Multiple platform build/check report for BioC 3.9 - CHECK report for SynMut on tokay2

Package: SynMut

Version: 1.0.1

Command: C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:SynMut.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings SynMut_1.0.1.tar.gz

StartedAt: 2019-10-16 07:29:42 -0400 (Wed, 16 Oct 2019)

EndedAt: 2019-10-16 07:31:35 -0400 (Wed, 16 Oct 2019)

EllapsedTime: 113.1 seconds

RetCode: 0

Status: OK

CheckDir: SynMut.Rcheck

Warnings: 0

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### Running command:
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###   C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:SynMut.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings SynMut_1.0.1.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/SynMut.Rcheck'
* using R version 3.6.1 (2019-07-05)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'SynMut/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'SynMut' version '1.0.1'
* 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 'SynMut' 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 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

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/SynMut_1.0.1.tar.gz && rm -rf SynMut.buildbin-libdir && mkdir SynMut.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=SynMut.buildbin-libdir SynMut_1.0.1.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL SynMut_1.0.1.zip && rm SynMut_1.0.1.tar.gz SynMut_1.0.1.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 21173  100 21173    0     0   327k      0 --:--:-- --:--:-- --:--:--  369k

install for i386

* installing *source* package 'SynMut' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'SynMut'
    finding HTML links ... done
    codon_dist-methods                      html  
    codon_mimic-methods                     html  
    codon_random-methods                    html  
    codon_to-methods                        html  
    dinu_dist-methods                       html  
    dinu_to-methods                         html  
    get_cu-methods                          html  
    get_dna-methods                         html  
    get_du-methods                          html  
    get_freq-methods                        html  
    get_nu-methods                          html  
    get_region-methods                      html  
    get_rscu-methods                        html  
    input_seq-methods                       html  
    regioned_dna-class                      html  
    seq_random-methods                      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 'SynMut' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'SynMut' as SynMut_1.0.1.zip
* DONE (SynMut)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'SynMut' successfully unpacked and MD5 sums checked


R version 3.6.1 (2019-07-05) -- "Action of the Toes"
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(SynMut)

-------------------------------------------------------------------------------
For disccussion, please access to: https://github.com/Koohoko/SynMut/issues
-------------------------------------------------------------------------------
        
> 
> test_check("SynMut")
== testthat results  ===========================================================
[ OK: 37 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ]
> 
> proc.time()
   user  system elapsed 
   4.07    0.21    4.57


R version 3.6.1 (2019-07-05) -- "Action of the Toes"
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(SynMut)

-------------------------------------------------------------------------------
For disccussion, please access to: https://github.com/Koohoko/SynMut/issues
-------------------------------------------------------------------------------
        
> 
> test_check("SynMut")
== testthat results  ===========================================================
[ OK: 37 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ]
> 
> proc.time()
   user  system elapsed 
   5.10    0.15    5.89

name	user	system	elapsed
codon_dist-methods	0.39	0.00	0.41
codon_mimic-methods	0.13	0.00	0.13
codon_random-methods	0.13	0.00	0.13
codon_to-methods	0.17	0.02	0.18
dinu_dist-methods	0.08	0.02	0.10
dinu_to-methods	0.26	0.00	0.26
get_cu-methods	0.03	0.00	0.04
get_dna-methods	0.04	0.00	0.03
get_du-methods	0.01	0.00	0.01
get_freq-methods	0.03	0.00	0.03
get_nu-methods	0.02	0.00	0.02
get_region-methods	0.03	0.00	0.03
get_rscu-methods	0.02	0.00	0.02
input_seq-methods	0.07	0.00	0.07
seq_random-methods	0.08	0.00	0.08

name	user	system	elapsed
codon_dist-methods	0.45	0.00	0.45
codon_mimic-methods	0.10	0.00	0.09
codon_random-methods	0.06	0.01	0.08
codon_to-methods	0.11	0.02	0.13
dinu_dist-methods	0.05	0.00	0.04
dinu_to-methods	0.18	0.00	0.19
get_cu-methods	0.02	0.00	0.02
get_dna-methods	0.01	0.02	0.03
get_du-methods	0.02	0.00	0.01
get_freq-methods	0.02	0.00	0.02
get_nu-methods	0.01	0.00	0.02
get_region-methods	0.02	0.00	0.01
get_rscu-methods	0.01	0.00	0.02
input_seq-methods	0.05	0.00	0.04
seq_random-methods	0.08	0.00	0.08

CHECK report for SynMut on tokay2

Summary

Command output

Installation output

Tests output

Example timings