April 2009 - Isis-fish-data-commits - mailman.cloud.codelutin.com

r132 - trunk/rules
by chatellier＠users.labs.libre-entreprise.org April 30, 2009

April 30, 2009

Author: chatellier Date: 2009-04-30 15:23:04 +0000 (Thu, 30 Apr 2009) New Revision: 132 Modified: trunk/rules/CantonnementPreSimu.java Log: Rechargement des param depuis la base de donn?\195?\169es (erreur org.hibernate.LazyInitializationException: failed to lazily initialize a collection of role: fr.ifremer.isisfish.entities.ZoneImpl.cell, no session or session was closed) Modified: trunk/rules/CantonnementPreSimu.java =================================================================== --- trunk/rules/CantonnementPreSimu.java 2009-04-29 10:27:13 UTC (rev 131) +++ trunk/rules/CantonnementPreSimu.java 2009-04-30 15:23:04 UTC (rev 132) @@ -124,8 +124,13 @@ // MetierDAO metierDao = IsisFishDAOHelper.getMetierDAO(context.getDB()); ZoneDAO zoneDao = IsisFishDAOHelper.getZoneDAO(context.getDB()); + GearDAO gearDao = IsisFishDAOHelper.getGearDAO(context.getDB()); MetierSeasonInfoDAO metierSeasonInfoDao = IsisFishDAOHelper.getMetierSeasonInfoDAO(context.getDB()); + // Rechargement du param_zone depuis le context courant + param_zone = zoneDao.findByTopiaId(param_zone.getTopiaId()); + param_gear = gearDao.findByTopiaId(param_gear.getTopiaId()); + // List<Metier> metiers = metierDao.findAll(); List<Month> SaisonFermee = Month.getMonths(param_beginMonth, param_endMonth); List<Cell> maillefermee = param_zone.getCell();

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r131 - trunk/sensitivity
by jcouteau＠users.labs.libre-entreprise.org April 29, 2009

April 29, 2009

Author: jcouteau Date: 2009-04-29 10:27:13 +0000 (Wed, 29 Apr 2009) New Revision: 131 Modified: trunk/sensitivity/SensitivityCalculatorRSobol.java Log: Adaptation de la m?\195?\169thode de Sobol au nouveau CDC Pop-up d'erreur si facteur discret Possibilit?\195?\169 de modifier l'instruction R Modified: trunk/sensitivity/SensitivityCalculatorRSobol.java =================================================================== --- trunk/sensitivity/SensitivityCalculatorRSobol.java 2009-04-29 09:47:25 UTC (rev 130) +++ trunk/sensitivity/SensitivityCalculatorRSobol.java 2009-04-29 10:27:13 UTC (rev 131) @@ -19,10 +19,15 @@ package sensitivity; import java.io.File; -import java.io.Serializable; import java.util.List; import java.util.Vector; +import javax.swing.Box; +import javax.swing.JLabel; +import javax.swing.JOptionPane; +import javax.swing.JScrollPane; +import javax.swing.JTextPane; + import org.apache.commons.logging.Log; import org.apache.commons.logging.LogFactory; import org.codelutin.j2r.REngine; @@ -33,11 +38,11 @@ import org.rosuda.JRI.REXP; import fr.ifremer.isisfish.datastore.SimulationStorage; +import fr.ifremer.isisfish.simulator.sensitivity.AbstractSensitivityCalculator; import fr.ifremer.isisfish.simulator.sensitivity.DesignPlan; +import fr.ifremer.isisfish.simulator.sensitivity.Domain; import fr.ifremer.isisfish.simulator.sensitivity.Factor; import fr.ifremer.isisfish.simulator.sensitivity.Scenario; -import fr.ifremer.isisfish.simulator.sensitivity.SensitivityCalculator; -import fr.ifremer.isisfish.simulator.sensitivity.AbstractSensitivityCalculator; import fr.ifremer.isisfish.simulator.sensitivity.SensitivityScenarios; import fr.ifremer.isisfish.simulator.sensitivity.domain.ContinuousDomain; import fr.ifremer.isisfish.simulator.sensitivity.domain.DiscreteDomain; @@ -61,14 +66,14 @@ private static Log log = LogFactory .getLog(SensitivityCalculatorRFast.class); - @Doc("doc") - public int param_n; + @Doc("the size of the 2 random samples") + public int param_n = 20; - @Doc("an integer, the maximum order in the ANOVA decomposition (all indices up to this order will be computed)") - public int param_order; + @Doc("the number of bootstrap replicates.") + public int param_nboot = 20; - @Doc("doc") - public int param_nboot; + @Doc("True to be able to modify the code sent to R") + public boolean param_modifR = false; /** * Retourne vrai si le calculateur sait gerer la cardinalité des facteurs @@ -82,6 +87,8 @@ public SensitivityScenarios compute(DesignPlan plan, File outputdirectory) { + setIsisFactorsR(plan, outputdirectory); + double[] dataframe = new double[0]; int nbExperiments = 0; int factorNumber = plan.getFactors().size(); @@ -92,14 +99,49 @@ //Test all factors, if one is discrete, return null for (int i = 0; i < factorNumber; i++) { if (factors.get(i).getDomain() instanceof DiscreteDomain) { + JOptionPane + .showMessageDialog( + null, + "Error", + factors.get(i).getName() + + " has a discrete domain, this is not acceptable for this method.", + JOptionPane.ERROR_MESSAGE); return null; } } + String rInstruction = "a<-sobol2002(model=NULL,X1=X1,X2=X2,nboot=%s)"; + String rCall = String.format(rInstruction, param_nboot); + + if (param_modifR) { + JLabel label = new JLabel( + "Modifier le code R envoyé si vous le souhaitez"); + JTextPane text = new JTextPane(); + text.setText(rCall); + text.setSize(400, 400); + text.setPreferredSize(text.getSize()); + + Box box = Box.createVerticalBox(); + box.add(label); + box.add(new JScrollPane(text)); + + JOptionPane.showMessageDialog(null, box, "R modif", + JOptionPane.QUESTION_MESSAGE); + rCall = text.getText(); + } + REngine engine = new RProxy(); try { + //Set working directory to get Isis R session + log.info("setwd(\"" + outputdirectory.getParent() + "\")"); + engine.voidEval("setwd(\"" + outputdirectory.getParent() + "\")"); + + //Get Isis R session + log.info("load(\".RData\")"); + engine.voidEval("load(\".RData\")"); + engine.voidEval("library(sensitivity)"); log.info("Message sent to R : " + "library(sensitivity)"); @@ -122,14 +164,11 @@ + "X2<-data.frame(matrix(runif(" + factorNumber + "*" + param_n + "),nrow=" + param_n + "))"); - engine.voidEval("a<-sobol(model=NULL,X1=X1,X2=X2,order=" - + param_order + ",nboot=" + param_nboot + ")"); - log.info("Message sent to R : " - + "a<-sobol(model=NULL,X1=X1,X2=X2,order=" + param_order - + ",nboot=" + param_nboot + ")"); + engine.voidEval(rCall); + log.info("Message sent to R : " + rCall); // Creating the factors vector. - String rInstruction = "factornames<-c("; + rInstruction = "factornames<-c("; for (int i = 0; i < factorNumber; i++) { if (i != (factorNumber - 1)) { rInstruction = rInstruction + "\"" @@ -175,12 +214,76 @@ } log.info("Message sent to R : " + "a$X"); + nbExperiments = dataframe.length / factorNumber; + + String isisFactorDistribution = "isis.factor.distribution<-data.frame(NomFacteur=c(%s),NomDistribution=c(%s),ParametreDistribution=c(%s))"; + + // Creating the vectors. + String distribution = ""; + String parameters = ""; + String factorNames = ""; + + for (int i = 0; i < factorNumber; i++) { + Domain domain = factors.get(i).getDomain(); + if (i != 0) { + distribution += ","; + parameters += ","; + factorNames += ","; + } + + distribution += "\"qunif\""; + parameters += "\"[" + ((ContinuousDomain) domain).getMinBound() + + ";" + ((ContinuousDomain) domain).getMaxBound() + + "]\""; + factorNames += "\"" + factors.get(i).getName() + "\""; + } + + log.info("Message sent to R : " + + String.format(isisFactorDistribution, factorNames, + distribution, parameters)); + engine.voidEval(String.format(isisFactorDistribution, factorNames, + distribution, parameters)); + + log.info("Message sent to R : " + "call<-a$call"); + engine.voidEval("call<-a$call"); + + log + .info("Message sent to R : " + + "isis.MethodExp<-list(\"isis.factors\"=isis.factors,\"isis.factor.distribution\"=isis.factor.distribution,\"call\"=call)"); + engine + .voidEval("isis.MethodExp<-list(\"isis.factors\"=isis.factors,\"isis.factor.distribution\"=isis.factor.distribution,\"call\"=call)"); + + log + .info("Message sent to R : " + + "attr(isis.MethodExp,\"nomModel\")<-\"isis-fish-externe-R\""); + engine + .voidEval("attr(isis.MethodExp,\"nomModel\")<-\"isis-fish-externe-R\""); + + log.info("Message sent to R : " + "isis.simule<-data.frame(a$X)"); + engine.voidEval("isis.simule<-data.frame(a$X)"); + + log + .info("Message sent to R : " + + "attr(isis.simule,\"nomModel\")<-\"isis-fish-externe-R\""); + engine + .voidEval("attr(isis.simule,\"nomModel\")<-\"isis-fish-externe-R\""); + + log.info("Message sent to R : " + + "names(isis.simule)<-isis.factors[[1]]"); + engine.voidEval("names(isis.simule)<-isis.factors[[1]]"); + + //Set working directory to save Isis R session + log.info("setwd(\"" + outputdirectory.getParent() + "\")"); + engine.voidEval("setwd(\"" + outputdirectory.getParent() + "\")"); + + // Save Isis R session + log.info("save.image()"); + engine.voidEval("save.image()"); + } catch (Exception e) { e.printStackTrace(); } - nbExperiments = dataframe.length / factorNumber; - // Transform the result from R in a matrix MatrixND fast = MatrixFactory.getInstance().create(dataframe, new int[] { factorNumber, nbExperiments }); @@ -189,8 +292,7 @@ for (int j = 0; j < nbExperiments; j++) { Scenario experimentScenario = new Scenario(); for (int i = 0; i < factorNumber; i++) { - Factor factor = plan.getFactors() - .get(i); + Factor factor = plan.getFactors().get(i); if ((factor.getDomain() instanceof MatrixContinuousDomain) || (factor.getDomain() instanceof EquationContinuousDomain)) { factor.setValueForIdentifier(Double.valueOf( @@ -198,8 +300,8 @@ } else { Double value = (Double) ((ContinuousDomain) factor .getDomain()).getMinBound() - + ((Double) ((ContinuousDomain) factor - .getDomain()).getMaxBound() - (Double) ((ContinuousDomain) factor + + ((Double) ((ContinuousDomain) factor.getDomain()) + .getMaxBound() - (Double) ((ContinuousDomain) factor .getDomain()).getMinBound()) * fast.getValue(new int[] { i, j }); factor.setValueForIdentifier(value); @@ -219,6 +321,14 @@ REngine engine = new RProxy(); try { + //Set working directory to get Isis R session + log.info("setwd(\"" + outputdirectory.getParent() + "\")"); + engine.voidEval("setwd(\"" + outputdirectory.getParent() + "\")"); + + //Get Isis R session + log.info("load(\".RData\")"); + engine.voidEval("load(\".RData\")"); + // Call R // Load sensitivity package into R (if package already loaded, // nothing happens. @@ -266,7 +376,9 @@ for (int k = 0; k < sensitivityNumber; k++) { // Creates the R expression to import results in R - String rInstruction = "results<-c("; + String name = simulationStorages.get(0).getParameter() + .getSensitivityExport().get(k).getExportFilename(); + String rInstruction = name + "<-c("; for (int l = 0; l < scenariosNumber; l++) { File importFile = new File(simulationStorages.get(l) .getDirectory().toString() @@ -293,10 +405,49 @@ // Send the simulation results engine.voidEval(rInstruction); + //Put results in isis.simule + engine.voidEval("isis.simule<-data.frame(isis.simule," + name + + ")"); + log.info("Message sent to R : " + + "isis.simule<-data.frame(isis.simule," + name + ")"); + } + + //adding attribute to isis.Simule + log + .info("Message sent to R : " + + "attr(isis.simule,\"nomModel\")<-\"isis-fish-externe-R\""); + engine + .voidEval("attr(isis.simule,\"nomModel\")<-\"isis-fish-externe-R\""); + + log.info("Message sent to R : " + + "attr(isis.simule,\"call\")<-isis.MethodExp$call"); + engine.voidEval("attr(isis.simule,\"call\")<-isis.MethodExp$call"); + + for (int k = 0; k < sensitivityNumber; k++) { + + // Creates the R expression to import results in R + String name = simulationStorages.get(0).getParameter() + .getSensitivityExport().get(k).getExportFilename(); + //Compute results - engine.voidEval("tell(a,y=results)"); - log.info("Message sent to R : " + "tell(a,y=results)"); + engine.voidEval("tell(a,y=" + name + ")"); + log.info("Message sent to R : " + "tell(a,y=" + name + ")"); + //creating isis.methodAnalyse + log + .info("Message sent to R : " + + "isis.methodAnalyse<-list(\"isis.factors\"=isis.factors,\"isis.factor.distribution\"=isis.factor.distribution,\"isis.simule\"=isis.simule,call_method=\"tell(a,y=" + + name + ")" + "\",\"analysis_result\"=a)"); + engine + .voidEval("isis.methodAnalyse<-list(\"isis.factors\"=isis.factors,\"isis.factor.distribution\"=isis.factor.distribution,\"isis.simule\"=isis.simule,call_method=\"tell(a,y=" + + name + ")" + "\",\"analysis_result\"=a)"); + + //setting isis.methodAnalyse attributes + log + .info("attr(isis.methodAnalyse,\"nomModel\")<-\"isis-fish-externe-R\")"); + engine + .voidEval("attr(isis.methodAnalyse,\"nomModel\")<-\"isis-fish-externe-R\")"); + //Create the data.frame of scenarios and results for export purpose engine.voidEval("dfresults=data.frame(a$X,results)"); log.info("Message sent to R : " @@ -354,14 +505,59 @@ .getExportFilename() + "_Results.csv\")"); //FIXME export through java to enable export when using Rserve + String renameIsisMethodAnalyse = "%s.isis.methodAnalyse<-isis.methodAnalyse"; + String simulationName = simulationStorages.get(0).getName() + .replaceAll("-", ""); + log.info("Message sent to R : " + + String.format(renameIsisMethodAnalyse, simulationName + + "." + name)); + engine.voidEval(String.format(renameIsisMethodAnalyse, + simulationName + "." + name)); + } + + //Rename R objects for saving purpose + + String renameIsisSimule = "%s.isis.simule<-isis.simule"; + String renameIsisFactorDistribution = "%s.isis.factor.distribution<-isis.factor.distribution"; + String renameIsisFactor = "%s.isis.factor<-isis.factors"; + String renameIsisMethodExp = "%s.isis.methodExp<-isis.MethodExp"; + + String simulationName = simulationStorages.get(0).getName() + .replaceAll("-", ""); + + log.info("Message sent to R : " + + String.format(renameIsisSimule, simulationName)); + engine.voidEval(String.format(renameIsisSimule, simulationName)); + + log.info("Message sent to R : " + + String.format(renameIsisFactorDistribution, + simulationName)); + engine.voidEval(String.format(renameIsisFactorDistribution, + simulationName)); + + log.info("Message sent to R : " + + String.format(renameIsisFactor, simulationName)); + engine.voidEval(String.format(renameIsisFactor, simulationName)); + + log.info("Message sent to R : " + + String.format(renameIsisMethodExp, simulationName)); + engine.voidEval(String.format(renameIsisMethodExp, simulationName)); + + //Set working directory to save Isis R session + log.info("setwd(\"" + outputdirectory.getParent() + "\")"); + engine.voidEval("setwd(\"" + outputdirectory.getParent() + "\")"); + + // Save Isis R session + log.info("save.image()"); + engine.voidEval("save.image()"); } catch (Exception e) { e.printStackTrace(); } } public String getDescription() { - return "Implementation of Sobol method using R"; + return "Implementation of Sobol method using R (use of the R sobol2002 method)"; } }

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r130 - trunk/sensitivity
by jcouteau＠users.labs.libre-entreprise.org April 29, 2009

