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Package 230/260HostnameOS / ArchBUILDCHECKBUILD BIN
SLGI 1.0.0
Nolwenn Le Meur
Snapshot Date: 2008-08-08 00:12:03 -0700 (Fri, 08 Aug 2008)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_2/madman/Rpacks/SLGI
Last Changed Rev: 31430 / Revision: 33132
Last Changed Date: 2008-04-29 16:50:18 -0700 (Tue, 29 Apr 2008)
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 
pitt Mac OS X Tiger (10.4.11) / i386  OK [ OK ] OK 
Package: SLGI
Version: 1.0.0
Command: /Library/Frameworks/R.framework/Versions/2.7/Resources/bin/R CMD check SLGI_1.0.0.tar.gz
StartedAt: 2008-08-08 06:14:45 -0700 (Fri, 08 Aug 2008)
EndedAt: 2008-08-08 06:33:41 -0700 (Fri, 08 Aug 2008)
EllapsedTime: 1136.1 seconds
RetCode: 0
Status: OK
CheckDir: SLGI.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.2-bioc/meat/SLGI.Rcheck'
* using R version 2.7.1 (2008-06-23)
* using session charset: ASCII
* checking for file 'SLGI/DESCRIPTION' ... OK
* this is package 'SLGI' version '1.0.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'SLGI' 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 SLGI-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating SLGI-manual.tex ... OK
* checking SLGI-manual.tex using pdflatex ... OK

SLGI.Rcheck/00install.out:

* Installing *source* package 'SLGI' ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: ScISI
Loading required package: apComplex
Loading required package: graph
Loading required package: RBGL
Loading required package: Rgraphviz
Loading required package: grid
Loading required package: YEAST

******* Deprecation warning *******:

The package 'YEAST' is deprecated and will not be supported in the future. 

Instead we strongly reccomend that you should start using the 'org.Sc.sgd.db' package. 

We hope you will enjoy these new packages.  If you still have questions, you can search 
(http://dir.gmane.org/gmane.science.biology.informatics.conductor) or ask the mailing list 
(http://bioconductor.org/docs/mailList.html).  


Loading required package: GO

******* Deprecation warning *******:

The package 'GO' is deprecated and will not be supported in the future. 

Instead we strongly reccomend that you should start using the 'GO.db' package. 

We hope you will enjoy these new packages.  If you still have questions, you can search 
(http://dir.gmane.org/gmane.science.biology.informatics.conductor) or ask the mailing list 
(http://bioconductor.org/docs/mailList.html).  


Loading required package: GOstats
Loading required package: GO.db
Loading required package: AnnotationDbi
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: DBI
Loading required package: RSQLite

Attaching package: 'GO.db'


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

	 GO,
	 GOBPANCESTOR,
	 GOBPCHILDREN,
	 GOBPOFFSPRING,
	 GOBPPARENTS,
	 GOCCANCESTOR,
	 GOCCCHILDREN,
	 GOCCOFFSPRING,
	 GOCCPARENTS,
	 GOMAPCOUNTS,
	 GOMFANCESTOR,
	 GOMFCHILDREN,
	 GOMFOFFSPRING,
	 GOMFPARENTS,
	 GOOBSOLETE,
	 GOSYNONYM,
	 GOTERM 

Loading required package: annotate
Loading required package: xtable

Attaching package: 'annotate'


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

	 toFile 

Loading required package: Category
Loading required package: genefilter
Loading required package: survival
Loading required package: splines
Loading required package: Rintact
Loading required package: XML

Attaching package: 'XML'


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

	 addNode 

Loading required package: hypergraph

Attaching package: 'hypergraph'


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

	 label,
	 label<- 


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

	 head,
	 tail 


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

	 head,
	 tail 


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

	 head,
	 tail 

Loading required package: lattice
Loading required package: org.Sc.sgd.db
** help
 >>> Building/Updating help pages for package 'SLGI'
     Formats: text html latex example 
  Atong                             text    html    latex   example
  AtongFnDomain                     text    html    latex   example
  AtongPair                         text    html    latex   example
  Boeke                             text    html    latex
  SDL                               text    html    latex   example
  SGA                               text    html    latex   example
  SGD.SL                            text    html    latex   example
  TFmat                             text    html    latex   example
  byComplex                         text    html    latex   example
  comemberIn                        text    html    latex   example
  compare                           text    html    latex   example
  congruence                        text    html    latex   example
  createSquareMatrix                text    html    latex   example
  dSLAM.GPL1444                     text    html    latex
  domainDist                        text    html    latex   example
  essglist                          text    html    latex   example
  getFASTAname                      text    html    latex   example
  getInteraction                    text    html    latex   example
  getSharedDomains                  text    html    latex   example
  getSharedInteraction              text    html    latex   example
  getTestedPairs                    text    html    latex   example
  getUniquePairs                    text    html    latex   example
  gi2005                            text    html    latex   example
  gi2007                            text    html    latex   example
  gi2Interactome                    text    html    latex   example
  hyperG                            text    html    latex   example
  iSummary                          text    html    latex   example
  modelSLGI                         text    html    latex   example
  normInteraction                   text    html    latex   example
  plot                              text    html    latex   example
  seqMatcherAlign                   text    html    latex   example
  sharedBy                          text    html    latex   example
  sharedInt                         text    html    latex   example
  siResult-class                    text    html    latex   example
  test2Interact                     text    html    latex   example
  topInteraction                    text    html    latex   example
  twoWayTable                       text    html    latex   example
  withinComplex                     text    html    latex   example
** building package indices ...
* DONE (SLGI)