BioC 3.5: CHECK report for MCbiclust on oaxaca

Package: MCbiclust

Version: 0.99.44

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings MCbiclust_0.99.44.tar.gz

StartedAt: 2017-03-04 05:21:02 -0800 (Sat, 04 Mar 2017)

EndedAt: 2017-03-04 05:27:39 -0800 (Sat, 04 Mar 2017)

EllapsedTime: 397.4 seconds

RetCode: 0

Status:  OK

CheckDir: MCbiclust.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 MCbiclust_0.99.44.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.5-bioc/meat/MCbiclust.Rcheck’
* using R Under development (unstable) (2017-02-15 r72177)
* using platform: x86_64-apple-darwin13.4.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘MCbiclust/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘MCbiclust’ version ‘0.99.44’
* 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 ‘MCbiclust’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  8.9Mb
  sub-directories of 1Mb or more:
    data   3.1Mb
    doc    5.6Mb
* 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                        user system elapsed
SilhouetteClustGroups 34.965  0.219  53.474
CVPlot                21.206  0.220  21.429
ThresholdBic           8.644  0.146  28.190
SampleSort             7.293  0.117  22.625
CVEval                 6.810  0.149  22.513
GOEnrichmentAnalysis   6.548  0.042   6.591
PC1VecFun              6.430  0.099  21.150
* 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: 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.5-bioc/meat/MCbiclust.Rcheck/00check.log’
for details.

* installing *source* package ‘MCbiclust’ ...
** 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 (MCbiclust)

name	user	system	elapsed
CVEval	6.810	0.149	22.513
CVPlot	21.206	0.220	21.429
CorScoreCalc	3.121	0.030	3.153
FindSeed	2.961	0.041	3.004
GOEnrichmentAnalysis	6.548	0.042	6.591
HclustGenesHiCor	3.043	0.052	3.097
PC1VecFun	6.430	0.099	21.150
SampleSort	7.293	0.117	22.625
SilhouetteClustGroups	34.965	0.219	53.474
ThresholdBic	8.644	0.146	28.190