Package: Autotuner

Version: 1.1.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:Autotuner.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings Autotuner_1.1.0.tar.gz

StartedAt: 2020-01-16 01:53:11 -0500 (Thu, 16 Jan 2020)

EndedAt: 2020-01-16 01:59:03 -0500 (Thu, 16 Jan 2020)

EllapsedTime: 352.2 seconds

RetCode: 0

Status:  OK

CheckDir: Autotuner.Rcheck

Warnings: 0

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:Autotuner.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings Autotuner_1.1.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.11-bioc/meat/Autotuner.Rcheck’
* using R Under development (unstable) (2019-12-14 r77572)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Autotuner/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘Autotuner’ version ‘1.1.0’
* package encoding: UTF-8
* 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 ‘Autotuner’ 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                  user system elapsed
createAutotuner 10.394  1.054   11.42
* 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:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL Autotuner
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library’
* installing *source* package ‘Autotuner’ ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (Autotuner)

R Under development (unstable) (2019-12-14 r77572) -- "Unsuffered Consequences"
Copyright (C) 2019 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin15.6.0 (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)
> 
> 
> test_check("Autotuner")
Loading required package: Autotuner
     ____________________________________________________________
    / __  / / / /__  __/ _   /__  __/ / / /\     / / ____/ __   / 
   / / / / / / /  / / / / / /  / / / / / /  \   / / /___/ /_/  /  
  / /_/ / / / /  / / / / / /  / / / / / / /\ \ / / ____/  _   \ 
 / __  / /_/ /  / / / /_/ /  / / / /_/ / /  \   /  /__/  / /  /
/_/ /_/_____/  /_/ /_____/  /_/ /_____/_/    \ /_____/__/ /__/   v.1.1.0
https://github.com/crmclean/autotuner

══ testthat results  ═══════════════════════════════════════════════════════════
[ OK: 69 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ]
> 
> proc.time()
   user  system elapsed 
114.137   5.275 120.631 

name	user	system	elapsed
ThresholdingAlgo	0.405	0.028	0.434
createAutotuner	10.394	1.054	11.420
getAutoFactorCol	0.006	0.001	0.007
getAutoFile_col	0.004	0.000	0.005
getAutoFile_paths	0.008	0.001	0.009
getAutoIntensity	0.007	0.001	0.008
getAutoMetadata	0.007	0.001	0.007
getAutoPeak_difference	0.006	0.000	0.007
getAutoPeak_table	0.006	0.000	0.008
getAutoPeaks	0.006	0.001	0.006
getAutoTime	0.005	0.001	0.006
isolatePeaks	0.932	0.121	1.066
plot_peaks	0.042	0.008	0.050
plot_signals	0.427	0.056	0.483
returnParams	0.011	0.001	0.014
setAutoFactorCol	0.007	0.000	0.008
setAutoFile_col	0.007	0.000	0.007
setAutoFile_paths	0.007	0.001	0.008
setAutoIntensity	0.007	0.001	0.008
setAutoMetadata	0.007	0.001	0.007
setAutoPeak_difference	0.007	0.000	0.007
setAutoPeak_table	0.007	0.001	0.008
setAutoPeaks	0.008	0.001	0.008
setAutoTime	0.007	0.001	0.007