April 29, 2009

Author: jcouteau Date: 2009-04-29 09:47:25 +0000 (Wed, 29 Apr 2009) New Revision: 130 Modified: trunk/sensitivity/SensitivityCalculatorRFast.java Log: Adapt Fast method to new CDC Pop-up message if one discrete factor Possibility to modify R instruction Modified: trunk/sensitivity/SensitivityCalculatorRFast.java =================================================================== --- trunk/sensitivity/SensitivityCalculatorRFast.java 2009-04-29 09:35:53 UTC (rev 129) +++ trunk/sensitivity/SensitivityCalculatorRFast.java 2009-04-29 09:47:25 UTC (rev 130) @@ -19,10 +19,15 @@ package sensitivity; import java.io.File; -import java.io.Serializable; import java.util.List; import java.util.Vector; +import javax.swing.Box; +import javax.swing.JLabel; +import javax.swing.JOptionPane; +import javax.swing.JScrollPane; +import javax.swing.JTextPane; + import org.apache.commons.logging.Log; import org.apache.commons.logging.LogFactory; import org.codelutin.j2r.REngine; @@ -34,12 +39,11 @@ import org.rosuda.JRI.REXP; import fr.ifremer.isisfish.datastore.SimulationStorage; +import fr.ifremer.isisfish.simulator.sensitivity.AbstractSensitivityCalculator; import fr.ifremer.isisfish.simulator.sensitivity.DesignPlan; +import fr.ifremer.isisfish.simulator.sensitivity.Domain; import fr.ifremer.isisfish.simulator.sensitivity.Factor; import fr.ifremer.isisfish.simulator.sensitivity.Scenario; -import fr.ifremer.isisfish.simulator.sensitivity.SensitivityCalculator; - -import fr.ifremer.isisfish.simulator.sensitivity.AbstractSensitivityCalculator; import fr.ifremer.isisfish.simulator.sensitivity.SensitivityScenarios; import fr.ifremer.isisfish.simulator.sensitivity.domain.ContinuousDomain; import fr.ifremer.isisfish.simulator.sensitivity.domain.DiscreteDomain; @@ -63,12 +67,15 @@ private static Log log = LogFactory .getLog(SensitivityCalculatorRFast.class); - @Doc("an integer giving the sample size, i.e. the length of the discretization of the s-space (see Cukier et al.). (default=17)") - public int param_n; + @Doc("an integer giving the sample size, i.e. the length of the discretization of the s-space (see Cukier et al.). (default=20)") + public int param_n = 20; - @Doc("an integer specifying the interference parameter, i.e. the number of harmonics to sum in the Fourier series decomposition (see Cukier et al.). (default=1)") - public int param_M; + @Doc("an integer specifying the interference parameter, i.e. the number of harmonics to sum in the Fourier series decomposition (see Cukier et al.). (default=6)") + public int param_M = 6; + @Doc("True to be able to modify the code sent to R") + public boolean param_modifR = false; + //public int[] param_omega; /** @@ -83,14 +90,8 @@ public SensitivityScenarios compute(DesignPlan plan, File outputdirectory) { - if (param_n == 0) { - param_n = 17; - } + setIsisFactorsR(plan, outputdirectory); - if (param_M == 0) { - param_M = 1; - } - double[] dataframe = new double[0]; int nbExperiments = 0; int factorNumber = plan.getFactors().size(); @@ -101,28 +102,57 @@ //Test all factors, if one is discrete, return null for (int i = 0; i < factorNumber; i++) { if (factors.get(i).getDomain() instanceof DiscreteDomain) { + JOptionPane + .showMessageDialog( + null, + "Error", + factors.get(i).getName() + + " has a discrete domain, this is not acceptable for this method.", + JOptionPane.ERROR_MESSAGE); return null; } } - String rInstruction = "a<-fast99(model=NULL,factors=c(" - + factors.size(); + String rInstruction = "a<-fast99(model=NULL,factors=c(%s), n=%s,M=%s, q = \"qunif\", q.arg=list(min=0,max=1))"; + String rCall = String.format(rInstruction, factors.size(), param_n, + param_M); - rInstruction = rInstruction + "), n=" + param_n + ",M=" + param_M; + if (param_modifR) { + JLabel label = new JLabel( + "Modifier le code R envoyé si vous le souhaitez"); + JTextPane text = new JTextPane(); + text.setText(rCall); + text.setSize(400, 400); + text.setPreferredSize(text.getSize()); - rInstruction = rInstruction - + ", q = \"qunif\", q.arg=list(min=0,max=1))"; + Box box = Box.createVerticalBox(); + box.add(label); + box.add(new JScrollPane(text)); + JOptionPane.showMessageDialog(null, box, "R modif", + JOptionPane.QUESTION_MESSAGE); + rCall = text.getText(); + } + REngine engine = new RProxy(); try { + + //Set working directory to get Isis R session + log.info("setwd(\"" + outputdirectory.getParent() + "\")"); + engine.voidEval("setwd(\"" + outputdirectory.getParent() + "\")"); + + //Get Isis R session + log.info("load(\".RData\")"); + engine.voidEval("load(\".RData\")"); + // Load sensitivity package into R (if package already loaded, // nothing happens. engine.voidEval("library(sensitivity)"); log.info("Message sent to R" + "library(sensitivity)"); // Run sensitivity analysis - engine.voidEval(rInstruction); - log.info("Message sent to R" + rInstruction); + engine.voidEval(rCall); + log.info("Message sent to R" + rCall); // Creating the factors vector. rInstruction = "factornames<-c("; @@ -167,6 +197,7 @@ + j] = dataframeVector.get(i).asDoubleArray()[j]; } } + log.info("Message sent to R" + "a$X"); if (log.isDebugEnabled()) { @@ -175,8 +206,73 @@ nbExperiments = dataframe.length / factorNumber; - } catch (RException e) { - e.printStackTrace(); + String isisFactorDistribution = "isis.factor.distribution<-data.frame(NomFacteur=c(%s),NomDistribution=c(%s),ParametreDistribution=c(%s))"; + + // Creating the vectors. + String distribution = ""; + String parameters = ""; + String factorNames = ""; + + for (int i = 0; i < factorNumber; i++) { + Domain domain = factors.get(i).getDomain(); + if (i != 0) { + distribution += ","; + parameters += ","; + factorNames += ","; + } + + distribution += "\"qunif\""; + parameters += "\"[" + ((ContinuousDomain) domain).getMinBound() + + ";" + ((ContinuousDomain) domain).getMaxBound() + + "]\""; + factorNames += "\"" + factors.get(i).getName() + "\""; + } + + log.info("Message sent to R : " + + String.format(isisFactorDistribution, factorNames, + distribution, parameters)); + engine.voidEval(String.format(isisFactorDistribution, factorNames, + distribution, parameters)); + + log.info("Message sent to R : " + "call<-a$call"); + engine.voidEval("call<-a$call"); + + log + .info("Message sent to R : " + + "isis.MethodExp<-list(\"isis.factors\"=isis.factors,\"isis.factor.distribution\"=isis.factor.distribution,\"call\"=call)"); + engine + .voidEval("isis.MethodExp<-list(\"isis.factors\"=isis.factors,\"isis.factor.distribution\"=isis.factor.distribution,\"call\"=call)"); + + log + .info("Message sent to R : " + + "attr(isis.MethodExp,\"nomModel\")<-\"isis-fish-externe-R\""); + engine + .voidEval("attr(isis.MethodExp,\"nomModel\")<-\"isis-fish-externe-R\""); + + log.info("Message sent to R : " + "isis.simule<-data.frame(a$X)"); + engine.voidEval("isis.simule<-data.frame(a$X)"); + + log + .info("Message sent to R : " + + "attr(isis.simule,\"nomModel\")<-\"isis-fish-externe-R\""); + engine + .voidEval("attr(isis.simule,\"nomModel\")<-\"isis-fish-externe-R\""); + + log.info("Message sent to R : " + + "names(isis.simule)<-isis.factors[[1]]"); + engine.voidEval("names(isis.simule)<-isis.factors[[1]]"); + + //Set working directory to save Isis R session + log.info("setwd(\"" + outputdirectory.getParent() + "\")"); + engine.voidEval("setwd(\"" + outputdirectory.getParent() + "\")"); + + // Save Isis R session + log.info("save.image()"); + engine.voidEval("save.image()"); + + } catch (RException eee) { + eee.printStackTrace(); + throw new RuntimeException("R evaluation failed", eee); // Error while retrieving scenario } @@ -188,8 +284,7 @@ for (int j = 0; j < nbExperiments; j++) { Scenario experimentScenario = new Scenario(); for (int i = 0; i < factorNumber; i++) { - Factor factor = plan.getFactors() - .get(i); + Factor factor = plan.getFactors().get(i); if ((factor.getDomain() instanceof MatrixContinuousDomain) || (factor.getDomain() instanceof EquationContinuousDomain)) { factor.setValueForIdentifier(Double.valueOf( @@ -197,8 +292,8 @@ } else { Double value = (Double) ((ContinuousDomain) factor .getDomain()).getMinBound() - + ((Double) ((ContinuousDomain) factor - .getDomain()).getMaxBound() - (Double) ((ContinuousDomain) factor + + ((Double) ((ContinuousDomain) factor.getDomain()) + .getMaxBound() - (Double) ((ContinuousDomain) factor .getDomain()).getMinBound()) * fast.getValue(new int[] { i, j }); factor.setValueForIdentifier(value); @@ -215,17 +310,17 @@ public void analyzeResult(List<SimulationStorage> simulationStorages, File outputdirectory) { - if (param_n == 0) { - param_n = 17; - } - - if (param_M == 0) { - param_M = 1; - } - REngine engine = new RProxy(); try { + //Set working directory to get Isis R session + log.info("setwd(\"" + outputdirectory.getParent() + "\")"); + engine.voidEval("setwd(\"" + outputdirectory.getParent() + "\")"); + + //Get Isis R session + log.info("load(\".RData\")"); + engine.voidEval("load(\".RData\")"); + // Call R // Load sensitivity package into R (if package already loaded, // nothing happens. @@ -257,7 +352,9 @@ for (int k = 0; k < sensitivityNumber; k++) { // Creates the R expression to import results in R - String rInstruction = "results<-c("; + String name = simulationStorages.get(0).getParameter() + .getSensitivityExport().get(k).getExportFilename(); + String rInstruction = name + "<-c("; for (int l = 0; l < scenariosNumber; l++) { File importFile = new File(simulationStorages.get(l) .getDirectory().toString() @@ -284,15 +381,54 @@ // Send the simulation results engine.voidEval(rInstruction); + //Put results in isis.simule + engine.voidEval("isis.simule<-data.frame(isis.simule," + name + + ")"); + log.info("Message sent to R : " + + "isis.simule<-data.frame(isis.simule," + name + ")"); + + } + + //adding attribute to isis.Simule + log + .info("Message sent to R : " + + "attr(isis.simule,\"nomModel\")<-\"isis-fish-externe-R\""); + engine + .voidEval("attr(isis.simule,\"nomModel\")<-\"isis-fish-externe-R\""); + + log.info("Message sent to R : " + + "attr(isis.simule,\"call\")<-isis.MethodExp$call"); + engine.voidEval("attr(isis.simule,\"call\")<-isis.MethodExp$call"); + + for (int k = 0; k < sensitivityNumber; k++) { + + // Creates the R expression to import results in R + String name = simulationStorages.get(0).getParameter() + .getSensitivityExport().get(k).getExportFilename(); + //Compute results - engine.voidEval("tell(a,y=results)"); - log.info("Message sent to R : " + "tell(a,y=results)"); + engine.voidEval("tell(a,y=" + name + ")"); + log.info("Message sent to R : " + "tell(a,y=" + name + ")"); + //creating isis.methodAnalyse + log + .info("Message sent to R : " + + "isis.methodAnalyse<-list(\"isis.factors\"=isis.factors,\"isis.factor.distribution\"=isis.factor.distribution,\"isis.simule\"=isis.simule,call_method=\"tell(a,y=" + + name + ")" + "\",\"analysis_result\"=a)"); + engine + .voidEval("isis.methodAnalyse<-list(\"isis.factors\"=isis.factors,\"isis.factor.distribution\"=isis.factor.distribution,\"isis.simule\"=isis.simule,call_method=\"tell(a,y=" + + name + ")" + "\",\"analysis_result\"=a)"); + + //setting isis.methodAnalyse attributes + log + .info("attr(isis.methodAnalyse,\"nomModel\")<-\"isis-fish-externe-R\")"); + engine + .voidEval("attr(isis.methodAnalyse,\"nomModel\")<-\"isis-fish-externe-R\")"); + //Create the data.frame of scenarios and results for export purpose engine.voidEval("dfresults=data.frame(a$X,results)"); log.info("Message sent to R : " + "dfresults=data.frame(a$X,results)"); - //Set working directory engine.voidEval("setwd(\"" + outputdirectory.getAbsolutePath() @@ -350,11 +486,9 @@ .getSensitivityExport().get(k) .getExportFilename() + "_Dt.csv\")"); //Set dfresults names - engine - .voidEval("resultsnames<-c(factornames,\"Result\")"); - log - .info("Message sent to R : " - + "resultsnames<-c(factornames,\"Result\")"); + engine.voidEval("resultsnames<-c(factornames,\"Result\")"); + log.info("Message sent to R : " + + "resultsnames<-c(factornames,\"Result\")"); engine.voidEval("names(dfresults)<-resultsnames"); log.info("Message sent to R : " + "names(dfresults)<-resultsnames"); @@ -371,7 +505,53 @@ .getExportFilename() + "_Results.csv\")"); //FIXME export through java to enable export when using Rserve + String renameIsisMethodAnalyse = "%s.isis.methodAnalyse<-isis.methodAnalyse"; + String simulationName = simulationStorages.get(0).getName() + .replaceAll("-", ""); + log.info("Message sent to R : " + + String.format(renameIsisMethodAnalyse, simulationName + + "." + name)); + engine.voidEval(String.format(renameIsisMethodAnalyse, + simulationName + "." + name)); + } + + //Rename R objects for saving purpose + + String renameIsisSimule = "%s.isis.simule<-isis.simule"; + String renameIsisFactorDistribution = "%s.isis.factor.distribution<-isis.factor.distribution"; + String renameIsisFactor = "%s.isis.factor<-isis.factors"; + String renameIsisMethodExp = "%s.isis.methodExp<-isis.MethodExp"; + + String simulationName = simulationStorages.get(0).getName() + .replaceAll("-", ""); + + log.info("Message sent to R : " + + String.format(renameIsisSimule, simulationName)); + engine.voidEval(String.format(renameIsisSimule, simulationName)); + + log.info("Message sent to R : " + + String.format(renameIsisFactorDistribution, + simulationName)); + engine.voidEval(String.format(renameIsisFactorDistribution, + simulationName)); + + log.info("Message sent to R : " + + String.format(renameIsisFactor, simulationName)); + engine.voidEval(String.format(renameIsisFactor, simulationName)); + + log.info("Message sent to R : " + + String.format(renameIsisMethodExp, simulationName)); + engine.voidEval(String.format(renameIsisMethodExp, simulationName)); + + //Set working directory to save Isis R session + log.info("setwd(\"" + outputdirectory.getParent() + "\")"); + engine.voidEval("setwd(\"" + outputdirectory.getParent() + "\")"); + + // Save Isis R session + log.info("save.image()"); + engine.voidEval("save.image()"); + } catch (Exception e) { e.printStackTrace(); }

1 0

r129 - trunk
by chatellier＠users.labs.libre-entreprise.org April 29, 2009

April 29, 2009

Author: chatellier Date: 2009-04-29 09:35:53 +0000 (Wed, 29 Apr 2009) New Revision: 129 Modified: trunk/pom.xml Log: Update compiler version to 1.6 Modified: trunk/pom.xml =================================================================== --- trunk/pom.xml 2009-04-29 09:27:18 UTC (rev 128) +++ trunk/pom.xml 2009-04-29 09:35:53 UTC (rev 129) @@ -39,8 +39,8 @@ <artifactId>maven-compiler-plugin</artifactId> <version>2.0.2</version> <configuration> - <source>1.5</source> - <target>1.5</target> + <source>1.6</source> + <target>1.6</target> <excludes> <exclude>**/simulations/**</exclude> </excludes>

1 0

r128 - in trunk: analyseplans exports rules scripts
by jcouteau＠users.labs.libre-entreprise.org April 29, 2009

