Received: by mail.netbsd.org (Postfix, from userid 605) id 784BB84DD9; Sun, 10 Mar 2019 02:33:07 +0000 (UTC) Received: from localhost (localhost [127.0.0.1]) by mail.netbsd.org (Postfix) with ESMTP id F06B884D85 for ; Sun, 10 Mar 2019 02:33:06 +0000 (UTC) X-Virus-Scanned: amavisd-new at netbsd.org Received: from mail.netbsd.org ([127.0.0.1]) by localhost (mail.netbsd.org [127.0.0.1]) (amavisd-new, port 10025) with ESMTP id QqOkAC1eokIr for ; Sun, 10 Mar 2019 02:33:05 +0000 (UTC) Received: from cvs.NetBSD.org (ivanova.netbsd.org [199.233.217.197]) by mail.netbsd.org (Postfix) with ESMTP id 883DC84D26 for ; Sun, 10 Mar 2019 02:33:05 +0000 (UTC) Received: by cvs.NetBSD.org (Postfix, from userid 500) id 83BE0FB16; Sun, 10 Mar 2019 02:33:05 +0000 (UTC) Content-Transfer-Encoding: 7bit Content-Type: multipart/mixed; boundary="_----------=_1552185185276180" MIME-Version: 1.0 Date: Sun, 10 Mar 2019 02:33:05 +0000 From: "Wen Heping" Subject: CVS commit: pkgsrc/math/stan-math To: pkgsrc-changes@NetBSD.org Reply-To: wen@netbsd.org X-Mailer: log_accum Message-Id: <20190310023305.83BE0FB16@cvs.NetBSD.org> Sender: pkgsrc-changes-owner@NetBSD.org List-Id: pkgsrc-changes.NetBSD.org Precedence: bulk List-Unsubscribe: This is a multi-part message in MIME format. --_----------=_1552185185276180 Content-Disposition: inline Content-Transfer-Encoding: 8bit Content-Type: text/plain; charset="US-ASCII" Module Name: pkgsrc Committed By: wen Date: Sun Mar 10 02:33:05 UTC 2019 Modified Files: pkgsrc/math/stan-math: Makefile PLIST distinfo Log Message: Update to 2.18.1 Upstream changes: v.2.18.1 (24 December 2018) ====================================================================== Bugfix release - major bug in threading where certain thread count and job size combinations could result in incorrect output. See https://discourse.mc-stan.org/t/bug-in-map-rect-with-threading-in-stan-2-18-0/7056 for more details. Bug Fixes -------------------------------------------------- * Fix threading batch size bug (#1075) v.2.18.0 (13 July 2018) ====================================================================== This is our first release with parallelism (through C++11 threads or MPI)! New Features -------------------------------------------------- * Support for MPI parallelization with map_rect * Support for threaded AD and a threaded map_rect implementation (#809) * New periodic covariance function (#921) * Integrated Boost's 1 dimensional integrator (#913) * Added thin QR decomposition (#900) * New `add_diag` function for adding a real or vector to the diagonal of a matrix (#871) * New `log_inv_logit_diff` function for the log of the difference of two inverse logits (#856) * New dot product kernel for GPs (#834) * Vectorized many more RNGs (#833, #722, #622) * Add `matrix_exp_action` to calculate `exp(At)*B` (#830) * `log_mix` vectorized (#751, #664) * New integrators from CVODES (`integrate_ode_adams`, `_bdf`) (#735) * New `std_normal` (#609) * New `std_normal_log` (#728) * New GLM primitive `normal_id_glm` (#665) * New `chol2inv` that computes a matrix's inverse from its Cholesky factor (#649) * New `poisson_log_glm` poisson regression with log link (#647) * New vectorized `ordered_probit` (#645) * New `log_modified_bessel_first_kind` that expands where Bessel 1 function can be used (#640) * New bernoulli logit GLM (#608) Bug Fixes -------------------------------------------------- * Rising and falling factorial were not accepting negative arguments (#636) * Fix normalizing constant for LKJ distribution (#628) Other -------------------------------------------------- * Tweaks to `effective_sample_size` for performance and upstream compatibility (#865) * Switch to sundials package combining CVODES and IDAS, updating versions (#779, #744) * Now publishing the Math doxygen (http://mc-stan.org/math/) * Faster `dirichlet_lpdf` accepting more vector types (#788) * Upgrade to Boost 1.66 (#766) * Improved derivatives for Gamma CDF (#780) * Sped up `multi_normal_cholesky` (#753) * More efficient `mdivide_right_tri` (#715) * More efficient `integrate_ode_rk45_grad_test` (#714) * Make algebraic solver easier to use (#703, #697) * Begin thinking about internal compatibility for complex numbers (#643) * Faster `pow` (#642) To generate a diff of this commit: cvs rdiff -u -r1.1 -r1.2 pkgsrc/math/stan-math/Makefile \ pkgsrc/math/stan-math/PLIST pkgsrc/math/stan-math/distinfo Please note that diffs are not public domain; they are subject to the copyright notices on the relevant files. --_----------=_1552185185276180 Content-Disposition: inline Content-Length: 17359 Content-Transfer-Encoding: binary Content-Type: text/x-diff; charset=us-ascii Modified files: Index: pkgsrc/math/stan-math/Makefile diff -u pkgsrc/math/stan-math/Makefile:1.1 pkgsrc/math/stan-math/Makefile:1.2 --- pkgsrc/math/stan-math/Makefile:1.1 Fri Jul 27 06:49:25 2018 +++ pkgsrc/math/stan-math/Makefile Sun Mar 10 02:33:05 2019 @@ -1,6 +1,6 @@ -# $NetBSD: Makefile,v 1.1 2018/07/27 06:49:25 minskim Exp $ +# $NetBSD: Makefile,v 1.2 2019/03/10 02:33:05 wen Exp $ -DISTNAME= stan-math-2.17.1 +DISTNAME= stan-math-2.18.1 CATEGORIES= math MASTER_SITES= ${MASTER_SITE_GITHUB:=stan-dev/} GITHUB_PROJECT= math @@ -13,7 +13,7 @@ LICENSE= modified-bsd DEPENDS+= boost-headers>=1.66.0:../../devel/boost-headers DEPENDS+= eigen3>=3.3.3:../../math/eigen3 -DEPENDS+= sundials>=3.1.1:../../math/sundials +DEPENDS+= sundials>=4.1.0:../../math/sundials NO_CONFIGURE= yes NO_BUILD= yes Index: pkgsrc/math/stan-math/PLIST diff -u pkgsrc/math/stan-math/PLIST:1.1 pkgsrc/math/stan-math/PLIST:1.2 --- pkgsrc/math/stan-math/PLIST:1.1 Fri Jul 27 06:49:25 2018 +++ pkgsrc/math/stan-math/PLIST Sun Mar 10 02:33:05 2019 @@ -1,4 +1,4 @@ -@comment $NetBSD: PLIST,v 1.1 2018/07/27 06:49:25 minskim Exp $ +@comment $NetBSD: PLIST,v 1.2 2019/03/10 02:33:05 wen Exp $ include/stan/math.hpp include/stan/math/fwd/arr.hpp include/stan/math/fwd/arr/fun/log_sum_exp.hpp @@ -121,6 +121,7 @@ include/stan/math/fwd/scal/fun/log2.hpp include/stan/math/fwd/scal/fun/log_diff_exp.hpp include/stan/math/fwd/scal/fun/log_falling_factorial.hpp include/stan/math/fwd/scal/fun/log_inv_logit.hpp +include/stan/math/fwd/scal/fun/log_inv_logit_diff.hpp include/stan/math/fwd/scal/fun/log_mix.hpp