Package: affyPara

Version: 1.16.0

Command: rm -rf affyPara.buildbin-libdir && mkdir affyPara.buildbin-libdir && E:\biocbld\bbs-2.10-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=affyPara.buildbin-libdir affyPara_1.16.0.tar.gz >affyPara-install.out 2>&1 && E:\biocbld\bbs-2.10-bioc\R\bin\R.exe CMD check --library=affyPara.buildbin-libdir --install="check:affyPara-install.out" --force-multiarch --no-vignettes --timings affyPara_1.16.0.tar.gz && mv affyPara.buildbin-libdir/* affyPara.Rcheck/ && rmdir affyPara.buildbin-libdir

StartedAt: 2012-09-23 23:31:05 -0700 (Sun, 23 Sep 2012)

EndedAt: 2012-09-23 23:32:42 -0700 (Sun, 23 Sep 2012)

EllapsedTime: 96.7 seconds

RetCode: 0

Status:  OK

CheckDir: affyPara.Rcheck

Warnings: 0

* using log directory 'E:/biocbld/bbs-2.10-bioc/meat/affyPara.Rcheck'
* using R version 2.15.1 (2012-06-22)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'affyPara/DESCRIPTION' ... OK
* this is package 'affyPara' version '1.16.0'
* 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 whether package 'affyPara' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level 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
File 'affyPara/R/zzz.R':
  .onLoad calls:
    require(affy)
    require(snow)

Package startup functions should not change the search path.
See section 'Good practice' in ?.onAttach.

MAplotPara: warning in drawMAplot(object, badQCu, meanchip, type, log,
  subset, span, pch = pch, ref.title, show.statistics, family.loess,
  verbose, ...): partial argument match of 'pch' to 'pchs'
MAplotSer: warning in drawMAplot(object, badQCu, meanchip, type, log,
  subset, span, pch = pch, ref.title, show.statistics, family.loess,
  verbose, ...): partial argument match of 'pch' to 'pchs'
grad_loglikPara: warning in get("px", env = .GlobalEnv): partial
  argument match of 'env' to 'envir'
* 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' ... NOTE
The following directories should probably not be installed:
  'fig'

Consider the use of a .Rinstignore file: see 'Writing R Extensions',
or move the vignette sources from 'inst/doc' to 'vignettes'.
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

NOTE: There were 2 notes.
See
  'E:/biocbld/bbs-2.10-bioc/meat/affyPara.Rcheck/00check.log'
for details.

install for i386

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

install for x64

* installing *source* package 'affyPara' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'affyPara' as affyPara_1.16.0.zip

* DONE (affyPara)