* using log directory ‘/data/gannet/ripley/R/packages/tests-clang/tagtools.Rcheck’
* using R Under development (unstable) (2024-04-24 r86484)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    clang version 18.1.4
    flang-new version 18.1.4
* running under: Fedora Linux 36 (Workstation Edition)
* using session charset: UTF-8
* using option ‘--no-stop-on-test-error’
* checking for file ‘tagtools/DESCRIPTION’ ... OK
* this is package ‘tagtools’ version ‘0.1.0’
* 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 ‘tagtools’ can be installed ... [15s/17s] OK
See 'https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-fedora-clang/tagtools-00install.html' 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 ... [33s/38s] OK
* checking Rd files ... NOTE
checkRd: (-1) check_AM.Rd:21-25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) check_AM.Rd:26-29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) dive_stats.Rd:39: Lost braces; missing escapes or markup?
    39 | \code{max} { The maximum depth or altitude}
       |            ^
checkRd: (-1) dive_stats.Rd:40: Lost braces; missing escapes or markup?
    40 | \code{st} {start time of dive (seconds) - from input dive_cues}
       |           ^
checkRd: (-1) dive_stats.Rd:41: Lost braces; missing escapes or markup?
    41 | \code{et} {end time of dive (seconds) - from input dive_cues}
       |           ^
checkRd: (-1) dive_stats.Rd:42: Lost braces; missing escapes or markup?
    42 | \code{dur} { The duration of the excursion}
       |            ^
checkRd: (-1) dive_stats.Rd:43: Lost braces; missing escapes or markup?
    43 | \code{dest_st} { The start time of the destination phase in seconds since start of tag recording (which is also the end time of to phase)}
       |                ^
checkRd: (-1) dive_stats.Rd:44: Lost braces; missing escapes or markup?
    44 | \code{dest_et} { The end time of the destination phase in seconds since start of tag recording (which is also the start of the from phase).}
       |                ^
checkRd: (-1) dive_stats.Rd:45: Lost braces; missing escapes or markup?
    45 | \code{dest_dur} { The duration in seconds of destination phase}
       |                 ^
checkRd: (-1) dive_stats.Rd:46: Lost braces; missing escapes or markup?
    46 | \code{to_dur} { The duration in seconds of to phase}
       |               ^
checkRd: (-1) dive_stats.Rd:47: Lost braces; missing escapes or markup?
    47 | \code{from_dur} { The duration in seconds of from phase}
       |                 ^
checkRd: (-1) dive_stats.Rd:48: Lost braces
    48 | \code{mean_angle} { If angular=TRUE and X is input, the mean angle for the entire excursion. Values for each phase are also provided in columns \code{mean_to_angle}, \code{mean_dest_angle}, and \code{mean_from_angle}.}
       |                   ^
checkRd: (-1) dive_stats.Rd:49: Lost braces
    49 | \code{angle_var} { If angular=TRUE and X is input, the angular variance for the entire excursion. Values for each phase are also provided individually in columns \code{to_angle_var}, \code{dest_angle_var}, and \code{from_angle_var}.}
       |                  ^
checkRd: (-1) dive_stats.Rd:50: Lost braces
    50 | \code{mean_aux} { If angular=FALSE and X is input, the mean value of X for the entire excursion. Values for each phase are also provided in columns \code{mean_to_aux}, \code{mean_dest_aux}, and \code{mean_from_aux}.}
       |                 ^
checkRd: (-1) dive_stats.Rd:51: Lost braces
    51 | \code{aux_sd} { If angular=FALSE and X is input, the standard deviation of X for the entire excursion. Values for each phase are also provided individually in columns \code{to_aux_sd}, \code{dest_aux_sd}, and \code{from_aux_sd}.}
       |               ^
checkRd: (-1) make_specgram.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) make_specgram.Rd:35: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) make_specgram.Rd:36: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) rotation_test.Rd:42-51: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) rotation_test.Rd:44: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) rotation_test.Rd:45: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) rotation_test.Rd:46: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) rotation_test.Rd:47: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) rotation_test.Rd:48: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) rotation_test.Rd:49: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) rotation_test.Rd:52: 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 ... [19s/25s] OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... [11s/16s] OK
  Running ‘testthat.R’ [11s/16s]
* checking PDF version of manual ... [11s/30s] OK
* checking HTML version of manual ... [5s/12s] OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* DONE
Status: 1 NOTE