BioC 2.12: CHECK report for MCRestimate on moscato2

Package: MCRestimate

Version: 2.16.0

Command: rm -rf MCRestimate.buildbin-libdir && mkdir MCRestimate.buildbin-libdir && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=MCRestimate.buildbin-libdir MCRestimate_2.16.0.tar.gz >MCRestimate-install.out 2>&1 && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD check --library=MCRestimate.buildbin-libdir --install="check:MCRestimate-install.out" --force-multiarch --no-vignettes --timings MCRestimate_2.16.0.tar.gz && mv MCRestimate.buildbin-libdir/* MCRestimate.Rcheck/ && rmdir MCRestimate.buildbin-libdir

StartedAt: 2013-10-09 02:56:46 -0700 (Wed, 09 Oct 2013)

EndedAt: 2013-10-09 02:59:05 -0700 (Wed, 09 Oct 2013)

EllapsedTime: 139.4 seconds

RetCode: 0

Status:  OK

CheckDir: MCRestimate.Rcheck

Warnings: 0

* using log directory 'E:/biocbld/bbs-2.12-bioc/meat/MCRestimate.Rcheck'
* using R version 3.0.1 (2013-05-16)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'MCRestimate/DESCRIPTION' ... OK
* this is package 'MCRestimate' version '2.16.0'
* 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 hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'MCRestimate' can be installed ... OK
* checking installed package size ... OK
* checking package 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
* 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 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
MCRestimate.default : my.balanced.folds: warning in
  get("balanced.folds", en = asNamespace("pamr")): partial argument
  match of 'en' to 'envir'
important.variable.names : <anonymous>: warning in median(x, na =
  TRUE): partial argument match of 'na' to 'na.rm'
important.variable.names : <anonymous>: warning in var(x, na = TRUE):
  partial argument match of 'na' to 'na.rm'
plot.MCRestimate: warning in layout(c(1, 2), height = c(5, 1)): partial
  argument match of 'height' to 'heights'
* checking Rd files ... NOTE
prepare_Rd: PLR.Rd:19: Dropping empty section \details
* 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 installed files from 'inst/doc' ... OK
* checking examples ...
** running examples for arch 'i386' ... [35s] OK
Examples with CPU or elapsed time > 5s
                         user system elapsed
ClassifierBuild          8.08   0.04    8.13
important.variable.names 7.67   0.22    7.91
wrapper.fkt              7.21   0.48    7.71
** running examples for arch 'x64' ... [35s] OK
Examples with CPU or elapsed time > 5s
                         user system elapsed
important.variable.names 8.07   0.39    8.47
wrapper.fkt              7.88   0.37    8.25
ClassifierBuild          7.58   0.00    7.59
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK

NOTE: There were 2 notes.
See
  'E:/biocbld/bbs-2.12-bioc/meat/MCRestimate.Rcheck/00check.log'
for details.

install for i386

* installing *source* package 'MCRestimate' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'MCRestimate' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'MCRestimate' as MCRestimate_2.16.0.zip
* DONE (MCRestimate)