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CHECK report for GARS on tokay2

This page was generated on 2019-04-09 12:36:51 -0400 (Tue, 09 Apr 2019).

Package 597/1703HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GARS 1.3.0
Mattia Chiesa
Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019)
URL: https://git.bioconductor.org/packages/GARS
Branch: master
Last Commit: fc04a2f
Last Changed Date: 2018-10-30 11:54:39 -0400 (Tue, 30 Oct 2018)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK [ OK ] OK UNNEEDED, same version exists in internal repository
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK 

Summary

Package: GARS
Version: 1.3.0
Command: C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:GARS.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings GARS_1.3.0.tar.gz
StartedAt: 2019-04-09 02:52:02 -0400 (Tue, 09 Apr 2019)
EndedAt: 2019-04-09 02:59:57 -0400 (Tue, 09 Apr 2019)
EllapsedTime: 475.0 seconds
RetCode: 0
Status:  OK  
CheckDir: GARS.Rcheck
Warnings: 0

Command output

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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:GARS.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings GARS_1.3.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/GARS.Rcheck'
* using R Under development (unstable) (2019-03-09 r76216)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'GARS/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'GARS' version '1.3.0'
* 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 whether package 'GARS' 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
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'testthat.R'
 OK
** running tests for arch 'x64' ...
  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


Installation output

GARS.Rcheck/00install.out

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/GARS_1.3.0.tar.gz && rm -rf GARS.buildbin-libdir && mkdir GARS.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=GARS.buildbin-libdir GARS_1.3.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL GARS_1.3.0.zip && rm GARS_1.3.0.tar.gz GARS_1.3.0.zip
###
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  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100  129k  100  129k    0     0  2071k      0 --:--:-- --:--:-- --:--:-- 2362k

install for i386

* installing *source* package 'GARS' ...
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'GARS'
    finding HTML links ... done
    AllPop                                  html  
    FitScore                                html  
    GARS                                    html  
    GARS_Crossover                          html  
    GARS_Elitism                            html  
    GARS_FitFun                             html  
    GARS_Fitness_score                      html  
    GARS_GA                                 html  
    GARS_Mutation                           html  
    GARS_PlotFeaturesUsage                  html  
    GARS_PlotFitnessEvolution               html  
    GARS_Selection                          html  
    GARS_classes                            html  
    GARS_create_rnd_population              html  
    GARS_data_norm                          html  
    GARS_fit_list                           html  
    GARS_pop_list                           html  
    GARS_popul                              html  
    GARS_res_GA                             html  
    GarsSelectedFeatures-class              html  
    LastPop                                 html  
    MatrixFeatures                          html  
** 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

install for x64

* installing *source* package 'GARS' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'GARS' as GARS_1.3.0.zip
* DONE (GARS)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'GARS' successfully unpacked and MD5 sums checked

Tests output

GARS.Rcheck/tests_i386/testthat.Rout


R Under development (unstable) (2019-03-09 r76216) -- "Unsuffered Consequences"
Copyright (C) 2019 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-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(GARS)
Loading required package: ggplot2
Loading required package: cluster
> 
> test_check("GARS")
GARS found a solution after 5 iterations. 
== testthat results  ===========================================================
OK: 117 SKIPPED: 0 FAILED: 0
> 
> proc.time()
   user  system elapsed 
  15.59    1.57   16.90 

GARS.Rcheck/tests_x64/testthat.Rout


R Under development (unstable) (2019-03-09 r76216) -- "Unsuffered Consequences"
Copyright (C) 2019 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (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(GARS)
Loading required package: ggplot2
Loading required package: cluster
> 
> test_check("GARS")
GARS found a solution after 5 iterations. 
== testthat results  ===========================================================
OK: 117 SKIPPED: 0 FAILED: 0
> 
> proc.time()
   user  system elapsed 
  16.39    1.03   16.34 

Example timings

GARS.Rcheck/examples_i386/GARS-Ex.timings

nameusersystemelapsed
AllPop000
FitScore0.000.010.01
GARS_Crossover0.010.000.02
GARS_Elitism000
GARS_FitFun0.210.030.23
GARS_GA1.680.111.80
GARS_Mutation0.020.000.01
GARS_PlotFeaturesUsage0.280.020.30
GARS_PlotFitnessEvolution0.140.000.14
GARS_Selection000
GARS_create_rnd_population0.000.010.01
GarsSelectedFeatures-class000
LastPop000
MatrixFeatures0.000.020.02

GARS.Rcheck/examples_x64/GARS-Ex.timings

nameusersystemelapsed
AllPop000
FitScore0.000.020.01
GARS_Crossover0.020.000.02
GARS_Elitism0.000.010.02
GARS_FitFun0.180.030.21
GARS_GA1.220.021.24
GARS_Mutation0.020.000.01
GARS_PlotFeaturesUsage0.360.000.36
GARS_PlotFitnessEvolution0.140.000.14
GARS_Selection0.000.020.02
GARS_create_rnd_population000
GarsSelectedFeatures-class000
LastPop0.010.000.02
MatrixFeatures000