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BioC 3.0: CHECK report for Clomial on moscato1

This page was generated on 2015-04-10 09:50:10 -0700 (Fri, 10 Apr 2015).

Package 163/933HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Clomial 1.2.0
Habil Zare
Snapshot Date: 2015-04-09 16:20:12 -0700 (Thu, 09 Apr 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/Clomial
Last Changed Rev: 95439 / Revision: 102249
Last Changed Date: 2014-10-13 14:38:33 -0700 (Mon, 13 Oct 2014)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  NotNeeded  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK [ OK ] OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  OK  OK 
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK 

Summary

Package: Clomial
Version: 1.2.0
Command: rm -rf Clomial.buildbin-libdir Clomial.Rcheck && mkdir Clomial.buildbin-libdir Clomial.Rcheck && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=Clomial.buildbin-libdir Clomial_1.2.0.tar.gz >Clomial.Rcheck\00install.out 2>&1 && cp Clomial.Rcheck\00install.out Clomial-install.out && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD check --library=Clomial.buildbin-libdir --install="check:Clomial-install.out" --force-multiarch --no-vignettes --timings Clomial_1.2.0.tar.gz
StartedAt: 2015-04-09 23:47:46 -0700 (Thu, 09 Apr 2015)
EndedAt: 2015-04-09 23:51:06 -0700 (Thu, 09 Apr 2015)
EllapsedTime: 200.8 seconds
RetCode: 0
Status:  OK  
CheckDir: Clomial.Rcheck
Warnings: 0

Command output

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###
### Running command:
###
###   rm -rf Clomial.buildbin-libdir Clomial.Rcheck && mkdir Clomial.buildbin-libdir Clomial.Rcheck && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=Clomial.buildbin-libdir Clomial_1.2.0.tar.gz >Clomial.Rcheck\00install.out 2>&1 && cp Clomial.Rcheck\00install.out Clomial-install.out  && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD check --library=Clomial.buildbin-libdir --install="check:Clomial-install.out" --force-multiarch --no-vignettes --timings Clomial_1.2.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbld/bbs-3.0-bioc/meat/Clomial.Rcheck'
* using R version 3.1.3 (2015-03-09)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'Clomial/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'Clomial' version '1.2.0'
* 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 'Clomial' 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
choose.best        32.89      0   32.89
Clomial-package    11.78      0   11.78
Clomial            10.82      0   10.82
Clomial.likelihood  6.53      0    6.52
Clomial.iterate     6.05      0    6.06
compute.bic         5.86      0    5.86
** running examples for arch 'x64' ... [85s] OK
Examples with CPU or elapsed time > 5s
                    user system elapsed
choose.best        34.41   0.02   34.43
Clomial-package    12.33   0.00   12.34
Clomial            11.46   0.00   11.45
compute.bic         9.31   0.00    9.31
Clomial.likelihood  6.30   0.00    6.30
Clomial.iterate     5.72   0.00    5.72
* 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

Clomial.Rcheck/00install.out:


install for i386

* installing *source* package 'Clomial' ...
** 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 'Clomial' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'Clomial' as Clomial_1.2.0.zip
* DONE (Clomial)

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

nameusersystemelapsed
Clomial-package11.78 0.0011.78
Clomial10.82 0.0010.82
Clomial.generate.data0.50.00.5
Clomial.iterate6.050.006.06
Clomial.likelihood6.530.006.52
Clomial10000.280.000.28
breastCancer0.010.000.01
choose.best32.89 0.0032.89
compute.bic5.860.005.86
compute.errors2.810.002.81

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

nameusersystemelapsed
Clomial-package12.33 0.0012.34
Clomial11.46 0.0011.45
Clomial.generate.data0.530.000.53
Clomial.iterate5.720.005.72
Clomial.likelihood6.30.06.3
Clomial10000.380.000.38
breastCancer000
choose.best34.41 0.0234.43
compute.bic9.310.009.31
compute.errors3.920.003.92