############################################################################## ############################################################################## ### ### Running command: ### ### chmod a+r BiocParallel -R && F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data BiocParallel ### ############################################################################## ############################################################################## * checking for file 'BiocParallel/DESCRIPTION' ... OK * preparing 'BiocParallel': * checking DESCRIPTION meta-information ... OK * cleaning src * installing the package to build vignettes * creating vignettes ... ERROR --- re-building 'Introduction_To_BiocParallel.Rmd' using rmarkdown --- finished re-building 'Introduction_To_BiocParallel.Rmd' --- re-building 'Random_Numbers.Rmd' using rmarkdown --- finished re-building 'Random_Numbers.Rmd' --- re-building 'BiocParallel_BatchtoolsParam.Rnw' using knitr texify: major issue: User/administrator updates are out-of-sync. Warning in system(paste(shQuote(texi2dvi), if (quiet) "--quiet" else "", : running command '"C:\PROGRA~1\MiKTeX\miktex\bin\x64\texify.exe" --quiet --pdf "BiocParallel_BatchtoolsParam.tex" --max-iterations=20 -I "F:/biocbuild/bbs-3.20-bioc/R/share/texmf/tex/latex" -I "F:/biocbuild/bbs-3.20-bioc/R/share/texmf/bibtex/bst"' had status 1 Error: processing vignette 'BiocParallel_BatchtoolsParam.Rnw' failed with diagnostics: running 'texi2dvi' on 'BiocParallel_BatchtoolsParam.tex' failed LaTeX errors: gnettes/BiocParallel_BatchtoolsParam.tex:78: Package xcolor Error: Undefined co lor `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/BiocParallel_BatchtoolsParam.tex:160: Package xcolor Error: Undefined c olor `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/BiocParallel_BatchtoolsParam.tex:232: Package xcolor Error: Undefined c olor `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/BiocParallel_BatchtoolsParam.tex:336: Package xcolor Error: Undefined c olor `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/BiocParallel_BatchtoolsParam.tex:362: Package xcolor Error: Undefined c olor `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. --- failed re-building 'BiocParallel_BatchtoolsParam.Rnw' --- re-building 'Errors_Logs_And_Debugging.Rnw' using knitr texify: major issue: User/administrator updates are out-of-sync. Warning in system(paste(shQuote(texi2dvi), if (quiet) "--quiet" else "", : running command '"C:\PROGRA~1\MiKTeX\miktex\bin\x64\texify.exe" --quiet --pdf "Errors_Logs_And_Debugging.tex" --max-iterations=20 -I "F:/biocbuild/bbs-3.20-bioc/R/share/texmf/tex/latex" -I "F:/biocbuild/bbs-3.20-bioc/R/share/texmf/bibtex/bst"' had status 1 Error: processing vignette 'Errors_Logs_And_Debugging.Rnw' failed with diagnostics: running 'texi2dvi' on 'Errors_Logs_And_Debugging.tex' failed LaTeX errors: gnettes/Errors_Logs_And_Debugging.tex:79: Package xcolor Error: Undefined color `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:91: Package xcolor Error: Undefined color `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:110: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:123: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:150: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:173: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:201: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:216: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:264: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:316: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:355: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:369: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:415: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:426: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:441: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:473: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:501: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:513: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:558: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:580: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:612: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:632: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:654: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:676: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:752: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:774: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:826: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:925: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:944: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:952: Package xcolor Error: Undefined colo r `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:1037: Package xcolor Error: Undefined col or `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. gnettes/Errors_Logs_And_Debugging.tex:1063: Package xcolor Error: Undefined col or `fgcolor'. See the xcolor package documentation for explanation. Type H for immediate help. --- failed re-building 'Errors_Logs_And_Debugging.Rnw' SUMMARY: processing the following files failed: 'BiocParallel_BatchtoolsParam.Rnw' 'Errors_Logs_And_Debugging.Rnw' Error: Vignette re-building failed. Execution halted