Package: bayesCureRateModel Check: for code/documentation mismatches New result: WARNING Codoc mismatches from Rd file 'Surv.Rd': Surv Code: function(time, time2, event, type = c("right", "left", "interval", "counting", "interval2"), origin = 0) Docs: function(time, time2, event, type = c("right", "left", "interval", "counting", "interval2", "mstate"), origin = 0) Mismatches in argument default values: Name: 'type' Code: c("right", "left", "interval", "counting", "interval2") Docs: c("right", "left", "interval", "counting", "interval2", "mstate") Package: JointAI Check: for code/documentation mismatches New result: WARNING Codoc mismatches from Rd file 'Surv.Rd': Surv Code: function(time, time2, event, type = c("right", "left", "interval", "counting", "interval2"), origin = 0) Docs: function(time, time2, event, type = c("right", "left", "interval", "counting", "interval2", "mstate"), origin = 0) Mismatches in argument default values: Name: 'type' Code: c("right", "left", "interval", "counting", "interval2") Docs: c("right", "left", "interval", "counting", "interval2", "mstate") Package: MachineShop Check: Rd cross-references New result: NOTE Unknown package ‘ParBayesianOptimization’ in Rd xrefs Package: mlsurvlrnrs Check: tests New result: ERROR Running ‘testthat.R’ [5s/4s] 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 > > Sys.setenv("OMP_THREAD_LIMIT" = 2) > Sys.setenv("Ncpu" = 2) > > library(testthat) > library(mlsurvlrnrs) > > test_check("mlsurvlrnrs") CV fold: Fold1 Parameter 'ncores' is ignored for learner 'LearnerSurvCoxPHCox'. CV fold: Fold2 Parameter 'ncores' is ignored for learner 'LearnerSurvCoxPHCox'. CV fold: Fold3 Parameter 'ncores' is ignored for learner 'LearnerSurvCoxPHCox'. CV fold: Fold1 Saving _problems/test-surv_glmnet_cox-99.R CV fold: Fold1 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Saving _problems/test-surv_ranger_cox-110.R CV fold: Fold1 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Saving _problems/test-surv_rpart_cox-108.R CV fold: Fold1 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Saving _problems/test-surv_xgboost_aft-121.R CV fold: Fold1 CV fold: Fold2 CV fold: Fold3 CV fold: Fold1 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Saving _problems/test-surv_xgboost_cox-118.R CV fold: Fold1 CV fold: Fold2 CV fold: Fold3 [ FAIL 5 | WARN 1 | SKIP 1 | PASS 9 ] ══ Skipped tests (1) ═══════════════════════════════════════════════════════════ • On CRAN (1): 'test-lints.R:10:5' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-surv_glmnet_cox.R:99:5'): test nested cv, grid - surv_glmnet_cox ── Error: Package "ParBayesianOptimization" must be installed to use 'strategy = "bayesian"'. Backtrace: ▆ 1. └─surv_glmnet_cox_optimizer$execute() at test-surv_glmnet_cox.R:99:5 2. └─mlexperiments:::.run_cv(self = self, private = private) 3. └─mlexperiments:::.fold_looper(self, private) 4. ├─base::do.call(private$cv_run_model, run_args) 5. └─mlexperiments (local) ``(train_index = ``, fold_train = ``, fold_test = ``) 6. ├─base::do.call(.cv_run_nested_model, args) 7. └─mlexperiments (local) ``(...) 8. └─hparam_tuner$execute(k = self$k_tuning) 9. └─private$select_optimizer(self, private) 10. └─BayesianOptimizer$new(...) 11. └─mlexperiments (local) initialize(...) ── Error ('test-surv_ranger_cox.R:110:5'): test nested cv, bayesian - surv_ranger_cox ── Error: Package "ParBayesianOptimization" must be installed to use 'strategy = "bayesian"'. Backtrace: ▆ 1. └─surv_ranger_cox_optimizer$execute() at test-surv_ranger_cox.R:110:5 2. └─mlexperiments:::.run_cv(self = self, private = private) 3. └─mlexperiments:::.fold_looper(self, private) 4. ├─base::do.call(private$cv_run_model, run_args) 5. └─mlexperiments (local) ``(train_index = ``, fold_train = ``, fold_test = ``) 6. ├─base::do.call(.cv_run_nested_model, args) 7. └─mlexperiments (local) ``(...) 8. └─hparam_tuner$execute(k = self$k_tuning) 9. └─private$select_optimizer(self, private) 10. └─BayesianOptimizer$new(...) 11. └─mlexperiments (local) initialize(...) ── Error ('test-surv_rpart_cox.R:108:5'): test nested cv, bayesian - surv_rpart_cox ── Error: Package "ParBayesianOptimization" must be installed to use 'strategy = "bayesian"'. Backtrace: ▆ 1. └─surv_rpart_cox_optimizer$execute() at test-surv_rpart_cox.R:108:5 2. └─mlexperiments:::.run_cv(self = self, private = private) 3. └─mlexperiments:::.fold_looper(self, private) 4. ├─base::do.call(private$cv_run_model, run_args) 5. └─mlexperiments (local) ``(train_index = ``, fold_train = ``, fold_test = ``) 6. ├─base::do.call(.cv_run_nested_model, args) 7. └─mlexperiments (local) ``(...) 