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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:BioPlex.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings BioPlex_1.0.2.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/BioPlex.Rcheck'
* using R version 4.1.3 (2022-03-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'BioPlex/DESCRIPTION' ... OK
* this is package 'BioPlex' version '1.0.2'
* 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 'BioPlex' 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
getCorum: no visible binding for global variable 'Organism'
Undefined global functions or variables:
  Organism
* 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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                                   user system elapsed
ccleProteome2SummarizedExperiment 55.06   1.78   59.25
annotatePFAM                      22.32   2.69   28.11
mapSummarizedExperimentOntoGraph   7.89   1.56   12.39
bioplex2graph                      6.97   0.22    7.27
corum2graphlist                    5.50   0.86    7.03
hasSubunit                         5.61   0.45    6.18
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                                   user system elapsed
ccleProteome2SummarizedExperiment 51.45   1.54   54.12
annotatePFAM                      24.58   1.00   26.92
mapSummarizedExperimentOntoGraph   8.33   0.12    8.60
bioplex2graph                      7.76   0.03    7.84
hasSubunit                         6.19   0.10    6.39
corum2graphlist                    5.56   0.07    5.86
* 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-3.14-bioc/meat/BioPlex.Rcheck/00check.log'
for details.

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/BioPlex_1.0.2.tar.gz && rm -rf BioPlex.buildbin-libdir && mkdir BioPlex.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=BioPlex.buildbin-libdir BioPlex_1.0.2.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL BioPlex_1.0.2.zip && rm BioPlex_1.0.2.tar.gz BioPlex_1.0.2.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 20151  100 20151    0     0   170k      0 --:--:-- --:--:-- --:--:--  172k

install for i386

* installing *source* package 'BioPlex' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'BioPlex'
    finding HTML links ... done
    annotatePFAM                            html  
    finding level-2 HTML links ... done

    bioplex2graph                           html  
    ccleProteome2SummarizedExperiment       html  
    corum2graphlist                         html  
    corum2list                              html  
    getBioPlex                              html  
    getBioplexProteome                      html  
    getCorum                                html  
    getGSE122425                            html  
    hasSubunit                              html  
    mapSummarizedExperimentOntoGraph        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 'BioPlex' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'BioPlex' as BioPlex_1.0.2.zip
* DONE (BioPlex)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'BioPlex' successfully unpacked and MD5 sums checked