* using log directory ‘/loc/home/biocbuild/bbs-2.10-data-experiment/meat/Mulder2012.Rcheck’
* using R version 2.15.1 (2012年06月22日)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Mulder2012/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘Mulder2012’ version ‘0.2.1’
* 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 ‘Mulder2012’ can be installed ... OK
* checking installed package size ... NOTE
 installed size is 24.2Mb
 sub-directories of 1Mb or more:
 data 19.9Mb
 doc 4.2Mb
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... 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
* 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
Arora2010.fig: no visible binding for global variable ‘bm_Arora2010’
Arora2010.fig: no visible binding for global variable ‘pan_Arora2010’
Arora2010.pipeline: no visible binding for global variable ‘Arora2010’
Mulder2012.PPIPre: no visible binding for global variable
 ‘PINdbProteins’
Mulder2012.PPIPre : <anonymous>: no visible binding for global variable
 ‘PINdbProteins’
Mulder2012.fig: no visible binding for global variable ‘bm_Mulder2012’
Mulder2012.fig: no visible binding for global variable ‘Mulder2012’
Mulder2012.fig: no visible binding for global variable ‘PPI’
Mulder2012.fig: no visible binding for global variable
 ‘bm_ext_Mulder2012’
Mulder2012.fig: no visible binding for global variable
 ‘pan_ext_Mulder2012’
* 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 ... 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
 ‘/loc/home/biocbuild/bbs-2.10-data-experiment/meat/Mulder2012.Rcheck/00check.log’
for details.

* installing *source* package ‘Mulder2012’ ...
** R
** data
** inst
** preparing package for lazy loading
Warning: replacing previous import ‘coerce’ when loading ‘cellHTS2’
Warning: replacing previous import ‘initialize’ when loading ‘cellHTS2’
Warning in .simpleDuplicateClass(def, prev) :
 A specification for class “numeric_Or_integer” in package ‘PANR’ seems equivalent to one from package ‘HTSanalyzeR’ and is not turning on duplicate class definitions for this class
** help
*** installing help indices
** building package indices
** installing vignettes
 ‘Mulder2012-Vignette.Rnw’ 
** testing if installed package can be loaded
Warning: replacing previous import ‘coerce’ when loading ‘cellHTS2’
Warning: replacing previous import ‘initialize’ when loading ‘cellHTS2’
Warning in .simpleDuplicateClass(def, prev) :
 A specification for class “numeric_Or_integer” in package ‘PANR’ seems equivalent to one from package ‘HTSanalyzeR’ and is not turning on duplicate class definitions for this class
* DONE (Mulder2012)