* using log directory 'd:/RCompile/CRANincoming/R-devel/multilevelcoda.Rcheck' * using R Under development (unstable) (2024-03-09 r86082 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 12.3.0 GNU Fortran (GCC) 12.3.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * checking for file 'multilevelcoda/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'multilevelcoda' version '1.2.3' * package encoding: UTF-8 * checking CRAN incoming feasibility ... NOTE Maintainer: 'Flora Le <13florale@gmail.com>' New submission Package was archived on CRAN Possibly misspelled words in DESCRIPTION: ILR (22:35) isotemporal (24:48) CRAN repository db overrides: X-CRAN-Comment: Archived on 2024-02-29 as issues were not corrected in time. Suggests or Enhances not in mainstream repositories: cmdstanr Availability using Additional_repositories specification: cmdstanr yes https://mc-stan.org/r-packages/ * checking package namespace information ... OK * checking package dependencies ... NOTE Package suggested but not available for checking: 'cmdstanr' * 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 'multilevelcoda' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking for future file timestamps ... 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 R 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 ... [21s] OK * checking Rd files ... NOTE checkRd: (-1) bsub.Rd:54: Lost braces 54 | {\code{Mean}}{ Posterior means.} | ^ checkRd: (-1) bsub.Rd:55: Lost braces 55 | {\code{CI_low} and \code{CI_high}}{ 95\% credible intervals.} | ^ checkRd: (-1) bsub.Rd:55: Lost braces 55 | {\code{CI_low} and \code{CI_high}}{ 95\% credible intervals.} | ^ checkRd: (-1) bsub.Rd:56: Lost braces 56 | {\code{Delta}}{ Amount substituted across compositional parts.} | ^ checkRd: (-1) bsub.Rd:57: Lost braces 57 | {\code{From}}{ Compositional part that is substituted from.} | ^ checkRd: (-1) bsub.Rd:58: Lost braces 58 | {\code{To}}{ Compositional parts that is substituted to.} | ^ checkRd: (-1) bsub.Rd:59: Lost braces 59 | {\code{Level}}{ Level where changes in composition takes place. Either \code{between} or \code{within}.} | ^ checkRd: (-1) bsub.Rd:60: Lost braces 60 | {\code{Reference}}{ Either \code{grandmean}, \code{clustermean}, or \code{users}.} | ^ checkRd: (-1) bsubmargins.Rd:46: Lost braces 46 | {\code{Mean}}{ Posterior means.} | ^ checkRd: (-1) bsubmargins.Rd:47: Lost braces 47 | {\code{CI_low} and \code{CI_high}}{ 95\% credible intervals.} | ^ checkRd: (-1) bsubmargins.Rd:47: Lost braces 47 | {\code{CI_low} and \code{CI_high}}{ 95\% credible intervals.} | ^ checkRd: (-1) bsubmargins.Rd:48: Lost braces 48 | {\code{Delta}}{ Amount substituted across compositional parts.} | ^ checkRd: (-1) bsubmargins.Rd:49: Lost braces 49 | {\code{From}}{ Compositional part that is substituted from.} | ^ checkRd: (-1) bsubmargins.Rd:50: Lost braces 50 | {\code{To}}{ Compositional parts that is substituted to.} | ^ checkRd: (-1) bsubmargins.Rd:51: Lost braces 51 | {\code{Level}}{ Level where changes in composition takes place. Either \code{between} or \code{within}.} | ^ checkRd: (-1) bsubmargins.Rd:52: Lost braces 52 | {\code{Reference}}{ Either \code{grandmean}, \code{clustermean}, or \code{users}.} | ^ checkRd: (-1) submargins.Rd:46: Lost braces 46 | {\code{Mean}}{ Posterior means.} | ^ checkRd: (-1) submargins.Rd:47: Lost braces 47 | {\code{CI_low} and \code{CI_high}}{ 95\% credible intervals.} | ^ checkRd: (-1) submargins.Rd:47: Lost braces 47 | {\code{CI_low} and \code{CI_high}}{ 95\% credible intervals.} | ^ checkRd: (-1) submargins.Rd:48: Lost braces 48 | {\code{Delta}}{ Amount substituted across compositional parts.} | ^ checkRd: (-1) submargins.Rd:49: Lost braces 49 | {\code{From}}{ Compositional part that is substituted from.