ggplot2: Create Elegant Data Visualisations Using the Grammar of Graphics

activAnalyzer

Version: 2.1.1
GitHub: https://github.com/pydemull/activAnalyzer
Source code: https://github.com/cran/activAnalyzer
Date/Publication: 2024-05-05 22:40:03 UTC
Number of recursive dependencies: 148

Run revdepcheck::cloud_details(, "activAnalyzer") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘activAnalyzer.Rmd’ ... > p3 <- accum_metrics_sed$p_UBD

p4 <- accum_metrics_sed$p_gini

(p1 | p2)/(p3 | p4) + plot_layout(guides = "collect") & + theme(legend.position = "bottom")

When sourcing ‘activAnalyzer.R’: Error: object is not a unit Execution halted

‘activAnalyzer.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘activAnalyzer.Rmd’ using rmarkdown

checking installed package size ... NOTE installed size is 5.8Mb sub-directories of 1Mb or more: R 1.5Mb doc 1.0Mb extdata 2.0Mb

actxps

Version: 1.5.0
GitHub: https://github.com/mattheaphy/actxps
Source code: https://github.com/cran/actxps
Date/Publication: 2024-06-25 12:40:02 UTC
Number of recursive dependencies: 130

Run revdepcheck::cloud_details(, "actxps") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘actxps.Rmd’ ... # ℹ 2 more variables: ae_expected_1 , ae_expected_2

autoplot(exp_res) Warning: thematic was unable to resolve bg='auto'. Try providing an actual color (or NA) to the bg argument of thematic_on(). By the way, 'auto' is only officially supported in shiny::renderPlot(), some rmarkdown scenarios (specifically, html_document() with theme!=NULL), in RStudio, or if auto_config_set() is used. Warning: thematic was unable to resolve fg='auto'. Try providing an actual color (or NA) to the fg argument of thematic_on(). By the way, 'auto' is only officially supported in shiny::renderPlot(), some rmarkdown scenarios (specifically, html_document() with theme!=NULL), in RStudio, or if auto_config_set() is used. Warning: thematic was unable to resolve accent='auto'. Try providing an actual color (or NA) to the accent argument of thematic_on(). By the way, 'auto' is only officially supported in shiny::renderPlot(), some rmarkdown scenarios (specifically, html_document() with theme!=NULL), in RStudio, or if auto_config_set() is used.

...

When sourcing ‘transactions.R’: Error: Internal error: adjust_color() expects an input of length 1 Execution halted

‘actxps.Rmd’ using ‘UTF-8’... failed ‘exp_summary.Rmd’ using ‘UTF-8’... OK ‘exposures.Rmd’ using ‘UTF-8’... OK ‘misc.Rmd’ using ‘UTF-8’... failed ‘transactions.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE `` Error(s) in re-building vignettes: --- re-building ‘actxps.Rmd’ using rmarkdown Warning: thematic was unable to resolvebg='auto'. Try providing an actual color (orNA) to thebgargument ofthematic_on(). By the way, 'auto' is only officially supported inshiny::renderPlot(), some rmarkdown scenarios (specifically,html_document()withtheme!=NULL), in RStudio, or ifauto_config_set()is used. Warning: thematic was unable to resolvefg='auto'. Try providing an actual color (orNA) to thefgargument ofthematic_on(). By the way, 'auto' is only officially supported inshiny::renderPlot(), some rmarkdown scenarios (specifically,html_document()withtheme!=NULL), in RStudio, or ifauto_config_set()is used. Warning: thematic was unable to resolveaccent='auto'. Try providing an actual color (orNA) to theaccentargument ofthematic_on(). By the way, 'auto' is only officially supported inshiny::renderPlot(), some rmarkdown scenarios (specifically,html_document()withtheme!=NULL), in RStudio, or ifauto_config_set()` is used.

Quitting from lines 129-130 [plot] (actxps.Rmd) Error: processing vignette 'actxps.Rmd' failed with diagnostics: Internal error: adjust_color() expects an input of length 1 --- failed re-building ‘actxps.Rmd’ ... Quitting from lines 205-211 [trx-plot] (transactions.Rmd) Error: processing vignette 'transactions.Rmd' failed with diagnostics: Internal error: adjust_color() expects an input of length 1 --- failed re-building ‘transactions.Rmd’

SUMMARY: processing the following files failed: ‘actxps.Rmd’ ‘misc.Rmd’ ‘transactions.Rmd’

Error: Vignette re-building failed. Execution halted ```

adaptr

Version: 1.4.0
GitHub: https://github.com/INCEPTdk/adaptr
Source code: https://github.com/cran/adaptr
Date/Publication: 2024-05-03 12:10:02 UTC
Number of recursive dependencies: 74

Run revdepcheck::cloud_details(, "adaptr") for more info

checking examples ... ERROR ``` Running examples in ‘adaptr-Ex.R’ failed The error most likely occurred in:

Name: plot_history

Title: Plot trial metric history

Aliases: plot_history plot_history.trial_result

plot_history.trial_results

** Examples

... + # Run a single simulation with a fixed random seed + res <- run_trial(binom_trial, seed = 12345) + + # Plot total allocations to each arm according to overall total allocations + plot_history(res, x_value = "total n", y_value = "n") + + } Error in if (new_name %in% existing) { : argument is of length zero Calls: plot_history ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(adaptr) Loading 'adaptr' package v1.4.0. For instructions, type 'help("adaptr")' or see https://inceptdk.github.io/adaptr/. > > test_check("adaptr") ... • plot_history/history-plot-binomial-single-ratio-ys-look.svg • plot_metrics_ecdf/errors.svg • plot_metrics_ecdf/selected.svg • plot_metrics_ecdf/size-only.svg • plot_metrics_ecdf/superior.svg • plot_status/status-plot-across-arms-binomial.svg • plot_status/status-plot-for-all-arms-binomial.svg • plot_status/status-plot-for-arm-c-binom.svg Error: Test failures Execution halted
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Overview.Rmd’ ...

plot_convergence(calibrated_binom_trial$best_sims, + metrics = c("size mean", "prob_superior", "prob_equivalence"), + n_split = 4)

plot_status(calibrated_binom_trial$best_sims, x_value = "total n")

When sourcing ‘Overview.R’: Error: argument is of length zero Execution halted

‘Advanced-example.Rmd’ using ‘UTF-8’... OK ‘Basic-examples.Rmd’ using ‘UTF-8’... OK ‘Overview.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘Advanced-example.Rmd’ using rmarkdown

AeRobiology

Version: 2.0.1
GitHub: NA
Source code: https://github.com/cran/AeRobiology
Date/Publication: 2019-06-03 06:20:03 UTC
Number of recursive dependencies: 98

Run revdepcheck::cloud_details(, "AeRobiology") for more info

checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘my-vignette.Rmd’ using rmarkdown

checking running R code from vignettes ... ERROR `` Errors in running code in vignettes: when running code in ‘my-vignette.Rmd’ ... Warning: Ignoring unknown labels: •size = "14"`

iplot_abundance(munich_pollen, interpolation = FALSE, + export.plot = FALSE, export.result = FALSE, n.types = 3, + y.start = 2011, y.end = .... [TRUNCATED]

When sourcing ‘my-vignette.R’: Error: subscript out of bounds Execution halted

‘my-vignette.Rmd’ using ‘UTF-8’... failed ```

agricolaeplotr

Version: 0.5.0
GitHub: https://github.com/jensharbers/agricolaeplotr
Source code: https://github.com/cran/agricolaeplotr
Date/Publication: 2024-01-17 16:42:04 UTC
Number of recursive dependencies: 144

Run revdepcheck::cloud_details(, "agricolaeplotr") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(agricolaeplotr)

Type 'citation("agricolaeplotr")' for citing this R package in publications.

Attaching package: 'agricolaeplotr'

... expected is a character vector ('ROW') ── Failure ('testall.R:847:3'): plot a plot design from FielDHub package shows COLUMN as x axis ── p$labels$x (actual) not identical to "COLUMN" (expected).

actual is NULL expected is a character vector ('COLUMN')

[ FAIL 30 | WARN 92 | SKIP 0 | PASS 107 ] Error: Test failures Execution halted ```

alien

Version: 1.0.2
GitHub: NA
Source code: https://github.com/cran/alien
Date/Publication: 2024-06-19 16:20:02 UTC
Number of recursive dependencies: 91

Run revdepcheck::cloud_details(, "alien") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘basic_usage.Rmd’ ... 2 0.3330822 6.848124e-06 1.620061e+04 3 0.3377835 1.902532e-07 5.997150e+05 4 0.3425512 5.285577e-09 2.220028e+07

plot_snc(model, cumulative = T) + coord_cartesian(ylim = c(0, + 150)) + scale_y_continuous(breaks = seq(0, 150, 50)) + ylab("Cumulative discove ..." ... [TRUNCATED]

When sourcing ‘basic_usage.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘basic_usage.Rmd’ using ‘UTF-8’... failed ‘native_discoveries.Rmd’ using ‘UTF-8’... OK ‘simulations.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘basic_usage.Rmd’ using rmarkdown

AlphaPart

Version: 0.9.8
GitHub: NA
Source code: https://github.com/cran/AlphaPart
Date/Publication: 2022-11-15 21:40:05 UTC
Number of recursive dependencies: 83

Run revdepcheck::cloud_details(, "AlphaPart") for more info

checking examples ... ERROR ``` Running examples in ‘AlphaPart-Ex.R’ failed The error most likely occurred in:

Name: print.plotSummaryAlphaPart

Title: Print a plot generate by the function 'plotSummaryAlphaPart'

Aliases: print.plotSummaryAlphaPart

** Examples

Partition additive genetic values

... 4 4 1 105.00000 66 39.00000

Plot the partitions

p <- plot(ret, ylab=c("BV for trait 1", "BV for trait 2"), xlab="Generation") print(p[[1]]) Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: print ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘alphapart-variance.Rmd’ ...

data <- readRDS("./../inst/extdata/AlphaPartCattleSim.rds") %>% + dplyr::mutate(across(generation:mother, as.numeric)) %>% + dplyr::rename .... [TRUNCATED] Warning in gzfile(file, "rb") : cannot open compressed file './../inst/extdata/AlphaPartCattleSim.rds', probable reason 'No such file or directory'

When sourcing ‘alphapart-variance.R’: Error: cannot open the connection Execution halted

‘alphapart-variance.Rmd’ using ‘UTF-8’... failed ‘alphapart-vignette.Rmd’ using ‘UTF-8’... OK ```

AnalysisLin

Version: 0.1.2
GitHub: NA
Source code: https://github.com/cran/AnalysisLin
Date/Publication: 2024-01-30 00:10:10 UTC
Number of recursive dependencies: 119

Run revdepcheck::cloud_details(, "AnalysisLin") for more info

checking examples ... ERROR ``` Running examples in ‘AnalysisLin-Ex.R’ failed The error most likely occurred in:

Name: bar_plot

Title: Bar Plots for Categorical Variables

Aliases: bar_plot

** Examples

data(iris) bar_plot(iris) Error in pm[[2]] : subscript out of bounds Calls: bar_plot ... plotly_build -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ```

animbook

Version: 1.0.0
GitHub: https://github.com/KrisanatA/animbook
Source code: https://github.com/cran/animbook
Date/Publication: 2023-12-05 17:50:07 UTC
Number of recursive dependencies: 88

Run revdepcheck::cloud_details(, "animbook") for more info

checking examples ... ERROR ``` Running examples in ‘animbook-Ex.R’ failed The error most likely occurred in:

Name: anim_animate

Title: Modified the ggplot object

Aliases: anim_animate

** Examples

animbook <- anim_prep(data = osiris, id = ID, values = sales, time = year, group = japan) ... transform it into an animated object

animate <- anim_animate(plot) You can now pass it to gganimate::animate(). The recommended setting is nframes = 89

plotly::ggplotly(animate) Error in pm[[2]] : subscript out of bounds Calls: -> ggplotly.ggplot -> gg2list Execution halted ```

ANN2

Version: 2.3.4
GitHub: https://github.com/bflammers/ANN2
Source code: https://github.com/cran/ANN2
Date/Publication: 2020-12-01 10:00:02 UTC
Number of recursive dependencies: 52

Run revdepcheck::cloud_details(, "ANN2") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(ANN2) > > # Only test if not on mac > if (tolower(Sys.info()[["sysname"]]) != "darwin") {
- test_check("ANN2")
- } ... ── Failure ('test-plotting.R:59:3'): the reconstruction_plot.ANN() function works correctly ── p_AE$labels$colour not equal to "col". target is NULL, current is character ── Failure ('test-plotting.R:77:3'): the compression_plot.ANN() function works correctly ── p_AE$labels$colour not equal to "col". target is NULL, current is character
[ FAIL 5 | WARN 1 | SKIP 4 | PASS 143 ] Error: Test failures Execution halted ```

checking C++ specification ... NOTE Specified C++11: please drop specification unless essential
checking installed package size ... NOTE installed size is 58.9Mb sub-directories of 1Mb or more: cereal 1.4Mb libs 57.3Mb
checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory

AnnoProbe

Version: 0.1.7
GitHub: https://github.com/jmzeng1314/AnnoProbe
Source code: https://github.com/cran/AnnoProbe
Date/Publication: 2022-11-14 08:30:11 UTC
Number of recursive dependencies: 121

Run revdepcheck::cloud_details(, "AnnoProbe") for more info

checking examples ... ERROR ``` Running examples in ‘AnnoProbe-Ex.R’ failed The error most likely occurred in:

Name: check_diff_genes

Title: Check a list of genes how they show difference.

Aliases: check_diff_genes

** Examples

attach(GSE95166) ... 11. │ └─ggplot2:::+.gg(...) 12. │ └─ggplot2:::add_ggplot(e1, e2, e2name) 13. │ ├─ggplot2::ggplot_add(object, p, objectname) 14. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 15. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 16. └─base::.handleSimpleError(...) 17. └─purrr (local) h(simpleError(msg, call)) 18. └─cli::cli_abort(...) 19. └─rlang::abort(...) Execution halted ```

ANOFA

Version: 0.1.3
GitHub: https://github.com/dcousin3/ANOFA
Source code: https://github.com/cran/ANOFA
Date/Publication: 2023-11-18 14:20:08 UTC
Number of recursive dependencies: 81

Run revdepcheck::cloud_details(, "ANOFA") for more info

checking examples ... ERROR ``` Running examples in ‘ANOFA-Ex.R’ failed The error most likely occurred in:

Name: Gillet1993

Title: Gillet1993

Aliases: Gillet1993

Keywords: datasets

** Examples

...

run the base analysis

w <- anofa( Freq ~ species * location * florished, Gillet1993)

display a plot of the results

anofaPlot(w) superb::FYI: The variables will be plotted in that order: species, location, florished (use factorOrder to change). Error in superb::superbPlot(cdata, BSFactors = bsfact, variables = as.character(w$freqColumn), : superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting... Calls: anofaPlot -> Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > test_check("ANOFA") Loading required package: ANOFA [ FAIL 3 | WARN 0 | SKIP 0 | PASS 149 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-ANOFA-2.R:36:5'): TESTS of emFrequencies function (2/3) ──────── ... statistic = "count", errorbar = "CI", gamma = confidenceLevel, plotStyle = plotStyle, errorbarParams = errorbarParams, ...)`: superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting... Backtrace: ▆ 1. └─ANOFA::anofaPlot(w, Freq ~ B) at test-ANOFA-3.R:46:5 2. └─superb::superbPlot(...)

[ FAIL 3 | WARN 0 | SKIP 0 | PASS 149 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘ConfidenceIntervals.Rmd’ ... > library(ANOFA)

w <- anofa(obsfreq ~ vocation * gender, LightMargolin1971)

anofaPlot(w) superb::FYI: The variables will be plotted in that order: vocation, gender (use factorOrder to change).

...

anofaPlot(w)

When sourcing ‘WhatIsANOFA.R’: Error: superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting... Execution halted

‘ConfidenceIntervals.Rmd’ using ‘UTF-8’... failed ‘DataFormatsForFrequencies.Rmd’ using ‘UTF-8’... OK ‘WhatIsANOFA.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘ConfidenceIntervals.Rmd’ using rmarkdown

Quitting from lines 70-73 [unnamed-chunk-2] (ConfidenceIntervals.Rmd) Error: processing vignette 'ConfidenceIntervals.Rmd' failed with diagnostics: superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting... --- failed re-building ‘ConfidenceIntervals.Rmd’

--- re-building ‘DataFormatsForFrequencies.Rmd’ using rmarkdown ... Quitting from lines 108-109 [unnamed-chunk-4] (WhatIsANOFA.Rmd) Error: processing vignette 'WhatIsANOFA.Rmd' failed with diagnostics: superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting... --- failed re-building ‘WhatIsANOFA.Rmd’

SUMMARY: processing the following files failed: ‘ConfidenceIntervals.Rmd’ ‘WhatIsANOFA.Rmd’

Error: Vignette re-building failed. Execution halted ```

ANOPA

Version: 0.1.3
GitHub: https://github.com/dcousin3/ANOPA
Source code: https://github.com/cran/ANOPA
Date/Publication: 2024-03-22 19:40:05 UTC
Number of recursive dependencies: 81

Run revdepcheck::cloud_details(, "ANOPA") for more info

checking examples ... ERROR ``` Running examples in ‘ANOPA-Ex.R’ failed The error most likely occurred in:

Name: ArringtonEtAl2002

Title: Arrington et al. (2002) dataset

Aliases: ArringtonEtAl2002

Keywords: datasets

** Examples

... Africa Nocturnal Omnivore 0 0 North America Nocturnal Detritivore 0 0 Warning: ANOPA::warning(1): Some cells have zero over zero data. Imputing...

make a plot with all the factors

anopaPlot(w) Error in superb::superbPlot(wdata, BSFactors = bsfact, WSFactors = wsfact, : superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting... Calls: anopaPlot -> Execution halted ```
checking tests ... ERROR `` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > test_check("ANOPA") Loading required package: ANOPA ------------------------------------------------------------ Design is: 2 x ( 3 ) with 2 independent groups. ------------------------------------------------------------ 1.Between-Subject Factors ( 2 groups ) : ... 1) "UA" else "none"), plotStyle = plotStyle, errorbarParams = errorbarParams, ...): superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting... Backtrace: ▆
1. └─ANOPA::anopaPlot(w) at test-ANOPA-4.R:106:9
2. └─superb::superbPlot(...)
[ FAIL 2 | WARN 0 | SKIP 0 | PASS 131 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘A-WhatIsANOPA.Rmd’ ... > w <- anopa({
- nSuccess
- nParticipants
- } ~ DistractingTask, ArticleExample1)
anopaPlot(w)

... When sourcing ‘E-ArcsineIsAsinine.R’: Error: superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting... Execution halted

‘A-WhatIsANOPA.Rmd’ using ‘UTF-8’... failed ‘B-DataFormatsForProportions.Rmd’ using ‘UTF-8’... OK ‘C-ConfidenceIntervals.Rmd’ using ‘UTF-8’... failed ‘D-ArringtonExample.Rmd’ using ‘UTF-8’... failed ‘E-ArcsineIsAsinine.Rmd’ using ‘UTF-8’... failed ‘F-TestingTypeIError.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘A-WhatIsANOPA.Rmd’ using rmarkdown

Quitting from lines 182-183 [unnamed-chunk-5] (A-WhatIsANOPA.Rmd) Error: processing vignette 'A-WhatIsANOPA.Rmd' failed with diagnostics: superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting... --- failed re-building ‘A-WhatIsANOPA.Rmd’

--- re-building ‘B-DataFormatsForProportions.Rmd’ using rmarkdown --- finished re-building ‘B-DataFormatsForProportions.Rmd’ ...

--- re-building ‘F-TestingTypeIError.Rmd’ using rmarkdown --- finished re-building ‘F-TestingTypeIError.Rmd’

SUMMARY: processing the following files failed: ‘A-WhatIsANOPA.Rmd’ ‘C-ConfidenceIntervals.Rmd’ ‘D-ArringtonExample.Rmd’ ‘E-ArcsineIsAsinine.Rmd’

Error: Vignette re-building failed. Execution halted ```

AntMAN

Version: 1.1.0
GitHub: https://github.com/bbodin/AntMAN
Source code: https://github.com/cran/AntMAN
Date/Publication: 2021-07-23 10:00:02 UTC
Number of recursive dependencies: 80

Run revdepcheck::cloud_details(, "AntMAN") for more info

checking examples ... ERROR ``` Running examples in ‘AntMAN-Ex.R’ failed The error most likely occurred in:

Name: AM_mix_hyperparams_uninorm

Title: univariate Normal mixture hyperparameters

Aliases: AM_mix_hyperparams_uninorm

** Examples

... Press [enter] to continue Plotting pmf for M,K NULL Press [enter] to continue Plotting traces from M,K Press [enter] to continue Plotting values from M,K Error in if (new_name %in% existing) { : argument is of length zero Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR Running ‘UnitTest_AM_binder.R’ Running ‘UnitTest_AM_coclustering.R’ Running ‘UnitTest_AM_demo.R’ Running ‘UnitTest_AM_extract.R’ Running ‘UnitTest_AM_mcmc.R’ Running the tests in ‘tests/UnitTest_AM_mcmc.R’ failed. Complete output: > ####################################################################################### > ############### > ############### AntMAN Package : Tests and Examples ... Press [enter] to continue Plotting pmf for M,K NULL Press [enter] to continue Plotting traces from M,K Press [enter] to continue Plotting values from M,K Error in if (new_name %in% existing) { : argument is of length zero Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted

checking C++ specification ... NOTE Specified C++11: please drop specification unless essential
checking installed package size ... NOTE installed size is 6.8Mb sub-directories of 1Mb or more: libs 6.4Mb
checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘Rdpack’ ‘mcclust’ All declared Imports should be used.

APCI

Version: 1.0.8
GitHub: NA
Source code: https://github.com/cran/APCI
Date/Publication: 2024-09-02 20:20:06 UTC
Number of recursive dependencies: 73

Run revdepcheck::cloud_details(, "APCI") for more info

checking tests ... ERROR Running ‘1_tests.R’ Running the tests in ‘tests/1_tests.R’ failed. Complete output: > # install the package and use this script to test the package > library("APCI") > # or: remotes::install_github("jiahui1902/APCI") > test_data <- APCI::women9017 > test_data$acc <- as.factor(test_data$acc) > test_data$pcc <- as.factor(test_data$pcc) > test_data$educc <- as.factor(test_data$educc) ... -0.335818939 0.165402344 0.138957101 -0.357703237 0.229441985 acc8:pcc3 acc9:pcc3 acc1:pcc4 acc2:pcc4 acc3:pcc4 -0.147848556 0.146360984 -0.436635793 0.062363971 0.289676120 acc4:pcc4 acc5:pcc4 acc6:pcc4 acc7:pcc4 acc8:pcc4 0.266502847 0.199035811 -0.082410026 -0.140171983 -0.274808726 acc9:pcc4 acc1:pcc5 acc2:pcc5 acc3:pcc5 acc4:pcc5 0.070541348 0.052280642 0.320968547 -0.136111903 -0.102002632 acc5:pcc5 acc6:pcc5 acc7:pcc5 acc8:pcc5 acc9:pcc5 -0.553458810 -0.333938836 0.340338956 0.670285259 -0.300340437 Killed

aplot

Version: 0.2.3
GitHub: https://github.com/YuLab-SMU/aplot
Source code: https://github.com/cran/aplot
Date/Publication: 2024-06-17 09:50:01 UTC
Number of recursive dependencies: 50

Run revdepcheck::cloud_details(, "aplot") for more info

checking examples ... ERROR ``` Running examples in ‘aplot-Ex.R’ failed The error most likely occurred in:

Name: insert_left

Title: plot-insertion

Aliases: insert_left insert_right insert_top insert_bottom

** Examples

library(ggplot2) ... ap ap[2, 1] <- ap[2, 1] + theme_bw() ap[2, 1] <- ap[2, 1] + + aes(color = as.factor(am)) + + scale_color_manual(values = c('steelblue', 'darkgreen')) ap[1, 1] <- ap[1, 1] + theme(axis.line.x.bottom=element_line()) ap Error in identicalUnits(x) : object is not a unit Calls: ... assemble_guides -> guides_build -> unit.c -> identicalUnits Execution halted ```

applicable

Version: 0.1.1
GitHub: https://github.com/tidymodels/applicable
Source code: https://github.com/cran/applicable
Date/Publication: 2024-04-25 00:00:04 UTC
Number of recursive dependencies: 116

Run revdepcheck::cloud_details(, "applicable") for more info

checking tests ... ERROR `` Running ‘spelling.R’ Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(applicable) Loading required package: ggplot2 > > test_check("applicable") Loading required package: dplyr ...expectedis a character vector ('percentile') ── Failure ('test-plot.R:36:3'): output of autoplot.apd_pca is correct when options=distance are provided ── ad_plot$labels$y (actual) not equal to "percentile" (expected`).

actual is NULL expected is a character vector ('percentile')

[ FAIL 3 | WARN 0 | SKIP 22 | PASS 90 ] Error: Test failures Execution halted ```

ASRgenomics

Version: 1.1.4
GitHub: NA
Source code: https://github.com/cran/ASRgenomics
Date/Publication: 2024-01-29 21:20:02 UTC
Number of recursive dependencies: 136

Run revdepcheck::cloud_details(, "ASRgenomics") for more info

checking examples ... ERROR ``` Running examples in ‘ASRgenomics-Ex.R’ failed The error most likely occurred in:

Name: kinship.pca

Title: Performs a Principal Component Analysis (PCA) based on a kinship

matrix K

Aliases: kinship.pca

** Examples

... 13. │ └─ggplot2:::+.gg(...) 14. │ └─ggplot2:::add_ggplot(e1, e2, e2name) 15. │ ├─ggplot2::ggplot_add(object, p, objectname) 16. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 17. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 18. └─base::.handleSimpleError(...) 19. └─purrr (local) h(simpleError(msg, call)) 20. └─cli::cli_abort(...) 21. └─rlang::abort(...) Execution halted ```
checking tests ... ERROR ``` Running ‘spelling.R’ Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/tests.html ...
1. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname)
2. │ └─ggplot2:::new_layer_names(object, names(plot$layers))
3. └─base::.handleSimpleError(...)
4. └─purrr (local) h(simpleError(msg, call))
5. └─cli::cli_abort(...)
6. └─rlang::abort(...)
[ FAIL 2 | WARN 2 | SKIP 0 | PASS 249 ] Error: Test failures Execution halted ```

checking installed package size ... NOTE installed size is 8.9Mb sub-directories of 1Mb or more: data 8.5Mb

autocogs

Version: 0.1.4
GitHub: https://github.com/schloerke/autocogs
Source code: https://github.com/cran/autocogs
Date/Publication: 2021-05-29 17:00:05 UTC
Number of recursive dependencies: 74

Run revdepcheck::cloud_details(, "autocogs") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(autocogs) > > test_check("autocogs") [ FAIL 1 | WARN 1 | SKIP 0 | PASS 228 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ... 8. └─autocogs (local) FUN(X[[i]], ...) 9. └─base::lapply(...) 10. └─autocogs (local) FUN(X[[i]], ...) 11. ├─base::do.call(fn, args) 12. └─autocogs (local) <fn>(...) 13. └─base::do.call(loess, c(core_params, params$method.args))

[ FAIL 1 | WARN 1 | SKIP 0 | PASS 228 ] Error: Test failures Execution halted ```

checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘MASS’ ‘broom’ ‘diptest’ ‘ggplot2’ ‘hexbin’ ‘moments’ All declared Imports should be used.

autoplotly

Version: 0.1.4
GitHub: https://github.com/terrytangyuan/autoplotly
Source code: https://github.com/cran/autoplotly
Date/Publication: 2021-04-18 06:50:11 UTC
Number of recursive dependencies: 88

Run revdepcheck::cloud_details(, "autoplotly") for more info

checking examples ... ERROR ``` Running examples in ‘autoplotly-Ex.R’ failed The error most likely occurred in:

Name: autoplotly

Title: Automatic Visualization of Popular Statistical Results Using

'plotly.js' and 'ggplot2'

Aliases: autoplotly

** Examples

Automatically generate interactive plot for results produced by stats::prcomp

p <- autoplotly(prcomp(iris[c(1, 2, 3, 4)]), data = iris, + colour = 'Species', label = TRUE, label.size = 3, frame = TRUE) Error in if (new_name %in% existing) { : argument is of length zero Calls: autoplotly ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(autoplotly) > > test_check("autoplotly") [ FAIL 3 | WARN 0 | SKIP 0 | PASS 1 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ... 5. └─ggfortify::ggbiplot(...) 6. └─ggplot2:::+.gg(...) 7. └─ggplot2:::add_ggplot(e1, e2, e2name) 8. ├─ggplot2::ggplot_add(object, p, objectname) 9. └─ggplot2:::ggplot_add.Layer(object, p, objectname) 10. └─ggplot2:::new_layer_names(object, names(plot$layers))

[ FAIL 3 | WARN 0 | SKIP 0 | PASS 1 ] Error: Test failures Execution halted ```

autoReg

Version: 0.3.3
GitHub: https://github.com/cardiomoon/autoReg
Source code: https://github.com/cran/autoReg
Date/Publication: 2023-11-14 05:53:27 UTC
Number of recursive dependencies: 214

Run revdepcheck::cloud_details(, "autoReg") for more info

checking examples ... ERROR ``` Running examples in ‘autoReg-Ex.R’ failed The error most likely occurred in:

Name: adjustedPlot.survreg

Title: Draw predicted survival curve with an object survreg

Aliases: adjustedPlot.survreg

** Examples

library(survival) x=survreg(Surv(time, status) ~ rx, data=anderson,dist="exponential") adjustedPlot(x) adjustedPlot(x,addCox=TRUE) Warning: Removed 42 rows containing missing values or values outside the scale range (geom_line()). Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Automatic_Regression_Modeling.Rmd’ ... Species setosa (N=50) Mean ± SD 5.0 ± 0.4 versicolor (N=50) Mean ± SD 5.9 ± 0.5 1.46 (1.24 to 1.68, p<.001) 1.44 (1.16 to 1.71, p<.001) 1.47 (1.23 to 1.70, p<.001) virginica (N=50) Mean ± SD 6.6 ± 0.6 1.95 (1.75 to 2.14, p<.001) 1.87 (1.62 to 2.11, p<.001) 1.97 (1.76 to 2.17, p<.001) ————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————

modelPlot(fit1, imputed = TRUE)

...

When sourcing ‘Survival.R’: Error: argument is of length zero Execution halted

‘Automatic_Regression_Modeling.Rmd’ using ‘UTF-8’... failed ‘Bootstrap_Prediction.Rmd’ using ‘UTF-8’... OK ‘Getting_started.Rmd’ using ‘UTF-8’... failed ‘Statiastical_test_in_gaze.Rmd’ using ‘UTF-8’... OK ‘Survival.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘Automatic_Regression_Modeling.Rmd’ using rmarkdown

Quitting from lines 142-143 [unnamed-chunk-15] (Automatic_Regression_Modeling.Rmd) Error: processing vignette 'Automatic_Regression_Modeling.Rmd' failed with diagnostics: object is not a unit --- failed re-building ‘Automatic_Regression_Modeling.Rmd’

--- re-building ‘Bootstrap_Prediction.Rmd’ using rmarkdown ```

baggr

Version: 0.7.8
GitHub: https://github.com/wwiecek/baggr
Source code: https://github.com/cran/baggr
Date/Publication: 2024-02-12 18:20:02 UTC
Number of recursive dependencies: 104

Run revdepcheck::cloud_details(, "baggr") for more info

checking examples ... ERROR ``` Running examples in ‘baggr-Ex.R’ failed The error most likely occurred in:

Name: baggr_plot

Title: Plotting method in baggr package

Aliases: baggr_plot

** Examples

fit <- baggr(schools, pooling = "none") Automatically chose Rubin model with aggregate data based on input data. Setting prior for mean in each group using 10 times the max effect : ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(baggr) Loading required package: Rcpp This is baggr; see vignette('baggr') for tutorial, ?baggr for basic help. For execution on a local, multicore CPU with excess RAM call: options(mc.cores = parallel::detectCores()) > ...
1. └─bayesplot::mcmc_areas(...)
2. └─ggplot2:::+.gg(...)
3. └─ggplot2:::add_ggplot(e1, e2, e2name)
4. ├─ggplot2::ggplot_add(object, p, objectname)
5. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
6. └─ggplot2:::new_layer_names(object, names(plot$layers))
[ FAIL 6 | WARN 0 | SKIP 6 | PASS 488 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘baggr.Rmd’ ... 2.5% 0.4303903 mean 0.8619752 97.5% 0.9998572

plot(baggr_schools, order = FALSE)

When sourcing ‘baggr.R’: Error: argument is of length zero Execution halted

‘baggr.Rmd’ using ‘UTF-8’... failed ‘baggr_binary.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘baggr.Rmd’ using rmarkdown

Quitting from lines 272-273 [unnamed-chunk-9] (baggr.Rmd) Error: processing vignette 'baggr.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘baggr.Rmd’

--- re-building ‘baggr_binary.Rmd’ using rmarkdown --- finished re-building ‘baggr_binary.Rmd’

SUMMARY: processing the following file failed: ‘baggr.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking installed package size ... NOTE installed size is 196.3Mb sub-directories of 1Mb or more: libs 194.5Mb
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

banter

Version: 0.9.6
GitHub: NA
Source code: https://github.com/cran/banter
Date/Publication: 2023-02-12 21:32:29 UTC
Number of recursive dependencies: 95

Run revdepcheck::cloud_details(, "banter") for more info

checking examples ... ERROR ``` Running examples in ‘banter-Ex.R’ failed The error most likely occurred in:

Name: plotDetectorTrace

Title: Plot BANTER Detector Traces

Aliases: plotDetectorTrace

** Examples

data(train.data) ... bant.mdl <- addBanterDetector( + bant.mdl, train.data$detectors, + ntree = 50, sampsize = 1, num.cores = 1 + )

plotDetectorTrace(bant.mdl) Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: plotDetectorTrace ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```

bartMan

Version: 0.1.1
GitHub: NA
Source code: https://github.com/cran/bartMan
Date/Publication: 2024-07-24 12:10:02 UTC
Number of recursive dependencies: 135

Run revdepcheck::cloud_details(, "bartMan") for more info

checking examples ... ERROR ``` Running examples in ‘bartMan-Ex.R’ failed The error most likely occurred in:

Name: mdsBart

Title: mdsBart

Aliases: mdsBart

** Examples

if (requireNamespace("dbarts", quietly = TRUE)) { ... | |======================================================================| 100% Extracting Observation Data...

Getting proximites... Getting MDS... Performing procrustes... Error in if (new_name %in% existing) { : argument is of length zero Calls: mdsBart -> suppressMessages -> withCallingHandlers Execution halted ```

BasketballAnalyzeR

Version: 0.5.0
GitHub: https://github.com/sndmrc/BasketballAnalyzeR
Source code: https://github.com/cran/BasketballAnalyzeR
Date/Publication: 2020-06-26 09:00:11 UTC
Number of recursive dependencies: 83

Run revdepcheck::cloud_details(, "BasketballAnalyzeR") for more info

checking examples ... ERROR ``` Running examples in ‘BasketballAnalyzeR-Ex.R’ failed The error most likely occurred in:

Name: scatterplot

Title: Draws a scatter plot or a matrix of scatter plots

Aliases: scatterplot

** Examples

Single scatter plot

... X <- data.frame(AST=Pbox.sel$AST/Pbox.sel$MIN,TOV=Pbox.sel$TOV/Pbox.sel$MIN) X$PTSpm <- Pbox.sel$PTS/Pbox.sel$MIN mypal <- colorRampPalette(c("blue","yellow","red")) scatterplot(X, data.var=c("AST","TOV"), z.var="PTSpm", labels=1:nrow(X), palette=mypal)

Matrix of scatter plots

data <- Pbox[1:50, c("PTS","P3M","P2M","OREB","Team")] scatterplot(data, data.var=1:4, z.var="Team") Error in if (new_name %in% existing) { : argument is of length zero Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

checking installed package size ... NOTE installed size is 6.9Mb sub-directories of 1Mb or more: data 6.5Mb
checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘circlize’ ‘hexbin’ ‘scales’ ‘sna’ All declared Imports should be used.

bayefdr

Version: 0.2.1
GitHub: https://github.com/VallejosGroup/bayefdr
Source code: https://github.com/cran/bayefdr
Date/Publication: 2022-10-26 19:35:06 UTC
Number of recursive dependencies: 96

Run revdepcheck::cloud_details(, "bayefdr") for more info

checking examples ... ERROR ``` Running examples in ‘bayefdr-Ex.R’ failed The error most likely occurred in:

Name: traceplot

Title: Trace, marginal density histogram, and autocorrelation plot of

MCMC draws.

Aliases: traceplot

** Examples

x <- rnorm(1000) traceplot(x) Error in if (new_name %in% existing) { : argument is of length zero Calls: traceplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(bayefdr) > > test_check("bayefdr") [ FAIL 1 | WARN 1 | SKIP 0 | PASS 14 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ... 8. └─base::Reduce(+, c(list(noGeomPlot), layers)) 9. └─ggplot2:::+.gg(init, x[[i]]) 10. └─ggplot2:::add_ggplot(e1, e2, e2name) 11. ├─ggplot2::ggplot_add(object, p, objectname) 12. └─ggplot2:::ggplot_add.Layer(object, p, objectname) 13. └─ggplot2:::new_layer_names(object, names(plot$layers))

[ FAIL 1 | WARN 1 | SKIP 0 | PASS 14 ] Error: Test failures Execution halted ```

bayesAB

Version: 1.1.3
GitHub: https://github.com/FrankPortman/bayesAB
Source code: https://github.com/cran/bayesAB
Date/Publication: 2021-06-25 00:50:02 UTC
Number of recursive dependencies: 74

Run revdepcheck::cloud_details(, "bayesAB") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(bayesAB) > > test_check("bayesAB") [ FAIL 1 | WARN 4 | SKIP 0 | PASS 140 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-dists.R:34:3'): Success ────────────────────────────────────── plotNormalInvGamma(3, 1, 1, 1)$labels$y not equal to "sig_sq". target is NULL, current is character

[ FAIL 1 | WARN 4 | SKIP 0 | PASS 140 ] Error: Test failures Execution halted ```

BayesGrowth

Version: 1.0.0
GitHub: https://github.com/jonathansmart/BayesGrowth
Source code: https://github.com/cran/BayesGrowth
Date/Publication: 2023-11-21 18:10:08 UTC
Number of recursive dependencies: 109

Run revdepcheck::cloud_details(, "BayesGrowth") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘MCMC-example.Rmd’ ... > ggplot(growth_curve, aes(Age, LAA)) + geom_point(data = example_data,
- aes(Age, Length), alpha = 0.3) + geom_lineribbon(aes(ymin = .lower,
- .... [TRUNCATED] Warning: Using size aesthetic for lines was deprecated in ggplot2 3.4.0. ℹ Please use linewidth instead.
When sourcing ‘MCMC-example.R’: Error: unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 14, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, FALSE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NUL Execution halted

‘MCMC-example.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘MCMC-example.Rmd’ using rmarkdown

checking installed package size ... NOTE installed size is 84.8Mb sub-directories of 1Mb or more: data 1.5Mb libs 82.6Mb
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

BayesianReasoning

Version: 0.4.2
GitHub: https://github.com/gorkang/BayesianReasoning
Source code: https://github.com/cran/BayesianReasoning
Date/Publication: 2023-11-14 11:33:20 UTC
Number of recursive dependencies: 107

Run revdepcheck::cloud_details(, "BayesianReasoning") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(BayesianReasoning) > > test_check("BayesianReasoning")

Plot created in: ./FP_10_sens_100_screening_1667_diagnostic_44.png

... names(expected) is absent ── Failure ('test-PPV_heatmap.R:1097:3'): Plot with line overlay ─────────────── vapply(p$result$layers, function(x) class(x$geom)[1], "") (actual) not identical to c("GeomTile", "GeomSegment", "GeomPoint", "GeomMarkRect") (expected).

names(actual) is a character vector ('geom_tile', 'annotate', 'annotate...3', 'geom_mark_rect') names(expected) is absent

[ FAIL 8 | WARN 56 | SKIP 4 | PASS 115 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR `` Errors in running code in vignettes: when running code in ‘PPV_NPV.Rmd’ ... ℹ Please consider usingannotate()or provide this layer with data containing a single row. Warning in ggforce::geom_mark_rect(aes(label = paste0(translated_labels$label_PPV_NPV, : All aesthetics have length 1, but the data has 10201 rows. ℹ Please consider usingannotate()` or provide this layer with data containing a single row.

When sourcing ‘PPV_NPV.R’: Error: object is not coercible to a unit Execution halted

‘PPV_NPV.Rmd’ using ‘UTF-8’... failed ‘introduction.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘PPV_NPV.Rmd’ using rmarkdown

BayesMallows

Version: 2.2.2
GitHub: https://github.com/ocbe-uio/BayesMallows
Source code: https://github.com/cran/BayesMallows
Date/Publication: 2024-08-17 13:00:03 UTC
Number of recursive dependencies: 82

Run revdepcheck::cloud_details(, "BayesMallows") for more info

checking tests ... ERROR `` Running ‘testthat.R’ 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 ...expectedis a character vector ('interaction(chain, cluster)') ── Failure ('test-assess_convergence.R:217:3'): assess_convergence.BayesMallowsMixtures works ── p$labels$colour (actual) not equal to "cluster" (expected`).

actual is NULL expected is a character vector ('cluster')

[ FAIL 10 | WARN 0 | SKIP 6 | PASS 435 ] Error: Test failures Execution halted ```

checking installed package size ... NOTE installed size is 23.7Mb sub-directories of 1Mb or more: doc 2.7Mb libs 20.1Mb

bayesplay

Version: 0.9.3
GitHub: https://github.com/bayesplay/bayesplay
Source code: https://github.com/cran/bayesplay
Date/Publication: 2023-04-13 12:10:02 UTC
Number of recursive dependencies: 84

Run revdepcheck::cloud_details(, "bayesplay") for more info

checking examples ... ERROR ``` Running examples in ‘bayesplay-Ex.R’ failed The error most likely occurred in:

Name: visual_compare

Title: Visually compare two models

Aliases: visual_compare

** Examples

define two models

... h1_mod <- prior(family = "normal", mean = 0, sd = 10) m0 <- extract_predictions(data_model * h0_mod) m1 <- extract_predictions(data_model * h1_mod)

visually compare the model

visual_compare(m0, m1) Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘advanced.Rmd’ ... > plot(posterior1, add_prior = TRUE) + labs(title = "prior and posterior distribution",
- subtitle = "for a binomial likelihood and beta prior") Warning in grid.Call(C_textBounds, as.graphicsAnnot(x$label), x$x, x$y, : conversion failure on 'ϴ' in 'mbcsToSbcs': dot substituted for Warning in grid.Call(C_textBounds, as.graphicsAnnot(x$label), x$x, x$y, : conversion failure on 'ϴ' in 'mbcsToSbcs': dot substituted for
...

visual_compare(d_model1, d_model2)

When sourcing ‘plots.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘advanced.Rmd’ using ‘UTF-8’... failed ‘basic.Rmd’ using ‘UTF-8’... OK ‘default_ttests.Rmd’ using ‘UTF-8’... OK ‘plots.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘advanced.Rmd’ using rmarkdown

bayesplot

Version: 1.11.1
GitHub: https://github.com/stan-dev/bayesplot
Source code: https://github.com/cran/bayesplot
Date/Publication: 2024-02-15 05:30:11 UTC
Number of recursive dependencies: 126

Run revdepcheck::cloud_details(, "bayesplot") for more info

checking examples ... ERROR ``` Running examples in ‘bayesplot-Ex.R’ failed The error most likely occurred in:

Name: MCMC-intervals

Title: Plot interval estimates from MCMC draws

Aliases: MCMC-intervals mcmc_intervals mcmc_areas mcmc_areas_ridges

mcmc_intervals_data mcmc_areas_data mcmc_areas_ridges_data

** Examples

...

$Parameter [1] "alpha" "sigma" "beta[1]" "beta[2]" "beta[3]" "beta[4]"

color_scheme_set("brightblue") mcmc_intervals(x) Error in if (new_name %in% existing) { : argument is of length zero Calls: mcmc_intervals ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(bayesplot) This is bayesplot version 1.11.1
- Online documentation and vignettes at mc-stan.org/bayesplot
- bayesplot theme set to bayesplot::theme_default()
  - Does not affect other ggplot2 plots
  - See ?bayesplot_theme_set for details on theme setting ...
  - └─bayesplot::ppc_violin_grouped(y, yrep, group)
  - └─ggplot2:::+.gg(...)
  - └─ggplot2:::add_ggplot(e1, e2, e2name)
  - ├─ggplot2::ggplot_add(object, p, objectname)
  - └─ggplot2:::ggplot_add.Layer(object, p, objectname)
- └─ggplot2:::new_layer_names(object, names(plot$layers))
[ FAIL 6 | WARN 1 | SKIP 73 | PASS 994 ] Error: Test failures Execution halted ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘plotting-mcmc-draws.Rmd’ ...

color_scheme_set("red")

mcmc_intervals(posterior, pars = c("cyl", "drat", + "am", "sigma"))

...

fit_cp <- sampling(schools_mod_cp, data = schools_dat, + seed = 803214055, control = list(adapt_delta = 0.9))

When sourcing ‘visual-mcmc-diagnostics.R’: Error: error in evaluating the argument 'object' in selecting a method for function 'sampling': object 'schools_mod_cp' not found Execution halted

‘graphical-ppcs.Rmd’ using ‘UTF-8’... OK ‘plotting-mcmc-draws.Rmd’ using ‘UTF-8’... failed ‘visual-mcmc-diagnostics.Rmd’ using ‘UTF-8’... failed ```
checking installed package size ... NOTE installed size is 8.6Mb sub-directories of 1Mb or more: R 4.0Mb doc 3.8Mb

bayestestR

Version: 0.14.0
GitHub: https://github.com/easystats/bayestestR
Source code: https://github.com/cran/bayestestR
Date/Publication: 2024-07-24 14:10:02 UTC
Number of recursive dependencies: 209

Run revdepcheck::cloud_details(, "bayestestR") for more info

checking examples ... ERROR ``` Running examples in ‘bayestestR-Ex.R’ failed The error most likely occurred in:

Name: bayesfactor_restricted

Title: Bayes Factors (BF) for Order Restricted Models

Aliases: bayesfactor_restricted bf_restricted

bayesfactor_restricted.stanreg bayesfactor_restricted.brmsfit

bayesfactor_restricted.blavaan bayesfactor_restricted.emmGrid

as.logical.bayesfactor_restricted

... + )

(b <- bayesfactor_restricted(posterior, hypothesis = hyps, prior = prior)) Bayes Factor (Order-Restriction)

Hypothesis P(Prior) P(Posterior) BF A > B & B > C 0.16 0.23 1.39 A > B & A > C 0.36 0.59 1.61 C > A 0.46 0.34 0.742 ```

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(bayestestR) > > test_check("bayestestR") Starting 2 test processes [ FAIL 3 | WARN 2 | SKIP 74 | PASS 180 ]

... 14. └─brms:::eval2(call, envir = args, enclos = envir) 15. └─base::eval(expr, envir, ...) 16. └─base::eval(expr, envir, ...) 17. └─rstan (local) .fun(model_code = .x1) 18. └─rstan:::cxxfunctionplus(...) 19. └─base::sink(type = "output")

[ FAIL 3 | WARN 2 | SKIP 74 | PASS 180 ] Error: Test failures Execution halted ```

BCEA

Version: 2.4.6
GitHub: https://github.com/n8thangreen/BCEA
Source code: https://github.com/cran/BCEA
Date/Publication: 2024-02-16 15:00:08 UTC
Number of recursive dependencies: 125

Run revdepcheck::cloud_details(, "BCEA") for more info

checking examples ... ERROR ``` Running examples in ‘BCEA-Ex.R’ failed The error most likely occurred in:

Name: ceac.plot.bcea

Title: Cost-Effectiveness Acceptability Curve (CEAC) Plot

Aliases: ceac.plot.bcea ceac.plot

Keywords: hplot

** Examples

... he <- BCEA::bcea(eff, cost) No reference selected. Defaulting to first intervention. ceac.plot(he)

ceac.plot(he, graph = "base") ceac.plot(he, graph = "ggplot2") Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(BCEA) The BCEA version loaded is: 2.4.6

Attaching package: 'BCEA'

The following object is masked from 'package:graphics': ... 3. └─BCEA:::eib_plot_ggplot(he, graph_params, ...) 4. └─ggplot2:::+.gg(...) 5. └─ggplot2:::add_ggplot(e1, e2, e2name) 6. ├─ggplot2::ggplot_add(object, p, objectname) 7. └─ggplot2:::ggplot_add.Layer(object, p, objectname) 8. └─ggplot2:::new_layer_names(object, names(plot$layers))

[ FAIL 1 | WARN 1 | SKIP 7 | PASS 159 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘CEriskav.Rmd’ ...

CEriskav(bcea_smoke) <- r

plot(bcea_smoke)

plot(bcea_smoke, graph = "ggplot")

...

‘CEriskav.Rmd’ using ‘UTF-8’... failed ‘bcea.Rmd’ using ‘UTF-8’... failed ‘ceac.Rmd’ using ‘UTF-8’... failed ‘ceef.Rmd’ using ‘UTF-8’... OK ‘ceplane.Rmd’ using ‘UTF-8’... failed ‘contour.Rmd’ using ‘UTF-8’... failed ‘eib.Rmd’ using ‘UTF-8’... failed ‘paired_vs_multiple_comps.Rmd’ using ‘UTF-8’... OK ‘Set_bcea_parameters.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘CEriskav.Rmd’ using rmarkdown

Quitting from lines 41-46 [unnamed-chunk-3] (CEriskav.Rmd) Error: processing vignette 'CEriskav.Rmd' failed with diagnostics: invalid line type: must be length 2, 4, 6 or 8 --- failed re-building ‘CEriskav.Rmd’

--- re-building ‘bcea.Rmd’ using rmarkdown ```

BDgraph

Version: 2.73
GitHub: NA
Source code: https://github.com/cran/BDgraph
Date/Publication: 2024-08-23 13:20:02 UTC
Number of recursive dependencies: 71

Run revdepcheck::cloud_details(, "BDgraph") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘BDgraph-Examples.Rmd’ ... Sensitivity 1 0.714 0.714 MCC 1 0.827 0.827

plotroc(list(bdgraph.obj, bdgraph.mpl.obj), data.sim, + cut = 200, labels = c("BDgraph", "BDgraph.mpl"), color = c("blue", + "red"))

When sourcing ‘BDgraph-Examples.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘BDgraph-Examples.Rmd’ using ‘UTF-8’... failed ‘Introduction-BDgraph.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘BDgraph-Examples.Rmd’ using rmarkdown

checking installed package size ... NOTE installed size is 8.3Mb sub-directories of 1Mb or more: libs 6.8Mb

BEAMR

Version: 1.1.0
GitHub: https://github.com/annaSeffernick/BEAMR
Source code: https://github.com/cran/BEAMR
Date/Publication: 2024-07-27 16:00:06 UTC
Number of recursive dependencies: 148

Run revdepcheck::cloud_details(, "BEAMR") for more info

checking examples ... ERROR ``` Running examples in ‘BEAMR-Ex.R’ failed The error most likely occurred in:

Name: gen_beam_plot_list

Title: Generate BEAM Plot List

Aliases: gen_beam_plot_list

** Examples

data(beam_stats) ... + beam.specs=beam_stats$beam.specs) plot.list <- gen_beam_plot_list(beam.result=beam_stats, beam.specs=plot.specs, + beam.feat.pvals=test.feat.pvals, + number.pairs=1, set.id="ENSG00000099810", + feat.id=NULL, title.size=11, + pair.order="omic", endpt.order=NULL) Error in if (new_name %in% existing) { : argument is of length zero Error in plot.temp$plot : $ operator is invalid for atomic vectors Calls: gen_beam_plot_list Execution halted ```

beastt

Version: 0.0.1
GitHub: https://github.com/GSK-Biostatistics/beastt
Source code: https://github.com/cran/beastt
Date/Publication: 2024-06-20 15:50:16 UTC
Number of recursive dependencies: 100

Run revdepcheck::cloud_details(, "beastt") for more info

checking examples ... ERROR ``` Running examples in ‘beastt-Ex.R’ failed The error most likely occurred in:

Name: plot_dist

Title: Plot Distribution

Aliases: plot_dist

** Examples

library(distributional) ... 12. │ └─ggplot2 (local) f(l = layers[[i]], d = data[[i]]) 13. │ └─l$compute_geom_2(d, theme = plot$theme) 14. │ └─ggplot2 (local) compute_geom_2(..., self = self) 15. │ └─self$geom$use_defaults(...) 16. └─base::.handleSimpleError(...) 17. └─rlang (local) h(simpleError(msg, call)) 18. └─handlers[1L] 19. └─cli::cli_abort(...) 20. └─rlang::abort(...) Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘binary.Rmd’ ...

plot_dist(pwr_prior)

When sourcing ‘binary.R’: Error: Problem while setting up geom aesthetics. ℹ Error occurred in the 1st layer. Caused by error in use_defaults(): ... When sourcing ‘continuous.R’: Error: Problem while setting up geom aesthetics. ℹ Error occurred in the 1st layer. Caused by error in use_defaults(): ! unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, Execution halted

‘binary.Rmd’ using ‘UTF-8’... failed ‘continuous.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘binary.Rmd’ using rmarkdown

BeeGUTS

Version: 1.1.3
GitHub: https://github.com/bgoussen/BeeGUTS
Source code: https://github.com/cran/BeeGUTS
Date/Publication: 2023-09-18 15:40:02 UTC
Number of recursive dependencies: 86

Run revdepcheck::cloud_details(, "BeeGUTS") for more info

checking examples ... ERROR ``` Running examples in ‘BeeGUTS-Ex.R’ failed The error most likely occurred in:

Name: traceplot

Title: Plotting method for traces and densities for 'beeSurvFit'

objects

Aliases: traceplot traceplot.beeSurvFit

** Examples

data(fitBetacyfluthrin_Chronic) traceplot(fitBetacyfluthrin_Chronic) Error in if (new_name %in% existing) { : argument is of length zero Calls: traceplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Tutorial.Rmd’ ... Chain 1: Elapsed Time: 137.867 seconds (Warm-up) Chain 1: 75.093 seconds (Sampling) Chain 1: 212.96 seconds (Total) Chain 1:

traceplot(fit)

When sourcing ‘Tutorial.R’: Error: argument is of length zero Execution halted

‘Tutorial.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘Tutorial.Rmd’ using rmarkdown

Quitting from lines 45-58 [example] (Tutorial.Rmd) Error: processing vignette 'Tutorial.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘Tutorial.Rmd’

SUMMARY: processing the following file failed: ‘Tutorial.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking installed package size ... NOTE installed size is 78.9Mb sub-directories of 1Mb or more: data 4.0Mb libs 74.3Mb
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

besthr

Version: 0.3.2
GitHub: NA
Source code: https://github.com/cran/besthr
Date/Publication: 2023-04-14 08:50:08 UTC
Number of recursive dependencies: 67

Run revdepcheck::cloud_details(, "besthr") for more info

checking examples ... ERROR ``` Running examples in ‘besthr-Ex.R’ failed The error most likely occurred in:

Name: plot.hrest

Title: plots the 'hrest' object

Aliases: plot.hrest

** Examples

d1 <- make_data() hr_est <- estimate(d1, score, group) plot(hr_est) Picking joint bandwidth of 0.68 Error in as.unit(value) : object is not coercible to a unit Calls: ... assemble_guides -> guides_build -> [<- -> [<-.unit -> as.unit Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘basic-use.Rmd’ ... Confidence Intervals (0.025, 0.975) 3.7475, 8.2525

100 bootstrap resamples.

plot(hr_est_1) Picking joint bandwidth of 0.381

When sourcing ‘basic-use.R’: Error: object is not coercible to a unit Execution halted

‘basic-use.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘basic-use.Rmd’ using rmarkdown

Quitting from lines 34-44 [unnamed-chunk-2] (basic-use.Rmd) Error: processing vignette 'basic-use.Rmd' failed with diagnostics: object is not coercible to a unit --- failed re-building ‘basic-use.Rmd’

SUMMARY: processing the following file failed: ‘basic-use.Rmd’

Error: Vignette re-building failed. Execution halted ```

betaclust

Version: 1.0.3
GitHub: NA
Source code: https://github.com/cran/betaclust
Date/Publication: 2023-09-29 10:20:02 UTC
Number of recursive dependencies: 76

Run revdepcheck::cloud_details(, "betaclust") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘vignettes.Rmd’ ...
- data = pca.methylation.data[, 2:5], patient_number = 1, plot_type = "ggplot")
plot(threshold_out, what = "kernel density", threshold = TRUE, + data = pca.methylation.data[, 2:5], plot_type = "ggplot")

plot(threshold_out, what = "uncertainty")

When sourcing ‘vignettes.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘vignettes.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘vignettes.Rmd’ using rmarkdown

biclustermd

Version: 0.2.3
GitHub: https://github.com/jreisner/biclustermd
Source code: https://github.com/cran/biclustermd
Date/Publication: 2021-06-17 15:10:06 UTC
Number of recursive dependencies: 84

Run revdepcheck::cloud_details(, "biclustermd") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(biclustermd) Loading required package: ggplot2 Loading required package: tidyr

Attaching package: 'tidyr'

... ── Failure ('test-autoplot_biclustermd.R:6:3'): autoplot_biclustermd() correctly plots cluster lines ── ap$data[[3]]$xintercept[-1] not equal to cumsum(colSums(sbc$P)) + 0.5. Classes differ: 'mapped_discrete'/'numeric' is not 'numeric' ── Failure ('test-autoplot_biclustermd.R:7:3'): autoplot_biclustermd() correctly plots cluster lines ── ap$data[[4]]$yintercept[-1] not equal to cumsum(colSums(sbc$Q)) + 0.5. Classes differ: 'mapped_discrete'/'numeric' is not 'numeric'

[ FAIL 2 | WARN 0 | SKIP 0 | PASS 66 ] Error: Test failures Execution halted ```

checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘nycflights13’ All declared Imports should be used.

biodosetools

Version: 3.6.1
GitHub: https://github.com/biodosetools-team/biodosetools
Source code: https://github.com/cran/biodosetools
Date/Publication: 2022-11-16 16:00:02 UTC
Number of recursive dependencies: 121

Run revdepcheck::cloud_details(, "biodosetools") for more info

checking tests ... ERROR `` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(biodosetools) > > test_check("biodosetools") ! Problem withglm()-> constraint ML optimization will be used instead ! Problem withglm()` -> constraint ML optimization will be used instead number of iterations= 43 ... actual | expected [2] "Estimation" | "Estimation" [2] [3] "Dose (Gy)" | "Dose (Gy)" [3] [4] "Translocations/cells" | "Translocations/cells" [4] - "yield_low" [5] - "yield_upp" [6]

[ FAIL 4 | WARN 0 | SKIP 1 | PASS 232 ] Error: Test failures Execution halted ```

BioPred

Version: 1.0.1
GitHub: NA
Source code: https://github.com/cran/BioPred
Date/Publication: 2024-06-06 16:50:09 UTC
Number of recursive dependencies: 118

Run revdepcheck::cloud_details(, "BioPred") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Tutorial.Rmd’ ... > tutorial_data$biogroup = ifelse(tutorial_data$x2 <=
- 0.5, "biomarker_positive", "biomarker_negative")
res = subgrp_perf_pred(yvar = "y.time", censorvar = "y.event", + grpvar = "biogroup", grpname = c("biomarker_positive", "biomarker_negative"), .... [TRUNCATED]

When sourcing ‘Tutorial.R’: Error: argument is of length zero Execution halted

‘Tutorial.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘Tutorial.Rmd’ using rmarkdown

BlandAltmanLeh

Version: 0.3.1
GitHub: NA
Source code: https://github.com/cran/BlandAltmanLeh
Date/Publication: 2015-12-23 23:32:17
Number of recursive dependencies: 63

Run revdepcheck::cloud_details(, "BlandAltmanLeh") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Intro.Rmd’ ... > b <- 0.02 * a + 0.3 * rnorm(150)

library(ggExtra)

print(ggMarginal(bland.altman.plot(a, b, graph.sys = "ggplot2"), + type = "histogram", size = 4))

When sourcing ‘Intro.R’: Error: argument is of length zero Execution halted

‘Intro.Rmd’... failed ```

bmggum

Version: 0.1.0
GitHub: https://github.com/Naidantu/bmggum
Source code: https://github.com/cran/bmggum
Date/Publication: 2021-04-09 08:50:06 UTC
Number of recursive dependencies: 85

Run revdepcheck::cloud_details(, "bmggum") for more info

checking examples ... ERROR ``` Running examples in ‘bmggum-Ex.R’ failed The error most likely occurred in:

Name: bayesplot

Title: bayesian convergence diagnosis plotting function

Aliases: bayesplot

** Examples

Data <- c(1,4,2,3) ... Chain 1: Warning: There were 3 divergent transitions after warmup. See https://mc-stan.org/misc/warnings.html#divergent-transitions-after-warmup to find out why this is a problem and how to eliminate them. Warning: Examine the pairs() plot to diagnose sampling problems

bayesplot(mod, 'alpha', 'density', inc_warmup=FALSE) Error in if (new_name %in% existing) { : argument is of length zero Calls: bayesplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

checking installed package size ... NOTE installed size is 206.7Mb sub-directories of 1Mb or more: libs 206.1Mb
checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘RcppParallel’ ‘rstantools’ All declared Imports should be used.
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

boxly

Version: 0.1.1
GitHub: https://github.com/Merck/boxly
Source code: https://github.com/cran/boxly
Date/Publication: 2023-10-24 02:40:02 UTC
Number of recursive dependencies: 91

Run revdepcheck::cloud_details(, "boxly") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ 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/tests.html > # * https://testthat.r-lib.org/reference/test_package.html#special-files ...
1. ├─plotly::add_trace(...)
2. │ └─plotly::add_data(p, data)
3. │ └─plotly:::is.plotly(p)
4. ├─plotly::ggplotly(p, tooltip = "text", dynamicTicks = TRUE)
5. └─plotly:::ggplotly.ggplot(p, tooltip = "text", dynamicTicks = TRUE)
6. └─plotly::gg2list(...)
[ FAIL 2 | WARN 0 | SKIP 0 | PASS 25 ] Error: Test failures Execution halted ```

braidReports

Version: 0.5.4
GitHub: NA
Source code: https://github.com/cran/braidReports
Date/Publication: 2021-01-05 18:20:09 UTC
Number of recursive dependencies: 30

Run revdepcheck::cloud_details(, "braidReports") for more info

checking examples ... ERROR ``` Running examples in ‘braidReports-Ex.R’ failed The error most likely occurred in:

Name: makeBRAIDreport

Title: Make a BRAID Report Page

Aliases: makeBRAIDreport

Keywords: hplot

** Examples

... 22. │ └─grid::convertUnit(short, "cm", valueOnly = TRUE) 23. │ ├─grid:::upgradeUnit(x) 24. │ └─grid:::upgradeUnit.default(x) 25. │ └─base::stop("Not a unit object") 26. └─base::.handleSimpleError(<fn>, "Not a unit object", base::quote(upgradeUnit.default(x))) 27. └─rlang (local) h(simpleError(msg, call)) 28. └─handlers[1L] 29. └─cli::cli_abort(...) 30. └─rlang::abort(...) Execution halted ```

BRcal

Version: 0.0.4
GitHub: https://github.com/apguthrie/BRcal
Source code: https://github.com/cran/BRcal
Date/Publication: 2024-06-25 11:30:08 UTC
Number of recursive dependencies: 116

Run revdepcheck::cloud_details(, "BRcal") for more info

checking examples ... ERROR ``` Running examples in ‘BRcal-Ex.R’ failed The error most likely occurred in:

Name: lineplot

Title: Lineplot for LLO-adjusted Probability Predictions

Aliases: lineplot

** Examples

...

Simulated 100 binary event outcomes using x

y <- rbinom(100, 1, x) # By construction, x is well calibrated.

Lineplot show change in probabilities from original to MLE-recalibration to

specified Levels of Boldness-Recalibration via t_levels

Return a list with dataframe used to construct plot with return_df=TRUE

lp1 <- lineplot(x, y, t_levels=c(0.98, 0.95), return_df=TRUE) Error in if (new_name %in% existing) { : argument is of length zero Calls: lineplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘hockey_vignette.Rmd’ ... [841] 0.4804441 0.7670617 0.4668403 0.4104682 0.6058493 0.4249086 0.6581869 [848] 0.7194199 0.4534938 0.7421488 0.6726924 0.3255808 0.5005185 0.6483056 [855] 0.7210362 0.6593455 0.4586214 0.7750603 0.5841900 0.4826292 0.4080026 [862] 0.6701504 0.6561462 0.4814185 0.7421488 0.6786381 0.3255808 0.4814569

lineplot(hockey$x, hockey$y)

When sourcing ‘hockey_vignette.R’: Error: argument is of length zero Execution halted

‘hockey_vignette.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘hockey_vignette.Rmd’ using rmarkdown

Quitting from lines 180-181 [unnamed-chunk-11] (hockey_vignette.Rmd) Error: processing vignette 'hockey_vignette.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘hockey_vignette.Rmd’

SUMMARY: processing the following file failed: ‘hockey_vignette.Rmd’

Error: Vignette re-building failed. Execution halted ```

breathtestcore

Version: 0.8.7
GitHub: https://github.com/dmenne/breathtestcore
Source code: https://github.com/cran/breathtestcore
Date/Publication: 2024-01-24 15:02:47 UTC
Number of recursive dependencies: 130

Run revdepcheck::cloud_details(, "breathtestcore") for more info

checking tests ... ERROR `` Running ‘test-all.R’ Running the tests in ‘tests/test-all.R’ failed. Complete output: > library(testthat) > > options(Ncpus = parallelly::availableCores(omit = 1)) > test_check("breathtestcore") Loading required package: breathtestcore Starting 1 test process [ FAIL 3 | WARN 11 | SKIP 4 | PASS 356 ] ...expected: 10 ── Failure ('test_plot_breathtestfit.R:81:3'): Plot multiple groups data only (no fit) ── length(p) (actual) not equal to length(ggplot()) (expected`).
```
`actual`: 11
```
expected: 10

[ FAIL 3 | WARN 11 | SKIP 4 | PASS 356 ] Error: Test failures Execution halted ```

brolgar

Version: 1.0.1
GitHub: https://github.com/njtierney/brolgar
Source code: https://github.com/cran/brolgar
Date/Publication: 2024-05-10 14:50:34 UTC
Number of recursive dependencies: 101

Run revdepcheck::cloud_details(, "brolgar") for more info

checking examples ... ERROR ``` Running examples in ‘brolgar-Ex.R’ failed The error most likely occurred in:

Name: facet_sample

Title: Facet data into groups to facilitate exploration

Aliases: facet_sample

** Examples

library(ggplot2) ggplot(heights, + aes(x = year, + y = height_cm, + group = country)) + + geom_line() + + facet_sample() Error in if (params$as.table) { : argument is of length zero Calls: ... -> setup -> -> compute_layout Execution halted ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘exploratory-modelling.Rmd’ ... Warning in is.na(non_null_default_aes[[aes_param_name]]) : is.na() applied to non-(list or vector) of type 'language'

When sourcing ‘exploratory-modelling.R’: Error: ℹ In index: 1. ℹ With name: geom_line. Caused by error in `aes_param_name %in% names(non_null_default_aes) && is.na(non_null_default_aes[[ ... Error: argument is of length zero Execution halted

‘exploratory-modelling.Rmd’ using ‘UTF-8’... failed ‘finding-features.Rmd’ using ‘UTF-8’... failed ‘getting-started.Rmd’ using ‘UTF-8’... failed ‘id-interesting-obs.Rmd’ using ‘UTF-8’... OK ‘longitudinal-data-structures.Rmd’ using ‘UTF-8’... OK ‘mixed-effects-models.Rmd’ using ‘UTF-8’... failed ‘visualisation-gallery.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘exploratory-modelling.Rmd’ using rmarkdown

Quitting from lines 47-56 [use-gg-highlight] (exploratory-modelling.Rmd) Error: processing vignette 'exploratory-modelling.Rmd' failed with diagnostics: ℹ In index: 1. ℹ With name: geom_line. Caused by error in aes_param_name %in% names(non_null_default_aes) && is.na(non_null_default_aes[[ aes_param_name]]): ! 'length = 2' in coercion to 'logical(1)' --- failed re-building ‘exploratory-modelling.Rmd’

--- re-building ‘finding-features.Rmd’ using rmarkdown ```

calibrationband

Version: 0.2.1
GitHub: https://github.com/marius-cp/calibrationband
Source code: https://github.com/cran/calibrationband
Date/Publication: 2022-08-09 14:40:02 UTC
Number of recursive dependencies: 38

Run revdepcheck::cloud_details(, "calibrationband") for more info

checking examples ... ERROR ``` Running examples in ‘calibrationband-Ex.R’ failed The error most likely occurred in:

Name: plot.calibrationband

Title: Plotting monotone confidence bands

Aliases: plot.calibrationband autoplot.calibrationband

autolayer.calibrationband

** Examples

... p <- function(x,s){p = 1/(1+((1/x*(1-x))^(s+1)));return(p)} dat <- data.frame(pr=x, y=rbinom(n,1,p(x,s)))

cb <- calibration_bands(x=dat$pr, y=dat$y,alpha=0.05, method="round", digits =3)

simple plotting

plot(cb) Error in if (new_name %in% existing) { : argument is of length zero Calls: plot ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

cartograflow

Version: 1.0.5
GitHub: https://github.com/fbahoken/cartogRaflow
Source code: https://github.com/cran/cartograflow
Date/Publication: 2023-10-17 22:40:21 UTC
Number of recursive dependencies: 102

Run revdepcheck::cloud_details(, "cartograflow") for more info

checking examples ... ERROR ``` Running examples in ‘cartograflow-Ex.R’ failed The error most likely occurred in:

Name: flowgini

Title: Analysis of flow concentration (Gini coefficient)

Aliases: flowgini

** Examples

library(cartograflow) ... ℹ Use flowcum instead. Warning: Use of x$linkcum is discouraged. ℹ Use linkcum instead. Warning: Use of x$flowcum is discouraged. ℹ Use flowcum instead. Warning: Use of x$flowcum is discouraged. ℹ Use flowcum instead. Error in pm[[2]] : subscript out of bounds Calls: flowgini ... %>% -> layout -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ```

cases

Version: 0.1.1
GitHub: https://github.com/maxwestphal/cases
Source code: https://github.com/cran/cases
Date/Publication: 2023-05-18 08:30:02 UTC
Number of recursive dependencies: 129

Run revdepcheck::cloud_details(, "cases") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘example_wdbc.Rmd’ ... 13 TRUE FALSE 14 FALSE FALSE 15 FALSE FALSE

visualize(results_bm)

... + regu = TRU .... [TRUNCATED]

visualize(results_comp)

When sourcing ‘package_overview.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘example_wdbc.Rmd’ using ‘UTF-8’... failed ‘package_overview.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘example_wdbc.Rmd’ using rmarkdown data_wdbc package:cases R Documentation

Br_e_a_s_t Ca_n_c_e_r Wi_s_c_o_n_s_i_n (Di_a_g_n_o_s_t_i_c) Da_t_a Se_t

De_s_c_r_i_p_t_i_o_n:
```
 Dataset documentation can be found at the source website and
 references below.
```
... Quitting from lines 160-168 [viz_comp] (package_overview.Rmd) Error: processing vignette 'package_overview.Rmd' failed with diagnostics: invalid line type: must be length 2, 4, 6 or 8 --- failed re-building ‘package_overview.Rmd’

SUMMARY: processing the following files failed: ‘example_wdbc.Rmd’ ‘package_overview.Rmd’

Error: Vignette re-building failed. Execution halted ```

cats

Version: 1.0.2
GitHub: NA
Source code: https://github.com/cran/cats
Date/Publication: 2022-03-11 10:20:07 UTC
Number of recursive dependencies: 83

Run revdepcheck::cloud_details(, "cats") for more info

checking examples ... ERROR ``` Running examples in ‘cats-Ex.R’ failed The error most likely occurred in:

Name: trial_ocs

Title: Calculates the operating characteristics of the cohort trial

Aliases: trial_ocs

** Examples

... + safety_prob = safety_prob, Bayes_Sup1 = Bayes_Sup1, Bayes_Sup2 = Bayes_Sup2, + cohort_offset = cohort_offset, sr_first_pos = sr_first_pos, + missing_prob = missing_prob, cohort_fixed = cohort_fixed, accrual_type = accrual_type, + accrual_param = accrual_param, hist_lag = hist_lag, analysis_times = analysis_times, + time_trend = time_trend, cohorts_start = cohorts_start, cohorts_sim = cohorts_sim, + iter = 2, coresnum = 1, save = FALSE, ret_list = TRUE, plot_ocs = TRUE + ) Error in pm[[2]] : subscript out of bounds Calls: trial_ocs -> -> ggplotly.ggplot -> gg2list Execution halted ```

checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘epitools’ ‘forcats’ ‘purrr’ All declared Imports should be used.

ceterisParibus

Version: 0.4.2
GitHub: https://github.com/pbiecek/ceterisParibus
Source code: https://github.com/cran/ceterisParibus
Date/Publication: 2020-03-28 03:10:02 UTC
Number of recursive dependencies: 80

Run revdepcheck::cloud_details(, "ceterisParibus") for more info

checking tests ... ERROR `` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(ceterisParibus) Loading required package: ggplot2 Loading required package: gower > > test_check("ceterisParibus") Welcome to DALEX (version: 2.4.3). ... 5. └─ceterisParibus:::plot_interactive.what_if_explainer(wi_rf_all) 6. └─ggplot2:::+.gg`(...) 7. └─ggplot2:::add_ggplot(e1, e2, e2name) 8. ├─ggplot2::ggplot_add(object, p, objectname) 9. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
1. └─ggplot2:::new_layer_names(object, names(plot$layers))
[ FAIL 1 | WARN 3 | SKIP 0 | PASS 29 ] Error: Test failures Execution halted ```

checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘knitr’ All declared Imports should be used.
checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory

cfda

Version: 0.11.0
GitHub: https://github.com/modal-inria/cfda
Source code: https://github.com/cran/cfda
Date/Publication: 2023-10-07 15:50:05 UTC
Number of recursive dependencies: 98

Run revdepcheck::cloud_details(, "cfda") for more info

checking examples ... ERROR ``` Running examples in ‘cfda-Ex.R’ failed The error most likely occurred in:

Name: compute_duration

Title: Compute duration of individuals

Aliases: compute_duration

** Examples

Simulate the Jukes-Cantor model of nucleotide replacement

... d_JK <- generate_Markov(n = 10, K = K, P = PJK, lambda = lambda_PJK, Tmax = 10)

compute duration of each individual

duration <- compute_duration(d_JK)

hist(duration) Error in if (new_name %in% existing) { : argument is of length zero Calls: hist ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR `` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(cfda) Loading required package: fda Loading required package: splines Loading required package: fds Loading required package: rainbow Loading required package: MASS ... 7. └─cfda:::hist.njump(njump) 8. └─ggplot2:::+.gg`(...) 9. └─ggplot2:::add_ggplot(e1, e2, e2name)
1. ├─ggplot2::ggplot_add(object, p, objectname)
2. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
3. └─ggplot2:::new_layer_names(object, names(plot$layers))
[ FAIL 2 | WARN 1 | SKIP 12 | PASS 351 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘cfda.Rmd’ ...

head(nJump) 1 2 3 4 5 6 17 9 3 13 10 13

hist(nJump)

When sourcing ‘cfda.R’: Error: argument is of length zero Execution halted

‘cfda.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘cfda.Rmd’ using rmarkdown

cheem

Version: 0.4.0.0
GitHub: https://github.com/nspyrison/cheem
Source code: https://github.com/cran/cheem
Date/Publication: 2023-11-08 21:30:02 UTC
Number of recursive dependencies: 153

Run revdepcheck::cloud_details(, "cheem") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(cheem) -------------------------------------------------------- cheem --- version 0.4.0.0 Please share bugs, suggestions, and feature requests at: https://github.com/nspyrison/cheem/issues/ -------------------------------------------------------- ...
1. │ ├─utils::modifyList(x %||% list(), y %||% list(), ...)
2. │ │ └─base::stopifnot(is.list(x), is.list(val))
3. │ └─x %||% list()
4. ├─plotly::ggplotly(...)
5. └─plotly:::ggplotly.ggplot(...)
6. └─plotly::gg2list(...)
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 10 ] Error: Test failures Execution halted ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘getting-started-with-cheem.Rmd’ ...

knitr::opts_chunk$set(echo = TRUE, include = TRUE, + results = "show", eval = FALSE, message = FALSE, warning = FALSE, + error = FALSE, co .... [TRUNCATED]

knitr::include_graphics("../inst/shiny_apps/cheem/www/lime_nonlinear.png")

When sourcing ‘getting-started-with-cheem.R’: Error: Cannot find the file(s): "../inst/shiny_apps/cheem/www/lime_nonlinear.png" Execution halted

‘getting-started-with-cheem.Rmd’ using ‘UTF-8’... failed ```

chillR

Version: 0.75
GitHub: NA
Source code: https://github.com/cran/chillR
Date/Publication: 2023-11-27 22:20:02 UTC
Number of recursive dependencies: 138

Run revdepcheck::cloud_details(, "chillR") for more info

checking examples ... ERROR ``` Running examples in ‘chillR-Ex.R’ failed The error most likely occurred in:

Name: plot_scenarios

Title: Plot historic and future scenarios for climate-related metrics

('ggplot2' version)

Aliases: plot_scenarios

** Examples

...

Plot the climate scenarios

plot_scenarios(climate_scenario_list, metric = 'Chill_Portions', + add_historic = TRUE, size = 2, shape = 3, color = 'blue', + outlier_shape = 12, historic_color = 'skyblue', + group_by = c("Year", "Scenario")) Error in identicalUnits(x) : object is not a unit Calls: ... assemble_guides -> guides_build -> unit.c -> identicalUnits Execution halted ```

chronicle

Version: 0.3
GitHub: NA
Source code: https://github.com/cran/chronicle
Date/Publication: 2021-06-25 05:00:02 UTC
Number of recursive dependencies: 146

Run revdepcheck::cloud_details(, "chronicle") for more info

checking examples ... ERROR ``` Running examples in ‘chronicle-Ex.R’ failed The error most likely occurred in:

Name: make_barplot

Title: Create a bar plot from a data frame through ggplotly

Aliases: make_barplot

** Examples

make_barplot(dt = iris, bars = 'Species', value = 'Sepal.Length') Error in pm[[2]] : subscript out of bounds Calls: make_barplot -> -> ggplotly.ggplot -> gg2list Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘chronicle.Rmd’ ...
- filename = "quick_demo", title = "A quick chronicle demo",
- author = .... [TRUNCATED]
Quitting from lines 34-46 [unnamed-chunk-3] (quick_demo.Rmd)

When sourcing ‘chronicle.R’: Error: ℹ In index: 1. Caused by error in pm[[2]]: ! subscript out of bounds Execution halted

‘chronicle.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘chronicle.Rmd’ using rmarkdown

Quitting from lines 38-67 [unnamed-chunk-3] (chronicle.Rmd) Error: processing vignette 'chronicle.Rmd' failed with diagnostics: ℹ In index: 1. Caused by error in pm[[2]]: ! subscript out of bounds --- failed re-building ‘chronicle.Rmd’

SUMMARY: processing the following file failed: ‘chronicle.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘DT’ ‘dplyr’ ‘prettydoc’ ‘rmdformats’ ‘skimr’ All declared Imports should be used.

