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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:MetaVolcanoR.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings MetaVolcanoR_1.4.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.12-bioc/meat/MetaVolcanoR.Rcheck'
* using R version 4.0.5 (2021-03-31)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'MetaVolcanoR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'MetaVolcanoR' 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 'MetaVolcanoR' 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
combining_mv: no visible binding for global variable 'study'
combining_mv: no visible binding for global variable 'value'
combining_mv: no visible binding for global variable 'metap'
combining_mv: no visible binding for global variable 'idx'
draw_cum_freq: no visible binding for global variable 'ndatasets'
draw_cum_freq: no visible binding for global variable 'DEGs'
draw_degbar: no visible binding for global variable 'dataset'
draw_degbar: no visible binding for global variable 'Regulation'
draw_forest: no visible binding for global variable 'group'
plot_mv: no visible binding for global variable 'metap'
plot_mv: no visible binding for global variable 'degcomb'
plot_mv: no visible binding for global variable 'ddeg'
plot_mv: no visible binding for global variable 'ndeg'
plot_mv: no visible binding for global variable 'degvcount'
plot_rem: no visible binding for global variable 'signcon'
plot_rem: no visible binding for global variable 'randomCi.ub'
plot_rem: no visible binding for global variable 'randomCi.lb'
plot_rem: no visible binding for global variable 'randomSummary'
plot_rem: no visible binding for global variable 'randomP'
plot_rem: no visible binding for global variable 'signcon2'
plot_rem: no visible binding for global variable 'Ci.ub'
plot_rem: no visible binding for global variable 'Ci.lb'
rem_mv: no visible binding for global variable 'error'
rem_mv: no visible binding for global variable 'randomCi.ub'
rem_mv: no visible binding for global variable 'randomCi.lb'
rem_mv: no visible binding for global variable 'index'
rem_mv: no visible global function definition for 'head'
votecount_mv: no visible binding for global variable 'ddeg'
votecount_mv: no visible binding for global variable 'ndeg'
votecount_mv: no visible binding for global variable 'idx'
Undefined global functions or variables:
  Ci.lb Ci.ub DEGs Regulation dataset ddeg degcomb degvcount error
  group head idx index metap ndatasets ndeg randomCi.lb randomCi.ub
  randomP randomSummary signcon signcon2 study value
Consider adding
  importFrom("utils", "head")
to your NAMESPACE file.
* 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
rem_mv       6.11   0.11    6.86
plot_rem     5.82   0.11    6.53
draw_forest  5.66   0.07    6.12
combining_mv 4.69   0.51    7.38
plot_mv      2.41   0.18    5.03
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
             user system elapsed
plot_rem     4.97   0.08    5.50
draw_forest  4.74   0.09    5.43
combining_mv 3.83   0.25    7.02
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'testthat.R'
 OK
** running tests for arch 'x64' ...
  Running 'testthat.R'
 OK
* 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-3.12-bioc/meat/MetaVolcanoR.Rcheck/00check.log'
for details.

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/MetaVolcanoR_1.4.0.tar.gz && rm -rf MetaVolcanoR.buildbin-libdir && mkdir MetaVolcanoR.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=MetaVolcanoR.buildbin-libdir MetaVolcanoR_1.4.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL MetaVolcanoR_1.4.0.zip && rm MetaVolcanoR_1.4.0.tar.gz MetaVolcanoR_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
100 1158k  100 1158k    0     0  4354k      0 --:--:-- --:--:-- --:--:-- 4372k

install for i386

* installing *source* package 'MetaVolcanoR' ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'MetaVolcanoR'
    finding HTML links ... done
    MetaVolcano-class                       html  
    calc_vi                                 html  
    collapse_deg                            html  
    combining_mv                            html  
    cum_freq_data                           html  
    deg_def                                 html  
    diffexplist                             html  
    draw_cum_freq                           html  
    draw_degbar                             html  
    draw_forest                             html  
    plot_mv                                 html  
    plot_rem                                html  
    rem_mv                                  html  
    remodel                                 html  
    rename_col                              html  
    set_degbar_data                         html  
    votecount_mv                            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 'MetaVolcanoR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'MetaVolcanoR' as MetaVolcanoR_1.4.0.zip
* DONE (MetaVolcanoR)
* installing to library 'C:/Users/biocbuild/bbs-3.12-bioc/R/library'
package 'MetaVolcanoR' successfully unpacked and MD5 sums checked