Package: Basic4Cseq

Version: 1.18.1

Command: C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:Basic4Cseq.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings Basic4Cseq_1.18.1.tar.gz

StartedAt: 2019-04-13 00:37:53 -0400 (Sat, 13 Apr 2019)

EndedAt: 2019-04-13 00:42:56 -0400 (Sat, 13 Apr 2019)

EllapsedTime: 303.8 seconds

RetCode: 0

Status:  OK

CheckDir: Basic4Cseq.Rcheck

Warnings: 0

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### Running command:
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###   C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:Basic4Cseq.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings Basic4Cseq_1.18.1.tar.gz
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* using log directory 'C:/Users/biocbuild/bbs-3.8-bioc/meat/Basic4Cseq.Rcheck'
* using R version 3.5.3 (2019-03-11)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'Basic4Cseq/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'Basic4Cseq' version '1.18.1'
* checking package namespace information ... OK
* checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib:
  cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES'
 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 'Basic4Cseq' 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
                 user system elapsed
readsToFragments 3.97   1.27    5.28
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
                 user system elapsed
readsToFragments 4.98   1.28    6.27
* 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://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/Basic4Cseq_1.18.1.tar.gz && rm -rf Basic4Cseq.buildbin-libdir && mkdir Basic4Cseq.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=Basic4Cseq.buildbin-libdir Basic4Cseq_1.18.1.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL Basic4Cseq_1.18.1.zip && rm Basic4Cseq_1.18.1.tar.gz Basic4Cseq_1.18.1.zip
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                                 Dload  Upload   Total   Spent    Left  Speed

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100  218k  100  218k    0     0  4317k      0 --:--:-- --:--:-- --:--:-- 4647k

install for i386

* installing *source* package 'Basic4Cseq' ...
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'Basic4Cseq'
    finding HTML links ... done
    Data4Cseq-class                         html  
    Data4Cseq                               html  
    checkRestrictionEnzymeSequence          html  
    chooseNearCisFragments                  html  
    createVirtualFragmentLibrary            html  
    drawDigestionFragmentHistogram          html  
    drawHeatmap                             html  
    exportVisualizationFragmentData         html  
    getReadDistribution                     html  
    giveEnzymeSequence                      html  
    importVisualizationFragmentData         html  
    liverData                               html  
    liverDataRaw                            html  
    normalizeFragmentData                   html  
    plotTransInteractions                   html  
    prepare4CseqData                        html  
    printBEDFragmentLibrary                 html  
    printWigFile                            html  
    readPointsOfInterestFile                html  
    readsToFragments                        html  
    simulateDigestion                       html  
    visualizeViewpoint                      html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'Basic4Cseq' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'Basic4Cseq' as Basic4Cseq_1.18.1.zip
* DONE (Basic4Cseq)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.8-bioc/R/library'
package 'Basic4Cseq' successfully unpacked and MD5 sums checked
In R CMD INSTALL