Update doxygen

[ci skip]

Author: WardBrian

doxygen/doxygen.cfg

@@ -2743,6 +2743,7 @@ MSCGEN_TOOL            =
 MSCFILE_DIRS           =
 
 ALIASES += laplace_options="\
+\param[in] theta_0 the initial guess for the Laplace approximation. \
 \param[in] tolerance controls the convergence criterion when finding the mode in the Laplace approximation. \
 \param[in] max_num_steps maximum number of steps before the Newton solver breaks and returns an error. \
 \param[in] hessian_block_size Block size of Hessian of log likelihood w.r.t latent Gaussian variable theta. \
@@ -2754,7 +2755,6 @@ ALIASES += laplace_options="\
 "
 
 ALIASES += laplace_common_template_args="\
- \tparam ThetaVec A type inheriting from `Eigen::EigenBase` with dynamic sized rows and 1 column. \
  \tparam CovarFun A functor with an `operator()(CovarArgsElements..., {TrainTupleElements...| PredTupleElements...})` \
  method. The `operator()` method should accept as arguments the \
  inner elements of `CovarArgs`. The return type of the `operator()` method \
@@ -2764,7 +2764,6 @@ ALIASES += laplace_common_template_args="\
 "
 
 ALIASES += laplace_common_args="\
-\param[in] theta_0 the initial guess for the Laplace approximation. \
 \param[in] covariance_function a function which returns the prior covariance. \
 \param[in] covar_args arguments for the covariance function. \
 "

stan/math/mix/prob/laplace_latent_bernoulli_logit_rng.hpp

@@ -17,6 +17,8 @@ namespace math {
  * return a multivariate normal random variate sampled
  * from the gaussian approximation of p(theta | y, phi),
  * where the likelihood is a Bernoulli with logit link.
+ * @tparam ThetaVec A type inheriting from `Eigen::EigenBase`
+ * with dynamic sized rows and 1 column.
  * \laplace_common_template_args
  * @tparam RNG A valid boost rng type
  * @param[in] y Vector Vector of total number of trials with a positive outcome.

stan/math/mix/prob/laplace_latent_neg_binomial_2_log_rng.hpp

@@ -21,6 +21,8 @@ namespace math {
  * parameterization of the Negative Binomial.
  *
  * @tparam Eta A type for the overdispersion parameter.
+ * @tparam ThetaVec A type inheriting from `Eigen::EigenBase`
+ * with dynamic sized rows and 1 column.
  * \laplace_common_template_args
  * @tparam RNG A valid boost rng type
  * @param[in] y Observed counts.

stan/math/mix/prob/laplace_latent_poisson_log_2_rng.hpp

@@ -17,6 +17,8 @@ namespace math {
  *
  * @tparam YeVec A type inheriting from `Eigen::EigenBase` with dynamic
  *  sized rows and 1 column.
+ * @tparam ThetaVec A type inheriting from `Eigen::EigenBase`
+ * with dynamic sized rows and 1 column.
  * \laplace_common_template_args
  * @tparam RNG A valid boost rng type
  * @param[in] y total counts per group. Second sufficient statistics.

stan/math/mix/prob/laplace_latent_poisson_log_rng.hpp

@@ -17,6 +17,8 @@ namespace math {
  * return a sample from the Laplace approximation to p(theta|y,phi).
  * The Laplace approximation is computed using a Newton solver.
  * In this specialized function, the likelihood p(y|theta) is a
+ * @tparam ThetaVec A type inheriting from `Eigen::EigenBase`
+ * with dynamic sized rows and 1 column.
  * \laplace_common_template_args
  * @tparam RNG A valid boost rng type
  * @param[in] y Observed counts.

stan/math/mix/prob/laplace_latent_rng.hpp

@@ -18,6 +18,8 @@ namespace math {
  * where the log likelihood is given by L_f.
  * @tparam LLFunc Type of likelihood function.
  * @tparam LLArgs Type of arguments of likelihood function.
+ * @tparam ThetaVec A type inheriting from `Eigen::EigenBase`
+ * with dynamic sized rows and 1 column.
  * \laplace_common_template_args
  * @tparam RNG A valid boost rng type
  * @param[in] L_f Function that returns log likelihood.

stan/math/mix/prob/laplace_marginal_bernoulli_logit_lpmf.hpp

@@ -37,6 +37,8 @@ struct bernoulli_logit_likelihood {
  * for more details.
  *
  * @tparam propto boolean ignored
+ * @tparam ThetaVec A type inheriting from `Eigen::EigenBase`
+ * with dynamic sized rows and 1 column.
  * \laplace_common_template_args
  * @param[in] y total counts per group. Second sufficient statistics.
  * @param[in] n_samples number of samples per group. First sufficient

stan/math/mix/prob/laplace_marginal_neg_binomial_2_log_lpmf.hpp

@@ -53,6 +53,8 @@ struct neg_binomial_2_log_likelihood {
  * See the laplace_marginal function for more details.
  *
  * @tparam Eta The type of parameter arguments for the likelihood function.
+ * @tparam ThetaVec A type inheriting from `Eigen::EigenBase`
+ * with dynamic sized rows and 1 column.
  * \laplace_common_template_args
  * @param[in] y observed counts.
  * @param[in] y_index group to which each observation belongs. Each group
@@ -136,6 +138,8 @@ struct neg_binomial_2_log_likelihood_summary {
  * See the laplace_marginal function for more details.
  *
  * @tparam Eta The type of parameter arguments for the likelihood function.
+ * @tparam ThetaVec A type inheriting from `Eigen::EigenBase`
+ * with dynamic sized rows and 1 column.
  * \laplace_common_template_args
  * @param[in] y observations.
  * @param[in] n_per_group number of samples per group

stan/math/mix/prob/laplace_marginal_poisson_log_2_lpmf.hpp

@@ -61,6 +61,8 @@ struct poisson_log_2_likelihood {
  * @tparam propto boolean ignored
  * @tparam YeVec A type inheriting from `Eigen::EigenBase` with dynamic
  * sized rows and 1 column.
+ * @tparam ThetaVec A type inheriting from `Eigen::EigenBase`
+ * with dynamic sized rows and 1 column.
  * \laplace_common_template_args
  * @param[in] y total counts per group. Second sufficient statistics.
  * @param[in] y_index group to which each observation belongs.

stan/math/mix/prob/laplace_marginal_poisson_log_lpmf.hpp

@@ -52,6 +52,8 @@ struct poisson_log_likelihood {
  * for more details.
  *
  * @tparam propto ignored
+ * @tparam ThetaVec A type inheriting from `Eigen::EigenBase`
+ * with dynamic sized rows and 1 column.
  * \laplace_common_template_args
  * @param[in] y observed counts
  * @param[in] y_index group to which each observation belongs