math/mlpack: Update 3.2.2 -> 3.3.1

The maintainer refused from the maintainership and asked me to take it.

PR:		246294
Approved by:	robert.ayrapetyan@gmail.com (maintainer)

3 files changed, 128 insertions, 12 deletions

diff --git a/math/mlpack/Makefile b/math/mlpack/Makefile
index 4b99a5e84517..4fa9bab5696a 100644
--- a/math/mlpack/Makefile
+++ b/math/mlpack/Makefile
@@ -1,12 +1,11 @@
 # $FreeBSD$
 
 PORTNAME=	mlpack
-DISTVERSION=	3.2.2
-PORTREVISION=	2
+DISTVERSION=	3.3.1
 CATEGORIES=	math # machine-learning
 MASTER_SITES=	https://mlpack.org/files/
 
-MAINTAINER=	robert.ayrapetyan@gmail.com
+MAINTAINER=	yuri@FreeBSD.org
 COMMENT=	Fast, flexible machine learning library
 
 LICENSE=	BSD3CLAUSE
@@ -22,7 +21,14 @@ USES=		cmake compiler:c++14-lang pkgconfig
 USE_LDCONFIG=	yes
 
 CMAKE_ARGS=	-DSTB_IMAGE_INCLUDE_DIR=${LOCALBASE}/include/stb
-CMAKE_OFF=	BUILD_PYTHON_BINDINGS BUILD_TESTS BUILD_CLI_EXECUTABLES
+CMAKE_OFF=	BUILD_PYTHON_BINDINGS BUILD_TESTS
+
+OPTIONS_DEFINE=		EXECUTABLES
+OPTIONS_DEFAULT=	EXECUTABLES
+OPTIONS_SUB=		yes
+
+EXECUTABLES_DESC=	Build command-line executables
+EXECUTABLES_CMAKE_BOOL=	BUILD_CLI_EXECUTABLES
 
 do-test: # 'clean' target below is a workaround for: https://github.com/mlpack/mlpack/issues/2300
 	@cd ${BUILD_WRKSRC} && \
diff --git a/math/mlpack/distinfo b/math/mlpack/distinfo
index 0e58efc060b0..9e42a7c9cb5e 100644
--- a/math/mlpack/distinfo
+++ b/math/mlpack/distinfo
@@ -1,3 +1,3 @@
-TIMESTAMP = 1584124401
-SHA256 (mlpack-3.2.2.tar.gz) = 7aef8c27645c9358262fec9ebba380720a086789d6519d5d1034346412a52ad6
-SIZE (mlpack-3.2.2.tar.gz) = 5378165
+TIMESTAMP = 1588891112
+SHA256 (mlpack-3.3.1.tar.gz) = 310f95faa93b975c1489344ae4a499eddcd825ef9db76909eb680e1695cd1e36
+SIZE (mlpack-3.3.1.tar.gz) = 5464070
diff --git a/math/mlpack/pkg-plist b/math/mlpack/pkg-plist
index 883daf81c49a..5a6fde165398 100644
--- a/math/mlpack/pkg-plist
+++ b/math/mlpack/pkg-plist
@@ -1,3 +1,50 @@
+%%EXECUTABLES%%bin/mlpack_adaboost
+%%EXECUTABLES%%bin/mlpack_approx_kfn
+%%EXECUTABLES%%bin/mlpack_cf
+%%EXECUTABLES%%bin/mlpack_dbscan
+%%EXECUTABLES%%bin/mlpack_decision_stump
+%%EXECUTABLES%%bin/mlpack_decision_tree
+%%EXECUTABLES%%bin/mlpack_det
+%%EXECUTABLES%%bin/mlpack_emst
+%%EXECUTABLES%%bin/mlpack_fastmks
+%%EXECUTABLES%%bin/mlpack_gmm_generate
+%%EXECUTABLES%%bin/mlpack_gmm_probability
+%%EXECUTABLES%%bin/mlpack_gmm_train
+%%EXECUTABLES%%bin/mlpack_hmm_generate
+%%EXECUTABLES%%bin/mlpack_hmm_loglik
+%%EXECUTABLES%%bin/mlpack_hmm_train
+%%EXECUTABLES%%bin/mlpack_hmm_viterbi
+%%EXECUTABLES%%bin/mlpack_hoeffding_tree
+%%EXECUTABLES%%bin/mlpack_image_converter
+%%EXECUTABLES%%bin/mlpack_kde
+%%EXECUTABLES%%bin/mlpack_kernel_pca
+%%EXECUTABLES%%bin/mlpack_kfn
+%%EXECUTABLES%%bin/mlpack_kmeans
+%%EXECUTABLES%%bin/mlpack_knn
+%%EXECUTABLES%%bin/mlpack_krann
+%%EXECUTABLES%%bin/mlpack_lars
+%%EXECUTABLES%%bin/mlpack_linear_regression
+%%EXECUTABLES%%bin/mlpack_linear_svm
+%%EXECUTABLES%%bin/mlpack_lmnn
+%%EXECUTABLES%%bin/mlpack_local_coordinate_coding
+%%EXECUTABLES%%bin/mlpack_logistic_regression
+%%EXECUTABLES%%bin/mlpack_lsh
+%%EXECUTABLES%%bin/mlpack_mean_shift
+%%EXECUTABLES%%bin/mlpack_nbc
+%%EXECUTABLES%%bin/mlpack_nca
+%%EXECUTABLES%%bin/mlpack_nmf
+%%EXECUTABLES%%bin/mlpack_pca
+%%EXECUTABLES%%bin/mlpack_perceptron
+%%EXECUTABLES%%bin/mlpack_preprocess_binarize
+%%EXECUTABLES%%bin/mlpack_preprocess_describe
+%%EXECUTABLES%%bin/mlpack_preprocess_imputer
+%%EXECUTABLES%%bin/mlpack_preprocess_scale
+%%EXECUTABLES%%bin/mlpack_preprocess_split
+%%EXECUTABLES%%bin/mlpack_radical
+%%EXECUTABLES%%bin/mlpack_random_forest
+%%EXECUTABLES%%bin/mlpack_range_search
+%%EXECUTABLES%%bin/mlpack_softmax_regression
+%%EXECUTABLES%%bin/mlpack_sparse_coding
 include/mlpack/bindings/cli/add_to_po.hpp
 include/mlpack/bindings/cli/cli_option.hpp
 include/mlpack/bindings/cli/default_param.hpp
@@ -15,6 +62,7 @@ include/mlpack/bindings/cli/get_printable_param_value_impl.hpp
 include/mlpack/bindings/cli/get_printable_type.hpp
 include/mlpack/bindings/cli/get_printable_type_impl.hpp
 include/mlpack/bindings/cli/get_raw_param.hpp
+include/mlpack/bindings/cli/in_place_copy.hpp
 include/mlpack/bindings/cli/map_parameter_name.hpp
 include/mlpack/bindings/cli/output_param.hpp
 include/mlpack/bindings/cli/output_param_impl.hpp
@@ -28,6 +76,29 @@ include/mlpack/bindings/cli/print_type_doc_impl.hpp
 include/mlpack/bindings/cli/set_param.hpp
 include/mlpack/bindings/cli/string_type_param.hpp
 include/mlpack/bindings/cli/string_type_param_impl.hpp
+include/mlpack/bindings/julia/default_param.hpp
+include/mlpack/bindings/julia/default_param_impl.hpp
