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This page was generated on 2021-10-15 15:06:57 -0400 (Fri, 15 Oct 2021).
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To the developers/maintainers of the twoddpcr package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/twoddpcr.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1979/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| twoddpcr 1.16.0 (landing page) Anthony Chiu
| nebbiolo1 | Linux (Ubuntu 20.04.2 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: twoddpcr |
| Version: 1.16.0 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:twoddpcr.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings twoddpcr_1.16.0.tar.gz |
| StartedAt: 2021-10-15 01:02:15 -0400 (Fri, 15 Oct 2021) |
| EndedAt: 2021-10-15 01:04:52 -0400 (Fri, 15 Oct 2021) |
| EllapsedTime: 157.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: twoddpcr.Rcheck |
| Warnings: 0 |
##############################################################################
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###
### Running command:
###
### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:twoddpcr.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings twoddpcr_1.16.0.tar.gz
###
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##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.13-bioc/meat/twoddpcr.Rcheck’
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘twoddpcr/DESCRIPTION’ ... OK
* this is package ‘twoddpcr’ version ‘1.16.0’
* 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 ... NOTE
Found the following hidden files and directories:
.git_fetch_output.txt
.git_merge_output.txt
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* 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 LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
knnClassify 9.778 0.146 9.941
ggplot.well 6.819 0.248 7.078
gridClassify 6.129 0.131 6.272
* 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-3.13-bioc/meat/twoddpcr.Rcheck/00check.log’
for details.
twoddpcr.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL twoddpcr ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/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 4.1.1 (2021-08-10) -- "Kick Things"
Copyright (C) 2021 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(twoddpcr)
>
> test_check("twoddpcr")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 155 ]
>
> proc.time()
user system elapsed
8.140 0.416 8.546
twoddpcr.Rcheck/twoddpcr-Ex.timings
| name | user | system | elapsed | |
| amplitudes | 0.486 | 0.031 | 0.517 | |
| basicsSummary | 0.010 | 0.001 | 0.011 | |
| castSummary | 0.026 | 0.005 | 0.031 | |
| classCov | 0.066 | 0.010 | 0.076 | |
| classMeans | 0.064 | 0.008 | 0.072 | |
| classStats | 0.076 | 0.018 | 0.094 | |
| clusterCentres | 0.832 | 0.049 | 0.881 | |
| copiesSummary | 0.006 | 0.001 | 0.008 | |
| ddpcrPlate-class | 0.393 | 0.013 | 0.406 | |
| ddpcrWell-class | 0.029 | 0.001 | 0.030 | |
| ddpcrWell-methods | 0.352 | 0.011 | 0.363 | |
| dropletPlot | 4.054 | 0.190 | 4.266 | |
| exportTable | 0.206 | 0.014 | 0.222 | |
| extractPlateName | 0.000 | 0.000 | 0.001 | |
| extractWellNames | 0.001 | 0.001 | 0.001 | |
| facetPlot | 2.523 | 0.073 | 2.602 | |
| flatPlot | 4.648 | 0.175 | 4.833 | |
| fullCopiesSummary | 0.012 | 0.002 | 0.015 | |
| fullCountsSummary | 0.040 | 0.008 | 0.048 | |
| ggplot.well | 6.819 | 0.248 | 7.078 | |
| gridClassify | 6.129 | 0.131 | 6.272 | |
| heatPlot | 1.967 | 0.056 | 2.026 | |
| kmeansClassify | 1.388 | 0.049 | 1.439 | |
| knnClassify | 9.778 | 0.146 | 9.941 | |
| mahalanobisRain | 0.865 | 0.024 | 0.889 | |
| mutantCopiesSummary | 0.007 | 0.001 | 0.007 | |
| numDroplets | 0.368 | 0.005 | 0.374 | |
| parseClusterCounts | 0.018 | 0.002 | 0.020 | |
| plateClassification | 1.394 | 0.020 | 1.415 | |
| plateClassificationMethod | 0.539 | 0.005 | 0.545 | |
| plateSummary | 2.128 | 0.006 | 2.137 | |
| positiveCounts | 0.034 | 0.001 | 0.034 | |
| readCSVDataFrame | 0.015 | 0.003 | 0.018 | |
| relabelClasses | 0.120 | 0.002 | 0.122 | |
| removeDropletClasses | 0.884 | 0.023 | 0.911 | |
| renormalisePlate | 4.092 | 0.128 | 4.223 | |
| sdRain | 2.801 | 0.032 | 2.835 | |
| setChannelNames | 0.001 | 0.001 | 0.002 | |
| setDropletVolume | 0.000 | 0.000 | 0.001 | |
| sortDataFrame | 0.002 | 0.001 | 0.003 | |
| sortWells | 0.298 | 0.007 | 0.305 | |
| thresholdClassify | 1.946 | 0.025 | 1.973 | |
| wellClassification | 0.023 | 0.001 | 0.024 | |
| wellClassificationMethod | 0.025 | 0.001 | 0.025 | |
| whiteTheme | 1.615 | 0.040 | 1.665 | |
| wildTypeCopiesSummary | 0.007 | 0.002 | 0.009 | |