Package: INSPEcT

Version: 1.10.0

Command: /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD check --install=check:INSPEcT.install-out.txt --library=/home/biocbuild/bbs-3.7-bioc/R/library --no-vignettes --timings INSPEcT_1.10.0.tar.gz

StartedAt: 2018-10-16 01:18:19 -0400 (Tue, 16 Oct 2018)

EndedAt: 2018-10-16 01:22:43 -0400 (Tue, 16 Oct 2018)

EllapsedTime: 263.9 seconds

RetCode: 0

Status:  OK

CheckDir: INSPEcT.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD check --install=check:INSPEcT.install-out.txt --library=/home/biocbuild/bbs-3.7-bioc/R/library --no-vignettes --timings INSPEcT_1.10.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.7-bioc/meat/INSPEcT.Rcheck’
* using R version 3.5.1 Patched (2018-07-12 r74967)
* 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 ‘1.10.0’
* 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 ... 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 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
modelRates     25.520  0.060  25.601
rocThresholds  20.820  0.032  20.874
compareSteady   6.392  0.256   6.681
makeSimDataset  5.484  0.624   5.810
makeSimModel    5.368  0.592   5.671
makeRPKMs       4.636  0.112   6.282
* 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

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### Running command:
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###   /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD INSTALL INSPEcT
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* installing to library ‘/home/biocbuild/bbs-3.7-bioc/R/library’
* installing *source* package ‘INSPEcT’ ...
** 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
* DONE (INSPEcT)

name	user	system	elapsed
AIC-INSPEcT-method	0.012	0.004	0.024
Extract	0.144	0.008	0.151
INSPEcT_diffsteady-class	2.096	0.040	2.146
chisqmodel	0.024	0.000	0.025
chisqtest	0.008	0.000	0.007
combine	0.112	0.012	0.123
compareSteady	6.392	0.256	6.681
geneClass	0.036	0.000	0.037
getModel	0.008	0.000	0.007
inHeatmap	0.036	0.000	0.039
labeledSF	0.000	0.004	0.006
logLik	0.004	0.000	0.007
makeModelRates	0.516	0.000	0.519
makeRPKMs	4.636	0.112	6.282
makeSimDataset	5.484	0.624	5.810
makeSimModel	5.368	0.592	5.671
modelRates	25.520	0.060	25.601
modelingParams	0.012	0.000	0.013
nGenes	0.008	0.000	0.007
nTpts	0.008	0.000	0.006
newINSPEcT	1.376	0.012	1.388
plotGene	0.032	0.000	0.031
plotMA	1.252	0.028	1.283
ratePvals	0.040	0.004	0.044
ratesFirstGuess	2.044	0.104	2.150
ratesFirstGuessVar	1.344	0.004	1.348
removeModel	0.032	0.004	0.037
rocCurve	1.860	0.028	1.890
rocThresholds	20.820	0.032	20.874
sfPlot	1.292	0.016	1.309
split	0.052	0.000	0.052
testingParams	0.852	0.000	0.857
totalSF	0.008	0.000	0.007
tpts	0.004	0.000	0.006
viewModelRates	0.004	0.004	0.008