Package: oligoClasses

Version: 0.0.2

Command: /loc/biocbuild/bbs-2.1-bioc/R/bin/R CMD check oligoClasses_0.0.2.tar.gz

RetCode: 0

Time: 44.8 seconds

Status: WARNINGS

CheckDir: oligoClasses.Rcheck

Warnings: 1

* checking for working latex ... OK
* using log directory '/extra/loc/biocbuild/bbs-2.1-bioc/meat/oligoClasses.Rcheck'
* using R version 2.6.0 Under development (unstable) (2007-08-06 r42439)
* checking for file 'oligoClasses/DESCRIPTION' ... OK
* this is package 'oligoClasses' version '0.0.2'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'oligoClasses' 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 for missing documentation entries ... WARNING
Undocumented code objects:
  calls calls<- callsConfidence callsConfidence<- cnConfidence
  cnConfidence<- copyNumber copyNumber<-
Undocumented S4 classes:
  AffySNPCNVPDInfo DBPDInfo ExonFeatureSet ExpressionFeatureSet
  FeatureSet oligoSnpSet PDInfo platformDesign QuantificationSet
  SnpCallSet SnpCnvFeatureSet SNPCNVPDInfo SnpCnvQSet SnpCopyNumberSet
  SnpFeatureSet SNPPDInfo SnpQSet TilingFeatureSet
Undocumented S4 methods:
  generic 'callsConfidence<-' and siglist 'SnpCallSet,matrix'
  generic 'callsConfidence<-' and siglist 'oligoSnpSet,matrix'
  generic 'callsConfidence' and siglist 'SnpCallSet'
  generic 'callsConfidence' and siglist 'oligoSnpSet'
  generic 'calls<-' and siglist 'SnpCallSet,matrix'
  generic 'calls<-' and siglist 'oligoSnpSet,matrix'
  generic 'calls' and siglist 'SnpCallSet'
  generic 'calls' and siglist 'oligoSnpSet'
  generic 'cnConfidence<-' and siglist 'SnpCopyNumberSet,matrix'
  generic 'cnConfidence<-' and siglist 'oligoSnpSet,matrix'
  generic 'cnConfidence' and siglist 'SnpCopyNumberSet'
  generic 'cnConfidence' and siglist 'oligoSnpSet'
  generic 'copyNumber<-' and siglist 'SnpCopyNumberSet,matrix'
  generic 'copyNumber<-' and siglist 'oligoSnpSet,matrix'
  generic 'copyNumber' and siglist 'SnpCopyNumberSet'
  generic 'copyNumber' and siglist 'oligoSnpSet'
  generic 'initialize' and siglist 'SnpCallSet'
  generic 'initialize' and siglist 'SnpCopyNumberSet'
  generic 'initialize' and siglist 'oligoSnpSet'
All user-level objects in a package (including S4 classes and methods)
should have documentation entries.
See the chapter 'Writing R documentation files' in manual 'Writing R
Extensions'.
* checking DVI version of manual ... OK

WARNING: There was 1 warning, see
  /extra/loc/biocbuild/bbs-2.1-bioc/meat/oligoClasses.Rcheck/00check.log
for details

* Installing *source* package 'oligoClasses' ...
** R
** preparing package for lazy loading
Loading required package: Biobase
Loading required package: tools

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No man pages found in package 'oligoClasses'
** building package indices ...
* DONE (oligoClasses)