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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:CiteFuse.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings CiteFuse_1.0.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.11-bioc/meat/CiteFuse.Rcheck'
* using R version 4.0.3 (2020-10-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'CiteFuse/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'CiteFuse' version '1.0.0'
* 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 'CiteFuse' 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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
             user system elapsed
DEgenesCross 6.42      0    6.43
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
             user system elapsed
DEgenesCross 5.72   0.04    5.77
* 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://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/CiteFuse_1.0.0.tar.gz && rm -rf CiteFuse.buildbin-libdir && mkdir CiteFuse.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=CiteFuse.buildbin-libdir CiteFuse_1.0.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL CiteFuse_1.0.0.zip && rm CiteFuse_1.0.0.tar.gz CiteFuse_1.0.0.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 1810k  100 1810k    0     0  13.3M      0 --:--:-- --:--:-- --:--:-- 14.0M

install for i386

* installing *source* package 'CiteFuse' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'CiteFuse'
    finding HTML links ... done
    CITEseq_example                         html  
    CiteFuse                                html  
    DEbubblePlot                            html  
    DEcomparisonPlot                        html  
    DEgenes                                 html  
    DEgenesCross                            html  
    crossSampleDoublets                     html  
    geneADTnetwork                          html  
    igraphClustering                        html  
    importanceADT                           html  
    ligandReceptorTest                      html  
    lr_pair_subset                          html  
    normaliseExprs                          html  
    plotHTO                                 html  
    plotHTOSingle                           html  
    preprocessing                           html  
    readFrom10X                             html  
    reducedDimSNF                           html  
    sce_control_subset                      html  
    sce_ctcl_subset                         html  
    selectDEgenes                           html  
    spectralClustering                      html  
    visImportance                           html  
    visLigandReceptor                       html  
    visualiseDim                            html  
    visualiseExprs                          html  
    visualiseExprsList                      html  
    visualiseKNN                            html  
    withinSampleDoublets                    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 'CiteFuse' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'CiteFuse' as CiteFuse_1.0.0.zip
* DONE (CiteFuse)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'CiteFuse' successfully unpacked and MD5 sums checked