Package: OmicsMarkeR

Version: 1.10.0

Command: /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings OmicsMarkeR_1.10.0.tar.gz

StartedAt: 2018-04-12 01:33:18 -0400 (Thu, 12 Apr 2018)

EndedAt: 2018-04-12 01:36:52 -0400 (Thu, 12 Apr 2018)

EllapsedTime: 214.4 seconds

RetCode: 0

Status:  OK

CheckDir: OmicsMarkeR.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings OmicsMarkeR_1.10.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.6-bioc/meat/OmicsMarkeR.Rcheck’
* using R version 3.4.4 (2018-03-15)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘OmicsMarkeR/DESCRIPTION’ ... OK
* this is package ‘OmicsMarkeR’ version ‘1.10.0’
* 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 ‘OmicsMarkeR’ 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                      user system elapsed
feature.table       12.012  0.032  12.222
perm.class          10.748  0.004  10.760
fs.stability        10.572  0.000  10.585
predictNewClasses    9.532  0.000   9.538
perm.features        9.516  0.004   9.528
performance.metrics  9.140  0.012   9.161
* 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 ‘OmicsMarkeR’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (OmicsMarkeR)

R version 3.4.4 (2018-03-15) -- "Someone to Lean On"
Copyright (C) 2018 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.

> library(testthat)
> library(OmicsMarkeR)
> 
> test_check("OmicsMarkeR")
solo last variable══ testthat results  ═══════════════════════════════════════════════════════════
OK: 100 SKIPPED: 0 FAILED: 0
> 
> proc.time()
   user  system elapsed 
 60.440   0.136  60.620 

name	user	system	elapsed
RPT	0.016	0.000	0.024
aggregation	0.004	0.000	0.005
canberra	0.004	0.000	0.001
canberra_stability	0.000	0.000	0.002
create.corr.matrix	0.024	0.004	0.025
create.discr.matrix	0.092	0.000	0.091
create.random.matrix	0.004	0.000	0.005
denovo.grid	0.012	0.000	0.009
feature.table	12.012	0.032	12.222
fit.only.model	3.580	0.000	3.581
fs.ensembl.stability	0.000	0.000	0.001
fs.stability	10.572	0.000	10.585
jaccard	0.000	0.000	0.001
kuncheva	0.000	0.000	0.001
modelList	0.004	0.000	0.002
ochiai	0.000	0.000	0.001
pairwise.model.stability	0.020	0.000	0.021
pairwise.stability	0.004	0.000	0.005
params	0.004	0.000	0.002
performance.metrics	9.140	0.012	9.161
perm.class	10.748	0.004	10.760
perm.features	9.516	0.004	9.528
pof	0.000	0.000	0.001
predictNewClasses	9.532	0.000	9.538
sorensen	0.000	0.000	0.001
spearman	0	0	0
svmrfeFeatureRanking	0.288	0.000	0.289
svmrfeFeatureRankingForMulticlass	0.132	0.000	0.134