CRAN Package Check Results for Package broom

Last updated on 2026-10-24 01:51:29 CEST.

Flavor	Version	T_install	T_check	T_total	Status
r-devel-linux-x86_64-debian-clang	1.0.13	12.03	309.93	321.96	OK
r-devel-linux-x86_64-debian-gcc	1.0.13	8.47	161.05	169.52	ERROR
r-devel-linux-x86_64-fedora-clang	1.0.13			7.73	ERROR
r-devel-linux-x86_64-fedora-gcc	1.0.13	9.00	210.47	219.47	OK
r-devel-windows-x86_64	1.0.13	16.00	450.00	466.00	OK
r-patched-linux-x86_64	1.0.13	21.31	296.66	317.97	OK
r-release-linux-x86_64	1.0.13	9.60	299.03	308.63	OK
r-release-macos-arm64	1.0.13	3.00	84.00	87.00	OK
r-release-macos-x86_64	1.0.13	9.00	288.00	297.00	OK
r-release-windows-x86_64	1.0.13	20.00	461.00	481.00	OK
r-oldrel-macos-arm64	1.0.13	3.00	92.00	95.00	OK
r-oldrel-macos-x86_64	1.0.13	9.00	250.00	259.00	OK
r-oldrel-windows-x86_64	1.0.13	25.00	584.00	609.00	OK

Check Details

Version: 1.0.13
Check: examples
Result: ERROR Running examples in ‘broom-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: glance.survfit > ### Title: Glance at a(n) survfit object > ### Aliases: glance.survfit > > ### ** Examples > > ## Don't show: > if (rlang::is_installed(c("survival", "ggplot2"))) withAutoprint({ # examplesIf + ## End(Don't show) + + # load libraries for models and data + library(survival) + + # fit model + cfit <- coxph(Surv(time, status) ~ age + sex, lung) + sfit <- survfit(cfit) + + # summarize model fit with tidiers + visualization + tidy(sfit) + glance(sfit) + + library(ggplot2) + + ggplot(tidy(sfit), aes(time, estimate)) + + geom_line() + + geom_ribbon(aes(ymin = conf.low, ymax = conf.high), alpha = .25) + + # multi-state + fitCI <- survfit(Surv(stop, status * as.numeric(event), type = "mstate") ~ 1, + data = mgus1, subset = (start == 0) + ) + + td_multi <- tidy(fitCI) + + td_multi + + ggplot(td_multi, aes(time, estimate, group = state)) + + geom_line(aes(color = state)) + + geom_ribbon(aes(ymin = conf.low, ymax = conf.high), alpha = .25) + ## Don't show: + }) # examplesIf > library(survival) > cfit <- coxph(Surv(time, status) ~ age + sex, lung) > sfit <- survfit(cfit) Error in a$specials[[i]] : subscript out of bounds Calls: withAutoprint ... survfit.coxph -> model.matrix.coxph -> delete.response -> off Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Version: 1.0.13
Check: tests
Result: ERROR Running ‘spelling.R’ [0s/0s] Running ‘testthat.R’ [14s/17s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview > # * https://testthat.r-lib.org/articles/special-files.html > > library(testthat) > library(broom) > > test_check("broom") Attaching package: 'modeldata' The following object is masked from 'package:datasets': penguins Multiple parameters; naming those columns ndf and ddf. Saving _problems/test-survival-coxph-84.R Saving _problems/test-survival-coxph-84.R [ FAIL 2 | WARN 1 | SKIP 99 | PASS 934 ] ══ Skipped tests (99) ══════════════════════════════════════════════════════════ • On CRAN (99): 'test-aer.R:1:1', 'test-auc.R:1:1', 'test-bbmle.R:1:1', 'test-betareg.R:1:1', 'test-biglm.R:1:1', 'test-bingroup.R:1:1', 'test-boot.R:1:1', 'test-btergm.R:1:1', 'test-car.R:1:1', 'test-caret.R:1:1', 'test-cluster.R:1:1', 'test-cmprsk.R:1:1', 'test-data-frame.R:1:1', 'test-drc.R:1:1', 'test-emmeans.R:1:1', 'test-epiR.R:1:1', 'test-ergm.R:1:1', 'test-fixest.R:1:1', 'test-gam.R:1:1', 'test-geepack.R:1:1', 'test-glmnetUtils.R:1:1', 'test-gmm.R:1:1', 'test-hmisc.R:1:1', 'test-joineRML.R:1:1', 'test-kendall.R:1:1', 'test-ks.R:1:1', 'test-lavaan.R:1:1', 'test-leaps.R:1:1', 'test-lfe.R:1:1', 'test-list-irlba.R:1:1', 'test-list-optim.R:1:1', 'test-list-svd.R:1:1', 'test-list-xyz.R:1:1', 'test-list.R:1:1', 'test-lmbeta-lm-beta.R:1:1', 'test-lmodel2.R:1:1', 'test-lmtest.R:1:1', 'test-maps.R:1:1', 'test-margins.R:1:1', 'test-mass-fitdistr.R:1:1', 'test-mass-polr.R:1:1', 'test-mass-ridgelm.R:1:1', 'test-mass-rlm.R:1:1', 'test-mclust.R:1:1', 'test-mediation.R:1:1', 'test-metafor.R:1:1', 'test-mfx.R:1:1', 'test-mgcv.R:1:1', 'test-mlogit.R:1:1', 'test-muhaz.R:1:1', 'test-multcomp.R:1:1', 'test-nnet.R:1:1', 'test-null-and-default.R:8:1', 'test-null-and-default.R:22:1', 'test-null-and-default.R:38:1', 'test-ordinal.R:1:1', 'test-plm.R:1:1', 'test-polca.R:1:1', 'test-psych.R:1:1', 'test-quantreg-nlrq.R:1:1', 'test-quantreg-rq.R:1:1', 'test-quantreg-rqs.R:1:1', 'test-robust-glmrob.R:1:1', 'test-robust.R:1:1', 'test-robustbase.R:1:1', 'test-spdep.R:1:1', 'test-speedglm-speedglm.R:1:1', 'test-speedglm-speedlm.R:1:1', 'test-stats-anova.R:19:1', 'test-stats-arima.R:1:1', 'test-stats-decompose.R:1:1', 'test-stats-factanal.R:1:1', 'test-stats-glm.R:78:1', 'test-stats-glm.R:85:1', 'test-stats-htest.R:18:1', 'test-stats-htest.R:84:1', 'test-stats-htest.R:130:1', 'test-stats-lm.R:28:1', 'test-stats-lm.R:67:1', 'test-stats-mlm.R:1:1', 'test-stats-nls.R:1:1', 'test-stats-prcomp.R:12:1', 'test-survey.R:1:1', 'test-survival-aareg.R:1:1', 'test-survival-cch.R:1:1', 'test-survival-pyears.R:1:1', 'test-survival-survdiff.R:1:1', 'test-survival-survexp.R:1:1', 'test-survival-survfit.R:1:1', 'test-survival-survreg.R:1:1', 'test-systemfit.R:1:1', 'test-utilities.R:4:1', 'test-utilities.R:22:1', 'test-utilities.R:28:1', 'test-utilities.R:194:1', 'test-utilities.R:214:1', 'test-utilities.R:233:1', 'test-vars.R:1:1', 'test-zoo.R:1:1' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-survival-coxph.R:79:3'): augment.coxph ─────────────────────── Expected `hd_list` to equal `purrr::map(au_list, head)`. Differences: `attr(actual[[1]], 'row.names')[4:228]`: 4 5 6 7 8 9 10 11 12 13 and 215 more... `attr(expected[[1]], 'row.names')[4:6]`: 4 5 6 ... actual[[1]] vs expected[[1]] inst time status age sex ph.ecog ph.karno pat.karno meal.cal wt.loss .fitted actual[[1]][4, ] 5 210 2 57 1 1 90 60 1150 11 0.109734054 actual[[1]][5, ] 1 883 2 60 1 0 100 90 NA 0 0.160870050 