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BioC 3.5: CHECK report for splatter on tokay2

This page was generated on 2017-08-16 13:26:36 -0400 (Wed, 16 Aug 2017).

Package 1256/1382HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
splatter 1.0.3
Luke Zappia
Snapshot Date: 2017-08-15 17:17:57 -0400 (Tue, 15 Aug 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_5/madman/Rpacks/splatter
Last Changed Rev: 129893 / Revision: 131943
Last Changed Date: 2017-05-25 19:27:23 -0400 (Thu, 25 May 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: splatter
Version: 1.0.3
Command: rm -rf splatter.buildbin-libdir splatter.Rcheck && mkdir splatter.buildbin-libdir splatter.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=splatter.buildbin-libdir splatter_1.0.3.tar.gz >splatter.Rcheck\00install.out 2>&1 && cp splatter.Rcheck\00install.out splatter-install.out && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=splatter.buildbin-libdir --install="check:splatter-install.out" --force-multiarch --no-vignettes --timings splatter_1.0.3.tar.gz
StartedAt: 2017-08-16 03:05:50 -0400 (Wed, 16 Aug 2017)
EndedAt: 2017-08-16 03:14:19 -0400 (Wed, 16 Aug 2017)
EllapsedTime: 509.6 seconds
RetCode: 0
Status:  OK  
CheckDir: splatter.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf splatter.buildbin-libdir splatter.Rcheck && mkdir splatter.buildbin-libdir splatter.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=splatter.buildbin-libdir splatter_1.0.3.tar.gz >splatter.Rcheck\00install.out 2>&1 && cp splatter.Rcheck\00install.out splatter-install.out  &&  C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=splatter.buildbin-libdir --install="check:splatter-install.out" --force-multiarch --no-vignettes --timings splatter_1.0.3.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.5-bioc/meat/splatter.Rcheck'
* using R version 3.4.1 (2017-06-30)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'splatter/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'splatter' version '1.0.3'
* 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 'splatter' 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
* 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 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'testthat.R'
 OK
** running tests for arch 'x64' ...
  Running 'testthat.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

splatter.Rcheck/00install.out:


install for i386

* installing *source* package 'splatter' ...
** 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 'splatter' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'splatter' as splatter_1.0.3.zip
* DONE (splatter)

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

nameusersystemelapsed
addGeneLengths1.830.091.92
compareSCESets2.740.032.76
diffSCESets2.060.002.06
getParam000
getParams000
listSims000
lun2Estimate000
lun2Simulate2.140.032.17
lunEstimate0.070.000.07
lunSimulate0.970.051.01
makeCompPanel000
makeDiffPanel000
makeOverallPanel000
newParams000
scDDEstimate1.310.121.64
scDDSimulate000
setParam0.010.000.01
setParams0.000.020.02
simpleEstimate0.070.000.11
simpleSimulate1.070.061.14
splatEstimate3.100.083.17
splatSimulate000
summariseDiff1.970.001.97

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

nameusersystemelapsed
addGeneLengths2.390.032.42
compareSCESets2.770.002.78
diffSCESets2.270.002.26
getParam000
getParams000
listSims000
lun2Estimate000
lun2Simulate2.370.082.46
lunEstimate0.070.010.07
lunSimulate1.280.051.33
makeCompPanel000
makeDiffPanel000
makeOverallPanel000
newParams0.010.000.02
scDDEstimate1.210.051.25
scDDSimulate000
setParam0.010.000.01
setParams000
simpleEstimate0.080.000.08
simpleSimulate1.250.041.30
splatEstimate3.550.083.62
splatSimulate000
summariseDiff4.260.004.28