April 29, 2009

Author: jcouteau Date: 2009-04-29 09:27:18 +0000 (Wed, 29 Apr 2009) New Revision: 128 Modified: trunk/analyseplans/Calibration.java trunk/analyseplans/Max.java trunk/exports/CapturesNombre.java trunk/exports/CapturesPoids.java trunk/exports/RejetsNombre.java trunk/exports/RejetsPoids.java trunk/rules/GraviteVPUE1LangEtGrossValueOtherSpeciesECOMOD.java trunk/rules/TACpoids.java trunk/scripts/GravityModel.java trunk/scripts/ResultName.java trunk/scripts/SiMatrix.java Log: Remove all accents to avoid formatting problems Format code Organize imports Modified: trunk/analyseplans/Calibration.java =================================================================== --- trunk/analyseplans/Calibration.java 2009-04-29 08:39:41 UTC (rev 127) +++ trunk/analyseplans/Calibration.java 2009-04-29 09:27:18 UTC (rev 128) @@ -2,341 +2,363 @@ import static org.codelutin.i18n.I18n._; +import java.io.File; +import java.io.FileReader; +import java.util.ArrayList; +import java.util.Collections; +import java.util.List; + import org.apache.commons.logging.Log; import org.apache.commons.logging.LogFactory; +import org.codelutin.math.matrix.MatrixFactory; +import org.codelutin.math.matrix.MatrixIterator; +import org.codelutin.math.matrix.MatrixND; +import org.codelutin.topia.TopiaContext; +import org.codelutin.util.FileUtil; +import org.codelutin.util.StringUtil; import scripts.ResultName; - -import java.io.*; -import java.util.*; - -import org.codelutin.math.matrix.*; - -import org.codelutin.topia.*;// pour pouvoir utiliser la methode StringUtil.toDouble() -import org.codelutin.util.*;// pour pouvoir utiliser la methode StringUtil.toDouble() - -import fr.ifremer.isisfish.*; -import fr.ifremer.isisfish.types.*; -import fr.ifremer.isisfish.simulator.SimulationContext; -import fr.ifremer.isisfish.types.Date; -import fr.ifremer.isisfish.entities.*; +import fr.ifremer.isisfish.datastore.ResultStorage; +import fr.ifremer.isisfish.datastore.SimulationStorage; +import fr.ifremer.isisfish.entities.Population; +import fr.ifremer.isisfish.entities.PopulationGroup; +import fr.ifremer.isisfish.entities.PopulationSeasonInfo; import fr.ifremer.isisfish.simulator.AnalysePlan; import fr.ifremer.isisfish.simulator.AnalysePlanContext; -import fr.ifremer.isisfish.simulator.SimulationParameter; -import fr.ifremer.isisfish.datastore.SimulationStorage; -import fr.ifremer.isisfish.datastore.ResultStorage; +import fr.ifremer.isisfish.types.Month; +import fr.ifremer.isisfish.util.Doc; -import fr.ifremer.isisfish.util.Doc; // pour pouvoir afficher une aide contextuelle (BUG#1605) /** * Calibration_bidon.java - * + * * Created: 8 mars 2007 - * - * @author <> + * + * @author <> * @version $Revision: 1.2 $ - * - * Last update: $Date: 2007-11-02 17:43:14 $ - * by : $Author: bpoussin $ + * + * Last update: $Date: 2007-11-02 17:43:14 $ by : $Author: bpoussin $ */ public class Calibration implements AnalysePlan { /** to use log facility, just put in your code: log.info("..."); */ static private Log log = LogFactory.getLog(Calibration.class); - enum State {STATE_INIT, STATE_0, STATE_1, STATE_2, STATE_3, STATE_4}; - + enum State { + STATE_INIT, STATE_0, STATE_1, STATE_2, STATE_3, STATE_4 + }; + //parametres de la simu 3 points initiaux d un simplex d ordre 2 - @Doc(value="do the doc of param Population") + @Doc(value = "do the doc of param Population") public Population param_Population = null; - @Doc(value="do the doc of param M1 (devient un parametre du plan d analyse)") + @Doc(value = "do the doc of param M1 (devient un parametre du plan d analyse)") public String param_M1 = "1e-5;1e-6";// devient un parametre du plan d analyse - @Doc(value="do the doc of param M2 (devient un parametre du plan d analyse)") + @Doc(value = "do the doc of param M2 (devient un parametre du plan d analyse)") public String param_M2 = "2e-4;2e-5";// devient un parametre du plan d analyse - @Doc(value="do the doc of param M3 (devient un parametre du plan d analyse)") + @Doc(value = "do the doc of param M3 (devient un parametre du plan d analyse)") public String param_M3 = "1e-4;1e-6";// devient un parametre du plan d analyse - @Doc(value="do the doc of param pas (devient un parametre du plan d analyse)") + @Doc(value = "do the doc of param pas (devient un parametre du plan d analyse)") public String param_pas = "1e-5";// devient un parametre du plan d analyse - @Doc(value="nom + chemin du fichier contenant les debarquements observes par groupe pour la derniere annee") + @Doc(value = "nom + chemin du fichier contenant les debarquements observes par groupe pour la derniere annee") public String param_nomfichier_debarquements = "";//nom + chemin du fichier contenant les debarquements observes par groupe pour la derniere annee - protected File debarquementsObserves; + protected File debarquementsObserves; protected MatrixND matrixDebarquement; - + protected State state = State.STATE_INIT; protected Experiences experiences = new Experiences(); - - + /** * @return the experiences */ public Experiences getExperiences() { return this.experiences; } - - public String [] necessaryResult = { - ResultName.MATRIX_LANDING_PER_MET - }; + public String[] necessaryResult = { ResultName.MATRIX_LANDING_PER_MET }; + public String[] getNecessaryResult() { return this.necessaryResult; } /** * Permet d'afficher a l'utilisateur une aide sur le plan. + * * @return L'aide ou la description du plan */ public String getDescription() throws Exception { return _("Simplexe"); } - + /** * Appele au demarrage de la simulation, cette methode permet d'initialiser * des valeurs - * @param simulation La simulation pour lequel on utilise cette regle + * + * @param simulation + * La simulation pour lequel on utilise cette regle */ public void init(AnalysePlanContext context) throws Exception { - if (param_nomfichier_debarquements==null || "".equals(param_nomfichier_debarquements)){ - debarquementsObserves = FileUtil.getFile(".*.csv", "fichier csv séparateur ';'"); - } else { - debarquementsObserves = new File(param_nomfichier_debarquements); - } -// int nbYear = context.getParam().getNumberOfYear(); - TopiaContext db = context.getParam().getRegion().getStorage().beginTransaction(); - Population pop = (Population)db.findByTopiaId(param_Population.getTopiaId()); - - int nbGroup = pop.sizePopulationGroup(); - matrixDebarquement = MatrixFactory.getInstance().create(new int[]{nbGroup}); -// List<PopulationGroup> groups = pop.getPopulationGroup(); -// matrixDebarquement = MatrixFactory.getInstance().create(new List[]{groups}); - - matrixDebarquement.importCSV(new FileReader(debarquementsObserves),new int []{0}); - db.closeContext(); + if (param_nomfichier_debarquements == null + || "".equals(param_nomfichier_debarquements)) { + debarquementsObserves = FileUtil.getFile(".*.csv", + "fichier csv séparateur ';'"); + } else { + debarquementsObserves = new File(param_nomfichier_debarquements); + } + // int nbYear = context.getParam().getNumberOfYear(); + TopiaContext db = context.getParam().getRegion().getStorage() + .beginTransaction(); + Population pop = (Population) db.findByTopiaId(param_Population + .getTopiaId()); + + int nbGroup = pop.sizePopulationGroup(); + matrixDebarquement = MatrixFactory.getInstance().create( + new int[] { nbGroup }); + // List<PopulationGroup> groups = pop.getPopulationGroup(); + // matrixDebarquement = MatrixFactory.getInstance().create(new List[]{groups}); + + matrixDebarquement.importCSV(new FileReader(debarquementsObserves), + new int[] { 0 }); + db.closeContext(); } - + /** * Call before each simulation - * @param context plan context - * @param nextSimulation storage used for next simulation + * + * @param context + * plan context + * @param nextSimulation + * storage used for next simulation * @return true if we must do next simulation, false to stop plan * @throws Exception */ - public boolean beforeSimulation(AnalysePlanContext context, SimulationStorage nextSimulation) throws Exception { - boolean doNext = true; + public boolean beforeSimulation(AnalysePlanContext context, + SimulationStorage nextSimulation) throws Exception { + boolean doNext = true; - int number = context.getNumber(); + int number = context.getNumber(); - if (number < 3) { - String [] M1 = param_M1.split(";"); - String [] M2 = param_M2.split(";"); - String [] M3 = param_M3.split(";"); - double [] q1 = StringUtil.toArrayDouble(M1[0], M2[0], M3[0]); - double [] q2 = StringUtil.toArrayDouble(M1[1], M2[1], M3[1]); - - experiences.getExperience(number).q1 = q1[number]; - experiences.getExperience(number).q2 = q2[number]; + if (number < 3) { + String[] M1 = param_M1.split(";"); + String[] M2 = param_M2.split(";"); + String[] M3 = param_M3.split(";"); + double[] q1 = StringUtil.toArrayDouble(M1[0], M2[0], M3[0]); + double[] q2 = StringUtil.toArrayDouble(M1[1], M2[1], M3[1]); - changeDB(experiences.getExperience(number), nextSimulation); - } else { - double q1 = 0; - double q2 = 0; - - double lastCritere = experiences.getExperience(number-1).criteria; - double g1 = (experiences.current.get(2).q1 + experiences.current.get(1).q1) / 2.0; - double g2 = (experiences.current.get(2).q2 + experiences.current.get(1).q2) / 2.0; - - double worst1 = experiences.current.get(0).q1; - double worst2 = experiences.current.get(0).q2; + experiences.getExperience(number).q1 = q1[number]; + experiences.getExperience(number).q2 = q2[number]; - - if (state == State.STATE_INIT) { - // on fait la 4eme simulation dans tous les cas - state = State.STATE_0; - Collections.sort(experiences.current); - q1 = 2 * g1 - worst1; - q2 = 2 * g2 - worst2; - } else if (state == State.STATE_0) { - // on fait la 5eme avec des q qui dependent de la 4eme dans le dernier cas - if (lastCritere < experiences.current.get(0).criteria) { - state = State.STATE_1; - q1 = g1 - ( g1 - worst1 ) / 2.0; - q2 = g2 - ( g2 - worst2 ) / 2.0; - } else if (lastCritere < experiences.current.get(1).criteria) { - state = State.STATE_2; - q1 = g1 + ( g1 - worst1 ) / 2.0; - q2 = g2 + ( g2 - worst2 ) / 2.0; - } else if (lastCritere < experiences.current.get(2).criteria) { - state = State.STATE_INIT; - experiences.current.remove(3); - } else { // dernier cas possible: if (lastCritere > experiences.current.get(2).critere) { - state = State.STATE_4; - q1 = experiences.current.get(3).q1 + g1 - worst1; - q2 = experiences.current.get(3).q2 + g2 - worst2; - } - } else if (state == State.STATE_1) { - // la derniere simulation a ete faite - if (lastCritere > experiences.current.get(0).criteria) { - experiences.current.remove(3); - experiences.current.remove(0); - } else { - // FIXME on supprime les 2 derniere qui vient d'etre faite, on risque donc de boucler - experiences.current.remove(4); - experiences.current.remove(3); + changeDB(experiences.getExperience(number), nextSimulation); + } else { + double q1 = 0; + double q2 = 0; + + double lastCritere = experiences.getExperience(number - 1).criteria; + double g1 = (experiences.current.get(2).q1 + experiences.current + .get(1).q1) / 2.0; + double g2 = (experiences.current.get(2).q2 + experiences.current + .get(1).q2) / 2.0; + + double worst1 = experiences.current.get(0).q1; + double worst2 = experiences.current.get(0).q2; + + if (state == State.STATE_INIT) { + // on fait la 4eme simulation dans tous les cas + state = State.STATE_0; + Collections.sort(experiences.current); + q1 = 2 * g1 - worst1; + q2 = 2 * g2 - worst2; + } else if (state == State.STATE_0) { + // on fait la 5eme avec des q qui dependent de la 4eme dans le dernier cas + if (lastCritere < experiences.current.get(0).criteria) { + state = State.STATE_1; + q1 = g1 - (g1 - worst1) / 2.0; + q2 = g2 - (g2 - worst2) / 2.0; + } else if (lastCritere < experiences.current.get(1).criteria) { + state = State.STATE_2; + q1 = g1 + (g1 - worst1) / 2.0; + q2 = g2 + (g2 - worst2) / 2.0; + } else if (lastCritere < experiences.current.get(2).criteria) { + state = State.STATE_INIT; + experiences.current.remove(3); + } else { // dernier cas possible: if (lastCritere > experiences.current.get(2).critere) { + state = State.STATE_4; + q1 = experiences.current.get(3).q1 + g1 - worst1; + q2 = experiences.current.get(3).q2 + g2 - worst2; + } + } else if (state == State.STATE_1) { + // la derniere simulation a ete faite + if (lastCritere > experiences.current.get(0).criteria) { + experiences.current.remove(3); + experiences.current.remove(0); + } else { + // FIXME on supprime les 2 derniere qui vient d'etre faite, on risque donc de boucler + experiences.current.remove(4); + experiences.current.remove(3); doNext = false; - } - state = State.STATE_INIT; - } else if (state == State.STATE_2) { - if (lastCritere > experiences.current.get(0).criteria) { - experiences.current.remove(3); - experiences.current.remove(0); - } else { - // FIXME on supprime les 2 derniere qui vient d'etre faite, on risque donc de boucler - experiences.current.remove(4); - experiences.current.remove(3); + } + state = State.STATE_INIT; + } else if (state == State.STATE_2) { + if (lastCritere > experiences.current.get(0).criteria) { + experiences.current.remove(3); + experiences.current.remove(0); + } else { + // FIXME on supprime les 2 derniere qui vient d'etre faite, on risque donc de boucler + experiences.current.remove(4); + experiences.current.remove(3); doNext = false; - } - state = State.STATE_INIT; - } else if (state == State.STATE_4) { - if (lastCritere > experiences.current.get(3).criteria) { - experiences.current.remove(3); - experiences.current.remove(0); - } else { - experiences.current.remove(4); - experiences.current.remove(0); - } - state = State.STATE_INIT; - } - - experiences.getExperience(number).q1 = q1; - experiences.getExperience(number).q2 = q2; + } + state = State.STATE_INIT; + } else if (state == State.STATE_4) { + if (lastCritere > experiences.current.get(3).criteria) { + experiences.current.remove(3); + experiences.current.remove(0); + } else { + experiences.current.remove(4); + experiences.current.remove(0); + } + state = State.STATE_INIT; + } - changeDB(experiences.getExperience(number), nextSimulation); - } + experiences.getExperience(number).q1 = q1; + experiences.getExperience(number).q2 = q2; - return doNext; + changeDB(experiences.getExperience(number), nextSimulation); + } + + return doNext; } /** * Call after each simulation, compute criteria for last simulation - * @param context plan context - * @param nextSimulation storage used for next simulation + * + * @param context + * plan context + * @param nextSimulation + * storage used for next simulation * @return true if we must do next simulation, false to stop plan * @throws Exception */ - public boolean afterSimulation(AnalysePlanContext context, SimulationStorage lastSimulation) throws Exception { + public boolean afterSimulation(AnalysePlanContext context, + SimulationStorage lastSimulation) throws Exception { boolean doNext = true; - + int number = context.getNumber(); ResultStorage result = lastSimulation.getResultStorage(); log.fatal("sim: " + lastSimulation + " result: " + result); - MatrixND L = result.getMatrix(param_Population, ResultName.MATRIX_LANDING_PER_MET); + MatrixND L = result.getMatrix(param_Population, + ResultName.MATRIX_LANDING_PER_MET); L = L.sumOverDim(0);// sum sur les mois, si on ajoute le pas (12) on peut sommer sur les annees L = L.sumOverDim(1);// sum sur les strategies L = L.sumOverDim(3);// sum sur les metiers L = L.sumOverDim(4);// sum sur les zones L = L.reduce(); // supprime les dim qui n ont qu un element - + double crit = 0; - for ( MatrixIterator g = L.iterator(); g.hasNext();){ + for (MatrixIterator g = L.iterator(); g.hasNext();) { g.next(); - int [] dim = g.getCoordinates(); + int[] dim = g.getCoordinates(); double obs = matrixDebarquement.getValue(dim); double simules = g.getValue(); - crit += Math.pow(obs-simules, 2); + crit += Math.pow(obs - simules, 2); } experiences.getExperience(number).criteria = crit; - + return doNext; } /** * Modify nextSimulation database with q1 and q2 in exp. + * * @param exp * @param nextSimulation * @throws Exception */ - protected void changeDB(Experience exp, SimulationStorage nextSimulation) throws Exception { - TopiaContext db = nextSimulation.getStorage().beginTransaction();//ouvrir un context pour modifier les donnees - Population pop = (Population)db.findByTopiaId(param_Population.getTopiaId()); -// autre solution moins efficace: -// PopulationDAO popDAO = IsisFishDAOHelper.getPopulationDAO(db); -// Population Nephrops = dao.findByName(param_Population.getName()); + protected void changeDB(Experience exp, SimulationStorage nextSimulation) + throws Exception { + TopiaContext db = nextSimulation.getStorage().beginTransaction();//ouvrir un context pour modifier les donnees + Population pop = (Population) db.findByTopiaId(param_Population + .getTopiaId()); + // autre solution moins efficace: + // PopulationDAO popDAO = IsisFishDAOHelper.getPopulationDAO(db); + // Population Nephrops = dao.findByName(param_Population.getName()); - MatrixND c = pop.getCapturability(); + MatrixND c = pop.getCapturability(); - for (MatrixIterator i = c.iterator(); i.hasNext();){ - i.next(); + for (MatrixIterator i = c.iterator(); i.hasNext();) { + i.next(); - Object [] sem = i.getSemanticsCoordinates(); - PopulationGroup group = (PopulationGroup)sem[0]; - PopulationSeasonInfo season = (PopulationSeasonInfo)sem[1]; + Object[] sem = i.getSemanticsCoordinates(); + PopulationGroup group = (PopulationGroup) sem[0]; + PopulationSeasonInfo season = (PopulationSeasonInfo) sem[1]; - if (season.getFirstMonth().after(Month.JULY) && group.getId() >=18){ //mois >= aout - i.setValue(exp.q2); - } - else { - i.setValue(exp.q1); - } - } - db.commitTransaction(); - db.closeContext(); + if (season.getFirstMonth().after(Month.JULY) && group.getId() >= 18) { //mois >= aout + i.setValue(exp.q2); + } else { + i.setValue(exp.q1); + } + } + db.commitTransaction(); + db.closeContext(); } - + public class Experiences { /** contains last simplex and potentialy 2 more simulation */ - protected List<Experience> current = new ArrayList<Experience>(); + protected List<Experience> current = new ArrayList<Experience>(); /** contains all experience done */ - protected List<Experience> history = new ArrayList<Experience>(); - + protected List<Experience> history = new ArrayList<Experience>(); + /** * @return the history */ public List<Experience> getHistory() { return this.history; } - + /** - * return experience requested, if this experience doesn't exist - * create it. + * return experience requested, if this experience doesn't exist create + * it. * - * @param i simulation number - * @return experience with simulation number fixed if new experience - * is returned + * @param i + * simulation number + * @return experience with simulation number fixed if new experience is + * returned */ - public Experience getExperience(int i) { - Experience result; - if (i<history.size()) { - result = history.get(i); - } else { - result = new Experience(); - result.simNumber = i; - history.add(i, result); - current.add(result); - } - return result; - } + public Experience getExperience(int i) { + Experience result; + if (i < history.size()) { + result = history.get(i); + } else { + result = new Experience(); + result.simNumber = i; + history.add(i, result); + current.add(result); + } + return result; + } } - + /** * Use to keep q1, q2 and criteria of simulation + * * @author poussin */ public class Experience implements Comparable { - public int simNumber; - public double criteria; - public double q1; - public double q2; - + public int simNumber; + public double criteria; + public double q1; + public double q2; + /** - * Permit to order experience, first is experience with smallest criteria + * Permit to order experience, first is experience with smallest + * criteria */ - public int compareTo(Object arg0) { - Experience other = (Experience)arg0; - int result = Double.compare(this.criteria, other.criteria); - return result; - } + public int compareTo(Object arg0) { + Experience other = (Experience) arg0; + int result = Double.compare(this.criteria, other.criteria); + return result; + } } } - Modified: trunk/analyseplans/Max.java =================================================================== --- trunk/analyseplans/Max.java 2009-04-29 08:39:41 UTC (rev 127) +++ trunk/analyseplans/Max.java 2009-04-29 09:27:18 UTC (rev 128) @@ -5,45 +5,30 @@ import org.apache.commons.logging.Log; import org.apache.commons.logging.LogFactory; -import scripts.ResultName; - -import java.io.Writer; - -import org.codelutin.math.matrix.