Package: goProfiles

Version: 1.48.0

Command: C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:goProfiles.install-out.txt --library=C:\Users\biocbuild\bbs-3.10-bioc\R\library --no-vignettes --timings goProfiles_1.48.0.tar.gz

StartedAt: 2020-04-15 03:36:57 -0400 (Wed, 15 Apr 2020)

EndedAt: 2020-04-15 03:41:11 -0400 (Wed, 15 Apr 2020)

EllapsedTime: 254.7 seconds

RetCode: 0

Status:  OK

CheckDir: goProfiles.Rcheck

Warnings: 0

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### Running command:
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###   C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:goProfiles.install-out.txt --library=C:\Users\biocbuild\bbs-3.10-bioc\R\library --no-vignettes --timings goProfiles_1.48.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.10-bioc/meat/goProfiles.Rcheck'
* using R version 3.6.3 (2020-02-29)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'goProfiles/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'goProfiles' version '1.48.0'
* 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 'goProfiles' 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 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
compareGeneLists     19.92   0.25   20.17
equivalentGOProfiles 17.19   0.27   17.56
fisherGOProfiles      5.86   0.02    5.87
plotProfiles          5.78   0.08    5.86
mergeProfilesLists    5.25   0.02    5.28
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
                      user system elapsed
compareGeneLists     19.26   0.25   19.51
equivalentGOProfiles 14.92   0.23   15.15
printProfiles         5.84   0.04    5.89
fisherGOProfiles      5.71   0.05    5.75
plotProfiles          5.49   0.08    5.58
mergeProfilesLists    5.46   0.06    5.51
* 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/3.10/bioc/src/contrib/goProfiles_1.48.0.tar.gz && rm -rf goProfiles.buildbin-libdir && mkdir goProfiles.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=goProfiles.buildbin-libdir goProfiles_1.48.0.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL goProfiles_1.48.0.zip && rm goProfiles_1.48.0.tar.gz goProfiles_1.48.0.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  290k  100  290k    0     0  8219k      0 --:--:-- --:--:-- --:--:-- 9063k

install for i386

* installing *source* package 'goProfiles' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'goProfiles'
    finding HTML links ... done
    CD4ids                                  html  
    GOTermsList                             html  
    basicProfile                            html  
    clustKidneyMF2                          html  
    compSummary                             html  
    compareGOProfiles                       html  
    compareGeneLists                        html  
    compareProfilesLists                    html  
    contractedProfile                       html  
    conversionFunctions                     html  
    drosophila                              html  
    equivClust                              html  
    equivClust2pdf                          html  
    equivSummary                            html  
    equivalentGOProfiles                    html  
    expandedLevel                           html  
    expandedProfile                         html  
    fisherGOProfiles                        html  
    fitGOProfile                            html  
    goProfiles-package                      html  
    hugoIds                                 html  
    iterEquivClust                          html  
    kidneyGeneLists                         html  
    mergeProfilesLists                      html  
    ngenes                                  html  
    omimIds                                 html  
    plotProfiles                            html  
    printProfiles                           html  
    prostateIds                             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 'goProfiles' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'goProfiles' as goProfiles_1.48.0.zip
* DONE (goProfiles)
* installing to library 'C:/Users/biocbuild/bbs-3.10-bioc/R/library'
package 'goProfiles' successfully unpacked and MD5 sums checked