Back to Multiple platform build/check report for BioC 3.19: simplified long |
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This page was generated on 2024-06-28 17:43 -0400 (Fri, 28 Jun 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4760 |
palomino3 | Windows Server 2022 Datacenter | x64 | 4.4.0 (2024-04-24 ucrt) -- "Puppy Cup" | 4494 |
merida1 | macOS 12.7.4 Monterey | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4508 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4466 |
palomino7 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4362 |
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 |
Package 1040/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
INSPEcT 1.34.0 (landing page) Stefano de Pretis
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
merida1 | macOS 12.7.4 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | ![]() | ||||||||
palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
To the developers/maintainers of the INSPEcT package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/INSPEcT.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
Package: INSPEcT |
Version: 1.34.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:INSPEcT.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings INSPEcT_1.34.0.tar.gz |
StartedAt: 2024-06-27 06:15:43 -0400 (Thu, 27 Jun 2024) |
EndedAt: 2024-06-27 06:51:53 -0400 (Thu, 27 Jun 2024) |
EllapsedTime: 2169.4 seconds |
RetCode: 0 |
Status: OK |
CheckDir: INSPEcT.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:INSPEcT.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings INSPEcT_1.34.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.19-bioc/meat/INSPEcT.Rcheck’ * using R version 4.4.0 (2024-04-24) * using platform: x86_64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Monterey 12.7.4 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘INSPEcT/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘INSPEcT’ version ‘1.34.0’ * 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 ‘INSPEcT’ can be installed ... OK * checking installed package size ... NOTE installed size is 7.1Mb sub-directories of 1Mb or more: R 1.8Mb data 2.8Mb * 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 code 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 ... NOTE output_pars: no visible global function definition for ‘plot.new’ plotSingleRNADynamic: no visible global function definition for ‘lines’ Undefined global functions or variables: lines plot.new Consider adding importFrom("graphics", "lines", "plot.new") to your NAMESPACE file. * 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 (user + system) or elapsed time > 5s user system elapsed makeSimDataset 239.104 1.668 289.151 modelRates 106.543 0.595 123.195 makeSimModel 81.997 0.534 92.648 rocCurve 81.303 0.620 96.882 rocThresholds 80.079 0.518 97.232 quantifyExpressionsFromBAMs 74.424 5.619 93.692 INSPEcT_diffsteady-class 75.187 0.968 95.430 plotMA 68.762 0.451 79.659 compareSteady 68.181 0.562 83.689 newINSPEcT 42.925 0.294 49.817 quantifyExpressionsFromTrCounts 36.743 0.315 42.639 processingDelay 36.419 0.322 42.214 makeOscillatorySimModel 19.788 0.201 23.900 inspectFromPCR 18.867 0.140 22.772 compareSteadyNoNascent 14.598 0.111 17.609 modelRatesNF 11.979 0.239 13.535 * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 2 NOTEs See ‘/Users/biocbuild/bbs-3.19-bioc/meat/INSPEcT.Rcheck/00check.log’ for details.
INSPEcT.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL INSPEcT ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library’ * installing *source* package ‘INSPEcT’ ... ** using staged installation ** R ** data ** 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 (INSPEcT)
INSPEcT.Rcheck/INSPEcT-Ex.timings
name | user | system | elapsed | |
AIC-INSPEcT-method | 0.359 | 0.020 | 0.512 | |
Extract | 0.842 | 0.054 | 1.145 | |
INSPEcT_diffsteady-class | 75.187 | 0.968 | 95.430 | |
calculateRatePvals | 0.476 | 0.011 | 0.584 | |
chisqmodel | 0.360 | 0.017 | 0.469 | |
chisqtest | 0.358 | 0.022 | 0.481 | |
combine | 0.809 | 0.024 | 1.017 | |
compareSteady | 68.181 | 0.562 | 83.689 | |
compareSteadyNoNascent | 14.598 | 0.111 | 17.609 | |
convergence | 0.351 | 0.009 | 0.432 | |
geneClass | 0.481 | 0.020 | 0.605 | |
inHeatmap | 0.438 | 0.017 | 0.544 | |
inspectFromPCR | 18.867 | 0.140 | 22.772 | |
labeledSF | 0.360 | 0.016 | 0.445 | |
logLik | 0.357 | 0.019 | 0.464 | |
makeModelRates | 0.488 | 0.023 | 0.609 | |
makeOscillatorySimModel | 19.788 | 0.201 | 23.900 | |
makeSimDataset | 239.104 | 1.668 | 289.151 | |
makeSimModel | 81.997 | 0.534 | 92.648 | |
modelRates | 106.543 | 0.595 | 123.195 | |
modelRatesNF | 11.979 | 0.239 | 13.535 | |
modelSelection | 0.352 | 0.018 | 0.420 | |
modelingParams | 0.354 | 0.011 | 0.412 | |
nGenes | 0.358 | 0.016 | 0.411 | |
nTpts | 0.352 | 0.015 | 0.413 | |
newINSPEcT | 42.925 | 0.294 | 49.817 | |
plotGene | 0.452 | 0.018 | 0.558 | |
plotMA | 68.762 | 0.451 | 79.659 | |
processingDelay | 36.419 | 0.322 | 42.214 | |
quantifyExpressionsFromBAMs | 74.424 | 5.619 | 93.692 | |
quantifyExpressionsFromTrCounts | 36.743 | 0.315 | 42.639 | |
ratePvals | 0.354 | 0.008 | 0.395 | |
ratesFirstGuess | 0.355 | 0.013 | 0.421 | |
ratesFirstGuessVar | 0.356 | 0.014 | 0.439 | |
removeModel | 0.604 | 0.009 | 0.720 | |
rocCurve | 81.303 | 0.620 | 96.882 | |
rocThresholds | 80.079 | 0.518 | 97.232 | |
split | 0.585 | 0.008 | 0.703 | |
tpts | 0.352 | 0.006 | 0.408 | |
viewConfidenceIntervals | 0.353 | 0.020 | 0.457 | |
viewModelRates | 0.352 | 0.010 | 0.428 | |