Bruno Contrino
| Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019) |
| URL: https://git.bioconductor.org/packages/Doscheda |
| Branch: master |
| Last Commit: 75ba196 |
| Last Changed Date: 2019-01-04 13:30:08 -0400 (Fri, 04 Jan 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-04-09 13:18:51 -0400 (Tue, 09 Apr 2019).
| Package 451/1703 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| Doscheda 1.5.1 Bruno Contrino
| 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 | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
| Package: Doscheda |
| Version: 1.5.1 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:Doscheda.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings Doscheda_1.5.1.tar.gz |
| StartedAt: 2019-04-09 01:30:53 -0400 (Tue, 09 Apr 2019) |
| EndedAt: 2019-04-09 01:36:19 -0400 (Tue, 09 Apr 2019) |
| EllapsedTime: 325.7 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: Doscheda.Rcheck |
| Warnings: 0 |
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:Doscheda.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings Doscheda_1.5.1.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/Doscheda.Rcheck’
* using R Under development (unstable) (2019-03-18 r76245)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Doscheda/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘Doscheda’ version ‘1.5.1’
* 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 ‘Doscheda’ 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
fitModel-methods 44.236 3.636 51.841
runDoscheda 37.488 0.486 41.375
pcaPlot-methods 7.202 0.237 11.027
runNormalisation-methods 4.866 1.321 8.068
corrPlot-methods 3.707 0.229 6.122
meanSdPlot-methods 3.258 0.120 5.066
densityPlot-methods 3.118 0.117 5.154
volcanoPlot-methods 3.014 0.107 5.124
* 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
Doscheda.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL Doscheda ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’ * installing *source* package ‘Doscheda’ ... ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading in method for ‘getInput’ with signature ‘"ChemoProtSet"’: no definition for class “ChemoProtSet” in method for ‘getNorm’ with signature ‘"ChemoProtSet"’: no definition for class “ChemoProtSet” in method for ‘getFinal’ with signature ‘"ChemoProtSet"’: no definition for class “ChemoProtSet” in method for ‘getParameters’ with signature ‘"ChemoProtSet"’: no definition for class “ChemoProtSet” in method for ‘getDatasets’ with signature ‘"ChemoProtSet"’: no definition for class “ChemoProtSet” in method for ‘boxplot’ with signature ‘"ChemoProtSet"’: no definition for class “ChemoProtSet” in method for ‘corrPlot’ with signature ‘"ChemoProtSet"’: no definition for class “ChemoProtSet” in method for ‘densityPlot’ with signature ‘"ChemoProtSet"’: no definition for class “ChemoProtSet” Creating a new generic function for ‘meanSdPlot’ in package ‘Doscheda’ ** 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 (Doscheda)
Doscheda.Rcheck/tests/testthat.Rout
R Under development (unstable) (2019-03-18 r76245) -- "Unsuffered Consequences"
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(Doscheda)
>
> test_check("Doscheda")
══ testthat results ═══════════════════════════════════════════════════════════
OK: 1 SKIPPED: 0 FAILED: 0
>
> proc.time()
user system elapsed
9.210 1.043 12.463
Doscheda.Rcheck/Doscheda-Ex.timings
| name | user | system | elapsed | |
| corrPlot-methods | 3.707 | 0.229 | 6.122 | |
| densityPlot-methods | 3.118 | 0.117 | 5.154 | |
| doschedaData | 0.054 | 0.010 | 0.064 | |
| fitModel-methods | 44.236 | 3.636 | 51.841 | |
| getDatasets-methods | 0.001 | 0.001 | 0.001 | |
| getFinal-methods | 0.001 | 0.001 | 0.002 | |
| getInput-methods | 0.000 | 0.000 | 0.001 | |
| getNorm-methods | 0.000 | 0.000 | 0.001 | |
| getParameters-methods | 0.001 | 0.001 | 0.001 | |
| makeReport | 0.000 | 0.000 | 0.001 | |
| meanSdPlot-methods | 3.258 | 0.120 | 5.066 | |
| pcaPlot-methods | 7.202 | 0.237 | 11.027 | |
| processedExample | 0.110 | 0.015 | 0.125 | |
| removePeptides-methods | 0.001 | 0.000 | 0.002 | |
| replicatePlot-methods | 2.716 | 0.100 | 4.535 | |
| runDoscheda | 37.488 | 0.486 | 41.375 | |
| runNormalisation-methods | 4.866 | 1.321 | 8.068 | |
| setData-methods | 1.718 | 1.057 | 2.794 | |
| setParameters-methods | 0.003 | 0.001 | 0.005 | |
| volcanoPlot-methods | 3.014 | 0.107 | 5.124 | |