actual[[1]][6, ] 12 1022 1 74 1 1 50 80 513 0 0.399504696 - actual[[1]][7, ] 3 306 2 74 1 1 90 100 1175 NA -0.215985812 - actual[[1]][8, ] 3 455 2 68 1 0 90 90 1225 15 -0.164849817 - actual[[1]][9, ] 3 1010 1 56 1 0 90 90 NA 15 0.041552727 - actual[[1]][10, ] 5 210 2 57 1 1 90 60 1150 11 0.177915382 - actual[[1]][11, ] 1 883 2 60 1 0 100 90 NA 0 0.109734054 - actual[[1]][12, ] 12 1022 1 74 1 1 50 80 513 0 -0.215985812 - actual[[1]][13, ] 3 306 2 74 1 1 90 100 1175 NA -0.215985812 and 215 more ... `actual[[1]]$inst[4:228]`: 5 1 12 3 3 3 5 1 12 3 and 215 more... `expected[[1]]$inst[4:6]`: 5 1 12 ... actual[[1]]$time | expected[[1]]$time [4] 210 | 210 [4] [5] 883 | 883 [5] [6] 1022 | 1022 [6] [7] 306 - [8] 455 - [9] 1010 - [10] 210 - [11] 883 - [12] 1022 - [13] 306 - ... ... ... and 215 more ... `actual[[1]]$status[4:228]`: 2 2 1 2 2 1 2 2 1 2 and 215 more... `expected[[1]]$status[4:6]`: 2 2 1 ... `actual[[1]]$age[4:228]`: 57 60 74 74 68 56 57 60 74 74 and 215 more... `expected[[1]]$age[4:6]`: 57 60 74 ... `actual[[1]]$sex[4:228]`: 1 1 1 1 1 1 1 1 1 1 and 215 more... `expected[[1]]$sex[4:6]`: 1 1 1 ... `actual[[1]]$ph.ecog[4:228]`: 1 0 1 1 0 0 1 0 1 1 and 215 more... `expected[[1]]$ph.ecog[4:6]`: 1 0 1 ... `actual[[1]]$ph.karno[4:228]`: 90 100 50 90 90 90 90 100 50 90 and 215 more... `expected[[1]]$ph.karno[4:6]`: 90 100 50 ... `actual[[1]]$pat.karno[4:228]`: 60 90 80 100 90 90 60 90 80 100 and 215 more... `expected[[1]]$pat.karno[4:6]`: 60 90 80 ... actual[[1]]$meal.cal | expected[[1]]$meal.cal [4] 1150 | 1150 [4] [5] NA | NA [5] [6] 513 | 513 [6] [7] 1175 - [8] 1225 - [9] NA - [10] 1150 - [11] NA - [12] 513 - [13] 1175 - ... ... ... and 215 more ... `actual[[1]]$wt.loss[4:228]`: 11 0 0 NA 15 15 11 0 0 NA and 215 more... `expected[[1]]$wt.loss[4:6]`: 11 0 0 ... actual[[1]]$.fitted | expected[[1]]$.fitted [4] 0.109734054332253 | 0.109734054332253 [4] [5] 0.160870049868487 | 0.160870049868487 [5] [6] 0.399504695704246 | 0.399504695704246 [6] [7] -0.215985812476607 - [8] -0.164849816940373 - [9] 0.0415527269506082 - [10] 0.177915381713899 - [11] 0.109734054332253 - [12] -0.215985812476607 - [13] -0.215985812476607 - ... ... ... and 215 more ... `attr(actual[[2]], 'row.names')[4:228]`: 4 5 6 7 8 9 10 11 12 13 and 215 more... `attr(expected[[2]], 'row.names')[4:6]`: 4 5 6 ... actual[[2]] vs expected[[2]] inst time status age sex ph.ecog ph.karno pat.karno meal.cal wt.loss .fitted actual[[2]][4, ] 5 210 2 57 1 1 90 60 1150 11 0.109734054 actual[[2]][5, ] 1 883 2 60 1 0 100 90 NA 0 0.160870050 actual[[2]][6, ] 12 1022 1 74 1 1 50 80 513 0 0.399504696 - actual[[2]][7, ] 3 306 2 74 1 1 90 100 1175 NA -0.215985812 - actual[[2]][8, ] 3 455 2 68 1 0 90 90 1225 15 -0.164849817 - actual[[2]][9, ] 3 1010 1 56 1 0 90 90 NA 15 0.041552727 - actual[[2]][10, ] 5 210 2 57 1 1 90 60 1150 11 0.177915382 - actual[[2]][11, ] 1 883 2 60 1 0 100 90 NA 0 0.109734054 - actual[[2]][12, ] 12 1022 1 74 1 1 50 80 513 0 -0.215985812 - actual[[2]][13, ] 3 306 2 74 1 1 90 100 1175 NA -0.215985812 and 215 more ... `actual[[2]]$inst[4:228]`: 5 1 12 3 3 3 5 1 12 3 and 215 more... `expected[[2]]$inst[4:6]`: 5 1 12 ... actual[[2]]$time | expected[[2]]$time [4] 210 | 210 [4] [5] 883 | 883 [5] [6] 1022 | 1022 [6] [7] 306 - [8] 455 - [9] 1010 - [10] 210 - [11] 883 - [12] 1022 - [13] 306 - ... ... ... and 215 more ... `actual[[2]]$status[4:228]`: 2 2 1 2 2 1 2 2 1 2 and 215 more... `expected[[2]]$status[4:6]`: 2 2 1 ... `actual[[2]]$age[4:228]`: 57 60 74 74 68 56 57 60 74 74 and 215 more... `expected[[2]]$age[4:6]`: 57 60 74 ... `actual[[2]]$sex[4:228]`: 1 1 1 1 1 1 1 1 1 1 and 215 more... `expected[[2]]$sex[4:6]`: 1 1 1 ... `actual[[2]]$ph.ecog[4:228]`: 1 0 1 1 0 0 1 0 1 1 and 215 more... `expected[[2]]$ph.ecog[4:6]`: 1 0 1 ... `actual[[2]]$ph.karno[4:228]`: 90 100 50 90 90 90 90 100 50 90 and 215 more... `expected[[2]]$ph.karno[4:6]`: 90 100 50 ... `actual[[2]]$pat.karno[4:228]`: 60 90 80 100 90 90 60 90 80 100 and 215 more... `expected[[2]]$pat.karno[4:6]`: 60 90 80 ... actual[[2]]$meal.cal | expected[[2]]$meal.cal [4] 1150 | 1150 [4] [5] NA | NA [5] [6] 513 | 513 [6] [7] 1175 - [8] 1225 - [9] NA - [10] 1150 - [11] NA - [12] 513 - [13] 1175 - ... ... ... and 215 more ... `actual[[2]]$wt.loss[4:228]`: 11 0 0 NA 15 15 11 0 0 NA and 215 more... `expected[[2]]$wt.loss[4:6]`: 11 0 0 ... actual[[2]]$.fitted | expected[[2]]$.fitted [4] 0.109734054332253 | 0.109734054332253 [4] [5] 0.160870049868487 | 0.160870049868487 [5] [6] 0.399504695704246 | 0.399504695704246 [6] [7] -0.215985812476607 - [8] -0.164849816940373 - [9] 0.0415527269506082 - [10] 0.177915381713899 - [11] 0.109734054332253 - [12] -0.215985812476607 - [13] -0.215985812476607 - ... ... ... and 215 more ... `attr(actual[[3]], 'row.names')[4:228]`: 4 5 6 7 8 9 10 11 12 13 and 215 more... `attr(expected[[3]], 'row.names')[4:6]`: 4 5 6 ... actual[[3]] vs expected[[3]] .rownames inst time status age sex ph.ecog ph.karno pat.karno meal.cal wt.loss .fitted actual[[3]][4, ] obs4 5 210 2 57 1 1 90 60 1150 11 0.109734054 actual[[3]][5, ] obs5 1 883 2 60 1 0 100 90 NA 0 0.160870050 actual[[3]][6, ] obs6 12 1022 1 74 1 1 50 80 513 0 0.399504696 - actual[[3]][7, ] obs1 3 306 2 74 1 1 90 100 1175 NA -0.215985812 - actual[[3]][8, ] obs2 3 455 2 68 1 0 90 90 1225 15 -0.164849817 - actual[[3]][9, ] obs3 3 1010 1 56 1 0 90 90 NA 15 0.041552727 - actual[[3]][10, ] obs4 5 210 2 57 1 1 90 60 1150 11 0.177915382 - actual[[3]][11, ] obs5 1 883 2 60 1 0 100 90 NA 0 0.109734054 - actual[[3]][12, ] obs6 12 1022 1 74 1 1 50 80 513 0 -0.215985812 - actual[[3]][13, ] obs1 3 306 2 74 1 1 90 100 1175 NA -0.215985812 and 215 more ... actual[[3]]$.rownames | expected[[3]]$.rownames [4] "obs4" | "obs4" [4] [5] "obs5" | "obs5" [5] [6] "obs6" | "obs6" [6] [7] "obs1" - [8] "obs2" - [9] "obs3" - [10] "obs4" - [11] "obs5" - [12] "obs6" - [13] "obs1" - ... ... ... and 