Package: ComplexHeatmap

Version: 1.20.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:ComplexHeatmap.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings ComplexHeatmap_1.20.0.tar.gz

StartedAt: 2019-04-15 23:11:19 -0400 (Mon, 15 Apr 2019)

EndedAt: 2019-04-15 23:13:24 -0400 (Mon, 15 Apr 2019)

EllapsedTime: 124.9 seconds

RetCode: 0

Status:  OK

CheckDir: ComplexHeatmap.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:ComplexHeatmap.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings ComplexHeatmap_1.20.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.8-bioc/meat/ComplexHeatmap.Rcheck’
* using R version 3.5.3 (2019-03-11)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ComplexHeatmap/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ComplexHeatmap’ version ‘1.20.0’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘ComplexHeatmap’ 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 ... 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
          user system elapsed
Heatmap 21.613  0.142  23.433
* 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: OK

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL ComplexHeatmap
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library’
* installing *source* package ‘ComplexHeatmap’ ...
** 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 (ComplexHeatmap)

R version 3.5.3 (2019-03-11) -- "Great Truth"
Copyright (C) 2019 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(ComplexHeatmap)))
> 
> test_check("ComplexHeatmap")
══ testthat results  ═══════════════════════════════════════════════════════════
OK: 17 SKIPPED: 0 FAILED: 0
> 
> proc.time()
   user  system elapsed 
  1.377   0.127   1.499 

