* using log directory ‘/data/gannet/ripley/R/packages/tests-clang/equivalence.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 ‘equivalence/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘equivalence’ version ‘0.7.2’ * 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 ‘equivalence’ can be installed ... [11s/16s] OK See 'https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-fedora-clang/equivalence-00install.html' for details. * used C compiler: ‘clang version 18.1.4’ * 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 whether startup messages can be suppressed ... 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 ... [16s/20s] OK * checking Rd files ... NOTE checkRd: (-1) equivalence.xyplot.Rd:36: Lost braces in \itemize; meant \describe ? checkRd: (-1) equivalence.xyplot.Rd:37-38: Lost braces in \itemize; meant \describe ? checkRd: (-1) equivalence.xyplot.Rd:39-40: Lost braces in \itemize; meant \describe ? checkRd: (-1) equivalence.xyplot.Rd:41-43: Lost braces in \itemize; meant \describe ? checkRd: (-1) equivalence.xyplot.Rd:44-45: Lost braces in \itemize; meant \describe ? checkRd: (-1) equivalence.xyplot.Rd:46-47: Lost braces in \itemize; meant \describe ? checkRd: (-1) equivalence.xyplot.Rd:48-49: Lost braces in \itemize; meant \describe ? checkRd: (-1) equivalence.xyplot.Rd:50-51: Lost braces in \itemize; meant \describe ? checkRd: (-1) equivalence.xyplot.Rd:52-53: Lost braces in \itemize; meant \describe ? checkRd: (-1) equivalence.xyplot.Rd:54-57: Lost braces in \itemize; meant \describe ? checkRd: (-1) equivalence.xyplot.Rd:58-60: Lost braces in \itemize; meant \describe ? checkRd: (-1) equivalence.xyplot.Rd:61-63: Lost braces in \itemize; meant \describe ? checkRd: (-1) equivalence.xyplot.Rd:64-65: Lost braces in \itemize; meant \describe ? checkRd: (-1) rtost.Rd:7: Lost braces; missing escapes or markup? 7 | This function computes the TOST and key TOST quantities for the two one-sided test for equivalence [Schuirmann (1981) and Westlake (1981)], using the robust t-test of Yuen [Yuen and Dixon (1973), Yuen (1974)] in place of the standard Welch t test (t.test {stats}). The yuen t test makes no assumption of normality. The function computes the robust TOST for a sample of paired differences or for two samples. The function performs almost as well as the Welch t test when the population distribution is normal and is more robust than the Welch t test in the face of non-normality (e.g., distributions that are long-tailed, heteroscedastic, or contaminated by outliers)[Yuen and Dixon (1973), Yuen (1974)]. | ^ checkRd: (-1) rtost.Rd:23: Lost braces; missing escapes or markup? 23 | \details{The rtost function is wrapped around the yuen {PairedData} t test, a robust variant of the t test using trimmed means and winsorized variances. It provides tosts for the same range of designs, accepts the same arguments, and handles missing values the same way as tost {equivalence}. For the tost, the user must set epsilon, which is the magnitude of region similarity. Warning: with tr > 0.25 type I error control might be poor. | ^ checkRd: (-1) rtost.Rd:23: Lost braces; missing escapes or markup? 23 | \details{The rtost function is wrapped around the yuen {PairedData} t test, a robust variant of the t test using trimmed means and winsorized variances. It provides tosts for the same range of designs, accepts the same arguments, and handles missing values the same way as tost {equivalence}. For the tost, the user must set epsilon, which is the magnitude of region similarity. Warning: with tr > 0.25 type I error control might be poor. | ^ checkRd: (-1) rtost.Rd:60: Lost braces; missing escapes or markup? 60 | \note{This test is the tost for equivalence (tost {equivalence}) wrapped around the robust, trimmed mean, winsorized variance yuen.t.test (yuen {PairedData}).} | ^ checkRd: (-1) rtost.Rd:60: Lost braces; missing escapes or markup? 60 | \note{This test is the tost for equivalence (tost {equivalence}) wrapped around the robust, trimmed mean, winsorized variance yuen.t.test (yuen {PairedData}).} | ^ * 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 data for ASCII and uncompressed saves ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking pragmas in C/C++ headers and code ... OK * checking compilation flags used ... OK * checking compiled code ... NOTE File ‘equivalence/libs/equivalence.so’: Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’ It is good practice to register native routines and to disable symbol search. See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual. * checking examples ... OK * checking PDF version of manual ... [8s/12s] 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: 2 NOTEs