Index

Symbols

), [1] 01-01 01-04 01-05 01-06 01-09 01-10 01-13 01-14, [1], [2] 01-15, [1] 01-16 01-19 01-21, [1] 01-22, [1], [2] 01-23 01-24 01-25 01-26, [1] 01-28 01-31 02-01 02-02 02-05, [1] 02-06 02-07 02-08 02-10 02-11 02-12 02-13 02-14 02-20 02-21 02-26 03-01 03-02, [1] 03-04 03-06 03-07 03-08, [1] 03-09, [1] 03-10, [1] 03-11 03-12 03-15 03-18 03-20 03-22, [1] 03-23, [1], [2] 03-25, [1] 03-27 03-28, [1] 03-29 04-01 04-02, [1] 04-03 04-05 04-06, [1], [2] 04-07 04-08 04-09 04-10 04-15 04-16 04-17 04-18 04-19, [1] 04-21 04-23, [1] 04-24 04-27 04-29 05-01 05-03, [1] 05-04 05-06 05-07, [1] 05-08, [1] 05-11, [1] 05-15, [1] 05-17 05-18 05-21 05-26 05-27, [1] 05-28 05-29, [1] 05-30 05-31, [1] 06-02 06-03, [1] 06-04, [1] 06-05, [1] 06-06, [1] 06-07, [1], [2], [3] 06-08 06-09 06-10 06-11 06-12 06-13, [1] 06-14 06-17 06-18

06-19 06-20 06-22 06-24, [1], [2] 06-26 06-29, [1] 06-30, [1] 07-02 07-09, [1] 07-10, [1] 07-12, [1] 07-13, [1] 07-14 07-18 07-19 07-20, [1] 07-23 07-24 07-25, [1] 07-26 07-27, [1] 07-28 07-29, [1] 08-01 08-08 08-09 08-12 08-18 08-20 08-21 08-22 08-24 08-27 08-30, [1] 08-31 08-32 09-01 09-02 09-09 09-12 09-13 09-14 09-15 09-16 09-18 09-19 09-21, [1] 09-23, [1] 09-24 09-25 09-27 09-30, [1], [2], [3] 10-06, [1] 10-07 10-08, [1] 10-09 10-10 10-14 10-15 10-16 10-18 10-21 10-24, [1] 10-25, [1] 10-27, [1] 10-28, [1] 10-29 10-30 10-31 11-02, [1] 11-03 11-04, [1] 11-05 11-07 11-09 11-18 11-19 11-21 11-23 11-30 12-01 12-10, [1] 12-13, [1] 12-14 12-16, [1] 12-18 12-22, [1] 12-24 12-25, [1] 12-28 2015, [1] 2016, [1] 2017, [1] 2018, [1] 2019, [1] 2020, [1] 2020-03-22, [1], [2] 2021, [1] 2022, [1] 2023, [1] 2024, [1] 2025, [1] 2026, [1] |, [1] ||d||

A

a, [1], [2], [3], [4] a*u^(theta) a1_double, [1], [2] a1_sparse_rcv a1_vector a_nnz a_nr a_rcv aborting abs_density.cpp absolute accept_after_max_steps actual_seed, [1] additions after alpha_du, [1]

alpha_pr, [1] also, [1], [2], [3] an, [1] and, [1], [2], [3], [4], [5], [6], [7], [8], [9], [10], [11], [12], [13], [14], [15], [16], [17], [18], [19], [20], [21], [22], [23], [24], [25], [26], [27], [28], [29], [30] api, [1] approximate, [1], [2] approximation, [1], [2], [3], [4] ar1_xam ar1_xam.cpp ar1_xam.sh ar1_xam_ok are, [1] argument arguments, [1] assumption asymptotic auto-regressive

B

b b(beta background base_class begin better

bin/run_cmake.sh: bool_sparsity, [1], [2] bounds brief build_type, [1] by, [1], [2], [3], [4]

C

c, [1] c(theta), [1] c++, [1] c_l c_u called, [1] callgrind, [1] capital, [1] capture capture_xam capture_xam.cpp capture_xam.sh capture_xam_ok case, [1], [2] catcher cause change changes check check_install.sh cholmod_cflags cholmod_libs class class: cmake, [1] cmake_install_prefix

cmake_libdir, [1] code, [1], [2], [3], [4], [5] col column command, [1], [2] compile compiler, [1] compute, [1], [2] condition conditional, [1] configuration constant, [1], [2] constraint, [1], [2], [3], [4], [5] constraints, [1], [2], [3], [4], [5] constraints: constructor, [1] contents, [1], [2], [3] convention cov_factor, [1] covariance, [1], [2], [3], [4] cppad, [1], [2], [3], [4], [5] cppad::mixed cppad_mixed, [1], [2], [3], [4], [5], [6], [7], [8], [9], [10] cppad_mixed.pc cppad_mixed: cppad_mixed_version, [1] create

