Nan Xiao
| Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019) |
| URL: https://git.bioconductor.org/packages/sevenbridges |
| Branch: RELEASE_3_9 |
| Last Commit: 5171efa |
| Last Changed Date: 2019-05-20 15:20:41 -0400 (Mon, 20 May 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 12:56:15 -0400 (Wed, 16 Oct 2019).
| Package 1504/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| sevenbridges 1.14.1 Nan Xiao
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | [ OK ] | OK | |
| Package: sevenbridges |
| Version: 1.14.1 |
| 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_1.14.1.tar.gz |
| StartedAt: 2019-10-16 06:48:53 -0400 (Wed, 16 Oct 2019) |
| EndedAt: 2019-10-16 06:53:37 -0400 (Wed, 16 Oct 2019) |
| EllapsedTime: 283.7 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: sevenbridges.Rcheck |
| Warnings: 0 |
##############################################################################
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### Running 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_1.14.1.tar.gz
###
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##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/sevenbridges.Rcheck’
* using R version 3.6.1 (2019-07-05)
* 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 ‘1.14.1’
* 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 89.757 0.387 90.232
Tool-class 22.567 0.093 22.664
link_what 15.546 0.034 15.923
link 12.948 0.017 13.000
convert_app 9.512 0.019 9.532
* 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
sevenbridges.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL sevenbridges ### ############################################################################## ############################################################################## * 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)
sevenbridges.Rcheck/tests/testthat.Rout
R version 3.6.1 (2019-07-05) -- "Action of the Toes"
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 | WARNINGS: 0 | FAILED: 0 ]
>
> proc.time()
user system elapsed
4.021 0.513 4.556
sevenbridges.Rcheck/sevenbridges-Ex.timings
| name | user | system | elapsed | |
| App-class | 0.001 | 0.000 | 0.000 | |
| Auth-class | 0.009 | 0.001 | 0.011 | |
| Binding | 0.085 | 0.000 | 0.086 | |
| CCBList | 0.024 | 0.000 | 0.024 | |
| CWL | 0.003 | 0.000 | 0.002 | |
| CommandInputParameter-class | 0.031 | 0.000 | 0.031 | |
| CommandInputSchema-class | 0.033 | 0.001 | 0.033 | |
| CommandLineBinding-class | 0.013 | 0.001 | 0.013 | |
| CommandLineTool | 0.029 | 0.001 | 0.029 | |
| CommandOutputBinding-class | 0.015 | 0.001 | 0.015 | |
| CommandOutputParameter-class | 0.035 | 0.001 | 0.036 | |
| CommandOutputSchema-class | 0.019 | 0.000 | 0.021 | |
| DSCList | 0.022 | 0.000 | 0.023 | |
| Enum | 0.043 | 0.001 | 0.045 | |
| Expression-class | 0.016 | 0.000 | 0.016 | |
| ExpressionTool-class | 0.036 | 0.000 | 0.036 | |
| File-class | 0.127 | 0.002 | 0.130 | |
| Files-class | 0.014 | 0.000 | 0.014 | |
| Flow | 89.757 | 0.387 | 90.232 | |
| Metadata | 0.120 | 0.003 | 0.123 | |
| Parameter | 0.065 | 0.002 | 0.066 | |
| Process | 0.057 | 0.001 | 0.058 | |
| ProcessRequirement | 0.092 | 0.001 | 0.094 | |
| Schema | 0.030 | 0.001 | 0.030 | |
| TaskHook | 0.003 | 0.000 | 0.003 | |
| Tool-class | 22.567 | 0.093 | 22.664 | |
| Workflow | 0.031 | 0.000 | 0.031 | |
| WorkflowStep | 0.006 | 0.000 | 0.005 | |
| addIdNum | 0 | 0 | 0 | |
| api | 0 | 0 | 0 | |
| as-methods | 0.077 | 0.002 | 0.078 | |
| batch | 0.001 | 0.000 | 0.001 | |
| cli_list_projects | 0.000 | 0.000 | 0.001 | |
| cli_list_tags | 0 | 0 | 0 | |
| cli_upload | 0.001 | 0.000 | 0.000 | |
| convert_app | 9.512 | 0.019 | 9.532 | |
| cwl-utils | 0.214 | 0.004 | 0.219 | |
| delete-methods | 0.001 | 0.001 | 0.000 | |
| download-methods | 0.000 | 0.001 | 0.001 | |
| get_token | 0.001 | 0.000 | 0.001 | |
| get_uploader | 0.000 | 0.000 | 0.001 | |
| input_output_matrix | 0.180 | 0.005 | 0.183 | |
| link | 12.948 | 0.017 | 13.000 | |
| link_what | 15.546 | 0.034 | 15.923 | |
| project_details | 0.000 | 0.000 | 0.001 | |
| project_members | 0.001 | 0.000 | 0.001 | |
| requirements | 0.097 | 0.001 | 0.099 | |
| response-methods | 0.000 | 0.000 | 0.001 | |
| sbg_get_env | 0.001 | 0.001 | 0.001 | |
| sbg_set_env | 0.000 | 0.000 | 0.001 | |
| set_test_env | 0.001 | 0.000 | 0.001 | |
| shorthand-cwl | 0.052 | 0.001 | 0.053 | |
| tag-methods | 0.001 | 0.000 | 0.001 | |
| test_tool_bunny | 0 | 0 | 0 | |
| test_tool_cwlrun | 0.000 | 0.000 | 0.001 | |
| test_tool_rabix | 0.001 | 0.000 | 0.001 | |
| upload_complete_all | 0 | 0 | 0 | |
| upload_complete_part | 0.000 | 0.000 | 0.001 | |
| upload_delete | 0.001 | 0.000 | 0.001 | |
| upload_info | 0 | 0 | 0 | |
| upload_info_part | 0.000 | 0.000 | 0.001 | |
| upload_init | 0.000 | 0.001 | 0.001 | |