| 1 | #include <R.h> |
| 2 | #include <Rdefines.h> |
| 3 | #include "sources/EMGLLF.h" |
| 4 | #include "sources/utils/io.h" |
| 5 | |
| 6 | SEXP EMGLLF( |
| 7 | SEXP M_, |
| 8 | SEXP NIix_, |
| 9 | SEXP alpha_, |
| 10 | SEXP h_, |
| 11 | SEXP epsilon_, |
| 12 | SEXP maxiter_, |
| 13 | SEXP symmNeighbs_, |
| 14 | SEXP trace_ |
| 15 | ) { |
| 16 | // get parameters |
| 17 | double alpha = NUMERIC_VALUE(alpha_); |
| 18 | double h = NUMERIC_VALUE(h_); |
| 19 | double epsilon = NUMERIC_VALUE(epsilon_); |
| 20 | int maxiter = INTEGER_VALUE(maxiter_); |
| 21 | int symmNeighbs = LOGICAL_VALUE(symmNeighbs_); |
| 22 | int trace = LOGICAL_VALUE(trace_); |
| 23 | |
| 24 | // extract infos from M and get associate pointer |
| 25 | SEXP dim = getAttrib(M_, R_DimSymbol); |
| 26 | int nrow = INTEGER(dim)[0]; |
| 27 | int ncol = INTEGER(dim)[1]; |
| 28 | // M is always given by columns: easier to process in rows |
| 29 | double* pM = transpose(REAL(M_), nrow, ncol); |
| 30 | |
| 31 | // extract NIix list vectors in a jagged array |
| 32 | int* lengthNIix = (int*)malloc(nrow*sizeof(int)); |
| 33 | int** NIix = (int**)malloc(nrow*sizeof(int*)); |
| 34 | for (int i=0; i<nrow; i++) |
| 35 | { |
| 36 | lengthNIix[i] = LENGTH(VECTOR_ELT(NIix_,i)); |
| 37 | SEXP tmp; |
| 38 | PROTECT(tmp = AS_INTEGER(VECTOR_ELT(NIix_,i))); |
| 39 | NIix[i] = (int*)malloc(lengthNIix[i]*sizeof(int)); |
| 40 | for (int j=0; j<lengthNIix[i]; j++) |
| 41 | NIix[i][j] = INTEGER(tmp)[j]; |
| 42 | UNPROTECT(1); |
| 43 | // WARNING: R indices start at 1, |
| 44 | // so we must lower every index right now to avoid future bug |
| 45 | for (int j=0; j<lengthNIix[i]; j++) |
| 46 | NIix[i][j]--; |
| 47 | } |
| 48 | |
| 49 | // Main call to core algorithm |
| 50 | Parameters params = getVarsWithConvexOptim_core( |
| 51 | pM, lengthNIix, NIix, nrow, ncol, alpha, h, epsilon, maxiter, symmNeighbs, trace); |
| 52 | |
| 53 | // free neighborhoods parameters arrays |
| 54 | free(lengthNIix); |
| 55 | for (int i=0; i<nrow; i++) |
| 56 | free(NIix[i]); |
| 57 | free(NIix); |
| 58 | |
| 59 | // copy matrix F into pF for output to R (1D matrices) |
| 60 | SEXP f; |
| 61 | PROTECT(f = allocMatrix(REALSXP, nrow, ncol)); |
| 62 | double* pF = REAL(f); |
| 63 | for (int i=0; i<nrow; i++) |
| 64 | { |
| 65 | for (int j=0; j<ncol; j++) |
| 66 | pF[i+nrow*j] = params.f[i][j]; |
| 67 | } |
| 68 | // copy theta into pTheta for output to R |
| 69 | SEXP theta; |
| 70 | PROTECT(theta = allocVector(REALSXP, nrow)); |
| 71 | double* pTheta = REAL(theta); |
| 72 | for (int i=0; i<nrow; i++) |
| 73 | pTheta[i] = params.theta[i]; |
| 74 | |
| 75 | // free params.f and params.theta |
| 76 | free(params.theta); |
| 77 | for (int i=0; i<nrow; i++) |
| 78 | free(params.f[i]); |
| 79 | free(params.f); |
| 80 | |
| 81 | // build return list with f and theta |
| 82 | SEXP listParams, listNames; |
| 83 | PROTECT(listParams = allocVector(VECSXP, 2)); |
| 84 | char* lnames[2] = {"f", "theta"}; //lists labels |
| 85 | PROTECT(listNames = allocVector(STRSXP,2)); |
| 86 | for (int i=0; i<2; i++) |
| 87 | SET_STRING_ELT(listNames,i,mkChar(lnames[i])); |
| 88 | setAttrib(listParams, R_NamesSymbol, listNames); |
| 89 | SET_VECTOR_ELT(listParams, 0, f); |
| 90 | SET_VECTOR_ELT(listParams, 1, theta); |
| 91 | |
| 92 | UNPROTECT(4); |
| 93 | return listParams; |
| 94 | |
| 95 | |
| 96 | |
| 97 | |
| 98 | |
| 99 | |
| 100 | |
| 101 | |
| 102 | // Get matrices dimensions |
| 103 | const mwSize n = mxGetDimensions(prhs[8])[0]; |
| 104 | const mwSize p = mxGetDimensions(prhs[0])[0]; |
| 105 | const mwSize m = mxGetDimensions(prhs[0])[1]; |
| 106 | const mwSize k = mxGetDimensions(prhs[0])[2]; |
| 107 | |
| 108 | //////////// |
| 109 | // INPUTS // |
| 110 | //////////// |
| 111 | |
| 112 | // phiInit |
| 113 | const mwSize* dimPhiInit = mxGetDimensions(prhs[0]); |
| 114 | Real* brPhiInit = matlabToBrArray_real(mxGetPr(prhs[0]), dimPhiInit, 3); |
| 115 | |
| 116 | // rhoInit |
| 117 | const mwSize* dimRhoInit = mxGetDimensions(prhs[1]); |
| 118 | Real* brRhoInit = matlabToBrArray_real(mxGetPr(prhs[1]), dimRhoInit, 3); |
| 119 | |
| 120 | // piInit |
| 121 | Real* piInit = mxGetPr(prhs[2]); |
| 122 | |
| 123 | // gamInit |
| 124 | const mwSize* dimGamInit = mxGetDimensions(prhs[3]); |
| 125 | Real* brGamInit = matlabToBrArray_real(mxGetPr(prhs[3]), dimGamInit, 2); |
| 126 | |
| 127 | // min number of iterations |
| 128 | Int mini = ((Int*)mxGetData(prhs[4]))[0]; |
| 129 | |
| 130 | // max number of iterations |
| 131 | Int maxi = ((Int*)mxGetData(prhs[5]))[0]; |
| 132 | |
| 133 | // gamma |
| 134 | Real gamma = mxGetScalar(prhs[6]); |
| 135 | |
| 136 | // lambda |
| 137 | Real lambda = mxGetScalar(prhs[7]); |
| 138 | |
| 139 | // X |
| 140 | const mwSize* dimX = mxGetDimensions(prhs[8]); |
| 141 | Real* brX = matlabToBrArray_real(mxGetPr(prhs[8]), dimX, 2); |
| 142 | |
| 143 | // Y |
| 144 | const mwSize* dimY = mxGetDimensions(prhs[9]); |
| 145 | Real* brY = matlabToBrArray_real(mxGetPr(prhs[9]), dimY, 2); |
| 146 | |
| 147 | // tau |
| 148 | Real tau = mxGetScalar(prhs[10]); |
| 149 | |
| 150 | ///////////// |
| 151 | // OUTPUTS // |
| 152 | ///////////// |
| 153 | |
| 154 | // phi |
| 155 | const mwSize dimPhi[] = {dimPhiInit[0], dimPhiInit[1], dimPhiInit[2]}; |
| 156 | plhs[0] = mxCreateNumericArray(3,dimPhi,mxDOUBLE_CLASS,mxREAL); |
| 157 | Real* phi = mxGetPr(plhs[0]); |
| 158 | |
| 159 | // rho |
| 160 | const mwSize dimRho[] = {dimRhoInit[0], dimRhoInit[1], dimRhoInit[2]}; |
| 161 | plhs[1] = mxCreateNumericArray(3,dimRho,mxDOUBLE_CLASS,mxREAL); |
| 162 | Real* rho = mxGetPr(plhs[1]); |
| 163 | |
| 164 | // pi |
| 165 | plhs[2] = mxCreateNumericMatrix(k,1,mxDOUBLE_CLASS,mxREAL); |
| 166 | Real* pi = mxGetPr(plhs[2]); |
| 167 | |
| 168 | // LLF |
| 169 | plhs[3] = mxCreateNumericMatrix(maxi,1,mxDOUBLE_CLASS,mxREAL); |
| 170 | Real* LLF = mxGetPr(plhs[3]); |
| 171 | |
| 172 | // S |
| 173 | const mwSize dimS[] = {p, m, k}; |
| 174 | plhs[4] = mxCreateNumericArray(3,dimS,mxDOUBLE_CLASS,mxREAL); |
| 175 | Real* S = mxGetPr(plhs[4]); |
| 176 | |
| 177 | //////////////////// |
| 178 | // Call to EMGLLF // |
| 179 | //////////////////// |
| 180 | |
| 181 | EMGLLF(brPhiInit,brRhoInit,piInit,brGamInit,mini,maxi,gamma,lambda,brX,brY,tau, |
| 182 | phi,rho,pi,LLF,S, |
| 183 | n,p,m,k); |
| 184 | |
| 185 | free(brPhiInit); |
| 186 | free(brRhoInit); |
| 187 | free(brGamInit); |
| 188 | free(brX); |
| 189 | free(brY); |
| 190 | |
| 191 | |
| 192 | |
| 193 | |
| 194 | |
| 195 | |
| 196 | |
| 197 | } |