Multiple platform build/check report for BioC 3.9 - CHECK report for CoCiteStats on tokay2

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### Running command:
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###   C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:CoCiteStats.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings CoCiteStats_1.56.0.tar.gz
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* using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/CoCiteStats.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 'CoCiteStats/DESCRIPTION' ... OK
* this is package 'CoCiteStats' version '1.56.0'
* 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 'CoCiteStats' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Title field: should not end in a period.
* 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 ... NOTE
Package in Depends field not imported from: 'org.Hs.eg.db'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
gene.geneslist.sig: no visible global function definition for 'Lkeys'
gene.geneslist.sig: no visible binding for global variable
  'org.Hs.egPMID'
paperLen: no visible global function definition for 'toTable'
paperLen: no visible binding for global variable 'org.Hs.egPMID'
paperLen: no visible global function definition for 'nhit'
paperLen: no visible global function definition for 'revmap'
Undefined global functions or variables:
  Lkeys nhit org.Hs.egPMID revmap toTable
* checking Rd files ... NOTE
prepare_Rd: gene.geneslist.statistic.Rd:19-21: Dropping empty section \details
* 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 examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
                          user system elapsed
actorAdjTable            20.18   5.45   27.66
gene.geneslist.sig       23.00   0.30   23.30
gene.gene.statistic      17.38   0.19   17.56
gene.geneslist.statistic 16.64   0.17   16.81
twowayTable              14.69   0.03   14.72
paperLen                 12.82   0.01   12.83
twTStats                 11.89   0.02   11.90
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
                          user system elapsed
actorAdjTable            17.29   5.11   22.42
gene.geneslist.sig       20.92   0.06   20.99
gene.gene.statistic      17.22   0.14   17.36
twowayTable              16.22   0.03   16.25
twTStats                 14.50   0.03   14.53
paperLen                 14.39   0.00   14.39
gene.geneslist.statistic 13.33   0.02   13.34
* checking PDF version of manual ... OK
* DONE

Status: 4 NOTEs
See
  'C:/Users/biocbuild/bbs-3.9-bioc/meat/CoCiteStats.Rcheck/00check.log'
for details.

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###
### Running command:
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###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/CoCiteStats_1.56.0.tar.gz && rm -rf CoCiteStats.buildbin-libdir && mkdir CoCiteStats.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=CoCiteStats.buildbin-libdir CoCiteStats_1.56.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL CoCiteStats_1.56.0.zip && rm CoCiteStats_1.56.0.tar.gz CoCiteStats_1.56.0.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  5357  100  5357    0     0  53343      0 --:--:-- --:--:-- --:--:-- 57602

install for i386

* installing *source* package 'CoCiteStats' ...
** using staged installation
** R
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'CoCiteStats'
    finding HTML links ... done
    actorAdjTable                           html  
    gene.gene.statistic                     html  
    gene.geneslist.sig                      html  
    gene.geneslist.statistic                html  
    paperLen                                html  
    twTStats                                html  
    twowayTable                             html  
** building package indices
** 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 'CoCiteStats' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'CoCiteStats' as CoCiteStats_1.56.0.zip
* DONE (CoCiteStats)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'CoCiteStats' successfully unpacked and MD5 sums checked

CHECK report for CoCiteStats on tokay2

Summary

Command output

Installation output

Tests output

Example timings