Package: MADSEQ

Version: 1.4.1

Command: rm -rf MADSEQ.buildbin-libdir MADSEQ.Rcheck && mkdir MADSEQ.buildbin-libdir MADSEQ.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=MADSEQ.buildbin-libdir MADSEQ_1.4.1.tar.gz >MADSEQ.Rcheck\00install.out 2>&1 && cp MADSEQ.Rcheck\00install.out MADSEQ-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=MADSEQ.buildbin-libdir --install="check:MADSEQ-install.out" --force-multiarch --no-vignettes --timings MADSEQ_1.4.1.tar.gz

StartedAt: 2018-04-12 01:05:53 -0400 (Thu, 12 Apr 2018)

EndedAt: 2018-04-12 01:12:45 -0400 (Thu, 12 Apr 2018)

EllapsedTime: 412.3 seconds

RetCode: 0

Status:  OK

CheckDir: MADSEQ.Rcheck

Warnings: 0

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### Running command:
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###   rm -rf MADSEQ.buildbin-libdir MADSEQ.Rcheck && mkdir MADSEQ.buildbin-libdir MADSEQ.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=MADSEQ.buildbin-libdir MADSEQ_1.4.1.tar.gz >MADSEQ.Rcheck\00install.out 2>&1 && cp MADSEQ.Rcheck\00install.out MADSEQ-install.out  &&  C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=MADSEQ.buildbin-libdir --install="check:MADSEQ-install.out" --force-multiarch --no-vignettes --timings MADSEQ_1.4.1.tar.gz
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* using log directory 'C:/Users/biocbuild/bbs-3.6-bioc/meat/MADSEQ.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 'MADSEQ/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'MADSEQ' version '1.4.1'
* 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 'MADSEQ' 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
Examples with CPU or elapsed time > 5s
                   user system elapsed
runMadSeq         15.06   0.15   16.17
normalizeCoverage 11.68   0.70   12.42
prepareHetero     10.63   0.06   10.69
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
                   user system elapsed
normalizeCoverage 13.86   0.68   14.53
prepareHetero     13.01   0.78   13.80
runMadSeq         12.43   0.14   13.14
* 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

install for i386

* installing *source* package 'MADSEQ' ...
** R
** data
*** moving datasets to lazyload DB
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'MADSEQ'
    finding HTML links ... done
    MADSEQ-package                          html  
    MadSeq                                  html  
    aneuploidy_chr18                        html  
    deltaBIC                                html  
    normalizeCoverage                       html  
    finding level-2 HTML links ... done

    plotFraction                            html  
    plotMadSeq                              html  
    plotMixture                             html  
    posterior                               html  
    prepareCoverageGC                       html  
    prepareHetero                           html  
    runMadSeq                               html  
    summary-method                          html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'MADSEQ' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'MADSEQ' as MADSEQ_1.4.1.zip
* DONE (MADSEQ)
In R CMD INSTALL
In R CMD INSTALL