Exemplo n.º 1
0
/**
 * MAP is not affected by the number of items. EAP is. Likelihood can
 * get concentrated in a single quadrature ordinate. For 3PL, response
 * patterns can have a bimodal likelihood. This will confuse MAP and
 * is a key advantage of EAP (Thissen & Orlando, 2001, p. 136).
 *
 * Thissen, D. & Orlando, M. (2001). IRT for items scored in two
 * categories. In D. Thissen & H. Wainer (Eds.), \emph{Test scoring}
 * (pp 73-140). Lawrence Erlbaum Associates, Inc.
 */
static void
ba81PopulateAttributes(omxExpectation *oo, SEXP robj)
{
	BA81Expect *state = (BA81Expect *) oo->argStruct;
	if (!state->debugInternal) return;

	ba81NormalQuad &quad = state->getQuad();
	int maxAbilities = quad.abilities();
	const int numUnique = state->getNumUnique();

	const double LogLargest = state->LogLargestDouble;
	SEXP Rlik;

	if (state->grp.patternLik.size() != numUnique) {
		refreshPatternLikelihood(state, oo->dynamicDataSource);
	}

	Rf_protect(Rlik = Rf_allocVector(REALSXP, numUnique));
	memcpy(REAL(Rlik), state->grp.patternLik.data(), sizeof(double) * numUnique);
	double *lik_out = REAL(Rlik);
	for (int px=0; px < numUnique; ++px) {
		// Must return value in log units because it may not be representable otherwise
		lik_out[px] = log(lik_out[px]) - LogLargest;
	}

	MxRList dbg;
	dbg.add("patternLikelihood", Rlik);

	if (quad.getEstepTableSize(0)) {
		SEXP Rexpected;
		Rf_protect(Rexpected = Rf_allocVector(REALSXP, quad.getEstepTableSize(0)));
		Eigen::Map< Eigen::ArrayXd > box(REAL(Rexpected), quad.getEstepTableSize(0));
		quad.exportEstepTable(0, box);
		dbg.add("em.expected", Rexpected);
	}

	SEXP Rmean, Rcov;
	if (state->estLatentMean) {
		Rf_protect(Rmean = Rf_allocVector(REALSXP, maxAbilities));
		memcpy(REAL(Rmean), state->estLatentMean->data, maxAbilities * sizeof(double));
		dbg.add("mean", Rmean);
	}
	if (state->estLatentCov) {
		Rf_protect(Rcov = Rf_allocMatrix(REALSXP, maxAbilities, maxAbilities));
		memcpy(REAL(Rcov), state->estLatentCov->data, maxAbilities * maxAbilities * sizeof(double));
		dbg.add("cov", Rcov);
	}

	Rf_setAttrib(robj, Rf_install("debug"), dbg.asR());
}
Exemplo n.º 2
0
static void gradCov(omxFitFunction *oo, FitContext *fc)
{
	const double Scale = Global->llScale;
	omxExpectation *expectation = oo->expectation;
	BA81FitState *state = (BA81FitState*) oo->argStruct;
	BA81Expect *estate = (BA81Expect*) expectation->argStruct;
	if (estate->verbose >= 1) mxLog("%s: cross product approximation", oo->name());

	estate->grp.ba81OutcomeProb(estate->itemParam->data, FALSE);

	const int numThreads = Global->numThreads;
	const int numUnique = estate->getNumUnique();
	ba81NormalQuad &quad = estate->getQuad();
	const int numSpecific = quad.numSpecific;
	const int maxDims = quad.maxDims;
	const int pDims = numSpecific? maxDims-1 : maxDims;
	const int maxAbilities = quad.maxAbilities;
	Eigen::MatrixXd icovMat(pDims, pDims);
	if (maxAbilities) {
		Eigen::VectorXd mean;
		Eigen::MatrixXd srcMat;
		estate->getLatentDistribution(fc, mean, srcMat);
		icovMat = srcMat.topLeftCorner(pDims, pDims);
		Matrix tmp(icovMat.data(), pDims, pDims);
		int info = InvertSymmetricPosDef(tmp, 'U');
		if (info) {
			omxRaiseErrorf("%s: latent covariance matrix is not positive definite", oo->name());
			return;
		}
		icovMat.triangularView<Eigen::Lower>() = icovMat.transpose().triangularView<Eigen::Lower>();
	}
	std::vector<int> &rowMap = estate->grp.rowMap;
	double *rowWeight = estate->grp.rowWeight;
	std::vector<bool> &rowSkip = estate->grp.rowSkip;
	const int totalQuadPoints = quad.totalQuadPoints;
	omxMatrix *itemParam = estate->itemParam;
	omxBuffer<double> patternLik(numUnique);

	const int priDerivCoef = pDims + triangleLoc1(pDims);
	const int numLatents = maxAbilities + triangleLoc1(maxAbilities);
	const int thrDerivSize = itemParam->cols * state->itemDerivPadSize;
	const int totalOutcomes = estate->totalOutcomes();
	const int numItems = state->freeItemParams? estate->numItems() : 0;
	const size_t numParam = fc->varGroup->vars.size();
	std::vector<double> thrGrad(numThreads * numParam);
	std::vector<double> thrMeat(numThreads * numParam * numParam);
	const double *wherePrep = quad.wherePrep.data();

	if (numSpecific == 0) {
		omxBuffer<double> thrLxk(totalQuadPoints * numThreads);
		omxBuffer<double> derivCoef(totalQuadPoints * priDerivCoef);

		if (state->freeLatents) {
#pragma omp parallel for num_threads(numThreads)
			for (int qx=0; qx < totalQuadPoints; qx++) {
				const double *where = wherePrep + qx * maxDims;
				calcDerivCoef(fc, state, estate, icovMat.data(), where,
					      derivCoef.data() + qx * priDerivCoef);
			}
		}

#pragma omp parallel for num_threads(numThreads)
		for (int px=0; px < numUnique; px++) {
			if (rowSkip[px]) continue;
			int thrId = omx_absolute_thread_num();
			double *lxk = thrLxk.data() + thrId * totalQuadPoints;
			omxBuffer<double> expected(totalOutcomes); // can use maxOutcomes instead TODO
			std::vector<double> deriv0(thrDerivSize);
			std::vector<double> latentGrad(numLatents);
			std::vector<double> patGrad(numParam);
			double *grad = thrGrad.data() + thrId * numParam;
			double *meat = thrMeat.data() + thrId * numParam * numParam;
			estate->grp.ba81LikelihoodSlow2(px, lxk);

			// If patternLik is already valid, maybe could avoid this loop TODO
			double patternLik1 = 0;
			for (int qx=0; qx < totalQuadPoints; qx++) {
				patternLik1 += lxk[qx];
			}
			patternLik[px] = patternLik1;

			// if (!validPatternLik(state, patternLik1))  complain, TODO

			for (int qx=0; qx < totalQuadPoints; qx++) {
				double tmp = lxk[qx];
				mapLatentDeriv(state, estate, tmp, derivCoef.data() + qx * priDerivCoef,
					       latentGrad.data());

				for (int ix=0; ix < numItems; ++ix) {
					int pick = estate->grp.dataColumns[ix][rowMap[px]];
					if (pick == NA_INTEGER) continue;
					OMXZERO(expected.data(), estate->itemOutcomes(ix));
					expected[pick-1] = tmp;
					const double *spec = estate->itemSpec(ix);
					double *iparam = omxMatrixColumn(itemParam, ix);
					const int id = spec[RPF_ISpecID];
					double *myDeriv = deriv0.data() + ix * state->itemDerivPadSize;
					(*Glibrpf_model[id].dLL1)(spec, iparam, wherePrep + qx * maxDims,
							      expected.data(), myDeriv);
				}
			}

			gradCov_finish_1pat(1 / patternLik1, rowWeight[px], numItems, numLatents, numParam,
					state, estate, itemParam, deriv0, latentGrad, Scale, patGrad, grad, meat);
		}
	} else {
		const int totalPrimaryPoints = quad.totalPrimaryPoints;
		const int specificPoints = quad.quadGridSize;
		omxBuffer<double> thrLxk(totalQuadPoints * numSpecific * numThreads);
		omxBuffer<double> thrEi(totalPrimaryPoints * numThreads);
		omxBuffer<double> thrEis(totalPrimaryPoints * numSpecific * numThreads);
		const int derivPerPoint = priDerivCoef + 2 * numSpecific;
		omxBuffer<double> derivCoef(totalQuadPoints * derivPerPoint);

