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BioC 3.2: CHECK report for OperaMate on moscato1

This page was generated on 2015-08-20 13:24:16 -0700 (Thu, 20 Aug 2015).

Package 709/1069HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
OperaMate 0.99.6
Chenglin Liu
Snapshot Date: 2015-08-19 16:24:33 -0700 (Wed, 19 Aug 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/OperaMate
Last Changed Rev: 103875 / Revision: 107602
Last Changed Date: 2015-05-15 11:39:36 -0700 (Fri, 15 May 2015)
zin1 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK [ OK ] OK UNNEEDED, same version exists in internal repository
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  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: OperaMate
Version: 0.99.6
Command: rm -rf OperaMate.buildbin-libdir OperaMate.Rcheck && mkdir OperaMate.buildbin-libdir OperaMate.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=OperaMate.buildbin-libdir OperaMate_0.99.6.tar.gz >OperaMate.Rcheck\00install.out 2>&1 && cp OperaMate.Rcheck\00install.out OperaMate-install.out && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=OperaMate.buildbin-libdir --install="check:OperaMate-install.out" --force-multiarch --no-vignettes --timings OperaMate_0.99.6.tar.gz
StartedAt: 2015-08-20 08:15:13 -0700 (Thu, 20 Aug 2015)
EndedAt: 2015-08-20 08:21:50 -0700 (Thu, 20 Aug 2015)
EllapsedTime: 396.9 seconds
RetCode: 0
Status:  OK  
CheckDir: OperaMate.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf OperaMate.buildbin-libdir OperaMate.Rcheck && mkdir OperaMate.buildbin-libdir OperaMate.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=OperaMate.buildbin-libdir OperaMate_0.99.6.tar.gz >OperaMate.Rcheck\00install.out 2>&1 && cp OperaMate.Rcheck\00install.out OperaMate-install.out  && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=OperaMate.buildbin-libdir --install="check:OperaMate-install.out" --force-multiarch --no-vignettes --timings OperaMate_0.99.6.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbld/bbs-3.2-bioc/meat/OperaMate.Rcheck'
* using R version 3.2.2 (2015-08-14)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'OperaMate/DESCRIPTION' ... OK
* this is package 'OperaMate' version '0.99.6'
* 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 'OperaMate' 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' ... [44s] OK
Examples with CPU or elapsed time > 5s
                 user system elapsed
operaMate       11.25   1.31   14.23
cellSigAnalysis  1.11   0.14   15.16
** running examples for arch 'x64' ... [33s] OK
Examples with CPU or elapsed time > 5s
           user system elapsed
operaMate 11.87   1.42   13.76
* 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

OperaMate.Rcheck/00install.out:


install for i386

* installing *source* package 'OperaMate' ...
** 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 'OperaMate' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'OperaMate' as OperaMate_0.99.6.zip
* DONE (OperaMate)

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

nameusersystemelapsed
GenerateReport0.030.000.03
cellData-class0.020.000.01
cellLoad0.080.020.10
cellMean0.010.020.03
cellNorm0.020.010.03
cellQC0.160.000.16
cellSig0.840.020.87
cellSigAnalysis 1.11 0.1415.16
cellSigplot0.370.010.41
cellViz0.450.081.09
data0.050.000.05
expData-class000
loadAll1.010.021.03
operaMate11.25 1.3114.23
parseTemplete0.090.000.09
plateViz0.530.060.60

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

nameusersystemelapsed
GenerateReport0.020.000.02
cellData-class000
cellLoad0.070.000.07
cellMean0.020.000.02
cellNorm0.020.000.02
cellQC0.140.000.14
cellSig0.760.000.76
cellSigAnalysis1.650.224.87
cellSigplot0.390.000.73
cellViz0.390.111.05
data0.030.010.04
expData-class000
loadAll0.910.020.92
operaMate11.87 1.4213.76
parseTemplete0.060.000.07
plateViz0.580.030.60