Arnaud Wolfer
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/peakPantheR |
| Branch: RELEASE_3_10 |
| Last Commit: e9614bf |
| Last Changed Date: 2019-10-29 13:12:05 -0400 (Tue, 29 Oct 2019) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2020-04-15 12:16:15 -0400 (Wed, 15 Apr 2020).
| Package 1243/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| peakPantheR 1.0.0 Arnaud Wolfer
| 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: peakPantheR |
| Version: 1.0.0 |
| Command: /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:peakPantheR.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings peakPantheR_1.0.0.tar.gz |
| StartedAt: 2020-04-15 06:55:07 -0400 (Wed, 15 Apr 2020) |
| EndedAt: 2020-04-15 07:07:44 -0400 (Wed, 15 Apr 2020) |
| EllapsedTime: 756.3 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: peakPantheR.Rcheck |
| Warnings: 0 |
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### Running command:
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### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:peakPantheR.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings peakPantheR_1.0.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.10-bioc/meat/peakPantheR.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 ‘peakPantheR/DESCRIPTION’ ... OK
* this is package ‘peakPantheR’ version ‘1.0.0’
* 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 ‘peakPantheR’ 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
peakPantheR_ROIStatistics 13.956 0.140 14.122
peakPantheR_parallelAnnotation 10.016 0.068 10.143
outputAnnotationResult-peakPantheRAnnotation-method 8.588 0.052 8.653
outputAnnotationDiagnostic-peakPantheRAnnotation-method 8.328 0.032 9.316
EICs-peakPantheRAnnotation-method 7.528 0.136 7.735
* 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
peakPantheR.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD INSTALL peakPantheR ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.10-bioc/R/library’ * installing *source* package ‘peakPantheR’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** 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 (peakPantheR)
peakPantheR.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(peakPantheR)
This is peakPantheR version 1.0.0
>
> test_check("peakPantheR")
══ testthat results ═══════════════════════════════════════════════════════════
[ OK: 1245 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ]
>
> proc.time()
user system elapsed
464.888 4.168 636.992
peakPantheR.Rcheck/peakPantheR-Ex.timings
| name | user | system | elapsed | |
| EICs-peakPantheRAnnotation-method | 7.528 | 0.136 | 7.735 | |
| FIR-peakPantheRAnnotation-method | 0.236 | 0.012 | 0.253 | |
| ROI-peakPantheRAnnotation-method | 0.224 | 0.000 | 0.228 | |
| TIC-peakPantheRAnnotation-method | 0.244 | 0.000 | 0.247 | |
| acquisitionTime-peakPantheRAnnotation-method | 0.236 | 0.008 | 0.242 | |
| annotationDiagnosticPlots-peakPantheRAnnotation-method | 0.264 | 0.004 | 0.270 | |
| annotationParamsDiagnostic-peakPantheRAnnotation-method | 0.256 | 0.000 | 0.259 | |
| annotationTable-peakPantheRAnnotation-method | 0.232 | 0.000 | 0.237 | |
| cpdID-peakPantheRAnnotation-method | 0.236 | 0.000 | 0.236 | |
| cpdMetadata-peakPantheRAnnotation-method | 0.248 | 0.004 | 0.259 | |
| cpdName-peakPantheRAnnotation-method | 0.236 | 0.008 | 0.244 | |
| dataPoints-peakPantheRAnnotation-method | 0.252 | 0.008 | 0.259 | |
| filename-peakPantheRAnnotation-method | 0.204 | 0.004 | 0.208 | |
| filepath-peakPantheRAnnotation-method | 0.220 | 0.012 | 0.234 | |
| isAnnotated-peakPantheRAnnotation-method | 0.248 | 0.000 | 0.247 | |
| nbCompounds-peakPantheRAnnotation-method | 0.24 | 0.00 | 0.24 | |
| nbSamples-peakPantheRAnnotation-method | 0.232 | 0.004 | 0.242 | |
| outputAnnotationDiagnostic-peakPantheRAnnotation-method | 8.328 | 0.032 | 9.316 | |
| outputAnnotationResult-peakPantheRAnnotation-method | 8.588 | 0.052 | 8.653 | |
| peakFit-peakPantheRAnnotation-method | 0.232 | 0.008 | 0.261 | |
| peakPantheRAnnotation | 0.196 | 0.000 | 0.196 | |
| peakPantheR_ROIStatistics | 13.956 | 0.140 | 14.122 | |
| peakPantheR_loadAnnotationParamsCSV | 0.008 | 0.000 | 0.008 | |
| peakPantheR_parallelAnnotation | 10.016 | 0.068 | 10.143 | |
| peakPantheR_plotEICFit | 0.552 | 0.008 | 0.566 | |
| peakPantheR_plotPeakwidth | 0.628 | 0.000 | 0.628 | |
| peakPantheR_singleFileSearch | 3.156 | 0.020 | 3.179 | |
| peakTables-peakPantheRAnnotation-method | 0.240 | 0.004 | 0.274 | |
| resetAnnotation-peakPantheRAnnotation-method | 0.264 | 0.000 | 0.263 | |
| resetFIR-peakPantheRAnnotation-method | 0.008 | 0.000 | 0.010 | |
| spectraMetadata-peakPantheRAnnotation-method | 0.228 | 0.004 | 0.232 | |
| uROI-peakPantheRAnnotation-method | 0.144 | 0.008 | 0.151 | |
| uROIExist-peakPantheRAnnotation-method | 0.152 | 0.000 | 0.150 | |
| useFIR-peakPantheRAnnotation-method | 0.236 | 0.008 | 0.250 | |
| useUROI-peakPantheRAnnotation-method | 0.156 | 0.000 | 0.159 | |