• using R Under development (unstable) (2023-12-04 r85659)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     Debian clang version 17.0.5 (1)     Debian flang-new version 17.0.5 (1)
• running under: Debian GNU/Linux trixie/sid
• using session charset: UTF-8
• checking for file ‘vegan/DESCRIPTION’ ... OK
• this is package ‘vegan’ version ‘2.6-4’
• 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 ‘vegan’ can be installed ... OK See the install log for details.
• used C compiler: ‘Debian clang version 17.0.5 (1)’
• used Fortran compiler: ‘Debian flang-new version 17.0.5 (1)’
• 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 ... [3s/4s] OK
• checking whether the package can be loaded with stated dependencies ... [2s/3s] OK
• checking whether the package can be unloaded cleanly ... [2s/3s] OK
• checking whether the namespace can be loaded with stated dependencies ... [2s/3s] OK
• checking whether the namespace can be unloaded cleanly ... [3s/3s] OK
• checking loading without being on the library search path ... [3s/3s] OK
• checking whether startup messages can be suppressed ... [3s/3s] 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 ... [118s/140s] OK
• checking Rd files ... [6s/7s] NOTE checkRd: (-1) clamtest.Rd:91: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) clamtest.Rd:92: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) clamtest.Rd:93: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) clamtest.Rd:94-96: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) commsim.Rd:52: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:53: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:54: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:55: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:56: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:57: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:58: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:59: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:60: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:61: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:62: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:63: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:101-102: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:104-105: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:107-109: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:111-113: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:115-116: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:118-121: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:123-129: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:131-138: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:140-151: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:153-161: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:163-171: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:188-190: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:192-201: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:221-228: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:230-236: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:238-243: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:263-265: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:267-268: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:270-272: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:274-276: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:278-279: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:281-282: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:303-305: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:307-309: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:311-313: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:315-318: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:320-323: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:325-328: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:330-332: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:334-336: Lost braces in \itemize; meant \describe ? checkRd: (-1) commsim.Rd:338-340: Lost braces in \itemize; meant \describe ? checkRd: (-1) eventstar.Rd:62-63: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) eventstar.Rd:64-65: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) eventstar.Rd:66: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) eventstar.Rd:67-70: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) nullmodel.Rd:147: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) nullmodel.Rd:148: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) nullmodel.Rd:149: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) nullmodel.Rd:150: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) nullmodel.Rd:151: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) nullmodel.Rd:152: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) nullmodel.Rd:153: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) nullmodel.Rd:154: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) nullmodel.Rd:155: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) nullmodel.Rd:156-157: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) nullmodel.Rd:158-160: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) nullmodel.Rd:161-163: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) raupcrick.Rd:94: Lost braces; missing escapes or markup?     94 | \code{\link{vegdist}} with {method = "raup"} implements a related        | ^ checkRd: (-1) varpart.Rd:239-240: Lost braces in \itemize; meant \describe ? checkRd: (-1) varpart.Rd:241-242: Lost braces in \itemize; meant \describe ? checkRd: (-1) varpart.Rd:243: Lost braces in \itemize; meant \describe ? checkRd: (-1) varpart.Rd:244-247: Lost braces in \itemize; meant \describe ?
• 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 ... [0s/1s] OK
• checking data for ASCII and uncompressed saves ... OK
• checking line endings in C/C++/Fortran sources/headers ... OK
• checking line endings in Makefiles ... OK
• checking compilation flags in Makevars ... OK
• checking for GNU extensions in Makefiles ... OK
• checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
• checking use of PKG_*FLAGS in Makefiles ... OK
• checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK
• checking pragmas in C/C++ headers and code ... OK
• checking compilation flags used ... OK
• checking compiled code ... OK
• checking usage of KIND in Fortran files ... OK
• checking sizes of PDF files under ‘inst/doc’ ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [51s/61s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [22s/34s] OK   Running ‘aitchison-tests.R’ [2s/3s]   Running ‘cca-object-tests.R’ [6s/14s]   Comparing ‘cca-object-tests.Rout’ to ‘cca-object-tests.Rout.save’ ... OK   Running ‘decostand-tests.R’ [3s/3s]   Running ‘oecosimu-tests.R’ [3s/4s]   Comparing ‘oecosimu-tests.Rout’ to ‘oecosimu-tests.Rout.save’ ... OK   Running ‘vegan-tests.R’ [8s/9s]   Comparing ‘vegan-tests.Rout’ to ‘vegan-tests.Rout.save’ ... OK
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes in ‘inst/doc’ ... OK
• checking re-building of vignette outputs ... [39s/55s] OK
• checking PDF version of manual ... [24s/28s] OK
• checking HTML version of manual ... [20s/28s] OK
• checking for non-standard things in the check directory ... OK
• DONE

Status: 1 NOTE