* using log directory ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/DendroSync.Rcheck’ * using R Under development (unstable) (2025-02-23 r87804) * using platform: x86_64-pc-linux-gnu * R was compiled by Debian clang version 19.1.7 (1+b1) Debian flang-new version 19.1.7 (1+b1) * running under: Debian GNU/Linux trixie/sid * using session charset: UTF-8 * checking for file ‘DendroSync/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘DendroSync’ version ‘0.1.4’ * 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 serialization versions ... OK * checking whether package ‘DendroSync’ can be installed ... OK See 'https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-debian-clang/DendroSync-00install.html' for details. * checking package directory ... OK * checking for future file timestamps ... 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/2s] 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/2s] OK * checking loading without being on the library search path ... [1s/2s] 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 ... [10s/14s] OK * checking Rd files ... [0s/1s] NOTE checkRd: (-1) conifersIP.Rd:9: Lost braces; missing escapes or markup? 9 | \code{conifersIP} {has following variables:} | ^ checkRd: (-1) conifersIP.Rd:11: Lost braces in \itemize; meant \describe ? checkRd: (-1) conifersIP.Rd:12: Lost braces in \itemize; meant \describe ? checkRd: (-1) conifersIP.Rd:13: Lost braces in \itemize; meant \describe ? checkRd: (-1) conifersIP.Rd:14: Lost braces in \itemize; meant \describe ? checkRd: (-1) conifersIP.Rd:15: Lost braces in \itemize; meant \describe ? checkRd: (-1) sync.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) sync.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) sync.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) sync.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) sync.Rd:26: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) sync.Rd:27: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) sync.Rd:28: Lost braces in \itemize; \value handles \item{}{} directly * checking Rd metadata ... OK * checking Rd line widths ... OK * checking Rd cross-references ... NOTE Found the following Rd file(s) with Rd \link{} targets missing package anchors: dendro.varcov.Rd: varFunc, varIdent, lmeObject Please provide package anchors for all Rd \link{} targets not in the package itself and the base packages. * 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 ... [48s/64s] OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed dendro.varcov 5.002 0.023 7.353 sync 4.725 0.000 7.080 mod.table 3.887 0.008 5.481 cswi.het.aSE 3.612 0.000 5.144 * checking PDF version of manual ... [5s/6s] OK * checking HTML version of manual ... [1s/2s] OK * checking for non-standard things in the check directory ... OK * DONE Status: 2 NOTEs