Package: LiquidAssociation

Version: 1.5.0

Command: /Library/Frameworks/R.framework/Versions/2.13/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch LiquidAssociation_1.5.0.tar.gz

StartedAt: 2011-02-24 19:58:35 -0800 (Thu, 24 Feb 2011)

EndedAt: 2011-02-24 20:00:37 -0800 (Thu, 24 Feb 2011)

EllapsedTime: 121.7 seconds

RetCode: 0

Status:  OK

CheckDir: LiquidAssociation.Rcheck

Warnings: 0

* using log directory ‘/Users/biocbuild/bbs-2.8-bioc/meat/LiquidAssociation.Rcheck’
* using R version 2.13.0 Under development (unstable) (2011-01-10 r53950)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘LiquidAssociation/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘LiquidAssociation’ version ‘1.5.0’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘LiquidAssociation’ can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level 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 name space can be loaded with stated dependencies ... OK
* checking whether the name space 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 examples ... OK
* checking package vignettes in ‘inst/doc’ ... SKIPPED
* checking PDF version of manual ... OK

* installing *source* package ‘LiquidAssociation’ ...
** R
** inst
** preparing package for lazy loading
Loading required package: doBy
Loading required package: survival
Loading required package: splines
Loading required package: contrast
Loading required package: Design
Loading required package: Hmisc

Attaching package: 'Hmisc'

The following object(s) are masked from 'package:survival':

    untangle.specials

The following object(s) are masked from 'package:base':

    format.pval, round.POSIXt, trunc.POSIXt, units

Design library by Frank E Harrell Jr

Type library(help='Design'), ?DesignOverview, or ?Design.Overview')
to see overall documentation.


Attaching package: 'Design'

The following object(s) are masked from 'package:Hmisc':

    strgraphwrap

The following object(s) are masked from 'package:survival':

    Surv


Attaching package: 'contrast'

The following object(s) are masked from 'package:Design':

    contrast

Loading required package: R2HTML
Loading required package: Biobase

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'browseVignettes()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation(pkgname)'.


Attaching package: 'Biobase'

The following object(s) are masked from 'package:Hmisc':

    combine, contents

Loading required package: AnnotationDbi
Loading required package: DBI
Creating a new generic function for "print" in "LiquidAssociation"
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (LiquidAssociation)

name	user	system	elapsed
CNM-class	0.002	0.000	0.002
CNM.full-methods	0.072	0.001	0.074
CNM.simple-methods	0.052	0.002	0.054
GLA-methods	0.009	0.000	0.010
LA-methods	0.004	0.000	0.004
LiquidAssociation-package	0.065	0.002	0.066
getsGLA-methods	13.150	0.037	13.193
getsLA-methods	9.765	0.019	9.786
plotGLA-methods	0.014	0.001	1.015