• using R Under development (unstable) (2024-11-09 r87314)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     clang version 19.1.3     flang-new version 19.1.3
• running under: Fedora Linux 36 (Workstation Edition)
• using session charset: UTF-8
• using option ‘--no-stop-on-test-error’
• 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 ... [13s/17s] 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 ... 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 ... [22s/27s] OK
• checking Rd files ... 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 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 examples ... [11s/14s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [62s/77s] OK   Running ‘testthat.R’ [62s/76s]
• checking PDF version of manual ... [14s/21s] OK
• checking HTML version of manual ... OK
• checking for non-standard things in the check directory ... OK
• checking for detritus in the temp directory ... OK
• DONE

Status: 1 NOTE