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/* Copyright (c) 2008-2022 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "as is"
* basis, without warranty of any kind, either expressed, implied, or
* statutory, including, without limitation, warranties that the
* Covered Software is free of defects, merchantable, fit for a
* particular purpose or non-infringing.
* See the Mozilla Public License v. 2.0 for more details.
*
* For more details, see http://www.mrtrix.org/.
*/
#ifndef __NIFTI2_HEADER
#define __NIFTI2_HEADER
/*---------------------------------------------------------------------------*/
/* Changes to the header from NIFTI-1 to NIFTI-2 are intended to allow for
larger and more accurate fields. The changes are as follows:
- short dim[8] -> int64_t dim[8]
- float intent_p1,2,3 -> double intent_p1,2,3 (3 fields)
- float pixdim[8] -> double pixdim[8]
- float vox_offset -> int64_t vox_offset
- float scl_slope -> double scl_slope
- float scl_inter -> double scl_inter
- float cal_max -> double cal_max
- float cal_min -> double cal_min
- float slice_duration -> double slice_duration
- float toffset -> double toffset
- short slice_start -> int64_t slice_start
- short slice_end -> int64_t slice_end
- char slice_code -> int32_t slice_code
- char xyzt_units -> int32_t xyzt_units
- short intent_code -> int32_t intent_code
- short qform_code -> int32_t qform_code
- short sform_code -> int32_t sform_code
- float quatern_b,c,d -> double quatern_b,c,d (3 fields)
- float srow_x,y,z[4] -> double srow_x,y,z[4] (3 fields)
- char magic[4] -> char magic[8]
- char unused_str[15] -> padding added at the end of the header
- previously unused fields have been removed:
data_type, db_name, extents, session_error, regular, glmax, glmin
- the field ordering has been changed
-----------------------------------------------------------------------------*/
#include <stdint.h>
/*=================*/
#ifdef __cplusplus
extern "C" {
#endif
/*=================*/
/*! \struct nifti_2_header
\brief Data structure defining the fields in the nifti2 header.
This binary header should be found at the beginning of a valid
NIFTI-2 header file.
*/
/* hopefully cross-platform solution to byte padding added by some compilers */
#pragma pack(push)
#pragma pack(1)
/***************************/ /**********************/ /************/
struct nifti_2_header { /* NIFTI-2 usage */ /* NIFTI-1 usage */ /* offset */
/***************************/ /**********************/ /************/
int sizeof_hdr; /*!< MUST be 540 */ /* int sizeof_hdr; (348) */ /* 0 */
char magic[8] ; /*!< MUST be valid signature. */ /* char magic[4]; */ /* 4 */
int16_t datatype; /*!< Defines data type! */ /* short datatype; */ /* 12 */
int16_t bitpix; /*!< Number bits/voxel. */ /* short bitpix; */ /* 14 */
int64_t dim[8]; /*!< Data array dimensions.*/ /* short dim[8]; */ /* 16 */
double intent_p1 ; /*!< 1st intent parameter. */ /* float intent_p1; */ /* 80 */
double intent_p2 ; /*!< 2nd intent parameter. */ /* float intent_p2; */ /* 88 */
double intent_p3 ; /*!< 3rd intent parameter. */ /* float intent_p3; */ /* 96 */
double pixdim[8]; /*!< Grid spacings. */ /* float pixdim[8]; */ /* 104 */
int64_t vox_offset; /*!< Offset into .nii file */ /* float vox_offset; */ /* 168 */
double scl_slope ; /*!< Data scaling: slope. */ /* float scl_slope; */ /* 176 */
double scl_inter ; /*!< Data scaling: offset. */ /* float scl_inter; */ /* 184 */
double cal_max; /*!< Max display intensity */ /* float cal_max; */ /* 192 */
double cal_min; /*!< Min display intensity */ /* float cal_min; */ /* 200 */
double slice_duration;/*!< Time for 1 slice. */ /* float slice_duration; */ /* 208 */
double toffset; /*!< Time axis shift. */ /* float toffset; */ /* 216 */
int64_t slice_start; /*!< First slice index. */ /* short slice_start; */ /* 224 */
int64_t slice_end; /*!< Last slice index. */ /* short slice_end; */ /* 232 */
char descrip[80]; /*!< any text you like. */ /* char descrip[80]; */ /* 240 */
char aux_file[24]; /*!< auxiliary filename. */ /* char aux_file[24]; */ /* 320 */
int qform_code ; /*!< NIFTI_XFORM_* code. */ /* short qform_code; */ /* 344 */
int sform_code ; /*!< NIFTI_XFORM_* code. */ /* short sform_code; */ /* 348 */
double quatern_b ; /*!< Quaternion b param. */ /* float quatern_b; */ /* 352 */
double quatern_c ; /*!< Quaternion c param. */ /* float quatern_c; */ /* 360 */
double quatern_d ; /*!< Quaternion d param. */ /* float quatern_d; */ /* 368 */
double qoffset_x ; /*!< Quaternion x shift. */ /* float qoffset_x; */ /* 376 */
double qoffset_y ; /*!< Quaternion y shift. */ /* float qoffset_y; */ /* 384 */
double qoffset_z ; /*!< Quaternion z shift. */ /* float qoffset_z; */ /* 392 */
double srow_x[4] ; /*!< 1st row affine transform. */ /* float srow_x[4]; */ /* 400 */
double srow_y[4] ; /*!< 2nd row affine transform. */ /* float srow_y[4]; */ /* 432 */
double srow_z[4] ; /*!< 3rd row affine transform. */ /* float srow_z[4]; */ /* 464 */
int slice_code ; /*!< Slice timing order. */ /* char slice_code; */ /* 496 */
int xyzt_units ; /*!< Units of pixdim[1..4] */ /* char xyzt_units; */ /* 500 */
int intent_code ; /*!< NIFTI_INTENT_* code. */ /* short intent_code; */ /* 504 */
char intent_name[16]; /*!< 'name' or meaning of data. */ /* char intent_name[16]; */ /* 508 */
char dim_info; /*!< MRI slice ordering. */ /* char dim_info; */ /* 524 */
char unused_str[15]; /*!< unused, filled with \0 */ /* 525 */
} ; /**** 540 bytes total ****/
typedef struct nifti_2_header nifti_2_header ;
/* restore packing behavior */
#pragma pack(pop)
/*=================*/
#ifdef __cplusplus
}
#endif
/*=================*/
#endif /* __NIFTI2_HEADER */
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