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BioC 3.2: CHECK report for OGSA on windows1.bioconductor.org

This page was generated on 2015-10-27 17:32:25 -0400 (Tue, 27 Oct 2015).

Package 720/1104HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
OGSA 1.0.0
Michael F. Ochs
Snapshot Date: 2015-10-26 19:24:07 -0400 (Mon, 26 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/OGSA
Last Changed Rev: 109589 / Revision: 109947
Last Changed Date: 2015-10-13 15:36:05 -0400 (Tue, 13 Oct 2015)
linux1.bioconductor.org Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
windows1.bioconductor.org Windows Server 2012 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: OGSA
Version: 1.0.0
Command: rm -rf OGSA.buildbin-libdir OGSA.Rcheck && mkdir OGSA.buildbin-libdir OGSA.Rcheck && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=OGSA.buildbin-libdir OGSA_1.0.0.tar.gz >OGSA.Rcheck\00install.out 2>&1 && cp OGSA.Rcheck\00install.out OGSA-install.out && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=OGSA.buildbin-libdir --install="check:OGSA-install.out" --force-multiarch --no-vignettes --timings OGSA_1.0.0.tar.gz
StartedAt: 2015-10-27 04:08:25 -0400 (Tue, 27 Oct 2015)
EndedAt: 2015-10-27 04:11:58 -0400 (Tue, 27 Oct 2015)
EllapsedTime: 213.3 seconds
RetCode: 0
Status:  OK  
CheckDir: OGSA.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf OGSA.buildbin-libdir OGSA.Rcheck && mkdir OGSA.buildbin-libdir OGSA.Rcheck && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=OGSA.buildbin-libdir OGSA_1.0.0.tar.gz >OGSA.Rcheck\00install.out 2>&1 && cp OGSA.Rcheck\00install.out OGSA-install.out  && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=OGSA.buildbin-libdir --install="check:OGSA-install.out" --force-multiarch --no-vignettes --timings OGSA_1.0.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/biocbld/bbs-3.2-bioc/meat/OGSA.Rcheck'
* using R version 3.2.2 Patched (2015-08-16 r69094)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'OGSA/DESCRIPTION' ... OK
* this is package 'OGSA' version '1.0.0'
* 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 'OGSA' 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' ... [78s] OK
Examples with CPU or elapsed time > 5s
          user system elapsed
copaStat 61.58   0.43      62
** running examples for arch 'x64' ... [94s] OK
Examples with CPU or elapsed time > 5s
          user system elapsed
copaStat 73.12   0.39   73.51
* 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

OGSA.Rcheck/00install.out:


install for i386

* installing *source* package 'OGSA' ...
** R
** data
*** moving datasets to lazyload DB
** 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 'OGSA' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'OGSA' as OGSA_1.0.0.zip
* DONE (OGSA)

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

nameusersystemelapsed
copaInt1.860.011.87
copaIntE2.420.002.42
copaStat61.58 0.4362.00
expressionSetDataSet0.080.010.10
expressionSetPheno0.090.000.09
outCallRank1.170.001.17
outCallRankE1.280.021.30
outCallTib1.580.031.61
outCallTibE1.750.031.78
outCount1.770.031.80
outMap1.900.021.92
outRank1.250.001.25
testGScogps000

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

nameusersystemelapsed
copaInt2.30.02.3
copaIntE2.40.02.4
copaStat73.12 0.3973.51
expressionSetDataSet0.160.000.16
expressionSetPheno0.190.000.19
outCallRank1.310.011.33
outCallRankE1.440.021.45
outCallTib2.360.032.39
outCallTibE2.460.032.50
outCount2.400.002.39
outMap2.400.032.44
outRank1.550.021.56
testGScogps000