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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:MBASED.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings MBASED_1.28.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/MBASED.Rcheck'
* using R version 4.1.3 (2022-03-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'MBASED/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'MBASED' version '1.28.0'
* 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 'MBASED' 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 ... NOTE
MBASEDMetaAnalysis: no visible global function definition for 'pchisq'
MBASEDMetaAnalysis: no visible global function definition for 'pnorm'
maxLogLikelihoodCalculator1s: no visible global function definition for
  'optimize'
maxLogLikelihoodCalculator2s: no visible global function definition for
  'optimize'
runMBASED: no visible global function definition for 'is'
runMBASED1s: no visible global function definition for 'is'
runMBASED2s: no visible global function definition for 'is'
vectorizedRbetabinomAB: no visible global function definition for
  'rbeta'
vectorizedRbetabinomAB: no visible global function definition for
  'rbinom'
vectorizedRbetabinomMR: no visible global function definition for
  'rbeta'
vectorizedRbetabinomMR: no visible global function definition for
  'rbinom'
Undefined global functions or variables:
  is optimize pchisq pnorm rbeta rbinom
Consider adding
  importFrom("methods", "is")
  importFrom("stats", "optimize", "pchisq", "pnorm", "rbeta", "rbinom")
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 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 'runTests.R'
 OK
** running tests for arch 'x64' ...
  Running 'runTests.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-3.14-bioc/meat/MBASED.Rcheck/00check.log'
for details.

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/MBASED_1.28.0.tar.gz && rm -rf MBASED.buildbin-libdir && mkdir MBASED.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=MBASED.buildbin-libdir MBASED_1.28.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL MBASED_1.28.0.zip && rm MBASED_1.28.0.tar.gz MBASED_1.28.0.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 75466  100 75466    0     0   478k      0 --:--:-- --:--:-- --:--:--  481k

install for i386

* installing *source* package 'MBASED' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'MBASED'
    finding HTML links ... done
    FreemanTukeyFunctions                   html  
    MBASED                                  html  
    MBASEDMetaAnalysis                      html  
    MBASEDMetaAnalysisGetMeansAndSEs        html  
    MBASEDVectorizedMetaprop                html  
    MBASEDVectorizedPropDiffTest            html  
    betaParametrizationConverters           html  
    estimateMAF1s                           html  
    estimateMAF2s                           html  
    generatingBetaBinomialCounts            html  
    getPFinal                               html  
    getSimulationPvalue                     html  
    logLikelihoodCalculator1s               html  
    logLikelihoodCalculator2s               html  
    maxLogLikelihoodCalculator1s            html  
    maxLogLikelihoodCalculator2s            html  
    runMBASED                               html  
    runMBASED1s                             html  
    runMBASED1s1aseID                       html  
    runMBASED2s                             html  
    runMBASED2s1aseID                       html  
    shiftAndAttenuateProportions            html  
    testNumericDiff                         html  
    testQuantiles                           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 'MBASED' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'MBASED' as MBASED_1.28.0.zip
* DONE (MBASED)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'MBASED' successfully unpacked and MD5 sums checked