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Package 465/658HostnameOS / ArchBUILDCHECKBUILD BIN
PCpheno 1.21.0
Nolwenn Le Meur
Snapshot Date: 2013-03-24 17:01:43 -0700 (Sun, 24 Mar 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/PCpheno
Last Changed Rev: 70052 / Revision: 74774
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 ]
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: 2013-03-25 03:41:01 -0700 (Mon, 25 Mar 2013)
EndedAt: 2013-03-25 03:47:27 -0700 (Mon, 25 Mar 2013)
EllapsedTime: 385.6 seconds
RetCode: 0
Status:  OK 
CheckDir: PCpheno.Rcheck
Warnings: 0

Command output

* using log directory ‘/home/biocbuild/bbs-2.12-bioc/meat/PCpheno.Rcheck’
* using R version 3.0.0 beta (2013-03-19 r62328)
* 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 ... [28s/29s] 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 ... [90s/94s] OK
Examples with CPU or elapsed time > 5s
                 user system elapsed
graphTheory    25.554  0.332  26.835
gtResult-class 20.445  0.668  21.439
ppiInteraction  8.681  0.108   9.223
* 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-class2.7650.0483.462
Dudley0.0320.0040.034
Giaever0.7320.0080.741
HI0.0120.0000.012
KEGG2SCISI0.3800.0160.410
Kastenmayer0.0760.0000.074
Lesage0.0600.0000.063
Osterberg0.0600.0000.059
SGDphenoL0.0640.0000.065
YEASTOHNOLOG0.0440.0000.041
buildFDMat0.8480.0040.863
categoryToEntrezBuilder0.7360.0080.846
complexStatus2.8880.0763.014
deResult-class0.1600.0280.189
densityEstimate3.5920.0923.915
getDescr1.1880.0001.637
getFDgene0.8200.0040.840
graphTheory25.554 0.33226.835
gtResult-class20.445 0.66821.439
overlap0.0200.0000.018
plot3.7960.1003.907
ppiInteraction8.6810.1089.223
reduceM0.0080.0000.009
truncName0.0080.0000.006