CINNA

Version: 1.2.2
GitHub: NA
Source code: https://github.com/cran/CINNA
Date/Publication: 2023-08-08 16:40:02 UTC
Number of recursive dependencies: 140

Run revdepcheck::cloud_details(, "CINNA") for more info

checking examples ... ERROR ``` Running examples in ‘CINNA-Ex.R’ failed The error most likely occurred in:

Name: pca_centralities

Title: PCA Centrality Measures

Aliases: pca_centralities

** Examples

Create a data frame with multiple observations

... 13. │ └─e1 %+% e2 14. │ └─ggplot2:::add_ggplot(e1, e2, e2name) 15. │ ├─ggplot2::ggplot_add(object, p, objectname) 16. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 17. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 18. └─base::.handleSimpleError(...) 19. └─purrr (local) h(simpleError(msg, call)) 20. └─cli::cli_abort(...) 21. └─rlang::abort(...) Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘CINNA.Rmd’ ... > calc_cent <- calculate_centralities(zachary, include = pr_cent[1:10])

pca_centralities(calc_cent)

When sourcing ‘CINNA.R’: Error: ℹ In index: 1. ℹ With name: contrib. Caused by error in if (new_name %in% existing) ...: ! argument is of length zero Execution halted

‘CINNA.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘CINNA.Rmd’ using rmarkdown

Quitting from lines 231-234 [unnamed-chunk-11] (CINNA.Rmd) Error: processing vignette 'CINNA.Rmd' failed with diagnostics: ℹ In index: 1. ℹ With name: contrib. Caused by error in if (new_name %in% existing) ...: ! argument is of length zero --- failed re-building ‘CINNA.Rmd’

SUMMARY: processing the following file failed: ‘CINNA.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘circlize’ ‘utils’ All declared Imports should be used.

circhelp

Version: 1.1
GitHub: https://github.com/achetverikov/circhelp
Source code: https://github.com/cran/circhelp
Date/Publication: 2024-07-04 17:10:02 UTC
Number of recursive dependencies: 106

Run revdepcheck::cloud_details(, "circhelp") for more info

checking examples ... ERROR ``` Running examples in ‘circhelp-Ex.R’ failed The error most likely occurred in:

Name: remove_cardinal_biases

Title: Remove cardinal biases

Aliases: remove_cardinal_biases

** Examples

Data in orientation domain from Pascucci et al. (2019, PLOS Bio),

https://doi.org/10.5281/zenodo.2544946

ex_data <- Pascucci_et_al_2019_data[observer == 4, ] remove_cardinal_biases(ex_data$err, ex_data$orientation, plots = "show") Error in as.unit(value) : object is not coercible to a unit Calls: remove_cardinal_biases ... assemble_guides -> guides_build -> [<- -> [<-.unit -> as.unit Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘cardinal_biases.Rmd’ ...
- 90)) + .... [TRUNCATED]
ex_subj_data <- data[observer == 4, ]

res <- remove_cardinal_biases(ex_subj_data$err, ex_subj_data$orientation, + plots = "show")

When sourcing ‘cardinal_biases.R’: Error: object is not coercible to a unit Execution halted

‘cardinal_biases.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘cardinal_biases.Rmd’ using rmarkdown

clifro

Version: 3.2-5
GitHub: https://github.com/ropensci/clifro
Source code: https://github.com/cran/clifro
Date/Publication: 2021-05-24 05:50:02 UTC
Number of recursive dependencies: 84

Run revdepcheck::cloud_details(, "clifro") for more info

checking tests ... ERROR ``` Running ‘spelling.R’ Running ‘test-all.R’ Running the tests in ‘tests/test-all.R’ failed. Complete output: > library(testthat) > library(clifro) > > test_check("clifro") [ FAIL 1 | WARN 1 | SKIP 4 | PASS 10 ]

... • On CRAN (4): 'test-cf_find_station.R:4:3', 'test-cf_last_query.R:4:3', 'test-cf_query.R:4:3', 'test-cf_station.R:4:3'

══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-windrose.R:15:3'): windrose ────────────────────────────────── tt$labels inherits from 'NULL' not 'character'.

[ FAIL 1 | WARN 1 | SKIP 4 | PASS 10 ] Error: Test failures Execution halted ```

clinDataReview

Version: 1.6.1
GitHub: https://github.com/openanalytics/clinDataReview
Source code: https://github.com/cran/clinDataReview
Date/Publication: 2024-06-18 09:10:05 UTC
Number of recursive dependencies: 121

Run revdepcheck::cloud_details(, "clinDataReview") for more info

checking examples ... ERROR ``` Running examples in ‘clinDataReview-Ex.R’ failed The error most likely occurred in:

Name: scatterplotClinData

Title: Scatterplot of variables of interest for clinical data

visualization.

Aliases: scatterplotClinData

** Examples

... + data = dataPlot, + xVar = "ADY", + yVar = "LBSTRESN", + aesPointVar = list(color = "TRTP", fill = "TRTP"), + aesLineVar = list(group = "USUBJID", color = "TRTP"), + labelVars = labelVars + ) Error in if (new_name %in% existing) { : argument is of length zero Calls: scatterplotClinData ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(clinDataReview) > > test_check("clinDataReview") adding: report.html (deflated 63%) adding: report_dependencies169f5c7b66d/ (stored 0%) adding: report_dependencies169f5c7b66d/file169f105f2e2e.html (deflated 8%) ...
1. ├─base::withCallingHandlers(...)
2. └─ggplot2:::+.gg(gg, do.call(layerFunction, argsGeom))
3. └─ggplot2:::add_ggplot(e1, e2, e2name)
4. ├─ggplot2::ggplot_add(object, p, objectname)
5. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
6. └─ggplot2:::new_layer_names(object, names(plot$layers))
[ FAIL 35 | WARN 0 | SKIP 31 | PASS 453 ] Error: Test failures Execution halted ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘clinDataReview-dataPreprocessing.Rmd’ using rmarkdown --- finished re-building ‘clinDataReview-dataPreprocessing.Rmd’

--- re-building ‘clinDataReview-dataVisualization.Rmd’ using rmarkdown

Quitting from lines 167-208 [timeProfiles] (clinDataReview-dataVisualization.Rmd) Error: processing vignette 'clinDataReview-dataVisualization.Rmd' failed with diagnostics: argument is of length zero ... --- failed re-building ‘clinDataReview-dataVisualization.Rmd’

--- re-building ‘clinDataReview-reporting.Rmd’ using rmarkdown --- finished re-building ‘clinDataReview-reporting.Rmd’

SUMMARY: processing the following file failed: ‘clinDataReview-dataVisualization.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking installed package size ... NOTE installed size is 5.8Mb sub-directories of 1Mb or more: doc 4.3Mb

clinUtils

Version: 0.2.0
GitHub: https://github.com/openanalytics/clinUtils
Source code: https://github.com/cran/clinUtils
Date/Publication: 2024-05-17 14:50:06 UTC
Number of recursive dependencies: 111

Run revdepcheck::cloud_details(, "clinUtils") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘clinUtils-vignette.Rmd’ ...
```
layout
```
listPlotsInteractiveLB <- sapply(listPlotsLB, function(ggplot) ggplotly(ggplot) %>% + partial_bundle(), simplify = FALSE)

When sourcing ‘clinUtils-vignette.R’: Error: subscript out of bounds Execution halted

‘clinUtils-vignette.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘clinUtils-vignette.Rmd’ using rmarkdown

checking running R code from vignettes ... WARNING ``` Errors in running code in vignettes: when running code in ‘clinUtils-vignette.Rmd’ ...

Quitting from lines 2-4 [lab-hist-interactive1]

When sourcing ‘clinUtils-vignette.R’: Error: there is no package called 'webshot' Execution halted

‘clinUtils-vignette.Rmd’ using ‘UTF-8’... failed ```

checking installed package size ... NOTE installed size is 7.7Mb sub-directories of 1Mb or more: doc 6.5Mb

cloneRate

Version: 0.2.3
GitHub: https://github.com/bdj34/cloneRate
Source code: https://github.com/cran/cloneRate
Date/Publication: 2023-09-22 15:40:02 UTC
Number of recursive dependencies: 121

Run revdepcheck::cloud_details(, "cloneRate") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘cloneRate-dataAnalysis.Rmd’ ...

fitColor <- colorPal[6]

ggplot(PD9478_long, aes(x = Age, y = VAF)) + theme_bw() + + coord_cartesian(xlim = c(min(x), max(x)), ylim = c(-0.01, + 0.52), expand .... [TRUNCATED]

When sourcing ‘cloneRate-dataAnalysis.R’: Error: expand must be a logical vector, not the number 0. Execution halted

‘cloneRate-dataAnalysis.Rmd’ using ‘UTF-8’... failed ‘cloneRate-simulate.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘cloneRate-dataAnalysis.Rmd’ using rmarkdown

checking installed package size ... NOTE installed size is 47.4Mb sub-directories of 1Mb or more: doc 1.0Mb libs 45.2Mb
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

clustEff

Version: 0.3.1
GitHub: NA
Source code: https://github.com/cran/clustEff
Date/Publication: 2024-01-23 08:52:55 UTC
Number of recursive dependencies: 125

Run revdepcheck::cloud_details(, "clustEff") for more info

checking examples ... ERROR ``` Running examples in ‘clustEff-Ex.R’ failed The error most likely occurred in:

Name: clustEff-package

Title: Clusters of effects curves

Aliases: clustEff-package

Keywords: package

** Examples

... 13. │ └─ggplot2:::+.gg(p, do.call(geom_line, option)) 14. │ └─ggplot2:::add_ggplot(e1, e2, e2name) 15. │ ├─ggplot2::ggplot_add(object, p, objectname) 16. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 17. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 18. └─base::.handleSimpleError(...) 19. └─purrr (local) h(simpleError(msg, call)) 20. └─cli::cli_abort(...) 21. └─rlang::abort(...) Execution halted ```

ClustImpute

Version: 0.2.4
GitHub: NA
Source code: https://github.com/cran/ClustImpute
Date/Publication: 2021-05-31 07:40:11 UTC
Number of recursive dependencies: 121

Run revdepcheck::cloud_details(, "ClustImpute") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Example_on_simulated_data.Rmd’ ... > dat4plot$true_clust_fct <- factor(true_clust)

p_base <- ggplot(dat4plot, aes(x = x, y = y, color = true_clust_fct)) + + geom_point()

ggExtra::ggMarginal(p_base, groupColour = TRUE, groupFill = TRUE)

When sourcing ‘Example_on_simulated_data.R’: Error: argument is of length zero Execution halted

‘Example_on_simulated_data.Rmd’ using ‘UTF-8’... failed ‘description_of_algorithm.Rnw’ using ‘UTF-8’... OK ```

checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘Example_on_simulated_data.Rmd’ using rmarkdown

Quitting from lines 49-53 [unnamed-chunk-3] (Example_on_simulated_data.Rmd) Error: processing vignette 'Example_on_simulated_data.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘Example_on_simulated_data.Rmd’

--- re-building ‘description_of_algorithm.Rnw’ using Sweave Error: processing vignette 'description_of_algorithm.Rnw' failed with diagnostics: ... l.6 \usepackage {Sweave}^^M ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘description_of_algorithm.Rnw’

SUMMARY: processing the following files failed: ‘Example_on_simulated_data.Rmd’ ‘description_of_algorithm.Rnw’

Error: Vignette re-building failed. Execution halted ```

cmstatr

Version: 0.9.3
GitHub: https://github.com/cmstatr/cmstatr
Source code: https://github.com/cran/cmstatr
Date/Publication: 2024-03-14 14:30:02 UTC
Number of recursive dependencies: 87

Run revdepcheck::cloud_details(, "cmstatr") for more info

checking examples ... ERROR ``` Running examples in ‘cmstatr-Ex.R’ failed The error most likely occurred in:

Name: nested_data_plot

Title: Create a plot of nested sources of variation

Aliases: nested_data_plot

** Examples

library(dplyr) ...
```
intersect, setdiff, setequal, union
```
carbon.fabric.2 %>% + filter(test == "WT" & condition == "RTD") %>% + nested_data_plot(strength, + groups = c(batch, panel)) Error in if (new_name %in% existing) { : argument is of length zero Calls: %>% ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR `` Running ‘spelling.R’ Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(cmstatr) > > test_check("cmstatr") Starting 2 test processes [ FAIL 6 | WARN 0 | SKIP 6 | PASS 1396 ] ... 6. └─cmstatr:::draw_vert_lines_to_labels(g, elm_list, vline_args) 7. └─ggplot2:::+.gg`(...) 8. └─ggplot2:::add_ggplot(e1, e2, e2name) 9. ├─ggplot2::ggplot_add(object, p, objectname)
1. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
2. └─ggplot2:::new_layer_names(object, names(plot$layers))
[ FAIL 6 | WARN 0 | SKIP 6 | PASS 1396 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘cmstatr_Graphing.Rmd’ ...
- by = "condition") %>% inner_join(a_basis_pooled_results,
- by = "condition") .... [TRUNCATED]
carbon.fabric.2 %>% mutate(panel = as.character(panel)) %>% + filter(test == "WT") %>% nested_data_plot(strength, groups = c(batch, + pane .... [TRUNCATED]

When sourcing ‘cmstatr_Graphing.R’: Error: argument is of length zero Execution halted

‘adktest.Rmd’ using ‘UTF-8’... OK ‘cmstatr_Graphing.Rmd’ using ‘UTF-8’... failed ‘cmstatr_Tutorial.Rmd’ using ‘UTF-8’... OK ‘cmstatr_Validation.Rmd’ using ‘UTF-8’... OK ‘hk_ext.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘adktest.Rmd’ using rmarkdown --- finished re-building ‘adktest.Rmd’

--- re-building ‘cmstatr_Graphing.Rmd’ using rmarkdown ```

codaredistlm

Version: 0.1.0
GitHub: https://github.com/tystan/codaredistlm
Source code: https://github.com/cran/codaredistlm
Date/Publication: 2022-12-22 19:50:06 UTC
Number of recursive dependencies: 67

Run revdepcheck::cloud_details(, "codaredistlm") for more info

checking examples ... ERROR ``` Running examples in ‘codaredistlm-Ex.R’ failed The error most likely occurred in:

Name: plot_delta_comp

Title: Plot redistributed time-use predictions from compositional ilr

multiple linear regression model fit

Aliases: plot_delta_comp

** Examples

... | | x| |:----|------:| |0% | 1439.9| |25% | 1440.0| |50% | 1440.0| |75% | 1440.0| |100% | 1440.1|

```

coefplot

Version: 1.2.8
GitHub: NA
Source code: https://github.com/cran/coefplot
Date/Publication: 2022-01-14 09:42:47 UTC
Number of recursive dependencies: 110

Run revdepcheck::cloud_details(, "coefplot") for more info

checking examples ... ERROR ``` Running examples in ‘coefplot-Ex.R’ failed The error most likely occurred in:

Name: buildModelCI

Title: buildModelCI

Aliases: buildModelCI

** Examples

... cut.C 327.4816 model1 cut.Q -574.8626 model1 cut.L 1187.6004 model1 carat 7843.1229 model1 (Intercept) -2732.2382 model1 coefplot(model1) Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```

CohortPlat

Version: 1.0.5
GitHub: NA
Source code: https://github.com/cran/CohortPlat
Date/Publication: 2022-02-14 09:30:02 UTC
Number of recursive dependencies: 82

Run revdepcheck::cloud_details(, "CohortPlat") for more info

checking examples ... ERROR ``` Running examples in ‘CohortPlat-Ex.R’ failed The error most likely occurred in:

Name: plot_trial

Title: Plots the cohort trial study overview given stage data.

Aliases: plot_trial

** Examples

... + stage_data = stage_data, cohort_random = cohort_random, cohorts_max = cohorts_max, + sr_drugs_pos = sr_drugs_pos, target_rr = target_rr, sharing_type = sharing_type, + safety_prob = safety_prob, Bayes_Sup = Bayes_Sup, prob_rr_transform = prob_rr_transform, + cohort_offset = cohort_offset, Bayes_Fut = Bayes_Fut, sr_first_pos = sr_first_pos + )

plot_trial(res_list, unit = "n") Error in pm[[2]] : subscript out of bounds Calls: plot_trial -> -> ggplotly.ggplot -> gg2list Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘my-vignette.Rmd’ ...

set.seed(50)

ocs1 <- trial_ocs(n_int = n_int, n_fin = n_fin, rr_comb = rr_comb, + rr_mono = rr_mono, rr_back = rr_back, rr_plac = rr_plac, + rr_transfo .... [TRUNCATED]

When sourcing ‘my-vignette.R’: Error: subscript out of bounds Execution halted

‘my-vignette.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘my-vignette.Rmd’ using rmarkdown

Quitting from lines 1043-1073 [unnamed-chunk-20] (my-vignette.Rmd) Error: processing vignette 'my-vignette.Rmd' failed with diagnostics: subscript out of bounds --- failed re-building ‘my-vignette.Rmd’

SUMMARY: processing the following file failed: ‘my-vignette.Rmd’

Error: Vignette re-building failed. Execution halted ```

complmrob

Version: 0.7.0
GitHub: https://github.com/dakep/complmrob
Source code: https://github.com/cran/complmrob
Date/Publication: 2019-09-17 18:10:02 UTC
Number of recursive dependencies: 31

Run revdepcheck::cloud_details(, "complmrob") for more info

checking examples ... ERROR ``` Running examples in ‘complmrob-Ex.R’ failed The error most likely occurred in:

Name: plot.complmrob

Title: Diagnostic plots for the robust regression model with

compositional covariates

Aliases: plot.complmrob

** Examples

data <- data.frame(lifeExp = state.x77[, "Life Exp"], USArrests[ , -3]) mUSArr <- complmrob(lifeExp ~ ., data = data) plot(mUSArr) Error in if (new_name %in% existing) { : argument is of length zero Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

conjoint

Version: 1.41
GitHub: NA
Source code: https://github.com/cran/conjoint
Date/Publication: 2018-07-26 13:00:03 UTC
Number of recursive dependencies: 53

Run revdepcheck::cloud_details(, "conjoint") for more info

checking examples ... ERROR ``` Running examples in ‘conjoint-Ex.R’ failed The error most likely occurred in:

Name: caSegmentation

Title: Function caSegmentation divides respondents on clusters

Aliases: caSegmentation

Keywords: multivariate

** Examples

... Available components:

[1] "cluster" "centers" "totss" "withinss" "tot.withinss" [6] "betweenss" "size" "iter" "ifault"

util<-as.data.frame(segments$util) set.seed(123) ggplot2::autoplot(kmeans(util,3),data=util,label=TRUE,label.size=4,frame=TRUE) Error in if (new_name %in% existing) { : argument is of length zero Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

conquestr

Version: 1.3.4
GitHub: NA
Source code: https://github.com/cran/conquestr
Date/Publication: 2024-07-24 06:00:01 UTC
Number of recursive dependencies: 80

Run revdepcheck::cloud_details(, "conquestr") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘plotting.Rmd’ ... > myRout <- ConQuestRout() no rout file provided, loading the example rout file instead

myPlot <- plotRout(myRout)

myPlot

... Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘data-cleaning-functions-in-conquestr.Rmd’ using ‘UTF-8’... OK ‘generateResponses.Rmd’ using ‘UTF-8’... OK ‘intro-to-conquestr.Rmd’ using ‘UTF-8’... OK ‘itanal-in-conquestr.Rmd’ using ‘UTF-8’... OK ‘plotting.Rmd’ using ‘UTF-8’... failed ‘responseProbs.Rmd’ using ‘UTF-8’... OK ‘test_item_review_sheet_markdown.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘data-cleaning-functions-in-conquestr.Rmd’ using rmarkdown --- finished re-building ‘data-cleaning-functions-in-conquestr.Rmd’

--- re-building ‘generateResponses.Rmd’ using rmarkdown ```

CoreMicrobiomeR

Version: 0.1.0
GitHub: NA
Source code: https://github.com/cran/CoreMicrobiomeR
Date/Publication: 2024-04-03 20:03:02 UTC
Number of recursive dependencies: 91

Run revdepcheck::cloud_details(, "CoreMicrobiomeR") for more info

checking examples ... ERROR ``` Running examples in ‘CoreMicrobiomeR-Ex.R’ failed The error most likely occurred in:

Name: group_bar_plots

Title: Grouped Bar Plots Based on Sample Size

Aliases: group_bar_plots

** Examples

To run input data

... + top_percentage = 10 # Adjust the percentage as needed for core/non-core OTUs + ) Warning encountered during diversity analysis:you have empty rows: their dissimilarities may be meaningless in method “bray”

To run grouped bar plot function

plot_group_bar <- group_bar_plots(core_1$final_otu_table_bef_filter, + core_1$final_otu_aft_filter, 10) Error in pm[[2]] : subscript out of bounds Calls: group_bar_plots -> -> ggplotly.ggplot -> gg2list Execution halted ```

correlationfunnel

Version: 0.2.0
GitHub: https://github.com/business-science/correlationfunnel
Source code: https://github.com/cran/correlationfunnel
Date/Publication: 2020-06-09 04:40:03 UTC
Number of recursive dependencies: 116

Run revdepcheck::cloud_details(, "correlationfunnel") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(dplyr)

Attaching package: 'dplyr'

The following object is masked from 'package:testthat':

... ▆ 1. ├─correlationfunnel::plot_correlation_funnel(...) at test-plot_correlation_funnel.R:23:1 2. └─correlationfunnel:::plot_correlation_funnel.data.frame(...) 3. ├─plotly::ggplotly(g, tooltip = "text") 4. └─plotly:::ggplotly.ggplot(g, tooltip = "text") 5. └─plotly::gg2list(...)

[ FAIL 1 | WARN 3 | SKIP 0 | PASS 17 ] Error: Test failures Execution halted ```

checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘utils’ All declared Imports should be used.

corrViz

Version: 0.1.0
GitHub: NA
Source code: https://github.com/cran/corrViz
Date/Publication: 2023-06-30 11:40:07 UTC
Number of recursive dependencies: 140

Run revdepcheck::cloud_details(, "corrViz") for more info

checking examples ... ERROR ``` Running examples in ‘corrViz-Ex.R’ failed The error most likely occurred in:

Name: animSolar

Title: animSolar

Aliases: animSolar

** Examples

cm <- cor(mtcars) ... All aesthetics have length 1, but the data has 250 rows. ℹ Please consider using annotate() or provide this layer with data containing a single row. Warning in geom_text(data = solar_system, aes(x = 0, y = 0, label = sun), : All aesthetics have length 1, but the data has 250 rows. ℹ Please consider using annotate() or provide this layer with data containing a single row. Error in pm[[2]] : subscript out of bounds Calls: animSolar -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘corrViz.Rmd’ ... > library(corrViz)

cm <- cor(mtcars)

corrHeatmap(mat = cm, display = "all", reorder = TRUE, + pal = colorRampPalette(c("darkblue", "white", "darkred"))(100))

When sourcing ‘corrViz.R’: Error: subscript out of bounds Execution halted

‘corrViz.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘corrViz.Rmd’ using rmarkdown

Quitting from lines 76-81 [heatmap] (corrViz.Rmd) Error: processing vignette 'corrViz.Rmd' failed with diagnostics: subscript out of bounds --- failed re-building ‘corrViz.Rmd’

SUMMARY: processing the following file failed: ‘corrViz.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking installed package size ... NOTE installed size is 7.2Mb sub-directories of 1Mb or more: doc 6.7Mb

corx

Version: 1.0.7.2
GitHub: https://github.com/conig/corx
Source code: https://github.com/cran/corx
Date/Publication: 2023-06-16 04:10:02 UTC
Number of recursive dependencies: 125

Run revdepcheck::cloud_details(, "corx") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(corx) > > test_check("corx") [ FAIL 2 | WARN 1 | SKIP 0 | PASS 69 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ... 14. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 15. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 16. └─base::.handleSimpleError(...) 17. └─purrr (local) h(simpleError(msg, call)) 18. └─cli::cli_abort(...) 19. └─rlang::abort(...)

[ FAIL 2 | WARN 1 | SKIP 0 | PASS 69 ] Error: Test failures Execution halted ```

cosinor2

Version: 0.2.1
GitHub: https://github.com/amutak/cosinor2
Source code: https://github.com/cran/cosinor2
Date/Publication: 2018-10-15 16:10:03 UTC
Number of recursive dependencies: 78

Run revdepcheck::cloud_details(, "cosinor2") for more info

checking examples ... ERROR ``` Running examples in ‘cosinor2-Ex.R’ failed The error most likely occurred in:

Name: cosinor.PR

Title: Percent Rhythm

Aliases: cosinor.PR

** Examples

fit.temperature<-cosinor.lm(Temperature~time(Time), period = 24, data = temperature_zg) ... 1 0.9838823 0.9680243 0

fit.november<-population.cosinor.lm(data = PANAS_november, time = PANAS_time, + period = 7) MESOR Amplitude Acrophase 1 1.435419 0.2662682 -5.544496 Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: population.cosinor.lm ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘cosinor2.Rmd’ ... Loading required package: cosinor

fit.panas.cosinor <- population.cosinor.lm(data = PANAS_november, + time = PANAS_time, period = 7) MESOR Amplitude Acrophase 1 1.435419 0.2662682 -5.544496

When sourcing ‘cosinor2.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘cosinor2.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘cosinor2.Rmd’ using rmarkdown

Quitting from lines 47-48 [unnamed-chunk-2] (cosinor2.Rmd) Error: processing vignette 'cosinor2.Rmd' failed with diagnostics: invalid line type: must be length 2, 4, 6 or 8 --- failed re-building ‘cosinor2.Rmd’

SUMMARY: processing the following file failed: ‘cosinor2.Rmd’

Error: Vignette re-building failed. Execution halted ```

CoSMoS

Version: 2.1.0
GitHub: https://github.com/TycheLab/CoSMoS
Source code: https://github.com/cran/CoSMoS
Date/Publication: 2021-05-29 23:20:08 UTC
Number of recursive dependencies: 81

Run revdepcheck::cloud_details(, "CoSMoS") for more info

checking running R code from vignettes ... ERROR `` Errors in running code in vignettes: when running code in ‘vignette.Rmd’ ...stat_bin()usingbins = 30. Pick better value withbinwidth`.

precip_ggamma <- analyzeTS(TS = precip, season = "month", + dist = "ggamma", acsID = "weibull", lag.max = 12)

reportTS(aTS = precip_ggamma, method = "dist") + theme_light()

When sourcing ‘vignette.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘vignette.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘vignette.Rmd’ using rmarkdown

countfitteR

Version: 1.4
GitHub: https://github.com/BioGenies/countfitteR
Source code: https://github.com/cran/countfitteR
Date/Publication: 2020-09-30 21:30:02 UTC
Number of recursive dependencies: 93

Run revdepcheck::cloud_details(, "countfitteR") for more info

checking tests ... ERROR ``` Running ‘spelling.R’ Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(countfitteR) > > test_check("countfitteR") [ FAIL 1 | WARN 6 | SKIP 0 | PASS 34 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('testing.R:45:3'): plot_fit ──────────────────────────────────────── p$labels[[1]] not equal to "x". target is NULL, current is character

[ FAIL 1 | WARN 6 | SKIP 0 | PASS 34 ] Error: Test failures Execution halted ```

coursekata

Version: 0.18.0
GitHub: https://github.com/coursekata/coursekata-r
Source code: https://github.com/cran/coursekata
Date/Publication: 2024-08-16 20:20:02 UTC
Number of recursive dependencies: 119

Run revdepcheck::cloud_details(, "coursekata") for more info

checking examples ... ERROR ``` Running examples in ‘coursekata-Ex.R’ failed The error most likely occurred in:

Name: middle

Title: Find a percentage of a distribution

Aliases: middle tails lower upper

** Examples

... tails(1:10, .5) [1] TRUE TRUE FALSE FALSE FALSE FALSE FALSE FALSE TRUE TRUE

sampling_distribution <- do(1000) * mean(rnorm(100, 5, 10)) sampling_distribution %>% + gf_histogram(~mean, data = sampling_distribution, fill = ~ middle(mean, .68)) %>% + gf_refine(scale_fill_manual(values = c("blue", "coral"))) Error in if (new_name %in% existing) { : argument is of length zero Calls: %>% ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(coursekata) Loading required package: dslabs Loading required package: fivethirtyeight Some larger datasets need to be installed separately, like senators and house_district_forecast. To install these, we recommend you install the fivethirtyeightdata package by running: ... • gf_model-visual/gf-violin-cond-mod-y-on-x-pred-on-color.svg • gf_model-visual/gf-violin-cond-mod-y-on-x-pred-on-facet.svg • gf_model-visual/gf-violin-cond-mod-y-on-y-pred-on-color.svg • gf_model-visual/gf-violin-cond-mod-y-on-y-pred-on-facet.svg • gf_model-visual/gf-violin-cond-mod-y-on-y.svg • gf_model-visual/gf-violin-horizontal-mull-mod-y-on-x.svg • gf_model-visual/gf-violin-mull-mod-y-on-x-2.svg • gf_model-visual/gf-violin-null-mod-y-on-y.svg Error: Test failures Execution halted

covidcast

Version: 0.5.2
GitHub: https://github.com/cmu-delphi/covidcast
Source code: https://github.com/cran/covidcast
Date/Publication: 2023-07-12 23:40:06 UTC
Number of recursive dependencies: 93

Run revdepcheck::cloud_details(, "covidcast") for more info

checking tests ... ERROR Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(covidcast) We encourage COVIDcast API users to register on our mailing list: https://lists.andrew.cmu.edu/mailman/listinfo/delphi-covidcast-api We'll send announcements about new data sources, package updates, server maintenance, and new features. > ... • plot/default-county-choropleth.svg • plot/default-hrr-choropleth-with-include.svg • plot/default-msa-choropleth-with-include.svg • plot/default-state-choropleth-with-include.svg • plot/default-state-choropleth-with-range.svg • plot/state-choropleth-with-no-metadata.svg • plot/state-line-graph-with-range.svg • plot/state-line-graph-with-stderrs.svg Error: Test failures Execution halted
checking running R code from vignettes ... ERROR `` Errors in running code in vignettes: when running code in ‘external-data.Rmd’ ... Warning: Metadata for signal mean and standard deviation not available; defaulting to observed mean and standard deviation to set plot range. Warning in ggplot2::guide_colorbar(title = NULL, horizontal = TRUE, barheight = legend_height, : Arguments in...` must be used. ✖ Problematic argument: • horizontal = TRUE ℹ Did you misspell an argument name?

... Error: Rate limit exceeded when fetching data from API anonymously. See the "API keys" section of the covidcast_signal() documentation for information on registering for an API key. ℹ Message from server: ℹ Rate limit exceeded for anonymous queries. To remove this limit, register a free API key at https://api.delphi.cmu.edu/epidata/admin/registration_form Execution halted

‘correlation-utils.Rmd’ using ‘UTF-8’... OK ‘covidcast.Rmd’ using ‘UTF-8’... OK ‘external-data.Rmd’ using ‘UTF-8’... failed ‘multi-signals.Rmd’ using ‘UTF-8’... OK ‘plotting-signals.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘correlation-utils.Rmd’ using rmarkdown --- finished re-building ‘correlation-utils.Rmd’

--- re-building ‘covidcast.Rmd’ using rmarkdown

Quitting from lines 38-45 [unnamed-chunk-1] (covidcast.Rmd) Error: processing vignette 'covidcast.Rmd' failed with diagnostics: Rate limit exceeded when fetching data from API anonymously. See the "API keys" section of the covidcast_signal() documentation for information on registering for an API key. ℹ Message from server: ... ℹ Message from server: ℹ Rate limit exceeded for anonymous queries. To remove this limit, register a free API key at https://api.delphi.cmu.edu/epidata/admin/registration_form --- failed re-building ‘plotting-signals.Rmd’

SUMMARY: processing the following files failed: ‘covidcast.Rmd’ ‘external-data.Rmd’ ‘multi-signals.Rmd’ ‘plotting-signals.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking data for non-ASCII characters ... NOTE Note: found 20 marked UTF-8 strings

Coxmos

Version: 1.0.2
GitHub: https://github.com/BiostatOmics/Coxmos
Source code: https://github.com/cran/Coxmos
Date/Publication: 2024-03-25 20:32:38 UTC
Number of recursive dependencies: 194

Run revdepcheck::cloud_details(, "Coxmos") for more info

checking examples ... ERROR ``` Running examples in ‘Coxmos-Ex.R’ failed The error most likely occurred in:

Name: getAutoKM

Title: getAutoKM

Aliases: getAutoKM

** Examples

data("X_proteomic") ... X_train <- X_proteomic[index_train,1:50] Y_train <- Y_proteomic[index_train,] X_test <- X_proteomic[-index_train,1:50] Y_test <- Y_proteomic[-index_train,] splsicox.model <- splsicox(X_train, Y_train, n.comp = 2, penalty = 0.5, x.center = TRUE, + x.scale = TRUE) getAutoKM(type = "LP", model = splsicox.model) Error in if (new_name %in% existing) { : argument is of length zero Calls: getAutoKM ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Coxmos-MO-pipeline.Rmd’ ...

$proteomic

LST_KM_RES_LP <- getAutoKM(type = "LP", model = lst_models$SB.sPLS-DRCOX, + comp = 1:4, top = 10, ori_data = T, BREAKTIME = NULL, only_sig = .... [TRUNCATED]

... Warning in data("Y_proteomic") : data set ‘Y_proteomic’ not found

X <- X_proteomic

When sourcing ‘Coxmos-pipeline.R’: Error: object 'X_proteomic' not found Execution halted

‘Coxmos-MO-pipeline.Rmd’ using ‘UTF-8’... failed ‘Coxmos-pipeline.Rmd’ using ‘UTF-8’... failed ```
checking installed package size ... NOTE installed size is 7.4Mb sub-directories of 1Mb or more: R 1.5Mb data 2.5Mb doc 2.9Mb

cpr

Version: 0.4.0
GitHub: https://github.com/dewittpe/cpr
Source code: https://github.com/cran/cpr
Date/Publication: 2024-02-15 15:40:02 UTC
Number of recursive dependencies: 95

Run revdepcheck::cloud_details(, "cpr") for more info

checking running R code from vignettes ... ERROR `` Errors in running code in vignettes: when running code in ‘cpr.Rmd’ ... Warning: Removed 25 rows containing missing values or values outside the scale range (geom_rug()). Warning: Removed 26 rows containing missing values or values outside the scale range (geom_rug()). Warning: Removed 38 rows containing missing values or values outside the scale range (geom_rug()`).

When sourcing ‘cpr.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘cnr.Rmd’ using ‘UTF-8’... OK ‘cpr.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘cnr.Rmd’ using rmarkdown

checking tests ... ERROR ``` Running ‘test-bsplineD.R’ Running ‘test-bsplines.R’ Running ‘test-btensor.R’ Running ‘test-build_tensor.R’ Running ‘test-cn.R’ Running ‘test-cnr.R’ Running ‘test-coef_vcov.R’ Running the tests in ‘tests/test-coef_vcov.R’ failed. Complete output: > # Tests for extracting coefficients and vcov matrix from regression fits ...
- stopifnot(identical(names(COEF_VCOV), c("theta", "coef", "vcov_theta", "vcov")))
- stopifnot(identical(COEF_VCOV$theta, numeric(0)))
- stopifnot(identical(COEF_VCOV$coef, fixef(fit)))
- stopifnot(identical(COEF_VCOV$vcov_theta, matrix(0)[FALSE, FALSE]))
- stopifnot(identical(COEF_VCOV$vcov, as.matrix(vcov(fit))))
- }) Error in initializePtr() : function 'cholmod_factor_ldetA' not provided by package 'Matrix' Calls: with ... initialize -> -> initializePtr -> .Call Execution halted ```
checking installed package size ... NOTE installed size is 6.6Mb sub-directories of 1Mb or more: doc 1.6Mb libs 4.1Mb

cpsvote

Version: 0.1.0
GitHub: https://github.com/Reed-EVIC/cpsvote
Source code: https://github.com/cran/cpsvote
Date/Publication: 2020-11-05 16:00:02 UTC
Number of recursive dependencies: 90

Run revdepcheck::cloud_details(, "cpsvote") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘voting.Rmd’ ...
- .... [TRUNCATED]
library(usmap)

cps16 %>% as_survey_design(weights = turnout_weight) %>% + mutate(state = STATE) %>% group_by(state) %>% summarize(turnout = survey_mean(hurach .... [TRUNCATED]

When sourcing ‘voting.R’: Error: argument is of length zero Execution halted

‘add-variables.Rmd’ using ‘UTF-8’... OK ‘background.Rmd’ using ‘UTF-8’... OK ‘basics.Rmd’ using ‘UTF-8’... OK ‘voting.Rmd’ using ‘UTF-8’... failed ```

crimeutils

Version: 0.5.1
GitHub: https://github.com/jacobkap/crimeutils
Source code: https://github.com/cran/crimeutils
Date/Publication: 2022-12-07 15:10:07 UTC
Number of recursive dependencies: 103

Run revdepcheck::cloud_details(, "crimeutils") for more info

checking examples ... ERROR ``` Running examples in ‘crimeutils-Ex.R’ failed The error most likely occurred in:

Name: scale_linetype_crim

Title: A set of linetypes

Aliases: scale_linetype_crim

** Examples

ggplot2::ggplot(mtcars, ggplot2::aes(x = mpg, y = hp, linetype = as.character(cyl))) + + ggplot2::geom_line(size = 1) + + scale_linetype_crim() + + theme_crim() Warning: Using size aesthetic for lines was deprecated in ggplot2 3.4.0. ℹ Please use linewidth instead. Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```

crmPack

Version: 1.0.6
GitHub: https://github.com/openpharma/crmPack
Source code: https://github.com/cran/crmPack
Date/Publication: 2024-06-26 15:00:14 UTC
Number of recursive dependencies: 70

Run revdepcheck::cloud_details(, "crmPack") for more info

checking examples ... ERROR ``` Running examples in ‘crmPack-Ex.R’ failed The error most likely occurred in:

Name: DataMixture-class

Title: Class for the data with mixture sharing

Aliases: DataMixture-class .DataMixture

Keywords: classes

** Examples

... + refDose = 50)

nodata <- Data(doseGrid=doseGrid)

priorSamples <- mcmc(nodata, model, options) plot(priorSamples, model, nodata) Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘example.Rnw’ ... [1] -5.070681

newDLTmodel@phi2 [1] 1.125107

print(plot(samples, model, data))

When sourcing ‘example.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘guidelines.Rmd’ using ‘UTF-8’... OK ‘example.Rnw’ using ‘UTF-8’... failed ```

checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘guidelines.Rmd’ using rmarkdown --- finished re-building ‘guidelines.Rmd’

--- re-building ‘example.Rnw’ using Sweave Loading required package: ggplot2 Registered S3 method overwritten by 'crmPack': method from print.gtable gtable Type crmPackHelp() to open help browser ... Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8

--- failed re-building ‘example.Rnw’

SUMMARY: processing the following file failed: ‘example.Rnw’

Error: Vignette re-building failed. Execution halted ```

crosshap

Version: 1.4.0
GitHub: https://github.com/jacobimarsh/crosshap
Source code: https://github.com/cran/crosshap
Date/Publication: 2024-03-31 15:40:02 UTC
Number of recursive dependencies: 117

Run revdepcheck::cloud_details(, "crosshap") for more info

checking examples ... ERROR ``` Running examples in ‘crosshap-Ex.R’ failed The error most likely occurred in:

Name: build_bot_halfeyeplot

Title: Bot hap-pheno raincloud plot

Aliases: build_bot_halfeyeplot

** Examples

... 12. │ └─ggplot2 (local) f(l = layers[[i]], d = data[[i]]) 13. │ └─l$compute_geom_2(d, theme = plot$theme) 14. │ └─ggplot2 (local) compute_geom_2(..., self = self) 15. │ └─self$geom$use_defaults(...) 16. └─base::.handleSimpleError(...) 17. └─rlang (local) h(simpleError(msg, call)) 18. └─handlers[1L] 19. └─cli::cli_abort(...) 20. └─rlang::abort(...) Execution halted ```

ctrialsgov

Version: 0.2.5
GitHub: NA
Source code: https://github.com/cran/ctrialsgov
Date/Publication: 2021-10-18 16:00:02 UTC
Number of recursive dependencies: 100

Run revdepcheck::cloud_details(, "ctrialsgov") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(ctrialsgov) > > test_check("ctrialsgov") [NCT04553939] ible Local Advanved |Bladder| Cancer [NCT03517995] of Sulforaphane in |Bladder| Cancer Chemoprevent [NCT04210479] Comparison of |Bladder| Filling vs. Non-Fil ... ▆
1. ├─ctrialsgov::ctgov_to_plotly(p) at test-plot.R:12:3
2. └─ctrialsgov:::ctgov_to_plotly.ctgov_bar_plot(p)
3. ├─plotly::ggplotly(p, tooltip = "text")
4. └─plotly:::ggplotly.ggplot(p, tooltip = "text")
5. └─plotly::gg2list(...)
[ FAIL 1 | WARN 6 | SKIP 0 | PASS 43 ] Error: Test failures Execution halted ```

checking data for non-ASCII characters ... NOTE Note: found 1350 marked UTF-8 strings

cubble

Version: 1.0.0
GitHub: https://github.com/huizezhang-sherry/cubble
Source code: https://github.com/cran/cubble
Date/Publication: 2024-08-27 15:20:02 UTC
Number of recursive dependencies: 145

Run revdepcheck::cloud_details(, "cubble") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘cb5match.Rmd’ ... > p2 <- ggplot(res_tm_long, aes(x = date, y = matched,
- group = type, color = type)) + geom_line() + facet_wrap(vars(group)) +
- scale_colo .... [TRUNCATED]
(p1 | p2) + patchwork::plot_layout(guides = "collect") + + plot_annotation(tag_levels = "a") & theme(legend.position = "bottom")

... Error: subscript out of bounds Execution halted

‘cb1class.Rmd’ using ‘UTF-8’... OK ‘cb2create.Rmd’ using ‘UTF-8’... OK ‘cb3tsibblesf.Rmd’ using ‘UTF-8’... OK ‘cb4glyph.Rmd’ using ‘UTF-8’... OK ‘cb5match.Rmd’ using ‘UTF-8’... failed ‘cb6interactive.Rmd’ using ‘UTF-8’... failed ‘cb7misc.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘cb1class.Rmd’ using rmarkdown --- finished re-building ‘cb1class.Rmd’

--- re-building ‘cb2create.Rmd’ using rmarkdown --- finished re-building ‘cb2create.Rmd’

--- re-building ‘cb3tsibblesf.Rmd’ using rmarkdown --- finished re-building ‘cb3tsibblesf.Rmd’

--- re-building ‘cb4glyph.Rmd’ using rmarkdown ```

checking installed package size ... NOTE installed size is 5.6Mb sub-directories of 1Mb or more: data 3.0Mb doc 1.4Mb

curtailment

Version: 0.2.6
GitHub: https://github.com/martinlaw/curtailment
Source code: https://github.com/cran/curtailment
Date/Publication: 2023-10-25 15:50:04 UTC
Number of recursive dependencies: 36

Run revdepcheck::cloud_details(, "curtailment") for more info

checking examples ... ERROR ``` Running examples in ‘curtailment-Ex.R’ failed The error most likely occurred in:

Name: drawDiagramGeneric

Title: drawDiagramGeneric

Aliases: drawDiagramGeneric

** Examples

go <- cbind(6:8, rep(8,3)) ... 4. └─ggplot2:::ggplot_build.ggplot(x) 5. └─layout$setup(data, plot$data, plot$plot_env) 6. └─ggplot2 (local) setup(..., self = self) 7. └─self$coord$setup_params(data) 8. └─ggplot2 (local) setup_params(..., self = self) 9. └─ggplot2:::parse_coord_expand(expand = self$expand %||% TRUE) 10. └─ggplot2:::check_logical(expand) 11. └─ggplot2:::stop_input_type(...) 12. └─rlang::abort(message, ..., call = call, arg = arg) Execution halted ```

dabestr

Version: 2023.9.12
GitHub: https://github.com/ACCLAB/dabestr
Source code: https://github.com/cran/dabestr
Date/Publication: 2023-10-13 11:50:06 UTC
Number of recursive dependencies: 85

Run revdepcheck::cloud_details(, "dabestr") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘tutorial_deltadelta.Rmd’ ... > paired_delta2.mean_diff <- load(df, x = Treatment,
- y = Measurement, experiment = Genotype, colour = Rep, delta2 = TRUE,
- idx = list(c(" ..." ... [TRUNCATED]
dabest_plot(paired_delta2.mean_diff, raw_marker_size = 0.5, + raw_marker_alpha = 0.3)

... Error: argument is of length zero Execution halted

‘datasets.Rmd’ using ‘UTF-8’... OK ‘plot_aesthetics.Rmd’ using ‘UTF-8’... OK ‘tutorial_basics.Rmd’ using ‘UTF-8’... OK ‘tutorial_deltadelta.Rmd’ using ‘UTF-8’... failed ‘tutorial_minimeta.Rmd’ using ‘UTF-8’... failed ‘tutorial_proportion_plots.Rmd’ using ‘UTF-8’... OK ‘tutorial_repeated_measures.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘datasets.Rmd’ using rmarkdown --- finished re-building ‘datasets.Rmd’

--- re-building ‘plot_aesthetics.Rmd’ using rmarkdown ```

DAISIEprep

Version: 0.4.0
GitHub: https://github.com/joshwlambert/DAISIEprep
Source code: https://github.com/cran/DAISIEprep
Date/Publication: 2024-04-02 11:30:06 UTC
Number of recursive dependencies: 149

Run revdepcheck::cloud_details(, "DAISIEprep") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(DAISIEprep) > > test_check("DAISIEprep") [ FAIL 4 | WARN 2 | SKIP 14 | PASS 2211 ]

══ Skipped tests (14) ══════════════════════════════════════════════════════════ ... ── Failure ('test-plot_phylod.R:8:3'): plot_phylod runs silent without error ─── plot_phylod(phylod = phylod, node_pies = FALSE) produced warnings. ── Failure ('test-plot_phylod.R:13:3'): plot_phylod runs silent without error ── plot_phylod(phylod = phylod, node_pies = TRUE) produced warnings. ── Failure ('test-plot_phylod.R:18:3'): plot_phylod runs silent without error ── plot_phylod(phylod = phylod, node_pies = TRUE) produced warnings.

[ FAIL 4 | WARN 2 | SKIP 14 | PASS 2211 ] Error: Test failures Execution halted ```

dbmss

Version: 2.9-2
GitHub: https://github.com/EricMarcon/dbmss
Source code: https://github.com/cran/dbmss
Date/Publication: 2024-08-24 11:00:02 UTC
Number of recursive dependencies: 96

Run revdepcheck::cloud_details(, "dbmss") for more info

checking examples ... ERROR ``` Running examples in ‘dbmss-Ex.R’ failed The error most likely occurred in:

Name: DEnvelope

Title: Estimation of the confidence envelope of the D function under

its null hypothesis

Aliases: DEnvelope

** Examples

... r <- 0:30 NumberOfSimulations <- 20 Alpha <- .05

Plot the envelope (after normalization by pi.r^2)

autoplot(DEnvelope(X, r, NumberOfSimulations, Alpha, + "V. Americana", "Q. Rosea", Intertype = TRUE), ./(pi*r^2) ~ r) Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘dbmss.Rmd’ ...

autoplot(paracou16, labelSize = expression("Basal area (" ~ + cm^2 ~ ")"), labelColor = "Species")

autoplot(Mhat(paracou16, ReferenceType = "V. Americana", + NeighborType = "Q. Rosea"), main = "")

When sourcing ‘dbmss.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘dbmss.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘dbmss.Rmd’ using rmarkdown

deeptime

Version: 2.0.0
GitHub: https://github.com/willgearty/deeptime
Source code: https://github.com/cran/deeptime
Date/Publication: 2024-08-19 07:00:43 UTC
Number of recursive dependencies: 197

Run revdepcheck::cloud_details(, "deeptime") for more info

checking tests ... ERROR Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(deeptime) > > test_check("deeptime") Scale for y is already present. Adding another scale for y, which will replace the existing scale. Scale for y is already present. ... • patterns/geo-pattern2-new.svg • patterns/scale-fill-geopattern-labels-new.svg • patterns/scale-fill-geopattern-limits-new.svg • patterns/scale-fill-geopattern-na-new.svg • patterns/scale-fill-geopattern-na2-new.svg • points_range/geom-points-range-aes-new.svg • points_range/geom-points-range-bg-new.svg • points_range/geom-points-range-h-new.svg Error: Test failures Execution halted
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘coord_geo.Rmd’ ...
- y = n)) + scale_x_reverse("Age (Ma)") + ylab("Coral Genera") +
- coord_geo(xlim = .... [TRUNCATED]
ggplot(coral_div) + geom_line(aes(x = stage_age, y = n)) + + scale_x_reverse("Age (Ma)") + ylab("Coral Genera") + coord_geo(dat = "periods", + .... [TRUNCATED]

... Error: argument is of length zero Execution halted

‘coord.Rmd’ using ‘UTF-8’... OK ‘coord_geo.Rmd’ using ‘UTF-8’... failed ‘geo.Rmd’ using ‘UTF-8’... OK ‘ggarrange2.Rmd’ using ‘UTF-8’... OK ‘phylogenies.Rmd’ using ‘UTF-8’... OK ‘time.Rmd’ using ‘UTF-8’... failed ‘traits.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘coord.Rmd’ using rmarkdown

checking installed package size ... NOTE installed size is 5.9Mb sub-directories of 1Mb or more: R 2.8Mb doc 1.8Mb help 1.1Mb

descriptio

Version: 1.3
GitHub: https://github.com/nicolas-robette/descriptio
Source code: https://github.com/cran/descriptio
Date/Publication: 2024-03-07 11:00:02 UTC
Number of recursive dependencies: 98

Run revdepcheck::cloud_details(, "descriptio") for more info

checking examples ... ERROR ``` Running examples in ‘descriptio-Ex.R’ failed The error most likely occurred in:

Name: ggassoc_crosstab

Title: Proportional area plot

Aliases: ggassoc_crosstab

Keywords: multivariate aplot

** Examples

data(Movies) ggassoc_crosstab(data=Movies, mapping=ggplot2::aes(Genre, Country)) Error in if (new_name %in% existing) { : argument is of length zero Calls: ggassoc_crosstab ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

checking Rd cross-references ... NOTE Packages unavailable to check Rd xrefs: ‘FactoMineR’, ‘vcd’

directlabels

Version: 2024.1.21
GitHub: https://github.com/tdhock/directlabels
Source code: https://github.com/cran/directlabels
Date/Publication: 2024-01-24 19:20:07 UTC
Number of recursive dependencies: 82

Run revdepcheck::cloud_details(, "directlabels") for more info

checking running R code from vignettes ... ERROR `` Errors in running code in vignettes: when running code in ‘examples.Rmd’ ... Warning: Usingsizeaesthetic for lines was deprecated in ggplot2 3.4.0. ℹ Please uselinewidthinstead.geom_smooth()` using method = 'loess' and formula = 'y ~ x'

When sourcing ‘examples.R’: Error: Problem while computing stat. ℹ Error occurred in the 3rd layer. Caused by error in get(): ! object 'last.qp' of mode 'function' was not found Execution halted

‘examples.Rmd’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘examples.Rmd’ using knitr

disto

Version: 0.2.0
GitHub: https://github.com/talegari/disto
Source code: https://github.com/cran/disto
Date/Publication: 2018-08-02 12:50:02 UTC
Number of recursive dependencies: 115

Run revdepcheck::cloud_details(, "disto") for more info

checking examples ... ERROR ``` Running examples in ‘disto-Ex.R’ failed The error most likely occurred in:

Name: plot.disto

Title: Plot a disto object

Aliases: plot.disto

** Examples

temp <- stats::dist(iris[,1:4]) ... dio <- disto(objectname = "temp") plot(dio, type = "heatmap") plot(dio, type = "dendrogram") Warning: The <scale> argument of guides() cannot be FALSE. Use "none" instead as of ggplot2 3.3.4. ℹ The deprecated feature was likely used in the factoextra package. Please report the issue at https://github.com/kassambara/factoextra/issues. Error in if (new_name %in% existing) { : argument is of length zero Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘vignette_disto.Rmd’ ...

plot(dio, type = "dendrogram") Warning: The <scale> argument of guides() cannot be FALSE. Use "none" instead as of ggplot2 3.3.4. ℹ The deprecated feature was likely used in the factoextra package. Please report the issue at https://github.com/kassambara/factoextra/issues.

When sourcing ‘vignette_disto.R’: Error: argument is of length zero Execution halted

‘vignette_disto.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘vignette_disto.Rmd’ using rmarkdown

Quitting from lines 42-72 [unnamed-chunk-1] (vignette_disto.Rmd) Error: processing vignette 'vignette_disto.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘vignette_disto.Rmd’

SUMMARY: processing the following file failed: ‘vignette_disto.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘dplyr’ ‘proxy’ All declared Imports should be used.

distributional

Version: 0.4.0
GitHub: https://github.com/mitchelloharawild/distributional
Source code: https://github.com/cran/distributional
Date/Publication: 2024-02-07 13:30:02 UTC
Number of recursive dependencies: 64

Run revdepcheck::cloud_details(, "distributional") for more info

checking examples ... ERROR ``` Running examples in ‘distributional-Ex.R’ failed The error most likely occurred in:

Name: dist_truncated

Title: Truncate a distribution

Aliases: dist_truncated

** Examples

dist <- dist_truncated(dist_normal(2,1), lower = 0) ... 12. │ └─ggplot2 (local) f(l = layers[[i]], d = data[[i]]) 13. │ └─l$compute_geom_2(d, theme = plot$theme) 14. │ └─ggplot2 (local) compute_geom_2(..., self = self) 15. │ └─self$geom$use_defaults(...) 16. └─base::.handleSimpleError(...) 17. └─rlang (local) h(simpleError(msg, call)) 18. └─handlers[1L] 19. └─cli::cli_abort(...) 20. └─rlang::abort(...) Execution halted ```

dittoViz

Version: 1.0.1
GitHub: https://github.com/dtm2451/dittoViz
Source code: https://github.com/cran/dittoViz
Date/Publication: 2024-02-02 00:00:12 UTC
Number of recursive dependencies: 99

Run revdepcheck::cloud_details(, "dittoViz") for more info

checking examples ... ERROR ``` Running examples in ‘dittoViz-Ex.R’ failed The error most likely occurred in:

Name: barPlot

Title: Outputs a stacked bar plot to show the percent composition of

samples, groups, clusters, or other groupings

Aliases: barPlot

** Examples

... 15 3 D 12 32 0.3750000 16 4 D 8 32 0.2500000

through hovering the cursor over the relevant parts of the plot

if (requireNamespace("plotly", quietly = TRUE)) { + barPlot(example_df, "clustering", group.by = "groups", + do.hover = TRUE) + } Error in pm[[2]] : subscript out of bounds Calls: barPlot -> -> ggplotly.ggplot -> gg2list Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(dittoViz) Loading required package: ggplot2 > test_check("dittoViz") [ FAIL 89 | WARN 2 | SKIP 0 | PASS 63 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ... 6. └─dittoViz:::.yPlot_add_data_y_direction(...) 7. └─ggplot2:::+.gg(p, do.call(geom_boxplot, boxplot.args)) 8. └─ggplot2:::add_ggplot(e1, e2, e2name) 9. ├─ggplot2::ggplot_add(object, p, objectname) 10. └─ggplot2:::ggplot_add.Layer(object, p, objectname) 11. └─ggplot2:::new_layer_names(object, names(plot$layers))

[ FAIL 89 | WARN 2 | SKIP 0 | PASS 63 ] Error: Test failures Execution halted ```

dotwhisker

Version: 0.8.2
GitHub: https://github.com/fsolt/dotwhisker
Source code: https://github.com/cran/dotwhisker
Date/Publication: 2024-06-07 12:20:06 UTC
Number of recursive dependencies: 72

Run revdepcheck::cloud_details(, "dotwhisker") for more info

checking examples ... ERROR ``` Running examples in ‘dotwhisker-Ex.R’ failed The error most likely occurred in:

Name: small_multiple

Title: Generate a 'Small Multiple' Plot of Regression Results

Aliases: small_multiple

** Examples

library(broom) ... + m[[i]] <- update(m[[i-1]], paste(". ~ . +", ordered_vars[i])) + m123456_df <- rbind(m123456_df, m[[i]] %>% tidy %>% by_2sd(mtcars) %>% + mutate(model = paste("Model", i))) + }

Generate a 'small multiple' plot

small_multiple(m123456_df) Error in if (new_name %in% existing) { : argument is of length zero Calls: small_multiple ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘dotwhisker-vignette.Rmd’ ...
- wt = "Weight", cyl = "Cylinders", disp = "Displacement",
- .... [TRUNCATED]
small_multiple(m123456_df) + theme_bw(base_size = 4) + + ylab("Coefficient Estimate") + geom_hline(yintercept = 0, + colour = "grey60", li .... [TRUNCATED]

...

small_multiple(results_df, show_stats = FALSE) + scale_x_discrete(limits = model_names) + + theme_bw() + ylab("Coefficient Estimate") + geom_hl .... [TRUNCATED]

When sourcing ‘kl2007_examples.R’: Error: argument is of length zero Execution halted

‘dotwhisker-vignette.Rmd’ using ‘UTF-8’... failed ‘kl2007_examples.Rmd’ using ‘ASCII’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘dotwhisker-vignette.Rmd’ using rmarkdown

DRomics

Version: 2.5-2
GitHub: https://github.com/aursiber/DRomics
Source code: https://github.com/cran/DRomics
Date/Publication: 2024-01-31 09:30:02 UTC
Number of recursive dependencies: 153

Run revdepcheck::cloud_details(, "DRomics") for more info

checking examples ... ERROR ``` Running examples in ‘DRomics-Ex.R’ failed The error most likely occurred in:

Name: PCAdataplot

Title: Performs and plots the results of a PCA on omic data

Aliases: PCAdataplot

** Examples

... Number of items: 100 Identifiers of the first 20 items: [1] "1" "2" "3" "4" "5.1" "6.1" "7.1" "8.1" "9.1" "10.1" [11] "11.1" "12.1" "13.1" "14.1" "15" "16.1" "17.1" "18.1" "19.1" "20.1" Data were normalized between arrays using the following method: cyclicloess plot(o) PCAdataplot(o) Error in if (new_name %in% existing) { : argument is of length zero Calls: PCAdataplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘DRomics_vignette.Rmd’ using rmarkdown

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘DRomics_vignette.Rmd’ ... [16] "ENSDARG00000100660" "ENSDARG00000113107" "ENSDARG00000099787" [19] "ENSDARG00000112451" "ENSDARG00000070546" Data were normalized with respect to library size and tranformed using the following method: rlog

PCAdataplot(o, batch = zebraf$batch) + theme_bw()

When sourcing ‘DRomics_vignette.R’: Error: argument is of length zero Execution halted

‘DRomics_vignette.Rmd’ using ‘UTF-8’... failed ```
checking installed package size ... NOTE installed size is 6.2Mb sub-directories of 1Mb or more: doc 2.9Mb

dtwclust

Version: 6.0.0
GitHub: https://github.com/asardaes/dtwclust
Source code: https://github.com/cran/dtwclust
Date/Publication: 2024-07-23 08:50:02 UTC
Number of recursive dependencies: 96

Run revdepcheck::cloud_details(, "dtwclust") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(dtwclust) Loading required package: proxy

Attaching package: 'proxy'

The following objects are masked from 'package:stats':

... 7. └─dtwclust (local) .local(x, y = y, ...) 8. └─ggplot2:::+.gg(gg, do_call(ggrepel::geom_label_repel, labels)) 9. └─ggplot2:::add_ggplot(e1, e2, e2name) 10. ├─ggplot2::ggplot_add(object, p, objectname) 11. └─ggplot2:::ggplot_add.Layer(object, p, objectname) 12. └─ggplot2:::new_layer_names(object, names(plot$layers))

[ FAIL 1 | WARN 0 | SKIP 15 | PASS 1930 ] Error: Test failures Execution halted ```

checking re-building of vignette outputs ... WARNING ``` Error(s) in re-building vignettes: --- re-building ‘parallelization-considerations.Rmd’ using rmarkdown_notangle --- finished re-building ‘parallelization-considerations.Rmd’

--- re-building ‘timing-experiments.Rmd’ using rmarkdown_notangle ```
checking installed package size ... NOTE installed size is 15.5Mb sub-directories of 1Mb or more: R 1.5Mb doc 2.1Mb libs 11.1Mb
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

duke

Version: 0.0.3
GitHub: https://github.com/aidangildea/duke
Source code: https://github.com/cran/duke
Date/Publication: 2023-12-15 21:50:16 UTC
Number of recursive dependencies: 89

Run revdepcheck::cloud_details(, "duke") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ 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/tests.html > # * https://testthat.r-lib.org/reference/test_package.html#special-files ...
1. │ └─testthat:::expect_condition_matching(...)
2. │ └─testthat:::quasi_capture(...)
3. │ ├─testthat (local) .capture(...)
4. │ │ └─base::withCallingHandlers(...)
5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
6. └─testthat::expect_equal(ggplot2::layer_data(p3)$fill[9], "#B5B5B5")
[ FAIL 1 | WARN 9 | SKIP 0 | PASS 27 ] Error: Test failures Execution halted ```

easysurv

Version: 2.0.1
GitHub: https://github.com/Maple-Health-Group/easysurv
Source code: https://github.com/cran/easysurv
Date/Publication: 2024-06-21 10:30:06 UTC
Number of recursive dependencies: 156

Run revdepcheck::cloud_details(, "easysurv") for more info

checking examples ... ERROR ``` Running examples in ‘easysurv-Ex.R’ failed The error most likely occurred in:

Name: get_km

Title: Generate Kaplan-Meier estimates

Aliases: get_km

** Examples

km_results <- get_km( ... Poor Poor 228 145 3.101736 0.1772520 2.183562 1.978082 2.619178 Median follow-up Good 4.452055 Medium 4.712329 Poor 4.115068

Error in .construct_risktable(x, geom_blank.times = NULL, geom_blank.risktable_stats = "{n.risk}", : argument "risktable_height" is missing, with no default Calls: ... ggsurvfit_build -> -> .construct_risktable Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘easysurv.Rmd’ ... Median follow-up Tab+Vis 2.217659 Tab->Vis 2.220397 Tab 2.308008 Vis 2.198494

When sourcing ‘easysurv.R’: Error: argument "risktable_height" is missing, with no default Execution halted

‘easysurv.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘easysurv.Rmd’ using rmarkdown

Quitting from lines 149-157 [km] (easysurv.Rmd) Error: processing vignette 'easysurv.Rmd' failed with diagnostics: argument "risktable_height" is missing, with no default --- failed re-building ‘easysurv.Rmd’

SUMMARY: processing the following file failed: ‘easysurv.Rmd’

Error: Vignette re-building failed. Execution halted ```

EGAnet

Version: 2.0.7
GitHub: https://github.com/hfgolino/EGAnet
Source code: https://github.com/cran/EGAnet
Date/Publication: 2024-09-02 20:00:01 UTC
Number of recursive dependencies: 190

Run revdepcheck::cloud_details(, "EGAnet") for more info

checking examples ... ERROR ``` Running examples in ‘EGAnet-Ex.R’ failed The error most likely occurred in:

Name: dimensionStability

Title: Dimension Stability Statistics from 'bootEGA'

Aliases: dimensionStability

** Examples

Load data

... 16. │ └─e1 %+% e2 17. │ └─ggplot2:::add_ggplot(e1, e2, e2name) 18. │ ├─ggplot2::ggplot_add(object, p, objectname) 19. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 20. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 21. └─base::.handleSimpleError(...) 22. └─purrr (local) h(simpleError(msg, call)) 23. └─cli::cli_abort(...) 24. └─rlang::abort(...) Execution halted ```

checking installed package size ... NOTE installed size is 5.6Mb sub-directories of 1Mb or more: R 1.5Mb data 3.5Mb

EGM

Version: 0.1.0
GitHub: https://github.com/shah-in-boots/EGM
Source code: https://github.com/cran/EGM
Date/Publication: 2024-05-23 16:10:05 UTC
Number of recursive dependencies: 77

Run revdepcheck::cloud_details(, "EGM") for more info

checking tests ... ERROR `` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(EGM) Loading required package: vctrs Loading required package: data.table > EGM::set_wfdb_path("/usr/local/bin") > > test_check("EGM") ... ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-ggm.R:63:2'): theming works ────────────────────────────────── g$labels$x (actual) not equal to "sample" (expected`).

actual is NULL expected is a character vector ('sample')

[ FAIL 1 | WARN 0 | SKIP 19 | PASS 43 ] Error: Test failures Execution halted ```

emmeans

Version: 1.10.4
GitHub: https://github.com/rvlenth/emmeans
Source code: https://github.com/cran/emmeans
Date/Publication: 2024-08-21 03:00:01 UTC
Number of recursive dependencies: 159

Run revdepcheck::cloud_details(, "emmeans") for more info

checking examples ... ERROR ``` Running examples in ‘emmeans-Ex.R’ failed The error most likely occurred in:

Name: auto.noise

Title: Auto Pollution Filter Noise

Aliases: auto.noise

Keywords: datasets

** Examples

(Based on belief that noise/10 is in decibel units)

noise.lm <- lm(noise/10 ~ size * type * side, data = auto.noise)

Interaction plot of predictions

emmip(noise.lm, type ~ size | side) Error in if (new_name %in% existing) { : argument is of length zero Calls: emmip ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘basics.Rmd’ ... 'emmGrid' object with variables: source = fish, soy, skim percent = 9, 12, 15, 18 Transformation: “inverse”

emmip(RG4, source ~ percent, style = "factor")

... ‘messy-data.Rmd’ using ‘UTF-8’... failed ‘models.Rmd’ using ‘UTF-8’... OK ‘predictions.Rmd’ using ‘UTF-8’... failed ‘re-engineering-clds.rmd’ using ‘UTF-8’... OK ‘sophisticated.Rmd’ using ‘UTF-8’... failed ‘transformations.Rmd’ using ‘UTF-8’... failed ‘utilities.Rmd’ using ‘UTF-8’... OK ‘vignette-topics.Rmd’ using ‘UTF-8’... OK ‘xplanations.Rmd’ using ‘UTF-8’... failed ‘xtending.Rmd’ using ‘UTF-8’... OK ```
checking package dependencies ... NOTE Packages which this enhances but not available for checking: 'CARBayes', 'coxme', 'gee', 'geepack', 'MCMCglmm', 'MCMCpack', 'mice', 'pscl', 'rstanarm', 'sommer'
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘AQuickStart.Rmd’ using rmarkdown --- finished re-building ‘AQuickStart.Rmd’

--- re-building ‘FAQs.Rmd’ using rmarkdown --- finished re-building ‘FAQs.Rmd’

--- re-building ‘basics.Rmd’ using rmarkdown

Quitting from lines 260-262 [unnamed-chunk-13] (basics.Rmd) Error: processing vignette 'basics.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘basics.Rmd’

--- re-building ‘comparisons.Rmd’ using rmarkdown ```

EMMIXmfa

Version: 2.0.14
GitHub: https://github.com/suren-rathnayake/EMMIXmfa
Source code: https://github.com/cran/EMMIXmfa
Date/Publication: 2024-01-25 20:30:02 UTC
Number of recursive dependencies: 59

Run revdepcheck::cloud_details(, "EMMIXmfa") for more info

checking examples ... ERROR ``` Running examples in ‘EMMIXmfa-Ex.R’ failed The error most likely occurred in:

Name: factor_scores

Title: Computes Factor Scores

Aliases: factor_scores factor_scores.mcfa factor_scores.mctfa

plot.emmix

Keywords: cluster multivariate models

** Examples

... Y <- iris[-c(sel_subset), -5] Y <- as.matrix(Y) clust <- predict(model, Y)

fa_scores <- factor_scores(model, Y)

Visualizing new data in factor space

plot_factors(fa_scores, type = "Umean", clust = clust) Error in if (new_name %in% existing) { : argument is of length zero Calls: plot_factors ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

entropart

Version: 1.6-15
GitHub: https://github.com/EricMarcon/entropart
Source code: https://github.com/cran/entropart
Date/Publication: 2024-08-26 19:30:09 UTC
Number of recursive dependencies: 125

Run revdepcheck::cloud_details(, "entropart") for more info

checking examples ... ERROR ``` Running examples in ‘entropart-Ex.R’ failed The error most likely occurred in:

Name: Accumulation

Title: Diversity accumulation.

Aliases: DivAC EntAC as.AccumCurve is.AccumCurve autoplot.AccumCurve

plot.AccumCurve

** Examples

... 11. │ └─base::withCallingHandlers(...) 12. └─ggplot2 (local) f(l = layers[[i]], d = data[[i]]) 13. └─l$compute_geom_2(d, theme = plot$theme) 14. └─ggplot2 (local) compute_geom_2(..., self = self) 15. └─self$geom$use_defaults(...) 16. └─ggplot2 (local) use_defaults(..., self = self) 17. └─ggplot2:::check_aesthetics(new_params, nrow(data)) 18. └─cli::cli_abort(...) 19. └─rlang::abort(...) Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘entropart.Rmd’ ...

autoplot(Abd18, Distribution = "lnorm")

When sourcing ‘entropart.R’: Error: Problem while setting up geom aesthetics. ℹ Error occurred in the 1st layer. Caused by error in check_aesthetics(): ! Aesthetics must be either length 1 or the same as the data (149). ✖ Fix the following mappings: shape, colour, and size. Execution halted

‘entropart.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘entropart.Rmd’ using rmarkdown

Quitting from lines 53-55 [PlotN18] (entropart.Rmd) Error: processing vignette 'entropart.Rmd' failed with diagnostics: Problem while setting up geom aesthetics. ℹ Error occurred in the 1st layer. Caused by error in check_aesthetics(): ! Aesthetics must be either length 1 or the same as the data (149). ✖ Fix the following mappings: shape, colour, and size. --- failed re-building ‘entropart.Rmd’

SUMMARY: processing the following file failed: ‘entropart.Rmd’

Error: Vignette re-building failed. Execution halted ```

EnvStats

Version: 3.0.0
GitHub: https://github.com/alexkowa/EnvStats
Source code: https://github.com/cran/EnvStats
Date/Publication: 2024-08-24 23:10:05 UTC
Number of recursive dependencies: 79

Run revdepcheck::cloud_details(, "EnvStats") for more info

checking examples ... ERROR ``` Running examples in ‘EnvStats-Ex.R’ failed The error most likely occurred in:

Name: geom_stripchart

Title: 1-D Scatter Plots with Confidence Intervals Using ggplot2

Aliases: geom_stripchart

Keywords: hplot htest

** Examples

...

p + geom_stripchart() + + labs(x = "Number of Cylinders", y = "Miles per Gallon") Warning: The fun.y argument of stat_summary() is deprecated as of ggplot2 3.3.0. ℹ Please use the fun argument instead. ℹ The deprecated feature was likely used in the EnvStats package. Please report the issue to the authors. Error in if (new_name %in% existing) { : argument is of length zero Calls: +.gg ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

checking installed package size ... NOTE installed size is 7.8Mb sub-directories of 1Mb or more: R 3.5Mb help 3.5Mb

epiCleanr

Version: 0.2.0
GitHub: https://github.com/truenomad/epiCleanr
Source code: https://github.com/cran/epiCleanr
Date/Publication: 2023-09-28 12:20:05 UTC
Number of recursive dependencies: 130

Run revdepcheck::cloud_details(, "epiCleanr") for more info

checking examples ... ERROR ``` Running examples in ‘epiCleanr-Ex.R’ failed The error most likely occurred in:

Name: handle_outliers

Title: Detect and Handle Outliers in Dataset

Aliases: handle_outliers

** Examples

... 12. │ └─ggplot2 (local) f(l = layers[[i]], d = data[[i]]) 13. │ └─l$compute_geom_2(d, theme = plot$theme) 14. │ └─ggplot2 (local) compute_geom_2(..., self = self) 15. │ └─self$geom$use_defaults(...) 16. └─base::.handleSimpleError(...) 17. └─rlang (local) h(simpleError(msg, call)) 18. └─handlers[1L] 19. └─cli::cli_abort(...) 20. └─rlang::abort(...) Execution halted ```

checking installed package size ... NOTE installed size is 5.6Mb sub-directories of 1Mb or more: doc 2.9Mb help 2.5Mb

epiphy

Version: 0.5.0
GitHub: https://github.com/chgigot/epiphy
Source code: https://github.com/cran/epiphy
Date/Publication: 2023-11-16 11:20:10 UTC
Number of recursive dependencies: 91

Run revdepcheck::cloud_details(, "epiphy") for more info

checking examples ... ERROR ``` Running examples in ‘epiphy-Ex.R’ failed The error most likely occurred in:

Name: clump

Title: Regroup observational data into even clumps of individuals.

Aliases: clump clump.intensity

** Examples

my_incidence <- incidence(tomato_tswv$field_1929) ... 18. │ └─ggplot2 (local) setup_params(...) 19. │ └─ggplot2:::make_summary_fun(...) 20. │ └─rlang::as_function(fun.data) 21. │ └─base::get(x, envir = env, mode = "function") 22. └─base::.handleSimpleError(...) 23. └─rlang (local) h(simpleError(msg, call)) 24. └─handlers[1L] 25. └─cli::cli_abort(...) 26. └─rlang::abort(...) Execution halted ```

EQUALSTATS

Version: 0.4.0
GitHub: NA
Source code: https://github.com/cran/EQUALSTATS
Date/Publication: 2024-09-06 16:10:15 UTC
Number of recursive dependencies: 120

Run revdepcheck::cloud_details(, "EQUALSTATS") for more info

checking examples ... ERROR ``` Running examples in ‘EQUALSTATS-Ex.R’ failed The error most likely occurred in:

Name: function.Survival_Analysis

Title: Perform Survival Analysis

Aliases: function.Survival_Analysis

** Examples

Create simulated data

... rv$second_menu_choice <- NA rv$entry[[1]] <- "Admission to care home" rv$entry[[2]] <- "Follow-up" rv$entry[[3]] <- "Treatment"

Final function

Results <- function.Survival_Analysis(Predefined_lists, rv) Error in .construct_risktable(x, geom_blank.times = NULL, geom_blank.risktable_stats = c("{n.risk}", : argument "risktable_height" is missing, with no default Calls: function.Survival_Analysis Execution halted ```

checking Rd cross-references ... NOTE Package unavailable to check Rd xrefs: ‘lmerTest’

ergm.multi

Version: 0.2.1
GitHub: https://github.com/statnet/ergm.multi
Source code: https://github.com/cran/ergm.multi
Date/Publication: 2024-02-20 23:20:05 UTC
Number of recursive dependencies: 82

Run revdepcheck::cloud_details(, "ergm.multi") for more info

checking examples ... ERROR ``` Running examples in ‘ergm.multi-Ex.R’ failed The error most likely occurred in:

Name: gofN

Title: Linear model diagnostics for multinetwork linear models

Aliases: gofN [.gofN augment.gofN summary.gofN

** Examples

data(samplk) ...

If 'ggplot2' and 'ggrepel' are installed, illustrate the autoplot() method.

if(require("ggplot2") && requireNamespace("ggrepel")){ + autoplot(fit.gof) + } Loading required package: ggplot2 Loading required namespace: ggrepel Error in if (new_name %in% existing) { : argument is of length zero Calls: autoplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Goeyvaerts_reproduction.Rmd’ ... [1] 0.9763295

autoplot(gof.wd) Loading required namespace: ggrepel

When sourcing ‘Goeyvaerts_reproduction.R’: Error: argument is of length zero Execution halted

‘Goeyvaerts_reproduction.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘Goeyvaerts_reproduction.Rmd’ using rmarkdown

Quitting from lines 157-158 [unnamed-chunk-16] (Goeyvaerts_reproduction.Rmd) Error: processing vignette 'Goeyvaerts_reproduction.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘Goeyvaerts_reproduction.Rmd’

SUMMARY: processing the following file failed: ‘Goeyvaerts_reproduction.Rmd’

Error: Vignette re-building failed. Execution halted ```

esci

Version: 1.0.3
GitHub: https://github.com/rcalinjageman/esci
Source code: https://github.com/cran/esci
Date/Publication: 2024-07-08 21:40:10 UTC
Number of recursive dependencies: 93

Run revdepcheck::cloud_details(, "esci") for more info

checking examples ... ERROR ``` Running examples in ‘esci-Ex.R’ failed The error most likely occurred in:

Name: estimate_mdiff_2x2_between

Title: Estimates for a 2x2 between-subjects design with a continuous

outcome variable

Aliases: estimate_mdiff_2x2_between

** Examples

... + estimates_from_summary$interaction, + effect_size = "mean" + ) Warning: Using size for a discrete variable is not advised. Warning: Using alpha for a discrete variable is not advised. Error in use_defaults(..., self = self) : unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, NULL, 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL, Calls: ... -> -> compute_geom_2 -> Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(esci) > > test_check("esci") Loading required package: Matrix Loading required package: metadat Loading required package: numDeriv ...
1. │ └─self$geom$use_defaults(...)
2. └─base::.handleSimpleError(...)
3. └─rlang (local) h(simpleError(msg, call))
4. └─handlers[1L]
5. └─cli::cli_abort(...)
6. └─rlang::abort(...)
[ FAIL 14 | WARN 0 | SKIP 0 | PASS 3182 ] Error: Test failures Execution halted ```

evalITR

Version: 1.0.0
GitHub: https://github.com/MichaelLLi/evalITR
Source code: https://github.com/cran/evalITR
Date/Publication: 2023-08-25 23:10:06 UTC
Number of recursive dependencies: 167

Run revdepcheck::cloud_details(, "evalITR") for more info

checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘cv_multiple_alg.Rmd’ using rmarkdown

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘cv_multiple_alg.Rmd’ ... intersect, setdiff, setequal, union

load("../data/star.rda") Warning in readChar(con, 5L, useBytes = TRUE) : cannot open compressed file '../data/star.rda', probable reason 'No such file or directory'

... Execution halted

‘cv_multiple_alg.Rmd’ using ‘UTF-8’... failed ‘cv_single_alg.Rmd’ using ‘UTF-8’... failed ‘install.Rmd’ using ‘UTF-8’... OK ‘paper_alg1.Rmd’ using ‘UTF-8’... OK ‘sample_split.Rmd’ using ‘UTF-8’... failed ‘sample_split_caret.Rmd’ using ‘UTF-8’... failed ‘user_itr.Rmd’ using ‘UTF-8’... failed ‘user_itr_algs.Rmd’ using ‘UTF-8’... failed ```
checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘forcats’ ‘rqPen’ ‘utils’ All declared Imports should be used.

eventstudyr

Version: 1.1.3
GitHub: https://github.com/JMSLab/eventstudyr
Source code: https://github.com/cran/eventstudyr
Date/Publication: 2024-03-04 15:00:02 UTC
Number of recursive dependencies: 98

Run revdepcheck::cloud_details(, "eventstudyr") for more info

checking tests ... ERROR `` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(eventstudyr) > > test_check("eventstudyr") Defaulting to strongest lead of differenced policy variable: proxyIV = z_fd_lead3. To specify a different proxyIV use the proxyIV argument. Defaulting to strongest lead of differenced policy variable: proxyIV = z_fd_lead3. To specify a different proxyIV use the proxyIV argument. Defaulting to strongest lead of differenced policy variable: proxyIV = z_fd_lead3. To specify a different proxyIV use the proxyIV argument. ...expectedis a character vector ('ci_lower') ── Failure ('test-EventStudyPlot.R:128:5'): confidence intervals are appropriately present or absent ── p_ci$labels$ymax (actual) not equal to "ci_upper" (expected`).

actual is NULL expected is a character vector ('ci_upper')

[ FAIL 6 | WARN 0 | SKIP 0 | PASS 258 ] Error: Test failures Execution halted ```

EvoPhylo

Version: 0.3.2
GitHub: https://github.com/tiago-simoes/EvoPhylo
Source code: https://github.com/cran/EvoPhylo
Date/Publication: 2022-11-03 17:00:02 UTC
Number of recursive dependencies: 145

Run revdepcheck::cloud_details(, "EvoPhylo") for more info

checking examples ... ERROR ``` Running examples in ‘EvoPhylo-Ex.R’ failed The error most likely occurred in:

Name: make_clusters

Title: Estimate and plot character partitions

Aliases: make_clusters plot.cluster_df

** Examples

See vignette("char-part") for how to use this

...

tSNE (3 dimensions; default is 2)

cluster_df_tsne <- make_clusters(Dmatrix, k = 3, tsne = TRUE, + tsne_dim = 2)

Plot clusters, plots divided into 2 rows, and increasing

overlap of text labels (default = 10)

plot(cluster_df_tsne, nrow = 2, max.overlaps = 20) Error in identicalUnits(x) : object is not a unit Calls: ... assemble_guides -> guides_build -> unit.c -> identicalUnits Execution halted ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘char-part.Rmd’ using rmarkdown

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘char-part.Rmd’ ...
- collapse = TRUE, dpi = 300)
devtools::load_all(".")

When sourcing ‘char-part.R’: Error: Could not find a root 'DESCRIPTION' file that starts with '^Package' in '/tmp/Rtmp6FtfyP/file1a7972246c9b/vignettes'. ... ℹ Are you in your project directory and does your project have a 'DESCRIPTION' file? Execution halted

‘char-part.Rmd’ using ‘UTF-8’... failed ‘data_treatment.Rmd’ using ‘UTF-8’... OK ‘fbd-params.Rmd’ using ‘UTF-8’... failed ‘offset_handling.Rmd’ using ‘UTF-8’... failed ‘rates-selection_BEAST2.Rmd’ using ‘UTF-8’... failed ‘rates-selection_MrBayes.Rmd’ using ‘UTF-8’... failed ```
checking installed package size ... NOTE installed size is 6.8Mb sub-directories of 1Mb or more: data 2.5Mb doc 1.6Mb extdata 2.4Mb

expirest

Version: 0.1.6
GitHub: https://github.com/piusdahinden/expirest
Source code: https://github.com/cran/expirest
Date/Publication: 2024-03-25 16:30:02 UTC
Number of recursive dependencies: 46

Run revdepcheck::cloud_details(, "expirest") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(expirest) > > test_check("expirest") [ FAIL 9 | WARN 0 | SKIP 0 | PASS 1122 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ... ── Failure ('test-plot_expirest_wisle.R:260:3'): plot_expirest_wisle_succeeds ── tmp4l2[["Graph"]]$labels has length 0, not length 8. ── Failure ('test-plot_expirest_wisle.R:264:3'): plot_expirest_wisle_succeeds ── tmp4b1[["Graph"]]$labels has length 0, not length 5. ── Failure ('test-plot_expirest_wisle.R:269:3'): plot_expirest_wisle_succeeds ── tmp4b2[["Graph"]]$labels has length 0, not length 5.

[ FAIL 9 | WARN 0 | SKIP 0 | PASS 1122 ] Error: Test failures Execution halted ```

explainer

Version: 1.0.1
GitHub: https://github.com/PERSIMUNE/explainer
Source code: https://github.com/cran/explainer
Date/Publication: 2024-04-18 09:00:02 UTC
Number of recursive dependencies: 183

Run revdepcheck::cloud_details(, "explainer") for more info

checking examples ... ERROR ``` Running examples in ‘explainer-Ex.R’ failed The error most likely occurred in:

Name: eDecisionCurve

Title: Decision Curve Plot

Aliases: eDecisionCurve

** Examples

library("explainer") ... mylrn$train(maintask, splits$train) myplot <- eDecisionCurve( + task = maintask, + trained_model = mylrn, + splits = splits, + seed = seed + ) Error in pm[[2]] : subscript out of bounds Calls: eDecisionCurve -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ```

checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘ggpmisc’ All declared Imports should be used.

exuber

Version: 1.0.2
GitHub: https://github.com/kvasilopoulos/exuber
Source code: https://github.com/cran/exuber
Date/Publication: 2023-03-22 23:10:02 UTC
Number of recursive dependencies: 101

Run revdepcheck::cloud_details(, "exuber") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘exuber.Rmd’ ... 370 1 1 1 0 371 1 1 0 0 372 1 1 0 0

autoplot(est_stocks) Using radf_crit for cv.

...

autoplot(estimation, crit_values)

When sourcing ‘plotting.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘exuber.Rmd’ using ‘UTF-8’... failed ‘plotting.Rmd’ using ‘UTF-8’... failed ‘simulation.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘exuber.Rmd’ using rmarkdown

Quitting from lines 73-74 [plot-radf] (exuber.Rmd) Error: processing vignette 'exuber.Rmd' failed with diagnostics: invalid line type: must be length 2, 4, 6 or 8 --- failed re-building ‘exuber.Rmd’

--- re-building ‘plotting.Rmd’ using rmarkdown

Quitting from lines 58-59 [autoplot-basic] (plotting.Rmd) Error: processing vignette 'plotting.Rmd' failed with diagnostics: invalid line type: must be length 2, 4, 6 or 8 --- failed re-building ‘plotting.Rmd’

--- re-building ‘simulation.Rmd’ using rmarkdown ```

ezEDA

Version: 0.1.1
GitHub: https://github.com/kviswana/ezEDA
Source code: https://github.com/cran/ezEDA
Date/Publication: 2021-06-29 04:40:10 UTC
Number of recursive dependencies: 92

Run revdepcheck::cloud_details(, "ezEDA") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(ezEDA) > > test_check("ezEDA") [ FAIL 22 | WARN 0 | SKIP 0 | PASS 57 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ... ── Error ('test_two_measures_relationship.R:19:3'): y axis is labeled 'hwy' ──── Error in expect_match(p$labels$y, "hwy"): is.character(act$val) is not TRUE Backtrace: ▆ 1. └─testthat::expect_match(p$labels$y, "hwy") at test_two_measures_relationship.R:19:3 2. └─base::stopifnot(is.character(act$val))

[ FAIL 22 | WARN 0 | SKIP 0 | PASS 57 ] Error: Test failures Execution halted ```

ezplot

Version: 0.7.13
GitHub: NA
Source code: https://github.com/cran/ezplot
Date/Publication: 2024-01-28 11:30:05 UTC
Number of recursive dependencies: 109

Run revdepcheck::cloud_details(, "ezplot") for more info

checking examples ... ERROR ``` Running examples in ‘ezplot-Ex.R’ failed The error most likely occurred in:

Name: model_plot

Title: model_plot

Aliases: model_plot

** Examples

y = rnorm(26) df = data.frame(ID = 1:26, actual = y + rnorm(26), fitted = y, id = letters) model_plot(df, "ID", "actual", "fitted") Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```

fable.prophet

Version: 0.1.0
GitHub: https://github.com/mitchelloharawild/fable.prophet
Source code: https://github.com/cran/fable.prophet
Date/Publication: 2020-08-20 09:30:03 UTC
Number of recursive dependencies: 114

Run revdepcheck::cloud_details(, "fable.prophet") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘intro.Rmd’ ... 9 Domestic mdl 2019 Dec sample[5000] 5338093. 10 Domestic mdl 2020 Jan sample[5000] 4888643. # ℹ 62 more rows

fc %>% autoplot(lax_passengers)

When sourcing ‘intro.R’: Error: unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL Execution halted

‘intro.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘intro.Rmd’ using rmarkdown

checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory

fabletools

Version: 0.4.2
GitHub: https://github.com/tidyverts/fabletools
Source code: https://github.com/cran/fabletools
Date/Publication: 2024-04-22 11:22:41 UTC
Number of recursive dependencies: 106

Run revdepcheck::cloud_details(, "fabletools") for more info

checking examples ... ERROR ``` Running examples in ‘fabletools-Ex.R’ failed The error most likely occurred in:

Name: autoplot.fbl_ts

Title: Plot a set of forecasts

Aliases: autoplot.fbl_ts autolayer.fbl_ts

** Examples

Don't show:

... library(fable) library(tsibbledata) fc <- aus_production %>% model(ets = ETS(log(Beer) ~ error("M") + trend("Ad") + + season("A"))) %>% forecast(h = "3 years") fc %>% autoplot(aus_production) Error in use_defaults(..., self = self) : unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NU Calls: ... -> -> compute_geom_2 -> Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(dplyr)

Attaching package: 'dplyr'

The following object is masked from 'package:testthat':

... 28. └─ggplot2 (local) compute_geom_2(..., self = self) 29. └─self$geom$use_defaults(...) ── Failure ('test-graphics.R:327:3'): autoplot_dcmp_ts() ─────────────────────── print(p) produced warnings. ── Failure ('test-graphics.R:346:3'): autoplot_dcmp_ts() ─────────────────────── print(p) produced warnings.

[ FAIL 4 | WARN 5 | SKIP 1 | PASS 267 ] Error: Test failures Execution halted ```

factoextra

Version: 1.0.7
GitHub: https://github.com/kassambara/factoextra
Source code: https://github.com/cran/factoextra
Date/Publication: 2020-04-01 21:20:02 UTC
Number of recursive dependencies: 116

Run revdepcheck::cloud_details(, "factoextra") for more info

checking examples ... ERROR ``` Running examples in ‘factoextra-Ex.R’ failed The error most likely occurred in:

Name: eclust

Title: Visual enhancement of clustering analysis

Aliases: eclust

** Examples

Load and scale data

... 12. │ └─ggplot2:::+.gg(...) 13. │ └─ggplot2:::add_ggplot(e1, e2, e2name) 14. │ ├─ggplot2::ggplot_add(object, p, objectname) 15. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 16. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 17. └─base::.handleSimpleError(...) 18. └─purrr (local) h(simpleError(msg, call)) 19. └─cli::cli_abort(...) 20. └─rlang::abort(...) Execution halted ```

fairmodels

Version: 1.2.1
GitHub: https://github.com/ModelOriented/fairmodels
Source code: https://github.com/cran/fairmodels
Date/Publication: 2022-08-23 19:50:06 UTC
Number of recursive dependencies: 87

Run revdepcheck::cloud_details(, "fairmodels") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(fairmodels) > > > test_check("fairmodels") Welcome to DALEX (version: 2.4.3). Find examples and detailed introduction at: http://ema.drwhy.ai/ ... [ FAIL 1 | WARN 1 | SKIP 0 | PASS 312 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test_plot_density.R:14:3'): Test plot_density ───────────────────── plt$labels$x not equal to "probability". target is NULL, current is character

[ FAIL 1 | WARN 1 | SKIP 0 | PASS 312 ] Error: Test failures Execution halted ```

fastR2

Version: 1.2.4
GitHub: https://github.com/rpruim/fastR2
Source code: https://github.com/cran/fastR2
Date/Publication: 2023-11-09 06:30:03 UTC
Number of recursive dependencies: 165

Run revdepcheck::cloud_details(, "fastR2") for more info

checking examples ... ERROR ``` Running examples in ‘fastR2-Ex.R’ failed The error most likely occurred in:

Name: ACTgpa

Title: ACT scores and GPA

Aliases: ACTgpa

Keywords: datasets

** Examples

gf_point(GPA ~ ACT, data = ACTgpa) Error in if (new_name %in% existing) { : argument is of length zero Calls: gf_point ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

checking installed package size ... NOTE installed size is 6.1Mb sub-directories of 1Mb or more: data 2.0Mb snippet 3.7Mb

faux

Version: 1.2.1
GitHub: https://github.com/debruine/faux
Source code: https://github.com/cran/faux
Date/Publication: 2023-04-20 07:00:11 UTC
Number of recursive dependencies: 132

Run revdepcheck::cloud_details(, "faux") for more info

checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘codebook.Rmd’ using rmarkdown --- finished re-building ‘codebook.Rmd’

--- re-building ‘continuous.Rmd’ using rmarkdown ```

checking examples ... ERROR ``` Running examples in ‘faux-Ex.R’ failed The error most likely occurred in:

Name: beta2norm

Title: Convert beta to normal

Aliases: beta2norm

** Examples

x <- rbeta(10000, 2, 3) y <- beta2norm(x) [32mshape1 was set to 1.96704823352025[39m [32mshape2 was set to 2.94110338061547[39m g <- ggplot2::ggplot() + ggplot2::geom_point(ggplot2::aes(x, y)) ggExtra::ggMarginal(g, type = "histogram") Error in if (new_name %in% existing) { : argument is of length zero Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(faux)

Welcome to faux. For support and examples visit: https://debruine.github.io/faux/ - Get and set global package options with: faux_options() ... 6. └─methods (local) <rfMthdDf>(...) 7. └─methods::new(def, ...) 8. ├─methods::initialize(value, ...) 9. └─methods::initialize(value, ...) 10. └─.Object$initialize(...) 11. └─lme4 (local) initializePtr()

[ FAIL 20 | WARN 6 | SKIP 14 | PASS 1331 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘norta.Rmd’ ...

p <- ggplot(dat, aes(uniform_var, poisson_var)) + + geom_point() + geom_smooth()

ggMarginal(p, type = "histogram") geom_smooth() using method = 'gam' and formula = 'y ~ s(x, bs = "cs")'

... Error: argument is of length zero Execution halted

‘codebook.Rmd’ using ‘UTF-8’... OK ‘continuous.Rmd’ using ‘UTF-8’... OK ‘contrasts.Rmd’ using ‘UTF-8’... OK ‘norta.Rmd’ using ‘UTF-8’... failed ‘rnorm_multi.Rmd’ using ‘UTF-8’... OK ‘sim_design.Rmd’ using ‘UTF-8’... OK ‘sim_df.Rmd’ using ‘UTF-8’... OK ```

fddm

Version: 1.0-2
GitHub: https://github.com/rtdists/fddm
Source code: https://github.com/cran/fddm
Date/Publication: 2024-07-02 16:00:07 UTC
Number of recursive dependencies: 93

Run revdepcheck::cloud_details(, "fddm") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘benchmark.Rmd’ ... > mi <- min(bm_vec[, -seq_len(t_idx)])

ma <- max(bm_vec[, (t_idx + 1):(ncol(bm_vec) - 4)])

ggplot(mbm_vec, aes(x = factor(FuncName, levels = Names_vec), + y = time, color = factor(FuncName, levels = Names_vec), fill = factor(FuncName, .... [TRUNCATED]

...

When sourcing ‘pfddm.R’: Error: Not a unit object Execution halted

‘benchmark.Rmd’ using ‘UTF-8’... failed ‘example.Rmd’ using ‘UTF-8’... OK ‘math.Rmd’ using ‘UTF-8’... OK ‘pfddm.Rmd’ using ‘UTF-8’... failed ‘validity.Rmd’ using ‘UTF-8’... OK ```

checking installed package size ... NOTE installed size is 16.6Mb sub-directories of 1Mb or more: doc 1.6Mb libs 14.1Mb

feasts

Version: 0.3.2
GitHub: https://github.com/tidyverts/feasts
Source code: https://github.com/cran/feasts
Date/Publication: 2024-03-15 09:10:02 UTC
Number of recursive dependencies: 101

Run revdepcheck::cloud_details(, "feasts") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(feasts) Loading required package: fabletools > > test_check("feasts") [ FAIL 2 | WARN 1 | SKIP 0 | PASS 101 ]

... ── Error ('test-graphics.R:192:3'): gg_tsdisplay() plots ─────────────────────── Error in p + ggplot2::labs(x = "x", y = "y", title = "title"): non-numeric argument to binary operator ── Failure ('test-graphics.R:273:3'): gg_arma() plots ────────────────────────── p_built$plot$labels[c("x", "y")] not equivalent to list(x = "Re(1/root)", y = "Im(1/root)"). Component "x": 1 string mismatch Component "y": 1 string mismatch

[ FAIL 2 | WARN 1 | SKIP 0 | PASS 101 ] Error: Test failures Execution halted ```

fergm

Version: 1.1.4
GitHub: https://github.com/benjamin-w-campbell/fergm
Source code: https://github.com/cran/fergm
Date/Publication: 2018-10-17 22:20:11 UTC
Number of recursive dependencies: 101

Run revdepcheck::cloud_details(, "fergm") for more info

checking examples ... ERROR ``` Running examples in ‘fergm-Ex.R’ failed The error most likely occurred in:

Name: coef_posterior_density

Title: Plots the posterior density for FERGM model terms.

Aliases: coef_posterior_density

Keywords: FERGM interpret summary

** Examples

... data("ergm.fit") data("fergm.fit") data("mesa")

rstan functions

Histogram of the posterior

rstan::stan_hist(fergm.fit$stan.fit, par = "beta") Error in if (new_name %in% existing) { : argument is of length zero Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

ffp

Version: 0.2.2
GitHub: https://github.com/Reckziegel/FFP
Source code: https://github.com/cran/ffp
Date/Publication: 2022-09-29 15:10:06 UTC
Number of recursive dependencies: 107

Run revdepcheck::cloud_details(, "ffp") for more info

checking examples ... ERROR ``` Running examples in ‘ffp-Ex.R’ failed The error most likely occurred in:

Name: scenario_density

Title: Plot Scenarios

Aliases: scenario_density scenario_histogram

** Examples

x <- diff(log(EuStockMarkets))[, 1] p <- exp_decay(x, 0.005)

scenario_density(x, p, 500) Error in use_defaults(..., self = self) : unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(), NULL, Calls: ... -> -> compute_geom_2 -> Execution halted ```

fic

Version: 1.0.0
GitHub: https://github.com/chjackson/fic
Source code: https://github.com/cran/fic
Date/Publication: 2019-04-13 08:32:39 UTC
Number of recursive dependencies: 119

Run revdepcheck::cloud_details(, "fic") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘linear.Rnw’ ...

library(ggplot2)

if (requireNamespace("GGally", quietly = TRUE)) { + GGally::ggpairs(mtcars[, c("mpg", "am", "wt", "qsec", "disp", + "hp")], aes(colour .... [TRUNCATED]

... When sourcing 'linear.R': Error: argument is of length zero Execution halted

‘fic.Rnw’ using ‘UTF-8’... OK ‘linear.Rnw’ using ‘UTF-8’... failed ‘loss.Rnw’ using ‘UTF-8’... OK ‘multistate.Rnw’ using ‘UTF-8’... OK ‘skewnormal.Rnw’ using ‘UTF-8’... OK ‘survival.Rnw’ using ‘UTF-8’... OK ```

checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘numDeriv’ All declared Imports should be used.
checking re-building of vignette outputs ... NOTE `` Error(s) in re-building vignettes: --- re-building ‘fic.Rnw’ using knitr Error: processing vignette 'fic.Rnw' failed with diagnostics: Running 'texi2dvi' on 'fic.tex' failed. LaTeX errors: ! LaTeX Error: Filegrfext.sty' not found.

Type X to quit or to proceed, or enter new name. (Default extension: sty)

... --- finished re-building ‘skewnormal.Rnw’

--- re-building ‘survival.Rnw’ using knitr --- finished re-building ‘survival.Rnw’

SUMMARY: processing the following files failed: ‘fic.Rnw’ ‘linear.Rnw’ ‘multistate.Rnw’

Error: Vignette re-building failed. Execution halted ```

fido

Version: 1.1.1
GitHub: https://github.com/jsilve24/fido
Source code: https://github.com/cran/fido
Date/Publication: 2024-06-05 21:30:06 UTC
Number of recursive dependencies: 134

Run revdepcheck::cloud_details(, "fido") for more info

checking examples ... ERROR ``` Running examples in ‘fido-Ex.R’ failed The error most likely occurred in:

Name: plot.pibblefit

Title: Plot Summaries of Posterior Distribution of pibblefit Parameters

Aliases: plot.pibblefit

** Examples

sim <- pibble_sim(N=10, D=4, Q=3) fit <- pibble(sim$Y, sim$X) plot(fit, par="Lambda") Scale for colour is already present. Adding another scale for colour, which will replace the existing scale. Error in use_defaults(..., self = self) : unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 1, NULL, NULL, NULL, c(0, 2.2, 0, 0), NULL, TRUE), NULL Calls: ... -> -> compute_geom_2 -> Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(fido) > > #Sys.setenv(KMP_DUPLICATE_LIB_OK="TRUE") > test_check("fido") [1] 0.27980164 -0.69169550 -0.53205652 0.11488451 -0.42419872 2.20261388 [7] -1.62190133 -0.90893172 0.07891428 0.75060681 0.43593605 0.26819442 ...
1. └─base::Map(...)
2. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
3. └─ggplot2 (local) <fn>(layer = dots[[1L]][[1L]], df = dots[[2L]][[1L]])
4. └─layer$compute_geom_2(key, single_params, theme)
5. └─ggplot2 (local) compute_geom_2(..., self = self)
6. └─self$geom$use_defaults(...)
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 114 ] Error: Test failures Execution halted ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘non-linear-models.Rmd’ ...

The following object is masked from ‘package:dplyr’:
```
select
```
When sourcing ‘non-linear-models.R’: Error: package or namespace load failed for ‘MCMCpack’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required Execution halted

‘introduction-to-fido.Rmd’ using ‘UTF-8’... OK ‘mitigating-pcrbias.Rmd’ using ‘UTF-8’... OK ‘non-linear-models.Rmd’ using ‘UTF-8’... failed ‘orthus.Rmd’ using ‘UTF-8’... OK ‘picking_priors.Rmd’ using ‘UTF-8’... OK ```
checking installed package size ... NOTE installed size is 106.5Mb sub-directories of 1Mb or more: data 4.0Mb libs 100.6Mb
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘introduction-to-fido.Rmd’ using rmarkdown --- finished re-building ‘introduction-to-fido.Rmd’

--- re-building ‘mitigating-pcrbias.Rmd’ using rmarkdown --- finished re-building ‘mitigating-pcrbias.Rmd’

--- re-building ‘non-linear-models.Rmd’ using rmarkdown ```

fitdistrplus

Version: 1.2-1
GitHub: https://github.com/lbbe-software/fitdistrplus
Source code: https://github.com/cran/fitdistrplus
Date/Publication: 2024-07-12 12:20:02 UTC
Number of recursive dependencies: 108

Run revdepcheck::cloud_details(, "fitdistrplus") for more info

checking examples ... ERROR ``` Running examples in ‘fitdistrplus-Ex.R’ failed The error most likely occurred in:

Name: CIcdfplot

Title: Empirical cumulative distribution function with pointwise

confidence intervals on probabilities or on quantiles

Aliases: CIcdfplot

Keywords: distribution

** Examples

... f1 <- fitdist(s1, "exp") b1 <- bootdist(f1, niter= 11) #voluntarily low to decrease computation time

plot 95 percent bilateral confidence intervals on y values (probabilities)

CIcdfplot(b1, CI.level= 95/100, CI.output = "probability") if (ggplotEx) CIcdfplot(b1, CI.level= 95/100, CI.output = "probability", plotstyle = "ggplot") Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```
checking tests ... ERROR Running ‘t-CIcdfplot.R’ Running the tests in ‘tests/t-CIcdfplot.R’ failed. Complete output: > library(fitdistrplus) Loading required package: MASS Loading required package: survival > > nbboot <- 201 > nbboot <- 10 > ggplotEx <- requireNamespace("ggplot2", quietly = TRUE) ... 97.5 % 2.152084 2.778622 > > par(mfrow=c(1,2)) > CIcdfplot(b1, CI.level=95/100, CI.output = "probability", CI.fill="grey80", CI.col="black") > CIcdfplot(b1, CI.level=95/100, CI.output = "quantile", datacol="blue") > if(ggplotEx) CIcdfplot(b1, CI.level=95/100, CI.output = "probability", CI.fill="grey80", CI.col="black", plotstyle = "ggplot") Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: <Anonymous> ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘FAQ.Rmd’ ...

dcomp <- denscomp(list(fitW, fitln, fitg), legendtext = c("Weibull", + "lognormal", "gamma"), xlab = "serving sizes (g)", xlim = c(0, + 25 .... [TRUNCATED]

dcomp + ggplot2::theme_minimal() + ggplot2::ggtitle("Ground beef fits")

When sourcing ‘FAQ.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘FAQ.Rmd’ using ‘UTF-8’... failed ‘Optimalgo.Rmd’ using ‘UTF-8’... OK ‘fitdistrplus_vignette.Rmd’ using ‘UTF-8’... OK ‘starting-values.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘FAQ.Rmd’ using rmarkdown

fitlandr

Version: 0.1.0
GitHub: https://github.com/Sciurus365/fitlandr
Source code: https://github.com/cran/fitlandr
Date/Publication: 2023-02-10 10:40:02 UTC
Number of recursive dependencies: 123

Run revdepcheck::cloud_details(, "fitlandr") for more info

checking examples ... ERROR ``` Running examples in ‘fitlandr-Ex.R’ failed The error most likely occurred in:

Name: fit_2d_vf

Title: Estimate a 2D vector field

Aliases: fit_2d_vf

** Examples

generate data

single_output_grad <- simlandr::sim_fun_grad(length = 200, seed = 1614)

fit the vector field

v2 <- fit_2d_vf(single_output_grad, x = "x", y = "y", method = "MVKE") plot(v2) Error in if (new_name %in% existing) { : argument is of length zero Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

flexsurv

Version: 2.3.2
GitHub: https://github.com/chjackson/flexsurv
Source code: https://github.com/cran/flexsurv
Date/Publication: 2024-08-17 05:50:02 UTC
Number of recursive dependencies: 147

Run revdepcheck::cloud_details(, "flexsurv") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘standsurv.Rmd’ ... 5 0 967 Good 2.649315 68.74975 25110 1986-05-18 female Good 6 0 629 Good 1.723288 64.53328 23570 1987-03-07 female Good

km <- survfit(Surv(recyrs, censrec) ~ group2, data = bc)

kmsurvplot <- ggsurvplot(km)

When sourcing ‘standsurv.R’: Error: argument is of length zero Execution halted

‘standsurv.Rmd’ using ‘UTF-8’... failed ‘flexsurv.Rnw’ using ‘UTF-8’... OK ‘multistate.Rnw’ using ‘UTF-8’... OK ‘distributions.Rnw’ using ‘UTF-8’... OK ‘flexsurv-examples.Rnw’ using ‘UTF-8’... OK ```

checking installed package size ... NOTE installed size is 7.4Mb sub-directories of 1Mb or more: R 1.5Mb doc 1.9Mb libs 3.4Mb
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘standsurv.Rmd’ using rmarkdown

Quitting from lines 113-116 [unnamed-chunk-4] (standsurv.Rmd) Error: processing vignette 'standsurv.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘standsurv.Rmd’

--- re-building ‘flexsurv.Rnw’ using knitr --- finished re-building ‘flexsurv.Rnw’ ... ^^M ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘flexsurv-examples.Rnw’

SUMMARY: processing the following files failed: ‘standsurv.Rmd’ ‘multistate.Rnw’ ‘distributions.Rnw’ ‘flexsurv-examples.Rnw’

Error: Vignette re-building failed. Execution halted ```

flipr

Version: 0.3.3
GitHub: https://github.com/LMJL-Alea/flipr
Source code: https://github.com/cran/flipr
Date/Publication: 2023-08-23 09:00:02 UTC
Number of recursive dependencies: 107

Run revdepcheck::cloud_details(, "flipr") for more info

checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘alternative.Rmd’ using rmarkdown --- finished re-building ‘alternative.Rmd’

--- re-building ‘exactness.Rmd’ using rmarkdown

Quitting from lines 142-177 [unnamed-chunk-1] (exactness.Rmd) Error: processing vignette 'exactness.Rmd' failed with diagnostics: subscript out of bounds --- failed re-building ‘exactness.Rmd’

--- re-building ‘flipr.Rmd’ using rmarkdown ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘exactness.Rmd’ ...

library(flipr)

load("../R/sysdata.rda") Warning in readChar(con, 5L, useBytes = TRUE) : cannot open compressed file '../R/sysdata.rda', probable reason 'No such file or directory'

... cannot open compressed file '../R/sysdata.rda', probable reason 'No such file or directory'

When sourcing ‘plausibility.R’: Error: cannot open the connection Execution halted

‘alternative.Rmd’ using ‘UTF-8’... OK ‘exactness.Rmd’ using ‘UTF-8’... failed ‘flipr.Rmd’ using ‘UTF-8’... failed ‘plausibility.Rmd’ using ‘UTF-8’... failed ```
checking installed package size ... NOTE installed size is 11.2Mb sub-directories of 1Mb or more: doc 9.1Mb libs 1.4Mb

FLOPART

Version: 2024.6.19
GitHub: NA
Source code: https://github.com/cran/FLOPART
Date/Publication: 2024-06-20 21:30:10 UTC
Number of recursive dependencies: 55

Run revdepcheck::cloud_details(, "FLOPART") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘comparison.Rmd’ ...

if (require("ggplot2")) { + ggplot() + ggtitle("Models with label constraints (FLOPART) and without (penalty values)") + + scale_fill_m .... [TRUNCATED] Warning: Using size aesthetic for lines was deprecated in ggplot2 3.4.0. ℹ Please use linewidth instead.

When sourcing ‘comparison.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘comparison.Rmd’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘comparison.Rmd’ using knitr

fmesher

Version: 0.1.7
GitHub: https://github.com/inlabru-org/fmesher
Source code: https://github.com/cran/fmesher
Date/Publication: 2024-07-01 13:00:02 UTC
Number of recursive dependencies: 93

Run revdepcheck::cloud_details(, "fmesher") for more info

checking examples ... ERROR ``` Running examples in ‘fmesher-Ex.R’ failed The error most likely occurred in:

Name: fm_mesh_1d

Title: Make a 1D mesh object

Aliases: fm_mesh_1d

** Examples

if (require("ggplot2")) { ... + boundary = c("neumann", "free"), + degree = 2 + ) + ggplot() + + geom_fm(data = m, xlim = c(0.5, 10.5)) + } Loading required package: ggplot2 Error in if (new_name %in% existing) { : argument is of length zero Calls: +.gg ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘basic_use.Rmd’ ...

plot(mesh2)

suppressPackageStartupMessages(library(ggplot2))

ggplot() + geom_fm(data = mesh2)

When sourcing ‘basic_use.R’: Error: argument is of length zero Execution halted

‘basic_use.Rmd’ using ‘UTF-8’... failed ‘fmesher_library.Rmd’ using ‘UTF-8’... OK ‘inla_conversion.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘basic_use.Rmd’ using rmarkdown

checking installed package size ... NOTE installed size is 12.5Mb sub-directories of 1Mb or more: libs 10.5Mb

fmf

Version: 1.1.1
GitHub: NA
Source code: https://github.com/cran/fmf
Date/Publication: 2020-09-03 07:32:12 UTC
Number of recursive dependencies: 175

Run revdepcheck::cloud_details(, "fmf") for more info

checking examples ... ERROR ``` Running examples in ‘fmf-Ex.R’ failed The error most likely occurred in:

Name: plot

Title: PCA Plot of the Noise Score of Each Individual

Aliases: plot

** Examples

... 17. │ └─ggplot2:::+.gg(...) 18. │ └─ggplot2:::add_ggplot(e1, e2, e2name) 19. │ ├─ggplot2::ggplot_add(object, p, objectname) 20. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 21. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 22. └─base::.handleSimpleError(...) 23. └─purrr (local) h(simpleError(msg, call)) 24. └─cli::cli_abort(...) 25. └─rlang::abort(...) Execution halted ```

checking C++ specification ... NOTE Specified C++11: please drop specification unless essential

forestly

Version: 0.1.1
GitHub: https://github.com/Merck/forestly
Source code: https://github.com/cran/forestly
Date/Publication: 2024-07-08 19:40:02 UTC
Number of recursive dependencies: 84

Run revdepcheck::cloud_details(, "forestly") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘forest-plot-static.Rmd’ ... Warning in grid.Call(C_textBounds, as.graphicsAnnot(x$label), x$x, x$y, : conversion failure on 'Treatment← Favor →Placebo' in 'mbcsToSbcs': dot substituted for Warning in grid.Call(C_textBounds, as.graphicsAnnot(x$label), x$x, x$y, : conversion failure on 'Treatment← Favor →Placebo' in 'mbcsToSbcs': dot substituted for <86> Warning in grid.Call(C_textBounds, as.graphicsAnnot(x$label), x$x, x$y, : conversion failure on 'Treatment← Favor →Placebo' in 'mbcsToSbcs': dot substituted for <92>

When sourcing ‘forest-plot-static.R’: Error: object is not a unit Execution halted

‘forest-plot-static.Rmd’ using ‘UTF-8’... failed ‘forestly-cran.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘forest-plot-static.Rmd’ using rmarkdown

FossilSim

Version: 2.4.0
GitHub: NA
Source code: https://github.com/cran/FossilSim
Date/Publication: 2024-09-05 19:40:02 UTC
Number of recursive dependencies: 155

Run revdepcheck::cloud_details(, "FossilSim") for more info

checking examples ... ERROR ``` Running examples in ‘FossilSim-Ex.R’ failed The error most likely occurred in:

Name: plot.fbdrange

Title: Plot oriented tree with stratigraphic ranges

Aliases: plot.fbdrange

** Examples

tree_file <- system.file("extdata", "fbdrange.trees", package = "FossilSim") fbdr <- get_fbdrange_from_file(tree_file) p <- plot(fbdr, smart.labels = TRUE) Error in if (new_name %in% existing) { : argument is of length zero Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

FPDclustering

Version: 2.3.1
GitHub: NA
Source code: https://github.com/cran/FPDclustering
Date/Publication: 2024-01-30 00:10:06 UTC
Number of recursive dependencies: 104

Run revdepcheck::cloud_details(, "FPDclustering") for more info

checking examples ... ERROR ``` Running examples in ‘FPDclustering-Ex.R’ failed The error most likely occurred in:

Name: GPDC

Title: Gaussian PD-Clustering

Aliases: GPDC

** Examples

Load the data

...

Results

table(res$label,ais$sex)
```
  f   m
```
1 95 1 2 5 101

plot(res) Error in if (new_name %in% existing) { : argument is of length zero Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

frailtyEM

Version: 1.0.1
GitHub: https://github.com/tbalan/frailtyEM
Source code: https://github.com/cran/frailtyEM
Date/Publication: 2019-09-22 13:00:10 UTC
Number of recursive dependencies: 78

Run revdepcheck::cloud_details(, "frailtyEM") for more info

checking examples ... ERROR ``` Running examples in ‘frailtyEM-Ex.R’ failed The error most likely occurred in:

Name: summary.emfrail

Title: Summary for 'emfrail' objects

Aliases: summary.emfrail

** Examples

data("bladder") ... filter

The following object is masked from ‘package:graphics’:
```
layout
```
ggplotly(pl2) Error in pm[[2]] : subscript out of bounds Calls: ggplotly -> ggplotly.ggplot -> gg2list Execution halted ```

checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory
checking re-building of vignette outputs ... NOTE `` Error(s) in re-building vignettes: --- re-building ‘frailtyEM_manual.Rnw’ using Sweave Loading required package: survival Loading required package: gridExtra Warning: Theargument ofguides()cannot beFALSE. Use "none" instead as of ggplot2 3.3.4. Warning: Removed 2 rows containing missing values or values outside the scale range (geom_path()`). Warning in data("kidney") : data set ‘kidney’ not found Warning in emfrail(Surv(time, status) ~ age + sex + cluster(id), data = kidney, : ... l.179 \RequirePackage{grfext}\relax ^^M ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘frailtyEM_manual.Rnw’

SUMMARY: processing the following file failed: ‘frailtyEM_manual.Rnw’

Error: Vignette re-building failed. Execution halted ```

funcharts

Version: 1.5.0
GitHub: https://github.com/unina-sfere/funcharts
Source code: https://github.com/cran/funcharts
Date/Publication: 2024-07-19 12:00:31 UTC
Number of recursive dependencies: 127

Run revdepcheck::cloud_details(, "funcharts") for more info

checking examples ... ERROR ``` Running examples in ‘funcharts-Ex.R’ failed The error most likely occurred in:

Name: pca_mfd

Title: Multivariate functional principal components analysis

Aliases: pca_mfd

** Examples

library(funcharts) mfdobj <- data_sim_mfd() pca_obj <- pca_mfd(mfdobj) plot_pca_mfd(pca_obj) Error in identicalUnits(x) : object is not a unit Calls: ... assemble_guides -> guides_build -> unit.c -> identicalUnits Execution halted ```

FunnelPlotR

Version: 0.5.0
GitHub: https://github.com/nhs-r-community/FunnelPlotR
Source code: https://github.com/cran/FunnelPlotR
Date/Publication: 2024-04-12 08:40:02 UTC
Number of recursive dependencies: 85

Run revdepcheck::cloud_details(, "FunnelPlotR") for more info

checking examples ... ERROR ``` Running examples in ‘FunnelPlotR-Ex.R’ failed The error most likely occurred in:

Name: funnel_plot

Title: Funnel plots for comparing institutional performance

Aliases: funnel_plot

** Examples

We will use the 'medpar' dataset from the 'COUNT' package.

...

Draw plot, returning just the plot object

fp<-funnel_plot(medpar, denominator=prds, numerator=los, + group = provnum, limit=95, title="An example funnel plot")

Methods for viewing/extracting

print(fp) Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: print ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘changing_funnel_plot_options.Rmd’ ...
- family = "poisson", data = medpar)
medpar$prds <- predict(mod, newdata = medpar, type = "response")

funnel_plot(medpar, denominator = prds, numerator = los, + group = provnum, limit = 99, label = "outlier", draw_unadjusted = TRUE)

... + group = provnum, title = "Length of Stay Funnel plot for medpar data", + draw .... [TRUNCATED] Plotting using unadjusted limits

When sourcing ‘funnel_plots.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘changing_funnel_plot_options.Rmd’ using ‘UTF-8’... failed ‘funnel_plots.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘changing_funnel_plot_options.Rmd’ using rmarkdown

Quitting from lines 33-49 [dtsetup] (changing_funnel_plot_options.Rmd) Error: processing vignette 'changing_funnel_plot_options.Rmd' failed with diagnostics: invalid line type: must be length 2, 4, 6 or 8 --- failed re-building ‘changing_funnel_plot_options.Rmd’

--- re-building ‘funnel_plots.Rmd’ using rmarkdown ```

genekitr

Version: 1.2.8
GitHub: https://github.com/GangLiLab/genekitr
Source code: https://github.com/cran/genekitr
Date/Publication: 2024-09-06 13:00:06 UTC
Number of recursive dependencies: 202

Run revdepcheck::cloud_details(, "genekitr") for more info

checking examples ... ERROR ``` Running examples in ‘genekitr-Ex.R’ failed The error most likely occurred in:

Name: plotVenn

Title: Venn plot for groups of genes

Aliases: plotVenn

** Examples

k1 = requireNamespace("ComplexUpset",quietly = TRUE) ... + use_venn = FALSE, + main_text_size = 15, + legend_text_size = 8, + legend_position = 'left' + ) + } Color length should be same with venn_list, auto assign colors... Error in if (new_name %in% existing) { : argument is of length zero Calls: plotVenn ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

geoheatmap

Version: 0.1.0
GitHub: NA
Source code: https://github.com/cran/geoheatmap
Date/Publication: 2024-09-05 15:40:02 UTC
Number of recursive dependencies: 106

Run revdepcheck::cloud_details(, "geoheatmap") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘geoheatmap.Rmd’ ...
- facet_col = "state", value_col = "teams", merge_col = "name_de",
- .... [TRUNCATED]
geoheatmap(facet_data = football_teams, grid_data = de_states_grid1, + facet_col = "state", value_col = "teams", merge_col = "name_de", + .... [TRUNCATED]

When sourcing ‘geoheatmap.R’: Error: subscript out of bounds Execution halted

‘geoheatmap.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘geoheatmap.Rmd’ using rmarkdown

geomtextpath

Version: 0.1.4
GitHub: https://github.com/AllanCameron/geomtextpath
Source code: https://github.com/cran/geomtextpath
Date/Publication: 2024-06-13 06:40:02 UTC
Number of recursive dependencies: 94

Run revdepcheck::cloud_details(, "geomtextpath") for more info

checking examples ... ERROR ``` Running examples in ‘geomtextpath-Ex.R’ failed The error most likely occurred in:

Name: geom_textsf

Title: Visualise sf objects with labels

Aliases: geom_textsf geom_labelsf

** Examples

ggplot(waterways) + ... 19. │ ├─rlang::inject(self$draw_panel(data, panel_params, coord, !!!params)) 20. │ └─self$draw_panel(data, panel_params, coord, na.rm = FALSE, legend = "other") 21. │ └─geomtextpath (local) draw_panel(...) 22. │ └─geomtextpath:::sf_textgrob(...) 23. └─base::.handleSimpleError(...) 24. └─rlang (local) h(simpleError(msg, call)) 25. └─handlers[1L] 26. └─cli::cli_abort(...) 27. └─rlang::abort(...) Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(geomtextpath) Loading required package: ggplot2 > > test_check("geomtextpath") [ FAIL 1 | WARN 0 | SKIP 4 | PASS 463 ]

... ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-sf.R:91:3'): We can make grobs from sf features ──────────────── Error in (x$boxlinewidth %||% defaults$linewidth[type_ind]) * 3.779528: non-numeric argument to binary operator Backtrace: ▆ 1. └─geomtextpath:::sf_textgrob(river, as_textbox = TRUE) at test-sf.R:91:3

[ FAIL 1 | WARN 0 | SKIP 4 | PASS 463 ] Error: Test failures Execution halted ```

geostan

Version: 0.6.2
GitHub: https://github.com/ConnorDonegan/geostan
Source code: https://github.com/cran/geostan
Date/Publication: 2024-06-04 09:45:37 UTC
Number of recursive dependencies: 108

Run revdepcheck::cloud_details(, "geostan") for more info

checking examples ... ERROR ``` Running examples in ‘geostan-Ex.R’ failed The error most likely occurred in:

Name: print.geostan_fit

Title: print or plot a fitted geostan model

Aliases: print.geostan_fit plot.geostan_fit

** Examples

data(georgia) ... log(income) -1.013 0.001 0.019 -1.049 -1.029 -1.014 -0.998 -0.974 188 1.003

Samples were drawn using NUTS(diag_e) at Tue Sep 10 09:34:29 2024. For each parameter, n_eff is a crude measure of effective sample size, and Rhat is the potential scale reduction factor on split chains (at convergence, Rhat=1).

plot(fit) Error in if (new_name %in% existing) { : argument is of length zero Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

checking installed package size ... NOTE installed size is 129.8Mb sub-directories of 1Mb or more: libs 127.7Mb
checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘RcppParallel’ ‘rstantools’ All declared Imports should be used.
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

GGally

Version: 2.2.1
GitHub: https://github.com/ggobi/ggally
Source code: https://github.com/cran/GGally
Date/Publication: 2024-02-14 00:53:32 UTC
Number of recursive dependencies: 146

Run revdepcheck::cloud_details(, "GGally") for more info

checking examples ... ERROR ``` Running examples in ‘GGally-Ex.R’ failed The error most likely occurred in:

Name: +.gg

Title: Modify a 'ggmatrix' object by adding an 'ggplot2' object to all

plots

Aliases: +.gg add_to_ggmatrix

** Examples

... p_ <- GGally::print_if_interactive data(tips)

pm <- ggpairs(tips[, 2:4], ggplot2::aes(color = sex))

change to black and white theme

pm + ggplot2::theme_bw() stat_bin() using bins = 30. Pick better value with binwidth. Error in if (new_name %in% existing) { : argument is of length zero Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘spelling.R’ Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > if (requireNamespace("testthat", quietly = TRUE)) {
- library(testthat)
- library(GGally)
- test_check("GGally")
- } ...
- │ └─grid:::grid.draw.grob(x$children[[i]], recording = FALSE)
- │ └─grDevices::recordGraphics(drawGrob(x), list(x = x), getNamespace("grid"))
- └─grid:::drawGrob(x)
- ├─grid::drawDetails(x, recording = FALSE)
- └─grid:::drawDetails.polyline(x, recording = FALSE)
- └─grid:::grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow)
[ FAIL 20 | WARN 1 | SKIP 22 | PASS 426 ] Error: Test failures Execution halted ```

gganimate

Version: 1.0.9
GitHub: https://github.com/thomasp85/gganimate
Source code: https://github.com/cran/gganimate
Date/Publication: 2024-02-27 14:00:03 UTC
Number of recursive dependencies: 97

Run revdepcheck::cloud_details(, "gganimate") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(gganimate) Loading required package: ggplot2 > > test_check("gganimate") [ FAIL 1 | WARN 3 | SKIP 1 | PASS 5 ]

... 3. ├─gganimate::animate(p, nframes = 2) at test-anim_save.R:14:5 4. └─gganimate:::animate.gganim(p, nframes = 2) 5. └─args$renderer(frames_vars$frame_source, args$fps) 6. └─gganimate:::png_dim(frames[1]) 7. └─cli::cli_abort("Provided file ({file}) does not exist") 8. └─rlang::abort(...)

[ FAIL 1 | WARN 3 | SKIP 1 | PASS 5 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR `` Errors in running code in vignettes: when running code in ‘gganimate.Rmd’ ... Theme elementpanel.grid.major.yis missing Theme elementpanel.grid.major.xis missing Warning: Failed to plot frame Caused by error inUseMethod()`: ! no applicable method for 'element_grob' applied to an object of class "NULL"

When sourcing ‘gganimate.R’: Error: Provided file (/tmp/RtmpPBufaF/165c2292cd97/gganim_plot0001.png) does not exist Execution halted

‘gganimate.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘gganimate.Rmd’ using rmarkdown

ggbrain

Version: 0.8.1
GitHub: https://github.com/michaelhallquist/ggbrain
Source code: https://github.com/cran/ggbrain
Date/Publication: 2023-03-21 18:00:05 UTC
Number of recursive dependencies: 74

Run revdepcheck::cloud_details(, "ggbrain") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘ggbrain_introduction.Rmd’ ...

gg_obj <- gg_base + geom_brain(definition = "underlay", + fill_scale = scale_fill_gradient(low = "grey8", high = "grey62"), + show_legend .... [TRUNCATED]

gg_obj$render()

...

plot(gg_obj)

When sourcing ‘ggbrain_labels.R’: Error: argument is of length zero Execution halted

‘ggbrain_aesthetics.Rmd’ using ‘UTF-8’... OK ‘ggbrain_introduction.Rmd’ using ‘UTF-8’... failed ‘ggbrain_labels.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘ggbrain_aesthetics.Rmd’ using rmarkdown --- finished re-building ‘ggbrain_aesthetics.Rmd’

--- re-building ‘ggbrain_introduction.Rmd’ using rmarkdown

Quitting from lines 238-239 [unnamed-chunk-16] (ggbrain_introduction.Rmd) Error: processing vignette 'ggbrain_introduction.Rmd' failed with diagnostics: argument is of length zero ... Quitting from lines 47-54 [unnamed-chunk-2] (ggbrain_labels.Rmd) Error: processing vignette 'ggbrain_labels.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘ggbrain_labels.Rmd’

SUMMARY: processing the following files failed: ‘ggbrain_introduction.Rmd’ ‘ggbrain_labels.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking installed package size ... NOTE installed size is 10.8Mb sub-directories of 1Mb or more: doc 3.0Mb extdata 1.6Mb libs 5.5Mb

ggbreak

Version: 0.1.2
GitHub: https://github.com/YuLab-SMU/ggbreak
Source code: https://github.com/cran/ggbreak
Date/Publication: 2023-06-26 05:40:02 UTC
Number of recursive dependencies: 64

Run revdepcheck::cloud_details(, "ggbreak") for more info

checking examples ... ERROR ``` Running examples in ‘ggbreak-Ex.R’ failed The error most likely occurred in:

Name: scale_wrap

Title: scale-wrap

Aliases: scale_wrap

** Examples

library(ggplot2) library(ggbreak) p <- ggplot(economics, aes(x=date, y = unemploy, colour = uempmed)) + + geom_line() p + scale_wrap(n=4) Error in identicalUnits(x) : object is not a unit Calls: -> print.ggwrap Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘ggbreak.Rmd’ ... > p1 + p2

p2 + scale_x_break(c(18, 21))

p1 + scale_x_break(c(7, 17), scales = 1.5) + scale_x_break(c(18, + 21), scales = 2)

When sourcing ‘ggbreak.R’: Error: second argument must be a list Execution halted

‘ggbreak.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘ggbreak.Rmd’ using rmarkdown

ggcharts

Version: 0.2.1
GitHub: https://github.com/thomas-neitmann/ggcharts
Source code: https://github.com/cran/ggcharts
Date/Publication: 2020-05-20 00:40:02 UTC
Number of recursive dependencies: 87

Run revdepcheck::cloud_details(, "ggcharts") for more info

checking examples ... ERROR ``` Running examples in ‘ggcharts-Ex.R’ failed The error most likely occurred in:

Name: bar_chart

Title: Bar Chart

Aliases: bar_chart column_chart

** Examples

data(biomedicalrevenue) revenue2018 <- biomedicalrevenue[biomedicalrevenue$year == 2018, ] revenue_roche <- biomedicalrevenue[biomedicalrevenue$company == "Roche", ]

By default bar_chart() creates a horizontal and sorted plot

bar_chart(revenue2018, company, revenue) Error in if (new_name %in% existing) { : argument is of length zero Calls: bar_chart ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(ggcharts) Loading required package: ggplot2 > > test_check("ggcharts") [ FAIL 1 | WARN 0 | SKIP 0 | PASS 4 ]

... 4. └─ggcharts::bar_chart(revenue_2018, company, revenue) 5. └─ggplot2:::+.gg(...) 6. └─ggplot2:::add_ggplot(e1, e2, e2name) 7. ├─ggplot2::ggplot_add(object, p, objectname) 8. └─ggplot2:::ggplot_add.Layer(object, p, objectname) 9. └─ggplot2:::new_layer_names(object, names(plot$layers))

[ FAIL 1 | WARN 0 | SKIP 0 | PASS 4 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘customize.Rmd’ ... > dreaded_lang <- tibble::tribble(~language, ~pct, "VBA",
- 75.2, "Objective-C", 68.7, "Assembly", 64.4, "C", 57.5, "PHP",
- 54.2, "Erlang", .... [TRUNCATED]
(chart <- lollipop_chart(dreaded_lang, language, pct, + highlight = "R"))

...

lollipop_chart(diamonds, cut, highlight = "Good")

When sourcing ‘themes.R’: Error: argument is of length zero Execution halted

‘customize.Rmd’ using ‘UTF-8’... failed ‘highlight.Rmd’ using ‘UTF-8’... failed ‘themes.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘customize.Rmd’ using rmarkdown

Quitting from lines 25-44 [unnamed-chunk-2] (customize.Rmd) Error: processing vignette 'customize.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘customize.Rmd’

--- re-building ‘highlight.Rmd’ using rmarkdown

Quitting from lines 37-44 [unnamed-chunk-2] (highlight.Rmd) Error: processing vignette 'highlight.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘highlight.Rmd’

--- re-building ‘themes.Rmd’ using rmarkdown ```

ggdark

Version: 0.2.1
GitHub: NA
Source code: https://github.com/cran/ggdark
Date/Publication: 2019-01-11 17:30:06 UTC
Number of recursive dependencies: 46

Run revdepcheck::cloud_details(, "ggdark") for more info

checking examples ... ERROR ``` Running examples in ‘ggdark-Ex.R’ failed The error most likely occurred in:

Name: dark_mode

Title: Activate dark mode on a 'ggplot2' theme

Aliases: dark_mode

** Examples

library(ggplot2) ...

p1 <- ggplot(iris, aes(Sepal.Width, Sepal.Length, color = Species)) + + geom_point()

p1 # theme returned by theme_get() p1 + dark_mode() # activate dark mode on theme returned by theme_get() Error in match(x, table, nomatch = 0L) : 'match' requires vector arguments Calls: dark_mode -> %in% Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(ggdark) > > test_check("ggdark") [ FAIL 1 | WARN 0 | SKIP 0 | PASS 0 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ... ── Error ('test_dark_mode.R:10:1'): (code run outside of test_that()) ──────── Error in match(x, table, nomatch = 0L): 'match' requires vector arguments Backtrace: ▆ 1. └─ggdark::dark_mode(light_theme) at test_dark_mode.R:10:1 2. └─geoms[["GeomPoint"]]$default_aes$colour %in% ...

[ FAIL 1 | WARN 0 | SKIP 0 | PASS 0 ] Error: Test failures Execution halted ```

checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory

ggdist

Version: 3.3.2
GitHub: https://github.com/mjskay/ggdist
Source code: https://github.com/cran/ggdist
Date/Publication: 2024-03-05 05:30:23 UTC
Number of recursive dependencies: 127

Run revdepcheck::cloud_details(, "ggdist") for more info

checking examples ... ERROR ``` Running examples in ‘ggdist-Ex.R’ failed The error most likely occurred in:

Name: Pr_

Title: Probability expressions in ggdist aesthetics

Aliases: Pr_ p_

** Examples

library(ggplot2) ... + )

map density onto alpha of the fill

ggplot(df, aes(y = name, xdist = d)) + + stat_slabinterval(aes(alpha = !!p_(x))) Error in use_defaults(..., self = self) : unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NU Calls: ... -> -> compute_geom_2 -> Execution halted ```
checking tests ... ERROR Running ‘testthat.R’ 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 ... • test.stat_sample_slabinterval/nas-with-na-rm-true.svg • test.subguide/dots-subguide-with-side-vertical.svg • test.subguide/integer-subguide-with-zero-range.svg • test.subguide/slab-subguide-with-inside-labels-vertical.svg • test.subguide/slab-subguide-with-outside-labels-vert.svg • test.subguide/slab-subguide-with-outside-labels.svg • test.subguide/slab-subguide-with-side-vertical.svg • test.theme_ggdist/facet-titles-on-left.svg Error: Test failures Execution halted
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘dotsinterval.Rmd’ using rmarkdown Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { : cannot find pngquant; please install and put it in PATH Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { : cannot find pngquant; please install and put it in PATH

Quitting from lines 49-161 [dotsinterval_components] (dotsinterval.Rmd) Error: processing vignette 'dotsinterval.Rmd' failed with diagnostics: Problem while setting up geom aesthetics. ...

--- re-building ‘freq-uncertainty-vis.Rmd’ using rmarkdown Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { : cannot find pngquant; please install and put it in PATH Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { : cannot find pngquant; please install and put it in PATH Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { : cannot find pngquant; please install and put it in PATH Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { : cannot find pngquant; please install and put it in PATH ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘dotsinterval.Rmd’ ...
- xdist = dist)) + geom_hline(yintercept = 0:1, color = "gray95") +
- stat_dotsin .... [TRUNCATED]
When sourcing ‘dotsinterval.R’: Error: Problem while setting up geom aesthetics. ℹ Error occurred in the 2nd layer. Caused by error in use_defaults(): ... ℹ Error occurred in the 1st layer. Caused by error in use_defaults(): ! unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(7, 0, 0, 0), NULL, FALSE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 7, 0, 0), NULL, FALSE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), Execution halted

‘dotsinterval.Rmd’ using ‘UTF-8’... failed ‘freq-uncertainty-vis.Rmd’ using ‘UTF-8’... failed ‘lineribbon.Rmd’ using ‘UTF-8’... failed ‘slabinterval.Rmd’ using ‘UTF-8’... failed ```
checking installed package size ... NOTE installed size is 5.6Mb sub-directories of 1Mb or more: R 1.5Mb doc 1.3Mb help 1.5Mb

ggeasy

Version: 0.1.4
GitHub: https://github.com/jonocarroll/ggeasy
Source code: https://github.com/cran/ggeasy
Date/Publication: 2023-03-12 10:00:23 UTC
Number of recursive dependencies: 94

Run revdepcheck::cloud_details(, "ggeasy") for more info

checking examples ... ERROR ``` Running examples in ‘ggeasy-Ex.R’ failed The error most likely occurred in:

Name: easy_labs

Title: Easily add ggplot labels using label attribute of 'data.frame'

column

Aliases: easy_labs

** Examples

... + ggplot2::geom_line(ggplot2::aes(colour=Species))

p

p + easy_labs() p + easy_labs(title = "Plot Title", subtitle = 'Plot Subtitle', x = 'x axis label') Error in utils::modifyList(p_labs, as.list(unlist(man_labs))) : is.list(x) is not TRUE Calls: +.gg ... ggplot_add.easy_labs -> easy_update_labs -> -> stopifnot Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(ggeasy) > > test_check("ggeasy") [ FAIL 6 | WARN 0 | SKIP 1 | PASS 505 ]

══ Skipped tests (1) ═══════════════════════════════════════════════════════════ ... 1. └─ggeasy (local) expect_eqNe(easy_res$labels[sort(names(easy_res$labels))], hard_res$labels[sort(names(hard_res$labels))]) at test-labs.R:76:3 2. └─testthat::expect_equal(..., check.environment = FALSE) at test-labs.R:6:16

[ FAIL 6 | WARN 0 | SKIP 1 | PASS 505 ] Deleting unused snapshots: • labs/labels-attrib.svg • labs/labels-manual.svg • labs/labels-mytitle.svg Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘shortcuts.Rmd’ ...

p1 <- p + labs(title = "default labels")

p2 <- p + easy_labs() + labs(title = "Replace titles with column labels")

p3 <- p + easy_labs(x = "My x axis") + labs(title = "Manually add x axis label")

When sourcing ‘shortcuts.R’: Error: is.list(x) is not TRUE Execution halted

‘shortcuts.Rmd’ using ‘UTF-8’... failed ‘tests_and_coverage.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘shortcuts.Rmd’ using rmarkdown

ggedit

Version: 0.4.1
GitHub: https://github.com/yonicd/ggedit
Source code: https://github.com/cran/ggedit
Date/Publication: 2024-03-04 14:40:02 UTC
Number of recursive dependencies: 95

Run revdepcheck::cloud_details(, "ggedit") for more info

checking examples ... ERROR ``` Running examples in ‘ggedit-Ex.R’ failed The error most likely occurred in:

Name: dput.ggedit

Title: Convert ggplot object to a string call

Aliases: dput.ggedit

** Examples

pList$pointSmooth #original compiled plot geom_smooth() using formula = 'y ~ x' Error in compute_geom_2(..., self = self) : unused arguments (list(6), list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, Calls: ... get_layer_key -> Map -> mapply -> -> Execution halted ```

ggESDA

Version: 0.2.0
GitHub: https://github.com/kiangkiangkiang/ggESDA
Source code: https://github.com/cran/ggESDA
Date/Publication: 2022-08-19 08:40:10 UTC
Number of recursive dependencies: 214

Run revdepcheck::cloud_details(, "ggESDA") for more info

checking examples ... ERROR ``` Running examples in ‘ggESDA-Ex.R’ failed The error most likely occurred in:

Name: BLOOD

Title: BLOOD data example

Aliases: BLOOD

Keywords: datasets

** Examples

data(BLOOD) ggInterval_minmax(BLOOD, aes(x = Hematocrit)) Error in if (new_name %in% existing) { : argument is of length zero Calls: ggInterval_minmax ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘ggESDA.Rmd’ ... [1] "knit_image_paths" "knit_asis"

CONCEPT <- rep(c("FRA", "HUS", "INC", "ISA", "JPL", + "KHA", "LOT", "PHI", "ROM"), each = 3)

p <- ggInterval_PCA(facedata, poly = T, concepts_group = CONCEPT)

When sourcing ‘ggESDA.R’: Error: argument is of length zero Execution halted

‘ggESDA.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘ggESDA.Rmd’ using rmarkdown

Quitting from lines 390-406 [ggInterval_PCA] (ggESDA.Rmd) Error: processing vignette 'ggESDA.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘ggESDA.Rmd’

SUMMARY: processing the following file failed: ‘ggESDA.Rmd’

Error: Vignette re-building failed. Execution halted ```

ggExtra

Version: 0.10.1
GitHub: https://github.com/daattali/ggExtra
Source code: https://github.com/cran/ggExtra
Date/Publication: 2023-08-21 14:40:02 UTC
Number of recursive dependencies: 117

Run revdepcheck::cloud_details(, "ggExtra") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘ggExtra.Rmd’ ...

p1 <- ggplot(df1, aes(x, y)) + geom_point() + theme_bw()

p1

ggMarginal(p1)

When sourcing ‘ggExtra.R’: Error: argument is of length zero Execution halted

‘ggExtra.Rmd’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘ggExtra.Rmd’ using rmarkdown

checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘R6’ ‘scales’ ‘utils’ All declared Imports should be used.

ggfacto

Version: 0.3.1
GitHub: https://github.com/BriceNocenti/ggfacto
Source code: https://github.com/cran/ggfacto
Date/Publication: 2024-08-30 15:00:02 UTC
Number of recursive dependencies: 164

Run revdepcheck::cloud_details(, "ggfacto") for more info

checking examples ... ERROR ``` Running examples in ‘ggfacto-Ex.R’ failed The error most likely occurred in:

Name: MCA2

Title: Multiple Correspondence Analysis

Aliases: MCA2

** Examples

data(tea, package = "FactoMineR") res.mca <- MCA2(tea, active_vars = 1:18)

res.mca %>% + ggmca(tea, sup_vars = c("SPC"), ylim = c(NA, 1.2), text_repel = TRUE) %>% + ggi() #to make the graph interactive Error in if (new_name %in% existing) { : argument is of length zero Calls: %>% ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

ggfixest

Version: 0.1.0
GitHub: https://github.com/grantmcdermott/ggfixest
Source code: https://github.com/cran/ggfixest
Date/Publication: 2023-12-14 08:00:06 UTC
Number of recursive dependencies: 78

Run revdepcheck::cloud_details(, "ggfixest") for more info

checking tests ... ERROR ``` Running ‘tinytest.R’ Running the tests in ‘tests/tinytest.R’ failed. Complete output: > ## Throttle CPU threads if R CMD check (for CRAN) > > if (any(grepl("_R_CHECK", names(Sys.getenv()), fixed = TRUE))) {
- fixest
- if (requireNamespace("fixest", quietly = TRUE)) {
- library(fixest)
- setFixest_nthreads(1) ... ----- FAILED[]: test_ggiplot.R<192--192> call| expect_snapshot_plot(p19a, label = "ggiplot_multi_complex_kitchen_iid") diff| 1774 info| Diff plot saved to: _tinysnapshot_review/ggiplot_multi_complex_kitchen_iid.png ----- FAILED[]: test_ggiplot.R<193--193> call| expect_snapshot_plot(p19b, label = "ggiplot_multi_complex_kitchen_iid") diff| 1774 info| Diff plot saved to: _tinysnapshot_review/ggiplot_multi_complex_kitchen_iid.png Error: 16 out of 101 tests failed Execution halted ```

checking running R code from vignettes ... ERROR `` Errors in running code in vignettes: when running code in ‘ggiplot.Rmd’ ... > iplot(list(TWFE = est_twfe_grp,Sun & Abraham (2020)` = est_sa20_grp),
- ref.line = -1, main = "Staggered treatment: Split mutli-sample") The degrees of freedom for the t distribution could not be deduced. Using a Normal distribution instead. Note that you can provide the argument df.t directly.
When sourcing ‘ggiplot.R’: Error: in iplot(list(TWFE = est_twfe_grp, `Sun & Abraham (2...: The 1st element of 'object' raises and error: Error in nb * sd : non-numeric argument to binary operator Execution halted

‘ggiplot.Rmd’ using ‘UTF-8’... failed ```

ggfocus

Version: 1.0.0
GitHub: https://github.com/Freguglia/ggfocus
Source code: https://github.com/cran/ggfocus
Date/Publication: 2020-01-23 13:20:02 UTC
Number of recursive dependencies: 55

Run revdepcheck::cloud_details(, "ggfocus") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘introduction_to_ggfocus.Rmd’ ...
- geom_point() + scale_alpha_focus(c("A", "B"), alpha_other = 0.5) +
- scale_c .... [TRUNCATED]
ggplot(datasets::airquality, aes(x = Day, y = Temp, + linetype = factor(Month), group = factor(Month))) + geom_line() + + scale_linetype_f .... [TRUNCATED]

When sourcing ‘introduction_to_ggfocus.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘introduction_to_ggfocus.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘introduction_to_ggfocus.Rmd’ using rmarkdown

checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory

ggforce

Version: 0.4.2
GitHub: https://github.com/thomasp85/ggforce
Source code: https://github.com/cran/ggforce
Date/Publication: 2024-02-19 11:00:02 UTC
Number of recursive dependencies: 69

Run revdepcheck::cloud_details(, "ggforce") for more info

checking examples ... ERROR ``` Running examples in ‘ggforce-Ex.R’ failed The error most likely occurred in:

Name: facet_row

Title: One-dimensional facets

Aliases: facet_row facet_col

** Examples

Standard use

ggplot(mtcars) + + geom_point(aes(disp, mpg)) + + facet_col(~gear) Error in space$x : $ operator is invalid for atomic vectors Calls: ... -> draw_panels -> -> init_gtable Execution halted ```

checking installed package size ... NOTE installed size is 27.8Mb sub-directories of 1Mb or more: R 1.5Mb help 1.2Mb libs 25.0Mb

ggformula

Version: 0.12.0
GitHub: https://github.com/ProjectMOSAIC/ggformula
Source code: https://github.com/cran/ggformula
Date/Publication: 2023-11-09 12:30:07 UTC
Number of recursive dependencies: 123

Run revdepcheck::cloud_details(, "ggformula") for more info

checking examples ... ERROR ``` Running examples in ‘ggformula-Ex.R’ failed The error most likely occurred in:

Name: discrete_breaks

Title: Discrete Breaks

Aliases: discrete_breaks

** Examples

x <- rbinom(100, 100, 0.4) p <- gf_bar( ~ x) Error in if (new_name %in% existing) { : argument is of length zero Calls: gf_bar ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(ggformula) Loading required package: ggplot2 Loading required package: scales Loading required package: ggridges

New to ggformula? Try the tutorials: ... • layer-factory/gf-text1.svg • layer-factory/gf-text2.svg • layer-factory/gf-tile1.svg • layer-factory/proportions-within-all-dodge.svg • layer-factory/proportions-within-fill-dodge.svg • layer-factory/proportions-within-fill-facet-grid-and-group.svg • layer-factory/proportions-within-fill-facet-grid.svg • layer-factory/proportions-within-group-facet-grid.svg Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘ggformula.Rmd’ ...

theme_set(theme_light())

library(ggformula)

gf_point(mpg ~ hp, data = mtcars)

When sourcing ‘ggformula.R’: Error: argument is of length zero Execution halted

‘ggformula.Rmd’ using ‘UTF-8’... failed ```
checking for code/documentation mismatches ... WARNING Codoc mismatches from documentation object 'gf_abline': gf_hline Code: function(object = NULL, gformula = NULL, data = NULL, ..., yintercept, color, linetype, linewidth, alpha, xlab, ylab, title, subtitle, caption, position = "identity", show.legend = NA, show.help = NULL, inherit = FALSE, environment = parent.frame()) Docs: function(object = NULL, gformula = NULL, data = NULL, ..., yintercept, color, linetype, linewidth, alpha, xlab, ylab, title, subtitle, caption, show.legend = NA, ... xintercept, color, linetype, linewidth, alpha, xlab, ylab, title, subtitle, caption, show.legend = NA, show.help = NULL, inherit = FALSE, environment = parent.frame()) Argument names in code not in docs: position Mismatches in argument names (first 3): Position: 15 Code: position Docs: show.legend Position: 16 Code: show.legend Docs: show.help Position: 17 Code: show.help Docs: inherit
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘ggformula.Rmd’ using rmarkdown

Quitting from lines 106-109 [simple-example] (ggformula.Rmd) Error: processing vignette 'ggformula.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘ggformula.Rmd’

SUMMARY: processing the following file failed: ‘ggformula.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking Rd cross-references ... NOTE Packages unavailable to check Rd xrefs: ‘akima’, ‘ggforce’

ggfortify

Version: 0.4.17
GitHub: https://github.com/sinhrks/ggfortify
Source code: https://github.com/cran/ggfortify
Date/Publication: 2024-04-17 04:30:04 UTC
Number of recursive dependencies: 125

Run revdepcheck::cloud_details(, "ggfortify") for more info

checking examples ... ERROR ``` Running examples in ‘ggfortify-Ex.R’ failed The error most likely occurred in:

Name: autoplot.cv.glmnet

Title: Autoplot 'glmnet::cv.glmnet'

Aliases: autoplot.cv.glmnet

** Examples

if (requireNamespace("survival", quietly = TRUE)) { + autoplot(glmnet::cv.glmnet(data.matrix(Orange[-3]), data.matrix(Orange[3]))) + } Error in if (new_name %in% existing) { : argument is of length zero Calls: autoplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘test-all.R’ Running the tests in ‘tests/test-all.R’ failed. Complete output: > library(testthat) > > suppressWarnings(RNGversion("3.5.0")) > set.seed(1, sample.kind = "Rejection") > > test_check('ggfortify') Loading required package: ggfortify ...
1. └─ggfortify:::autoplot.ts(original.data, columns = "Data", ...)
2. └─ggplot2:::+.gg(p, do.call(geom_factory, args))
3. └─ggplot2:::add_ggplot(e1, e2, e2name)
4. ├─ggplot2::ggplot_add(object, p, objectname)
5. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
6. └─ggplot2:::new_layer_names(object, names(plot$layers))
[ FAIL 32 | WARN 10 | SKIP 47 | PASS 358 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘basics.Rmd’ ...
- warning = FALSE)
library(ggfortify) Loading required package: ggplot2

autoplot(AirPassengers)

... Error: argument is of length zero Execution halted

‘basics.Rmd’ using ‘UTF-8’... failed ‘plot_dist.Rmd’ using ‘UTF-8’... failed ‘plot_lm.Rmd’ using ‘UTF-8’... OK ‘plot_map.Rmd’ using ‘UTF-8’... failed ‘plot_pca.Rmd’ using ‘UTF-8’... OK ‘plot_surv.Rmd’ using ‘UTF-8’... failed ‘plot_ts.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘basics.Rmd’ using knitr

Attaching package: 'zoo'

The following objects are masked from 'package:base':
```
as.Date, as.Date.numeric
```
...

Quitting from lines 20-22 [unnamed-chunk-1] (plot_dist.Rmd) Error: processing vignette 'plot_dist.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘plot_dist.Rmd’

--- re-building ‘plot_lm.Rmd’ using knitr --- finished re-building ‘plot_lm.Rmd’

--- re-building ‘plot_map.Rmd’ using knitr ```

gggenomes

Version: 1.0.1
GitHub: https://github.com/thackl/gggenomes
Source code: https://github.com/cran/gggenomes
Date/Publication: 2024-08-30 11:40:02 UTC
Number of recursive dependencies: 112

Run revdepcheck::cloud_details(, "gggenomes") for more info

checking examples ... ERROR ``` Running examples in ‘gggenomes-Ex.R’ failed The error most likely occurred in:

Name: flip

Title: Flip bins and sequences

Aliases: flip flip_seqs sync

** Examples

library(patchwork) ... p4 <- p %>% + add_clusters(emale_cogs) %>% + sync() + labs(caption = "shared orthologs") Joining with by = join_by(feat_id) Flipping: E4-10_086,E4-10_112,RCC970_016B

p0 + p1 + p2 + p3 + p4 + plot_layout(nrow = 1, guides = "collect") Error in as.unit(value) : object is not coercible to a unit Calls: ... assemble_guides -> guides_build -> [<- -> [<-.unit -> as.unit Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘flip.Rmd’ ... > p4 <- p %>% add_clusters(emale_cogs) %>% sync() +
- labs(caption = "shared orthologs") Joining with by = join_by(feat_id) Flipping: E4-10_086,E4-10_112,RCC970_016B
p0 + p1 + p2 + p3 + p4 + plot_layout(nrow = 1, guides = "collect")

When sourcing ‘flip.R’: Error: object is not coercible to a unit Execution halted

‘emales.Rmd’ using ‘UTF-8’... OK ‘flip.Rmd’ using ‘UTF-8’... failed ‘gggenomes.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘emales.Rmd’ using rmarkdown --- finished re-building ‘emales.Rmd’

--- re-building ‘flip.Rmd’ using rmarkdown

Quitting from lines 17-44 [unnamed-chunk-2] (flip.Rmd) Error: processing vignette 'flip.Rmd' failed with diagnostics: object is not coercible to a unit --- failed re-building ‘flip.Rmd’ ... virophages) emale_tirs Terminal inverted repeats of 6 EMALE genomes

--- finished re-building ‘gggenomes.Rmd’

SUMMARY: processing the following file failed: ‘flip.Rmd’

Error: Vignette re-building failed. Execution halted ```

ggh4x

Version: 0.2.8
GitHub: https://github.com/teunbrand/ggh4x
Source code: https://github.com/cran/ggh4x
Date/Publication: 2024-01-23 21:00:02 UTC
Number of recursive dependencies: 77

Run revdepcheck::cloud_details(, "ggh4x") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(ggh4x) Loading required package: ggplot2 > > test_check("ggh4x") [ FAIL 1 | WARN 20 | SKIP 18 | PASS 757 ]

... ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-facet_wrap2.R:64:3'): facet_wrap2() can some repeat axes ───── sum(ctrl) (actual) not equal to 4L (expected).
```
`actual`: 3
```
expected: 4

[ FAIL 1 | WARN 20 | SKIP 18 | PASS 757 ] Error: Test failures Execution halted ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘Facets.Rmd’ using rmarkdown

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Statistics.Rmd’ ... > incorrect$x[15] <- sqrt(2)

ggplot(incorrect, aes(x, colour = group)) + stat_theodensity(distri = "nbinom")

When sourcing ‘Statistics.R’: Error: Problem while computing stat. ℹ Error occurred in the 1st layer. Caused by error in setup_params(): ! A discrete 'nbinom' distribution cannot be fitted to continuous data. Execution halted

‘Facets.Rmd’ using ‘UTF-8’... OK ‘Miscellaneous.Rmd’ using ‘UTF-8’... OK ‘PositionGuides.Rmd’ using ‘UTF-8’... OK ‘Statistics.Rmd’ using ‘UTF-8’... failed ‘ggh4x.Rmd’ using ‘UTF-8’... OK ```

gghighlight

Version: 0.4.1
GitHub: https://github.com/yutannihilation/gghighlight
Source code: https://github.com/cran/gghighlight
Date/Publication: 2023-12-16 01:00:02 UTC
Number of recursive dependencies: 85

Run revdepcheck::cloud_details(, "gghighlight") for more info

checking examples ... ERROR ``` Running examples in ‘gghighlight-Ex.R’ failed The error most likely occurred in:

Name: gghighlight

Title: Highlight Data With Predicate

Aliases: gghighlight

** Examples

d <- data.frame( ... 8. │ ├─purrr:::with_indexed_errors(...) 9. │ │ └─base::withCallingHandlers(...) 10. │ ├─purrr:::call_with_cleanup(...) 11. │ └─gghighlight (local) .f(.x[[i]], .y[[i]], ...) 12. │ └─gghighlight:::get_default_aes_param(nm, layer$geom, layer$mapping) 13. └─base::.handleSimpleError(...) 14. └─purrr (local) h(simpleError(msg, call)) 15. └─cli::cli_abort(...) 16. └─rlang::abort(...) Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(gghighlight) Loading required package: ggplot2 > > test_check("gghighlight") label_key: type label_key: type ...
1. └─cli::cli_abort(...)
2. └─rlang::abort(...)
[ FAIL 2 | WARN 2 | SKIP 1 | PASS 178 ] Deleting unused snapshots: • vdiffr/simple-bar-chart-with-facet.svg • vdiffr/simple-line-chart.svg • vdiffr/simple-point-chart.svg Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘gghighlight.Rmd’ ... Warning in is.na(non_null_default_aes[[aes_param_name]]) : is.na() applied to non-(list or vector) of type 'language'

When sourcing ‘gghighlight.R’: Error: ℹ In index: 1. ℹ With name: geom_point. Caused by error in aes_param_name %in% names(non_null_default_aes) && is.na(non_null_default_aes[[ aes_param_name]]): ! 'length = 2' in coercion to 'logical(1)' Execution halted

‘gghighlight.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘gghighlight.Rmd’ using rmarkdown

ggHoriPlot

Version: 1.0.1
GitHub: https://github.com/rivasiker/ggHoriPlot
Source code: https://github.com/cran/ggHoriPlot
Date/Publication: 2022-10-11 16:22:33 UTC
Number of recursive dependencies: 117

Run revdepcheck::cloud_details(, "ggHoriPlot") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘ggHoriPlot.Rmd’ ... > mid <- sum(range(dat_tab$y, na.rm = T))/2

b <- plotAllLayers(dat_tab, mid, cutpoints$cuts, cutpoints$color)

b/a + plot_layout(guides = "collect", heights = c(6, + 1))

When sourcing ‘ggHoriPlot.R’: Error: object is not a unit Execution halted

‘examples.Rmd’ using ‘UTF-8’... OK ‘ggHoriPlot.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘examples.Rmd’ using rmarkdown

ggiraph

Version: 0.8.10
GitHub: https://github.com/davidgohel/ggiraph
Source code: https://github.com/cran/ggiraph
Date/Publication: 2024-05-17 12:10:02 UTC
Number of recursive dependencies: 89

Run revdepcheck::cloud_details(, "ggiraph") for more info

checking examples ... ERROR ``` Running examples in ‘ggiraph-Ex.R’ failed The error most likely occurred in:

Name: annotate_interactive

Title: Create interactive annotations

Aliases: annotate_interactive

** Examples

add interactive annotation to a ggplot -------

...

gg <- ggplot(mtcars, aes(x = disp, y = qsec )) + + geom_point(size=2) + + annotate_interactive( + "rect", xmin = 100, xmax = 400, fill = "red", + data_id = "an_id", tooltip = "a tooltip", + ymin = 18, ymax = 20, alpha = .5) Error in if (new_name %in% existing) { : argument is of length zero Calls: +.gg ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘tinytest.R’ Running the tests in ‘tests/tinytest.R’ failed. Complete output: > if (requireNamespace("tinytest", quietly = TRUE)) {
- tinytest::test_package("ggiraph")
- }
test-annotate_interactive.R... 0 tests test-annotate_interactive.R... 0 tests test-annotate_interactive.R... 0 tests ... test-geom_density_interactive.R 8 tests [0;32mOK[0m [0;36m8ms[0m

test-geom_dotplot_interactive.R 0 tests test-geom_dotplot_interactive.R 0 tests test-geom_dotplot_interactive.R 0 tests test-geom_dotplot_interactive.R 0 tests test-geom_dotplot_interactive.R 0 tests test-geom_dotplot_interactive.R 8 tests [0;32mOK[0m Error in if (new_name %in% existing) { : argument is of length zero Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

checking installed package size ... NOTE installed size is 9.9Mb sub-directories of 1Mb or more: R 1.5Mb libs 7.1Mb

ggiraphExtra

Version: 0.3.0
GitHub: https://github.com/cardiomoon/ggiraphExtra
Source code: https://github.com/cran/ggiraphExtra
Date/Publication: 2020-10-06 07:00:02 UTC
Number of recursive dependencies: 111

Run revdepcheck::cloud_details(, "ggiraphExtra") for more info

checking examples ... ERROR ``` Running examples in ‘ggiraphExtra-Ex.R’ failed The error most likely occurred in:

Name: ggAncova

Title: Make an interactive plot for an ANCOVA model

Aliases: ggAncova ggAncova.default ggAncova.formula ggAncova.lm

** Examples

require(moonBook) ... addLabelDf, getMapping

require(ggplot2) Loading required package: ggplot2 require(ggiraph) Loading required package: ggiraph ggAncova(radial,aes(age,NTAV,color=sex),interactive=TRUE) Error in if (new_name %in% existing) { : argument is of length zero Calls: ggAncova ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘ggPredict.Rmd’ ...

require(plyr) Loading required package: plyr

ggPredict(fit, se = TRUE, interactive = TRUE)

...

ggPoints(aes(x = wt, y = mpg, color = am), data = mtcars, + method = "lm", interactive = TRUE)

When sourcing ‘introduction.R’: Error: argument is of length zero Execution halted

‘ggPredict.Rmd’ using ‘UTF-8’... failed ‘introduction.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘ggPredict.Rmd’ using rmarkdown

ggmatplot

Version: 0.1.2
GitHub: https://github.com/xuan-liang/ggmatplot
Source code: https://github.com/cran/ggmatplot
Date/Publication: 2022-05-17 02:20:02 UTC
Number of recursive dependencies: 81

Run revdepcheck::cloud_details(, "ggmatplot") for more info

checking examples ... ERROR ``` Running examples in ‘ggmatplot-Ex.R’ failed The error most likely occurred in:

Name: ggmatplot

Title: ggmatplot

Aliases: ggmatplot

** Examples

Define a data set

iris_sub <- subset(iris, Species == "setosa") ggmatplot(iris_sub[, c(1, 3)], iris_sub[, c(2, 4)]) Error in if (new_name %in% existing) { : argument is of length zero Calls: ggmatplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(ggmatplot) Loading required package: ggplot2 > library(tibble) > library(stats) > > test_check("ggmatplot") ... • ggmatplot_parameters/single-color-scatterplot.svg • ggmatplot_parameters/single-fill-density-plot.svg • ggmatplot_parameters/single-linetype-line-plot.svg • ggmatplot_parameters/single-shape-scatterplot.svg • ggmatplot_parameters/three-color-violin-plot.svg • ggmatplot_parameters/three-fill-color-violin-plot.svg • ggmatplot_parameters/three-linetype-line-plot.svg • ggmatplot_parameters/three-shape-scatterplot.svg Error: Test failures Execution halted
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘ggmatplot.Rmd’ ... 6 -0.5325916 -0.54457006

library(ggmatplot) Loading required package: ggplot2

ggmatplot(x, z)

When sourcing ‘ggmatplot.R’: Error: argument is of length zero Execution halted

‘ggmatplot.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘ggmatplot.Rmd’ using rmarkdown

Quitting from lines 47-50 [point-plot] (ggmatplot.Rmd) Error: processing vignette 'ggmatplot.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘ggmatplot.Rmd’

SUMMARY: processing the following file failed: ‘ggmatplot.Rmd’

Error: Vignette re-building failed. Execution halted ```

ggmice

Version: 0.1.0
GitHub: https://github.com/amices/ggmice
Source code: https://github.com/cran/ggmice
Date/Publication: 2023-08-07 14:20:02 UTC
Number of recursive dependencies: 120

Run revdepcheck::cloud_details(, "ggmice") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘old_friends.Rmd’ ... layout

p <- plot_flux(dat)

ggplotly(p)

When sourcing ‘old_friends.R’: Error: subscript out of bounds Execution halted

‘ggmice.Rmd’ using ‘UTF-8’... OK ‘old_friends.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘ggmice.Rmd’ using rmarkdown

ggmulti

Version: 1.0.7
GitHub: NA
Source code: https://github.com/cran/ggmulti
Date/Publication: 2024-04-09 09:40:05 UTC
Number of recursive dependencies: 125

Run revdepcheck::cloud_details(, "ggmulti") for more info

checking examples ... ERROR ``` Running examples in ‘ggmulti-Ex.R’ failed The error most likely occurred in:

Name: coord_radial

Title: Radial axes

Aliases: coord_radial

** Examples

if(require("dplyr")) { ...

The following objects are masked from ‘package:base’:
```
intersect, setdiff, setequal, union
```
Error in use_defaults(..., self = self) : unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NU Calls: ... -> -> compute_geom_2 -> Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > > > library(testthat) > library(ggmulti) Loading required package: ggplot2

Attaching package: 'ggmulti' ... 16. └─base::Map(...) 17. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE) 18. └─ggplot2 (local) <fn>(layer = dots[[1L]][[1L]], df = dots[[2L]][[1L]]) 19. └─layer$compute_geom_2(key, single_params, theme) 20. └─ggplot2 (local) compute_geom_2(..., self = self) 21. └─self$geom$use_defaults(...)

[ FAIL 4 | WARN 5 | SKIP 0 | PASS 30 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘glyph.Rmd’ ...
- Sepal.Width, colour = Species), serialaxes.data = iris, axes.layout = "radia ..." ... [TRUNCATED]
When sourcing ‘glyph.R’: Error: Base operators are not defined for quosures. Do you need to unquote the quosure?

Bad: myquosure / rhs

...

p

When sourcing ‘highDim.R’: Error: argument is of length zero Execution halted

‘glyph.Rmd’ using ‘UTF-8’... failed ‘highDim.Rmd’ using ‘UTF-8’... failed ‘histogram-density-.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘glyph.Rmd’ using rmarkdown

ggpackets

Version: 0.2.1
GitHub: https://github.com/dgkf/ggpackets
Source code: https://github.com/cran/ggpackets
Date/Publication: 2022-10-10 23:30:02 UTC
Number of recursive dependencies: 76

Run revdepcheck::cloud_details(, "ggpackets") for more info

checking examples ... ERROR ``` Running examples in ‘ggpackets-Ex.R’ failed The error most likely occurred in:

Name: ggpacket

Title: A container for lazy ggplot layers

Aliases: ggpacket

** Examples

library(ggplot2)

create a ggpacket directly, setting some fixed argument settings

ggpk_simple <- ggpacket() %+% geom_line(color = "red") %+% geom_point() ggplot(mtcars, aes(x = wt, y = mpg)) + ggpk_simple() Error in if (new_name %in% existing) { : argument is of length zero Calls: +.gg ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > > library(ggplot2) > library(ggpackets)

Attaching package: 'ggpackets'

... 10. └─ggpackets (local) f(init, x[[i]]) 11. └─ggplot2:::+.gg(gg, ggpk_i) 12. └─ggplot2:::add_ggplot(e1, e2, e2name) 13. ├─ggplot2::ggplot_add(object, p, objectname) 14. └─ggplot2:::ggplot_add.Layer(object, p, objectname) 15. └─ggplot2:::new_layer_names(object, names(plot$layers))

[ FAIL 4 | WARN 1 | SKIP 0 | PASS 27 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘composing-functions.Rmd’ ...
- geom_point(size = 3) Warning: Using size aesthetic for lines was deprecated in ggplot2 3.4.0. ℹ Please use linewidth instead.
ggplot(Loblolly) + aes(x = age, y = height, color = Seed) + + ggpk_my_template() + ggtitle("Growth of Loblolly Pines")

...

diamonds %>% sample_frac(0.01) %>% arrange(cut) %>% + ggplot() + aes(color = cut) + ggpk_dot_matrix(size = 3, width = 30)

When sourcing ‘miscellaneous-examples.R’: Error: argument is of length zero Execution halted

‘composing-functions.Rmd’ using ‘UTF-8’... failed ‘ggpackets.Rmd’ using ‘UTF-8’... failed ‘miscellaneous-examples.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘composing-functions.Rmd’ using rmarkdown

Quitting from lines 58-62 [simple_ggpacket_output] (composing-functions.Rmd) Error: processing vignette 'composing-functions.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘composing-functions.Rmd’

--- re-building ‘ggpackets.Rmd’ using rmarkdown ```

ggparallel

Version: 0.4.0
GitHub: https://github.com/heike/ggparallel
Source code: https://github.com/cran/ggparallel
Date/Publication: 2024-03-09 22:00:02 UTC
Number of recursive dependencies: 51

Run revdepcheck::cloud_details(, "ggparallel") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ 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 ...
1. └─self$get_layer_key(params, layers[include], data[include], theme)
2. └─ggplot2 (local) get_layer_key(...)
3. └─base::Map(...)
4. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
5. └─ggplot2 (local) <fn>(layer = dots[[1L]][[1L]], df = dots[[2L]][[1L]])
6. └─layer$compute_geom_2(key, single_params, theme)
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 0 ] Error: Test failures Execution halted ```

ggparty

Version: 1.0.0
GitHub: https://github.com/martin-borkovec/ggparty
Source code: https://github.com/cran/ggparty
Date/Publication: 2019-07-18 10:54:06 UTC
Number of recursive dependencies: 115

Run revdepcheck::cloud_details(, "ggparty") for more info

checking examples ... ERROR ``` Running examples in ‘ggparty-Ex.R’ failed The error most likely occurred in:

Name: geom_node_label

Title: Draw (multi-line) labels at nodes

Aliases: geom_node_label geom_node_info geom_node_splitvar

** Examples

library(ggparty) ... 30. │ └─ggplot2:::add_ggplot(e1, e2, e2name) 31. │ ├─ggplot2::ggplot_add(object, p, objectname) 32. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 33. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 34. └─base::.handleSimpleError(...) 35. └─rlang (local) h(simpleError(msg, call)) 36. └─handlers[1L] 37. └─cli::cli_abort(...) 38. └─rlang::abort(...) Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘ggparty-graphic-partying.Rmd’ ...
- 0.55 .... [TRUNCATED] Warning: Using size aesthetic for lines was deprecated in ggplot2 3.4.0. ℹ Please use linewidth instead.
When sourcing ‘ggparty-graphic-partying.R’: Error: Problem while converting geom to grob. ℹ Error occurred in the 5th layer. Caused by error in if (new_name %in% existing) ...: ! argument is of length zero Execution halted

‘ggparty-graphic-partying.Rmd’ using ‘UTF-8’... failed ‘on-the-edge.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘ggparty-graphic-partying.Rmd’ using rmarkdown

Quitting from lines 42-122 [unnamed-chunk-2] (ggparty-graphic-partying.Rmd) Error: processing vignette 'ggparty-graphic-partying.Rmd' failed with diagnostics: Problem while converting geom to grob. ℹ Error occurred in the 5th layer. Caused by error in if (new_name %in% existing) ...: ! argument is of length zero --- failed re-building ‘ggparty-graphic-partying.Rmd’

--- re-building ‘on-the-edge.Rmd’ using rmarkdown ```

checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘survival’ All declared Imports should be used.
checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory

ggpicrust2

Version: 1.7.3
GitHub: https://github.com/cafferychen777/ggpicrust2
Source code: https://github.com/cran/ggpicrust2
Date/Publication: 2023-11-08 16:10:02 UTC
Number of recursive dependencies: 231

Run revdepcheck::cloud_details(, "ggpicrust2") for more info

checking examples ... ERROR ``` Running examples in ‘ggpicrust2-Ex.R’ failed The error most likely occurred in:

Name: pathway_pca

Title: Perform Principal Component Analysis (PCA) on functional pathway

abundance data and create visualizations of the PCA results.

Aliases: pathway_pca

** Examples

...

Create example metadata

Please ensure the sample IDs in the metadata have the column name "sample_name"

metadata_example <- data.frame(sample_name = colnames(kegg_abundance_example), + group = factor(rep(c("Control", "Treatment"), each = 5)))

pca_plot <- pathway_pca(kegg_abundance_example, metadata_example, "group") Error in identicalUnits(x) : object is not a unit Calls: pathway_pca ... assemble_guides -> guides_build -> unit.c -> identicalUnits Execution halted ```

checking package dependencies ... NOTE Package suggested but not available for checking: ‘ComplexHeatmap’
checking installed package size ... NOTE installed size is 5.5Mb sub-directories of 1Mb or more: R 2.1Mb data 2.0Mb

ggplotlyExtra

Version: 0.0.1
GitHub: NA
Source code: https://github.com/cran/ggplotlyExtra
Date/Publication: 2019-12-02 16:20:06 UTC
Number of recursive dependencies: 70

Run revdepcheck::cloud_details(, "ggplotlyExtra") for more info

checking examples ... ERROR ``` Running examples in ‘ggplotlyExtra-Ex.R’ failed The error most likely occurred in:

Name: ggplotly_histogram

Title: Clean 'ggplot2' Histogram to be Converted to 'Plotly'

Aliases: ggplotly_histogram

** Examples

... + xlab("len") stat_bin() using bins = 30. Pick better value with binwidth. Warning in geom_bar(data = layerdata, mapping = aes(x = .data$x, y = .data$count, : Ignoring unknown aesthetics: label1, label2, and label3

convert ggplot object to plotly object

ggplotly(p, tooltip = c("Range", "count", "density")) Error in pm[[2]] : subscript out of bounds Calls: ggplotly -> ggplotly.ggplot -> gg2list Execution halted ```

checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory

ggPMX

Version: 1.2.11
GitHub: https://github.com/ggPMXdevelopment/ggPMX
Source code: https://github.com/cran/ggPMX
Date/Publication: 2023-11-30 16:10:06 UTC
Number of recursive dependencies: 181

Run revdepcheck::cloud_details(, "ggPMX") for more info

checking examples ... ERROR ``` Running examples in ‘ggPMX-Ex.R’ failed The error most likely occurred in:

Name: pmx_config

Title: This function can be used to define the pmx configuration used

in plots. e.g. Monolix/Nonmem

Aliases: pmx_config

** Examples

... + cats = c("SEX"), + conts = c("WT0", "AGE0"), + strats = "STUD" + ) NO FINEGRID FILE: we will use instead predictions.txt for individual plots Warning: Duplicated aesthetics after name standardisation: colour Error in if (new_name %in% existing) { : argument is of length zero Calls: pmx_mlx ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘ggPMX-guide.Rmd’ ...

work_dir <- file.path(theophylline, "Monolix")

input_data <- file.path(theophylline, "data_pk.csv")

ctr <- theophylline()

When sourcing ‘ggPMX-guide.R’: Error: argument is of length zero Execution halted

‘ggPMX-guide.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘ggPMX-guide.Rmd’ using rmarkdown

Quitting from lines 25-37 [load_package] (ggPMX-guide.Rmd) Error: processing vignette 'ggPMX-guide.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘ggPMX-guide.Rmd’

SUMMARY: processing the following file failed: ‘ggPMX-guide.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking package dependencies ... NOTE Package suggested but not available for checking: ‘lixoftConnectors’
checking installed package size ... NOTE installed size is 8.9Mb sub-directories of 1Mb or more: doc 1.1Mb help 2.4Mb testdata 4.8Mb

ggpol

Version: 0.0.7
GitHub: https://github.com/erocoar/ggpol
Source code: https://github.com/cran/ggpol
Date/Publication: 2020-11-08 13:40:02 UTC
Number of recursive dependencies: 54

Run revdepcheck::cloud_details(, "ggpol") for more info

checking examples ... ERROR ``` Running examples in ‘ggpol-Ex.R’ failed The error most likely occurred in:

Name: GeomConfmat

Title: Confusion Matrix

Aliases: GeomConfmat geom_confmat stat_confmat

** Examples

x <- sample(LETTERS[seq(4)], 50, replace = TRUE) ... 21. │ └─ggpol (local) draw_panel(...) 22. │ └─base::lapply(GeomText$default_aes[missing_aes], rlang::eval_tidy) 23. │ └─rlang (local) FUN(X[[i]], ...) 24. ├─ggplot2::from_theme(fontsize) 25. └─base::.handleSimpleError(...) 26. └─rlang (local) h(simpleError(msg, call)) 27. └─handlers[1L] 28. └─cli::cli_abort(...) 29. └─rlang::abort(...) Execution halted ```

checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘dplyr’ ‘grDevices’ All declared Imports should be used.
checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory

ggprism

Version: 1.0.5
GitHub: https://github.com/csdaw/ggprism
Source code: https://github.com/cran/ggprism
Date/Publication: 2024-03-21 10:50:02 UTC
Number of recursive dependencies: 97

Run revdepcheck::cloud_details(, "ggprism") for more info

checking examples ... ERROR ``` Running examples in ‘ggprism-Ex.R’ failed The error most likely occurred in:

Name: add_pvalue

Title: Add p-values to a ggplot

Aliases: add_pvalue

** Examples

library(ggplot2) ... + "OJ", "VC", 0.0606, 36 + )

boxplot (or another geom...)

ggplot(tg, aes(x = supp, y = len)) + + geom_boxplot() + + add_pvalue(two.means) Error in if (new_name %in% existing) { : argument is of length zero Calls: +.gg ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘tinytest.R’ Running the tests in ‘tests/tinytest.R’ failed. Complete output: > > if ( requireNamespace("tinytest", quietly=TRUE) ){
- tinytest::test_package("ggprism")
- }
test-add_pvalue.R............. 0 tests test-add_pvalue.R............. 0 tests ... test-add_pvalue.R............. 0 tests test-add_pvalue.R............. 0 tests test-add_pvalue.R............. 0 tests test-add_pvalue.R............. 0 tests test-add_pvalue.R............. 0 tests test-add_pvalue.R............. 0 tests test-add_pvalue.R............. 0 tests test-add_pvalue.R............. 0 tests Error in if (new_name %in% existing) { : argument is of length zero Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘ggprism.Rmd’ ...
- p.adj = 0.0606, y.position = 36)
p1 <- ggplot(ToothGrowth, aes(x = factor(supp), y = len)) + + geom_boxplot(aes(fill = factor(supp))) + scale_fill_prism(palette = "candy_bright ..." ... [TRUNCATED]

p2 <- p1 + add_pvalue(df_p_val)

...

When sourcing ‘pvalues.R’: Error: argument is of length zero Execution halted

‘axes.Rmd’ using ‘UTF-8’... OK ‘colours.Rmd’ using ‘UTF-8’... OK ‘ggprism.Rmd’ using ‘UTF-8’... failed ‘pvalues.Rmd’ using ‘UTF-8’... failed ‘themes.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘axes.Rmd’ using rmarkdown

ggpubr

Version: 0.6.0
GitHub: https://github.com/kassambara/ggpubr
Source code: https://github.com/cran/ggpubr
Date/Publication: 2023-02-10 16:20:02 UTC
Number of recursive dependencies: 88

Run revdepcheck::cloud_details(, "ggpubr") for more info

checking examples ... ERROR ``` Running examples in ‘ggpubr-Ex.R’ failed The error most likely occurred in:

Name: add_summary

Title: Add Summary Statistics onto a ggplot.

Aliases: add_summary mean_se_ mean_sd mean_ci mean_range median_iqr

median_hilow_ median_q1q3 median_mad median_range

** Examples

... 10. │ └─ggplot2:::+.gg(...) 11. │ └─ggplot2:::add_ggplot(e1, e2, e2name) 12. │ ├─ggplot2::ggplot_add(object, p, objectname) 13. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 14. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 15. └─base::.handleSimpleError(...) 16. └─purrr (local) h(simpleError(msg, call)) 17. └─cli::cli_abort(...) 18. └─rlang::abort(...) Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(ggpubr) Loading required package: ggplot2 > > test_check("ggpubr") [ FAIL 46 | WARN 3 | SKIP 0 | PASS 51 ]

... 13. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 14. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 15. └─base::.handleSimpleError(...) 16. └─purrr (local) h(simpleError(msg, call)) 17. └─cli::cli_abort(...) 18. └─rlang::abort(...)

[ FAIL 46 | WARN 3 | SKIP 0 | PASS 51 ] Error: Test failures Execution halted ```

ggrain

Version: 0.0.4
GitHub: https://github.com/njudd/ggrain
Source code: https://github.com/cran/ggrain
Date/Publication: 2024-01-23 11:50:02 UTC
Number of recursive dependencies: 63

Run revdepcheck::cloud_details(, "ggrain") for more info

checking examples ... ERROR ``` Running examples in ‘ggrain-Ex.R’ failed The error most likely occurred in:

Name: geom_rain

Title: Raincloud Plots

Aliases: geom_rain

** Examples

e1 <- ggplot(iris, aes(Species, Sepal.Width, fill = Species)) e1 + geom_rain() Error in if (new_name %in% existing) { : argument is of length zero Calls: +.gg ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘ggrain.Rmd’ ... > library(ggrain) Loading required package: ggplot2

ggplot(iris, aes(1, Sepal.Width)) + geom_rain() + + theme_classic() + theme(axis.title.x = element_blank(), axis.text.x = element_blank(), + .... [TRUNCATED]

When sourcing ‘ggrain.R’: Error: argument is of length zero Execution halted

‘ggrain.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘ggrain.Rmd’ using rmarkdown

Quitting from lines 36-41 [most basic raincloud possible] (ggrain.Rmd) Error: processing vignette 'ggrain.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘ggrain.Rmd’

SUMMARY: processing the following file failed: ‘ggrain.Rmd’

Error: Vignette re-building failed. Execution halted ```

ggraph

Version: 2.2.1
GitHub: https://github.com/thomasp85/ggraph
Source code: https://github.com/cran/ggraph
Date/Publication: 2024-03-07 12:40:02 UTC
Number of recursive dependencies: 115

Run revdepcheck::cloud_details(, "ggraph") for more info

checking examples ... ERROR ``` Running examples in ‘ggraph-Ex.R’ failed The error most likely occurred in:

Name: geom_conn_bundle

Title: Create hierarchical edge bundles between node connections

Aliases: geom_conn_bundle geom_conn_bundle2 geom_conn_bundle0

** Examples

Create a graph of the flare class system

... + ) + + geom_node_point(aes(filter = leaf, colour = class)) + + scale_edge_colour_distiller('', direction = 1, guide = 'edge_direction') + + coord_fixed() + + ggforce::theme_no_axes() Error in get_layer_key(...) : unused argument (list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, list(), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 1, NULL, NULL, NULL, c(0, 2.2, 0, 0), NULL, TRUE), NULL, Calls: ... -> -> process_layers -> Execution halted ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘Edges.Rmd’ using rmarkdown

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Edges.Rmd’ ... Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : font family 'Arial Narrow' not found in PostScript font database Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : font family 'Arial Narrow' not found in PostScript font database Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : font family 'Arial Narrow' not found in PostScript font database

... font family 'Arial' not found in PostScript font database

When sourcing ‘tidygraph.R’: Error: invalid font type Execution halted

‘Edges.Rmd’ using ‘UTF-8’... failed ‘Layouts.Rmd’ using ‘UTF-8’... failed ‘Nodes.Rmd’ using ‘UTF-8’... failed ‘tidygraph.Rmd’ using ‘UTF-8’... failed ```
checking installed package size ... NOTE installed size is 8.9Mb sub-directories of 1Mb or more: R 1.5Mb doc 3.9Mb libs 2.8Mb

ggredist

Version: 0.0.2
GitHub: https://github.com/alarm-redist/ggredist
Source code: https://github.com/cran/ggredist
Date/Publication: 2022-11-23 11:20:02 UTC
Number of recursive dependencies: 67

Run revdepcheck::cloud_details(, "ggredist") for more info

checking examples ... ERROR ``` Running examples in ‘ggredist-Ex.R’ failed The error most likely occurred in:

Name: geom_district_text

Title: Label Map Regions

Aliases: geom_district_text geom_district_label

stat_district_coordinates StatDistrictCoordinates GeomDistrictText

Keywords: datasets

** Examples

... 22. │ └─coord$transform(data, panel_params) 23. │ └─ggplot2 (local) transform(..., self = self) 24. │ └─ggplot2:::sf_rescale01(...) 25. │ └─sf::st_normalize(x, c(x_range[1], y_range[1], x_range[2], y_range[2])) 26. └─base::.handleSimpleError(...) 27. └─rlang (local) h(simpleError(msg, call)) 28. └─handlers[1L] 29. └─cli::cli_abort(...) 30. └─rlang::abort(...) Execution halted ```

ggRtsy

Version: 0.1.0
GitHub: NA
Source code: https://github.com/cran/ggRtsy
Date/Publication: 2023-09-15 19:12:05 UTC
Number of recursive dependencies: 69

Run revdepcheck::cloud_details(, "ggRtsy") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(ggplot2) > library(dplyr)

Attaching package: 'dplyr'

The following object is masked from 'package:testthat': ... 13. │ │ └─base (local) doTryCatch(return(expr), name, parentenv, handler) 14. │ └─vctrs::vec_as_location(i, n, names = names, arg = arg, call = call) 15. └─vctrs (local) <fn>() 16. └─vctrs:::stop_subscript_oob(...) 17. └─vctrs:::stop_subscript(...) 18. └─rlang::abort(...)

[ FAIL 1 | WARN 0 | SKIP 0 | PASS 3 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Vignette.Rmd’ ... |Antique White |(238, 223, 204) |#eedfcc |

RectangleFiller(plotExample, c("#e32636", "#9966cc", + "#f4c2c2", "#e16827"))

When sourcing ‘Vignette.R’: Error: Can't extract rows past the end. ℹ Location 1 doesn't exist. ℹ There are only 0 rows. Execution halted

‘Vignette.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘Vignette.Rmd’ using rmarkdown

Quitting from lines 48-49 [unnamed-chunk-2] (Vignette.Rmd) Error: processing vignette 'Vignette.Rmd' failed with diagnostics: Can't extract rows past the end. ℹ Location 1 doesn't exist. ℹ There are only 0 rows. --- failed re-building ‘Vignette.Rmd’

SUMMARY: processing the following file failed: ‘Vignette.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking data for non-ASCII characters ... NOTE Note: found 19 marked UTF-8 strings

ggseqplot

Version: 0.8.4
GitHub: https://github.com/maraab23/ggseqplot
Source code: https://github.com/cran/ggseqplot
Date/Publication: 2024-05-17 21:40:03 UTC
Number of recursive dependencies: 128

Run revdepcheck::cloud_details(, "ggseqplot") for more info

checking examples ... ERROR ``` Running examples in ‘ggseqplot-Ex.R’ failed The error most likely occurred in:

Name: ggseqrfplot

Title: Relative Frequency Sequence Plot

Aliases: ggseqrfplot

** Examples

Load additional library for fine-tuning the plots

... [>] Pseudo/medoid-based-F statistic: 6.870317, p-value: 3.09994e-08

... with ggseqrfplot

ggseqrfplot(biofam.seq, weighted = FALSE, diss = diss, k = 12, grp.meth="first") [>] Using k=12 frequency groups with grp.meth='first' [>] Pseudo/medoid-based-R2: 0.4620155 [>] Pseudo/medoid-based-F statistic: 6.870317, p-value: 3.09994e-08 Error in identicalUnits(x) : object is not a unit Calls: ... assemble_guides -> guides_build -> unit.c -> identicalUnits Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(ggseqplot) Loading required package: TraMineR

TraMineR stable version 2.2-10 (Built: 2024-05-22) Website: http://traminer.unige.ch Please type 'citation("TraMineR")' for citation information. ... Backtrace: ▆ 1. ├─testthat::expect_s3_class(ggseqtrplot(biofam.seq), "ggplot") at test-ggseqtrplot.R:35:3 2. │ └─testthat::quasi_label(enquo(object), arg = "object") 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. └─ggseqplot::ggseqtrplot(biofam.seq)

[ FAIL 1 | WARN 1045 | SKIP 0 | PASS 131 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR `` Errors in running code in vignettes: when running code in ‘ggseqplot.Rmd’ ... > p1 + p2 + plot_layout(guides = "collect") & scale_fill_manual(values = canva_palettes$Fun and tropical`[1:4]) &
- theme_ipsum(base_family = "" .... [TRUNCATED] Scale for fill is already present. Adding another scale for fill, which will replace the existing scale. Scale for fill is already present. Adding another scale for fill, which will replace the existing scale.
When sourcing ‘ggseqplot.R’: Error: object is not coercible to a unit Execution halted

‘ggseqplot.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘ggseqplot.Rmd’ using rmarkdown

ggside

Version: 0.3.1
GitHub: https://github.com/jtlandis/ggside
Source code: https://github.com/cran/ggside
Date/Publication: 2024-03-01 09:12:37 UTC
Number of recursive dependencies: 76

Run revdepcheck::cloud_details(, "ggside") for more info

checking tests ... ERROR Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(ggplot2) > library(ggside) Registered S3 method overwritten by 'ggside': method from +.gg ggplot2 > ... • ops_meaningful/alpha-0-5-from-function.svg • side_layers/boxplot2.svg • vdiff_irisScatter/collapsed-histo.svg • vdiff_irisScatter/facetgrid-collapsed-density.svg • vdiff_irisScatter/facetgrid-histo.svg • vdiff_irisScatter/facetgrid-side-density.svg • vdiff_irisScatter/stacked-side-density.svg • vdiff_irisScatter/yside-histo.svg Error: Test failures Execution halted
checking for code/documentation mismatches ... WARNING Codoc mismatches from documentation object 'geom_xsideabline': geom_xsidehline Code: function(mapping = NULL, data = NULL, position = "identity", ..., yintercept, na.rm = FALSE, show.legend = NA) Docs: function(mapping = NULL, data = NULL, ..., yintercept, na.rm = FALSE, show.legend = NA) Argument names in code not in docs: position Mismatches in argument names (first 3): Position: 3 Code: position Docs: ... ... Docs: function(mapping = NULL, data = NULL, stat = "identity", position = "identity", ..., lineend = "butt", linejoin = "round", linemitre = 10, arrow = NULL, na.rm = FALSE, show.legend = NA, inherit.aes = TRUE) Argument names in code not in docs: arrow.fill Mismatches in argument names: Position: 10 Code: arrow.fill Docs: na.rm Position: 11 Code: na.rm Docs: show.legend Position: 12 Code: show.legend Docs: inherit.aes

ggsmc

Version: 0.1.2.0
GitHub: https://github.com/richardgeveritt/ggsmc
Source code: https://github.com/cran/ggsmc
Date/Publication: 2024-07-27 17:00:02 UTC
Number of recursive dependencies: 84

Run revdepcheck::cloud_details(, "ggsmc") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Visualising.Rmd’ ... 20 /tmp/RtmpuaCJEi/100d113de41a/gganim_plot0020.png

data(lv_output)

animate_reveal_time_series(lv_output, parameters = c("X", + "Y"), alpha = 0.5, ylimits = c(0, 600), duration = 10)

When sourcing ‘Visualising.R’: Error: argument "theme" is missing, with no default Execution halted

‘Visualising.Rmd’ using ‘UTF-8’... failed ```

checking data for non-ASCII characters ... NOTE Note: found 175 marked UTF-8 strings

ggspatial

Version: 1.1.9
GitHub: https://github.com/paleolimbot/ggspatial
Source code: https://github.com/cran/ggspatial
Date/Publication: 2023-08-17 15:32:38 UTC
Number of recursive dependencies: 108

Run revdepcheck::cloud_details(, "ggspatial") for more info

checking examples ... ERROR ``` Running examples in ‘ggspatial-Ex.R’ failed The error most likely occurred in:

Name: annotation_spatial_hline

Title: Projected horizontal and vertical lines

Aliases: annotation_spatial_hline annotation_spatial_vline

GeomSpatialXline

Keywords: datasets

** Examples

... 25. │ └─grid:::validGP(list(...)) 26. │ └─grid (local) numnotnull("fontsize") 27. │ └─grid (local) check.length(gparname) 28. │ └─base::stop(...) 29. └─base::.handleSimpleError(...) 30. └─rlang (local) h(simpleError(msg, call)) 31. └─handlers[1L] 32. └─cli::cli_abort(...) 33. └─rlang::abort(...) Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(ggspatial) > > test_check("ggspatial") Linking to GEOS 3.10.2, GDAL 3.4.1, PROJ 8.2.1; sf_use_s2() is TRUE [ FAIL 1 | WARN 1 | SKIP 22 | PASS 195 ]

... 33. │ └─base::stop(...) 34. └─base::.handleSimpleError(...) 35. └─rlang (local) h(simpleError(msg, call)) 36. └─handlers[1L] 37. └─cli::cli_abort(...) 38. └─rlang::abort(...)

[ FAIL 1 | WARN 1 | SKIP 22 | PASS 195 ] Error: Test failures Execution halted ```

ggstatsplot

Version: 0.12.4
GitHub: https://github.com/IndrajeetPatil/ggstatsplot
Source code: https://github.com/cran/ggstatsplot
Date/Publication: 2024-07-06 16:22:07 UTC
Number of recursive dependencies: 174

Run revdepcheck::cloud_details(, "ggstatsplot") for more info

checking examples ... ERROR ``` Running examples in ‘ggstatsplot-Ex.R’ failed The error most likely occurred in:

Name: ggscatterstats

Title: Scatterplot with marginal distributions and statistical results

Aliases: ggscatterstats

** Examples

set.seed(123) ... + iris, + x = Sepal.Width, + y = Petal.Length, + label.var = Species, + label.expression = Sepal.Length > 7.6 + ) + + ggplot2::geom_rug(sides = "b") Error in if (new_name %in% existing) { : argument is of length zero Calls: ggscatterstats ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘ggstatsplot.Rmd’ ... author = {Indrajeet Patil}, title = {{Visualizations with statistical details: The {'ggstatsplot'} approach}}, journal = {{Journal of Open Source Software}}, }

ggbetweenstats(iris, Species, Sepal.Length)

When sourcing ‘ggstatsplot.R’: Error: argument is of length zero Execution halted

‘additional.Rmd’ using ‘UTF-8’... OK ‘ggstatsplot.Rmd’ using ‘UTF-8’... failed ```

ggtern

Version: 3.5.0
GitHub: NA
Source code: https://github.com/cran/ggtern
Date/Publication: 2024-03-24 21:50:02 UTC
Number of recursive dependencies: 42

Run revdepcheck::cloud_details(, "ggtern") for more info

checking examples ... ERROR ``` Running examples in ‘ggtern-Ex.R’ failed The error most likely occurred in:

Name: annotate

Title: Create an annotation layer (ggtern version).

Aliases: annotate

** Examples

ggtern() + ... 3. ├─ggtern::ggplot_build(x) 4. └─ggtern:::ggplot_build.ggplot(x) 5. └─ggtern:::layers_add_or_remove_mask(plot) 6. └─ggint$plot_theme(plot) 7. └─ggplot2:::validate_theme(theme) 8. └─base::mapply(...) 9. └─ggplot2 (local) <fn>(...) 10. └─cli::cli_abort(...) 11. └─rlang::abort(...) Execution halted ```

checking package dependencies ... NOTE Package which this enhances but not available for checking: ‘sp’
checking Rd cross-references ... NOTE Package unavailable to check Rd xrefs: ‘chemometrics’

ggupset

Version: 0.4.0
GitHub: https://github.com/const-ae/ggupset
Source code: https://github.com/cran/ggupset
Date/Publication: 2024-06-24 10:10:04 UTC
Number of recursive dependencies: 46

Run revdepcheck::cloud_details(, "ggupset") for more info

checking examples ... ERROR ``` Running examples in ‘ggupset-Ex.R’ failed The error most likely occurred in:

Name: axis_combmatrix

Title: Convert delimited text labels into a combination matrix axis

Aliases: axis_combmatrix

** Examples

library(ggplot2) ... Datsun 710 Cyl: 4_Gears: 4 Hornet 4 Drive Cyl: 6_Gears: 3 Hornet Sportabout Cyl: 8_Gears: 3 Valiant Cyl: 6_Gears: 3 ggplot(mtcars, aes(x=combined)) + + geom_bar() + + axis_combmatrix(sep = "_") Error in as.unit(e2) : object is not coercible to a unit Calls: ... polylineGrob -> is.unit -> unit.c -> Ops.unit -> as.unit Execution halted ```

ggVennDiagram

Version: 1.5.2
GitHub: https://github.com/gaospecial/ggVennDiagram
Source code: https://github.com/cran/ggVennDiagram
Date/Publication: 2024-02-20 08:10:02 UTC
Number of recursive dependencies: 98

Run revdepcheck::cloud_details(, "ggVennDiagram") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘fully-customed.Rmd’ ... [1] "b" "c" "e" "h" "k" "q" "s" "y"

ggVennDiagram(y, show_intersect = TRUE, set_color = "black") Warning in geom_text(aes(label = .data$count, text = .data$item), data = region_label) : Ignoring unknown aesthetics: text

... Ignoring unknown aesthetics: text

When sourcing ‘using-ggVennDiagram.R’: Error: subscript out of bounds Execution halted

‘VennCalculator.Rmd’ using ‘UTF-8’... OK ‘fully-customed.Rmd’ using ‘UTF-8’... failed ‘using-ggVennDiagram.Rmd’ using ‘UTF-8’... failed ‘using-new-shapes.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘VennCalculator.Rmd’ using rmarkdown --- finished re-building ‘VennCalculator.Rmd’

--- re-building ‘fully-customed.Rmd’ using rmarkdown ```

checking installed package size ... NOTE installed size is 11.1Mb sub-directories of 1Mb or more: doc 9.5Mb help 1.1Mb

GimmeMyPlot

Version: 0.1.0
GitHub: NA
Source code: https://github.com/cran/GimmeMyPlot
Date/Publication: 2023-10-18 16:10:02 UTC
Number of recursive dependencies: 114

Run revdepcheck::cloud_details(, "GimmeMyPlot") for more info

checking examples ... ERROR ``` Running examples in ‘GimmeMyPlot-Ex.R’ failed The error most likely occurred in:

Name: plot_violin

Title: Violin plot

Aliases: plot_violin

** Examples

library(RColorBrewer) ... + width_text = 5, + pch_colour = "gray30", + pch_alpha = 0.5, + width_title = 30, + lwd = 1.25, + digits = 2 + ) Error in if (new_name %in% existing) { : argument is of length zero Calls: plot_violin ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ 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 ...
1. └─GimmeMyPlot::plot_violin(df)
2. └─ggplot2:::+.gg(...)
3. └─ggplot2:::add_ggplot(e1, e2, e2name)
4. ├─ggplot2::ggplot_add(object, p, objectname)
5. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
6. └─ggplot2:::new_layer_names(object, names(plot$layers))
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 1 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Tutorial.Rmd’ ... > df[, 3] <- runif(10, 1, 2)

colnames(df) <- paste0("X", seq(3))

plot_violin(df, title = "Some random variables", colour = brewer.pal(9, + "Set1")[seq(3)])

When sourcing ‘Tutorial.R’: Error: argument is of length zero Execution halted

‘Tutorial.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘Tutorial.Rmd’ using rmarkdown

Quitting from lines 24-57 [violin] (Tutorial.Rmd) Error: processing vignette 'Tutorial.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘Tutorial.Rmd’

SUMMARY: processing the following file failed: ‘Tutorial.Rmd’

Error: Vignette re-building failed. Execution halted ```

giniVarCI

Version: 0.0.1-3
GitHub: NA
Source code: https://github.com/cran/giniVarCI
Date/Publication: 2024-01-08 10:30:02 UTC
Number of recursive dependencies: 81

Run revdepcheck::cloud_details(, "giniVarCI") for more info

checking examples ... ERROR ``` Running examples in ‘giniVarCI-Ex.R’ failed The error most likely occurred in:

Name: fcompareCI

Title: Comparisons of variance estimates and confidence intervals for

the Gini index in finite populations

Aliases: fcompareCI

** Examples

... data(eusilc, package="laeken") y <- eusilc$eqIncome[eusilc$db040 == "Burgenland"] w <- eusilc$rb050[eusilc$db040 == "Burgenland"]

Estimation of the Gini index and confidence intervals using different methods.

fcompareCI(y, w) Error in grid.Call.graphics(C_segments, x$x0, x$y0, x$x1, x$y1, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: fcompareCI Execution halted ```

checking installed package size ... NOTE installed size is 12.5Mb sub-directories of 1Mb or more: libs 12.0Mb

gMCPLite

Version: 0.1.5
GitHub: https://github.com/Merck/gMCPLite
Source code: https://github.com/cran/gMCPLite
Date/Publication: 2024-01-11 19:30:02 UTC
Number of recursive dependencies: 108

Run revdepcheck::cloud_details(, "gMCPLite") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘GraphicalMultiplicity.Rmd’ ... 0.8600 0.1400 > plot(os, plottype = "HR", xlab = "Events")

When sourcing ‘GraphicalMultiplicity.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘GraphicalMultiplicity.Rmd’ using ‘UTF-8’... failed ‘hGraph.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘GraphicalMultiplicity.Rmd’ using rmarkdown

gMOIP

Version: 1.5.2
GitHub: https://github.com/relund/gMOIP
Source code: https://github.com/cran/gMOIP
Date/Publication: 2024-02-21 21:30:05 UTC
Number of recursive dependencies: 113

Run revdepcheck::cloud_details(, "gMOIP") for more info

checking examples ... ERROR ``` Running examples in ‘gMOIP-Ex.R’ failed The error most likely occurred in:

Name: convexHull

Title: Find the convex hull of a set of points.

Aliases: convexHull

** Examples

1D

...

$pts p1 p2 pt vtx 1 1 1 1 TRUE 2 2 2 1 TRUE

plotHull2D(pts, drawPoints = TRUE) Error in if (new_name %in% existing) { : argument is of length zero Calls: plotHull2D ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘bi-objective_2x.Rmd’ ...

b <- c(3, 27, 90)

obj <- matrix(c(7, -10, -10, -10), nrow = 2)

plotBiObj2D(A, b, obj, addTriangles = FALSE)

... When sourcing ‘polytope_2d.R’: Error: argument is of length zero Execution halted

‘bi-objective_2x.Rmd’ using ‘UTF-8’... failed ‘bi-objective_3x_ex1.Rmd’ using ‘UTF-8’... OK ‘intro.Rmd’ using ‘UTF-8’... failed ‘polytope_2d.Rmd’ using ‘UTF-8’... failed ‘polytope_3d_ex1.Rmd’ using ‘UTF-8’... OK ‘tri-objective.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘bi-objective_2x.Rmd’ using rmarkdown

Quitting from lines 73-78 [2DLP] (bi-objective_2x.Rmd) Error: processing vignette 'bi-objective_2x.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘bi-objective_2x.Rmd’

--- re-building ‘bi-objective_3x_ex1.Rmd’ using rmarkdown ```

GofCens

Version: 1.1
GitHub: NA
Source code: https://github.com/cran/GofCens
Date/Publication: 2024-07-29 08:40:02 UTC
Number of recursive dependencies: 93

Run revdepcheck::cloud_details(, "GofCens") for more info

checking examples ... ERROR ``` Running examples in ‘GofCens-Ex.R’ failed The error most likely occurred in:

Name: kmPlot

Title: Plot of the Kaplen-Meier and parametric estimations

Aliases: kmPlot kmPlot.default kmPlot.formula kmPlot.probPlot

kmPlot.probPlot

** Examples

... Scale: 10.039

Plots for censored data using ggplot2

data(colon) Warning in data(colon) : data set ‘colon’ not found kmPlot(Surv(time, status) ~ 1, colon, distr= "lognormal", ggp = TRUE) Error in if (new_name %in% existing) { : argument is of length zero Calls: kmPlot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

greatR

Version: 2.0.0
GitHub: https://github.com/ruthkr/greatR
Source code: https://github.com/cran/greatR
Date/Publication: 2024-04-09 22:40:07 UTC
Number of recursive dependencies: 77

Run revdepcheck::cloud_details(, "greatR") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘process-results.Rmd’ ...

reg_summary$non_registered_genes [1] "BRAA02G018970.3C"

plot(reg_summary, type = "registered", scatterplot_size = c(4, + 3.5))

When sourcing ‘process-results.R’: Error: object is not a unit Execution halted

‘data-requirement.Rmd’ using ‘UTF-8’... OK ‘process-results.Rmd’ using ‘UTF-8’... failed ‘register-data-manually.Rmd’ using ‘UTF-8’... OK ‘register-data.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘data-requirement.Rmd’ using rmarkdown --- finished re-building ‘data-requirement.Rmd’

--- re-building ‘process-results.Rmd’ using rmarkdown

Quitting from lines 76-81 [plot-summary-results] (process-results.Rmd) Error: processing vignette 'process-results.Rmd' failed with diagnostics: object is not a unit ... --- finished re-building ‘register-data-manually.Rmd’

--- re-building ‘register-data.Rmd’ using rmarkdown --- finished re-building ‘register-data.Rmd’

SUMMARY: processing the following file failed: ‘process-results.Rmd’

Error: Vignette re-building failed. Execution halted ```

Greymodels

Version: 2.0.1
GitHub: https://github.com/havishaJ/Greymodels
Source code: https://github.com/cran/Greymodels
Date/Publication: 2022-12-05 12:42:35 UTC
Number of recursive dependencies: 91

Run revdepcheck::cloud_details(, "Greymodels") for more info

checking examples ... ERROR ``` Running examples in ‘Greymodels-Ex.R’ failed The error most likely occurred in:

Name: Plots

Title: plots

Aliases: plots plotrm plotsmv1 plotsmv2 plotsigndgm plots_mdbgm12

** Examples

# Plots - EPGM (1, 1) model ... + geom_point(data = set4, aes(x = CI, y = y), shape = 23, color = "black") + + geom_line(data = xy1, aes(x = x, y = y,color = "Raw Data")) + + geom_line(data = xy2, aes(x = x, y = y,color = "Fitted&Forecasts")) + + geom_line(data = set3, aes(x = CI, y = y,color = "LowerBound"), linetype=2) + + geom_line(data = set4, aes(x = CI, y = y,color = "UpperBound"), linetype=2) + + scale_color_manual(name = "Label",values = colors) r <- ggplotly(p) Error in pm[[2]] : subscript out of bounds Calls: ggplotly -> ggplotly.ggplot -> gg2list Execution halted ```

gsDesign

Version: 3.6.4
GitHub: https://github.com/keaven/gsDesign
Source code: https://github.com/cran/gsDesign
Date/Publication: 2024-07-26 23:20:10 UTC
Number of recursive dependencies: 102

Run revdepcheck::cloud_details(, "gsDesign") for more info

checking examples ... ERROR ``` Running examples in ‘gsDesign-Ex.R’ failed The error most likely occurred in:

Name: summary.gsDesign

Title: Bound Summary and Z-transformations

Aliases: summary.gsDesign print.gsDesign gsBoundSummary xprint

print.gsBoundSummary gsBValue gsDelta gsRR gsHR gsCPz

Keywords: design

** Examples

... ~RR at bound 0.6605 0.6605 P(Cross) if RR=1 0.0239 0.9761 P(Cross) if RR=0.5 0.9000 0.1000 gsRR(z = xp$lower$bound, i = 1:3, xrr) [1] 1.0732500 0.8211496 NA plot(xrr, plottype = "RR") Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(gsDesign) > > test_check("gsDesign") Linear spending function with none = [ FAIL 15 | WARN 9 | SKIP 98 | PASS 1799 ]

══ Skipped tests (98) ══════════════════════════════════════════════════════════ ... 20. │ └─grid:::grid.draw.grob(x$children[[i]], recording = FALSE) 21. │ └─grDevices::recordGraphics(drawGrob(x), list(x = x), getNamespace("grid")) 22. └─grid:::drawGrob(x) 23. ├─grid::drawDetails(x, recording = FALSE) 24. └─grid:::drawDetails.polyline(x, recording = FALSE) 25. └─grid:::grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow)

[ FAIL 15 | WARN 9 | SKIP 98 | PASS 1799 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘ConditionalPowerPlot.Rmd’ ...

cp <- gsCP(x = update, i = 1, zi = -qnorm(p), theta = theta)

plot(cp, xval = hr, xlab = "Future HR", ylab = "Conditional Power/Error", + main = "Conditional probability of crossing future bound", + o .... [TRUNCATED]

... ‘PoissonMixtureModel.Rmd’ using ‘UTF-8’... OK ‘SpendingFunctionOverview.Rmd’ using ‘UTF-8’... OK ‘SurvivalOverview.Rmd’ using ‘UTF-8’... OK ‘VaccineEfficacy.Rmd’ using ‘UTF-8’... OK ‘binomialSPRTExample.Rmd’ using ‘UTF-8’... OK ‘gsDesignPackageOverview.Rmd’ using ‘UTF-8’... failed ‘gsSurvBasicExamples.Rmd’ using ‘UTF-8’... failed ‘hGraph.Rmd’ using ‘UTF-8’... OK ‘nNormal.Rmd’ using ‘UTF-8’... OK ‘toInteger.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘ConditionalErrorSpending.Rmd’ using rmarkdown

gtExtras

Version: 0.5.0
GitHub: https://github.com/jthomasmock/gtExtras
Source code: https://github.com/cran/gtExtras
Date/Publication: 2023-09-15 22:32:06 UTC
Number of recursive dependencies: 105

Run revdepcheck::cloud_details(, "gtExtras") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(gtExtras) Loading required package: gt

Attaching package: 'gt'

The following object is masked from 'package:testthat': ... ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-gt_plt_bar.R:44:3'): gt_plt_bar svg is created and has specific values ── bar_neg_vals (actual) not equal to c("49.19", "32.79", "16.40", "16.40", "32.79", "49.19") (expected).

actual: "49.19" "32.79" "16.40" "0.00" "0.00" "0.00" expected: "49.19" "32.79" "16.40" "16.40" "32.79" "49.19"

[ FAIL 1 | WARN 14 | SKIP 23 | PASS 115 ] Error: Test failures Execution halted ```

HaploCatcher

Version: 1.0.4
GitHub: NA
Source code: https://github.com/cran/HaploCatcher
Date/Publication: 2023-04-21 23:32:39 UTC
Number of recursive dependencies: 112

Run revdepcheck::cloud_details(, "HaploCatcher") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘An_Intro_to_HaploCatcher.Rmd’ ... > set.seed(NULL)

results1 <- auto_locus(geno_mat = geno_mat, gene_file = gene_comp, + gene_name = "sst1_solid_stem", marker_info = marker_info, + chromosom .... [TRUNCATED] Loading required package: lattice

When sourcing ‘An_Intro_to_HaploCatcher.R’: Error: object is not a unit Execution halted

‘An_Intro_to_HaploCatcher.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘An_Intro_to_HaploCatcher.Rmd’ using rmarkdown

Quitting from lines 242-253 [example_models_1] (An_Intro_to_HaploCatcher.Rmd) Error: processing vignette 'An_Intro_to_HaploCatcher.Rmd' failed with diagnostics: object is not a unit --- failed re-building ‘An_Intro_to_HaploCatcher.Rmd’

SUMMARY: processing the following file failed: ‘An_Intro_to_HaploCatcher.Rmd’

Error: Vignette re-building failed. Execution halted ```

healthyR

Version: 0.2.2
GitHub: https://github.com/spsanderson/healthyR
Source code: https://github.com/cran/healthyR
Date/Publication: 2024-07-01 13:20:02 UTC
Number of recursive dependencies: 146

Run revdepcheck::cloud_details(, "healthyR") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘getting-started.Rmd’ ...
- .by = "month", .interactive = FALSE) Warning: Ignoring unknown labels: • colour = "Legend"
ts_alos_plt(.data = df_tbl, .date_col = Date, .value_col = Values, + .by = "month", .interactive = TRUE)

When sourcing ‘getting-started.R’: Error: subscript out of bounds Execution halted

‘getting-started.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘getting-started.Rmd’ using rmarkdown

checking installed package size ... NOTE installed size is 6.6Mb sub-directories of 1Mb or more: data 2.5Mb doc 3.7Mb

healthyR.ts

Version: 0.3.0
GitHub: https://github.com/spsanderson/healthyR.ts
Source code: https://github.com/cran/healthyR.ts
Date/Publication: 2023-11-15 06:00:05 UTC
Number of recursive dependencies: 200

Run revdepcheck::cloud_details(, "healthyR.ts") for more info

checking examples ... ERROR ``` Running examples in ‘healthyR.ts-Ex.R’ failed The error most likely occurred in:

Name: tidy_fft

Title: Tidy Style FFT

Aliases: tidy_fft

** Examples

suppressPackageStartupMessages(library(dplyr)) ... a <- tidy_fft( + .data = data_tbl, + .value_col = value, + .date_col = date_col, + .harmonics = 3, + .frequency = 12 + ) Error in pm[[2]] : subscript out of bounds Calls: tidy_fft -> -> ggplotly.ggplot -> gg2list Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘using-tidy-fft.Rmd’ ... $ value 112, 118, 132, 129, 121, 135, 148, 148, 136, 119, 104, 118, 1…

suppressPackageStartupMessages(library(timetk))

data_tbl %>% plot_time_series(.date_var = date_col, + .value = value)

When sourcing ‘using-tidy-fft.R’: Error: subscript out of bounds Execution halted

‘getting-started.Rmd’ using ‘UTF-8’... OK ‘using-tidy-fft.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘getting-started.Rmd’ using rmarkdown

checking installed package size ... NOTE installed size is 6.3Mb sub-directories of 1Mb or more: doc 5.2Mb

heatmaply

Version: 1.5.0
GitHub: https://github.com/talgalili/heatmaply
Source code: https://github.com/cran/heatmaply
Date/Publication: 2023-10-06 20:50:02 UTC
Number of recursive dependencies: 111

Run revdepcheck::cloud_details(, "heatmaply") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(heatmaply) Loading required package: plotly Loading required package: ggplot2

Attaching package: 'plotly'

... 4. │ │ └─base::withCallingHandlers(...) 5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 6. ├─heatmaply:::predict_colors(ggplotly(g), plot_method = "ggplot") 7. ├─plotly::ggplotly(g) 8. └─plotly:::ggplotly.ggplot(g) 9. └─plotly::gg2list(...)

[ FAIL 58 | WARN 0 | SKIP 0 | PASS 193 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘heatmaply.Rmd’ ...

library("heatmaply")

library("heatmaply")

heatmaply(mtcars)

When sourcing ‘heatmaply.R’: Error: subscript out of bounds Execution halted

‘heatmaply.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘heatmaply.Rmd’ using rmarkdown

Quitting from lines 109-111 [unnamed-chunk-5] (heatmaply.Rmd) Error: processing vignette 'heatmaply.Rmd' failed with diagnostics: subscript out of bounds --- failed re-building ‘heatmaply.Rmd’

SUMMARY: processing the following file failed: ‘heatmaply.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking installed package size ... NOTE installed size is 5.5Mb sub-directories of 1Mb or more: doc 5.1Mb

hermiter

Version: 2.3.1
GitHub: https://github.com/MikeJaredS/hermiter
Source code: https://github.com/cran/hermiter
Date/Publication: 2024-03-06 23:50:02 UTC
Number of recursive dependencies: 79

Run revdepcheck::cloud_details(, "hermiter") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘hermiter.Rmd’ ... > p2 <- ggplot(df_pdf_cdf) + geom_tile(aes(X, Y, fill = pdf_est)) +
- scale_fill_continuous_sequential(palette = "Oslo", breaks = seq(0,
- .... [TRUNCATED]
p1 + ggtitle("Actual PDF") + theme(legend.title = element_blank()) + + p2 + ggtitle("Estimated PDF") + theme(legend.title = element_blank()) + .... [TRUNCATED]

When sourcing ‘hermiter.R’: Error: object is not a unit Execution halted

‘hermiter.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘hermiter.Rmd’ using rmarkdown

checking installed package size ... NOTE installed size is 6.8Mb sub-directories of 1Mb or more: R 2.6Mb doc 1.9Mb libs 2.0Mb
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

heumilkr

Version: 0.2.0
GitHub: https://github.com/lschneiderbauer/heumilkr
Source code: https://github.com/cran/heumilkr
Date/Publication: 2024-04-01 13:50:06 UTC
Number of recursive dependencies: 80

Run revdepcheck::cloud_details(, "heumilkr") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘clarke_wright_performance.Rmd’ ...
- "F", "tai"), group_desc = c("Augerat A, 1995", "Augerat B, 1995",
- "Christofides and ..." ... [TRUNCATED]
ggMarginal(ggplot(merge(result, description, by = "group"), + aes(x = n_site, y = clarke_wright_perf_xi, color = group_desc)) + + geom_poi .... [TRUNCATED]

When sourcing ‘clarke_wright_performance.R’: Error: argument is of length zero Execution halted

‘clarke_wright_performance.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘clarke_wright_performance.Rmd’ using rmarkdown

Quitting from lines 69-97 [perf_scale_based_graph] (clarke_wright_performance.Rmd) Error: processing vignette 'clarke_wright_performance.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘clarke_wright_performance.Rmd’

SUMMARY: processing the following file failed: ‘clarke_wright_performance.Rmd’

Error: Vignette re-building failed. Execution halted ```

hilldiv

Version: 1.5.1
GitHub: https://github.com/anttonalberdi/hilldiv
Source code: https://github.com/cran/hilldiv
Date/Publication: 2019-10-01 14:40:02 UTC
Number of recursive dependencies: 144

Run revdepcheck::cloud_details(, "hilldiv") for more info

checking examples ... ERROR ``` Running examples in ‘hilldiv-Ex.R’ failed The error most likely occurred in:

Name: div_test_plot

Title: Diversity test plotting

Aliases: div_test_plot

Keywords: chart comparison hill numbers

** Examples

... 11. │ └─ggplot2:::+.gg(...) 12. │ └─ggplot2:::add_ggplot(e1, e2, e2name) 13. │ ├─ggplot2::ggplot_add(object, p, objectname) 14. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 15. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 16. └─base::.handleSimpleError(...) 17. └─purrr (local) h(simpleError(msg, call)) 18. └─cli::cli_abort(...) 19. └─rlang::abort(...) Execution halted ```

hmclearn

Version: 0.0.5
GitHub: NA
Source code: https://github.com/cran/hmclearn
Date/Publication: 2020-10-05 06:40:02 UTC
Number of recursive dependencies: 97

Run revdepcheck::cloud_details(, "hmclearn") for more info

checking examples ... ERROR ``` Running examples in ‘hmclearn-Ex.R’ failed The error most likely occurred in:

Name: hmclearn-plots

Title: Plotting for MCMC visualization and diagnostics provided by

'bayesplot' package

Aliases: hmclearn-plots mcmc_intervals mcmc_intervals.hmclearn

mcmc_areas mcmc_areas.hmclearn mcmc_hist mcmc_hist.hmclearn

mcmc_hist_by_chain mcmc_hist_by_chain.hmclearn mcmc_dens

mcmc_dens.hmclearn mcmc_scatter mcmc_scatter.hmclearn mcmc_hex

... + param = list(y=y, X=X), + parallel=FALSE, chains=2)

mcmc_trace(f, burnin=100) mcmc_hist(f, burnin=100) stat_bin() using bins = 30. Pick better value with binwidth. mcmc_intervals(f, burnin=100) Error in if (new_name %in% existing) { : argument is of length zero Calls: mcmc_intervals ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

HTLR

Version: 0.4-4
GitHub: https://github.com/longhaiSK/HTLR
Source code: https://github.com/cran/HTLR
Date/Publication: 2022-10-22 12:47:53 UTC
Number of recursive dependencies: 91

Run revdepcheck::cloud_details(, "HTLR") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘simu.Rmd’ ... [1] "median"

post.t <- as.matrix(fit.t2, k = 2)

mcmc_intervals(post.t, pars = c("Intercept", "V1", + "V2", "V3", "V1000"))

When sourcing ‘simu.R’: Error: argument is of length zero Execution halted

‘simu.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘simu.Rmd’ using rmarkdown

checking C++ specification ... NOTE Specified C++11: please drop specification unless essential
checking installed package size ... NOTE installed size is 8.8Mb sub-directories of 1Mb or more: data 2.0Mb doc 1.1Mb libs 5.4Mb

HVT

Version: 24.5.2
GitHub: https://github.com/Mu-Sigma/HVT
Source code: https://github.com/cran/HVT
Date/Publication: 2024-05-15 08:50:21 UTC
Number of recursive dependencies: 200

Run revdepcheck::cloud_details(, "HVT") for more info

checking examples ... ERROR ``` Running examples in ‘HVT-Ex.R’ failed The error most likely occurred in:

Name: getTransitionProbability

Title: Creating Transition Probabilities list

Aliases: getTransitionProbability

Keywords: Transition_or_Prediction

** Examples

... Ignoring unknown parameters: check_overlap Scale for x is already present. Adding another scale for x, which will replace the existing scale. Scale for y is already present. Adding another scale for y, which will replace the existing scale. Warning in geom_polygon(data = boundaryCoords2, aes(x = bp.x, y = bp.y, : Ignoring unknown aesthetics: text Error in pm[[2]] : subscript out of bounds Calls: scoreHVT -> -> ggplotly.ggplot -> gg2list Execution halted ```

hypsoLoop

Version: 0.2.0
GitHub: NA
Source code: https://github.com/cran/hypsoLoop
Date/Publication: 2022-02-08 09:00:02 UTC
Number of recursive dependencies: 97

Run revdepcheck::cloud_details(, "hypsoLoop") for more info

checking whether package ‘hypsoLoop’ can be installed ... WARNING Found the following significant warnings: Warning: replacing previous import ‘ggplot2::set_theme’ by ‘sjPlot::set_theme’ when loading ‘hypsoLoop’ See ‘/tmp/workdir/hypsoLoop/new/hypsoLoop.Rcheck/00install.out’ for details.

ibdsim2

Version: 2.1.1
GitHub: https://github.com/magnusdv/ibdsim2
Source code: https://github.com/cran/ibdsim2
Date/Publication: 2024-09-08 07:40:02 UTC
Number of recursive dependencies: 80

Run revdepcheck::cloud_details(, "ibdsim2") for more info

checking examples ... ERROR ``` Running examples in ‘ibdsim2-Ex.R’ failed The error most likely occurred in:

Name: plotSegmentDistribution

Title: Scatter plots of IBD segment distributions

Aliases: plotSegmentDistribution

** Examples

... Skip recomb : - Total time used: 0.00288 secs

By default, the IBD segments of the "leaves" are computed and plotted

plotSegmentDistribution(simPat, simMat, type = "ibd1", ids = 4:5, + labels = c("HSpat", "HSmat")) Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```

ICtest

Version: 0.3-5
GitHub: NA
Source code: https://github.com/cran/ICtest
Date/Publication: 2022-05-18 07:30:29 UTC
Number of recursive dependencies: 97

Run revdepcheck::cloud_details(, "ICtest") for more info

checking examples ... ERROR ``` Running examples in ‘ICtest-Ex.R’ failed The error most likely occurred in:

Name: ggplot.ictest

Title: Scatterplot Matrix for a ictest Object using ggplot2

Aliases: ggplot.ictest

Keywords: hplot

** Examples

...

The aesthetics variables

mapvar <- data.frame(iris[, 5]) colnames(mapvar) <- "species"

TestCov <- PCAasymp(X, k = 2) ggplot(TestCov) ggplot(TestCov, aes(color = species), mapvar = mapvar, which = "k") Error in if (new_name %in% existing) { : argument is of length zero Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

checking installed package size ... NOTE installed size is 5.7Mb sub-directories of 1Mb or more: doc 2.5Mb libs 2.9Mb

idiogramFISH

Version: 2.0.13
GitHub: NA
Source code: https://github.com/cran/idiogramFISH
Date/Publication: 2023-08-22 16:50:02 UTC
Number of recursive dependencies: 164

Run revdepcheck::cloud_details(, "idiogramFISH") for more info

checking installed package size ... NOTE installed size is 5.1Mb sub-directories of 1Mb or more: R 1.5Mb doc 2.0Mb

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘index.Rmd’ ... > if (requireNamespace("RCurl", quietly = TRUE)) {
- v <- sub("Version: ", "", readLines("../DESCRIPTION")[3])
- pkg <- "idiogramFISH"
- l .... [TRUNCATED] Warning in file(con, "r") : cannot open file '../DESCRIPTION': No such file or directory
When sourcing ‘index.R’: Error: cannot open the connection Execution halted

‘AVignette.Rmd’ using ‘UTF-8’... OK ‘index.Rmd’ using ‘UTF-8’... failed ```

IDMIR

Version: 0.1.0
GitHub: NA
Source code: https://github.com/cran/IDMIR
Date/Publication: 2023-11-09 15:30:02 UTC
Number of recursive dependencies: 112

Run revdepcheck::cloud_details(, "IDMIR") for more info

checking examples ... ERROR ``` Running examples in ‘IDMIR-Ex.R’ failed The error most likely occurred in:

Name: PlotSurvival

Title: PlotSurvival

Aliases: PlotSurvival

** Examples

Obtain the example data

... GEP<-GetData_Mirna("GEP") survival<-GetData_Mirna("survival") MiRNAs<-c("hsa-miR-21-5p","hsa-miR-26a-5p","hsa-miR-369-5p","hsa-miR-1238-3p","hsa-miR-10b-5p")

Run the function

SingleMiRNA_CRData<-SingleMiRNA_CRModel(GEP, + "hsa-miR-21-5p",survival,cutoff.point=NULL) PlotSurvival(SingleMiRNA_CRData) Error in if (new_name %in% existing) { : argument is of length zero Calls: PlotSurvival ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘IDMIR.Rmd’ ... > survival <- GetData_Mirna("survival")

SingleMiRNA_CRData <- SingleMiRNA_CRModel(GEP, "hsa-miR-21-5p", + cutoff.point = NULL, survival)

PlotSurvival(SingleMiRNA_CRData)

When sourcing ‘IDMIR.R’: Error: argument is of length zero Execution halted

‘IDMIR.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘IDMIR.Rmd’ using rmarkdown

Quitting from lines 120-130 [unnamed-chunk-7] (IDMIR.Rmd) Error: processing vignette 'IDMIR.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘IDMIR.Rmd’

SUMMARY: processing the following file failed: ‘IDMIR.Rmd’

Error: Vignette re-building failed. Execution halted ```

idopNetwork

Version: 0.1.2
GitHub: https://github.com/cxzdsa2332/idopNetwork
Source code: https://github.com/cran/idopNetwork
Date/Publication: 2023-04-18 06:50:02 UTC
Number of recursive dependencies: 77

Run revdepcheck::cloud_details(, "idopNetwork") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘idopNetwork_vignette.Rmd’ ...

qdODE_plot_base(ode.test)

ode.module = test_result$d1_module

qdODE_plot_all(ode.module)

When sourcing ‘idopNetwork_vignette.R’: Error: object is not a unit Execution halted

‘idopNetwork_vignette.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘idopNetwork_vignette.Rmd’ using rmarkdown

ihclust

Version: 0.1.0
GitHub: NA
Source code: https://github.com/cran/ihclust
Date/Publication: 2022-04-27 07:20:02 UTC
Number of recursive dependencies: 114

Run revdepcheck::cloud_details(, "ihclust") for more info

checking examples ... ERROR ``` Running examples in ‘ihclust-Ex.R’ failed The error most likely occurred in:

Name: ihclust

Title: Iterative Hierarchical Clustering (IHC)

Aliases: ihclust

** Examples

This is an example not using the permutation approach

... 12. │ └─ggplot2:::+.gg(p, do.call(geom_line, option)) 13. │ └─ggplot2:::add_ggplot(e1, e2, e2name) 14. │ ├─ggplot2::ggplot_add(object, p, objectname) 15. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 16. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 17. └─base::.handleSimpleError(...) 18. └─purrr (local) h(simpleError(msg, call)) 19. └─cli::cli_abort(...) 20. └─rlang::abort(...) Execution halted ```

immunarch

Version: 0.9.1
GitHub: https://github.com/immunomind/immunarch
Source code: https://github.com/cran/immunarch
Date/Publication: 2024-03-18 19:10:06 UTC
Number of recursive dependencies: 198

Run revdepcheck::cloud_details(, "immunarch") for more info

checking examples ... ERROR ``` Running examples in ‘immunarch-Ex.R’ failed The error most likely occurred in:

Name: geneUsageAnalysis

Title: Post-analysis of V-gene and J-gene statistics: PCA, clustering,

etc.

Aliases: geneUsageAnalysis

** Examples

... 17. │ └─ggplot2:::+.gg(p, do.call(geom_line, option)) 18. │ └─ggplot2:::add_ggplot(e1, e2, e2name) 19. │ ├─ggplot2::ggplot_add(object, p, objectname) 20. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 21. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 22. └─base::.handleSimpleError(...) 23. └─purrr (local) h(simpleError(msg, call)) 24. └─cli::cli_abort(...) 25. └─rlang::abort(...) Execution halted ```

checking installed package size ... NOTE installed size is 10.6Mb sub-directories of 1Mb or more: R 1.5Mb data 5.5Mb doc 1.6Mb

incidental

Version: 0.1
GitHub: NA
Source code: https://github.com/cran/incidental
Date/Publication: 2020-09-16 09:50:03 UTC
Number of recursive dependencies: 67

Run revdepcheck::cloud_details(, "incidental") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘incidental-tutorial.Rmd’ ...

data_subset = do.call("rbind", model_df_list)

ggplot(data_subset, aes(x = Time, y = Reported)) + + geom_point(color = "coral2", shape = 3) + geom_line(aes(x = Time, + y = Ihat), color .... [TRUNCATED]

When sourcing ‘incidental-tutorial.R’: Error: x must be a vector, not a object. Execution halted

‘incidental-tutorial.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘incidental-tutorial.Rmd’ using rmarkdown

infer

Version: 1.0.7
GitHub: https://github.com/tidymodels/infer
Source code: https://github.com/cran/infer
Date/Publication: 2024-03-25 21:50:02 UTC
Number of recursive dependencies: 127

Run revdepcheck::cloud_details(, "infer") for more info

checking examples ... ERROR ``` Running examples in ‘infer-Ex.R’ failed The error most likely occurred in:

Name: shade_confidence_interval

Title: Add information about confidence interval

Aliases: shade_confidence_interval shade_ci

** Examples

find the point estimate---mean number of hours worked per week

... + type = "se")

and plot it!

boot_dist %>% + visualize() + + shade_confidence_interval(ci) Error in if (new_name %in% existing) { : argument is of length zero Calls: %>% ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ 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/tests.html > # * https://testthat.r-lib.org/reference/test_package.html#special-files ...
1. │ └─ggplot2:::add_ggplot(e1, e2, e2name)
2. │ ├─ggplot2::ggplot_add(object, p, objectname)
3. │ └─ggplot2:::ggplot_add.list(object, p, objectname)
4. │ ├─ggplot2::ggplot_add(o, plot, object_name)
5. │ └─ggplot2:::ggplot_add.Layer(o, plot, object_name)
6. │ └─ggplot2:::new_layer_names(object, names(plot$layers))
7. └─base::.handleSimpleError(...)
8. └─testthat (local) h(simpleError(msg, call))
9. └─rlang::abort(...) Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘anova.Rmd’ ...
- generate(reps = 1000, type = "permute") %>% calculate( .... [TRUNCATED] Dropping unused factor levels DK from the supplied explanatory variable 'partyid'.
null_dist %>% visualize() + shade_p_value(observed_f_statistic, + direction = "greater")

... When sourcing ‘t_test.R’: Error: argument is of length zero Execution halted

‘anova.Rmd’ using ‘UTF-8’... failed ‘chi_squared.Rmd’ using ‘UTF-8’... failed ‘infer.Rmd’ using ‘UTF-8’... failed ‘observed_stat_examples.Rmd’ using ‘UTF-8’... failed ‘paired.Rmd’ using ‘UTF-8’... failed ‘t_test.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘anova.Rmd’ using rmarkdown

injurytools

Version: 1.0.3
GitHub: https://github.com/lzumeta/injurytools
Source code: https://github.com/cran/injurytools
Date/Publication: 2023-11-14 17:20:05 UTC
Number of recursive dependencies: 155

Run revdepcheck::cloud_details(, "injurytools") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘model-injury-data-ii.Rmd’ ... n events median 0.95LCL 0.95UCL seasonb=2017/2018 23 16 265 152 NA seasonb=2018/2019 19 17 106 84 165

ggsurvplot(fit, data = injd_sub, palette = c("#E7B800", + "#2E9FDF")) + xlab("Time [calendar days]") + ylab(expression("Survival probability ( ..." ... [TRUNCATED]

When sourcing ‘model-injury-data-ii.R’: Error: argument is of length zero Execution halted

‘estimate-epi-measures.Rmd’ using ‘UTF-8’... OK ‘model-injury-data-i.Rmd’ using ‘UTF-8’... OK ‘model-injury-data-ii.Rmd’ using ‘UTF-8’... failed ‘prepare-injury-data.Rmd’ using ‘UTF-8’... OK ‘visualize-injury-data.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘estimate-epi-measures.Rmd’ using rmarkdown --- finished re-building ‘estimate-epi-measures.Rmd’

--- re-building ‘model-injury-data-i.Rmd’ using rmarkdown ```

inlabru

Version: 2.11.1
GitHub: https://github.com/inlabru-org/inlabru
Source code: https://github.com/cran/inlabru
Date/Publication: 2024-07-01 23:30:02 UTC
Number of recursive dependencies: 141

Run revdepcheck::cloud_details(, "inlabru") for more info

checking examples ... ERROR ``` Running examples in ‘inlabru-Ex.R’ failed The error most likely occurred in:

Name: seals

Title: Seal pups

Aliases: seals seals_sp

Keywords: datasets

** Examples

if (require(ggplot2, quietly = TRUE)) { + ggplot() + + geom_fm(data = seals_sp$mesh) + + gg(seals_sp$points) + } Error in if (new_name %in% existing) { : argument is of length zero Calls: +.gg ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > if (require(testthat, quietly = TRUE)) {
- test_check("inlabru")
- } Loading required package: inlabru Loading required package: fmesher Starting 2 test processes [ FAIL 2 | WARN 0 | SKIP 49 | PASS 144 ] ...
  1. │ └─INLA:::expand.inla.stack.responses(responses)
- │ └─base::lapply(...)
- │ └─INLA (local) FUN(X[[i]], ...)
- │ └─dplyr::bind_rows(...)
- │ └─vctrs::vec_rbind(!!!dots, .names_to = .id, .error_call = current_env())
- └─rlang::abort(message = message)
[ FAIL 2 | WARN 0 | SKIP 49 | PASS 144 ] Error: Test failures Execution halted ```
checking package dependencies ... NOTE Package which this enhances but not available for checking: ‘stars’

insurancerating

Version: 0.7.4
GitHub: https://github.com/mharinga/insurancerating
Source code: https://github.com/cran/insurancerating
Date/Publication: 2024-05-20 11:30:03 UTC
Number of recursive dependencies: 133

Run revdepcheck::cloud_details(, "insurancerating") for more info

checking examples ... ERROR ``` Running examples in ‘insurancerating-Ex.R’ failed The error most likely occurred in:

Name: autoplot.univariate

Title: Automatically create a ggplot for objects obtained from

univariate()

Aliases: autoplot.univariate

** Examples

... xzip <- univariate(MTPL, x = bm, severity = amount, nclaims = nclaims, + exposure = exposure, by = zip) autoplot(xzip, show_plots = 1:2) Warning: Removed 16 rows containing missing values or values outside the scale range (geom_point()). Warning: Removed 5 rows containing missing values or values outside the scale range (geom_line()). Error in identicalUnits(x) : object is not a unit Calls: ... assemble_guides -> guides_build -> unit.c -> identicalUnits Execution halted ```

inTextSummaryTable

Version: 3.3.3
GitHub: https://github.com/openanalytics/inTextSummaryTable
Source code: https://github.com/cran/inTextSummaryTable
Date/Publication: 2024-06-12 18:30:02 UTC
Number of recursive dependencies: 113

Run revdepcheck::cloud_details(, "inTextSummaryTable") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(inTextSummaryTable) > > test_check("inTextSummaryTable") [ FAIL 62 | WARN 0 | SKIP 0 | PASS 878 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ... 6. └─inTextSummaryTable::subjectProfileSummaryPlot(...) 7. └─ggplot2:::+.gg(gg, do.call(geom_line, argsGeomLine)) 8. └─ggplot2:::add_ggplot(e1, e2, e2name) 9. ├─ggplot2::ggplot_add(object, p, objectname) 10. └─ggplot2:::ggplot_add.Layer(object, p, objectname) 11. └─ggplot2:::new_layer_names(object, names(plot$layers))

[ FAIL 62 | WARN 0 | SKIP 0 | PASS 878 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘inTextSummaryTable-aesthetics.Rmd’ ...

summaryTable <- data.frame(visit = c(1, 2, 1, 2), + TRT = c("A", "A", "B", "B"), statMean = rnorm(4))

subjectProfileSummaryPlot(data = summaryTable, xVar = "visit", + colorVar = "TRT")

... Error: argument is of length zero Execution halted

‘inTextSummaryTable-advanced.Rmd’ using ‘UTF-8’... OK ‘inTextSummaryTable-aesthetics.Rmd’ using ‘UTF-8’... failed ‘inTextSummaryTable-createTables.Rmd’ using ‘UTF-8’... OK ‘inTextSummaryTable-exportTables.Rmd’ using ‘UTF-8’... OK ‘inTextSummaryTable-introduction.Rmd’ using ‘UTF-8’... OK ‘inTextSummaryTable-standardTables.Rmd’ using ‘UTF-8’... OK ‘inTextSummaryTable-visualization.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘inTextSummaryTable-advanced.Rmd’ using rmarkdown --- finished re-building ‘inTextSummaryTable-advanced.Rmd’

--- re-building ‘inTextSummaryTable-aesthetics.Rmd’ using rmarkdown

Quitting from lines 211-224 [aesthetics-defaultsVisualization] (inTextSummaryTable-aesthetics.Rmd) Error: processing vignette 'inTextSummaryTable-aesthetics.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘inTextSummaryTable-aesthetics.Rmd’ ... Error: processing vignette 'inTextSummaryTable-visualization.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘inTextSummaryTable-visualization.Rmd’

SUMMARY: processing the following files failed: ‘inTextSummaryTable-aesthetics.Rmd’ ‘inTextSummaryTable-visualization.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking installed package size ... NOTE installed size is 10.3Mb sub-directories of 1Mb or more: doc 9.7Mb

inventorize

Version: 1.1.1
GitHub: NA
Source code: https://github.com/cran/inventorize
Date/Publication: 2022-05-31 22:20:09 UTC
Number of recursive dependencies: 71

Run revdepcheck::cloud_details(, "inventorize") for more info

checking whether package ‘inventorize’ can be installed ... ERROR Installation failed. See ‘/tmp/workdir/inventorize/new/inventorize.Rcheck/00install.out’ for details.

* installing *source* package ‘inventorize’ ...
** package ‘inventorize’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** byte-compile and prepare package for lazy loading
Error in pm[[2]] : subscript out of bounds
Error: unable to load R code in package ‘inventorize’
Execution halted
ERROR: lazy loading failed for package ‘inventorize’
* removing ‘/tmp/workdir/inventorize/new/inventorize.Rcheck/inventorize’

* installing *source* package ‘inventorize’ ...
** package ‘inventorize’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** byte-compile and prepare package for lazy loading
Warning in qgamma(service_level, alpha, beta) : NaNs produced
** help
*** installing help indices
** building package indices
** 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 (inventorize)

IPV

Version: 1.0.0
GitHub: https://github.com/NilsPetras/IPV
Source code: https://github.com/cran/IPV
Date/Publication: 2022-09-30 15:00:02 UTC
Number of recursive dependencies: 82

Run revdepcheck::cloud_details(, "IPV") for more info

checking examples ... ERROR ``` Running examples in ‘IPV-Ex.R’ failed The error most likely occurred in:

Name: nested_chart

Title: Nested Chart

Aliases: nested_chart

** Examples

as simple as that

... 6. └─ggplot2:::ggplot_add.Layer(object, p, objectname) 7. └─ggplot2:::new_layer_names(object, names(plot$layers)) 8. └─vctrs::vec_as_names(names, repair = "check_unique") 9. └─vctrs (local) <fn>() 10. └─vctrs:::validate_unique(names = names, arg = arg, call = call) 11. └─vctrs:::stop_names_cannot_be_empty(names, call = call) 12. └─vctrs:::stop_names(...) 13. └─vctrs:::stop_vctrs(...) 14. └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call) Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘ipv-vignette.Rmd’ ... Facet circle radius set to 0.211 based on the data. cor_spacing set to 0.193 based on the data. Relative scaling set to 3.78 based on the data. Axis tick set to 0.1 based on the data. dist_construct_label set to 0.5 based on the data.

When sourcing ‘ipv-vignette.R’: Error: Names can't be empty. ✖ Empty name found at location 4. Execution halted

‘ipv-vignette.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘ipv-vignette.Rmd’ using rmarkdown

checking installed package size ... NOTE installed size is 8.0Mb sub-directories of 1Mb or more: data 7.0Mb

IRon

Version: 0.1.4
GitHub: https://github.com/nunompmoniz/IRon
Source code: https://github.com/cran/IRon
Date/Publication: 2023-01-20 07:20:06 UTC
Number of recursive dependencies: 81

Run revdepcheck::cloud_details(, "IRon") for more info

checking examples ... ERROR ``` Running examples in ‘IRon-Ex.R’ failed The error most likely occurred in:

Name: sera

Title: Squared Error-Relevance Area (SERA)

Aliases: sera

** Examples

library(IRon) ... 16. │ └─self$stat$setup_params(data, self$stat_params) 17. │ └─ggplot2 (local) setup_params(...) 18. │ └─base::match.fun(method) 19. │ └─base::get(as.character(FUN), mode = "function", envir = envir) 20. └─base::.handleSimpleError(...) 21. └─rlang (local) h(simpleError(msg, call)) 22. └─handlers[1L] 23. └─cli::cli_abort(...) 24. └─rlang::abort(...) Execution halted ```

checking installed package size ... NOTE installed size is 6.7Mb sub-directories of 1Mb or more: data 6.5Mb

irt

Version: 0.2.9
GitHub: https://github.com/egonulates/irt
Source code: https://github.com/cran/irt
Date/Publication: 2024-02-20 20:40:02 UTC
Number of recursive dependencies: 52

Run revdepcheck::cloud_details(, "irt") for more info

checking examples ... ERROR ``` Running examples in ‘irt-Ex.R’ failed The error most likely occurred in:

Name: plot_distractor_icc

Title: Plot Empirical Item or Test characteristic curve

Aliases: plot_distractor_icc

** Examples

n_item <- 10 # sample(8:12, 1) ... raw_resp <- matrix(sample(LETTERS[1:4], n_item * n_theta, replace = TRUE), + nrow = n_theta, ncol = n_item, + dimnames = list(paste0("Examinee-", 1:n_theta), + paste0("Item_", 1:n_item))) key <- sample(LETTERS[1:4], n_item, replace = TRUE) plot_distractor_icc(raw_resp, 3, key) Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: plot_distractor_icc ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```

checking installed package size ... NOTE installed size is 20.3Mb sub-directories of 1Mb or more: R 1.5Mb libs 18.0Mb

isoorbi

Version: 1.3.1
GitHub: https://github.com/isoverse/isoorbi
Source code: https://github.com/cran/isoorbi
Date/Publication: 2024-08-27 05:10:03 UTC
Number of recursive dependencies: 123

Run revdepcheck::cloud_details(, "isoorbi") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘dual_inlet.Rmd’ ... |20230518_05_USGS32_vs_USGS34 | 16| 7|reference |changeover | NA| 10695| 11020| 65.019| 66.994| |20230518_05_USGS32_vs_USGS34 | 17| 7|reference |data | NA| 11025| 12335| 67.025| 74.985|

orbi_plot_raw_data(df_w_blocks, isotopocules = "15N", + y = ions.incremental)

When sourcing ‘dual_inlet.R’: ...

When sourcing ‘shot_noise.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘dual_inlet.Rmd’ using ‘UTF-8’... failed ‘flow_injection.Rmd’ using ‘UTF-8’... OK ‘isoxl_demo.Rmd’ using ‘UTF-8’... OK ‘quick_start.Rmd’ using ‘UTF-8’... OK ‘shot_noise.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘dual_inlet.Rmd’ using rmarkdown

checking installed package size ... NOTE installed size is 6.2Mb sub-directories of 1Mb or more: doc 2.0Mb extdata 3.3Mb

ivDiag

Version: 1.0.6
GitHub: NA
Source code: https://github.com/cran/ivDiag
Date/Publication: 2023-09-17 06:00:02 UTC
Number of recursive dependencies: 90

Run revdepcheck::cloud_details(, "ivDiag") for more info

checking examples ... ERROR ``` Running examples in ‘ivDiag-Ex.R’ failed The error most likely occurred in:

Name: ltz

Title: Local-to-Zero Test

Aliases: ltz

** Examples

data(ivDiag) controls <- c('altitudine', 'escursione', 'costal', 'nearsea', 'population', + 'pop2', 'gini_land', 'gini_income') ltz_out <- ltz(data = gsz, Y = "totassoc_p", D = "libero_comune_allnord", + Z = "bishopcity", controls = controls, weights = "population", + prior = c(0.178, 0.137)) plot_ltz(ltz_out) Error in if (new_name %in% existing) { : argument is of length zero Calls: plot_ltz ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

ivreg

Version: 0.6-3
GitHub: https://github.com/zeileis/ivreg
Source code: https://github.com/cran/ivreg
Date/Publication: 2024-04-20 15:22:35 UTC
Number of recursive dependencies: 127

Run revdepcheck::cloud_details(, "ivreg") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘ivreg.Rmd’ ... | F | 204.932 | | +----------------------+-----------+---------+ | RMSE | 0.37 | 0.40 | +----------------------+-----------+---------+

modelplot(m_list, coef_omit = "Intercept|experience")

When sourcing ‘ivreg.R’: Error: argument is of length zero Execution halted

‘Diagnostics-for-2SLS-Regression.Rmd’ using ‘UTF-8’... OK ‘ivreg.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘Diagnostics-for-2SLS-Regression.Rmd’ using rmarkdown

jarbes

Version: 2.2.1
GitHub: NA
Source code: https://github.com/cran/jarbes
Date/Publication: 2024-06-07 09:20:02 UTC
Number of recursive dependencies: 111

Run revdepcheck::cloud_details(, "jarbes") for more info

checking running R code from vignettes ... ERROR `` Errors in running code in vignettes: when running code in ‘hmr.Rmd’ ... Warning: Contour data has duplicated x, y coordinates. ℹ 15940 duplicated rows have been dropped. Warning: Removed 161 rows containing non-finite outside the scale range (stat_contour()). Warning: Removed 92 rows containing missing values or values outside the scale range (geom_point()`).

When sourcing ‘hmr.R’: Error: argument is of length zero Execution halted

‘bmeta.Rmd’ using ‘UTF-8’... OK ‘hmr.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘bmeta.Rmd’ using rmarkdown

karel

Version: 0.1.1
GitHub: https://github.com/mpru/karel
Source code: https://github.com/cran/karel
Date/Publication: 2022-03-26 21:50:02 UTC
Number of recursive dependencies: 90

Run revdepcheck::cloud_details(, "karel") for more info

checking examples ... ERROR ``` Running examples in ‘karel-Ex.R’ failed The error most likely occurred in:

Name: acciones

Title: Acciones que Karel puede realizar

Aliases: acciones avanzar girar_izquierda poner_coso juntar_coso

girar_derecha darse_vuelta

** Examples

... 1. └─karel::ejecutar_acciones() 2. ├─base::suppressWarnings(...) 3. │ └─base::withCallingHandlers(...) 4. ├─gganimate::animate(...) 5. └─gganimate:::animate.gganim(...) 6. └─args$renderer(frames_vars$frame_source, args$fps) 7. └─gganimate:::png_dim(frames[1]) 8. └─cli::cli_abort("Provided file ({file}) does not exist") 9. └─rlang::abort(...) Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(karel) > > test_check("karel") [ FAIL 2 | WARN 2 | SKIP 0 | PASS 78 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ... 5. ├─gganimate::animate(...) 6. └─gganimate:::animate.gganim(...) 7. └─args$renderer(frames_vars$frame_source, args$fps) 8. └─gganimate:::png_dim(frames[1]) 9. └─cli::cli_abort("Provided file ({file}) does not exist") 10. └─rlang::abort(...)

[ FAIL 2 | WARN 2 | SKIP 0 | PASS 78 ] Error: Test failures Execution halted ```

checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘gifski’ All declared Imports should be used.

kDGLM

Version: 1.2.0
GitHub: https://github.com/silvaneojunior/kDGLM
Source code: https://github.com/cran/kDGLM
Date/Publication: 2024-05-25 09:50:03 UTC
Number of recursive dependencies: 136

Run revdepcheck::cloud_details(, "kDGLM") for more info

checking examples ... ERROR ``` Running examples in ‘kDGLM-Ex.R’ failed The error most likely occurred in:

Name: forecast.fitted_dlm

Title: Auxiliary function for forecasting

Aliases: forecast.fitted_dlm

** Examples

... forecast(fitted.data, 24, + chickenPox = list(Total = rep(175, 24)), # Optional + Vaccine.1.Covariate = rep(TRUE, 24), + Vaccine.2.Covariate = rep(TRUE, 24) + ) Scale for y is already present. Adding another scale for y, which will replace the existing scale. Error in pm[[2]] : subscript out of bounds Calls: forecast ... lapply -> -> ggplotly.ggplot -> gg2list Execution halted ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘fitting.Rmd’ ... > outcome <- Multinom(p = c("p.1", "p.2"), data = chickenPox[,
- c(2, 3, 5)])
fitted.model <- fit_model(structure * 2, chickenPox = outcome)

forecast(fitted.model, t = 24, plot = "base")

When sourcing ‘fitting.R’: Error: Error: Missing extra argument: Vaccine.1.Covariate Execution halted

‘example1.Rmd’ using ‘UTF-8’... OK ‘fitting.Rmd’ using ‘UTF-8’... failed ‘intro.Rmd’ using ‘UTF-8’... OK ‘outcomes.Rmd’ using ‘UTF-8’... OK ‘structures.Rmd’ using ‘UTF-8’... OK ```

KMEANS.KNN

Version: 0.1.0
GitHub: NA
Source code: https://github.com/cran/KMEANS.KNN
Date/Publication: 2024-05-17 09:20:12 UTC
Number of recursive dependencies: 157

Run revdepcheck::cloud_details(, "KMEANS.KNN") for more info

checking examples ... ERROR ``` Running examples in ‘KMEANS.KNN-Ex.R’ failed The error most likely occurred in:

Name: KMEANS_FUNCTION

Title: KMEANS_FUNCTION

Aliases: KMEANS_FUNCTION

** Examples

data(iris) ... 12. │ └─ggplot2:::+.gg(...) 13. │ └─ggplot2:::add_ggplot(e1, e2, e2name) 14. │ ├─ggplot2::ggplot_add(object, p, objectname) 15. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 16. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 17. └─base::.handleSimpleError(...) 18. └─purrr (local) h(simpleError(msg, call)) 19. └─cli::cli_abort(...) 20. └─rlang::abort(...) Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview > # * https://testthat.r-lib.org/articles/special-files.html ...
1. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname)
2. │ └─ggplot2:::new_layer_names(object, names(plot$layers))
3. └─base::.handleSimpleError(...)
4. └─purrr (local) h(simpleError(msg, call))
5. └─cli::cli_abort(...)
6. └─rlang::abort(...)
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 11 ] Error: Test failures Execution halted ```

latentcor

Version: 2.0.1
GitHub: NA
Source code: https://github.com/cran/latentcor
Date/Publication: 2022-09-05 20:50:02 UTC
Number of recursive dependencies: 143

Run revdepcheck::cloud_details(, "latentcor") for more info

checking examples ... ERROR ``` Running examples in ‘latentcor-Ex.R’ failed The error most likely occurred in:

Name: latentcor

Title: Estimate latent correlation for mixed types.

Aliases: latentcor

** Examples

Example 1 - truncated data type, same type for all variables

... R_approx = latentcor(X = X, types = "tru", method = "approx")$R proc.time() - start_time user system elapsed 0.027 0.000 0.027

Heatmap for latent correlation matrix.

Heatmap_R_approx = latentcor(X = X, types = "tru", method = "approx", + showplot = TRUE)$plotR Error in pm[[2]] : subscript out of bounds Calls: latentcor ... %>% -> layout -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ```

lcars

Version: 0.3.8
GitHub: https://github.com/leonawicz/lcars
Source code: https://github.com/cran/lcars
Date/Publication: 2023-09-10 04:10:02 UTC
Number of recursive dependencies: 88

Run revdepcheck::cloud_details(, "lcars") for more info

checking examples ... ERROR ``` Running examples in ‘lcars-Ex.R’ failed The error most likely occurred in:

Name: lcars_border

Title: LCARS border plot

Aliases: lcars_border

** Examples

lcars_border() ... Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : font family '0.5' not found in PostScript font database Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : font family '0.5' not found in PostScript font database Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : font family '0.5' not found in PostScript font database Error in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : invalid font type Calls: lcars_border ... drawDetails -> drawDetails.text -> grid.Call.graphics Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘lcars.Rmd’ ... Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : font family '0.5' not found in PostScript font database Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : font family '0.5' not found in PostScript font database Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : font family '0.5' not found in PostScript font database

When sourcing ‘lcars.R’: Error: invalid font type Execution halted

‘lcars.Rmd’ using ‘UTF-8’... failed ```

lemon

Version: 0.4.9
GitHub: https://github.com/stefanedwards/lemon
Source code: https://github.com/cran/lemon
Date/Publication: 2024-02-08 08:00:08 UTC
Number of recursive dependencies: 76

Run revdepcheck::cloud_details(, "lemon") for more info

checking examples ... ERROR ``` Running examples in ‘lemon-Ex.R’ failed The error most likely occurred in:

Name: annotate_y_axis

Title: Annotations on the axis

Aliases: annotate_y_axis annotate_x_axis

** Examples

library(ggplot2)

p <- ggplot(mtcars, aes(mpg, hp, colour=disp)) + geom_point()

l <- p + annotate_y_axis('mark at', y=200, tick=TRUE) l Error in identicalUnits(x) : object is not a unit Calls: ... polylineGrob -> is.unit -> unit.c -> identicalUnits Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(lemon) > > > if (TRUE) {
- test_check("lemon")
- } #else { ...
- ├─grid::unit.c(unit(1, "npc"), unit(1, "npc") - tick.length)
- └─grid:::Ops.unit(unit(1, "npc"), tick.length)
- └─grid:::as.unit(e2)
[ FAIL 1 | WARN 0 | SKIP 3 | PASS 138 ] Deleting unused snapshots: • facet/facet-rep-wrap-spacing.svg • facet_aux/facet-rep-wrap.svg Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘capped-axes.Rmd’ ... > p + coord_capped_cart(bottom = "right")

p + coord_capped_cart(bottom = "right", left = "none")

ggplot(dat1, aes(gp, y)) + geom_point(position = position_jitter(width = 0.2, + height = 0)) + coord_capped_cart(left = "none", bottom = bracke .... [TRUNCATED]

... When sourcing ‘legends.R’: Error: Could not find panel named panel-1-5. Execution halted

‘capped-axes.Rmd’ using ‘UTF-8’... failed ‘facet-rep-labels.Rmd’ using ‘UTF-8’... failed ‘geoms.Rmd’ using ‘UTF-8’... OK ‘gtable_show_lemonade.Rmd’ using ‘UTF-8’... OK ‘legends.Rmd’ using ‘UTF-8’... failed ‘lemon_print.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘capped-axes.Rmd’ using rmarkdown

lfproQC

Version: 0.2.0
GitHub: NA
Source code: https://github.com/cran/lfproQC
Date/Publication: 2024-09-06 13:00:02 UTC
Number of recursive dependencies: 143

Run revdepcheck::cloud_details(, "lfproQC") for more info

checking examples ... ERROR ``` Running examples in ‘lfproQC-Ex.R’ failed The error most likely occurred in:

Name: Boxplot_data

Title: Creating Boxplot for a dataset

Aliases: Boxplot_data

** Examples

Boxplot_data(yeast_data) Using Majority protein IDs as id variables Warning: Removed 269 rows containing non-finite outside the scale range (stat_boxplot()). Error in pm[[2]] : subscript out of bounds Calls: Boxplot_data -> -> ggplotly.ggplot -> gg2list Execution halted ```
checking running R code from vignettes ... ERROR `` Errors in running code in vignettes: when running code in ‘user_guide.Rmd’ ... > yeast$Best combinations` PCV_best_combination PEV_best_combination PMAD_best_combination 1 knn_rlr lls_vsn lls_rlr

Boxplot_data(yeast$knn_rlr_data) Using Majority protein IDs as id variables

When sourcing ‘user_guide.R’: Error: subscript out of bounds Execution halted

‘user_guide.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘user_guide.Rmd’ using rmarkdown

Quitting from lines 53-54 [unnamed-chunk-8] (user_guide.Rmd) Error: processing vignette 'user_guide.Rmd' failed with diagnostics: subscript out of bounds --- failed re-building ‘user_guide.Rmd’

SUMMARY: processing the following file failed: ‘user_guide.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking installed package size ... NOTE installed size is 6.1Mb sub-directories of 1Mb or more: doc 5.8Mb

lgpr

Version: 1.2.4
GitHub: https://github.com/jtimonen/lgpr
Source code: https://github.com/cran/lgpr
Date/Publication: 2023-09-24 06:50:02 UTC
Number of recursive dependencies: 101

Run revdepcheck::cloud_details(, "lgpr") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > # Short tests > # - focus on testing that everything runs > # - should take less than minute > library(testthat) > library(lgpr) Attached lgpr 1.2.4, using rstan 2.32.6. Type ?lgpr to get started. > ...
1. └─bayesplot::mcmc_areas(sf, regex_pars = regex_pars, ...)
2. └─ggplot2:::+.gg(...)
3. └─ggplot2:::add_ggplot(e1, e2, e2name)
4. ├─ggplot2::ggplot_add(object, p, objectname)
5. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
6. └─ggplot2:::new_layer_names(object, names(plot$layers))
[ FAIL 3 | WARN 1 | SKIP 0 | PASS 434 ] Error: Test failures Execution halted ```

checking installed package size ... NOTE installed size is 156.9Mb sub-directories of 1Mb or more: R 1.5Mb libs 155.0Mb
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

LightLogR

Version: 0.3.8
GitHub: https://github.com/tscnlab/LightLogR
Source code: https://github.com/cran/LightLogR
Date/Publication: 2024-07-04 17:00:02 UTC
Number of recursive dependencies: 157

Run revdepcheck::cloud_details(, "LightLogR") for more info

checking examples ... ERROR ``` Running examples in ‘LightLogR-Ex.R’ failed The error most likely occurred in:

Name: aggregate_Date

Title: Aggregate dates to a single day

Aliases: aggregate_Date

** Examples

library(ggplot2)

gg_days without aggregation

sample.data.environment %>% + gg_days() Error in if (new_name %in% existing) { : argument is of length zero Calls: %>% ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

LMoFit

Version: 0.1.7
GitHub: NA
Source code: https://github.com/cran/LMoFit
Date/Publication: 2024-05-14 07:33:23 UTC
Number of recursive dependencies: 62

Run revdepcheck::cloud_details(, "LMoFit") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘LMoFit.Rmd’ ...

lspace_BrIII

When sourcing ‘LMoFit.R’: Error: Problem while setting up geom aesthetics. ℹ Error occurred in the 1st layer. Caused by error in compute_geom_2(): ! unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), NULL, NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 1, NULL, NULL, NULL, c(0, 2.2, 0, 0), NULL, TRUE), NULL, Execution halted

‘LMoFit.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘LMoFit.Rmd’ using rmarkdown

Quitting from lines 236-237 [unnamed-chunk-15] (LMoFit.Rmd) Error: processing vignette 'LMoFit.Rmd' failed with diagnostics: Problem while setting up geom aesthetics. ℹ Error occurred in the 1st layer. Caused by error in compute_geom_2(): ! unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), NULL, NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, ... NULL, NULL, 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, "right", NULL, NULL, NULL, "center", NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, c(0, 0, 0, 0), list(), 11, list("white", NA, NULL, NULL, TRUE), list(), 5.5, NULL, NULL, list("grey92", NULL, NULL, NULL, FALSE, TRUE), list(), list(), NULL, NULL, NULL, NULL, FALSE, list(NULL, "white", NULL, NULL, TRUE), list(NULL, NULL, NULL, 1.2, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, NULL, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), list(NULL, NULL, NULL, 0.8, 1, 1, NULL, NULL, c(5.5, 0, 0, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, 1.2, 0.5, 0.5, NULL, NULL, NULL, NULL, TRUE), "topleft", NULL, c(5.5, 5.5, 5.5, 5.5), list("white", "black", 2, NULL, TRUE), NULL, NULL, "inherit", "inside", list(NULL, NULL, "grey10", 0.8, NULL, NULL, NULL, NULL, c(4.4, 4.4, 4.4, 4.4), NULL, TRUE), NULL, NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, NULL, -90, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, 90, NULL, NULL, NULL, TRUE), NULL, 2.75, 2.75, list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5))) --- failed re-building ‘LMoFit.Rmd’

SUMMARY: processing the following file failed: ‘LMoFit.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking installed package size ... NOTE installed size is 7.0Mb sub-directories of 1Mb or more: data 6.5Mb

lnmixsurv

Version: 3.1.6
GitHub: NA
Source code: https://github.com/cran/lnmixsurv
Date/Publication: 2024-09-03 15:20:08 UTC
Number of recursive dependencies: 196

Run revdepcheck::cloud_details(, "lnmixsurv") for more info

checking tests ... ERROR `` Running ‘testthat.R’ 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/tests.html > # * https://testthat.r-lib.org/reference/test_package.html#special-files ... <subscriptOutOfBoundsError/error/condition> Error inpm[[2]]`: subscript out of bounds Backtrace: ▆
1. └─testthat::expect_snapshot(plot(mod1)) at test-survival_ln_mixture_em-methods.R:25:3
2. └─rlang::cnd_signal(state$error)
[ FAIL 1 | WARN 0 | SKIP 7 | PASS 50 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘expectation_maximization.Rmd’ ...
- x, data = data, iter = 200, starting_seed = 20, number_em_search = 0)
gg <- plot_fit_on_data(model_em, data)$ggplot

plot(model_em) Loading required namespace: plotly

When sourcing ‘expectation_maximization.R’: Error: subscript out of bounds Execution halted

‘compare.Rmd’ using ‘UTF-8’... OK ‘expectation_maximization.Rmd’ using ‘UTF-8’... failed ‘intercept_only.Rmd’ using ‘UTF-8’... OK ‘lnmixsurv.Rmd’ using ‘UTF-8’... OK ‘parallel_computation.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘compare.Rmd’ using rmarkdown

warning: solve(): system is singular; attempting approx solution

warning: solve(): system is singular; attempting approx solution

warning: solve(): system is singular; attempting approx solution

warning: solve(): system is singular; attempting approx solution ...

warning: solve(): system is singular; attempting approx solution

warning: solve(): system is singular; attempting approx solution

warning: solve(): system is singular; attempting approx solution

warning: solve(): system is singular; attempting approx solution

warning: solve(): system is singular; attempting approx solution ```

checking installed package size ... NOTE installed size is 10.0Mb sub-directories of 1Mb or more: doc 4.0Mb libs 5.7Mb
checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘purrr’ ‘readr’ All declared Imports should be used.
checking Rd cross-references ... NOTE Package unavailable to check Rd xrefs: ‘rstanarm’
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

LocalControl

Version: 1.1.4
GitHub: https://github.com/OHDSI/LocalControl
Source code: https://github.com/cran/LocalControl
Date/Publication: 2024-09-04 22:30:18 UTC
Number of recursive dependencies: 41

Run revdepcheck::cloud_details(, "LocalControl") for more info

checking running R code from vignettes ... ERROR `` Errors in running code in vignettes: when running code in ‘LocalControl-jss-2020.Rnw’ ... Warning: A numericlegend.positionargument intheme()was deprecated in ggplot2 3.5.0. ℹ Please use thelegend.position.insideargument oftheme()` instead.

grid.arrange(plotz$rad_1, plotz$rad_11, ncol = 1)

When sourcing 'LocalControl-jss-2020.R': Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘LocalControl-jss-2020.Rnw’ using ‘UTF-8’... failed ```

checking installed package size ... NOTE installed size is 5.2Mb sub-directories of 1Mb or more: doc 2.0Mb libs 2.7Mb
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘LocalControl-jss-2020.Rnw’ using Sweave Loading required package: data.table Loading required package: colorspace Loading required package: RColorBrewer Loading required package: gridExtra Loading required package: ggplot2 Loading required package: rpart Loading required package: rpart.plot Loading required package: LocalControl ... Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8

--- failed re-building 'LocalControl-jss-2020.Rnw'

SUMMARY: processing the following file failed: 'LocalControl-jss-2020.Rnw'

Error: Vignette re-building failed. Execution halted ```

LocalCop

Version: 0.0.1
GitHub: https://github.com/mlysy/LocalCop
Source code: https://github.com/cran/LocalCop
Date/Publication: 2024-03-21 14:50:06 UTC
Number of recursive dependencies: 92

Run revdepcheck::cloud_details(, "LocalCop") for more info

checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘LocalCop-vignette.Rmd’ using rmarkdown

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘LocalCop-vignette.Rmd’ ... > tibble(x = x0, True = BiCopEta2Tau(family, eta = eta_fun(x0)),
- Fitted = BiCopEta2Tau(fitseq$eta, family = family)) %>% pivot_longer(True:Fitt .... [TRUNCATED] Warning: Removed 51 rows containing missing values or values outside the scale range (geom_line()). Warning: Removed 51 rows containing missing values or values outside the scale range (geom_point()).
When sourcing ‘LocalCop-vignette.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘LocalCop-vignette.Rmd’ using ‘UTF-8’... failed ```
checking installed package size ... NOTE installed size is 55.7Mb sub-directories of 1Mb or more: libs 55.3Mb

LongDat

Version: 1.1.2
GitHub: https://github.com/CCY-dev/LongDat
Source code: https://github.com/cran/LongDat
Date/Publication: 2023-07-17 05:40:02 UTC
Number of recursive dependencies: 135

Run revdepcheck::cloud_details(, "LongDat") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘LongDat_cont_tutorial.Rmd’ ... > test_plot <- cuneiform_plot(result_table = test_cont[[1]],
- title_size = 15) [1] "Finished plotting successfully!"
test_plot

... [1] "Finished plotting successfully!"

test_plot

When sourcing ‘LongDat_disc_tutorial.R’: Error: object is not coercible to a unit Execution halted

‘LongDat_cont_tutorial.Rmd’ using ‘UTF-8’... failed ‘LongDat_disc_tutorial.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘LongDat_cont_tutorial.Rmd’ using rmarkdown Warning in eng_r(options) : Failed to tidy R code in chunk 'unnamed-chunk-3'. Reason: Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.

Warning in eng_r(options) : Failed to tidy R code in chunk 'unnamed-chunk-4'. Reason: Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.

... Quitting from lines 181-182 [unnamed-chunk-11] (LongDat_disc_tutorial.Rmd) Error: processing vignette 'LongDat_disc_tutorial.Rmd' failed with diagnostics: object is not coercible to a unit --- failed re-building ‘LongDat_disc_tutorial.Rmd’

SUMMARY: processing the following files failed: ‘LongDat_cont_tutorial.Rmd’ ‘LongDat_disc_tutorial.Rmd’

Error: Vignette re-building failed. Execution halted ```

longreadvqs

Version: 0.1.3
GitHub: https://github.com/NakarinP/longreadvqs
Source code: https://github.com/cran/longreadvqs
Date/Publication: 2024-08-26 19:30:05 UTC
Number of recursive dependencies: 131

Run revdepcheck::cloud_details(, "longreadvqs") for more info

checking examples ... ERROR ``` Running examples in ‘longreadvqs-Ex.R’ failed The error most likely occurred in:

Name: vqscompare

Title: Comparing viral quasispecies profile and operational taxonomic

unit (OTU) classified by k-means clustering between samples

Aliases: vqscompare

** Examples

... 13. │ └─ggplot2:::+.gg(...) 14. │ └─ggplot2:::add_ggplot(e1, e2, e2name) 15. │ ├─ggplot2::ggplot_add(object, p, objectname) 16. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 17. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 18. └─base::.handleSimpleError(...) 19. └─purrr (local) h(simpleError(msg, call)) 20. └─cli::cli_abort(...) 21. └─rlang::abort(...) Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘longreadvqs-vignette.Rmd’ ...

comp <- vqscompare(samplelist = list(s1, s2, s3, s4_fix), + lab_name = "Sample", kmeans.n = 10)

When sourcing ‘longreadvqs-vignette.R’: Error: ℹ In index: 1. ℹ With name: Dim.2. Caused by error in if (new_name %in% existing) ...: ! argument is of length zero Execution halted

‘longreadvqs-vignette.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘longreadvqs-vignette.Rmd’ using rmarkdown

lpdensity

Version: 2.4
GitHub: NA
Source code: https://github.com/cran/lpdensity
Date/Publication: 2023-01-21 23:50:02 UTC
Number of recursive dependencies: 28

Run revdepcheck::cloud_details(, "lpdensity") for more info

checking examples ... ERROR ``` Running examples in ‘lpdensity-Ex.R’ failed The error most likely occurred in:

Name: lpdensity

Title: Local Polynomial Density Estimation and Inference

Aliases: lpdensity

** Examples

Generate a random sample

... 18 1.2878 0.6298 457 0.1749 0.0097 0.1222 , 0.2179 19 1.5768 0.6298 299 0.1221 0.0086 0.0863 , 0.1719 =============================================================================

Plot the estimates and confidence intervals

plot(est1, legendTitle="My Plot", legendGroups=c("X")) Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```

lspartition

Version: 0.4
GitHub: NA
Source code: https://github.com/cran/lspartition
Date/Publication: 2019-08-08 22:40:06 UTC
Number of recursive dependencies: 34

Run revdepcheck::cloud_details(, "lspartition") for more info

checking examples ... ERROR ``` Running examples in ‘lspartition-Ex.R’ failed The error most likely occurred in:

Name: lsprobust.plot

Title: Graphic Presentation of Results for 'lspartition' Package

Aliases: lsprobust.plot

** Examples

x <- runif(500) y <- sin(4*x)+rnorm(500) est <- lsprobust(y, x) lsprobust.plot(est) Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```

checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory

LSTbook

Version: 0.5.0
GitHub: https://github.com/dtkaplan/LSTbook
Source code: https://github.com/cran/LSTbook
Date/Publication: 2024-02-23 19:20:15 UTC
Number of recursive dependencies: 88

Run revdepcheck::cloud_details(, "LSTbook") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ 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/tests.html > # * https://testthat.r-lib.org/reference/test_package.html#special-files ...

[ FAIL 1 | WARN 1 | SKIP 4 | PASS 73 ] Deleting unused snapshots: • model_plot/four-facets.png • pointplot/1-var-plot.png • pointplot/bird-logistic-plot.png • pointplot/color-and-facet-na.png • pointplot/logistic-fun-plot.png Error: Test failures Execution halted ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘DAGs.Rmd’ using rmarkdown

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘DAGs.Rmd’ ... 3 -1.35 -11.9 4 0.429 0.171 5 0.622 5.85 6 2.35 16.5

Wrong_way <- datasim_make(x = rnorm(n, mean = 0, sd = 2))

...

model_plot(height_model)

When sourcing ‘modeling.R’: Error: argument is of length zero Execution halted

‘DAGs.Rmd’ using ‘UTF-8’... failed ‘LSTbook.Rmd’ using ‘UTF-8’... OK ‘modeling.Rmd’ using ‘UTF-8’... failed ```
checking loading without being on the library search path ... WARNING ``` Error: package or namespace load failed for ‘LSTbook’: .onLoad failed in loadNamespace() for 'LSTbook', details: call: loadNamespace(name) error: there is no package called ‘mosaicData’ Execution halted

It looks like this package has a loading problem when not on .libPaths: see the messages for details. ```
checking data for non-ASCII characters ... NOTE Note: found 20 marked UTF-8 strings

manydata

Version: 0.9.3
GitHub: https://github.com/globalgov/manydata
Source code: https://github.com/cran/manydata
Date/Publication: 2024-05-06 19:00:02 UTC
Number of recursive dependencies: 130

Run revdepcheck::cloud_details(, "manydata") for more info

checking tests ... ERROR `` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(manydata) manydata 0.9.3 Please see manydata.ch for more information. Type 'citation("manydata")' for citing this R package in publications. > > test_check("manydata") ... ── Failure ('test_compare.R:8:3'): plot for compare_categories returns the correct output format ── Names ofdb('data', 'layers', 'scales', 'guides', 'mapping', 'theme', 'coordinates', 'facet', 'plot_env', 'layout', 'labels') don't match 'data', 'layers', 'scales', 'guides', 'mapping', 'theme', 'coordinates', 'facet', 'plot_env', 'layout' ── Failure ('test_compare.R:74:3'): compare_missing() and plot_missing() returns the correct output format ──plhas length 11, not length 10. ── Failure ('test_compare.R:76:3'): compare_missing() and plot_missing() returns the correct output format ── Names ofpl` ('data', 'layers', 'scales', 'guides', 'mapping', 'theme', 'coordinates', 'facet', 'plot_env', 'layout', 'labels') don't match 'data', 'layers', 'scales', 'guides', 'mapping', 'theme', 'coordinates', 'facet', 'plot_env', 'layout'

[ FAIL 4 | WARN 0 | SKIP 3 | PASS 121 ] Error: Test failures Execution halted ```

checking data for non-ASCII characters ... NOTE Note: found 3 marked UTF-8 strings

manymome

Version: 0.2.2
GitHub: https://github.com/sfcheung/manymome
Source code: https://github.com/cran/manymome
Date/Publication: 2024-06-05 23:30:03 UTC
Number of recursive dependencies: 158

Run revdepcheck::cloud_details(, "manymome") for more info

checking examples ... ERROR ``` Running examples in ‘manymome-Ex.R’ failed The error most likely occurred in:

Name: plot_effect_vs_w

Title: Plot an Effect Against a Moderator

Aliases: plot_effect_vs_w

** Examples

... + y = "y", + m = "m", + fit = fit_lm, + sd_from_mean = seq(-2, 2, length.out = 10), + boot_ci = TRUE, + boot_out = boot_out_lm) p <- plot_effect_vs_w(out_lm) Error in if (new_name %in% existing) { : argument is of length zero Calls: plot_effect_vs_w ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

mapbayr

Version: 0.10.0
GitHub: https://github.com/FelicienLL/mapbayr
Source code: https://github.com/cran/mapbayr
Date/Publication: 2023-07-17 08:20:02 UTC
Number of recursive dependencies: 68

Run revdepcheck::cloud_details(, "mapbayr") for more info

checking examples ... ERROR ``` Running examples in ‘mapbayr-Ex.R’ failed The error most likely occurred in:

Name: mapbayr_plot

Title: Make mapbayr plot

Aliases: mapbayr_plot

** Examples

aug <- data.frame( ... obs <- data.frame( + ID = 1, time = c(6, 20), evid = 0, + mdv = c(0,1), DV = c(0.5, 5), cmt = 2 + )

mapbayr_plot(aug, obs) Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```

MBNMAdose

Version: 0.4.3
GitHub: NA
Source code: https://github.com/cran/MBNMAdose
Date/Publication: 2024-04-18 12:42:47 UTC
Number of recursive dependencies: 118

Run revdepcheck::cloud_details(, "MBNMAdose") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘outputs-4.Rmd’ ...

plot(trip.emax)

When sourcing ‘outputs-4.R’: Error: Problem while setting up geom aesthetics. ℹ Error occurred in the 1st layer. Caused by error in use_defaults(): ... Execution halted

‘consistencychecking-3.Rmd’ using ‘UTF-8’... OK ‘dataexploration-1.Rmd’ using ‘UTF-8’... OK ‘mbnmadose-overview.Rmd’ using ‘UTF-8’... OK ‘metaregression-6.Rmd’ using ‘UTF-8’... OK ‘nma_in_mbnmadose.Rmd’ using ‘UTF-8’... OK ‘outputs-4.Rmd’ using ‘UTF-8’... failed ‘predictions-5.Rmd’ using ‘UTF-8’... OK ‘runmbnmadose-2.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘consistencychecking-3.Rmd’ using rmarkdown

checking data for non-ASCII characters ... NOTE Note: found 6 marked Latin-1 strings

MBNMAtime

Version: 0.2.4
GitHub: NA
Source code: https://github.com/cran/MBNMAtime
Date/Publication: 2023-10-14 15:20:02 UTC
Number of recursive dependencies: 106

Run revdepcheck::cloud_details(, "MBNMAtime") for more info

checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘consistencychecking-3.Rmd’ using rmarkdown

Quitting from lines 141-146 [unnamed-chunk-8] (consistencychecking-3.Rmd) Error: processing vignette 'consistencychecking-3.Rmd' failed with diagnostics: unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 1, NULL, NULL, NULL, c(0, 2.2, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, c(0, 0, 0, 2.2), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0.5, NULL, NULL, NULL, c(0, 2.2, 0, 2.2), NULL, TRUE), list("grey20", NULL, NULL, NULL, FALSE, "grey20", TRUE), NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.5, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.75, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, list(), NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, list("transparent", NA, NULL, NULL, FALSE), NULL, 2, NULL, NULL, list("transparent", NA, NULL, NULL, FALSE), 1.2, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.2, NULL, list(NULL, NULL, NULL, 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, "right", NULL, NULL, NULL, "center", NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0, list(), 2, list(), list(NULL, "grey20", NULL, NULL, TRUE), NULL, NULL, NULL, list("grey92", NULL, NULL, NULL, FALSE, "grey92", TRUE), list("grey95", NULL, NULL, NULL, FALSE, "grey95", FALSE), list("grey95", 0.5, NULL, NULL, FALSE, "grey95", FALSE), NULL, NULL, NULL, NULL, FALSE, list("white", NA, NULL, NULL, FALSE), list(NULL, NULL, NULL, 1.2, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, NULL, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), list(NULL, NULL, NULL, 0.8, 1, 1, NULL, NULL, c(5.5, 0, 0, 0), NULL, TRUE), "panel", list( NULL, NULL, NULL, 1.2, 0.5, 0.5, NULL, NULL, NULL, NULL, TRUE), "topleft", NULL, NULL, list("lightsteelblue1", "black", NULL, NULL, FALSE), NULL, NULL, "on", "inside", list(NULL, NULL, "black", 0.8, NULL, NULL, NULL, NULL, c(4.4, 4.4, 4.4, 4.4), NULL, FALSE), NULL, NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, NULL, -90, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, 90, NULL, NULL, NULL, TRUE), NULL, 2.75, 2.75)) --- failed re-building ‘consistencychecking-3.Rmd’

--- re-building ‘dataexploration-1.Rmd’ using rmarkdown ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘consistencychecking-3.Rmd’ ... |-> direct | | 0.228| -0.213| 0.684| |-> indirect | | -0.515| -0.891| -0.137| | | | | | |

plot(nodesplit, plot.type = "forest")

When sourcing ‘consistencychecking-3.R’: ... ! unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, Execution halted

‘consistencychecking-3.Rmd’ using ‘UTF-8’... failed ‘dataexploration-1.Rmd’ using ‘UTF-8’... failed ‘mbnmatime-overview.Rmd’ using ‘UTF-8’... OK ‘outputs-4.Rmd’ using ‘UTF-8’... failed ‘predictions-5.Rmd’ using ‘UTF-8’... OK ‘runmbnmatime-2.Rmd’ using ‘UTF-8’... OK ```

mecoturn

Version: 0.3.0
GitHub: https://github.com/ChiLiubio/mecoturn
Source code: https://github.com/cran/mecoturn
Date/Publication: 2023-09-10 13:40:02 UTC
Number of recursive dependencies: 109

Run revdepcheck::cloud_details(, "mecoturn") for more info

checking examples ... ERROR ``` Running examples in ‘mecoturn-Ex.R’ failed The error most likely occurred in:

Name: betaturn

Title: Analyze the 'turnover' of microbial communities.

Aliases: betaturn

** Examples

... 13. │ └─ggplot2:::+.gg(...) 14. │ └─ggplot2:::add_ggplot(e1, e2, e2name) 15. │ ├─ggplot2::ggplot_add(object, p, objectname) 16. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 17. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 18. └─base::.handleSimpleError(...) 19. └─purrr (local) h(simpleError(msg, call)) 20. └─cli::cli_abort(...) 21. └─rlang::abort(...) Execution halted ```

MetaNet

Version: 0.1.2
GitHub: https://github.com/Asa12138/MetaNet
Source code: https://github.com/cran/MetaNet
Date/Publication: 2024-03-25 20:40:07 UTC
Number of recursive dependencies: 151

Run revdepcheck::cloud_details(, "MetaNet") for more info

checking examples ... ERROR ``` Running examples in ‘MetaNet-Ex.R’ failed The error most likely occurred in:

Name: as.ggig

Title: Transfer an igraph object to a ggig

Aliases: as.ggig

** Examples

as.ggig(co_net, coors = c_net_layout(co_net)) -> ggig plot(ggig) Warning: Removed 446 rows containing missing values or values outside the scale range (geom_text()). Error in grid.Call.graphics(C_segments, x$x0, x$y0, x$x1, x$y1, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.segments -> grid.Call.graphics Execution halted ```

metR

Version: 0.15.0
GitHub: https://github.com/eliocamp/metR
Source code: https://github.com/cran/metR
Date/Publication: 2024-02-09 00:40:02 UTC
Number of recursive dependencies: 121

Run revdepcheck::cloud_details(, "metR") for more info

checking examples ... ERROR ``` Running examples in ‘metR-Ex.R’ failed The error most likely occurred in:

Name: geom_contour_tanaka

Title: Illuminated contours

Aliases: geom_contour_tanaka GeomContourTanaka

Keywords: datasets

** Examples

... 19. │ ├─rlang::inject(self$draw_panel(data, panel_params, coord, !!!params)) 20. │ └─self$draw_panel(...) 21. │ └─metR (local) draw_panel(...) 22. │ └─metR:::stopf(...) 23. │ └─base::stop(e) 24. └─rlang (local) <fn>(<smplErrr>) 25. └─handlers[1L] 26. └─cli::cli_abort(...) 27. └─rlang::abort(...) Execution halted ```
checking tests ... ERROR Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(metR) > # library(vdiffr) > > on_cran <- !isTRUE(as.logical(Sys.getenv("NOT_CRAN", "false"))) > if (on_cran) data.table::setDTthreads(2) > ... • vis-streamline/streamline-ywrapped.svg • vis-text-contour/labels-text.svg • vis-text-contour/minsize.svg • vis-text-contour/placement-fraction.svg • vis-text-contour/placement-minmax-horizontal.svg • vis-text-contour/placement-minmax-vertical.svg • vis-text-contour/placement-n.svg • vis-text-contour/text-contour-norotate.svg Error: Test failures Execution halted
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Visualization-tools.Rmd’ ...

ggplot(temperature[lev == 300], aes(lon, lat, z = air.z)) + + geom_contour_fill() + geom_contour_tanaka() + scale_fill_divergent()

When sourcing ‘Visualization-tools.R’: Error: Problem while converting geom to grob. ℹ Error occurred in the 2nd layer. Caused by error: ! geom_path: If you are using dotted or dashed lines, colour, size and linetype must be constant over the line. Execution halted

‘Visualization-tools.Rmd’ using ‘UTF-8’... failed ‘Working-with-data.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘Visualization-tools.Rmd’ using knitr

Quitting from lines 241-245 [unnamed-chunk-16] (Visualization-tools.Rmd) Error: processing vignette 'Visualization-tools.Rmd' failed with diagnostics: Problem while converting geom to grob. ℹ Error occurred in the 2nd layer. Caused by error: ! geom_path: If you are using dotted or dashed lines, colour, size and linetype must be constant over the line. ... --- failed re-building ‘Visualization-tools.Rmd’

--- re-building ‘Working-with-data.Rmd’ using knitr --- finished re-building ‘Working-with-data.Rmd’

SUMMARY: processing the following file failed: ‘Visualization-tools.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking installed package size ... NOTE installed size is 6.6Mb sub-directories of 1Mb or more: R 1.5Mb data 2.0Mb doc 1.8Mb

metrica

Version: 2.1.0
GitHub: https://github.com/adriancorrendo/metrica
Source code: https://github.com/cran/metrica
Date/Publication: 2024-06-30 14:20:02 UTC
Number of recursive dependencies: 92

Run revdepcheck::cloud_details(, "metrica") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘regression_case.Rmd’ ...
- mutate(Year = seq(2001, 2020, by = 1))
wheat_time %>% ggplot2::ggplot(aes(x = Year)) + geom_point(aes(y = pred, + fill = "Predicted", shape = "Predicted")) + geom_point(aes(y = obs, .... [TRUNCATED] Warning: Using size aesthetic for lines was deprecated in ggplot2 3.4.0. ℹ Please use linewidth instead.

... Execution halted

‘Cheatsheet.Rmd’ using ‘UTF-8’... OK ‘JOSS_publication.Rmd’ using ‘UTF-8’... OK ‘Shinyapp.Rmd’ using ‘UTF-8’... OK ‘apsim_open.Rmd’ using ‘UTF-8’... OK ‘available_metrics_classification.Rmd’ using ‘UTF-8’... OK ‘available_metrics_regression.Rmd’ using ‘UTF-8’... OK ‘classification_case.Rmd’ using ‘UTF-8’... OK ‘regression_case.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘Cheatsheet.Rmd’ using rmarkdown --- finished re-building ‘Cheatsheet.Rmd’

--- re-building ‘JOSS_publication.Rmd’ using rmarkdown --- finished re-building ‘JOSS_publication.Rmd’

--- re-building ‘Shinyapp.Rmd’ using rmarkdown --- finished re-building ‘Shinyapp.Rmd’

... --- re-building ‘apsim_open.Rmd’ using rmarkdown --- finished re-building ‘apsim_open.Rmd’

--- re-building ‘available_metrics_classification.Rmd’ using rmarkdown --- finished re-building ‘available_metrics_classification.Rmd’

--- re-building ‘available_metrics_regression.Rmd’ using rmarkdown --- finished re-building ‘available_metrics_regression.Rmd’

--- re-building ‘classification_case.Rmd’ using rmarkdown ```

miceRanger

Version: 1.5.0
GitHub: https://github.com/FarrellDay/miceRanger
Source code: https://github.com/cran/miceRanger
Date/Publication: 2021-09-06 15:20:02 UTC
Number of recursive dependencies: 131

Run revdepcheck::cloud_details(, "miceRanger") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘usingMiceRanger.Rmd’ ... > plotList <- lapply(plotVars, function(x) {
- missIndx <- is.na(ampIris[, get(x)])
- impVsAmp <- data.table(originalData = iris[missIndx, x], .... [TRUNCATED]
When sourcing ‘usingMiceRanger.R’: Error: ℹ In index: 1. ℹ With name: imputedData. Caused by error in if (new_name %in% existing) ...: ! argument is of length zero Execution halted

‘diagnosticPlotting.Rmd’ using ‘UTF-8’... OK ‘miceAlgorithm.Rmd’ using ‘UTF-8’... OK ‘usingMiceRanger.Rmd’ using ‘UTF-8’... failed ```

microbial

Version: 0.0.21
GitHub: NA
Source code: https://github.com/cran/microbial
Date/Publication: 2024-05-15 18:20:02 UTC
Number of recursive dependencies: 179

Run revdepcheck::cloud_details(, "microbial") for more info

checking examples ... ERROR ``` Running examples in ‘microbial-Ex.R’ failed The error most likely occurred in:

Name: plotalpha

Title: plot alpha diversity

Aliases: plotalpha

** Examples

{ ... 12. │ └─ggplot2:::+.gg(...) 13. │ └─ggplot2:::add_ggplot(e1, e2, e2name) 14. │ ├─ggplot2::ggplot_add(object, p, objectname) 15. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 16. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 17. └─base::.handleSimpleError(...) 18. └─purrr (local) h(simpleError(msg, call)) 19. └─cli::cli_abort(...) 20. └─rlang::abort(...) Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘microbial.Rmd’ ... > plotbar(phy, level = "Phylum")

plotalpha(physeq, group = "group")

When sourcing ‘microbial.R’: Error: ℹ In index: 1. ℹ With name: val. Caused by error in if (new_name %in% existing) ...: ! argument is of length zero Execution halted

‘microbial.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘microbial.Rmd’ using knitr

MicrobiomeSurv

Version: 0.1.0
GitHub: https://github.com/N-T-Huyen/MicrobiomeSurv
Source code: https://github.com/cran/MicrobiomeSurv
Date/Publication: 2023-10-12 06:20:02 UTC
Number of recursive dependencies: 158

Run revdepcheck::cloud_details(, "MicrobiomeSurv") for more info

checking examples ... ERROR ``` Running examples in ‘MicrobiomeSurv-Ex.R’ failed The error most likely occurred in:

Name: EstimateHR

Title: Classification, Survival Estimation and Visualization

Aliases: EstimateHR

** Examples

Prepare data

... + Mean = TRUE)

Using the function

est_HR_fam_shan_w3 = EstimateHR(Risk.Scores = lasso_fam_shan_w3$Risk.Scores, + Data.Survival = lasso_fam_shan_w3$Data.Survival, + Prognostic = prog_fam_shan_w3, Plots = TRUE, + Mean = TRUE) Error in if (new_name %in% existing) { : argument is of length zero Calls: EstimateHR ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

migraph

Version: 1.4.2
GitHub: https://github.com/stocnet/migraph
Source code: https://github.com/cran/migraph
Date/Publication: 2024-09-04 12:00:02 UTC
Number of recursive dependencies: 99

Run revdepcheck::cloud_details(, "migraph") for more info

checking tests ... ERROR `` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(manynet) > library(migraph) > > test_check("migraph") Starting 2 test processes [ FAIL 2 | WARN 2 | SKIP 0 | PASS 46 ] ...expectedis a character vector ('Statistic') ── Failure ('test-model_tests.R:73:3'): qap plot works ───────────────────────── qapplot$labels$x (actual) not identical to "Statistic" (expected`).

actual is NULL expected is a character vector ('Statistic')

[ FAIL 2 | WARN 2 | SKIP 0 | PASS 46 ] Error: Test failures Execution halted ```

mikropml

Version: 1.6.1
GitHub: https://github.com/SchlossLab/mikropml
Source code: https://github.com/cran/mikropml
Date/Publication: 2023-08-21 15:10:05 UTC
Number of recursive dependencies: 130

Run revdepcheck::cloud_details(, "mikropml") for more info

checking tests ... ERROR `` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(mikropml) > test_check("mikropml") Fraction of data in the training set: 0.778 Groups in the training set: A C D Groups in the testing set: B Fraction of data in the training set: 0.778 ...names(expected)is absent ── Failure ('test-plot.R:140:3'): plot_mean_prc uses geom ribbon, line, and hline ── ... %>% unlist() (actual) not equal to c(...) (expected`).

names(actual) is a character vector ('geom_ribbon1', 'geom_ribbon2', 'geom_ribbon3', 'geom_ribbon4', 'geom_line1', ...) names(expected) is absent

[ FAIL 2 | WARN 19 | SKIP 12 | PASS 314 ] Error: Test failures Execution halted ```

MiMIR

Version: 1.5
GitHub: NA
Source code: https://github.com/cran/MiMIR
Date/Publication: 2024-02-01 08:50:02 UTC
Number of recursive dependencies: 191

Run revdepcheck::cloud_details(, "MiMIR") for more info

checking examples ... ERROR ``` Running examples in ‘MiMIR-Ex.R’ failed The error most likely occurred in:

Name: LOBOV_accuracies

Title: LOBOV_accuracies

Aliases: LOBOV_accuracies

** Examples

require(pROC) ... 56 metabolites x 500 samples | Pruning samples on5SD: 56 metabolites x 500 samples | Performing scaling ... DONE! | Imputation ... DONE! p_avail<-colnames(b_p)[c(1:5)] LOBOV_accuracies(sur$surrogates, b_p, p_avail, MiMIR::acc_LOBOV) Error in pm[[2]] : subscript out of bounds Calls: LOBOV_accuracies -> -> ggplotly.ggplot -> gg2list Execution halted ```

miRetrieve

Version: 1.3.4
GitHub: NA
Source code: https://github.com/cran/miRetrieve
Date/Publication: 2021-09-18 17:30:02 UTC
Number of recursive dependencies: 126

Run revdepcheck::cloud_details(, "miRetrieve") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(miRetrieve) > > test_check("miRetrieve") [ FAIL 1 | WARN 11 | SKIP 0 | PASS 202 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ... Backtrace: ▆ 1. └─miRetrieve::compare_mir_terms_scatter(df_merged, "miR-21", title = "Test_title") at test-comparemirterms.R:56:1 2. ├─plotly::ggplotly(plot) 3. └─plotly:::ggplotly.ggplot(plot) 4. └─plotly::gg2list(...)

[ FAIL 1 | WARN 11 | SKIP 0 | PASS 202 ] Error: Test failures Execution halted ```

MiscMetabar

Version: 0.9.3
GitHub: https://github.com/adrientaudiere/MiscMetabar
Source code: https://github.com/cran/MiscMetabar
Date/Publication: 2024-09-09 09:20:01 UTC
Number of recursive dependencies: 420

Run revdepcheck::cloud_details(, "MiscMetabar") for more info

checking examples ... ERROR ``` Running examples in ‘MiscMetabar-Ex.R’ failed The error most likely occurred in:

Name: ggscatt_pq

Title: Scatterplot with marginal distributions and statistical results

against Hill diversity of phyloseq object

Aliases: ggscatt_pq

** Examples

... + ) + } Loading required namespace: ggstatsplot Taxa are now in columns. Cleaning suppress 0 taxa and 0 samples. Taxa are now in rows. Joining with by = join_by(Sample) Error in if (new_name %in% existing) { : argument is of length zero Calls: ggscatt_pq ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(MiscMetabar) Loading required package: phyloseq Loading required package: ggplot2 Loading required package: dada2 Loading required package: Rcpp Loading required package: dplyr ...
1. └─ggplot2:::add_ggplot(e1, e2, e2name)
2. ├─ggplot2::ggplot_add(object, p, objectname)
3. └─ggplot2:::ggplot_add.list(object, p, objectname)
4. ├─ggplot2::ggplot_add(o, plot, object_name)
5. └─ggplot2:::ggplot_add.Layer(o, plot, object_name)
6. └─ggplot2:::new_layer_names(object, names(plot$layers))
[ FAIL 2 | WARN 0 | SKIP 76 | PASS 82 ] Error: Test failures Execution halted ```

misspi

Version: 0.1.0
GitHub: NA
Source code: https://github.com/cran/misspi
Date/Publication: 2023-10-17 09:50:02 UTC
Number of recursive dependencies: 88

Run revdepcheck::cloud_details(, "misspi") for more info

checking examples ... ERROR ``` Running examples in ‘misspi-Ex.R’ failed The error most likely occurred in:

Name: evaliq

Title: Evaluate the Imputation Quality

Aliases: evaliq

** Examples

A very quick example

...

Default plot

er.eval <- evaliq(x.true[na.idx], x.est[na.idx]) geom_smooth() using formula = 'y ~ x'

Interactive plot

er.eval <- evaliq(x.true[na.idx], x.est[na.idx], interactive = TRUE) geom_smooth() using formula = 'y ~ x' Error in pm[[2]] : subscript out of bounds Calls: evaliq -> print -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ```

mixpoissonreg

Version: 1.0.0
GitHub: https://github.com/vpnsctl/mixpoissonreg
Source code: https://github.com/cran/mixpoissonreg
Date/Publication: 2021-03-10 19:50:06 UTC
Number of recursive dependencies: 139

Run revdepcheck::cloud_details(, "mixpoissonreg") for more info

checking examples ... ERROR ``` Running examples in ‘mixpoissonreg-Ex.R’ failed The error most likely occurred in:

Name: autoplot.mixpoissonreg

Title: Autoplot Method for 'mixpoissonreg' Objects

Aliases: autoplot.mixpoissonreg autoplot

** Examples

daysabs_prog <- mixpoissonregML(daysabs ~ prog, data = Attendance) autoplot(daysabs_prog) Error in if (new_name %in% existing) { : argument is of length zero Calls: autoplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(mixpoissonreg) > > test_check("mixpoissonreg")

Negative Binomial Regression - Expectation-Maximization Algorithm

... 2. └─mixpoissonreg:::autoplot.mixpoissonreg(fit_ml1, nrow = 2) 3. └─ggplot2:::+.gg(...) 4. └─ggplot2:::add_ggplot(e1, e2, e2name) 5. ├─ggplot2::ggplot_add(object, p, objectname) 6. └─ggplot2:::ggplot_add.Layer(object, p, objectname) 7. └─ggplot2:::new_layer_names(object, names(plot$layers))

[ FAIL 1 | WARN 28 | SKIP 0 | PASS 35 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘influence-mixpoissonreg.Rmd’ ... 5 2.747544 -0.2460342 -0.006644830 -0.4252217 -1.269154 6 2.746786 -0.2443429 -0.006641383 -0.4268347 -1.269387

plot(fit, which = c(3, 4, 5))

autoplot(fit, which = c(3, 4, 5))

...

When sourcing ‘tutorial-mixpoissonreg.R’: Error: argument is of length zero Execution halted

‘influence-mixpoissonreg.Rmd’ using ‘UTF-8’... failed ‘intervals-mixpoissonreg.Rmd’ using ‘UTF-8’... OK ‘ml-mixpoissonreg.Rmd’ using ‘UTF-8’... failed ‘tidyverse-mixpoissonreg.Rmd’ using ‘UTF-8’... failed ‘tutorial-mixpoissonreg.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘influence-mixpoissonreg.Rmd’ using rmarkdown

mizer

Version: 2.5.1
GitHub: https://github.com/sizespectrum/mizer
Source code: https://github.com/cran/mizer
Date/Publication: 2024-03-08 23:10:02 UTC
Number of recursive dependencies: 110

Run revdepcheck::cloud_details(, "mizer") for more info

checking tests ... ERROR ``` Running ‘spelling.R’ Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(mizer) > > test_check("mizer") [ FAIL 10 | WARN 0 | SKIP 5 | PASS 1251 ]

... • plots/plot-spectra.svg • plots/plot-yield-by-gear.svg • plots/plot-yield.svg • plots/plotfishing-mortality.svg • plots/plotfmort-truncated.svg • plots/plotpredation-mortality.svg • plots/plotpredmort-truncated.new.svg • plots/plotpredmort-truncated.svg Error: Test failures Execution halted ```

checking installed package size ... NOTE installed size is 6.1Mb sub-directories of 1Mb or more: doc 1.5Mb help 1.8Mb

mlr3spatiotempcv

Version: 2.3.1
GitHub: https://github.com/mlr-org/mlr3spatiotempcv
Source code: https://github.com/cran/mlr3spatiotempcv
Date/Publication: 2024-04-17 12:10:05 UTC
Number of recursive dependencies: 167

Run revdepcheck::cloud_details(, "mlr3spatiotempcv") for more info

checking examples ... ERROR ``` Running examples in ‘mlr3spatiotempcv-Ex.R’ failed The error most likely occurred in:

Name: autoplot.ResamplingCustomCV

Title: Visualization Functions for Non-Spatial CV Methods.

Aliases: autoplot.ResamplingCustomCV plot.ResamplingCustomCV

** Examples

if (mlr3misc::require_namespaces(c("sf", "patchwork"), quietly = TRUE)) { ... + + autoplot(resampling, task) + + ggplot2::scale_x_continuous(breaks = seq(-79.085, -79.055, 0.01)) + autoplot(resampling, task, fold_id = 1) + autoplot(resampling, task, fold_id = c(1, 2)) * + ggplot2::scale_x_continuous(breaks = seq(-79.085, -79.055, 0.01)) + } Error in identicalUnits(x) : object is not a unit Calls: ... assemble_guides -> guides_build -> unit.c -> identicalUnits Execution halted ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘spatiotemp-viz.Rmd’ ...

knitr::opts_chunk$set(collapse = TRUE, comment = "#>")

knitr::include_graphics("../man/figures/sptcv_cstf_multiplot.png")

When sourcing ‘spatiotemp-viz.R’: Error: Cannot find the file(s): "../man/figures/sptcv_cstf_multiplot.png" Execution halted

‘mlr3spatiotempcv.Rmd’ using ‘UTF-8’... OK ‘spatiotemp-viz.Rmd’ using ‘UTF-8’... failed ```
checking installed package size ... NOTE installed size is 5.9Mb sub-directories of 1Mb or more: data 3.5Mb

mlr3viz

Version: 0.9.0
GitHub: https://github.com/mlr-org/mlr3viz
Source code: https://github.com/cran/mlr3viz
Date/Publication: 2024-07-01 12:30:02 UTC
Number of recursive dependencies: 142

Run revdepcheck::cloud_details(, "mlr3viz") for more info

checking examples ... ERROR ``` Running examples in ‘mlr3viz-Ex.R’ failed The error most likely occurred in:

Name: autoplot.OptimInstanceBatchSingleCrit

Title: Plots for Optimization Instances

Aliases: autoplot.OptimInstanceBatchSingleCrit

** Examples

if (requireNamespace("mlr3") && requireNamespace("bbotk") && requireNamespace("patchwork")) { ... INFO [09:22:56.650] [bbotk] 5.884797 2.2371095 -32.51896 INFO [09:22:56.650] [bbotk] -7.841127 -0.8872557 -91.31148 INFO [09:22:56.668] [bbotk] Finished optimizing after 20 evaluation(s) INFO [09:22:56.669] [bbotk] Result: INFO [09:22:56.670] [bbotk] x1 x2 x_domain y INFO [09:22:56.670] [bbotk] INFO [09:22:56.670] [bbotk] 2.582281 -2.940254 9.657379 Error in identicalUnits(x) : object is not a unit Calls: print ... assemble_guides -> guides_build -> unit.c -> identicalUnits Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > if (requireNamespace("testthat", quietly = TRUE)) {
- library("testthat")
- library("mlr3viz")
- test_check("mlr3viz")
- } Starting 2 test processes [ FAIL 4 | WARN 1 | SKIP 24 | PASS 84 ] ... • TuningInstanceSingleCrit/tisc-surface-grid-50.svg • TuningInstanceSingleCrit/tisc-surface-regr-lm.svg • TuningInstanceSingleCrit/tisc-surface.svg • plot_learner_prediction/learner-prediction-1d-se.svg • plot_learner_prediction/learner-prediction-binary-prob.svg • plot_learner_prediction/learner-prediction-binary-response.svg • plot_learner_prediction/learner-prediction-categorical.svg • plot_learner_prediction/learner-prediction-prob.svg Error: Test failures Execution halted ```

modeltime.resample

Version: 0.2.3
GitHub: https://github.com/business-science/modeltime.resample
Source code: https://github.com/cran/modeltime.resample
Date/Publication: 2023-04-12 15:50:02 UTC
Number of recursive dependencies: 227

Run revdepcheck::cloud_details(, "modeltime.resample") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > > # Machine Learning > library(tidymodels) ── Attaching packages ────────────────────────────────────── tidymodels 1.2.0 ── ✔ broom 1.0.6 ✔ recipes 1.1.0 ✔ dials 1.3.0 ✔ rsample 1.2.1 ... ▆
1. ├─m750_models_resample %>% ... at test-modeltime_fit_resamples.R:116:5
2. └─modeltime.resample::plot_modeltime_resamples(., .interactive = TRUE)
3. ├─plotly::ggplotly(g)
4. └─plotly:::ggplotly.ggplot(g)
5. └─plotly::gg2list(...)
[ FAIL 1 | WARN 4 | SKIP 0 | PASS 16 ] Error: Test failures Execution halted ```

checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘crayon’ ‘dials’ ‘glue’ ‘parsnip’ All declared Imports should be used.

moreparty

Version: 0.4
GitHub: NA
Source code: https://github.com/cran/moreparty
Date/Publication: 2023-11-22 14:30:02 UTC
Number of recursive dependencies: 165

Run revdepcheck::cloud_details(, "moreparty") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Titanic_example.Rmd’ ... 24 Age 57 0.3187270 25 Embarked Cherbourg 0.4603041 [ reached 'max' / getOption("max.print") -- omitted 2 rows ]

ggForestEffects(pdep, vline = mean(pred_foret), xlab = "Probability of survival") + + xlim(c(0, 1))

When sourcing ‘Titanic_example.R’: Error: x must be a vector, not a object. Execution halted

‘Titanic_example.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘Titanic_example.Rmd’ using rmarkdown

mosaicCalc

Version: 0.6.4
GitHub: https://github.com/ProjectMOSAIC/mosaicCalc
Source code: https://github.com/cran/mosaicCalc
Date/Publication: 2024-07-26 15:50:02 UTC
Number of recursive dependencies: 128

Run revdepcheck::cloud_details(, "mosaicCalc") for more info

checking examples ... ERROR ``` Running examples in ‘mosaicCalc-Ex.R’ failed The error most likely occurred in:

Name: box_set

Title: Evenly spaced samples across a one- or two-dim domain

Aliases: box_set

** Examples

box_set(x*y ~ x & y, domain(x=0:1, y=0:1), n = 4) ... [1] 0

a polygon

poly <- tibble(x = c(1:9, 8:1), y = c(1, 2*(5:3), 2, -1, 17, 9, 8, 2:9)) boxes <- box_set(1 ~ x & y, poly, dx = 1) gf_polygon(y ~ x, data = poly, color="blue", fill="blue", alpha=0.2) %>% + gf_rect((y - dy/3) + (y + dy/3) ~ (x - dx/3) + (x + dx/3), + data = boxes) Error in if (new_name %in% existing) { : argument is of length zero Calls: %>% ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Calculus_with_R.Rmd’ ...

soln <- integrateODE(SIR, bounds(t = 0:20)) Solution containing functions S(t), I(t).

traj_plot(S(t) ~ I(t), soln, color = "blue") %>% vectorfield_plot(SIR, + bounds(I = 0:75, S = 60:400), transform = I, npts = 20, alpha = 0.6)

...

gf_point(flipper_length_mm ~ body_mass_g, data = palmerpenguins::penguins)

When sourcing ‘quick-reference.R’: Error: argument is of length zero Execution halted

‘Calculus_with_R.Rmd’ using ‘UTF-8’... failed ‘Instructors.Rmd’ using ‘UTF-8’... failed ‘quick-reference.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘Calculus_with_R.Rmd’ using rmarkdown

checking data for non-ASCII characters ... NOTE Note: found 56 marked UTF-8 strings

mosaicData

Version: 0.20.4
GitHub: https://github.com/ProjectMOSAIC/mosaicData
Source code: https://github.com/cran/mosaicData
Date/Publication: 2023-11-05 05:50:02 UTC
Number of recursive dependencies: 56

Run revdepcheck::cloud_details(, "mosaicData") for more info

checking examples ... ERROR ``` Running examples in ‘mosaicData-Ex.R’ failed The error most likely occurred in:

Name: Birthdays

Title: US Births in 1969 - 1988

Aliases: Birthdays

** Examples

data(Birthdays) ... IQR, binom.test, cor, cor.test, cov, fivenum, median, prop.test, quantile, sd, t.test, var

The following objects are masked from ‘package:base’:
```
max, mean, min, prod, range, sample, sum
```
Error in if (new_name %in% existing) { : argument is of length zero Calls: gf_point ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

checking data for non-ASCII characters ... NOTE Note: found 7 marked UTF-8 strings

mosaicModel

Version: 0.3.0
GitHub: NA
Source code: https://github.com/cran/mosaicModel
Date/Publication: 2017-09-22 16:21:41 UTC
Number of recursive dependencies: 157

Run revdepcheck::cloud_details(, "mosaicModel") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Basics.Rmd’ ...
- out.width = "45%")
mtcars <- mtcars %>% mutate(transmission = ifelse(am, + "manual", "automatic"))

gf_point(mpg ~ hp, color = ~transmission, data = mtcars)

When sourcing ‘Basics.R’: Error: argument is of length zero Execution halted

‘Basics.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘Basics.Rmd’ using rmarkdown

Quitting from lines 66-68 [fuel_intro] (Basics.Rmd) Error: processing vignette 'Basics.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘Basics.Rmd’

SUMMARY: processing the following file failed: ‘Basics.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘MASS’ ‘caret’ ‘ggformula’ ‘knitr’ ‘testthat’ ‘tidyverse’ All declared Imports should be used.

mppR

Version: 1.5.0
GitHub: https://github.com/vincentgarin/mppR
Source code: https://github.com/cran/mppR
Date/Publication: 2024-02-22 17:20:02 UTC
Number of recursive dependencies: 69

Run revdepcheck::cloud_details(, "mppR") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘MPP_ME_QTL_detect.Rmd’ ... F2 -2.9970560 0.18508863 -0.00806081 0.1266095 F283 10.2417600 1.78749082 -0.04223259 2.0862106 DK105 0.1792433 0.03829626 NA NA

plot_QxEC(Qeff, EC = EC, env_id = c("CIAM", "TUM", + "INRA", "KWS"), QTL = 2, EC_id = "cum rain", trait_id = "DMY")

When sourcing ‘MPP_ME_QTL_detect.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘MPP_ME_QTL_detect.Rmd’ using ‘UTF-8’... failed ‘mppR_gen_vignette.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘MPP_ME_QTL_detect.Rmd’ using rmarkdown

MSCMT

Version: 1.4.0
GitHub: NA
Source code: https://github.com/cran/MSCMT
Date/Publication: 2024-03-19 10:20:02 UTC
Number of recursive dependencies: 82

Run revdepcheck::cloud_details(, "MSCMT") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘WorkingWithMSCMT.Rmd’ ... (Predictor weights V are standardized by sum(V)=1)

library(ggplot2)

ggplot(res, type = "comparison")

When sourcing ‘WorkingWithMSCMT.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘CheckingSynth.Rmd’ using ‘UTF-8’... OK ‘UsingTimeSeries.Rmd’ using ‘UTF-8’... OK ‘WorkingWithMSCMT.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘CheckingSynth.Rmd’ using rmarkdown --- finished re-building ‘CheckingSynth.Rmd’

--- re-building ‘UsingTimeSeries.Rmd’ using rmarkdown --- finished re-building ‘UsingTimeSeries.Rmd’

--- re-building ‘WorkingWithMSCMT.Rmd’ using rmarkdown

... Quitting from lines 156-158 [unnamed-chunk-8] (WorkingWithMSCMT.Rmd) Error: processing vignette 'WorkingWithMSCMT.Rmd' failed with diagnostics: invalid line type: must be length 2, 4, 6 or 8 --- failed re-building ‘WorkingWithMSCMT.Rmd’

SUMMARY: processing the following file failed: ‘WorkingWithMSCMT.Rmd’

Error: Vignette re-building failed. Execution halted ```

mstate

Version: 0.3.3
GitHub: https://github.com/hputter/mstate
Source code: https://github.com/cran/mstate
Date/Publication: 2024-07-11 21:30:06 UTC
Number of recursive dependencies: 114

Run revdepcheck::cloud_details(, "mstate") for more info

checking examples ... ERROR ``` Running examples in ‘mstate-Ex.R’ failed The error most likely occurred in:

Name: plot.Cuminc

Title: Plot method for Cuminc objects

Aliases: plot.Cuminc

** Examples

library(ggplot2) ... 4. └─ggplot2:::ggplot_build.ggplot(x) 5. └─layout$setup(data, plot$data, plot$plot_env) 6. └─ggplot2 (local) setup(..., self = self) 7. └─self$coord$setup_params(data) 8. └─ggplot2 (local) setup_params(..., self = self) 9. └─ggplot2:::parse_coord_expand(expand = self$expand %||% TRUE) 10. └─ggplot2:::check_logical(expand) 11. └─ggplot2:::stop_input_type(...) 12. └─rlang::abort(message, ..., call = call, arg = arg) Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘visuals_demo.Rmd’ ...

msf.WW <- msfit(object = c1, newdata = WW, trans = tmat)

plot(msf.WW)

plot(msf.WW, use.ggplot = TRUE)

When sourcing ‘visuals_demo.R’: Error: expand must be a logical vector, not the number 0. Execution halted

‘visuals_demo.Rmd’ using ‘UTF-8’... failed ‘Tutorial.Rnw’ using ‘UTF-8’... OK ```

checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘visuals_demo.Rmd’ using rmarkdown

mtb

Version: 0.1.8
GitHub: https://github.com/yh202109/mtb
Source code: https://github.com/cran/mtb
Date/Publication: 2022-10-20 17:22:35 UTC
Number of recursive dependencies: 64

Run revdepcheck::cloud_details(, "mtb") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(mtb) > > test_check("mtb") [ FAIL 2 | WARN 13 | SKIP 0 | PASS 56 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ... - "yend" [6] - "xmin" [7] - "xmax" [8] - "ymin" [9] - "ymax" [10] ... ... ... and 3 more ...

[ FAIL 2 | WARN 13 | SKIP 0 | PASS 56 ] Error: Test failures Execution halted ```

mulgar

Version: 1.0.2
GitHub: https://github.com/dicook/mulgar
Source code: https://github.com/cran/mulgar
Date/Publication: 2023-08-25 22:00:02 UTC
Number of recursive dependencies: 43

Run revdepcheck::cloud_details(, "mulgar") for more info

checking examples ... ERROR ``` Running examples in ‘mulgar-Ex.R’ failed The error most likely occurred in:

Name: ggmcbic

Title: Produces an mclust summary plot with ggplot

Aliases: ggmcbic

** Examples

require(mclust) ... Type 'citation("mclust")' for citing this R package in publications. data(clusters) clusters_BIC <- mclustBIC(clusters[,1:5], G=2:6) ggmcbic(clusters_BIC) Warning: Removed 5 rows containing missing values or values outside the scale range (geom_line()). Error in grid.Call.graphics(C_segments, x$x0, x$y0, x$x1, x$y1, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.segments -> grid.Call.graphics Execution halted ```

checking installed package size ... NOTE installed size is 8.8Mb sub-directories of 1Mb or more: data 8.5Mb

MultivariateAnalysis

Version: 0.5.0
GitHub: NA
Source code: https://github.com/cran/MultivariateAnalysis
Date/Publication: 2024-04-08 18:40:03 UTC
Number of recursive dependencies: 128

Run revdepcheck::cloud_details(, "MultivariateAnalysis") for more info

checking examples ... ERROR ``` Running examples in ‘MultivariateAnalysis-Ex.R’ failed The error most likely occurred in:

Name: ContribuicaoRelativa

Title: Contribuicao das variaveis independentes para o agrupamento

Aliases: ContribuicaoRelativa

** Examples

... 12. │ └─ggplot2:::+.gg(p, do.call(geom_line, option)) 13. │ └─ggplot2:::add_ggplot(e1, e2, e2name) 14. │ ├─ggplot2::ggplot_add(object, p, objectname) 15. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 16. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 17. └─base::.handleSimpleError(...) 18. └─purrr (local) h(simpleError(msg, call)) 19. └─cli::cli_abort(...) 20. └─rlang::abort(...) Execution halted ```

mxfda

Version: 0.2.1
GitHub: https://github.com/julia-wrobel/mxfda
Source code: https://github.com/cran/mxfda
Date/Publication: 2024-05-08 11:00:02 UTC
Number of recursive dependencies: 221

Run revdepcheck::cloud_details(, "mxfda") for more info

checking installed package size ... NOTE installed size is 5.6Mb sub-directories of 1Mb or more: data 4.0Mb

neatmaps

Version: 2.1.0
GitHub: https://github.com/PhilBoileau/neatmaps
Source code: https://github.com/cran/neatmaps
Date/Publication: 2019-05-12 19:10:03 UTC
Number of recursive dependencies: 99

Run revdepcheck::cloud_details(, "neatmaps") for more info

checking examples ... ERROR ``` Running examples in ‘neatmaps-Ex.R’ failed The error most likely occurred in:

Name: consClustResTable

Title: Consensus Cluster Results in a Table

Aliases: consClustResTable

** Examples

create the data frame using the network, node and edge attributes

... df <- netsDataFrame(network_attr_df, + node_attr_df, + edge_df)

run the neatmap code on df

neat_res <- neatmap(df, scale_df = "ecdf", max_k = 3, reps = 100, + xlab = "vars", ylab = "nets", xlab_cex = 1, ylab_cex = 1) Error in pm[[2]] : subscript out of bounds Calls: neatmap ... %>% -> layout -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ```

checking installed package size ... NOTE installed size is 6.3Mb

neatStats

Version: 1.13.3
GitHub: https://github.com/gasparl/neatstats
Source code: https://github.com/cran/neatStats
Date/Publication: 2022-12-07 20:50:02 UTC
Number of recursive dependencies: 129

Run revdepcheck::cloud_details(, "neatStats") for more info

checking examples ... ERROR ``` Running examples in ‘neatStats-Ex.R’ failed The error most likely occurred in:

Name: peek_neat

Title: Cursory Summaries and Plots per Group

Aliases: peek_neat

** Examples

... 11. │ └─ggplot2:::+.gg(...) 12. │ └─ggplot2:::add_ggplot(e1, e2, e2name) 13. │ ├─ggplot2::ggplot_add(object, p, objectname) 14. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 15. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 16. └─base::.handleSimpleError(...) 17. └─purrr (local) h(simpleError(msg, call)) 18. └─cli::cli_abort(...) 19. └─rlang::abort(...) Execution halted ```

netcom

Version: 2.1.7
GitHub: https://github.com/langendorfr/netcom
Source code: https://github.com/cran/netcom
Date/Publication: 2024-06-04 17:50:05 UTC
Number of recursive dependencies: 103

Run revdepcheck::cloud_details(, "netcom") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘tutorial.Rmd’ ... > networks <- c(networks_undisturbed, networks_disturbed)

comparisons <- netcom::compare(networks, method = "align")

stats::prcomp(comparisons) %>% ggplot2::autoplot(data = tibble(Kind = c(rep("Undisturbed", + num_networks), rep("Disturbed", num_networks))), c .... [TRUNCATED]

When sourcing ‘tutorial.R’: Error: argument is of length zero Execution halted

‘tutorial.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘tutorial.Rmd’ using rmarkdown

checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘ggfortify’ ‘ggplot2’ ‘ggraph’ ‘reshape2’ All declared Imports should be used.

NetFACS

Version: 0.5.0
GitHub: NA
Source code: https://github.com/cran/NetFACS
Date/Publication: 2022-12-06 17:32:35 UTC
Number of recursive dependencies: 101

Run revdepcheck::cloud_details(, "NetFACS") for more info

checking examples ... ERROR ``` Running examples in ‘NetFACS-Ex.R’ failed The error most likely occurred in:

Name: network_conditional

Title: Create a network based on conditional probabilities of dyads of

elements

Aliases: network_conditional

** Examples

... Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : font family 'Arial Narrow' not found in PostScript font database Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : font family 'Arial Narrow' not found in PostScript font database Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : font family 'Arial Narrow' not found in PostScript font database Error in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : invalid font type Calls: ... drawDetails -> drawDetails.text -> grid.Call.graphics Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘netfacs_tutorial.Rmd’ ... Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : font family 'Arial Narrow' not found in PostScript font database Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : font family 'Arial Narrow' not found in PostScript font database Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : font family 'Arial Narrow' not found in PostScript font database

When sourcing ‘netfacs_tutorial.R’: Error: invalid font type Execution halted

‘netfacs_tutorial.Rmd’ using ‘UTF-8’... failed ```

neuroUp

Version: 0.3.1
GitHub: https://github.com/eduardklap/neuroUp
Source code: https://github.com/cran/neuroUp
Date/Publication: 2024-08-28 08:20:05 UTC
Number of recursive dependencies: 82

Run revdepcheck::cloud_details(, "neuroUp") for more info

checking examples ... ERROR ``` Running examples in ‘neuroUp-Ex.R’ failed The error most likely occurred in:

Name: estim_corr

Title: Estimate correlations

Aliases: estim_corr

** Examples

data_gambling <- gambling ... 8 100 -0.0787 -0.271 0.120 2 NA 9 140 -0.0555 -0.219 0.111 2 NA 10 221 -0.0405 -0.172 0.0920 2 NA

ℹ 45 more rows

$fig_corr Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ 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/tests.html > # * https://testthat.r-lib.org/reference/test_package.html#special-files ...
1. └─grid:::grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow)
[ FAIL 2 | WARN 0 | SKIP 0 | PASS 10 ] Deleting unused snapshots: • estim_corr/create-fig-corr-nozero.svg • estim_diff/create-fig-cohen-s-d.svg • estim_diff/create-fig-d-nozero.svg • estim_diff/create-fig-nozero.svg Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘neuroUp.Rmd’ ... > set.seed(1234)

feedback_estim <- estim_diff(feedback_data, c("mfg_learning", + "mfg_application"), 20:271, 20, "Feedback middle frontal gyrus")

feedback_estim$fig_diff

When sourcing ‘neuroUp.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘neuroUp.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘neuroUp.Rmd’ using rmarkdown

Quitting from lines 92-93 [unnamed-chunk-5] (neuroUp.Rmd) Error: processing vignette 'neuroUp.Rmd' failed with diagnostics: invalid line type: must be length 2, 4, 6 or 8 --- failed re-building ‘neuroUp.Rmd’

SUMMARY: processing the following file failed: ‘neuroUp.Rmd’

Error: Vignette re-building failed. Execution halted ```

NHSRplotthedots

Version: 0.1.0
GitHub: NA
Source code: https://github.com/cran/NHSRplotthedots
Date/Publication: 2021-11-03 20:20:10 UTC
Number of recursive dependencies: 88

Run revdepcheck::cloud_details(, "NHSRplotthedots") for more info

checking tests ... ERROR ``` Running ‘spelling.R’ Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(NHSRplotthedots) > > test_check("NHSRplotthedots") [ FAIL 1 | WARN 733 | SKIP 3 | PASS 431 ]

...

actual$type is absent expected$type is a character vector ('type')

actual$text is absent expected$text is a character vector ('text')

[ FAIL 1 | WARN 733 | SKIP 3 | PASS 431 ] Error: Test failures Execution halted ```

checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘NHSRdatasets’ ‘grid’ ‘utils’ All declared Imports should be used.

nichetools

Version: 0.3.1
GitHub: https://github.com/benjaminhlina/nichetools
Source code: https://github.com/cran/nichetools
Date/Publication: 2024-09-06 17:00:02 UTC
Number of recursive dependencies: 119

Run revdepcheck::cloud_details(, "nichetools") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘using-nichetools-with-the-package-SIBER.Rmd’ ...
- option = "A", alpha = 0.75)
ggplot() + stat_pointinterval(data = bays_95_overlap, + aes(x = group_1, y = prop_overlap, point_fill = group_2), + interval_colour = "gre ..." ... [TRUNCATED]

When sourcing ‘using-nichetools-with-the-package-SIBER.R’: Error: unused argument (theme = list(list("black", 0.681818181818182, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.681818181818182, 1, TRUE), list("", "plain", "black", 15, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.681818181818182, 0.681818181818182, 1, 1, "", 5.27189705271897, 2.04545454545455, 19, TRUE), 7.5, c(7.5, 7.5, 7.5, 7.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(3.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 3.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 3.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 3.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(3, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, Execution halted

‘using-nichetools-with-the-package-SIBER.Rmd’ using ‘UTF-8’... failed ‘using-nichetools-with-the-package-nicheROVER.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘using-nichetools-with-the-package-SIBER.Rmd’ using rmarkdown

NIMAA

Version: 0.2.1
GitHub: https://github.com/jafarilab/NIMAA
Source code: https://github.com/cran/NIMAA
Date/Publication: 2022-04-11 14:12:45 UTC
Number of recursive dependencies: 177

Run revdepcheck::cloud_details(, "NIMAA") for more info

checking examples ... ERROR ``` Running examples in ‘NIMAA-Ex.R’ failed The error most likely occurred in:

Name: extractSubMatrix

Title: Extract the non-missing submatrices from a given matrix.

Aliases: extractSubMatrix

** Examples

load part of the beatAML data

... + row.vars = "inhibitor") binmatnest.temperature 13.21221 Size of Square: 66 rows x 66 columns Size of Rectangular_row: 6 rows x 105 columns Size of Rectangular_col: 99 rows x 2 columns Size of Rectangular_element_max: 59 rows x 79 columns Error in pm[[2]] : subscript out of bounds Calls: extractSubMatrix ... plotSubmatrix -> print -> -> ggplotly.ggplot -> gg2list Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(NIMAA) Warning message: In check_dep_version() : ABI version mismatch: lme4 was built with Matrix ABI version 1 Current Matrix ABI version is 0 Please re-install lme4 from source or restore original 'Matrix' package ...
1. └─NIMAA::extractSubMatrix(...) at test-extract-nonmissing-submatrix.R:5:3
2. └─NIMAA:::plotSubmatrix(...)
3. ├─base::print(plotly::ggplotly(p))
4. ├─plotly::ggplotly(p)
5. └─plotly:::ggplotly.ggplot(p)
6. └─plotly::gg2list(...)
[ FAIL 1 | WARN 4 | SKIP 0 | PASS 7 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘NIMAA-vignette.Rmd’ ...

beatAML_incidence_matrix <- plotIncMatrix(x = beatAML_data, + index_nominal = c(2, 1), index_numeric = 3, print_skim = FALSE, + plot_weigh .... [TRUNCATED]

Na/missing values Proportion: 0.2603

When sourcing ‘NIMAA-vignette.R’: Error: subscript out of bounds Execution halted

‘NIMAA-vignette.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘NIMAA-vignette.Rmd’ using rmarkdown

Quitting from lines 49-57 [plotIncMatrix function] (NIMAA-vignette.Rmd) Error: processing vignette 'NIMAA-vignette.Rmd' failed with diagnostics: subscript out of bounds --- failed re-building ‘NIMAA-vignette.Rmd’

SUMMARY: processing the following file failed: ‘NIMAA-vignette.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking installed package size ... NOTE installed size is 6.5Mb sub-directories of 1Mb or more: data 2.0Mb doc 4.0Mb
checking data for non-ASCII characters ... NOTE Note: found 24 marked UTF-8 strings

nonmem2R

Version: 0.2.5
GitHub: NA
Source code: https://github.com/cran/nonmem2R
Date/Publication: 2024-03-11 17:30:02 UTC
Number of recursive dependencies: 64

Run revdepcheck::cloud_details(, "nonmem2R") for more info

checking examples ... ERROR ``` Running examples in ‘nonmem2R-Ex.R’ failed The error most likely occurred in:

Name: vpcfig2

Title: Visual Predictive Check (VPC) based on Perl-speaks-NONMEM (PsN)

generated VPC files (ggplot2-version).

Aliases: vpcfig2

** Examples

... VPC based on files: /tmp/workdir/nonmem2R/new/nonmem2R.Rcheck/nonmem2R/extdata/vpctab004.dat and /tmp/workdir/nonmem2R/new/nonmem2R.Rcheck/nonmem2R/extdata/vpc_results.csv Facetting was set using: facet_wrap(~strata) Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘VPCvignette.Rmd’ ... VPC based on files: /tmp/workdir/nonmem2R/new/nonmem2R.Rcheck/nonmem2R/extdata/vpctab004.dat and /tmp/workdir/nonmem2R/new/nonmem2R.Rcheck/nonmem2R/extdata/vpc_results.csv Facetting was set using: facet_wrap(~strata)

When sourcing ‘VPCvignette.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘GOFvignette.Rmd’ using ‘UTF-8’... OK ‘VPCvignette.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘GOFvignette.Rmd’ using rmarkdown

nphRCT

Version: 0.1.1
GitHub: NA
Source code: https://github.com/cran/nphRCT
Date/Publication: 2024-06-27 12:30:02 UTC
Number of recursive dependencies: 120

Run revdepcheck::cloud_details(, "nphRCT") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘explanation.Rmd’ ...

km <- survfit(Surv(time, event) ~ arm, data = dat)

p_km <- survminer::ggsurvplot(km, data = dat, risk.table = TRUE, + break.x.by = 6, legend.title = "", xlab = "Time (months)", + ylab = "Ov ..." ... [TRUNCATED]

When sourcing ‘explanation.R’: Error: argument is of length zero Execution halted

‘explanation.Rmd’ using ‘UTF-8’... failed ‘weighted_log_rank_tests.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘explanation.Rmd’ using rmarkdown

Quitting from lines 44-73 [unnamed-chunk-1] (explanation.Rmd) Error: processing vignette 'explanation.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘explanation.Rmd’

--- re-building ‘weighted_log_rank_tests.Rmd’ using rmarkdown ```

nprobust

Version: 0.4.0
GitHub: NA
Source code: https://github.com/cran/nprobust
Date/Publication: 2020-08-26 10:40:02 UTC
Number of recursive dependencies: 30

Run revdepcheck::cloud_details(, "nprobust") for more info

checking examples ... ERROR ``` Running examples in ‘nprobust-Ex.R’ failed The error most likely occurred in:

Name: nprobust.plot

Title: Graphical Presentation of Results from 'nprobust' Package.

Aliases: nprobust.plot

** Examples

x <- runif(500) y <- sin(4*x) + rnorm(500) est <- lprobust(y,x) nprobust.plot(est) Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```

checking C++ specification ... NOTE Specified C++11: please drop specification unless essential

nzelect

Version: 0.4.0
GitHub: NA
Source code: https://github.com/cran/nzelect
Date/Publication: 2017-10-02 20:35:23 UTC
Number of recursive dependencies: 95

Run revdepcheck::cloud_details(, "nzelect") for more info

checking examples ... ERROR ``` Running examples in ‘nzelect-Ex.R’ failed The error most likely occurred in:

Name: polls

Title: New Zealand Opinion Polls

Aliases: polls

Keywords: datasets

** Examples

... ℹ This can happen when ggplot fails to infer the correct grouping structure in the data. ℹ Did you forget to specify a group aesthetic or to convert a numerical variable into a factor? Warning: Removed 159 rows containing missing values or values outside the scale range (geom_line()). Error in grid.Call.graphics(C_segments, x$x0, x$y0, x$x1, x$y1, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.segments -> grid.Call.graphics Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘README.Rmd’ ... > proportions <- nzge %>% filter(election_year == 2014) %>%
- group_by(voting_place, voting_type) %>% summarise(proportion Labour = sum(votes[p .... [TRUNCATED] summarise() has grouped output by 'voting_place'. You can override using the .groups argument.
ggpairs(proportions, aes(colour = voting_type), columns = 3:5)

When sourcing ‘README.R’: Error: argument is of length zero Execution halted

‘README.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘README.Rmd’ using rmarkdown

Quitting from lines 64-82 [unnamed-chunk-3] (README.Rmd) Error: processing vignette 'README.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘README.Rmd’

SUMMARY: processing the following file failed: ‘README.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking installed package size ... NOTE installed size is 5.3Mb sub-directories of 1Mb or more: data 5.0Mb
checking data for non-ASCII characters ... NOTE Note: found 6409 marked UTF-8 strings

OBIC

Version: 3.0.3
GitHub: https://github.com/AgroCares/Open-Bodem-Index-Calculator
Source code: https://github.com/cran/OBIC
Date/Publication: 2024-09-09 08:30:02 UTC
Number of recursive dependencies: 75

Run revdepcheck::cloud_details(, "OBIC") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘obic_workability.Rmd’ ... > gg2 <- ggplot(data = dt, aes(x = field, fill = field)) +
- geom_col(aes(y = I_P_WO)) + theme_bw() + theme(axis.text = element_text(size = 10, .... [TRUNCATED]
(gg | gg2) + plot_layout(guides = "collect") + plot_annotation(caption = "Baseline workability scores.", + theme = theme(plot.caption = element .... [TRUNCATED]

When sourcing ‘obic_workability.R’: Error: object is not a unit Execution halted

‘description-of-the-columns.Rmd’ using ‘UTF-8’... OK ‘obic_introduction.Rmd’ using ‘UTF-8’... OK ‘obic_score_aggregation.Rmd’ using ‘UTF-8’... OK ‘obic_water_functions.Rmd’ using ‘UTF-8’... OK ‘obic_workability.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘description-of-the-columns.Rmd’ using rmarkdown --- finished re-building ‘description-of-the-columns.Rmd’

--- re-building ‘obic_introduction.Rmd’ using rmarkdown ```

checking installed package size ... NOTE installed size is 6.0Mb sub-directories of 1Mb or more: data 4.0Mb doc 1.4Mb

oceanic

Version: 0.1.7
GitHub: NA
Source code: https://github.com/cran/oceanic
Date/Publication: 2024-06-11 03:40:02 UTC
Number of recursive dependencies: 52

Run revdepcheck::cloud_details(, "oceanic") for more info

checking examples ... ERROR ``` Running examples in ‘oceanic-Ex.R’ failed The error most likely occurred in:

Name: dotplot

Title: dotplot

Aliases: dotplot

** Examples

dotplot(141,23) ... 4. └─ggplot2:::ggplot_build.ggplot(x) 5. └─layout$setup(data, plot$data, plot$plot_env) 6. └─ggplot2 (local) setup(..., self = self) 7. └─self$coord$setup_params(data) 8. └─ggplot2 (local) setup_params(..., self = self) 9. └─ggplot2:::parse_coord_expand(expand = self$expand %||% TRUE) 10. └─ggplot2:::check_logical(expand) 11. └─ggplot2:::stop_input_type(...) 12. └─rlang::abort(message, ..., call = call, arg = arg) Execution halted ```

checking installed package size ... NOTE installed size is 8.1Mb sub-directories of 1Mb or more: data 8.0Mb
checking data for non-ASCII characters ... NOTE Note: found 1242 marked UTF-8 strings

oddsratio

Version: 2.0.1
GitHub: https://github.com/pat-s/oddsratio
Source code: https://github.com/cran/oddsratio
Date/Publication: 2020-05-24 22:00:02 UTC
Number of recursive dependencies: 63

Run revdepcheck::cloud_details(, "oddsratio") for more info

checking examples ... ERROR ``` Running examples in ‘oddsratio-Ex.R’ failed The error most likely occurred in:

Name: insert_or

Title: Insert odds ratios of GAM(M)s into smoothing function

Aliases: insert_or

** Examples

library(oddsratio) ... 5. └─ggplot2:::ggplot_add.Layer(object, p, objectname) 6. └─ggplot2:::new_layer_names(object, names(plot$layers)) 7. └─vctrs::vec_as_names(names, repair = "check_unique") 8. └─vctrs (local) <fn>() 9. └─vctrs:::validate_unique(names = names, arg = arg, call = call) 10. └─vctrs:::stop_names_cannot_be_empty(names, call = call) 11. └─vctrs:::stop_names(...) 12. └─vctrs:::stop_vctrs(...) 13. └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call) Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘oddsratio.Rmd’ ...
- pred = "x2", values = c(0.4, 0.6))
insert_or(plot, or_object2, or_yloc = 2.1, values_yloc = 2, + line_col = "green4", text_col = "black", rect_col = "green4", + rect_alpha = .... [TRUNCATED]

When sourcing ‘oddsratio.R’: Error: Names can't be empty. ✖ Empty name found at location 1. Execution halted

‘oddsratio.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘oddsratio.Rmd’ using rmarkdown

checking Rd cross-references ... NOTE Package unavailable to check Rd xrefs: ‘gam’

ofpetrial

Version: 0.1.1
GitHub: https://github.com/DIFM-Brain/ofpetrial
Source code: https://github.com/cran/ofpetrial
Date/Publication: 2024-05-15 08:50:03 UTC
Number of recursive dependencies: 136

Run revdepcheck::cloud_details(, "ofpetrial") for more info

checking examples ... ERROR ``` Running examples in ‘ofpetrial-Ex.R’ failed The error most likely occurred in:

Name: check_ortho_with_chars

Title: Check the orthogonality with field/topographic characteristics

Aliases: check_ortho_with_chars

** Examples

data(td_single_input) ... 33. │ └─ggplot2:::+.gg(init, x[[i]]) 34. │ └─ggplot2:::add_ggplot(e1, e2, e2name) 35. │ ├─ggplot2::ggplot_add(object, p, objectname) 36. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 37. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 38. └─base::.handleSimpleError(...) 39. └─purrr (local) h(simpleError(msg, call)) 40. └─cli::cli_abort(...) 41. └─rlang::abort(...) Execution halted ```

OmicNavigator

Version: 1.13.13
GitHub: https://github.com/abbvie-external/OmicNavigator
Source code: https://github.com/cran/OmicNavigator
Date/Publication: 2023-08-25 20:40:02 UTC
Number of recursive dependencies: 86

Run revdepcheck::cloud_details(, "OmicNavigator") for more info

checking tests ... ERROR ``` Running ‘tinytest.R’ Running the tests in ‘tests/tinytest.R’ failed. Complete output: > # Test files in inst/tinytest/ > if (requireNamespace("tinytest", quietly = TRUE)) {
- suppressMessages(tinytest::test_package("OmicNavigator"))
- }
testAdd.R..................... 0 tests testAdd.R..................... 0 tests ... testPlot.R.................... 140 tests [0;32mOK[0m testPlot.R.................... 140 tests [0;32mOK[0m testPlot.R.................... 141 tests [0;32mOK[0m testPlot.R.................... 141 tests [0;32mOK[0m testPlot.R.................... 141 tests [0;32mOK[0m testPlot.R.................... 142 tests [0;32mOK[0m testPlot.R.................... 142 tests [0;32mOK[0m testPlot.R.................... 143 tests [0;32mOK[0m Error in pm[[2]] : subscript out of bounds Calls: suppressMessages ... plotStudy -> f -> -> ggplotly.ggplot -> gg2list Execution halted ```

checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘OmicNavigatorAPI.Rnw’ using Sweave OmicNavigator R package version: 1.13.13 The app is not installed. Install it with installApp() Installing study "ABC" in /tmp/RtmpFyTBK9/file1d2273c45a46 Exporting study "ABC" as an R package Note: No maintainer email was specified. Using the placeholder: Unknown unknown@unknown Calculating pairwise overlaps. This may take a while... Exported study to /tmp/RtmpFyTBK9/ONstudyABC Success! ... l.14 ^^M

! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘OmicNavigatorUsersGuide.Rnw’

SUMMARY: processing the following files failed: ‘OmicNavigatorAPI.Rnw’ ‘OmicNavigatorUsersGuide.Rnw’

Error: Vignette re-building failed. Execution halted ```

omu

Version: 1.1.2
GitHub: https://github.com/connor-reid-tiffany/Omu
Source code: https://github.com/cran/omu
Date/Publication: 2024-03-06 23:40:02 UTC
Number of recursive dependencies: 129

Run revdepcheck::cloud_details(, "omu") for more info

checking examples ... ERROR ``` Running examples in ‘omu-Ex.R’ failed The error most likely occurred in:

Name: PCA_plot

Title: Create a PCA plot

Aliases: PCA_plot

** Examples

PCA_plot(count_data = c57_nos2KO_mouse_countDF, metadata = c57_nos2KO_mouse_metadata, + variable = "Treatment", color = "Treatment", response_variable = "Metabolite") Error in if (new_name %in% existing) { : argument is of length zero Calls: PCA_plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘Omu_vignette.Rmd’ using rmarkdown

Quitting from lines 97-104 [unnamed-chunk-4] (Omu_vignette.Rmd) Error: processing vignette 'Omu_vignette.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘Omu_vignette.Rmd’

SUMMARY: processing the following file failed: ‘Omu_vignette.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Omu_vignette.Rmd’ ...

library(knitr)

load("../data/c57_nos2KO_mouse_countDF.rda") Warning in readChar(con, 5L, useBytes = TRUE) : cannot open compressed file '../data/c57_nos2KO_mouse_countDF.rda', probable reason 'No such file or directory'

When sourcing ‘Omu_vignette.R’: Error: cannot open the connection Execution halted

‘Omu_vignette.Rmd’ using ‘UTF-8’... failed ```

OncoBayes2

Version: 0.8-9
GitHub: NA
Source code: https://github.com/cran/OncoBayes2
Date/Publication: 2023-07-20 18:40:05 UTC
Number of recursive dependencies: 100

Run revdepcheck::cloud_details(, "OncoBayes2") for more info

checking examples ... ERROR ``` Running examples in ‘OncoBayes2-Ex.R’ failed The error most likely occurred in:

Name: plot_blrm

Title: Plot a fitted model

Aliases: plot_blrm plot_toxicity_curve plot_toxicity_intervals

plot_toxicity_intervals_stacked plot_toxicity_curve.blrmfit

plot_toxicity_curve.blrm_trial plot_toxicity_intervals.blrmfit

plot_toxicity_intervals.blrm_trial

plot_toxicity_intervals_stacked.blrmfit

...

Plot the dose-toxicity curve

plot_toxicity_curve(blrmfit, + x = "drug_A", + group = ~ group_id * drug_B, + newdata = subset(dose_info_combo2, group_id == "trial_AB"), + facet_args = list(ncol = 4)) Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```

checking installed package size ... NOTE installed size is 76.7Mb sub-directories of 1Mb or more: libs 74.7Mb
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

oncomsm

Version: 0.1.4
GitHub: https://github.com/Boehringer-Ingelheim/oncomsm
Source code: https://github.com/cran/oncomsm
Date/Publication: 2023-04-17 07:00:02 UTC
Number of recursive dependencies: 126

Run revdepcheck::cloud_details(, "oncomsm") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(dplyr)

Attaching package: 'dplyr'

The following objects are masked from 'package:stats':
```
  filter, lag
```
... 10. └─grid::unit.c(legend.box.margin[4], widths, legend.box.margin[2]) 11. └─grid:::identicalUnits(x)

[ FAIL 1 | WARN 0 | SKIP 2 | PASS 59 ] Deleting unused snapshots: • plots/plot-mstate-srp-model-2.svg • plots/plot-mstate-srp-model-3.svg • plots/plot-srp-model-2.svg Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘avoiding-bias.Rmd’ ...

mdl <- create_srpmodel(A = define_srp_prior(median_t_q05 = c(1, + 4, 12), median_t_q95 = c(6, 8, 36), shape_q05 = c(0.99, 0.99, + 0.99), s .... [TRUNCATED]

plot(mdl, confidence = 0.9)

...

plot(mdl, parameter_sample = smpl_prior, confidence = 0.75)

When sourcing ‘oncomsm.R’: Error: object is not a unit Execution halted

‘avoiding-bias.Rmd’ using ‘UTF-8’... failed ‘oncomsm.Rmd’ using ‘UTF-8’... failed ‘prior-choice.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘avoiding-bias.Rmd’ using rmarkdown

Quitting from lines 35-46 [unnamed-chunk-2] (avoiding-bias.Rmd) Error: processing vignette 'avoiding-bias.Rmd' failed with diagnostics: object is not a unit --- failed re-building ‘avoiding-bias.Rmd’

--- re-building ‘oncomsm.Rmd’ using rmarkdown

Quitting from lines 211-215 [plotting-the-prior] (oncomsm.Rmd) Error: processing vignette 'oncomsm.Rmd' failed with diagnostics: object is not a unit --- failed re-building ‘oncomsm.Rmd’

--- re-building ‘prior-choice.Rmd’ using rmarkdown ```

checking installed package size ... NOTE installed size is 59.2Mb sub-directories of 1Mb or more: doc 1.1Mb libs 57.0Mb
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

OneSampleLogRankTest

Version: 0.9.2
GitHub: NA
Source code: https://github.com/cran/OneSampleLogRankTest
Date/Publication: 2024-02-03 12:30:15 UTC
Number of recursive dependencies: 106

Run revdepcheck::cloud_details(, "OneSampleLogRankTest") for more info

checking examples ... ERROR ``` Running examples in ‘OneSampleLogRankTest-Ex.R’ failed The error most likely occurred in:

Name: plotKM

Title: Plot Kaplan-Meier Curve against Population

Aliases: plotKM

** Examples

load data

data(dataSurv_small) data(dataPop_2018_2021)

plotKM(dataSurv_small, dataPop_2018_2021, type = "exact") Error in if (new_name %in% existing) { : argument is of length zero Calls: plotKM ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘oneSampleLogRankTest.Rmd’ ... $estimate std_mort_ratio_est lwr upr 1 1.531173 0.8302562 2.823816

plotKM(dataSurv, dataPop_2018_2021_race_sex_eth, type = "approximate")

When sourcing ‘oneSampleLogRankTest.R’: Error: argument is of length zero Execution halted

‘oneSampleLogRankTest.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘oneSampleLogRankTest.Rmd’ using rmarkdown

Quitting from lines 74-77 [unnamed-chunk-3] (oneSampleLogRankTest.Rmd) Error: processing vignette 'oneSampleLogRankTest.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘oneSampleLogRankTest.Rmd’

SUMMARY: processing the following file failed: ‘oneSampleLogRankTest.Rmd’

Error: Vignette re-building failed. Execution halted ```

onpoint

Version: 1.0.5
GitHub: https://github.com/r-spatialecology/onpoint
Source code: https://github.com/cran/onpoint
Date/Publication: 2024-01-10 14:03:06 UTC
Number of recursive dependencies: 72

Run revdepcheck::cloud_details(, "onpoint") for more info

checking examples ... ERROR ``` Running examples in ‘onpoint-Ex.R’ failed The error most likely occurred in:

Name: plot.env_summarized

Title: plot.env_summarized

Aliases: plot.env_summarized

** Examples

set.seed(42) ... 39.

Done.

x <- summarize_envelope(cluster_env) plot(x) Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```

ordbetareg

Version: 0.7.2
GitHub: https://github.com/saudiwin/ordbetareg_pack
Source code: https://github.com/cran/ordbetareg
Date/Publication: 2023-08-10 07:30:02 UTC
Number of recursive dependencies: 174

Run revdepcheck::cloud_details(, "ordbetareg") for more info

checking examples ... ERROR ``` Running examples in ‘ordbetareg-Ex.R’ failed The error most likely occurred in:

Name: pp_check_ordbeta

Title: Accurate Posterior Predictive Plots for Ordbetareg Models

Aliases: pp_check_ordbeta

** Examples

... 16. │ └─ggplot2 (local) setup_params(...) 17. │ └─ggplot2:::make_summary_fun(...) 18. │ └─rlang::as_function(fun.data) 19. │ └─base::get(x, envir = env, mode = "function") 20. └─base::.handleSimpleError(...) 21. └─rlang (local) h(simpleError(msg, call)) 22. └─handlers[1L] 23. └─cli::cli_abort(...) 24. └─rlang::abort(...) Execution halted ```

checking installed package size ... NOTE installed size is 8.1Mb sub-directories of 1Mb or more: data 7.5Mb
checking data for non-ASCII characters ... NOTE Note: found 36 marked UTF-8 strings

packcircles

Version: 0.3.6
GitHub: https://github.com/mbedward/packcircles
Source code: https://github.com/cran/packcircles
Date/Publication: 2023-09-08 06:30:02 UTC
Number of recursive dependencies: 57

Run revdepcheck::cloud_details(, "packcircles") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘progressive_packing.Rmd’ ...
- scale_fill_man .... [TRUNCATED]
if (requireNamespace("ggiraph")) { + gg <- ggplot(data = dat.gg) + ggiraph::geom_polygon_interactive(aes(x, + y, group = id, fill = fac .... [TRUNCATED] Loading required namespace: ggiraph

When sourcing ‘progressive_packing.R’: Error: argument is of length zero Execution halted

‘graph_packing.Rmd’ using ‘UTF-8’... OK ‘intro.Rmd’ using ‘UTF-8’... OK ‘progressive_packing.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘graph_packing.Rmd’ using rmarkdown --- finished re-building ‘graph_packing.Rmd’

--- re-building ‘intro.Rmd’ using rmarkdown ```

pafr

Version: 0.0.2
GitHub: https://github.com/dwinter/pafr
Source code: https://github.com/cran/pafr
Date/Publication: 2020-12-08 10:20:12 UTC
Number of recursive dependencies: 110

Run revdepcheck::cloud_details(, "pafr") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(pafr) Loading required package: ggplot2 > > test_check("pafr") [ FAIL 6 | WARN 2 | SKIP 0 | PASS 70 ]

... ── Failure ('test_plot.r:11:5'): dotplot works produces a plot ───────────────── unname(labs["xintercept"]) not equal to "xintercept". target is NULL, current is character ── Failure ('test_plot.r:12:5'): dotplot works produces a plot ───────────────── unname(labs["yintercept"]) not equal to "yintercept". target is NULL, current is character

[ FAIL 6 | WARN 2 | SKIP 0 | PASS 70 ] Error: Test failures Execution halted ```

checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory

patchwork

Version: 1.2.0
GitHub: https://github.com/thomasp85/patchwork
Source code: https://github.com/cran/patchwork
Date/Publication: 2024-01-08 14:40:02 UTC
Number of recursive dependencies: 80

Run revdepcheck::cloud_details(, "patchwork") for more info

checking examples ... ERROR ``` Running examples in ‘patchwork-Ex.R’ failed The error most likely occurred in:

Name: free

Title: Free a plot from alignment

Aliases: free

** Examples

Sometimes you have a plot that defies good composition alginment, e.g. due

... p1 / p2

We can fix this be using free

free(p1) / p2

We can still collect guides like before

free(p1) / p2 + plot_layout(guides = "collect") Error in identicalUnits(x) : object is not a unit Calls: ... assemble_guides -> guides_build -> unit.c -> identicalUnits Execution halted ```

pathviewr

Version: 1.1.7
GitHub: https://github.com/ropensci/pathviewr
Source code: https://github.com/cran/pathviewr
Date/Publication: 2023-03-08 08:10:05 UTC
Number of recursive dependencies: 182

Run revdepcheck::cloud_details(, "pathviewr") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(pathviewr) > #library(vdiffr) > > test_check("pathviewr") [ FAIL 2 | WARN 1 | SKIP 0 | PASS 286 ]

... ── Error ('test-plot_by_subject.R:168:3'): elev views wrangled correctly via tidyverse ── Error in expect_match(elev_all_plots[[3]][[4]][["labels"]][["x"]], "position_height"): is.character(act$val) is not TRUE Backtrace: ▆ 1. └─testthat::expect_match(...) at test-plot_by_subject.R:168:3 2. └─base::stopifnot(is.character(act$val))

[ FAIL 2 | WARN 1 | SKIP 0 | PASS 286 ] Error: Test failures Execution halted ```

patientProfilesVis

Version: 2.0.9
GitHub: https://github.com/openanalytics/patientProfilesVis
Source code: https://github.com/cran/patientProfilesVis
Date/Publication: 2024-06-18 09:00:02 UTC
Number of recursive dependencies: 102

Run revdepcheck::cloud_details(, "patientProfilesVis") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘patientProfiles-template-SDTM.Rmd’ ... > patientProfilesPlots <- c(patientProfilesPlots, list(MH = mhPlots))

cmPlots <- subjectProfileIntervalPlot(data = dataAll$CM, + paramVar = c("CMTRT", "CMDOSE", "CMDOSU", "CMROUTE", "CMDOSFRQ"), + timeStartVa .... [TRUNCATED] 171 record(s) with missing Study Day of Start of Medication and 208 record(s) with missing Study Day of End of Medication are imputed with minimal imputation.

... + paramVar = "AETERM", timeStartVar = "AESTDY", timeEndVar = "AEENDY", + colorVar = " ..." ... [TRUNCATED] 3 record(s) with missing Study Day of Start of Adverse Event and 19 record(s) with missing Study Day of End of Adverse Event are imputed with minimal imputation.

When sourcing ‘patientProfilesVis-introduction.R’: Error: argument is of length zero Execution halted

‘patientProfiles-template-SDTM.Rmd’ using ‘UTF-8’... failed ‘patientProfilesVis-introduction.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘patientProfiles-template-SDTM.Rmd’ using rmarkdown

Quitting from lines 129-153 [patientProfiles-concomitantMedications] (patientProfiles-template-SDTM.Rmd) Error: processing vignette 'patientProfiles-template-SDTM.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘patientProfiles-template-SDTM.Rmd’

--- re-building ‘patientProfilesVis-introduction.Rmd’ using rmarkdown ```

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(patientProfilesVis) > > test_check("patientProfilesVis") [ FAIL 100 | WARN 0 | SKIP 20 | PASS 145 ]

══ Skipped tests (20) ══════════════════════════════════════════════════════════ ... 11. └─patientProfilesVis (local) .fun(piece, ...) 12. └─ggplot2:::+.gg(...) 13. └─ggplot2:::add_ggplot(e1, e2, e2name) 14. ├─ggplot2::ggplot_add(object, p, objectname) 15. └─ggplot2:::ggplot_add.Layer(object, p, objectname) 16. └─ggplot2:::new_layer_names(object, names(plot$layers))

[ FAIL 100 | WARN 0 | SKIP 20 | PASS 145 ] Error: Test failures Execution halted ```
checking installed package size ... NOTE installed size is 5.7Mb sub-directories of 1Mb or more: doc 5.2Mb

PCADSC

Version: 0.8.0
GitHub: https://github.com/annepetersen1/PCADSC
Source code: https://github.com/cran/PCADSC
Date/Publication: 2017-04-19 10:07:43 UTC
Number of recursive dependencies: 35

Run revdepcheck::cloud_details(, "PCADSC") for more info

checking examples ... ERROR ``` Running examples in ‘PCADSC-Ex.R’ failed The error most likely occurred in:

Name: CEPlot

Title: Cumulative eigenvalue plot

Aliases: CEPlot

** Examples

load iris data

... CEPlot(irisPCADSC_fast) Warning: The guide argument in scale_*() cannot be FALSE. This was deprecated in ggplot2 3.3.4. ℹ Please use "none" instead. ℹ The deprecated feature was likely used in the PCADSC package. Please report the issue at https://github.com/annepetersen1/PCADSC/issues. Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```

checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘Matrix’ ‘pander’ All declared Imports should be used.
checking Rd cross-references ... NOTE Package unavailable to check Rd xrefs: ‘data.table’
checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory

pcutils

Version: 0.2.6
GitHub: https://github.com/Asa12138/pcutils
Source code: https://github.com/cran/pcutils
Date/Publication: 2024-06-25 21:20:05 UTC
Number of recursive dependencies: 281

Run revdepcheck::cloud_details(, "pcutils") for more info

checking examples ... ERROR ``` Running examples in ‘pcutils-Ex.R’ failed The error most likely occurred in:

Name: gghist

Title: gg histogram

Aliases: gghist

** Examples

if (requireNamespace("ggpubr")) { ... 12. │ └─ggplot2:::+.gg(...) 13. │ └─ggplot2:::add_ggplot(e1, e2, e2name) 14. │ ├─ggplot2::ggplot_add(object, p, objectname) 15. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 16. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 17. └─base::.handleSimpleError(...) 18. └─purrr (local) h(simpleError(msg, call)) 19. └─cli::cli_abort(...) 20. └─rlang::abort(...) Execution halted ```

pdxTrees

Version: 0.4.0
GitHub: https://github.com/mcconvil/pdxTrees
Source code: https://github.com/cran/pdxTrees
Date/Publication: 2020-08-17 14:00:02 UTC
Number of recursive dependencies: 105

Run revdepcheck::cloud_details(, "pdxTrees") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘pdxTrees-vignette.Rmd’ ...
- y = Pollution_Removal_value, color = Mature_Size)) + geom_point(size = 2,
- .... [TRUNCATED]
berkeley_graph + transition_states(states = Mature_Size, + transition_length = 10, state_length = 8) + enter_grow() + + exit_shrink()

When sourcing ‘pdxTrees-vignette.R’: Error: argument "theme" is missing, with no default Execution halted

‘pdxTrees-vignette.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘pdxTrees-vignette.Rmd’ using rmarkdown

checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory

personalized

Version: 0.2.7
GitHub: https://github.com/jaredhuling/personalized
Source code: https://github.com/cran/personalized
Date/Publication: 2022-06-27 20:20:03 UTC
Number of recursive dependencies: 94

Run revdepcheck::cloud_details(, "personalized") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > Sys.setenv("R_TESTS" = "") > library(testthat) > library(personalized) Loading required package: glmnet Loading required package: Matrix Loaded glmnet 4.1-8 Loading required package: mgcv ...
1. └─personalized:::plot.subgroup_validated(subgrp.val, type = "stability")
2. ├─plotly::subplot(...)
3. │ └─plotly:::dots2plots(...)
4. ├─plotly::ggplotly(p.primary, tooltip = paste0("tooltip", 1:4))
5. └─plotly:::ggplotly.ggplot(...)
6. └─plotly::gg2list(...)
[ FAIL 1 | WARN 2 | SKIP 0 | PASS 215 ] Error: Test failures Execution halted ```

phyloseqGraphTest

Version: 0.1.1
GitHub: https://github.com/jfukuyama/phyloseqGraphTest
Source code: https://github.com/cran/phyloseqGraphTest
Date/Publication: 2024-02-05 19:00:02 UTC
Number of recursive dependencies: 97

Run revdepcheck::cloud_details(, "phyloseqGraphTest") for more info

checking examples ... ERROR ``` Running examples in ‘phyloseqGraphTest-Ex.R’ failed The error most likely occurred in:

Name: plot_test_network

Title: Plots the graph used for testing

Aliases: plot_test_network

** Examples

library(phyloseq) ... plot_test_network(gt) Warning in fortify(data, ...) : Arguments in ... must be used. ✖ Problematic argument: • layout = layout ℹ Did you misspell an argument name? Error in grid.Call.graphics(C_segments, x$x0, x$y0, x$x1, x$y1, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.segments -> grid.Call.graphics Execution halted ```
checking running R code from vignettes ... ERROR `` Errors in running code in vignettes: when running code in ‘gt_vignette.Rmd’ ... > plot_test_network(gt) Warning in fortify(data, ...) : Arguments in...` must be used. ✖ Problematic argument: • layout = layout ℹ Did you misspell an argument name?

When sourcing ‘gt_vignette.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘gt_vignette.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘gt_vignette.Rmd’ using rmarkdown

Quitting from lines 175-176 [unnamed-chunk-5] (gt_vignette.Rmd) Error: processing vignette 'gt_vignette.Rmd' failed with diagnostics: invalid line type: must be length 2, 4, 6 or 8 --- failed re-building ‘gt_vignette.Rmd’

SUMMARY: processing the following file failed: ‘gt_vignette.Rmd’

Error: Vignette re-building failed. Execution halted ```

PieGlyph

Version: 1.0.0
GitHub: https://github.com/rishvish/PieGlyph
Source code: https://github.com/cran/PieGlyph
Date/Publication: 2024-06-28 12:00:02 UTC
Number of recursive dependencies: 91

Run revdepcheck::cloud_details(, "PieGlyph") for more info

checking examples ... ERROR ``` Running examples in ‘PieGlyph-Ex.R’ failed The error most likely occurred in:

Name: geom_pie_interactive

Title: Scatter plots with interactive pie-chart glyphs

Aliases: geom_pie_interactive

** Examples

' ## Load libraries

...

One of the interactive aesthetics is tooltip. It is set that by default

it shows the value and percentage of each slice in the pie-chart.

Hover over any pie-chart in the plot to see this

plot_obj1 <- ggplot(data = plot_data, aes(x = system, y = response)) + + geom_pie_interactive(slices = c("A", "B", "C", "D"), + data = plot_data)+ + theme_classic() Error in if (new_name %in% existing) { : argument is of length zero Calls: +.gg ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR Running ‘spelling.R’ Running ‘testthat.R’ 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 ... • geom_pie_interactive/custom-tooltip.svg • geom_pie_interactive/data-id.svg • geom_pie_interactive/long-form-data-works.svg • geom_pie_interactive/multiple-interactive-parameters.svg • geom_pie_interactive/only-one-attribute.svg • pie-grob/pie-grob-with-multiple-values-no-fill-works.svg • pie-grob/pie-grob-with-single-non-zero-value-no-fill-works.svg • pie-grob/pie-grob-with-single-non-zero-value-works.svg Error: Test failures Execution halted
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘PieGlyph.Rmd’ using rmarkdown

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘PieGlyph.Rmd’ ...
- geom_pie_glyph(slices = "Attributes", values = "values") +
- theme_cla .... [TRUNCATED]
plot_obj <- ggplot(data = plot_data) + geom_pie_interactive(aes(x = system, + y = response, data_id = system), slices = c("A", "B", "C", + .... [TRUNCATED]

... before plotting. Execution halted

‘PieGlyph.Rmd’ using ‘UTF-8’... failed ‘interactive-pie-glyphs.Rmd’ using ‘UTF-8’... failed ‘multinomial-classification-example.Rmd’ using ‘UTF-8’... OK ‘pie-lollipop-example.Rmd’ using ‘UTF-8’... OK ‘spatial-example.Rmd’ using ‘UTF-8’... OK ‘time-series-example.Rmd’ using ‘UTF-8’... failed ‘unusual-situations.Rmd’ using ‘UTF-8’... failed ```

Plasmidprofiler

Version: 0.1.6
GitHub: NA
Source code: https://github.com/cran/Plasmidprofiler
Date/Publication: 2017-01-06 01:10:47
Number of recursive dependencies: 90

Run revdepcheck::cloud_details(, "Plasmidprofiler") for more info

checking examples ... ERROR ``` Running examples in ‘Plasmidprofiler-Ex.R’ failed The error most likely occurred in:

Name: main

Title: Main: Run everything

Aliases: main

** Examples

main(blastdata, ... Saving 12 x 7 in image Warning: Vectorized input to element_text() is not officially supported. ℹ Results may be unexpected or may change in future versions of ggplot2. Warning in geom_tile(aes(x = Plasmid, y = Sample, label = AMR_gene, fill = Inc_group, : Ignoring unknown aesthetics: label and text Warning: Use of report$Sureness is discouraged. ℹ Use Sureness instead. Error in pm[[2]] : subscript out of bounds Calls: main ... -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ```

platetools

Version: 0.1.7
GitHub: https://github.com/swarchal/platetools
Source code: https://github.com/cran/platetools
Date/Publication: 2024-03-07 16:50:02 UTC
Number of recursive dependencies: 48

Run revdepcheck::cloud_details(, "platetools") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(platetools) > > test_check("platetools") [ FAIL 2 | WARN 1 | SKIP 4 | PASS 187 ]

══ Skipped tests (4) ═══════════════════════════════════════════════════════════ ... length(out96) not equal to length(ggplot()). 1/1 mismatches [1] 11 - 10 == 1 ── Failure ('test-plot_wrapper.R:34:5'): returns expected ggplot object ──────── names(out96) not equal to names(ggplot()). Lengths differ: 11 is not 10

[ FAIL 2 | WARN 1 | SKIP 4 | PASS 187 ] Error: Test failures Execution halted ```

PLNmodels

Version: 1.2.0
GitHub: https://github.com/pln-team/PLNmodels
Source code: https://github.com/cran/PLNmodels
Date/Publication: 2024-03-05 15:50:03 UTC
Number of recursive dependencies: 155

Run revdepcheck::cloud_details(, "PLNmodels") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘PLNPCA.Rmd’ ... 3 "$contrib" "contributions of the individuals"

factoextra::fviz_pca_biplot(myPCA_ICL)

When sourcing ‘PLNPCA.R’: Error: ℹ In index: 1. ℹ With name: y. ... ! argument is of length zero Execution halted

‘Import_data.Rmd’ using ‘UTF-8’... OK ‘PLN.Rmd’ using ‘UTF-8’... OK ‘PLNLDA.Rmd’ using ‘UTF-8’... OK ‘PLNPCA.Rmd’ using ‘UTF-8’... failed ‘PLNmixture.Rmd’ using ‘UTF-8’... failed ‘PLNnetwork.Rmd’ using ‘UTF-8’... OK ‘Trichoptera.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘Import_data.Rmd’ using rmarkdown --- finished re-building ‘Import_data.Rmd’

--- re-building ‘PLN.Rmd’ using rmarkdown ```

checking installed package size ... NOTE installed size is 26.0Mb sub-directories of 1Mb or more: R 1.0Mb data 3.5Mb doc 2.1Mb libs 18.6Mb

plotBart

Version: 0.1.7
GitHub: https://github.com/priism-center/plotBart
Source code: https://github.com/cran/plotBart
Date/Publication: 2022-05-27 07:50:06 UTC
Number of recursive dependencies: 94

Run revdepcheck::cloud_details(, "plotBart") for more info

checking tests ... ERROR Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(vdiffr) > library(plotBart) Loading required package: bartCause Loading required package: ggplot2 > > test_check("plotBart") # run tests ... • plots/mod-search.svg • plots/overlappscoresdensity.svg • plots/overlapvarsdensity.svg • plots/pate.svg • plots/sate.svg • plots/supportchi.svg • plots/supportsd.svg • plots/waterfall2.svg Error: Test failures Execution halted

plotDK

Version: 0.1.0
GitHub: NA
Source code: https://github.com/cran/plotDK
Date/Publication: 2021-10-01 08:00:02 UTC
Number of recursive dependencies: 86

Run revdepcheck::cloud_details(, "plotDK") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(plotDK) > > test_check("plotDK") [ FAIL 2 | WARN 0 | SKIP 0 | PASS 46 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ... Error in expect_setequal(c("x", "y", "group", "subgroup", "text", "fill"), names(labels)): object and expected must both be vectors Backtrace: ▆ 1. └─testthat::expect_setequal(c("x", "y", "group", "subgroup", "text", "fill"), names(labels)) at test-plotDK.R:67:5 2. └─rlang::abort("object and expected must both be vectors")

[ FAIL 2 | WARN 0 | SKIP 0 | PASS 46 ] Error: Test failures Execution halted ```

checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘mapproj’ All declared Imports should be used.
checking data for non-ASCII characters ... NOTE Note: found 12992 marked UTF-8 strings

plotly

Version: 4.10.4
GitHub: https://github.com/plotly/plotly.R
Source code: https://github.com/cran/plotly
Date/Publication: 2024-01-13 22:40:02 UTC
Number of recursive dependencies: 148

Run revdepcheck::cloud_details(, "plotly") for more info

checking examples ... ERROR ``` Running examples in ‘plotly-Ex.R’ failed The error most likely occurred in:

Name: style

Title: Modify trace(s)

Aliases: style

** Examples

Don't show:

... + # this clobbers the previously supplied marker.line.color + style(p, marker.line = list(width = 2.5), marker.size = 10) + ## Don't show: + }) # examplesIf (p <- ggplotly(qplot(data = mtcars, wt, mpg, geom = c("point", "smooth")))) Warning: qplot() was deprecated in ggplot2 3.4.0. geom_smooth() using method = 'loess' and formula = 'y ~ x' Error in pm[[2]] : subscript out of bounds Calls: ... eval -> eval -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library("testthat") > library("plotly") Loading required package: ggplot2

Attaching package: 'plotly'

The following object is masked from 'package:ggplot2': ... • plotly-subplot/subplot-bump-axis-annotation.svg • plotly-subplot/subplot-bump-axis-image.svg • plotly-subplot/subplot-bump-axis-shape-shared.svg • plotly-subplot/subplot-bump-axis-shape.svg • plotly-subplot/subplot-reposition-annotation.svg • plotly-subplot/subplot-reposition-image.svg • plotly-subplot/subplot-reposition-shape-fixed.svg • plotly-subplot/subplot-reposition-shape.svg Error: Test failures Execution halted ```

checking installed package size ... NOTE installed size is 7.1Mb sub-directories of 1Mb or more: R 1.0Mb htmlwidgets 4.0Mb

pmartR

Version: 2.4.5
GitHub: https://github.com/pmartR/pmartR
Source code: https://github.com/cran/pmartR
Date/Publication: 2024-05-21 15:50:02 UTC
Number of recursive dependencies: 148

Run revdepcheck::cloud_details(, "pmartR") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(pmartR) > > test_check("pmartR") [ FAIL 1 | WARN 1 | SKIP 11 | PASS 2375 ]

══ Skipped tests (11) ══════════════════════════════════════════════════════════ ... • plots/plot-spansres-color-high-color-low.svg • plots/plot-spansres.svg • plots/plot-statres-anova-volcano.svg • plots/plot-statres-anova.svg • plots/plot-statres-combined-volcano.svg • plots/plot-statres-combined.svg • plots/plot-statres-gtest.svg • plots/plot-totalcountfilt.svg Error: Test failures Execution halted ```

checking installed package size ... NOTE installed size is 10.8Mb sub-directories of 1Mb or more: R 1.5Mb help 1.5Mb libs 6.7Mb

pmxTools

Version: 1.3
GitHub: https://github.com/kestrel99/pmxTools
Source code: https://github.com/cran/pmxTools
Date/Publication: 2023-02-21 16:00:08 UTC
Number of recursive dependencies: 85

Run revdepcheck::cloud_details(, "pmxTools") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(pmxTools) Loading required package: patchwork > > test_check("pmxTools") [ FAIL 1 | WARN 1 | SKIP 12 | PASS 110 ]

... 24. └─handlers[1L] 25. └─cli::cli_abort(...) 26. └─rlang::abort(...)

[ FAIL 1 | WARN 1 | SKIP 12 | PASS 110 ] Deleting unused snapshots: • plot/conditioned-distplot.svg • plot/perc.svg Error: Test failures Execution halted ```

checking Rd cross-references ... NOTE Package unavailable to check Rd xrefs: ‘DiagrammeR’

posterior

Version: 1.6.0
GitHub: https://github.com/stan-dev/posterior
Source code: https://github.com/cran/posterior
Date/Publication: 2024-07-03 23:00:02 UTC
Number of recursive dependencies: 119

Run revdepcheck::cloud_details(, "posterior") for more info

checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘pareto_diagnostics.Rmd’ using rmarkdown --- finished re-building ‘pareto_diagnostics.Rmd’

--- re-building ‘posterior.Rmd’ using rmarkdown --- finished re-building ‘posterior.Rmd’

--- re-building ‘rvar.Rmd’ using rmarkdown

Quitting from lines 530-533 [mixture] (rvar.Rmd) ... NULL, NULL, NULL, NULL, list(NULL, NA, NULL, NULL, TRUE), NULL, 2, NULL, NULL, NULL, 1.2, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.2, NULL, list(NULL, NULL, NULL, 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, "right", NULL, NULL, NULL, "center", NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0, list(), 2, list("grey92", NA, NULL, NULL, TRUE), list(), NULL, NULL, NULL, list("white", NULL, NULL, NULL, FALSE, "white", TRUE), NULL, list(NULL, 0.5, NULL, NULL, FALSE, NULL, TRUE), NULL, NULL, NULL, NULL, FALSE, list(NULL, "white", NULL, NULL, TRUE), list(NULL, NULL, NULL, 1.2, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, NULL, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), list(NULL, NULL, NULL, 0.8, 1, 1, NULL, NULL, c(5.5, 0, 0, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, 1.2, 0.5, 0.5, NULL, NULL, NULL, NULL, TRUE), "topleft", NULL, NULL, list("grey85", NA, NULL, NULL, TRUE), NULL, NULL, "on", "inside", list(NULL, NULL, "grey10", 0.8, NULL, NULL, NULL, NULL, c(4.4, 4.4, 4.4, 4.4), NULL, TRUE), NULL, NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, NULL, -90, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, 90, NULL, NULL, NULL, TRUE), NULL, 2.75, 2.75)) --- failed re-building ‘rvar.Rmd’

SUMMARY: processing the following file failed: ‘rvar.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘rvar.Rmd’ ... > y rvar<4000>[3] mean ± sd: [1] 3.00 ± 1.00 2.02 ± 0.99 0.96 ± 0.99

X + y

When sourcing ‘rvar.R’: Error: Cannot broadcast array of shape [4000,3,1] to array of shape [4000,4,3]: All dimensions must be 1 or equal. Execution halted

‘pareto_diagnostics.Rmd’ using ‘UTF-8’... OK ‘posterior.Rmd’ using ‘UTF-8’... OK ‘rvar.Rmd’ using ‘UTF-8’... failed ```

PPQplan

Version: 1.1.0
GitHub: https://github.com/allenzhuaz/PPQplan
Source code: https://github.com/cran/PPQplan
Date/Publication: 2020-10-08 04:30:06 UTC
Number of recursive dependencies: 119

Run revdepcheck::cloud_details(, "PPQplan") for more info

checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘PPQnote.Rmd’ using rmarkdown --- finished re-building ‘PPQnote.Rmd’

--- re-building ‘PPQplan-vignette.Rmd’ using rmarkdown ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘PPQplan-vignette.Rmd’ ...

devtools::load_all()

When sourcing ‘PPQplan-vignette.R’: Error: Could not find a root 'DESCRIPTION' file that starts with '^Package' in '/tmp/RtmpeoIsxA/file11156538c652/vignettes'. ℹ Are you in your project directory and does your project have a 'DESCRIPTION' file? Execution halted

‘PPQnote.Rmd’ using ‘UTF-8’... OK ‘PPQplan-vignette.Rmd’ using ‘UTF-8’... failed ```
checking installed package size ... NOTE installed size is 12.1Mb sub-directories of 1Mb or more: doc 12.0Mb
checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory

ppseq

Version: 0.2.5
GitHub: https://github.com/zabore/ppseq
Source code: https://github.com/cran/ppseq
Date/Publication: 2024-09-04 22:20:02 UTC
Number of recursive dependencies: 104

Run revdepcheck::cloud_details(, "ppseq") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘one_sample_expansion.Rmd’ ...

ptest <- plot(one_sample_cal_tbl, type1_range = c(0.05, + 0.1), minimum_power = 0.7, plotly = TRUE)

...

ptest <- plot(two_sample_cal_tbl, type1_range = c(0.05, + 0.1), minimum_power = 0.7, plotly = TRUE)

When sourcing ‘two_sample_randomized.R’: Error: subscript out of bounds Execution halted

‘one_sample_expansion.Rmd’ using ‘UTF-8’... failed ‘two_sample_randomized.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘one_sample_expansion.Rmd’ using rmarkdown

Quitting from lines 183-188 [unnamed-chunk-13] (one_sample_expansion.Rmd) Error: processing vignette 'one_sample_expansion.Rmd' failed with diagnostics: subscript out of bounds --- failed re-building ‘one_sample_expansion.Rmd’

--- re-building ‘two_sample_randomized.Rmd’ using rmarkdown ... Quitting from lines 179-184 [unnamed-chunk-13] (two_sample_randomized.Rmd) Error: processing vignette 'two_sample_randomized.Rmd' failed with diagnostics: subscript out of bounds --- failed re-building ‘two_sample_randomized.Rmd’

SUMMARY: processing the following files failed: ‘one_sample_expansion.Rmd’ ‘two_sample_randomized.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking installed package size ... NOTE installed size is 11.0Mb sub-directories of 1Mb or more: doc 10.5Mb

PPtreeregViz

Version: 2.0.5
GitHub: https://github.com/sunsmiling/PPtreeregViz
Source code: https://github.com/cran/PPtreeregViz
Date/Publication: 2022-12-23 19:20:05 UTC
Number of recursive dependencies: 125

Run revdepcheck::cloud_details(, "PPtreeregViz") for more info

checking examples ... ERROR ``` Running examples in ‘PPtreeregViz-Ex.R’ failed The error most likely occurred in:

Name: PPregNodeViz

Title: Node visualization

Aliases: PPregNodeViz

Keywords: tree

** Examples

data(dataXY) Model <- PPTreereg(Y~., data = dataXY, DEPTH = 2) PPregNodeViz(Model,node.id=1) Error in if (new_name %in% existing) { : argument is of length zero Calls: PPregNodeViz ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘PPtreeregViz.Rmd’ ...

plot(Tree.Imp)

plot(Tree.Imp, marginal = TRUE, num_var = 5)

PPregNodeViz(Model, node.id = 1)

When sourcing ‘PPtreeregViz.R’: Error: argument is of length zero Execution halted

‘PPtreeregViz.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘PPtreeregViz.Rmd’ using rmarkdown

checking C++ specification ... NOTE Specified C++11: please drop specification unless essential

precintcon

Version: 2.3.0
GitHub: https://github.com/lucasvenez/precintcon
Source code: https://github.com/cran/precintcon
Date/Publication: 2016-07-17 13:49:19
Number of recursive dependencies: 28

Run revdepcheck::cloud_details(, "precintcon") for more info

checking examples ... ERROR ``` Running examples in ‘precintcon-Ex.R’ failed The error most likely occurred in:

Name: pplot.deciles

Title: Plot deciles

Aliases: pplot.deciles precintcon.plot.deciles

Keywords: deciles precipitation

** Examples

... 9. │ └─layout$setup(data, plot$data, plot$plot_env) 10. │ └─ggplot2 (local) setup(..., self = self) 11. │ └─base::lapply(...) 12. │ └─ggplot2 (local) FUN(X[[i]], ...) 13. │ └─ggplot2::map_data(...) 14. │ └─vctrs::vec_slice(data, facet_vals$.index) 15. └─vctrs:::stop_scalar_type(<fn>(<df[,11]>), "x", <env>) 16. └─vctrs:::stop_vctrs(...) 17. └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call) Execution halted ```

precrec

Version: 0.14.4
GitHub: https://github.com/evalclass/precrec
Source code: https://github.com/cran/precrec
Date/Publication: 2023-10-11 22:10:02 UTC
Number of recursive dependencies: 71

Run revdepcheck::cloud_details(, "precrec") for more info

checking running R code from vignettes ... ERROR `` Errors in running code in vignettes: when running code in ‘introduction.Rmd’ ... > autoplot(mscurves) Warning in ggplot2::fortify(object, raw_curves = raw_curves, reduce_points = reduce_points) : Arguments in...` must be used. ✖ Problematic argument: • raw_curves = raw_curves ℹ Did you misspell an argument name?

When sourcing ‘introduction.R’: Error: object is not a unit Execution halted

‘introduction.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘introduction.Rmd’ using rmarkdown

checking installed package size ... NOTE installed size is 6.6Mb sub-directories of 1Mb or more: libs 4.3Mb

priorsense

Version: 1.0.2
GitHub: NA
Source code: https://github.com/cran/priorsense
Date/Publication: 2024-07-16 10:30:02 UTC
Number of recursive dependencies: 113

Run revdepcheck::cloud_details(, "priorsense") for more info

checking examples ... ERROR ``` Running examples in ‘priorsense-Ex.R’ failed The error most likely occurred in:

Name: powerscale_plots

Title: Diagnostic plots for power-scaling sensitivity

Aliases: powerscale_plots powerscale_plot_dens powerscale_plot_ecdf

powerscale_plot_ecdf.powerscaled_sequence powerscale_plot_quantities

powerscale_plot_quantities.powerscaled_sequence

** Examples

ex <- example_powerscale_model()

powerscale_plot_dens(ex$draws) Error in use_defaults(..., self = self) : unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(), NULL, Calls: ... -> -> compute_geom_2 -> Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘powerscaling.Rmd’ ... 1 mu 0.435 0.644 prior-data conflict 2 sigma 0.361 0.677 prior-data conflict

powerscale_plot_dens(fit, variable = "mu", facet_rows = "variable")

When sourcing ‘powerscaling.R’: Error: unused argument (theme = list(list("black", 0.545454545454545, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.545454545454545, 1, TRUE), list("sans", "plain", "black", 12, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.545454545454545, 0.545454545454545, 1, 1, "sans", 4.21751764217518, 1.63636363636364, 19, TRUE), 6, c(6, 6, 6, 6), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(3, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 3, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 3, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 3), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.4, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NU Execution halted

‘powerscaling.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘powerscaling.Rmd’ using rmarkdown

Quitting from lines 124-125 [unnamed-chunk-7] (powerscaling.Rmd) Error: processing vignette 'powerscaling.Rmd' failed with diagnostics: unused argument (theme = list(list("black", 0.545454545454545, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.545454545454545, 1, TRUE), list("sans", "plain", "black", 12, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.545454545454545, 0.545454545454545, 1, 1, "sans", 4.21751764217518, 1.63636363636364, 19, TRUE), 6, c(6, 6, 6, 6), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(3, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 3, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 3, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 3), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.4, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.4, 0), NULL, TRUE), NULL, list(), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, c(0, 0, 0, 2.4), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0.5, NULL, NULL, NULL, c(0, 2.4, 0, 2.4), NULL, TRUE), list("grey20", 0.3, NULL, NULL, FALSE, "grey20", FALSE), NULL, NULL, NULL, list(), NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.5, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.75, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, list(NULL, 0.4, NULL, NULL, FALSE, NULL, FALSE), NULL, NULL, NULL, list(), NULL, NULL, NULL, NULL, list(), NULL, 2, NULL, NULL, list(), 1.2, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.2, NULL, list(NULL, NULL, NULL, 13, 0, NULL, NULL, NULL, NULL, NULL, FALSE), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, "right", NULL, NULL, NULL, "center", NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0, list(), 2, list(), list(), 1.5, NULL, NULL, list(), NULL, list(NULL, 0.5, NULL, NULL, FALSE, NULL, TRUE), NULL, NULL, NULL, NULL, FALSE, list(), list(NULL, NULL, NULL, 1.2, 0, 1, NULL, NULL, c(0, 0, 6, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, NULL, 0, 1, NULL, NULL, c(0, 0, 6, 0), NULL, TRUE), list(NULL, NULL, NULL, 0.8, 1, 1, NULL, NULL, c(6, 0, 0, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, 1.2, 0.5, 0.5, NULL, NULL, NULL, NULL, TRUE), "topleft", NULL, NULL, list(), NULL, NULL, "on", "outside", list(NULL, NULL, "grey10", 0.9, NULL, NULL, NULL, NULL, c(4.8, 4.8, 4.8, 4.8), NULL, FALSE), NULL, NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, NULL, -90, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, 90, NULL, NULL, NULL, TRUE), NULL, 3, 3, list(), list(NULL, NULL, NULL, NULL, FALSE, NULL, TRUE), list(NULL, NULL, NULL, NULL, FALSE, NULL, TRUE), list(NULL, NULL, NULL, NULL, FALSE, NULL, TRUE), list(NULL, NULL, NULL, NULL, 0.5, 0.5, 0, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), 0.666666666666667, 0.333333333333333)) --- failed re-building ‘powerscaling.Rmd’

SUMMARY: processing the following file failed: ‘powerscaling.Rmd’

Error: Vignette re-building failed. Execution halted ```

probably

Version: 1.0.3
GitHub: https://github.com/tidymodels/probably
Source code: https://github.com/cran/probably
Date/Publication: 2024-02-23 03:20:02 UTC
Number of recursive dependencies: 132

Run revdepcheck::cloud_details(, "probably") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ 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/tests.html > # * https://testthat.r-lib.org/reference/test_package.html#special-files ...

actual$ymin is absent expected$ymin is a character vector ('lower')

actual$ymax is absent expected$ymax is a character vector ('upper')

[ FAIL 2 | WARN 0 | SKIP 46 | PASS 466 ] Error: Test failures Execution halted ```

processmapR

Version: 0.5.5
GitHub: https://github.com/bupaverse/processmapr
Source code: https://github.com/cran/processmapR
Date/Publication: 2024-08-30 13:10:02 UTC
Number of recursive dependencies: 118

Run revdepcheck::cloud_details(, "processmapR") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(processmapR)

Attaching package: 'processmapR'

The following object is masked from 'package:stats':

... 10. └─processmapR:::return_plotly(p, plotly) 11. ├─plotly::ggplotly(p) 12. └─plotly:::ggplotly.ggplot(p) 13. └─plotly::gg2list(...) ── Failure ('test_trace_explorer.R:240:3'): test trace_explorer on eventlog with param plotly ── chart inherits from 'gg'/'ggplot' not 'plotly'.

[ FAIL 6 | WARN 0 | SKIP 10 | PASS 107 ] Error: Test failures Execution halted ```

projpred

Version: 2.8.0
GitHub: https://github.com/stan-dev/projpred
Source code: https://github.com/cran/projpred
Date/Publication: 2023-12-15 00:00:02 UTC
Number of recursive dependencies: 157

Run revdepcheck::cloud_details(, "projpred") for more info

checking examples ... ERROR ``` Running examples in ‘projpred-Ex.R’ failed The error most likely occurred in:

Name: as.matrix.projection

Title: Extract projected parameter draws and coerce to matrix

Aliases: as.matrix.projection

** Examples

Don't show:

... 2 X1 1.70 0.155 1.40 1.97 3 X3 0.924 0.266 0.560 1.45 4 X5 -1.21 0.111 -1.53 -0.602 5 sigma 2.01 0.183 1.83 2.35 if (requireNamespace("bayesplot", quietly = TRUE)) { + print(bayesplot::mcmc_intervals(prj_mat)) + } Error in if (new_name %in% existing) { : argument is of length zero Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘projpred.Rmd’ ...

bayesplot_theme_set(ggplot2::theme_bw())

mcmc_intervals(prj_mat) + ggplot2::coord_cartesian(xlim = c(-1.5, + 1.6))

When sourcing ‘projpred.R’: Error: argument is of length zero Execution halted

‘latent.Rmd’ using ‘UTF-8’... OK ‘projpred.Rmd’ using ‘UTF-8’... failed ```

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(projpred) This is projpred version 2.8.0. NOTE: In projpred 2.7.0, the default search method was set to "forward" (for all kinds of models). > > test_check("projpred") Warning in check_dep_version() : ABI version mismatch: ...
1. │ └─methods (local) <rfMthdDf>(...)
2. │ └─methods::new(def, ...)
3. │ ├─methods::initialize(value, ...)
4. │ └─methods::initialize(value, ...)
5. │ └─.Object$initialize(...)
6. │ └─lme4 (local) initializePtr()
7. └─base::.handleSimpleError(...)
8. └─testthat (local) h(simpleError(msg, call))
9. └─rlang::abort(...) Execution halted ```
checking installed package size ... NOTE installed size is 5.5Mb sub-directories of 1Mb or more: doc 1.4Mb libs 3.1Mb

psborrow

Version: 0.2.1
GitHub: NA
Source code: https://github.com/cran/psborrow
Date/Publication: 2023-03-03 10:30:07 UTC
Number of recursive dependencies: 108

Run revdepcheck::cloud_details(, "psborrow") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(psborrow) > > test_check("psborrow") [ FAIL 10 | WARN 0 | SKIP 1 | PASS 142 ]

══ Skipped tests (1) ═══════════════════════════════════════════════════════════ ... expected is a character vector ('ref') ── Failure ('test-plots.R:126:5'): Ensure output is producing a ggplot2 object with appropriate parameters ── p1$labels$yintercept (actual) not equal to "ref" (expected).

actual is NULL expected is a character vector ('ref')

[ FAIL 10 | WARN 0 | SKIP 1 | PASS 142 ] Error: Test failures Execution halted ```

pubh

Version: 1.3.7
GitHub: https://github.com/josie-athens/pubh
Source code: https://github.com/cran/pubh
Date/Publication: 2024-08-17 02:20:02 UTC
Number of recursive dependencies: 187

Run revdepcheck::cloud_details(, "pubh") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘introduction.Rmd’ ... ─────────────────────────────────────────────────────────────── R2 = 0.123

Column names: Parameter, Coefficient, Pr(>|t|)

multiple(model_bwt, ~race)$df

...

gf_labs(gf_facet_wrap(gf_errorbar(gf_point(estimate_means(model_norm, + c("race", "smoke")), Mean ~ race), CI_low + CI_high ~ race, + widt .... [TRUNCATED]

When sourcing ‘regression.R’: Error: argument is of length zero Execution halted

‘introduction.Rmd’ using ‘UTF-8’... failed ‘regression.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘introduction.Rmd’ using rmarkdown

checking examples ... ERROR ``` Running examples in ‘pubh-Ex.R’ failed The error most likely occurred in:

Name: Kirkwood

Title: Body weight and plasma volume.

Aliases: Kirkwood

Keywords: datasets

** Examples

data(Kirkwood)

Kirkwood |> + gf_point(volume ~ weight) |> + gf_lm(col = "indianred3", interval = "confidence", fill = "indianred3") Error in if (new_name %in% existing) { : argument is of length zero Calls: gf_lm ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

PUPMSI

Version: 0.1.0
GitHub: NA
Source code: https://github.com/cran/PUPMSI
Date/Publication: 2022-05-31 10:50:04 UTC
Number of recursive dependencies: 32

Run revdepcheck::cloud_details(, "PUPMSI") for more info

checking examples ... ERROR ``` Running examples in ‘PUPMSI-Ex.R’ failed The error most likely occurred in:

Name: BradleyMSI

Title: Bradley Moisture Sorption Isotherm

Aliases: BradleyMSI

** Examples

WaterAct <- c(0.1145,0.2274,0.3265,0.4291,0.6342,0.7385,0.8274,0.9573) ... Adsorption 0.002148893 0.001891231 4.617743e-06 0.04298251 7.517135e-18 Desorption 0.004371350 0.003905913 1.910870e-05 0.10015162 3.122502e-17 Constants of Bradley Sorption Model Isotherm k1 k2 Adsorption 1.752876e-10 3.525154 Desorption 3.920525e-12 8.480898 Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: BradleyMSI -> BradleyMSIPlot Execution halted ```

qacBase

Version: 1.0.3
GitHub: https://github.com/rkabacoff/qacBase
Source code: https://github.com/cran/qacBase
Date/Publication: 2022-02-09 22:20:02 UTC
Number of recursive dependencies: 99

Run revdepcheck::cloud_details(, "qacBase") for more info

checking examples ... ERROR ``` Running examples in ‘qacBase-Ex.R’ failed The error most likely occurred in:

Name: scatter

Title: Scatterplot

Aliases: scatter

** Examples

scatter(cars74, hp, mpg) scatter(cars74, wt, hp) p <- scatter(ggplot2::mpg, displ, hwy, + margin="histogram", + title="Engine Displacement vs. Highway Mileage") Error in if (new_name %in% existing) { : argument is of length zero Calls: scatter ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

qPCRhelper

Version: 0.1.0
GitHub: NA
Source code: https://github.com/cran/qPCRhelper
Date/Publication: 2023-02-23 14:00:08 UTC
Number of recursive dependencies: 88

Run revdepcheck::cloud_details(, "qPCRhelper") for more info

checking examples ... ERROR ``` Running examples in ‘qPCRhelper-Ex.R’ failed The error most likely occurred in:

Name: qPCRhelper

Title: qPCRhelper

Aliases: qPCRhelper

** Examples

Create sample table with expected 'Sample', 'Group', and gene Ct columns

... 11. │ └─ggplot2:::+.gg(...) 12. │ └─ggplot2:::add_ggplot(e1, e2, e2name) 13. │ ├─ggplot2::ggplot_add(object, p, objectname) 14. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 15. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 16. └─base::.handleSimpleError(...) 17. └─purrr (local) h(simpleError(msg, call)) 18. └─cli::cli_abort(...) 19. └─rlang::abort(...) Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘qPCRhelper.Rmd’ ...
- ref.gene = "GAPDH", ref.group = "Control") Warning in (function (mapping = NULL, data = NULL, geom = "boxplot", position = "dodge2", : Ignoring unknown aesthetics: fill
When sourcing ‘qPCRhelper.R’: Error: ℹ In index: 1. ℹ With name: log2RelExp. Caused by error in if (new_name %in% existing) ...: ! argument is of length zero Execution halted

‘qPCRhelper.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘qPCRhelper.Rmd’ using rmarkdown

Quitting from lines 18-29 [setup] (qPCRhelper.Rmd) Error: processing vignette 'qPCRhelper.Rmd' failed with diagnostics: ℹ In index: 1. ℹ With name: log2RelExp. Caused by error in if (new_name %in% existing) ...: ! argument is of length zero --- failed re-building ‘qPCRhelper.Rmd’

SUMMARY: processing the following file failed: ‘qPCRhelper.Rmd’

Error: Vignette re-building failed. Execution halted ```

r2dii.plot

Version: 0.4.0
GitHub: https://github.com/RMI-PACTA/r2dii.plot
Source code: https://github.com/cran/r2dii.plot
Date/Publication: 2024-02-29 16:40:02 UTC
Number of recursive dependencies: 91

Run revdepcheck::cloud_details(, "r2dii.plot") for more info

checking tests ... ERROR `` Running ‘spelling.R’ Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(r2dii.plot) > > test_check("r2dii.plot") Scale for colour is already present. Adding another scale for colour, which will replace the existing scale. ...expectedis a character vector ('year') ── Failure ('test-plot_trajectory.R:41:3'): outputs default axis labels ──────── p$labels$y (actual) not equal to "value" (expected`).

actual is NULL expected is a character vector ('value')

[ FAIL 2 | WARN 2 | SKIP 40 | PASS 122 ] Error: Test failures Execution halted ```

r2spss

Version: 0.3.2
GitHub: https://github.com/aalfons/r2spss
Source code: https://github.com/cran/r2spss
Date/Publication: 2022-05-25 11:00:08 UTC
Number of recursive dependencies: 64

Run revdepcheck::cloud_details(, "r2spss") for more info

checking examples ... ERROR ``` Running examples in ‘r2spss-Ex.R’ failed The error most likely occurred in:

Name: ANOVA

Title: One-way and Two-way ANOVA

Aliases: ANOVA to_SPSS.ANOVA_SPSS print.ANOVA_SPSS plot.ANOVA_SPSS

Keywords: htest

** Examples

... \arrayrulecolor{darkgraySPSS}\hline Total & 495.474 & 416 & & & \ \arrayrulecolor{black}\hline \noalign{\smallskip} \end{NiceTabular}

plot(oneway) # create profile plot Error in if (new_name %in% existing) { : argument is of length zero Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘r2spss-intro.Rnw’ ... Valid N (listwise) & 417 & & & & \ \hline \noalign{\smallskip} \end{tabular}

histogram(Eredivisie, "logMarketValue")

When sourcing 'r2spss-intro.R': Error: argument is of length zero Execution halted

‘r2spss-intro.Rnw’ using ‘UTF-8’... failed ```

checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘r2spss-intro.Rnw’ using knitr

Quitting from lines 327-328 [unnamed-chunk-8] (r2spss-intro.Rnw) Error: processing vignette 'r2spss-intro.Rnw' failed with diagnostics: argument is of length zero --- failed re-building ‘r2spss-intro.Rnw’

SUMMARY: processing the following file failed: ‘r2spss-intro.Rnw’

Error: Vignette re-building failed. Execution halted ```

radiant.basics

Version: 1.6.6
GitHub: https://github.com/radiant-rstats/radiant.basics
Source code: https://github.com/cran/radiant.basics
Date/Publication: 2024-05-15 04:30:07 UTC
Number of recursive dependencies: 152

Run revdepcheck::cloud_details(, "radiant.basics") for more info

checking examples ... ERROR ``` Running examples in ‘radiant.basics-Ex.R’ failed The error most likely occurred in:

Name: plot.clt

Title: Plot method for the Central Limit Theorem simulation

Aliases: plot.clt

** Examples

clt("Uniform", 100, 100, unif_min = 10, unif_max = 20) %>% plot() Error in if (new_name %in% existing) { : argument is of length zero Calls: %>% ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

radiant.data

Version: 1.6.6
GitHub: https://github.com/radiant-rstats/radiant.data
Source code: https://github.com/cran/radiant.data
Date/Publication: 2024-05-14 23:30:02 UTC
Number of recursive dependencies: 155

Run revdepcheck::cloud_details(, "radiant.data") for more info

checking examples ... ERROR ``` Running examples in ‘radiant.data-Ex.R’ failed The error most likely occurred in:

Name: visualize

Title: Visualize data using ggplot2 https://ggplot2.tidyverse.org/

Aliases: visualize

** Examples

visualize(diamonds, "price:cut", type = "dist", fillcol = "red") Error in if (new_name %in% existing) { : argument is of length zero Calls: visualize ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

radiant.model

Version: 1.6.6
GitHub: https://github.com/radiant-rstats/radiant.model
Source code: https://github.com/cran/radiant.model
Date/Publication: 2024-05-15 09:10:08 UTC
Number of recursive dependencies: 176

Run revdepcheck::cloud_details(, "radiant.model") for more info

checking examples ... ERROR ``` Running examples in ‘radiant.model-Ex.R’ failed The error most likely occurred in:

Name: plot.simulater

Title: Plot method for the simulater function

Aliases: plot.simulater

** Examples

simdat <- simulater( ... + const = "cost 3", + norm = "demand 2000 1000", + discrete = "price 5 8 .3 .7", + form = "profit = demand * (price - cost)", + seed = 1234 + ) plot(simdat, bins = 25) Error in if (new_name %in% existing) { : argument is of length zero Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

Radviz

Version: 0.9.3
GitHub: https://github.com/yannabraham/Radviz
Source code: https://github.com/cran/Radviz
Date/Publication: 2022-03-25 18:10:02 UTC
Number of recursive dependencies: 64

Run revdepcheck::cloud_details(, "Radviz") for more info

checking examples ... ERROR ``` Running examples in ‘Radviz-Ex.R’ failed The error most likely occurred in:

Name: Radviz

Title: Radviz Projection of Multidimensional Data

Aliases: Radviz

** Examples

data(iris) das <- c('Sepal.Length','Sepal.Width','Petal.Length','Petal.Width') S <- make.S(das) rv <- do.radviz(iris,S) plot(rv,anchors.only=FALSE) Error in plot.radviz(rv, anchors.only = FALSE) : 'language' object cannot be coerced to type 'double' Calls: plot -> plot.radviz Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘multivariate_analysis.Rmd’ ...

classic.S <- make.S(get.optim(classic.optim))

btcells.rv <- do.radviz(btcells.df, classic.S)

plot(btcells.rv) + geom_point(aes(color = Treatment))

... [1] 15792 18

ct.rv

When sourcing ‘single_cell_projections.R’: Error: 'language' object cannot be coerced to type 'double' Execution halted

‘multivariate_analysis.Rmd’ using ‘UTF-8’... failed ‘single_cell_projections.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘multivariate_analysis.Rmd’ using rmarkdown

randomForestExplainer

Version: 0.10.1
GitHub: https://github.com/ModelOriented/randomForestExplainer
Source code: https://github.com/cran/randomForestExplainer
Date/Publication: 2020-07-11 20:30:02 UTC
Number of recursive dependencies: 105

Run revdepcheck::cloud_details(, "randomForestExplainer") for more info

checking examples ... ERROR ``` Running examples in ‘randomForestExplainer-Ex.R’ failed The error most likely occurred in:

Name: plot_min_depth_interactions

Title: Plot the top mean conditional minimal depth

Aliases: plot_min_depth_interactions

** Examples

forest <- randomForest::randomForest(Species ~ ., data = iris, ntree = 100) ... The first warning was: ℹ In argument: Petal.Width = min(Petal.Width, na.rm = TRUE). ℹ In group 1: tree = 1 and split var = "Petal.Length". Caused by warning in min(): ! no non-missing arguments to min; returning Inf ℹ Run dplyr::last_dplyr_warnings() to see the 203 remaining warnings. Error in grid.Call.graphics(C_segments, x$x0, x$y0, x$x1, x$y1, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.segments -> grid.Call.graphics Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(randomForestExplainer) > > test_check("randomForestExplainer") [ FAIL 6 | WARN 70 | SKIP 0 | PASS 55 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ... 24. │ └─grid:::grid.draw.grob(x$children[[i]], recording = FALSE) 25. │ └─grDevices::recordGraphics(drawGrob(x), list(x = x), getNamespace("grid")) 26. └─grid:::drawGrob(x) 27. ├─grid::drawDetails(x, recording = FALSE) 28. └─grid:::drawDetails.segments(x, recording = FALSE) 29. └─grid:::grid.Call.graphics(...)

[ FAIL 6 | WARN 70 | SKIP 0 | PASS 55 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘randomForestExplainer.Rmd’ ... 3 3.308 23 2.600 33 1.288 8 3.512

plot_min_depth_interactions(interactions_frame)

When sourcing ‘randomForestExplainer.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘randomForestExplainer.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘randomForestExplainer.Rmd’ using rmarkdown

checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory

rassta

Version: 1.0.6
GitHub: https://github.com/bafuentes/rassta
Source code: https://github.com/cran/rassta
Date/Publication: 2024-08-19 06:20:13 UTC
Number of recursive dependencies: 121

Run revdepcheck::cloud_details(, "rassta") for more info

checking examples ... ERROR ``` Running examples in ‘rassta-Ex.R’ failed The error most likely occurred in:

Name: select_functions

Title: Select Constrained Univariate Distribution Functions

Aliases: select_functions

** Examples

require(terra) ... tvars <- terra::rast(tf)

Single-layer SpatRaster of topographic classification units

5 classification units

tcf <- list.files(path = p, pattern = "topography.tif", full.names = TRUE) tcu <- terra::rast(tcf)

Automatic selection of distribution functions

tdif <- select_functions(cu.rast = tcu, var.rast = tvars, fun = mean) Error in pm[[2]] : subscript out of bounds Calls: select_functions -> -> ggplotly.ggplot -> gg2list Execution halted ```
checking tests ... ERROR ``` Running ‘tinytest.R’ Running the tests in ‘tests/tinytest.R’ failed. Complete output: > > if ( requireNamespace("tinytest", quietly=TRUE) ){
- tinytest::test_package("rassta")
- }
Attaching package: 'rassta'

... test_select_functions.R....... 0 tests test_select_functions.R....... 0 tests test_select_functions.R....... 0 tests test_select_functions.R....... 0 tests test_select_functions.R....... 0 tests test_select_functions.R....... 0 tests test_select_functions.R....... 0 tests test_select_functions.R....... 0 tests Error in pm[[2]] : subscript out of bounds Calls: ... select_functions -> -> ggplotly.ggplot -> gg2list Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘signature.Rmd’ ... > clim.var <- rast(vardir)

clim.cu <- rast(paste(d, "/climate.tif", sep = ""))

clim.difun <- select_functions(cu.rast = clim.cu, + var.rast = clim.var, mode = "auto")

... When sourcing ‘signature.R’: Error: subscript out of bounds Execution halted

‘classunits.Rmd’ using ‘UTF-8’... OK ‘modeling.Rmd’ using ‘UTF-8’... OK ‘sampling.Rmd’ using ‘UTF-8’... OK ‘signature.Rmd’ using ‘UTF-8’... failed ‘similarity.Rmd’ using ‘UTF-8’... OK ‘stratunits.Rmd’ using ‘UTF-8’... OK ```

rater

Version: 1.3.1
GitHub: https://github.com/jeffreypullin/rater
Source code: https://github.com/cran/rater
Date/Publication: 2023-09-11 17:40:02 UTC
Number of recursive dependencies: 92

Run revdepcheck::cloud_details(, "rater") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(rater)
- The rater package uses Stan to fit bayesian models.
- If you are working on a local, multicore CPU with excess RAM please call:
- options(mc.cores = parallel::detectCores())
- This will allow Stan to run inference on multiple cores in parallel.
  
  ... ── Failure ('test_plotting.R:65:3'): plot_theta_points output has correct type ── get_geoms(ds_plot) (actual) not equal to c("GeomPoint", "GeomErrorbar") (expected).
names(actual) is a character vector ('geom_point', 'geom_errorbar') names(expected) is absent

[ FAIL 4 | WARN 0 | SKIP 6 | PASS 375 ] Error: Test failures In addition: There were 14 warnings (use warnings() to see them) Execution halted ```

checking installed package size ... NOTE installed size is 128.0Mb sub-directories of 1Mb or more: libs 127.3Mb
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

RBesT

Version: 1.7-3
GitHub: https://github.com/Novartis/RBesT
Source code: https://github.com/cran/RBesT
Date/Publication: 2024-01-08 15:20:02 UTC
Number of recursive dependencies: 143

Run revdepcheck::cloud_details(, "RBesT") for more info

checking examples ... ERROR ``` Running examples in ‘RBesT-Ex.R’ failed The error most likely occurred in:

Name: forest_plot

Title: Forest Plot

Aliases: forest_plot

** Examples

we consider the example AS MAP analysis

... Please consider increasing the MCMC simulation size.

AS> ## Recover user set sampling defaults AS> options(.user_mc_options)

default forest plot for a gMAP analysis

forest_plot(map_AS) Error in if (new_name %in% existing) { : argument is of length zero Calls: forest_plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘introduction.Rmd’ ...

MAP Prior MCMC sample mean sd 2.5% 50% 97.5% 0.2580 0.0842 0.1120 0.2510 0.4590

pl <- plot(map_mcmc)

When sourcing ‘introduction.R’: Error: argument is of length zero Execution halted

‘introduction.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘introduction.Rmd’ using rmarkdown Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { : cannot find pngquant; please install and put it in PATH Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { : cannot find pngquant; please install and put it in PATH

Quitting from lines 104-126 [unnamed-chunk-4] (introduction.Rmd) Error: processing vignette 'introduction.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘introduction.Rmd’

SUMMARY: processing the following file failed: ‘introduction.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking installed package size ... NOTE installed size is 97.6Mb sub-directories of 1Mb or more: libs 95.7Mb
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

rddensity

Version: 2.5
GitHub: NA
Source code: https://github.com/cran/rddensity
Date/Publication: 2024-01-22 21:10:07 UTC
Number of recursive dependencies: 29

Run revdepcheck::cloud_details(, "rddensity") for more info

checking examples ... ERROR ``` Running examples in ‘rddensity-Ex.R’ failed The error most likely occurred in:

Name: rddensity

Title: Manipulation Testing Using Local Polynomial Density Estimation

Aliases: rddensity

** Examples

Continuous Density

... sum densities 0.6532 3.9572 0.0042

Plotting using rdplotdensity()

1. From -2 to 2 with 25 evaluation points at each side

plot1 <- rdplotdensity(rdd, x, plotRange = c(-2, 2), plotN = 25) Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: rdplotdensity ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```

RecordTest

Version: 2.2.0
GitHub: https://github.com/JorgeCastilloMateo/RecordTest
Source code: https://github.com/cran/RecordTest
Date/Publication: 2023-08-07 20:20:08 UTC
Number of recursive dependencies: 88

Run revdepcheck::cloud_details(, "RecordTest") for more info

checking examples ... ERROR ``` Running examples in ‘RecordTest-Ex.R’ failed The error most likely occurred in:

Name: N.plot

Title: Number of Records Plot

Aliases: N.plot

** Examples

Plot at Zaragoza, with linear weights and error bar as RIs aesthetic

N.plot(ZaragozaSeries, weights = function(t) t-1, conf.aes = "errorbar") Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘RecordTest.Rmd’ ...
- R_lower = Olympic_records_200m$value, Trows = 27)
records(or200m, type = "points", alpha = c(1, 0, 1, + 0)) + ggplot2::ylab("seconds")

N.plot(or200m, record = c(0, 1, 0, 0))

When sourcing ‘RecordTest.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘RecordTest.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘RecordTest.Rmd’ using rmarkdown

reda

Version: 0.5.4
GitHub: https://github.com/wenjie2wang/reda
Source code: https://github.com/cran/reda
Date/Publication: 2022-07-08 21:50:02 UTC
Number of recursive dependencies: 53

Run revdepcheck::cloud_details(, "reda") for more info

checking examples ... ERROR ``` Running examples in ‘reda-Ex.R’ failed The error most likely occurred in:

Name: mcf

Title: Mean Cumulative Function (MCF)

Aliases: mcf mcf,formula-method mcf,rateReg-method

** Examples

library(reda) ...

Example 2. the simulated data

simuMcf <- mcf(Recur(time, ID, event) ~ group + gender, + data = simuDat, ID %in% 1 : 50) plot(simuMcf, conf.int = TRUE, lty = 1 : 4, + legendName = "Treatment & Gender") Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘reda-intro.Rmd’ ...
- data = simuDat, subset = ID %in% seq_len(50))
plot(valveMcf0, conf.int = TRUE, mark.time = TRUE, + addOrigin = TRUE, col = 2) + ggplot2::xlab("Days") + ggplot2::theme_bw()

plot(simuMcf, conf.int = TRUE, lty = 1:4, legendName = "Treatment & Gender")

When sourcing ‘reda-intro.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘reda-Recur.Rmd’ using ‘UTF-8’... OK ‘reda-intro.Rmd’ using ‘UTF-8’... failed ‘reda-simulate.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘reda-Recur.Rmd’ using rmarkdown --- finished re-building ‘reda-Recur.Rmd’

--- re-building ‘reda-intro.Rmd’ using rmarkdown

Quitting from lines 123-129 [plot-sampleMcf] (reda-intro.Rmd) Error: processing vignette 'reda-intro.Rmd' failed with diagnostics: invalid line type: must be length 2, 4, 6 or 8 ... --- failed re-building ‘reda-intro.Rmd’

--- re-building ‘reda-simulate.Rmd’ using rmarkdown --- finished re-building ‘reda-simulate.Rmd’

SUMMARY: processing the following file failed: ‘reda-intro.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking C++ specification ... NOTE Specified C++11: please drop specification unless essential
checking installed package size ... NOTE installed size is 8.1Mb sub-directories of 1Mb or more: doc 3.3Mb libs 4.1Mb

redist

Version: 4.2.0
GitHub: https://github.com/alarm-redist/redist
Source code: https://github.com/cran/redist
Date/Publication: 2024-01-13 13:20:02 UTC
Number of recursive dependencies: 132

Run revdepcheck::cloud_details(, "redist") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘redist.Rmd’ ... # ℹ 991 more rows

library(patchwork)

hist(plan_sum, max_dev) + hist(iowa_plans, comp) + + plot_layout(guides = "collect")

When sourcing ‘redist.R’: Error: object is not a unit Execution halted

‘common_args.Rmd’ using ‘UTF-8’... OK ‘flip.Rmd’ using ‘UTF-8’... OK ‘map-preproc.Rmd’ using ‘UTF-8’... OK ‘redist.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘common_args.Rmd’ using rmarkdown

checking installed package size ... NOTE installed size is 29.5Mb sub-directories of 1Mb or more: data 1.2Mb libs 25.5Mb

registr

Version: 2.1.0
GitHub: NA
Source code: https://github.com/cran/registr
Date/Publication: 2022-10-02 21:40:02 UTC
Number of recursive dependencies: 87

Run revdepcheck::cloud_details(, "registr") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘incomplete_curves.Rmd’ ...
- ggplot(reg4_joint$Y, aes(x = t_hat, y = value, group = id)) +
- geom_line(alpha = 0.3) + xlab("t [registered]") + .... [TRUNCATED]
if (have_ggplot2) { + plot(reg4_joint$fpca_obj) + }

...

if (have_ggplot2 && requireNamespace("cowplot", quietly = TRUE)) { + registr:::plot.fpca(bfpca_object) + }

When sourcing ‘registr.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘incomplete_curves.Rmd’ using ‘UTF-8’... failed ‘registr.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘incomplete_curves.Rmd’ using rmarkdown

checking examples ... ERROR ``` Running examples in ‘registr-Ex.R’ failed The error most likely occurred in:

Name: fpca_gauss

Title: Functional principal components analysis via variational EM

Aliases: fpca_gauss

** Examples

data(growth_incomplete) ...

estimate 2 FPCs

fpca_obj = fpca_gauss(Y = growth_incomplete, npc = 2) Warning in (function (npc, npc_varExplained = NULL, Kt, maxiter, print.iter, : fpca_gauss convergence not reached. Try increasing maxiter. plot(fpca_obj) Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(registr) Warning message: In check_dep_version() : ABI version mismatch: lme4 was built with Matrix ABI version 1 Current Matrix ABI version is 0 Please re-install lme4 from source or restore original 'Matrix' package ...
1. └─methods (local) <rfMthdDf>(...)
2. └─methods::new(def, ...)
3. ├─methods::initialize(value, ...)
4. └─methods::initialize(value, ...)
5. └─.Object$initialize(...)
6. └─lme4 (local) initializePtr()
[ FAIL 13 | WARN 6 | SKIP 6 | PASS 166 ] Error: Test failures Execution halted ```
checking C++ specification ... NOTE Specified C++11: please drop specification unless essential
checking installed package size ... NOTE installed size is 5.3Mb sub-directories of 1Mb or more: doc 1.8Mb libs 3.1Mb

reliabilitydiag

Version: 0.2.1
GitHub: https://github.com/aijordan/reliabilitydiag
Source code: https://github.com/cran/reliabilitydiag
Date/Publication: 2022-06-29 00:20:06 UTC
Number of recursive dependencies: 73

Run revdepcheck::cloud_details(, "reliabilitydiag") for more info

checking examples ... ERROR ``` Running examples in ‘reliabilitydiag-Ex.R’ failed The error most likely occurred in:

Name: c.reliabilitydiag

Title: Combining reliability diagram objects

Aliases: c.reliabilitydiag

** Examples

data("precip_Niamey_2016", package = "reliabilitydiag")

X <- precip_Niamey_2016[c("EMOS", "ENS")] Y <- precip_Niamey_2016$obs r0 <- reliabilitydiag0(Y) r1 <- c(r0, X, EPC = precip_Niamey_2016$EPC, region.level = NA) r1 Error in if (new_name %in% existing) { : argument is of length zero Calls: ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

relliptical

Version: 1.3.0
GitHub: NA
Source code: https://github.com/cran/relliptical
Date/Publication: 2024-02-07 12:50:02 UTC
Number of recursive dependencies: 73

Run revdepcheck::cloud_details(, "relliptical") for more info

checking examples ... ERROR ``` Running examples in ‘relliptical-Ex.R’ failed The error most likely occurred in:

Name: rtelliptical

Title: Sampling Random Numbers from Truncated Multivariate Elliptical

Distributions

Aliases: rtelliptical

** Examples

... Sigma = matrix(c(1,-0.5,-0.5,1), 2, 2) lower = c(-2, -2) upper = c(3, 2) sample4 = rtelliptical(2000, mu, Sigma, lower, upper, gFun=function(t){t^(-1/2)exp(-2t^(1/4))}) f1 = ggplot(data.frame(sample4), aes(x=X1,y=X2)) + geom_point(size=0.50) + + labs(x=expression(X[1]), y=expression(X[2]), subtitle="Kotz(2,1/4,1/2)") + theme_bw() ggMarginal(f1, type="histogram", fill="grey") Error in if (new_name %in% existing) { : argument is of length zero Calls: ggMarginal ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

checking installed package size ... NOTE installed size is 6.6Mb sub-directories of 1Mb or more: libs 6.5Mb

reportRmd

Version: 0.1.0
GitHub: NA
Source code: https://github.com/cran/reportRmd
Date/Publication: 2023-11-16 17:00:03 UTC
Number of recursive dependencies: 112

Run revdepcheck::cloud_details(, "reportRmd") for more info

checking examples ... ERROR ``` Running examples in ‘reportRmd-Ex.R’ failed The error most likely occurred in:

Name: plotuv

Title: Plot multiple bivariate relationships in a single plot

Aliases: plotuv

Keywords: plot

** Examples

... > plotuv(data=pembrolizumab, response='cbr', + covs=c('age','sex','l_size','baseline_ctdna'),showN=TRUE) Warning: stat(count) was deprecated in ggplot2 3.4.0. ℹ Please use after_stat(count) instead. ℹ The deprecated feature was likely used in the reportRmd package. Please report the issue to the authors. Error in grid.Call.graphics(C_segments, x$x0, x$y0, x$x1, x$y1, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.segments -> grid.Call.graphics Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘reportRmd.Rmd’ ... > ctDNA <- clear_labels(ctDNA)

plotuv(data = pembrolizumab, response = "orr", covs = c("age", + "cohort", "pdl1", "change_ctdna_group")) Boxplots not shown for categories with fewer than 20 observations. Boxplots not shown for categories with fewer than 20 observations.

When sourcing ‘reportRmd.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘reportRmd.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘reportRmd.Rmd’ using rmarkdown

Quitting from lines 380-383 [unnamed-chunk-30] (reportRmd.Rmd) Error: processing vignette 'reportRmd.Rmd' failed with diagnostics: invalid line type: must be length 2, 4, 6 or 8 --- failed re-building ‘reportRmd.Rmd’

SUMMARY: processing the following file failed: ‘reportRmd.Rmd’

Error: Vignette re-building failed. Execution halted ```

reservr

Version: 0.0.3
GitHub: https://github.com/AshesITR/reservr
Source code: https://github.com/cran/reservr
Date/Publication: 2024-06-24 16:40:02 UTC
Number of recursive dependencies: 134

Run revdepcheck::cloud_details(, "reservr") for more info

checking examples ... ERROR ``` Running examples in ‘reservr-Ex.R’ failed The error most likely occurred in:

Name: blended_transition

Title: Transition functions for blended distributions

Aliases: blended_transition blended_transition_inv

** Examples

library(ggplot2) ... + theme_bw() %+% + theme( + legend.position = "bottom", legend.box = "horizontal" + ) %+% + guides(color = guide_legend(direction = "horizontal", title = ""), linetype = guide_none()) %+% + scale_linetype_manual(values = c("TRUE" = 1, "FALSE" = 3)) Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘distributions.Rmd’ using rmarkdown

Quitting from lines 170-227 [unnamed-chunk-10] (distributions.Rmd) Error: processing vignette 'distributions.Rmd' failed with diagnostics: object is not a unit --- failed re-building ‘distributions.Rmd’

--- re-building ‘jss_paper.Rmd’ using rmarkdown ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘distributions.Rmd’ ...

attr(trunc_fit$logLik, "nobs") [1] 62

plot_distributions(true = norm, fit1 = norm, fit2 = norm2, + fit3 = dist_normal(3), .x = seq(-2, 7, 0.01), with_params = list(true = list(mean .... [TRUNCATED]

...

dist$sample(1)

When sourcing ‘jss_paper.R’: Error: invalid arguments Execution halted

‘distributions.Rmd’ using ‘UTF-8’... failed ‘jss_paper.Rmd’ using ‘UTF-8’... failed ‘tensorflow.Rmd’ using ‘UTF-8’... OK ```
checking installed package size ... NOTE installed size is 15.8Mb sub-directories of 1Mb or more: R 1.5Mb doc 1.2Mb libs 12.8Mb
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

RestoreNet

Version: 1.0.1
GitHub: NA
Source code: https://github.com/cran/RestoreNet
Date/Publication: 2024-02-15 11:00:02 UTC
Number of recursive dependencies: 53

Run revdepcheck::cloud_details(, "RestoreNet") for more info

checking examples ... ERROR ``` Running examples in ‘RestoreNet-Ex.R’ failed The error most likely occurred in:

Name: get.scatterpie

Title: Clonal pie-chart

Aliases: get.scatterpie

** Examples

rcts <- c("A->1", "B->1", "C->1", "D->1", ... computing A^-1... computing rho... computing Chi2... computing KLdiv... computing BhattDist...

get.scatterpie(re.res, txt = TRUE) Error in if (new_name %in% existing) { : argument is of length zero Calls: get.scatterpie ... ggplot_add.layer_scatterpie -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

checking re-building of vignette outputs ... WARNING `` Error(s) in re-building vignettes: ... --- re-building ‘RestoreNet.ltx’ using tex Error: processing vignette 'RestoreNet.ltx' failed with diagnostics: Running 'texi2dvi' on 'RestoreNet.ltx' failed. LaTeX errors: ! LaTeX Error: Filerealboxes.sty' not found.

Type X to quit or to proceed, or enter new name. (Default extension: sty) ... l.12 \usepackage {amssymb}^^M ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘RestoreNet.ltx’

SUMMARY: processing the following file failed: ‘RestoreNet.ltx’

Error: Vignette re-building failed. Execution halted ```

rfPermute

Version: 2.5.2
GitHub: https://github.com/EricArcher/rfPermute
Source code: https://github.com/cran/rfPermute
Date/Publication: 2023-08-23 17:40:02 UTC
Number of recursive dependencies: 76

Run revdepcheck::cloud_details(, "rfPermute") for more info

checking examples ... ERROR ``` Running examples in ‘rfPermute-Ex.R’ failed The error most likely occurred in:

Name: plotTrace

Title: Plot Trace

Aliases: plotTrace

** Examples

library(randomForest) ... randomForest 4.7-1.1 Type rfNews() to see new features/changes/bug fixes. data(mtcars)

rf <- randomForest(factor(am) ~ ., mtcars) plotTrace(rf) Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: plotTrace ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```

RKorAPClient

Version: 0.8.1
GitHub: https://github.com/KorAP/RKorAPClient
Source code: https://github.com/cran/RKorAPClient
Date/Publication: 2024-05-02 11:42:54 UTC
Number of recursive dependencies: 124

Run revdepcheck::cloud_details(, "RKorAPClient") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library("testthat") > library("RKorAPClient") > > test_check("RKorAPClient") apiUrl: https://korap.ids-mannheim.de/api/v1.0/ [ FAIL 1 | WARN 0 | SKIP 30 | PASS 25 ] ... 'test-demos.R:129:3', 'test-textMetadata.R:2:3', 'test-textMetadata.R:9:3'

══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-misc.R:224:5'): geom_freq_by_year_ci works correctly ───────── gpt[["labels"]][["url"]] not equal to "webUIRequestUrl". target is NULL, current is character

[ FAIL 1 | WARN 0 | SKIP 30 | PASS 25 ] Error: Test failures Execution halted ```

roahd

Version: 1.4.3
GitHub: https://github.com/astamm/roahd
Source code: https://github.com/cran/roahd
Date/Publication: 2021-11-04 00:10:02 UTC
Number of recursive dependencies: 88

Run revdepcheck::cloud_details(, "roahd") for more info

checking examples ... ERROR ``` Running examples in ‘roahd-Ex.R’ failed The error most likely occurred in:

Name: plot.depthgram

Title: Specialized method to plot 'depthgram' objects

Aliases: plot.depthgram

** Examples

N <- 50 ... + N, + centerline = sin(2 * pi * grid), + Cov = Cov + ) names <- paste0("id_", 1:nrow(Data[[1]])) DG <- depthgram(Data, marginal_outliers = TRUE, ids = names) plot(DG) Error in pm[[2]] : subscript out of bounds Calls: plot ... plotly_build -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ```

checking installed package size ... NOTE installed size is 7.4Mb sub-directories of 1Mb or more: data 5.0Mb doc 1.7Mb

robCompositions

Version: 2.4.1
GitHub: NA
Source code: https://github.com/cran/robCompositions
Date/Publication: 2023-08-25 15:30:06 UTC
Number of recursive dependencies: 148

Run revdepcheck::cloud_details(, "robCompositions") for more info

checking examples ... ERROR ``` Running examples in ‘robCompositions-Ex.R’ failed The error most likely occurred in:

Name: biplot.pcaCoDa

Title: Biplot method

Aliases: biplot.pcaCoDa

Keywords: aplot

** Examples

...

with labels for the scores:

data(arcticLake) rownames(arcticLake) <- paste(sample(letters[1:26], nrow(arcticLake), replace=TRUE), + 1:nrow(arcticLake), sep="") pc <- pcaCoDa(arcticLake, method="classical") plot(pc, xlabs=rownames(arcticLake), which = 2) plot(pc, xlabs=rownames(arcticLake), which = 3) Error in if (new_name %in% existing) { : argument is of length zero Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

checking installed package size ... NOTE installed size is 24.6Mb sub-directories of 1Mb or more: data 2.0Mb libs 21.3Mb
checking data for non-ASCII characters ... NOTE Note: found 1 marked UTF-8 string
checking re-building of vignette outputs ... NOTE `` Error(s) in re-building vignettes: --- re-building ‘imputation.Rnw’ using knitr Error: processing vignette 'imputation.Rnw' failed with diagnostics: Running 'texi2dvi' on 'imputation.tex' failed. LaTeX errors: ! LaTeX Error: Filescrartcl.cls' not found.

Type X to quit or to proceed, or enter new name. (Default extension: cls)

... l.3 \usepackage [pdftex]{hyperref}^^M ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘robCompositions-overview.Rnw’

SUMMARY: processing the following files failed: ‘imputation.Rnw’ ‘robCompositions-overview.Rnw’

Error: Vignette re-building failed. Execution halted ```

romic

Version: 1.1.3
GitHub: NA
Source code: https://github.com/cran/romic
Date/Publication: 2023-09-21 05:40:02 UTC
Number of recursive dependencies: 113

Run revdepcheck::cloud_details(, "romic") for more info

checking examples ... ERROR ``` Running examples in ‘romic-Ex.R’ failed The error most likely occurred in:

Name: plot_bivariate

Title: Bivariate Plot

Aliases: plot_bivariate

** Examples

library(dplyr) ... brauer_augmented <- brauer_2008_tidy %>% + add_pcs(npcs = 5) %>% + tomic_to("triple_omic") 40 features dropped due to missing values

tomic_table <- brauer_augmented$samples plot_bivariate(tomic_table, "PC1", "PC2", "nutrient", "nutrient", 0.5, 10) Error in if (new_name %in% existing) { : argument is of length zero Calls: plot_bivariate ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview > # * https://testthat.r-lib.org/articles/special-files.html ...
1. └─romic::plot_bivariate(...) at test-module_ggbiv.R:8:3
2. └─ggplot2:::+.gg(ggplot(tomic_table, running_aes), plot_call)
3. └─ggplot2:::add_ggplot(e1, e2, e2name)
4. ├─ggplot2::ggplot_add(object, p, objectname)
5. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
6. └─ggplot2:::new_layer_names(object, names(plot$layers))
[ FAIL 2 | WARN 0 | SKIP 7 | PASS 64 ] Error: Test failures Execution halted ```

roptions

Version: 1.0.3
GitHub: NA
Source code: https://github.com/cran/roptions
Date/Publication: 2020-05-11 11:10:06 UTC
Number of recursive dependencies: 70

Run revdepcheck::cloud_details(, "roptions") for more info

checking examples ... ERROR ``` Running examples in ‘roptions-Ex.R’ failed The error most likely occurred in:

Name: box.spread

Title: Box Spread Strategy Function

Aliases: box.spread

** Examples

box.spread(100, 105, 95, 110, 3.2, 2.6, 1.1, 2.4) ... 35 5.7 36 5.7 37 5.7 38 5.7 39 5.7 40 5.7 41 5.7 Error in pm[[2]] : subscript out of bounds Calls: box.spread -> print -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ```

checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory

rSAFE

Version: 0.1.4
GitHub: https://github.com/ModelOriented/rSAFE
Source code: https://github.com/cran/rSAFE
Date/Publication: 2022-08-13 13:20:02 UTC
Number of recursive dependencies: 116

Run revdepcheck::cloud_details(, "rSAFE") for more info

checking tests ... ERROR ``` Running ‘spelling.R’ Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(rSAFE) Welcome to rSAFE (version: 0.1.4). > > test_check("rSAFE") Single variables processing... ... 8. └─ggplot2:::add_ggplot(e1, e2, e2name) 9. ├─ggplot2::ggplot_add(object, p, objectname)
1. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
2. └─ggplot2:::new_layer_names(object, names(plot$layers))
[ FAIL 1 | WARN 10 | SKIP 0 | PASS 56 ] Deleting unused snapshots: • extraction/plot-continuous-variable.svg Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘example_apartments.Rmd’ ...

plot(safe_extractor, variable = "district") Warning: The <scale> argument of guides() cannot be FALSE. Use "none" instead as of ggplot2 3.3.4. ℹ The deprecated feature was likely used in the rSAFE package. Please report the issue at https://github.com/ModelOriented/rSAFE/issues.

... of ggplot2 3.3.4. ℹ The deprecated feature was likely used in the rSAFE package. Please report the issue at https://github.com/ModelOriented/rSAFE/issues.

When sourcing ‘example_hr.R’: Error: argument is of length zero Execution halted

‘example_apartments.Rmd’ using ‘UTF-8’... failed ‘example_hr.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘example_apartments.Rmd’ using rmarkdown

santaR

Version: 1.2.4
GitHub: https://github.com/adwolfer/santaR
Source code: https://github.com/cran/santaR
Date/Publication: 2024-03-07 00:30:02 UTC
Number of recursive dependencies: 93

Run revdepcheck::cloud_details(, "santaR") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(santaR)

This is santaR version 1.2.4

test_check("santaR") ... 1/1 mismatches [1] 11 - 10 == 1 ── Failure ('test_dfSearch-plot_nbTP_histogram.R:69:3'): change dfCuttOff ────── length(result_nbTPHisto) not equal to length(ggplot2::ggplot()). 1/1 mismatches [1] 11 - 10 == 1

[ FAIL 8 | WARN 4 | SKIP 0 | PASS 681 ] Error: Test failures Execution halted ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘getting-started.Rmd’ ...

knitr::include_graphics("../man/figures/santaR-approach.jpg")

When sourcing ‘getting-started.R’: Error: Cannot find the file(s): "../man/figures/santaR-approach.jpg" Execution halted when running code in ‘selecting-optimal-df.Rmd’ ... Execution halted

‘advanced-command-line-functions.Rmd’ using ‘UTF-8’... OK ‘automated-command-line.Rmd’ using ‘UTF-8’... OK ‘getting-started.Rmd’ using ‘UTF-8’... failed ‘plotting-options.Rmd’ using ‘UTF-8’... OK ‘prepare-input-data.Rmd’ using ‘UTF-8’... OK ‘selecting-optimal-df.Rmd’ using ‘UTF-8’... failed ‘theoretical-background.Rmd’ using ‘UTF-8’... OK ‘santaR-GUI.pdf.asis’ using ‘UTF-8’... OK ```

saros

Version: 1.2.0
GitHub: https://github.com/NIFU-NO/saros
Source code: https://github.com/cran/saros
Date/Publication: 2024-09-03 07:40:02 UTC
Number of recursive dependencies: 118

Run revdepcheck::cloud_details(, "saros") for more info

checking examples ... ERROR ``` Running examples in ‘saros-Ex.R’ failed The error most likely occurred in:

Name: fig_height_h_barchart2

Title: Estimate figure height for a horizontal bar chart

Aliases: fig_height_h_barchart2

** Examples

fig_height_h_barchart2(makeme(data=ex_survey, dep=b_1:b_3, indep=x1_sex)) Warning in fortify(data, ...) : Arguments in ... must be used. ✖ Problematic argument: • cumulative = TRUE ℹ Did you misspell an argument name? Error in if (new_name %in% existing) { : argument is of length zero Calls: fig_height_h_barchart2 ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘spelling.R’ Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(saros) > > testthat::test_check("saros") Starting 2 test processes [ FAIL 1 | WARN 1 | SKIP 0 | PASS 194 ] ... 9. └─saros:::make_content.cat_plot_html(...)
1. └─ggplot2:::+.gg(...)
2. └─ggplot2:::add_ggplot(e1, e2, e2name)
3. ├─ggplot2::ggplot_add(object, p, objectname)
4. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
5. └─ggplot2:::new_layer_names(object, names(plot$layers))
[ FAIL 1 | WARN 1 | SKIP 0 | PASS 194 ] Error: Test failures Execution halted ```

scatterpie

Version: 0.2.4
GitHub: NA
Source code: https://github.com/cran/scatterpie
Date/Publication: 2024-08-28 17:20:02 UTC
Number of recursive dependencies: 67

Run revdepcheck::cloud_details(, "scatterpie") for more info

checking examples ... ERROR ``` Running examples in ‘scatterpie-Ex.R’ failed The error most likely occurred in:

Name: geom_scatterpie

Title: geom_scatterpie

Aliases: geom_scatterpie geom_scatterpie2

** Examples

library(ggplot2) ... d$C <- abs(rnorm(5, sd=3))

ggplot() + + geom_scatterpie( + aes(x=x, y=y), data=d, cols=c("A", "B", "C") + ) + + coord_fixed() Error in if (new_name %in% existing) { : argument is of length zero Calls: +.gg ... ggplot_add.layer_scatterpie -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘scatterpie.Rmd’ ... 5 12.928774 -11.288549 4 0.34754260 3.144288 3.789556 2.295894 8 -126.506123 29.230687 5 0.95161857 3.029335 1.048951 2.471943 9 -68.685285 6.192712 6 0.04502772 3.203072 2.596539 4.439393

ggplot() + geom_scatterpie(aes(x = long, y = lat, + group = region), data = d, cols = LETTERS[1:4]) + coord_equal()

When sourcing ‘scatterpie.R’: Error: argument is of length zero Execution halted

‘scatterpie.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘scatterpie.Rmd’ using rmarkdown

Quitting from lines 52-54 [unnamed-chunk-3] (scatterpie.Rmd) Error: processing vignette 'scatterpie.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘scatterpie.Rmd’

SUMMARY: processing the following file failed: ‘scatterpie.Rmd’

Error: Vignette re-building failed. Execution halted ```

scdtb

Version: 0.1.0
GitHub: https://github.com/mightymetrika/scdtb
Source code: https://github.com/cran/scdtb
Date/Publication: 2024-04-30 08:50:02 UTC
Number of recursive dependencies: 96

Run revdepcheck::cloud_details(, "scdtb") for more info

checking tests ... ERROR `` Running ‘testthat.R’ 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 ... ── Failure ('test-mixed_model_analysis.R:119:3'): mixed_model_analysis uses the .participant variable to label data points when .participant is not NULL ── res$plot$labels$shape (actual) not equal to "factor(part)" (expected`).

actual is NULL expected is a character vector ('factor(part)')

[ FAIL 1 | WARN 0 | SKIP 0 | PASS 45 ] Error: Test failures Execution halted ```

scoringutils

Version: 1.2.2
GitHub: https://github.com/epiforecasts/scoringutils
Source code: https://github.com/cran/scoringutils
Date/Publication: 2023-11-29 15:50:10 UTC
Number of recursive dependencies: 81

Run revdepcheck::cloud_details(, "scoringutils") for more info

checking examples ... ERROR ``` Running examples in ‘scoringutils-Ex.R’ failed The error most likely occurred in:

Name: plot_predictions

Title: Plot Predictions vs True Values

Aliases: plot_predictions

** Examples

library(ggplot2) ... + by = c("target_type", "location"), + range = c(0, 50, 90, 95) + ) + + facet_wrap(~ location + target_type, scales = "free_y") + + aes(fill = model, color = model) Error in use_defaults(..., self = self) : unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NU Calls: ... -> -> compute_geom_2 -> Execution halted ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘metric-details.Rmd’ using rmarkdown --- finished re-building ‘metric-details.Rmd’

--- re-building ‘scoring-forecasts-directly.Rmd’ using rmarkdown --- finished re-building ‘scoring-forecasts-directly.Rmd’

--- re-building ‘scoringutils.Rmd’ using rmarkdown ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘scoringutils.Rmd’ ... The following messages were produced when checking inputs:
1. 144 values for prediction are NA in the data provided and the corresponding rows were removed. This may indicate a problem if unexpected.
example_quantile %>% make_NA(what = "truth", target_end_date >= + "2021-07-15", target_end_date < "2021-05-22") %>% make_NA(what = "forecast", .... [TRUNCATED]

When sourcing ‘scoringutils.R’: Error: unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL Execution halted

‘metric-details.Rmd’ using ‘UTF-8’... OK ‘scoring-forecasts-directly.Rmd’ using ‘UTF-8’... OK ‘scoringutils.Rmd’ using ‘UTF-8’... failed ```

scUtils

Version: 0.1.0
GitHub: NA
Source code: https://github.com/cran/scUtils
Date/Publication: 2020-06-25 16:20:02 UTC
Number of recursive dependencies: 52

Run revdepcheck::cloud_details(, "scUtils") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(scUtils) > > test_check("scUtils") [ FAIL 1 | WARN 0 | SKIP 0 | PASS 32 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-plots.R:59:3'): all kinds of colnames are allowed ──────────── p$labels not equal to list(y = "Dim2", x = "Dim1", colour = "expression"). Length mismatch: comparison on first 2 components

[ FAIL 1 | WARN 0 | SKIP 0 | PASS 32 ] Error: Test failures Execution halted ```

checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory

SCVA

Version: 1.3.1
GitHub: NA
Source code: https://github.com/cran/SCVA
Date/Publication: 2020-01-09 22:50:10 UTC
Number of recursive dependencies: 80

Run revdepcheck::cloud_details(, "SCVA") for more info

checking examples ... ERROR ``` Running examples in ‘SCVA-Ex.R’ failed The error most likely occurred in:

Name: graphly

Title: Interactive plot of single-case data

Aliases: graphly

Keywords: Single-case design Graph

** Examples

data(AB) graphly(design = "AB", data = AB) Error in pm[[2]] : subscript out of bounds Calls: graphly -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ```

sdmTMB

Version: 0.6.0
GitHub: https://github.com/pbs-assess/sdmTMB
Source code: https://github.com/cran/sdmTMB
Date/Publication: 2024-05-30 00:00:02 UTC
Number of recursive dependencies: 149

Run revdepcheck::cloud_details(, "sdmTMB") for more info

checking examples ... ERROR ``` Running examples in ‘sdmTMB-Ex.R’ failed The error most likely occurred in:

Name: emmeans.sdmTMB

Title: Estimated marginal means with the 'emmeans' package with

'sdmTMB'

Aliases: emmeans.sdmTMB

** Examples

... year2013 - year2017 -0.15358 0.259 959 -0.593 0.9342 year2015 - year2017 0.03703 0.263 959 0.141 0.9990

P value adjustment: tukey method for comparing a family of 4 estimates

emmeans::emmip(fit2, year ~ depth_scaled, at = list(depth_scaled = seq(-2.5, + 2.5, length.out = 50)), CIs = TRUE) Error in if (new_name %in% existing) { : argument is of length zero Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

checking installed package size ... NOTE installed size is 88.5Mb sub-directories of 1Mb or more: libs 86.4Mb

SDMtune

Version: 1.3.1
GitHub: https://github.com/ConsBiol-unibern/SDMtune
Source code: https://github.com/cran/SDMtune
Date/Publication: 2023-07-03 12:20:02 UTC
Number of recursive dependencies: 125

Run revdepcheck::cloud_details(, "SDMtune") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(SDMtune)
```
 _____  ____   __  ___ __
/ ___/ / __ \ /  |/  // /_ __  __ ____   ___
\__ \ / / / // /|_/ // __// / / // __ \ / _ \
```
/ // // // / / // / / // // / / // / ... expected is a character vector ('Var2') ── Failure ('test-plotCor.R:6:3'): The plot has the correct labels and text size ── p$labels$y (actual) not equal to "Var1" (expected).

actual is NULL expected is a character vector ('Var1')

[ FAIL 2 | WARN 0 | SKIP 55 | PASS 315 ] Error: Test failures Execution halted ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘basic-use.Rmd’ ... [1] 0.8336850 0.8672387

folds <- randomFolds(data, k = 4, only_presence = TRUE, + seed = 25)

auc(cv_model)

When sourcing ‘basic-use.R’: Error: object 'cv_model' not found Execution halted

‘basic-use.Rmd’ using ‘UTF-8’... failed ‘hyper-tuning.Rmd’ using ‘UTF-8’... OK ‘presence-absence.Rmd’ using ‘UTF-8’... OK ‘var-selection.Rmd’ using ‘UTF-8’... OK ```

sedproxy

Version: 0.7.5
GitHub: https://github.com/EarthSystemDiagnostics/sedproxy
Source code: https://github.com/cran/sedproxy
Date/Publication: 2023-02-26 10:50:02 UTC
Number of recursive dependencies: 72

Run revdepcheck::cloud_details(, "sedproxy") for more info

checking examples ... ERROR ``` Running examples in ‘sedproxy-Ex.R’ failed The error most likely occurred in:

Name: ClimToProxyClim

Title: Simulate sediment archived proxy records from an input climate

signal.

Aliases: ClimToProxyClim

** Examples

...

PlotPFMs(PFM$everything, max.replicates = 1, stage.order = "seq") + + facet_wrap(~stage) Joining with by = join_by(stage, scale) Scale for alpha is already present. Adding another scale for alpha, which will replace the existing scale. Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘introduction-to-sedproxy.Rmd’ ... Timepoint(s) 1, 101 are in the mixed layer

PlotPFMs(PFM) Joining with by = join_by(stage, scale) Scale for alpha is already present. Adding another scale for alpha, which will replace the existing scale.

When sourcing ‘introduction-to-sedproxy.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘effect-of-climate-dependent-flux.Rmd’ using ‘UTF-8’... OK ‘introduction-to-sedproxy.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘effect-of-climate-dependent-flux.Rmd’ using rmarkdown

see

Version: 0.9.0
GitHub: https://github.com/easystats/see
Source code: https://github.com/cran/see
Date/Publication: 2024-09-06 04:30:02 UTC
Number of recursive dependencies: 243

Run revdepcheck::cloud_details(, "see") for more info

checking examples ... ERROR ``` Running examples in ‘see-Ex.R’ failed The error most likely occurred in:

Name: geom_binomdensity

Title: Add dot-densities for binary 'y' variables

Aliases: geom_binomdensity

** Examples

Don't show:

... 14. │ └─ggplot2 (local) f(l = layers[[i]], d = data[[i]]) 15. │ └─l$compute_geom_2(d, theme = plot$theme) 16. │ └─ggplot2 (local) compute_geom_2(..., self = self) 17. │ └─self$geom$use_defaults(...) 18. └─base::.handleSimpleError(...) 19. └─rlang (local) h(simpleError(msg, call)) 20. └─handlers[1L] 21. └─cli::cli_abort(...) 22. └─rlang::abort(...) Execution halted ```

seedreg

Version: 1.0.3
GitHub: NA
Source code: https://github.com/cran/seedreg
Date/Publication: 2022-07-07 21:20:02 UTC
Number of recursive dependencies: 123

Run revdepcheck::cloud_details(, "seedreg") for more info

checking examples ... ERROR ``` Running examples in ‘seedreg-Ex.R’ failed The error most likely occurred in:

Name: lineplot

Title: Graph: line chart

Aliases: lineplot

** Examples

data("substrate") ... 16. │ └─ggplot2 (local) setup_params(...) 17. │ └─ggplot2:::make_summary_fun(...) 18. │ └─rlang::as_function(fun.data) 19. │ └─base::get(x, envir = env, mode = "function") 20. └─base::.handleSimpleError(...) 21. └─rlang (local) h(simpleError(msg, call)) 22. └─handlers[1L] 23. └─cli::cli_abort(...) 24. └─rlang::abort(...) Execution halted ```

semfindr

Version: 0.1.8
GitHub: https://github.com/sfcheung/semfindr
Source code: https://github.com/cran/semfindr
Date/Publication: 2024-04-08 13:30:03 UTC
Number of recursive dependencies: 72

Run revdepcheck::cloud_details(, "semfindr") for more info

checking examples ... ERROR ``` Running examples in ‘semfindr-Ex.R’ failed The error most likely occurred in:

Name: cfa_dat2

Title: Sample Data: A CFA Model with an Influential Case

Aliases: cfa_dat2

Keywords: datasets

** Examples

... .x5 0.227 0.136 1.675 0.094 .x6 0.472 0.108 4.378 0.000 f1 0.073 0.063 1.161 0.245 f2 0.149 0.078 1.926 0.054

inf_out <- influence_stat(fit) gcd_plot(inf_out) Error in if (new_name %in% existing) { : argument is of length zero Calls: gcd_plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(semfindr) > > test_check("semfindr") Starting 2 test processes [ FAIL 2 | WARN 0 | SKIP 13 | PASS 387 ]

... 1. └─semfindr::index_plot(fit_est_change, "gcd") at test-index_plot.R:22:1 2. └─ggplot2:::+.gg(p, do.call(ggplot2::geom_point, point_aes)) 3. └─ggplot2:::add_ggplot(e1, e2, e2name) 4. ├─ggplot2::ggplot_add(object, p, objectname) 5. └─ggplot2:::ggplot_add.Layer(object, p, objectname) 6. └─ggplot2:::new_layer_names(object, names(plot$layers))

[ FAIL 2 | WARN 0 | SKIP 13 | PASS 387 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘semfindr.Rmd’ ...

Note: - Only the first 10 case(s) is/are displayed. Set ‘first’ to NULL to display all cases. - Cases sorted by Mahalanobis distance in decreasing order.

gcd_plot(fit_influence, largest_gcd = 3)

...

gcd_plot(fit_influence, largest_gcd = 3)

When sourcing ‘user_id.R’: Error: argument is of length zero Execution halted

‘casewise_scores.Rmd’ using ‘UTF-8’... OK ‘selecting_cases.Rmd’ using ‘UTF-8’... OK ‘semfindr.Rmd’ using ‘UTF-8’... failed ‘user_id.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘casewise_scores.Rmd’ using rmarkdown

sensiPhy

Version: 0.8.5
GitHub: https://github.com/paternogbc/sensiPhy
Source code: https://github.com/cran/sensiPhy
Date/Publication: 2020-04-02 14:50:02 UTC
Number of recursive dependencies: 84

Run revdepcheck::cloud_details(, "sensiPhy") for more info

checking examples ... ERROR ``` Running examples in ‘sensiPhy-Ex.R’ failed The error most likely occurred in:

Name: clade_physig

Title: Influential clade detection - Phylogenetic signal

Aliases: clade_physig

** Examples

data(alien) ... 4 0.8975481 0.25 5 0.8827772 0.40

sensi_plot(clade, "Bovidae") Warning: Use of nd$estimate is discouraged. ℹ Use estimate instead. Error in grid.Call.graphics(C_segments, x$x0, x$y0, x$x1, x$y1, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: sensi_plot ... drawDetails -> drawDetails.segments -> grid.Call.graphics Execution halted ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘sensiPhy_vignette.Rmd’ ...

When sourcing ‘sensiPhy_vignette.R’: Error: attempt to use zero-length variable name Execution halted

‘sensiPhy_vignette.Rmd’ using ‘UTF-8’... failed ```

sglg

Version: 0.2.2
GitHub: NA
Source code: https://github.com/cran/sglg
Date/Publication: 2022-09-04 03:50:01 UTC
Number of recursive dependencies: 96

Run revdepcheck::cloud_details(, "sglg") for more info

checking examples ... ERROR ``` Running examples in ‘sglg-Ex.R’ failed The error most likely occurred in:

Name: deviance_residuals

Title: Deviance Residuals for a Generalized Log-gamma Regression Model

Aliases: deviance_residuals

** Examples

Example 1

n <- 300 error <- rglg(n,0,1,1) y <- 0.5 + error fit <- glg(y~1,data=as.data.frame(y)) deviance_residuals(fit) Error in pm[[2]] : subscript out of bounds Calls: deviance_residuals ... dots2plots -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ```

sgsR

Version: 1.4.5
GitHub: https://github.com/tgoodbody/sgsR
Source code: https://github.com/cran/sgsR
Date/Publication: 2024-03-03 15:10:02 UTC
Number of recursive dependencies: 124

Run revdepcheck::cloud_details(, "sgsR") for more info

checking tests ... ERROR `` Running ‘spelling.R’ Running ‘testthat.R’ 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/tests.html ...expectedis a character vector ('zq90') ── Failure ('test-utils-plot.R:19:3'): scatter messages ──────────────────────── o1$labels$x (actual) not equal to "pzabove2" (expected`).

actual is NULL expected is a character vector ('pzabove2')

[ FAIL 2 | WARN 115 | SKIP 19 | PASS 508 ] Error: Test failures Execution halted ```

SHAPforxgboost

Version: 0.1.3
GitHub: https://github.com/liuyanguu/SHAPforxgboost
Source code: https://github.com/cran/SHAPforxgboost
Date/Publication: 2023-05-29 17:20:07 UTC
Number of recursive dependencies: 112

Run revdepcheck::cloud_details(, "SHAPforxgboost") for more info

checking examples ... ERROR ``` Running examples in ‘SHAPforxgboost-Ex.R’ failed The error most likely occurred in:

Name: scatter.plot.diagonal

Title: Make customized scatter plot with diagonal line and R2 printed.

Aliases: scatter.plot.diagonal

** Examples

scatter.plot.diagonal(data = iris, x = "Sepal.Length", y = "Petal.Length") [1] "R2 is 0.76 ." geom_smooth() using formula = 'y ~ x' Error in if (new_name %in% existing) { : argument is of length zero Calls: scatter.plot.diagonal ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

ShapleyOutlier

Version: 0.1.1
GitHub: NA
Source code: https://github.com/cran/ShapleyOutlier
Date/Publication: 2023-02-20 10:30:02 UTC
Number of recursive dependencies: 77

Run revdepcheck::cloud_details(, "ShapleyOutlier") for more info

checking examples ... ERROR ``` Running examples in ‘ShapleyOutlier-Ex.R’ failed The error most likely occurred in:

Name: MOE

Title: Detecting cellwise outliers using Shapley values based on local

outlyingness.

Aliases: MOE

** Examples

... mu <- rep(0,p) Sigma <- matrix(0.9, p, p); diag(Sigma) = 1 Sigma_inv <- solve(Sigma) x <- c(0,1,2,2.3,2.5) MOE_x <- MOE(x = x, mu = mu, Sigma = Sigma) plot(MOE_x) Error in grid.Call.graphics(C_segments, x$x0, x$y0, x$x1, x$y1, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: plot ... drawDetails -> drawDetails.segments -> grid.Call.graphics Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘ShapleyOutlier_examples.Rmd’ ...

rownames(phi_SCD) <- paste("Step", 0:(nrow(phi_SCD) - + 1))

plot(new_shapley(phi = phi_SCD), abbrev.var = FALSE, + abbrev.obs = FALSE, sort.obs = FALSE, sort.var = FALSE)

When sourcing ‘ShapleyOutlier_examples.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘ShapleyOutlier_examples.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘ShapleyOutlier_examples.Rmd’ using rmarkdown

shinipsum

Version: 0.1.1
GitHub: https://github.com/Thinkr-open/shinipsum
Source code: https://github.com/cran/shinipsum
Date/Publication: 2024-02-09 15:50:05 UTC
Number of recursive dependencies: 90

Run revdepcheck::cloud_details(, "shinipsum") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(shinipsum) > > test_check("shinipsum") [ FAIL 2 | WARN 1 | SKIP 0 | PASS 3150 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ... a has length 11, not length 10. Backtrace: ▆ 1. └─base::lapply(...) at test-ggplot.R:3:3 2. └─shinipsum (local) FUN(X[[i]], ...) 3. └─testthat::expect_length(a, expected_length) at test-ggplot.R:8:7

[ FAIL 2 | WARN 1 | SKIP 0 | PASS 3150 ] Error: Test failures Execution halted ```

signatureSurvival

Version: 1.0.0
GitHub: NA
Source code: https://github.com/cran/signatureSurvival
Date/Publication: 2023-07-19 11:10:02 UTC
Number of recursive dependencies: 99

Run revdepcheck::cloud_details(, "signatureSurvival") for more info

checking examples ... ERROR ``` Running examples in ‘signatureSurvival-Ex.R’ failed The error most likely occurred in:

Name: MKMplot

Title: Multivariate Kaplan-Meier survival curve plot

Aliases: MKMplot

Keywords: multivariate survival analysis

** Examples

... Loading required package: survival require(ggplot2) Loading required package: ggplot2 data(GSE50081) MKMplot(data=GSE50081,mol=56,X=c("t.stage","n.stage", "m.stage"),time="month", + status="status1",sml="none",quant=c("No",-0.2,0.2),plotmethod="ggsurvplot", + adjx = 5) Error in if (new_name %in% existing) { : argument is of length zero Calls: MKMplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

checking installed package size ... NOTE installed size is 8.2Mb sub-directories of 1Mb or more: data 7.5Mb

SimCorrMix

Version: 0.1.1
GitHub: https://github.com/AFialkowski/SimCorrMix
Source code: https://github.com/cran/SimCorrMix
Date/Publication: 2018-07-01 13:31:03 UTC
Number of recursive dependencies: 77

Run revdepcheck::cloud_details(, "SimCorrMix") for more info

checking examples ... ERROR ``` Running examples in ‘SimCorrMix-Ex.R’ failed The error most likely occurred in:

Name: plot_simpdf_theory

Title: Plot Simulated Probability Density Function and Target PDF by

Distribution Name or Function for Continuous or Count Variables

Aliases: plot_simpdf_theory

Keywords: plot

** Examples

... + mix_sixths = c(0, 0)) Total Simulation time: 0 minutes plot_simpdf_theory(Nmix$Y_mix[, 1], + title = "Mixture of Normal Distributions", + fx = function(x) 0.4 * dnorm(x, -2, 1) + 0.6 * dnorm(x, 2, 1), + lower = -5, upper = 5) Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘cont_mixture.Rmd’ ... > sim_cdf_prob(sim_y = Nmix2$Y_mix[, 1], delta = y_star)$cumulative_prob [1] 0.9504

plot_simpdf_theory(sim_y = Nmix2$Y_mix[, 1], ylower = -10, + yupper = 10, title = "PDF of Mixture of Normal Distributions", + fx = fx, low .... [TRUNCATED]

...

When sourcing ‘workflow.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘cont_mixture.Rmd’ using ‘UTF-8’... failed ‘corr_mixture.Rmd’ using ‘UTF-8’... OK ‘method_comp.Rmd’ using ‘UTF-8’... OK ‘variable_types.Rmd’ using ‘UTF-8’... OK ‘workflow.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘cont_mixture.Rmd’ using rmarkdown

Quitting from lines 129-132 [unnamed-chunk-8] (cont_mixture.Rmd) Error: processing vignette 'cont_mixture.Rmd' failed with diagnostics: invalid line type: must be length 2, 4, 6 or 8 --- failed re-building ‘cont_mixture.Rmd’

--- re-building ‘corr_mixture.Rmd’ using rmarkdown --- finished re-building ‘corr_mixture.Rmd’ ... Quitting from lines 294-308 [unnamed-chunk-17] (workflow.Rmd) Error: processing vignette 'workflow.Rmd' failed with diagnostics: invalid line type: must be length 2, 4, 6 or 8 --- failed re-building ‘workflow.Rmd’

SUMMARY: processing the following files failed: ‘cont_mixture.Rmd’ ‘workflow.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘MASS’ ‘grid’ All declared Imports should be used.
checking Rd cross-references ... NOTE Package unavailable to check Rd xrefs: ‘PoisNor’
checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory

SimMultiCorrData

Version: 0.2.2
GitHub: https://github.com/AFialkowski/SimMultiCorrData
Source code: https://github.com/cran/SimMultiCorrData
Date/Publication: 2018-06-28 17:37:55 UTC
Number of recursive dependencies: 75

Run revdepcheck::cloud_details(, "SimMultiCorrData") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘dist_comp.Rmd’ ...

1 - pnorm(z_prime) [1] 0.04999249

plot_sim_pdf_theory(sim_y = H_exp$continuous_variable[, + 1], Dist = "Exponential", params = 0.5)

... Execution halted

‘benefits.Rmd’ using ‘UTF-8’... OK ‘dist_comp.Rmd’ using ‘UTF-8’... failed ‘errorloop.Rmd’ using ‘UTF-8’... OK ‘functions.Rmd’ using ‘UTF-8’... OK ‘method_comp.Rmd’ using ‘UTF-8’... OK ‘sixth_validpdf.Rmd’ using ‘UTF-8’... failed ‘variable_types.Rmd’ using ‘UTF-8’... OK ‘workflow.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘benefits.Rmd’ using rmarkdown --- finished re-building ‘benefits.Rmd’

--- re-building ‘dist_comp.Rmd’ using rmarkdown

Quitting from lines 107-109 [unnamed-chunk-11] (dist_comp.Rmd) Error: processing vignette 'dist_comp.Rmd' failed with diagnostics: invalid line type: must be length 2, 4, 6 or 8 --- failed re-building ‘dist_comp.Rmd’ ...

Quitting from lines 208-214 [unnamed-chunk-15] (sixth_validpdf.Rmd) Error: processing vignette 'sixth_validpdf.Rmd' failed with diagnostics: invalid line type: must be length 2, 4, 6 or 8 --- failed re-building ‘sixth_validpdf.Rmd’

--- re-building ‘variable_types.Rmd’ using rmarkdown --- finished re-building ‘variable_types.Rmd’

--- re-building ‘workflow.Rmd’ using rmarkdown ```

checking Rd cross-references ... NOTE Packages unavailable to check Rd xrefs: ‘BinNonNor’, ‘PoisNor’, ‘PoisBinOrdNor’, ‘PoisBinOrdNonNor’

SimNPH

Version: 0.5.5
GitHub: https://github.com/SimNPH/SimNPH
Source code: https://github.com/cran/SimNPH
Date/Publication: 2024-03-04 10:10:02 UTC
Number of recursive dependencies: 134

Run revdepcheck::cloud_details(, "SimNPH") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(SimNPH) Loading required package: SimDesign Loading required package: survival > > test_check("SimNPH") [ FAIL 2 | WARN 0 | SKIP 0 | PASS 343 ] ...

names(actual): "x" names(expected): "x" "y"

actual$y is absent expected$y is a character vector ('mpg')

[ FAIL 2 | WARN 0 | SKIP 0 | PASS 343 ] Error: Test failures Execution halted ```

slendr

Version: 0.9.1
GitHub: https://github.com/bodkan/slendr
Source code: https://github.com/cran/slendr
Date/Publication: 2024-02-21 23:20:02 UTC
Number of recursive dependencies: 129

Run revdepcheck::cloud_details(, "slendr") for more info

checking examples ... ERROR ``` Running examples in ‘slendr-Ex.R’ failed The error most likely occurred in:

Name: area

Title: Calculate the area covered by the given slendr object

Aliases: area

** Examples

region_a <- region("A", center = c(20, 50), radius = 20) ... 6. └─ggplot2 (local) setup(..., self = self) 7. └─self$coord$setup_params(data) 8. └─ggplot2 (local) setup_params(..., self = self) 9. └─ggproto_parent(Coord, self)$setup_params(data) 10. └─ggplot2 (local) setup_params(..., self = self) 11. └─ggplot2:::parse_coord_expand(expand = self$expand %||% TRUE) 12. └─ggplot2:::check_logical(expand) 13. └─ggplot2:::stop_input_type(...) 14. └─rlang::abort(message, ..., call = call, arg = arg) Execution halted ```

checking running R code from vignettes ... ERROR `` Errors in running code in vignettes: when running code in ‘vignette-01-tutorial.Rmd’ ... dependencies automatically by running the functionsetup_env()`.

init_env()

When sourcing ‘vignette-01-tutorial.R’: Error: Could not activate slendr's Python environment because it is not present on your system ('Python-3.12_msprime-1.3.1_tskit-0.5.6_pyslim-1.0.4_tspop-0.0.2'). ... ‘vignette-01-tutorial.Rmd’ using ‘UTF-8’... failed ‘vignette-02-grid-model.Rmd’ using ‘UTF-8’... failed ‘vignette-03-interactions.Rmd’ using ‘UTF-8’... failed ‘vignette-04-nonspatial-models.Rmd’ using ‘UTF-8’... failed ‘vignette-05-tree-sequences.Rmd’ using ‘UTF-8’... failed ‘vignette-06-locations.Rmd’ using ‘UTF-8’... failed ‘vignette-07-backends.Rmd’ using ‘UTF-8’... failed ‘vignette-08-nonslendr-tskit.Rmd’ using ‘UTF-8’... failed ‘vignette-09-paper.Rmd’ using ‘UTF-8’... failed ‘vignette-10-tracts.Rmd’ using ‘UTF-8’... failed ```
checking installed package size ... NOTE installed size is 5.0Mb sub-directories of 1Mb or more: doc 3.7Mb

smallsets

Version: 2.0.0
GitHub: https://github.com/lydialucchesi/smallsets
Source code: https://github.com/cran/smallsets
Date/Publication: 2023-12-05 00:00:02 UTC
Number of recursive dependencies: 96

Run revdepcheck::cloud_details(, "smallsets") for more info

checking examples ... ERROR ``` Running examples in ‘smallsets-Ex.R’ failed The error most likely occurred in:

Name: Smallset_Timeline

Title: Smallset Timeline

Aliases: Smallset_Timeline

** Examples

set.seed(145)

Smallset_Timeline( + data = s_data, + code = system.file("s_data_preprocess.R", package = "smallsets") + ) Error in as.unit(value) : object is not coercible to a unit Calls: ... assemble_guides -> guides_build -> [<- -> [<-.unit -> as.unit Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘smallsets.Rmd’ ... > library(smallsets)

set.seed(145)

Smallset_Timeline(data = s_data, code = system.file("s_data_preprocess.R", + package = "smallsets"))

When sourcing ‘smallsets.R’: Error: object is not coercible to a unit Execution halted

‘smallsets.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘smallsets.Rmd’ using rmarkdown

Quitting from lines 36-42 [timeline1] (smallsets.Rmd) Error: processing vignette 'smallsets.Rmd' failed with diagnostics: object is not coercible to a unit --- failed re-building ‘smallsets.Rmd’

SUMMARY: processing the following file failed: ‘smallsets.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking package dependencies ... NOTE Package suggested but not available for checking: ‘gurobi’

spinifex

Version: 0.3.7.0
GitHub: https://github.com/nspyrison/spinifex
Source code: https://github.com/cran/spinifex
Date/Publication: 2024-01-29 14:40:02 UTC
Number of recursive dependencies: 165

Run revdepcheck::cloud_details(, "spinifex") for more info

checking tests ... ERROR ``` Running ‘spelling.R’ Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(spinifex) Loading required package: tourr -------------------------------------------------------- spinifex --- version 0.3.7.0 Please share bugs, suggestions, and feature requests at: ...
1. │ └─base::withCallingHandlers(...)
2. └─spinifex::play_tour_path(tour_path = tpath, data = dat_std, angle = 1)
3. └─spinifex (local) render_type(frames = tour_df, ...)
4. ├─plotly::ggplotly(p = gg, tooltip = "tooltip")
5. └─plotly:::ggplotly.ggplot(p = gg, tooltip = "tooltip")
6. └─plotly::gg2list(...)
[ FAIL 3 | WARN 4 | SKIP 0 | PASS 80 ] Error: Test failures Execution halted ```

sport

Version: 0.2.1
GitHub: https://github.com/gogonzo/sport
Source code: https://github.com/cran/sport
Date/Publication: 2024-01-08 23:50:02 UTC
Number of recursive dependencies: 71

Run revdepcheck::cloud_details(, "sport") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > > test_check("sport") Loading required package: sport [ FAIL 1 | WARN 0 | SKIP 0 | PASS 238 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test_output.R:30:3'): Scale is labelled 'r' ─────────────────────── p$labels$y not identical to "r". target is NULL, current is character

[ FAIL 1 | WARN 0 | SKIP 0 | PASS 238 ] Error: Test failures Execution halted ```

checking data for non-ASCII characters ... NOTE Note: found 7504 marked UTF-8 strings

spotoroo

Version: 0.1.4
GitHub: https://github.com/TengMCing/spotoroo
Source code: https://github.com/cran/spotoroo
Date/Publication: 2023-08-21 05:50:02 UTC
Number of recursive dependencies: 107

Run revdepcheck::cloud_details(, "spotoroo") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(spotoroo) > > test_check("spotoroo")

-------------------------------- SPOTOROO 0.1.4 --------------------------------

... i Actually got a with text: argument is of length zero ── Failure ('test-plot_spotoroo.R:64:3'): plot_spotoroo() works ──────────────── Expected plot_spotoroo(result, type = "timeline") to run without any errors. i Actually got a with text: argument is of length zero

[ FAIL 2 | WARN 5 | SKIP 0 | PASS 65 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Clustering-hot-spots.Rmd’ ...

────────────────────────────────────────────────────────────────────────────────

plot_spotoroo(result, type = "def")

plot_spotoroo(result, type = "timeline")

When sourcing ‘Clustering-hot-spots.R’: Error: argument is of length zero Execution halted

‘Clustering-hot-spots.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘Clustering-hot-spots.Rmd’ using rmarkdown

checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘utils’ All declared Imports should be used.

SqueakR

Version: 1.3.0
GitHub: https://github.com/osimon81/SqueakR
Source code: https://github.com/cran/SqueakR
Date/Publication: 2022-06-28 09:20:04 UTC
Number of recursive dependencies: 145

Run revdepcheck::cloud_details(, "SqueakR") for more info

checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘SqueakR.Rmd’ using rmarkdown

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘SqueakR.Rmd’ ... $ experimenters : NULL $ experimental_data: list()

my_new_data <- add_timepoint_data(data_path = "../inst/extdata/Example_Mouse_Data.xlsx", + t1 = 5, t2 = 25) Adding call features Excel file to workspace...

When sourcing ‘SqueakR.R’: Error: path does not exist: ‘../inst/extdata/Example_Mouse_Data.xlsx’ Execution halted

‘SqueakR.Rmd’ using ‘UTF-8’... failed ```
checking installed package size ... NOTE installed size is 8.8Mb sub-directories of 1Mb or more: doc 8.2Mb

stability

Version: 0.5.0
GitHub: https://github.com/myaseen208/stability
Source code: https://github.com/cran/stability
Date/Publication: 2018-10-02 17:50:03 UTC
Number of recursive dependencies: 47

Run revdepcheck::cloud_details(, "stability") for more info

checking examples ... ERROR ``` Running examples in ‘stability-Ex.R’ failed The error most likely occurred in:

Name: ammi_biplot

Title: Additive Main Effects and Multiplicative Interaction (AMMI)

Biplot

Aliases: ammi_biplot ammi_biplot.default

** Examples

... ammi_biplot( + .data = ge_data + , .y = Yield + , .rep = Rep + , .gen = Gen + , .env = Env + ) Error in if (new_name %in% existing) { : argument is of length zero Calls: ammi_biplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

statgenGWAS

Version: 1.0.9
GitHub: https://github.com/Biometris/statgenGWAS
Source code: https://github.com/cran/statgenGWAS
Date/Publication: 2022-10-13 15:30:43 UTC
Number of recursive dependencies: 71

Run revdepcheck::cloud_details(, "statgenGWAS") for more info

checking tests ... ERROR ``` Running ‘tinytest.R’ Running the tests in ‘tests/tinytest.R’ failed. Complete output: > > if ( requireNamespace("tinytest", quietly=TRUE) ){
- tinytest::test_package("statgenGWAS")
- }
test_GWAS.R................... 0 tests test_GWAS.R................... 0 tests ... conversion failure on '← 2@3' in 'mbcsToSbcs': dot substituted for <86> 3: In grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : conversion failure on '← 2@3' in 'mbcsToSbcs': dot substituted for <90> 4: In grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : conversion failure on '← 2@3' in 'mbcsToSbcs': dot substituted for 5: In grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : conversion failure on '← 2@3' in 'mbcsToSbcs': dot substituted for <86> 6: In grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : conversion failure on '← 2@3' in 'mbcsToSbcs': dot substituted for <90> Execution halted ```

checking C++ specification ... NOTE Specified C++11: please drop specification unless essential
checking installed package size ... NOTE installed size is 15.2Mb sub-directories of 1Mb or more: data 7.0Mb libs 7.2Mb

statgenHTP

Version: 1.0.6.1
GitHub: https://github.com/Biometris/statgenHTP
Source code: https://github.com/cran/statgenHTP
Date/Publication: 2023-04-14 08:20:02 UTC
Number of recursive dependencies: 141

Run revdepcheck::cloud_details(, "statgenHTP") for more info

checking examples ... ERROR ``` Running examples in ‘statgenHTP-Ex.R’ failed The error most likely occurred in:

Name: removeSerieOut

Title: Replace outliers for series of observations by NA

Aliases: removeSerieOut

** Examples

Run the function to fit P-splines on a subset of genotypes.

... 18. │ └─ggplot2:::+.gg(...) 19. │ └─ggplot2:::add_ggplot(e1, e2, e2name) 20. │ ├─ggplot2::ggplot_add(object, p, objectname) 21. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 22. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 23. └─base::.handleSimpleError(...) 24. └─purrr (local) h(simpleError(msg, call)) 25. └─cli::cli_abort(...) 26. └─rlang::abort(...) Execution halted ```
checking tests ... ERROR ``` Running ‘tinytest.R’ Running the tests in ‘tests/tinytest.R’ failed. Complete output: > > if ( requireNamespace("tinytest", quietly=TRUE) ){
- tinytest::test_package("statgenHTP")
- }
test_TP.R..................... 0 tests test_TP.R..................... 0 tests ... test_detectSerieOut.R......... 16 tests [0;31m1 fails[0m Error in eval(expr, envir = e) : object 'serieOut1' not found Calls: ... lapply -> FUN -> eval -> eval -> expect_inherits -> fun In addition: Warning messages: 1: 125 failed to parse. 2: Ignoring unknown labels: • colour = "" 3: The following genotypes have less than 3 plotIds and are skipped in the outlier detection: G12

Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Overview_HTP.Rmd’ ... > outVator <- detectSerieOut(corrDat = spatCorrectedVator,
- predDat = predDat, coefDat = coefDat, trait = "EffpsII_corr",
- genotypes = sub .... [TRUNCATED]
When sourcing ‘Overview_HTP.R’: Error: ℹ In index: 1. ℹ With name: y. Caused by error in if (new_name %in% existing) ...: ! argument is of length zero Execution halted

‘Overview_HTP.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘Overview_HTP.Rmd’ using rmarkdown

checking package dependencies ... NOTE Package suggested but not available for checking: ‘asreml’
checking installed package size ... NOTE installed size is 9.0Mb sub-directories of 1Mb or more: data 7.5Mb

sugrrants

Version: 0.2.9
GitHub: https://github.com/earowang/sugrrants
Source code: https://github.com/cran/sugrrants
Date/Publication: 2024-03-12 05:20:03 UTC
Number of recursive dependencies: 103

Run revdepcheck::cloud_details(, "sugrrants") for more info

checking examples ... ERROR ``` Running examples in ‘sugrrants-Ex.R’ failed The error most likely occurred in:

Name: frame_calendar

Title: Rearrange a temporal data frame to a calendar-based data format

using linear algebra

Aliases: frame_calendar prettify

** Examples

... + frame_calendar(x = Time, y = Hourly_Counts, date = Date, nrow = 4)

ggplot

p1 <- calendar_df %>% + ggplot(aes(x = .Time, y = .Hourly_Counts, group = Date)) + + geom_line() prettify(p1, size = 3, label.padding = unit(0.15, "lines")) Error in if (new_name %in% existing) { : argument is of length zero Calls: prettify ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘frame-calendar.Rmd’ ... > p1 <- centre_calendar %>% ggplot(aes(x = .Time, y = .Hourly_Counts,
- group = Date)) + geom_line()
p1

prettify(p1)

When sourcing ‘frame-calendar.R’: Error: argument is of length zero Execution halted

‘frame-calendar.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘frame-calendar.Rmd’ using rmarkdown

superb

Version: 0.95.15
GitHub: https://github.com/dcousin3/superb
Source code: https://github.com/cran/superb
Date/Publication: 2024-08-17 19:00:02 UTC
