diff --git a/R/fit_boxcox_ratings_cat.R b/R/fit_boxcox_ratings_cat.R index 43e549b..7e84cb2 100644 --- a/R/fit_boxcox_ratings_cat.R +++ b/R/fit_boxcox_ratings_cat.R @@ -42,8 +42,8 @@ fit_boxcox_ratings_cat <- function(.data, outcome, outcome_var, interceptless = (1 | ReviewerId) # + (1 | study_id ) RE ommitted due to convergence issues )) mod <- lme4::lmer(f, - data = data_tbl #, - #weights = I(1/pull(data_tbl,{{outcome_var}})) + data = data_tbl , + weights = I(1/pull(data_tbl,{{outcome_var}})) ) }else(#interceptless: for plotting mod <- lme4::lmer(rlang::new_formula(rlang::ensym(outcome), diff --git a/_targets.R b/_targets.R index 893b874..cf08993 100644 --- a/_targets.R +++ b/_targets.R @@ -29,7 +29,7 @@ tar_option_set( packages = pkgs, imports = "ManyEcoEvo", # debug = c("augmented_data_3efd9941")#, #augmented_data_a4d78efa - # cue = tar_cue(mode = "never") #because we have silent errors! + cue = tar_cue(mode = "always") #because we have silent errors! ) 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-summarise_model_composition|function|ff26de3abc94425b||||||||||||||| -summarise_model_composition_data|function|5e74f221f7a7a5a3||||||||||||||| -summarise_reviews|function|fba9891b001c8a6d||||||||||||||| -summarise_reviews_per_analysis|function|f0303f71d902a2ee||||||||||||||| -summarise_sorensen_index|function|3dbd8af3aa0d1186||||||||||||||| -summarise_sorensen_index_data|function|9c11d74e61df9712||||||||||||||| -summarise_variable_counts|function|efc20754f19e1751||||||||||||||| -updated_prediction_files|stem|691b62e6eabe6bce|b33ca9159f38d41e|7d686864d9f52e92|-1778899494||t19867.0542437883s|147702cf8477fcbf|6634|rds|local|vector|||5.486|There were 3 warnings in mutate.The first warning wasℹ In argument updated_checks map.x updated_checks, .f pointblankinterrogate.ℹ In group 5 response_id R_1LRqq2WHrQaENtM, submission_id 1, analysis_id 1, split_id 1, csv_number 3.Caused by warning Failure to validate that column se.fit is of type numeric.The col_is_numeric validation failed beyond the absolute threshold level 1. failure level 1 failure threshold 1ℹ Run dplyrlast_dplyr_warnings to see the 2 remaining warnings.| -validate_predictions|function|7ef020257e0a630d||||||||||||||| -validate_predictions_df_blue_tit|function|95d86a01f1d24e0e||||||||||||||| -validate_predictions_df_euc|function|7f7c0ad7cf290e19||||||||||||||| 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csv_number 3.Caused by warning Failure to validate that column se.fit is of type numeric.The col_is_numeric validation failed beyond the absolute threshold level 1. failure level 1 failure threshold 1ℹ Run dplyrlast_dplyr_warnings to see the 2 remaining warnings.| +all_review_data|stem|9f5a30a415914d40|9971985edc6b63c1|3b47493c7bc97fb3|1407800598||t19867.3486762407s|4da01f95af4cc0d4|11523|rds|local|vector|||0.01|| +ManyEcoEvo|stem|d61468d68553f9cb|df70a842bd136411|2974d0464c33db94|-777778715||t19867.348677454s|dbca80686c83f81a|36731|rds|local|vector|||0.094|| +prediction_submissions|stem|62f784fde014cf2f|318e6101f656f408|b8d8bece7c801289|-719378080||t19867.3486832438s|d835cb5106455cee|24920|rds|local|vector|||0.49|| +ManyEcoEvo_results|stem|a09bd73901c97a31|615698f49ba879fd|6e0bcc7e8545405f|232339007||t19867.3488083859s|409a78962bd08b61|10121616|rds|local|vector|||9.308|There were 59 warnings in dplyrmutate.The first warning wasℹ In argument box_cox_rating_cont purrrmap....ℹ In group 1 estimate_type Zr, dataset blue tit, exclusion_set complete, publishable_subset All, expertise_subset All.Caused by warning in optwrap convergence code 4 from nloptwrap NLOPT_ROUNDOFF_LIMITED Roundoff errors led to a breakdown of the optimization algorithm. 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a/data-raw/tar_make.R b/data-raw/tar_make.R index 65820e1..503ede8 100644 --- a/data-raw/tar_make.R +++ b/data-raw/tar_make.R @@ -4,7 +4,7 @@ library(targets) library(usethis) # ---- Run targets pipeline ---- -# tar_destroy() # Uncomment and run if want to reproduce from scratch, run locally only +tar_destroy() # Uncomment and run if want to reproduce from scratch, run locally only tar_make() # ---- Read targets and use data ---- diff --git a/data/ManyEcoEvo_results.rda b/data/ManyEcoEvo_results.rda index afe7a60..21122bf 100644 Binary files a/data/ManyEcoEvo_results.rda and b/data/ManyEcoEvo_results.rda differ diff --git a/data/ManyEcoEvo_viz.rda b/data/ManyEcoEvo_viz.rda index 6f5ad41..02851cf 100644 Binary files a/data/ManyEcoEvo_viz.rda and b/data/ManyEcoEvo_viz.rda differ diff --git a/data/ManyEcoEvo_yi_results.rda b/data/ManyEcoEvo_yi_results.rda index 7273161..bd5bc92 100644 Binary files a/data/ManyEcoEvo_yi_results.rda and b/data/ManyEcoEvo_yi_results.rda differ diff --git a/data/ManyEcoEvo_yi_viz.rda b/data/ManyEcoEvo_yi_viz.rda index 0042a7a..0cba26b 100644 Binary files a/data/ManyEcoEvo_yi_viz.rda and b/data/ManyEcoEvo_yi_viz.rda differ