Squashed commit of the sb-vbs branch.

Includes the SD-VBS benchmarks modified to:
- Use libextra to loop as realtime jobs
- Preallocate memory before starting their main computation
- Accept input via stdin instead of via argc

Does not include the SD-VBS matlab code.

Fixes libextra execution in LITMUS^RT.

1 files changed, 187 insertions, 0 deletions

diff --git a/SD-VBS/common/toolbox/MultiNcut/affinityic.c b/SD-VBS/common/toolbox/MultiNcut/affinityic.c
new file mode 100755
index 0000000..d78761b
--- /dev/null
+++ b/SD-VBS/common/toolbox/MultiNcut/affinityic.c
@@ -0,0 +1,187 @@
+/*================================================================
+* function w = affinityic(emag,ephase,pi,pj,sigma)
+* Input:
+*   emag = edge strength at each pixel
+*   ephase = edge phase at each pixel
+*   [pi,pj] = index pair representation for MALTAB sparse matrices
+*   sigma = sigma for IC energy
+* Output:
+*   w = affinity with IC at [pi,pj]
+*
+
+% test sequence
+f = synimg(10);
+[i,j] = cimgnbmap(size(f),2);
+[ex,ey,egx,egy] = quadedgep(f);
+a = affinityic(ex,ey,egx,egy,i,j)
+show_dist_w(f,a);
+
+* Stella X. Yu, Nov 19, 2001.
+*=================================================================*/
+
+# include "mex.h"
+# include "math.h"
+
+void mexFunction(
+    int nargout,
+    mxArray *out[],
+    int nargin,
+    const mxArray *in[]
+)
+{
+    /* declare variables */
+    int nr, nc, np, total;
+    int i, j, k, ix, iy, jx, jy, ii, jj, iip1, jjp1, iip2, jjp2, step;
+    double sigma, di, dj, a, z, maxori, phase1, phase2, slope;
+        int *ir, *jc;
+    unsigned int *pi,*pj;
+    /* unsigned long *pi, *pj;
 */
+        double *emag, *ephase, *w;
+    
+    /* check argument */
+    if (nargin<4) {
+        mexErrMsgTxt("Four input arguments required");
+    }
+    if (nargout>1) {
+        mexErrMsgTxt("Too many output arguments");
+    }
+
+    /* get edgel information */
+        nr = mxGetM(in[0]);
+        nc = mxGetN(in[0]);
+        if ( nr*nc ==0 || nr != mxGetM(in[1]) || nc != mxGetN(in[1]) ) {
+            mexErrMsgTxt("Edge magnitude and phase shall be of the same image size");
+        }
+    emag = mxGetPr(in[0]);
+    ephase = mxGetPr(in[1]);
+    np = nr * nc;
+    
+    /* get new index pair */
+    if (!mxIsUint32(in[2]) | !mxIsUint32(in[3])) {
+        mexErrMsgTxt("Index pair shall be of type UINT32");
+    }
+    if (mxGetM(in[3]) * mxGetN(in[3]) != np + 1) {
+        mexErrMsgTxt("Wrong index representation");
+    }
+    pi = mxGetData(in[2]);
+    pj = mxGetData(in[3]);    
+
+    /* create output */
+    out[0] = mxCreateSparse(np,np,pj[np],mxREAL);
+    if (out[0]==NULL) {
+            mexErrMsgTxt("Not enough memory for the output matrix");
+        }
+        w = mxGetPr(out[0]);
+        ir = mxGetIr(out[0]);
+        jc = mxGetJc(out[0]);
+        
+    /* find my sigma */
+        if (nargin<5) {
+            sigma = 0;
+        for (k=0; k<np; k++) { 
+            if (emag[k]>sigma) { sigma = emag[k]; }
+        }
+        sigma = sigma / 6;
+        /* printf("sigma = %6.5f",sigma); */
+        } else {
+            sigma = mxGetScalar(in[4]);
+        }
+        a = 0.5 / (sigma * sigma);
+        
+    /* computation */ 
+    total = 0;
+    for (j=0; j<np; j++) {            
+
+        jc[j] = total;
+        jx = j / nr; /* col */
+        jy = j % nr; /* row */
+        
+        for (k=pj[j]; k<pj[j+1]; k++) {
+        
+            i = pi[k];
+          
+            if (i==j) {
+                maxori = 1;
+            
+            } else {
+        
+                ix = i / nr; 
+                iy = i % nr;
+
+                /* scan */            
+                di = (double) (iy - jy);
+                dj = (double) (ix - jx);
+            
+                maxori = 0.;
+                    phase1 = ephase[j];
+
+                       
+                /* sample in i direction */
+                if (abs(di) >= abs(dj)) {  
+                    slope = dj / di;
+                    step = (iy>=jy) ? 1 : -1;
+                
+                    iip1 = jy;
+                    jjp1 = jx;
+        
+                       
+                        for (ii=0;ii<abs(di);ii++){
+                            iip2 = iip1 + step;
+                            jjp2 = (int)(0.5 + slope*(iip2-jy) + jx);
+                  
+                            phase2 = ephase[iip2+jjp2*nr];
+               
+                            if (phase1 != phase2) {
+                                z = (emag[iip1+jjp1*nr] + emag[iip2+jjp2*nr]);
+                                if (z > maxori){
+                                    maxori = z;
+                                }
+                            } 
+                     
+                            iip1 = iip2;
+                            jjp1 = jjp2;
+                            phase1 = phase2;
+                        }
+                    
+                    /* sample in j direction */    
+                } else { 
+                        slope = di / dj;
+                        step =  (ix>=jx) ? 1: -1;
+
+                    jjp1 = jx;
+                        iip1 = jy;                 
+            
+         
+                        for (jj=0;jj<abs(dj);jj++){
+                            jjp2 = jjp1 + step;
+                            iip2 = (int)(0.5+ slope*(jjp2-jx) + jy);
+                  
+                            phase2 = ephase[iip2+jjp2*nr];
+             
+                            if (phase1 != phase2){
+                                z = (emag[iip1+jjp1*nr] + emag[iip2+jjp2*nr]);
+                                if (z > maxori){ 
+                                    maxori = z; 
+                                }
+                                
+                            }
+          
+                            iip1 = iip2;
+                            jjp1 = jjp2;
+                            phase1 = phase2;
+                        }
+                }            
+            
+                maxori = 0.5 * maxori;
+                maxori = exp(-maxori * maxori * a);
+            }       
+                    ir[total] = i;
+
+                    w[total] = maxori;
+                    total = total + 1;
+                        
+                } /* i */
+    } /* j */
+        
+    jc[np] = total;
+}