*; - -import fr.ifremer.isisfish.simulator.SimulationContext; -import fr.ifremer.isisfish.types.Date; -import fr.ifremer.isisfish.entities.*; -import fr.ifremer.isisfish.simulator.AnalysePlan; -import fr.ifremer.isisfish.simulator.AnalysePlanContext; -import fr.ifremer.isisfish.simulator.SimulationParameter; import fr.ifremer.isisfish.datastore.SimulationStorage; -import fr.ifremer.isisfish.datastore.ResultStorage; - +import fr.ifremer.isisfish.simulator.AnalysePlanContext; import fr.ifremer.isisfish.simulator.AnalysePlanIndependent; -import fr.ifremer.isisfish.util.Doc; // pour pouvoir afficher une aide contextuelle (BUG#1605) +import fr.ifremer.isisfish.util.Doc; /** * Max.java - * + * * Created: 2 mars 2007 - * + * * @author bpoussin <bpoussin(a)labs.libre-entreprise.org> * @version $Revision: 1.2 $ - * - * Last update: $Date: 2007-03-09 15:27:21 $ - * by : $Author: bpoussin $ + * + * Last update: $Date: 2007-03-09 15:27:21 $ by : $Author: bpoussin $ */ public class Max implements AnalysePlanIndependent { /** to use log facility, just put in your code: log.info("..."); */ static private Log log = LogFactory.getLog(Max.class); - @Doc(value="do the doc of param max") - public int param_max = 10; + @Doc(value = "do the doc of param max") + public int param_max = 10; - - public String [] necessaryResult = { + public String[] necessaryResult = { // put here all necessary result for this rule // example: // ResultName.MATRIX_BIOMASS, @@ -56,41 +41,52 @@ /** * Permet d'afficher a l'utilisateur une aide sur le plan. + * * @return L'aide ou la description du plan */ public String getDescription() throws Exception { return _("Permit to specify maximum simulation numbers"); } - + /** * Appel� au d�marrage de la simulation, cette m�thode permet d'initialiser * des valeurs - * @param simulation La simulation pour lequel on utilise cette regle + * + * @param simulation + * La simulation pour lequel on utilise cette regle */ public void init(AnalysePlanContext context) throws Exception { - + } - + /** * Call before each simulation - * @param context plan context - * @param nextSimulation storage used for next simulation + * + * @param context + * plan context + * @param nextSimulation + * storage used for next simulation * @return true if we must do next simulation, false to stop plan * @throws Exception */ - public boolean beforeSimulation(AnalysePlanContext context, SimulationStorage nextSimulation) throws Exception { + public boolean beforeSimulation(AnalysePlanContext context, + SimulationStorage nextSimulation) throws Exception { boolean result = context.getNumber() < param_max; return result; } /** * Call after each simulation - * @param context plan context - * @param nextSimulation storage used for next simulation + * + * @param context + * plan context + * @param nextSimulation + * storage used for next simulation * @return true if we must do next simulation, false to stop plan * @throws Exception */ - public boolean afterSimulation(AnalysePlanContext context, SimulationStorage lastSimulation) throws Exception { + public boolean afterSimulation(AnalysePlanContext context, + SimulationStorage lastSimulation) throws Exception { return true; } Modified: trunk/exports/CapturesNombre.java =================================================================== --- trunk/exports/CapturesNombre.java 2009-04-29 08:39:41 UTC (rev 127) +++ trunk/exports/CapturesNombre.java 2009-04-29 09:27:18 UTC (rev 128) @@ -2,44 +2,41 @@ import static org.codelutin.i18n.I18n._; +import java.io.Writer; + import org.apache.commons.logging.Log; import org.apache.commons.logging.LogFactory; +import org.codelutin.math.matrix.MatrixIterator; +import org.codelutin.math.matrix.MatrixND; -import java.io.Writer; - -import org.codelutin.math.matrix.*; - import scripts.ResultName; - -import fr.ifremer.isisfish.entities.*; +import fr.ifremer.isisfish.datastore.SimulationStorage; +import fr.ifremer.isisfish.entities.Metier; +import fr.ifremer.isisfish.entities.Population; +import fr.ifremer.isisfish.entities.PopulationGroup; +import fr.ifremer.isisfish.entities.Zone; import fr.ifremer.isisfish.export.Export; import fr.ifremer.isisfish.types.Date; -import fr.ifremer.isisfish.datastore.SimulationStorage; -import fr.ifremer.isisfish.datastore.ResultStorage; +import fr.ifremer.isisfish.util.Doc; -import fr.ifremer.isisfish.util.Doc; // pour pouvoir afficher une aide contextuelle (BUG#1605) - /** * CapturesNombre.java - * + * * Created: 23 novembre 2006 - * + * * @author anonymous <anonymous(a)labs.libre-entreprise.org> * @version $Revision: 1.4 $ - * - * Last update: $Date: 2007-05-24 09:30:07 $ - * by : $Author: bpoussin $ + * + * Last update: $Date: 2007-05-24 09:30:07 $ by : $Author: bpoussin $ */ - @Doc(value="do the doc of class CaptureNombre") +@Doc(value = "do the doc of class CaptureNombre") public class CapturesNombre implements Export { /** to use log facility, just put in your code: log.info("..."); */ static private Log log = LogFactory.getLog(CapturesNombre.class); - protected String [] necessaryResult = { - ResultName.MATRIX_CATCH_PER_STRATEGY_MET - }; - + protected String[] necessaryResult = { ResultName.MATRIX_CATCH_PER_STRATEGY_MET }; + public String[] getNecessaryResult() { return this.necessaryResult; } @@ -47,76 +44,80 @@ public String getExportFilename() { return "CapturesNombre"; } - + public String getExtensionFilename() { return ".csv"; } - + public String getDescription() { return _("Export les captures en nombre de la simulation. tableau pop;metier;id;zone;nombre"); } - public void export(SimulationStorage simulation, Writer out) throws Exception { + public void export(SimulationStorage simulation, Writer out) + throws Exception { Date lastDate = simulation.getResultStorage().getLastDate(); - + for (Population pop : simulation.getParameter().getPopulations()) { - for (Date date = new Date(0); !date.after(lastDate); date = date.next() ) { - MatrixND mat = simulation.getResultStorage().getMatrix(date, pop, - ResultName.MATRIX_CATCH_PER_STRATEGY_MET); + for (Date date = new Date(0); !date.after(lastDate); date = date + .next()) { + MatrixND mat = simulation.getResultStorage().getMatrix(date, + pop, ResultName.MATRIX_CATCH_PER_STRATEGY_MET); if (mat != null) { // can be null if simulation is stopped before last year simulation mat = mat.sumOverDim(0); //sum on strategy - for (MatrixIterator i=mat.iterator(); i.hasNext();) { + for (MatrixIterator i = mat.iterator(); i.hasNext();) { i.next(); - Object [] sems = i.getSemanticsCoordinates(); - Metier metier = (Metier)sems[1]; - PopulationGroup group = (PopulationGroup)sems[2]; - Zone zone = (Zone)sems[3]; + Object[] sems = i.getSemanticsCoordinates(); + Metier metier = (Metier) sems[1]; + PopulationGroup group = (PopulationGroup) sems[2]; + Zone zone = (Zone) sems[3]; double val = i.getValue(); - out.write(pop.getName() +";"+ metier.getName() +";"+ group.getId() +";"+ zone.getName() +";"+ date.getDate() +";"+ val +"\n"); + out.write(pop.getName() + ";" + metier.getName() + ";" + + group.getId() + ";" + zone.getName() + ";" + + date.getDate() + ";" + val + "\n"); } } } } /* -var Parametre=sim.getParametre(); -var Populations=Parametre.getPopulations(); -var PDate=Packages.fr.ifremer.nodb.Date; + var Parametre=sim.getParametre(); + var Populations=Parametre.getPopulations(); + var PDate=Packages.fr.ifremer.nodb.Date; -var capture=0.0; -var result=""; + var capture=0.0; + var result=""; -writeln("debut de export captures nombre"); -var dateexport=new Packages.java.util.Date(); -var formatteur= new Packages.java.text.SimpleDateFormat(); -writeln("heure de debut: "+formatteur.format(dateexport)); -var finsimu=resultats.getLastDate().getDate(); + writeln("debut de export captures nombre"); + var dateexport=new Packages.java.util.Date(); + var formatteur= new Packages.java.text.SimpleDateFormat(); + writeln("heure de debut: "+formatteur.format(dateexport)); + var finsimu=resultats.getLastDate().getDate(); -for (var ipop=Populations.iterator();ipop.hasNext();){ - var pop=ipop.next(); - for (var idate=0;idate<=finsimu;idate++){ - var date=new PDate(idate); - var matrice=resultats.getMatrix(date,pop, "matriceCatchPerStrategyMet"); - var temp=matrice.sumOverDim(0); - writeln("on a la matrice"); - for (var iiterateur=temp.iterator();iiterateur.next();){ - var coordonnees=iiterateur.getSemanticsCoordinates(); - var metier=coordonnees[1]; - var c=coordonnees[2]; - var z=coordonnees[3]; - capture=iiterateur.getValue(); - result+=pop.getNom()+";"+metier.getNom()+";"+c.getId()+";"+z.getNom()+";"+idate+";"+capture+"\n"; - } - } -} + for (var ipop=Populations.iterator();ipop.hasNext();){ + var pop=ipop.next(); + for (var idate=0;idate<=finsimu;idate++){ + var date=new PDate(idate); + var matrice=resultats.getMatrix(date,pop, "matriceCatchPerStrategyMet"); + var temp=matrice.sumOverDim(0); + writeln("on a la matrice"); + for (var iiterateur=temp.iterator();iiterateur.next();){ + var coordonnees=iiterateur.getSemanticsCoordinates(); + var metier=coordonnees[1]; + var c=coordonnees[2]; + var z=coordonnees[3]; + capture=iiterateur.getValue(); + result+=pop.getNom()+";"+metier.getNom()+";"+c.getId()+";"+z.getNom()+";"+idate+";"+capture+"\n"; + } + } + } -writeln("fin de CapturesNombre"); + writeln("fin de CapturesNombre"); -return ""+result; + return ""+result; -*/ + */ } } Modified: trunk/exports/CapturesPoids.java =================================================================== --- trunk/exports/CapturesPoids.java 2009-04-29 08:39:41 UTC (rev 127) +++ trunk/exports/CapturesPoids.java 2009-04-29 09:27:18 UTC (rev 128) @@ -2,44 +2,41 @@ import static org.codelutin.i18n.I18n._; +import java.io.Writer; + import org.apache.commons.logging.Log; import org.apache.commons.logging.LogFactory; +import org.codelutin.math.matrix.MatrixIterator; +import org.codelutin.math.matrix.MatrixND; -import java.io.Writer; - -import org.codelutin.math.matrix.*; - import scripts.ResultName; - -import fr.ifremer.isisfish.entities.*; +import fr.ifremer.isisfish.datastore.SimulationStorage; +import fr.ifremer.isisfish.entities.Metier; +import fr.ifremer.isisfish.entities.Population; +import fr.ifremer.isisfish.entities.PopulationGroup; +import fr.ifremer.isisfish.entities.Zone; import fr.ifremer.isisfish.export.Export; import fr.ifremer.isisfish.types.Date; -import fr.ifremer.isisfish.datastore.SimulationStorage; -import fr.ifremer.isisfish.datastore.ResultStorage; +import fr.ifremer.isisfish.util.Doc; -import fr.ifremer.isisfish.util.Doc; // pour pouvoir afficher une aide contextuelle (BUG#1605) - /** * CapturesPoids.java - * + * * Created: 23 novembre 2006 - * + * * @author anonymous <anonymous(a)labs.libre-entreprise.org> * @version $Revision: 1.4 $ - * - * Last update: $Date: 2007-05-24 09:30:07 $ - * by : $Author: bpoussin $ + * + * Last update: $Date: 2007-05-24 09:30:07 $ by : $Author: bpoussin $ */ - @Doc(value="do the doc of class CapturesPoids") +@Doc(value = "do the doc of class CapturesPoids") public class CapturesPoids implements Export { /** to use log facility, just put in your code: log.info("..."); */ static private Log log = LogFactory.getLog(CapturesPoids.class); - protected String [] necessaryResult = { - ResultName.MATRIX_CATCH_WEIGHT_PER_STRATEGY_MET - }; - + protected String[] necessaryResult = { ResultName.MATRIX_CATCH_WEIGHT_PER_STRATEGY_MET }; + public String[] getNecessaryResult() { return this.necessaryResult; } @@ -47,72 +44,76 @@ public String getExportFilename() { return "CapturesPoids"; } - + public String getExtensionFilename() { return ".csv"; } - + public String getDescription() { return _("Export les captures en poids de la simulation. tableau pop;metier;id;zone;nombre"); } - public void export(SimulationStorage simulation, Writer out) throws Exception { + public void export(SimulationStorage simulation, Writer out) + throws Exception { Date lastDate = simulation.getResultStorage().getLastDate(); for (Population pop : simulation.getParameter().getPopulations()) { - for (Date date = new Date(0); !date.after(lastDate); date = date.next() ) { - MatrixND mat = simulation.getResultStorage().getMatrix(date, pop, - ResultName.MATRIX_CATCH_WEIGHT_PER_STRATEGY_MET); + for (Date date = new Date(0); !date.after(lastDate); date = date + .next()) { + MatrixND mat = simulation.getResultStorage().getMatrix(date, + pop, ResultName.MATRIX_CATCH_WEIGHT_PER_STRATEGY_MET); if (mat != null) { // can be null if simulation is stopped before last year simulation mat = mat.sumOverDim(0); //sum on strategy - for (MatrixIterator i=mat.iterator(); i.hasNext();) { + for (MatrixIterator i = mat.iterator(); i.hasNext();) { i.next(); - Object [] sems = i.getSemanticsCoordinates(); - Metier metier = (Metier)sems[1]; - PopulationGroup group = (PopulationGroup)sems[2]; - Zone zone = (Zone)sems[3]; + Object[] sems = i.getSemanticsCoordinates(); + Metier metier = (Metier) sems[1]; + PopulationGroup group = (PopulationGroup) sems[2]; + Zone zone = (Zone) sems[3]; double val = i.getValue(); - out.write(pop.getName() +";"+ metier.getName() +";"+ group.getId() +";"+ zone.getName() +";"+ date.getDate() +";"+ val +"\n"); + out.write(pop.getName() + ";" + metier.getName() + ";" + + group.getId() + ";" + zone.getName() + ";" + + date.getDate() + ";" + val + "\n"); } } } } -/* -var Parametre=sim.getParametre(); -var Populations=Parametre.getPopulations(); -var PDate=Packages.fr.ifremer.nodb.Date; + /* + var Parametre=sim.getParametre(); + var Populations=Parametre.getPopulations(); + var PDate=Packages.fr.ifremer.nodb.Date; -var capture=0.0; -var result=""; -writeln("debut de export captures poids"); -var dateexport=new Packages.java.util.Date(); -var formatteur= new Packages.java.text.SimpleDateFormat(); -writeln("heure de debut: "+formatteur.format(dateexport)); -var finsimu=resultats.getLastDate().getDate(); + var capture=0.0; + var result=""; + writeln("debut de export captures poids"); + var dateexport=new Packages.java.util.Date(); + var formatteur= new Packages.java.text.SimpleDateFormat(); + writeln("heure de debut: "+formatteur.format(dateexport)); + var finsimu=resultats.getLastDate().getDate(); -for (var ipop=Populations.iterator();ipop.hasNext();){ - var pop=ipop.next(); - for (var idate=0;idate<=finsimu;idate++){ - var date=new PDate(idate); - var matrice=resultats.getMatrix(date,pop, "matriceCatchWeightPerStrategyMet"); - var temp=matrice.sumOverDim(0); - writeln("on a la matrice"); - for (var iiterateur=temp.iterator();iiterateur.next();){ - var coordonnees=iiterateur.getSemanticsCoordinates(); - var metier=coordonnees[1]; - var c=coordonnees[2]; - var z=coordonnees[3]; - capture=iiterateur.getValue(); - result+=pop.getNom()+";"+metier.getNom()+";"+c.getId()+";"+z.getNom()+";"+idate+";"+capture+"\n"; - } - } -} + for (var ipop=Populations.iterator();ipop.hasNext();){ + var pop=ipop.next(); + for (var idate=0;idate<=finsimu;idate++){ + var date=new PDate(idate); + var matrice=resultats.getMatrix(date,pop, "matriceCatchWeightPerStrategyMet"); + var temp=matrice.sumOverDim(0); + writeln("on a la matrice"); + for (var iiterateur=temp.iterator();iiterateur.next();){ + var coordonnees=iiterateur.getSemanticsCoordinates(); + var metier=coordonnees[1]; + var c=coordonnees[2]; + var z=coordonnees[3]; + capture=iiterateur.getValue(); + result+=pop.getNom()+";"+metier.getNom()+";"+c.getId()+";"+z.getNom()+";"+idate+";"+capture+"\n"; + } + } + } -writeln("fin de CapturesPoids"); -return ""+result; + writeln("fin de CapturesPoids"); + return ""+result; -*/ + */ } } Modified: trunk/exports/RejetsNombre.java =================================================================== --- trunk/exports/RejetsNombre.java 2009-04-29 08:39:41 UTC (rev 127) +++ trunk/exports/RejetsNombre.java 2009-04-29 09:27:18 UTC (rev 128) @@ -2,23 +2,23 @@ import static org.codelutin.i18n.I18n._; +import java.io.Writer; + import org.apache.commons.logging.Log; import org.apache.commons.logging.LogFactory; +import org.codelutin.math.matrix.MatrixIterator; +import org.codelutin.math.matrix.MatrixND; -import java.io.Writer; - -import org.codelutin.math.matrix.*; - import scripts.ResultName; - -import fr.ifremer.isisfish.entities.*; +import fr.ifremer.isisfish.datastore.SimulationStorage; +import fr.ifremer.isisfish.entities.Metier; +import fr.ifremer.isisfish.entities.Population; +import fr.ifremer.isisfish.entities.PopulationGroup; +import fr.ifremer.isisfish.entities.Zone; import fr.ifremer.isisfish.export.Export; import fr.ifremer.isisfish.types.Date; -import fr.ifremer.isisfish.datastore.SimulationStorage; -import fr.ifremer.isisfish.datastore.ResultStorage; +import fr.ifremer.isisfish.util.Doc; -import fr.ifremer.isisfish.util.Doc; // pour pouvoir afficher une aide contextuelle (BUG#1605) - /** * RejetsNombre.java * Modified: trunk/exports/RejetsPoids.java =================================================================== --- trunk/exports/RejetsPoids.java 2009-04-29 08:39:41 UTC (rev 127) +++ trunk/exports/RejetsPoids.java 2009-04-29 09:27:18 UTC (rev 128) @@ -2,23 +2,23 @@ import static org.codelutin.i18n.I18n._; +import java.io.Writer; + import org.apache.commons.logging.Log; import org.apache.commons.logging.LogFactory; +import org.codelutin.math.matrix.MatrixIterator; +import org.codelutin.math.matrix.MatrixND; -import java.io.Writer; - -import org.codelutin.math.matrix.