Multiple platform build/check report for BioC 3.11 - CHECK report for PrecisionTrialDrawer on celaya2

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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_1.3.1.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.11-bioc/meat/PrecisionTrialDrawer.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 ‘PrecisionTrialDrawer/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘PrecisionTrialDrawer’ version ‘1.3.1’
* 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 (user + system) or elapsed time > 5s
                user system elapsed
panelDesigner  1.951  0.073  14.762
newCancerPanel 1.896  0.082  10.379
getAlterations 0.399  0.011   7.297
* 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

Installation output

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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/4.0/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)

Tests output

Example timings

name	user	system	elapsed
CancerPanel-class	0.002	0.001	0.002
PrecisionTrialDrawer-package	0.704	0.018	0.722
appendRepo	0.635	0.063	0.700
coocMutexPlot	2.597	0.133	2.732
coveragePlot	0.391	0.029	0.423
coverageStackPlot	0.322	0.015	0.340
cpArguments	0.021	0.006	0.026
cpData	0.041	0.007	0.048
cpDataSubset	0.021	0.008	0.028
cpDesign	0.042	0.008	0.050
cpFreq	0.432	0.069	0.536
cpObj	0.388	0.022	0.416
cpObj2	0.094	0.011	0.105
dataExtractor	0.665	0.015	0.684
filterFusions	0.654	0.038	0.764
filterMutations	1.472	0.067	1.542
getAlterations	0.399	0.011	7.297
newCancerPanel	1.896	0.082	10.379
panelDesigner	1.951	0.073	14.762
panelOptimizer	0.002	0.001	0.002
panelexample	0.014	0.005	0.019
propPowerSampleSize	1.434	0.074	1.509
saturationPlot	2.959	0.191	3.151
showCancerStudy	0.021	0.002	0.045
showTumorType	0.068	0.001	0.091
subsetAlterations	0.879	0.061	0.940
survPowerSampleSize	1.081	0.017	1.100
survPowerSampleSize1Arm	1.341	0.015	1.357

CHECK report for PrecisionTrialDrawer on celaya2

Summary

Command output

Installation output

Tests output

Example timings