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BioC 3.5: CHECK report for ComplexHeatmap on malbec2

This page was generated on 2017-08-16 13:16:32 -0400 (Wed, 16 Aug 2017).

Package 268/1382HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ComplexHeatmap 1.14.0
Zuguang Gu
Snapshot Date: 2017-08-15 17:17:57 -0400 (Tue, 15 Aug 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_5/madman/Rpacks/ComplexHeatmap
Last Changed Rev: 129126 / Revision: 131943
Last Changed Date: 2017-04-24 15:25:24 -0400 (Mon, 24 Apr 2017)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK [ OK ]UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
veracruz2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: ComplexHeatmap
Version: 1.14.0
Command: /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD check --no-vignettes --timings ComplexHeatmap_1.14.0.tar.gz
StartedAt: 2017-08-15 22:09:30 -0400 (Tue, 15 Aug 2017)
EndedAt: 2017-08-15 22:11:14 -0400 (Tue, 15 Aug 2017)
EllapsedTime: 103.6 seconds
RetCode: 0
Status:  OK 
CheckDir: ComplexHeatmap.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD check --no-vignettes --timings ComplexHeatmap_1.14.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.5-bioc/meat/ComplexHeatmap.Rcheck’
* using R version 3.4.1 (2017-06-30)
* 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 ‘1.14.0’
* 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 ... NOTE
  installed size is  5.6Mb
  sub-directories of 1Mb or more:
    doc   4.2Mb
* 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 ... OK
Examples with CPU or elapsed time > 5s
          user system elapsed
Heatmap 14.048  0.024  14.094
* 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: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.5-bioc/meat/ComplexHeatmap.Rcheck/00check.log’
for details.


ComplexHeatmap.Rcheck/00install.out:

* 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)

ComplexHeatmap.Rcheck/ComplexHeatmap-Ex.timings:

nameusersystemelapsed
AdditiveUnit-class000
AdditiveUnit000
ColorMapping-class000
ColorMapping0.1760.0040.192
ComplexHeatmap-package0.0000.0000.001
Heatmap-class0.0000.0000.001
Heatmap14.048 0.02414.094
HeatmapAnnotation-class000
HeatmapAnnotation0.1280.0000.129
HeatmapList-class3.1480.0043.156
HeatmapList000
Legend000
SingleAnnotation-class000
SingleAnnotation0.0640.0000.063
add.AdditiveUnit3.40.03.4
add_heatmap-Heatmap-method1.0000.0081.009
add_heatmap-HeatmapAnnotation-method0.3080.0000.309
add_heatmap-HeatmapList-method1.4640.0041.468
add_heatmap-dispatch0.0000.0000.001
anno_barplot0.2640.0000.264
anno_boxplot0.1880.0000.187
anno_density0.2880.0000.285
anno_histogram0.1240.0000.123
anno_link1.4320.0321.465
anno_oncoprint_barplot000
anno_points0.0200.0000.021
anno_text0.2440.0000.244
annotation_legend_size-HeatmapList-method000
color_mapping_legend-ColorMapping-method0.1400.0000.141
columnAnnotation0.0080.0000.011
column_anno_barplot000
column_anno_boxplot000
column_anno_density000
column_anno_histogram000
column_anno_link000
column_anno_points000
column_anno_text000
column_dend-Heatmap-method0.060.000.06
column_dend-HeatmapList-method0.1920.0000.189
column_dend-dispatch000
column_order-Heatmap-method0.0640.0000.061
column_order-HeatmapList-method0.2040.0000.207
column_order-dispatch0.0000.0000.001
component_height-Heatmap-method0.0000.0000.001
component_height-HeatmapList-method000
component_height-dispatch0.0000.0000.001
component_width-Heatmap-method0.0000.0000.001
component_width-HeatmapList-method0.0000.0000.001
component_width-dispatch0.0000.0000.001
decorate_annotation0.5000.0000.499
decorate_column_dend0.0000.0000.001
decorate_column_names0.0000.0000.001
decorate_column_title0.0000.0000.001
decorate_dend0.2480.0000.249
decorate_dimnames0.2800.0000.282
decorate_heatmap_body0.2200.0000.224
decorate_row_dend000
decorate_row_names000
decorate_row_title000
decorate_title0.2680.0000.266
densityHeatmap3.4400.0163.457
dist20.0280.0000.029
draw-Heatmap-method0.3200.0000.322
draw-HeatmapAnnotation-method0.120.000.12
draw-HeatmapList-method1.0920.0041.096
draw-SingleAnnotation-method0.1040.0000.101
draw-dispatch000
draw_annotation-Heatmap-method0.0040.0000.000
draw_annotation_legend-HeatmapList-method000
draw_dend-Heatmap-method000
draw_dimnames-Heatmap-method000
draw_heatmap_body-Heatmap-method000
draw_heatmap_legend-HeatmapList-method0.0000.0000.001
draw_heatmap_list-HeatmapList-method0.0000.0000.001
draw_title-Heatmap-method0.0000.0000.001
draw_title-HeatmapList-method0.0000.0000.001
draw_title-dispatch0.0000.0000.001
enhanced_basicplot1.1240.0001.126
get_color_mapping_list-HeatmapAnnotation-method000
get_color_mapping_param_list-HeatmapAnnotation-method000
grid.dendrogram0.0120.0000.013
heatmap_legend_size-HeatmapList-method0.0040.0000.000
ht_global_opt0.0000.0000.001
is_abs_unit0.0000.0000.001
make_column_cluster-Heatmap-method0.0040.0000.000
make_layout-Heatmap-method000
make_layout-HeatmapList-method0.0000.0000.001
make_layout-dispatch0.0000.0000.001
make_row_cluster-Heatmap-method0.0040.0000.001
map_to_colors-ColorMapping-method0.0160.0000.016
max_text_height0.0000.0000.002
max_text_width0.0000.0000.001
oncoPrint000
packLegend000
plotDataFrame2.1800.0002.183
prepare-Heatmap-method0.0000.0040.001
rowAnnotation0.0200.0000.021
row_anno_barplot0.0040.0000.001
row_anno_boxplot0.0000.0000.001
row_anno_density0.0000.0000.001
row_anno_histogram0.0000.0000.001
row_anno_link000
row_anno_points000
row_anno_text000
row_dend-Heatmap-method0.1120.0000.114
row_dend-HeatmapList-method0.3600.0000.359
row_dend-dispatch0.0040.0000.001
row_order-Heatmap-method0.1160.0000.114
row_order-HeatmapList-method0.3080.0000.310
row_order-dispatch000
selectArea0.0000.0000.001
set_component_height-Heatmap-method0.0000.0000.001
show-ColorMapping-method0.0000.0000.001
show-Heatmap-method0.6200.0000.622
show-HeatmapAnnotation-method000
show-HeatmapList-method0.0040.0000.000
show-SingleAnnotation-method0.0000.0000.001
show-dispatch0.0000.0000.001
unify_mat_list000