		if (state->freeLatents) {
#pragma omp parallel for num_threads(numThreads)
			for (int qx=0; qx < totalQuadPoints; qx++) {
				const double *where = wherePrep + qx * maxDims;
				calcDerivCoef(fc, state, estate, icovMat.data(), where,
					      derivCoef.data() + qx * derivPerPoint);
				for (int Sgroup=0; Sgroup < numSpecific; ++Sgroup) {
					calcDerivCoef1(fc, state, estate, where, Sgroup,
						       derivCoef.data() + qx * derivPerPoint + priDerivCoef + 2 * Sgroup);
				}
			}
		}

#pragma omp parallel for num_threads(numThreads)
		for (int px=0; px < numUnique; px++) {
			if (rowSkip[px]) continue;
			int thrId = omx_absolute_thread_num();
			double *lxk = thrLxk.data() + totalQuadPoints * numSpecific * thrId;
			double *Ei = thrEi.data() + totalPrimaryPoints * thrId;
			double *Eis = thrEis.data() + totalPrimaryPoints * numSpecific * thrId;
			omxBuffer<double> expected(totalOutcomes); // can use maxOutcomes instead TODO
			std::vector<double> deriv0(thrDerivSize);
			std::vector<double> latentGrad(numLatents);
			std::vector<double> patGrad(numParam);
			double *grad = thrGrad.data() + thrId * numParam;
			double *meat = thrMeat.data() + thrId * numParam * numParam;
			estate->grp.cai2010EiEis(px, lxk, Eis, Ei);

			for (int qx=0, qloc = 0; qx < totalPrimaryPoints; qx++) {
				for (int sgroup=0; sgroup < numSpecific; ++sgroup) {
					Eis[qloc] = Ei[qx] / Eis[qloc];
					++qloc;
				}
			}

			for (int qloc=0, eisloc=0, qx=0; eisloc < totalPrimaryPoints * numSpecific; eisloc += numSpecific) {
				for (int sx=0; sx < specificPoints; sx++) {
					mapLatentDeriv(state, estate, Eis[eisloc] * lxk[qloc],
						       derivCoef.data() + qx * derivPerPoint,
						       latentGrad.data());

					for (int Sgroup=0; Sgroup < numSpecific; Sgroup++) {
						double lxk1 = lxk[qloc];
						double Eis1 = Eis[eisloc + Sgroup];
						double tmp = Eis1 * lxk1;
						mapLatentDerivS(state, estate, Sgroup, tmp,
								derivCoef.data() + qx * derivPerPoint + priDerivCoef + 2 * Sgroup,
								latentGrad.data());

						for (int ix=0; ix < numItems; ++ix) {
							if (estate->grp.Sgroup[ix] != Sgroup) continue;
							int pick = estate->grp.dataColumns[ix][rowMap[px]];
							if (pick == NA_INTEGER) continue;
							OMXZERO(expected.data(), estate->itemOutcomes(ix));
							expected[pick-1] = tmp;
							const double *spec = estate->itemSpec(ix);
							double *iparam = omxMatrixColumn(itemParam, ix);
							const int id = spec[RPF_ISpecID];
							const int dims = spec[RPF_ISpecDims];
							double *myDeriv = deriv0.data() + ix * state->itemDerivPadSize;
							const double *where = wherePrep + qx * maxDims;
							Eigen::VectorXd ptheta(dims);
							for (int dx=0; dx < dims; dx++) {
								ptheta[dx] = where[std::min(dx, maxDims-1)];
							}
							(*Glibrpf_model[id].dLL1)(spec, iparam, ptheta.data(),
									      expected.data(), myDeriv);
						}
						++qloc;
					}
					++qx;
				}
			}