D

d_norm d_sparse_rcv, [1] d_vector data, [1], [2], [3], [4] data_mismatch.cpp debug declarations, [1] default, [1], [2] defined, [1], [2], [3], [4], [5], [6], [7] demonstrate density, [1], [2], [3] deprecated, [1], [2]

derivative, [1], [2] derivative_test, [1], [2] derivatives derived, [1] derived_ctor derived_ctor.cpp description, [1] destructor discussion distribution download during

E

effects, [1], [2], [3], [4], [5], [6], [7], [8], [9], [10], [11], [12], [13], [14], [15], [16], [17], [18], [19], [20], [21], [22], [23], [24], [25], [26] effects:, [1], [2], [3], [4], [5] eigen, [1] eigen_cflags empty end equations error_msg, [1] errorhandler

evaluation_method example, [1], [2], [3], [4], [5], [6], [7], [8], [9], [10], [11], [12], [13], [14], [15], [16], [17], [18], [19], [20], [21], [22], [23], [24], [25], [26], [27], [28], [29], [30], [31], [32], [33], [34], [35], [36], [37], [38], [39], [40], [41], [42], [43] example_file example_install.sh, [1] example_name example_remove.sh examples, [1], [2] exception exceptions extra_cxx_flags

F

f f(theta factorization false fatal_error features fields final_bytes, [1] first, [1], [2] fix_con_lag fix_constraint, [1] fix_constraint.cpp fix_constraint_lower fix_constraint_upper fix_like_fun.size_var fix_likelihood, [1] fix_likelihood.cpp fixed, [1], [2], [3], [4], [5], [6], [7], [8], [9], [10], [11], [12], [13], [14], [15], [16], [17], [18], [19], [20], [21]

fixed_in fixed_ipopt_options fixed_lag fixed_lower, [1], [2] fixed_opt fixed_scale fixed_solution fixed_upper, [1], [2] fixed_vec, [1], [2], [3], [4], [5], [6], [7] for, [1], [2], [3], [4], [5], [6], [7], [8], [9], [10], [11], [12], [13], [14], [15], [16] for_hes_sparsity format fortran free free_gsl_rng from, [1], [2] function, [1], [2], [3], [4], [5], [6], [7], [8] functions, [1], [2]

G

g g(theta) g_info generator generator:

get get_gsl_rng git gsl, [1], [2] gsl_libs

H

h, [1] h(beta h(theta hes_fixed_obj, [1] hes_fixed_obj.cpp hes_fixed_obj_rcv, [1]

hes_random_obj, [1] hes_random_obj.cpp hes_random_obj_rcv hessian, [1], [2], [3], [4], [5], [6] hessian_approximation hold_memory, [1]

I

i ii in, [1], [2] inf inf_du, [1] inf_pr, [1] information, [1], [2], [3], [4], [5] information_info information_mat, [1] information_mat.cpp information_mat_seconds, [1] information_rcv initialization initialize, [1] initialize_bytes, [1]

initialize_seconds, [1] install, [1] install_unix installation, [1] installed installing integer ipopt, [1], [2], [3], [4] ipopt_fixed ipopt_libs ipopt_options ipopt_solve, [1] ipopt_trace iter, [1] iterations

K

k

L

l l(theta) lambda laplace, [1], [2], [3], [4], [5], [6], [7] lasso lasso.cpp ld_library_path, [1] ldlt ldlt_cholmod, [1], [2] ldlt_rcond lg(mu)

lg(rg) license likelihood, [1], [2], [3], [4], [5], [6], [7] likelihood:, [1] link linking list log-density log-density: lower, [1], [2] ls ls_trials

M

m_i main major, [1] manage manage_gsl_rng, [1], [2], [3] manage_gsl_rng.cpp massif, [1] math_notation mathematical matrix, [1], [2], [3] matrix: max_iter max_population maximum, [1], [2] may mean_logit_probability mean_logit_probability_estimate

mean_logit_probability_ratio mean_logit_probability_std mean_population mean_population_estimate mean_population_ratio mean_population_std memory, [1] method mismatch, [1] mixed, [1], [2], [3], [4], [5] mixed_cppad mixed_derived mixed_object, [1], [2], [3], [4], [5], [6], [7], [8], [9], [10], [11], [12] mm-dd, [1], [2], [3], [4], [5], [6], [7], [8], [9], [10], [11] model, [1], [2], [3], [4], [5], [6], [7], [8] models, [1] mu, [1] multi-threading

