* using log directory ‘/loc/home/biocbuild/bbs-2.11-data-experiment/meat/encoDnaseI.Rcheck’
* using R version 2.15.3 (2013年03月01日)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘encoDnaseI/DESCRIPTION’ ... OK
* this is package ‘encoDnaseI’ version ‘0.1.15’
* 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 ‘encoDnaseI’ can be installed ... OK
* checking installed package size ... NOTE
 installed size is 5.3Mb
 sub-directories of 1Mb or more:
 data 4.7Mb
* 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 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
* 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
WRC: warning in matrix(ans, nr = 2): partial argument match of 'nr' to
 'nrow'
makeHg18track: warning in matrix(dataVals, nc = 1): partial argument
 match of 'nc' to 'ncol'
[,hg18track-ANY-ANY-ANY: warning in matrix(dataVals(x)[kpinds], nc =
 1): partial argument match of 'nc' to 'ncol'
ALICOR: no visible binding for global variable ‘rawCD4’
WRC: no visible binding for global variable ‘d19’
* 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 ... NOTE
 Error in .requirePackage(package) : 
 unable to find required package 'snpMatrix'
 Calls: <Anonymous> ... .findInheritedMethods -> getClass -> getClassDef -> .requirePackage
 Execution halted
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from ‘inst/doc’ ... NOTE
The following files should probably not be installed:
 ‘Makefile.sw’
Consider the use of a .Rinstignore file: see ‘Writing R Extensions’,
or move the vignette sources from ‘inst/doc’ to ‘vignettes’.
* checking examples ... OK
Examples with CPU or elapsed time > 5s
 user system elapsed
hg18track-class 4.836 0.432 5.352
encoDnaseI 4.988 0.080 5.079
* checking for unstated dependencies in vignettes ... NOTE
‘library’ or ‘require’ call not declared from: ‘SNPlocs.Hsapiens.dbSNP.20090506’
* 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 5 notes.
See
 ‘/loc/home/biocbuild/bbs-2.11-data-experiment/meat/encoDnaseI.Rcheck/00check.log’
for details.

* installing *source* package ‘encoDnaseI’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
 ‘dnaseUse.Rnw’ 
** testing if installed package can be loaded
* DONE (encoDnaseI)