf() [1/2]

Xform::Pointer xform_to_gpuit_vf	(	const Xform::Pointer &	xf_in,
		const Plm_image_header *	pih )

◆ xform_to_gpuit_vf() [2/2]

void xform_to_gpuit_vf	(	Xform *	xf_out,
		const Xform *	xf_in,
		const Plm_image_header *	pih )

◆ xform_to_itk_bsp() [1/2]

Xform::Pointer xform_to_itk_bsp	(	const Xform::Pointer &	xf_in,
		Plm_image_header *	pih,
		const float *	grid_spac )

◆ xform_to_itk_bsp() [2/2]

void xform_to_itk_bsp	(	Xform *	xf_out,
		const Xform *	xf_in,
		Plm_image_header *	pih,
		const float *	grid_spac )

◆ xform_to_itk_bsp_nobulk() [1/2]

Xform::Pointer xform_to_itk_bsp_nobulk	(	const Xform::Pointer &	xf_in,
		Plm_image_header *	pih,
		const float *	grid_spac )

◆ xform_to_itk_bsp_nobulk() [2/2]

void xform_to_itk_bsp_nobulk	(	Xform *	xf_out,
		Xform *	xf_in,
		Plm_image_header *	pih,
		const float *	grid_spac )

◆ xform_to_itk_vf() [1/3]

Xform::Pointer xform_to_itk_vf	(	const Xform::Pointer &	xf_in,
		Plm_image_header *	pih )

◆ xform_to_itk_vf() [2/3]

void xform_to_itk_vf	(	Xform *	xf_out,
		Xform *	xf_in,
		const Plm_image_header *	pih )

◆ xform_to_itk_vf() [3/3]

void xform_to_itk_vf	(	Xform *	xf_out,
		Xform *	xf_in,
		FloatImageType::Pointer	image )

◆ xform_to_quat()

void xform_to_quat	(	Xform *	xf_out,
		const Xform *	xf_in,
		Plm_image_header *	pih )

◆ xform_to_similarity()

void xform_to_similarity	(	Xform *	xf_out,
		const Xform *	xf_in,
		Plm_image_header *	pih )

◆ xform_to_trn()

void xform_to_trn	(	Xform *	xf_out,
		const Xform *	xf_in,
		Plm_image_header *	pih )

◆ xform_to_vrs()

void xform_to_vrs	(	Xform *	xf_out,
		const Xform *	xf_in,
		Plm_image_header *	pih )

◆ xform_trn_to_aff()

static void xform_trn_to_aff	(	Xform *	xf_out,
		const Xform *	xf_in )

static

◆ xform_trn_to_itk_bsp_bulk()

static void xform_trn_to_itk_bsp_bulk	(	Xform *	xf_out,
		const Xform *	xf_in,
		const Plm_image_header *	pih,
		const float *	grid_spac )

static

◆ xform_trn_to_sim()

void xform_trn_to_sim	(	Xform *	xf_out,
		const Xform *	xf_in )

◆ xform_trn_to_vrs()

static void xform_trn_to_vrs	(	Xform *	xf_out,
		const Xform *	xf_in )

static

◆ xform_vrs_to_aff()

static void xform_vrs_to_aff	(	Xform *	xf_out,
		const Xform *	xf_in )

static

◆ xform_vrs_to_itk_bsp_bulk()

static void xform_vrs_to_itk_bsp_bulk	(	Xform *	xf_out,
		const Xform *	xf_in,
		const Plm_image_header *	pih,
		const float *	grid_spac )

static

◆ xform_vrs_to_quat()

static void xform_vrs_to_quat	(	Xform *	xf_out,
		const Xform *	xf_in )

static

◆ xform_vrs_to_sim()

static void xform_vrs_to_sim	(	Xform *	xf_out,
		const Xform *	xf_in )

static

Functions

Function Documentation

◆ bsp_grid_from_img_grid()

◆ create_gpuit_bxf()

◆ gpuit_bsp_grid_to_itk_bsp_grid()

◆ gpuit_bsp_to_itk_bsp_raw()

◆ init_affine_default()

◆ init_quaternion_default()

◆ init_similarity_default()

◆ init_versor_default()

◆ itk_bsp_extend_to_region()

◆ itk_bsp_set_grid_img()

◆ itk_xform_load()

◆ itk_xform_save()

◆ load_gpuit_bsp()

◆ xform_aff_to_itk_bsp_bulk()

◆ xform_any_to_gpuit_bsp()

◆ xform_any_to_itk_bsp_nobulk() [1/2]

◆ xform_any_to_itk_bsp_nobulk() [2/2]

◆ xform_gpuit_bsp_to_gpuit_bsp()

◆ xform_gpuit_bsp_to_gpuit_vf()

◆ xform_gpuit_bsp_to_itk_bsp()

◆ xform_gpuit_bsp_to_itk_vf()

◆ xform_gpuit_vf_to_gpuit_bsp()

◆ xform_gpuit_vf_to_gpuit_vf()

◆ xform_gpuit_vf_to_itk_vf()

◆ xform_itk_any_to_gpuit_vf()

◆ xform_itk_any_to_itk_vf()

◆ xform_itk_bsp_init_default()

◆ xform_itk_bsp_to_itk_bsp()

◆ xform_itk_bsp_to_itk_vf()

◆ xform_itk_vf_to_gpuit_vf()

◆ xform_itk_vf_to_itk_vf()

◆ xform_load() [1/4]

◆ xform_load() [2/4]

◆ xform_load() [3/4]

◆ xform_load() [4/4]

◆ xform_quat_to_itk_bsp_bulk()

◆ xform_save() [1/2]

◆ xform_save() [2/2]

◆ xform_sim_to_aff()

◆ xform_to_aff() [1/2]

◆ xform_to_aff() [2/2]

◆ xform_to_gpuit_bsp() [1/2]

◆ xform_to_gpuit_bsp() [2/2]

◆ xform_to_gpuit_vf() [1/2]

◆ xform_to_gpuit_vf() [2/2]

◆ xform_to_itk_bsp() [1/2]

◆ xform_to_itk_bsp() [2/2]

◆ xform_to_itk_bsp_nobulk() [1/2]

◆ xform_to_itk_bsp_nobulk() [2/2]

◆ xform_to_itk_vf() [1/3]

◆ xform_to_itk_vf() [2/3]

◆ xform_to_itk_vf() [3/3]

◆ xform_to_quat()

◆ xform_to_similarity()

◆ xform_to_trn()

◆ xform_to_vrs()

◆ xform_trn_to_aff()

◆ xform_trn_to_itk_bsp_bulk()

◆ xform_trn_to_sim()

◆ xform_trn_to_vrs()

◆ xform_vrs_to_aff()

◆ xform_vrs_to_itk_bsp_bulk()

◆ xform_vrs_to_quat()

◆ xform_vrs_to_sim()