* using log directory 'd:/Rcompile/CRANpkg/local/4.5/clam.Rcheck'
* using R version 4.5.1 (2025-06-13 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 'clam/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'clam' version '2.6.2'
* 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 hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'clam' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... 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 ... [1s] OK
* checking whether the package can be loaded with stated dependencies ... [1s] OK
* checking whether the package can be unloaded cleanly ... [1s] OK
* checking whether the namespace can be loaded with stated dependencies ... [1s] OK
* checking whether the namespace can be unloaded cleanly ... [1s] OK
* checking loading without being on the library search path ... [1s] 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 ... [7s] OK
* checking Rd files ... [1s] OK
* checking Rd metadata ... 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... [2s] ERROR
Running examples in 'clam-Ex.R' failed
The error most likely occurred in:

> ### Name: add.dates
> ### Title: Add dates to age-depth plots
> ### Aliases: add.dates
> 
> ### ** Examples
> 
>   base_temp_dir <- tempdir()
>   clam_dir <- file.path(base_temp_dir, "clam_runs")
>   dir.create(clam_dir, recursive = TRUE, showWarnings = FALSE)
>   clam(, coredir=clam_dir, ask=FALSE)
The run's files will be put in this folder: D:\temp\2025_07_26_01_50_00_9596\RtmpkDjjjz\clam_runs/Example

 Warning, some dates lie partly outside the calibration curve! 
Error in `[.data.frame`(dat$hpd[[i]], 2 * nrow(dat$hpd[[i]])) : 
  undefined columns selected
Calls: clam -> .read.clam -> [ -> [.data.frame
Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [2s] ERROR
Error(s) in re-building vignettes:
--- re-building 'clam.Rmd' using rmarkdown

Quitting from clam.Rmd:30-36 [unnamed-chunk-4]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `[.data.frame`:
! undefined columns selected
---
Backtrace:
    ▆
 1. └─clam::clam(, ask = FALSE, coredir = clam_dir)
 2.   └─clam:::.read.clam(...)
 3.     ├─dat$hpd[[i]][2 * nrow(dat$hpd[[i]])]
 4.     └─base::`[.data.frame`(dat$hpd[[i]], 2 * nrow(dat$hpd[[i]]))
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'clam.Rmd' failed with diagnostics:
undefined columns selected
--- failed re-building 'clam.Rmd'

SUMMARY: processing the following file failed:
  'clam.Rmd'

Error: Vignette re-building failed.
Execution halted

* checking PDF version of manual ... [21s] OK
* checking HTML version of manual ... [2s] OK
* DONE
Status: 2 ERRORs