| Back to Build/check report for BioC 3.18: simplified long |
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This page was generated on 2023-06-06 11:00:44 -0000 (Tue, 06 Jun 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.3.0 (2023-04-21) -- "Already Tomorrow" | 4366 |
| 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 twoddpcr package: - 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 Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details. |
| Package 2129/2199 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| twoddpcr 1.25.0 (landing page) Anthony Chiu
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | |||||||||
| Package: twoddpcr |
| Version: 1.25.0 |
| Command: /home/biocbuild/R/R-4.3.0/bin/R CMD check --install=check:twoddpcr.install-out.txt --library=/home/biocbuild/R/R-4.3.0/site-library --timings twoddpcr_1.25.0.tar.gz |
| StartedAt: 2023-06-06 09:03:32 -0000 (Tue, 06 Jun 2023) |
| EndedAt: 2023-06-06 09:09:19 -0000 (Tue, 06 Jun 2023) |
| EllapsedTime: 347.5 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: twoddpcr.Rcheck |
| Warnings: 0 |
##############################################################################
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###
### Running command:
###
### /home/biocbuild/R/R-4.3.0/bin/R CMD check --install=check:twoddpcr.install-out.txt --library=/home/biocbuild/R/R-4.3.0/site-library --timings twoddpcr_1.25.0.tar.gz
###
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##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.18-bioc/meat/twoddpcr.Rcheck’
* using R version 4.3.0 (2023-04-21)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
gcc (GCC) 10.3.1
GNU Fortran (GCC) 10.3.1
* running under: openEuler 22.03 (LTS-SP1)
* using session charset: UTF-8
* checking for file ‘twoddpcr/DESCRIPTION’ ... OK
* this is package ‘twoddpcr’ version ‘1.25.0’
* 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 loading without being on the library search path ... 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 ... NOTE
S3 methods shown with full name in documentation object 'ggplot.well':
‘ggplot.well’ ‘ggplot.plate’
The \usage entries for S3 methods should use the \method markup and not
their full name.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* 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 17.657 0.060 17.741
ggplot.well 5.719 0.091 5.818
* 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 ...
‘twoddpcr.Rmd’ using ‘UTF-8’... OK
NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: 1 NOTE
See
‘/home/biocbuild/bbs-3.18-bioc/meat/twoddpcr.Rcheck/00check.log’
for details.
twoddpcr.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R-4.3.0/bin/R CMD INSTALL twoddpcr ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.3.0/site-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 4.3.0 (2023-04-21) -- "Already Tomorrow"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-unknown-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")
[ FAIL 0 | WARN 2 | SKIP 0 | PASS 155 ]
[ FAIL 0 | WARN 2 | SKIP 0 | PASS 155 ]
>
> proc.time()
user system elapsed
7.786 0.220 8.008
twoddpcr.Rcheck/twoddpcr-Ex.timings
| name | user | system | elapsed | |
| amplitudes | 0.423 | 0.004 | 0.427 | |
| basicsSummary | 0.006 | 0.000 | 0.007 | |
| castSummary | 0.024 | 0.000 | 0.023 | |
| classCov | 0.075 | 0.000 | 0.075 | |
| classMeans | 0.075 | 0.011 | 0.085 | |
| classStats | 0.101 | 0.000 | 0.101 | |
| clusterCentres | 0.936 | 0.000 | 0.938 | |
| copiesSummary | 0.007 | 0.000 | 0.007 | |
| ddpcrPlate-class | 0.324 | 0.004 | 0.329 | |
| ddpcrWell-class | 0.027 | 0.000 | 0.028 | |
| ddpcrWell-methods | 0.303 | 0.000 | 0.303 | |
| dropletPlot | 4.244 | 0.408 | 4.657 | |
| exportTable | 0.177 | 0.016 | 0.195 | |
| extractPlateName | 0 | 0 | 0 | |
| extractWellNames | 0 | 0 | 0 | |
| facetPlot | 2.356 | 0.060 | 2.419 | |
| flatPlot | 4.434 | 0.079 | 4.519 | |
| fullCopiesSummary | 0.009 | 0.001 | 0.010 | |
| fullCountsSummary | 0.034 | 0.004 | 0.038 | |
| ggplot.well | 5.719 | 0.091 | 5.818 | |
| gridClassify | 4.392 | 0.052 | 4.450 | |
| heatPlot | 1.754 | 0.028 | 1.784 | |
| kmeansClassify | 1.524 | 0.008 | 1.534 | |
| knnClassify | 17.657 | 0.060 | 17.741 | |
| mahalanobisRain | 1.271 | 0.032 | 1.303 | |
| mutantCopiesSummary | 0.005 | 0.000 | 0.005 | |
| numDroplets | 0.308 | 0.000 | 0.309 | |
| parseClusterCounts | 0.015 | 0.000 | 0.016 | |
| plateClassification | 1.308 | 0.008 | 1.319 | |
| plateClassificationMethod | 0.64 | 0.00 | 0.64 | |
| plateSummary | 1.998 | 0.000 | 2.000 | |
| positiveCounts | 0.030 | 0.000 | 0.029 | |
| readCSVDataFrame | 0.015 | 0.000 | 0.015 | |
| relabelClasses | 0.100 | 0.000 | 0.099 | |
| removeDropletClasses | 1.062 | 0.000 | 1.063 | |
| renormalisePlate | 4.066 | 0.012 | 4.083 | |
| sdRain | 3.311 | 0.012 | 3.325 | |
| setChannelNames | 0.002 | 0.000 | 0.002 | |
| setDropletVolume | 0.000 | 0.000 | 0.001 | |
| sortDataFrame | 0.003 | 0.000 | 0.003 | |
| sortWells | 0.313 | 0.016 | 0.329 | |
| thresholdClassify | 1.993 | 0.016 | 2.011 | |
| wellClassification | 0.017 | 0.004 | 0.021 | |
| wellClassificationMethod | 0.023 | 0.000 | 0.023 | |
| whiteTheme | 1.131 | 0.012 | 1.144 | |
| wildTypeCopiesSummary | 0.005 | 0.000 | 0.005 | |