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SLIMMER
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A class for the intersection between two slices. More...
#include <SliceIntersection.h>
Public Member Functions | |
| SliceIntersection () | |
| Constructor. | |
| ~SliceIntersection () | |
| Destructor. | |
| template<typename T , typename T1 > | |
| SliceIntersection (const Stack< T, T1 > &ss1, unsigned int ll1, const Stack< T, T1 > &ss2, unsigned int ll2, const float mindim=0.0f, const float sigma=0.0, const SimpleTField< float > *mask=NULL) | |
| Constructor, using two stack objects, two slice indices, and the minimal voxel dimension length. | |
| template<typename T , typename T1 > | |
| SliceIntersection (const Stack< T, T1 > &ss1, unsigned int ll1, const LinTransParam< float > &dof1, const Stack< T, T1 > &ss2, unsigned int ll2, const LinTransParam< float > &dof2, const float mindim=0.0f, const float sigma=0.0, const SimpleTField< float > *mask=NULL) | |
| Constructor, using two stack objects, two slice indices, two slice motion parameters and the minimal voxel dimension length. | |
| template<typename T , typename T1 > | |
| SliceIntersection (const Stack< T, T1 > &ss1, unsigned int ll1, const Stack< T, T1 > &ss2, unsigned int ll2, const vector< SimpleTMat< float, 4, 4 > > Ms1, const vector< SimpleTMat< float, 4, 4 > > Ms2, const float mindim=0.0f, const float sigma=0.0, const SimpleTField< float > *mask=NULL) | |
| Constructor, using two stack objects, two slice indices, and two vector objects of slice motion (see below) and the minimal voxel dimension length. | |
| template<typename T , typename T1 > | |
| unsigned int | ComputeLocsFlo (const SimpleTVec< float, 3 > &pf_ref, const SimpleTVec< float, 3 > &intx_vec_ref, const Stack< T, T1 > &ss1, const Stack< T, T1 > &ss2, SimpleVTVec< SimpleTVec< float, 3 > > &locs1, SimpleVTVec< SimpleTVec< float, 3 > > &locs2, const SimpleTField< float > *mask=NULL) |
| Computes intersection locations in the floating frame. | |
| float | ComputeIntxInRef (SimpleTVec< float, 3 > &pfoot, SimpleTVec< float, 3 > &ivec) const |
| Given the current rotation matrices for two slices, computes the center point and the direction of the intersection line. | |
| void | Nullify () |
| Nullify the intersection, when intersection is not defined. | |
| int | getNSample () const |
| Access to class variable. | |
| const SimpleVTVec< float > & | getImg (int ii) const |
| image profile along the intersection line of the ii-th slice. (ii=1, 2) | |
| SimpleVTVec< float > | getDiff (int ii) const |
| intensity difference along the intersection line of the ii-th slice. (getDiff(1)=-getDiff(2)) | |
| const SimpleVTVec< float > & | getXgrad (int ii) const |
| x-gradient along the intersection line of the ii-th slice. | |
| const SimpleVTVec< float > & | getYgrad (int ii) const |
| y-gradient along the intersection line of the ii-th slice. | |
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const SimpleVTVec< SimpleTVec < float, 3 > > & | getlocs (int ii) const |
| voxel location within slice of the ii-th slice. | |
| void | Printdof () const |
| prints the DOF's of both slices | |
| void | PrintImg (int ii, FILE *fid=stderr) const |
| Print the intersection profile of Slice ii (1 or 2), to given file pointer. | |
| void | Printlocs (int ii, FILE *fid=stderr) |
| Print the intersection locations of Slice ii (1 or 2) in ref. frame, to given file pointer. | |
| void | getPartial (SimpleVTMat< float > &partial1, SimpleVTMat< float > &partial2) |
| Computes the partial derivatives of the intersection location in floating frame w.r.t. motion parameters. | |
| void | GetRefLocs (SimpleTVec< float, 3 > &loc, SimpleTVec< float, 3 > &dir) const |
