* using log directory 'd:/RCompile/CRANincoming/R-devel/eDNAjoint.Rcheck'
* using R Under development (unstable) (2024-10-01 r87205 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.2.0
    GNU Fortran (GCC) 13.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'eDNAjoint/DESCRIPTION' ... OK
* this is package 'eDNAjoint' version '0.2'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... NOTE
Maintainer: 'Abigail G. Keller <agkeller@berkeley.edu>'

New submission

Possibly misspelled words in DESCRIPTION:
  PCR (18:16)
  catchability (22:9)
  covariates (20:33)
  eDNA (11:50, 17:9, 19:60, 21:12)
  electrofishing (16:34)
  nondetection (17:24)
  polymerase (17:46)
  qPCR (18:23)

Unknown, possibly misspelled, fields in DESCRIPTION:
  'RemoteUrl' 'RemoteRef' 'RemoteSha'

Package has a VignetteBuilder field but no prebuilt vignette index.

Found the following (possibly) invalid file URI:
  URI: doi.org/10.6084/m9.figshare.15117102.v2
    From: man/greencrabData.Rd
* checking package namespace information ... OK
* checking package dependencies ... INFO
Vignette dependency required without any vignettes: 'knitr'
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking serialization versions ... OK
* checking whether package 'eDNAjoint' can be installed ... OK
* used C++ compiler: 'g++.exe (GCC) 13.2.0'
* checking C++ specification ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for future file timestamps ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... NOTE
Non-standard files/directories found at top level:
  'CODE_OF_CONDUCT.md' 'LICENSE.md' 'extra' 'manual.pdf'
* 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 ... [11s] 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 ... [29s] NOTE
detectionPlot: no visible binding for global variable 'value'
Undefined global functions or variables:
  value
* 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 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 examples ... [11s] OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
Check process probably crashed or hung up for 20 minutes ... killed
Most likely this happened in the example checks (?),
if not, ignore the following last lines of example output:
> 
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: traditionalModel
> ### Title: Specify and fit model using count data from traditional, non
> ###   eDNA surveys
> ### Aliases: traditionalModel
> 
> ### ** Examples
> 
> 
> 
> 
> 
> base::assign(".dptime", (proc.time() - get(".ptime", pos = "CheckExEnv")), pos = "CheckExEnv")
> base::cat("traditionalModel", base::get(".format_ptime", pos = 'CheckExEnv')(get(".dptime", pos = "CheckExEnv")), "\n", file=base::get(".ExTimings", pos = 'CheckExEnv'), append=TRUE, sep="\t")
> ### * <FOOTER>
> ###
> cleanEx()
> options(digits = 7L)
> base::cat("Time elapsed: ", proc.time() - base::get("ptime", pos = 'CheckExEnv'),"\n")
Time elapsed:  10.25 0.42 10.68 NA NA 
> grDevices::dev.off()
null device 
          1 
> ###
> ### Local variables: ***
> ### mode: outline-minor ***
> ### outline-regexp: "\\(> \\)?### [*]+" ***
> ### End: ***
> quit('no')
======== End of example output (where/before crash/hang up occured ?) ========