BioC 3.5: CHECK report for INSPEcT on toluca2
This page was generated on 2017-04-23 14:40:15 -0400 (Sun, 23 Apr 2017).
INSPEcT 1.5.5 Stefano de Pretis
Snapshot Date: 2017-04-22 17:18:01 -0400 (Sat, 22 Apr 2017) | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/INSPEcT | Last Changed Rev: 128636 / Revision: 129046 | Last Changed Date: 2017-04-13 04:01:44 -0400 (Thu, 13 Apr 2017) |
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | NotNeeded | OK | OK | | |
tokay2 | Windows Server 2012 R2 Standard / x64 | NotNeeded | OK | OK | OK | |
toluca2 | Mac OS X Mavericks (10.9.5) / x86_64 | NotNeeded | OK | [ OK ] | OK | |
veracruz2 | OS X 10.11.6 El Capitan / x86_64 | NotNeeded | OK | OK | OK | |
Summary
Package: INSPEcT |
Version: 1.5.5 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings INSPEcT_1.5.5.tar.gz |
StartedAt: 2017-04-23 05:31:34 -0400 (Sun, 23 Apr 2017) |
EndedAt: 2017-04-23 05:38:28 -0400 (Sun, 23 Apr 2017) |
EllapsedTime: 414.4 seconds |
RetCode: 0 |
Status: OK |
CheckDir: INSPEcT.Rcheck |
Warnings: 0 |
Command output
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings INSPEcT_1.5.5.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.5-bioc/meat/INSPEcT.Rcheck’
* using R Under development (unstable) (2017-02-15 r72187)
* using platform: x86_64-apple-darwin13.4.0 (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 ‘1.5.5’
* 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 ... 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 loading without being on the library search path ... 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 sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
modelRates 48.708 0.196 49.400
rocThresholds 38.528 0.132 38.970
makeSimDataset 11.121 0.615 18.473
makeSimModel 9.566 0.593 17.630
compareSteady 9.667 0.131 9.816
makeRPKMs 6.749 0.440 7.664
* 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: OK
INSPEcT.Rcheck/00install.out:
* installing *source* package ‘INSPEcT’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (INSPEcT)
INSPEcT.Rcheck/INSPEcT-Ex.timings:
name | user | system | elapsed
|
AIC-INSPEcT-method | 0.010 | 0.005 | 0.015 |
|
Extract | 0.170 | 0.006 | 0.176 |
|
INSPEcT_diffsteady-class | 2.641 | 0.078 | 2.725 |
|
chisqmodel | 0.100 | 0.017 | 0.117 |
|
chisqtest | 0.010 | 0.015 | 0.024 |
|
combine | 0.395 | 0.066 | 0.461 |
|
compareSteady | 9.667 | 0.131 | 9.816 |
|
geneClass | 0.191 | 0.016 | 0.206 |
|
getModel | 0.009 | 0.015 | 0.024 |
|
inHeatmap | 0.242 | 0.018 | 0.262 |
|
labeledSF | 0.009 | 0.017 | 0.026 |
|
logLik | 0.011 | 0.017 | 0.028 |
|
makeModelRates | 0.961 | 0.038 | 1.001 |
|
makeRPKMs | 6.749 | 0.440 | 7.664 |
|
makeSimDataset | 11.121 | 0.615 | 18.473 |
|
makeSimModel | 9.566 | 0.593 | 17.630 |
|
modelRates | 48.708 | 0.196 | 49.400 |
|
modelingParams | 0.017 | 0.007 | 0.024 |
|
nGenes | 0.009 | 0.004 | 0.014 |
|
nTpts | 0.008 | 0.005 | 0.012 |
|
newINSPEcT | 2.622 | 0.020 | 2.652 |
|
plotGene | 0.040 | 0.005 | 0.044 |
|
plotMA | 1.634 | 0.080 | 1.742 |
|
ratePvals | 0.075 | 0.016 | 0.091 |
|
ratesFirstGuess | 2.624 | 0.055 | 2.689 |
|
ratesFirstGuessVar | 2.683 | 0.021 | 2.718 |
|
removeModel | 0.091 | 0.003 | 0.096 |
|
rocCurve | 3.753 | 0.079 | 3.890 |
|
rocThresholds | 38.528 | 0.132 | 38.970 |
|
sfPlot | 2.786 | 0.023 | 2.829 |
|
split | 0.080 | 0.005 | 0.089 |
|
testingParams | 1.696 | 0.008 | 1.717 |
|
totalSF | 0.009 | 0.004 | 0.013 |
|
tpts | 0.009 | 0.004 | 0.013 |
|
viewModelRates | 0.010 | 0.004 | 0.013 |
|