include/stan/math/fwd/scal/fun/log_rising_factorial.hpp include/stan/math/fwd/scal/fun/log_sum_exp.hpp @@ -149,6 +150,17 @@ include/stan/math/fwd/scal/meta/ad_promo include/stan/math/fwd/scal/meta/is_fvar.hpp include/stan/math/fwd/scal/meta/operands_and_partials.hpp include/stan/math/fwd/scal/meta/partials_type.hpp +include/stan/math/gpu/err/check_diagonal_zeros.hpp +include/stan/math/gpu/err/check_matching_dims.hpp +include/stan/math/gpu/err/check_nan.hpp +include/stan/math/gpu/err/check_square.hpp +include/stan/math/gpu/err/check_symmetric.hpp +include/stan/math/gpu/kernels/check_diagonal_zeros_kernel.cl +include/stan/math/gpu/kernels/check_nan_kernel.cl +include/stan/math/gpu/kernels/check_symmetric_kernel.cl +include/stan/math/gpu/kernels/copy_matrix_kernel.cl +include/stan/math/gpu/matrix_gpu.hpp +include/stan/math/gpu/opencl_context.hpp include/stan/math/memory/stack_alloc.hpp include/stan/math/mix/arr.hpp include/stan/math/mix/mat.hpp @@ -165,6 +177,7 @@ include/stan/math/mix/scal.hpp include/stan/math/prim/arr.hpp include/stan/math/prim/arr/err/check_matching_sizes.hpp include/stan/math/prim/arr/err/check_nonzero_size.hpp +include/stan/math/prim/arr/err/check_opencl.hpp include/stan/math/prim/arr/err/check_ordered.hpp include/stan/math/prim/arr/fun/array_builder.hpp include/stan/math/prim/arr/fun/common_type.hpp @@ -186,11 +199,18 @@ include/stan/math/prim/arr/fun/value_of. include/stan/math/prim/arr/fun/value_of_rec.hpp include/stan/math/prim/arr/functor/coupled_ode_observer.hpp include/stan/math/prim/arr/functor/coupled_ode_system.hpp +include/stan/math/prim/arr/functor/integrate_1d.hpp include/stan/math/prim/arr/functor/integrate_ode_rk45.hpp +include/stan/math/prim/arr/functor/mpi_cluster.hpp +include/stan/math/prim/arr/functor/mpi_cluster_inst.cpp +include/stan/math/prim/arr/functor/mpi_command.hpp +include/stan/math/prim/arr/functor/mpi_distributed_apply.hpp include/stan/math/prim/arr/meta/VectorBuilderHelper.hpp +include/stan/math/prim/arr/meta/contains_std_vector.hpp include/stan/math/prim/arr/meta/get.hpp include/stan/math/prim/arr/meta/index_type.hpp include/stan/math/prim/arr/meta/is_constant_struct.hpp +include/stan/math/prim/arr/meta/is_std_vector.hpp include/stan/math/prim/arr/meta/is_vector.hpp include/stan/math/prim/arr/meta/length.hpp include/stan/math/prim/arr/meta/scalar_type.hpp @@ -229,6 +249,7 @@ include/stan/math/prim/mat/fun/accumulat include/stan/math/prim/mat/fun/acos.hpp include/stan/math/prim/mat/fun/acosh.hpp include/stan/math/prim/mat/fun/add.hpp +include/stan/math/prim/mat/fun/add_diag.hpp include/stan/math/prim/mat/fun/append_array.hpp include/stan/math/prim/mat/fun/append_col.hpp include/stan/math/prim/mat/fun/append_row.hpp @@ -242,6 +263,7 @@ include/stan/math/prim/mat/fun/autocovar include/stan/math/prim/mat/fun/block.hpp include/stan/math/prim/mat/fun/cbrt.hpp include/stan/math/prim/mat/fun/ceil.hpp +include/stan/math/prim/mat/fun/chol2inv.hpp include/stan/math/prim/mat/fun/cholesky_corr_constrain.hpp include/stan/math/prim/mat/fun/cholesky_corr_free.hpp include/stan/math/prim/mat/fun/cholesky_decompose.hpp @@ -297,6 +319,8 @@ include/stan/math/prim/mat/fun/floor.hpp include/stan/math/prim/mat/fun/get_base1.hpp include/stan/math/prim/mat/fun/get_base1_lhs.hpp include/stan/math/prim/mat/fun/get_lp.hpp +include/stan/math/prim/mat/fun/gp_dot_prod_cov.hpp +include/stan/math/prim/mat/fun/gp_periodic_cov.hpp include/stan/math/prim/mat/fun/head.hpp include/stan/math/prim/mat/fun/initialize.hpp include/stan/math/prim/mat/fun/inv.hpp @@ -320,12 +344,15 @@ include/stan/math/prim/mat/fun/log_deter include/stan/math/prim/mat/fun/log_determinant_ldlt.hpp include/stan/math/prim/mat/fun/log_determinant_spd.hpp include/stan/math/prim/mat/fun/log_inv_logit.hpp +include/stan/math/prim/mat/fun/log_mix.hpp include/stan/math/prim/mat/fun/log_softmax.hpp include/stan/math/prim/mat/fun/log_sum_exp.hpp include/stan/math/prim/mat/fun/logit.hpp include/stan/math/prim/mat/fun/make_nu.hpp include/stan/math/prim/mat/fun/matrix_exp.hpp include/stan/math/prim/mat/fun/matrix_exp_2x2.hpp +include/stan/math/prim/mat/fun/matrix_exp_action_handler.hpp +include/stan/math/prim/mat/fun/matrix_exp_multiply.hpp include/stan/math/prim/mat/fun/matrix_exp_pade.hpp include/stan/math/prim/mat/fun/max.hpp include/stan/math/prim/mat/fun/mdivide_left.hpp @@ -344,6 +371,7 @@ include/stan/math/prim/mat/fun/minus.hpp include/stan/math/prim/mat/fun/multiply.hpp include/stan/math/prim/mat/fun/multiply_lower_tri_self_transpose.hpp include/stan/math/prim/mat/fun/num_elements.hpp +include/stan/math/prim/mat/fun/opencl_copy.hpp include/stan/math/prim/mat/fun/ordered_constrain.hpp include/stan/math/prim/mat/fun/ordered_free.hpp include/stan/math/prim/mat/fun/positive_ordered_constrain.hpp @@ -355,6 +383,8 @@ include/stan/math/prim/mat/fun/promote_s include/stan/math/prim/mat/fun/promote_scalar_type.hpp include/stan/math/prim/mat/fun/qr_Q.hpp include/stan/math/prim/mat/fun/qr_R.hpp +include/stan/math/prim/mat/fun/qr_thin_Q.hpp +include/stan/math/prim/mat/fun/qr_thin_R.hpp include/stan/math/prim/mat/fun/quad_form.hpp include/stan/math/prim/mat/fun/quad_form_diag.hpp include/stan/math/prim/mat/fun/quad_form_sym.hpp @@ -372,6 +402,7 @@ include/stan/math/prim/mat/fun/row.hpp include/stan/math/prim/mat/fun/rows.hpp include/stan/math/prim/mat/fun/rows_dot_product.hpp include/stan/math/prim/mat/fun/rows_dot_self.hpp +include/stan/math/prim/mat/fun/scale_matrix_exp_multiply.hpp include/stan/math/prim/mat/fun/sd.hpp include/stan/math/prim/mat/fun/segment.hpp include/stan/math/prim/mat/fun/simplex_constrain.hpp @@ -422,7 +453,14 @@ include/stan/math/prim/mat/fun/welford_c include/stan/math/prim/mat/fun/welford_var_estimator.hpp include/stan/math/prim/mat/functor/finite_diff_gradient.hpp include/stan/math/prim/mat/functor/finite_diff_hessian.hpp +include/stan/math/prim/mat/functor/map_rect.hpp +include/stan/math/prim/mat/functor/map_rect_combine.hpp +include/stan/math/prim/mat/functor/map_rect_concurrent.hpp +include/stan/math/prim/mat/functor/map_rect_mpi.hpp +include/stan/math/prim/mat/functor/map_rect_reduce.hpp +include/stan/math/prim/mat/functor/mpi_parallel_call.hpp include/stan/math/prim/mat/meta/append_return_type.hpp +include/stan/math/prim/mat/meta/broadcast_array.hpp include/stan/math/prim/mat/meta/get.hpp include/stan/math/prim/mat/meta/index_type.hpp include/stan/math/prim/mat/meta/is_constant_struct.hpp @@ -430,10 +468,12 @@ include/stan/math/prim/mat/meta/is_vecto include/stan/math/prim/mat/meta/is_vector_like.hpp include/stan/math/prim/mat/meta/length.hpp include/stan/math/prim/mat/meta/length_mvt.hpp +include/stan/math/prim/mat/meta/operands_and_partials.hpp include/stan/math/prim/mat/meta/scalar_type.hpp include/stan/math/prim/mat/meta/seq_view.hpp include/stan/math/prim/mat/meta/value_type.hpp include/stan/math/prim/mat/meta/vector_seq_view.hpp +include/stan/math/prim/mat/prob/bernoulli_logit_glm_lpmf.hpp include/stan/math/prim/mat/prob/categorical_log.hpp include/stan/math/prim/mat/prob/categorical_logit_log.hpp include/stan/math/prim/mat/prob/categorical_logit_lpmf.hpp @@ -476,9 +516,15 @@ include/stan/math/prim/mat/prob/multi_st include/stan/math/prim/mat/prob/multinomial_log.hpp include/stan/math/prim/mat/prob/multinomial_lpmf.hpp include/stan/math/prim/mat/prob/multinomial_rng.hpp +include/stan/math/prim/mat/prob/neg_binomial_2_log_glm_lpmf.hpp +include/stan/math/prim/mat/prob/normal_id_glm_lpdf.hpp include/stan/math/prim/mat/prob/ordered_logistic_log.hpp include/stan/math/prim/mat/prob/ordered_logistic_lpmf.hpp include/stan/math/prim/mat/prob/ordered_logistic_rng.hpp +include/stan/math/prim/mat/prob/ordered_probit_log.hpp +include/stan/math/prim/mat/prob/ordered_probit_lpmf.hpp +include/stan/math/prim/mat/prob/ordered_probit_rng.hpp +include/stan/math/prim/mat/prob/poisson_log_glm_lpmf.hpp include/stan/math/prim/mat/prob/wishart_log.hpp include/stan/math/prim/mat/prob/wishart_lpdf.hpp include/stan/math/prim/mat/prob/wishart_rng.hpp @@ -505,6 +551,7 @@ include/stan/math/prim/scal/err/domain_e include/stan/math/prim/scal/err/invalid_argument.hpp include/stan/math/prim/scal/err/invalid_argument_vec.hpp include/stan/math/prim/scal/err/out_of_range.hpp +include/stan/math/prim/scal/err/system_error.hpp include/stan/math/prim/scal/fun/F32.hpp include/stan/math/prim/scal/fun/Phi.hpp include/stan/math/prim/scal/fun/Phi_approx.hpp @@ -525,6 +572,7 @@ include/stan/math/prim/scal/fun/constant include/stan/math/prim/scal/fun/corr_constrain.hpp include/stan/math/prim/scal/fun/corr_free.hpp include/stan/math/prim/scal/fun/digamma.hpp +include/stan/math/prim/scal/fun/distance.hpp include/stan/math/prim/scal/fun/divide.hpp include/stan/math/prim/scal/fun/erf.hpp include/stan/math/prim/scal/fun/erfc.hpp @@ -544,6 +592,7 @@ include/stan/math/prim/scal/fun/grad_F32 include/stan/math/prim/scal/fun/grad_inc_beta.hpp include/stan/math/prim/scal/fun/grad_reg_inc_beta.hpp include/stan/math/prim/scal/fun/grad_reg_inc_gamma.hpp +include/stan/math/prim/scal/fun/grad_reg_lower_inc_gamma.hpp include/stan/math/prim/scal/fun/hypot.hpp include/stan/math/prim/scal/fun/ibeta.hpp include/stan/math/prim/scal/fun/identity_constrain.hpp @@ -581,7 +630,9 @@ include/stan/math/prim/scal/fun/log2.hpp include/stan/math/prim/scal/fun/log_diff_exp.hpp include/stan/math/prim/scal/fun/log_falling_factorial.hpp