Package: miRNAmeConverter

Version: 1.6.0

Command: rm -rf miRNAmeConverter.buildbin-libdir miRNAmeConverter.Rcheck && mkdir miRNAmeConverter.buildbin-libdir miRNAmeConverter.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=miRNAmeConverter.buildbin-libdir miRNAmeConverter_1.6.0.tar.gz >miRNAmeConverter.Rcheck\00install.out 2>&1 && cp miRNAmeConverter.Rcheck\00install.out miRNAmeConverter-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=miRNAmeConverter.buildbin-libdir --install="check:miRNAmeConverter-install.out" --force-multiarch --no-vignettes --timings miRNAmeConverter_1.6.0.tar.gz

StartedAt: 2018-04-12 01:31:38 -0400 (Thu, 12 Apr 2018)

EndedAt: 2018-04-12 01:34:20 -0400 (Thu, 12 Apr 2018)

EllapsedTime: 162.2 seconds

RetCode: 0

Status:  OK

CheckDir: miRNAmeConverter.Rcheck

Warnings: 0

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### Running command:
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###   rm -rf miRNAmeConverter.buildbin-libdir miRNAmeConverter.Rcheck && mkdir miRNAmeConverter.buildbin-libdir miRNAmeConverter.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=miRNAmeConverter.buildbin-libdir miRNAmeConverter_1.6.0.tar.gz >miRNAmeConverter.Rcheck\00install.out 2>&1 && cp miRNAmeConverter.Rcheck\00install.out miRNAmeConverter-install.out  &&  C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=miRNAmeConverter.buildbin-libdir --install="check:miRNAmeConverter-install.out" --force-multiarch --no-vignettes --timings miRNAmeConverter_1.6.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.6-bioc/meat/miRNAmeConverter.Rcheck'
* using R version 3.4.4 (2018-03-15)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'miRNAmeConverter/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'miRNAmeConverter' version '1.6.0'
* 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 whether package 'miRNAmeConverter' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ...It is recommended to use 'given' instead of 'middle'.
 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
** checking loading without being on the library search path ... 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 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 ... NOTE
MiRNANameConverter,ANY: no visible global function definition for 'new'
Undefined global functions or variables:
  new
Consider adding
  importFrom("methods", "new")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
* 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
                              user system elapsed
MiRNANameConverter-ANY-method 0.06   0.25    34.6
** 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: 1 NOTE
See
  'C:/Users/biocbuild/bbs-3.6-bioc/meat/miRNAmeConverter.Rcheck/00check.log'
for details.

install for i386

* installing *source* package 'miRNAmeConverter' ...
It is recommended to use 'given' instead of 'middle'.
** R
** data
*** moving datasets to lazyload DB
** inst
** preparing package for lazy loading
Creating a generic function from function 'MiRNANameConverter' in package 'miRNAmeConverter'
** help
*** installing help indices
  converting help for package 'miRNAmeConverter'
    finding HTML links ... done
    MiRNANameConverter-ANY-method           html  
    MiRNANameConverter                      html  
    assessMiRNASwappingMIMAT                html  
    assessVersion                           html  
    checkMiRNAName                          html  
    currentVersion-set                      html  
    currentVersion                          html  
    example.miRNAs                          html  
    miRNAmeConverter                        html  
    nOrganisms-set                          html  
    nOrganisms                              html  
    nTotalEntries-set                       html  
    nTotalEntries                           html  
    saveResults                             html  
    show-MiRNANameConverter-method          html  
    translateMiRNAName                      html  
    validOrganisms-set                      html  
    validOrganisms                          html  
    validVersions-set                       html  
    validVersions                           html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'miRNAmeConverter' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'miRNAmeConverter' as miRNAmeConverter_1.6.0.zip
* DONE (miRNAmeConverter)
In R CMD INSTALL
In R CMD INSTALL

R version 3.4.4 (2018-03-15) -- "Someone to Lean On"
Copyright (C) 2018 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(miRNAmeConverter)
Loading required package: miRBaseVersions.db
> 
> test_check("miRNAmeConverter")
	miRNA 'hsa-let-7a-3p' is the same as 'hsa-let-7a*'.
	->hsa-let-7a-3p is the most recent one and will be used. The other ones will be neglected.
== testthat results  ===========================================================
OK: 11 SKIPPED: 0 FAILED: 0
> 
> proc.time()
   user  system elapsed 
   6.26    0.15    6.43 

R version 3.4.4 (2018-03-15) -- "Someone to Lean On"
Copyright (C) 2018 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(miRNAmeConverter)
Loading required package: miRBaseVersions.db
> 
> test_check("miRNAmeConverter")
	miRNA 'hsa-let-7a-3p' is the same as 'hsa-let-7a*'.
	->hsa-let-7a-3p is the most recent one and will be used. The other ones will be neglected.
== testthat results  ===========================================================
OK: 11 SKIPPED: 0 FAILED: 0
> 
> proc.time()
   user  system elapsed 
   7.26    0.21    7.45