BioC 3.5: CHECK report for roar on toluca2

Package: roar

Version: 1.11.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings roar_1.11.0.tar.gz

StartedAt: 2017-04-23 09:18:05 -0400 (Sun, 23 Apr 2017)

EndedAt: 2017-04-23 09:21:43 -0400 (Sun, 23 Apr 2017)

EllapsedTime: 218.0 seconds

RetCode: 0

Status:  OK

CheckDir: roar.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 roar_1.11.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.5-bioc/meat/roar.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 ‘roar/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘roar’ version ‘1.11.0’
* 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 ‘roar’ 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 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 sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* 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 ‘roar’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (roar)

name	user	system	elapsed
RoarDataset-class	0.003	0.001	0.004
RoarDataset-constructor	0.753	0.028	0.782
RoarDatasetFromFiles-constructor	0.000	0.000	0.001
RoarDatasetMultipleAPA-class	0.001	0.001	0.002
RoarDatasetMultipleAPA-constructor	0.895	0.011	0.907
RoarDatasetMultipleAPAFromFiles-constructor	0.001	0.000	0.000
computePairedPvals-method	1.605	0.013	1.619
computePvals-method	0.821	0.012	0.836
computeRoars-method	0.590	0.009	0.602
countPrePost-method	0.572	0.010	0.584
countResults-method	0.546	0.011	0.557
fpkmResults-method	0.610	0.009	0.619
pvalueCorrectFilter-method	0.635	0.009	0.645
pvalueFilter-method	0.588	0.010	0.599
standardFilter-method	0.622	0.014	0.644
totalResults-method	0.637	0.011	0.653