Package: rnaseqcomp

Version: 1.8.0

Command: rm -rf rnaseqcomp.buildbin-libdir rnaseqcomp.Rcheck && mkdir rnaseqcomp.buildbin-libdir rnaseqcomp.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=rnaseqcomp.buildbin-libdir rnaseqcomp_1.8.0.tar.gz >rnaseqcomp.Rcheck\00install.out 2>&1 && cp rnaseqcomp.Rcheck\00install.out rnaseqcomp-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=rnaseqcomp.buildbin-libdir --install="check:rnaseqcomp-install.out" --force-multiarch --no-vignettes --timings rnaseqcomp_1.8.0.tar.gz

StartedAt: 2018-04-12 02:46:10 -0400 (Thu, 12 Apr 2018)

EndedAt: 2018-04-12 02:47:39 -0400 (Thu, 12 Apr 2018)

EllapsedTime: 88.4 seconds

RetCode: 0

Status:  OK

CheckDir: rnaseqcomp.Rcheck

Warnings: 0

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf rnaseqcomp.buildbin-libdir rnaseqcomp.Rcheck && mkdir rnaseqcomp.buildbin-libdir rnaseqcomp.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=rnaseqcomp.buildbin-libdir rnaseqcomp_1.8.0.tar.gz >rnaseqcomp.Rcheck\00install.out 2>&1 && cp rnaseqcomp.Rcheck\00install.out rnaseqcomp-install.out  &&  C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=rnaseqcomp.buildbin-libdir --install="check:rnaseqcomp-install.out" --force-multiarch --no-vignettes --timings rnaseqcomp_1.8.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.6-bioc/meat/rnaseqcomp.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 'rnaseqcomp/DESCRIPTION' ... OK
* this is package 'rnaseqcomp' version '1.8.0'
* 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 'rnaseqcomp' 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
** 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 ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
plot2TX: no visible global function definition for 'plot'
plot2TX: no visible global function definition for 'lines'
plot2TX: no visible global function definition for 'box'
plot2TX: no visible global function definition for 'legend'
plot2TX : <anonymous>: no visible binding for global variable 'sd'
plot2TX : <anonymous>: no visible global function definition for 'sd'
plotFC: no visible global function definition for 'loess.smooth'
plotFC: no visible global function definition for 'plot'
plotFC: no visible global function definition for 'lines'
plotFC: no visible global function definition for 'legend'
plotFC : <anonymous>: no visible global function definition for
  'median'
plotFC : <anonymous>: no visible global function definition for 'sd'
plotNE: no visible global function definition for 'plot'
plotNE: no visible global function definition for 'lines'
plotNE: no visible global function definition for 'points'
plotNE: no visible global function definition for 'box'
plotNE: no visible global function definition for 'legend'
plotROC: no visible global function definition for 'median'
plotROC: no visible global function definition for 'sd'
plotROC: no visible global function definition for 'plot'
plotROC: no visible global function definition for 'lines'
plotROC: no visible global function definition for 'arrows'
plotROC: no visible global function definition for 'abline'
plotROC: no visible global function definition for 'legend'
plotSD : <anonymous>: no visible binding for global variable 'sd'
plotSD: no visible global function definition for 'loess.smooth'
plotSD: no visible global function definition for 'plot'
plotSD: no visible global function definition for 'lines'
plotSD: no visible global function definition for 'box'
plotSD: no visible global function definition for 'legend'
plotSD : <anonymous> : <anonymous>: no visible global function
  definition for 'median'
plotSD : <anonymous> : <anonymous>: no visible global function
  definition for 'mad'
signalCalibrate : <anonymous>: no visible binding for global variable
  'median'
signalCalibrate: no visible global function definition for 'median'
Undefined global functions or variables:
  abline arrows box legend lines loess.smooth mad median plot points sd
Consider adding
  importFrom("graphics", "abline", "arrows", "box", "legend", "lines",
             "plot", "points")
  importFrom("stats", "loess.smooth", "mad", "median", "sd")
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 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
plotROC 17.78   0.26   18.05
plotNE   5.90   0.10    6.00
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
         user system elapsed
plotROC 17.28   0.12   17.41
* 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-3.6-bioc/meat/rnaseqcomp.Rcheck/00check.log'
for details.

install for i386

* installing *source* package 'rnaseqcomp' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'rnaseqcomp'
    finding HTML links ... done
    check_rnaseqcomp                        html  
    plot2TX                                 html  
    plotFC                                  html  
    plotNE                                  html  
    plotROC                                 html  
    plotSD                                  html  
    rnaseqcomp-class                        html  
    signalCalibrate                         html  
    simdata                                 html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'rnaseqcomp' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'rnaseqcomp' as rnaseqcomp_1.8.0.zip
* DONE (rnaseqcomp)
In R CMD INSTALL
In R CMD INSTALL