215 more ... `actual[[3]]$inst[4:228]`: 5 1 12 3 3 3 5 1 12 3 and 215 more... `expected[[3]]$inst[4:6]`: 5 1 12 ... actual[[3]]$time | expected[[3]]$time [4] 210 | 210 [4] [5] 883 | 883 [5] [6] 1022 | 1022 [6] [7] 306 - [8] 455 - [9] 1010 - [10] 210 - [11] 883 - [12] 1022 - [13] 306 - ... ... ... and 215 more ... `actual[[3]]$status[4:228]`: 2 2 1 2 2 1 2 2 1 2 and 215 more... `expected[[3]]$status[4:6]`: 2 2 1 ... `actual[[3]]$age[4:228]`: 57 60 74 74 68 56 57 60 74 74 and 215 more... `expected[[3]]$age[4:6]`: 57 60 74 ... `actual[[3]]$sex[4:228]`: 1 1 1 1 1 1 1 1 1 1 and 215 more... `expected[[3]]$sex[4:6]`: 1 1 1 ... `actual[[3]]$ph.ecog[4:228]`: 1 0 1 1 0 0 1 0 1 1 and 215 more... `expected[[3]]$ph.ecog[4:6]`: 1 0 1 ... `actual[[3]]$ph.karno[4:228]`: 90 100 50 90 90 90 90 100 50 90 and 215 more... `expected[[3]]$ph.karno[4:6]`: 90 100 50 ... `actual[[3]]$pat.karno[4:228]`: 60 90 80 100 90 90 60 90 80 100 and 215 more... `expected[[3]]$pat.karno[4:6]`: 60 90 80 ... actual[[3]]$meal.cal | expected[[3]]$meal.cal [4] 1150 | 1150 [4] [5] NA | NA [5] [6] 513 | 513 [6] [7] 1175 - [8] 1225 - [9] NA - [10] 1150 - [11] NA - [12] 513 - [13] 1175 - ... ... ... and 215 more ... `actual[[3]]$wt.loss[4:228]`: 11 0 0 NA 15 15 11 0 0 NA and 215 more... `expected[[3]]$wt.loss[4:6]`: 11 0 0 ... actual[[3]]$.fitted | expected[[3]]$.fitted [4] 0.109734054332253 | 0.109734054332253 [4] [5] 0.160870049868487 | 0.160870049868487 [5] [6] 0.399504695704246 | 0.399504695704246 [6] [7] -0.215985812476607 - [8] -0.164849816940373 - [9] 0.0415527269506082 - [10] 0.177915381713899 - [11] 0.109734054332253 - [12] -0.215985812476607 - [13] -0.215985812476607 - ... ... ... and 215 more ... Subsetting data before vs after augmentation must not effect results. i.e. we must have results(head(newdata)) == head(results(newdata)) Backtrace: ▆ 1. └─modeltests::check_augment_function(...) at test-survival-coxph.R:79:3 2. └─modeltests:::check_augment_data_specification(...) 3. └─testthat::expect_equal(...) ── Error ('test-survival-coxph.R:79:3'): augment.coxph ───────────────────────── Error in `data.frame(..., check.names = FALSE)`: arguments imply differing number of rows: 229, 228 Backtrace: ▆ 1. └─modeltests::check_augment_function(...) at test-survival-coxph.R:79:3 2. └─modeltests:::check_augment_data_specification(...) 3. └─broom (local) aug(model, data = dl$tibble, newdata = new_dl$tibble) 4. └─broom::augment_columns(...) 5. ├─tibble::as_tibble(cbind(original, ret)) 6. └─base::cbind(original, ret) 7. └─base::cbind(deparse.level, ...) 8. └─base::data.frame(..., check.names = FALSE) [ FAIL 2 | WARN 1 | SKIP 99 | PASS 934 ] Error: ! Test failures. Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Version: 1.0.13
Check: whether package can be installed
Result: ERROR Installation failed. Flavor: r-devel-linux-x86_64-fedora-clang