			// If patternLik is already valid, maybe could avoid this loop TODO
			double patternLik1 = 0;
			for (int qx=0; qx < totalPrimaryPoints; ++qx) {
				patternLik1 += Ei[qx];
			}
			patternLik[px] = patternLik1;

			gradCov_finish_1pat(1 / patternLik1, rowWeight[px], numItems, numLatents, numParam,
					state, estate, itemParam, deriv0, latentGrad, Scale, patGrad, grad, meat);
		}
	}

	for (int tx=1; tx < numThreads; ++tx) {
		double *th = thrGrad.data() + tx * numParam;
		for (size_t en=0; en < numParam; ++en) {
			thrGrad[en] += th[en];
		}
	}
	for (int tx=1; tx < numThreads; ++tx) {
		double *th = thrMeat.data() + tx * numParam * numParam;
		for (size_t en=0; en < numParam * numParam; ++en) {
			thrMeat[en] += th[en];
		}
	}
	for (size_t d1=0; d1 < numParam; ++d1) {
		fc->grad(d1) += thrGrad[d1];
	}
	if (fc->infoB) {
		for (size_t d1=0; d1 < numParam; ++d1) {
			for (size_t d2=0; d2 < numParam; ++d2) {
				int cell = d1 * numParam + d2;
				fc->infoB[cell] += thrMeat[cell];
			}
		}
	}
}
Exemplo n.º 3
0
static void sandwich(omxFitFunction *oo, FitContext *fc)
{
	const double abScale = fabs(Global->llScale);
	omxExpectation *expectation = oo->expectation;
	BA81FitState *state = (BA81FitState*) oo->argStruct;
	BA81Expect *estate = (BA81Expect*) expectation->argStruct;
	if (estate->verbose >= 1) mxLog("%s: sandwich", oo->name());

	estate->grp.ba81OutcomeProb(estate->itemParam->data, FALSE);

	const int numThreads = Global->numThreads;
	const int numUnique = estate->getNumUnique();
	ba81NormalQuad &quad = estate->getQuad();
	const int numSpecific = quad.numSpecific;
	const int maxDims = quad.maxDims;
	std::vector<int> &rowMap = estate->grp.rowMap;
	double *rowWeight = estate->grp.rowWeight;
	std::vector<bool> &rowSkip = estate->grp.rowSkip;
	const int totalQuadPoints = quad.totalQuadPoints;
	omxMatrix *itemParam = estate->itemParam;
	omxBuffer<double> patternLik(numUnique);

	std::vector<const double*> &itemSpec = estate->grp.spec;
	const int totalOutcomes = estate->totalOutcomes();
	const int numItems = estate->grp.numItems();
	const size_t numParam = fc->varGroup->vars.size();
	const double *wherePrep = quad.wherePrep.data();
	std::vector<double> thrBreadG(numThreads * numParam * numParam);
	std::vector<double> thrBreadH(numThreads * numParam * numParam);
	std::vector<double> thrMeat(numThreads * numParam * numParam);

	if (numSpecific == 0) {
		omxBuffer<double> thrLxk(totalQuadPoints * numThreads);

#pragma omp parallel for num_threads(numThreads)
		for (int px=0; px < numUnique; px++) {
			if (rowSkip[px]) continue;
			int thrId = omx_absolute_thread_num();
			double *lxk = thrLxk.data() + thrId * totalQuadPoints;
			omxBuffer<double> itemDeriv(state->itemDerivPadSize);
			omxBuffer<double> expected(totalOutcomes); // can use maxOutcomes instead TODO
			double *breadG = thrBreadG.data() + thrId * numParam * numParam; //a
			double *breadH = thrBreadH.data() + thrId * numParam * numParam; //a
			double *meat = thrMeat.data() + thrId * numParam * numParam;   //b
			std::vector<double> patGrad(numParam);

			estate->grp.ba81LikelihoodSlow2(px, lxk);

			// If patternLik is already valid, maybe could avoid this loop TODO
			double patternLik1 = 0;
			for (int qx=0; qx < totalQuadPoints; qx++) {
				patternLik1 += lxk[qx];
			}
			patternLik[px] = patternLik1;

			// if (!validPatternLik(state, patternLik1))  complain

			double weight = 1 / patternLik[px];
			for (int qx=0; qx < totalQuadPoints; qx++) {
				double tmp = lxk[qx] * weight;
				double sqrtTmp = sqrt(tmp);

				std::vector<double> gradBuf(numParam);
				int gradOffset = 0;

				for (int ix=0; ix < numItems; ++ix) {
					if (ix) gradOffset += state->paramPerItem[ix-1];
					int pick = estate->grp.dataColumns[ix][rowMap[px]];
					if (pick == NA_INTEGER) continue;
					pick -= 1;

					const int iOutcomes = estate->itemOutcomes(ix);
					OMXZERO(expected.data(), iOutcomes);
					expected[pick] = 1;
					const double *spec = itemSpec[ix];
					double *iparam = omxMatrixColumn(itemParam, ix);
					const int id = spec[RPF_ISpecID];
					OMXZERO(itemDeriv.data(), state->itemDerivPadSize);
					(*Glibrpf_model[id].dLL1)(spec, iparam, wherePrep + qx * maxDims,
							      expected.data(), itemDeriv.data());
					(*Glibrpf_model[id].dLL2)(spec, iparam, itemDeriv.data());

					for (int par = 0; par < state->paramPerItem[ix]; ++par) {
						int to = state->itemGradMap[gradOffset + par];
						if (to >= 0) {
							gradBuf[to] -= itemDeriv[par] * sqrtTmp;
							patGrad[to] -= itemDeriv[par] * tmp;
						}
					}
					int derivBase = ix * state->itemDerivPadSize;
					for (int ox=0; ox < state->itemDerivPadSize; ox++) {
						int to = state->paramMap[derivBase + ox];
						if (to >= int(numParam)) {
							int Hto = to - numParam;
							breadH[Hto] += abScale * itemDeriv[ox] * tmp * rowWeight[px];
						}
					}
				}
				addSymOuterProd(abScale * rowWeight[px], gradBuf.data(), numParam, breadG);
			}
			addSymOuterProd(abScale * rowWeight[px], patGrad.data(), numParam, meat);
		}

	} else {
		Rf_error("Sandwich information matrix method is not implemented for bifactor models");
		const int totalPrimaryPoints = quad.totalPrimaryPoints;
		const int specificPoints = quad.quadGridSize;
		omxBuffer<double> thrLxk(totalQuadPoints * numSpecific * numThreads);
		omxBuffer<double> thrEi(totalPrimaryPoints * numThreads);
		omxBuffer<double> thrEis(totalPrimaryPoints * numSpecific * numThreads);

#pragma omp parallel for num_threads(numThreads)
		for (int px=0; px < numUnique; px++) {
			if (rowSkip[px]) continue;
			int thrId = omx_absolute_thread_num();
			omxBuffer<double> expected(totalOutcomes); // can use maxOutcomes instead TODO
			omxBuffer<double> itemDeriv(state->itemDerivPadSize);
			double *breadG = thrBreadG.data() + thrId * numParam * numParam; //a
			double *breadH = thrBreadH.data() + thrId * numParam * numParam; //a
			double *meat = thrMeat.data() + thrId * numParam * numParam;   //b
			std::vector<double> patGrad(numParam);
			double *lxk = thrLxk.data() + totalQuadPoints * numSpecific * thrId;
			double *Ei = thrEi.data() + totalPrimaryPoints * thrId;
			double *Eis = thrEis.data() + totalPrimaryPoints * numSpecific * thrId;
			estate->grp.cai2010EiEis(px, lxk, Eis, Ei);

			// If patternLik is already valid, maybe could avoid this loop TODO
			double patternLik1 = 0;
			for (int qx=0; qx < totalPrimaryPoints; ++qx) {
				patternLik1 += Ei[qx];
			}
			patternLik[px] = patternLik1;

			for (int qx=0, qloc = 0; qx < totalPrimaryPoints; qx++) {
				for (int sgroup=0; sgroup < numSpecific; ++sgroup) {
					Eis[qloc] = Ei[qx] / Eis[qloc];
					++qloc;
				}
			}

