BioC 3.5: CHECK report for ChIPexoQual on oaxaca

Package: ChIPexoQual

Version: 0.99.14

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings ChIPexoQual_0.99.14.tar.gz

StartedAt: 2017-03-04 00:25:17 -0800 (Sat, 04 Mar 2017)

EndedAt: 2017-03-04 00:32:03 -0800 (Sat, 04 Mar 2017)

EllapsedTime: 406.5 seconds

RetCode: 0

Status:  OK

CheckDir: ChIPexoQual.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 ChIPexoQual_0.99.14.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.5-bioc/meat/ChIPexoQual.Rcheck’
* using R Under development (unstable) (2017-02-15 r72177)
* using platform: x86_64-apple-darwin13.4.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ChIPexoQual/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ChIPexoQual’ version ‘0.99.14’
* 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 ‘ChIPexoQual’ 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... 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
ExoDataSubsampling 22.921  1.438  24.566
ExoData             9.578  0.720  10.387
ARCvURCplot         5.314  0.246   5.627
* 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 ‘ChIPexoQual’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (ChIPexoQual)

name	user	system	elapsed
ARCvURCplot	5.314	0.246	5.627
ExoData	9.578	0.720	10.387
ExoDataSubsampling	22.921	1.438	24.566
FSRDistplot	3.127	0.155	3.301
MAplot	1.469	0.026	1.496
beta1-methods	0.215	0.017	0.232
beta2-methods	0.268	0.025	0.293
nreads-methods	0.229	0.022	0.251
paramDist-methods	0.266	0.022	0.288
paramDistBoxplot	0.637	0.037	0.675
regionCompplot	3.243	0.134	3.389