BioC 2.12: CHECK report for affyILM on moscato2

Package: affyILM

Version: 1.12.0

Command: rm -rf affyILM.buildbin-libdir && mkdir affyILM.buildbin-libdir && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=affyILM.buildbin-libdir affyILM_1.12.0.tar.gz >affyILM-install.out 2>&1 && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD check --library=affyILM.buildbin-libdir --install="check:affyILM-install.out" --force-multiarch --no-vignettes --timings affyILM_1.12.0.tar.gz && mv affyILM.buildbin-libdir/* affyILM.Rcheck/ && rmdir affyILM.buildbin-libdir

StartedAt: 2013-10-09 00:51:27 -0700 (Wed, 09 Oct 2013)

EndedAt: 2013-10-09 00:55:23 -0700 (Wed, 09 Oct 2013)

EllapsedTime: 235.7 seconds

RetCode: 0

Status:  OK

CheckDir: affyILM.Rcheck

Warnings: 0

* using log directory 'E:/biocbld/bbs-2.12-bioc/meat/affyILM.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 'affyILM/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'affyILM' version '1.12.0'
* 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 'affyILM' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Non-standard license specification:
  GPL version 3
Standardizable: TRUE
Standardized license specification:
  GPL-3
* 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 ... 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 installed files from 'inst/doc' ... OK
* checking examples ...
** running examples for arch 'i386' ... [43s] OK
Examples with CPU or elapsed time > 5s
             user system elapsed
ilm-methods 14.84   1.16   18.75
ilm          8.46   0.18    8.77
** running examples for arch 'x64' ... [38s] OK
Examples with CPU or elapsed time > 5s
             user system elapsed
ilm-methods 12.45   0.83   13.58
ilm          9.39   0.12    9.52
plotIntens   5.25   0.05    5.30
* 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 was 1 note.
See
  'E:/biocbld/bbs-2.12-bioc/meat/affyILM.Rcheck/00check.log'
for details.

install for i386

* installing *source* package 'affyILM' ...
** 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 'affyILM' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'affyILM' as affyILM_1.12.0.zip
* DONE (affyILM)