Back to Multiple platform build/check report for BioC 3.15
ABCDEFGHIJKLMNOPQR[S]TUVWXYZ

This page was generated on 2022-10-19 13:20:53 -0400 (Wed, 19 Oct 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 20.04.5 LTS)x86_644.2.1 (2022-06-23) -- "Funny-Looking Kid" 4386
palomino3Windows Server 2022 Datacenterx644.2.1 (2022-06-23 ucrt) -- "Funny-Looking Kid" 4138
merida1macOS 10.14.6 Mojavex86_644.2.1 (2022-06-23) -- "Funny-Looking Kid" 4205
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 nebbiolo1


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 1825/2140HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
sevenbridges 1.26.0  (landing page)
Soner Koc
Snapshot Date: 2022-10-18 13:55:19 -0400 (Tue, 18 Oct 2022)
git_url: https://git.bioconductor.org/packages/sevenbridges
git_branch: RELEASE_3_15
git_last_commit: 845f2c8
git_last_commit_date: 2022-04-26 11:27:03 -0400 (Tue, 26 Apr 2022)
nebbiolo1Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino3Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: sevenbridges
Version: 1.26.0
Command: /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD check --install=check:sevenbridges.install-out.txt --library=/home/biocbuild/bbs-3.15-bioc/R/library --no-vignettes --timings sevenbridges_1.26.0.tar.gz
StartedAt: 2022-10-18 21:48:39 -0400 (Tue, 18 Oct 2022)
EndedAt: 2022-10-18 21:50:53 -0400 (Tue, 18 Oct 2022)
EllapsedTime: 134.1 seconds
RetCode: 0
Status:   OK  
CheckDir: sevenbridges.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD check --install=check:sevenbridges.install-out.txt --library=/home/biocbuild/bbs-3.15-bioc/R/library --no-vignettes --timings sevenbridges_1.26.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.15-bioc/meat/sevenbridges.Rcheck’
* using R version 4.2.1 (2022-06-23)
* 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 ‘1.26.0’
* 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       41.711  0.272  41.985
Tool-class 10.769  0.052  10.822
link_what   6.587  0.004   6.592
link        6.485  0.036   6.521
* 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:
###
###   /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD INSTALL sevenbridges
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.15-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)

Tests output

sevenbridges.Rcheck/tests/testthat.Rout


R version 4.2.1 (2022-06-23) -- "Funny-Looking Kid"
Copyright (C) 2022 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")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ]
> 
> proc.time()
   user  system elapsed 
  2.432   0.206   2.624 

Example timings

sevenbridges.Rcheck/sevenbridges-Ex.timings

nameusersystemelapsed
App-class000
Auth-class0.0090.0000.009
Binding0.0590.0000.058
CCBList0.0170.0000.016
CWL0.0020.0000.001
CommandInputParameter-class0.0210.0000.020
CommandInputSchema-class0.0170.0000.016
CommandLineBinding-class0.0060.0000.006
CommandLineTool0.0140.0000.014
CommandOutputBinding-class0.0070.0000.007
CommandOutputParameter-class0.0120.0000.012
CommandOutputSchema-class0.0100.0000.011
DSCList0.0100.0080.017
Enum0.0330.0000.032
Expression-class0.0070.0000.006
ExpressionTool-class0.0180.0000.017
File-class0.0600.0040.064
Files-class0.0070.0000.008
Flow41.711 0.27241.985
Metadata0.0750.0040.080
Parameter0.0290.0000.030
Process0.0460.0000.046
ProcessRequirement0.0450.0000.046
Schema0.0140.0000.013
TaskHook0.0020.0000.002
Tool-class10.769 0.05210.822
Workflow0.0210.0040.025
WorkflowStep0.0040.0000.004
addIdNum000
api000
as-methods0.0560.0040.060
batch0.0010.0000.001
cli_list_projects000
cli_list_tags000
cli_upload0.0000.0010.001
convert_app4.7440.0014.745
cwl-utils0.0910.0000.091
delete-methods000
download-methods000
get_token0.0010.0000.000
get_uploader0.0000.0000.001
input_output_matrix0.0700.0040.073
link6.4850.0366.521
link_what6.5870.0046.592
project_details000
project_members0.0010.0000.000
requirements0.0430.0000.042
response-methods000
sbg_get_env0.0000.0000.001
sbg_set_env000
set_test_env0.0010.0000.000
shorthand-cwl0.0190.0000.019
tag-methods0.0000.0000.001
test_tool_bunny0.0000.0000.001
test_tool_cwlrun000
test_tool_rabix000
upload_complete_all0.0000.0000.001
upload_complete_part000
upload_delete0.0010.0000.000
upload_info0.0000.0000.001
upload_info_part000
upload_init000