Package: sevenbridges

Version: 1.13.5

Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:sevenbridges.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings sevenbridges_1.13.5.tar.gz

StartedAt: 2019-04-09 03:36:09 -0400 (Tue, 09 Apr 2019)

EndedAt: 2019-04-09 03:39:23 -0400 (Tue, 09 Apr 2019)

EllapsedTime: 194.1 seconds

RetCode: 0

Status:  OK

CheckDir: sevenbridges.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:sevenbridges.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings sevenbridges_1.13.5.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/sevenbridges.Rcheck’
* using R Under development (unstable) (2019-03-18 r76245)
* using platform: x86_64-pc-linux-gnu (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        65.104  0.039  65.190
Tool-class  18.951  0.036  18.999
link_what   10.997  0.000  11.014
link         9.420  0.008   9.431
convert_app  6.365  0.003   6.368
* 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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###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL sevenbridges
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* installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/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-pc-linux-gnu (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 
  3.103   0.127   3.449 

name	user	system	elapsed
App-class	0	0	0
Auth-class	0.010	0.000	0.011
Binding	0.06	0.00	0.06
CCBList	0.02	0.00	0.02
CWL	0.002	0.000	0.002
CommandInputParameter-class	0.035	0.000	0.035
CommandInputSchema-class	0.028	0.000	0.028
CommandLineBinding-class	0.01	0.00	0.01
CommandLineTool	0.022	0.000	0.022
CommandOutputBinding-class	0.011	0.000	0.011
CommandOutputParameter-class	0.021	0.000	0.021
CommandOutputSchema-class	0.027	0.000	0.028
DSCList	0.023	0.000	0.022
Enum	0.035	0.000	0.035
Expression-class	0.011	0.000	0.011
ExpressionTool-class	0.03	0.00	0.03
File-class	0.104	0.004	0.109
Files-class	0.013	0.000	0.013
Flow	65.104	0.039	65.190
Metadata	0.116	0.000	0.116
Parameter	0.056	0.000	0.057
Process	0.076	0.000	0.076
ProcessRequirement	0.072	0.000	0.072
Schema	0.023	0.000	0.024
TaskHook	0.002	0.000	0.002
Tool-class	18.951	0.036	18.999
Workflow	0.044	0.000	0.044
WorkflowStep	0.007	0.000	0.007
addIdNum	0.000	0.001	0.000
api	0.000	0.001	0.000
as-methods	0.103	0.001	0.104
batch	0.001	0.000	0.001
cli_list_projects	0	0	0
cli_list_tags	0	0	0
cli_upload	0	0	0
convert_app	6.365	0.003	6.368
cwl-utils	0.111	0.004	0.159
delete-methods	0	0	0
download-methods	0.001	0.000	0.000
get_token	0	0	0
get_uploader	0	0	0
input_output_matrix	0.102	0.000	0.102
link	9.420	0.008	9.431
link_what	10.997	0.000	11.014
project_details	0	0	0
project_members	0	0	0
requirements	0.068	0.000	0.068
response-methods	0	0	0
sbg_get_env	0.001	0.000	0.000
sbg_set_env	0	0	0
set_test_env	0	0	0
shorthand-cwl	0.03	0.00	0.03
tag-methods	0	0	0
test_tool_bunny	0.001	0.000	0.000
test_tool_cwlrun	0.001	0.000	0.001
test_tool_rabix	0.001	0.000	0.000
upload_complete_all	0.000	0.000	0.001
upload_complete_part	0.000	0.000	0.001
upload_delete	0	0	0
upload_info	0	0	0
upload_info_part	0	0	0
upload_init	0	0	0