+include/mlpack/bindings/julia/get_julia_type.hpp
+include/mlpack/bindings/julia/get_param.hpp
+include/mlpack/bindings/julia/get_printable_param.hpp
+include/mlpack/bindings/julia/get_printable_type.hpp
+include/mlpack/bindings/julia/get_printable_type_impl.hpp
+include/mlpack/bindings/julia/julia_option.hpp
+include/mlpack/bindings/julia/julia_util.h
+include/mlpack/bindings/julia/print_doc.hpp
+include/mlpack/bindings/julia/print_doc_functions.hpp
+include/mlpack/bindings/julia/print_doc_functions_impl.hpp
+include/mlpack/bindings/julia/print_input_param.hpp
+include/mlpack/bindings/julia/print_input_processing.hpp
+include/mlpack/bindings/julia/print_input_processing_impl.hpp
+include/mlpack/bindings/julia/print_jl.hpp
+include/mlpack/bindings/julia/print_model_type_import.hpp
+include/mlpack/bindings/julia/print_output_processing.hpp
+include/mlpack/bindings/julia/print_output_processing_impl.hpp
+include/mlpack/bindings/julia/print_param_defn.hpp
+include/mlpack/bindings/julia/print_type_doc.hpp
+include/mlpack/bindings/julia/print_type_doc_impl.hpp
+include/mlpack/bindings/julia/strip_type.hpp
 include/mlpack/bindings/markdown/binding_info.hpp
 include/mlpack/bindings/markdown/default_param.hpp
 include/mlpack/bindings/markdown/get_binding_name.hpp
@@ -88,8 +159,8 @@ include/mlpack/core/arma_extend/SpMat_extra_bones.hpp
 include/mlpack/core/arma_extend/SpMat_extra_meat.hpp
 include/mlpack/core/arma_extend/arma_extend.hpp
 include/mlpack/core/boost_backport/bernoulli.hpp
-include/mlpack/core/boost_backport/boost_backport_math.hpp
 include/mlpack/core/boost_backport/boost_backport_serialization.hpp
+include/mlpack/core/boost_backport/boost_backport_string_view.hpp
 include/mlpack/core/boost_backport/collections_load_imp.hpp
 include/mlpack/core/boost_backport/collections_save_imp.hpp
 include/mlpack/core/boost_backport/detail/bernoulli_details.hpp
@@ -97,11 +168,10 @@ include/mlpack/core/boost_backport/detail/polygamma.hpp
 include/mlpack/core/boost_backport/detail/unchecked_bernoulli.hpp
 include/mlpack/core/boost_backport/math_fwd.hpp
 include/mlpack/core/boost_backport/policy.hpp
-include/mlpack/core/boost_backport/polygamma.hpp
-include/mlpack/core/boost_backport/trigamma.hpp
+include/mlpack/core/boost_backport/string_view.hpp
+include/mlpack/core/boost_backport/string_view_fwd.hpp
 include/mlpack/core/boost_backport/unordered_collections_load_imp.hpp
 include/mlpack/core/boost_backport/unordered_collections_save_imp.hpp
-include/mlpack/core/boost_backport/unordered_map.hpp
 include/mlpack/core/boost_backport/vector.hpp
 include/mlpack/core/cv/cv_base.hpp
 include/mlpack/core/cv/cv_base_impl.hpp
@@ -118,6 +188,8 @@ include/mlpack/core/cv/metrics/mse.hpp
 include/mlpack/core/cv/metrics/mse_impl.hpp
 include/mlpack/core/cv/metrics/precision.hpp
 include/mlpack/core/cv/metrics/precision_impl.hpp
+include/mlpack/core/cv/metrics/r2_score.hpp
+include/mlpack/core/cv/metrics/r2_score_impl.hpp
 include/mlpack/core/cv/metrics/recall.hpp
 include/mlpack/core/cv/metrics/recall_impl.hpp
 include/mlpack/core/cv/simple_cv.hpp
@@ -163,6 +235,15 @@ include/mlpack/core/data/scaler_methods/standard_scaler.hpp
 include/mlpack/core/data/scaler_methods/zca_whitening.hpp
 include/mlpack/core/data/serialization_template_version.hpp
 include/mlpack/core/data/split_data.hpp
+include/mlpack/core/data/string_encoding.hpp
+include/mlpack/core/data/string_encoding_dictionary.hpp