*; - import scripts.ResultName; - -import fr.ifremer.isisfish.entities.*; +import fr.ifremer.isisfish.datastore.SimulationStorage; +import fr.ifremer.isisfish.entities.Metier; +import fr.ifremer.isisfish.entities.Population; +import fr.ifremer.isisfish.entities.PopulationGroup; +import fr.ifremer.isisfish.entities.Zone; import fr.ifremer.isisfish.export.Export; import fr.ifremer.isisfish.types.Date; -import fr.ifremer.isisfish.datastore.SimulationStorage; -import fr.ifremer.isisfish.datastore.ResultStorage; +import fr.ifremer.isisfish.util.Doc; -import fr.ifremer.isisfish.util.Doc; // pour pouvoir afficher une aide contextuelle (BUG#1605) - /** * RejetsPoids.java * Modified: trunk/rules/GraviteVPUE1LangEtGrossValueOtherSpeciesECOMOD.java =================================================================== --- trunk/rules/GraviteVPUE1LangEtGrossValueOtherSpeciesECOMOD.java 2009-04-29 08:39:41 UTC (rev 127) +++ trunk/rules/GraviteVPUE1LangEtGrossValueOtherSpeciesECOMOD.java 2009-04-29 09:27:18 UTC (rev 128) @@ -29,6 +29,7 @@ import fr.ifremer.isisfish.simulator.SimulationContext; import fr.ifremer.isisfish.types.Date; import fr.ifremer.isisfish.types.Month; +import fr.ifremer.isisfish.util.Doc; /** * GraviteVPUE1Anchois.java @@ -46,11 +47,15 @@ static private Log log = LogFactory .getLog(GraviteVPUE1LangEtGrossValueOtherSpeciesECOMOD.class); + @Doc(value = "do the doc of param coeffOthers0") public String param_nomfichier_coeffOthers0 = "Inputs_Langoustine/CoeffOthers_Intercept_Langoustine/CoeffOthersNephrops.csv"; + @Doc(value = "do the doc of param coeffOthers1") public String param_nomfichier_coeffOthers1 = "Inputs_Langoustine/CoeffOthers_Intercept_Langoustine/CoeffOthersHake.csv"; + @Doc(value = "do the doc of param coeffOthers2") public String param_nomfichier_coeffOthers2 = "Inputs_Langoustine/CoeffOthers_Intercept_Langoustine/CoeffOthersBenthic.csv"; + @Doc(value = "do the doc of param gravite") public boolean param_gravite = false; - // doit �tre � vrai si gravite s'applique sinon la methode calcul uniquement les grossvalue otherspecies + // doit etre a vrai si gravite s'applique sinon la methode calcul uniquement les grossvalue otherspecies static final protected String BETA_O = "BetaOthers"; static final protected String ALPHA_O = "AlphaOthers"; @@ -96,20 +101,20 @@ * @return L'aide ou la description de la regle */ public String getDescription() throws Exception { - return _("calcule les proportion par m�tier chaque mois en fonction de la VPUE du m�tier l'ann�e pr�c�dante et les gross Values otherSpecies"); + return _("calcule les proportion par metier chaque mois en fonction de la VPUE du metier l'annee precedante et les gross Values otherSpecies"); /*"HYPOTHESES GRAVITE" - " attention cette r�gle doit toujours �tre mise avant les mesures de gestion"+ - " si pour un metier Effort (m�tier annee-1,mois) = 0 et propinitiale (m�tier, mois) !=0 (ie m�tier potentiellement pratiqu�), alors "+ - on remet propInitiale pour tous les m�tiers (premiere vue complete pour tous les metiers de la strategie - graviteVPUE1-, une alternative - pourrait �tre de chercher lapremiere ann�e avant ann�e -1 pour laquelle le m�tier, ayant une propInitiale non nulle , aurait une VPUE (metier,mois) non nulle - et recuperer la propStr (metier,mois) pour cette ann�e et on l'affecte ann�e courante - mois, les autres m�tiers se partageant la proportion d'effort restante - en fonction de leur VPUE - graviteVPUE2-, une alternative pourrait etre de chercher la premiere ann�e avant ann�e -1 pour laquelle tous les m�tiers, - ayant une propInitiale non nulle, auraient eu une propStr non nulle, (surement difficile � trouver) - - graviteVPUE3- d'autres hypoth�ses pourraient etre envisag�es) + " attention cette regle doit toujours etre mise avant les mesures de gestion"+ + " si pour un metier Effort (metier annee-1,mois) = 0 et propinitiale (metier, mois) !=0 (ie metier potentiellement pratique), alors "+ + on remet propInitiale pour tous les metiers (premiere vue complete pour tous les metiers de la strategie - graviteVPUE1-, une alternative + pourrait etre de chercher lapremiere annee avant annee -1 pour laquelle le metier, ayant une propInitiale non nulle , aurait une VPUE (metier,mois) non nulle + et recuperer la propStr (metier,mois) pour cette annee et on l'affecte annee courante - mois, les autres metiers se partageant la proportion d'effort restante + en fonction de leur VPUE - graviteVPUE2-, une alternative pourrait etre de chercher la premiere annee avant annee -1 pour laquelle tous les metiers, + ayant une propInitiale non nulle, auraient eu une propStr non nulle, (surement difficile a trouver) - - graviteVPUE3- d'autres hypotheses pourraient etre envisagees) "*/ - /*Calcul des gross Value Other Species en fonction de l'effort par strategie et par m�tier � date - Avant ann�e 1 (premiere ann�e d'appliaction de Gravit�) - il faut deja faire les calculs des grossValues des autres esp�ces - A partir de l'ann�e 1 : Gravit� s'applique, il faut donc attendre de connaitre l'allocation de l'effort � date (dependant des gross values species et otherspecies � date - 1) - pour pouvoir calculer les grossValueOtherSpecies � date + /*Calcul des gross Value Other Species en fonction de l'effort par strategie et par metier a date + Avant annee 1 (premiere annee d'appliaction de Gravite) - il faut deja faire les calculs des grossValues des autres especes + A partir de l'annee 1 : Gravite s'applique, il faut donc attendre de connaitre l'allocation de l'effort a date (dependant des gross values species et otherspecies a date - 1) + pour pouvoir calculer les grossValueOtherSpecies a date */ } @@ -124,7 +129,7 @@ }; /** - * Appel� au d�marrage de la simulation, cette m�thode permet d'initialiser + * Appele au demarrage de la simulation, cette methode permet d'initialiser * des valeurs * * @param simulation @@ -166,11 +171,11 @@ if (param_nomfichier_coeffOthers0 == null || "".equals(param_nomfichier_coeffOthers0)) { CoeffOthers0 = FileUtil.getFile(".*.csv", - "fichier 0 csv s�parateur ';'"); + "fichier 0 csv separateur ';'"); CoeffOthers1 = FileUtil.getFile(".*.csv", - "fichier 1 csv s�parateur ';'"); + "fichier 1 csv separateur ';'"); CoeffOthers2 = FileUtil.getFile(".*.csv", - "fichier 2 csv s�parateur ';'"); + "fichier 2 csv separateur ';'"); } else { CoeffOthers0 = new File(param_nomfichier_coeffOthers0); CoeffOthers1 = new File(param_nomfichier_coeffOthers1); @@ -261,7 +266,7 @@ } /** - * Si la condition est vrai alors cette action est execut�e avant le pas de + * Si la condition est vrai alors cette action est executee avant le pas de * temps de la simulation. * * @param simulation @@ -298,7 +303,7 @@ log.info("GrossValueOtherSpeciesPerStrMet initialisee " + GrossValueOtherSpeciesPerStrMet); - // si ann�e>=1 alors on fait le calcul des gravit� puis on met � jour les gross value otherspecies + // si annee>=1 alors on fait le calcul des gravite puis on met a jour les gross value otherspecies if ((date.getYear() > 0) & (param_gravite == true)) { ////////Initialisation des matrices qui resultent de la simulation//////////////////////////////////////////////////////////// log.info("calcul de Gravite"); @@ -319,7 +324,7 @@ .copy(); log.info("GrossValuePerStrMet calculee " + GrossValuePerStrMet); - //ajouter pour tous les m�tiers les valeurs li�es qux autres esp�ces calcul�es par modele lineaire + //ajouter pour tous les metiers les valeurs liees qux autres especes calculees par modele lineaire // Boucle sur les strategies de mes strategies //List <Strategy> mStr = strs; for (Strategy strIndex : strs) { @@ -331,7 +336,7 @@ .getMonth()); Collection<EffortDescription> strMet = str .getSetOfVessels().getPossibleMetiers(); - //2) calcul les valeurs non simulees du mois l ann�e pr�c�dante + //2) calcul les valeurs non simulees du mois l annee precedante for (EffortDescription effort : strMet) { Metier met = effort.getPossibleMetiers(); log.info("Boucle metier 1, metier possible: " @@ -340,10 +345,10 @@ log.info("effort str" + str.getName() + met.getName() + " : " + eff); - //GrossValueAutres par strat�gie - // Hypothese 1 = pas de distinction entre les m�tiers n'agira donc pas sur la gravit�) - // Hypothese 2 = a distinguer selon les m�tiers - agira sur la gravit� - // l'hypothese est le resultat des coef dans la matrice en entr�e si tous identiques quelque soit le metier dans la strat�gie alors H1 + //GrossValueAutres par strategie + // Hypothese 1 = pas de distinction entre les metiers n'agira donc pas sur la gravite) + // Hypothese 2 = a distinguer selon les metiers - agira sur la gravite + // l'hypothese est le resultat des coef dans la matrice en entree si tous identiques quelque soit le metier dans la strategie alors H1 // sinon H2 double valMetOther = matrixCoeffOthers.getValue(str, met, ALPHA_O) @@ -365,7 +370,7 @@ } ////////////////////////////////////////////////////////////////////////////////////////////////////////// - valuePerUnitOfEffort.map(nanFunction); //r�initialisation avant calcul pour date + valuePerUnitOfEffort.map(nanFunction); //reinitialisation avant calcul pour date for (Strategy str : strs) { log.info("INFO: Boucle creation valuePerUnitEffort : " @@ -389,9 +394,9 @@ // on teste effort pour le calcul des VPUE // si effort != 0 , valeur/effort //sinon (effort =0) , deux cas de figure : - // 1. soit propInitiale =0 pour ce m�tier et dans ce cas VPUE =0 et ca ne doit pas impacter le calcul de la gravite pour les autres metiers de str + // 1. soit propInitiale =0 pour ce metier et dans ce cas VPUE =0 et ca ne doit pas impacter le calcul de la gravite pour les autres metiers de str // 2. soit propInitiale! =0 et dans ce cas, on mettra PropInitiale pour tous les metiers de str - if (effort > 0) {// a pech� au mois, annee-1 + if (effort > 0) {// a peche au mois, annee-1 //on recupere la capture tot double value = GrossValuePerStrMet.getValue(str, strMetier); @@ -402,21 +407,21 @@ log.info("value/effort= " + vpue); somme += value / effort; } else if ((effort == 0) - & (smi.getProportionMetier(strMetier) == 0)) {// n'a jamais p�che avec ce metier + & (smi.getProportionMetier(strMetier) == 0)) {// n'a jamais peche avec ce metier valuePerUnitOfEffort.setValue(str, strMetier, 0); - log.info("n'a jamais p�che avec ce metier"); + log.info("n'a jamais peche avec ce metier"); } else {// n'a pas peche au mois, annee -1, mais avait une prop d'effort non nul a l'annee=0 - testCondition = true;// ie somme est incompl�te mais pas grave car on mettra PropInitiale � tous les metiers + testCondition = true;// ie somme est incomplete mais pas grave car on mettra PropInitiale a tous les metiers log .info("n'a pas peche au mois, annee -1, mais avait une prop d'effort non nul a l'annee=0"); } } log.info("testCondition pour str" + str.getName() + ":" + testCondition); - // � partir des VPUE stockees dans valuePerUnitOfEffort, on calcule la gravit� + // a partir des VPUE stockees dans valuePerUnitOfEffort, on calcule la gravite double newProp = 0; log - .info("� partir des VPUE stockees dans valuePerUnitOfEffort, on calcule la gravit�"); + .info("a partir des VPUE stockees dans valuePerUnitOfEffort, on calcule la gravite"); if (!testCondition) { double SommeVPUEstrat = somme; log.info("SommeVPUEstrat=" + SommeVPUEstrat); @@ -447,13 +452,13 @@ log.info("PropStrNouvelle(metier=" + strMetier.getName() + ")" + smi.getProportionMetier(strMetier)); - // annee>= 1 calcul des gross Value otherSpecies avec les nouvelles valeurs d'effort calcul�es par gravite - //avec la nouvelle proportion on en d�duit la gross Value of Species de date pour ce str-met + // annee>= 1 calcul des gross Value otherSpecies avec les nouvelles valeurs d'effort calculees par gravite + //avec la nouvelle proportion on en deduit la gross Value of Species de date pour ce str-met double valMetOtherSpecies = matrixCoeffOthers .getValue(str, strMetier, ALPHA_O) + matrixCoeffOthers.getValue(str, strMetier, BETA_O) * newProp; - //tester si valMetOtherSpecies <= alors mettre � 0 + //tester si valMetOtherSpecies <= alors mettre a 0 if (valMetOtherSpecies < 0) { valMetOtherSpecies = 0; } @@ -467,9 +472,9 @@ } } // else ie on met propInitiale dans PropStr(str,annee,mois) - // rien n'a faire car au debut de chaque pas de temps, PropStr est par d�faut initialis� � la valeur de la base de donn�es (val initiales) + // rien n'a faire car au debut de chaque pas de temps, PropStr est par defaut initialise a la valeur de la base de donnees (val initiales) }//fin de boucle sur strategy - // r�sultats grossvalue otherspecies mis dans le resultManager + // resultats grossvalue otherspecies mis dans le resultManager resultmanager .addResult( date, @@ -477,7 +482,7 @@ GrossValueOtherSpeciesPerStrMet); } else if ((date.getYear() == 0) || (param_gravite == false)) { - //si ann�e==0 alors on ne fait que le calcul des gross value other species + //si annee==0 alors on ne fait que le calcul des gross value other species for (Strategy str : strs) { log.info("INFO: Boucle creation valuePerUnitEffort : " + str.getName()); @@ -496,7 +501,7 @@ + matrixCoeffOthers.getValue(str, strMetier, BETA_O) * smi.getProportionMetier(strMetier); - //tester si valMetOtherSpecies <= alors mettre � 0 + //tester si valMetOtherSpecies <= alors mettre a 0 if (valMetOtherSpecies < 0) { valMetOtherSpecies = 0; } @@ -509,13 +514,13 @@ strMetier)); } } - // r�sultats grossvalue otherspecies mis dans le resultManager + // resultats grossvalue otherspecies mis dans le resultManager resultmanager .addResult( date, ResultName.MATRIX_GROSS_VALUE_OF_LANDINGS_OTHER_SPECIES_PER_STRATEGY_MET, GrossValueOtherSpeciesPerStrMet); - } // fin de calcul pour ann�e ==0 + } // fin de calcul pour annee ==0 first = false; }// fin de first= true @@ -527,7 +532,7 @@ } /** - * Si la condition est vrai alors cette action est execut�e apres le pas de + * Si la condition est vrai alors cette action est executee apres le pas de * temps de la simulation. * * @param simulation Modified: trunk/rules/TACpoids.java =================================================================== --- trunk/rules/TACpoids.java 2009-04-29 08:39:41 UTC (rev 127) +++ trunk/rules/TACpoids.java 2009-04-29 09:27:18 UTC (rev 128) @@ -42,13 +42,13 @@ */ /** - * TAC peut-etre utilis� pour les diff�rents TAC, en proportion des effectifs + * TAC peut-etre utilise pour les differents TAC, en proportion des effectifs * et/ou avec survie ou non. * * <li>Pour utiliser le tac proportionnel, il faut mettre dans le parametre - * propTac une valeur > 0, le TAC sera alors recalcul� a chaque mois de janvier. - * <li>Pour utiliser la survie il faut mettre dans le param�tre propSurvie une - * valeur > 0, automatiquement les suvie seront ajout� aux effectifs + * propTac une valeur > 0, le TAC sera alors recalcule a chaque mois de janvier. + * <li>Pour utiliser la survie il faut mettre dans le parametre propSurvie une + * valeur > 0, automatiquement les suvie seront ajoute aux effectifs * */ public class TACpoids extends AbstractRule { @@ -97,7 +97,7 @@ } /** - * Appel� au d�marrage de la simulation, cette m�thode permet d'initialiser + * Appele au demarrage de la simulation, cette methode permet d'initialiser * des valeurs * * @param simulation @@ -121,7 +121,7 @@ param_species = (Species) context.getDB().findByTopiaId( param_species.getTopiaId()); - // on fait le calcul du tac si n�cessaire + // on fait le calcul du tac si necessaire if (param_propTac > 0 && date.getMonth().equals(Month.JANUARY)) { PopulationMonitor popMon = context.getPopulationMonitor(); param_tacInTons = popMon.getBiomass(param_species) * param_propTac; @@ -149,7 +149,7 @@ } /** - * Si la condition est vrai alors cette action est execut�e avant le pas de + * Si la condition est vrai alors cette action est executee avant le pas de * temps de la simulation. * * @param simulation @@ -173,7 +173,7 @@ log.info("aimed Metier: " + aimedMetiers);*/ context.getMetierMonitor().addforbiddenMetier(metier); - //r�cupere toutes les strat�gies pratiquant le m�tier et pour lesquelles la proportion !=0 + //recupere toutes les strategies pratiquant le metier et pour lesquelles la proportion !