BioC 3.5: CHECK report for DRIMSeq on veracruz2

Package: DRIMSeq

Version: 1.4.1

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings DRIMSeq_1.4.1.tar.gz

StartedAt: 2017-10-18 02:56:41 -0400 (Wed, 18 Oct 2017)

EndedAt: 2017-10-18 03:01:37 -0400 (Wed, 18 Oct 2017)

EllapsedTime: 296.0 seconds

RetCode: 0

Status:  OK

CheckDir: DRIMSeq.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 DRIMSeq_1.4.1.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.5-bioc/meat/DRIMSeq.Rcheck’
* using R version 3.4.2 (2017-09-28)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘DRIMSeq/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘DRIMSeq’ version ‘1.4.1’
* 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 ‘DRIMSeq’ 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 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
dmSQTLtest-class 159.079  1.093 165.017
dmDStest-class    16.081  0.201  18.177
* 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 ‘DRIMSeq’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (DRIMSeq)

name	user	system	elapsed
dmDSdata-class	0.014	0.001	0.016
dmDSdata	0.012	0.000	0.012
dmDSfit-class	0.011	0.000	0.012
dmDSprecision-class	0.012	0.000	0.012
dmDStest-class	16.081	0.201	18.177
dmFilter	0.018	0.002	0.028
dmFit	0.007	0.000	0.008
dmPrecision	0.009	0.001	0.009
dmSQTLdata-class	0.008	0.000	0.008
dmSQTLdata	0.008	0.000	0.009
dmSQTLfit-class	0.010	0.001	0.010
dmSQTLprecision-class	0.007	0.000	0.008
dmSQTLtest-class	159.079	1.093	165.017
dmTest	0.006	0.000	0.006
plotData	0.012	0.001	0.013
plotPValues	0.006	0.001	0.006
plotPrecision	0.008	0.000	0.007
plotProportions	0.010	0.001	0.011