* using log directory 'd:/Rcompile/CRANpkg/local/2.14/clValid.Rcheck' * using R version 2.14.2 (2012-02-29) * using platform: i386-pc-mingw32 (32-bit) * using session charset: ISO8859-1 * checking for file 'clValid/DESCRIPTION' ... OK * this is package 'clValid' version '0.6-4' * 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 whether package 'clValid' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking for portable file names ... OK * checking DESCRIPTION meta-information ... OK * checking top-level 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 ... 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 for unstated 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 ... NOTE BHI: no visible global function definition for 'biocLite' BSI: no visible global function definition for 'biocLite' * checking Rd files ... 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 ... OK * checking data for ASCII and uncompressed saves ... OK * checking sizes of PDF files under 'inst/doc' ... OK * checking examples ... OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes in 'inst/doc' ... OK * checking running R code from vignettes ... OK * checking re-building of vignette PDFs ... NOTE Error in re-building vignettes: ... Welcome to Bioconductor Vignettes contain introductory material. To view, type 'browseVignettes()'. To cite Bioconductor, see 'citation("Biobase")' and for packages 'citation("pkgname")'. Loading required package: annotate Loading required package: AnnotationDbi Loading required package: GO.db Loading required package: DBI Loading required package: moe430a.db Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, : there is no package called 'moe430a.db' Loading required package: RankAggreg Loading required package: gtools Warning: running command '"D:\compiler\texmf\miktex\bin\texi2dvi.exe" --quiet --pdf "clValid.tex" -I "D:/Rcompile/recent/R-2.14.2/share/texmf/tex/latex" -I "D:/Rcompile/recent/R-2.14.2/share/texmf/bibtex/bst"' had status 1 Error: running 'texi2dvi' on 'clValid.tex' failed LaTeX errors: !pdfTeX error: pdflatex.EXE (file d:/RCompile/CRANpkg/local/2.14/clValid.Rcheck /vign_test/clValid/inst/doc/clValid-022.pdf): PDF inclusion: required page does not exist <0> ==> Fatal error occurred, no output PDF file produced! Execution halted * checking PDF version of manual ... OK