Last updated on 2026-10-24 09:51:05 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 3.4.3 | 47.69 | 651.39 | 699.08 | OK | |
| r-devel-linux-x86_64-debian-gcc | 3.4.3 | 34.48 | 330.12 | 364.60 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 3.4.3 | 40.00 | 432.13 | 472.13 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 3.4.3 | 36.00 | 401.18 | 437.18 | OK | |
| r-devel-windows-x86_64 | 3.4.3 | 56.00 | 629.00 | 685.00 | OK | |
| r-patched-linux-x86_64 | 3.4.3 | 49.89 | 628.91 | 678.80 | OK | |
| r-release-linux-x86_64 | 3.4.3 | 49.48 | 633.97 | 683.45 | OK | |
| r-release-macos-arm64 | 3.4.3 | 12.00 | 123.00 | 135.00 | OK | |
| r-release-macos-x86_64 | 3.4.3 | 36.00 | 564.00 | 600.00 | OK | |
| r-release-windows-x86_64 | 3.4.3 | 53.00 | 620.00 | 673.00 | OK | |
| r-oldrel-macos-arm64 | 3.4.3 | 13.00 | 133.00 | 146.00 | OK | |
| r-oldrel-macos-x86_64 | 3.4.3 | 35.00 | 360.00 | 395.00 | OK | |
| r-oldrel-windows-x86_64 | 3.4.3 | 76.00 | 725.00 | 801.00 | OK |
Version: 3.4.3
Check: examples
Result: ERROR
Running examples in ‘Surrogate-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: fit_model_SurvSurv
> ### Title: Fit Survival-Survival model
> ### Aliases: fit_model_SurvSurv
>
> ### ** Examples
>
> if(require(Surrogate)) {
+ data("Ovarian")
+ #For simplicity, data is not recoded to semi-competing risks format, but is
+ #left in the composite event format.
+ data = data.frame(Ovarian$Pfs,
+ Ovarian$Surv,
+ Ovarian$Treat,
+ Ovarian$PfsInd,
+ Ovarian$SurvInd)
+ Surrogate::fit_model_SurvSurv(data = data,
+ copula_family = "clayton",
+ n_knots = 1)
+ }
Loading required namespace: copula
Error in a$specials[[i]] : subscript out of bounds
Calls: <Anonymous> ... survfit.coxph -> model.matrix.coxph -> delete.response -> off
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 3.4.3
Check: tests
Result: ERROR
Running ‘testthat.R’ [137s/191s]
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(Surrogate)
>
> test_check("Surrogate")
Loading required namespace: cubature
Loading required namespace: FNN
Attaching package: 'fastmatrix'
The following objects are masked from 'package:pracma':
geomean, hadamard, hankel, lu
Loading required namespace: parallel
[1] "Starting parallel simulations"
[1] "Finishing parallel simulations"
Loading required namespace: copula
Loading required namespace: fitdistrplus
Loading required namespace: stringr
Saving _problems/test-fit_model_SurvSurv-13.R
Saving _problems/test-fit_model_SurvSurv-30.R
[ FAIL 2 | WARN 0 | SKIP 9 | PASS 257 ]
══ Skipped tests (9) ═══════════════════════════════════════════════════════════
• On CRAN (9): 'test-fit_model_ContCont_copula.R:195:3',
'test-fit_model_SurvSurv.R:37:13', 'test-fit_model_SurvSurv.R:53:1',
'test-goodness_of_fit_SurvSurv.R:11:1',
'test-goodness_of_fit_copula_models.R:1:1',
'test-goodness_of_fit_copula_models.R:48:1',
'test-goodness_of_fit_copula_models.R:95:1',
'test-sensitivity_analysis_SurvSurv.R:46:3',
'test-sensitivity_intervals.R:195:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-fit_model_SurvSurv.R:11:13'): SurvivalSurvival model works with Clayton and Gaussian copula for Ovarian data ──
<subscriptOutOfBoundsError/error/condition>
Error in `a$specials[[i]]`: subscript out of bounds
Backtrace:
▆
1. └─Surrogate::fit_model_SurvSurv(...) at test-fit_model_SurvSurv.R:11:13
2. └─Surrogate:::twostep_SurvSurv(...)
3. └─Surrogate:::SurvSurv_starting_values(...)
4. └─flexsurv::flexsurvspline(...)
5. ├─base::do.call("flexsurvreg", args)
6. └─flexsurv::flexsurvreg(...)
7. └─dlist$inits(t = wt, mf = m, mml = mml, aux = inits.aux)
8. ├─survival::survfit(cox)
9. └─survival:::survfit.coxph(cox)
10. └─survival:::model.matrix.coxph(object, data = mf)
11. └─stats::delete.response(object$terms)
12. └─stats (local) off(a$specials[[i]])
── Error ('test-fit_model_SurvSurv.R:28:13'): SurvivalSurvival model works with Clayton and Gumbel copula for Ovarian data and variable number of knots ──
<subscriptOutOfBoundsError/error/condition>
Error in `a$specials[[i]]`: subscript out of bounds
Backtrace:
▆
1. └─Surrogate::fit_model_SurvSurv(...) at test-fit_model_SurvSurv.R:28:13
2. └─Surrogate:::twostep_SurvSurv(...)
3. └─Surrogate:::SurvSurv_starting_values(...)
4. └─flexsurv::flexsurvspline(...)
5. ├─base::do.call("flexsurvreg", args)
6. └─flexsurv::flexsurvreg(...)
7. └─dlist$inits(t = wt, mf = m, mml = mml, aux = inits.aux)
8. ├─survival::survfit(cox)
9. └─survival:::survfit.coxph(cox)
10. └─survival:::model.matrix.coxph(object, data = mf)
11. └─stats::delete.response(object$terms)
12. └─stats (local) off(a$specials[[i]])
[ FAIL 2 | WARN 0 | SKIP 9 | PASS 257 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc