Package: EnrichedHeatmap

Version: 1.9.4

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings EnrichedHeatmap_1.9.4.tar.gz

StartedAt: 2018-04-12 03:19:33 -0400 (Thu, 12 Apr 2018)

EndedAt: 2018-04-12 03:21:49 -0400 (Thu, 12 Apr 2018)

EllapsedTime: 136.3 seconds

RetCode: 0

Status:  OK

CheckDir: EnrichedHeatmap.Rcheck

Warnings: 0

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings EnrichedHeatmap_1.9.4.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.6-bioc/meat/EnrichedHeatmap.Rcheck’
* using R version 3.4.4 (2018-03-15)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘EnrichedHeatmap/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘EnrichedHeatmap’ version ‘1.9.4’
* 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 ‘EnrichedHeatmap’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 12.1Mb
  sub-directories of 1Mb or more:
    doc       9.2Mb
    extdata   2.6Mb
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
License components which are templates and need '+ file LICENSE':
  MIT
* 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 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 ... OK
* 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 line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
EnrichedHeatmap 14.513  0.267  15.114
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘test-all.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: 2 NOTEs
See
  ‘/Users/biocbuild/bbs-3.6-bioc/meat/EnrichedHeatmap.Rcheck/00check.log’
for details.

* installing *source* package ‘EnrichedHeatmap’ ...
** libs
clang++  -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.4/Resources/library/Rcpp/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c RcppExports.cpp -o RcppExports.o
clang++  -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.4/Resources/library/Rcpp/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c dist_by_closeness.cpp -o dist_by_closeness.o
clang++ -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o EnrichedHeatmap.so RcppExports.o dist_by_closeness.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.6-bioc/meat/EnrichedHeatmap.Rcheck/EnrichedHeatmap/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (EnrichedHeatmap)

R version 3.4.4 (2018-03-15) -- "Someone to Lean On"
Copyright (C) 2018 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin15.6.0 (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> suppressWarnings(suppressPackageStartupMessages(library(EnrichedHeatmap)))
> 
> test_check("EnrichedHeatmap")
══ testthat results  ═══════════════════════════════════════════════════════════
OK: 25 SKIPPED: 0 FAILED: 0
> 
> proc.time()
   user  system elapsed 
  8.582   0.180   8.849 

name	user	system	elapsed
EnrichedHeatmap-class	0	0	0
EnrichedHeatmap	14.513	0.267	15.114
EnrichedHeatmapList-class	0	0	0
EnrichedHeatmapList	0.001	0.000	0.000
Extract.normalizedMatrix	0.001	0.000	0.000
add.AdditiveUnit	0.001	0.000	0.000
anno_enriched	4.728	0.143	4.931
copyAttr	0.269	0.009	0.282
default_smooth_fun	0.001	0.000	0.001
discretize	0.001	0.000	0.001
dist_by_closeness	0.002	0.000	0.003
draw-EnrichedHeatmap-method	0.001	0.000	0.001
draw-EnrichedHeatmapList-method	0.000	0.000	0.001
draw-dispatch	0.000	0.000	0.001
enriched_score	0.001	0.000	0.001
extract_anno_enriched	0.000	0.001	0.000
getSignalsFromList	0.001	0.000	0.000
makeWindows	0.301	0.007	0.314
normalizeToMatrix	2.268	0.007	2.312
print.normalizedMatrix	0.000	0.000	0.001
rbind.normalizedMatrix	0.000	0.000	0.001
show-EnrichedHeatmap-method	0.001	0.000	0.001
show-EnrichedHeatmapList-method	0.001	0.000	0.001
show-dispatch	0.001	0.000	0.000