+include/mlpack/core/data/string_encoding_impl.hpp
+include/mlpack/core/data/string_encoding_policies/bag_of_words_encoding_policy.hpp
+include/mlpack/core/data/string_encoding_policies/dictionary_encoding_policy.hpp
+include/mlpack/core/data/string_encoding_policies/policy_traits.hpp
+include/mlpack/core/data/string_encoding_policies/tf_idf_encoding_policy.hpp
+include/mlpack/core/data/tokenizers/char_extract.hpp
+include/mlpack/core/data/tokenizers/split_by_any_of.hpp
 include/mlpack/core/dists/diagonal_gaussian_distribution.hpp
 include/mlpack/core/dists/discrete_distribution.hpp
 include/mlpack/core/dists/gamma_distribution.hpp
@@ -355,6 +436,7 @@ include/mlpack/core/util/prefixedoutstream_impl.hpp
 include/mlpack/core/util/program_doc.hpp
 include/mlpack/core/util/sfinae_utility.hpp
 include/mlpack/core/util/timers.hpp
+include/mlpack/core/util/to_lower.hpp
 include/mlpack/core/util/version.hpp
 include/mlpack/methods/adaboost/adaboost.hpp
 include/mlpack/methods/adaboost/adaboost_impl.hpp
@@ -363,6 +445,7 @@ include/mlpack/methods/amf/amf.hpp
 include/mlpack/methods/amf/amf_impl.hpp
 include/mlpack/methods/amf/init_rules/average_init.hpp
 include/mlpack/methods/amf/init_rules/given_init.hpp
+include/mlpack/methods/amf/init_rules/merge_init.hpp
 include/mlpack/methods/amf/init_rules/random_acol_init.hpp
 include/mlpack/methods/amf/init_rules/random_init.hpp
 include/mlpack/methods/amf/termination_policies/complete_incremental_termination.hpp
@@ -377,9 +460,13 @@ include/mlpack/methods/amf/update_rules/nmf_mult_div.hpp
 include/mlpack/methods/amf/update_rules/svd_batch_learning.hpp
 include/mlpack/methods/amf/update_rules/svd_complete_incremental_learning.hpp
 include/mlpack/methods/amf/update_rules/svd_incomplete_incremental_learning.hpp
+include/mlpack/methods/ann/activation_functions/elish_function.hpp
+include/mlpack/methods/ann/activation_functions/gelu_function.hpp
 include/mlpack/methods/ann/activation_functions/hard_sigmoid_function.hpp
 include/mlpack/methods/ann/activation_functions/identity_function.hpp
+include/mlpack/methods/ann/activation_functions/lisht_function.hpp
 include/mlpack/methods/ann/activation_functions/logistic_function.hpp
+include/mlpack/methods/ann/activation_functions/mish_function.hpp
 include/mlpack/methods/ann/activation_functions/rectifier_function.hpp
 include/mlpack/methods/ann/activation_functions/softplus_function.hpp
 include/mlpack/methods/ann/activation_functions/softsign_function.hpp
@@ -437,6 +524,8 @@ include/mlpack/methods/ann/layer/bilinear_interpolation.hpp
 include/mlpack/methods/ann/layer/bilinear_interpolation_impl.hpp
 include/mlpack/methods/ann/layer/c_relu.hpp
 include/mlpack/methods/ann/layer/c_relu_impl.hpp
+include/mlpack/methods/ann/layer/celu.hpp
+include/mlpack/methods/ann/layer/celu_impl.hpp
 include/mlpack/methods/ann/layer/concat.hpp
 include/mlpack/methods/ann/layer/concat_impl.hpp
 include/mlpack/methods/ann/layer/concat_performance.hpp
@@ -463,6 +552,8 @@ include/mlpack/methods/ann/layer/gru.hpp
 include/mlpack/methods/ann/layer/gru_impl.hpp
 include/mlpack/methods/ann/layer/hard_tanh.hpp
 include/mlpack/methods/ann/layer/hard_tanh_impl.hpp
+include/mlpack/methods/ann/layer/hardshrink.hpp
+include/mlpack/methods/ann/layer/hardshrink_impl.hpp
 include/mlpack/methods/ann/layer/highway.hpp
 include/mlpack/methods/ann/layer/highway_impl.hpp
 include/mlpack/methods/ann/layer/join.hpp
@@ -510,6 +601,8 @@ include/mlpack/methods/ann/layer/select.hpp
