* using log directory 'd:/RCompile/CRANincoming/R-devel/sharpshootR.Rcheck'
* using R Under development (unstable) (2025-09-25 r88874 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 14.2.0
    GNU Fortran (GCC) 14.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'sharpshootR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'sharpshootR' version '2.4'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... INFO
Maintainer: 'Dylan Beaudette <dylan.beaudette@usda.gov>'

Suggests or Enhances not in mainstream repositories:
  hydromad
Availability using Additional_repositories specification:
  hydromad   yes   https://hydromad.github.io
* checking package namespace information ... OK
* checking package dependencies ... INFO
Package suggested but not available for checking: 'hydromad'
* 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 whether package 'sharpshootR' can be installed ... OK
* checking installed package size ... OK
* 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 ... 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 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] 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... ERROR
Running examples in 'sharpshootR-Ex.R' failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: table5.2
> ### Title: Table 5.2 from Hole and Campbell, 1985.
> ### Aliases: table5.2
> ### Keywords: datasets
> 
> ### ** Examples
> 
> 
> data("table5.2")
> 
> if(requireNamespace("igraph")) {
+   
+   # note special incantation to get the "correct" graph structure
+   g <- igraph::graph_from_adjacency_matrix(table5.2, mode = 'upper', diag = FALSE, weighted = TRUE)
+   
+   # visualize
+   op <- par(no.readonly = TRUE)
+   
+   par(mar = c(0,0,0,0))
+   plot(g)
+   
+   plot(g, vertex.size = sqrt(igraph::degree(g) * 25), vertex.label.family = 'sans')
+   
+   # find communities
+   cm <- igraph::cluster_walktrap(g)
+   plot(cm, g, vertex.label.family = 'sans')
+   
+   par(op)
+ }
Error in `igraph::graph_from_adjacency_matrix()`:
! Cannot create a graph object because the adjacency matrix contains
  NAs.
Backtrace:
    ▆
 1. └─igraph::graph_from_adjacency_matrix(table5.2, mode = "upper", diag = FALSE, weighted = TRUE)
 2.   └─igraph:::ensure_no_na(adjmatrix, "adjacency matrix")
 3.     └─cli::cli_abort(...)
 4.       └─rlang::abort(...)
Execution halted
* checking for unstated dependencies in 'tests' ... OK
* checking tests ... OK
  Running 'testthat.R'
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... [14s] OK
* checking HTML version of manual ... OK
* DONE
Status: 1 ERROR