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Package 222/319HostnameOS / ArchBUILDCHECKBUILD BIN
PCpheno 1.6.0
Nolwenn Le Meur
Bioconductor Changelog
Snapshot Date: 2009-10-20 11:27:33 -0700 (Tue, 20 Oct 2009)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_4/madman/Rpacks/PCpheno
Last Changed Rev: 39013 / Revision: 42512
Last Changed Date: 2009-04-20 16:24:12 -0700 (Mon, 20 Apr 2009)
wilson1 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 (10.5.8) / i386  OK [ OK ] OK 
Package: PCpheno
Version: 1.6.0
Command: /Library/Frameworks/R.framework/Versions/2.9/Resources/bin/R CMD check --no-vignettes PCpheno_1.6.0.tar.gz
StartedAt: 2009-10-20 18:25:51 -0700 (Tue, 20 Oct 2009)
EndedAt: 2009-10-20 18:29:01 -0700 (Tue, 20 Oct 2009)
EllapsedTime: 190.4 seconds
RetCode: 0
Status: OK
CheckDir: PCpheno.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.4-bioc/meat/PCpheno.Rcheck'
* using R version 2.9.2 Patched (2009-08-24 r49420)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'PCpheno/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'PCpheno' version '1.6.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'PCpheno' 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 files against version 2 parser ... 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
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

PCpheno.Rcheck/00install.out:

* Installing *source* package ‘PCpheno’ ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: AnnotationDbi
Loading required package: Biobase

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: GO.db
Loading required package: DBI
Loading required package: RpsiXML
Loading required package: annotate
Loading required package: graph
Loading required package: RBGL
Loading required package: hypergraph

Attaching package: 'hypergraph'


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

	 head,
	 tail 


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

	 head,
	 tail 

Warning in namespaceImportFrom(self, asNamespace(ns)) :
  replacing previous import: addNode
Loading required package: apComplex
Warning in fun(...) :
  Rgraphviz built with Graphviz version 2.22.2.
Found installed Graphviz version 2.24.0. This _may_ cause problems.
Loading required package: lattice
Loading required package: ppiData
Loading required package: Rgraphviz
Loading required package: grid

Attaching package: 'Rgraphviz'


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

	 toFile 

Warning in namespaceImportFrom(self, asNamespace(ns), allVars, allFuns,  :
  replacing previous import: geneIds
** help
*** installing help indices
 >>> Building/Updating help pages for package 'PCpheno'
     Formats: text html latex example 
  CoHyperGParams-class              text    html    latex
  CoHyperGResult-class              text    html    latex   example
  Dudley                            text    html    latex   example
  Giaever                           text    html    latex   example
  HI                                text    html    latex   example
  KEGG2SCISI                        text    html    latex   example
  Kastenmayer                       text    html    latex   example
  Lesage                            text    html    latex   example
  Osterberg                         text    html    latex   example
  PCpheno.package                   text    html    latex
  SGDphenoL                         text    html    latex   example
  YEASTOHNOLOG                      text    html    latex   example
  buildFDMat                        text    html    latex   example
  categoryToEntrezBuilder           text    html    latex   example
  complexStatus                     text    html    latex   example
  deResult-class                    text    html    latex   example
  densityEstimate                   text    html    latex   example
  getDescr                          text    html    latex   example
  getFDgene                         text    html    latex   example
  graphTheory                       text    html    latex   example
  gtResult-class                    text    html    latex   example
  overlap                           text    html    latex   example
  plot                              text    html    latex   example
  ppiInteraction                    text    html    latex   example
  reduceM                           text    html    latex   example
  testResult-class                  text    html    latex
  truncName                         text    html    latex   example
** building package indices ...
* DONE (PCpheno)