* using log directory ‘/data/blackswan/ripley/R/packages/tests-devel/fishboot.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 ‘fishboot/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘fishboot’ version ‘1.0.2’
* 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 ‘fishboot’ can be installed ... [14s/15s] 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 LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... [23s/23s] OK
* checking examples with --run-donttest ... ERROR
Running examples in ‘fishboot-Ex.R’ failed
The error most likely occurred in:

> ### Name: ELEFAN_GA_boot
> ### Title: Bootstraped ELEFAN_GA
> ### Aliases: ELEFAN_GA_boot
> 
> ### ** Examples
> 
> # load data
> data("alba", package = "TropFishR")
> 
> # Define settings (for demo only, fast settings)
> MA        <- 7
> low_par   <- list(Linf = 9, K = 0.4, t_anchor = 0.5, C = 0, ts = 0)
> up_par    <- list(Linf = 11, K = 0.6, t_anchor = 0.8, C = 1, ts = 1)
> popSize   <- 12
> maxiter   <- 5
> run       <- 4
> pmutation <- 0.1
> nresamp   <-  2
> 
> # Non-parallel version
> res <- ELEFAN_GA_boot(lfq = alba, MA = MA, seasonalised = FALSE,
+                       up_par = up_par, low_par = low_par,
+                       parallel = FALSE,
+                       popSize = popSize, maxiter = maxiter,
+                       run = run, pmutation = pmutation,
+                       nresamp = nresamp)
Genetic algorithm is running. This might take some time.
Genetic algorithm is running. This might take some time.
> 
> res
$bootRaw
      Linf         K  t_anchor     phiL
1 10.15271 0.5055087 0.6180621 1.716892
2 10.44121 0.5514805 0.7489715 1.779032

$seed
[1] 1766352379 1766352380

attr(,"class")
[1] "lfqBoot"
> 
> 
> ## No test: 
> # Define settings (for demo only)
> MA        <- 7
> low_par   <- list(Linf = 8, K = 0.2, t_anchor = 0, C = 0, ts = 0)
> up_par    <- list(Linf = 12, K = 0.9, t_anchor = 1, C = 1, ts = 1)
> popSize   <- 40
> maxiter   <- 30
> run       <- 10
> pmutation <- 0.2
> nresamp   <-  3
> 
> # Parallel version
> res <- ELEFAN_GA_boot(lfq = alba, MA = MA, seasonalised = FALSE,
+                       up_par = up_par, low_par = low_par,
+                       parallel = TRUE,
+                       popSize = popSize, maxiter = maxiter,
+                       run = run, pmutation = pmutation,
+                       nresamp = nresamp)
Genetic algorithm is running. This might take some time.
Error in .check_ncores(nnodes) : 32 simultaneous processes spawned
Calls: ELEFAN_GA_boot ... startParallel -> <Anonymous> -> makeForkCluster -> .check_ncores
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: 1 ERROR
See
  ‘/data/blackswan/ripley/R/packages/tests-devel/fishboot.Rcheck/00check.log’
for details.

Command exited with non-zero status 1
Time 2:40.91, 128.03 + 26.27