-#include "ioutils.h"
+#include <R.h>
+#include <Rdefines.h>
#include "constructionModelesLassoMLE.h"
-#include <mex.h>
-
-#include <stdio.h>
-
-// nlhs, nrhs: resp. numbers of out and in parameters.
-// plhs: array of out parameters, each being a mxArray
-// plhs: array of in parameters (immutable), each being a mxArray
-//
-// MATLAB translates a call [A,B] = fun(C,D) into mexFunction(2,{A,B},2,{C,D}).
-// Then mxArrayS are adapted to be passed to a regular C function,
-// and the results are translated back to mxArrayS into plhs.
-void mexFunction(
- int nlhs,
- mxArray* plhs[],
- int nrhs,
- const mxArray* prhs[])
-{
- // Basic sanity checks
- if (nrhs!=14)
- mexErrMsgIdAndTxt("select:constructionModelesLassoMLE:nrhs","14 inputs required.");
- if (nlhs!=4)
- mexErrMsgIdAndTxt("select:constructionModelesLassoMLE:nlhs","4 outputs required.");
+SEXP constructionModelesLassoMLE(
+ SEXP phiInit_,
+ SEXP rhoInit_,
+ SEXP piInit_,
+ SEXP gamInit_,
+ SEXP mini_,
+ SEXP maxi_,
+ SEXP gamma_,
+ SEXP glambda_,
+ SEXP X_,
+ SEXP Y_,
+ SEXP seuil_,
+ SEXP tau_,
+ SEXP A1_,
+ SEXP A2_
+) {
// Get matrices dimensions
- const mwSize n = mxGetDimensions(prhs[8])[0];
- const mwSize p = mxGetDimensions(prhs[0])[0];
- const mwSize m = mxGetDimensions(prhs[0])[1];
- const mwSize k = mxGetDimensions(prhs[0])[2];
- const mwSize L = mxGetNumberOfElements(prhs[7]);
-
+ int n = INTEGER(getAttrib(X_, R_DimSymbol))[0];
+ SEXP dim = getAttrib(phiInit_, R_DimSymbol);
+ int p = INTEGER(dim)[0];
+ int m = INTEGER(dim)[1];
+ int k = INTEGER(dim)[2];
+ int L = length(glambda_);
+
////////////
// INPUTS //
////////////
- // phiInit
- const mwSize* dimPhiInit = mxGetDimensions(prhs[0]);
- Real* brPhiInit = matlabToBrArray_real(mxGetPr(prhs[0]), dimPhiInit, 3);
-
- // rhoInit
- const mwSize* dimRhoInit = mxGetDimensions(prhs[1]);
- Real* brRhoInit = matlabToBrArray_real(mxGetPr(prhs[1]), dimRhoInit, 3);
-
- // piInit
- Real* piInit = mxGetPr(prhs[2]);
-
- // gamInit
- const mwSize* dimGamInit = mxGetDimensions(prhs[3]);
- Real* brGamInit = matlabToBrArray_real(mxGetPr(prhs[3]), dimGamInit, 2);
-
- // min number of iterations
- Int mini = ((Int*)mxGetData(prhs[4]))[0];
-
- // max number of iterations
- Int maxi = ((Int*)mxGetData(prhs[5]))[0];
+ // get scalar parameters
+ int mini = INTEGER_VALUE(mini_);
+ int maxi = INTEGER_VALUE(maxi_);
+ double gamma = NUMERIC_VALUE(gamma_);
+ double seuil = NUMERIC_VALUE(seuil_);
+ double tau = NUMERIC_VALUE(tau_);
+
+ // Get pointers from SEXP arrays ; WARNING: by columns !
+ double* phiInit = REAL(phiInit_);
+ double* rhoInit = REAL(rhoInit_);
+ double* piInit = REAL(piInit_);
+ double* gamInit = REAL(gamInit_);
+ double* glambda = REAL(glambda_);
+ double* X = REAL(X_);
+ double* Y = REAL(Y_);
+ int* A1 = INTEGER(A1_);
+ int* A2 = INTEGER(A2_);
- // gamma
- Real gamma = mxGetScalar(prhs[6]);
-
- // glambda
- Real* glambda = mxGetPr(prhs[7]);
-
- // X
- const mwSize* dimX = mxGetDimensions(prhs[8]);
- Real* brX = matlabToBrArray_real(mxGetPr(prhs[8]), dimX, 2);
-
- // Y
- const mwSize* dimY = mxGetDimensions(prhs[9]);
- Real* brY = matlabToBrArray_real(mxGetPr(prhs[9]), dimY, 2);
-
- //seuil
- Real seuil = mxGetScalar(prhs[10]);
-
- // tau
- Real tau = mxGetScalar(prhs[11]);
-
- // A1
- const mwSize* dimA = mxGetDimensions(prhs[12]);
- Int* brA1 = matlabToBrArray_int(mxGetData(prhs[12]), dimA, 3);
-
- // A2
- Int* brA2 = matlabToBrArray_int(mxGetData(prhs[13]), dimA, 3);
-
/////////////
// OUTPUTS //
/////////////
-
- // phi
- const mwSize dimPhi[] = {dimPhiInit[0], dimPhiInit[1], dimPhiInit[2], L};
- plhs[0] = mxCreateNumericArray(4,dimPhi,mxDOUBLE_CLASS,mxREAL);
- Real* phi = mxGetPr(plhs[0]);
-
- // rho
- const mwSize dimRho[] = {dimRhoInit[0], dimRhoInit[1], dimRhoInit[2], L};
- plhs[1] = mxCreateNumericArray(4,dimRho,mxDOUBLE_CLASS,mxREAL);
- Real* rho = mxGetPr(plhs[1]);
-
- // pi
- const mwSize dimPi[] = {k, L};
- plhs[2] = mxCreateNumericMatrix(dimPi[0],dimPi[1],mxDOUBLE_CLASS,mxREAL);
- Real* pi = mxGetPr(plhs[2]);
- // lvraisemblance
- const mwSize dimLvraisemblance[] = {L, 2};
- plhs[3] = mxCreateNumericMatrix(L, 2, mxDOUBLE_CLASS,mxREAL);
- Real* lvraisemblance = mxGetPr(plhs[3]);
+ SEXP phi, rho, pi, llh, dimPhi, dimRho;
+ PROTECT(dimPhi = allocVector(INTSXP, 4));
+ int* pDimPhi = INTEGER(dimPhi);
+ pDimPhi[0] = p; pDimPhi[1] = m; pDimPhi[2] = k; pDimPhi[3] = L;
+ PROTECT(dimRho = allocVector(INTSXP, 4));
+ int* pDimRho = INTEGER(dimRho);
+ pDimRho[0] = m; pDimRho[1] = m; pDimRho[2] = k; pDimRho[3] = L;
+ PROTECT(phi = allocArray(REALSXP, dimPhi));
+ PROTECT(rho = allocArray(REALSXP, dimRho));
+ PROTECT(pi = allocMatrix(REALSXP, k, L));
+ PROTECT(llh = allocMatrix(REALSXP, L, 2));
+ double *pPhi=REAL(phi), *pRho=REAL(rho), *pPi=REAL(pi), *pllh=REAL(llh);
/////////////////////////////////////////
// Call to constructionModelesLassoMLE //
/////////////////////////////////////////
- constructionModelesLassoMLE(
- brPhiInit,brRhoInit,piInit,brGamInit,mini,maxi,gamma,glambda,brX,brY,seuil,tau,brA1,brA2,
- phi,rho,pi,lvraisemblance,
+ constructionModelesLassoMLE_core(
+ phiInit,rhoInit,piInit,gamInit,mini,maxi,gamma,glambda,X,Y,seuil,tau,A1,A2,
+ pPhi,pRho,pPi,pllh,
n,p,m,k,L);
-
- free(brPhiInit);
- free(brRhoInit);
- free(brGamInit);
- free(brX);
- free(brY);
- free(brA1);
- free(brA2);
-
- //post-processing: convert by-rows outputs to MATLAB matrices
- Real* mlPhi = brToMatlabArray_real(phi, dimPhi, 4);
- copyArray(mlPhi, phi, dimPhi[0]*dimPhi[1]*dimPhi[2]*dimPhi[3]);
- free(mlPhi);
-
- Real* mlRho = brToMatlabArray_real(rho, dimRho, 4);
- copyArray(mlRho, rho, dimRho[0]*dimRho[1]*dimRho[2]*dimRho[3]);
- free(mlRho);
-
- Real* mlPi = brToMatlabArray_real(pi, dimPi, 2);
- copyArray(mlPi, pi, dimPi[0]*dimPi[1]);
- free(mlPi);
- Real* mlLvraisemblance = brToMatlabArray_real(lvraisemblance, dimLvraisemblance, 2);
- copyArray(mlLvraisemblance, lvraisemblance, dimLvraisemblance[0]*dimLvraisemblance[1]);
- free(mlLvraisemblance);
+ // Build list from OUT params and return it
+ SEXP listParams, listNames;
+ PROTECT(listParams = allocVector(VECSXP, 4));
+ char* lnames[4] = {"phi", "rho", "pi", "llh"}; //lists labels
+ PROTECT(listNames = allocVector(STRSXP,4));
+ for (int i=0; i<4; i++)
+ SET_STRING_ELT(listNames,i,mkChar(lnames[i]));
+ setAttrib(listParams, R_NamesSymbol, listNames);
+ SET_VECTOR_ELT(listParams, 0, phi);
+ SET_VECTOR_ELT(listParams, 1, rho);
+ SET_VECTOR_ELT(listParams, 2, pi);
+ SET_VECTOR_ELT(listParams, 3, llh);
+
+ UNPROTECT(8);
+ return listParams;
}
projects / valse.git / blobdiff