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This page was generated on 2024-04-17 11:37:18 -0400 (Wed, 17 Apr 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.3.3 (2024-02-29) -- "Angel Food Cake" 4676
palomino4Windows Server 2022 Datacenterx644.3.3 (2024-02-29 ucrt) -- "Angel Food Cake" 4414
merida1macOS 12.7.1 Montereyx86_644.3.3 (2024-02-29) -- "Angel Food Cake" 4437
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

Package 1936/2266HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
sevenbridges 1.32.0  (landing page)
Phil Webster
Snapshot Date: 2024-04-15 14:05:01 -0400 (Mon, 15 Apr 2024)
git_url: https://git.bioconductor.org/packages/sevenbridges
git_branch: RELEASE_3_18
git_last_commit: bd309cc
git_last_commit_date: 2023-10-24 10:45:02 -0400 (Tue, 24 Oct 2023)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    ERROR  
palomino4Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.1 Ventura / arm64see weekly results here

CHECK results for sevenbridges on palomino4


To the developers/maintainers of the sevenbridges package:
- 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 Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: sevenbridges
Version: 1.32.0
Command: F:\biocbuild\bbs-3.18-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:sevenbridges.install-out.txt --library=F:\biocbuild\bbs-3.18-bioc\R\library --no-vignettes --timings sevenbridges_1.32.0.tar.gz
StartedAt: 2024-04-16 05:05:09 -0400 (Tue, 16 Apr 2024)
EndedAt: 2024-04-16 05:08:33 -0400 (Tue, 16 Apr 2024)
EllapsedTime: 203.4 seconds
RetCode: 0
Status:   OK  
CheckDir: sevenbridges.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.18-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:sevenbridges.install-out.txt --library=F:\biocbuild\bbs-3.18-bioc\R\library --no-vignettes --timings sevenbridges_1.32.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'F:/biocbuild/bbs-3.18-bioc/meat/sevenbridges.Rcheck'
* using R version 4.3.3 (2024-02-29 ucrt)
* using platform: x86_64-w64-mingw32 (64-bit)
* R was compiled by
    gcc.exe (GCC) 12.3.0
    GNU Fortran (GCC) 12.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'sevenbridges/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'sevenbridges' version '1.32.0'
* 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 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 startup messages can be suppressed ... 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        48.99   0.47   49.49
Tool-class  13.22   0.25   13.48
link_what   11.44   0.09   13.47
link         9.68   0.13   10.11
convert_app  5.13   0.02    5.16
* 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:
###
###   F:\biocbuild\bbs-3.18-bioc\R\bin\R.exe CMD INSTALL sevenbridges
###
##############################################################################
##############################################################################


* installing to library 'F:/biocbuild/bbs-3.18-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 4.3.3 (2024-02-29 ucrt) -- "Angel Food Cake"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (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 
   2.68    0.29    3.03 

Example timings

sevenbridges.Rcheck/sevenbridges-Ex.timings

nameusersystemelapsed
App-class000
Auth-class0.020.000.01
Binding0.000.010.02
CCBList0.010.000.01
CWL000
CommandInputParameter-class0.020.000.02
CommandInputSchema-class0.010.000.02
CommandLineBinding-class000
CommandLineTool0.020.000.02
CommandOutputBinding-class0.020.000.01
CommandOutputParameter-class0.010.000.02
CommandOutputSchema-class000
DSCList0.020.000.01
Enum0.030.010.05
Expression-class000
ExpressionTool-class0.010.000.02
File-class0.070.000.06
Files-class0.010.000.01
Flow48.99 0.4749.49
Metadata0.120.000.12
Parameter0.050.000.05
Process0.030.000.03
ProcessRequirement0.080.000.08
Schema0.010.000.02
TaskHook0.020.000.02
Tool-class13.22 0.2513.48
Workflow0.030.000.03
WorkflowStep000
addIdNum000
api000
as-methods0.060.000.06
batch000
cli_list_projects000
cli_list_tags000
cli_upload000
convert_app5.130.025.16
cwl-utils0.070.010.09
delete-methods000
download-methods000
get_token000
get_uploader000
input_output_matrix0.070.030.11
link 9.68 0.1310.11
link_what11.44 0.0913.47
project_details000
project_members000
requirements0.080.000.08
response-methods000
sbg_get_env000
sbg_set_env000
set_test_env000
shorthand-cwl0.030.000.03
tag-methods000
test_tool_bunny000
test_tool_cwlrun000
test_tool_rabix000
upload_complete_all000
upload_complete_part0.000.000.06
upload_delete000
upload_info000
upload_info_part000
upload_init0.000.000.07