* using log directory ‘/srv/hornik/tmp/CRAN_pretest/landsepi.Rcheck’
* using R Under development (unstable) (2024-09-21 r87186)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    Debian clang version 18.1.8 (9)
    Debian flang-new version 18.1.8 (9)
* running under: Debian GNU/Linux trixie/sid
* using session charset: UTF-8
* checking for file ‘landsepi/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘landsepi’ version ‘1.5.1’
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [5s/6s] INFO
Maintainer: ‘Jean-François Rey <jean-francois.rey@inrae.fr>’
* 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 ‘landsepi’ can be installed ... [29s/29s] OK
* used C++ compiler: ‘Debian clang version 18.1.8 (11)’
* 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 ... [2s/2s] OK
* checking whether the package can be unloaded cleanly ... [2s/2s] OK
* checking whether the namespace can be loaded with stated dependencies ... [2s/2s] 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 whether startup messages can be suppressed ... [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 ... [12s/12s] 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 ... [0s/0s] OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in shell scripts ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK
* checking pragmas in C/C++ headers and code ... OK
* checking compilation flags used ... OK
* checking compiled code ... OK
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [10s/10s] OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... [2s/2s] OK
  Running ‘testthat.R’ [2s/2s]
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [10s/10s] ERROR
Error(s) in re-building vignettes:
  ...
--- re-building ‘O1-run_simple_simul.Rmd’ using rmarkdown

Quitting from lines 36-37 [unnamed-chunk-3] (O1-run_simple_simul.Rmd)
Error: processing vignette 'O1-run_simple_simul.Rmd' failed with diagnostics:
`keep_message` must be TRUE, FALSE, or NA.
--- failed re-building ‘O1-run_simple_simul.Rmd’

--- re-building ‘O2-run_exp_design.Rmd’ using rmarkdown
--- finished re-building ‘O2-run_exp_design.Rmd’

--- re-building ‘O3-landscape_dispersal.Rmd’ using rmarkdown
--- finished re-building ‘O3-landscape_dispersal.Rmd’

--- re-building ‘O4-run_sex_repro.Rmd’ using rmarkdown

Quitting from lines 32-46 [unnamed-chunk-3] (O4-run_sex_repro.Rmd)
Error: processing vignette 'O4-run_sex_repro.Rmd' failed with diagnostics:
`keep_message` must be TRUE, FALSE, or NA.
--- failed re-building ‘O4-run_sex_repro.Rmd’

--- re-building ‘O5-bibliography.Rmd’ using rmarkdown
--- finished re-building ‘O5-bibliography.Rmd’

--- re-building ‘landsepi_poster.Rnw’ using Sweave
--- finished re-building ‘landsepi_poster.Rnw’

--- re-building ‘list_of_parameters.Rnw’ using Sweave
--- finished re-building ‘list_of_parameters.Rnw’

SUMMARY: processing the following files failed:
  ‘O1-run_simple_simul.Rmd’ ‘O4-run_sex_repro.Rmd’

Error: Vignette re-building failed.
Execution halted

* checking PDF version of manual ... [4s/4s] OK
* checking HTML version of manual ... [2s/2s] OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* DONE
Status: 1 ERROR