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Package 175/319HostnameOS / ArchBUILDCHECKBUILD BIN
maDB 1.16.0
Johannes Rainer
Bioconductor Changelog
Snapshot Date: 2009-10-20 11:27:33 -0700 (Tue, 20 Oct 2009)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_4/madman/Rpacks/maDB
Last Changed Rev: 39013 / Revision: 42512
Last Changed Date: 2009-04-20 16:24:12 -0700 (Mon, 20 Apr 2009)
wilson1 Linux (openSUSE 11.1) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64 N O T   S U P P O R T E D
pitt Mac OS X Tiger (10.4.11) / i386  OK  OK  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK [ OK ] OK 
Package: maDB
Version: 1.16.0
Command: /Library/Frameworks/R.framework/Versions/2.9/Resources/bin/R CMD check --no-vignettes maDB_1.16.0.tar.gz
StartedAt: 2009-10-20 18:03:18 -0700 (Tue, 20 Oct 2009)
EndedAt: 2009-10-20 18:04:29 -0700 (Tue, 20 Oct 2009)
EllapsedTime: 70.9 seconds
RetCode: 0
Status: OK
CheckDir: maDB.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.4-bioc/meat/maDB.Rcheck'
* using R version 2.9.2 Patched (2009-08-24 r49420)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'maDB/DESCRIPTION' ... OK
* this is package 'maDB' version '1.16.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'maDB' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... 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
.resetAfterError: no visible binding for global variable
  ‘ConnectionForErrors’
* checking Rd files ... OK
* checking Rd files against version 2 parser ... 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
* checking examples ... OK
* checking PDF version of manual ... OK

maDB.Rcheck/00install.out:

* Installing *source* package ‘maDB’ ...
** R
** data
** inst
** preparing package for lazy loading

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: Rdbi
Loading required package: RdbiPgSQL
Creating a new generic function for "sort" in "maDB"
** help
*** installing help indices
 >>> Building/Updating help pages for package 'maDB'
     Formats: text html latex example 
Note: removing empty section \references in file 'Layout-class.Rd'
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  Layout-class                      text    html    latex
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  MAtoG                             text    html    latex
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  MAtoR                             text    html    latex
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  MadbSet-class                     text    html    latex
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  Sample-class                      text    html    latex
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  SignalChannel-class               text    html    latex
  Similarity-class                  text    html    latex
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  arrowProgress                     text    html    latex   example
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  average                           text    html    latex
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  calculateSimilarity               text    html    latex   example
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  checkForAnnotation                text    html    latex
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  createDirs                        text    html    latex
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  createFile                        text    html    latex
  createJOINQuery                   text    html    latex   example
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  createSampleFromTable             text    html    latex
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  dbCalculateRegulations            text    html    latex
  dbGetComparisons                  text    html    latex
  dbGetGeneRegulationRanking        text    html    latex
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  dbSearchSimilarPattern            text    html    latex
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  deleteExperimentFromDB            text    html    latex
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  distance.euclidian                text    html    latex
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  distance.pearson                  text    html    latex
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  distance.pearson.uncentered       text    html    latex
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  distance.spearman                 text    html    latex
  drawMAPlot                        text    html    latex
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  drawVolcanoPlot                   text    html    latex
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  format.latex                      text    html    latex
  getAnnotation                     text    html    latex
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  getDBAnnotation                   text    html    latex
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  getExpValue                       text    html    latex
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  getExperimentDBInfo               text    html    latex
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  getMDB                            text    html    latex
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  getPK                             text    html    latex
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  getPathFromFile                   text    html    latex   example
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  getSamplesFromDB                  text    html    latex
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  isDecimal                         text    html    latex   example
  loadFromDB                        text    html    latex
  maDB-package                      text    html    latex
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  mapply                            text    html    latex   example
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  mean.center                       text    html    latex   example
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  meanWithoutNA                     text    html    latex   example
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  multiGrep                         text    html    latex   example
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  myGrep                            text    html    latex
  newMadbSet                        text    html    latex
  openMadbVignette                  text    html    latex
  plotSimilarity                    text    html    latex
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  progress                          text    html    latex   example
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  publishToDB                       text    html    latex
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  replaceAll                        text    html    latex   example
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  replaces                          text    html    latex   example
  smallALL                          text    html    latex
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  updateDBAnnotation                text    html    latex
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  writeFigure                       text    html    latex
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  writeLatexTable                   text    html    latex
** building package indices ...
* DONE (maDB)