• using R version 4.3.0 beta (2023-04-08 r84203)
  • using platform: x86_64-apple-darwin20 (64-bit)
  • R was compiled by
        Apple clang version 14.0.3 (clang-1403.0.22.14.1)
        GNU Fortran (GCC) 12.2.0
  • running under: macOS Ventura 13.3
  • using session charset: UTF-8
  • checking for file ‘clValid/DESCRIPTION’ ... OK
  • this is package ‘clValid’ version ‘0.7’
  • checking package namespace information ... OK
  • checking package dependencies ... NOTE
    Package suggested but not available for checking: ‘moe430a.db’
  • 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 ‘clValid’ can be installed ... [3s/3s] OK
  • checking installed package size ... OK
  • 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 R files for non-ASCII characters ... OK
  • checking R files for syntax errors ... OK
  • checking whether the package can be loaded ... [0s/0s] OK
  • checking whether the package can be loaded with stated dependencies ... [0s/0s] OK
  • checking whether the package can be unloaded cleanly ... [0s/0s] OK
  • checking whether the namespace can be loaded with stated dependencies ... [0s/0s] OK
  • checking whether the namespace can be unloaded cleanly ... [0s/0s] OK
  • checking loading without being on the library search path ... [0s/0s] 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 ... [3s/3s] OK
  • checking Rd files ... [0s/0s] OK
  • 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 data for ASCII and uncompressed saves ... OK
  • checking sizes of PDF files under ‘inst/doc’ ... OK
  • checking installed files from ‘inst/doc’ ... OK
  • checking files in ‘vignettes’ ... OK
  • checking examples ... [6s/7s] OK
  • checking for unstated dependencies in vignettes ... OK
  • checking package vignettes in ‘inst/doc’ ... OK
  • checking running R code from vignettes ... [7s/9s] OK
      ‘clValid.Rnw’... [7s/9s] OK
  • checking re-building of vignette outputs ... [15s/17s] NOTE
    Error(s) in re-building vignettes:
    --- re-building ‘clValid.Rnw’ using Sweave
    Loading required package: cluster
    Read 7 items

    Attaching package: ‘BiocGenerics’

    The following objects are masked from ‘package:stats’:

        IQR, mad, sd, var, xtabs

    The following objects are masked from ‘package:base’:

        Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append,
        as.data.frame, basename, cbind, colnames, dirname, do.call,
        duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
        lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
        pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
        tapply, union, unique, unsplit, which.max, which.min

    Welcome to Bioconductor

        Vignettes contain introductory material; view with
        'browseVignettes()'. To cite Bioconductor, see
        'citation("Biobase")', and for packages 'citation("pkgname")'.


    Attaching package: ‘S4Vectors’

    The following object is masked from ‘package:utils’:

        findMatches

    The following objects are masked from ‘package:base’:

        I, expand.grid, unname

    Warning: replacing previous import ‘utils::findMatches’ by ‘S4Vectors::findMatches’ when loading ‘AnnotationDbi’

    Loading required package: RankAggreg
    Error: processing vignette 'clValid.Rnw' failed with diagnostics:
    Running 'texi2dvi' on 'clValid.tex' failed.
    LaTeX errors:
    ! LaTeX Error: File `relsize.sty' not found.

    Type X to quit or <RETURN> to proceed,
    or enter new name. (Default extension: sty)

    ! Emergency stop.
    <read *>
             
    l.28 \usepackage
                    [mathcal]{euscript}^^M
    ! ==> Fatal error occurred, no output PDF file produced!
    --- failed re-building ‘clValid.Rnw’

    SUMMARY: processing the following file failed:
      ‘clValid.Rnw’

    Error: Vignette re-building failed.
    Execution halted
  • checking PDF version of manual ... [4s/5s] OK
  • DONE
    Status: 2 NOTEs
  • using check arguments '--no-clean-on-error '