Package: sevenbridges

Version: 1.13.5

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:sevenbridges.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings sevenbridges_1.13.5.tar.gz

StartedAt: 2019-04-09 05:26:52 -0400 (Tue, 09 Apr 2019)

EndedAt: 2019-04-09 05:31:21 -0400 (Tue, 09 Apr 2019)

EllapsedTime: 269.1 seconds

RetCode: 0

Status:  OK

CheckDir: sevenbridges.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:sevenbridges.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings sevenbridges_1.13.5.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/sevenbridges.Rcheck’
* using R Under development (unstable) (2019-03-18 r76245)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘sevenbridges/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘sevenbridges’ version ‘1.13.5’
* package encoding: UTF-8
* 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 ‘sevenbridges’ 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
Flow        85.938  0.420  86.391
Tool-class  22.755  0.099  22.868
link_what   14.639  0.022  14.724
link        12.320  0.018  12.339
convert_app 10.043  0.018  10.064
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.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 sevenbridges
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’
* installing *source* package ‘sevenbridges’ ...
** using staged installation
** 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 from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (sevenbridges)

R Under development (unstable) (2019-03-18 r76245) -- "Unsuffered Consequences"
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")
> library("sevenbridges")
> test_check("sevenbridges")
══ testthat results  ═══════════════════════════════════════════════════════════
OK: 0 SKIPPED: 0 FAILED: 0
> 
> proc.time()
   user  system elapsed 
  3.851   0.504   4.297 

name	user	system	elapsed
App-class	0.000	0.000	0.001
Auth-class	0.016	0.001	0.016
Binding	0.088	0.002	0.091
CCBList	0.023	0.000	0.023
CWL	0.003	0.000	0.003
CommandInputParameter-class	0.031	0.001	0.031
CommandInputSchema-class	0.027	0.001	0.026
CommandLineBinding-class	0.013	0.000	0.013
CommandLineTool	0.02	0.00	0.02
CommandOutputBinding-class	0.014	0.000	0.014
CommandOutputParameter-class	0.029	0.000	0.029
CommandOutputSchema-class	0.016	0.000	0.016
DSCList	0.022	0.000	0.022
Enum	0.036	0.001	0.038
Expression-class	0.009	0.000	0.008
ExpressionTool-class	0.026	0.001	0.026
File-class	0.116	0.002	0.118
Files-class	0.016	0.000	0.016
Flow	85.938	0.420	86.391
Metadata	0.125	0.002	0.127
Parameter	0.063	0.001	0.064
Process	0.115	0.002	0.116
ProcessRequirement	0.085	0.001	0.085
Schema	0.032	0.001	0.033
TaskHook	0.003	0.001	0.003
Tool-class	22.755	0.099	22.868
Workflow	0.05	0.00	0.05
WorkflowStep	0.008	0.000	0.008
addIdNum	0	0	0
api	0	0	0
as-methods	0.110	0.001	0.112
batch	0.001	0.001	0.002
cli_list_projects	0.000	0.000	0.001
cli_list_tags	0.000	0.000	0.001
cli_upload	0.001	0.001	0.001
convert_app	10.043	0.018	10.064
cwl-utils	0.150	0.003	0.154
delete-methods	0.001	0.000	0.000
download-methods	0	0	0
get_token	0	0	0
get_uploader	0.000	0.001	0.000
input_output_matrix	0.189	0.006	0.195
link	12.320	0.018	12.339
link_what	14.639	0.022	14.724
project_details	0.000	0.000	0.001
project_members	0.001	0.001	0.000
requirements	0.099	0.001	0.100
response-methods	0.000	0.000	0.001
sbg_get_env	0.000	0.000	0.001
sbg_set_env	0.001	0.001	0.001
set_test_env	0.000	0.000	0.001
shorthand-cwl	0.046	0.000	0.047
tag-methods	0.000	0.000	0.001
test_tool_bunny	0.001	0.000	0.001
test_tool_cwlrun	0.001	0.000	0.000
test_tool_rabix	0.001	0.000	0.001
upload_complete_all	0.001	0.000	0.001
upload_complete_part	0.000	0.000	0.001
upload_delete	0.001	0.000	0.000
upload_info	0.001	0.000	0.001
upload_info_part	0.001	0.001	0.000
upload_init	0.001	0.000	0.000