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Package 27/208OSArchBUILDCHECKBUILD BIN

BeadExplorer

1.1.3

Gareth Elvidge
Linux (SUSE 9.2) x86_64 OK  WARNINGS 
Linux (SUSE 10.1) x86_64 OK  WARNINGS 
Linux (SUSE 9.2) i686 OK  WARNINGS 
Solaris 2.9 sparc OK  WARNINGS 
Windows Server 2003 x86_64 OK [ WARNINGS ] OK 
Windows Server 2003 NA OK  TIMEOUT  OK 
Mac OS X (10.4.6) i686 OK  WARNINGS 
Package: BeadExplorer
Version: 1.1.3
Command: D:\biocbld\2.0d\R\bin\R.exe CMD check BeadExplorer_1.1.3.tar.gz
RetCode: 0
Time: 167.9 seconds
Status: WARNINGS
CheckDir: BeadExplorer.Rcheck
Warnings: 3

Command output

* checking for working latex ... OK
* using log directory 'D:/biocbld/2.0d/Rpacks/BeadExplorer.Rcheck'
* using R version 2.5.0 Under development (unstable) (2006-12-05 r40126)
* checking for file 'BeadExplorer/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'BeadExplorer' version '1.1.3'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'BeadExplorer' can be installed ... WARNING
Found the following significant warnings:
  Warning: '\/' is an unrecognized escape in a character string
  Warning: unrecognized escape removed from "\/"
See 'D:/biocbld/2.0d/Rpacks/BeadExplorer.Rcheck/00install.out' for details.
* 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 syntax errors ... WARNING
Warning: '\/' is an unrecognized escape in a character string
Warning: unrecognized escape removed from "\/"
* checking R files for non-ASCII characters ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... 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 ... WARNING
Undocumented S4 methods:
  generic 'annotation<-' and siglist 'beadQC,ANY'
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 for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* creating BeadExplorer-Ex.R ... OK
* checking examples ... OK
* creating BeadExplorer-manual.tex ... OK
* checking BeadExplorer-manual.tex ... OK

WARNING: There were 3 warnings, see
  D:/biocbld/2.0d/Rpacks/BeadExplorer.Rcheck/00check.log
for details

BeadExplorer.Rcheck/00install.out:

installing R.css in D:/biocbld/2.0d/Rpacks/BeadExplorer.Rcheck


---------- Making package BeadExplorer ------------
  adding build stamp to DESCRIPTION
  installing R files
  installing inst files
  installing data files
  installing man source files
  installing indices
  not zipping data
  installing help
 >>> Building/Updating help pages for package 'BeadExplorer'
     Formats: text html latex example chm 
  HumRef8                           text    html    latex   example chm
  HumWG6                            text    html    latex   example chm
  addManifest                       text    html    latex   example chm
  batchAnalysis                     text    html    latex   example chm
  beadAnalysis                      text    html    latex   example chm
  beadData-accessor                 text    html    latex           chm
  beadData-class                    text    html    latex   example chm
  beadQC-class                      text    html    latex   example chm
  boxplotArrays                     text    html    latex   example chm
  boxplotQC                         text    html    latex   example chm
  clusterplot                       text    html    latex   example chm
  cutoff                            text    html    latex   example chm
  detectionCalls                    text    html    latex   example chm
  dotplotArrays                     text    html    latex   example chm
  dotplotQC                         text    html    latex   example chm
  examplebeadData                   text    html    latex   example chm
  examplebeadQC                     text    html    latex   example chm
  extract                           text    html    latex   example chm
  filterData                        text    html    latex   example chm
  getAnnot                          text    html    latex   example chm
  getArrayStats                     text    html    latex   example chm
  getDet                            text    html    latex   example chm
  getExprs                          text    html    latex   example chm
  getID                             text    html    latex   example chm
  getQC                             text    html    latex   example chm
  getQC2                            text    html    latex   example chm
  htmloutput                        text    html    latex   example chm
  multiDensity                      text    html    latex   example chm
  multiecdf                         text    html    latex   example chm
  normalise                         text    html    latex   example chm
  pc                                text    html    latex   example chm
  plotSamples                       text    html    latex   example chm
  readBead                          text    html    latex   example chm
  readManifest                      text    html    latex   example chm
  readQC                            text    html    latex   example chm
  scatterPlot                       text    html    latex   example chm
  write.beadData                    text    html    latex   example chm
  writeQC                           text    html    latex   example chm
Microsoft HTML Help Compiler 4.74.8702

Compiling d:\biocbld\2.0d\Rpacks\BeadExplorer.Rcheck\00_pkg_src\BeadExplorer\chm\BeadExplorer.chm


Compile time: 0 minutes, 0 seconds
39	Topics
188	Local links
0	Internet links
1	Graphic


Created d:\biocbld\2.0d\Rpacks\BeadExplorer.Rcheck\00_pkg_src\BeadExplorer\chm\BeadExplorer.chm, 47,927 bytes
Compression decreased file by 82,177 bytes.
  preparing package BeadExplorer for lazy loading
Loading required package: widgetTools
Loading required package: affy
Loading required package: Biobase
Loading required package: tools

Welcome to Bioconductor

    Vignettes contain introductory material. To view, type
    'openVignette()' or start with 'help(Biobase)'. For details
    on reading vignettes, see the openVignette help page.

Loading required package: affyio
Loading required package: R2HTML
Loading required package: tkWidgets
Loading required package: DynDoc
Warning: '\/' is an unrecognized escape in a character string
Warning: unrecognized escape removed from "\/"
  adding MD5 sums

* DONE (BeadExplorer)