Back to Multiple platform build/check report for BioC 3.17: simplified long |
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This page was generated on 2023-02-07 11:05:06 -0500 (Tue, 07 Feb 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.1 LTS) | x86_64 | R Under development (unstable) (2023-01-10 r83596) -- "Unsuffered Consequences" | 4483 |
palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2023-01-10 r83596 ucrt) -- "Unsuffered Consequences" | 4249 |
merida1 | macOS 10.14.6 Mojave | x86_64 | R Under development (unstable) (2023-01-10 r83596) -- "Unsuffered Consequences" | 4272 |
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 CAGEfightR package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/CAGEfightR.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 240/2164 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
CAGEfightR 1.19.0 (landing page) Malte Thodberg
| nebbiolo1 | Linux (Ubuntu 22.04.1 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
Package: CAGEfightR |
Version: 1.19.0 |
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:CAGEfightR.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings CAGEfightR_1.19.0.tar.gz |
StartedAt: 2023-02-06 19:27:54 -0500 (Mon, 06 Feb 2023) |
EndedAt: 2023-02-06 19:36:13 -0500 (Mon, 06 Feb 2023) |
EllapsedTime: 499.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: CAGEfightR.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:CAGEfightR.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings CAGEfightR_1.19.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/CAGEfightR.Rcheck’ * using R Under development (unstable) (2023-01-10 r83596) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0 GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0 * running under: Ubuntu 22.04.1 LTS * using session charset: UTF-8 * checking for file ‘CAGEfightR/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘CAGEfightR’ version ‘1.19.0’ * package encoding: UTF-8 * 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 ‘CAGEfightR’ 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 findLinks 6.207 1.226 6.815 * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking running R code from vignettes ... ‘Introduction_to_CAGEfightR.Rmd’ using ‘UTF-8’... OK NONE * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: OK
CAGEfightR.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL CAGEfightR ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/library’ * installing *source* package ‘CAGEfightR’ ... ** 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 (CAGEfightR)
CAGEfightR.Rcheck/CAGEfightR-Ex.timings
name | user | system | elapsed | |
assignGeneID | 2.767 | 0.152 | 2.920 | |
assignMissingID | 2.203 | 0.208 | 2.411 | |
assignTxID | 0.742 | 0.048 | 0.789 | |
assignTxType | 0.000 | 0.000 | 0.001 | |
balanceBC | 0.000 | 0.001 | 0.001 | |
balanceD | 0.000 | 0.001 | 0.001 | |
bwCommonGenome | 0.033 | 0.005 | 0.041 | |
bwGenomeCompatibility | 0.016 | 0.000 | 0.016 | |
bwValid | 0.008 | 0.000 | 0.008 | |
calcBidirectionality | 0.420 | 0.012 | 0.432 | |
calcComposition | 1.459 | 0.072 | 1.531 | |
calcPooled | 0.100 | 0.004 | 0.104 | |
calcShape | 2.215 | 0.148 | 2.363 | |
calcSupport | 0.110 | 0.004 | 0.114 | |
calcTPM | 0.127 | 0.004 | 0.131 | |
calcTotalTags | 0.062 | 0.004 | 0.066 | |
checkCTSSs | 0.264 | 0.020 | 0.284 | |
checkPeaked | 0.061 | 0.000 | 0.061 | |
checkPooled | 0.052 | 0.000 | 0.052 | |
clusterBidirectionally | 0 | 0 | 0 | |
clusterUnidirectionally | 1.258 | 0.052 | 1.310 | |
combineClusters | 0.741 | 0.032 | 0.773 | |
convertBAM2BigWig | 0 | 0 | 0 | |
convertBED2BigWig | 0 | 0 | 0 | |
convertGRanges2GPos | 0.074 | 0.000 | 0.075 | |
exampleDesign | 0.005 | 0.000 | 0.005 | |
findLinks | 6.207 | 1.226 | 6.815 | |
findStretches | 0.366 | 0.044 | 0.410 | |
quantifyCTSSs | 0.000 | 0.000 | 0.001 | |
quantifyCTSSs2 | 0.000 | 0.001 | 0.001 | |
quantifyClusters | 0.382 | 0.045 | 0.426 | |
quantifyGenes | 1.156 | 0.144 | 1.300 | |
quickEnhancers | 0 | 0 | 0 | |
quickGenes | 0 | 0 | 0 | |
quickTSSs | 0 | 0 | 0 | |
shapeEntropy | 0.001 | 0.000 | 0.000 | |
shapeIQR | 0.000 | 0.001 | 0.000 | |
shapeMean | 0.000 | 0.000 | 0.001 | |
shapeMultimodality | 0.000 | 0.000 | 0.001 | |
subsetByBidirectionality | 0.471 | 0.036 | 0.507 | |
subsetByComposition | 1.176 | 0.116 | 1.292 | |
subsetBySupport | 0.069 | 0.010 | 0.079 | |
swapRanges | 0.200 | 0.004 | 0.204 | |
swapScores | 0.106 | 0.016 | 0.122 | |
trackBalance | 0.000 | 0.000 | 0.001 | |
trackCTSS | 3.185 | 0.535 | 3.720 | |
trackClusters | 1.999 | 0.232 | 2.230 | |
trackLinks | 0.820 | 0.380 | 0.964 | |
trimToPeak | 0.725 | 0.068 | 0.793 | |
trimToPercentiles | 1.713 | 0.164 | 1.877 | |
tuneTagClustering | 0.001 | 0.000 | 0.001 | |
utilsAggregateRows | 0.355 | 0.472 | 0.827 | |
utilsDeStrand | 0.106 | 0.012 | 0.119 | |
utilsScoreOverlaps | 0.057 | 0.004 | 0.061 | |
utilsSimplifyTxDb | 0 | 0 | 0 | |