* using log directory ‘/home/hornik/tmp/CRAN_special_donttest/pencal.Rcheck’
* using R Under development (unstable) (2025-02-05 r87692)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc-14 (Debian 14.2.0-12) 14.2.0
    GNU Fortran (Debian 14.2.0-12) 14.2.0
* running under: Debian GNU/Linux trixie/sid
* using session charset: UTF-8
* using option ‘--run-donttest’
* checking for file ‘pencal/DESCRIPTION’ ... OK
* this is package ‘pencal’ version ‘2.2.3’
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [5s/6s] OK
* 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 ‘pencal’ can be installed ... [7s/7s] OK
* checking package directory ... OK
* checking for future file timestamps ... 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 ... [2s/2s] OK
* checking whether the package can be loaded with stated dependencies ... [1s/1s] OK
* checking whether the package can be unloaded cleanly ... [2s/2s] OK
* checking whether the namespace can be loaded with stated dependencies ... [1s/1s] OK
* checking whether the namespace can be unloaded cleanly ... [2s/2s] OK
* checking loading without being on the library search path ... [2s/2s] OK
* checking use of S3 registration ... 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 ... [11s/11s] OK
* checking Rd files ... [0s/0s] 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 ... [1s/1s] OK
* checking data for ASCII and uncompressed saves ... OK
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [2s/6s] ERROR
Running examples in ‘pencal-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: fit_mlpmms
> ### Title: Step 1 of PRC-MLPMM (estimation of the linear mixed models)
> ### Aliases: fit_mlpmms
> 
> ### ** Examples
> 
> ## No test: 
> # generate example data
> set.seed(123)
> n.items = c(4,2,2,3,4,2)
> simdata = simulate_prcmlpmm_data(n = 100, p = length(n.items),  
+              p.relev = 3, n.items = n.items, 
+              type = 'u+b', seed = 1)
>  
> # specify options for cluster bootstrap optimism correction
> # procedure and for parallel computing 
> do.bootstrap = FALSE
> # IMPORTANT: set do.bootstrap = TRUE to compute the optimism correction!
> n.boots = ifelse(do.bootstrap, 100, 0)
> more.cores = FALSE
> # IMPORTANT: set more.cores = TRUE to speed computations up!
> if (!more.cores) n.cores = 2
> if (more.cores) {
+    # identify number of available cores on your machine
+    n.cores = parallel::detectCores()
+    if (is.na(n.cores)) n.cores = 2
+ }
> 
> # step 1 of PRC-MLPMM: estimate the MLPMMs
> y.names = vector('list', length(n.items))
> for (i in 1:length(n.items)) {
+   y.names[[i]] = paste('marker', i, '_', 1:n.items[i], sep = '')
+ }
> 
> step1 = fit_mlpmms(y.names, fixefs = ~ contrast(age),  
+                  ranef.time = age, randint.items = TRUE, 
+                  long.data = simdata$long.data, 
+                  surv.data = simdata$surv.data,
+                  t.from.base = t.from.base,
+                  n.boots = n.boots, n.cores = n.cores)
Sorting long.data by subject id
Sorting surv.data by subject id
Preliminary step: remove measurements taken after event / censoring.
Removed: 0 measurements. Retained: 400 measurements.
This computation will be run in parallel 
Estimating the MLPMMs on the original dataset...
Error in { : 
  task 1 failed - "Estimation of the MLPMM for the 1-th latent biological process (on the original dataset) failed. Try to increase maxiter, or (if this fails) to change the 1-th element of randint.items. See also point C of the Details section of ?multlcmm"
Calls: fit_mlpmms -> %dopar% -> <Anonymous>
Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [2s/2s] OK
* checking PDF version of manual ... [3s/3s] OK
* checking HTML version of manual ... [1s/1s] OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* DONE
Status: 1 ERROR