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BioC 3.3: CHECK report for biosigner on moscato2

This page was generated on 2016-10-13 12:54:57 -0700 (Thu, 13 Oct 2016).

Package 117/1210HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biosigner 1.0.8
Philippe Rinaudo , Etienne Thevenot
Snapshot Date: 2016-10-12 17:20:15 -0700 (Wed, 12 Oct 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_3/madman/Rpacks/biosigner
Last Changed Rev: 119922 / Revision: 122332
Last Changed Date: 2016-08-06 08:51:28 -0700 (Sat, 06 Aug 2016)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK [ OK ] OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: biosigner
Version: 1.0.8
Command: rm -rf biosigner.buildbin-libdir biosigner.Rcheck && mkdir biosigner.buildbin-libdir biosigner.Rcheck && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=biosigner.buildbin-libdir biosigner_1.0.8.tar.gz >biosigner.Rcheck\00install.out 2>&1 && cp biosigner.Rcheck\00install.out biosigner-install.out && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=biosigner.buildbin-libdir --install="check:biosigner-install.out" --force-multiarch --no-vignettes --timings biosigner_1.0.8.tar.gz
StartedAt: 2016-10-13 01:28:57 -0700 (Thu, 13 Oct 2016)
EndedAt: 2016-10-13 01:31:39 -0700 (Thu, 13 Oct 2016)
EllapsedTime: 161.5 seconds
RetCode: 0
Status:  OK  
CheckDir: biosigner.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf biosigner.buildbin-libdir biosigner.Rcheck && mkdir biosigner.buildbin-libdir biosigner.Rcheck && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=biosigner.buildbin-libdir biosigner_1.0.8.tar.gz >biosigner.Rcheck\00install.out 2>&1 && cp biosigner.Rcheck\00install.out biosigner-install.out  && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=biosigner.buildbin-libdir --install="check:biosigner-install.out" --force-multiarch --no-vignettes --timings biosigner_1.0.8.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'E:/biocbld/bbs-3.3-bioc/meat/biosigner.Rcheck'
* using R version 3.3.1 (2016-06-21)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'biosigner/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'biosigner' version '1.0.8'
* 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 'biosigner' 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... 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
Examples with CPU or elapsed time > 5s
              user system elapsed
getAccuracyMN 4.21   0.04    6.16
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'runTests.R'
 OK
** running tests for arch 'x64' ...
  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

biosigner.Rcheck/00install.out:


install for i386

* installing *source* package 'biosigner' ...
** R
** data
** 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 'biosigner' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'biosigner' as biosigner_1.0.8.zip
* DONE (biosigner)

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

nameusersystemelapsed
biosign-class3.620.033.67
biosign3.110.033.13
getAccuracyMN3.100.083.22
getSignatureLs3.340.033.37
plot.biosign2.960.053.01
predict.biosign2.760.022.79
show.biosign2.870.012.89

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

nameusersystemelapsed
biosign-class3.510.033.59
biosign3.080.073.14
getAccuracyMN4.210.046.16
getSignatureLs2.770.052.82
plot.biosign3.690.013.70
predict.biosign3.350.073.46
show.biosign3.600.044.09