| Returns the location of the sampling points in the 3D reference space. | |
| SimpleVTVec< SimpleTVec< float, 3 > > | GetRefLocs () const |
| Returns a vector of regularly sampled intersection line in the reference frame. | |
| SimpleTVec< float, 3 > | getFloLoc (unsigned int slice, unsigned int sample) const |
| Returns the location of the sample-th sample in mm, within the n-th slice (1st or 2nd). | |
| template<typename T > | |
| void | sample_cubicB (const SimpleTField< T > &im, const unsigned int slice, SimpleVTVec< SimpleTVec< float, 3 > > &locs, SimpleVTVec< float > &img, SimpleVTVec< float > &xgrad, SimpleVTVec< float > &ygrad) |
| Cubic B-spline sampling. | |
| template<typename T > | |
| void | sample_Gaussian (const SimpleTField< T > &im, const unsigned int slice, SimpleVTVec< SimpleTVec< float, 3 > > &locs, SimpleVTVec< float > &img, SimpleVTVec< float > &xgrad, SimpleVTVec< float > &ygrad) |
| Gaussian sampling. | |
| SimpleTVec< float, 3 > | VoxLoc2mmLoc (const SimpleTVec< float, 3 > &loc, const SimpleTVec< float, 3 > &VoxSz, const SimpleTVec< int, 3 > &nVox) const |
| Given the voxel location, returns the location in mm. | |
Static Public Member Functions | |
| static void | evaluateBasis (float t, float *y, float *dy) |
| computes cubic b-spline basis at t, for y and dy | |
Static Public Attributes | |
| static const char | _versionID [] = "$Id: SliceIntersection.h,v 1.8 2012/02/13 18:51:42 kio Exp $" |
Protected Attributes | |
| SimpleVTVec< SimpleTVec< float, 3 > > | _locs1 |
| Voxel location of the sampling points of the intersection line, within slice 1. | |
| SimpleVTVec< float > | _prof1 |
| Intensity profile at sampled points, within slice 1. | |
| SimpleVTVec< float > | _xgrad1 |
| x-gradient profile at sampled points, within slice 1 | |
| SimpleVTVec< float > | _ygrad1 |
| y-gradient profile at sampled points, within slice 1 | |
| LinTransParam< float > | _dof1 |
| concatenated DOF of slice 1 | |
| SimpleTVec< float, 3 > | _VoxSz1 |
| voxel dimensions of slice 1 | |
| SimpleTMat< float, 4, 4 > | _M1 |
| Transformation matrix. | |
| SimpleTMat< float, 4, 4 > | _M1inv |
| Transformation matrix. | |
| SimpleTMat< float, 4, 4 > | _M1d1 |
| Transformation matrix. | |
| SimpleTMat< float, 4, 4 > | _M1d2 |
| Transformation matrix. | |
| SimpleTMat< float, 4, 4 > | _M1d3 |
| Transformation matrix. | |
| SimpleTVec< int, 3 > | _nVox1 |
| image size of slice 1 | |
| SimpleVTVec< SimpleTVec< float, 3 > > | _locs2 |
| Voxel location of the sampling points of the intersection line, within slice 2. | |
| SimpleVTVec< float > | _prof2 |
| Intensity profile at sampled points, within slice 2. | |
| SimpleVTVec< float > | _xgrad2 |
| x-gradient profile at sampled points, within slice 2 | |
| SimpleVTVec< float > | _ygrad2 |
| y-gradient profile at sampled points, within slice 2 | |
| LinTransParam< float > | _dof2 |
| concatenated DOF of slice 2 | |
| SimpleTVec< float, 3 > | _VoxSz2 |
| voxel dimensions of slice 2 | |
| SimpleTMat< float, 4, 4 > | _M2 |
| Transformation matrix. | |
| SimpleTMat< float, 4, 4 > | _M2inv |
| Transformation matrix. | |
| SimpleTMat< float, 4, 4 > | _M2d1 |
| Transformation matrix. | |
| SimpleTMat< float, 4, 4 > | _M2d2 |
| Transformation matrix. | |
| SimpleTMat< float, 4, 4 > | _M2d3 |
| Transformation matrix. | |
| SimpleTVec< int, 3 > | _nVox2 |
| image size of slice 2 | |
| SimpleVTVec< float > | _w |
| weight profile | |
| float | _mindim |
| the length of smallest voxel dimension | |
| int | _nsample |
| number of sampled points of the intersection line | |
| float | _sigma |
| standard deviation for scale space. | |
| bool | _MderivPrecalculated |
| whether _Mderiv is previously calculated | |
A class for the intersection between two slices.
