* using log directory ‘/data/blackswan/ripley/R/packages/tests-devel/BeQut.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 ‘BeQut/DESCRIPTION’ ... OK
* this is package ‘BeQut’ version ‘0.1.0’
* 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 ‘BeQut’ can be installed ... 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 ... [16s/17s] 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 ‘BeQut-Ex.R’ failed
The error most likely occurred in:

> ### Name: deviance
> ### Title: 'deviance' returns the deviance based on the conditional
> ###   likelihood associated with the survival part.
> ### Aliases: deviance
> 
> ### ** Examples
> 
> 
> ## No test: 
> #---- load data
> data(dataLong)
> 
> #---- Fit quantile regression joint model for the median
> qrjm_50 <- qrjm(formFixed = y ~ visit,
+                formRandom = ~ visit,
+                formGroup = ~ ID,
+                formSurv = survival::Surv(time, event) ~ X1 + X2,
+                survMod = "weibull",
+                param = "value",
+                timeVar= "visit",
+                data = dataLong,
+                save_va = TRUE,
+                parallel = FALSE,
+                tau = 0.5)
Initialisation of longitudinal parameter values using 'lqmm' package.
Initialisation of survival parameter values using 'survival' package.

Processing function input....... 

Done. 
 
Compiling model graph
   Resolving undeclared variables
   Allocating nodes
Graph information:
   Observed stochastic nodes: 1859
   Unobserved stochastic nodes: 1865
   Total graph size: 80835

Initializing model

Adaptive phase, 5000 iterations x 3 chains 
If no progress bar appears JAGS has decided not to adapt 
 
Warning in run.model(modfile, data, inits, params, mc$n.chains, mc$n.iter,  :
  JAGS reports adaptation was incomplete. Consider increasing n.adapt

 Burn-in phase, 5000 iterations x 3 chains 
 
* 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/BeQut.Rcheck/00check.log’
for details.

Command exited with non-zero status 1
Time 32:06.35, 1867.83 + 15.56