8. └─hparam_tuner$execute(k = self$k_tuning) 9. └─private$select_optimizer(self, private) 10. └─BayesianOptimizer$new(...) 11. └─mlexperiments (local) initialize(...) ── Error ('test-surv_xgboost_aft.R:121:3'): test nested cv, bayesian - surv_xgboost_aft ── Error: Package "ParBayesianOptimization" must be installed to use 'strategy = "bayesian"'. Backtrace: ▆ 1. └─surv_xgboost_aft_optimizer$execute() at test-surv_xgboost_aft.R:121:3 2. └─mlexperiments:::.run_cv(self = self, private = private) 3. └─mlexperiments:::.fold_looper(self, private) 4. ├─base::do.call(private$cv_run_model, run_args) 5. └─mlexperiments (local) ``(train_index = ``, fold_train = ``, fold_test = ``) 6. ├─base::do.call(.cv_run_nested_model, args) 7. └─mlexperiments (local) ``(...) 8. └─hparam_tuner$execute(k = self$k_tuning) 9. └─private$select_optimizer(self, private) 10. └─BayesianOptimizer$new(...) 11. └─mlexperiments (local) initialize(...) ── Error ('test-surv_xgboost_cox.R:118:3'): test nested cv, bayesian - surv_xgboost_cox ── Error: Package "ParBayesianOptimization" must be installed to use 'strategy = "bayesian"'. Backtrace: ▆ 1. └─surv_xgboost_cox_optimizer$execute() at test-surv_xgboost_cox.R:118:3 2. └─mlexperiments:::.run_cv(self = self, private = private) 3. └─mlexperiments:::.fold_looper(self, private) 4. ├─base::do.call(private$cv_run_model, run_args) 5. └─mlexperiments (local) ``(train_index = ``, fold_train = ``, fold_test = ``) 6. ├─base::do.call(.cv_run_nested_model, args) 7. └─mlexperiments (local) ``(...) 8. └─hparam_tuner$execute(k = self$k_tuning) 9. └─private$select_optimizer(self, private) 10. └─BayesianOptimizer$new(...) 11. └─mlexperiments (local) initialize(...) [ FAIL 5 | WARN 1 | SKIP 1 | PASS 9 ] Error: ! Test failures. Execution halted Package: popEpi Check: tests New result: ERROR Running ‘testthat.R’ [71s/72s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > > if (requireNamespace("testthat")) { + library("testthat") + library("popEpi") + library("data.table") + + using_r_devel <- grepl(pattern = "devel", x = R.version$status) + if (using_r_devel) { + ## memory leak problem in data.table 1.11.2 in R-devel (3.6.0 atm) + requireNamespace("data.table") + data.table::setDTthreads(threads = 1L) + } + + testthat::test_check("popEpi") + } Loading required namespace: testthat Attaching package: 'data.table' The following object is masked from 'package:base': %notin% Saving _problems/test_Surv-18.R NOTE: entry.status has been set to "DM" for all. first.bad.surv.int last.bad.surv.int surv.obs 1: 61 120 NaN first.bad.surv.int last.bad.surv.int surv.obs 1: 61 120 NaN Key: agegr first.bad.surv.int last.bad.surv.int surv.obs 1: 3 61 120 NaN Key: agegr first.bad.surv.int last.bad.surv.int surv.obs 1: 3 61 120 NaN [ FAIL 1 | WARN 0 | SKIP 41 | PASS 270 ] ══ Skipped tests (41) ══════════════════════════════════════════════════════════ • Unit tests skipped normally (41): 'test_aggre.R:162:3', 'test_aggre.R:199:3', 'test_expo.R:4:3', 'test_lexpand.R:5:3', 'test_lexpand.R:29:3', 'test_lexpand.R:59:3', 'test_lexpand.R:78:3', 'test_lexpand.R:99:3', 'test_lexpand.R:137:3', 'test_lexpand.R:213:3', 'test_lexpand.R:249:3', 'test_lexpand.R:342:3', 'test_relpois_mean_curve.R:4:3', 'test_sir.R:221:5', 'test_sir.R:257:3', 'test_splitLexisDT.R:4:3', 'test_splitMulti.R:9:3', 'test_splitting_breaks.R:5:3', 'test_splitting_breaks.R:39:3', 'test_splitting_randomly_on_fixed_data.R:9:3', 'test_splitting_randomly_on_random_data.R:9:3', 'test_survmean.R:6:3', 'test_survmean.R:76:3', 'test_survmean.R:117:3', 'test_survmean.R:166:3', 'test_survmean.R:265:3', 'test_survtab_adjusted.R:4:3', 'test_survtab_observed.R:67:3', 'test_survtab_relative.R:81:5', 'test_survtab_usage.R:6:3', 'test_survtab_usage.R:121:3', 'test_survtab_usage.R:198:3', 'test_survtab_usage.R:432:3', 'test_utils.R:4:3', 'test_utils.R:27:3', 'test_utils.R:138:3', 'test_utils.R:179:3', 'test_weighter.R:5:3', 'test_weighter.R:47:3', 'test_weighter.R:99:3', 'test_weighter.R:122:3' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test_Surv.R:15:3'): survival::Surv and popEpi::Surv's formals are in harmony ── Expected `popepi_formals` to be identical to `survival_formals`. Differences: Component "type": target, current do not match when deparsed [ FAIL 1 | WARN 0 | SKIP 41 | PASS 270 ] Error: ! Test failures. Execution halted Package: rms Check: for code/documentation mismatches New result: WARNING Codoc mismatches from Rd file 'importexport.Rd': Surv Code: function(time, time2, event, type = c("right", "left", "interval", "counting", "interval2"), origin = 0) Docs: function(time, time2, event, type = c("right", "left", "interval", "counting", "interval2", "mstate"), origin = 0) Mismatches in argument default values: Name: 'type' Code: c("right", "left", "interval", "counting", "interval2") Docs: c("right", "left", "interval", "counting", "interval2", "mstate") Package: survSAKK Check: tests New result: ERROR Running ‘testthat.R’ [9s/9s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview > # * https://testthat.r-lib.org/articles/special-files.html > > library(testthat) > library(survSAKK) > > test_check("survSAKK") Saving _problems/test-surv.plot-9.R Saving _problems/test-surv.plot-45.R Saving _problems/test-surv.plot-61.R Saving _problems/test-surv.plot-68.R Saving _problems/test-surv.plot-73.R Saving _problems/test-surv.plot-77.R Saving _problems/test-surv.plot-81.R Saving _problems/test-surv.plot-88.R Saving _problems/test-surv.plot-95.R Saving _problems/test-surv.plot-102.R Saving _problems/test-surv.plot-106.R Saving _problems/test-surv.plot-110.R Saving _problems/test-surv.plot-114.R Saving _problems/test-surv.plot-126.R Saving _problems/test-surv.plot-132.R Saving _problems/test-surv.plot-138.R Saving _problems/test-surv.plot-144.R Saving _problems/test-surv.plot-150.R Saving _problems/test-surv.plot-156.R Saving _problems/test-surv.plot-162.R Saving _problems/test-surv.plot-170.R Saving _problems/test-surv.plot-177.R Saving _problems/test-surv.plot-181.R Saving _problems/test-surv.plot-185.R Saving _problems/test-surv.plot-189.R Saving _problems/test-surv.plot-196.R Saving _problems/test-surv.plot-201.R Saving _problems/test-surv.plot-207.R Saving _problems/test-surv.plot-213.R Saving _problems/test-surv.plot-219.R Saving _problems/test-surv.plot-224.R Saving _problems/test-surv.plot-229.R Saving _problems/test-surv.plot-234.R Saving _problems/test-surv.plot-239.R Saving _problems/test-surv.plot-244.R Saving _problems/test-surv.plot-249.R Saving _problems/test-surv.plot-260.R Saving _problems/test-surv.plot-272.R Saving _problems/test-surv.plot-281.R Saving _problems/test-surv.plot-291.R Saving _problems/test-surv.plot-295.R Saving _problems/test-surv.plot-303.R Saving _problems/test-surv.plot-310.R Saving _problems/test-surv.plot-317.R Saving _problems/test-surv.plot-324.R Saving _problems/test-surv.plot-330.R Saving _problems/test-surv.plot-336.R Saving _problems/test-surv.plot-342.R Saving _problems/test-surv.plot-349.R Saving _problems/test-surv.plot-355.R Saving _problems/test-surv.plot-362.R Saving _problems/test-surv.plot-370.R Saving _problems/test-surv.plot-377.R Saving _problems/test-surv.plot-385.R Saving _problems/test-surv.plot-392.R Saving _problems/test-surv.plot-399.R Saving _problems/test-surv.plot-405.R Saving _problems/test-surv.plot-412.R Saving _problems/test-surv.plot-427.R Saving _problems/test-surv.plot-461.R Saving _problems/test-surv.plot-473.R Saving _problems/test-surv.plot-479.R Saving _problems/test-surv.plot-485.R Saving _problems/test-surv.plot-492.R Saving _problems/test-surv.plot-499.R Saving _problems/test-surv.plot-507.R Saving _problems/test-surv.plot-514.R Saving _problems/test-surv.plot-521.R Saving _problems/test-surv.plot-564.R Saving _problems/test-surv.plot-572.R Saving _problems/test-surv.plot-581.R Saving _problems/test-surv.plot-592.R Saving _problems/test-surv.plot-598.R Saving _problems/test-surv.plot-604.R Saving _problems/test-surv.plot-610.R Saving _problems/test-surv.plot-617.R Saving _problems/test-surv.plot-625.R [ FAIL 77 | WARN 17 | SKIP 0 | PASS 22 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-surv.plot.R:9:3'): surv.plot can plot without error ────────── Expected `surv.plot(fit = survObject)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:42:3'): surv.plot handles default color assignment ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:61:11'): Convert y unit into percent. ──────────── Expected `surv.plot(fit = survObject, y.unit = "percent")` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:65:3'): Convert y unit into percent and check label ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:73:3'): Ensure `segment.quanitle` is handles without error. ── Expected `surv.plot(fit = survObject, segment.quantile = 0.5, segment.type = 1)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:77:3'): Ensure `segment.quanitle` is handles without error. ── Expected `surv.plot(fit = survObject, segment.quantile = 0.5, segment.type = 2)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:81:3'): Ensure `segment.quanitle` is handles without error. ── Expected `surv.plot(fit = survObject, segment.quantile = 0.5, segment.type = 3)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:85:3'): Ensure several `segment.quanitle` and different positions are handles without error. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:92:3'): Ensure several `segment.quanitle` and different positions are handles without error. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:99:3'): Ensure several `segment.quanitle` and different positions are handles without error. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:106:3'): Ensure `segment.timpoint` is handles without error. ── Expected `surv.plot(fit = survObject, segment.timepoint = 360, segment.type = 1)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:110:3'): Ensure `segment.timpoint` is handles without error. ── Expected `surv.plot(fit = survObject, segment.timepoint = 360, segment.type = 2)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:114:3'): Ensure `segment.timpoint` is handles without error. ── Expected `surv.plot(fit = survObject, segment.timepoint = 360, segment.type = 3)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:124:3'): surv.plot throws error for invalid risktable parameter ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:130:3'): surv.plot throws error for invalid risktable parameter ── Expected `surv.plot(fit = survObject, segment.timepoint = 0.5, segment.annotation = "left")` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:136:3'): surv.plot throws error for invalid risktable parameter ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:142:3'): surv.plot throws error for invalid risktable parameter ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:148:3'): surv.plot throws error for invalid risktable parameter ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:154:3'): surv.plot throws error for invalid risktable parameter ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:161:3'): Check if risktable colour can be modified ── Expected `surv.plot(fit = survObject, risktable.col = c("red", "yellow"))` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:170:3'): Ensure that legend can be modified manually ── Expected `surv.plot(fit = survObject, legend.name = "legend")` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:177:3'): Check logrank statistics ──────────────── Expected `surv.plot(fit = survObject, stat = "logrank")` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:181:3'): Check coxph statistics ────────────────── Expected `surv.plot(fit = survObject, stat = "coxph", stat.position = "bottomleft")` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:185:3'): Check coxph_logrank statistics ────────── Expected `surv.plot(fit = survObject, stat = "coxph_logrank", stat.position = "topright")` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:189:3'): Check coxph_logrank statistics ────────── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:195:3'): Check if defined theme is executed ────── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:200:3'): Check if defined theme is executed ────── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:205:3'): Check if defined theme is executed ────── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:211:3'): Check if defined theme is executed ────── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:217:3'): Check if defined theme is executed ────── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:223:3'): Check if defined theme is executed ────── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:228:3'): Check if defined theme is executed ────── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:233:3'): Check if defined theme is executed ────── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:238:3'): Check if defined theme is executed ────── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:243:3'): Check if defined theme is executed ────── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:248:3'): Check if defined theme is executed ────── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:260:3'): Setting an invalid grid argument. ─────── Expected `surv.plot(fit = survObject, grid = TRUE)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:272:3'): Check if risktable.title gives a valid output. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:281:3'): Check if conf.band.col gives a valid output. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:291:3'): Check if conf.band.col gives a valid output. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:295:3'): Check if conf.band.col gives a valid output. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:301:3'): Check if short annotation works without an error. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:307:3'): Check if short annotation works without an error for one arm with segment.main given. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:314:3'): Check if short annotation works without an error for more than two arms. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:321:3'): Check if short annotation works without an error. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:328:3'): Check if short annotation works without an error. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:334:3'): Check if CI for segment can be omitted for one arm ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:340:3'): Check for annotation with only one arm. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:346:3'): Check for annotation with only one arm. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:353:3'): Check for annotation with only one arm. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:359:3'): Check for annotation with only one arm. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:366:3'): Check for short annotation with only one arm and segment.main given. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:374:3'): Check for short annotation with more than two arms. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:381:3'): Check for short annotation with more than two arms in percent. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:389:3'): Check for annotation with only one arm. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:396:3'): Check for annotation with only one arm. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:403:3'): Check for annotation with only one arm. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:409:3'): Check for annotation with only one arm. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:425:3'): Check if CI with one arm can handle error. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:460:3'): Check if other quantile than median can be added. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:471:3'): Check several time points and position. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:477:3'): Check several time points and position. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:483:3'): Check several time points and position. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:489:3'): Check segment time point with short annotation with number of arms = 2. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:496:3'): Check that time point with short annotation works if arms != 2. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:503:3'): Check if time point label works for 'percent' and 'segment.main' given. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:511:3'): Check if time point label works for 'percent' and 'segment.main' not given. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:518:3'): Check segment time point with long annotation with number of arms = 2. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:560:3'): Check segment annotation if several segment timepoint are chosen and y.unit == 'percent'. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:568:3'): Check if `letter` on top left can be displayed. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:576:3'): Check segment Title if 'segment.main' was specified ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:590:3'): Check 'stat,position' = 'left'. ───────── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:596:3'): Check 'stat,position' = 'right'. ──────── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:602:3'): Check 'stat,position' = 'bottomright'. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:608:3'): Check 'stat.position' = 'top'. ────────── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:614:3'): Check 'stat.fit' if 'reference.arm' is given. ── Expected `surv.plot(...)` to run silently. Actual noise: warnings. ── Failure ('test-surv.plot.R:621:3'): Check 'risktable.col'. ────────────────── Expected `surv.plot(...)` to run silently. Actual noise: warnings. [ FAIL 77 | WARN 17 | SKIP 0 | PASS 22 ] Error: ! Test failures. Execution halted