* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘epidist’ ...
** this is package ‘epidist’ version ‘1.0.0’
** package ‘epidist’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘epidist’
finding HTML links ... done
add_summaries html
as_dist_spec.epidist_fit html
as_epidist_aggregate_data html
as_epidist_aggregate_data.data.frame html
as_epidist_aggregate_data.default html
as_epidist_aggregate_data.epidist_linelist_data
html
as_epidist_estimates_data html
as_epidist_estimates_data.data.frame html
as_epidist_estimates_data.epidist_estimates_data
html
as_epidist_estimates_data.epidist_multivariate
html
as_epidist_estimates_data.list html
as_epidist_latent_model html
as_epidist_latent_model.epidist_aggregate_data
html
as_epidist_latent_model.epidist_linelist_data
html
as_epidist_linelist_data html
as_epidist_linelist_data.data.frame html
as_epidist_linelist_data.default html
as_epidist_linelist_data.epidist_aggregate_data
html
as_epidist_marginal_model html
as_epidist_marginal_model.epidist_aggregate_data
html
as_epidist_marginal_model.epidist_linelist_data
html
as_epidist_meta_model.NULL html
as_epidist_meta_model html
as_epidist_meta_model.epidist_aggregate_data
html
as_epidist_meta_model.epidist_estimates_data
html
as_epidist_meta_model.epidist_linelist_data
html
as_epidist_multivariate html
as_epidist_multivariate.data.frame html
as_epidist_multivariate.matrix html
as_epidist_naive_model html
as_epidist_naive_model.epidist_aggregate_data
html
as_epidist_naive_model.epidist_linelist_data
html
assert_epidist html
assert_epidist.epidist_aggregate_data html
assert_epidist.epidist_estimates_data html
assert_epidist.epidist_linelist_data html
assert_epidist.epidist_meta_model html
assert_epidist.epidist_multivariate html
delay_parameter_draws html
delay_summary_draws html
dot-add_default_max_delay html
dot-add_delay_min html
dot-add_dpar_info html
dot-add_primary_dpars html
dot-add_weights html
dot-analytic_delay_summaries html
dot-analytic_family html
dot-analytic_summaries html
dot-assert_dpars html
dot-assert_estimates_parameters html
dot-assert_estimates_vcov html
dot-assert_meta_fit html
dot-assert_meta_groups html
dot-assert_multivariate_definite html
dot-assert_no_meta_primary html
dot-assert_supported_family html
dot-assert_ungrouped html
dot-assert_window html
dot-bin_delays html
dot-brms_delay_families html
dot-brms_family_dist html
dot-brms_family_fn html
dot-brms_family_log_lik html
dot-brms_family_posterior_epred html
dot-brms_family_posterior_predict html
dot-build_newdata html
dot-capture_compile_env html
dot-check_epidist_class html
dot-check_ggplot2 html
dot-check_model_prior html
dot-check_model_prior.epidist_latent_model
html
dot-delay_bins_with_mass html
dot-delay_column_plot html
dot-delay_density_grid html
dot-delay_family html
dot-delay_min_of html
dot-delay_plot_labs html
dot-delay_predictive_layers html
dot-delay_reference_layer html
dot-delay_strata html
dot-describe_prior html
dot-dist_fn html
dot-dist_spec_family html
dot-dist_spec_from_draws html
dot-dpar_bounds html
dot-dpar_draws html
dot-draw_chain_iteration html
dot-draw_strata html
dot-drop_delay_draws_class html
dot-drop_epidist_class html
dot-drop_study html
dot-epidist_classes html
dot-epidist_colour_scale html
dot-epidist_families html
dot-epidist_palette html
dot-epidist_plot_theme html
dot-epireview_column html
dot-epireview_default html
dot-epireview_family html
dot-epireview_metadata html
dot-epireview_metadata_cols html
dot-epireview_parameter_name html
dot-epireview_parameters html
dot-epireview_report_dropped html
dot-epireview_report_gaps html
dot-epireview_row html
dot-epireview_rows html
dot-epireview_sd html
dot-epireview_shared_metadata html
dot-escape_braces html
dot-estimates_advise html
dot-estimates_bind html
dot-estimates_checks_pointer html
dot-estimates_coarse_quadrature html
dot-estimates_coarse_quantiles html
dot-estimates_coarse_rows html
dot-estimates_default_values html
dot-estimates_delta_jacobian html
dot-estimates_from_summaries html
dot-estimates_grid_cutoff html
dot-estimates_growth_estimated html
dot-estimates_growth_tilted html
dot-estimates_heavy_tail_rows html
dot-estimates_heavy_tail_sd html
dot-estimates_lnorm_match html
dot-estimates_moments html
dot-estimates_multivariate_types html
dot-estimates_mvn_summarise html
dot-estimates_n_quad html
dot-estimates_parameter_dist html
dot-estimates_parameter_positive html
