BioC 3.5: CHECK report for funtooNorm on veracruz2

Package: funtooNorm

Version: 1.0.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings funtooNorm_1.0.0.tar.gz

StartedAt: 2017-08-16 02:58:44 -0400 (Wed, 16 Aug 2017)

EndedAt: 2017-08-16 03:05:14 -0400 (Wed, 16 Aug 2017)

EllapsedTime: 389.5 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_1.0.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.5-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 ‘1.0.0’
* 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   26.581  0.804  28.097
funtooNorm            23.086  1.294  25.036
getSnpM               21.225  1.249  22.897
getNormM              21.183  1.238  22.958
getNormBeta           19.689  1.247  21.312
fromRGChannelSet      13.889  0.991  15.268
getGRanges             7.113  0.743   8.062
getRawBeta             5.569  0.742   6.437
show-SampleSet-method  5.451  0.761   6.360
* 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	13.889	0.991	15.268
funtooNorm	23.086	1.294	25.036
getGRanges	7.113	0.743	8.062
getNormBeta	19.689	1.247	21.312
getNormM	21.183	1.238	22.958
getRawBeta	5.569	0.742	6.437
getSnpM	21.225	1.249	22.897
plotValidationGraph	26.581	0.804	28.097
show-SampleSet-method	5.451	0.761	6.360