Closed andreassot10 closed 4 years ago
I have been unable to reproduce the example for PipeOpDropNA in section 6.3.2.1 of the mlr3 book:
PipeOpDropNA = R6::R6Class("PipeOpDropNA", inherit = mlr3pipelines::PipeOpTaskPreproc, public = list( initialize = function(id = "drop.na") { super$initialize(id) }, train_task = function(task) { self$state = list() featuredata = task$data(cols = task$feature_names) exclude = apply(is.na(featuredata), 1, any) task$filter(task$row_ids[!exclude]) }, predict_task = function(task) { # nothing to be done task } ) ) smalliris = iris[(1:5) * 30, ] smalliris[1, 1] = NA smalliris[2, 2] = NA sitask = TaskClassif$new("smalliris", as_data_backend(smalliris), "Species") print(sitask$data()) gr = Graph$new() gr$add_pipeop(PipeOpDropNA$new()) filtered_task = gr$train(sitask)[[1]] #Error in private$.train_dt(dt, task_levels(task, cols), target) : # Abstract. traceback() #8: stop("Abstract.") #7: private$.train_dt(dt, task_levels(task, cols), target) #6: as.data.table(private$.train_dt(dt, task_levels(task, cols), # target)) #5: private$.train_task(intask) #4: private$.train(input) #3: op[[fun]](input) #2: graph_reduce(self, input, "train", single_input) #1: gr$train(sitask)
Session info:
R version 3.6.2 (2019-12-12) Platform: x86_64-w64-mingw32/x64 (64-bit) Running under: Windows 10 x64 (build 16299) Matrix products: default locale: [1] LC_COLLATE=English_United Kingdom.1252 [2] LC_CTYPE=English_United Kingdom.1252 [3] LC_MONETARY=English_United Kingdom.1252 [4] LC_NUMERIC=C [5] LC_TIME=English_United Kingdom.1252 attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] mlr3viz_0.1.1.9002 mlr3tuning_0.1.2-9000 [3] mlr3pipelines_0.1.3.9000 mlr3misc_0.2.0 [5] mlr3learners_0.2.0.9001 mlr3filters_0.2.0.9000 [7] mlr3_0.2.0-9000 paradox_0.2.0 [9] yardstick_0.0.5 rsample_0.0.5 [11] recipes_0.1.9 parsnip_0.0.5 [13] infer_0.5.1 dials_0.0.4 [15] scales_1.1.0 broom_0.5.4 [17] tidymodels_0.0.3 reshape2_1.4.3 [19] janitor_1.2.1 data.table_1.12.8 [21] forcats_0.4.0 stringr_1.4.0 [23] dplyr_1.0.0 purrr_0.3.3 [25] readr_1.3.1 tidyr_1.0.2 [27] tibble_3.0.1 ggplot2_3.3.0 [29] tidyverse_1.3.0 loaded via a namespace (and not attached): [1] uuid_0.1-4 readxl_1.3.1 backports_1.1.7 [4] tidytext_0.2.2 workflows_0.1.1 plyr_1.8.5 [7] igraph_1.2.4.2 splines_3.6.2 crosstalk_1.0.0 [10] listenv_0.8.0 SnowballC_0.6.0 rstantools_2.0.0 [13] inline_0.3.15 digest_0.6.25 foreach_1.4.7 [16] htmltools_0.4.0 rsconnect_0.8.16 fansi_0.4.1 [19] checkmate_2.0.0 magrittr_1.5 globals_0.12.5 [22] modelr_0.1.5 gower_0.2.1 matrixStats_0.55.0 [25] xts_0.12-0 prettyunits_1.1.1 colorspace_1.4-1 [28] rvest_0.3.5 xfun_0.12 haven_2.2.0 [31] callr_3.4.1 crayon_1.3.4 jsonlite_1.6.1 [34] lme4_1.1-21 survival_3.1-8 zoo_1.8-7 [37] iterators_1.0.12 glue_1.4.0 gtable_0.3.0 [40] ipred_0.9-9 pkgbuild_1.0.6 rstan_2.19.2 [43] DBI_1.1.0 miniUI_0.1.1.1 Rcpp_1.0.4.6 [46] xtable_1.8-4 GPfit_1.0-8 stats4_3.6.2 [49] lava_1.6.6 StanHeaders_2.21.0-1 prodlim_2019.11.13 [52] DT_0.12 htmlwidgets_1.5.1 httr_1.4.1 [55] threejs_0.3.3 ellipsis_0.3.0 pkgconfig_2.0.3 [58] loo_2.2.0 nnet_7.3-12 dbplyr_1.4.2 [61] tidyselect_1.1.0 rlang_0.4.6 DiceDesign_1.8-1 [64] later_1.0.0 munsell_0.5.0 cellranger_1.1.0 [67] tools_3.6.2 cli_2.0.1 generics_0.0.2 [70] ggridges_0.5.2 fastmap_1.0.1 knitr_1.28 [73] processx_3.4.1 fs_1.3.1 lgr_0.3.4 [76] packrat_0.5.0 bbotk_0.1 future_1.17.0 [79] nlme_3.1-142 mime_0.8 rstanarm_2.19.2 [82] xml2_1.2.2 tokenizers_0.2.1 compiler_3.6.2 [85] bayesplot_1.7.1 shinythemes_1.1.2 rstudioapi_0.10 [88] reprex_0.3.0 tidyposterior_0.0.2 lhs_1.0.1 [91] stringi_1.4.4 ps_1.3.0 lattice_0.20-38 [94] Matrix_1.2-18 nloptr_1.2.1 markdown_1.1 [97] shinyjs_1.1 vctrs_0.3.1 pillar_1.4.3 [100] lifecycle_0.2.0 furrr_0.1.0 httpuv_1.5.2 [103] R6_2.4.1 promises_1.1.0 gridExtra_2.3 [106] janeaustenr_0.1.5 codetools_0.2-16 boot_1.3-23 [109] colourpicker_1.0 MASS_7.3-51.4 gtools_3.8.1 [112] assertthat_0.2.1 withr_2.2.0 shinystan_2.5.0 [115] parallel_3.6.2 hms_0.5.3 grid_3.6.2 [118] rpart_4.1-15 timeDate_3043.102 class_7.3-15 [121] minqa_1.2.4 snakecase_0.11.0 pROC_1.16.1 [124] tidypredict_0.4.3 shiny_1.4.0 lubridate_1.7.4 [127] base64enc_0.1-3 dygraphs_1.1.1.6
Should be fixed by now, reason was change in pipelines to . prefix for private functions that had not been updated here.
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I have been unable to reproduce the example for PipeOpDropNA in section 6.3.2.1 of the mlr3 book:
Session info: