From 972df95be09b598b1bb54674bc6f429e4c3a8573 Mon Sep 17 00:00:00 2001
From: Matthew Webster <mwebster@fmrib.ox.ac.uk>
Date: Fri, 6 Jul 2007 16:05:55 +0000
Subject: [PATCH] All MJ changes for LR2
---
miscmaths.h | 21 +++++++++++++++++++++
1 file changed, 21 insertions(+)
diff --git a/miscmaths.h b/miscmaths.h
index ab16bae..40184dd 100644
--- a/miscmaths.h
+++ b/miscmaths.h
@@ -181,6 +181,27 @@ namespace MISCMATHS {
inline ReturnMatrix median(const Matrix& in){ return quantile(in,2);}
inline ReturnMatrix iqr(const Matrix& in){ Matrix res = quantile(in,3) - quantile(in,1); res.Release(); return res;}
+// the following give left-right order and voxel2mm coordinate conversions
+// consistent with FSLView behaviour (NB: you cannot tell left-right from
+// the vox2mm matrix!)
+ int FslGetLeftRightOrder(int sform_code, const Matrix& sform_mat,
+ int qform_code, const Matrix& qform_mat);
+ short FslGetVox2mmMatrix(Matrix& vox2mm,
+ int sform_code, const Matrix& sform_mat,
+ int qform_code, const Matrix& qform_mat,
+ float dx, float dy, float dz);
+ Matrix FslGetVox2VoxMatrix(const Matrix& flirt_in2ref,
+ int sform_code_in, const Matrix& sform_mat_in,
+ int qform_code_in, const Matrix& qform_mat_in,
+ float dx_in, float dy_in, float dz_in,
+ int nx_in, int ny_in, int nz_in,
+ int sform_code_ref, const Matrix& sform_mat_ref,
+ int qform_code_ref, const Matrix& qform_mat_ref,
+ float dx_ref, float dy_ref, float dz_ref,
+ int nx_ref, int ny_ref, int nz_ref);
+ mat44 newmat_to_mat44(const Matrix& inmat);
+ Matrix mat44_to_newmat(mat44 inmat);
+
void cart2sph(const ColumnVector& dir, float& th, float& ph);// cartesian to sperical polar coordinates
void cart2sph(const Matrix& dir,ColumnVector& th,ColumnVector& ph);//ditto
void cart2sph(const vector<ColumnVector>& dir,ColumnVector& th,ColumnVector& ph);// same but in a vector
--
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