Given two slices and two dof objects describing the positioning of the slices,
it computes the intersection profiles, and 3D location of the intersection line.
| SliceIntersection::SliceIntersection | ( | const Stack< T, T1 > & | ss1, |
| unsigned int | ll1, | ||
| const Stack< T, T1 > & | ss2, | ||
| unsigned int | ll2, | ||
| const vector< SimpleTMat< float, 4, 4 > > | Ms1, | ||
| const vector< SimpleTMat< float, 4, 4 > > | Ms2, | ||
| const float | mindim = 0.0f, |
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| const float | sigma = 0.0, |
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| const SimpleTField< float > * | mask = NULL |
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| ) | [inline] |
Constructor, using two stack objects, two slice indices, and two vector objects of slice motion (see below) and the minimal voxel dimension length.
| [in] | ss1 | Stack 1 |
| [in] | ll1 | Slice index of Stack 1 |
| [in] | ss2 | Stack 2 |
| [in] | ll2 | Slice index of Stack 2 |
| [in] | Ms1 | A vector of rotation matrix, and its derivatives w.r.t. to rotation angles, for slice 1 |
| [in] | Ms2 | A vector of rotation matrix, and its derivatives w.r.t. to rotation angles, for slice 2 |
| [in] | mindim | intersection profile resampling step length |
| [in] | sigma | Smoothing kernel size. If <0.4, cubic B spline is used |
| [in] | mask | Pointer to mask |
| float SliceIntersection::ComputeIntxInRef | ( | SimpleTVec< float, 3 > & | pfoot, |
| SimpleTVec< float, 3 > & | ivec | ||
| ) | const [inline] |
Given the current rotation matrices for two slices, computes the center point and the direction of the intersection line.
| [out] | pfoot | The location of the intersection center (perpendicular foot of the origin onto the intersection line) |
| [out] | ivec | The direction of the intersection line in the reference space |
| unsigned int SliceIntersection::ComputeLocsFlo | ( | const SimpleTVec< float, 3 > & | pf_ref, |
| const SimpleTVec< float, 3 > & | intx_vec_ref, | ||
| const Stack< T, T1 > & | ss1, | ||
| const Stack< T, T1 > & | ss2, | ||
| SimpleVTVec< SimpleTVec< float, 3 > > & | locs1, | ||
| SimpleVTVec< SimpleTVec< float, 3 > > & | locs2, | ||
| const SimpleTField< float > * | mask = NULL |
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| ) | [inline] |
Computes intersection locations in the floating frame.
| [in] | pf_ref | Starting point (perpendicular foot) in the reference frame |
| [in] | intx_vec_ref | A unit vector along the intersection direction (sign doesn't matter) in the ref. frame |
| [in] | ss1 | Stack 1 (Needed for voxel dimensions) |
| [in] | ss2 | Stack 2 (Needed for voxel dimensions) |
| [out] | locs1 | A vector of intersection points in the floating frame of stack 1 |
| [out] | locs2 | A vector of intersection points in the floating frame of stack 2 |
| [in] | mask | The pointer to mask. NULL if no mask. |
| int SliceIntersection::getNSample | ( | ) | const [inline] |
Access to class variable.
Returns number of sample points along the intersection line within the mask
| SimpleTVec<float,3> SliceIntersection::VoxLoc2mmLoc | ( | const SimpleTVec< float, 3 > & | loc, |
| const SimpleTVec< float, 3 > & | VoxSz, | ||
| const SimpleTVec< int, 3 > & | nVox | ||
| ) | const [inline] |
Given the voxel location, returns the location in mm.
| [in] | loc | Voxel location vector (SimpleTVec) |
| [in] | VoxSz | Voxel dimensions vector (SimpleTVec) |
| [in] | nVox | Number of voxels vector (SimpleTVec) |
1.7.4
