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Package 55/294HostnameOS / ArchBUILDCHECKBUILD BIN
cellHTS2 2.6.0
Florian Hahne
Bioconductor Changelog
Snapshot Date: 2009-04-18 11:27:48 -0700 (Sat, 18 Apr 2009)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_3/madman/Rpacks/cellHTS2
Last Changed Rev: 34811 / Revision: 38965
Last Changed Date: 2008-10-21 15:32:58 -0700 (Tue, 21 Oct 2008)
wilson2 Linux (openSUSE 11.1) / x86_64  OK  WARNINGS 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK [ WARNINGS ] OK 
pitt Mac OS X Tiger (10.4.11) / i386  OK  WARNINGS  OK 
pelham Mac OS X Leopard (10.5.6) / i386  OK  WARNINGS  OK 
Package: cellHTS2
Version: 2.6.0
Command: E:\biocbld\bbs-2.3-bioc\R\bin\R.exe CMD check --no-vignettes cellHTS2_2.6.0.tar.gz
StartedAt: 2009-04-18 18:26:32 -0700 (Sat, 18 Apr 2009)
EndedAt: 2009-04-18 18:30:52 -0700 (Sat, 18 Apr 2009)
EllapsedTime: 259.5 seconds
RetCode: 0
Status: WARNINGS
CheckDir: cellHTS2.Rcheck
Warnings: 1

Command output

* checking for working pdflatex ... OK
* using log directory 'E:/biocbld/bbs-2.3-bioc/meat/cellHTS2.Rcheck'
* using R version 2.8.1 (2008-12-22)
* using session charset: ISO8859-1
* checking for file 'cellHTS2/DESCRIPTION' ... OK
* this is package 'cellHTS2' version '2.6.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'cellHTS2' can be installed ... WARNING
Found the following significant warnings:
  WARNING: found \itemize inside \value in file 'configure.Rd'
  WARNING: found \itemize inside \value in file 'configure.Rd'
See 'E:/biocbld/bbs-2.3-bioc/meat/cellHTS2.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 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
Data<-,cellHTS-array: no visible global function definition for
  'channelNames<-'
* 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 cellHTS2-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating cellHTS2-manual.tex ... OK
* checking cellHTS2-manual.tex using pdflatex ... OK

WARNING: There was 1 warning, see
  E:/biocbld/bbs-2.3-bioc/meat/cellHTS2.Rcheck/00check.log
for details

cellHTS2.Rcheck/00install.out:

installing R.css in E:/biocbld/bbs-2.3-bioc/meat/cellHTS2.Rcheck


---------- Making package cellHTS2 ------------
  adding build stamp to DESCRIPTION
  installing NAMESPACE file and metadata
  installing R files
  installing inst files
  installing data files
  preparing package cellHTS2 for lazy loading
Loading required package: prada
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: RColorBrewer
Loading required package: grid
Loading required package: rrcov
Loading required package: robustbase
Loading required package: pcaPP
Loading required package: mvtnorm
KernSmooth 2.22 installed
Copyright M. P. Wand 1997
Loading required package: genefilter
Loading required package: survival
Loading required package: splines

Attaching package: 'survival'


	The following object(s) are masked from package:robustbase :

	 heart 

Loading required package: splots
Loading required package: vsn
Loading required package: lattice
Loading required package: affy
Loading required package: limma
  installing man source files
  installing indices
  not zipping data
  installing help
 >>> Building/Updating help pages for package 'cellHTS2'
     Formats: text html latex example chm 
  Bscore                            text    html    latex   example chm
  Data                              text    html    latex           chm
  ROC-class                         text    html    latex   example chm
  ROC                               text    html    latex   example chm
  annotate                          text    html    latex   example chm
  batch                             text    html    latex           chm
  bdgpbiomart                       text    html    latex   example chm
  cellHTS-class                     text    html    latex   example chm
  cellHTS2                          text    html    latex           chm
  configurationAsScreenPlot         text    html    latex   example chm
WARNING: found \itemize inside \value in file 'configure.Rd'
WARNING: found \itemize inside \value in file 'configure.Rd'
  configure                         text    html    latex   example chm
  convertOldCellHTS                 text    html    latex   example chm
  convertWellCoordinates            text    html    latex   example chm
  data-KcViab                       text    html    latex   example chm
  data-KcViabSmall                  text    html    latex   example chm
  data-dualCh                       text    html    latex   example chm
  data-oldKcViabSmall               text    html    latex   example chm
  getDynamicRange                   text    html    latex   example chm
  getEnVisionRawData                text    html    latex   example chm
  getMeasureRepAgreement            text    html    latex   example chm
  getTopTable                       text    html    latex   example chm
  getZfactor                        text    html    latex   example chm
  imageScreen                       text    html    latex   example chm
  intensityFiles                    text    html    latex           chm
  normalizePlates                   text    html    latex   example chm
Note: removing empty section \details in file 'oneRowPerId.Rd'
Note: removing empty section \details in file 'oneRowPerId.Rd'
  oneRowPerId                       text    html    latex   example chm
  plate                             text    html    latex           chm
  plateEffects                      text    html    latex           chm
  plotSpatialEffects                text    html    latex   example chm
  readHTAnalystData                 text    html    latex   example chm
  readPlateList                     text    html    latex   example chm
  scoreReplicates                   text    html    latex   example chm
  scores2calls                      text    html    latex   example chm
Note: removing empty section \references in file 'spatialNormalization.Rd'
Note: removing empty section \references in file 'spatialNormalization.Rd'
  spatialNormalization              text    html    latex   example chm
  state                             text    html    latex           chm
  summarizeChannels                 text    html    latex   example chm
  summarizeReplicates               text    html    latex   example chm
  templateDescriptionFile           text    html    latex   example chm
  wellAnno                          text    html    latex           chm
  write.tabdel                      text    html    latex   example chm
  writeReport                       text    html    latex   example chm
  writeTab                          text    html    latex   example chm
Microsoft HTML Help Compiler 4.74.8702

Compiling e:\biocbld\bbs-2.3-bioc\meat\cellHTS2.Rcheck\00_pkg_src\cellHTS2\chm\cellHTS2.chm


Compile time: 0 minutes, 13 seconds
43	Topics
456	Local links
0	Internet links
1	Graphic


Created e:\biocbld\bbs-2.3-bioc\meat\cellHTS2.Rcheck\00_pkg_src\cellHTS2\chm\cellHTS2.chm, 103,011 bytes
Compression decreased file by 148,587 bytes.
  adding MD5 sums

* DONE (cellHTS2)