Last updated on 2026-10-24 12:51:46 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.7.1 | 15.31 | 64.55 | 79.86 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.7.1 | 11.43 | 47.98 | 59.41 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 0.7.1 | 14.00 | 70.09 | 84.09 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 0.7.1 | 12.00 | 51.64 | 63.64 | OK | |
| r-devel-windows-x86_64 | 0.7.1 | 26.00 | 205.00 | 231.00 | OK | |
| r-patched-linux-x86_64 | 0.7.1 | 16.09 | 52.47 | 68.56 | OK | |
| r-release-linux-x86_64 | 0.7.1 | 14.75 | 53.03 | 67.78 | OK | |
| r-release-macos-arm64 | 0.7.1 | 5.00 | 26.00 | 31.00 | OK | |
| r-release-macos-x86_64 | 0.7.1 | 12.00 | 74.00 | 86.00 | OK | |
| r-release-windows-x86_64 | 0.7.1 | 24.00 | 125.00 | 149.00 | OK | |
| r-oldrel-macos-arm64 | 0.7.1 | 4.00 | 26.00 | 30.00 | OK | |
| r-oldrel-macos-x86_64 | 0.7.1 | 13.00 | 75.00 | 88.00 | OK | |
| r-oldrel-windows-x86_64 | 0.7.1 | 30.00 | 137.00 | 167.00 | OK |
Version: 0.7.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [5s/8s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(rpsurv)
>
> test_check("rpsurv")
Saving _problems/test-rpsurv-23.R
Saving _problems/test-rpsurv-35.R
Saving _problems/test-rpsurv-224.R
[ FAIL 3 | WARN 0 | SKIP 1 | PASS 39 ]
══ Skipped tests (1) ═══════════════════════════════════════════════════════════
• On CRAN (1): 'test-rpsurv.R:108:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-rpsurv.R:23:3'): PH scale matches rstpm2::stpm2 coefficients and log-likelihood ──
<subscriptOutOfBoundsError/error/condition>
Error in `a$specials[[i]]`: subscript out of bounds
Backtrace:
▆
1. └─rstpm2::stpm2(...) at test-rpsurv.R:23:3
2. └─base::eval(m, data, parent.frame())
3. └─base::eval(m, data, parent.frame())
4. └─rstpm2::gsm(...)
5. ├─link$link(...)
6. │ └─base::as.vector(S)
7. ├─base::pmin(...)
8. ├─base::pmax(...)
9. └─rstpm2:::Shat(coxph.obj, data, control$old.init)
10. ├─base::suppressWarnings(survfit(obj, se.fit = FALSE))
11. │ └─base::withCallingHandlers(...)
12. ├─survival::survfit(obj, se.fit = FALSE)
13. └─survival:::survfit.coxph(obj, se.fit = FALSE)
14. └─survival:::model.matrix.coxph(object, data = mf)
15. └─stats::delete.response(object$terms)
16. └─stats (local) off(a$specials[[i]])
── Error ('test-rpsurv.R:35:3'): PO and probit scales match rstpm2::stpm2 ──────
<subscriptOutOfBoundsError/error/condition>
Error in `a$specials[[i]]`: subscript out of bounds
Backtrace:
▆
1. └─rstpm2::stpm2(...) at test-rpsurv.R:35:3
2. └─base::eval(m, data, parent.frame())
3. └─base::eval(m, data, parent.frame())
4. └─rstpm2::gsm(...)
5. ├─link$link(...)
6. │ ├─rstpm2:::logit(as.vector(S))
7. │ │ └─base::ifelse(p == 0, -Inf, ifelse(p == 1, Inf, log(p/(1 - p))))
8. │ └─base::as.vector(S)
9. ├─base::pmin(...)
10. ├─base::pmax(...)
11. └─rstpm2:::Shat(coxph.obj, data, control$old.init)
12. ├─base::suppressWarnings(survfit(obj, se.fit = FALSE))
13. │ └─base::withCallingHandlers(...)
14. ├─survival::survfit(obj, se.fit = FALSE)
15. └─survival:::survfit.coxph(obj, se.fit = FALSE)
16. └─survival:::model.matrix.coxph(object, data = mf)
17. └─stats::delete.response(object$terms)
18. └─stats (local) off(a$specials[[i]])
── Error ('test-rpsurv.R:224:3'): left truncation (counting-process) matches rstpm2::stpm2 ──
<subscriptOutOfBoundsError/error/condition>
Error in `a$specials[[i]]`: subscript out of bounds
Backtrace:
▆
1. └─rstpm2::stpm2(...) at test-rpsurv.R:224:3
2. └─base::eval(m, data, parent.frame())
3. └─base::eval(m, data, parent.frame())
4. └─rstpm2::gsm(...)
5. ├─link$link(...)
6. │ └─base::as.vector(S)
7. ├─base::pmin(...)
8. ├─base::pmax(...)
9. └─rstpm2:::Shat(coxph.obj, data, control$old.init)
10. ├─base::suppressWarnings(survfit(obj, se.fit = FALSE))
11. │ └─base::withCallingHandlers(...)
12. ├─survival::survfit(obj, se.fit = FALSE)
13. └─survival:::survfit.coxph(obj, se.fit = FALSE)
14. └─survival:::model.matrix.coxph(object, data = mf)
15. └─stats::delete.response(object$terms)
16. └─stats (local) off(a$specials[[i]])
[ FAIL 3 | WARN 0 | SKIP 1 | PASS 39 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.7.1
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘rpsurv.Rmd’ using rmarkdown
Quitting from rpsurv.Rmd:281-289 [validation]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `a$specials[[i]]`:
! subscript out of bounds
---
Backtrace:
x
1. \-rstpm2::stpm2(...)
2. \-base::eval(m, data, parent.frame())
3. \-base::eval(m, data, parent.frame())
4. \-rstpm2::gsm(...)
5. +-link$link(...)
6. | \-base::as.vector(S)
7. +-base::pmin(...)
8. +-base::pmax(...)
9. \-rstpm2:::Shat(coxph.obj, data, control$old.init)
10. +-base::suppressWarnings(survfit(obj, se.fit = FALSE))
11. | \-base::withCallingHandlers(...)
12. +-survival::survfit(obj, se.fit = FALSE)
13. \-survival:::survfit.coxph(obj, se.fit = FALSE)
14. \-survival:::model.matrix.coxph(object, data = mf)
15. \-stats::delete.response(object$terms)
16. \-stats (local) off(a$specials[[i]])
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'rpsurv.Rmd' failed with diagnostics:
subscript out of bounds
--- failed re-building ‘rpsurv.Rmd’
SUMMARY: processing the following file failed:
‘rpsurv.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc