* using log directory 'd:/Rcompile/CRANpkg/local/3.1/NMF.Rcheck' * using R version 3.1.3 (2015-03-09) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * checking for file 'NMF/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'NMF' version '0.20.6' * checking package namespace information ... OK * checking package dependencies ... NOTE Packages suggested but not available for checking: 'RcppOctave' 'doMPI' 'synchronicity' * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking whether package 'NMF' can be installed ... WARNING Found the following significant warnings: Warning: replacing previous import by 'ggplot2::arrow' when loading 'NMF' Warning: replacing previous import by 'ggplot2::unit' when loading 'NMF' See 'd:/Rcompile/CRANpkg/local/3.1/NMF.Rcheck/00install.out' for details. * 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 * loading checks for arch 'i386' ** 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 * loading checks for arch 'x64' ** 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 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 algorithm,NMFStrategyOctave : .local: no visible global function definition for 'fstop' evar,ANY : .local: no visible binding for global variable 'Biobase' nmf,matrix-numeric-NMFStrategy : .local : run.all: no visible binding for global variable 'n' nmf,matrix-numeric-NMFStrategy : .local : run.all: no visible binding for global variable 'RNGobj' rss,matrix : .local: no visible binding for global variable 'Biobase' * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... NOTE Packages unavailable to check Rd xrefs: 'RcppOctave', 'synchronicity' * 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 compiled code ... OK * checking sizes of PDF files under 'inst/doc' ... OK * checking installed files from 'inst/doc' ... OK * checking files in 'vignettes' ... OK * checking examples ... ** running examples for arch 'i386' ... [45s] OK ** running examples for arch 'x64' ... [55s] OK * checking for unstated dependencies in tests ... OK * checking tests ... ** running tests for arch 'i386' ... [1s] OK Running 'doRUnit.R' [0s] ** running tests for arch 'x64' ... [1s] OK Running 'doRUnit.R' [0s] * checking for unstated dependencies in vignettes ... OK * checking package vignettes in 'inst/doc' ... OK * checking running R code from vignettes ... [1s] OK * checking re-building of vignette outputs ... NOTE Error in re-building vignettes: ... c/amsfonts/cm/cmcsc10.pfb> Output written on NMF-vignette.pdf (37 pages, 585456 bytes). Transcript written on NMF-vignette.log. Warning: running command '"pdflatex" -interaction=nonstopmode "NMF-vignette.tex"' had status 1 Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet, : unable to run pdflatex on 'NMF-vignette.tex' Calls: buildVignettes -> texi2pdf -> texi2dvi Execution halted * checking PDF version of manual ... OK * DONE WARNING: There was 1 warning. NOTE: There were 4 notes.