Zheng Wei
| Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 2022) |
| git_url: https://git.bioconductor.org/packages/pipeFrame |
| git_branch: RELEASE_3_14 |
| git_last_commit: 8a2b23e |
| git_last_commit_date: 2021-10-26 12:51:30 -0400 (Tue, 26 Oct 2021) |
| Back to Multiple platform build/check report for BioC 3.14 |
|
This page was generated on 2022-04-13 12:08:32 -0400 (Wed, 13 Apr 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4324 |
| tokay2 | Windows Server 2012 R2 Standard | x64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4077 |
| machv2 | macOS 10.14.6 Mojave | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4137 |
| 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 | ||||
|
To the developers/maintainers of the pipeFrame package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/pipeFrame.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. |
| Package 1423/2083 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| pipeFrame 1.10.0 (landing page) Zheng Wei
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: pipeFrame |
| Version: 1.10.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:pipeFrame.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings pipeFrame_1.10.0.tar.gz |
| StartedAt: 2022-04-12 16:47:48 -0400 (Tue, 12 Apr 2022) |
| EndedAt: 2022-04-12 16:53:24 -0400 (Tue, 12 Apr 2022) |
| EllapsedTime: 335.3 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: pipeFrame.Rcheck |
| Warnings: 0 |
##############################################################################
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###
### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:pipeFrame.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings pipeFrame_1.10.0.tar.gz
###
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##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.14-bioc/meat/pipeFrame.Rcheck’
* using R version 4.1.3 (2022-03-10)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘pipeFrame/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘pipeFrame’ version ‘1.10.0’
* 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 ‘pipeFrame’ 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 ... NOTE
Namespace in Imports field not imported from: ‘rmarkdown’
All declared Imports should be used.
* 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
Step-class 10.335 0.838 11.236
* 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: 1 NOTE
See
‘/Users/biocbuild/bbs-3.14-bioc/meat/pipeFrame.Rcheck/00check.log’
for details.
pipeFrame.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL pipeFrame ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/library’ * installing *source* package ‘pipeFrame’ ... ** 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 (pipeFrame)
pipeFrame.Rcheck/tests/testthat.Rout
R version 4.1.3 (2022-03-10) -- "One Push-Up"
Copyright (C) 2022 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(pipeFrame)
>
> test_check("pipeFrame")
[1] "2022-04-12 16:53:10 EDT"
[1] "2022-04-12 16:53:10 EDT"
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[1] "2022-04-12 16:53:11 EDT"
[1] "/Users/biocbuild/bbs-3.14-bioc/meat/pipeFrame.Rcheck/tests/testthat/testJobName/Step_01_pipe_OverlappedRandomRegion/test.bed"
[1] "2022-04-12 16:53:11 EDT"
[1] "2022-04-12 16:53:11 EDT"
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[1] "/Users/biocbuild/bbs-3.14-bioc/meat/pipeFrame.Rcheck/tests/testthat/testJobName/Step_00_pipe_RandomRegionOnGenome/random.bed"
[1] "2022-04-12 16:53:11 EDT"
[1] "2022-04-12 16:53:11 EDT"
[1] "/Users/biocbuild/bbs-3.14-bioc/meat/pipeFrame.Rcheck/tests/testthat/testJobName/Step_01_pipe_OverlappedRandomRegion/test.bed"
[1] "2022-04-12 16:53:14 EDT"
[1] "2022-04-12 16:53:14 EDT"
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[ FAIL 0 | WARN 46 | SKIP 0 | PASS 29 ]
[ FAIL 0 | WARN 46 | SKIP 0 | PASS 29 ]
>
> proc.time()
user system elapsed
26.913 1.469 28.449
pipeFrame.Rcheck/pipeFrame-Ex.timings
| name | user | system | elapsed | |
| Step-class | 10.335 | 0.838 | 11.236 | |
| Utils | 0.004 | 0.002 | 0.006 | |
| getObjsInPipe | 0.017 | 0.007 | 0.024 | |
| graphMng | 0.177 | 0.021 | 0.198 | |
| ignoreCheck | 0.000 | 0.000 | 0.001 | |
| initPipeFrame | 0.001 | 0.000 | 0.001 | |
| loadConfig | 0.003 | 0.001 | 0.003 | |
| loadStep | 0.002 | 0.001 | 0.003 | |
| runWithFinishCheck | 0.001 | 0.001 | 0.002 | |
| setGenome | 0.000 | 0.000 | 0.001 | |
| setJobName | 0.001 | 0.000 | 0.001 | |
| setPipeName | 0.000 | 0.000 | 0.001 | |
| setRefDir | 0.000 | 0.000 | 0.001 | |
| setThreads | 0.004 | 0.006 | 0.010 | |
| setTmpDir | 0.000 | 0.000 | 0.001 | |