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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:spicyR.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings spicyR_1.4.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/spicyR.Rcheck'
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'spicyR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'spicyR' version '1.4.0'
* package encoding: UTF-8
* 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 'spicyR' 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 ... NOTE
inhomL: no visible binding for global variable 'j'
inhomL: no visible binding for global variable 'value'
inhomL: no visible binding for global variable 'i'
inhomL: no visible binding for global variable 'd'
inhomL: no visible binding for global variable 'cellTypeI'
inhomL: no visible binding for global variable 'cellTypeJ'
inhomL: no visible global function definition for '.'
inhomL: no visible binding for global variable 'wt'
inhomLPair: no visible binding for global variable 'i'
Undefined global functions or variables:
  . cellTypeI cellTypeJ d i j value wt
* 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 (user + system) or elapsed time > 5s
              user system elapsed
getPairwise 187.24   4.57  190.72
spicy        16.88   0.08   16.95
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
              user system elapsed
getPairwise 222.15   4.84  226.17
spicy        20.88   0.15   21.03
* 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-3.13-bioc/meat/spicyR.Rcheck/00check.log'
for details.

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/spicyR_1.4.0.tar.gz && rm -rf spicyR.buildbin-libdir && mkdir spicyR.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=spicyR.buildbin-libdir spicyR_1.4.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL spicyR_1.4.0.zip && rm spicyR_1.4.0.tar.gz spicyR_1.4.0.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
 12 1645k   12  204k    0     0   774k      0  0:00:02 --:--:--  0:00:02  776k
100 1645k  100 1645k    0     0  1520k      0  0:00:01  0:00:01 --:--:-- 1521k

install for i386

* installing *source* package 'spicyR' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'spicyR'
    finding HTML links ... done
    Accessors                               html  
    SegmentedCells                          html  
    as.data.frame.SegmentedCells            html  
    diabetesData                            html  
    getPairwise                             html  
    plot-SegmentedCells                     html  
    show-SegmentedCells                     html  
    signifPlot                              html  
    spicy                                   html  
    spicyTest                               html  
    spicyTestBootstrap                      html  
    topPairs                                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 'spicyR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'spicyR' as spicyR_1.4.0.zip
* DONE (spicyR)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'spicyR' successfully unpacked and MD5 sums checked