EAF differences between two bi-objective optimizers

EAF Graphical Tools

Maintainer: Manuel López-Ibáñez.

Contributors:
Carlos M. Fonseca, Luís Paquete, Thomas Stützle, Manuel López-Ibáñez and Marco Chiarandini.

Introduction

The empirical attainment function (EAF) describes the probabilistic distribution of the outcomes obtained by a stochastic algorithm in the objective space. This R package implements plots of summary attainment surfaces and differences between the first-order EAFs. These plots may be used for exploring the performance of stochastic local search algorithms for biobjective optimization problems and help in identifying certain algorithmic behaviors in a graphical way.

The corresponding book chapter explains the use of these visualization tools and illustrate them with examples arising from practice.

Keywords: empirical attainment function, summary attainment surfaces, EAF differences, multi-objective optimization, bi-objective optimization, performance measures, performance assessment, graphical analysis, visualization.

Relevant literature:

[1]
Manuel López-Ibáñez, Luís Paquete, and Thomas Stützle. Exploratory Analysis of Stochastic Local Search Algorithms in Biobjective Optimization. In T. Bartz-Beielstein, M. Chiarandini, L. Paquete, and M. Preuss, editors, Experimental Methods for the Analysis of Optimization Algorithms, pages 209–222. Springer, Berlin, Germany, 2010.
(This chapter is also available in a slightly extended form as Technical Report TR/IRIDIA/2009-015).
bibtex | doi: 10.1007/978-3-642-02538-9_9 ] [ Presentation ]

Download and installation

The software is implemented as an R package, but the code for only computing the EAF is available as a C program, and it does not require installing R or any R packages. Just download the package source code, uncompress it, and look for the directory inst/scripts/eaf. This code can be used to implement your own visualizations instead of the visualizations provided by the eaf package.

The visualization of the EAFs require installing the eaf package. Therefore, for making use of all the features, a basic knowledge of R is recommended. However, the eaf package contains two Perl scripts that allow to generate standard plots without any knowledge about R. See inst/scripts/eafplot/ and inst/scripts/eafdiff/ in the package source code. The scripts use the eaf package internally to generate the plots, and, hence, the eaf package must be installed and working.

The first step before installing the eaf package is to install R. Once R is installed in the system, there are two methods for installing the eaf package:

  1. Install within R (automatic download, internet connection required). Invoke R
            R
            > install.packages(c("modeltools", "eaf"))
    
  2. Download the package from CRAN (you may also need to download and install first the package modeltools), and invoke at the command-line:
       R CMD INSTALL <package>
    
    where <package> is one of the three versions available: .tar.gz (Unix/BSD/GNU/Linux), .tgz (MacOS X), or .zip (Windows).

Search the R documentation if you need more help to install an R package on your system.

If you wish to be notified of bugfixes and new versions, please subscribe to the low-volume emo-list, where announcements will be made.


Usage

Once the eaf package is installed, the following R commands will give more information :

   library(eaf)
   ?eaf
   ?eafplot
   ?eafdiffplot
   ?read.data.sets
   example(eafplot)
   example(eafdiffplot) # This one takes some time

Apart from the main R package, the source code contains the following extras in the directory inst/ (after installation, these files can be found at the directory printed by the R command system.file(package="eaf")):

For more information, consult the README files at each subdirectory.


License

This software is Copyright (C) 2011 Carlos M. Fonseca, Luís Paquete, Thomas Stützle, Manuel López-Ibáñez and Marco Chiarandini.

This program is free software (software libre); you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version.

This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

IMPORTANT NOTE: Please be aware that the fact that this program is released as Free Software does not excuse you from scientific propriety, which obligates you to give appropriate credit! If you write a scientific paper describing research that made substantive use of this program, it is your obligation as a scientist to (a) mention the fashion in which this software was used in the Methods section; (b) mention the algorithm in the References section. The appropriate citation is:

Moreover, as a personal note, I would appreciate it if you would email manuel.lopez-ibanez@ulb.ac.be with citations of papers referencing this work so I can mention them to my funding agent and tenure committee.