include/stan/math/prim/scal/fun/log_inv_logit.hpp +include/stan/math/prim/scal/fun/log_inv_logit_diff.hpp include/stan/math/prim/scal/fun/log_mix.hpp +include/stan/math/prim/scal/fun/log_modified_bessel_first_kind.hpp include/stan/math/prim/scal/fun/log_rising_factorial.hpp include/stan/math/prim/scal/fun/log_sum_exp.hpp include/stan/math/prim/scal/fun/logical_and.hpp @@ -612,6 +663,7 @@ include/stan/math/prim/scal/fun/promote_ include/stan/math/prim/scal/fun/rising_factorial.hpp include/stan/math/prim/scal/fun/round.hpp include/stan/math/prim/scal/fun/sign.hpp +include/stan/math/prim/scal/fun/size_zero.hpp include/stan/math/prim/scal/fun/square.hpp include/stan/math/prim/scal/fun/squared_distance.hpp include/stan/math/prim/scal/fun/step.hpp @@ -622,6 +674,7 @@ include/stan/math/prim/scal/fun/ub_const include/stan/math/prim/scal/fun/ub_free.hpp include/stan/math/prim/scal/fun/value_of.hpp include/stan/math/prim/scal/fun/value_of_rec.hpp +include/stan/math/prim/scal/meta/StdVectorBuilder.hpp include/stan/math/prim/scal/meta/VectorBuilder.hpp include/stan/math/prim/scal/meta/VectorBuilderHelper.hpp include/stan/math/prim/scal/meta/ad_promotable.hpp @@ -637,6 +690,7 @@ include/stan/math/prim/scal/meta/index_t include/stan/math/prim/scal/meta/is_constant.hpp include/stan/math/prim/scal/meta/is_constant_struct.hpp include/stan/math/prim/scal/meta/is_fvar.hpp +include/stan/math/prim/scal/meta/is_std_vector.hpp include/stan/math/prim/scal/meta/is_var.hpp include/stan/math/prim/scal/meta/is_var_or_arithmetic.hpp include/stan/math/prim/scal/meta/is_vector.hpp @@ -872,6 +926,8 @@ include/stan/math/prim/scal/prob/skew_no include/stan/math/prim/scal/prob/skew_normal_log.hpp include/stan/math/prim/scal/prob/skew_normal_lpdf.hpp include/stan/math/prim/scal/prob/skew_normal_rng.hpp +include/stan/math/prim/scal/prob/std_normal_log.hpp +include/stan/math/prim/scal/prob/std_normal_lpdf.hpp include/stan/math/prim/scal/prob/student_t_ccdf_log.hpp include/stan/math/prim/scal/prob/student_t_cdf.hpp include/stan/math/prim/scal/prob/student_t_cdf_log.hpp @@ -902,11 +958,11 @@ include/stan/math/prim/scal/prob/weibull include/stan/math/prim/scal/prob/wiener_log.hpp include/stan/math/prim/scal/prob/wiener_lpdf.hpp include/stan/math/rev/arr.hpp -include/stan/math/rev/arr/fun/decouple_ode_states.hpp include/stan/math/rev/arr/fun/log_sum_exp.hpp include/stan/math/rev/arr/fun/sum.hpp include/stan/math/rev/arr/fun/to_var.hpp include/stan/math/rev/arr/functor/coupled_ode_system.hpp +include/stan/math/rev/arr/functor/integrate_1d.hpp include/stan/math/rev/core.hpp include/stan/math/rev/core/autodiffstackstorage.hpp include/stan/math/rev/core/chainable_alloc.hpp @@ -978,6 +1034,7 @@ include/stan/math/rev/mat/fun/determinan include/stan/math/rev/mat/fun/divide.hpp include/stan/math/rev/mat/fun/dot_product.hpp include/stan/math/rev/mat/fun/dot_self.hpp +include/stan/math/rev/mat/fun/gp_periodic_cov.hpp include/stan/math/rev/mat/fun/grad.hpp include/stan/math/rev/mat/fun/initialize_variable.hpp include/stan/math/rev/mat/fun/log_determinant.hpp @@ -985,6 +1042,7 @@ include/stan/math/rev/mat/fun/log_determ include/stan/math/rev/mat/fun/log_determinant_spd.hpp include/stan/math/rev/mat/fun/log_softmax.hpp include/stan/math/rev/mat/fun/log_sum_exp.hpp +include/stan/math/rev/mat/fun/matrix_exp_multiply.hpp include/stan/math/rev/mat/fun/mdivide_left.hpp include/stan/math/rev/mat/fun/mdivide_left_ldlt.hpp include/stan/math/rev/mat/fun/mdivide_left_spd.hpp @@ -994,6 +1052,7 @@ include/stan/math/rev/mat/fun/multiply_l include/stan/math/rev/mat/fun/quad_form.hpp include/stan/math/rev/mat/fun/quad_form_sym.hpp include/stan/math/rev/mat/fun/rows_dot_product.hpp +include/stan/math/rev/mat/fun/scale_matrix_exp_multiply.hpp include/stan/math/rev/mat/fun/sd.hpp include/stan/math/rev/mat/fun/softmax.hpp include/stan/math/rev/mat/fun/squared_distance.hpp @@ -1010,12 +1069,14 @@ include/stan/math/rev/mat/fun/unit_vecto include/stan/math/rev/mat/fun/variance.hpp include/stan/math/rev/mat/functor/algebra_solver.hpp include/stan/math/rev/mat/functor/algebra_system.hpp +include/stan/math/rev/mat/functor/cvodes_integrator.hpp include/stan/math/rev/mat/functor/cvodes_ode_data.hpp include/stan/math/rev/mat/functor/cvodes_utils.hpp include/stan/math/rev/mat/functor/gradient.hpp +include/stan/math/rev/mat/functor/integrate_ode_adams.hpp include/stan/math/rev/mat/functor/integrate_ode_bdf.hpp include/stan/math/rev/mat/functor/jacobian.hpp -include/stan/math/rev/mat/functor/ode_system.hpp +include/stan/math/rev/mat/functor/map_rect_reduce.hpp include/stan/math/rev/mat/meta/operands_and_partials.hpp include/stan/math/rev/mat/vectorize/apply_scalar_unary.hpp include/stan/math/rev/scal.hpp @@ -1086,6 +1147,7 @@ include/stan/math/rev/scal/fun/log2.hpp include/stan/math/rev/scal/fun/log_diff_exp.hpp include/stan/math/rev/scal/fun/log_falling_factorial.hpp include/stan/math/rev/scal/fun/log_inv_logit.hpp +include/stan/math/rev/scal/fun/log_inv_logit_diff.hpp include/stan/math/rev/scal/fun/log_mix.hpp include/stan/math/rev/scal/fun/log_rising_factorial.hpp include/stan/math/rev/scal/fun/log_sum_exp.hpp Index: pkgsrc/math/stan-math/distinfo diff -u pkgsrc/math/stan-math/distinfo:1.1 pkgsrc/math/stan-math/distinfo:1.2 --- pkgsrc/math/stan-math/distinfo:1.1 Fri Jul 27 06:49:25 2018 +++ pkgsrc/math/stan-math/distinfo Sun Mar 10 02:33:05 2019 @@ -1,6 +1,6 @@ -$NetBSD: distinfo,v 1.1 2018/07/27 06:49:25 minskim Exp $ +$NetBSD: distinfo,v 1.2 2019/03/10 02:33:05 wen Exp $ -SHA1 (stan-math-2.17.1.tar.gz) = d63388b0f80a18b75d9b570311e214132a580b66 -RMD160 (stan-math-2.17.1.tar.gz) = 930b16174d0625b9cf5042f7082847276b9c5d36 -SHA512 (stan-math-2.17.1.tar.gz) = fd6ca38e2c28db7effeaf15bb93381a9b78c85529a751fca25d1271b2dd72a8843f7b02132305f2b36c7f566832c2b3723c565a2400509dc10c5b88733981bfb -Size (stan-math-2.17.1.tar.gz) = 13828407 bytes +SHA1 (stan-math-2.18.1.tar.gz) = 75048a0480a07f7aad2acb449250295479792698 +RMD160 (stan-math-2.18.1.tar.gz) = 0bacbb412127195d7448c9c5ad595e70c8ea1c26 +SHA512 (stan-math-2.18.1.tar.gz) = bb6e809d1ec8b176235158b4856af17e489d26eb443e647db2b8e89a2671d5f23c91335b513b6ae83717c5f5a96e666e65fa1c0d888fe02e051d126399df7125 +Size (stan-math-2.18.1.tar.gz) = 17531114 bytes --_----------=_1552185185276180--