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CHECK report for brainImageR on celaya2

This page was generated on 2019-01-14 12:46:09 -0500 (Mon, 14 Jan 2019).

Package 172/1651HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
brainImageR 1.1.0
Sara B Linker
Snapshot Date: 2019-01-13 16:47:20 -0500 (Sun, 13 Jan 2019)
URL: https://git.bioconductor.org/packages/brainImageR
Branch: master
Last Commit: 6bf20b6
Last Changed Date: 2018-10-30 11:54:39 -0500 (Tue, 30 Oct 2018)
malbec2 Linux (Ubuntu 18.04.1 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK [ OK ] OK 

Summary

Package: brainImageR
Version: 1.1.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:brainImageR.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings brainImageR_1.1.0.tar.gz
StartedAt: 2019-01-14 00:09:45 -0500 (Mon, 14 Jan 2019)
EndedAt: 2019-01-14 00:11:39 -0500 (Mon, 14 Jan 2019)
EllapsedTime: 113.9 seconds
RetCode: 0
Status:  OK 
CheckDir: brainImageR.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 --install=check:brainImageR.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings brainImageR_1.1.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/brainImageR.Rcheck’
* using R Under development (unstable) (2018-12-26 r75909)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘brainImageR/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘brainImageR’ version ‘1.1.0’
* 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 ‘brainImageR’ 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 R/sysdata.rda ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘runTests.R’
 OK
* 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

brainImageR.Rcheck/00install.out

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL brainImageR
###
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’
* installing *source* package ‘brainImageR’ ...
** R
** data
*** moving datasets to lazyload DB
** 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 (brainImageR)

Tests output

brainImageR.Rcheck/tests/runTests.Rout


R Under development (unstable) (2018-12-26 r75909) -- "Unsuffered Consequences"
Copyright (C) 2018 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin15.6.0 (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> BiocGenerics:::testPackage("brainImageR")


RUNIT TEST PROTOCOL -- Mon Jan 14 00:11:30 2019 
*********************************************** 
Number of test functions: 0 
Number of errors: 0 
Number of failures: 0 

 
1 Test Suite : 
brainImageR RUnit Tests - 0 test functions, 0 errors, 0 failures
Number of test functions: 0 
Number of errors: 0 
Number of failures: 0 
> 
> proc.time()
   user  system elapsed 
  1.662   0.369   1.938 

Example timings

brainImageR.Rcheck/brainImageR-Ex.timings

nameusersystemelapsed
BrainMap0.0290.0110.040
Comp-class0.0040.0010.005
CreateBrain0.0010.0020.003
GetGenes0.0020.0020.004
InABA0.0020.0020.004
PValue.onetail0.0010.0020.004
PlotBrain0.0020.0030.005
PlotEnrich0.0020.0020.004
PlotPred0.0010.0010.002
Pred-class0.0010.0010.002
RandomTissueSummary0.0020.0020.003
SpatialEnrichment0.0020.0010.002
TissueSummary0.0010.0010.002
available_areanames0.0010.0010.003
brainrange0.0000.0000.001
predict_time0.0010.0020.002
reColor0.0010.0010.003
testEnrich0.0010.0010.003
tis_in_region0.0010.0020.002
tis_set0.0010.0010.003
whichtissues000