			// WARNING: I didn't work out the math. I just coded this the way
			// it seems to make sense.
			for (int qloc=0, eisloc=0, qx=0; eisloc < totalPrimaryPoints * numSpecific; eisloc += numSpecific) {
				for (int sx=0; sx < specificPoints; sx++) {
					for (int Sgroup=0; Sgroup < numSpecific; Sgroup++) {
						std::vector<double> gradBuf(numParam);
						int gradOffset = 0;
						double lxk1 = lxk[qloc + Sgroup];
						double Eis1 = Eis[eisloc + Sgroup];
						double tmp = Eis1 * lxk1 / patternLik1;
						double sqrtTmp = sqrt(tmp);
						for (int ix=0; ix < numItems; ++ix) {
							if (ix) gradOffset += state->paramPerItem[ix-1];
							if (estate->grp.Sgroup[ix] != Sgroup) continue;
							int pick = estate->grp.dataColumns[ix][rowMap[px]];
							if (pick == NA_INTEGER) continue;
							OMXZERO(expected.data(), estate->itemOutcomes(ix));
							expected[pick-1] = 1;
							const double *spec = itemSpec[ix];
							double *iparam = omxMatrixColumn(itemParam, ix);
							const int id = spec[RPF_ISpecID];
							const int dims = spec[RPF_ISpecDims];
							OMXZERO(itemDeriv.data(), state->itemDerivPadSize);
							const double *where = wherePrep + qx * maxDims;
							Eigen::VectorXd ptheta(dims);
							for (int dx=0; dx < dims; dx++) {
								ptheta[dx] = where[std::min(dx, maxDims-1)];
							}
							(*Glibrpf_model[id].dLL1)(spec, iparam, ptheta.data(),
									      expected.data(), itemDeriv.data());
							(*Glibrpf_model[id].dLL2)(spec, iparam, itemDeriv.data());

							for (int par = 0; par < state->paramPerItem[ix]; ++par) {
								int to = state->itemGradMap[gradOffset + par];
								if (to >= 0) {
									gradBuf[to] -= itemDeriv[par] * sqrtTmp;
									patGrad[to] -= itemDeriv[par] * tmp;
								}
							}
							int derivBase = ix * state->itemDerivPadSize;
							for (int ox=0; ox < state->itemDerivPadSize; ox++) {
								int to = state->paramMap[derivBase + ox];
								if (to >= int(numParam)) {
									int Hto = to - numParam;
									breadH[Hto] += (abScale * itemDeriv[ox] *
											tmp * rowWeight[px]);
								}
							}
						}
						addSymOuterProd(abScale * rowWeight[px], gradBuf.data(), numParam, breadG);
					}
					qloc += numSpecific;
					++qx;
				}
			}
			addSymOuterProd(abScale * rowWeight[px], patGrad.data(), numParam, meat);
		}
	}

	// only need upper triangle TODO
	for (int tx=1; tx < numThreads; ++tx) {
		double *th = thrBreadG.data() + tx * numParam * numParam;
		for (size_t en=0; en < numParam * numParam; ++en) {
			thrBreadG[en] += th[en];
		}
	}
	for (int tx=1; tx < numThreads; ++tx) {
		double *th = thrBreadH.data() + tx * numParam * numParam;
		for (size_t en=0; en < numParam * numParam; ++en) {
			thrBreadH[en] += th[en];
		}
	}
	for (int tx=1; tx < numThreads; ++tx) {
		double *th = thrMeat.data() + tx * numParam * numParam;
		for (size_t en=0; en < numParam * numParam; ++en) {
			thrMeat[en] += th[en];
		}
	}
	//pda(thrBreadG.data(), numParam, numParam);
	//pda(thrBreadH.data(), numParam, numParam);
	//pda(thrMeat.data(), numParam, numParam);
	if (fc->infoA) {
		for (size_t d1=0; d1 < numParam; ++d1) {
			for (size_t d2=0; d2 < numParam; ++d2) {
				int cell = d1 * numParam + d2;
				fc->infoA[cell] += thrBreadH[cell] - thrBreadG[cell] + thrMeat[cell];
			}
		}
	}
	if (fc->infoB) {
		for (size_t d1=0; d1 < numParam; ++d1) {
			for (size_t d2=0; d2 < numParam; ++d2) {
				int cell = d1 * numParam + d2;
				fc->infoB[cell] += thrMeat[cell];
			}
		}
	}
}
Exemplo n.º 4
0
static void
ba81ComputeFit(omxFitFunction* oo, int want, FitContext *fc)
{
	BA81FitState *state = (BA81FitState*) oo->argStruct;
	BA81Expect *estate = (BA81Expect*) oo->expectation->argStruct;
	if (fc) state->numFreeParam = fc->varGroup->vars.size();

