BioC 3.6: CHECK report for geneClassifiers on veracruz1

Package: geneClassifiers

Version: 1.1.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings geneClassifiers_1.1.0.tar.gz

StartedAt: 2017-08-16 03:26:55 -0400 (Wed, 16 Aug 2017)

EndedAt: 2017-08-16 03:27:33 -0400 (Wed, 16 Aug 2017)

EllapsedTime: 38.4 seconds

RetCode: 0

Status:  OK

CheckDir: geneClassifiers.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 geneClassifiers_1.1.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.6-bioc/meat/geneClassifiers.Rcheck’
* using R version 3.4.1 (2017-06-30)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘geneClassifiers/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘geneClassifiers’ version ‘1.1.0’
* 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 ‘geneClassifiers’ 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking R/sysdata.rda ... 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
* 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 ‘geneClassifiers’ ...
** 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 (geneClassifiers)

name	user	system	elapsed
bracket-methods	0.129	0.008	0.141
dim-methods	0.078	0.001	0.080
getBatchCorrection-methods	0.379	0.008	0.413
getCitations-methods	0.002	0.000	0.002
getClassifications-methods	0.132	0.003	0.137
getClassifier-methods	0.003	0.001	0.003
getDecisionBoundaries-methods	0.003	0.000	0.003
getDescription-methods	0.002	0.000	0.002
getEventChain-methods	0.002	0.000	0.002
getIntercept-methods	0.002	0.000	0.003
getMeans-methods	0.004	0.001	0.005
getName-methods	0.002	0.000	0.002
getNormalizationMethod-methods	0.110	0.003	0.118
getProbeNames-methods	0.002	0.001	0.002
getScores-methods	0.040	0.001	0.042
getSds-methods	0.003	0.001	0.003
getTargetValue-methods	0.015	0.001	0.016
getTrainingData-methods	0.066	0.000	0.069
getWeightingType-methods	0.036	0.000	0.037
getWeights-methods	0.003	0.001	0.005
runClassifier-methods	0.040	0.001	0.041
setNormalizationMethod-methods	0.099	0.002	0.106
showClassifierList-methods	0.038	0.001	0.039