Package: Xeva

Version: 1.2.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:Xeva.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings Xeva_1.2.0.tar.gz

StartedAt: 2020-04-15 06:29:27 -0400 (Wed, 15 Apr 2020)

EndedAt: 2020-04-15 06:32:33 -0400 (Wed, 15 Apr 2020)

EllapsedTime: 186.3 seconds

RetCode: 0

Status:  OK

CheckDir: Xeva.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:Xeva.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings Xeva_1.2.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.10-bioc/meat/Xeva.Rcheck’
* using R version 3.6.3 (2020-02-29)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Xeva/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘Xeva’ version ‘1.2.0’
* package encoding: UTF-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 ‘Xeva’ 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 ... NOTE
  Note: found 31 marked UTF-8 strings
* checking data for ASCII and uncompressed saves ... OK
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
             user system elapsed
setResponse 5.213  1.269   6.352
* 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-3.10-bioc/meat/Xeva.Rcheck/00check.log’
for details.

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL Xeva
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’
* installing *source* package ‘Xeva’ ...
** 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 (Xeva)

name	user	system	elapsed
ABC	0.007	0.001	0.007
AUC	0.039	0.015	0.054
TGI	0.000	0.001	0.001
addExperimentalDesign	0.182	0.008	0.191
angle	0.013	0.002	0.016
batchInfo	0.195	0.004	0.199
createXevaSet	0.151	0.025	0.176
dosePlot	0.933	0.203	1.119
downloadXevaSet	0.043	0.016	0.860
drugInform	0.121	0.003	0.124
drugSensitivitySig	0.742	0.137	0.874
getExperiment	0.248	0.034	0.285
getMolecularProfiles	0.127	0.002	0.130
lmm	0.170	0.038	0.206
mRECIST	0.004	0.001	0.004
modelInfo	0.147	0.004	0.152
plotPDX	2.262	0.307	2.545
plotmRECIST	3.939	0.584	4.475
response	0.226	0.030	0.253
selectModelIds	0.281	0.056	0.333
sensitivity	0.148	0.005	0.153
setResponse	5.213	1.269	6.352
slope	0.012	0.002	0.014
subsetXeva	0.284	0.021	0.304
summarizeMolecularProfiles	0.204	0.011	0.215
summarizeResponse	0.376	0.015	0.390
waterfall	1.566	0.188	1.736