* using log directory ‘/data/gannet/ripley/R/packages/tests-devel/clusterSim.Rcheck’
* using R Under development (unstable) (2024-04-05 r86344)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc-13 (GCC) 13.2.0
    GNU Fortran (GCC) 13.2.0
* running under: Fedora Linux 36 (Workstation Edition)
* using session charset: UTF-8
* using option ‘--no-stop-on-test-error’
* checking for file ‘clusterSim/DESCRIPTION’ ... OK
* this is package ‘clusterSim’ version ‘0.51-3’
* 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 ‘clusterSim’ can be installed ... [20s/30s] OK
See 'https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-fedora-gcc/clusterSim-00install.html' for details.
* used C++ compiler: ‘g++-13 (GCC) 13.2.0’
* 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 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 ... [39s/48s] OK
* checking Rd files ... NOTE
checkRd: (-1) cluster.Gen.rd:82: Lost braces
    82 | Steinley, D., Henson, R. (2005), \emph{OCLUS: an analytic method for generating clusters with known overlap}, "Journal of Classification", vol. 22, 221-250. Available at: \\doi{10.1007/s00357-005-0015-6}.
       |                                                                                                                                                                                 ^
checkRd: (-1) index.DB.rd:23: Lost braces; missing escapes or markup?
    23 | \item{R}{R matrix $(S_r+S_s)/d_{rs}$}
       |                                ^
checkRd: (-1) index.GAP.rd:12: Lost braces; missing escapes or markup?
    12 | "pc" - generate the reference variables from a uniform distribution over a box aligned with the principal components of the data. In detail, if $X=\{x_{ij}\}$  is our   n x m data matrix, assume that the columns have mean 0 and compute the singular value decomposition $X=UDV^T$. We transform via $X'=XV$ and then draw uniform features Z'  over the ranges of the columns of X' , as in method a) above. Finally we back-transform via $Z=Z'V^T$   to give reference data Z 
       |                                                                                                                                                        ^
checkRd: (-1) pattern.GDM1.rd:77: Lost braces
    77 | Jajuga, K., Walesiak, M., Bak, A. (2003), \emph{On the general distance measure}, In: M. Schwaiger, O. Opitz (Eds.), Exploratory data analysis in empirical research, Springer-Verlag, Berlin, Heidelberg, 104-109. Available at: doi{10.1007/978-3-642-55721-7_12}.
       |                                                                                                                                                                                                                                      ^
* 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 ... OK
* checking examples ... [25s/33s] OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... OK
  Running ‘testthat.R’
* checking PDF version of manual ... [11s/16s] 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: 1 NOTE