Back to Build/check report for BioC 3.15 |
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This page was generated on 2022-06-27 11:09:58 -0400 (Mon, 27 Jun 2022).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | 4.2.0 (2022-04-22) -- "Vigorous Calisthenics" | 4380 |
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 INSPEcT package: - Please 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 How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 961/2140 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
INSPEcT 1.26.0 (landing page) Stefano de Pretis
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
Package: INSPEcT |
Version: 1.26.0 |
Command: /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD check --install=check:INSPEcT.install-out.txt --library=/home/biocbuild/bbs-3.15-bioc/R/library --no-vignettes --timings INSPEcT_1.26.0.tar.gz |
StartedAt: 2022-06-26 20:20:30 -0400 (Sun, 26 Jun 2022) |
EndedAt: 2022-06-26 20:31:54 -0400 (Sun, 26 Jun 2022) |
EllapsedTime: 684.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: INSPEcT.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD check --install=check:INSPEcT.install-out.txt --library=/home/biocbuild/bbs-3.15-bioc/R/library --no-vignettes --timings INSPEcT_1.26.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.15-bioc/meat/INSPEcT.Rcheck’ * using R version 4.2.0 (2022-04-22) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘INSPEcT/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘INSPEcT’ version ‘1.26.0’ * 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 6.9Mb sub-directories of 1Mb or more: R 1.5Mb data 2.9Mb * 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 ... 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 70.530 0.448 70.981 modelRates 33.627 0.124 33.751 quantifyExpressionsFromBAMs 30.962 0.300 31.267 INSPEcT_diffsteady-class 26.722 0.663 27.421 makeSimModel 23.736 0.080 23.817 plotMA 23.637 0.140 23.778 rocCurve 23.235 0.052 23.287 rocThresholds 23.006 0.044 23.051 compareSteady 22.531 0.172 22.708 quantifyExpressionsFromTrCounts 15.038 0.076 15.114 newINSPEcT 13.743 0.012 13.754 processingDelay 12.986 0.076 13.061 inspectFromPCR 6.199 0.048 6.252 makeOscillatorySimModel 5.712 0.056 5.770 compareSteadyNoNascent 5.324 0.032 5.355 * 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: 2 NOTEs See ‘/home/biocbuild/bbs-3.15-bioc/meat/INSPEcT.Rcheck/00check.log’ for details.
INSPEcT.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD INSTALL INSPEcT ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.15-bioc/R/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 | 1.040 | 0.054 | 1.096 | |
Extract | 0.342 | 0.004 | 0.346 | |
INSPEcT_diffsteady-class | 26.722 | 0.663 | 27.421 | |
calculateRatePvals | 0.207 | 0.008 | 0.216 | |
chisqmodel | 0.179 | 0.000 | 0.179 | |
chisqtest | 0.179 | 0.000 | 0.179 | |
combine | 0.331 | 0.004 | 0.334 | |
compareSteady | 22.531 | 0.172 | 22.708 | |
compareSteadyNoNascent | 5.324 | 0.032 | 5.355 | |
convergence | 0.172 | 0.010 | 0.181 | |
geneClass | 0.202 | 0.010 | 0.212 | |
inHeatmap | 0.216 | 0.000 | 0.215 | |
inspectFromPCR | 6.199 | 0.048 | 6.252 | |
labeledSF | 0.171 | 0.012 | 0.183 | |
logLik | 0.175 | 0.004 | 0.180 | |
makeModelRates | 0.209 | 0.004 | 0.213 | |
makeOscillatorySimModel | 5.712 | 0.056 | 5.770 | |
makeSimDataset | 70.530 | 0.448 | 70.981 | |
makeSimModel | 23.736 | 0.080 | 23.817 | |
modelRates | 33.627 | 0.124 | 33.751 | |
modelRatesNF | 3.907 | 0.020 | 3.926 | |
modelSelection | 0.166 | 0.004 | 0.169 | |
modelingParams | 0.170 | 0.004 | 0.173 | |
nGenes | 0.170 | 0.004 | 0.175 | |
nTpts | 0.176 | 0.000 | 0.177 | |
newINSPEcT | 13.743 | 0.012 | 13.754 | |
plotGene | 0.215 | 0.000 | 0.214 | |
plotMA | 23.637 | 0.140 | 23.778 | |
processingDelay | 12.986 | 0.076 | 13.061 | |
quantifyExpressionsFromBAMs | 30.962 | 0.300 | 31.267 | |
quantifyExpressionsFromTrCounts | 15.038 | 0.076 | 15.114 | |
ratePvals | 0.175 | 0.004 | 0.180 | |
ratesFirstGuess | 0.179 | 0.000 | 0.180 | |
ratesFirstGuessVar | 0.172 | 0.007 | 0.178 | |
removeModel | 0.270 | 0.004 | 0.274 | |
rocCurve | 23.235 | 0.052 | 23.287 | |
rocThresholds | 23.006 | 0.044 | 23.051 | |
split | 0.260 | 0.004 | 0.263 | |
tpts | 0.172 | 0.000 | 0.172 | |
viewConfidenceIntervals | 0.176 | 0.004 | 0.181 | |
viewModelRates | 0.175 | 0.000 | 0.175 | |