Package: vulcan

Version: 1.0.0

Command: rm -rf vulcan.buildbin-libdir vulcan.Rcheck && mkdir vulcan.buildbin-libdir vulcan.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=vulcan.buildbin-libdir vulcan_1.0.0.tar.gz >vulcan.Rcheck\00install.out 2>&1 && cp vulcan.Rcheck\00install.out vulcan-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=vulcan.buildbin-libdir --install="check:vulcan-install.out" --force-multiarch --no-vignettes --timings vulcan_1.0.0.tar.gz

StartedAt: 2018-04-12 03:48:55 -0400 (Thu, 12 Apr 2018)

EndedAt: 2018-04-12 03:57:42 -0400 (Thu, 12 Apr 2018)

EllapsedTime: 526.8 seconds

RetCode: 0

Status:  OK

CheckDir: vulcan.Rcheck

Warnings: 0

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### Running command:
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###   rm -rf vulcan.buildbin-libdir vulcan.Rcheck && mkdir vulcan.buildbin-libdir vulcan.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=vulcan.buildbin-libdir vulcan_1.0.0.tar.gz >vulcan.Rcheck\00install.out 2>&1 && cp vulcan.Rcheck\00install.out vulcan-install.out  &&  C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=vulcan.buildbin-libdir --install="check:vulcan-install.out" --force-multiarch --no-vignettes --timings vulcan_1.0.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.6-bioc/meat/vulcan.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 'vulcan/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'vulcan' version '1.0.0'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Depends: includes the non-default packages:
  'ChIPpeakAnno' 'TxDb.Hsapiens.UCSC.hg19.knownGene' 'zoo'
  'GenomicRanges' 'S4Vectors' 'viper' 'DiffBind' 'locfit'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
* 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 'vulcan' 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 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
average_fragment_length 9.67   0.49    28.5
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
                        user system elapsed
average_fragment_length 9.64   0.39   10.91
* 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/vulcan.Rcheck/00check.log'
for details.

install for i386

* installing *source* package 'vulcan' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'vulcan'
    finding HTML links ... done
    average_fragment_length                 html  
    corr2p                                  html  
    densityauc                              html  
    dpareto                                 html  
    fisherp                                 html  
    gsea                                    html  
    kmgformat                               html  
    null_gsea                               html  
    p2corr                                  html  
    p2z                                     html  
    pareto.fit                              html  
    plot_gsea                               html  
    ppareto                                 html  
    rea                                     html  
    slice                                   html  
    stouffer                                html  
    textplot2                               html  
    val2col                                 html  
    vulcan                                  html  
    vulcan.annotate                         html  
    vulcan.import                           html  
    vulcan.normalize                        html  
    vulcan.pathways                         html  
    wstouffer                               html  
    z2p                                     html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'vulcan' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'vulcan' as vulcan_1.0.0.zip
* DONE (vulcan)
In R CMD INSTALL
In R CMD INSTALL