BioC 3.6: CHECK report for funtooNorm on veracruz1

Package: funtooNorm

Version: 1.1.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings funtooNorm_1.1.0.tar.gz

StartedAt: 2017-08-16 03:14:56 -0400 (Wed, 16 Aug 2017)

EndedAt: 2017-08-16 03:21:17 -0400 (Wed, 16 Aug 2017)

EllapsedTime: 381.1 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_1.1.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.6-bioc/meat/funtooNorm.Rcheck’
* using R version 3.4.1 (2017-06-30)
* using platform: x86_64-apple-darwin15.6.0 (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 ‘1.1.0’
* 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 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   25.250  0.738  26.679
funtooNorm            23.671  1.341  25.708
getNormBeta           22.067  1.259  23.963
getNormM              19.234  1.224  20.937
getSnpM               18.400  1.198  19.999
fromRGChannelSet      13.176  0.952  14.535
getGRanges             6.656  0.696   7.567
getRawBeta             6.009  0.690   6.800
show-SampleSet-method  4.808  0.625   5.584
* 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	0.000	0.002
agreement	0.002	0.001	0.002
fromRGChannelSet	13.176	0.952	14.535
funtooNorm	23.671	1.341	25.708
getGRanges	6.656	0.696	7.567
getNormBeta	22.067	1.259	23.963
getNormM	19.234	1.224	20.937
getRawBeta	6.009	0.690	6.800
getSnpM	18.400	1.198	19.999
plotValidationGraph	25.250	0.738	26.679
show-SampleSet-method	4.808	0.625	5.584