Last updated on 2026-10-24 01:51:31 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.1.0 | 7.14 | 78.54 | 85.68 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.1.0 | 5.21 | 53.47 | 58.68 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 0.1.0 | 58.69 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 0.1.0 | 62.52 | OK | |||
| r-devel-windows-x86_64 | 0.1.0 | 9.00 | 93.00 | 102.00 | OK | |
| r-patched-linux-x86_64 | 0.1.0 | 8.56 | 71.88 | 80.44 | OK | |
| r-release-linux-x86_64 | 0.1.0 | 7.36 | 72.90 | 80.26 | OK | |
| r-release-macos-arm64 | 0.1.0 | 2.00 | 25.00 | 27.00 | OK | |
| r-release-macos-x86_64 | 0.1.0 | 6.00 | 138.00 | 144.00 | OK | |
| r-release-windows-x86_64 | 0.1.0 | 9.00 | 89.00 | 98.00 | OK | |
| r-oldrel-macos-arm64 | 0.1.0 | 2.00 | 28.00 | 30.00 | OK | |
| r-oldrel-macos-x86_64 | 0.1.0 | 5.00 | 122.00 | 127.00 | OK | |
| r-oldrel-windows-x86_64 | 0.1.0 | 11.00 | 107.00 | 118.00 | OK |
Version: 0.1.0
Check: examples
Result: ERROR
Running examples in ‘CoxAalenCR-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: cif_predict
> ### Title: Predict Cumulative Incidence Functions for Cox-Aalen Model
> ### Aliases: cif_predict
>
> ### ** Examples
>
> set.seed(123)
> dat <- simulate_coxaalen(n = 60, p = 0.3, censoring = "cox", cens_rate = 0.20)
> fit <- cox_aalen_fit(
+ time = dat$time,
+ status = dat$status,
+ X = cbind(Intercept = 1, X = dat$X),
+ Z = matrix(dat$Z, ncol = 1, dimnames = list(NULL, "Z")),
+ W = dat$W
+ )
Error in a$specials[[i]] : subscript out of bounds
Calls: cox_aalen_fit ... survfit.coxph -> model.matrix.coxph -> delete.response -> off
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.1.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [2s/3s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(CoxAalenCR)
>
> test_check("CoxAalenCR")
Saving _problems/test-coxaalen-11.R
Saving _problems/test-coxaalen-38.R
Saving _problems/test-coxaalen-121.R
[ FAIL 3 | WARN 0 | SKIP 0 | PASS 33 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-coxaalen.R:11:3'): km_weights and cox_weights return valid structures ──
<subscriptOutOfBoundsError/error/condition>
Error in `a$specials[[i]]`: subscript out of bounds
Backtrace:
▆
1. └─CoxAalenCR::cox_weights(dat$time, dat$status, dat$W) at test-coxaalen.R:11:3
2. └─survival::basehaz(cox_fit, centered = FALSE)
3. ├─survival::survfit(fit, se.fit = FALSE)
4. └─survival:::survfit.coxph(fit, se.fit = FALSE)
5. └─survival:::model.matrix.coxph(object, data = mf)
6. └─stats::delete.response(object$terms)
7. └─stats (local) off(a$specials[[i]])
── Error ('test-coxaalen.R:33:3'): cox_aalen_fit and formula interface work accurately ──
<subscriptOutOfBoundsError/error/condition>
Error in `a$specials[[i]]`: subscript out of bounds
Backtrace:
▆
1. └─CoxAalenCR::cox_aalen(...) at test-coxaalen.R:33:3
2. └─CoxAalenCR::cox_aalen_fit(...)
3. └─CoxAalenCR::cox_weights(time, status, W_mat)
4. └─survival::basehaz(cox_fit, centered = FALSE)
5. ├─survival::survfit(fit, se.fit = FALSE)
6. └─survival:::survfit.coxph(fit, se.fit = FALSE)
7. └─survival:::model.matrix.coxph(object, data = mf)
8. └─stats::delete.response(object$terms)
9. └─stats (local) off(a$specials[[i]])
── Error ('test-coxaalen.R:116:3'): tamoxifen dataset is loaded and fits model ──
<subscriptOutOfBoundsError/error/condition>
Error in `a$specials[[i]]`: subscript out of bounds
Backtrace:
▆
1. └─CoxAalenCR::cox_aalen(...) at test-coxaalen.R:116:3
2. └─CoxAalenCR::cox_aalen_fit(...)
3. └─CoxAalenCR::cox_weights(time, status, W_mat)
4. └─survival::basehaz(cox_fit, centered = FALSE)
5. ├─survival::survfit(fit, se.fit = FALSE)
6. └─survival:::survfit.coxph(fit, se.fit = FALSE)
7. └─survival:::model.matrix.coxph(object, data = mf)
8. └─stats::delete.response(object$terms)
9. └─stats (local) off(a$specials[[i]])
[ FAIL 3 | WARN 0 | SKIP 0 | PASS 33 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.1.0
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘CoxAalenCR-intro.Rmd’ using rmarkdown
Quitting from CoxAalenCR-intro.Rmd:71-79 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `a$specials[[i]]`:
! subscript out of bounds
---
Backtrace:
▆
1. └─CoxAalenCR::cox_aalen(...)
2. └─CoxAalenCR::cox_aalen_fit(...)
3. └─CoxAalenCR::cox_weights(time, status, W_mat)
4. └─survival::basehaz(cox_fit, centered = FALSE)
5. ├─survival::survfit(fit, se.fit = FALSE)
6. └─survival:::survfit.coxph(fit, se.fit = FALSE)
7. └─survival:::model.matrix.coxph(object, data = mf)
8. └─stats::delete.response(object$terms)
9. └─stats (local) off(a$specials[[i]])
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'CoxAalenCR-intro.Rmd' failed with diagnostics:
subscript out of bounds
--- failed re-building ‘CoxAalenCR-intro.Rmd’
SUMMARY: processing the following file failed:
‘CoxAalenCR-intro.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc