Package: PrecisionTrialDrawer

Version: 0.99.17

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:PrecisionTrialDrawer.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings PrecisionTrialDrawer_0.99.17.tar.gz

StartedAt: 2019-04-09 04:31:32 -0400 (Tue, 09 Apr 2019)

EndedAt: 2019-04-09 04:35:53 -0400 (Tue, 09 Apr 2019)

EllapsedTime: 260.4 seconds

RetCode: 0

Status:  OK

CheckDir: PrecisionTrialDrawer.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:PrecisionTrialDrawer.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings PrecisionTrialDrawer_0.99.17.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/PrecisionTrialDrawer.Rcheck’
* using R Under development (unstable) (2019-03-18 r76245)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘PrecisionTrialDrawer/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘PrecisionTrialDrawer’ version ‘0.99.17’
* 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 ‘PrecisionTrialDrawer’ 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
newCancerPanel 0.712  0.104  24.486
panelDesigner  0.611  0.058  21.613
* 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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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL PrecisionTrialDrawer
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’
* installing *source* package ‘PrecisionTrialDrawer’ ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
Creating a generic function for ‘toJSON’ from package ‘jsonlite’ in package ‘googleVis’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Creating a generic function for ‘toJSON’ from package ‘jsonlite’ in package ‘googleVis’
** testing if installed package can be loaded from final location
Creating a generic function for ‘toJSON’ from package ‘jsonlite’ in package ‘googleVis’
** testing if installed package keeps a record of temporary installation path
* DONE (PrecisionTrialDrawer)

name	user	system	elapsed
CancerPanel-class	0.002	0.001	0.002
PrecisionTrialDrawer-package	0.282	0.022	0.304
appendRepo	1.074	0.040	1.115
coocMutexPlot	2.018	0.183	2.200
coveragePlot	0.267	0.016	0.283
coverageStackPlot	0.300	0.022	0.323
cpArguments	0.026	0.006	0.033
cpData	0.038	0.006	0.044
cpDataSubset	0.018	0.007	0.024
cpDesign	0.040	0.008	0.048
cpFreq	0.339	0.053	0.392
cpObj	0.323	0.014	0.337
cpObj2	0.079	0.012	0.090
dataExtractor	0.566	0.028	0.594
filterFusions	0.503	0.029	0.531
filterMutations	1.721	0.087	1.807
getAlterations	0.159	0.028	3.544
newCancerPanel	0.712	0.104	24.486
panelDesigner	0.611	0.058	21.613
panelOptimizer	0.002	0.001	0.003
panelexample	0.012	0.004	0.015
propPowerSampleSize	1.368	0.069	1.438
saturationPlot	2.200	0.172	2.373
showCancerStudy	0.009	0.003	0.276
showTumorType	0.039	0.002	0.225
subsetAlterations	0.646	0.068	0.714
survPowerSampleSize	1.057	0.016	1.075
survPowerSampleSize1Arm	1.196	0.015	1.212