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This page was generated on 2023-04-12 11:06:26 -0400 (Wed, 12 Apr 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.5 LTS)x86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4502
palomino4Windows Server 2022 Datacenterx644.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" 4282
lconwaymacOS 12.5.1 Montereyx86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4310
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

CHECK results for sevenbridges on lconway


To the developers/maintainers of the sevenbridges package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/sevenbridges.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1855/2183HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
sevenbridges 1.28.0  (landing page)
Soner Koc
Snapshot Date: 2023-04-10 14:00:05 -0400 (Mon, 10 Apr 2023)
git_url: https://git.bioconductor.org/packages/sevenbridges
git_branch: RELEASE_3_16
git_last_commit: 4fbfb90
git_last_commit_date: 2022-11-01 11:12:07 -0400 (Tue, 01 Nov 2022)
nebbiolo2Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.5.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: sevenbridges
Version: 1.28.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:sevenbridges.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings sevenbridges_1.28.0.tar.gz
StartedAt: 2023-04-10 22:40:07 -0400 (Mon, 10 Apr 2023)
EndedAt: 2023-04-10 22:42:28 -0400 (Mon, 10 Apr 2023)
EllapsedTime: 141.3 seconds
RetCode: 0
Status:   OK  
CheckDir: sevenbridges.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:sevenbridges.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings sevenbridges_1.28.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.16-bioc/meat/sevenbridges.Rcheck’
* using R version 4.2.3 (2023-03-15)
* using platform: x86_64-apple-darwin17.0 (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 ‘1.28.0’
* 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 (user + system) or elapsed time > 5s
             user system elapsed
Flow       36.940  0.250  37.311
Tool-class 10.290  0.067  10.385
link_what   6.231  0.022   6.265
link        5.202  0.007   5.211
* 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


Installation output

sevenbridges.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL sevenbridges
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.2/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)

Tests output

sevenbridges.Rcheck/tests/testthat.Rout


R version 4.2.3 (2023-03-15) -- "Shortstop Beagle"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin17.0 (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")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ]
> 
> proc.time()
   user  system elapsed 
  2.138   0.186   2.669 

Example timings

sevenbridges.Rcheck/sevenbridges-Ex.timings

nameusersystemelapsed
App-class000
Auth-class0.0060.0000.006
Binding0.0280.0020.029
CCBList0.0250.0010.026
CWL0.0020.0000.002
CommandInputParameter-class0.0190.0000.019
CommandInputSchema-class0.0200.0000.021
CommandLineBinding-class0.0060.0010.006
CommandLineTool0.0170.0000.018
CommandOutputBinding-class0.0080.0000.008
CommandOutputParameter-class0.0150.0000.014
CommandOutputSchema-class0.0120.0010.012
DSCList0.0180.0010.018
Enum0.0390.0010.040
Expression-class0.0060.0000.007
ExpressionTool-class0.0150.0010.015
File-class0.0550.0020.057
Files-class0.0060.0000.006
Flow36.940 0.25037.311
Metadata0.1030.0020.105
Parameter0.0360.0010.037
Process0.0460.0010.047
ProcessRequirement0.0540.0010.055
Schema0.0160.0000.016
TaskHook0.0020.0000.002
Tool-class10.290 0.06710.385
Workflow0.0240.0010.025
WorkflowStep0.0040.0010.004
addIdNum000
api000
as-methods0.0500.0010.050
batch0.0010.0000.001
cli_list_projects0.0000.0010.001
cli_list_tags000
cli_upload000
convert_app4.0950.0414.154
cwl-utils0.0730.0030.077
delete-methods000
download-methods000
get_token0.0010.0000.000
get_uploader0.0000.0000.001
input_output_matrix0.0670.0040.071
link5.2020.0075.211
link_what6.2310.0226.265
project_details000
project_members0.0000.0000.001
requirements0.0360.0010.037
response-methods000
sbg_get_env0.0000.0010.000
sbg_set_env000
set_test_env000
shorthand-cwl0.0190.0000.018
tag-methods000
test_tool_bunny0.0010.0000.000
test_tool_cwlrun000
test_tool_rabix000
upload_complete_all0.0000.0000.001
upload_complete_part000
upload_delete000
upload_info000
upload_info_part0.0010.0000.001
upload_init0.0000.0000.001