BioC 3.2: CHECK report for ComplexHeatmap on linux1.bioconductor.org

Package: ComplexHeatmap

Version: 1.6.0

Command: /home/biocbuild/bbs-3.2-bioc/R/bin/R CMD check --no-vignettes --timings ComplexHeatmap_1.6.0.tar.gz

StartedAt: 2015-10-27 02:27:04 -0400 (Tue, 27 Oct 2015)

EndedAt: 2015-10-27 02:28:06 -0400 (Tue, 27 Oct 2015)

EllapsedTime: 62.6 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_1.6.0.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 ‘1.6.0’
* 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 ... [3s/3s] 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 ... [28s/28s] OK
Examples with CPU or elapsed time > 5s
         user system elapsed
Heatmap 7.879   0.02     7.9
* 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	0.000
AdditiveUnit	0	0	0
ColorMapping-class	0.001	0.000	0.001
ColorMapping	0.033	0.000	0.033
ComplexHeatmap-package	0.001	0.001	0.000
Heatmap-class	0	0	0
Heatmap	7.879	0.020	7.900
HeatmapAnnotation-class	0	0	0
HeatmapAnnotation	0.065	0.000	0.065
HeatmapList-class	2.814	0.000	2.814
HeatmapList	0.001	0.000	0.001
SingleAnnotation-class	0.001	0.000	0.001
SingleAnnotation	0.055	0.000	0.055
add.AdditiveUnit	2.779	0.000	2.779
add_heatmap-Heatmap-method	0.671	0.000	0.671
add_heatmap-HeatmapAnnotation-method	0.43	0.00	0.43
add_heatmap-HeatmapList-method	1.282	0.000	1.282
add_heatmap-dispatch	0.000	0.000	0.001
anno_barplot	0.008	0.000	0.008
anno_boxplot	0.024	0.000	0.024
anno_density	0.192	0.000	0.192
anno_histogram	0.039	0.000	0.039
anno_points	0.004	0.000	0.004
anno_text	0.235	0.003	0.239
annotation_legend_size-HeatmapList-method	0	0	0
color_mapping_legend-ColorMapping-method	0.154	0.001	0.154
columnAnnotation	0.01	0.00	0.01
column_anno_barplot	0.001	0.000	0.001
column_anno_boxplot	0.001	0.000	0.001
column_anno_density	0.001	0.000	0.001
column_anno_histogram	0.001	0.000	0.001
column_anno_points	0.001	0.000	0.001
column_anno_text	0	0	0
column_dend-Heatmap-method	0	0	0
column_dend-HeatmapList-method	0	0	0
column_dend-dispatch	0.000	0.001	0.000
column_order-Heatmap-method	0	0	0
column_order-HeatmapList-method	0	0	0
column_order-dispatch	0	0	0
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	0	0
component_width-HeatmapList-method	0	0	0
component_width-dispatch	0	0	0
decorate_annotation	0.688	0.000	0.689
decorate_column_dend	0	0	0
decorate_column_names	0.001	0.000	0.001
decorate_column_title	0.000	0.000	0.001
decorate_dend	0.264	0.000	0.264
decorate_dimnames	0.269	0.004	0.273
decorate_heatmap_body	0.230	0.001	0.233
decorate_row_dend	0	0	0
decorate_row_names	0	0	0
decorate_row_title	0	0	0
decorate_title	0.257	0.000	0.257
densityHeatmap	3.065	0.003	3.069
dist2	0.001	0.000	0.002
draw-Heatmap-method	0.211	0.000	0.211
draw-HeatmapAnnotation-method	0.104	0.000	0.104
draw-HeatmapList-method	0.861	0.000	0.861
draw-SingleAnnotation-method	0.123	0.000	0.123
draw-dispatch	0.001	0.000	0.000
draw_annotation-Heatmap-method	0.001	0.000	0.001
draw_annotation_legend-HeatmapList-method	0.001	0.000	0.001
draw_dend-Heatmap-method	0	0	0
draw_dimnames-Heatmap-method	0.001	0.000	0.000
draw_heatmap_body-Heatmap-method	0.001	0.000	0.001
draw_heatmap_legend-HeatmapList-method	0.000	0.000	0.001
draw_heatmap_list-HeatmapList-method	0	0	0
draw_title-Heatmap-method	0.001	0.000	0.001
draw_title-HeatmapList-method	0.001	0.000	0.001
draw_title-dispatch	0.000	0.000	0.001
enhanced_basicplot	0.806	0.000	0.806
get_color_mapping_list-HeatmapAnnotation-method	0	0	0
get_color_mapping_param_list-HeatmapAnnotation-method	0	0	0
grid.dendrogram	0.013	0.000	0.013
heatmap_legend_size-HeatmapList-method	0	0	0
ht_global_opt	0	0	0
is_abs_unit	0.000	0.000	0.001
make_column_cluster-Heatmap-method	0.000	0.000	0.001
make_layout-Heatmap-method	0.001	0.000	0.001
make_layout-HeatmapList-method	0.001	0.000	0.001
make_layout-dispatch	0.001	0.000	0.001
make_row_cluster-Heatmap-method	0.001	0.000	0.001
map_to_colors-ColorMapping-method	0.02	0.00	0.02
max_text_height	0.007	0.000	0.007
max_text_width	0.063	0.000	0.063
oncoPrint	0.001	0.000	0.001
plotDataFrame	2.389	0.001	2.394
prepare-Heatmap-method	0.001	0.000	0.000
rowAnnotation	0.009	0.000	0.008
row_anno_barplot	0	0	0
row_anno_boxplot	0	0	0
row_anno_density	0	0	0
row_anno_histogram	0	0	0
row_anno_points	0	0	0
row_anno_text	0	0	0
row_dend-Heatmap-method	0.000	0.000	0.001
row_dend-HeatmapList-method	0.000	0.000	0.001
row_dend-dispatch	0.000	0.000	0.001
row_order-Heatmap-method	0.000	0.000	0.001
row_order-HeatmapList-method	0.000	0.001	0.001
row_order-dispatch	0.001	0.000	0.001
select	0.001	0.000	0.001
set_component_height-Heatmap-method	0.001	0.000	0.001
show-ColorMapping-method	0.001	0.000	0.001
show-Heatmap-method	0.544	0.000	0.553
show-HeatmapAnnotation-method	0	0	0
show-HeatmapList-method	0	0	0
show-SingleAnnotation-method	0.001	0.000	0.000
show-dispatch	0.001	0.000	0.000
unify_mat_list	0.001	0.000	0.000