Package: paircompviz

Version: 1.16.0

Command: rm -rf paircompviz.buildbin-libdir paircompviz.Rcheck && mkdir paircompviz.buildbin-libdir paircompviz.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=paircompviz.buildbin-libdir paircompviz_1.16.0.tar.gz >paircompviz.Rcheck\00install.out 2>&1 && cp paircompviz.Rcheck\00install.out paircompviz-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=paircompviz.buildbin-libdir --install="check:paircompviz-install.out" --force-multiarch --no-vignettes --timings paircompviz_1.16.0.tar.gz

StartedAt: 2018-04-12 01:58:55 -0400 (Thu, 12 Apr 2018)

EndedAt: 2018-04-12 01:59:47 -0400 (Thu, 12 Apr 2018)

EllapsedTime: 52.3 seconds

RetCode: 0

Status:  OK

CheckDir: paircompviz.Rcheck

Warnings: 0

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### Running command:
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###   rm -rf paircompviz.buildbin-libdir paircompviz.Rcheck && mkdir paircompviz.buildbin-libdir paircompviz.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=paircompviz.buildbin-libdir paircompviz_1.16.0.tar.gz >paircompviz.Rcheck\00install.out 2>&1 && cp paircompviz.Rcheck\00install.out paircompviz-install.out  &&  C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=paircompviz.buildbin-libdir --install="check:paircompviz-install.out" --force-multiarch --no-vignettes --timings paircompviz_1.16.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.6-bioc/meat/paircompviz.Rcheck'
* using R version 3.4.4 (2018-03-15)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'paircompviz/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'paircompviz' version '1.16.0'
* 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 'paircompviz' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Package listed in more than one of Depends, Imports, Suggests, Enhances:
  'Rgraphviz'
A package should be listed in only one of these fields.
* 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
** checking loading without being on the library search path ... 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 loading without being on the library search path ... OK
* checking dependencies in R code ... NOTE
'library' or 'require' calls in package code:
  'multcomp' 'reshape'
  Please use :: or requireNamespace() instead.
  See section 'Suggested packages' in the 'Writing R Extensions' manual.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
hasse: no visible global function definition for 'as'
hasse: no visible global function definition for 'adj'
hasse: no visible global function definition for 'nodes'
hasse: no visible global function definition for 'removeEdge'
hasse: no visible global function definition for 'addNode'
hasse: no visible global function definition for 'addEdge'
hasse: no visible global function definition for 'edgeMatrix'
hasse: no visible global function definition for 'par'
hasse: no visible global function definition for 'title'
paircomp: no visible global function definition for 'is'
paircomp: no visible global function definition for 'combn'
paircomp: no visible global function definition for 'cast'
paircomp: no visible global function definition for 'pairwise.t.test'
paircomp: no visible binding for global variable 'median'
paircomp: no visible global function definition for
  'pairwise.wilcox.test'
paircomp: no visible global function definition for
  'pairwise.prop.test'
paircomp: no visible global function definition for 'gray'
Undefined global functions or variables:
  addEdge addNode adj as cast combn edgeMatrix gray is median nodes
  pairwise.prop.test pairwise.t.test pairwise.wilcox.test par
  removeEdge title
Consider adding
  importFrom("grDevices", "gray")
  importFrom("graphics", "par", "title")
  importFrom("methods", "as", "is")
  importFrom("stats", "median", "pairwise.prop.test", "pairwise.t.test",
             "pairwise.wilcox.test")
  importFrom("utils", "combn")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
* 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... NOTE
The following files are already in R: 'jss.bst', 'jss.cls'
Please remove them from your package.
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... 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: 4 NOTEs
See
  'C:/Users/biocbuild/bbs-3.6-bioc/meat/paircompviz.Rcheck/00check.log'
for details.

install for i386

* installing *source* package 'paircompviz' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'paircompviz'
    finding HTML links ... done
    brokentrans                             html  
    hasse                                   html  
    paircomp                                html  
    paircompviz-package                     html  
    transReduct                             html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'paircompviz' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'paircompviz' as paircompviz_1.16.0.zip
* DONE (paircompviz)
In R CMD INSTALL
In R CMD INSTALL