bug: ggsurvplot

[Droopy2]

Expected behavior

in ggsurvplot, using break.y.by should adjust the number of ticks on the y-axis

Actual behavior

break.y.by does not seem to work, removes most numbers from the y-axis

Steps to reproduce the problem

session_info()

# please paste here the result of
devtools::session_info()

[fivetwigfire]

The following reproduces the problem:

• Session info ---------------------------------------------------------------------------------------------------------------------------------------------- setting value
  version R version 3.5.1 (2018-07-02) os Windows >= 8 x64
  system x86_64, mingw32
  ui RStudio
  language (EN)
  collate English_United States.1252
  ctype English_United States.1252
  tz America/Los_Angeles
  date 2020-12-08

• Packages -------------------------------------------------------------------------------------------------------------------------------------------------- package version date lib source
  acepack 1.4.1 2016-10-29 [1] CRAN (R 3.5.1) assertthat 0.2.1 2019-03-21 [1] CRAN (R 3.5.3) backports 1.1.2 2017-12-13 [1] CRAN (R 3.5.0) base64enc 0.1-3 2015-07-28 [1] CRAN (R 3.5.0) boot 1.3-20 2017-08-06 [2] CRAN (R 3.5.1) broom 0.5.0 2018-07-17 [1] CRAN (R 3.5.1) callr 3.1.1 2018-12-21 [1] CRAN (R 3.5.2) checkmate 1.8.5 2017-10-24 [1] CRAN (R 3.5.1) cli 1.1.0 2019-03-19 [1] CRAN (R 3.5.3) cluster 2.0.7-1 2018-04-13 [2] CRAN (R 3.5.1) cmprsk 2.2-7 2014-06-17 [1] CRAN (R 3.5.1) codetools 0.2-15 2016-10-05 [2] CRAN (R 3.5.1) colorspace 1.3-2 2016-12-14 [1] CRAN (R 3.5.1) cowplot 0.9.3 2018-07-15 [1] CRAN (R 3.5.1) CPE 1.5.1 2018-09-25 [1] CRAN (R 3.5.3) crayon 1.3.4 2017-09-16 [1] CRAN (R 3.5.1) data.table 1.11.8 2018-09-30 [1] CRAN (R 3.5.1) Deriv 4.0 2019-12-10 [1] CRAN (R 3.5.3) desc 1.2.0 2018-05-01 [1] CRAN (R 3.5.1) devtools 2.0.2 2019-04-08 [1] CRAN (R 3.5.3) digest 0.6.18 2018-10-10 [1] CRAN (R 3.5.1) doBy 4.6-3 2019-10-23 [1] CRAN (R 3.5.3) dplyr 0.8.1 2019-05-14 [1] CRAN (R 3.5.3) forcats 0.3.0 2018-02-19 [1] CRAN (R 3.5.1) foreign 0.8-70 2017-11-28 [2] CRAN (R 3.5.1) Formula 1.2-3 2018-05-03 [1] CRAN (R 3.5.0) frailtypack 3.1.0 2020-01-16 [1] CRAN (R 3.5.3) fs 1.2.6 2018-08-23 [1] CRAN (R 3.5.2) generics 0.0.2 2018-11-29 [1] CRAN (R 3.5.3) ggplot2 3.1.0 2018-10-25 [1] CRAN (R 3.5.1) ggpubr 0.2 2018-11-15 [1] CRAN (R 3.5.1) glue 1.3.1 2019-03-12 [1] CRAN (R 3.5.3) gridExtra 2.3 2017-09-09 [1] CRAN (R 3.5.1) gtable 0.2.0 2016-02-26 [1] CRAN (R 3.5.1) haven 2.0.0 2018-11-22 [1] CRAN (R 3.5.1) Hmisc 4.1-1 2018-01-03 [1] CRAN (R 3.5.1) hms 0.4.2 2018-03-10 [1] CRAN (R 3.5.1) htmlTable 1.12 2018-05-26 [1] CRAN (R 3.5.1) htmltools 0.3.6 2017-04-28 [1] CRAN (R 3.5.1) htmlwidgets 1.3 2018-09-30 [1] CRAN (R 3.5.1) km.ci 0.5-2 2009-08-30 [1] CRAN (R 3.5.1) KMsurv 0.1-5 2012-12-03 [1] CRAN (R 3.5.0) knitr 1.20 2018-02-20 [1] CRAN (R 3.5.1) labeling 0.3 2014-08-23 [1] CRAN (R 3.5.0) lattice 0.20-35 2017-03-25 [2] CRAN (R 3.5.1) latticeExtra 0.6-28 2016-02-09 [1] CRAN (R 3.5.1) lava 1.6.5 2019-02-12 [1] CRAN (R 3.5.3) lazyeval 0.2.1 2017-10-29 [1] CRAN (R 3.5.1) lubridate 1.7.8 2020-04-06 [1] CRAN (R 3.5.3) magrittr 1.5 2014-11-22 [1] CRAN (R 3.5.1) MASS 7.3-51.1 2018-11-01 [1] CRAN (R 3.5.1) Matrix 1.2-14 2018-04-13 [2] CRAN (R 3.5.1) MatrixModels 0.4-1 2015-08-22 [1] CRAN (R 3.5.1) memoise 1.1.0 2017-04-21 [1] CRAN (R 3.5.2) multcomp 1.4-8 2017-11-08 [1] CRAN (R 3.5.1) munsell 0.5.0 2018-06-12 [1] CRAN (R 3.5.1) mvtnorm 1.0-8 2018-05-31 [1] CRAN (R 3.5.0) nlme 3.1-137 2018-04-07 [2] CRAN (R 3.5.1) nnet 7.3-12 2016-02-02 [2] CRAN (R 3.5.1) numDeriv 2016.8-1 2016-08-27 [1] CRAN (R 3.5.2) pillar 1.4.0 2019-05-11 [1] CRAN (R 3.5.3) pkgbuild 1.0.2 2018-10-16 [1] CRAN (R 3.5.2) pkgconfig 2.0.2 2018-08-16 [1] CRAN (R 3.5.1) pkgload 1.0.2 2018-10-29 [1] CRAN (R 3.5.2) plyr 1.8.4 2016-06-08 [1] CRAN (R 3.5.1) polspline 1.1.13 2018-06-14 [1] CRAN (R 3.5.0) prettyunits 1.0.2 2015-07-13 [1] CRAN (R 3.5.2) processx 3.2.1 2018-12-05 [1] CRAN (R 3.5.2) ps 1.3.0 2018-12-21 [1] CRAN (R 3.5.2) purrr 0.2.5 2018-05-29 [1] CRAN (R 3.5.1) quantreg 5.36 2018-05-29 [1] CRAN (R 3.5.1) R6 2.4.0 2019-02-14 [1] CRAN (R 3.5.3) RColorBrewer 1.1-2 2014-12-07 [1] CRAN (R 3.5.0) Rcpp 1.0.1 2019-03-17 [1] CRAN (R 3.5.3) remotes 2.0.2 2018-10-30 [1] CRAN (R 3.5.2) reshape2 1.4.3 2017-12-11 [1] CRAN (R 3.5.1) rlang 0.3.4 2019-04-07 [1] CRAN (R 3.5.3) rms 5.1-2 2018-01-07 [1] CRAN (R 3.5.1) rpart 4.1-13 2018-02-23 [1] CRAN (R 3.5.1) rprojroot 1.3-2 2018-01-03 [1] CRAN (R 3.5.1) rstudioapi 0.8 2018-10-02 [1] CRAN (R 3.5.1) sandwich 2.5-0 2018-08-17 [1] CRAN (R 3.5.1) scales 1.0.0 2018-08-09 [1] CRAN (R 3.5.1) sessioninfo 1.1.1 2018-11-05 [1] CRAN (R 3.5.2) SparseM 1.77 2017-04-23 [1] CRAN (R 3.5.0) statmod 1.4.30 2017-06-18 [1] CRAN (R 3.5.1) stringi 1.2.4 2018-07-20 [1] CRAN (R 3.5.1) stringr 1.3.1 2018-05-10 [1] CRAN (R 3.5.1) survC1 1.0-2 2013-02-14 [1] CRAN (R 3.5.3) survival 2.43-3 2018-11-26 [1] CRAN (R 3.5.1) survminer 0.4.8 2020-07-25 [1] CRAN (R 3.5.1) survMisc 0.5.5 2018-07-05 [1] CRAN (R 3.5.1) table1 1.2.1 2020-11-26 [1] CRAN (R 3.5.1) TH.data 1.0-9 2018-07-10 [1] CRAN (R 3.5.1) tibble 2.1.1 2019-03-16 [1] CRAN (R 3.5.3) tidyr 0.8.2 2018-10-28 [1] CRAN (R 3.5.1) tidyselect 0.2.5 2018-10-11 [1] CRAN (R 3.5.1) timereg 1.9.4 2019-07-30 [1] CRAN (R 3.5.3) UpSetR 1.3.3 2017-03-21 [1] CRAN (R 3.5.1) usethis 1.4.0 2018-08-14 [1] CRAN (R 3.5.2) withr 2.1.2 2018-03-15 [1] CRAN (R 3.5.1) writexl 1.1 2018-12-02 [1] CRAN (R 3.5.2) xtable 1.8-3 2018-08-29 [1] CRAN (R 3.5.1) yaml 2.2.0 2018-07-25 [1] CRAN (R 3.5.1) zoo * 1.8-4 2018-09-19 [1] CRAN (R 3.5.1)

library(survival) library(survminer)

set.seed(42) n <- 100 df <- data.frame(e.time = sample(c(1:100), n, T), nn <- rpois(n, 1) )

df <- as.data.frame(lapply(df, rep, df$nn)) df$event <- 1

surv.obj <- with(df, Surv(e.time, event)) surv.fit <- survfit(surv.obj ~ NULL , data = df)

the error as encountered

ggsurvplot(surv.fit, fun = "event", conf.int = T, ylim = c(0,2), break.y.by = 0.1 )

no error without break.y.by

ggsurvplot(surv.fit, fun = "cumhaz", conf.int = T, ylim = c(0,2) )

error persists with break.y.by alone

ggsurvplot(surv.fit, fun = "cumhaz", conf.int = T, break.y.by = 0.1 )

does not occur for event plots

ggsurvplot(surv.fit, fun = "event", conf.int = T, break.y.by = .33 )

does occur for survival plots

ggsurvplot(surv.fit, fun = "pct", conf.int = T, break.y.by = 0.25 )