Package: RVS

Version: 1.0.0

Command: rm -rf RVS.buildbin-libdir RVS.Rcheck && mkdir RVS.buildbin-libdir RVS.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=RVS.buildbin-libdir RVS_1.0.0.tar.gz >RVS.Rcheck\00install.out 2>&1 && cp RVS.Rcheck\00install.out RVS-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=RVS.buildbin-libdir --install="check:RVS-install.out" --force-multiarch --no-vignettes --timings RVS_1.0.0.tar.gz

StartedAt: 2018-04-12 02:57:09 -0400 (Thu, 12 Apr 2018)

EndedAt: 2018-04-12 03:00:42 -0400 (Thu, 12 Apr 2018)

EllapsedTime: 213.3 seconds

RetCode: 0

Status:  OK

CheckDir: RVS.Rcheck

Warnings: 0

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### Running command:
###
###   rm -rf RVS.buildbin-libdir RVS.Rcheck && mkdir RVS.buildbin-libdir RVS.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=RVS.buildbin-libdir RVS_1.0.0.tar.gz >RVS.Rcheck\00install.out 2>&1 && cp RVS.Rcheck\00install.out RVS-install.out  &&  C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=RVS.buildbin-libdir --install="check:RVS-install.out" --force-multiarch --no-vignettes --timings RVS_1.0.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.6-bioc/meat/RVS.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 'RVS/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'RVS' version '1.0.0'
* 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 'RVS' 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
** 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 ... 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 installed files from 'inst/doc' ... 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 ... NOTE
'library' or 'require' call not declared from: 'VariantAnnotation'
* 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/RVS.Rcheck/00check.log'
for details.

install for i386

* installing *source* package 'RVS' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'RVS'
    finding HTML links ... done
    ComputeKinshipPropCoef-methods          html  
    GeneDrop                                html  
    RVS                                     html  
    RVgene                                  html  
    RVsharing-methods                       html  
    SnpMatrixToCount                        html  
    ancestorDistance                        html  
    areMating                               html  
    checkArgs                               html  
    computePFU                              html  
    computePhiVec                           html  
    createNetwork                           html  
    denomProb                               html  
    ex.ped.mat                              html  
    exactSharingProb                        html  
    extract_carriers                        html  
    fam15157.vcf                            html  
    fam28003.vcf                            html  
    get.psubset                             html  
    inferNumAlleles                         html  
    inferTheta                              html  
    isDescendant                            html  
    marginalProb                            html  
    monteCarloSharingProb                   html  
    multipleFamilyPValue                    html  
    numerProb                               html  
    oldArgs                                 html  
    oneFounderSharingProb                   html  
    ped2trio                                html  
    processPedigree-methods                 html  
    relatedFoundersCorrection               html  
    runMonteCarlo                           html  
    samplePedigrees                         html  
    simulatePedigree                        html  
    snpMat                                  html  
    twoFounderSharingProb                   html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'RVS' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'RVS' as RVS_1.0.0.zip
* DONE (RVS)
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(RVS)
> 
> test_check('RVS')
== testthat results  ===========================================================
OK: 110 SKIPPED: 0 FAILED: 0
> 
> proc.time()
   user  system elapsed 
  39.96    0.21   40.31 

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(RVS)
> 
> test_check('RVS')
== testthat results  ===========================================================
OK: 110 SKIPPED: 0 FAILED: 0
> 
> proc.time()
   user  system elapsed 
  47.82    0.20   48.06