N

n_fixed, [1] n_random, [1] namespace, [1], [2], [3], [4] nan's ndebug_defined, [1] negative new_gsl_rng nlp_scaling_method no, [1], [2]

no_random.cpp normal, [1] notation, [1], [2], [3], [4] notes, [1], [2], [3], [4], [5], [6], [7], [8], [9], [10], [11] number, [1], [2] number_fixed_samples number_locations number_random, [1] numeric

O

obj_value objective, [1], [2], [3], [4], [5], [6], [7], [8], [9], [10], [11] objective:, [1] observed, [1], [2] of, [1], [2], [3], [4], [5], [6], [7], [8], [9], [10], [11], [12] on, [1] opt_ran_nan.cpp optimal, [1], [2], [3], [4] optimization, [1] optimization: optimize, [1], [2], [3]

optimize_cppad_function, [1], [2] optimize_fixed, [1], [2], [3] optimize_fixed.cpp optimize_fixed_seconds, [1] optimize_random, [1], [2] optimize_random.cpp optimize_random_seconds, [1] optimizer, [1], [2] options, [1], [2] order, [1], [2], [3], [4], [5] other, [1] output, [1], [2]

P

p p(, [1] p(n_i|theta) p(theta), [1] p(u|theta), [1] p(y_it|n_i p(y_i|theta p(y|theta, [1] p(z|theta), [1] partials paths pattern

pkg-config pkg_config_path, [1] posterior, [1], [2] posterior:, [1] prefix prefixes previous prior, [1] problem, [1], [2] programs, [1] prototype, [1], [2], [3], [4], [5], [6], [7], [8], [9] public, [1], [2], [3] purpose, [1], [2], [3], [4], [5], [6], [7], [8], [9], [10], [11], [12]

Q

q_t(theta

q_t) quasi_fixed, [1], [2], [3]

R

r r(theta) ran_con_lag ran_constraint.cpp ran_like_fun.size_var ran_likelihood, [1] ran_likelihood.cpp random, [1], [2], [3], [4], [5], [6], [7], [8], [9], [10], [11], [12], [13], [14], [15], [16], [17], [18], [19], [20], [21], [22], [23], [24], [25], [26], [27], [28], [29] random_constraint random_in, [1], [2] random_ipopt_options, [1] random_lower, [1], [2] random_opt, [1], [2] random_out random_seed, [1] random_upper, [1], [2] random_vec, [1], [2]

rcond reciprocal reference, [1], [2] regularization_size release, [1], [2], [3], [4], [5], [6], [7], [8], [9], [10], [11], [12] release_notes replace replaced repository requirements, [1] resize restoration returned rng row, [1] run run_cmake.sh, [1] run_test

S

s_in s_out s_vector sample, [1], [2], [3], [4], [5], [6] sample_conditional sample_fixed, [1] sample_fixed.cpp sample_fixed_seconds, [1] sample_random, [1], [2] sample_random.cpp scalar scale_f scale_g scale_x second see, [1], [2] set simulation size_map solution, [1], [2], [3], [4] source, [1], [2], [3], [4], [5], [6], [7]

sparse, [1], [2], [3] sparse_mat_info sparse_rc sparsity special specific specific_compiler speed, [1], [2], [3], [4], [5], [6] start, [1], [2], [3] start_near_solution, [1] starting statistics, [1] std_logit_probability std_logit_probability_estimate std_logit_probability_std std_probability_ratio string subset, [1] suitesparse sum_random_effects syntax, [1], [2], [3], [4], [5], [6], [7], [8], [9], [10], [11], [12], [13], [14], [15], [16], [17], [18], [19], [20], [21], [22], [23], [24], [25], [26] system

T

temporary test, [1], [2], [3], [4], [5], [6], [7], [8], [9], [10], [11], [12], [13], [14], [15], [16], [17], [18], [19], [20], [21] test2run, [1] testing, [1] tests, [1] that, [1] the, [1], [2], [3], [4], [5], [6], [7], [8], [9], [10] theory, [1], [2] theta, [1], [2], [3], [4], [5], [6], [7] theta_0_estimate this thrower

to total trace, [1], [2] trace_init, [1] trace_optimize_fixed, [1] trace_struct trace_vec tracing triangular true typedef types, [1], [2], [3], [4]

U

u, [1], [2], [3], [4] u(beta u), [1], [2], [3], [4], [5], [6], [7], [8], [9] u^(theta), [1], [2] unconstrained

undo uninstall unix user, [1], [2], [3], [4], [5], [6], [7], [8] user_examples using, [1], [2], [3], [4], [5]

V

val value variance vec, [1], [2]

vector, [1] verbose_makefile version versions virtual, [1], [2]

W

w w(beta warm, [1], [2], [3], [4] warm_start, [1] warm_start.cpp

warm_start_struct warning wget windows wish wish_list

X

x

x_info

Y

y, [1] y_t

year years

Z

z, [1]

z_l z_u