 include/mlpack/methods/ann/layer/select_impl.hpp
 include/mlpack/methods/ann/layer/sequential.hpp
 include/mlpack/methods/ann/layer/sequential_impl.hpp
+include/mlpack/methods/ann/layer/softshrink.hpp
+include/mlpack/methods/ann/layer/softshrink_impl.hpp
 include/mlpack/methods/ann/layer/subview.hpp
 include/mlpack/methods/ann/layer/transposed_convolution.hpp
 include/mlpack/methods/ann/layer/transposed_convolution_impl.hpp
@@ -520,16 +613,32 @@ include/mlpack/methods/ann/layer/vr_class_reward_impl.hpp
 include/mlpack/methods/ann/layer/weight_norm.hpp
 include/mlpack/methods/ann/layer/weight_norm_impl.hpp
 include/mlpack/methods/ann/layer_names.hpp
+include/mlpack/methods/ann/loss_functions/cosine_embedding_loss.hpp
+include/mlpack/methods/ann/loss_functions/cosine_embedding_loss_impl.hpp
 include/mlpack/methods/ann/loss_functions/cross_entropy_error.hpp
 include/mlpack/methods/ann/loss_functions/cross_entropy_error_impl.hpp
 include/mlpack/methods/ann/loss_functions/dice_loss.hpp
 include/mlpack/methods/ann/loss_functions/dice_loss_impl.hpp
 include/mlpack/methods/ann/loss_functions/earth_mover_distance.hpp
 include/mlpack/methods/ann/loss_functions/earth_mover_distance_impl.hpp
+include/mlpack/methods/ann/loss_functions/hinge_embedding_loss.hpp
+include/mlpack/methods/ann/loss_functions/hinge_embedding_loss_impl.hpp
+include/mlpack/methods/ann/loss_functions/huber_loss.hpp
+include/mlpack/methods/ann/loss_functions/huber_loss_impl.hpp
 include/mlpack/methods/ann/loss_functions/kl_divergence.hpp
 include/mlpack/methods/ann/loss_functions/kl_divergence_impl.hpp
+include/mlpack/methods/ann/loss_functions/l1_loss.hpp
+include/mlpack/methods/ann/loss_functions/l1_loss_impl.hpp
+include/mlpack/methods/ann/loss_functions/log_cosh_loss.hpp
+include/mlpack/methods/ann/loss_functions/log_cosh_loss_impl.hpp
+include/mlpack/methods/ann/loss_functions/margin_ranking_loss.hpp
+include/mlpack/methods/ann/loss_functions/margin_ranking_loss_impl.hpp
+include/mlpack/methods/ann/loss_functions/mean_bias_error.hpp
+include/mlpack/methods/ann/loss_functions/mean_bias_error_impl.hpp
 include/mlpack/methods/ann/loss_functions/mean_squared_error.hpp
 include/mlpack/methods/ann/loss_functions/mean_squared_error_impl.hpp
+include/mlpack/methods/ann/loss_functions/mean_squared_logarithmic_error.hpp
+include/mlpack/methods/ann/loss_functions/mean_squared_logarithmic_error_impl.hpp
 include/mlpack/methods/ann/loss_functions/negative_log_likelihood.hpp
 include/mlpack/methods/ann/loss_functions/negative_log_likelihood_impl.hpp
 include/mlpack/methods/ann/loss_functions/reconstruction_loss.hpp
@@ -845,6 +954,7 @@ include/mlpack/methods/reinforcement_learning/policy/aggregated_policy.hpp
 include/mlpack/methods/reinforcement_learning/policy/greedy_policy.hpp
 include/mlpack/methods/reinforcement_learning/q_learning.hpp
 include/mlpack/methods/reinforcement_learning/q_learning_impl.hpp
+include/mlpack/methods/reinforcement_learning/q_networks/simple_dqn.hpp
 include/mlpack/methods/reinforcement_learning/replay/prioritized_replay.hpp
 include/mlpack/methods/reinforcement_learning/replay/random_replay.hpp
 include/mlpack/methods/reinforcement_learning/replay/sumtree.hpp
@@ -881,5 +991,5 @@ include/mlpack/tests/test_function_tools.hpp
 include/mlpack/tests/test_tools.hpp
 lib/libmlpack.so
 lib/libmlpack.so.3
-lib/libmlpack.so.3.2
+lib/libmlpack.so.3.3
 libdata/pkgconfig/mlpack.pc