* using log directory ‘/data/blackswan/ripley/R/packages/tests-devel/SurrogateOutcome.Rcheck’
* using R Under development (unstable) (2025-11-16 r89026)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (GCC) 14.2.1 20240912 (Red Hat 14.2.1-3)
    GNU Fortran (GCC) 14.2.1 20240912 (Red Hat 14.2.1-3)
* running under: Fedora Linux 40 (Workstation Edition)
* using session charset: UTF-8
* checking for file ‘SurrogateOutcome/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘SurrogateOutcome’ version ‘1.2’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for executable files ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘SurrogateOutcome’ can be installed ... [11s/12s] OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... [20s/21s] OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... OK
* checking examples with --run-donttest ... [30m/31m] ERROR
Running examples in ‘SurrogateOutcome-Ex.R’ failed
The error most likely occurred in:

> ### Name: R.opt.event
> ### Title: Calculates the proportion of the treatment effect (the
> ###   difference in survival at time t) explained by surrogate outcome
> ###   information observed up to the landmark time, using the optimal
> ###   transformation of the surrogate
> ### Aliases: R.opt.event
> 
> ### ** Examples
> 
> data(ExampleData)
> names(ExampleData)
[1] "s1"     "x1"     "delta1" "s0"     "x0"     "delta0"
> ## No test: 
> R.opt.event(xone = ExampleData$x1, xzero = ExampleData$x0, deltaone = ExampleData$delta1, 
+ deltazero = ExampleData$delta0, sone = ExampleData$s1, szero = ExampleData$s0, t = 5, 
+ landmark=2)
$R.opt
[1] 0.5269316

> 
> #with all options as TRUE
> R.opt.event(xone = ExampleData$x1, xzero = ExampleData$x0, deltaone = ExampleData$delta1, 
+ deltazero = ExampleData$delta0, sone = ExampleData$s1, szero = ExampleData$s0, t = 5, 
+ landmark=2, std = TRUE, conf.int = TRUE, gopt = TRUE, ind = TRUE)
* checking PDF version of manual ... OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* checking for new files in some other directories ... OK
* DONE

Status: 1 ERROR
See
  ‘/data/blackswan/ripley/R/packages/tests-devel/SurrogateOutcome.Rcheck/00check.log’
for details.

Command exited with non-zero status 1
Time 32:12.33, 1838.16 + 54.34