* using log directory ‘/data/blackswan/ripley/R/packages/tests-devel/CSCNet.Rcheck’
* using R Under development (unstable) (2025-12-20 r89211)
* 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 ‘CSCNet/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘CSCNet’ version ‘0.1.2’
* package encoding: UTF-8
* 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 ‘CSCNet’ can be installed ... [14s/14s] OK
* checking package directory ... OK
* checking ‘build’ 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 ... [19s/20s] 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking examples with --run-donttest ... [73s/74s] ERROR
Running examples in ‘CSCNet-Ex.R’ failed
The error most likely occurred in:

> ### Name: tune_penCSC
> ### Title: tune_penCSC
> ### Aliases: tune_penCSC
> 
> ### ** Examples
> 
> ## No test: 
> 
> library(riskRegression)
riskRegression version 2025.09.17
> 
> data(Melanoma)
> 
> vl <- list('1'=~age+sex+epicel+ici,
+ 
+           '2'=c('age','ulcer','thick','invasion'))
> 
> al <- list('1'=0,'2'=c(.5,1))
> 
> #External standardization function with data frame as its input and output
> 
> library(recipes)

Attaching package: ‘recipes’

The following object is masked from ‘package:stringr’:

    fixed

The following object is masked from ‘package:stats’:

    step

> 
> std.fun <- function(data){
+ 
+  cont_vars <- data %>% select(where(~is.numeric(.))) %>% names
+ 
+  cont_vars <- cont_vars[-which(cont_vars %in% c('time','status'))]
+ 
+  #External functions from recipes package are being used
+ 
+  recipe(~.,data=data) %>%
+ 
+    step_center(all_of(cont_vars)) %>%
+ 
+    step_scale(all_of(cont_vars)) %>%
+ 
+    prep(training=data) %>% juice
+ 
+ }
> 
> set.seed(233)
> 
> test <- tune_penCSC(time='time',status='status',vars.list=vl,data=Melanoma,horizons=1825,
+ 
+                    event=1,method='cv',k=5,metrics='AUC',alpha.grid=al,standardize=FALSE,
+ 
+                    preProc.fun=std.fun,parallel=TRUE,preProc.pkgs='recipes')

Process was done in 1.113879 mins.
Warning: There was 1 warning in `dplyr::filter()`.
ℹ In argument: `x$mean.AUC == max(x$mean.AUC, na.rm = T)`.
Caused by warning in `max()`:
! no non-missing arguments to max; returning -Inf
Error in `purrr::map()`:
ℹ In index: 1.
ℹ With name: 1825.
Caused by error in `purrr::pmap()`:
ℹ In index: 1.
ℹ With name: 1.
Caused by error in `if (alpha > 1) ...`:
! argument is of length zero
Backtrace:
     ▆
  1. ├─CSCNet::tune_penCSC(...)
  2. │ └─final_params %>% ...
  3. ├─purrr::map(...)
  4. │ └─purrr:::map_("list", .x, .f, ..., .progress = .progress)
  5. │   ├─purrr:::with_indexed_errors(...)
  6. │   │ └─base::withCallingHandlers(...)
  7. │   ├─purrr:::call_with_cleanup(...)
  8. │   └─CSCNet (local) .f(.x[[i]], ...)
  9. │     └─CSCNet::penCSC(...)
 10. │       └─purrr::pmap(...)
 11. │         └─purrr:::pmap_("list", .l, .f, ..., .progress = .progress)
 12. │           ├─purrr:::with_indexed_errors(...)
 13. │           │ └─base::withCallingHandlers(...)
 14. │           ├─purrr:::call_with_cleanup(...)
 15. │           └─CSCNet (local) .f(...)
 16. │             ├─... %>% unique()
 17. │             └─glmnet::glmnet(...)
 18. ├─base::unique(.)
 19. ├─base::sort(., decreasing = T)
 20. ├─CSCNet (local) `<fn>`(.)
 21. └─base::.handleSimpleError(...)
 22.   └─purrr (local) h(simpleError(msg, call))
 23.     └─cli::cli_abort(...)
 24.       └─rlang::abort(...)
Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [81s/81s] ERROR
Error(s) in re-building vignettes:
  ...
--- re-building ‘CSCNet.Rmd’ using rmarkdown

Quitting from CSCNet.Rmd:108-169 [unnamed-chunk-7]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/purrr_error_indexed>
Error in `purrr::map()`:
ℹ In index: 1.
ℹ With name: 1825.
Caused by error in `purrr::pmap()`:
ℹ In index: 1.
ℹ With name: 1.
Caused by error in `if (alpha > 1) ...`:
! argument is of length zero
---
Backtrace:
     ▆
  1. ├─CSCNet::tune_penCSC(...)
  2. │ └─final_params %>% ...
  3. ├─purrr::map(...)
  4. │ └─purrr:::map_("list", .x, .f, ..., .progress = .progress)
  5. │   ├─purrr:::with_indexed_errors(...)
  6. │   │ └─base::withCallingHandlers(...)
  7. │   ├─purrr:::call_with_cleanup(...)
  8. │   └─CSCNet (local) .f(.x[[i]], ...)
  9. │     └─CSCNet::penCSC(...)
 10. │       └─purrr::pmap(...)
 11. │         └─purrr:::pmap_("list", .l, .f, ..., .progress = .progress)
 12. │           ├─purrr:::with_indexed_errors(...)
 13. │           │ └─base::withCallingHandlers(...)
 14. │           ├─purrr:::call_with_cleanup(...)
 15. │           └─CSCNet (local) .f(...)
 16. │             ├─... %>% unique()
 17. │             └─glmnet::glmnet(...)
 18. ├─base::unique(.)
 19. ├─base::sort(., decreasing = T)
 20. └─CSCNet (local) `<fn>`(.)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'CSCNet.Rmd' failed with diagnostics:
ℹ In index: 1.
ℹ With name: 1825.
Caused by error in `purrr::pmap()`:
ℹ In index: 1.
ℹ With name: 1.
Caused by error in `if (alpha > 1) ...`:
! argument is of length zero
--- failed re-building ‘CSCNet.Rmd’

SUMMARY: processing the following file failed:
  ‘CSCNet.Rmd’

Error: Vignette re-building failed.
Execution halted

* 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: 2 ERRORs
See
  ‘/data/blackswan/ripley/R/packages/tests-devel/CSCNet.Rcheck/00check.log’
for details.

Command exited with non-zero status 1
Time 4:41.90, 255.25 + 24.65