=0 SiMatrix siMatrix = SiMatrix.getSiMatrix(context); Set<Strategy> strs = new HashSet<Strategy>(); for (Strategy str : siMatrix.getStrategies(date)) { @@ -208,7 +208,7 @@ &&*/!metier.getName().equalsIgnoreCase("nonActiviy") && !metier.getName().equalsIgnoreCase("nonActivie") && !metier.getName().equalsIgnoreCase( - "non Activit�") + "non Activite") && !context.getMetierMonitor().getForbiddenMetier() .contains(newMetier)) { possibleMetierCase3.add(newMetier); @@ -271,7 +271,7 @@ } /** - * Si la condition est vrai alors cette action est execut�e apres le pas de + * Si la condition est vrai alors cette action est executee apres le pas de * temps de la simulation. * * @param simulation Modified: trunk/scripts/GravityModel.java =================================================================== --- trunk/scripts/GravityModel.java 2009-04-29 08:39:41 UTC (rev 127) +++ trunk/scripts/GravityModel.java 2009-04-29 09:27:18 UTC (rev 128) @@ -139,7 +139,7 @@ } /** - * implant� suivant document ModifTable3PourBP25-07-2006.doc + * implante suivant document ModifTable3PourBP25-07-2006.doc * FishingTimePerMonthPerVessel[str,met,month] = * FishingTimePerTrip[str,met,month]NbTripsPerMonth[str,month] * @@ -191,8 +191,9 @@ } /** - * implant� suivant document ModifTable3PourBP25-07-2006.doc - * FuelCostsOfTravelPerVessel[sov,met,month]�=�NbTripsPerMonth[str,month]*TravelTimePerTrip[sov,met,month]*UnitFuelCostsOfTravel[vt] + * implante suivant document ModifTable3PourBP25-07-2006.doc + * FuelCostsOfTravelPerVessel[sov,met,month] = + * NbTripsPerMonth[str,month]*TravelTimePerTrip[sov,met,month]*UnitFuelCostsOfTravel[vt] * * @param str * @param metier @@ -249,7 +250,7 @@ } /** - * implant� suivant document ModifTable3PourBP25-07-2006.doc + * implante suivant document ModifTable3PourBP25-07-2006.doc * CostsOfFishingPerVessel[str,met,month]= FishingTimePerMonthPerVessel * [str,met,month] {NbFishingOperationsPerDay[sov,met] * UnitCostsOfFishing[sov,met] / 24} @@ -310,7 +311,7 @@ } /** - * implant� suivant document ModifTable3PourBP25-07-2006.doc + * implante suivant document ModifTable3PourBP25-07-2006.doc * FuelCostsPerVessel[str,met,month] = FuelCostsOfTravelPerVessel * [sov,met,month] + CostsOfFishingPerVessel [str,met,month] * @@ -362,8 +363,9 @@ } /** - * implant� suivant document ModifTable3PourBP25-07-2006.doc - * RepairAndMaintenanceGearCostsPerVessel[str,met,month]�=�FishingTimePerMonthPerVessel[str,met,month] + * implante suivant document ModifTable3PourBP25-07-2006.doc + * RepairAndMaintenanceGearCostsPerVessel[str,met,month] = + * FishingTimePerMonthPerVessel[str,met,month] * *RepairAndMaintenanceGearCostsPerDay[sov,met]/NbHoursPerDay * * @param str @@ -421,8 +423,9 @@ } /** - * implant� suivant document ModifTable3PourBP25-07-2006.doc - * OtherRunningCostsPerVessel[str,met,month]=�FishingTimePerMonthPerVessel[str,met,month]*OtherRunningCostsPerDay[sov,met]/ + * implante suivant document ModifTable3PourBP25-07-2006.doc + * OtherRunningCostsPerVessel[str,met,month] = + * FishingTimePerMonthPerVessel[str,met,month]*OtherRunningCostsPerDay[sov,met]/ * NbHoursPerDay * * @param str @@ -480,9 +483,9 @@ } /** - * implant� suivant document ModifTable3PourBP25-07-2006.doc - * SharedNotFixedCostsPerVessel[str,met,month]=�FuelCostsPerVessel[str,met,month] - * +�OtherRunningCostsPerVessel[str,met,month] + * implante suivant document ModifTable3PourBP25-07-2006.doc + * SharedNotFixedCostsPerVessel[str,met,month]=FuelCostsPerVessel[str,met,month] + * +OtherRunningCostsPerVessel[str,met,month] * * @param str * @param metier @@ -585,9 +588,9 @@ } /** - * implant� suivant document ModifTable3PourBP25-07-2006.doc - * GrossValueOfLandingsPerSpeciesPerStrategyMet[str,met,pop,month]�=�sum - * over classes_cl of [PricePerKg(pop,cl, t)* (CatchWeightPerStrategyMet + * implante suivant document ModifTable3PourBP25-07-2006.doc + * GrossValueOfLandingsPerSpeciesPerStrategyMet[str,met,pop,month]=sum over + * classes_cl of [PricePerKg(pop,cl, t)* (CatchWeightPerStrategyMet * [str,met,pop,cl,month] ?DiscardsWeightPerStrategyMet [str,met,pop,cl,mo * nth] GrossValueOfLandingsPerSpeciesPerStrategyMet[str,met,pop,month] = * sum over classes_cl of [PricePerKg(pop,cl, t)* (CatchWeightPerStrategyMet @@ -749,9 +752,9 @@ } /** - * implant� suivant document ModifTable3PourBP25-07-2006.doc - * GrossValueOfLandingsPerStrategyMetPerVessel[str,met,month]�= - * GrossValueOfLandingsPerStrategyMet[str,met,month]�/[PropNbVessels(str,sov)*NbVesselsSetOfVessels(sov)] + * implante suivant document ModifTable3PourBP25-07-2006.doc + * GrossValueOfLandingsPerStrategyMetPerVessel[str,met,month]= + * GrossValueOfLandingsPerStrategyMet[str,met,month]/[PropNbVessels(str,sov)*NbVesselsSetOfVessels(sov)] * * @param str * @param metier @@ -810,8 +813,10 @@ } /** - * implant� suivant document ModifTable3PourBP25-07-2006.doc - * NetValueOfLandingsPerStrategyMet[str,met,month]�=�GrossValueOfLandingsPerStrategyMet[str,met,month]�(1-LandingCostRate[str,met]�) + * implante suivant document ModifTable3PourBP25-07-2006.doc + * NetValueOfLandingsPerStrategyMet[str,met,month] = + * GrossValueOfLandingsPerStrategyMet[str,met,month] + * (1-LandingCostRate[str,met]) * * @param str * @param metier @@ -883,8 +888,10 @@ } /** - * implant� suivant document ModifTable3PourBP25-07-2006.doc - * NetValueOfLandingsPerStrategyMetPerVessel[str,met,month]�=�NetValueOfLandingsPerStrategyMet[str,met,month]�/[PropNbVessels(str,sov)*NbVesselsSetOfVessels(sov)] + * implante suivant document ModifTable3PourBP25-07-2006.doc + * NetValueOfLandingsPerStrategyMetPerVessel[str,met,month] = + * NetValueOfLandingsPerStrategyMet[str,met,month] + * /[PropNbVessels(str,sov)*NbVesselsSetOfVessels(sov)] * * @param str * @param metier @@ -942,10 +949,11 @@ } /** - * implant� suivant document ModifTable3PourBP25-07-2006.doc - * NetRevenueToSharePerStrategyMetPerVessel[str,met,month]�=�NetValueOfLandingsPerStrategyMetPerVessel[str,met,month]�-�SharedNotFixedCostsPerVessel - * [str,met,month]*PropStr(str,met,month) - SharedFixedCostsPerVessel - * PerMet[str,month] + * implante suivant document ModifTable3PourBP25-07-2006.doc + * NetRevenueToSharePerStrategyMetPerVessel[str,met,month] = + * NetValueOfLandingsPerStrategyMetPerVessel[str,met,month] - + * SharedNotFixedCostsPerVessel [str,met,month]*PropStr(str,met,month) - + * SharedFixedCostsPerVessel PerMet[str,month] * * @param str * @param metier @@ -1003,8 +1011,9 @@ } /** - * implant� suivant document ModifTable3PourBP25-07-2006.doc - * CrewSharePerStrategyMetPerVessel[str,met,month]�=�NetRevenueToSharePerStrategyMetPerVessel[str,met,month]*CrewShareRate[sov,met] + * implante suivant document ModifTable3PourBP25-07-2006.doc + * CrewSharePerStrategyMetPerVessel[str,met,month] = + * NetRevenueToSharePerStrategyMetPerVessel[str,met,month]*CrewShareRate[sov,met] * * @param str * @param metier @@ -1066,11 +1075,11 @@ } /** - * implant� suivant document ModifTable3PourBP25-07-2006.doc + * implante suivant document ModifTable3PourBP25-07-2006.doc * OwnerMarginOverVariableCostsPerStrategyMetPerVessel[str,met,month] = - * NetRevenueToSharePerStrategyMetPerVessel[str,met,month]�- - * CrewSharePerStrategyMetPerVessel[str,met,month]�- - * RepairAndMaintenanceGearCostsPerVes sel[str,met,month]�* + * NetRevenueToSharePerStrategyMetPerVessel[str,met,month] - + * CrewSharePerStrategyMetPerVessel[str,met,month] - + * RepairAndMaintenanceGearCostsPerVes sel[str,met,month] * * PropStr(str,met,month) * * @param str @@ -1130,9 +1139,10 @@ } /** - * implant� suivant document ModifTable3PourBP25-07-2006.doc - * VesselMarginOverVariableCostsPerStrategyMetPerVessel�[str,met,month]�=NetRevenueToSharePerStrategyMetPerVessel[str,met,month]- - * RepairAndMaintenanceGearCostsPerVessel [str,met,month]�* + * implante suivant document ModifTable3PourBP25-07-2006.doc + * VesselMarginOverVariableCostsPerStrategyMetPerVessel [str,met,month] + * =NetRevenueToSharePerStrategyMetPerVessel[str,met,month]- + * RepairAndMaintenanceGearCostsPerVessel [str,met,month] * * PropStr(str,met,month) * * @param str @@ -1183,9 +1193,9 @@ } /** - * implant� suivant document ModifTable3PourBP25-07-2006.doc - * OwnerMarginOverVariableCostsPerStrategyPerVessel[str,month]�=�somme sur - * tous les m�tiers de OwnerMarginOverVariableCostsPerStrategyMetPerVessel + * implante suivant document ModifTable3PourBP25-07-2006.doc + * OwnerMarginOverVariableCostsPerStrategyPerVessel[str,month] = somme sur + * tous les metiers de OwnerMarginOverVariableCostsPerStrategyMetPerVessel * [str,met,month] * * @param str @@ -1237,8 +1247,10 @@ } /** - * implant� suivant document ModifTable3PourBP25-07-2006.doc - * OwnerMarginOverVariableCostsPerStrategy[str,month]�=�OwnerMarginOverVariableCostsPerStrategyPerVessel[str,month]�*[PropNbVessels(str,sov)*NbVesselsSetOfVessels(sov)] + * implante suivant document ModifTable3PourBP25-07-2006.doc + * OwnerMarginOverVariableCostsPerStrategy[str,month] = + * OwnerMarginOverVariableCostsPerStrategyPerVessel[str,month] + * *[PropNbVessels(str,sov)*NbVesselsSetOfVessels(sov)] * * @param str * @param date @@ -1286,9 +1298,9 @@ } /** - * implant� suivant document ModifTable3PourBP25-07-2006.doc - * VesselMarginOverVariableCostsPerStrategyPerVessel[str,month]�= somme sur - * tous les m�tiers de VesselMarginOverVariableCostsPerStrategyMetPerVessel� + * implante suivant document ModifTable3PourBP25-07-2006.doc + * VesselMarginOverVariableCostsPerStrategyPerVessel[str,month] = somme sur + * tous les metiers de VesselMarginOverVariableCostsPerStrategyMetPerVessel * [str,met,month] * * @param str @@ -1340,8 +1352,9 @@ } /** - * implant� suivant document ModifTable3PourBP25-07-2006.doc - * VesselMarginOverVariableCostsPerStrategy[str,month]�=VesselMarginOverVariableCostsPerStrategyPerVessel�[str,month] + * implante suivant document ModifTable3PourBP25-07-2006.doc + * VesselMarginOverVariableCostsPerStrategy[str,month] + * =VesselMarginOverVariableCostsPerStrategyPerVessel [str,month] * *[PropNbVessels(str,sov)*NbVesselsSetOfVessels(sov)] * * @param str @@ -1362,7 +1375,7 @@ /////////////////////////////////////////////////////////////////////////// // - // Methode non utilis�e directement dans GravityModel, mais dans les rules + // Methode non utilisee directement dans GravityModel, mais dans les rules // /////////////////////////////////////////////////////////////////////////// Modified: trunk/scripts/ResultName.java =================================================================== --- trunk/scripts/ResultName.java 2009-04-29 08:39:41 UTC (rev 127) +++ trunk/scripts/ResultName.java 2009-04-29 09:27:18 UTC (rev 128) @@ -1,6 +1,6 @@ /* *##% * Copyright (C) 2006 - * Code Lutin, C�dric Pineau, Benjamin Poussin + * Code Lutin, Cedric Pineau, Benjamin Poussin * * This program is free software; you can redistribute it and/or * modify it under the terms of the GNU General Public License @@ -20,7 +20,7 @@ /* * * ResultName.java * - * Created: 23 ao�t 2006 15:09:37 + * Created: 23 aout 2006 15:09:37 * * @author poussin * @version $Revision: 1.10 $ @@ -37,16 +37,16 @@ /** * Contient l'ensemble des noms des differents resultats. Le mieux lorsque l'on - * veut un nouveau r�sultat est d'ajouter une constante ici, et de l'utiliser - * ensuite lors de la cr�ation de la matrice. + * veut un nouveau resultat est d'ajouter une constante ici, et de l'utiliser + * ensuite lors de la creation de la matrice. * <p> - * Ceci permet d'avoir un endroit unique ou l'on voit l'ensemble des r�sultats - * potentiellement disponible et de ne pas ce tromper en �crivent le nom - * d'un r�sultat + * Ceci permet d'avoir un endroit unique ou l'on voit l'ensemble des resultats + * potentiellement disponible et de ne pas ce tromper en ecrivent le nom + * d'un resultat * <p> * Cette classe ne doit contenir que des noms de resultat en static public String * l'interface de lancement de simulation se base sur cette classe pour - * afficher l'ensemble des r�sultats disponible + * afficher l'ensemble des resultats disponible * * @author poussin */ Modified: trunk/scripts/SiMatrix.java =================================================================== --- trunk/scripts/SiMatrix.java 2009-04-29 08:39:41 UTC (rev 127) +++ trunk/scripts/SiMatrix.java 2009-04-29 09:27:18 UTC (rev 128) @@ -20,7 +20,7 @@ /* * * SiMatrix.java * - * Created: 21 ao�t 2006 15:53:01 + * Created: 21 aout 2006 15:53:01 * * @author poussin * @version $Revision: 1.18 $ @@ -31,14 +31,13 @@ package scripts; -import static org.codelutin.i18n.I18n._; import static org.codelutin.i18n.I18n.n_; import java.util.ArrayList; import java.util.Collection; import java.util.HashSet; -import java.util.Iterator; import java.util.List; +import java.util.Set; import org.apache.commons.logging.Log; import org.apache.commons.logging.LogFactory; @@ -67,56 +66,59 @@ import fr.ifremer.isisfish.simulator.SimulationContext; import fr.ifremer.isisfish.types.Date; import fr.ifremer.isisfish.types.Month; -import java.util.Arrays; -import java.util.Set; /** * @author poussin - * + * */ public class SiMatrix { /** to use log facility, just put in your code: log.info("..."); */ static private Log log = LogFactory.getLog(SiMatrix.class); - + protected SimulationContext context = null; protected TopiaContext db = null; - + /** * Method used to get SiMatrix used for simulation - * @param context context simulation + * + * @param context + * context simulation * @return SiMatrix or null if no SiMatrix created for simulation */ - public static SiMatrix getSiMatrix(SimulationContext context) throws TopiaException { - SiMatrix result = (SiMatrix)context.getValue(SiMatrix.class.getName()); + public static SiMatrix getSiMatrix(SimulationContext context) + throws TopiaException { + SiMatrix result = (SiMatrix) context.getValue(SiMatrix.class.getName()); if (result == null) { result = new SiMatrix(context); } return result; } - + private static void setSiMatrix(SimulationContext context, SiMatrix siMatrix) { context.setValue(SiMatrix.class.getName(), siMatrix); } - + /** * - * @param context Simulation context - * @param db TopiaContext with transaction opened. You must used this - * TopiaContext and not used - * SimulationContext.getSimulationStorage().getStorage() - * @throws TopiaException + * @param context + * Simulation context + * @param db + * TopiaContext with transaction opened. You must used this + * TopiaContext and not used + * SimulationContext.getSimulationStorage().getStorage() + * @throws TopiaException */ public SiMatrix(SimulationContext context) throws TopiaException { this.context = context; this.db = context.getDB(); setSiMatrix(context, this); } - + /** * @return - * @throws TopiaException + * @throws TopiaException */ public List<Zone> getZones(Date date) throws TopiaException { ZoneDAO dao = IsisFishDAOHelper.getZoneDAO(db); @@ -126,12 +128,13 @@ /** * @return - * @throws TopiaException + * @throws TopiaException */ public List<Population> getPopulations(Date date) throws TopiaException { List<Population> populations = new ArrayList<Population>(); - for (Population pop : context.getSimulationStorage().getParameter().getPopulations()) { - Population tmp = (Population)db.findByTopiaId(pop.getTopiaId()); + for (Population pop : context.getSimulationStorage().getParameter() + .getPopulations()) { + Population tmp = (Population) db.findByTopiaId(pop.getTopiaId()); populations.add(tmp); } return populations; @@ -139,39 +142,40 @@ /** * @return - * @throws TopiaException + * @throws TopiaException */ public List<Strategy> getStrategies(Date date) throws TopiaException { -// if (strategies == null) { + // if (strategies == null) { List<Strategy> strategies = new ArrayList<Strategy>(); - for (Strategy str : context.getSimulationStorage().getParameter().getStrategies()) { - Strategy tmp = (Strategy)db.findByTopiaId(str.getTopiaId()); - strategies.add(tmp); - } -// } + for (Strategy str : context.getSimulationStorage().getParameter() + .getStrategies()) { + Strategy tmp = (Strategy) db.findByTopiaId(str.getTopiaId()); + strategies.add(tmp); + } + // } return strategies; } public List<Metier> getMetiers(Date date) throws TopiaException { -// if (metiers == null) { - List<Metier> metiers = new ArrayList<Metier>(); - HashSet<Metier> tmp = new HashSet<Metier>(); - for (Strategy str : getStrategies(date)) { - SetOfVessels sov = str.getSetOfVessels(); - for (EffortDescription effort : sov.getPossibleMetiers()) { - Metier metier = effort.getPossibleMetiers(); - if (tmp.add(metier)) { - metiers.add(metier); - } + // if (metiers == null) { + List<Metier> metiers = new ArrayList<Metier>(); + HashSet<Metier> tmp = new HashSet<Metier>(); + for (Strategy str : getStrategies(date)) { + SetOfVessels sov = str.getSetOfVessels(); + for (EffortDescription effort : sov.getPossibleMetiers()) { + Metier metier = effort.getPossibleMetiers(); + if (tmp.add(metier)) { + metiers.add(metier); } } -// } + } + // } return metiers; } /** - * Retourne les metiers pratiqu�s par une Strategie � une date donn�e - * Un metier est pratiqu� si le PropStrMet est diff�rent de 0 + * Retourne les metiers pratiques par une Strategie a une date donnee Un + * metier est pratique si le PropStrMet est different de 0 * * @param str * @param date @@ -180,13 +184,13 @@ public List<Metier> getMetiers(Strategy str, Date date) { StrategyMonthInfo info = str.getStrategyMonthInfo(date.getMonth()); MatrixND props = info.getProportionMetier(); - + List<Metier> result = new ArrayList<Metier>(); - - for (MatrixIterator i=props.iterator(); i.hasNext();) { + + for (MatrixIterator i = props.iterator(); i.hasNext();) { i.next(); if (i.getValue() != 0) { - Metier metier = (Metier)i.getSemanticsCoordinates()[0]; + Metier metier = (Metier) i.getSemanticsCoordinates()[0]; result.add(metier); } } @@ -194,26 +198,26 @@ } /** - * Retourne la matrix Metier x Zone qui correspond au zone utilis� par - * un m�tier pour une date donn�e. Si la valeur de la matrice est 1 alors - * la zone est utilis� par le m�tier, si elle vaut 0 alors elle n'est pas - * utilis�e. + * Retourne la matrix Metier x Zone qui correspond au zone utilise par un + * metier pour une date donnee. Si la valeur de la matrice est 1 alors la + * zone est utilise par le metier, si elle vaut 0 alors elle n'est pas + * utilisee. * * @param date * @return - * @throws TopiaException + * @throws TopiaException */ public MatrixND getMetierZone(Date date) throws TopiaException { List<Metier> metiers = getMetiers(date); List<Zone> zones = getZones(date); - + MatrixND result = MatrixFactory.getInstance().create( - ResultName.MATRIX_METIER_ZONE, - new List[]{metiers, zones}, - new String[]{n_("Metiers"), n_("Zones")}); + ResultName.MATRIX_METIER_ZONE, new List[] { metiers, zones }, + new String[] { n_("Metiers"), n_("Zones") }); for (Metier metier : metiers) { - Collection<Zone> zoneMetier = metier.getMetierSeasonInfo(date.getMonth()).getZone(); + Collection<Zone> zoneMetier = metier.getMetierSeasonInfo( + date.getMonth()).getZone(); for (Zone zone : zoneMetier) { result.setValue(metier, zone, 1); } @@ -224,25 +228,26 @@ public MatrixND matrixPrice(Date date, Population pop) { List<PopulationGroup> groups = pop.getPopulationGroup(); MatrixND result = MatrixFactory.getInstance().create( - ResultName.MATRIX_PRICE, - new List[]{groups}, - new String[]{n_("PopulationGroup")}); - + ResultName.MATRIX_PRICE, new List[] { groups }, + new String[] { n_("PopulationGroup") }); + for (PopulationGroup group : groups) { result.setValue(group, group.getPrice()); } - + return result; } - - /////////////////////////////////////////////////////////////////////////// + + /////////////////////////////////////////////////////////////////////////// // // Toutes les methodes suivantes ne sont utiles que pour // matrixCatchPerStrategyMet // /////////////////////////////////////////////////////////////////////////// - - public MatrixND matrixCatchWeightPerStrategyMetPerZoneMet(Date date, Population pop, MatrixND matrixCatchPerStrategyMetPerZoneMet) throws TopiaException, IsisFishException { + + public MatrixND matrixCatchWeightPerStrategyMetPerZoneMet(Date date, + Population pop, MatrixND matrixCatchPerStrategyMetPerZoneMet) + throws TopiaException, IsisFishException { List<PopulationGroup> groups = pop.getPopulationGroup(); MatrixND result = matrixCatchPerStrategyMetPerZoneMet.copy(); @@ -257,35 +262,43 @@ return result; } - public MatrixND matrixCatchPerStrategyMetPerZoneMet(MatrixND N, Population pop, Date date) throws TopiaException, IsisFishException { - - MatrixND matrixFishingMortalityPerCell = matrixFishingMortalityPerCell(date, pop); - MatrixND matrixCatchRatePerStrategyMetPerCell = matrixCatchRatePerStrategyMetPerCell(pop, date, matrixFishingMortalityPerCell); - MatrixND matrixCatchPerStrategyMetPerCell = matrixCatchPerStrategyMetPerCell(N, pop, date, matrixCatchRatePerStrategyMetPerCell); - + public MatrixND