Package: ITALICS

Version: 2.8.0

Command: /Library/Frameworks/R.framework/Versions/2.11/Resources/bin/R CMD build ITALICS

StartedAt: 2010-10-04 14:41:07 -0700 (Mon, 04 Oct 2010)

EndedAt: 2010-10-04 14:41:47 -0700 (Mon, 04 Oct 2010)

EllapsedTime: 40.2 seconds

RetCode: 0

Status:  OK

PackageFile: ITALICS_2.8.0.tar.gz

PackageFileSize: 341.6 KiB

* checking for file 'ITALICS/DESCRIPTION' ... OK
* preparing 'ITALICS':
* checking DESCRIPTION meta-information ... OK
* installing the package to re-build vignettes
* installing *source* package ‘ITALICS’ ...
** R
** inst
** preparing package for lazy loading


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Have fun with GLAD



For smoothing it is possible to use either

the AWS algorithm (Polzehl and Spokoiny, 2002)

or the HaarSeg algorithm (Ben-Yaacov and Eldar, Bioinformatics,  2008)



If you use the package with AWS, please cite:

Hupe et al. (Bioinformatics, 2004) and Polzehl and Spokoiny (2002)



If you use the package with HaarSeg, please cite:

Hupe et al. (Bioinformatics, 2004) and (Ben-Yaacov and Eldar, Bioinformatics, 2008)



For fast computation it is recommanded to use

the daglad function with smoothfunc=haarseg



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New options are available in daglad: see help for details.


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)'.

================================================================================
Welcome to oligoClasses version 1.10.0
================================================================================
Large dataset support for 'oligo/crlmm': Disabled
     - Load 'ff'
================================================================================
Parallel computing support for 'oligo/crlmm': Disabled
     - Load 'ff'
     - Load 'snow'
     - Use options(cluster=makeCluster(...))
================================================================================
================================================================================
Welcome to oligo version 1.12.2
================================================================================
Loading required package: RSQLite
Loading required package: DBI
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (ITALICS)
* creating vignettes ... OK
* removing junk files
* checking for LF line-endings in source and make files
* checking for empty or unneeded directories
* building 'ITALICS_2.8.0.tar.gz'