- using R version 4.4.0 (2024-04-24)
- using platform: x86_64-apple-darwin20
- R was compiled by
Apple clang version 14.0.0 (clang-1400.0.29.202)
GNU Fortran (GCC) 12.2.0
- running under: macOS Ventura 13.3.1
- using session charset: UTF-8
- checking for file ‘dendextend/DESCRIPTION’ ... OK
- checking extension type ... Package
- this is package ‘dendextend’ version ‘1.17.1’
- 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 ‘dendextend’ can be installed ... [8s/8s] OK
See the install log for details.
- checking installed package size ... NOTE
installed size is 5.4Mb
sub-directories of 1Mb or more:
doc 4.2Mb
- checking package directory ... 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 code files for non-ASCII characters ... OK
- checking R files for syntax errors ... OK
- checking whether the package can be loaded ... [1s/1s] 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/1s] OK
- checking loading without being on the library search path ... [1s/1s] OK
- checking whether startup messages can be suppressed ... [1s/1s] 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 ... [11s/12s] OK
- checking Rd files ... [1s/1s] NOTE
checkRd: (-1) assign_values_to_leaves_edgePar.Rd:60: Lost braces
60 | \link{get_leaves_attr}, link{assign_values_to_leaves_nodePar}
| ^
checkRd: (-1) khan.Rd:10-11: Lost braces in \itemize; meant \describe ?
checkRd: (-1) khan.Rd:12-13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) khan.Rd:14-15: Lost braces in \itemize; meant \describe ?
checkRd: (-1) khan.Rd:16-18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) khan.Rd:19-21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) khan.Rd:22-35: Lost braces in \itemize; meant \describe ?
checkRd: (-1) khan.Rd:26: Lost braces in \itemize; meant \describe ?
checkRd: (-1) khan.Rd:27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) khan.Rd:28: Lost braces in \itemize; meant \describe ?
checkRd: (-1) khan.Rd:29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) khan.Rd:30: Lost braces in \itemize; meant \describe ?
checkRd: (-1) khan.Rd:31: Lost braces in \itemize; meant \describe ?
checkRd: (-1) khan.Rd:32: Lost braces in \itemize; meant \describe ?
checkRd: (-1) khan.Rd:33: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ladderize.Rd:59: Lost braces; missing escapes or markup?
59 | \code{\link{rev.dendrogram}}, \code{\link{rotate}} ({dendextend}), \code{\link[ape]{rotate}} ({ape})
| ^
checkRd: (-1) ladderize.Rd:59: Lost braces; missing escapes or markup?
59 | \code{\link{rev.dendrogram}}, \code{\link{rotate}} ({dendextend}), \code{\link[ape]{rotate}} ({ape})
| ^
checkRd: (-1) prune.Rd:62: Lost braces; missing escapes or markup?
62 | \link{prune_leaf}, \link[ape]{drop.tip} {ape}
| ^
checkRd: (-1) rllply.Rd:25: Lost braces; missing escapes or markup?
25 | following the naming convention in the {plyr} package
| ^
checkRd: (-1) rotate.Rd:81: Lost braces; missing escapes or markup?
81 | The {ape} package has its own \code{\link[ape]{rotate}}({ape}) function
| ^
checkRd: (-1) rotate.Rd:81: Lost braces; missing escapes or markup?
81 | The {ape} package has its own \code{\link[ape]{rotate}}({ape}) function
| ^
checkRd: (-1) rotate.Rd:86: Lost braces; missing escapes or markup?
86 | Notice that if you will first load {ape} and only then {dendextend},
| ^
checkRd: (-1) rotate.Rd:86: Lost braces; missing escapes or markup?
86 | Notice that if you will first load {ape} and only then {dendextend},
| ^
checkRd: (-1) rotate.Rd:92: Lost braces; missing escapes or markup?
92 | The solution for this is that if you have {ape} installed on your machine,
| ^
checkRd: (-1) rotate.Rd:93: Lost braces; missing escapes or markup?
93 | It will be loaded when you load {dendextend} (but after it).
| ^
checkRd: (-1) rotate.Rd:134: Lost braces; missing escapes or markup?
134 | \code{\link{rev.dendrogram}}, \code{\link[ape]{rotate}} ({ape}), \link{ladderize}
| ^
checkRd: (-1) unbranch.Rd:47: Lost braces; missing escapes or markup?
47 | \link[ape]{unroot} {ape}
| ^
checkRd: (-1) untangle_DendSer.Rd:22: Lost braces
22 | This is a good (and fast) starting point for link{untangle_step_rotate_2side}
| ^
- checking Rd metadata ... 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 ... [0s/0s] 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 ... [4s/5s] OK
- checking for unstated dependencies in ‘tests’ ... OK
- checking tests ... [14s/15s] OK
Running ‘test-all.R’ [13s/14s]
- checking for unstated dependencies in vignettes ... OK
- checking package vignettes ... OK
- checking re-building of vignette outputs ... [88s/94s] OK
- checking PDF version of manual ... [10s/10s] OK
- DONE
Status: 2 NOTEs
- using check arguments '--no-clean-on-error '