BioC 3.0: CHECK report for flowPlots on zin1

Package: flowPlots

Version: 1.14.0

Command: /home/biocbuild/bbs-3.0-bioc/R/bin/R CMD check --no-vignettes --timings flowPlots_1.14.0.tar.gz

StartedAt: 2015-04-09 23:55:25 -0700 (Thu, 09 Apr 2015)

EndedAt: 2015-04-09 23:55:56 -0700 (Thu, 09 Apr 2015)

EllapsedTime: 31.6 seconds

RetCode: 0

Status:  OK

CheckDir: flowPlots.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.0-bioc/R/bin/R CMD check --no-vignettes --timings flowPlots_1.14.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.0-bioc/meat/flowPlots.Rcheck’
* using R version 3.1.3 (2015-03-09)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘flowPlots/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘flowPlots’ version ‘1.14.0’
* 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 ... [1s/1s] 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 ... NOTE
Package in Depends field not imported from: ‘methods’
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
* 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 ... [15s/15s] OK
Examples with CPU or elapsed time > 5s
                   user system elapsed
StackedData-class 6.876  0.028   7.177
* 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

NOTE: There was 1 note.
See
  ‘/home/biocbuild/bbs-3.0-bioc/meat/flowPlots.Rcheck/00check.log’
for details.

* 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	0.132	0.004	0.135
StackedData-class	6.876	0.028	7.177
adultsNeonates	0.000	0.000	0.001
computeMarginalData-methods	1.596	0.000	1.596
computeMarkers-methods	0.000	0.000	0.001
computePFDData-methods	1.436	0.000	1.438
computePFDGroupStatsList	0.188	0.008	0.468
computePFDPartsData-methods	1.944	0.004	1.953
computeProfileData-methods	1.756	0.000	1.760
legendPFDStatsGroupNames	0.068	0.000	0.067
makeBarplotData	0.012	0.000	0.012
makeDataList	0.036	0.004	0.042
makeTernaryData	0.064	0.004	0.068
marginalDF	0.000	0.000	0.001
marginalData-methods	0.004	0.000	0.002
markerMatrix	0.000	0.000	0.002
markers-methods	0.000	0.000	0.001
pfdDF	0.004	0.000	0.002
pfdData-methods	0.000	0.000	0.002
pfdPartsData-methods	0.000	0.000	0.002
pfdPartsList	0.000	0.000	0.002
profileDF	0.000	0.000	0.001
profileData-methods	0.000	0.000	0.002
readStackedData-methods	0.040	0.000	0.037
stackedData-methods	0.052	0.000	0.052