Package: esetVis

Version: 1.6.3

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:esetVis.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings esetVis_1.6.3.tar.gz

StartedAt: 2018-10-16 21:15:50 -0400 (Tue, 16 Oct 2018)

EndedAt: 2018-10-16 21:18:49 -0400 (Tue, 16 Oct 2018)

EllapsedTime: 178.7 seconds

RetCode: 0

Status:  OK

CheckDir: esetVis.Rcheck

Warnings: 0

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:esetVis.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings esetVis_1.6.3.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.7-bioc/meat/esetVis.Rcheck’
* using R version 3.5.1 Patched (2018-07-12 r74967)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘esetVis/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘esetVis’ version ‘1.6.3’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘esetVis’ 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
* 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
getMethodsInputObjectEsetVis: no visible binding for global variable
  ‘rowData’
getMethodsInputObjectEsetVis: no visible binding for global variable
  ‘colData’
getMethodsInputObjectEsetVis: no visible binding for global variable
  ‘assay’
getMethodsInputObjectEsetVis : <anonymous>: no visible global function
  definition for ‘colData’
getMethodsInputObjectEsetVis : <anonymous>: no visible global function
  definition for ‘rowData’
ggvisPlotEset: no visible global function definition for ‘:=’
ggvisPlotEset: no visible binding for global variable ‘fill’
ggvisPlotEset: no visible binding for global variable ‘shape’
ggvisPlotEset: no visible binding for global variable ‘size’
ggvisPlotEset: no visible binding for global variable ‘opacity’
ggvisPlotEset: no visible global function definition for ‘%>%’
ggvisPlotEset: no visible global function definition for
  ‘scale_ordinal’
ggvisPlotEset: no visible global function definition for ‘set_options’
Undefined global functions or variables:
  %>% := assay colData fill opacity rowData scale_ordinal set_options
  shape size
* 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                     user system elapsed
getGeneSetsForPlot 67.393  8.079  75.879
esetLda             6.323  0.234   6.622
esetPlotWrapper     5.862  0.315   6.231
* 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
  ‘/Users/biocbuild/bbs-3.7-bioc/meat/esetVis.Rcheck/00check.log’
for details.

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL esetVis
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library’
* installing *source* package ‘esetVis’ ...
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (esetVis)

name	user	system	elapsed
esetLda	6.323	0.234	6.622
esetPlotWrapper	5.862	0.315	6.231
esetSpectralMap	4.470	0.281	4.809
esetTsne	4.613	0.127	4.778
getGeneSetsForPlot	67.393	8.079	75.879