Package: arrayMvout

Version: 1.36.0

Command: rm -rf arrayMvout.buildbin-libdir arrayMvout.Rcheck && mkdir arrayMvout.buildbin-libdir arrayMvout.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=arrayMvout.buildbin-libdir arrayMvout_1.36.0.tar.gz >arrayMvout.Rcheck\00install.out 2>&1 && cp arrayMvout.Rcheck\00install.out arrayMvout-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=arrayMvout.buildbin-libdir --install="check:arrayMvout-install.out" --force-multiarch --no-vignettes --timings arrayMvout_1.36.0.tar.gz

StartedAt: 2018-04-11 22:14:23 -0400 (Wed, 11 Apr 2018)

EndedAt: 2018-04-11 22:21:39 -0400 (Wed, 11 Apr 2018)

EllapsedTime: 436.2 seconds

RetCode: 0

Status:  OK

CheckDir: arrayMvout.Rcheck

Warnings: 0

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### Running command:
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###   rm -rf arrayMvout.buildbin-libdir arrayMvout.Rcheck && mkdir arrayMvout.buildbin-libdir arrayMvout.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=arrayMvout.buildbin-libdir arrayMvout_1.36.0.tar.gz >arrayMvout.Rcheck\00install.out 2>&1 && cp arrayMvout.Rcheck\00install.out arrayMvout-install.out  &&  C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=arrayMvout.buildbin-libdir --install="check:arrayMvout-install.out" --force-multiarch --no-vignettes --timings arrayMvout_1.36.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.6-bioc/meat/arrayMvout.Rcheck'
* using R version 3.4.4 (2018-03-15)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'arrayMvout/DESCRIPTION' ... OK
* this is package 'arrayMvout' version '1.36.0'
* 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 'arrayMvout' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* 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 ... NOTE
Packages in Depends field not imported from:
  'Biobase' 'affy' 'lumi' 'methods' 'parody'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
.affyArrayOutliers: no visible global function definition for
  'sampleNames'
.affyArrayOutliers: no visible global function definition for 'fitPLM'
.affyArrayOutliers: no visible global function definition for 'boxplot'
.affyArrayOutliers: no visible global function definition for 'Mbox'
.affyArrayOutliers: no visible global function definition for
  'AffyRNAdeg'
.affyArrayOutliers: no visible global function definition for 'prcomp'
.affyArrayOutliers : <anonymous>: no visible global function definition
  for 'mv.calout.detect'
.affyArrayOutliers: no visible global function definition for
  'mv.calout.detect'
.lumiArrayOutliers: no visible global function definition for 'lumiQ'
.lumiArrayOutliers: no visible global function definition for 'prcomp'
.lumiArrayOutliers: no visible global function definition for
  'mv.calout.detect'
.lumiArrayOutliers : <anonymous>: no visible global function definition
  for 'mv.calout.detect'
ArrayOutliers,data.frame-numeric-ANY: no visible global function
  definition for 'prcomp'
ArrayOutliers,data.frame-numeric-ANY: no visible global function
  definition for 'mv.calout.detect'
ArrayOutliers,data.frame-numeric-ANY : <anonymous>: no visible global
  function definition for 'mv.calout.detect'
plot,arrOutStruct-ANY: no visible global function definition for
  'biplot'
plot,arrOutStruct-ANY: no visible global function definition for
  'prcomp'
Undefined global functions or variables:
  AffyRNAdeg Mbox biplot boxplot fitPLM lumiQ mv.calout.detect prcomp
  sampleNames
Consider adding
  importFrom("graphics", "boxplot")
  importFrom("stats", "biplot", "prcomp")
to your NAMESPACE file.
* 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
                       user system elapsed
ArrayOutliers-methods 24.77   0.61   27.75
ArrayOutliers         19.39   0.23   19.62
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
                       user system elapsed
ArrayOutliers-methods 21.77   0.26   22.03
ArrayOutliers         18.25   0.19   18.44
* 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 vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 3 NOTEs
See
  'C:/Users/biocbuild/bbs-3.6-bioc/meat/arrayMvout.Rcheck/00check.log'
for details.

install for i386

* installing *source* package 'arrayMvout' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'arrayMvout'
    finding HTML links ... done
    ArrayOutliers-methods                   html  
    ArrayOutliers                           html  
    arrOutStruct-class                      html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'arrayMvout' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'arrayMvout' as arrayMvout_1.36.0.zip
* DONE (arrayMvout)
In R CMD INSTALL
In R CMD INSTALL