Last updated on 2026-10-23 06:54:18 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0.2 | 28.60 | 206.66 | 235.26 | NOTE | |
| r-devel-linux-x86_64-debian-gcc | 1.0.2 | 20.51 | 146.29 | 166.80 | NOTE | |
| r-devel-linux-x86_64-fedora-clang | 1.0.2 | 21.00 | 139.71 | 160.71 | ERROR | |
| r-devel-linux-x86_64-fedora-gcc | 1.0.2 | 19.00 | 130.51 | 149.51 | ERROR | |
| r-devel-windows-x86_64 | 1.0.2 | 36.00 | 202.00 | 238.00 | OK | |
| r-patched-linux-x86_64 | 1.0.2 | 27.92 | 194.96 | 222.88 | OK | |
| r-release-linux-x86_64 | 1.0.2 | 26.91 | 196.63 | 223.54 | OK | |
| r-release-macos-arm64 | 1.0.2 | 7.00 | 48.00 | 55.00 | OK | |
| r-release-macos-x86_64 | 1.0.2 | 19.00 | 197.00 | 216.00 | OK | |
| r-release-windows-x86_64 | 1.0.2 | 33.00 | 186.00 | 219.00 | OK | |
| r-oldrel-macos-arm64 | 1.0.2 | OK | ||||
| r-oldrel-macos-x86_64 | 1.0.2 | 17.00 | 229.00 | 246.00 | OK | |
| r-oldrel-windows-x86_64 | 1.0.2 | 46.00 | 255.00 | 301.00 | OK |
Version: 1.0.2
Check: CRAN incoming feasibility
Result: NOTE
Maintainer: ‘Stefan Michiels <stefan.michiels@gustaveroussy.fr>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: c(person(given = "Nils",
family = "Ternes",
role = "aut"),
person(given = "Federico",
family = "Rotolo",
role = "aut"),
person(given = "Stefan",
family = "Michiels",
role = c("aut", "cre"),
email = "stefan.michiels@gustaveroussy.fr"))
as necessary.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc
Version: 1.0.2
Check: examples
Result: ERROR
Running examples in ‘biospear-Ex.R’ failed
The error most likely occurred in:
> ### Name: expSurv
> ### Title: Computation of expected survival based on a prediction model
> ### Aliases: expSurv predict.resexpSurv plot.resexpSurv
> ### Keywords: survival estimations confidence intervals
>
> ### ** Examples
>
> ########################################
> # Simulated data set
> ########################################
>
> ## Low calculation time
> set.seed(654321)
> sdata <- simdata(
+ n = 500, p = 20, q.main = 3, q.inter = 0,
+ prob.tt = 0.5, alpha.tt = 0,
+ beta.main = -0.8,
+ b.corr = 0.6, b.corr.by = 4,
+ m0 = 5, wei.shape = 1, recr = 4, fu = 2,
+ timefactor = 1)
>
> resBM <- BMsel(
+ data = sdata,
+ method = c("lasso", "lasso-pcvl"),
+ inter = FALSE,
+ folds = 5)
Computing selection with method: lasso
Warning: Starting in glmnet 5.1, the default Cox tie-handling method will change from 'breslow' to 'efron' (matching survival::coxph). To silence this message and lock in the v5.0 default, pass cox.ties = 'breslow' explicitly. To preview the v5.1 behavior, pass cox.ties = 'efron'.
Warning: Starting in glmnet 5.1, the default Cox tie-handling method will change from 'breslow' to 'efron' (matching survival::coxph). To silence this message and lock in the v5.0 default, pass cox.ties = 'breslow' explicitly. To preview the v5.1 behavior, pass cox.ties = 'efron'.
Warning: Starting in glmnet 5.1, the default Cox tie-handling method will change from 'breslow' to 'efron' (matching survival::coxph). To silence this message and lock in the v5.0 default, pass cox.ties = 'breslow' explicitly. To preview the v5.1 behavior, pass cox.ties = 'efron'.
Warning: Starting in glmnet 5.1, the default Cox tie-handling method will change from 'breslow' to 'efron' (matching survival::coxph). To silence this message and lock in the v5.0 default, pass cox.ties = 'breslow' explicitly. To preview the v5.1 behavior, pass cox.ties = 'efron'.
Warning: Starting in glmnet 5.1, the default Cox tie-handling method will change from 'breslow' to 'efron' (matching survival::coxph). To silence this message and lock in the v5.0 default, pass cox.ties = 'breslow' explicitly. To preview the v5.1 behavior, pass cox.ties = 'efron'.
Warning: Starting in glmnet 5.1, the default Cox tie-handling method will change from 'breslow' to 'efron' (matching survival::coxph). To silence this message and lock in the v5.0 default, pass cox.ties = 'breslow' explicitly. To preview the v5.1 behavior, pass cox.ties = 'efron'.
Warning: Starting in glmnet 5.1, the default Cox tie-handling method will change from 'breslow' to 'efron' (matching survival::coxph). To silence this message and lock in the v5.0 default, pass cox.ties = 'breslow' explicitly. To preview the v5.1 behavior, pass cox.ties = 'efron'.
Warning: Starting in glmnet 5.1, the default Cox tie-handling method will change from 'breslow' to 'efron' (matching survival::coxph). To silence this message and lock in the v5.0 default, pass cox.ties = 'breslow' explicitly. To preview the v5.1 behavior, pass cox.ties = 'efron'.
Warning: Starting in glmnet 5.1, the default Cox tie-handling method will change from 'breslow' to 'efron' (matching survival::coxph). To silence this message and lock in the v5.0 default, pass cox.ties = 'breslow' explicitly. To preview the v5.1 behavior, pass cox.ties = 'efron'.
Warning: Starting in glmnet 5.1, the default Cox tie-handling method will change from 'breslow' to 'efron' (matching survival::coxph). To silence this message and lock in the v5.0 default, pass cox.ties = 'breslow' explicitly. To preview the v5.1 behavior, pass cox.ties = 'efron'.
Warning: Starting in glmnet 5.1, the default Cox tie-handling method will change from 'breslow' to 'efron' (matching survival::coxph). To silence this message and lock in the v5.0 default, pass cox.ties = 'breslow' explicitly. To preview the v5.1 behavior, pass cox.ties = 'efron'.
Computing selection with method: lasso-pcvl (lasso penalized extensions)
Warning: Starting in glmnet 5.1, the default Cox tie-handling method will change from 'breslow' to 'efron' (matching survival::coxph). To silence this message and lock in the v5.0 default, pass cox.ties = 'breslow' explicitly. To preview the v5.1 behavior, pass cox.ties = 'efron'.
>
> esurv <- expSurv(
+ res = resBM,
+ traindata = sdata,
+ boot = FALSE,
+ time = 5,
+ trace = TRUE)
Computation of the expected survival
Computation of analytical confidence intervals
Error in a$specials[[i]] : subscript out of bounds
Calls: expSurv ... survfit.coxph -> model.matrix.coxph -> delete.response -> off
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc