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Adaptions of EvA2-renaming in the Matlab m-Files of JEInterface

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This commit is contained in:
Marcel Kronfeld 2008-06-03 15:04:32 +00:00
parent 3013e905d6
commit 8136704b1b
10 changed files with 32 additions and 31 deletions
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8
resources/MatlabInterface/@JEInterface/JEInterface.m
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@ -1,5 +1,5 @@
function int = JEInterface(interfaceName, fhandle, range, varargin) function int = JEInterface(interfaceName, fhandle, range, varargin)
% JavaEva Interface for Matlab % EvA2 Interface for Matlab
% JEInterface(interfaceName, fhandle, range [, optset, defaultargs]) % JEInterface(interfaceName, fhandle, range [, optset, defaultargs])
% arguments: % arguments:
% interfaceName: a JEInterface instance needs to know its own % interfaceName: a JEInterface instance needs to know its own
@ -9,7 +9,7 @@ function int = JEInterface(interfaceName, fhandle, range, varargin)
% upper bounds. % upper bounds.
% optset: (optional) an optimset struct defining optimization parameters, % optset: (optional) an optimset struct defining optimization parameters,
% especially tolerance and maximum function calls. Defaults to the % especially tolerance and maximum function calls. Defaults to the
% JavaEvA default values. % EvA2 default values.
% defaultArgs: (optional) additional constant argument to the target % defaultArgs: (optional) additional constant argument to the target
% function, empty by default. % function, empty by default.
% Recognized options are: % Recognized options are:
@ -26,7 +26,7 @@ function int = JEInterface(interfaceName, fhandle, range, varargin)
% any case, set TolX=TolFun=0 and MaxFunEvals=10^5. % any case, set TolX=TolFun=0 and MaxFunEvals=10^5.
int.args = []; int.args = [];
int.opts = optimset('MaxFunEvals', javaeva.OptimizerFactory.getDefaultFitCalls, 'TolX', 1e-4, 'TolFun', 1e-4); int.opts = optimset('MaxFunEvals', eva2.OptimizerFactory.getDefaultFitCalls, 'TolX', 1e-4, 'TolFun', 1e-4);
int.finished = 1; int.finished = 1;
int.result = []; int.result = [];
int.resultArr = []; int.resultArr = [];
@ -80,7 +80,7 @@ switch nargin
end end
% finally create the java object % finally create the java object
int.mp = javaeva.server.go.problems.MatlabProblem(int.callback, int.dim, int.range); int.mp = eva2.server.go.problems.MatlabProblem(int.callback, int.dim, int.range);

6
resources/MatlabInterface/@JEInterface/getDesc.m
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@ -2,9 +2,9 @@ function desc = getDesc(int, ID)
% Return the String description of an indicated optimizer % Return the String description of an indicated optimizer
% with member descriptions. % with member descriptions.
import javaeva.gui.BeanInspector; import eva2.gui.BeanInspector;
import javaeva.server.modules.GOParameters; import eva2.server.modules.GOParameters;
import javaeva.OptimizerFactory; import eva2.OptimizerFactory;
params = OptimizerFactory.getParams(ID, int.mp); params = OptimizerFactory.getParams(ID, int.mp);
desc = BeanInspector.getDescription(params.getOptimizer, false); desc = BeanInspector.getDescription(params.getOptimizer, false);

2
resources/MatlabInterface/@JEInterface/getMessage.m
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@ -1,4 +1,4 @@
function str = getMessage(int) function str = getMessage(int)
% Get information string received from JavaEvA. % Get information string received from EvA2.
str = int.msg; str = int.msg;

5
resources/MatlabInterface/@JEInterface/getMultipleResults.m
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@ -1,6 +1,7 @@
function [sols, fits] = getMultipleResults(int) function [sols, fits] = getMultipleResults(int)
% Returns a set of optimization solutions if the run has been finished, or % If a post processing step was performed: return a set of
% a singel intermediate solution if the run has not finished yet or an % optimization solutions if the run has been finished, or
% a single intermediate solution if the run has not finished yet or an
% empty array if there is no intermediate solution yet. % empty array if there is no intermediate solution yet.
if (isFinished(int)) if (isFinished(int))

18
resources/MatlabInterface/@JEInterface/optimize.m
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@ -1,5 +1,5 @@
function retInt = optimize(int, optType, varargin) function retInt = optimize(int, optType, varargin)
% Start a JavaEvA optimization run. % Start a EvA2 optimization run.
% optimize(interface, optType, [, outputFilePrefix ] ) % optimize(interface, optType, [, outputFilePrefix ] )
% where % where
% interface: instance of JEInterface % interface: instance of JEInterface
@ -28,11 +28,11 @@ if ((nargin == 2) || (nargin == 3))
maxEvals = int.opts.MaxFunEvals; maxEvals = int.opts.MaxFunEvals;
fTol = int.opts.TolFun; fTol = int.opts.TolFun;
import javaeva.server.go.operators.terminators.PhenotypeConvergenceTerminator; import eva2.server.go.operators.terminators.PhenotypeConvergenceTerminator;
import javaeva.server.go.operators.terminators.FitnessConvergenceTerminator; import eva2.server.go.operators.terminators.FitnessConvergenceTerminator;
import javaeva.server.go.operators.terminators.CombinedTerminator; import eva2.server.go.operators.terminators.CombinedTerminator;
import javaeva.server.go.operators.terminators.EvaluationTerminator; import eva2.server.go.operators.terminators.EvaluationTerminator;
import javaeva.OptimizerFactory; import eva2.OptimizerFactory;
% set some default values if theyre not given % set some default values if theyre not given
% fminsearch, for example, always uses TolX and TolFun with default % fminsearch, for example, always uses TolX and TolFun with default
@ -61,13 +61,13 @@ if ((nargin == 2) || (nargin == 3))
% maxEvals = OptimizerFactory.getDefaultFitCalls; % maxEvals = OptimizerFactory.getDefaultFitCalls;
end end
convTerm = EvaluationTerminator(maxEvals); convTerm = EvaluationTerminator(maxEvals);
javaeva.OptimizerFactory.setTerminator(convTerm); eva2.OptimizerFactory.setTerminator(convTerm);
else % there is a convergence terminator else % there is a convergence terminator
javaeva.OptimizerFactory.setTerminator(convTerm); % so set it eva2.OptimizerFactory.setTerminator(convTerm); % so set it
if (~isempty(maxEvals) && (maxEvals > 0)) if (~isempty(maxEvals) && (maxEvals > 0))
% if TolX/TolFun plus MaxFunEvals is defined additionally, combine an % if TolX/TolFun plus MaxFunEvals is defined additionally, combine an
% EvaluationTerminator in disjunction, as Matlab does. % EvaluationTerminator in disjunction, as Matlab does.
javaeva.OptimizerFactory.addTerminator(EvaluationTerminator(maxEvals), 0); eva2.OptimizerFactory.addTerminator(EvaluationTerminator(maxEvals), 0);
end end
end end

2
resources/MatlabInterface/@JEInterface/optimizeWith.m
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@ -1,5 +1,5 @@
function retInt = optimizeWith(int, optType, varargin) function retInt = optimizeWith(int, optType, varargin)
% Start a JavaEvA optimization run with specific optimizer parameter settings. % Start a EvA2 optimization run with specific optimizer parameter settings.
% optimize(interface, optType, [, outputFilePrefix ] [, memName, memVal]* ) % optimize(interface, optType, [, outputFilePrefix ] [, memName, memVal]* )
% where % where
% interface: instance of JEInterface % interface: instance of JEInterface

10
resources/MatlabInterface/@JEInterface/runEvalLoopJE.m
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@ -1,5 +1,5 @@
function int=runEvalLoopJE(int, optOrPostProc, optType, outputFilePrefix, steps, sigmaClust, nBest) function int=runEvalLoopJE(int, optOrPostProc, optType, outputFilePrefix, steps, sigmaClust, nBest)
% Internal method starting a JavaEvA optimization loop. % Internal method starting a EvA2 optimization loop.
% Calling this directly may interfere with optimization. % Calling this directly may interfere with optimization.
% This function handles the communciation between JE and Matlab, main % This function handles the communciation between JE and Matlab, main
@ -21,16 +21,16 @@ if ~isempty(int.mediator)
end end
% set up a mediator and inform JE % set up a mediator and inform JE
int.mediator = javaeva.server.go.problems.MatlabEvalMediator; int.mediator = eva2.server.go.problems.MatlabEvalMediator;
int.mp.setMediator(int.mediator); int.mp.setMediator(int.mediator);
JEMediator=int.mediator; JEMediator=int.mediator;
% start the JE thread % start the JE thread
if (optOrPostProc == 1) if (optOrPostProc == 1)
stopText='Stop JavaEvA optimization'; stopText='Stop EvA2 optimization';
int.mp.optimize(optType, outputFilePrefix, int.optParams, int.optParamValues); int.mp.optimize(optType, outputFilePrefix, int.optParams, int.optParamValues);
else % post processing else % post processing
stopText='Stop JavaEvA post processing'; stopText='Stop EvA2 post processing';
int.mp.requestPostProcessing(steps, sigmaClust, nBest); int.mp.requestPostProcessing(steps, sigmaClust, nBest);
end end
@ -44,7 +44,7 @@ if isempty(stopOptimization),
stopOptimization = 0; stopOptimization = 0;
% create a cancel button box (case without SBtoolbox) % create a cancel button box (case without SBtoolbox)
boxHandle=figure('Position',[100 600 250 80], 'MenuBar', 'none', 'Name', 'JavaEvA optimization running...', 'NumberTitle','off'); boxHandle=figure('Position',[100 600 250 80], 'MenuBar', 'none', 'Name', 'EvA2 optimization running...', 'NumberTitle','off');
uicontrol(boxHandle,'Style', 'pushbutton', 'String', 'Cancel', 'Position', [25 25 60 30], 'Callback', 'global stopOptimization; stopOptimization=1;'); uicontrol(boxHandle,'Style', 'pushbutton', 'String', 'Cancel', 'Position', [25 25 60 30], 'Callback', 'global stopOptimization; stopOptimization=1;');
uicontrol(boxHandle,'Style', 'text', 'String', stopText, 'Position', [100 25 120 30]); uicontrol(boxHandle,'Style', 'text', 'String', stopText, 'Position', [100 25 120 30]);
drawnow; drawnow;

2
resources/MatlabInterface/@JEInterface/setResultArrayJE.m
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@ -1,5 +1,5 @@
function int = setResultArrayJE(int, arrData) function int = setResultArrayJE(int, arrData)
% Interface function to be called by JavaEvA 2. % Interface function to be called by EvA2.
% Write back a whole solution set % Write back a whole solution set

2
resources/MatlabInterface/@JEInterface/setResultJE.m
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@ -1,5 +1,5 @@
function int = setJEResult(int, result) function int = setJEResult(int, result)
% Interface function to be called by JavaEvA 2. % Interface function to be called by EvA2.
% Write back the solution and retrieve some additional data. % Write back the solution and retrieve some additional data.

4
resources/MatlabInterface/@JEInterface/showOptimizers.m
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@ -1,5 +1,5 @@
function showOptimizers(int) function showOptimizers(int)
% Show a list of JavaEvA optimizers accessible through the JEInterface % Show a list of EvA2 optimizers accessible through the JEInterface
% and their access ID numbers. % and their access ID numbers.
javaeva.OptimizerFactory.showOptimizers eva2.OptimizerFactory.showOptimizers