Package: MCbiclust

Version: 1.6.1

Command: /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD check --install=check:MCbiclust.install-out.txt --library=/home/biocbuild/bbs-3.8-bioc/R/library --no-vignettes --timings MCbiclust_1.6.1.tar.gz

StartedAt: 2019-04-16 01:10:44 -0400 (Tue, 16 Apr 2019)

EndedAt: 2019-04-16 01:16:58 -0400 (Tue, 16 Apr 2019)

EllapsedTime: 374.8 seconds

RetCode: 0

Status:  OK

CheckDir: MCbiclust.Rcheck

Warnings: 0

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD check --install=check:MCbiclust.install-out.txt --library=/home/biocbuild/bbs-3.8-bioc/R/library --no-vignettes --timings MCbiclust_1.6.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.8-bioc/meat/MCbiclust.Rcheck’
* using R version 3.5.3 (2019-03-11)
* using platform: x86_64-pc-linux-gnu (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 ‘1.6.1’
* 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 ... 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 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                        user system elapsed
SilhouetteClustGroups 47.980  0.468  48.752
CVPlot                28.172  0.104  28.422
SampleSort            12.564  0.392  13.393
PointScoreCalc        12.600  0.316  13.354
CVEval                12.500  0.196  13.096
PC1VecFun             11.172  0.432  12.022
ThresholdBic          11.108  0.144  11.579
GOEnrichmentAnalysis   7.428  0.044   7.481
FindSeed               5.360  0.044   5.409
HclustGenesHiCor       5.348  0.016   5.368
CorScoreCalc           4.956  0.044   5.003
* 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

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD INSTALL MCbiclust
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.8-bioc/R/library’
* installing *source* package ‘MCbiclust’ ...
** R
** data
*** moving datasets to lazyload DB
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (MCbiclust)

R version 3.5.3 (2019-03-11) -- "Great Truth"
Copyright (C) 2019 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> Sys.setenv("R_TESTS" = "")
> 
> library(testthat)
> library(MCbiclust)


> 
> test_check("MCbiclust")
══ testthat results  ═══════════════════════════════════════════════════════════
OK: 23 SKIPPED: 0 FAILED: 0
> 
> proc.time()
   user  system elapsed 
 91.380   0.464  92.358 

name	user	system	elapsed
CVEval	12.500	0.196	13.096
CVPlot	28.172	0.104	28.422
CorScoreCalc	4.956	0.044	5.003
FindSeed	5.360	0.044	5.409
GOEnrichmentAnalysis	7.428	0.044	7.481
HclustGenesHiCor	5.348	0.016	5.368
PC1VecFun	11.172	0.432	12.022
PointScoreCalc	12.600	0.316	13.354
SampleSort	12.564	0.392	13.393
SilhouetteClustGroups	47.980	0.468	48.752
ThresholdBic	11.108	0.144	11.579