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CHECK report for Pi on merida1

This page was generated on 2020-04-15 12:44:17 -0400 (Wed, 15 Apr 2020).

Package 1263/1823HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Pi 1.14.0
Hai Fang
Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020)
URL: https://git.bioconductor.org/packages/Pi
Branch: RELEASE_3_10
Last Commit: 76882e6
Last Changed Date: 2019-10-29 13:10:06 -0400 (Tue, 29 Oct 2019)
malbec1 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
merida1 OS X 10.11.6 El Capitan / x86_64  OK  OK [ OK ] OK UNNEEDED, same version exists in internal repository

Summary

Package: Pi
Version: 1.14.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:Pi.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings Pi_1.14.0.tar.gz
StartedAt: 2020-04-15 04:36:10 -0400 (Wed, 15 Apr 2020)
EndedAt: 2020-04-15 04:43:08 -0400 (Wed, 15 Apr 2020)
EllapsedTime: 418.8 seconds
RetCode: 0
Status:  OK 
CheckDir: Pi.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:Pi.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings Pi_1.14.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.10-bioc/meat/Pi.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 ‘Pi/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘Pi’ version ‘1.14.0’
* 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 ‘Pi’ 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 files in ‘vignettes’ ... OK
* checking examples ... 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

Pi.Rcheck/00install.out

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

Tests output


Example timings

Pi.Rcheck/Pi-Ex.timings

nameusersystemelapsed
cTarget000
dTarget000
eGSEA000
eTarget0.0000.0010.000
pNode0.0010.0000.001
pPerf000
sGS0.0000.0000.001
sTarget000
xContour0.0430.0020.045
xCorrelation0.0010.0000.001
xGSEAbarplot0.0000.0000.001
xGSEAconciser000
xGSEAdotplot0.0000.0010.001
xGSsimulator0.0010.0000.001
xMLcaret000
xMLcompare0.0000.0000.001
xMLdensity000
xMLdotplot0.0010.0000.000
xMLfeatureplot000
xMLglmnet000
xMLparameters000
xMLrandomforest000
xMLrename0.0000.0010.000
xMLzoom0.0010.0000.001
xPier0.0010.0000.001
xPierABF0.0010.0000.000
xPierABFheatmap000
xPierAnno0.0000.0000.001
xPierCor0.0000.0000.001
xPierCross000
xPierEvidence000
xPierGRs000
xPierGSEA0.0000.0010.000
xPierGenes0.0010.0000.001
xPierKEGG0.0000.0000.001
xPierMRS000
xPierManhattan000
xPierMatrix000
xPierPathways0.0000.0010.001
xPierROCR000
xPierSNPs000
xPierSNPsAdv0.0010.0010.000
xPierSNPsAdvABF000
xPierSNPsConsensus0.0000.0000.001
xPierSubnet0.0000.0010.001
xPierTrack000
xPierTrackAdv0.0000.0000.001
xPredictCompare0.0000.0010.001
xPredictROCR0.0000.0000.001
xRWR0.0020.0000.002
xVisEvidence0.0010.0000.000
xVisEvidenceAdv000