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Package 155/319HostnameOS / ArchBUILDCHECKBUILD BIN
ITALICS 2.4.0
Guillem Rigaill
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/ITALICS
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  OK  OK  OK 
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: ITALICS
Version: 2.4.0
Command: /Library/Frameworks/R.framework/Versions/2.9/Resources/bin/R CMD check --no-vignettes ITALICS_2.4.0.tar.gz
StartedAt: 2009-10-20 17:54:31 -0700 (Tue, 20 Oct 2009)
EndedAt: 2009-10-20 17:56:22 -0700 (Tue, 20 Oct 2009)
EllapsedTime: 110.5 seconds
RetCode: 0
Status: OK
CheckDir: ITALICS.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.4-bioc/meat/ITALICS.Rcheck'
* using R version 2.9.2 Patched (2009-08-24 r49420)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'ITALICS/DESCRIPTION' ... OK
* this is package 'ITALICS' version '2.4.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'ITALICS' 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 ... OK
* 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 examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

ITALICS.Rcheck/00install.out:

* Installing *source* package ‘ITALICS’ ...
** R
** inst
** preparing package for lazy loading
[1] "Have fun with GLAD"
[1] "For smoothing it is possible to use either"
[1] "the AWS algorithm (Polzehl and Spokoiny, 2002)"
[1] "or the HaarSeg algorithm (Ben-Yaacov and Eldar, 2008)"
[1] ""
[1] "If you use the package with AWS, please cite:"
[1] "Hupe et al. (2004) and Polzehl and Spokoiny (2002)"
[1] ""
[1] "If you use the package with HaarSeg, please cite:"
[1] "Hupe et al. (2004) and (Ben-Yaacov and Eldar, 2008)"
Loading required package: oligoClasses
Loading required package: Biobase

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: preprocessCore
Welcome to oligo version 1.8.3
Loading required package: RSQLite
Loading required package: DBI
** help
*** installing help indices
 >>> Building/Updating help pages for package 'ITALICS'
     Formats: text html latex example 
Note: ignoring empty \keyword entries in file 'GLAD.GLAD.Rd'
  GLAD.GLAD                         text    html    latex
Note: ignoring empty \keyword entries in file 'ITALICSNew.Rd'
  ITALICSNew                        text    html    latex   example
Note: ignoring empty \keyword entries in file 'ITALICSTrain.Rd'
  ITALICSTrain                      text    html    latex
Note: ignoring empty \keyword entries in file 'Model.GetConfDat.Rd'
  Model.GetConfDat                  text    html    latex
Note: ignoring empty \keyword entries in file 'Model.GetCorrection.Rd'
  Model.GetCorrection               text    html    latex
Note: ignoring empty \keyword entries in file 'Model.GetEffet.Rd'
  Model.GetEffet                    text    html    latex
Note: ignoring empty \keyword entries in file 'Model.GetModel.Rd'
  Model.GetModel                    text    html    latex
Note: ignoring empty \keyword entries in file 'Model.GetResidu.Rd'
  Model.GetResidu                   text    html    latex
Note: ignoring empty \keyword entries in file 'New.AddInfo.Rd'
  New.AddInfo                       text    html    latex
Note: ignoring empty \keyword entries in file 'New.fromQuartetToSnp.Rd'
Note: removing empty section \examples in file 'New.fromQuartetToSnp.Rd'
  New.fromQuartetToSnp              text    html    latex
Note: ignoring empty \keyword entries in file 'New.fromSnpToQuartet.Rd'
  New.fromSnpToQuartet              text    html    latex
Note: ignoring empty \keyword entries in file 'New.getQuartet.Rd'
  New.getQuartet                    text    html    latex
Note: ignoring empty \keyword entries in file 'New.getSnpInfo.Rd'
  New.getSnpInfo                    text    html    latex
Note: ignoring empty \keyword entries in file 'New.readQuartetCopyNb.Rd'
  New.readQuartetCopyNb             text    html    latex
** building package indices ...
* DONE (ITALICS)