Package: KEGGlincs

Version: 1.4.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings KEGGlincs_1.4.0.tar.gz

StartedAt: 2018-04-12 05:32:22 -0400 (Thu, 12 Apr 2018)

EndedAt: 2018-04-12 05:36:02 -0400 (Thu, 12 Apr 2018)

EllapsedTime: 220.6 seconds

RetCode: 0

Status:  OK

CheckDir: KEGGlincs.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 KEGGlincs_1.4.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.6-bioc/meat/KEGGlincs.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 ‘KEGGlincs/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘KEGGlincs’ version ‘1.4.0’
* 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 ‘KEGGlincs’ 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 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                          user system elapsed
overlap_info            17.015  1.711  20.868
add_edge_data           17.290  1.110  18.933
add_KEGG_drugs          12.163  0.294  17.133
edge_mapping_info        8.302  0.641   9.258
path_genes_by_cell_type  7.832  0.598   9.045
refine_mappings          7.540  0.392   8.278
get_graph_object         6.934  0.258   7.493
* 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 ‘KEGGlincs’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (KEGGlincs)

name	user	system	elapsed
KEGG_lincs	0.001	0.000	0.001
KL_compare	0.000	0.000	0.001
add_KEGG_drugs	12.163	0.294	17.133
add_edge_data	17.290	1.110	18.933
cyto_vis	0.451	0.008	0.688
edge_mapping_info	8.302	0.641	9.258
expand_KEGG_edges	0.247	0.001	0.478
expand_KEGG_mappings	0.165	0.000	0.397
generate_mappings	0.000	0.000	0.001
get_KGML	0.168	0.001	0.841
get_drug_table	0.235	0.001	1.635
get_fisher_info	0.004	0.000	0.004
get_graph_object	6.934	0.258	7.493
keggerize_edges	0.001	0.000	0.001
node_mapping_info	0.187	0.001	0.415
overlap_info	17.015	1.711	20.868
path_genes_by_cell_type	7.832	0.598	9.045
refine_mappings	7.540	0.392	8.278
tidy_edge	0.001	0.000	0.001