BioC 3.5: CHECK report for funtooNorm on toluca2

Package: funtooNorm

Version: 0.99.11

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings funtooNorm_0.99.11.tar.gz

StartedAt: 2017-04-23 04:03:07 -0400 (Sun, 23 Apr 2017)

EndedAt: 2017-04-23 04:10:19 -0400 (Sun, 23 Apr 2017)

EllapsedTime: 432.7 seconds

RetCode: 0

Status:  OK

CheckDir: funtooNorm.Rcheck

Warnings: 0

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings funtooNorm_0.99.11.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.5-bioc/meat/funtooNorm.Rcheck’
* using R Under development (unstable) (2017-02-15 r72187)
* using platform: x86_64-apple-darwin13.4.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘funtooNorm/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘funtooNorm’ version ‘0.99.11’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘funtooNorm’ can be installed ... OK
* checking installed package size ... OK
* 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
* 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 loading without being on the library search path ... OK
* checking 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 R/sysdata.rda ... OK
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                        user system elapsed
plotValidationGraph   32.410  0.962  33.835
getNormBeta           24.746  1.492  26.463
funtooNorm            24.060  1.352  25.636
getSnpM               23.091  1.367  24.949
getNormM              22.205  1.431  23.908
fromRGChannelSet      13.865  1.069  15.047
getGRanges             6.679  0.878   7.657
getRawBeta             5.888  0.879   6.818
show-SampleSet-method  4.681  0.752   5.491
* 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
* DONE

Status: OK

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

name	user	system	elapsed
SampleSet-class	0.002	0.001	0.002
agreement	0.002	0.000	0.002
fromRGChannelSet	13.865	1.069	15.047
funtooNorm	24.060	1.352	25.636
getGRanges	6.679	0.878	7.657
getNormBeta	24.746	1.492	26.463
getNormM	22.205	1.431	23.908
getRawBeta	5.888	0.879	6.818
getSnpM	23.091	1.367	24.949
plotValidationGraph	32.410	0.962	33.835
show-SampleSet-method	4.681	0.752	5.491