Nan Xiao
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/sevenbridges |
| Branch: RELEASE_3_10 |
| Last Commit: fe93e09 |
| Last Changed Date: 2020-03-26 16:04:53 -0400 (Thu, 26 Mar 2020) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2020-04-15 12:10:26 -0400 (Wed, 15 Apr 2020).
| Package 1574/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| sevenbridges 1.16.1 Nan Xiao
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | [ OK ] | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: sevenbridges |
| Version: 1.16.1 |
| Command: /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:sevenbridges.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings sevenbridges_1.16.1.tar.gz |
| StartedAt: 2020-04-15 03:15:07 -0400 (Wed, 15 Apr 2020) |
| EndedAt: 2020-04-15 03:18:31 -0400 (Wed, 15 Apr 2020) |
| EllapsedTime: 204.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: sevenbridges.Rcheck |
| Warnings: 0 |
##############################################################################
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###
### Running command:
###
### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:sevenbridges.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings sevenbridges_1.16.1.tar.gz
###
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##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.10-bioc/meat/sevenbridges.Rcheck’
* using R version 3.6.3 (2020-02-29)
* 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 ‘1.16.1’
* 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 65.064 0.032 65.267
Tool-class 20.204 0.012 20.502
link_what 10.352 0.000 10.384
link 9.092 0.008 9.166
convert_app 7.872 0.000 7.908
* 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: ### ### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD INSTALL sevenbridges ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.10-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)
sevenbridges.Rcheck/tests/testthat.Rout
R version 3.6.3 (2020-02-29) -- "Holding the Windsock"
Copyright (C) 2020 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 | WARNINGS: 0 | FAILED: 0 ]
>
> proc.time()
user system elapsed
2.888 0.112 3.006
sevenbridges.Rcheck/sevenbridges-Ex.timings
| name | user | system | elapsed | |
| App-class | 0 | 0 | 0 | |
| Auth-class | 0.02 | 0.00 | 0.02 | |
| Binding | 0.048 | 0.000 | 0.050 | |
| CCBList | 0.024 | 0.000 | 0.023 | |
| CWL | 0.000 | 0.000 | 0.002 | |
| CommandInputParameter-class | 0.036 | 0.000 | 0.035 | |
| CommandInputSchema-class | 0.020 | 0.000 | 0.021 | |
| CommandLineBinding-class | 0.008 | 0.000 | 0.006 | |
| CommandLineTool | 0.020 | 0.000 | 0.022 | |
| CommandOutputBinding-class | 0.004 | 0.000 | 0.008 | |
| CommandOutputParameter-class | 0.012 | 0.000 | 0.014 | |
| CommandOutputSchema-class | 0.016 | 0.000 | 0.014 | |
| DSCList | 0.016 | 0.000 | 0.019 | |
| Enum | 0.024 | 0.000 | 0.023 | |
| Expression-class | 0.008 | 0.000 | 0.007 | |
| ExpressionTool-class | 0.020 | 0.000 | 0.022 | |
| File-class | 0.076 | 0.000 | 0.074 | |
| Files-class | 0.008 | 0.000 | 0.007 | |
| Flow | 65.064 | 0.032 | 65.267 | |
| Metadata | 0.124 | 0.000 | 0.123 | |
| Parameter | 0.052 | 0.000 | 0.050 | |
| Process | 0.068 | 0.000 | 0.068 | |
| ProcessRequirement | 0.092 | 0.000 | 0.091 | |
| Schema | 0.024 | 0.000 | 0.024 | |
| TaskHook | 0.004 | 0.000 | 0.003 | |
| Tool-class | 20.204 | 0.012 | 20.502 | |
| Workflow | 0.040 | 0.000 | 0.038 | |
| WorkflowStep | 0.004 | 0.004 | 0.007 | |
| addIdNum | 0 | 0 | 0 | |
| api | 0 | 0 | 0 | |
| as-methods | 0.080 | 0.004 | 0.081 | |
| batch | 0 | 0 | 0 | |
| cli_list_projects | 0 | 0 | 0 | |
| cli_list_tags | 0 | 0 | 0 | |
| cli_upload | 0 | 0 | 0 | |
| convert_app | 7.872 | 0.000 | 7.908 | |
| cwl-utils | 0.164 | 0.000 | 0.176 | |
| delete-methods | 0 | 0 | 0 | |
| download-methods | 0 | 0 | 0 | |
| get_token | 0 | 0 | 0 | |
| get_uploader | 0 | 0 | 0 | |
| input_output_matrix | 0.156 | 0.004 | 0.158 | |
| link | 9.092 | 0.008 | 9.166 | |
| link_what | 10.352 | 0.000 | 10.384 | |
| project_details | 0 | 0 | 0 | |
| project_members | 0 | 0 | 0 | |
| requirements | 0.076 | 0.000 | 0.075 | |
| response-methods | 0 | 0 | 0 | |
| sbg_get_env | 0 | 0 | 0 | |
| sbg_set_env | 0 | 0 | 0 | |
| set_test_env | 0.000 | 0.000 | 0.001 | |
| shorthand-cwl | 0.024 | 0.000 | 0.023 | |
| tag-methods | 0 | 0 | 0 | |
| test_tool_bunny | 0 | 0 | 0 | |
| test_tool_cwlrun | 0 | 0 | 0 | |
| test_tool_rabix | 0 | 0 | 0 | |
| upload_complete_all | 0.000 | 0.000 | 0.001 | |
| upload_complete_part | 0 | 0 | 0 | |
| upload_delete | 0 | 0 | 0 | |
| upload_info | 0 | 0 | 0 | |
| upload_info_part | 0 | 0 | 0 | |
| upload_init | 0 | 0 | 0 | |