Anthony Chiu
| Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019) |
| URL: https://git.bioconductor.org/packages/twoddpcr |
| Branch: RELEASE_3_9 |
| Last Commit: 5bec276 |
| Last Changed Date: 2019-05-02 11:54:05 -0400 (Thu, 02 May 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 12:10:30 -0400 (Wed, 16 Oct 2019).
| Package 1692/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| twoddpcr 1.8.0 Anthony Chiu
| 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: twoddpcr |
| Version: 1.8.0 |
| Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:twoddpcr.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings twoddpcr_1.8.0.tar.gz |
| StartedAt: 2019-10-16 05:37:38 -0400 (Wed, 16 Oct 2019) |
| EndedAt: 2019-10-16 05:39:58 -0400 (Wed, 16 Oct 2019) |
| EllapsedTime: 140.0 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: twoddpcr.Rcheck |
| Warnings: 0 |
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### Running command:
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### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:twoddpcr.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings twoddpcr_1.8.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/twoddpcr.Rcheck’
* using R version 3.6.1 (2019-07-05)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘twoddpcr/DESCRIPTION’ ... OK
* this is package ‘twoddpcr’ version ‘1.8.0’
* 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 ‘twoddpcr’ 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
knnClassify 9.124 0.028 9.152
flatPlot 8.572 0.064 8.636
ggplot.well 8.094 0.056 8.160
renormalisePlate 5.289 0.000 5.291
dropletPlot 5.166 0.040 5.206
* 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
twoddpcr.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL twoddpcr ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’ * installing *source* package ‘twoddpcr’ ... ** using staged installation ** R ** data *** moving datasets to lazyload DB ** 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 (twoddpcr)
twoddpcr.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-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(twoddpcr)
>
> test_check("twoddpcr")
══ testthat results ═══════════════════════════════════════════════════════════
[ OK: 156 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ]
>
> proc.time()
user system elapsed
6.752 0.140 6.877
twoddpcr.Rcheck/twoddpcr-Ex.timings
| name | user | system | elapsed | |
| amplitudes | 0.478 | 0.012 | 0.490 | |
| basicsSummary | 0.006 | 0.000 | 0.006 | |
| castSummary | 0.017 | 0.000 | 0.017 | |
| classCov | 0.046 | 0.008 | 0.054 | |
| classMeans | 0.064 | 0.000 | 0.064 | |
| classStats | 0.063 | 0.004 | 0.067 | |
| clusterCentres | 0.987 | 0.000 | 0.987 | |
| copiesSummary | 0.005 | 0.000 | 0.006 | |
| ddpcrPlate-class | 0.580 | 0.000 | 0.588 | |
| ddpcrWell-class | 0.058 | 0.000 | 0.064 | |
| ddpcrWell-methods | 0.634 | 0.000 | 0.634 | |
| dropletPlot | 5.166 | 0.040 | 5.206 | |
| exportTable | 0.122 | 0.018 | 0.156 | |
| extractPlateName | 0.001 | 0.000 | 0.000 | |
| extractWellNames | 0 | 0 | 0 | |
| facetPlot | 3.107 | 0.032 | 3.140 | |
| flatPlot | 8.572 | 0.064 | 8.636 | |
| fullCopiesSummary | 0.006 | 0.004 | 0.010 | |
| fullCountsSummary | 0.040 | 0.004 | 0.044 | |
| ggplot.well | 8.094 | 0.056 | 8.160 | |
| gridClassify | 3.246 | 0.024 | 3.271 | |
| heatPlot | 2.983 | 0.000 | 2.984 | |
| kmeansClassify | 1.583 | 0.000 | 1.582 | |
| knnClassify | 9.124 | 0.028 | 9.152 | |
| mahalanobisRain | 1.059 | 0.000 | 1.060 | |
| mutantCopiesSummary | 0.004 | 0.000 | 0.004 | |
| numDroplets | 0.406 | 0.000 | 0.406 | |
| parseClusterCounts | 0.008 | 0.004 | 0.012 | |
| plateClassification | 1.503 | 0.000 | 1.503 | |
| plateClassificationMethod | 0.577 | 0.004 | 0.581 | |
| plateSummary | 2.613 | 0.000 | 2.613 | |
| positiveCounts | 0.022 | 0.000 | 0.023 | |
| readCSVDataFrame | 0.011 | 0.000 | 0.011 | |
| relabelClasses | 0.083 | 0.004 | 0.087 | |
| removeDropletClasses | 0.899 | 0.000 | 0.899 | |
| renormalisePlate | 5.289 | 0.000 | 5.291 | |
| sdRain | 4.438 | 0.000 | 4.438 | |
| setChannelNames | 0.001 | 0.000 | 0.001 | |
| setDropletVolume | 0 | 0 | 0 | |
| sortDataFrame | 0.002 | 0.000 | 0.002 | |
| sortWells | 0.506 | 0.000 | 0.505 | |
| thresholdClassify | 2.781 | 0.000 | 2.785 | |
| wellClassification | 0.03 | 0.00 | 0.03 | |
| wellClassificationMethod | 0.030 | 0.000 | 0.031 | |
| whiteTheme | 1.720 | 0.003 | 1.724 | |
| wildTypeCopiesSummary | 0.007 | 0.000 | 0.007 | |