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BioC 3.5: CHECK report for FRGEpistasis on tokay2

This page was generated on 2017-08-16 13:23:09 -0400 (Wed, 16 Aug 2017).

Package 480/1382HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
FRGEpistasis 1.12.0
Futao Zhang
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/FRGEpistasis
Last Changed Rev: 129126 / Revision: 131943
Last Changed Date: 2017-04-24 15:25:24 -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: FRGEpistasis
Version: 1.12.0
Command: rm -rf FRGEpistasis.buildbin-libdir FRGEpistasis.Rcheck && mkdir FRGEpistasis.buildbin-libdir FRGEpistasis.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=FRGEpistasis.buildbin-libdir FRGEpistasis_1.12.0.tar.gz >FRGEpistasis.Rcheck\00install.out 2>&1 && cp FRGEpistasis.Rcheck\00install.out FRGEpistasis-install.out && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=FRGEpistasis.buildbin-libdir --install="check:FRGEpistasis-install.out" --force-multiarch --no-vignettes --timings FRGEpistasis_1.12.0.tar.gz
StartedAt: 2017-08-15 23:49:17 -0400 (Tue, 15 Aug 2017)
EndedAt: 2017-08-15 23:52:58 -0400 (Tue, 15 Aug 2017)
EllapsedTime: 221.4 seconds
RetCode: 0
Status:  OK  
CheckDir: FRGEpistasis.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   rm -rf FRGEpistasis.buildbin-libdir FRGEpistasis.Rcheck && mkdir FRGEpistasis.buildbin-libdir FRGEpistasis.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=FRGEpistasis.buildbin-libdir FRGEpistasis_1.12.0.tar.gz >FRGEpistasis.Rcheck\00install.out 2>&1 && cp FRGEpistasis.Rcheck\00install.out FRGEpistasis-install.out  &&  C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=FRGEpistasis.buildbin-libdir --install="check:FRGEpistasis-install.out" --force-multiarch --no-vignettes --timings FRGEpistasis_1.12.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.5-bioc/meat/FRGEpistasis.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 'FRGEpistasis/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'FRGEpistasis' version '1.12.0'
* 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 'FRGEpistasis' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* 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
Examples with CPU or elapsed time > 5s
                       user system elapsed
pCAPiontwiseEpistasis 50.92   0.06   50.98
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
                       user system elapsed
pCAPiontwiseEpistasis 73.83   0.03   73.86
* 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/FRGEpistasis.Rcheck/00check.log'
for details.


FRGEpistasis.Rcheck/00install.out:


install for i386

* installing *source* package 'FRGEpistasis' ...
** 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 'FRGEpistasis' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'FRGEpistasis' as FRGEpistasis_1.12.0.zip
* DONE (FRGEpistasis)

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

nameusersystemelapsed
fRGEpistasis2.150.042.21
fRGInteraction000
fourierExpansion0.080.040.11
frgEpistasisTest1.830.001.83
innerEpi0.010.000.02
innerSnpListInteraction0.050.000.04
logTransPheno000
outerEpi0.140.000.14
outerSnpListInteraction0.030.000.03
pCAInteraction1.390.031.43
pCAPiontwiseEpistasis50.92 0.0650.98
pointwiseInteraction0.190.000.19
rankTransPheno000
reduceGeno0.50.00.5
snpPairInteraction000

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

nameusersystemelapsed
fRGEpistasis2.800.052.84
fRGInteraction000
fourierExpansion0.150.000.14
frgEpistasisTest2.210.002.22
innerEpi0.020.000.01
innerSnpListInteraction0.030.000.04
logTransPheno0.000.020.01
outerEpi0.090.000.09
outerSnpListInteraction0.020.000.02
pCAInteraction1.550.001.55
pCAPiontwiseEpistasis73.83 0.0373.86
pointwiseInteraction0.20.00.2
rankTransPheno0.010.000.02
reduceGeno0.50.00.5
snpPairInteraction000