Stefano de Pretis
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/INSPEcT |
| Branch: RELEASE_3_10 |
| Last Commit: 57a0ad7 |
| Last Changed Date: 2020-02-03 09:42:10 -0400 (Mon, 03 Feb 2020) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2020-04-15 12:42:08 -0400 (Wed, 15 Apr 2020).
| Package 848/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| INSPEcT 1.16.3 Stefano de Pretis
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | [ OK ] | OK | |
| Package: INSPEcT |
| Version: 1.16.3 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:INSPEcT.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings INSPEcT_1.16.3.tar.gz |
| StartedAt: 2020-04-15 03:11:30 -0400 (Wed, 15 Apr 2020) |
| EndedAt: 2020-04-15 03:28:42 -0400 (Wed, 15 Apr 2020) |
| EllapsedTime: 1032.3 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: INSPEcT.Rcheck |
| Warnings: 0 |
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:INSPEcT.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings INSPEcT_1.16.3.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.10-bioc/meat/INSPEcT.Rcheck’
* using R version 3.6.3 (2020-02-29)
* using platform: x86_64-apple-darwin15.6.0 (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 ‘1.16.3’
* 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 1.6Mb
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 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 data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
makeSimDataset 149.333 11.538 140.017
plotMA 62.322 31.282 37.658
compareSteady 53.700 21.177 33.462
INSPEcT_diffsteady-class 54.707 16.906 35.118
quantifyExpressionsFromBAMs 55.361 14.120 69.780
rocThresholds 50.459 0.215 51.138
makeSimModel 49.508 0.447 50.414
rocCurve 48.908 0.158 49.501
newINSPEcT 32.922 6.376 19.743
modelRates 27.815 0.239 28.217
processingDelay 23.740 3.122 23.072
quantifyExpressionsFromTrCounts 24.368 0.118 24.745
makeOscillatorySimModel 11.997 0.091 12.139
compareSteadyNoNascent 10.066 0.300 10.404
inspectFromPCR 7.328 0.774 7.914
* 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-3.10-bioc/meat/INSPEcT.Rcheck/00check.log’
for details.
INSPEcT.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL INSPEcT ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/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 | 0.326 | 0.014 | 0.342 | |
| Extract | 0.500 | 0.009 | 0.509 | |
| INSPEcT_diffsteady-class | 54.707 | 16.906 | 35.118 | |
| calculateRatePvals | 1.624 | 0.649 | 0.478 | |
| chisqmodel | 0.267 | 0.009 | 0.275 | |
| chisqtest | 0.265 | 0.007 | 0.273 | |
| combine | 0.882 | 0.097 | 0.985 | |
| compareSteady | 53.700 | 21.177 | 33.462 | |
| compareSteadyNoNascent | 10.066 | 0.300 | 10.404 | |
| convergence | 0.253 | 0.012 | 0.265 | |
| geneClass | 0.323 | 0.005 | 0.329 | |
| inHeatmap | 0.286 | 0.006 | 0.292 | |
| inspectFromPCR | 7.328 | 0.774 | 7.914 | |
| labeledSF | 0.291 | 0.011 | 0.302 | |
| logLik | 0.300 | 0.006 | 0.306 | |
| makeModelRates | 0.279 | 0.007 | 0.287 | |
| makeOscillatorySimModel | 11.997 | 0.091 | 12.139 | |
| makeSimDataset | 149.333 | 11.538 | 140.017 | |
| makeSimModel | 49.508 | 0.447 | 50.414 | |
| modelRates | 27.815 | 0.239 | 28.217 | |
| modelRatesNF | 2.342 | 0.068 | 2.423 | |
| modelSelection | 0.284 | 0.006 | 0.297 | |
| modelingParams | 0.285 | 0.006 | 0.292 | |
| nGenes | 0.237 | 0.005 | 0.243 | |
| nTpts | 0.226 | 0.005 | 0.231 | |
| newINSPEcT | 32.922 | 6.376 | 19.743 | |
| plotGene | 0.343 | 0.028 | 0.374 | |
| plotMA | 62.322 | 31.282 | 37.658 | |
| processingDelay | 23.740 | 3.122 | 23.072 | |
| quantifyExpressionsFromBAMs | 55.361 | 14.120 | 69.780 | |
| quantifyExpressionsFromTrCounts | 24.368 | 0.118 | 24.745 | |
| ratePvals | 0.270 | 0.011 | 0.282 | |
| ratesFirstGuess | 0.270 | 0.007 | 0.279 | |
| ratesFirstGuessVar | 0.260 | 0.006 | 0.265 | |
| removeModel | 0.345 | 0.005 | 0.352 | |
| rocCurve | 48.908 | 0.158 | 49.501 | |
| rocThresholds | 50.459 | 0.215 | 51.138 | |
| split | 0.425 | 0.013 | 0.440 | |
| tpts | 0.278 | 0.006 | 0.284 | |
| viewConfidenceIntervals | 0.291 | 0.007 | 0.301 | |
| viewModelRates | 0.261 | 0.006 | 0.269 | |