BioC experimental data: CHECK report for MAQCsubset on moscato1

Package: MAQCsubset

Version: 1.0.29

Command: rm -rf MAQCsubset.buildbin-libdir && mkdir MAQCsubset.buildbin-libdir && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=MAQCsubset.buildbin-libdir MAQCsubset_1.0.29.tar.gz >MAQCsubset-install.out 2>&1 && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD check --library=MAQCsubset.buildbin-libdir --install="check:MAQCsubset-install.out" --force-multiarch --no-vignettes --timings MAQCsubset_1.0.29.tar.gz && mv MAQCsubset.buildbin-libdir/* MAQCsubset.Rcheck/ && rmdir MAQCsubset.buildbin-libdir

StartedAt: 2014-04-04 12:09:20 -0700 (Fri, 04 Apr 2014)

EndedAt: 2014-04-04 12:17:53 -0700 (Fri, 04 Apr 2014)

EllapsedTime: 513.1 seconds

RetCode: 0

Status:  OK

CheckDir: MAQCsubset.Rcheck

Warnings: 0

* using log directory 'D:/biocbld/bbs-2.13-data-experiment/meat/MAQCsubset.Rcheck'
* using R version 3.0.3 (2014-03-06)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'MAQCsubset/DESCRIPTION' ... OK
* this is package 'MAQCsubset' version '1.0.29'
* 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 'MAQCsubset' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 64.4Mb
  sub-directories of 1Mb or more:
    data  64.1Mb
* 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
* 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' 'lumi' 'methods'
  These packages need to be imported from (in the NAMESPACE file)
  for 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 ... OK
* 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' ... [23s] OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
proboStruct-class 3.38      0    5.16
** running examples for arch 'x64' ... [23s] 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-data-experiment/meat/MAQCsubset.Rcheck/00check.log'
for details.

install for i386

* installing *source* package 'MAQCsubset' ...
** R
** data
** inst
** preparing package for lazy loading
Warning: replacing previous import by 'graphics::image' when loading 'methylumi'
Warning: replacing previous import by 'nleqslv::nleqslv' when loading 'lumi'
Creating a generic function for 'lines' from package 'graphics' in package 'MAQCsubset'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Warning: replacing previous import by 'graphics::image' when loading 'methylumi'
Warning: replacing previous import by 'nleqslv::nleqslv' when loading 'lumi'

install for x64

* installing *source* package 'MAQCsubset' ...
** testing if installed package can be loaded
Warning: replacing previous import by 'graphics::image' when loading 'methylumi'
Warning: replacing previous import by 'nleqslv::nleqslv' when loading 'lumi'
* MD5 sums
packaged installation of 'MAQCsubset' as MAQCsubset_1.0.29.zip
* DONE (MAQCsubset)

name	user	system	elapsed
MAQCsubset	1.25	0.03	1.28
gehMAQCsubDef	0.39	0.02	0.41
gnfCerebHi	0.02	0.00	0.02
proboStruct-class	3.38	0.00	5.16
proboscis	2.01	0.01	2.03

name	user	system	elapsed
MAQCsubset	1.31	0.03	1.34
gehMAQCsubDef	0.73	0.00	0.74
gnfCerebHi	0.01	0.00	0.02
proboStruct-class	3.64	0.02	3.66
proboscis	2.08	0.06	2.14