BioC 2.14: CHECK report for PhenStat on zin2

Package: PhenStat

Version: 1.2.0

Command: /home/biocbuild/bbs-2.14-bioc/R/bin/R CMD check --no-vignettes --timings PhenStat_1.2.0.tar.gz

StartedAt: 2014-10-08 01:46:07 -0700 (Wed, 08 Oct 2014)

EndedAt: 2014-10-08 01:47:09 -0700 (Wed, 08 Oct 2014)

EllapsedTime: 61.4 seconds

RetCode: 0

Status:  OK

CheckDir: PhenStat.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-2.14-bioc/R/bin/R CMD check --no-vignettes --timings PhenStat_1.2.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-2.14-bioc/meat/PhenStat.Rcheck’
* using R version 3.1.1 (2014-07-10)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘PhenStat/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘PhenStat’ version ‘1.2.0’
* 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 ‘PhenStat’ can be installed ... [3s/3s] 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [25s/25s] OK
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running ‘runTests.R’ [1s/1s]
 [1s/1s] 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

* installing *source* package ‘PhenStat’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (PhenStat)

name	user	system	elapsed
FisherExactTest	0.424	0.012	0.436
PhenList-class	0.260	0.004	0.264
PhenList	0.304	0.004	0.305
PhenTestResult-class	1.360	0.020	1.449
PhenTestResult	0.832	0.008	0.841
boxplotResidualBatch	1.120	0.004	1.125
boxplotSexGenotype	0.120	0.008	0.127
boxplotSexGenotypeBatch	0.220	0.000	0.221
categoricalBarplot	0.340	0.000	0.342
checkDataset	0.076	0.000	0.077
classificationTag	1.064	0.008	1.075
dim	0.084	0.000	0.080
finalModel	0.848	0.004	0.853
method	1.000	0.004	1.008
modelFormula	0	0	0
parserOutputSummary	1.016	0.000	1.020
plotResidualPredicted	1.020	0.004	1.028
qqplotGenotype	0.972	0.008	1.000
qqplotRandomEffects	1.060	0.004	1.064
qqplotRotatedResiduals	4.489	0.040	4.537
scatterplotGenotypeWeight	0.156	0.012	0.171
startModel	0.724	0.000	0.726
summaryOutput	1.364	0.008	1.372
testDataset	1.976	0.000	1.980
testFinalModel	1.092	0.000	1.092
vectorOutput	1.248	0.012	1.264
vectorOutputMatrices	0.324	0.000	0.325