• using R version 4.5.0 beta (2025-03-29 r88069)
  • using platform: aarch64-apple-darwin20
  • R was compiled by     Apple clang version 14.0.0 (clang-1400.0.29.202)     GNU Fortran (GCC) 14.2.0
  • running under: macOS Ventura 13.4
  • using session charset: UTF-8
  • checking for file ‘aghq/DESCRIPTION’ ... OK
  • checking extension type ... Package
  • this is package ‘aghq’ version ‘0.4.1’
  • 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 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 ‘aghq’ can be installed ... [4s/5s] OK See the install log for details.
  • checking installed package size ... OK
  • checking package 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/1s] OK
  • checking whether the package can be loaded with stated dependencies ... [1s/1s] OK
  • checking whether the package can be unloaded cleanly ... [1s/1s] OK
  • checking whether the namespace can be loaded with stated dependencies ... [1s/1s] OK
  • checking whether the namespace can be unloaded cleanly ... [1s/1s] OK
  • checking loading without being on the library search path ... [1s/1s] 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 ... [3s/4s] OK
  • checking Rd files ... [0s/0s] NOTE checkRd: (-1) aghq.Rd:21-22: Lost braces in \itemize; meant \describe ? checkRd: (-1) aghq.Rd:23-24: Lost braces in \itemize; meant \describe ? checkRd: (-1) aghq.Rd:25-26: Lost braces in \itemize; meant \describe ? checkRd: (-1) aghq.Rd:61-69: Lost braces in \itemize; meant \describe ? checkRd: (-1) aghq.Rd:63: Lost braces in \itemize; meant \describe ? checkRd: (-1) aghq.Rd:64: Lost braces in \itemize; meant \describe ? checkRd: (-1) aghq.Rd:65: Lost braces in \itemize; meant \describe ? checkRd: (-1) aghq.Rd:66: Lost braces in \itemize; meant \describe ? checkRd: (-1) aghq.Rd:70-71: Lost braces in \itemize; meant \describe ? checkRd: (-1) aghq.Rd:79-85: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) aghq.Rd:82: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) aghq.Rd:83: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) aghq.Rd:84: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) aghq.Rd:86-91: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) aghq.Rd:92-100: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) aghq.Rd:95: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) aghq.Rd:96: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) aghq.Rd:97: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) aghq.Rd:98: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) aghq.Rd:101: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) default_control.Rd:23-31: Lost braces in \itemize; meant \describe ? checkRd: (-1) default_control.Rd:25: Lost braces in \itemize; meant \describe ? checkRd: (-1) default_control.Rd:26: Lost braces in \itemize; meant \describe ? checkRd: (-1) default_control.Rd:27: Lost braces in \itemize; meant \describe ? checkRd: (-1) default_control.Rd:28: Lost braces in \itemize; meant \describe ? checkRd: (-1) default_control_marglaplace.Rd:23-30: Lost braces in \itemize; meant \describe ? checkRd: (-1) default_control_marglaplace.Rd:25: Lost braces in \itemize; meant \describe ? checkRd: (-1) default_control_marglaplace.Rd:26: Lost braces in \itemize; meant \describe ? checkRd: (-1) default_control_marglaplace.Rd:27: Lost braces in \itemize; meant \describe ? checkRd: (-1) default_control_marglaplace.Rd:28: Lost braces in \itemize; meant \describe ? checkRd: (-1) default_control_marglaplace.Rd:31-33: Lost braces in \itemize; meant \describe ? checkRd: (-1) default_control_tmb.Rd:23-30: Lost braces in \itemize; meant \describe ? checkRd: (-1) default_control_tmb.Rd:25: Lost braces in \itemize; meant \describe ? checkRd: (-1) default_control_tmb.Rd:26: Lost braces in \itemize; meant \describe ? checkRd: (-1) default_control_tmb.Rd:27: Lost braces in \itemize; meant \describe ? checkRd: (-1) default_control_tmb.Rd:28: Lost braces in \itemize; meant \describe ? checkRd: (-1) default_control_tmb.Rd:31-33: Lost braces     31 | \item \code{negate}: {default \code{TRUE}. Assumes that your \code{TMB} function        | ^ checkRd: (-1) laplace_approximation.Rd:18-19: Lost braces in \itemize; meant \describe ? checkRd: (-1) laplace_approximation.Rd:20-21: Lost braces in \itemize; meant \describe ? checkRd: (-1) laplace_approximation.Rd:22-23: Lost braces in \itemize; meant \describe ? checkRd: (-1) laplace_approximation.Rd:42-50: Lost braces in \itemize; meant \describe ? checkRd: (-1) laplace_approximation.Rd:44: Lost braces in \itemize; meant \describe ? checkRd: (-1) laplace_approximation.Rd:45: Lost braces in \itemize; meant \describe ? checkRd: (-1) laplace_approximation.Rd:46: Lost braces in \itemize; meant \describe ? checkRd: (-1) laplace_approximation.Rd:47: Lost braces in \itemize; meant \describe ? checkRd: (-1) laplace_approximation.Rd:51-52: Lost braces in \itemize; meant \describe ? checkRd: (-1) marginal_laplace.Rd:22-23: Lost braces in \itemize; meant \describe ? checkRd: (-1) marginal_laplace.Rd:24-25: Lost braces in \itemize; meant \describe ? checkRd: (-1) marginal_laplace.Rd:26-27: Lost braces in \itemize; meant \describe ? checkRd: (-1) marginal_laplace.Rd:53-59: Lost braces in \itemize; meant \describe ? checkRd: (-1) marginal_laplace.Rd:55: Lost braces in \itemize; meant \describe ? checkRd: (-1) marginal_laplace.Rd:56: Lost braces in \itemize; meant \describe ? checkRd: (-1) marginal_laplace.Rd:57: Lost braces in \itemize; meant \describe ? checkRd: (-1) marginal_laplace.Rd:60-61: Lost braces in \itemize; meant \describe ? checkRd: (-1) marginal_laplace_tmb.Rd:58-64: Lost braces in \itemize; meant \describe ? checkRd: (-1) marginal_laplace_tmb.Rd:60: Lost braces in \itemize; meant \describe ? checkRd: (-1) marginal_laplace_tmb.Rd:61: Lost braces in \itemize; meant \describe ? checkRd: (-1) marginal_laplace_tmb.Rd:62: Lost braces in \itemize; meant \describe ? checkRd: (-1) marginal_laplace_tmb.Rd:65-67: Lost braces in \itemize; meant \describe ? checkRd: (-1) normalize_logpost.Rd:42: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) normalize_logpost.Rd:43: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) normalize_logpost.Rd:44: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) optimize_theta.Rd:12-13: Lost braces in \itemize; meant \describe ? checkRd: (-1) optimize_theta.Rd:14-15: Lost braces in \itemize; meant \describe ? checkRd: (-1) optimize_theta.Rd:16-17: Lost braces in \itemize; meant \describe ? checkRd: (-1) optimize_theta.Rd:29-37: Lost braces in \itemize; meant \describe ? checkRd: (-1) optimize_theta.Rd:31: Lost braces in \itemize; meant \describe ? checkRd: (-1) optimize_theta.Rd:32: Lost braces in \itemize; meant \describe ? checkRd: (-1) optimize_theta.Rd:33: Lost braces in \itemize; meant \describe ? checkRd: (-1) optimize_theta.Rd:34: Lost braces in \itemize; meant \describe ? checkRd: (-1) optimize_theta.Rd:38-39: Lost braces in \itemize; meant \describe ? checkRd: (-1) optimize_theta.Rd:47: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) optimize_theta.Rd:48: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) optimize_theta.Rd:49: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) optimize_theta.Rd:50: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) sample_marginal.Rd:60-61: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) sample_marginal.Rd:62-63: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) sample_marginal.Rd:64-65: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) summary.aghq.Rd:18: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) summary.aghq.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) summary.aghq.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) summary.aghq.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) summary.aghq.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) summary.aghq.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) summary.aghq.Rd:24-26: Lost braces in \itemize; \value handles \item{}{} directly
  • 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 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 examples ... [2s/3s] OK
  • checking for unstated dependencies in ‘tests’ ... OK
  • checking tests ... [11s/16s] OK   Running ‘testthat.R’ [11s/16s]
  • checking PDF version of manual ... [7s/9s] OK
  • DONE Status: 1 NOTE
  • using check arguments '--no-clean-on-error '