BioC 3.2: CHECK report for ComplexHeatmap on zin1

Package: ComplexHeatmap

Version: 1.3.1

Command: /home/biocbuild/bbs-3.2-bioc/R/bin/R CMD check --no-vignettes --timings ComplexHeatmap_1.3.1.tar.gz

StartedAt: 2015-08-23 22:54:07 -0700 (Sun, 23 Aug 2015)

EndedAt: 2015-08-23 22:55:04 -0700 (Sun, 23 Aug 2015)

EllapsedTime: 57.2 seconds

RetCode: 0

Status:  OK

CheckDir: ComplexHeatmap.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.2-bioc/R/bin/R CMD check --no-vignettes --timings ComplexHeatmap_1.3.1.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.2-bioc/meat/ComplexHeatmap.Rcheck’
* using R version 3.2.2 (2015-08-14)
* using platform: x86_64-pc-linux-gnu (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 ‘1.3.1’
* 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 ... [2s/2s] 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [27s/27s] OK
Examples with CPU or elapsed time > 5s
         user system elapsed
Heatmap 8.483  0.036   8.516
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘test-all.R’ [1s/1s]
 [1s/1s] 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

* installing *source* package ‘ComplexHeatmap’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (ComplexHeatmap)

name	user	system	elapsed
AdditiveUnit-class	0.001	0.000	0.001
AdditiveUnit	0.000	0.000	0.001
ColorMapping-class	0.001	0.000	0.001
ColorMapping	0.026	0.000	0.025
Heatmap-class	0.001	0.000	0.000
Heatmap	8.483	0.036	8.516
HeatmapAnnotation-class	0	0	0
HeatmapAnnotation	0.065	0.000	0.065
HeatmapList-class	2.756	0.000	2.761
HeatmapList	0.000	0.000	0.001
SingleAnnotation-class	0.001	0.000	0.001
SingleAnnotation	0.061	0.000	0.060
add.AdditiveUnit	3.107	0.000	3.130
add_heatmap-Heatmap-method	0.912	0.000	0.915
add_heatmap-HeatmapAnnotation-method	0.275	0.004	0.278
add_heatmap-HeatmapList-method	1.229	0.000	1.228
add_heatmap-dispatch	0	0	0
anno_barplot	0.008	0.000	0.009
anno_boxplot	0.025	0.000	0.024
anno_density	0.293	0.004	0.297
anno_histogram	0.048	0.000	0.048
anno_points	0.005	0.000	0.005
anno_text	0.285	0.000	0.284
annotation_legend_size-HeatmapList-method	0	0	0
color_mapping_legend-ColorMapping-method	0.166	0.000	0.166
columnAnnotation	0.01	0.00	0.01
component_height-Heatmap-method	0	0	0
component_height-HeatmapList-method	0	0	0
component_height-dispatch	0	0	0
component_width-Heatmap-method	0.001	0.000	0.001
component_width-HeatmapList-method	0.001	0.000	0.001
component_width-dispatch	0.000	0.000	0.001
decorate_annotation	0.440	0.000	0.439
decorate_dimnames	0.273	0.000	0.273
decorate_hclust	0.263	0.000	0.263
decorate_heatmap_body	0.249	0.000	0.249
decorate_title	0.267	0.004	0.271
densityHeatmap	2.406	0.004	2.408
dist2	0.002	0.000	0.003
draw-Heatmap-method	0.247	0.000	0.247
draw-HeatmapAnnotation-method	0.107	0.000	0.108
draw-HeatmapList-method	0.915	0.004	0.918
draw-SingleAnnotation-method	0.096	0.004	0.100
draw-dispatch	0.000	0.000	0.001
draw_annotation-Heatmap-method	0	0	0
draw_annotation_legend-HeatmapList-method	0	0	0
draw_dimnames-Heatmap-method	0.001	0.000	0.001
draw_hclust-Heatmap-method	0.001	0.000	0.001
draw_heatmap_body-Heatmap-method	0	0	0
draw_heatmap_legend-HeatmapList-method	0	0	0
draw_heatmap_list-HeatmapList-method	0.000	0.000	0.001
draw_title-Heatmap-method	0.001	0.004	0.001
draw_title-HeatmapList-method	0	0	0
draw_title-dispatch	0	0	0
get_color_mapping_list-HeatmapAnnotation-method	0	0	0
grid.dendrogram	0.017	0.000	0.018
heatmap_legend_size-HeatmapList-method	0.001	0.000	0.001
make_column_cluster-Heatmap-method	0	0	0
make_layout-Heatmap-method	0	0	0
make_layout-HeatmapList-method	0.001	0.000	0.001
make_layout-dispatch	0.001	0.000	0.000
make_row_cluster-Heatmap-method	0	0	0
map_to_colors-ColorMapping-method	0.026	0.000	0.026
plotDataFrame	2.286	0.004	2.289
prepare-Heatmap-method	0.001	0.000	0.000
rowAnnotation	0.007	0.004	0.011
set_component_height-Heatmap-method	0	0	0
show-Heatmap-method	0.478	0.000	0.478
show-dispatch	0.001	0.000	0.001