BioC 2.12: CHECK report for flowPlots on petty

Package: flowPlots

Version: 1.8.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch flowPlots_1.8.0.tar.gz

StartedAt: 2013-10-08 22:22:25 -0700 (Tue, 08 Oct 2013)

EndedAt: 2013-10-08 22:23:43 -0700 (Tue, 08 Oct 2013)

EllapsedTime: 78.4 seconds

RetCode: 0

Status:  OK

CheckDir: flowPlots.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/flowPlots.Rcheck'
* using R version 3.0.1 (2013-05-16)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'flowPlots/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'flowPlots' version '1.8.0'
* 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 'flowPlots' can be installed ... [3s/3s] OK
* checking installed package size ... OK
* checking package 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 for unstated 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 sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ... [37s/38s] OK
Examples with CPU or elapsed time > 5s
                    user system elapsed
StackedData-class 17.021  0.135  17.344
* 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

* installing *source* package 'flowPlots' ...
** R
** data
*** moving datasets to lazyload DB
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (flowPlots)

name	user	system	elapsed
GroupListBoxplot	0.243	0.015	0.285
StackedData-class	17.021	0.135	17.344
adultsNeonates	0.007	0.001	0.008
computeMarginalData-methods	4.194	0.026	4.281
computeMarkers-methods	0.014	0.000	0.015
computePFDData-methods	3.738	0.026	3.770
computePFDGroupStatsList	0.392	0.022	0.414
computePFDPartsData-methods	4.725	0.022	4.753
computeProfileData-methods	4.651	0.032	4.729
legendPFDStatsGroupNames	0.186	0.006	0.198
makeBarplotData	0.033	0.003	0.036
makeDataList	0.090	0.002	0.092
makeTernaryData	0.184	0.006	0.190
marginalDF	0.006	0.001	0.006
marginalData-methods	0.019	0.001	0.020
markerMatrix	0.011	0.000	0.012
markers-methods	0.018	0.002	0.020
pfdDF	0.011	0.001	0.012
pfdData-methods	0.018	0.002	0.021
pfdPartsData-methods	0.021	0.002	0.023
pfdPartsList	0.008	0.000	0.008
profileDF	0.007	0.003	0.009
profileData-methods	0.011	0.003	0.013
readStackedData-methods	0.137	0.003	0.144
stackedData-methods	0.184	0.009	0.193