BioC 2.13: CHECK report for dualKS on moscato1

Package: dualKS

Version: 1.21.0

Command: rm -rf dualKS.buildbin-libdir && mkdir dualKS.buildbin-libdir && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=dualKS.buildbin-libdir dualKS_1.21.0.tar.gz >dualKS-install.out 2>&1 && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD check --library=dualKS.buildbin-libdir --install="check:dualKS-install.out" --force-multiarch --no-vignettes --timings dualKS_1.21.0.tar.gz && mv dualKS.buildbin-libdir/* dualKS.Rcheck/ && rmdir dualKS.buildbin-libdir

StartedAt: 2013-10-08 03:05:23 -0700 (Tue, 08 Oct 2013)

EndedAt: 2013-10-08 03:07:08 -0700 (Tue, 08 Oct 2013)

EllapsedTime: 104.7 seconds

RetCode: 0

Status: OK

CheckDir: dualKS.Rcheck

Warnings: 0

Command output

* using log directory 'D:/biocbld/bbs-2.13-bioc/meat/dualKS.Rcheck'
* using R version 3.0.2 (2013-09-25)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'dualKS/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'dualKS' version '1.21.0'
* 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 'dualKS' 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 dependencies in R code ... NOTE
Packages in Depends field not imported from:
  'Biobase' 'affy'
  These packages needs to imported from for the case when
  this namespace is loaded but not attached.
See the information on DESCRIPTION files in the chapter 'Creating R
packages' of the 'Writing R Extensions' manual.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
File 'dualKS/R/zzz.R':
  .onLoad calls:
    packageStartupMessage(paste(msg, collapse = "\n"))

See section 'Good practice' in '?.onAttach'.

dksToGeneSet : .rank: warning in rank(-x, ties = "first"): partial
  argument match of 'ties' to 'ties.method'
* 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 examples ...
** running examples for arch 'i386' ... [16s] OK
** running examples for arch 'x64' ... [18s] OK
* 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

NOTE: There were 2 notes.
See
  'D:/biocbld/bbs-2.13-bioc/meat/dualKS.Rcheck/00check.log'
for details.


install for i386

* installing *source* package 'dualKS' ...
** R
** data
** inst
** preparing package for lazy loading
Creating a generic function for 'summary' from package 'base' in package 'dualKS'
Creating a generic function for 'plot' from package 'graphics' in package 'dualKS'
** help
*** installing help indices
** building package indices
*** Deprecation warning ***: Package 'dualKS' is deprecated and will
    not be supported after Bioconductor release 2.11.
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'dualKS' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'dualKS' as dualKS_1.21.0.zip
* DONE (dualKS)

BioC 2.13: CHECK report for dualKS on moscato1

Summary

Command output