Package: spkTools

Version: 1.40.0

Command: C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:spkTools.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings spkTools_1.40.0.tar.gz

StartedAt: 2019-10-16 07:18:42 -0400 (Wed, 16 Oct 2019)

EndedAt: 2019-10-16 07:23:13 -0400 (Wed, 16 Oct 2019)

EllapsedTime: 271.2 seconds

RetCode: 0

Status:  OK

CheckDir: spkTools.Rcheck

Warnings: 0

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### Running command:
###
###   C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:spkTools.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings spkTools_1.40.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/spkTools.Rcheck'
* using R version 3.6.1 (2019-07-05)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'spkTools/DESCRIPTION' ... OK
* this is package 'spkTools' version '1.40.0'
* 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 'spkTools' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Package listed in more than one of Depends, Imports, Suggests, Enhances:
  'Biobase'
A package should be listed in only one of these fields.
* 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
spkAll   60.26   0.14   60.76
spkTools 58.11   0.12   58.25
spkGNN   19.10   0.00   19.10
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
          user system elapsed
spkAll   28.59   0.06   28.82
spkTools 28.35   0.07   28.42
spkGNN    9.27   0.06    9.33
* 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-3.9-bioc/meat/spkTools.Rcheck/00check.log'
for details.

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/spkTools_1.40.0.tar.gz && rm -rf spkTools.buildbin-libdir && mkdir spkTools.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=spkTools.buildbin-libdir spkTools_1.40.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL spkTools_1.40.0.zip && rm spkTools_1.40.0.tar.gz spkTools_1.40.0.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  184k  100  184k    0     0   706k      0 --:--:-- --:--:-- --:--:--  725k

install for i386

* installing *source* package 'spkTools' ...
** using staged installation
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'spkTools'
    finding HTML links ... done
    SpikeInExpressSet-class                 html  
    affy                                    html  
    plotSpkBox                              html  
    spkAccSD                                html  
    spkAll                                  html  
    spkAnova                                html  
    spkBal                                  html  
    spkBox                                  html  
    spkDensity                              html  
    spkGNN                                  html  
    spkMA                                   html  
    spkPair                                 html  
    spkPairNS                               html  
    spkPot                                  html  
    spkQuantile                             html  
    spkSlope                                html  
    spkTools                                html  
    spkVar                                  html  
    summarySpkBox                           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 'spkTools' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'spkTools' as spkTools_1.40.0.zip
* DONE (spkTools)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'spkTools' successfully unpacked and MD5 sums checked