Package: SNPchip

Version: 1.2.1

Command: E:\biocbld\bbs-2.1-bioc\R\bin\R.exe CMD check SNPchip_1.2.1.tar.gz

RetCode: 0

Time: 85.0 seconds

Status: OK

CheckDir: SNPchip.Rcheck

Warnings: 0

* checking for working latex ... OK
* using log directory 'E:/biocbld/bbs-2.1-bioc/meat/SNPchip.Rcheck'
* using R version 2.6.0 (2007-10-03)
* checking for file 'SNPchip/DESCRIPTION' ... OK
* this is package 'SNPchip' version '1.2.1'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'SNPchip' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... 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 ... NOTE
.drawCentromere: no visible binding for global variable
  'chromosomeAnnotation'
centromere: no visible binding for global variable
  'chromosomeAnnotation'
chromosomeSize: no visible binding for global variable
  'chromosomeAnnotation'
* 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 SNPchip-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating SNPchip-manual.tex ... OK
* checking SNPchip-manual.tex ... OK

installing R.css in E:/biocbld/bbs-2.1-bioc/meat/SNPchip.Rcheck


---------- Making package SNPchip ------------
  adding build stamp to DESCRIPTION
  installing NAMESPACE file and metadata
  installing R files
  installing inst files
  installing data files
  preparing package SNPchip for lazy loading
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: oligoClasses
Creating a new generic function for "summary" in "SNPchip"
  installing man source files
  installing indices
  not zipping data
  installing help
 >>> Building/Updating help pages for package 'SNPchip'
     Formats: text html latex example chm 
  DEPRECATED-classes                text    html    latex           chm
  ParESet-class                     text    html    latex   example chm
  ParSnpCallSet-class               text    html    latex   example chm
  ParSnpCopyNumberSet-class         text    html    latex   example chm
  ParSnpSet-class                   text    html    latex   example chm
  addFeatureData-method             text    html    latex           chm
  allPlots-methods                  text    html    latex           chm
  alleleA                           text    html    latex   example chm
  alleleB                           text    html    latex   example chm
  calculateCopyNumber               text    html    latex           chm
  centromere                        text    html    latex   example chm
  chromosome                        text    html    latex           chm
  chromosomeAnnotation              text    html    latex   example chm
  chromosomeSize                    text    html    latex   example chm
  coerce-methods                    text    html    latex           chm
  cytoband                          text    html    latex   example chm
  dbSnpId                           text    html    latex   example chm
  enzyme                            text    html    latex   example chm
  fragmentLength                    text    html    latex   example chm
  getPar-methods                    text    html    latex           chm
  getSnpAnnotation                  text    html    latex   example chm
  hapmap                            text    html    latex   example chm
  initialize-methods                text    html    latex           chm
  plotCytoband                      text    html    latex   example chm
  plotSnp                           text    html    latex   example chm
  position                          text    html    latex           chm
  sample.snpset                     text    html    latex   example chm
  selectSomeIndex                   text    html    latex   example chm
  show-methods                      text    html    latex           chm
  showSummary                       text    html    latex   example chm
  smoothSnp                         text    html    latex   example chm
  snpPar                            text    html    latex   example chm
  summary-methods                   text    html    latex           chm
  unsplitSnpSet                     text    html    latex   example chm
  updateObject-methods              text    html    latex           chm
Microsoft HTML Help Compiler 4.74.8702

Compiling e:\biocbld\bbs-2.1-bioc\meat\SNPchip.Rcheck\00_pkg_src\SNPchip\chm\SNPchip.chm


Compile time: 0 minutes, 0 seconds
36	Topics
139	Local links
1	Internet link
1	Graphic


Created e:\biocbld\bbs-2.1-bioc\meat\SNPchip.Rcheck\00_pkg_src\SNPchip\chm\SNPchip.chm, 37,680 bytes
Compression decreased file by 57,251 bytes.
  adding MD5 sums

* DONE (SNPchip)