BNW using Octave instead of Matlab.

This version of BNW should perform the same as the original version. The only difference is that it uses Octave instead of Matlab when running BayesNet Toolbox during parameter learning.

I am calling this BNW_1.02. It can be accessed at:
compbio.uthsc.edu/BNW_1.02

1 files changed, 137 insertions, 0 deletions

diff --git a/sourcecodes/bnt-master/SLP/misc/multiply_one_marginal.c b/sourcecodes/bnt-master/SLP/misc/multiply_one_marginal.c
new file mode 100644
index 00000000..3d347f65
--- /dev/null
+++ b/sourcecodes/bnt-master/SLP/misc/multiply_one_marginal.c
@@ -0,0 +1,137 @@
+/* multiply_one_marginals.c */
+/* the first operand can be a joint marginals of nodes set,*/
+/* but the second operand nust be a single node's marginal.*/
+/* and the result joint marginal has domain like [prhs[0].domain, prhs[2].domain]*/
+/* i.e. cat the second domain at the end of the first domain*/
+/* the third operands will be the eff_node_sizes */
+
+#include "mex.h"
+
+void mexFunction(int nlhs, mxArray *plhs[], int nrhs, const mxArray *prhs[])
+{
+	mxArray     *ptemp, *ptemp1;
+	double      *xdom, *ydom, *xp, *yp, *zp, *pr, *pSizes;
+	int         N, xElements, numElements;
+	int         i, j, nxdom, ndim, ydim;
+	int			*xdim, *s, *sx, *sy, *cpsx, *cpsy;
+	int			*subs, *s1, *cpsx2, *cpsy2;
+	int         rdims[2];
+	const char  *field_names[] = {"domain", "T", "mu", "Sigma"};
+
+	if (nrhs != 3)
+		mexErrMsgTxt("Incorrect number of inputs.");
+	
+	if (nlhs > 1)
+		mexErrMsgTxt("Too many output arguments.");
+	
+	if(mxIsEmpty(prhs[0])){
+		plhs[0] = mxDuplicateArray(prhs[1]);
+		return;
+	}
+
+	N = mxGetNumberOfElements(prhs[2]);
+	pSizes = mxGetPr(prhs[2]);
+
+	ptemp = mxGetField(prhs[0], 0, "domain");
+	nxdom = mxGetNumberOfElements(ptemp);
+	xdom = mxGetPr(ptemp);
+	ptemp = mxGetField(prhs[1], 0, "domain");
+	ydom = mxGetPr(ptemp);
+	ndim = nxdom + 1;
+	
+	rdims[0] = 1;
+	rdims[1] = 1;
+	plhs[0] = mxCreateStructArray(2, rdims, 4, field_names);
+	ptemp = mxCreateDoubleMatrix(1, ndim, mxREAL);
+	mxSetField(plhs[0], 0, "domain", ptemp);
+	pr = mxGetPr(ptemp);
+	for(i=0; i<nxdom; i++){
+		pr[i] = xdom[i];
+	}
+	pr[ndim-1] = *ydom;
+
+	xdim = (int *)malloc(sizeof(int)*nxdom);
+	for(i=0; i<nxdom; i++){
+		xdim[i] = (int)pSizes[(int)xdom[i]-1];
+	}
+	ydim = (int)pSizes[(int)*ydom - 1];
+
+	ptemp = mxGetField(prhs[1], 0, "T");
+	yp = mxGetPr(ptemp);
+	ptemp = mxGetField(prhs[0], 0, "T");
+	xp = mxGetPr(ptemp);
+	xElements = mxGetNumberOfElements(ptemp);
+	if(ydim == 1){
+		ptemp1 = mxDuplicateArray(ptemp);
+		mxSetField(plhs[0], 0, "T", ptemp1);
+		free(xdim);
+		return;
+	}
+	numElements = xElements * ydim;
+
+	sx = (int *)malloc(sizeof(int)*ndim);
+	sy = (int *)malloc(sizeof(int)*ndim);
+	s =  (int *)malloc(sizeof(int)*ndim);
+	s1 = (int *)malloc(sizeof(int)*ndim);
+	*(cpsx = (int *)malloc(sizeof(int)*ndim)) = 1;
+	*(cpsy = (int *)malloc(sizeof(int)*ndim)) = 1;
+	subs =   (int *)malloc(sizeof(int)*ndim);
+	cpsx2 =  (int *)malloc(sizeof(int)*ndim);
+	cpsy2 =  (int *)malloc(sizeof(int)*ndim);
+	for(i=0; i<nxdom; i++){
+		subs[i] = 0;
+		sx[i] = xdim[i];
+		sy[i] = 1;
+		s[i] = sx[i];
+		s1[i] = s[i] - 1;
+	}
+	subs[ndim-1] = 0;
+	sx[ndim-1] = 1;
+	sy[ndim-1] = ydim;
+	s[ndim-1] = ydim;
+	s1[ndim-1] = s[ndim-1] - 1;
+				
+	for(i=0; i<ndim-1; i++){
+		cpsx[i+1] = cpsx[i]*sx[i]--;
+		cpsy[i+1] = cpsy[i]*sy[i]--;
+		cpsx2[i] = cpsx[i]*sx[i];
+		cpsy2[i] = cpsy[i]*sy[i];
+	}
+	cpsx2[ndim-1] = cpsx[ndim-1]*(--sx[ndim-1]);
+	cpsy2[ndim-1] = cpsy[ndim-1]*(--sy[ndim-1]);
+	
+	ptemp = mxCreateNumericArray(ndim, s, mxDOUBLE_CLASS, mxREAL);
+	mxSetField(plhs[0], 0, "T", ptemp);
+	zp = mxGetPr(ptemp);
+
+	for(j=0; j<numElements; j++){
+		*zp++ = *xp * *yp;
+		for(i=0; i<ndim; i++){
+			if(subs[i] == s1[i]){
+				subs[i] = 0;
+				if(sx[i])
+					xp -= cpsx2[i];
+				if(sy[i])
+					yp -= cpsy2[i];
+			}
+			else{
+				subs[i]++;
+				if(sx[i])
+					xp += cpsx[i];
+				if(sy[i])
+					yp += cpsy[i];
+				break;
+			}
+		}
+	}
+	free(xdim);
+	free(sx);
+	free(sy);
+	free(s);
+	free(s1);
+	free(cpsx);
+	free(cpsy);
+	free(subs);
+	free(cpsx2);
+	free(cpsy2);
+}