Package: VanillaICE

Version: 1.0.0

Command: E:\biocbld\bbs-2.1-bioc\R\bin\R.exe CMD check VanillaICE_1.0.0.tar.gz

RetCode: 0

Time: 103.8 seconds

Status: OK

CheckDir: VanillaICE.Rcheck

Warnings: 0

* checking for working latex ... OK
* using log directory 'E:/biocbld/bbs-2.1-bioc/meat/VanillaICE.Rcheck'
* using R version 2.6.0 (2007-10-03)
* checking for file 'VanillaICE/DESCRIPTION' ... OK
* this is package 'VanillaICE' 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 'VanillaICE' 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 ... 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 VanillaICE-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating VanillaICE-manual.tex ... OK
* checking VanillaICE-manual.tex ... OK

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


---------- Making package VanillaICE ------------
  adding build stamp to DESCRIPTION
  installing NAMESPACE file and metadata
  installing R files
  installing inst files
  installing data files
  preparing package VanillaICE for lazy loading
Loading required package: SNPchip
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
  installing man source files
  installing indices
  not zipping data
  installing help
 >>> Building/Updating help pages for package 'VanillaICE'
     Formats: text html latex example chm 
  HmmSnpCallSet-class               text    html    latex   example chm
  HmmSnpCopyNumberSet-class         text    html    latex   example chm
  HmmSnpSet-class                   text    html    latex   example chm
  ParHSet-class                     text    html    latex   example chm
  ParHmmSnpCallSet-class            text    html    latex   example chm
  ParHmmSnpCopyNumberSet-class      text    html    latex   example chm
  ParHmmSnpSet-class                text    html    latex   example chm
  bind                              text    html    latex   example chm
  breakpoints                       text    html    latex   example chm
  byArm                             text    html    latex   example chm
  calculateEmissionProbability      text    html    latex   example chm
  callEmission                      text    html    latex   example chm
  callsIce                          text    html    latex   example chm
  chromosome1                       text    html    latex   example chm
  chromosomeArm                     text    html    latex   example chm
  copyNumberIce                     text    html    latex   example chm
  distance                          text    html    latex   example chm
  emissionProbability               text    html    latex   example chm
  getCallEmission                   text    html    latex   example chm
  getCopyNumberLocation             text    html    latex   example chm
  getCopyNumberScale                text    html    latex   example chm
  getHapmapProbabilities            text    html    latex   example chm
  getInitialStateProbability        text    html    latex   example chm
  getLohProbability                 text    html    latex   example chm
  getTransitionProbability          text    html    latex   example chm
  hSet-class                        text    html    latex   example chm
  hapmapProbabilities               text    html    latex   example chm
  hmm                               text    html    latex   example chm
  hmmBySample                       text    html    latex   example chm
  initialStateProbability           text    html    latex   example chm
  isMissing                         text    html    latex   example chm
  likelihood                        text    html    latex   example chm
  locationCopyNumber                text    html    latex   example chm
  numberStates                      text    html    latex   example chm
  pCHOM                             text    html    latex   example chm
  plotPredictions                   text    html    latex   example chm
  predictions                       text    html    latex   example chm
  scaleCopyNumber                   text    html    latex   example chm
  stateNames                        text    html    latex   example chm
  transitionProbability             text    html    latex   example chm
  viterbi                           text    html    latex   example chm
Microsoft HTML Help Compiler 4.74.8702

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


Compile time: 0 minutes, 0 seconds
42	Topics
221	Local links
3	Internet links
1	Graphic


Created e:\biocbld\bbs-2.1-bioc\meat\VanillaICE.Rcheck\00_pkg_src\VanillaICE\chm\VanillaICE.chm, 47,539 bytes
Compression decreased file by 118,008 bytes.
  adding MD5 sums

* DONE (VanillaICE)