} | ^ checkRd: (-1) submargins.Rd:50: Lost braces 50 | {\code{To}}{ Compositional parts that is substituted to.} | ^ checkRd: (-1) submargins.Rd:51: Lost braces 51 | {\code{Level}}{ Level where changes in composition takes place. Either \code{between} or \code{within}.} | ^ checkRd: (-1) submargins.Rd:52: Lost braces 52 | {\code{Reference}}{ Either \code{grandmean}, \code{clustermean}, or \code{users}.} | ^ checkRd: (-1) substitution.Rd:54: Lost braces 54 | {\code{Mean}}{ Posterior means.} | ^ checkRd: (-1) substitution.Rd:55: Lost braces 55 | {\code{CI_low} and \code{CI_high}}{ 95\% credible intervals.} | ^ checkRd: (-1) substitution.Rd:55: Lost braces 55 | {\code{CI_low} and \code{CI_high}}{ 95\% credible intervals.} | ^ checkRd: (-1) substitution.Rd:56: Lost braces 56 | {\code{Delta}}{ Amount substituted across compositional parts.} | ^ checkRd: (-1) substitution.Rd:57: Lost braces 57 | {\code{From}}{ Compositional part that is substituted from.} | ^ checkRd: (-1) substitution.Rd:58: Lost braces 58 | {\code{To}}{ Compositional parts that is substituted to.} | ^ checkRd: (-1) substitution.Rd:59: Lost braces 59 | {\code{Level}}{ Level where changes in composition takes place. Either \code{between} or \code{within}.} | ^ checkRd: (-1) substitution.Rd:60: Lost braces 60 | {\code{Reference}}{ Either \code{grandmean}, \code{clustermean}, or \code{users}.} | ^ checkRd: (-1) wsub.Rd:54: Lost braces 54 | {\code{Mean}}{ Posterior means.} | ^ checkRd: (-1) wsub.Rd:55: Lost braces 55 | {\code{CI_low} and \code{CI_high}}{ 95\% credible intervals.} | ^ checkRd: (-1) wsub.Rd:55: Lost braces 55 | {\code{CI_low} and \code{CI_high}}{ 95\% credible intervals.} | ^ checkRd: (-1) wsub.Rd:56: Lost braces 56 | {\code{Delta}}{ Amount substituted across compositional parts.} | ^ checkRd: (-1) wsub.Rd:57: Lost braces 57 | {\code{From}}{ Compositional part that is substituted from.} | ^ checkRd: (-1) wsub.Rd:58: Lost braces 58 | {\code{To}}{ Compositional parts that is substituted to.} | ^ checkRd: (-1) wsub.Rd:59: Lost braces 59 | {\code{Level}}{ Level where changes in composition takes place. Either \code{between} or \code{within}.} | ^ checkRd: (-1) wsub.Rd:60: Lost braces 60 | {\code{Reference}}{ Either \code{grandmean}, \code{clustermean}, or \code{users}.} | ^ checkRd: (-1) wsubmargins.Rd:46: Lost braces 46 | {\code{Mean}}{ Posterior means.} | ^ checkRd: (-1) wsubmargins.Rd:47: Lost braces 47 | {\code{CI_low} and \code{CI_high}}{ 95\% credible intervals.} | ^ checkRd: (-1) wsubmargins.Rd:47: Lost braces 47 | {\code{CI_low} and \code{CI_high}}{ 95\% credible intervals.} | ^ checkRd: (-1) wsubmargins.Rd:48: Lost braces 48 | {\code{Delta}}{ Amount substituted across compositional parts.} | ^ checkRd: (-1) wsubmargins.Rd:49: Lost braces 49 | {\code{From}}{ Compositional part that is substituted from.} | ^ checkRd: (-1) wsubmargins.Rd:50: Lost braces 50 | {\code{To}}{ Compositional parts that is substituted to.} | ^ checkRd: (-1) wsubmargins.Rd:51: Lost braces 51 | {\code{Level}}{ Level where changes in composition takes place. Either \code{between} or \code{within}.} | ^ checkRd: (-1) wsubmargins.Rd:52: Lost braces 52 | {\code{Reference}}{ Either \code{grandmean}, \code{clustermean}, or \code{users}.} | ^ * 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 installed files from 'inst/doc' ... OK * checking files in 'vignettes' ... OK * checking examples ... [12s] OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... [13s] OK Running 'testthat.R' [13s] * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... OK * checking PDF version of manual ... [18s] OK * checking HTML version of manual ... OK * DONE Status: 3 NOTEs