Number of recursive dependencies: 120

Run revdepcheck::cloud_details(, "superb") for more info

checking examples ... ERROR ``` Running examples in ‘superb-Ex.R’ failed The error most likely occurred in:

Name: GRD

Title: Generate random data

Aliases: GRD

** Examples

# Simplest example using all the default arguments: ... Difficulty; levels: 1, 2, 3, 4, 5 2.Within-Subject Factors ( 1 repeated measures ): 3.Subjects per group ( 500 total subjects ): 100

# show the mean performance as a function of difficulty: superbPlot(dta, BSFactors = "Difficulty", variables="DV") Error in superbPlot(dta, BSFactors = "Difficulty", variables = "DV") : superb::ERROR: The function superbPlot.bar is not a known function for making plots with superbPlot. Exiting... Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > test_check("superb") Loading required package: superb [ FAIL 48 | WARN 0 | SKIP 0 | PASS 93 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test_compatibility.R:36:2'): TESTS (1/1) ──────────────────────────── ... 1. ├─testthat::expect_message(...) at test_superbPlot.R:810:5 2. │ └─testthat:::quasi_capture(enquo(object), label, capture_messages) 3. │ ├─testthat (local) .capture(...) 4. │ │ └─base::withCallingHandlers(...) 5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 6. └─superb::superbPlot(...)

[ FAIL 48 | WARN 0 | SKIP 0 | PASS 93 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘CustomizingSuperbPlots.Rmd’ ... > mylabels <- c("Verbal", "Numerical", "Spatial", "Creativity",
- "Intrapersonal", "Interpersonal")
pltA <- superbPlot(dtaA, WSFactors = "Domain(6)", + variables = mylabels, adjustments = list(purpose = "difference", + decorrelation = .... [TRUNCATED]

... ‘Vignette7.Rmd’ using ‘UTF-8’... failed ‘Vignette8.Rmd’ using ‘UTF-8’... failed ‘Vignette9.Rmd’ using ‘UTF-8’... failed ‘VignetteA.Rmd’ using ‘UTF-8’... failed ‘VignetteB.Rmd’ using ‘UTF-8’... failed ‘VignetteC.Rmd’ using ‘UTF-8’... failed ‘VignetteD.Rmd’ using ‘UTF-8’... OK ‘VignetteE.Rmd’ using ‘UTF-8’... failed ‘VignetteF.Rmd’ using ‘UTF-8’... failed ‘VignetteG.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘CustomizingSuperbPlots.Rmd’ using rmarkdown

Quitting from lines 91-107 [unnamed-chunk-4] (CustomizingSuperbPlots.Rmd) Error: processing vignette 'CustomizingSuperbPlots.Rmd' failed with diagnostics: superb::ERROR: The function superbPlot.raincloud is not a known function for making plots with superbPlot. Exiting... --- failed re-building ‘CustomizingSuperbPlots.Rmd’

--- re-building ‘TheMakingOf.Rmd’ using rmarkdown

... --- failed re-building ‘Vignette1.Rmd’

--- re-building ‘Vignette2.Rmd’ using rmarkdown

Quitting from lines 39-48 [unnamed-chunk-2] (Vignette2.Rmd) Error: processing vignette 'Vignette2.Rmd' failed with diagnostics: superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting... --- failed re-building ‘Vignette2.Rmd’

--- re-building ‘Vignette3.Rmd’ using rmarkdown ```

surveyexplorer

Version: 0.2.0
GitHub: NA
Source code: https://github.com/cran/surveyexplorer
Date/Publication: 2024-06-07 09:50:02 UTC
Number of recursive dependencies: 87

Run revdepcheck::cloud_details(, "surveyexplorer") for more info

checking examples ... ERROR ``` Running examples in ‘surveyexplorer-Ex.R’ failed The error most likely occurred in:

Name: multi_freq

Title: Generate an UpSet plot for multiple-choice questions

Aliases: multi_freq

** Examples

...

Basic Upset plot

Use group_by to partition the question into several groups

multi_freq(berlinbears, question = dplyr::starts_with('will_eat'), group_by + = gender) Error in as.unit(e2) : object is not coercible to a unit Calls: ... polylineGrob -> is.unit -> unit.c -> Ops.unit -> as.unit Execution halted ```

survivalAnalysis

Version: 0.3.0
GitHub: NA
Source code: https://github.com/cran/survivalAnalysis
Date/Publication: 2022-02-11 14:00:02 UTC
Number of recursive dependencies: 153

Run revdepcheck::cloud_details(, "survivalAnalysis") for more info

checking examples ... ERROR ``` Running examples in ‘survivalAnalysis-Ex.R’ failed The error most likely occurred in:

Name: kaplan_meier_plot

Title: Kaplan Meier plots from survival results.

Aliases: kaplan_meier_plot

** Examples

library(magrittr) ...

survival::aml %>% + analyse_survival(vars(time, status), x) %>% + kaplan_meier_plot(break.time.by="breakByMonth", + xlab=".OS.months", + risk.table=TRUE, + ggtheme=ggplot2::theme_bw(10)) Error in if (new_name %in% existing) { : argument is of length zero Calls: %>% ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘multivariate.Rmd’ using rmarkdown

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘univariate.Rmd’ ... ECOG 2-3 vs. ECOG 1-2 1.41 2.0 2.82 <0.001 ECOG 1-2 vs. ECOG 2-3 0.35 0.5 0.71 <0.001

kaplan_meier_plot(result)

When sourcing ‘univariate.R’: Error: argument is of length zero Execution halted

‘multivariate.Rmd’ using ‘UTF-8’... OK ‘univariate.Rmd’ using ‘UTF-8’... failed ```

survminer

Version: 0.4.9
GitHub: https://github.com/kassambara/survminer
Source code: https://github.com/cran/survminer
Date/Publication: 2021-03-09 09:50:03 UTC
Number of recursive dependencies: 133

Run revdepcheck::cloud_details(, "survminer") for more info

checking examples ... ERROR ``` Running examples in ‘survminer-Ex.R’ failed The error most likely occurred in:

Name: BRCAOV.survInfo

Title: Breast and Ovarian Cancers Survival Information

Aliases: BRCAOV.survInfo

** Examples

data(BRCAOV.survInfo) ... The following object is masked from ‘package:survminer’:
```
myeloma
```
fit <- survfit(Surv(times, patient.vital_status) ~ admin.disease_code, + data = BRCAOV.survInfo) ggsurvplot(fit, data = BRCAOV.survInfo, risk.table = TRUE) Error in if (new_name %in% existing) { : argument is of length zero Calls: ggsurvplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(survminer) Loading required package: ggplot2 Loading required package: ggpubr > > test_check("survminer") [ FAIL 1 | WARN 1 | SKIP 0 | PASS 0 ] ...
1. └─survminer (local) <fn>(...)
2. └─ggplot2:::+.gg(...)
3. └─ggplot2:::add_ggplot(e1, e2, e2name)
4. ├─ggplot2::ggplot_add(object, p, objectname)
5. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
6. └─ggplot2:::new_layer_names(object, names(plot$layers))
[ FAIL 1 | WARN 1 | SKIP 0 | PASS 0 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Informative_Survival_Plots.Rmd’ ...

fit <- survfit(Surv(times, patient.vital_status) ~ + admin.disease_code, data = BRCAOV.survInfo)

ggsurvplot(fit, data = BRCAOV.survInfo, risk.table = TRUE)

...

ggsurvplot(fit, data = lung, pval = TRUE, pval.method = TRUE)

When sourcing ‘Specifiying_weights_in_log-rank_comparisons.R’: Error: argument is of length zero Execution halted

‘Informative_Survival_Plots.Rmd’ using ‘UTF-8’... failed ‘Playing_with_fonts_and_texts.Rmd’ using ‘UTF-8’... failed ‘Specifiying_weights_in_log-rank_comparisons.Rmd’ using ‘UTF-8’... failed ‘ggforest-show-interactions-hazard-ratio.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘Informative_Survival_Plots.Rmd’ using rmarkdown

Quitting from lines 66-72 [unnamed-chunk-4] (Informative_Survival_Plots.Rmd) Error: processing vignette 'Informative_Survival_Plots.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘Informative_Survival_Plots.Rmd’

--- re-building ‘Playing_with_fonts_and_texts.Rmd’ using rmarkdown

... --- failed re-building ‘Playing_with_fonts_and_texts.Rmd’

--- re-building ‘Specifiying_weights_in_log-rank_comparisons.Rmd’ using rmarkdown

Quitting from lines 98-99 [unnamed-chunk-4] (Specifiying_weights_in_log-rank_comparisons.Rmd) Error: processing vignette 'Specifiying_weights_in_log-rank_comparisons.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘Specifiying_weights_in_log-rank_comparisons.Rmd’

--- re-building ‘ggforest-show-interactions-hazard-ratio.Rmd’ using rmarkdown ```

checking installed package size ... NOTE installed size is 6.1Mb sub-directories of 1Mb or more: doc 5.6Mb

survParamSim

Version: 0.1.6
GitHub: https://github.com/yoshidk6/survParamSim
Source code: https://github.com/cran/survParamSim
Date/Publication: 2022-06-03 08:10:02 UTC
Number of recursive dependencies: 122

Run revdepcheck::cloud_details(, "survParamSim") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘survParamSim.Rmd’ ...
- "Lev+5FU")), depth = as.nu .... [TRUNCATED]
survfit.colon <- survfit(Surv(time, status) ~ rx, + data = colon2)

survminer::ggsurvplot(survfit.colon)

When sourcing ‘survParamSim.R’: Error: argument is of length zero Execution halted

‘survParamSim.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘survParamSim.Rmd’ using rmarkdown

Quitting from lines 53-58 [plot_raw_data] (survParamSim.Rmd) Error: processing vignette 'survParamSim.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘survParamSim.Rmd’

SUMMARY: processing the following file failed: ‘survParamSim.Rmd’

Error: Vignette re-building failed. Execution halted ```

survstan

Version: 0.0.7.1
GitHub: https://github.com/fndemarqui/survstan
Source code: https://github.com/cran/survstan
Date/Publication: 2024-04-12 16:50:02 UTC
Number of recursive dependencies: 127

Run revdepcheck::cloud_details(, "survstan") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘LRT.Rmd’ ... > ipass <- ipass %>% mutate(arm = as.factor(ipass$arm),
- arm = ifelse(arm == 1, "gefitinib", "carboplatin/paclitaxel"))
km <- survfit(Surv(time, status) ~ arm, data = ipass)

ggsurv(km)

When sourcing ‘LRT.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘LRT.Rmd’ using ‘UTF-8’... failed ‘survstan.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘LRT.Rmd’ using rmarkdown

Quitting from lines 31-42 [unnamed-chunk-2] (LRT.Rmd) Error: processing vignette 'LRT.Rmd' failed with diagnostics: invalid line type: must be length 2, 4, 6 or 8 --- failed re-building ‘LRT.Rmd’

--- re-building ‘survstan.Rmd’ using rmarkdown --- finished re-building ‘survstan.Rmd’

SUMMARY: processing the following file failed: ‘LRT.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking installed package size ... NOTE installed size is 80.3Mb sub-directories of 1Mb or more: libs 79.7Mb
checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘RcppParallel’ ‘rstantools’ All declared Imports should be used.
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

SVMMaj

Version: 0.2.9.2
GitHub: NA
Source code: https://github.com/cran/SVMMaj
Date/Publication: 2024-08-19 08:20:13 UTC
Number of recursive dependencies: 57

Run revdepcheck::cloud_details(, "SVMMaj") for more info

checking examples ... ERROR ``` Running examples in ‘SVMMaj-Ex.R’ failed The error most likely occurred in:

Name: print.q.svmmaj

Title: SVM-Maj Algorithm

Aliases: print.q.svmmaj svmmaj svmmaj.default

** Examples

...

model3 <- svmmaj( + diabetes$X, diabetes$y, weight.obs = weight.obs, + spline.knots = 3, spline.degree = 2 + ) plotWeights(model3, plotdim = c(2, 4)) Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: plotWeights ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘paper.Rnw’ ...
```
                TP        FP Precision
negative     0.741     0.259     0.879
positive     0.817     0.183     0.636
```
plotWeights(model.spline)

When sourcing ‘paper.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘paper.Rnw’... failed ```

checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘paper.Rnw’ using Sweave Scale for y is already present. Adding another scale for y, which will replace the existing scale. Scale for y is already present. Adding another scale for y, which will replace the existing scale.

Error: processing vignette 'paper.Rnw' failed with diagnostics: chunk 20 (label = splineweightsplot) ... Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8

--- failed re-building ‘paper.Rnw’

SUMMARY: processing the following file failed: ‘paper.Rnw’

Error: Vignette re-building failed. Execution halted ```

Sysrecon

Version: 0.1.3
GitHub: NA
Source code: https://github.com/cran/Sysrecon
Date/Publication: 2023-02-20 08:50:02 UTC
Number of recursive dependencies: 58

Run revdepcheck::cloud_details(, "Sysrecon") for more info

checking examples ... ERROR ``` Running examples in ‘Sysrecon-Ex.R’ failed The error most likely occurred in:

Name: Sysrecon

Title: Sysrecon

Aliases: Sysrecon

** Examples

... Warning in fortify(data, ...) : Arguments in ... must be used. ✖ Problematic arguments: • as.Date = as.Date • yscale_mapping = yscale_mapping • hang = hang ℹ Did you misspell an argument name? Error in as.unit(value) : object is not coercible to a unit Calls: Sysrecon ... assemble_guides -> guides_build -> [<- -> [<-.unit -> as.unit Execution halted ```

checking data for non-ASCII characters ... NOTE Note: found 38 marked UTF-8 strings

tabledown

Version: 1.0.0
GitHub: https://github.com/masiraji/tabledown
Source code: https://github.com/cran/tabledown
Date/Publication: 2024-05-02 13:40:03 UTC
Number of recursive dependencies: 164

Run revdepcheck::cloud_details(, "tabledown") for more info

checking examples ... ERROR ``` Running examples in ‘tabledown-Ex.R’ failed The error most likely occurred in:

Name: ggreliability_plotly

Title: A Function for Creating Item Response Theory based reliability

plot based on plotly.

Aliases: ggreliability_plotly

** Examples

... Iteration: 17, Log-Lik: -5351.363, Max-Change: 0.00011 Iteration: 18, Log-Lik: -5351.363, Max-Change: 0.00054 Iteration: 19, Log-Lik: -5351.363, Max-Change: 0.00012 Iteration: 20, Log-Lik: -5351.363, Max-Change: 0.00035 Iteration: 21, Log-Lik: -5351.363, Max-Change: 0.00010

plot <- ggreliability_plotly(data, model) Error in pm[[2]] : subscript out of bounds Calls: ggreliability_plotly -> -> ggplotly.ggplot -> gg2list Execution halted ```

checking data for non-ASCII characters ... NOTE Note: found 551 marked UTF-8 strings

tcgaViz

Version: 1.0.2
GitHub: NA
Source code: https://github.com/cran/tcgaViz
Date/Publication: 2023-04-04 15:40:02 UTC
Number of recursive dependencies: 142

Run revdepcheck::cloud_details(, "tcgaViz") for more info

checking running R code from vignettes ... ERROR `` Errors in running code in vignettes: when running code in ‘Tutorial.Rmd’ ... #P-value adjusted` , Significance

plot(df, stats = stats)

When sourcing ‘Tutorial.R’: Error: ℹ In index: 1. ℹ With name: value. Caused by error in if (new_name %in% existing) ...: ! argument is of length zero Execution halted

‘Tutorial.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘Tutorial.Rmd’ using rmarkdown

Quitting from lines 35-43 [plot] (Tutorial.Rmd) Error: processing vignette 'Tutorial.Rmd' failed with diagnostics: ℹ In index: 1. ℹ With name: value. Caused by error in if (new_name %in% existing) ...: ! argument is of length zero --- failed re-building ‘Tutorial.Rmd’

SUMMARY: processing the following file failed: ‘Tutorial.Rmd’

Error: Vignette re-building failed. Execution halted ```

TCIU

Version: 1.2.6
GitHub: https://github.com/SOCR/TCIU
Source code: https://github.com/cran/TCIU
Date/Publication: 2024-05-17 23:40:21 UTC
Number of recursive dependencies: 163

Run revdepcheck::cloud_details(, "TCIU") for more info

checking examples ... ERROR ``` Running examples in ‘TCIU-Ex.R’ failed The error most likely occurred in:

Name: fmri_image

Title: interactive graph object of the fMRI image

Aliases: fmri_image

** Examples

fmri_generate = fmri_simulate_func(dim_data = c(64, 64, 40), mask = mask) fmri_image(fmri_generate$fmri_data, option='manually', voxel_location = c(40,22,33), time = 4) Error in pm[[2]] : subscript out of bounds Calls: fmri_image ... add_trace -> add_data -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘tciu-LT-kimesurface.Rmd’ ... > require(ggplot2)

sample_save[[1]]

sample_save[[2]]

When sourcing ‘tciu-LT-kimesurface.R’: ...

fmri_image(fmri_generate$fmri_data, option = "manually", + voxel_location = c(40, 22, 33), time = 4)

When sourcing ‘tciu-fMRI-analytics.R’: Error: subscript out of bounds Execution halted

‘tciu-LT-kimesurface.Rmd’ using ‘UTF-8’... failed ‘tciu-fMRI-analytics.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘tciu-LT-kimesurface.Rmd’ using rmarkdown

Quitting from lines 159-160 [unnamed-chunk-5] (tciu-LT-kimesurface.Rmd) Error: processing vignette 'tciu-LT-kimesurface.Rmd' failed with diagnostics: unused arguments (list(1, 2), list(list("black", 0.727272727272727, 1, "butt", FALSE, TRUE), list("white", "black", 0.727272727272727, 1, TRUE), list("", "plain", "black", 16, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), NULL, NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(4, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 4, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 4, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 4), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(3.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 3.2, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 1, NULL, NULL, NULL, c(0, 3.2, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, c(0, 0, 0, 3.2), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0.5, NULL, NULL, NULL, c(0, 3.2, 0, 3.2), NULL, TRUE), list("grey20", NULL, NULL, NULL, FALSE, TRUE), NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 4, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.75, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, list(), NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, list(NULL, NA, NULL, NULL, TRUE), c(8, 8, 8, 8), 16, NULL, NULL, NULL, 1.2, NULL, NULL, 8, NULL, NULL, NULL, NULL, 0.2, NULL, list(NULL, NULL, NULL, 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, list(NULL, "bold", "black", 14, 0, NULL, NULL, NULL, NULL, NULL, FALSE), NULL, "right", NULL, NULL, NULL, "center", NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, c(0, 0, 0, 0), list(), 16, list("grey92", NA, NULL, NULL, TRUE), list(), 8, NULL, NULL, list("white", NULL, NULL, NULL, FALSE, TRUE), NULL, list(NULL, 0.5, NULL, NULL, FALSE, TRUE), NULL, list(), NULL, list(), FALSE, list(NULL, "white", NULL, NULL, TRUE), list(NULL, NULL, NULL, 1.2, 0.5, 1, NULL, ... Quitting from lines 184-185 [unnamed-chunk-5] (tciu-fMRI-analytics.Rmd) Error: processing vignette 'tciu-fMRI-analytics.Rmd' failed with diagnostics: subscript out of bounds --- failed re-building ‘tciu-fMRI-analytics.Rmd’

SUMMARY: processing the following files failed: ‘tciu-LT-kimesurface.Rmd’ ‘tciu-fMRI-analytics.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking installed package size ... NOTE installed size is 14.1Mb sub-directories of 1Mb or more: data 1.5Mb doc 12.0Mb

tcpl

Version: 3.1.0
GitHub: https://github.com/USEPA/CompTox-ToxCast-tcpl
Source code: https://github.com/cran/tcpl
Date/Publication: 2023-10-06 19:50:02 UTC
Number of recursive dependencies: 117

Run revdepcheck::cloud_details(, "tcpl") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ 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/tests.html > # * https://testthat.r-lib.org/reference/test_package.html#special-files ...
1. │ └─grid:::grid.draw.grob(x$children[[i]], recording = FALSE)
2. │ └─grDevices::recordGraphics(drawGrob(x), list(x = x), getNamespace("grid"))
3. └─grid:::drawGrob(x)
4. ├─grid::drawDetails(x, recording = FALSE)
5. └─grid:::drawDetails.polyline(x, recording = FALSE)
6. └─grid:::grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow)
[ FAIL 2 | WARN 4 | SKIP 3 | PASS 55 ] Error: Test failures Execution halted ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Data_processing-Archive_tcpl_v2.Rmd’ ... Loaded L4 AEID2 (7 rows; 0.03 secs) Processed L5 AEID2 (7 rows; 0.08 secs) Writing level 5 data for 2 ids... Completed delete cascade for 2 ids (0.03 secs) Writing level 5 complete. (0.03 secs) Loaded L5 AEID1 (6 rows; 0.11 secs)

When sourcing ‘Data_processing-Archive_tcpl_v2.R’: Error: attempt to apply non-function Execution halted

‘Assay_Registration.Rmd’ using ‘UTF-8’... OK ‘Data_processing-Archive_tcpl_v2.Rmd’ using ‘UTF-8’... failed ‘Data_processing.Rmd’ using ‘UTF-8’... OK ‘Data_retrieval.Rmd’ using ‘UTF-8’... OK ‘Introduction_Appendices.Rmd’ using ‘UTF-8’... OK ```

tern

Version: 0.9.5
GitHub: https://github.com/insightsengineering/tern
Source code: https://github.com/cran/tern
Date/Publication: 2024-06-21 04:40:06 UTC
Number of recursive dependencies: 109

Run revdepcheck::cloud_details(, "tern") for more info

checking examples ... ERROR ``` Running examples in ‘tern-Ex.R’ failed The error most likely occurred in:

Name: g_km

Title: Kaplan-Meier plot

Aliases: g_km kaplan_meier

** Examples

library(dplyr) ... + control_surv = control_surv_timepoint(conf_level = 0.9), + col = c("grey25", "grey50", "grey75"), + annot_at_risk_title = FALSE, + lty = 1:3, + font_size = 8 + ) Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```

checking installed package size ... NOTE installed size is 9.8Mb sub-directories of 1Mb or more: R 1.5Mb doc 4.5Mb help 3.3Mb

thematic

Version: 0.1.6
GitHub: https://github.com/rstudio/thematic
Source code: https://github.com/cran/thematic
Date/Publication: 2024-07-29 15:50:02 UTC
Number of recursive dependencies: 106

Run revdepcheck::cloud_details(, "thematic") for more info

checking examples ... ERROR ``` Running examples in ‘thematic-Ex.R’ failed The error most likely occurred in:

Name: sequential_gradient

Title: Control parameters of the sequential colorscale

Aliases: sequential_gradient

** Examples

Gradient from fg to accent

fg <- sequential_gradient(1, 0) thematic_on("black", "white", "salmon", sequential = fg) ggplot2::qplot(1:10, 1:10, color = 1:10) Warning: qplot() was deprecated in ggplot2 3.4.0. Error in adjust_color(user_default$colour, bg, fg, accent) : Internal error: adjust_color() expects an input of length 1 Calls: ... -> -> update_defaults -> adjust_color Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(thematic) > > test_check("thematic") [ FAIL 9 | WARN 1 | SKIP 7 | PASS 27 ]

══ Skipped tests (7) ═══════════════════════════════════════════════════════════ ... 10. └─base::Map(...) 11. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE) 12. └─thematic (local) <fn>(dots[[1L]][[1L]], dots[[2L]][[1L]]) 13. ├─ggplot2::update_geom_defaults(...) 14. │ └─ggplot2:::update_defaults(geom, "Geom", new, env = parent.frame()) 15. └─thematic:::adjust_color(user_default$colour, bg, fg, accent)

[ FAIL 9 | WARN 1 | SKIP 7 | PASS 27 ] Error: Test failures Execution halted ```

Thermistor

Version: 1.1.0
GitHub: NA
Source code: https://github.com/cran/Thermistor
Date/Publication: 2024-04-05 15:43:02 UTC
Number of recursive dependencies: 28

Run revdepcheck::cloud_details(, "Thermistor") for more info

checking examples ... ERROR ``` Running examples in ‘Thermistor-Ex.R’ failed The error most likely occurred in:

Name: plot_voltageCurve

Title: Plot the V-DeltaT Curve

Aliases: plot_voltageCurve

** Examples

only target curve

... ThVal <- CompValues$ThVal ThBeta <- CompValues$ThBeta Vnew <- voltageCurve(Tdata, R_id, Res, ThVal, ThBeta) plot_voltageCurve(Tdata, OnlyTarget = FALSE, Pdata = Vnew) Warning in ggplot2::geom_line(ggplot2::aes(x = xid, y = Vdata, colour = "target", : Ignoring unknown aesthetics: shape Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```

tidybayes

Version: 3.0.6
GitHub: https://github.com/mjskay/tidybayes
Source code: https://github.com/cran/tidybayes
Date/Publication: 2023-08-12 23:30:02 UTC
Number of recursive dependencies: 200

Run revdepcheck::cloud_details(, "tidybayes") for more info

checking examples ... ERROR ``` Running examples in ‘tidybayes-Ex.R’ failed The error most likely occurred in:

Name: compare_levels

Title: Compare the value of draws of some variable from a Bayesian

model for different levels of a factor

Aliases: compare_levels

Keywords: manip

** Examples

... 12. │ └─ggplot2 (local) f(l = layers[[i]], d = data[[i]]) 13. │ └─l$compute_geom_2(d, theme = plot$theme) 14. │ └─ggplot2 (local) compute_geom_2(..., self = self) 15. │ └─self$geom$use_defaults(...) 16. └─base::.handleSimpleError(...) 17. └─rlang (local) h(simpleError(msg, call)) 18. └─handlers[1L] 19. └─cli::cli_abort(...) 20. └─rlang::abort(...) Execution halted ```

checking tests ... ERROR Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > # This is necessary because some tests fail otherwise; see https://github.com/hadley/testthat/issues/144 > Sys.setenv("R_TESTS" = "") > > library(testthat) > library(tidybayes) > > test_check("tidybayes") ... • test.geom_interval/grouped-intervals-h-stat.svg • test.geom_pointinterval/grouped-pointintervals-h-stat.svg • test.stat_dist_slabinterval/ccdfintervalh-using-args.svg • test.stat_eye/one-parameter-horizontal-eye-mode-hdi.svg • test.stat_eye/one-parameter-horizontal-half-eye.svg • test.stat_eye/one-parameter-vertical-eye.svg • test.stat_eye/one-parameter-vertical-halfeye.svg • test.stat_eye/two-parameter-factor-horizontal-eye-fill.svg Error: Test failures Execution halted
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘tidy-brms.Rmd’ ...
- ]) %>% median_qi(condition_mean = b_Intercept + r_condition,
- .width = c(0.95, 0 .... [TRUNCATED]
When sourcing ‘tidy-brms.R’: Error: Problem while setting up geom aesthetics. ℹ Error occurred in the 1st layer. Caused by error in use_defaults(): ...

When sourcing ‘tidybayes.R’: Error: error in evaluating the argument 'object' in selecting a method for function 'sampling': object 'ABC_stan' not found Execution halted

‘tidy-brms.Rmd’ using ‘UTF-8’... failed ‘tidy-posterior.Rmd’ using ‘UTF-8’... failed ‘tidy-rstanarm.Rmd’ using ‘UTF-8’... failed ‘tidybayes-residuals.Rmd’ using ‘UTF-8’... failed ‘tidybayes.Rmd’ using ‘UTF-8’... failed ```

tidycat

Version: 0.1.2
GitHub: https://github.com/guyabel/tidycat
Source code: https://github.com/cran/tidycat
Date/Publication: 2021-08-02 04:20:01 UTC
Number of recursive dependencies: 70

Run revdepcheck::cloud_details(, "tidycat") for more info

checking examples ... ERROR ``` Running examples in ‘tidycat-Ex.R’ failed The error most likely occurred in:

Name: tidy_categorical

Title: Expand broom::tidy() Outputs for Categorical Parameter Estimates

Aliases: tidy_categorical

** Examples

strip ordering in factors (currently ordered factor not supported)

... ggplot(data = d0, + mapping = aes(x = level, colour = reference, + y = estimate, ymin = conf.low, ymax = conf.high)) + + facet_row(facets = vars(variable), scales = "free_x", space = "free") + + geom_hline(yintercept = 0, linetype = "dashed") + + geom_pointrange() + + theme(axis.text.x = element_text(angle = 45, hjust = 1)) Error in space$x : $ operator is invalid for atomic vectors Calls: ... -> draw_panels -> -> init_gtable Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘intro.Rmd’ ...

library(ggforce)

ggplot(data = d0, mapping = aes(x = level, y = estimate, + colour = reference, ymin = conf.low, ymax = conf.high)) + + facet_col(facets = .... [TRUNCATED]

When sourcing ‘intro.R’: Error: $ operator is invalid for atomic vectors Execution halted

‘intro.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘intro.Rmd’ using rmarkdown

checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘tidyr’ All declared Imports should be used.

tidyCDISC

Version: 0.2.1
GitHub: https://github.com/Biogen-Inc/tidyCDISC
Source code: https://github.com/cran/tidyCDISC
Date/Publication: 2023-03-16 14:20:02 UTC
Number of recursive dependencies: 141

Run revdepcheck::cloud_details(, "tidyCDISC") for more info

checking tests ... ERROR ``` Running ‘spelling.R’ Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(tidyCDISC) > library(shinyjs)

Attaching package: 'shinyjs'

... 6. ├─plotly::config(...) 7. │ └─plotly:::modify_list(p$x$config, args) 8. │ ├─utils::modifyList(x %||% list(), y %||% list(), ...) 9. │ │ └─base::stopifnot(is.list(x), is.list(val)) 10. │ └─x %||% list() 11. └─plotly::layout(...)

[ FAIL 1 | WARN 1 | SKIP 15 | PASS 91 ] Error: Test failures Execution halted ```

checking installed package size ... NOTE installed size is 6.5Mb sub-directories of 1Mb or more: R 1.5Mb data 2.0Mb doc 1.8Mb

tidydr

Version: 0.0.5
GitHub: https://github.com/YuLab-SMU/tidydr
Source code: https://github.com/cran/tidydr
Date/Publication: 2023-03-08 09:20:02 UTC
Number of recursive dependencies: 79

Run revdepcheck::cloud_details(, "tidydr") for more info

checking whether package ‘tidydr’ can be installed ... ERROR Installation failed. See ‘/tmp/workdir/tidydr/new/tidydr.Rcheck/00install.out’ for details.

* installing *source* package ‘tidydr’ ...
** package ‘tidydr’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
Error in get(x, envir = ns, inherits = FALSE) : 
  object 'len0_null' not found
Error: unable to load R code in package ‘tidydr’
Execution halted
ERROR: lazy loading failed for package ‘tidydr’
* removing ‘/tmp/workdir/tidydr/new/tidydr.Rcheck/tidydr’

* installing *source* package ‘tidydr’ ...
** package ‘tidydr’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** 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 (tidydr)

tidysdm

Version: 0.9.5
GitHub: https://github.com/EvolEcolGroup/tidysdm
Source code: https://github.com/cran/tidysdm
Date/Publication: 2024-06-23 19:40:02 UTC
Number of recursive dependencies: 180

Run revdepcheck::cloud_details(, "tidysdm") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘a0_tidysdm_overview.Rmd’ ... > climate_vars <- names(climate_present)

lacerta_thin <- lacerta_thin %>% bind_cols(terra::extract(climate_present, + lacerta_thin, ID = FALSE))

lacerta_thin %>% plot_pres_vs_bg(class)

When sourcing ‘a0_tidysdm_overview.R’: Error: object is not a unit Execution halted

‘a0_tidysdm_overview.Rmd’ using ‘UTF-8’... failed ‘a1_palaeodata_application.Rmd’ using ‘UTF-8’... OK ‘a2_tidymodels_additions.Rmd’ using ‘UTF-8’... OK ‘a3_troubleshooting.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘a0_tidysdm_overview.Rmd’ using rmarkdown

checking installed package size ... NOTE installed size is 5.4Mb sub-directories of 1Mb or more: data 2.5Mb doc 2.0Mb

tidySEM

Version: 0.2.7
GitHub: https://github.com/cjvanlissa/tidySEM
Source code: https://github.com/cran/tidySEM
Date/Publication: 2024-06-04 09:46:01 UTC
Number of recursive dependencies: 229

Run revdepcheck::cloud_details(, "tidySEM") for more info

checking examples ... ERROR ``` Running examples in ‘tidySEM-Ex.R’ failed The error most likely occurred in:

Name: edit_graph

Title: Edit graph elements

Aliases: edit_graph edit_nodes edit_edges

** Examples

p <- prepare_graph(layout = get_layout("x", rows = 1)) p <- edit_graph(p, {colour = "blue"}, element = "nodes") plot(p) Error in if (new_name %in% existing) { : argument is of length zero Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(tidySEM) Loading required package: OpenMx To take full advantage of multiple cores, use: mxOption(key='Number of Threads', value=parallel::detectCores()) #now Sys.setenv(OMP_NUM_THREADS=parallel::detectCores()) #before library(OpenMx) Registered S3 method overwritten by 'tidySEM': ...
1. └─tidySEM:::.plot_edges_internal(p, df_edges)
2. └─ggplot2:::+.gg(p, do.call(geom_path, argslist))
3. └─ggplot2:::add_ggplot(e1, e2, e2name)
4. ├─ggplot2::ggplot_add(object, p, objectname)
5. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
6. └─ggplot2:::new_layer_names(object, names(plot$layers))
[ FAIL 17 | WARN 1 | SKIP 6 | PASS 65 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Plotting_graphs.Rmd’ ...

suppressWarnings({ + HS.model <- " visual =~ x1 + x2 + x3\n textual =~ x4 + x5 + x6\n speed =~ x7 + x8 + x9 " + .... [TRUNCATED]

p <- graph_sem(model = fit, text_size = 2, fix_coord = TRUE)

...

‘Generating_syntax.Rmd’ using ‘UTF-8’... OK ‘Plotting_graphs.Rmd’ using ‘UTF-8’... failed ‘SMART_LCA_checklist.Rmd’ using ‘UTF-8’... OK ‘Tabulating_results.Rmd’ using ‘UTF-8’... OK ‘lca_confirmatory.Rmd’ using ‘UTF-8’... OK ‘lca_exploratory.Rmd’ using ‘UTF-8’... OK ‘lca_lcga.Rmd’ using ‘UTF-8’... OK ‘lca_ordinal.Rmd’ using ‘UTF-8’... OK ‘sem_graph.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘Generating_syntax.Rmd’ using rmarkdown --- finished re-building ‘Generating_syntax.Rmd’

--- re-building ‘Plotting_graphs.Rmd’ using rmarkdown

Quitting from lines 77-80 [unnamed-chunk-5] (Plotting_graphs.Rmd) Error: processing vignette 'Plotting_graphs.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘Plotting_graphs.Rmd’ ... Quitting from lines 48-51 [unnamed-chunk-3] (sem_graph.Rmd) Error: processing vignette 'sem_graph.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘sem_graph.Rmd’

SUMMARY: processing the following files failed: ‘Plotting_graphs.Rmd’ ‘sem_graph.Rmd’

Error: Vignette re-building failed. Execution halted ```

tidytreatment

Version: 0.2.2
GitHub: https://github.com/bonStats/tidytreatment
Source code: https://github.com/cran/tidytreatment
Date/Publication: 2022-02-21 09:00:07 UTC
Number of recursive dependencies: 97

Run revdepcheck::cloud_details(, "tidytreatment") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘use-tidytreatment-BART.Rmd’ ...
- by = ".row") %>% ggplot() + stat_halfeye(aes(x = z, y = fit)) +
- facet_wrap(~c1, l .... [TRUNCATED]
When sourcing ‘use-tidytreatment-BART.R’: Error: Problem while setting up geom aesthetics. ℹ Error occurred in the 1st layer. Caused by error in use_defaults(): ! unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, Execution halted

‘use-tidytreatment-BART.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘use-tidytreatment-BART.Rmd’ using rmarkdown

Quitting from lines 163-177 [plot-tidy-bart] (use-tidytreatment-BART.Rmd) Error: processing vignette 'use-tidytreatment-BART.Rmd' failed with diagnostics: Problem while setting up geom aesthetics. ℹ Error occurred in the 1st layer. Caused by error in use_defaults(): ! unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, ... NULL, NULL, NULL, NULL, list(NULL, NA, NULL, NULL, TRUE), NULL, 2, NULL, NULL, NULL, 1.2, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.2, NULL, list(NULL, NULL, NULL, 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, "right", NULL, NULL, NULL, "center", NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0, list(), 2, list("white", NA, NULL, NULL, TRUE), list(NULL, "grey20", NULL, NULL, TRUE), NULL, NULL, NULL, list("grey92", NULL, NULL, NULL, FALSE, "grey92", TRUE), NULL, list(NULL, 0.5, NULL, NULL, FALSE, NULL, TRUE), NULL, NULL, NULL, NULL, FALSE, list(NULL, "white", NULL, NULL, TRUE), list(NULL, NULL, NULL, 1.2, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, NULL, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), list(NULL, NULL, NULL, 0.8, 1, 1, NULL, NULL, c(5.5, 0, 0, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, 1.2, 0.5, 0.5, NULL, NULL, NULL, NULL, TRUE), "topleft", NULL, NULL, list("grey85", "grey20", NULL, NULL, TRUE), NULL, NULL, "on", "inside", list(NULL, NULL, "grey10", 0.8, NULL, NULL, NULL, NULL, c(4.4, 4.4, 4.4, 4.4), NULL, TRUE), NULL, NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, NULL, -90, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, 90, NULL, NULL, NULL, TRUE), NULL, 2.75, 2.75)) --- failed re-building ‘use-tidytreatment-BART.Rmd’

SUMMARY: processing the following file failed: ‘use-tidytreatment-BART.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking package dependencies ... NOTE Package which this enhances but not available for checking: ‘bartMachine’

timeplyr

Version: 0.8.2
GitHub: https://github.com/NicChr/timeplyr
Source code: https://github.com/cran/timeplyr
Date/Publication: 2024-08-17 13:40:02 UTC
Number of recursive dependencies: 83

Run revdepcheck::cloud_details(, "timeplyr") for more info

checking examples ... ERROR ``` Running examples in ‘timeplyr-Ex.R’ failed The error most likely occurred in:

Name: time_ggplot

Title: Quick time-series ggplot

Aliases: time_ggplot

** Examples

library(dplyr) ... data.table::setDTthreads(threads = 2L) collapse::set_collapse(nthreads = 1L)

End(Don't show)

It's as easy as this

AirPassengers %>% + ts_as_tibble() %>% + time_ggplot(time, value) Error in if (new_name %in% existing) { : argument is of length zero Calls: %>% ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

timetk

Version: 2.9.0
GitHub: https://github.com/business-science/timetk
Source code: https://github.com/cran/timetk
Date/Publication: 2023-10-31 22:30:02 UTC
Number of recursive dependencies: 205

Run revdepcheck::cloud_details(, "timetk") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ 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 ... 7. └─timetk:::plot_time_series.grouped_df(...) 8. ├─timetk::plot_time_series(...) 9. └─timetk:::plot_time_series.data.frame(...)
1. ├─plotly::ggplotly(g, dynamicTicks = TRUE)
2. └─plotly:::ggplotly.ggplot(g, dynamicTicks = TRUE)
3. └─plotly::gg2list(...)
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 406 ] Error: Test failures Execution halted ```

checking data for non-ASCII characters ... NOTE Note: found 2750 marked UTF-8 strings

tinyarray

Version: 2.4.2
GitHub: https://github.com/xjsun1221/tinyarray
Source code: https://github.com/cran/tinyarray
Date/Publication: 2024-06-13 14:20:02 UTC
Number of recursive dependencies: 243

Run revdepcheck::cloud_details(, "tinyarray") for more info

checking examples ... ERROR ``` Running examples in ‘tinyarray-Ex.R’ failed The error most likely occurred in:

Name: box_surv

Title: box_surv

Aliases: box_surv

** Examples

if(requireNamespace("ggpubr",quietly = TRUE)) { + k = box_surv(log2(exp_hub1+1),exprSet_hub1,meta1);k[[1]] + }else{ + warning("Package 'ggpubr' needed for this function to work. + Please install it by install.packages('ggpubr')") + } Error in if (new_name %in% existing) { : argument is of length zero Calls: box_surv ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

checking package dependencies ... NOTE Package suggested but not available for checking: ‘ComplexHeatmap’

tipmap

Version: 0.5.2
GitHub: https://github.com/Boehringer-Ingelheim/tipmap
Source code: https://github.com/cran/tipmap
Date/Publication: 2023-08-14 10:30:03 UTC
Number of recursive dependencies: 104

Run revdepcheck::cloud_details(, "tipmap") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘introduction.Rmd’ ...

MAP Prior MCMC sample: mean sd 2.5% 50% 97.5% theta_resp_pred 1.43 0.356 0.661 1.44 2.1

plot(map_mcmc)$forest_model

When sourcing ‘introduction.R’: Error: argument is of length zero Execution halted

‘expert_elicitation.Rmd’ using ‘UTF-8’... OK ‘introduction.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘expert_elicitation.Rmd’ using rmarkdown

tornado

Version: 0.1.3
GitHub: https://github.com/bertcarnell/tornado
Source code: https://github.com/cran/tornado
Date/Publication: 2024-01-21 17:30:02 UTC
Number of recursive dependencies: 114

Run revdepcheck::cloud_details(, "tornado") for more info

checking examples ... ERROR ``` Running examples in ‘tornado-Ex.R’ failed The error most likely occurred in:

Name: importance.cv.glmnet

Title: Plot Variable Importance for a GLMNET model

Aliases: importance.cv.glmnet

** Examples

if (requireNamespace("glmnet", quietly = TRUE)) ... + form <- formula(mpg ~ cylwthp) + mf <- model.frame(form, data = mtcars) + mm <- model.matrix(mf, mf) + gtest <- glmnet::cv.glmnet(x = mm, y = mtcars$mpg, family = "gaussian") + imp <- importance(gtest, mtcars, form, nperm = 50) + plot(imp) + } Error in if (new_name %in% existing) { : argument is of length zero Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > if (require(testthat))
- {
- library(tornado)
- test_check("tornado")
- } Loading required package: testthat ...
- └─tornado:::plot.tornado_plot(torn, plot = FALSE, xlabel = "Probability of Class 1")
- └─ggplot2:::+.gg(...)
- └─ggplot2:::add_ggplot(e1, e2, e2name)
- ├─ggplot2::ggplot_add(object, p, objectname)
- └─ggplot2:::ggplot_add.Layer(object, p, objectname)
- └─ggplot2:::new_layer_names(object, names(plot$layers))
[ FAIL 28 | WARN 14 | SKIP 0 | PASS 86 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘tornadoVignette.Rmd’ ... > lm1 <- lm(mpg ~ cyl * wt * hp, data = mtcars)

torn1 <- tornado::tornado(lm1, type = "PercentChange", + alpha = 0.1)

plot(torn1, xlabel = "MPG", geom_bar_control = list(width = 0.4))

When sourcing ‘tornadoVignette.R’: Error: argument is of length zero Execution halted

‘tornadoVignette.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘tornadoVignette.Rmd’ using rmarkdown

Quitting from lines 106-109 [lm1] (tornadoVignette.Rmd) Error: processing vignette 'tornadoVignette.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘tornadoVignette.Rmd’

SUMMARY: processing the following file failed: ‘tornadoVignette.Rmd’

Error: Vignette re-building failed. Execution halted ```

TOSTER

Version: 0.8.3
GitHub: NA
Source code: https://github.com/cran/TOSTER
Date/Publication: 2024-05-08 16:40:02 UTC
Number of recursive dependencies: 106

Run revdepcheck::cloud_details(, "TOSTER") for more info

checking examples ... ERROR ``` Running examples in ‘TOSTER-Ex.R’ failed The error most likely occurred in:

Name: dataTOSTone

Title: TOST One Sample T-Test

Aliases: dataTOSTone

** Examples

library("TOSTER") ... N Mean Median SD SE ───────────────────────────────────────────────────────────────────────── Sepal.Width 150 3.057333 3.000000 0.4358663 0.03558833 ─────────────────────────────────────────────────────────────────────────

Error in use_defaults(..., self = self) : unused argument (theme = list(list("black", 0.727272727272727, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.727272727272727, 1, TRUE), list("", "plain", "black", 16, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.727272727272727, 0.727272727272727, 1, 1, "", 5.62335685623357, 2.18181818181818, 19, TRUE), 8, c(8, 8, 8, 8), NULL, NULL, list(NULL, NULL, "#333333", NULL, NULL, NULL, NULL, NULL, c(10, 0, 0, 0), NULL, FALSE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 4, 0), NULL, TRUE), NULL, list(NULL, NULL, "#333333", NULL, NULL, NULL, 90, NULL, c(0, 10, 0, 0), NULL, FALSE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 4), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, "#333333", NULL, NULL, NULL, NULL, NULL, c(5, 0, 0, 0), NULL, FALSE), list(NULL, NULL, NULL, NU Calls: ... -> -> -> Execution halted ```
checking tests ... ERROR ``` Running ‘spelling.R’ Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(TOSTER)

Attaching package: 'TOSTER'

The following object is masked from 'package:testthat': ... 26. └─base::Map(...) 27. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE) 28. └─ggplot2 (local) <fn>(layer = dots[[1L]][[1L]], df = dots[[2L]][[1L]]) 29. └─layer$compute_geom_2(key, single_params, theme) 30. └─ggplot2 (local) compute_geom_2(..., self = self) 31. └─self$geom$use_defaults(...)

[ FAIL 8 | WARN 0 | SKIP 0 | PASS 1034 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘IntroTOSTt.Rmd’ ... mean of x mean of y 0.75 2.33

plot(res1, type = "cd")

When sourcing ‘IntroTOSTt.R’: ... Error: unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(7, 0, 0, 0), NULL, FALSE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 7, 0, 0), NULL, FALSE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, "bold", NULL, 11, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, FALSE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(), NULL, list Execution halted

‘IntroTOSTt.Rmd’ using ‘UTF-8’... failed ‘IntroductionToTOSTER.Rmd’ using ‘UTF-8’... OK ‘SMD_calcs.Rmd’ using ‘UTF-8’... OK ‘correlations.Rmd’ using ‘UTF-8’... OK ‘robustTOST.Rmd’ using ‘UTF-8’... failed ‘the_ftestTOSTER.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘IntroTOSTt.Rmd’ using rmarkdown

TreatmentPatterns

Version: 2.6.9
GitHub: https://github.com/darwin-eu/TreatmentPatterns
Source code: https://github.com/cran/TreatmentPatterns
Date/Publication: 2024-09-02 12:40:06 UTC
Number of recursive dependencies: 142

Run revdepcheck::cloud_details(, "TreatmentPatterns") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ 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/tests.html > # * https://testthat.r-lib.org/reference/test_package.html#special-files ...
1. ├─testthat::expect_s3_class(output$charAgePlot$html, "html") at test-CharacterizationPlots.R:50:9
2. │ └─testthat::quasi_label(enquo(object), arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─output$charAgePlot
5. └─shiny:::$.shinyoutput(output, charAgePlot)
6. └─.subset2(x, "impl")$getOutput(name)
[ FAIL 1 | WARN 39 | SKIP 21 | PASS 138 ] Error: Test failures Execution halted ```

TreatmentSelection

Version: 2.1.1
GitHub: NA
Source code: https://github.com/cran/TreatmentSelection
Date/Publication: 2017-08-11 18:55:47 UTC
Number of recursive dependencies: 30

Run revdepcheck::cloud_details(, "TreatmentSelection") for more info

checking examples ... ERROR ``` Running examples in ‘TreatmentSelection-Ex.R’ failed The error most likely occurred in:

Name: compare.trtsel

Title: compare the performance of two treatment selection markers

Aliases: compare.trtsel

** Examples

...

Plot treatment effect curves with pointwise confidence intervals

use more bootstraps in practice

compare(x = trtsel.Y1, x2 = trtsel.Y2, + bootstraps = 10, plot = TRUE, + ci = "horizontal", conf.bands = TRUE) Bootstrap bias-correction will be implemented to correct for over-optimism bias in estimation. Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: compare ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```

TreeDep

Version: 0.1.3
GitHub: NA
Source code: https://github.com/cran/TreeDep
Date/Publication: 2018-12-02 17:50:03 UTC
Number of recursive dependencies: 32

Run revdepcheck::cloud_details(, "TreeDep") for more info

checking examples ... ERROR ``` Running examples in ‘TreeDep-Ex.R’ failed The error most likely occurred in:

Name: TreeDep_plot

Title: TreeDep_plot - Generates a plot for selected variables and

dates.

Aliases: TreeDep_plot

** Examples

... + start_day = 25, + stop_day = 3) Warning: Removed 12 rows containing missing values or values outside the scale range (geom_line()). Warning: Removed 12 rows containing missing values or values outside the scale range (geom_line()). Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```

TreeDist

Version: 2.9.1
GitHub: https://github.com/ms609/TreeDist
Source code: https://github.com/cran/TreeDist
Date/Publication: 2024-09-07 09:20:02 UTC
Number of recursive dependencies: 229

Run revdepcheck::cloud_details(, "TreeDist") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘treespace.Rmd’ ... [1] "Epoch: 3 finished. 212 datapoints changed bestmatch" [1] "Epoch: 4 started" [1] "Epoch: 4 finished. 203 datapoints changed bestmatch" [1] "Epoch: 5 started" [1] "Epoch: 5 finished. 165 datapoints changed bestmatch" [1] "---- Esom Training Finished ----"

...

‘Generalized-RF.Rmd’ using ‘UTF-8’... OK ‘Robinson-Foulds.Rmd’ using ‘UTF-8’... OK ‘Using-TreeDist.Rmd’ using ‘UTF-8’... OK ‘compare-treesets.Rmd’ using ‘UTF-8’... OK ‘different-leaves.Rmd’ using ‘UTF-8’... OK ‘information.Rmd’ using ‘UTF-8’... OK ‘landscapes.Rmd’ using ‘UTF-8’... OK ‘treespace.Rmd’ using ‘UTF-8’... failed ‘using-distances.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘Generalized-RF.Rmd’ using rmarkdown

checking installed package size ... NOTE installed size is 7.7Mb sub-directories of 1Mb or more: doc 1.2Mb libs 5.9Mb

treeheatr

Version: 0.2.1
GitHub: https://github.com/trang1618/treeheatr
Source code: https://github.com/cran/treeheatr
Date/Publication: 2020-11-19 21:00:03 UTC
Number of recursive dependencies: 97

Run revdepcheck::cloud_details(, "treeheatr") for more info

checking examples ... ERROR ``` Running examples in ‘treeheatr-Ex.R’ failed The error most likely occurred in:

Name: draw_tree

Title: Draws the conditional decision tree.

Aliases: draw_tree

** Examples

x <- compute_tree(penguins, target_lab = 'species') draw_tree(x$dat, x$fit, x$term_dat, x$layout) Error in if (new_name %in% existing) { : argument is of length zero Calls: draw_tree ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘explore.Rmd’ ...

library(treeheatr)

penguins <- na.omit(penguins)

heat_tree(penguins, target_lab = "species")

When sourcing ‘explore.R’: Error: argument is of length zero Execution halted

‘explore.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘explore.Rmd’ using rmarkdown

Quitting from lines 33-36 [unnamed-chunk-2] (explore.Rmd) Error: processing vignette 'explore.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘explore.Rmd’

SUMMARY: processing the following file failed: ‘explore.Rmd’

Error: Vignette re-building failed. Execution halted ```

trelliscopejs

Version: 0.2.6
GitHub: https://github.com/hafen/trelliscopejs
Source code: https://github.com/cran/trelliscopejs
Date/Publication: 2021-02-01 08:00:02 UTC
Number of recursive dependencies: 106

Run revdepcheck::cloud_details(, "trelliscopejs") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(trelliscopejs) > > test_check("trelliscopejs") [ FAIL 1 | WARN 2 | SKIP 0 | PASS 0 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ... 4. └─base::lapply(...) 5. └─trelliscopejs (local) FUN(X[[i]], ...) 6. ├─base::do.call(plotly::ggplotly, c(list(p = q), plotly_args)) 7. ├─plotly (local) <fn>(p = <gg>) 8. └─plotly:::ggplotly.ggplot(p = <gg>) 9. └─plotly::gg2list(...)

[ FAIL 1 | WARN 2 | SKIP 0 | PASS 0 ] Error: Test failures Execution halted ```

tricolore

Version: 1.2.4
GitHub: https://github.com/jschoeley/tricolore
Source code: https://github.com/cran/tricolore
Date/Publication: 2024-05-15 15:00:02 UTC
Number of recursive dependencies: 108

Run revdepcheck::cloud_details(, "tricolore") for more info

checking examples ... ERROR ``` Running examples in ‘tricolore-Ex.R’ failed The error most likely occurred in:

Name: ColorKeySextant

Title: Sextant Scheme Legend

Aliases: ColorKeySextant

Keywords: internal

** Examples

... 3. ├─ggtern::ggplot_build(x) 4. └─ggtern:::ggplot_build.ggplot(x) 5. └─ggtern:::layers_add_or_remove_mask(plot) 6. └─ggint$plot_theme(plot) 7. └─ggplot2:::validate_theme(theme) 8. └─base::mapply(...) 9. └─ggplot2 (local) <fn>(...) 10. └─cli::cli_abort(...) 11. └─rlang::abort(...) Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘choropleth_maps_with_tricolore.Rmd’ ...

plot_educ <- ggplot(euro_example) + geom_sf(aes(fill = rgb, + geometry = geometry), size = 0.1) + scale_fill_identity()

plot_educ

When sourcing ‘choropleth_maps_with_tricolore.R’: Error: The tern.axis.ticks.length.major theme element must be a object. Execution halted

‘choropleth_maps_with_tricolore.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘choropleth_maps_with_tricolore.Rmd’ using rmarkdown

Quitting from lines 61-72 [unnamed-chunk-4] (choropleth_maps_with_tricolore.Rmd) Error: processing vignette 'choropleth_maps_with_tricolore.Rmd' failed with diagnostics: The tern.axis.ticks.length.major theme element must be a object. --- failed re-building ‘choropleth_maps_with_tricolore.Rmd’

SUMMARY: processing the following file failed: ‘choropleth_maps_with_tricolore.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking data for non-ASCII characters ... NOTE Note: found 2 marked UTF-8 strings

triptych

Version: 0.1.3
GitHub: https://github.com/aijordan/triptych
Source code: https://github.com/cran/triptych
Date/Publication: 2024-06-13 15:50:02 UTC
Number of recursive dependencies: 64

Run revdepcheck::cloud_details(, "triptych") for more info

checking examples ... ERROR ``` Running examples in ‘triptych-Ex.R’ failed The error most likely occurred in:

Name: plot.triptych

Title: Plot methods for the triptych classes

Aliases: plot.triptych autoplot.triptych plot.triptych_murphy

autoplot.triptych_murphy plot.triptych_reliability

autoplot.triptych_reliability plot.triptych_roc autoplot.triptych_roc

plot.triptych_mcbdsc autoplot.triptych_mcbdsc

** Examples

data(ex_binary, package = "triptych") tr <- triptych(ex_binary)

dplyr::slice(tr, 1, 3, 6, 9) |> autoplot() Error in identicalUnits(x) : object is not a unit Calls: ... assemble_guides -> guides_build -> unit.c -> identicalUnits Execution halted ```

tsnet

Version: 0.1.0
GitHub: https://github.com/bsiepe/tsnet
Source code: https://github.com/cran/tsnet
Date/Publication: 2024-02-28 11:30:02 UTC
Number of recursive dependencies: 77

Run revdepcheck::cloud_details(, "tsnet") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ 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/tests.html > # * https://testthat.r-lib.org/reference/test_package.html#special-files ... unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(7, 0, 0, 0), NULL, FALSE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 7, 0, 0), NULL, FALSE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 1, NULL, NULL, NULL, c(0, 2.2, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, c(0, 0, 0, 2.2), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0.5, NULL, NULL, NULL, c(0, 2.2, 0, 2.2), NULL, TRUE), list("grey70", 0.5, NULL, NULL, FALSE, "grey70", TRUE), NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.5, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.75, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, list(), list("gray70", 0.5, NULL, NULL, FALSE, "gray70", FALSE), NULL, NULL, list("gray70", 0.5, NULL, NULL, FALSE, "gray70", FALSE), NULL, NULL, NULL, NULL, list(NULL, NA, NULL, NULL, TRUE), NULL, 2, NULL, NULL, NULL, 1.2, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.2, NULL, list(NULL, NULL, NULL, 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, "right", NULL, NULL, NULL, "center", NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0, list(), 2, list("white", NA, NULL, NULL, TRUE), list(), NULL, NULL, NULL, list("grey87", NULL, NULL, NULL, FALSE, "grey87", TRUE), list(), list(), NULL, NULL, NULL, NULL, FALSE, list(NULL, "white", NULL, NULL, TRUE), list(NULL, NULL, NULL, 1.2, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, NULL, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), list(NULL, NULL, NULL, 0.8, 1, 1, NULL, NULL, c(5.5, 0, 0, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, 1.2, 0.5, 0.5, NULL, NULL, NULL, NULL, TRUE), "topleft", NULL, NULL, list("gray90", NA, NULL, NULL, FALSE), NULL, NULL, "on", "inside", list(NULL, NULL, "black", 0.8, NULL, NULL, NULL, NULL, c(6, 6, 6, 6), NULL, FALSE), NULL, NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, NULL, -90, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, 90, NULL, NULL, NULL, TRUE), NULL, 2.75, 2.75))

[ FAIL 1 | WARN 14 | SKIP 0 | PASS 108 ] Error: Test failures Execution halted ```

checking installed package size ... NOTE installed size is 163.4Mb sub-directories of 1Mb or more: libs 162.3Mb
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

UBayFS

Version: 1.0
GitHub: https://github.com/annajenul/UBayFS
Source code: https://github.com/cran/UBayFS
Date/Publication: 2023-03-07 10:50:02 UTC
Number of recursive dependencies: 188

Run revdepcheck::cloud_details(, "UBayFS") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘BFS_UBayFS.Rmd’ ... ( 21,23,28 ) ( 21,27,28 ) ( 21,23,24 )

plot(model) [1] "Warning: multiple optimal feature sets, plotting first feature set."

... ( 2,3,7,8,14,22,23,26,27,28 )

plot(model)

When sourcing ‘UBayFS.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘BFS_UBayFS.Rmd’ using ‘UTF-8’... failed ‘UBayFS.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... --- re-building ‘BFS_UBayFS.Rmd’ using rmarkdown

Quitting from lines 147-150 [unnamed-chunk-8] (BFS_UBayFS.Rmd) Error: processing vignette 'BFS_UBayFS.Rmd' failed with diagnostics: invalid line type: must be length 2, 4, 6 or 8 --- failed re-building ‘BFS_UBayFS.Rmd’

--- re-building ‘UBayFS.Rmd’ using rmarkdown ... Quitting from lines 306-309 [unnamed-chunk-12] (UBayFS.Rmd) Error: processing vignette 'UBayFS.Rmd' failed with diagnostics: invalid line type: must be length 2, 4, 6 or 8 --- failed re-building ‘UBayFS.Rmd’

SUMMARY: processing the following files failed: ‘BFS_UBayFS.Rmd’ ‘UBayFS.Rmd’

Error: Vignette re-building failed. Execution halted ```

Umatrix

Version: 4.0.1
GitHub: NA
Source code: https://github.com/cran/Umatrix
Date/Publication: 2024-08-17 06:30:17 UTC
Number of recursive dependencies: 98

Run revdepcheck::cloud_details(, "Umatrix") for more info

checking examples ... ERROR ``` Running examples in ‘Umatrix-Ex.R’ failed The error most likely occurred in:

Name: plotMatrix

Title: plotMatrix

Aliases: plotMatrix

** Examples

data("Hepta") ... 4. └─ggplot2:::ggplot_build.ggplot(x) 5. └─layout$setup(data, plot$data, plot$plot_env) 6. └─ggplot2 (local) setup(..., self = self) 7. └─self$coord$setup_params(data) 8. └─ggplot2 (local) setup_params(..., self = self) 9. └─ggplot2:::parse_coord_expand(expand = self$expand %||% TRUE) 10. └─ggplot2:::check_logical(expand) 11. └─ggplot2:::stop_input_type(...) 12. └─rlang::abort(message, ..., call = call, arg = arg) Execution halted ```

umiAnalyzer

Version: 1.0.0
GitHub: https://github.com/sfilges/umiAnalyzer
Source code: https://github.com/cran/umiAnalyzer
Date/Publication: 2021-11-25 08:40:02 UTC
Number of recursive dependencies: 116

Run revdepcheck::cloud_details(, "umiAnalyzer") for more info

checking examples ... ERROR ``` Running examples in ‘umiAnalyzer-Ex.R’ failed The error most likely occurred in:

Name: AmpliconPlot

Title: Generate Amplicon plots

Aliases: AmpliconPlot

** Examples

library(umiAnalyzer) ...

main = system.file('extdata', package = 'umiAnalyzer') samples <- list.dirs(path = main, full.names = FALSE, recursive = FALSE) simsen <- createUmiExperiment(experimentName = 'example',mainDir = main,sampleNames = samples) simsen <- filterUmiObject(simsen)

amplicon_plot <- AmpliconPlot(simsen) Error in pm[[2]] : subscript out of bounds Calls: AmpliconPlot -> -> ggplotly.ggplot -> gg2list Execution halted ```

UnalR

Version: 1.0.0
GitHub: https://github.com/estadisticaun/UnalR
Source code: https://github.com/cran/UnalR
Date/Publication: 2024-05-25 17:20:05 UTC
Number of recursive dependencies: 168

Run revdepcheck::cloud_details(, "UnalR") for more info

checking examples ... ERROR ``` Running examples in ‘UnalR-Ex.R’ failed The error most likely occurred in:

Name: Plot.Apiladas

Title: Cree un gráfico de barras apiladas dinámico/estático y flexible

Aliases: Plot.Apiladas

** Examples

Don't show:

... + legend.direction = "vertical"), gg.Bar = list(width = 0.6, color = "#000000"), + gg.Texto = list(subtitle = "»»»", tag = "®", caption = "Información Disponible desde 2009-1"))) Warning: ¡Ha ingresado un dataframe que no está de forma condensada, es decir, para cada categoría existe más de un valor para un mismo punto del eje X! Se sumará los valores por defectos para dichos puntos que gocen de +1 valor

Error in if (new_name %in% existing) { : argument is of length zero Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(UnalR) > > test_check("UnalR") Starting 2 test processes [ FAIL 2 | WARN 4 | SKIP 1 | PASS 50 ]

... 7. └─UnalR::Plot.Series(...) 8. └─ggplot2:::+.gg(...) 9. └─ggplot2:::add_ggplot(e1, e2, e2name) 10. ├─ggplot2::ggplot_add(object, p, objectname) 11. └─ggplot2:::ggplot_add.Layer(object, p, objectname) 12. └─ggplot2:::new_layer_names(object, names(plot$layers))

[ FAIL 2 | WARN 4 | SKIP 1 | PASS 50 ] Error: Test failures Execution halted ```

checking installed package size ... NOTE installed size is 7.0Mb sub-directories of 1Mb or more: R 2.3Mb data 2.0Mb help 2.6Mb
checking data for non-ASCII characters ... NOTE Note: found 312859 marked UTF-8 strings

unmconf

Version: 1.0.0
GitHub: NA
Source code: https://github.com/cran/unmconf
Date/Publication: 2024-09-09 22:00:02 UTC
Number of recursive dependencies: 91

Run revdepcheck::cloud_details(, "unmconf") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘unmconf.Rmd’ ... 9 -1.05 1 5.63 -0.447 1 1 1.55 TRUE TRUE 10 0.620 0 1.66 -1.71 1 1 1.37 TRUE TRUE

bayesplot::mcmc_intervals(unm_mod, prob_outer = 0.95, + regex_pars = "(beta|lambda|gamma|delta|zeta).+") + geom_point(aes(value, + name), .... [TRUNCATED]

When sourcing ‘unmconf.R’: Error: argument is of length zero Execution halted

‘unmconf.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘unmconf.Rmd’ using rmarkdown

usmap

Version: 0.7.1
GitHub: https://github.com/pdil/usmap
Source code: https://github.com/cran/usmap
Date/Publication: 2024-03-21 04:20:02 UTC
Number of recursive dependencies: 91

Run revdepcheck::cloud_details(, "usmap") for more info

checking examples ... ERROR ``` Running examples in ‘usmap-Ex.R’ failed The error most likely occurred in:

Name: .east_north_central

Title: East North Central census division

Aliases: .east_north_central

Keywords: datasets

** Examples

plot_usmap(include = .east_north_central, labels = TRUE) Error in if (new_name %in% existing) { : argument is of length zero Calls: plot_usmap ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR Running ‘spelling.R’ Running ‘testthat.R’ 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 ... • data/statepov.svg • plot/arizona-county-map-with-labels-and-fill.svg • plot/example-data-state-map-with-custom-linewidth.svg • plot/new-england-state-map-with-labels-excluding-maine.svg • plot/southeastern-states-map-with-labels.svg • plot/state-map-with-labels.svg • plot/state-map-with-major-rivers.svg • plot/state-population-map-with-blue-outlines.svg Error: Test failures Execution halted
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘usmap1.Rmd’ ...

knitr::opts_chunk$set(collapse = TRUE, comment = "#>")

usmap::plot_usmap()

When sourcing ‘usmap1.R’: Error: argument is of length zero ...

usmap::plot_usmap("states", labels = TRUE)

When sourcing ‘usmap3.R’: Error: argument is of length zero Execution halted

‘usmap1.Rmd’ using ‘UTF-8’... failed ‘usmap2.Rmd’ using ‘UTF-8’... failed ‘usmap3.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘usmap1.Rmd’ using rmarkdown

Quitting from lines 26-27 [unnamed-chunk-1] (usmap1.Rmd) Error: processing vignette 'usmap1.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘usmap1.Rmd’

--- re-building ‘usmap2.Rmd’ using rmarkdown

... Quitting from lines 26-27 [unnamed-chunk-1] (usmap3.Rmd) Error: processing vignette 'usmap3.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘usmap3.Rmd’

SUMMARY: processing the following files failed: ‘usmap1.Rmd’ ‘usmap2.Rmd’ ‘usmap3.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking data for non-ASCII characters ... NOTE Note: found 17 marked UTF-8 strings

vannstats

Version: 1.3.4.14
GitHub: NA
Source code: https://github.com/cran/vannstats
Date/Publication: 2023-04-15 04:30:02 UTC
Number of recursive dependencies: 87

Run revdepcheck::cloud_details(, "vannstats") for more info

checking examples ... ERROR ``` Running examples in ‘vannstats-Ex.R’ failed The error most likely occurred in:

Name: qq

Title: Simplified Normal (Q-Q) Plot

Aliases: qq

** Examples

data <- mtcars

qq(data,mpg,cyl) Error in if (new_name %in% existing) { : argument is of length zero Calls: qq ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

vDiveR

Version: 1.2.1
GitHub: NA
Source code: https://github.com/cran/vDiveR
Date/Publication: 2024-01-09 20:20:02 UTC
Number of recursive dependencies: 135

Run revdepcheck::cloud_details(, "vDiveR") for more info

checking examples ... ERROR ``` Running examples in ‘vDiveR-Ex.R’ failed The error most likely occurred in:

Name: plot_entropy

Title: Entropy plot

Aliases: plot_entropy

** Examples

plot_entropy(proteins_1host) Scale for colour is already present. Adding another scale for colour, which will replace the existing scale. Scale for linetype is already present. Adding another scale for linetype, which will replace the existing scale. Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : invalid line type: must be length 2, 4, 6 or 8 Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics Execution halted ```

checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘DT’ ‘maps’ ‘readr’ All declared Imports should be used.

venn

Version: 1.12
GitHub: https://github.com/dusadrian/venn
Source code: https://github.com/cran/venn
Date/Publication: 2024-01-08 11:40:05 UTC
Number of recursive dependencies: 56

Run revdepcheck::cloud_details(, "venn") for more info

checking examples ... ERROR ``` Running examples in ‘venn-Ex.R’ failed The error most likely occurred in:

Name: venn

Title: Draw and display a Venn diagram

Aliases: venn

Keywords: functions

** Examples

...

producing a ggplot2 graphics

venn(x, ilabels = "counts", ggplot = TRUE)

increasing the border size

venn(x, ilabels = "counts", ggplot = TRUE, size = 1.5) Error in if (new_name %in% existing) { : argument is of length zero Calls: venn ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

vimpclust

Version: 0.1.0
GitHub: NA
Source code: https://github.com/cran/vimpclust
Date/Publication: 2021-01-08 09:30:03 UTC
Number of recursive dependencies: 53

Run revdepcheck::cloud_details(, "vimpclust") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘sparsewkm.Rmd’ ... restecg 3.1e-02 0.000 0.000 0.000 0.000 exang 2.3e-01 0.182 0.138 0.106 0.046 slope 3.2e-01 0.231 0.188 0.151 0.077 thal 1.2e-01 0.058 0.023 0.000 0.000

plot(res, what = "weights.features")

When sourcing ‘sparsewkm.R’: Error: invalid line type: must be length 2, 4, 6 or 8 Execution halted

‘groupsparsewkm.Rmd’ using ‘UTF-8’... OK ‘sparsewkm.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘groupsparsewkm.Rmd’ using rmarkdown

checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘mclust’ ‘rlang’ All declared Imports should be used.

vip

Version: 0.4.1
GitHub: https://github.com/koalaverse/vip
Source code: https://github.com/cran/vip
Date/Publication: 2023-08-21 09:20:02 UTC
Number of recursive dependencies: 104

Run revdepcheck::cloud_details(, "vip") for more info

checking examples ... ERROR ``` Running examples in ‘vip-Ex.R’ failed The error most likely occurred in:

Name: vi

Title: Variable importance

Aliases: vi vi.default

** Examples

... 8 drat 0.0265 0.0564 9 carb 0.00898 0.00885 10 disp -0.000824 0.00744

Plot variable importance scores

vip(vis, include_type = TRUE, all_permutations = TRUE, + geom = "point", aesthetics = list(color = "forestgreen", size = 3)) Error in if (new_name %in% existing) { : argument is of length zero Calls: vip ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘tinytest.R’ Running the tests in ‘tests/tinytest.R’ failed. Complete output: > if (requireNamespace("tinytest", quietly = TRUE)) {
- home <- length(unclass(packageVersion("vip"))[[1L]]) == 4
- tinytest::test_package("vip", at_home = home)
- }
Attaching package: 'vip'

... test_pkg_nnet.R............... 0 tests test_pkg_nnet.R............... 0 tests test_pkg_nnet.R............... 0 tests test_pkg_nnet.R............... 0 tests test_pkg_nnet.R............... 0 tests test_pkg_nnet.R............... 1 tests [0;32mOK[0m test_pkg_nnet.R............... 2 tests [0;32mOK[0m test_pkg_nnet.R............... 3 tests [0;32mOK[0m Error in if (new_name %in% existing) { : argument is of length zero Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

checking package dependencies ... NOTE Packages which this enhances but not available for checking: 'C50', 'caret', 'Cubist', 'earth', 'gbm', 'glmnet', 'h2o', 'lightgbm', 'mixOmics', 'mlr', 'mlr3', 'neuralnet', 'parsnip', 'partykit', 'pls', 'randomForest', 'ranger', 'RSNNS', 'sparklyr', 'tidymodels', 'workflows', 'xgboost'
checking Rd cross-references ... NOTE Packages unavailable to check Rd xrefs: ‘randomForest’, ‘glmnet’, ‘C50’, ‘Cubist’, ‘caret’, ‘partykit’, ‘earth’, ‘gbm’, ‘h2o’, ‘sparklyr’, ‘ranger’, ‘xgboost’, ‘lightgbm’

VirtualPop

Version: 2.0.2
GitHub: https://github.com/willekens/VirtualPop
Source code: https://github.com/cran/VirtualPop
Date/Publication: 2024-03-18 10:30:02 UTC
Number of recursive dependencies: 135

Run revdepcheck::cloud_details(, "VirtualPop") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Piecewise_exponential.Rmd’ ... > H <- VirtualPop::H_pw(x, breakpoints, rates)

dd <- data.frame(x = x, y = exp(-H))

p <- survminer::ggsurvplot(KM, data = data.frame(pw_sample), + conf.int = TRUE, ggtheme = theme_bw())

When sourcing ‘Piecewise_exponential.R’: Error: argument is of length zero Execution halted

‘MultistateLH.Rmd’ using ‘UTF-8’... OK ‘Piecewise_exponential.Rmd’ using ‘UTF-8’... failed ‘Tutorial.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘MultistateLH.Rmd’ using knitr --- finished re-building ‘MultistateLH.Rmd’

--- re-building ‘Piecewise_exponential.Rmd’ using knitr ```

viscomp

Version: 1.0.0
GitHub: https://github.com/georgiosseitidis/viscomp
Source code: https://github.com/cran/viscomp
Date/Publication: 2023-01-16 09:50:02 UTC
Number of recursive dependencies: 137

Run revdepcheck::cloud_details(, "viscomp") for more info

checking examples ... ERROR ``` Running examples in ‘viscomp-Ex.R’ failed The error most likely occurred in:

Name: loccos

Title: Leaving One Component Combination Out Scatter plot

Aliases: loccos

** Examples

data(nmaMACE) loccos(model = nmaMACE, combination = c("B")) Error in if (new_name %in% existing) { : argument is of length zero Calls: loccos ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

vivaldi

Version: 1.0.1
GitHub: https://github.com/GreshamLab/vivaldi
Source code: https://github.com/cran/vivaldi
Date/Publication: 2023-03-21 20:10:02 UTC
Number of recursive dependencies: 102

Run revdepcheck::cloud_details(, "vivaldi") for more info

checking examples ... ERROR ``` Running examples in ‘vivaldi-Ex.R’ failed The error most likely occurred in:

Name: snv_location

Title: snv_location

Aliases: snv_location

** Examples

Example 1:

... 6 m2 PB1 234 G A minor 0.010 0.990 7 m2 PB1 266 G A minor 0.022 0.978 8 m2 PB2 199 A G minor 0.043 0.957 9 m2 PB2 88 G A major 0.055 0.945 10 m2 PB2 180 C T minor 0.011 0.989

snv_location(df) Error in pm[[2]] : subscript out of bounds Calls: snv_location -> -> ggplotly.ggplot -> gg2list Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ 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/tests.html > # * https://testthat.r-lib.org/reference/test_package.html#special-files ...

══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-snv_location.R:13:3'): expect output ───────────────────────── Expected snv_location(df) to run without any errors. i Actually got a with text: subscript out of bounds

[ FAIL 1 | WARN 2 | SKIP 0 | PASS 29 ] Error: Test failures Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘vignette.Rmd’ ... |a_3_fb | 96| |a_3_iv | 94| |b_1_fb | 82| |b_1_iv | 91|

snv_location(DF_filt_SNVs)

When sourcing ‘vignette.R’: Error: subscript out of bounds Execution halted

‘vignette.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘vignette.Rmd’ using rmarkdown

checking installed package size ... NOTE installed size is 6.8Mb sub-directories of 1Mb or more: doc 5.4Mb extdata 1.1Mb

voiceR

Version: 0.1.0
GitHub: NA
Source code: https://github.com/cran/voiceR
Date/Publication: 2023-09-12 20:30:02 UTC
Number of recursive dependencies: 179

Run revdepcheck::cloud_details(, "voiceR") for more info

checking examples ... ERROR ``` Running examples in ‘voiceR-Ex.R’ failed The error most likely occurred in:

Name: comparisonPlots

Title: Create boxplots for extracted audio features

Aliases: comparisonPlots

** Examples

comparisonPlots(testAudioData, by = "Condition") Error in if (new_name %in% existing) { : argument is of length zero Calls: comparisonPlots ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ 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 ...
1. └─(function() {...
2. └─ggplot2:::+.gg(...)
3. └─ggplot2:::add_ggplot(e1, e2, e2name)
4. ├─ggplot2::ggplot_add(object, p, objectname)
5. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
6. └─ggplot2:::new_layer_names(object, names(plot$layers))
[ FAIL 1 | WARN 2 | SKIP 0 | PASS 30 ] Error: Test failures Execution halted ```

checking installed package size ... NOTE installed size is 8.0Mb sub-directories of 1Mb or more: Audios 1.1Mb data 6.5Mb

volcano3D

Version: 2.0.9
GitHub: https://github.com/KatrionaGoldmann/volcano3D
Source code: https://github.com/cran/volcano3D
Date/Publication: 2023-05-17 11:00:02 UTC
Number of recursive dependencies: 166

Run revdepcheck::cloud_details(, "volcano3D") for more info

checking examples ... ERROR ``` Running examples in ‘volcano3D-Ex.R’ failed The error most likely occurred in:

Name: boxplot_trio

Title: Boxplot to compare groups

Aliases: boxplot_trio

Keywords: hplot

** Examples

... 11. │ └─ggplot2:::+.gg(...) 12. │ └─ggplot2:::add_ggplot(e1, e2, e2name) 13. │ ├─ggplot2::ggplot_add(object, p, objectname) 14. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) 15. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) 16. └─base::.handleSimpleError(...) 17. └─purrr (local) h(simpleError(msg, call)) 18. └─cli::cli_abort(...) 19. └─rlang::abort(...) Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘Vignette.rmd’ ... > plot1 <- boxplot_trio(syn_polar, value = "COBL", text_size = 7,
- test = "polar_padj", my_comparisons = list(c("Lymphoid",
- "Myeloid" .... [TRUNCATED]
When sourcing ‘Vignette.R’: Error: ℹ In index: 1. ℹ With name: row. Caused by error in if (new_name %in% existing) ...: ! argument is of length zero Execution halted

‘Vignette.rmd’ using ‘UTF-8’... failed ‘Vignette_2x3.Rmd’ using ‘UTF-8’... OK ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘Vignette.rmd’ using rmarkdown

voluModel

Version: 0.2.2
GitHub: https://github.com/hannahlowens/voluModel
Source code: https://github.com/cran/voluModel
Date/Publication: 2024-08-20 22:50:01 UTC
Number of recursive dependencies: 133

Run revdepcheck::cloud_details(, "voluModel") for more info

checking examples ... ERROR ``` Running examples in ‘voluModel-Ex.R’ failed The error most likely occurred in:

Name: pointCompMap

Title: Comparative point mapping

Aliases: pointCompMap

Keywords: plotting

** Examples

... 6. └─ggplot2 (local) setup(..., self = self) 7. └─self$coord$setup_params(data) 8. └─ggplot2 (local) setup_params(..., self = self) 9. └─ggproto_parent(Coord, self)$setup_params(data) 10. └─ggplot2 (local) setup_params(..., self = self) 11. └─ggplot2:::parse_coord_expand(expand = self$expand %||% TRUE) 12. └─ggplot2:::check_logical(expand) 13. └─ggplot2:::stop_input_type(...) 14. └─rlang::abort(message, ..., call = call, arg = arg) Execution halted ```
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘a_Introduction.Rmd’ using rmarkdown

Quitting from lines 44-58 [show points] (a_Introduction.Rmd) Error: processing vignette 'a_Introduction.Rmd' failed with diagnostics: expand must be a logical vector, not the number 0.05. --- failed re-building ‘a_Introduction.Rmd’

--- re-building ‘b_RasterProcessing.Rmd’ using rmarkdown ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘a_Introduction.Rmd’ ...
- returnclass = "sf")[1]
pointMap(occs = occurrences, ptCol = "orange", landCol = "black", + spName = "Steindachneria argentea", ptSize = 3, land = land) Using decimalLongitude and decimalLatitude as x and y coordinates, respectively.

...

When sourcing ‘e_GLMWorkflow.R’: Error: invalid font type Execution halted

‘a_Introduction.Rmd’ using ‘UTF-8’... failed ‘b_RasterProcessing.Rmd’ using ‘UTF-8’... OK ‘c_DataSampling.Rmd’ using ‘UTF-8’... failed ‘d_Visualization.Rmd’ using ‘UTF-8’... failed ‘e_GLMWorkflow.Rmd’ using ‘UTF-8’... failed ```

vsd

Version: 0.1.0
GitHub: NA
Source code: https://github.com/cran/vsd
Date/Publication: 2021-05-11 09:40:02 UTC
Number of recursive dependencies: 129

Run revdepcheck::cloud_details(, "vsd") for more info

checking examples ... ERROR ``` Running examples in ‘vsd-Ex.R’ failed The error most likely occurred in:

Name: vsd

Title: Visualizing Survival Data

Aliases: vsd vsd.formula vsd.Surv vsd.coxph vsd.survfit vsd.survfitcox

vsd.flexsurvreg

** Examples

... • linetype = "Strata" • shape = "Strata"

parametric models are also supported with flexsurv

vsd(flexsurv::flexsurvreg(Surv(rectime, censrec) ~ group, data = flexsurv::bc, dist = 'gengamma'), + .include = c("par")) Error in if (new_name %in% existing) { : argument is of length zero Calls: vsd ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names Execution halted ```

checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘flexsurv’ All declared Imports should be used.

vvshiny

Version: 0.1.1
GitHub: NA
Source code: https://github.com/cran/vvshiny
Date/Publication: 2023-07-19 15:30:02 UTC
Number of recursive dependencies: 135

Run revdepcheck::cloud_details(, "vvshiny") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ 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 ...
1. ├─vvshiny::ggplotly_with_legend(p, color = "grp", mapping_table = list(grp = "Group")) at test-ggplotly_with_legend.R:15:3
2. │ ├─plotly::ggplotly(plot) %>% ...
3. │ ├─plotly::ggplotly(plot)
4. │ └─plotly:::ggplotly.ggplot(plot)
5. │ └─plotly::gg2list(...)
6. └─plotly::layout(...)
[ FAIL 1 | WARN 2 | SKIP 0 | PASS 60 ] Error: Test failures Execution halted ```

walker

Version: 1.0.10
GitHub: https://github.com/helske/walker
Source code: https://github.com/cran/walker
Date/Publication: 2024-08-30 06:40:02 UTC
Number of recursive dependencies: 106

Run revdepcheck::cloud_details(, "walker") for more info

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘walker.Rmd’ ... For each parameter, n_eff is a crude measure of effective sample size, and Rhat is the potential scale reduction factor on split chains (at convergence, Rhat=1).

mcmc_areas(as.matrix(fit$stanfit), regex_pars = c("sigma_y", + "sigma_rw1"))

When sourcing ‘walker.R’: Error: argument is of length zero Execution halted

‘walker.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘walker.Rmd’ using rmarkdown

checking installed package size ... NOTE installed size is 161.5Mb sub-directories of 1Mb or more: libs 160.1Mb
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

WVPlots

Version: 1.3.8
GitHub: https://github.com/WinVector/WVPlots
Source code: https://github.com/cran/WVPlots
Date/Publication: 2024-04-22 20:40:07 UTC
Number of recursive dependencies: 78

Run revdepcheck::cloud_details(, "WVPlots") for more info

checking examples ... ERROR ``` Running examples in ‘WVPlots-Ex.R’ failed The error most likely occurred in:

Name: ScatterHist

Title: Plot a scatter plot with marginals.

Aliases: ScatterHist

** Examples

... 10. └─ggplot2:::ggplot_build.ggplot(x) 11. └─layout$setup(data, plot$data, plot$plot_env) 12. └─ggplot2 (local) setup(..., self = self) 13. └─self$coord$setup_params(data) 14. └─ggplot2 (local) setup_params(..., self = self) 15. └─ggplot2:::parse_coord_expand(expand = self$expand %||% TRUE) 16. └─ggplot2:::check_logical(expand) 17. └─ggplot2:::stop_input_type(...) 18. └─rlang::abort(message, ..., call = call, arg = arg) Execution halted ```
checking tests ... ERROR ``` Running ‘tinytest.R’ Running the tests in ‘tests/tinytest.R’ failed. Complete output: > > if (requireNamespace("tinytest", quietly=TRUE) ) {
- if (requireNamespace('data.table', quietly = TRUE)) {
- don't multi-thread during CRAN checks
- data.table::setDTthreads(1)
- }
- tinytest::test_package("WVPlots") ...
- └─ggplot2:::ggplot_build.ggplot(x)
- └─layout$setup(data, plot$data, plot$plot_env)
- └─ggplot2 (local) setup(..., self = self)
- └─self$coord$setup_params(data)
- └─ggplot2 (local) setup_params(..., self = self)
- └─ggplot2:::parse_coord_expand(expand = self$expand %||% TRUE)
- └─ggplot2:::check_logical(expand)
- └─ggplot2:::stop_input_type(...)
- └─rlang::abort(message, ..., call = call, arg = arg) Execution halted ```
checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘WVPlots_concept.Rmd’ ... > frm$absY <- abs(frm$y)

frm$posY = frm$y > 0

WVPlots::ScatterHist(frm, "x", "y", smoothmethod = "lm", + title = "Example Linear Fit")

...

frm$posY = frm$y > 0

WVPlots::ScatterHist(frm, "x", "y", title = "Example Fit")

When sourcing ‘WVPlots_examples.R’: Error: expand must be a logical vector, not the number 0. Execution halted

‘WVPlots_concept.Rmd’ using ‘UTF-8’... failed ‘WVPlots_examples.Rmd’ using ‘UTF-8’... failed ```
checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘WVPlots_concept.Rmd’ using rmarkdown

xaringanthemer

Version: 0.4.2
GitHub: https://github.com/gadenbuie/xaringanthemer
Source code: https://github.com/cran/xaringanthemer
Date/Publication: 2022-08-20 18:40:02 UTC
Number of recursive dependencies: 75

Run revdepcheck::cloud_details(, "xaringanthemer") for more info

checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(xaringanthemer) > > test_check("xaringanthemer") [ FAIL 1 | WARN 18 | SKIP 1 | PASS 308 ]

══ Skipped tests (1) ═══════════════════════════════════════════════════════════ ... ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-ggplot2.R:267:3'): theme_xaringan_restore_defaults() restores defaults ── res$after_restore$line_colour (actual) not equal to res$original$colour (expected).

actual is a character vector ('#0088ff') expected is an S3 object of class , a call

[ FAIL 1 | WARN 18 | SKIP 1 | PASS 308 ] Error: Test failures Execution halted ```

checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: when running code in ‘xaringanthemer.Rmd’ ... Warning in file(con, "r") : cannot open file './../man/fragments/_quick-intro.Rmd': No such file or directory

Quitting from lines 43-43 [unnamed-chunk-2] (xaringanthemer.Rmd)

When tangling ‘xaringanthemer.Rmd’: Error: cannot open the connection Execution halted

‘ggplot2-themes.Rmd’ using ‘UTF-8’... OK ‘template-variables.Rmd’ using ‘UTF-8’... OK ‘xaringanthemer.Rmd’ using ‘UTF-8’... failed ```

yamlet

Version: 1.0.3
GitHub: https://github.com/bergsmat/yamlet
Source code: https://github.com/cran/yamlet
Date/Publication: 2024-03-29 13:30:02 UTC
Number of recursive dependencies: 103

Run revdepcheck::cloud_details(, "yamlet") for more info

checking examples ... ERROR ``` Running examples in ‘yamlet-Ex.R’ failed The error most likely occurred in:

Name: ggplot_add.ggplot_isometric

Title: Add Isometry to Plot Object

Aliases: ggplot_add.ggplot_isometric

Keywords: internal

** Examples

... ismtrc> library(magrittr)

ismtrc> library(ggplot2)

ismtrc> data.frame(x = 1:5, y = 3:7) %>% ismtrc+ ggplot(aes(x, y)) + geom_point() + isometric() Error in ggplot_add.ggplot_isometric(object, p, objectname) : "x" %in% names(plot$labels) is not TRUE Calls: example ... ggplot_add -> ggplot_add.ggplot_isometric -> stopifnot Execution halted ```
checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(yamlet)

Attaching package: 'yamlet'

The following object is masked from 'package:stats':

... ══ Skipped tests (2) ═══════════════════════════════════════════════════════════ • empty test (2): 'test-yamlet.R:1346:1', 'test-yamlet.R:1351:1'

══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-yamlet.R:843:1'): ggplot.resolved is stable ────────────────── print(x %>% ggplot(map) + geom_point()) did not produce any warnings.

[ FAIL 1 | WARN 0 | SKIP 2 | PASS 516 ] Error: Test failures Execution halted ```

checking re-building of vignette outputs ... NOTE Error(s) in re-building vignettes: --- re-building ‘scripted-html.Rmd’ using rmarkdown

tidyverse/ggplot2 documentation built on Sept. 19, 2024, 2:58 a.m.

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Note that we can't provide technical support on individual packages. You should contact the package authors for that.

tidyverse/ggplot2 Create Elegant Data Visualisations Using the Grammar of Graphics

revdep/problems.md In tidyverse/ggplot2: Create Elegant Data Visualisations Using the Grammar of Graphics

activAnalyzer

Newly broken

In both

actxps

Newly broken

adaptr

Newly broken

Name: plot_history

Title: Plot trial metric history

Aliases: plot_history plot_history.trial_result

plot_history.trial_results

** Examples

AeRobiology

Newly broken

In both

agricolaeplotr

Newly broken

alien

Newly broken

AlphaPart

Newly broken

Name: print.plotSummaryAlphaPart

Title: Print a plot generate by the function 'plotSummaryAlphaPart'

Aliases: print.plotSummaryAlphaPart

** Examples

Partition additive genetic values

Plot the partitions

In both

AnalysisLin

Newly broken

Name: bar_plot

Title: Bar Plots for Categorical Variables

Aliases: bar_plot

** Examples

animbook

Newly broken

Name: anim_animate

Title: Modified the ggplot object

Aliases: anim_animate

** Examples

ANN2

Newly broken

In both

AnnoProbe

Newly broken

Name: check_diff_genes

Title: Check a list of genes how they show difference.

Aliases: check_diff_genes

** Examples

ANOFA

Newly broken

Name: Gillet1993

Title: Gillet1993

Aliases: Gillet1993

Keywords: datasets

** Examples

run the base analysis

display a plot of the results

ANOPA

Newly broken

Name: ArringtonEtAl2002

Title: Arrington et al. (2002) dataset

Aliases: ArringtonEtAl2002

Keywords: datasets

** Examples

make a plot with all the factors

AntMAN

Newly broken

Name: AM_mix_hyperparams_uninorm

Title: univariate Normal mixture hyperparameters

Aliases: AM_mix_hyperparams_uninorm

** Examples

In both

APCI

Newly broken

aplot

Newly broken

Name: insert_left

tidyverse/ggplot2
Create Elegant Data Visualisations Using the Grammar of Graphics

revdep/problems.md
In tidyverse/ggplot2: Create Elegant Data Visualisations Using the Grammar of Graphics

Automatically generate interactive plot for results produced by `stats::prcomp`