	if (want & FF_COMPUTE_INITIAL_FIT) return;

	if (estate->type == EXPECTATION_AUGMENTED) {
		buildItemParamMap(oo, fc);

		if (want & FF_COMPUTE_PARAMFLAVOR) {
			for (size_t px=0; px < state->numFreeParam; ++px) {
				if (state->paramFlavor[px] == NULL) continue;
				fc->flavor[px] = state->paramFlavor[px];
			}
			return;
		}

		if (want & FF_COMPUTE_PREOPTIMIZE) {
			omxExpectationCompute(fc, oo->expectation, NULL);
			return;
		}

		if (want & FF_COMPUTE_INFO) {
			buildLatentParamMap(oo, fc);
			if (!state->freeItemParams) {
				omxRaiseErrorf("%s: no free parameters", oo->name());
				return;
			}
			ba81SetupQuadrature(oo->expectation);

			if (fc->infoMethod == INFO_METHOD_HESSIAN) {
				ba81ComputeEMFit(oo, FF_COMPUTE_HESSIAN, fc);
			} else {
				omxRaiseErrorf("Information matrix approximation method %d is not available",
					       fc->infoMethod);
				return;
			}
			return;
		}

		double got = ba81ComputeEMFit(oo, want, fc);
		oo->matrix->data[0] = got;
		return;
	} else if (estate->type == EXPECTATION_OBSERVED) {

		if (want == FF_COMPUTE_STARTING) {
			buildLatentParamMap(oo, fc);
			if (state->freeLatents) setLatentStartingValues(oo, fc);
			return;
		}

		if (want & (FF_COMPUTE_INFO | FF_COMPUTE_GRADIENT)) {
			buildLatentParamMap(oo, fc); // only to check state->freeLatents
			buildItemParamMap(oo, fc);
			if (!state->freeItemParams && !state->freeLatents) {
				omxRaiseErrorf("%s: no free parameters", oo->name());
				return;
			}
			ba81SetupQuadrature(oo->expectation);

			if (want & FF_COMPUTE_GRADIENT ||
			    (want & FF_COMPUTE_INFO && fc->infoMethod == INFO_METHOD_MEAT)) {
				gradCov(oo, fc);
			} else {
				if (state->freeLatents) {
					omxRaiseErrorf("Information matrix approximation method %d is not available",
						       fc->infoMethod);
					return;
				}
				if (!state->freeItemParams) {
					omxRaiseErrorf("%s: no free parameters", oo->name());
					return;
				}
				sandwich(oo, fc);
			}
		}
		if (want & (FF_COMPUTE_HESSIAN | FF_COMPUTE_IHESSIAN)) {
			omxRaiseErrorf("%s: Hessian is not available for observed data", oo->name());
		}

		if (want & FF_COMPUTE_MAXABSCHANGE) {
			double mac = std::max(omxMaxAbsDiff(state->itemParam, estate->itemParam),
					      omxMaxAbsDiff(state->latentMean, estate->_latentMeanOut));
			fc->mac = std::max(mac, omxMaxAbsDiff(state->latentCov, estate->_latentCovOut));
			state->copyEstimates(estate);
		}

		if (want & FF_COMPUTE_FIT) {
			omxExpectationCompute(fc, oo->expectation, NULL);

			Eigen::ArrayXd &patternLik = estate->grp.patternLik;
			const int numUnique = estate->getNumUnique();
			if (state->returnRowLikelihoods) {
				const double OneOverLargest = estate->grp.quad.getReciprocalOfOne();
				omxData *data = estate->data;
				for (int rx=0; rx < numUnique; rx++) {
					int dups = omxDataNumIdenticalRows(data, estate->grp.rowMap[rx]);
					for (int dup=0; dup < dups; dup++) {
						int dest = omxDataIndex(data, estate->grp.rowMap[rx]+dup);
						oo->matrix->data[dest] = patternLik[rx] * OneOverLargest;
					}
				}
			} else {
				double *rowWeight = estate->grp.rowWeight;
				const double LogLargest = estate->LogLargestDouble;
				double got = 0;
#pragma omp parallel for num_threads(Global->numThreads) reduction(+:got)
				for (int ux=0; ux < numUnique; ux++) {
					if (patternLik[ux] == 0) continue;
					got += rowWeight[ux] * (log(patternLik[ux]) - LogLargest);
				}
				double fit = nan("infeasible");
				if (estate->grp.excludedPatterns < numUnique) {
					fit = Global->llScale * got;
					// add in some badness for excluded patterns
					fit += fit * estate->grp.excludedPatterns;
				}
				if (estate->verbose >= 1) mxLog("%s: observed fit %.4f (%d/%d excluded)",
								oo->name(), fit, estate->grp.excludedPatterns, numUnique);
				oo->matrix->data[0] = fit;
			}
		}
	} else {
		Rf_error("%s: Predict nothing or scores before computing %d", oo->name(), want);
	}
}
Exemplo n.º 5
0
static void
ba81compute(omxExpectation *oo, FitContext *fc, const char *what, const char *how)
{
	BA81Expect *state = (BA81Expect *) oo->argStruct;

	if (what) {
		if (strcmp(what, "latentDistribution")==0 && how && strcmp(how, "copy")==0) {
			omxCopyMatrix(state->_latentMeanOut, state->estLatentMean);
			omxCopyMatrix(state->_latentCovOut, state->estLatentCov);

			double sampleSizeAdj = (state->weightSum - 1.0) / state->weightSum;
			int covSize = state->_latentCovOut->rows * state->_latentCovOut->cols;
			for (int cx=0; cx < covSize; ++cx) {
				state->_latentCovOut->data[cx] *= sampleSizeAdj;
			}
			return;
		}

		if (strcmp(what, "scores")==0) {
			state->expectedUsed = true;
			state->type = EXPECTATION_AUGMENTED;
		} else if (strcmp(what, "nothing")==0) {
			state->type = EXPECTATION_OBSERVED;
		} else {
			omxRaiseErrorf("%s: don't know how to predict '%s'",
				       oo->name, what);
		}

		if (state->verbose >= 1) {
			mxLog("%s: predict %s", oo->name, what);
		}
		return;
	}

	bool latentClean = state->latentParamVersion == getLatentVersion(state);
	bool itemClean = state->itemParamVersion == omxGetMatrixVersion(state->itemParam) && latentClean;

	ba81NormalQuad &quad = state->getQuad();

	if (state->verbose >= 1) {
		mxLog("%s: Qinit %d itemClean %d latentClean %d (1=clean) expectedUsed=%d",
		      oo->name, (int)quad.isAllocated(), itemClean, latentClean, state->expectedUsed);
	}

	if (!latentClean) {
		ba81RefreshQuadrature(oo);
		state->latentParamVersion = getLatentVersion(state);
	}

	if (!itemClean) {
		double *param = state->EitemParam? state->EitemParam : state->itemParam->data;
		state->grp.quad.cacheOutcomeProb(param, FALSE);

		bool estep = state->expectedUsed;
		if (estep) {
			if (oo->dynamicDataSource) {
				BA81Engine<BA81Expect*, BA81LatentSummary, BA81Estep> engine;
				engine.ba81Estep1(&state->grp, state);
			} else {
				BA81Engine<BA81Expect*, BA81LatentFixed, BA81Estep> engine;
				engine.ba81Estep1(&state->grp, state);
			}
		} else {
			state->grp.quad.releaseEstep();
			refreshPatternLikelihood(state, oo->dynamicDataSource);
		}
		if (oo->dynamicDataSource && state->verbose >= 2) {
			mxLog("%s: empirical distribution mean and cov:", state->name);
			omxPrint(state->estLatentMean, "mean");
			omxPrint(state->estLatentCov, "cov");
		}
		if (state->verbose >= 1) {
			const int numUnique = state->getNumUnique();
			mxLog("%s: estep<%s, %s> %d/%d rows excluded",
			      state->name,
			      (estep && oo->dynamicDataSource? "summary":"fixed"),
			      (estep? "estep":"omitEstep"),
			      state->grp.excludedPatterns, numUnique);
		}
	}

	state->itemParamVersion = omxGetMatrixVersion(state->itemParam);
}