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Package 234/260HostnameOS / ArchBUILDCHECKBUILD BIN
SNPchip 1.4.0
Robert Scharpf
Snapshot Date: 2008-10-16 00:10:09 -0700 (Thu, 16 Oct 2008)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_2/madman/Rpacks/SNPchip
Last Changed Rev: 31430 / Revision: 34573
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: SNPchip
Version: 1.4.0
Command: E:\biocbld\bbs-2.2-bioc\R\bin\R.exe CMD check SNPchip_1.4.0.tar.gz
StartedAt: 2008-10-16 07:32:52 -0700 (Thu, 16 Oct 2008)
EndedAt: 2008-10-16 07:34:13 -0700 (Thu, 16 Oct 2008)
EllapsedTime: 81.1 seconds
RetCode: 0
Status: OK
CheckDir: SNPchip.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory 'E:/biocbld/bbs-2.2-bioc/meat/SNPchip.Rcheck'
* using R version 2.7.2 (2008-08-25)
* using session charset: ISO8859-1
* checking for file 'SNPchip/DESCRIPTION' ... OK
* this is package 'SNPchip' version '1.4.0'
* 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
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 using pdflatex ... OK

SNPchip.Rcheck/00install.out:

installing R.css in E:/biocbld/bbs-2.2-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
Note: removing empty section \source
Note: removing empty section \details
Note: removing empty section \references
Note: removing empty section \source
Note: removing empty section \details
Note: removing empty section \references
Note: removing empty section \author
Note: removing empty section \details
Note: removing empty section \note
Note: removing empty section \references
Note: removing empty section \examples
Note: removing empty section \seealso
Note: removing empty section \author
Note: removing empty section \details
Note: removing empty section \note
Note: removing empty section \references
Note: removing empty section \examples
Note: removing empty section \seealso
Note: removing empty section \value
Note: removing empty section \details
Note: removing empty section \note
Note: removing empty section \references
Note: removing empty section \examples
Note: removing empty section \value
Note: removing empty section \details
Note: removing empty section \note
Note: removing empty section \references
Note: removing empty section \examples
 >>> Building/Updating help pages for package 'SNPchip'
     Formats: text html latex example chm 
  HmmPredict-class                  text    html    latex   example 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
  RatioSnpSet-class                 text    html    latex   example chm
  RatioSnpSet-methods               text    html    latex           chm
  addFeatureData-method             text    html    latex           chm
  alleleA                           text    html    latex           chm
  alleleB                           text    html    latex           chm
  centromere                        text    html    latex   example chm
  chromosome2numeric                text    html    latex           chm
  chromosomeAnnotation              text    html    latex   example chm
  chromosomeSize                    text    html    latex   example chm
  coerce-methods                    text    html    latex           chm
  crlmmOut                          text    html    latex   example chm
  cytoband                          text    html    latex   example chm
  dbSnpId                           text    html    latex   example chm
  enzyme                            text    html    latex           chm
  featureData-accessors             text    html    latex           chm
  fragmentLength                    text    html    latex           chm
  getPar                            text    html    latex           chm
  hapmap                            text    html    latex   example chm
  hmmPredict                        text    html    latex           chm
  plotCytoband                      text    html    latex   example chm
  plotPredictions                   text    html    latex   example chm
  plotSnp                           text    html    latex   example chm
  sample.snpset                     text    html    latex   example chm
  selectSomeIndex                   text    html    latex           chm
  show-methods                      text    html    latex           chm
  showSummary                       text    html    latex           chm
  smoothSnp                         text    html    latex           chm
  snpPar                            text    html    latex   example chm
  snpset                            text    html    latex           chm
  summary-methods                   text    html    latex           chm
  updateObject-methods              text    html    latex           chm
Microsoft HTML Help Compiler 4.74.8702

Compiling e:\biocbld\bbs-2.2-bioc\meat\SNPchip.Rcheck\00_pkg_src\SNPchip\chm\SNPchip.chm


Compile time: 0 minutes, 0 seconds
37	Topics
161	Local links
1	Internet link
1	Graphic


Created e:\biocbld\bbs-2.2-bioc\meat\SNPchip.Rcheck\00_pkg_src\SNPchip\chm\SNPchip.chm, 39,364 bytes
Compression decreased file by 66,517 bytes.
  adding MD5 sums

* DONE (SNPchip)