Stefano de Pretis
| Snapshot Date: 2020-01-15 16:46:30 -0500 (Wed, 15 Jan 2020) |
| URL: https://git.bioconductor.org/packages/INSPEcT |
| Branch: master |
| Last Commit: 49df19f |
| Last Changed Date: 2020-01-07 10:14:52 -0500 (Tue, 07 Jan 2020) |
| Back to Multiple platform build/check report for BioC 3.11 |
|
This page was generated on 2020-01-16 13:42:46 -0500 (Thu, 16 Jan 2020).
| Package 845/1818 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| INSPEcT 1.17.8 Stefano de Pretis
| malbec2 | Linux (Ubuntu 18.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | TIMEOUT | skipped | skipped | |||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | [ OK ] | OK | |
| Package: INSPEcT |
| Version: 1.17.8 |
| 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_1.17.8.tar.gz |
| StartedAt: 2020-01-16 05:36:26 -0500 (Thu, 16 Jan 2020) |
| EndedAt: 2020-01-16 05:59:47 -0500 (Thu, 16 Jan 2020) |
| EllapsedTime: 1401.0 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: INSPEcT.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running 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_1.17.8.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.11-bioc/meat/INSPEcT.Rcheck’
* using R Under development (unstable) (2019-12-14 r77572)
* 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 ‘1.17.8’
* 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 ‘INSPEcT’ can be installed ... OK
* checking installed package size ... NOTE
installed size is 7.0Mb
sub-directories of 1Mb or more:
R 1.7Mb
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 (user + system) or elapsed time > 5s
user system elapsed
makeSimDataset 196.910 24.449 183.217
plotMA 91.553 48.319 56.630
INSPEcT_diffsteady-class 83.671 37.568 53.155
compareSteady 81.349 39.453 49.953
quantifyExpressionsFromBAMs 70.645 28.448 99.481
rocThresholds 65.612 0.339 66.519
rocCurve 63.758 0.433 64.333
makeSimModel 62.194 1.351 63.390
newINSPEcT 48.010 14.044 28.639
processingDelay 35.924 6.832 34.050
modelRates 37.665 0.836 38.577
quantifyExpressionsFromTrCounts 31.850 0.218 32.069
makeOscillatorySimModel 15.635 0.201 15.843
compareSteadyNoNascent 13.167 0.503 13.672
inspectFromPCR 9.446 1.004 9.983
* 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-3.11-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/4.0/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 | 0.248 | 0.021 | 0.271 | |
| Extract | 0.545 | 0.006 | 0.552 | |
| INSPEcT_diffsteady-class | 83.671 | 37.568 | 53.155 | |
| calculateRatePvals | 0.433 | 0.065 | 0.499 | |
| chisqmodel | 0.281 | 0.012 | 0.293 | |
| chisqtest | 0.313 | 0.012 | 0.324 | |
| combine | 1.348 | 0.218 | 1.565 | |
| compareSteady | 81.349 | 39.453 | 49.953 | |
| compareSteadyNoNascent | 13.167 | 0.503 | 13.672 | |
| convergence | 0.336 | 0.027 | 0.363 | |
| geneClass | 0.430 | 0.012 | 0.442 | |
| inHeatmap | 0.345 | 0.015 | 0.361 | |
| inspectFromPCR | 9.446 | 1.004 | 9.983 | |
| labeledSF | 0.204 | 0.013 | 0.218 | |
| logLik | 0.197 | 0.007 | 0.205 | |
| makeModelRates | 0.313 | 0.011 | 0.325 | |
| makeOscillatorySimModel | 15.635 | 0.201 | 15.843 | |
| makeSimDataset | 196.910 | 24.449 | 183.217 | |
| makeSimModel | 62.194 | 1.351 | 63.390 | |
| modelRates | 37.665 | 0.836 | 38.577 | |
| modelRatesNF | 3.032 | 0.121 | 3.327 | |
| modelSelection | 0.249 | 0.010 | 0.260 | |
| modelingParams | 0.306 | 0.012 | 0.378 | |
| nGenes | 0.305 | 0.012 | 0.325 | |
| nTpts | 0.256 | 0.009 | 0.265 | |
| newINSPEcT | 48.010 | 14.044 | 28.639 | |
| plotGene | 0.420 | 0.054 | 0.475 | |
| plotMA | 91.553 | 48.319 | 56.630 | |
| processingDelay | 35.924 | 6.832 | 34.050 | |
| quantifyExpressionsFromBAMs | 70.645 | 28.448 | 99.481 | |
| quantifyExpressionsFromTrCounts | 31.850 | 0.218 | 32.069 | |
| ratePvals | 0.323 | 0.025 | 0.349 | |
| ratesFirstGuess | 0.318 | 0.012 | 0.331 | |
| ratesFirstGuessVar | 0.196 | 0.009 | 0.206 | |
| removeModel | 0.358 | 0.008 | 0.367 | |
| rocCurve | 63.758 | 0.433 | 64.333 | |
| rocThresholds | 65.612 | 0.339 | 66.519 | |
| split | 0.565 | 0.032 | 0.598 | |
| tpts | 0.335 | 0.017 | 0.353 | |
| viewConfidenceIntervals | 0.340 | 0.014 | 0.354 | |
| viewModelRates | 0.329 | 0.013 | 0.342 | |