dot-estimates_parameter_sets html
dot-estimates_parameter_summary html
dot-estimates_quantile_limit html
dot-estimates_reported_support html
dot-estimates_row_labels html
dot-estimates_set_vcov html
dot-estimates_short_cutoff html
dot-estimates_spread html
dot-estimates_vcov html
dot-estimates_vcov_rows html
dot-estimates_window_unit html
dot-expand_dot_formula html
dot-extract_dpar_terms html
dot-family_functions_stanvar html
dot-family_name html
dot-family_stanvars html
dot-fill_estimates_defaults html
dot-fill_other_links html
dot-fit_family_name html
dot-fit_newdata html
dot-fitted_delays html
dot-floor_mult html
dot-gengamma_dpars html
dot-gengamma_log_lik html
dot-gengamma_mean html
dot-gengamma_stacy html
dot-get_brms_fn html
dot-has_non_uniform_window_prior html
dot-inf_is_obs_time_only html
dot-infinite_data_warning html
dot-inform_data_summarised html
dot-internal_prior html
dot-is_manual_prior html
dot-leave_one_out_bind_predictors html
dot-leave_one_out_compare html
dot-leave_one_out_cores html
dot-leave_one_out_data html
dot-leave_one_out_newdata html
dot-leave_one_out_studies html
dot-leave_one_out_summaries html
dot-log_lik_weight html
dot-make_intercepts_explicit html
dot-manual_prior_parameter html
dot-meta_accrual_density html
dot-meta_accrual_flag html
dot-meta_accrual_nodes html
dot-meta_accrual_prob html
dot-meta_accrual_reweight html
dot-meta_accrual_weight html
dot-meta_add_growth_dpar html
dot-meta_add_uniform html
dot-meta_assign_groups html
dot-meta_band_half_width html
dot-meta_box_grid html
dot-meta_box_mode_path html
dot-meta_box_step html
dot-meta_box_stride html
dot-meta_cell_floor html
dot-meta_cens_base html
dot-meta_cens_lower html
dot-meta_cens_shift html
dot-meta_cens_slots html
dot-meta_central_difference html
dot-meta_central_from_raw html
dot-meta_chol html
dot-meta_continuous_moments html
dot-meta_crossing_box html
dot-meta_crossing_counts html
dot-meta_deep_tail html
dot-meta_deep_tail_lognormal html
dot-meta_dist_cdf html
dot-meta_draw_cache_limit html
dot-meta_draw_slots html
dot-meta_draws html
dot-meta_empty_members html
dot-meta_estimate_rows html
dot-meta_fixed_point html
dot-meta_grid_box_ll html
dot-meta_grid_cdf html
dot-meta_grid_crossing_ll html
dot-meta_grid_edges html
dot-meta_grid_first html
dot-meta_grid_moments html
dot-meta_grid_pmf html
dot-meta_grid_prob html
dot-meta_grid_probs html
dot-meta_group_row html
dot-meta_group_stanvars html
dot-meta_growth_estimated html
dot-meta_growth_formula html
dot-meta_growth_prior html
dot-meta_implied_density html
dot-meta_implied_moments html
dot-meta_implied_nodes html
dot-meta_implied_prob html
dot-meta_implied_probs html
dot-meta_implied_summary_vector html
dot-meta_individual_rows html
dot-meta_interpolate html
dot-meta_joint_covariance html
dot-meta_joint_study_ll html
dot-meta_joint_study_terms html
dot-meta_left_moments html
dot-meta_log_accrual_weight html
dot-meta_log_binom html
dot-meta_log_binom_upper html
dot-meta_log_cdf_floor html
dot-meta_log_diff_exp html
dot-meta_log_sum_exp html
dot-meta_max_correlation html
dot-meta_member_table html
dot-meta_members html
dot-meta_min_prob_se html
dot-meta_moment_correlation html
dot-meta_moment_failure html
dot-meta_moment_pair_ll html
dot-meta_moment_vector html
dot-meta_moments_lognormal html
dot-meta_multi_normal_ll html
dot-meta_n_quad html
dot-meta_n_quad_default html
dot-meta_n_quad_max html
dot-meta_newton_steps html
dot-meta_node_interval html
dot-meta_node_quantile html
dot-meta_obs_type html
dot-meta_order_group html
dot-meta_pcens_cdf html
dot-meta_pcens_trunc_moments html
dot-meta_primary html
dot-meta_quantile_counts html
dot-meta_quantile_covariance html
dot-meta_quantile_density html
dot-meta_quantile_on_chord html
dot-meta_quantile_partials html
dot-meta_quantile_set_ll html
dot-meta_raw_from_central html
dot-meta_refine_quantile html
dot-meta_row_draw_moments html
dot-meta_row_log_lik html
dot-meta_row_log_sum_exp html
dot-meta_row_moments html
dot-meta_row_slots html
dot-meta_sd_se html
dot-meta_set_members html
dot-meta_slots_n_quad html
dot-meta_slots_tilted html
dot-meta_step_kernel html
dot-meta_step_kernel_alive html
dot-meta_step_kernel_top html
dot-meta_step_prob html
dot-meta_summary_dist html
dot-meta_summary_terms html
dot-meta_survival_moments html
dot-meta_trunc_design html
dot-meta_trunc_moments html
dot-meta_uniform_pcens_density html
