* using log directory ‘/srv/hornik/tmp/CRAN_pretest/spacemodR.Rcheck’
* using R Under development (unstable) (2026-02-04 r89376)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    Debian clang version 21.1.8 (1+b1)
    Debian flang version 21.1.8 (1+b1)
* running under: Debian GNU/Linux forky/sid
* using session charset: UTF-8
* current time: 2026-02-05 08:51:11 UTC
* checking for file ‘spacemodR/DESCRIPTION’ ... OK
* this is package ‘spacemodR’ version ‘0.1.0’
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [3s/4s] NOTE
Maintainer: ‘Virgile Baudrot <virgile.baudrot@qonfluens.com>’

New submission

Possibly misspelled words in DESCRIPTION:
  Spacemod (2:8)
  Trophic (2:26)
  trophic (6:40)
* 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 ‘spacemodR’ can be installed ... [10s/10s] OK
* checking package directory ... OK
* checking for future file timestamps ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
  Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘add_link.Rd’ ‘departements.R’ ‘normalize_weights.Rd’
    ‘plot.trophic_tbl.Rd’ ‘trophic.Rd’
* 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 ... [3s/3s] OK
* checking whether the package can be loaded with stated dependencies ... [3s/3s] OK
* checking whether the package can be unloaded cleanly ... [3s/3s] OK
* checking whether the namespace can be loaded with stated dependencies ... [3s/3s] OK
* checking whether the namespace can be unloaded cleanly ... [3s/3s] OK
* checking loading without being on the library search path ... [3s/3s] 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 ... [13s/13s] OK
* checking Rd files ... [0s/0s] NOTE
checkRd: (-1) lower_neighbors.Rd:10: Lost braces
    10 | \item{trophic_tbl}{A \¢ode{trophic_tbl} object}
       |                           ^
* 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 ... [0s/0s] OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [6s/7s] OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... [4s/4s] OK
  Running ‘testthat.R’ [3s/3s]
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [30s/30s] ERROR
Error(s) in re-building vignettes:
  ...
--- re-building ‘Tutorial.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘Tutorial.Rmd’

--- re-building ‘Using_External_Dispersal.Rmd’ using rmarkdown
/home/hornik/.bashrc: line 5: ulimit: stack size: cannot modify limit: Operation not permitted
sh: 1: NA: not found

Quitting from Using_External_Dispersal.Rmd:111-114 [setup_julia]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `julia_setup()`:
! Julia is not found.
---
Backtrace:
    ▆
 1. └─JuliaCall::julia_setup(install = FALSE)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'Using_External_Dispersal.Rmd' failed with diagnostics:
Julia is not found.
--- failed re-building ‘Using_External_Dispersal.Rmd’

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

Error: Vignette re-building failed.
Execution halted

* 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, 3 NOTEs