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Package 195/294HostnameOS / ArchBUILDCHECKBUILD BIN
ontoTools 1.20.0
Vince Carey
Bioconductor Changelog
Snapshot Date: 2009-04-18 11:27:48 -0700 (Sat, 18 Apr 2009)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_3/madman/Rpacks/ontoTools
Last Changed Rev: 34811 / Revision: 38965
Last Changed Date: 2008-10-21 15:32:58 -0700 (Tue, 21 Oct 2008)
wilson2 Linux (openSUSE 11.1) / x86_64  OK [ OK ]
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
pitt Mac OS X Tiger (10.4.11) / i386  OK  OK  OK 
pelham Mac OS X Leopard (10.5.6) / i386  OK  OK  OK 
Package: ontoTools
Version: 1.20.0
Command: /home/biocbuild/bbs-2.3-bioc/R/bin/R CMD check --no-vignettes ontoTools_1.20.0.tar.gz
StartedAt: 2009-04-18 16:11:02 -0700 (Sat, 18 Apr 2009)
EndedAt: 2009-04-18 16:12:54 -0700 (Sat, 18 Apr 2009)
EllapsedTime: 111.5 seconds
RetCode: 0
Status: OK
CheckDir: ontoTools.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory '/loc/home/biocbuild/bbs-2.3-bioc/meat/ontoTools.Rcheck'
* using R version 2.8.1 (2008-12-22)
* using session charset: UTF-8
* checking for file 'ontoTools/DESCRIPTION' ... OK
* this is package 'ontoTools' version '1.20.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'ontoTools' 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 name space can be loaded with stated dependencies ... 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 cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking data for non-ASCII characters ... OK
* creating ontoTools-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating ontoTools-manual.tex ... OK
* checking ontoTools-manual.tex using pdflatex ... OK

ontoTools.Rcheck/00install.out:

* Installing *source* package 'ontoTools' ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: graph
Loading required package: Biobase
Loading required package: tools

Welcome to Bioconductor

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

Loading required package: AnnotationDbi
Loading required package: SparseM
Package SparseM (0.79) loaded.  To cite, see citation("SparseM")

Attaching package: 'SparseM'


	The following object(s) are masked from package:stats :

	 model.response 


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

	 backsolve,
	 chol 

Loading required package: GO.db
Loading required package: DBI
Loading required package: annotate
Loading required package: xtable
Creating a new generic function for "grep" in "ontoTools"
** help
 >>> Building/Updating help pages for package 'ontoTools'
     Formats: text html latex example 
Note: removing empty section \references in file 'A.csr.Rd'
  A.csr                             text    html    latex
Note: removing empty section \value in file 'GDI.Rd'
Note: removing empty section \references in file 'GDI.Rd'
  GDI                               text    html    latex   example
  LLGOMFcp                          text    html    latex
  OOC-class                         text    html    latex   example
Note: removing empty section \references in file 'SGDIvocab.Rd'
  SGDIvocab                         text    html    latex   example
Note: removing empty section \value in file 'STMA.Rd'
Note: removing empty section \details in file 'STMA.Rd'
Note: removing empty section \references in file 'STMA.Rd'
  STMA                              text    html    latex   example
Note: removing empty section \details in file 'accessMat.Rd'
Note: removing empty section \examples in file 'accessMat.Rd'
  accessMat                         text    html    latex
  buildGOgraph                      text    html    latex   example
Note: removing empty section \examples in file 'compoundGraph-class.Rd'
  compoundGraph-class               text    html    latex
  depthStruct                       text    html    latex   example
  gomfAmat                          text    html    latex
Note: removing empty section \source in file 'litOnto.Rd'
Note: removing empty section \references in file 'litOnto.Rd'
  litOnto                           text    html    latex
  namedSparse-class                 text    html    latex   example
  ontology-class                    text    html    latex   example
Note: removing empty section \references in file 'ooMapLL2GOMFdemo.Rd'
  ooMapLL2GOMFdemo                  text    html    latex
  otkvEnv2namedSparse               text    html    latex   example
Note: removing empty section \examples in file 'rootedDAG-class.Rd'
  rootedDAG-class                   text    html    latex
  semsim                            text    html    latex   example
Note: removing empty section \references in file 'taggedHierNomenclature-class.Rd'
  taggedHierNomenclature-class      text    html    latex   example
  toDot-methods                     text    html    latex   example
** building package indices ...
* DONE (ontoTools)