BioC 3.5: CHECK report for funtooNorm on malbec2

Package: funtooNorm

Version: 1.0.0

Command: /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD check --no-vignettes --timings funtooNorm_1.0.0.tar.gz

StartedAt: 2017-10-17 23:17:43 -0400 (Tue, 17 Oct 2017)

EndedAt: 2017-10-17 23:23:04 -0400 (Tue, 17 Oct 2017)

EllapsedTime: 320.3 seconds

RetCode: 0

Status:  OK

CheckDir: funtooNorm.Rcheck

Warnings: 0

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD check --no-vignettes --timings funtooNorm_1.0.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.5-bioc/meat/funtooNorm.Rcheck’
* using R version 3.4.2 (2017-09-28)
* using platform: x86_64-pc-linux-gnu (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 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 22.748  0.108  22.880
getNormBeta         16.156  0.316  16.482
funtooNorm          14.816  0.224  15.051
getNormM            14.944  0.036  14.992
getSnpM             14.588  0.056  14.651
fromRGChannelSet    13.364  0.808  15.182
getRawBeta           5.176  0.108   5.289
getGRanges           4.888  0.172   5.063
* 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	0.000	0.000	0.001
agreement	0.004	0.000	0.002
fromRGChannelSet	13.364	0.808	15.182
funtooNorm	14.816	0.224	15.051
getGRanges	4.888	0.172	5.063
getNormBeta	16.156	0.316	16.482
getNormM	14.944	0.036	14.992
getRawBeta	5.176	0.108	5.289
getSnpM	14.588	0.056	14.651
plotValidationGraph	22.748	0.108	22.880
show-SampleSet-method	4.100	0.068	4.170