BioC 3.2: CHECK report for trackViewer on oaxaca

Package: trackViewer

Version: 1.6.1

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings trackViewer_1.6.1.tar.gz

StartedAt: 2016-04-23 05:04:44 -0700 (Sat, 23 Apr 2016)

EndedAt: 2016-04-23 05:11:07 -0700 (Sat, 23 Apr 2016)

EllapsedTime: 383.0 seconds

RetCode: 0

Status:  OK

CheckDir: trackViewer.Rcheck

Warnings: 0

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings trackViewer_1.6.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.2-bioc/meat/trackViewer.Rcheck’
* using R version 3.2.4 (2016-03-10)
* using platform: x86_64-apple-darwin13.4.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘trackViewer/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘trackViewer’ version ‘1.6.1’
* 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 ‘trackViewer’ can be installed ... [27s/27s] 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [83s/98s] OK
Examples with CPU or elapsed time > 5s
                      user system elapsed
trackViewer-package 24.713  0.338  26.985
parseWIG            14.385  0.068  14.466
viewTracks          14.128  0.049  14.199
geneModelFromTxdb    8.034  0.709  21.019
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘runTests.R’ [15s/15s]
 [15s/15s] 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 ‘trackViewer’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (trackViewer)

name	user	system	elapsed
GRoperator	0.897	0.034	0.930
addArrowMark	0.011	0.000	0.011
addGuideLine	0.007	0.000	0.007
coverageGR	0.314	0.001	0.315
geneModelFromTxdb	8.034	0.709	21.019
getCurTrackViewport	0.003	0.000	0.003
importBam	0.389	0.003	0.478
importData	1.695	0.035	1.784
importScore	1.066	0.035	1.102
optimizeStyle	1.069	0.024	1.095
parse2GRanges	0.012	0.000	0.012
parseWIG	14.385	0.068	14.466
plotGRanges	1.497	0.005	2.086
track	0.091	0.001	0.146
trackViewer-package	24.713	0.338	26.985
trackViewerStyle	0.001	0.000	0.001
viewTracks	14.128	0.049	14.199