Package: CellScore

Version: 1.2.0

Command: C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:CellScore.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings CellScore_1.2.0.tar.gz

StartedAt: 2019-04-13 01:05:03 -0400 (Sat, 13 Apr 2019)

EndedAt: 2019-04-13 01:14:36 -0400 (Sat, 13 Apr 2019)

EllapsedTime: 572.8 seconds

RetCode: 0

Status:  OK

CheckDir: CellScore.Rcheck

Warnings: 0

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### Running command:
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###   C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:CellScore.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings CellScore_1.2.0.tar.gz
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* using log directory 'C:/Users/biocbuild/bbs-3.8-bioc/meat/CellScore.Rcheck'
* using R version 3.5.3 (2019-03-11)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'CellScore/DESCRIPTION' ... OK
* this is package 'CellScore' version '1.2.0'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib:
  cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES'
 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 'CellScore' 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 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
CellScoreReport                34.82   1.27   36.10
extractTransitions             22.17   0.89   23.06
heatmapOnOffMarkers            22.69   0.25   22.94
ScatterplotCellScoreComponents 21.81   0.45   22.27
RugplotCellScore               19.55   0.22   19.76
PlotCosineSimHeatmap           17.00   0.53   17.55
BoxplotCellScore               14.81   0.66   15.47
CosineSimScore                 13.29   0.93   14.21
CellScore                      12.77   0.62   13.39
PcaStandards                   12.32   0.99   13.30
BarplotOnOff                    7.53   0.81    9.08
OnOff                           6.10   0.16    6.27
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
                                user system elapsed
CellScoreReport                43.02   0.83   43.93
heatmapOnOffMarkers            30.23   0.40   30.62
extractTransitions             29.77   0.25   30.02
ScatterplotCellScoreComponents 24.83   0.18   25.01
RugplotCellScore               22.12   0.25   22.39
PlotCosineSimHeatmap           19.04   0.25   19.30
BoxplotCellScore               18.77   0.44   19.21
CellScore                      17.97   0.22   18.21
CosineSimScore                 14.81   0.25   15.10
PcaStandards                   14.03   0.11   14.14
BarplotOnOff                   11.03   0.86   11.89
OnOff                           6.88   0.39    7.26
* 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:
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###   C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/CellScore_1.2.0.tar.gz && rm -rf CellScore.buildbin-libdir && mkdir CellScore.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=CellScore.buildbin-libdir CellScore_1.2.0.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL CellScore_1.2.0.zip && rm CellScore_1.2.0.tar.gz CellScore_1.2.0.zip
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  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
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100 4209k  100 4209k    0     0  55.6M      0 --:--:-- --:--:-- --:--:-- 57.8M

install for i386

* installing *source* package 'CellScore' ...
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'CellScore'
    finding HTML links ... done
    BarplotOnOff                            html  
    BoxplotCellScore                        html  
    CellScore                               html  
    CellScoreReport                         html  
    CosineSimScore                          html  
    OnOff                                   html  
    PcaStandards                            html  
    PlotCosineSimHeatmap                    html  
    RugplotCellScore                        html  
    ScatterplotCellScoreComponents          html  
    extractTransitions                      html  
    heatmapOnOffMarkers                     html  
    rugplotDonorTargetTest                  html  
    scatterplotDonorTargetTest              html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'CellScore' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'CellScore' as CellScore_1.2.0.zip
* DONE (CellScore)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.8-bioc/R/library'
package 'CellScore' successfully unpacked and MD5 sums checked
In R CMD INSTALL