• 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 ‘Sleuth2/DESCRIPTION’ ... OK
• this is package ‘Sleuth2’ version ‘2.0-7’
• 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 ‘Sleuth2’ can be installed ... [3s/3s] OK See the install log for details.
• checking installed package size ... NOTE   installed size is 5.1Mb   sub-directories of 1Mb or more:     doc 4.4Mb
• 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 ... [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 ... [1s/1s] OK
• checking Rd files ... [1s/1s] 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
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• 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 sizes of PDF files under ‘inst/doc’ ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [2s/3s] OK
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [128s/145s] WARNING Error(s) in re-building vignettes: --- re-building ‘chapter01-HortonMosaic.Rnw’ using knitr Error: processing vignette 'chapter01-HortonMosaic.Rnw' failed with diagnostics: Running 'texi2dvi' on 'chapter01-HortonMosaic.tex' failed. LaTeX errors: ! Undefined control sequence. l.174 \hldef             {> }\hlkwd{install.packages}\hldef{(}\hlsng{'mosaic'}\hldef{)} ... ? ! Emergency stop. l.174        End of file on the terminal! ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘chapter01-HortonMosaic.Rnw’ --- re-building ‘chapter02-HortonMosaic.Rnw’ using knitr Error: processing vignette 'chapter02-HortonMosaic.Rnw' failed with diagnostics: Running 'texi2dvi' on 'chapter02-HortonMosaic.tex' failed. LaTeX errors: ! Undefined control sequence. l.175 \hldef             {> }\hlkwd{install.packages}\hldef{(}\hlsng{'mosaic'}\hldef{)} ... ? ! Emergency stop. l.175        End of file on the terminal! ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘chapter02-HortonMosaic.Rnw’ --- re-building ‘chapter03-HortonMosaic.Rnw’ using knitr Error: processing vignette 'chapter03-HortonMosaic.Rnw' failed with diagnostics: Running 'texi2dvi' on 'chapter03-HortonMosaic.tex' failed. LaTeX errors: ! Undefined control sequence. l.175 \hldef             {> }\hlkwd{install.packages}\hldef{(}\hlsng{'mosaic'}\hldef{)} ... ? ! Emergency stop. l.175        End of file on the terminal! ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘chapter03-HortonMosaic.Rnw’ --- re-building ‘chapter04-HortonMosaic.Rnw’ using knitr Warning in wilcox.test.default(x = DATA[[1L]], y = DATA[[2L]], ...) :   cannot compute exact p-value with ties Warning in wilcox.test.default(x = DATA[[1L]], y = DATA[[2L]], ...) :   cannot compute exact confidence intervals with ties Warning in wilcox.test.default(x = DATA[[1L]], y = DATA[[2L]], ...) :   cannot compute exact p-value with ties Warning in wilcox.test.default(x = DATA[[1L]], y = DATA[[2L]], ...) :   cannot compute exact confidence intervals with ties Warning in wilcox.test.default(x = DATA[[1L]], y = DATA[[2L]], ...) :   cannot compute exact p-value with ties Warning in wilcox.test.default(x = DATA[[1L]], y = DATA[[2L]], ...) :   cannot compute exact confidence intervals with ties Error: processing vignette 'chapter04-HortonMosaic.Rnw' failed with diagnostics: Running 'texi2dvi' on 'chapter04-HortonMosaic.tex' failed. LaTeX errors: ! Undefined control sequence. l.175 \hldef             {> }\hlkwd{install.packages}\hldef{(}\hlsng{'mosaic'}\hldef{)} ... ? ! Emergency stop. l.175        End of file on the terminal! ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘chapter04-HortonMosaic.Rnw’ --- re-building ‘chapter05-HortonMosaic.Rnw’ using knitr Error: processing vignette 'chapter05-HortonMosaic.Rnw' failed with diagnostics: Running 'texi2dvi' on 'chapter05-HortonMosaic.tex' failed. LaTeX errors: ! Undefined control sequence. l.175 \hldef             {> }\hlkwd{install.packages}\hldef{(}\hlsng{'mosaic'}\hldef{)} ... ? ! Emergency stop. l.175        End of file on the terminal! ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘chapter05-HortonMosaic.Rnw’ --- re-building ‘chapter06-HortonMosaic.Rnw’ using knitr Error: processing vignette 'chapter06-HortonMosaic.Rnw' failed with diagnostics: Running 'texi2dvi' on 'chapter06-HortonMosaic.tex' failed. LaTeX errors: ! Undefined control sequence. l.174 \hldef             {> }\hlkwd{install.packages}\hldef{(}\hlsng{'mosaic'}\hldef{)} ... ? ! Emergency stop. l.174        End of file on the terminal! ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘chapter06-HortonMosaic.Rnw’ --- re-building ‘chapter07-HortonMosaic.Rnw’ using knitr Error: processing vignette 'chapter07-HortonMosaic.Rnw' failed with diagnostics: Running 'texi2dvi' on 'chapter07-HortonMosaic.tex' failed. LaTeX errors: ! Undefined control sequence. l.175 \hldef             {> }\hlkwd{install.packages}\hldef{(}\hlsng{'mosaic'}\hldef{)} ... ? ! Emergency stop. l.175        End of file on the terminal! ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘chapter07-HortonMosaic.Rnw’ --- re-building ‘chapter08-HortonMosaic.Rnw’ using knitr Error: processing vignette 'chapter08-HortonMosaic.Rnw' failed with diagnostics: Running 'texi2dvi' on 'chapter08-HortonMosaic.tex' failed. LaTeX errors: ! Undefined control sequence. l.176 \hldef             {> }\hlkwd{install.packages}\hldef{(}\hlsng{'mosaic'}\hldef{)} ... ? ! Emergency stop. l.176        End of file on the terminal! ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘chapter08-HortonMosaic.Rnw’ --- re-building ‘chapter09-HortonMosaic.Rnw’ using knitr Error: processing vignette 'chapter09-HortonMosaic.Rnw' failed with diagnostics: Running 'texi2dvi' on 'chapter09-HortonMosaic.tex' failed. LaTeX errors: ! Undefined control sequence. l.176 \hldef             {> }\hlkwd{install.packages}\hldef{(}\hlsng{'mosaic'}\hldef{)} ... ? ! Emergency stop. l.176        End of file on the terminal! ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘chapter09-HortonMosaic.Rnw’ --- re-building ‘chapter10-HortonMosaic.Rnw’ using knitr Error: processing vignette 'chapter10-HortonMosaic.Rnw' failed with diagnostics: Running 'texi2dvi' on 'chapter10-HortonMosaic.tex' failed. LaTeX errors: ! Undefined control sequence. l.176 \hldef             {> }\hlkwd{install.packages}\hldef{(}\hlsng{'mosaic'}\hldef{)} ... ? ! Emergency stop. l.176        End of file on the terminal! ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘chapter10-HortonMosaic.Rnw’ --- re-building ‘chapter11-HortonMosaic.Rnw’ using knitr Error: processing vignette 'chapter11-HortonMosaic.Rnw' failed with diagnostics: Running 'texi2dvi' on 'chapter11-HortonMosaic.tex' failed. LaTeX errors: ! Undefined control sequence. l.176 \hldef             {> }\hlkwd{install.packages}\hldef{(}\hlsng{'mosaic'}\hldef{)} ... ? ! Emergency stop. l.176        End of file on the terminal! ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘chapter11-HortonMosaic.Rnw’ --- re-building ‘chapter12-HortonMosaic.Rnw’ using knitr Error: processing vignette 'chapter12-HortonMosaic.Rnw' failed with diagnostics: Running 'texi2dvi' on 'chapter12-HortonMosaic.tex' failed. LaTeX errors: ! Undefined control sequence. l.172 \hldef             {> }\hlkwd{install.packages}\hldef{(}\hlsng{'mosaic'}\hldef{)} ... ? ! Emergency stop. l.172        End of file on the terminal! ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘chapter12-HortonMosaic.Rnw’ --- re-building ‘chapter13-HortonMosaic.Rnw’ using knitr Error: processing vignette 'chapter13-HortonMosaic.Rnw' failed with diagnostics: Running 'texi2dvi' on 'chapter13-HortonMosaic.tex' failed. LaTeX errors: ! Undefined control sequence. l.176 \hldef             {> }\hlkwd{install.packages}\hldef{(}\hlsng{'mosaic'}\hldef{)} ... ? ! Emergency stop. l.176        End of file on the terminal! ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘chapter13-HortonMosaic.Rnw’ SUMMARY: processing the following files failed:   ‘chapter01-HortonMosaic.Rnw’ ‘chapter02-HortonMosaic.Rnw’   ‘chapter03-HortonMosaic.Rnw’ ‘chapter04-HortonMosaic.Rnw’   ‘chapter05-HortonMosaic.Rnw’ ‘chapter06-HortonMosaic.Rnw’   ‘chapter07-HortonMosaic.Rnw’ ‘chapter08-HortonMosaic.Rnw’   ‘chapter09-HortonMosaic.Rnw’ ‘chapter10-HortonMosaic.Rnw’   ‘chapter11-HortonMosaic.Rnw’ ‘chapter12-HortonMosaic.Rnw’   ‘chapter13-HortonMosaic.Rnw’ Error: Vignette re-building failed. Execution halted
• checking PDF version of manual ... [10s/10s] OK
• DONE Status: 1 WARNING, 1 NOTE
• using check arguments '--no-clean-on-error '