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BioC 3.5: CHECK report for Pi on tokay2

This page was generated on 2017-10-18 14:26:29 -0400 (Wed, 18 Oct 2017).

Package 980/1381HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Pi 1.4.0
Hai Fang
Snapshot Date: 2017-10-17 17:00:52 -0400 (Tue, 17 Oct 2017)
URL: https://git.bioconductor.org/packages/Pi
Branch: RELEASE_3_5
Last Commit: 5b8dfa6
Last Changed Date: 2017-04-24 15:45:44 -0400 (Mon, 24 Apr 2017)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  NotNeeded  OK [ OK ] OK UNNEEDED, same version exists in internal repository
veracruz2 OS X 10.11.6 El Capitan / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: Pi
Version: 1.4.0
Command: rm -rf Pi.buildbin-libdir Pi.Rcheck && mkdir Pi.buildbin-libdir Pi.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=Pi.buildbin-libdir Pi_1.4.0.tar.gz >Pi.Rcheck\00install.out 2>&1 && cp Pi.Rcheck\00install.out Pi-install.out && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=Pi.buildbin-libdir --install="check:Pi-install.out" --force-multiarch --no-vignettes --timings Pi_1.4.0.tar.gz
StartedAt: 2017-10-18 02:02:11 -0400 (Wed, 18 Oct 2017)
EndedAt: 2017-10-18 02:10:51 -0400 (Wed, 18 Oct 2017)
EllapsedTime: 520.5 seconds
RetCode: 0
Status:  OK  
CheckDir: Pi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf Pi.buildbin-libdir Pi.Rcheck && mkdir Pi.buildbin-libdir Pi.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=Pi.buildbin-libdir Pi_1.4.0.tar.gz >Pi.Rcheck\00install.out 2>&1 && cp Pi.Rcheck\00install.out Pi-install.out  &&  C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=Pi.buildbin-libdir --install="check:Pi-install.out" --force-multiarch --no-vignettes --timings Pi_1.4.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.5-bioc/meat/Pi.Rcheck'
* using R version 3.4.2 Patched (2017-10-07 r73498)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'Pi/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'Pi' version '1.4.0'
* 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 whether package 'Pi' can be installed ... OK
* checking installed package size ... NOTE
  installed size is  6.1Mb
  sub-directories of 1Mb or more:
    doc   5.3Mb
* 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
* loading checks for arch 'i386'
** 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 loading without being on the library search path ... OK
* loading checks for arch 'x64'
** 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 loading without being on the library search path ... 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... 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: 1 NOTE
See
  'C:/Users/biocbuild/bbs-3.5-bioc/meat/Pi.Rcheck/00check.log'
for details.


Pi.Rcheck/00install.out:


install for i386

* installing *source* package 'Pi' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'Pi' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'Pi' as Pi_1.4.0.zip
* DONE (Pi)

Pi.Rcheck/examples_i386/Pi-Ex.timings:

nameusersystemelapsed
cTarget000
dTarget000
eGSEA000
eTarget000
pNode000
pPerf000
sGS000
sTarget000
xContour0.030.000.03
xGSEAbarplot000
xGSEAconciser000
xGSEAdotplot000
xGSsimulator000
xMLcaret000
xMLcompare000
xMLdensity000
xMLdotplot000
xMLfeatureplot000
xMLglmnet000
xMLparameters000
xMLrandomforest000
xMLzoom000
xPCHiCplot0.170.030.72
xPier000
xPierAnno0.260.070.68
xPierCross000
xPierEvidence000
xPierGSEA000
xPierGenes0.180.010.41
xPierManhattan000
xPierMatrix000
xPierPathways000
xPierROCR000
xPierSNPs0.250.000.49
xPierSNPsAdv0.310.080.62
xPierSNPsConsensus0.210.030.45
xPierSubnet0.180.000.42
xPierTrack0.220.000.45
xPierTrackAdv0.180.020.43
xPredictCompare000
xPredictROCR0.010.000.01
xRWR000
xSNP2cGenes0.200.000.44
xSNP2eGenes0.210.000.44
xSNPeqtl0.200.000.43
xSNPhic0.200.000.44
xVisEvidence000

Pi.Rcheck/examples_x64/Pi-Ex.timings:

nameusersystemelapsed
cTarget000
dTarget000
eGSEA000
eTarget000
pNode000
pPerf000
sGS000
sTarget000
xContour0.040.000.04
xGSEAbarplot000
xGSEAconciser000
xGSEAdotplot000
xGSsimulator000
xMLcaret000
xMLcompare000
xMLdensity000
xMLdotplot000
xMLfeatureplot000
xMLglmnet0.020.000.02
xMLparameters000
xMLrandomforest000
xMLzoom000
xPCHiCplot0.170.000.58
xPier000
xPierAnno0.280.000.60
xPierCross000
xPierEvidence0.020.000.01
xPierGSEA000
xPierGenes0.150.000.39
xPierManhattan0.020.000.02
xPierMatrix000
xPierPathways000
xPierROCR000
xPierSNPs0.260.000.48
xPierSNPsAdv0.330.000.55
xPierSNPsConsensus0.170.000.41
xPierSubnet0.180.000.40
xPierTrack0.150.030.41
xPierTrackAdv0.170.000.41
xPredictCompare000
xPredictROCR000
xRWR000
xSNP2cGenes0.180.020.34
xSNP2eGenes0.170.000.39
xSNPeqtl0.170.000.41
xSNPhic0.170.000.40
xVisEvidence000