dot-meta_window_slot html
dot-muffle_infinite_data_warning html
dot-multivariate_column html
dot-multivariate_eigen_floor html
dot-multivariate_from_matrix html
dot-multivariate_names html
dot-multivariate_params html
dot-multivariate_wide html
dot-new_delay_draws html
dot-new_epidist_data html
dot-new_meta_model_from_parts html
dot-obs_time_cols html
dot-pcd_family_dist_name html
dot-pick_prior_col html
dot-plot_delay_draws html
dot-plot_observed_delays html
dot-plot_parameter_draws html
dot-predicted_delays html
dot-prepare_marginal_data html
dot-primary_args html
dot-primary_args_name html
dot-primary_choices html
dot-primary_dist html
dot-primary_registry html
dot-primary_spec html
dot-primary_spec_from_family html
dot-primary_spec_from_prep html
dot-primary_stancode_args html
dot-prior_match_cols html
dot-quantile_name html
dot-refit html
dot-rename_columns html
dot-replace_prior html
dot-require_flexsurv html
dot-resolve_delay_family html
dot-restore_compile_env html
dot-restore_delay_draws html
dot-restore_epidist_class html
dot-revalidate_epidist html
dot-sample_summaries html
dot-simulate_delays html
dot-stan_chunk html
dot-stratum_names html
dot-study_bootstrap html
dot-study_cases html
dot-study_measured_delay html
dot-study_observed html
dot-study_rows html
dot-study_window html
dot-summarise_n_by_formula html
dot-unsupported_families html
dot-validate_data html
dot-validate_family html
dot-validate_formula html
dot-version_stanvar html
dot-warn_unmatched_prior html
dot-zero_padded_quantile html
epidist-package html
epidist html
epidist_data html
epidist_delay_draws html
epidist_diagnostics html
epidist_estimates_epireview html
epidist_estimates_parameters html
epidist_estimates_summaries html
epidist_family html
epidist_family_model html
epidist_family_model.default html
epidist_family_model.epidist_latent_model
html
epidist_family_model.epidist_marginal_model
html
epidist_family_model.epidist_meta_model
html
epidist_family_param html
epidist_family_param.default html
epidist_family_param.gengamma html
epidist_family_prior html
epidist_family_prior.default html
epidist_family_prior.gengamma html
epidist_family_prior.lognormal html
epidist_formula html
epidist_formula_model html
epidist_formula_model.default html
epidist_formula_model.epidist_latent_model
html
epidist_formula_model.epidist_marginal_model
html
epidist_formula_model.epidist_meta_model
html
epidist_formula_model.epidist_naive_model
html
epidist_gen_log_lik html
epidist_gen_meta_log_lik html
epidist_gen_meta_predict html
epidist_gen_posterior_epred html
epidist_gen_posterior_predict html
epidist_meta_leave_one_out html
epidist_model_prior html
epidist_model_prior.default html
epidist_model_prior.epidist_latent_model
html
epidist_model_prior.epidist_meta_model
html
epidist_newdata html
epidist_newdata.default html
epidist_newdata.epidist_latent_model html
epidist_newdata.epidist_marginal_model
html
epidist_newdata.epidist_meta_model html
epidist_newdata.epidist_naive_model html
epidist_prior html
epidist_stancode html
epidist_stancode.default html
epidist_stancode.epidist_naive_model html
epidist_strata html
epidist_transform_data html
epidist_transform_data_model html
epidist_transform_data_model.default html
epidist_transform_data_model.epidist_marginal_model
html
epidist_transform_data_model.epidist_meta_model
html
epidist_transform_data_model.epidist_naive_model
html
gengamma html
is_epidist_aggregate_data html
is_epidist_data html
is_epidist_estimates_data html
is_epidist_latent_model html
is_epidist_linelist_data html
is_epidist_marginal_model html
is_epidist_meta_model html
is_epidist_multivariate html
is_epidist_naive_model html
new_epidist_aggregate_data html
new_epidist_estimates_data html
new_epidist_latent_model html
new_epidist_linelist_data html
new_epidist_marginal_model html
new_epidist_meta_model html
new_epidist_multivariate html
new_epidist_naive_model html
plot.epidist_delay_draws html
plot_delays html
plot_delays.default html
plot_delays.epidist_fit html
plot_delays.epidist_linelist_data html
plot_delays.list html
plot_events html
print.epidist_multivariate html
reexports html
sierra_leone_ebola_data html
simulate_dates html
simulate_exponential_cases html
simulate_gillespie html
simulate_secondary html
simulate_study html
simulate_uniform_cases html
vcov.epidist_multivariate html
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (epidist)