name	user	system	elapsed
AdditiveUnit-class	0	0	0
AdditiveUnit	0.000	0.001	0.000
ColorMapping-class	0	0	0
ColorMapping	0.080	0.002	0.082
ComplexHeatmap-package	0	0	0
Heatmap-class	0.000	0.000	0.001
Heatmap	21.613	0.142	23.433
HeatmapAnnotation-class	0.000	0.000	0.001
HeatmapAnnotation	0.054	0.000	0.054
HeatmapList-class	4.395	0.019	4.670
HeatmapList	0.000	0.001	0.000
Legend	0.369	0.003	0.382
SingleAnnotation-class	0.000	0.001	0.000
SingleAnnotation	0.032	0.001	0.033
add.AdditiveUnit	4.608	0.013	4.876
add_heatmap-Heatmap-method	1.262	0.005	1.275
add_heatmap-HeatmapAnnotation-method	0.786	0.003	0.961
add_heatmap-HeatmapList-method	1.902	0.007	2.538
add_heatmap-dispatch	0	0	0
adjust_dend_by_leaf_width	1.773	0.064	1.847
anno_barplot	0.011	0.001	0.013
anno_boxplot	0.033	0.001	0.033
anno_density	0.215	0.006	0.223
anno_histogram	0.058	0.002	0.060
anno_link	2.350	0.023	2.734
anno_oncoprint_barplot	0.000	0.001	0.000
anno_points	0.028	0.001	0.030
anno_text	0.492	0.003	0.496
annotation_legend_size-HeatmapList-method	0.000	0.000	0.001
color_mapping_legend-ColorMapping-method	0.320	0.003	0.325
columnAnnotation	0.011	0.000	0.011
column_anno_barplot	0	0	0
column_anno_boxplot	0	0	0
column_anno_density	0.000	0.001	0.000
column_anno_histogram	0.001	0.000	0.000
column_anno_link	0.001	0.000	0.000
column_anno_points	0	0	0
column_anno_text	0.000	0.000	0.001
column_dend-Heatmap-method	0.072	0.001	0.074
column_dend-HeatmapList-method	0.279	0.001	0.281
column_dend-dispatch	0.000	0.001	0.000
column_order-Heatmap-method	0.073	0.000	0.074
column_order-HeatmapList-method	0.270	0.000	0.284
column_order-dispatch	0	0	0
component_height-Heatmap-method	0	0	0
component_height-HeatmapList-method	0.000	0.000	0.005
component_height-dispatch	0.001	0.000	0.000
component_width-Heatmap-method	0.001	0.000	0.001
component_width-HeatmapList-method	0.001	0.000	0.000
component_width-dispatch	0	0	0
decorate_annotation	0.811	0.004	0.866
decorate_column_dend	0	0	0
decorate_column_names	0.000	0.000	0.001
decorate_column_title	0	0	0
decorate_dend	0.472	0.002	0.476
decorate_dimnames	0.526	0.003	0.534
decorate_heatmap_body	0.400	0.002	0.407
decorate_row_dend	0	0	0
decorate_row_names	0.000	0.000	0.001
decorate_row_title	0	0	0
decorate_title	0.441	0.003	0.445
densityHeatmap	3.583	0.025	3.832
dist2	0.024	0.001	0.023
draw-Heatmap-method	0.668	0.003	0.678
draw-HeatmapAnnotation-method	0.116	0.004	0.119
draw-HeatmapList-method	1.385	0.006	1.404
draw-SingleAnnotation-method	0.079	0.003	0.084
draw-dispatch	0.000	0.000	0.001
draw_annotation-Heatmap-method	0.000	0.000	0.001
draw_annotation_legend-HeatmapList-method	0	0	0
draw_dend-Heatmap-method	0	0	0
draw_dimnames-Heatmap-method	0.000	0.001	0.000
draw_heatmap_body-Heatmap-method	0	0	0
draw_heatmap_legend-HeatmapList-method	0	0	0
draw_heatmap_list-HeatmapList-method	0	0	0
draw_title-Heatmap-method	0	0	0
draw_title-HeatmapList-method	0.000	0.000	0.001
draw_title-dispatch	0	0	0
enhanced_basicplot	1.116	0.005	1.129
get_color_mapping_list-HeatmapAnnotation-method	0	0	0
get_color_mapping_param_list-HeatmapAnnotation-method	0.001	0.000	0.000
grid.dendrogram	0.032	0.001	0.033
grid.dendrogram2	0.033	0.000	0.034
heatmap_legend_size-HeatmapList-method	0.000	0.000	0.001
ht_global_opt	0	0	0
is_abs_unit	0.002	0.000	0.002
make_column_cluster-Heatmap-method	0.001	0.000	0.000
make_layout-Heatmap-method	0.000	0.000	0.001
make_layout-HeatmapList-method	0	0	0
make_layout-dispatch	0.000	0.000	0.001
make_row_cluster-Heatmap-method	0	0	0
map_to_colors-ColorMapping-method	0.022	0.001	0.023
max_text_height	0.002	0.000	0.002
max_text_width	0.001	0.001	0.001
oncoPrint	0	0	0
packLegend	1.409	0.004	1.421
plotDataFrame	3.781	0.028	3.850
prepare-Heatmap-method	0	0	0
rowAnnotation	0.006	0.001	0.006
row_anno_barplot	0	0	0
row_anno_boxplot	0	0	0
row_anno_density	0.000	0.001	0.001
row_anno_histogram	0	0	0
row_anno_link	0	0	0
row_anno_points	0	0	0
row_anno_text	0.000	0.000	0.001
row_dend-Heatmap-method	0.061	0.000	0.061
row_dend-HeatmapList-method	0.214	0.000	0.216
row_dend-dispatch	0	0	0
row_order-Heatmap-method	0.058	0.000	0.058
row_order-HeatmapList-method	0.212	0.001	0.214
row_order-dispatch	0	0	0
selectArea	0.000	0.001	0.000
set_component_height-Heatmap-method	0	0	0
show-ColorMapping-method	0.001	0.000	0.000
show-Heatmap-method	1.127	0.005	1.252
show-HeatmapAnnotation-method	0.000	0.000	0.001
show-HeatmapList-method	0	0	0
show-SingleAnnotation-method	0.000	0.000	0.001
show-dispatch	0	0	0
unify_mat_list	0.001	0.000	0.001