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Package 446/631HostnameOS / ArchBUILDCHECKBUILD BIN
PCpheno 1.21.0
Nolwenn Le Meur
Snapshot Date: 2013-01-15 17:01:14 -0800 (Tue, 15 Jan 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/PCpheno
Last Changed Rev: 70052 / Revision: 72575
Last Changed Date: 2012-10-01 15:43:56 -0700 (Mon, 01 Oct 2012)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK  OK 
lamb2 Linux (openSUSE 11.4) / x86_64  OK [ OK ]
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
petty Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: PCpheno
Version: 1.21.0
Command: /home/biocbuild/bbs-2.12-bioc/R/bin/R CMD check --no-vignettes --timings PCpheno_1.21.0.tar.gz
StartedAt: 2013-01-16 05:08:56 -0800 (Wed, 16 Jan 2013)
EndedAt: 2013-01-16 05:13:07 -0800 (Wed, 16 Jan 2013)
EllapsedTime: 251.0 seconds
RetCode: 0
Status:  OK 
CheckDir: PCpheno.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.12-bioc/meat/PCpheno.Rcheck’
* using R Under development (unstable) (2012-12-17 r61365)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘PCpheno/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘PCpheno’ version ‘1.21.0’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘PCpheno’ can be installed ... OK
* checking installed package size ... OK
* checking package 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
* 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 for unstated 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 examples ... OK
Examples with CPU or elapsed time > 5s
                 user system elapsed
graphTheory    15.725  0.252  15.983
gtResult-class 12.153  0.648  12.809
ppiInteraction  6.676  0.056   6.765
* 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

PCpheno.Rcheck/00install.out:

* installing *source* package ‘PCpheno’ ...
** R
** data
** inst
** preparing package for lazy loading
No methods found in "BiocGenerics" for requests: plot

*** Deprecation warning ***:
The package 'ppiData' is deprecated and will not be supported after Bioconductor release 2.11


** help
*** installing help indices
** building package indices
** installing vignettes
   ‘PCpheno.Rnw’ 
** testing if installed package can be loaded
No methods found in "BiocGenerics" for requests: plot

*** Deprecation warning ***:
The package 'ppiData' is deprecated and will not be supported after Bioconductor release 2.11



* DONE (PCpheno)

PCpheno.Rcheck/PCpheno-Ex.timings:

nameusersystemelapsed
CoHyperGResult-class1.9840.0282.068
Dudley0.0160.0120.025
Giaever0.1320.0160.147
HI0.0080.0000.007
KEGG2SCISI0.3280.0360.398
Kastenmayer0.0320.0000.031
Lesage0.0240.0040.027
Osterberg0.0400.0000.043
SGDphenoL0.0600.0000.059
YEASTOHNOLOG0.0200.0000.027
buildFDMat0.6840.0000.683
categoryToEntrezBuilder0.5360.0120.565
complexStatus2.6170.0642.699
deResult-class0.1160.0080.126
densityEstimate2.7120.0242.739
getDescr0.8440.0040.873
getFDgene0.1560.0080.163
graphTheory15.725 0.25215.983
gtResult-class12.153 0.64812.809
overlap0.0120.0000.012
plot2.1160.0082.124
ppiInteraction6.6760.0566.765
reduceM0.0040.0000.006
truncName0.0000.0040.006