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Package 158/251HostnameOS / ArchBUILDCHECKBUILD BIN
ontoTools 1.15.0
Vince Carey
Snapshot Date: 2007-12-11 00:09:07 -0800 (Tue, 11 Dec 2007)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ontoTools
Last Changed Rev: 27716 / Revision: 29143
Last Changed Date: 2007-10-02 18:16:39 -0700 (Tue, 02 Oct 2007)
lamb1 Linux (SUSE 10.1) / x86_64  OK  OK 
wilson2 Linux (openSUSE 10.3) / x86_64  OK [ OK ]
wellington Linux (openSUSE 10.3) / i686  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
lemming Windows Server 2003 (32-bit) / x64  OK  OK  OK 
Package: ontoTools
Version: 1.15.0
Command: /home/biocbuild/bbs-2.2-bioc/R/bin/R CMD check ontoTools_1.15.0.tar.gz
StartedAt: 2007-12-11 04:23:23 -0700 (Tue, 11 Dec 2007)
EndedAt: 2007-12-11 04:27:38 -0700 (Tue, 11 Dec 2007)
EllapsedTime: 254.6 seconds
RetCode: 0
Status: OK
CheckDir: ontoTools.Rcheck
Warnings: 0

Command output

* checking for working latex ... OK
* using log directory '/loc/home/biocbuild/bbs-2.2-bioc/meat/ontoTools.Rcheck'
* using R version 2.7.0 Under development (unstable) (2007-12-06 r43609)
* checking for file 'ontoTools/DESCRIPTION' ... OK
* this is package 'ontoTools' version '1.15.0'
* 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 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' ... NOTE
--- running texi2dvi on vignettes
/usr/bin/texi2dvi: Running pdflatex --file-line-error </dev/null '\nonstopmode' '\input' './ontoToolsArchiving.tex' ...
/usr/bin/texi2dvi: Running pdflatex --file-line-error </dev/null '\nonstopmode' '\input' './ontoToolsArchiving.tex' ...
/usr/bin/texi2dvi: Running pdflatex --file-line-error </dev/null '\nonstopmode' '\input' './ontoToolsArchiving.tex' ...
/usr/bin/texi2dvi: Running pdflatex --file-line-error </dev/null '\nonstopmode' '\input' './ontoTools.tex' ...
/usr/bin/texi2dvi: Running pdflatex --file-line-error </dev/null '\nonstopmode' '\input' './ontoTools.tex' ...
/usr/bin/texi2dvi: Running pdflatex --file-line-error </dev/null '\nonstopmode' '\input' './ontoTools.tex' ...
/usr/bin/texi2dvi: Running pdflatex --file-line-error </dev/null '\nonstopmode' '\input' './sgdiOnto.tex' ...
/usr/bin/texi2dvi: Running pdflatex --file-line-error </dev/null '\nonstopmode' '\input' './sgdiOnto.tex' ...
* creating ontoTools-manual.tex ... OK
* checking ontoTools-manual.tex ... OK

ontoTools.Rcheck/00install.out:

/loc/home/biocbuild/bbs-2.2-bioc/meat/ontoTools.Rcheck
* Installing *source* package 'ontoTools' ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: graph
Loading required package: SparseM
Package SparseM (0.74) loaded.  To cite, see citation("SparseM")
Loading required package: GO
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: annotate
Loading required package: AnnotationDbi
Loading required package: DBI
Loading required package: RSQLite
Loading required package: xtable
Creating a new generic function for "grep" in "ontoTools"
** help
Note: removing empty section \references
Note: removing empty section \value
Note: removing empty section \references
Note: removing empty section \references
Note: removing empty section \value
Note: removing empty section \details
Note: removing empty section \references
Note: removing empty section \details
Note: removing empty section \examples
Note: removing empty section \examples
Note: removing empty section \source
Note: removing empty section \references
Note: removing empty section \references
Note: removing empty section \examples
Note: removing empty section \references
 >>> Building/Updating help pages for package 'ontoTools'
     Formats: text html latex example 
  A.csr                             text    html    latex
  GDI                               text    html    latex   example
  LLGOMFcp                          text    html    latex
  OOC-class                         text    html    latex   example
  SGDIvocab                         text    html    latex   example
  STMA                              text    html    latex   example
  accessMat                         text    html    latex
  buildGOgraph                      text    html    latex   example
  compoundGraph-class               text    html    latex
  depthStruct                       text    html    latex   example
  gomfAmat                          text    html    latex
  litOnto                           text    html    latex
  namedSparse-class                 text    html    latex   example
  ontology-class                    text    html    latex   example
  ooMapLL2GOMFdemo                  text    html    latex
  otkvEnv2namedSparse               text    html    latex   example
  rootedDAG-class                   text    html    latex
  semsim                            text    html    latex   example
  taggedHierNomenclature-class      text    html    latex   example
  toDot-methods                     text    html    latex   example
** building package indices ...
* DONE (ontoTools)