matrixCatchPerStrategyMetPerZoneMet(MatrixND N, + Population pop, Date date) throws TopiaException, IsisFishException { + + MatrixND matrixFishingMortalityPerCell = matrixFishingMortalityPerCell( + date, pop); + MatrixND matrixCatchRatePerStrategyMetPerCell = matrixCatchRatePerStrategyMetPerCell( + pop, date, matrixFishingMortalityPerCell); + MatrixND matrixCatchPerStrategyMetPerCell = matrixCatchPerStrategyMetPerCell( + N, pop, date, matrixCatchRatePerStrategyMetPerCell); + List<Strategy> strategies = getStrategies(date); List<Metier> metiers = getMetiers(date); - List<PopulationGroup> groups = matrixCatchPerStrategyMetPerCell.getSemantics(2); + List<PopulationGroup> groups = matrixCatchPerStrategyMetPerCell + .getSemantics(2); List<Zone> zones = getZones(date); - Set<Cell> cellPops = new HashSet(matrixCatchPerStrategyMetPerCell.getSemantics(4)); - + Set<Cell> cellPops = new HashSet(matrixCatchPerStrategyMetPerCell + .getSemantics(4)); + MatrixND result = MatrixFactory.getInstance().create( ResultName.MATRIX_CATCH_PER_STRATEGY_MET, - new List[]{strategies, metiers, groups, zones}, - new String[]{n_("Strategies"), n_("Metiers"), n_("Groups"), n_("Zones")}); - + new List[] { strategies, metiers, groups, zones }, + new String[] { n_("Strategies"), n_("Metiers"), n_("Groups"), + n_("Zones") }); + // matrice temporaire ou les zones pops sont sommees MatrixND tmp = matrixCatchPerStrategyMetPerCell.sumOverDim(3); tmp = tmp.reduceDims(3); - + for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); - for(int g = 0; g<groups.size(); g++) { + for (int g = 0; g < groups.size(); g++) { PopulationGroup group = groups.get(g); for (int m = 0; m < metiers.size(); m++) { Metier metier = metiers.get(m); - MetierSeasonInfo infoMet = metier.getMetierSeasonInfo(date.getMonth()); + MetierSeasonInfo infoMet = metier.getMetierSeasonInfo(date + .getMonth()); Collection<Zone> zoneMet = infoMet.getZone(); for (Zone z : zoneMet) { double value = 0; @@ -304,15 +317,19 @@ } } } - + return result; } - - public MatrixND matrixCatchPerStrategyMetPerZonePop(MatrixND N, Population pop, Date date) throws TopiaException, IsisFishException { - MatrixND matrixFishingMortalityPerCell = matrixFishingMortalityPerCell(date, pop); - MatrixND matrixCatchRatePerStrategyMetPerCell = matrixCatchRatePerStrategyMetPerCell(pop, date, matrixFishingMortalityPerCell); - MatrixND matrixCatchPerStrategyMetPerCell = matrixCatchPerStrategyMetPerCell(N, pop, date, matrixCatchRatePerStrategyMetPerCell); - + + public MatrixND matrixCatchPerStrategyMetPerZonePop(MatrixND N, + Population pop, Date date) throws TopiaException, IsisFishException { + MatrixND matrixFishingMortalityPerCell = matrixFishingMortalityPerCell( + date, pop); + MatrixND matrixCatchRatePerStrategyMetPerCell = matrixCatchRatePerStrategyMetPerCell( + pop, date, matrixFishingMortalityPerCell); + MatrixND matrixCatchPerStrategyMetPerCell = matrixCatchPerStrategyMetPerCell( + N, pop, date, matrixCatchRatePerStrategyMetPerCell); + // on somme sur les cellules MatrixND result = matrixCatchPerStrategyMetPerCell.sumOverDim(4); result = result.reduceDims(4); @@ -320,9 +337,10 @@ return result; } - + public MatrixND matrixCatchWeightPerStrategyMetPerZonePop(Date date, - Population pop, MatrixND matrixCatchPerStrategyMetPerZonePop) throws TopiaException, IsisFishException { + Population pop, MatrixND matrixCatchPerStrategyMetPerZonePop) + throws TopiaException, IsisFishException { List<PopulationGroup> groups = pop.getPopulationGroup(); MatrixND result = matrixCatchPerStrategyMetPerZonePop.copy(); @@ -337,33 +355,33 @@ return result; } - /** * Utilise pour le calcul en Zone - * - * Matrice des captures en nombre - * dim [ Strategy x Metier x Classe x zonePop ] - * - * @param N l'abondance sous forme de matrice 2D [class x zone] + * + * Matrice des captures en nombre dim [ Strategy x Metier x Classe x zonePop ] + * + * @param N + * l'abondance sous forme de matrice 2D [class x zone] * @param pop * @param date * @return * @throws TopiaException * @throws IsisFishException */ - public MatrixND matrixCatchPerStrategyMetPerZone(MatrixND N, Population pop, - Date date, MatrixND matrixCatchRatePerStrategyMet) throws TopiaException, IsisFishException { + public MatrixND matrixCatchPerStrategyMetPerZone(MatrixND N, + Population pop, Date date, MatrixND matrixCatchRatePerStrategyMet) + throws TopiaException, IsisFishException { List<PopulationGroup> groups = pop.getPopulationGroup(); List<Zone> zones = pop.getPopulationZone(); // on le passe en argument ce qui evite de le calculer 2 fois -// MatrixND matrixCatchRatePerStrategyMet = matrixCatchRatePerStrategyMet(pop, date); + // MatrixND matrixCatchRatePerStrategyMet = matrixCatchRatePerStrategyMet(pop, date); MatrixND result = matrixCatchRatePerStrategyMet.copy(); result.setName(ResultName.MATRIX_CATCH_PER_STRATEGY_MET); - for(PopulationGroup group : groups) { + for (PopulationGroup group : groups) { MatrixND sub = result.getSubMatrix(2, group, 1); - for(Zone zone : zones){ + for (Zone zone : zones) { MatrixND subsub = sub.getSubMatrix(3, zone, 1); double val = N.getValue(group, zone); subsub.mults(val); @@ -373,17 +391,18 @@ } /** - * Utilise pour le calcul en Zone - * Matrice des captures en poids - * dim [ Strategy x Metier x Classe x zonePop ] - * + * Utilise pour le calcul en Zone Matrice des captures en poids dim [ + * Strategy x Metier x Classe x zonePop ] + * * @param pop * @param date * @return * @throws TopiaException * @throws IsisFishException */ - public MatrixND matrixCatchRatePerStrategyMetPerZone(Population pop, Date date, MatrixND matrixFishingMortality) throws TopiaException, IsisFishException { + public MatrixND matrixCatchRatePerStrategyMetPerZone(Population pop, + Date date, MatrixND matrixFishingMortality) throws TopiaException, + IsisFishException { List<Strategy> strategies = getStrategies(date); List<Metier> metiers = getMetiers(date); List<PopulationGroup> groups = pop.getPopulationGroup(); @@ -391,52 +410,53 @@ MatrixND result = MatrixFactory.getInstance().create( ResultName.MATRIX_CATCH_RATE_PER_STRATEGY_MET, - new List[]{strategies, metiers, groups, zones}, - new String[]{n_("Strategies"), n_("Metiers"), n_("Groups"), n_("Zones")}); + new List[] { strategies, metiers, groups, zones }, + new String[] { n_("Strategies"), n_("Metiers"), n_("Groups"), + n_("Zones") }); - // Optimisation Hilaire - for (int s=0; s < strategies.size(); s++) { - Strategy str = strategies.get(s); - metiers = getMetiers(str, date); - for (int m=0; m < metiers.size(); m++) { - Metier metier = metiers.get(m); - for (int z=0; z < zones.size(); z++) { - Zone zone = zones.get(z); - double effort = effortPerZonePop(str,metier,date,zone); - if (effort > 0){ - for (int g=0; g < groups.size(); g++) { - PopulationGroup group = groups.get(g); - double value = catchRatePerStrategyMet(str, metier, date, group, zone, matrixFishingMortality); - result.setValue(str, metier, group, zone, value); - } + // Optimisation Hilaire + for (int s = 0; s < strategies.size(); s++) { + Strategy str = strategies.get(s); + metiers = getMetiers(str, date); + for (int m = 0; m < metiers.size(); m++) { + Metier metier = metiers.get(m); + for (int z = 0; z < zones.size(); z++) { + Zone zone = zones.get(z); + double effort = effortPerZonePop(str, metier, date, zone); + if (effort > 0) { + for (int g = 0; g < groups.size(); g++) { + PopulationGroup group = groups.get(g); + double value = catchRatePerStrategyMet(str, metier, + date, group, zone, matrixFishingMortality); + result.setValue(str, metier, group, zone, value); } } } } + } return result; } - /** + /** * @param str * @param metier * @param date * @param zone * @return */ - private double effortPerZonePop(Strategy str, Metier metier, Date date, Zone zonePop) { + private double effortPerZonePop(Strategy str, Metier metier, Date date, + Zone zonePop) { Month month = date.getMonth(); Collection<Zone> zoneMet = metier.getMetierSeasonInfo(month).getZone(); double inter = nbCellInter(zoneMet, zonePop); - double effortPerStrategyPerCell = effortPerStrategyPerCell(str, metier, date); + double effortPerStrategyPerCell = effortPerStrategyPerCell(str, metier, + date); - if(log.isDebugEnabled()) { - log.debug( - " strategy=" + str + - " metier=" + metier + - " inter=" + inter + - " effortPerStrategyPerCell=" + effortPerStrategyPerCell - ); + if (log.isDebugEnabled()) { + log.debug(" strategy=" + str + " metier=" + metier + " inter=" + + inter + " effortPerStrategyPerCell=" + + effortPerStrategyPerCell); } double result = effortPerStrategyPerCell * inter; @@ -444,29 +464,37 @@ } // Optimisation Hilaire - private double catchRatePerStrategyMet(Strategy str, Metier metier, Date date, PopulationGroup group, Zone zone, MatrixND matrixFishingMortality) throws TopiaException, IsisFishException { - double totalFishingMortality = totalFishingMortality(date, matrixFishingMortality).getValue(group, zone); + private double catchRatePerStrategyMet(Strategy str, Metier metier, + Date date, PopulationGroup group, Zone zone, + MatrixND matrixFishingMortality) throws TopiaException, + IsisFishException { + double totalFishingMortality = totalFishingMortality(date, + matrixFishingMortality).getValue(group, zone); - if(totalFishingMortality == 0){ - if(log.isDebugEnabled()) {log.debug("pas de totalFishingMortality pour (" + group + ", " + zone +")");} + if (totalFishingMortality == 0) { + if (log.isDebugEnabled()) { + log.debug("pas de totalFishingMortality pour (" + group + ", " + + zone + ")"); + } return 0; } - double fishingMortality = matrixFishingMortality.getValue(str, metier, group, zone); - double totalCatchRate = totalCatchRate(date, group, zone, totalFishingMortality); + double fishingMortality = matrixFishingMortality.getValue(str, metier, + group, zone); + double totalCatchRate = totalCatchRate(date, group, zone, + totalFishingMortality); - if(log.isDebugEnabled()) { - log.debug( - " totalFishingMortality=" + totalFishingMortality + - " fishingMortality=" + fishingMortality + - " totalCatchRate=" + totalCatchRate); + if (log.isDebugEnabled()) { + log.debug(" totalFishingMortality=" + totalFishingMortality + + " fishingMortality=" + fishingMortality + + " totalCatchRate=" + totalCatchRate); } - double result = fishingMortality / totalFishingMortality * totalCatchRate; + double result = fishingMortality / totalFishingMortality + * totalCatchRate; return result; } - /** * @param date * @param group @@ -475,35 +503,37 @@ * @return * @throws TopiaException */ - private double totalCatchRate(Date date, PopulationGroup group, - Zone zone, double totalFishingMortality) throws TopiaException { + private double totalCatchRate(Date date, PopulationGroup group, Zone zone, + double totalFishingMortality) throws TopiaException { double M = group.getNaturalDeathRate(zone) / Month.NUMBER_OF_MONTH; - if(M == 0){ + if (M == 0) { // normalement il devrait y avoir de la mortalite naturelle if (log.isWarnEnabled()) { - log.warn("Pas de mortalit� naturelle pour: " + group); + log.warn("Pas de mortalite naturelle pour: " + group); } } double F = totalFishingMortality; double result = 0; - if( M != 0 || F != 0){ - result = F/(F+M) * (1 - Math.exp(-(F+M))); + if (M != 0 || F != 0) { + result = F / (F + M) * (1 - Math.exp(-(F + M))); } return result; } /** - * Returne une matrice de mortalite group x zone, donc somme sur str et metier - * + * Returne une matrice de mortalite group x zone, donc somme sur str et + * metier + * * @param date * @param matrixFishingMortality * @param group * @param zone * @return */ - private MatrixND totalFishingMortality(Date date, MatrixND matrixFishingMortality) { + private MatrixND totalFishingMortality(Date date, + MatrixND matrixFishingMortality) { MatrixND result = matrixFishingMortality.sumOverDim(0); result = result.sumOverDim(1); result = result.reduceDims(0, 1); @@ -511,16 +541,16 @@ } /** - * Matrice fishing mortality - * dim [ Strategy x Metier x Classe x zonePop ] - * + * Matrice fishing mortality dim [ Strategy x Metier x Classe x zonePop ] + * * @param pop * @param date * @return * @throws TopiaException * @throws IsisFishException */ - public MatrixND matrixFishingMortality(Date date, Population pop) throws TopiaException, IsisFishException { + public MatrixND matrixFishingMortality(Date date, Population pop) + throws TopiaException, IsisFishException { List<Strategy> strategies = getStrategies(date); List<Metier> metiers = getMetiers(date); List<PopulationGroup> groups = pop.getPopulationGroup(); @@ -529,8 +559,9 @@ // default value in matrix is 0 MatrixND result = MatrixFactory.getInstance().create( ResultName.MATRIX_FISHING_MORTALITY, - new List[]{strategies, metiers, groups, zones}, - new String[]{n_("Strategies"), n_("Metiers"), n_("Groups"), n_("Zones")}); + new List[] { strategies, metiers, groups, zones }, + new String[] { n_("Strategies"), n_("Metiers"), n_("Groups"), + n_("Zones") }); Month month = date.getMonth(); PopulationSeasonInfo infoPop = pop.getPopulationSeasonInfo(month); @@ -545,28 +576,35 @@ for (int m = 0; m < metiers.size(); m++) { Metier metier = metiers.get(m); - MetierSeasonInfo infoMet = metier.getMetierSeasonInfo(month); + MetierSeasonInfo infoMet = metier + .getMetierSeasonInfo(month); // getTargetFactor seem to be simple double ciblage = infoMet.getTargetFactor(group); if (ciblage != 0) { // check 0, this prevent next call, for default value Gear gear = metier.getGear(); - Selectivity selectivity = gear.getPopulationSelectivity(pop); + Selectivity selectivity = gear + .getPopulationSelectivity(pop); if (selectivity != null) { // getCoefficient is equation evaluation - double coeff = selectivity.getCoefficient(pop, group, metier); + double coeff = selectivity.getCoefficient(pop, + group, metier); if (coeff != 0) { // check 0, this prevent next call, for default value for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); for (int z = 0; z < zones.size(); z++) { Zone zone = zones.get(z); - double effort = effortPerZonePop(str, metier, date, zone); + double effort = effortPerZonePop(str, + metier, date, zone); if (effort > 0) { // put value only if <> 0 - double value = coeff * capturability * ciblage * effort; - result.setValue(str, metier, group, zone, value); + double value = coeff + * capturability * ciblage + * effort; + result.setValue(str, metier, group, + zone, value); } } } @@ -580,31 +618,33 @@ } /** - * Matrice des captures en nombre - * dim [ Strategy x Metier x Classe x zonePop ] + * Matrice des captures en nombre dim [ Strategy x Metier x Classe x zonePop ] * - * @param N l'abondance sous forme de matrice 2D [class x zone] + * @param N + * l'abondance sous forme de matrice 2D [class x zone] * @param pop * @param date * @return - * @throws TopiaException - * @throws IsisFishException + * @throws TopiaException + * @throws IsisFishException */ - private MatrixND matrixCatchPerStrategyMetPerCell(MatrixND N, Population pop, - Date date, MatrixND matrixCatchRatePerStrategyMetPerCell) throws TopiaException, IsisFishException { + private MatrixND matrixCatchPerStrategyMetPerCell(MatrixND N, + Population pop, Date date, + MatrixND matrixCatchRatePerStrategyMetPerCell) + throws TopiaException, IsisFishException { List<PopulationGroup> groups = pop.getPopulationGroup(); List<Zone> zones = pop.getPopulationZone(); // on le passe en argument ce qui evite de le calculer 2 fois -// MatrixND matrixCatchRatePerStrategyMet = matrixCatchRatePerStrategyMet(pop, date); + // MatrixND matrixCatchRatePerStrategyMet = matrixCatchRatePerStrategyMet(pop, date); MatrixND result = matrixCatchRatePerStrategyMetPerCell.copy(); result.setName("matrixCatchPerStrategyMetPerCell"); - for(PopulationGroup group : groups) { + for (PopulationGroup group : groups) { MatrixND sub = result.getSubMatrix(2, group, 1); - for(Zone zone : zones){ + for (Zone zone : zones) { MatrixND subsub = sub.getSubMatrix(3, zone, 1); - double val = N.getValue(group, zone) / (double)zone.sizeCell(); + double val = N.getValue(group, zone) / (double) zone.sizeCell(); subsub.mults(val); } } @@ -612,16 +652,17 @@ } /** - * Matrice des captures en poids - * dim [ Strategy x Metier x Classe x zonePop ] + * Matrice des captures en poids dim [ Strategy x Metier x Classe x zonePop ] * * @param pop * @param date * @return - * @throws TopiaException - * @throws IsisFishException + * @throws TopiaException + * @throws IsisFishException */ - private MatrixND matrixCatchRatePerStrategyMetPerCell(Population pop, Date date, MatrixND matrixFishingMortalityPerCell) throws TopiaException, IsisFishException { + private MatrixND matrixCatchRatePerStrategyMetPerCell(Population pop, + Date date, MatrixND matrixFishingMortalityPerCell) + throws TopiaException, IsisFishException { List<Strategy> strategies = getStrategies(date); List<Metier> metiers = getMetiers(date); List<PopulationGroup> groups = pop.getPopulationGroup(); @@ -630,33 +671,36 @@ MatrixND result = MatrixFactory.getInstance().create( "matrixCatchRatePerStrategyMetPerCell", - new List[]{strategies, metiers, groups, zones, cells}, - new String[]{n_("Strategies"), n_("Metiers"), n_("Groups"), n_("Zones"), n_("Cells")}); - -// for (int s=0; s < strategies.size(); s++) { -// Strategy str = strategies.get(s); -// metiers = getMetiers(str, date); -// for (int m=0; m < metiers.size(); m++) { -// Metier metier = metiers.get(m); -// for (int g=0; g < groups.size(); g++) { -// PopulationGroup group = groups.get(g); -// for (int z=0; z < zones.size(); z++) { -// Zone zone = zones.get(z); -// double value = catchRatePerStrategyMet(str, metier, date, group, zone); -// result.setValue(str, metier, group, zone, value); -// } -// } -// } -// } - -// if(totalFishingMortality == 0){ -// if(log.isDebugEnabled()) {log.debug("pas de totalFishingMortality pour (" + pop + ")");} -// } else { - // Optimisation Hilaire - - MatrixND matrixFishingMortalityPerCellSumOverGroup = matrixFishingMortalityPerCell.sumOverDim(2); - matrixFishingMortalityPerCellSumOverGroup = matrixFishingMortalityPerCellSumOverGroup.reduceDims(2); - + new List[] { strategies, metiers, groups, zones, cells }, + new String[] { n_("Strategies"), n_("Metiers"), n_("Groups"), + n_("Zones"), n_("Cells") }); + + // for (int s=0; s < strategies.size(); s++) { + // Strategy str = strategies.get(s); + // metiers = getMetiers(str, date); + // for (int m=0; m < metiers.size(); m++) { + // Metier metier = metiers.get(m); + // for (int g=0; g < groups.size(); g++) { + // PopulationGroup group = groups.get(g); + // for (int z=0; z < zones.size(); z++) { + // Zone zone = zones.get(z); + // double value = catchRatePerStrategyMet(str, metier, date, group, zone); + // result.setValue(str, metier, group, zone, value); + // } + // } + // } + // } + + // if(totalFishingMortality == 0){ + // if(log.isDebugEnabled()) {log.debug("pas de totalFishingMortality pour (" + pop + ")");} + // } else { + // Optimisation Hilaire + + MatrixND matrixFishingMortalityPerCellSumOverGroup = matrixFishingMortalityPerCell + .sumOverDim(2); + matrixFishingMortalityPerCellSumOverGroup = matrixFishingMortalityPerCellSumOverGroup + .reduceDims(2); + for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); metiers = getMetiers(str, date); @@ -667,35 +711,35 @@ List<Cell> cellZones = zone.getCell(); for (int c = 0; c < cellZones.size(); c++) { Cell cell = cellZones.get(c); - double effort = matrixFishingMortalityPerCellSumOverGroup.getValue( - str, metier, zone, cell); + double effort = matrixFishingMortalityPerCellSumOverGroup + .getValue(str, metier, zone, cell); if (effort > 0) { for (int g = 0; g < groups.size(); g++) { PopulationGroup group = groups.get(g); double value = catchRatePerStrategyMetPerCell( str, metier, date, group, zone, cell, matrixFishingMortalityPerCell); - result.setValue(new Object[]{str, metier, group, - zone, cell}, value); + result.setValue(new Object[] { str, metier, + group, zone, cell }, value); } } } } } } -// } + // } -// for (Strategy str : strategies) { -// List<Metier> metierStr = getMetiers(str, date); -// for (Metier metier : metierStr) { -// for (PopulationGroup group : groups) { -// for (Zone zone : zones) { -// double val = catchRatePerStrategyMet(str, metier, date, group, zone); -// result.setValue(str, metier, group, zone, val); -// } -// } -// } -// } + // for (Strategy str : strategies) { + // List<Metier> metierStr = getMetiers(str, date); + // for (Metier metier : metierStr) { + // for (PopulationGroup group : groups) { + // for (Zone zone : zones) { + // double val = catchRatePerStrategyMet(str, metier, date, group, zone); + // result.setValue(str, metier, group, zone, val); + // } + // } + // } + // } return result; } @@ -706,91 +750,94 @@ * @param group * @param zone * @return - * @throws TopiaException - * @throws IsisFishException + * @throws TopiaException + * @throws IsisFishException */ -// private double catchRatePerStrategyMet(Strategy str, Metier metier, Date date, PopulationGroup group, Zone zone) throws TopiaException, IsisFishException { -// double totalFishingMortality = totalFishingMortality(date, group, zone); -// -// if(totalFishingMortality == 0){ -// if(log.isDebugEnabled()) {log.debug("pas de totalFishingMortality pour (" + group + ", " + zone +")");} -// return 0; -// } -// -// double fishingMortality = fishingMortality(str, metier, date, group, zone); -// double totalCatchRate = totalCatchRate(date, group, zone, totalFishingMortality); -// -// if(log.isDebugEnabled()) { -// log.debug( -// " totalFishingMortality=" + totalFishingMortality + -// " fishingMortality=" + fishingMortality + -// " totalCatchRate=" + totalCatchRate); -// } -// double result = fishingMortality / totalFishingMortality * totalCatchRate; -// -// return result; -// } - + // private double catchRatePerStrategyMet(Strategy str, Metier metier, Date date, PopulationGroup group, Zone zone) throws TopiaException, IsisFishException { + // double totalFishingMortality = totalFishingMortality(date, group, zone); + // + // if(totalFishingMortality == 0){ + // if(log.isDebugEnabled()) {log.debug("pas de totalFishingMortality pour (" + group + ", " + zone +")");} + // return 0; + // } + // + // double fishingMortality = fishingMortality(str, metier, date, group, zone); + // double totalCatchRate = totalCatchRate(date, group, zone, totalFishingMortality); + // + // if(log.isDebugEnabled()) { + // log.debug( + // " totalFishingMortality=" + totalFishingMortality + + // " fishingMortality=" + fishingMortality + + // " totalCatchRate=" + totalCatchRate); + // } + // double result = fishingMortality / totalFishingMortality * totalCatchRate; + // + // return result; + // } // Optimisation Hilaire private double catchRatePerStrategyMetPerCell(Strategy str, Metier metier, Date date, PopulationGroup group, Zone zone, Cell cell, - MatrixND matrixFishingMortalityPerCell) throws TopiaException, IsisFishException { + MatrixND matrixFishingMortalityPerCell) throws TopiaException, + IsisFishException { double totalFishingMortality = totalFishingMortalityPerCell(date, matrixFishingMortalityPerCell).getValue(group, zone); - if(totalFishingMortality == 0){ - if(log.isDebugEnabled()) {log.debug("pas de totalFishingMortality pour (" + group + ", " + zone +")");} + if (totalFishingMortality == 0) { + if (log.isDebugEnabled()) { + log.debug("pas de totalFishingMortality pour (" + group + ", " + + zone + ")"); + } return 0; } - double fishingMortalityPerCell = matrixFishingMortalityPerCell.getValue( - new Object[]{str, metier, group, zone, cell}); - double totalCatchRatePerCell = - totalCatchRatePerCell(date, group, zone, totalFishingMortality); + double fishingMortalityPerCell = matrixFishingMortalityPerCell + .getValue(new Object[] { str, metier, group, zone, cell }); + double totalCatchRatePerCell = totalCatchRatePerCell(date, group, zone, + totalFishingMortality); - if(log.isDebugEnabled()) { - log.debug( - " totalFishingMortality=" + totalFishingMortality + - " fishingMortality=" + fishingMortalityPerCell + - " totalCatchRate=" + totalCatchRatePerCell); + if (log.isDebugEnabled()) { + log.debug(" totalFishingMortality=" + totalFishingMortality + + " fishingMortality=" + fishingMortalityPerCell + + " totalCatchRate=" + totalCatchRatePerCell); } - double result = - fishingMortalityPerCell / totalFishingMortality * totalCatchRatePerCell; + double result = fishingMortalityPerCell / totalFishingMortality + * totalCatchRatePerCell; return result; } - /** * @param date * @param group * @param zone * @param totalFishingMortality * @return - * @throws TopiaException + * @throws TopiaException */ private double totalCatchRatePerCell(Date date, PopulationGroup group, - Zone zone, double totalFishingMortalityPerCell) throws TopiaException { + Zone zone, double totalFishingMortalityPerCell) + throws TopiaException { double M = group.getNaturalDeathRate(zone) / Month.NUMBER_OF_MONTH; - if(M == 0){ + if (M == 0) { // normalement il devrait y avoir de la mortalite naturelle if (log.isWarnEnabled()) { - log.warn("Pas de mortalit� naturelle pour: " + group); + log.warn("Pas de mortalite naturelle pour: " + group); } } double F = totalFishingMortalityPerCell; double result = 0; - if( M != 0 || F != 0){ - result = F/(F+M) * (1 - Math.exp(-(F+M))); + if (M != 0 || F != 0) { + result = F / (F + M) * (1 - Math.exp(-(F + M))); } return result; } /** - * Returne une matrice de mortalite group x zone, donc somme sur str et metier + * Returne une matrice de mortalite group x zone, donc somme sur str et + * metier * * @param date * @param matrixFishingMortality @@ -798,26 +845,27 @@ * @param zone * @return */ - private MatrixND totalFishingMortalityPerCell(Date date, MatrixND matrixFishingMortalityPerCell) { + private MatrixND totalFishingMortalityPerCell(Date date, + MatrixND matrixFishingMortalityPerCell) { MatrixND result = matrixFishingMortalityPerCell.sumOverDim(0); result = result.sumOverDim(1); result = result.reduceDims(0, 1); return result; } - // Nouvelle implantation suite a demande Steph et Sigrid: 20080208 (NouvellesEquationsfev2008ParCelluleAvecAlgo.odt) /** - * Matrice fishing mortality - * dim [ Strategy x Metier x Classe x zonePop x cellPop] + * Matrice fishing mortality dim [ Strategy x Metier x Classe x zonePop x + * cellPop] * * @param pop * @param date * @return - * @throws TopiaException - * @throws IsisFishException + * @throws TopiaException + * @throws IsisFishException */ - public MatrixND matrixFishingMortalityPerCell(Date date, Population pop) throws TopiaException, IsisFishException { + public MatrixND matrixFishingMortalityPerCell(Date date, Population pop) + throws TopiaException, IsisFishException { List<Strategy> strategies = getStrategies(date); List<Metier> metiers = getMetiers(date); List<PopulationGroup> groups = pop.getPopulationGroup(); @@ -827,8 +875,9 @@ // default value in matrix is 0 MatrixND result = MatrixFactory.getInstance().create( "matrixFishingMortalityPerCell", - new List[]{strategies, metiers, groups, zones, cells}, - new String[]{n_("Strategies"), n_("Metiers"), n_("Groups"), n_("Zones"), n_("Cells")}); + new List[] { strategies, metiers, groups, zones, cells }, + new String[] { n_("Strategies"), n_("Metiers"), n_("Groups"), + n_("Zones"), n_("Cells") }); Month month = date.getMonth(); PopulationSeasonInfo infoPop = pop.getPopulationSeasonInfo(month); @@ -843,32 +892,46 @@ for (int m = 0; m < metiers.size(); m++) { Metier metier = metiers.get(m); - MetierSeasonInfo infoMet = metier.getMetierSeasonInfo(month); + MetierSeasonInfo infoMet = metier + .getMetierSeasonInfo(month); // getTargetFactor seem to be simple double ciblage = infoMet.getTargetFactor(group); if (ciblage != 0) { // check 0, this prevent next call, for default value Gear gear = metier.getGear(); - Selectivity selectivity = gear.getPopulationSelectivity(pop); + Selectivity selectivity = gear + .getPopulationSelectivity(pop); if (selectivity != null) { // getCoefficient is equation evaluation - double coeff = selectivity.getCoefficient(pop, group, metier); + double coeff = selectivity.getCoefficient(pop, + group, metier); if (coeff != 0) { // check 0, this prevent next call, for default value for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); // l'effort d'une cellule du metier - double effort = effortPerStrategyPerCell(str, metier, date); + double effort = effortPerStrategyPerCell( + str, metier, date); if (effort > 0) { // put value only if <> 0 for (int z = 0; z < zones.size(); z++) { Zone zone = zones.get(z); - Set<Cell> cellPops = new HashSet<Cell>(zone.getCell()); - for (Cell cellMet : infoMet.getCells()) { + Set<Cell> cellPops = new HashSet<Cell>( + zone.getCell()); + for (Cell cellMet : infoMet + .getCells()) { if (cellPops.contains(cellMet)) { - double value = coeff * capturability * ciblage * effort; - result.setValue(new Object[]{str, metier, group, zone, cellMet}, value); + double value = coeff + * capturability + * ciblage * effort; + result.setValue( + new Object[] { str, + metier, + group, + zone, + cellMet }, + value); } } } @@ -884,244 +947,243 @@ } // Supprimee suite a demande Steph et Sigrid: 20080208 (NouvellesEquationsfev2008ParCelluleAvecAlgo.odt) -// /** -// * Matrice fishing mortality -// * dim [ Strategy x Metier x Classe x zonePop ] -// * -// * @param pop -// * @param date -// * @return -// * @throws TopiaException -// * @throws IsisFishException -// */ -// public MatrixND matrixFishingMortalityPerCell(Date date, Population pop) throws TopiaException, IsisFishException { -// List<Strategy> strategies = getStrategies(date); -// List<Metier> metiers = getMetiers(date); -// List<PopulationGroup> groups = pop.getPopulationGroup(); -// List<Zone> zones = pop.getPopulationZone(); -// -// // default value in matrix is 0 -// MatrixND result = MatrixFactory.getInstance().create( -// ResultName.MATRIX_FISHING_MORTALITY, -// new List[]{strategies, metiers, groups, zones}, -// new String[]{n_("Strategies"), n_("Metiers"), n_("Groups"), n_("Zones")}); -// -// Month month = date.getMonth(); -// PopulationSeasonInfo infoPop = pop.getPopulationSeasonInfo(month); -// -// for (int g=0; g < groups.size(); g++) { -// PopulationGroup group = groups.get(g); -// -// // getCapturability is check matrix validity and create matrix if needed and get one value in -// double capturability = infoPop.getCapturability(group); -// if (capturability != 0) { // check 0, this prevent next call, for default value -// -// for (int m=0; m < metiers.size(); m++) { -// Metier metier = metiers.get(m); -// -// MetierSeasonInfo infoMet = metier.getMetierSeasonInfo(month); -// // getTargetFactor seem to be simple -// double ciblage = infoMet.getTargetFactor(group); -// -// if (ciblage != 0) { // check 0, this prevent next call, for default value -// -// Gear gear = metier.getGear(); -// Selectivity selectivity = gear.getPopulationSelectivity(pop); -// if (selectivity != null) { -// -// // getCoefficient is equation evaluation -// double coeff = selectivity.getCoefficient(pop, group, metier); -// if (coeff != 0) { // check 0, this prevent next call, for default value -// -// for (int s=0; s < strategies.size(); s++) { -// Strategy str = strategies.get(s); -// for (int z=0; z < zones.size(); z++) { -// Zone zone = zones.get(z); -// double effort = effortPerZonePop(str,metier,date,zone); -// if (effort > 0){ // put value only if <> 0 -// double value = coeff * capturability * ciblage * effort; -// result.setValue(str, metier, group, zone, value); -// } -// } -// } -// } -// } -// } -// } -// } -// } -// return result; -// } + // /** + // * Matrice fishing mortality + // * dim [ Strategy x Metier x Classe x zonePop ] + // * + // * @param pop + // * @param date + // * @return + // * @throws TopiaException + // * @throws IsisFishException + // */ + // public MatrixND matrixFishingMortalityPerCell(Date date, Population pop) throws TopiaException, IsisFishException { + // List<Strategy> strategies = getStrategies(date); + // List<Metier> metiers = getMetiers(date); + // List<PopulationGroup> groups = pop.getPopulationGroup(); + // List<Zone> zones = pop.getPopulationZone(); + // + // // default value in matrix is 0 + // MatrixND result = MatrixFactory.getInstance().create( + // ResultName.MATRIX_FISHING_MORTALITY, + // new List[]{strategies, metiers, groups, zones}, + // new String[]{n_("Strategies"), n_("Metiers"), n_("Groups"), n_("Zones")}); + // + // Month month = date.getMonth(); + // PopulationSeasonInfo infoPop = pop.getPopulationSeasonInfo(month); + // + // for (int g=0; g < groups.size(); g++) { + // PopulationGroup group = groups.get(g); + // + // // getCapturability is check matrix validity and create matrix if needed and get one value in + // double capturability = infoPop.getCapturability(group); + // if (capturability != 0) { // check 0, this prevent next call, for default value + // + // for (int m=0; m < metiers.size(); m++) { + // Metier metier = metiers.get(m); + // + // MetierSeasonInfo infoMet = metier.getMetierSeasonInfo(month); + // // getTargetFactor seem to be simple + // double ciblage = infoMet.getTargetFactor(group); + // + // if (ciblage != 0) { // check 0, this prevent next call, for default value + // + // Gear gear = metier.getGear(); + // Selectivity selectivity = gear.getPopulationSelectivity(pop); + // if (selectivity != null) { + // + // // getCoefficient is equation evaluation + // double coeff = selectivity.getCoefficient(pop, group, metier); + // if (coeff != 0) { // check 0, this prevent next call, for default value + // + // for (int s=0; s < strategies.size(); s++) { + // Strategy str = strategies.get(s); + // for (int z=0; z < zones.size(); z++) { + // Zone zone = zones.get(z); + // double effort = effortPerZonePop(str,metier,date,zone); + // if (effort > 0){ // put value only if <> 0 + // double value = coeff * capturability * ciblage * effort; + // result.setValue(str, metier, group, zone, value); + // } + // } + // } + // } + // } + // } + // } + // } + // } + // return result; + // } - // ne prendre que les metiers pratiqu� semble une bonne idee, mais en fait non, car cela oblige l'ordre des boucles - // et donc ne permet pas autant d'optimisation que souhait� -// public MatrixND matrixFishingMortality2(Date date, Population pop) throws TopiaException, IsisFishException { -// List<Strategy> strategies = getStrategies(date); -// List<Metier> metiers = getMetiers(date); -// List<PopulationGroup> groups = pop.getPopulationGroup(); -// List<Zone> zones = pop.getPopulationZone(); + // ne prendre que les metiers pratiques semble une bonne idee, mais en fait non, car cela oblige l'ordre des boucles + // et donc ne permet pas autant d'optimisation que souhaite + // public MatrixND matrixFishingMortality2(Date date, Population pop) throws TopiaException, IsisFishException { + // List<Strategy> strategies = getStrategies(date); + // List<Metier> metiers = getMetiers(date); + // List<PopulationGroup> groups = pop.getPopulationGroup(); + // List<Zone> zones = pop.getPopulationZone(); -// // default value in matrix is 0 -// MatrixND result = MatrixFactory.getInstance().create( -// ResultName.MATRIX_FISHING_MORTALITY, -// new List[]{strategies, metiers, groups, zones}, -// new String[]{n_("Strategies"), n_("Metiers"), n_("Groups"), n_("Zones")}); + // // default value in matrix is 0 + // MatrixND result = MatrixFactory.getInstance().create( + // ResultName.MATRIX_FISHING_MORTALITY, + // new List[]{strategies, metiers, groups, zones}, + // new String[]{n_("Strategies"), n_("Metiers"), n_("Groups"), n_("Zones")}); -// Month month = date.getMonth(); -// PopulationSeasonInfo infoPop = pop.getPopulationSeasonInfo(month); + // Month month = date.getMonth(); + // PopulationSeasonInfo infoPop = pop.getPopulationSeasonInfo(month); -// for (int s=0; s < strategies.size(); s++) { -// Strategy str = strategies.get(s); -// metiers = getMetiers(str, date); -// for (int m=0; m < metiers.size(); m++) { -// Metier metier = metiers.get(m); -// Gear gear = metier.getGear(); -// Selectivity selectivity = gear.getPopulationSelectivity(pop); -// if (selectivity != null) { -// MetierSeasonInfo infoMet = metier.getMetierSeasonInfo(month); -// for (int z=0; z < zones.size(); z++) { -// Zone zone = zones.get(z); -// double effort = effortPerZonePop(str,metier,date,zone); -// if (effort > 0){ // put value only if <> 0 -// for (int g=0; g < groups.size(); g++) { -// PopulationGroup group = groups.get(g); - -// // getTargetFactor seem to be simple -// double ciblage = infoMet.getTargetFactor(group); -// if (ciblage != 0) { // check 0, this prevent next call, for default value -// // getCapturability is check matrix validity and create matrix if needed and get one value in -// double capturability = infoPop.getCapturability(group); -// if (capturability != 0) { // check 0, this prevent next call, for default value -// // getCoefficient is equation evaluation -// double coeff = selectivity.getCoefficient(pop, group, metier); -// if (coeff != 0) { // check 0, this prevent next call, for default value -// double value = coeff * capturability * ciblage * effort; -// result.setValue(str, metier, group, zone, value); -// } -// } -// } -// } -// } -// } -// } -// } -// } -// return result; -// } + // for (int s=0; s < strategies.size(); s++) { + // Strategy str = strategies.get(s); + // metiers = getMetiers(str, date); + // for (int m=0; m < metiers.size(); m++) { + // Metier metier = metiers.get(m); + // Gear gear = metier.getGear(); + // Selectivity selectivity = gear.getPopulationSelectivity(pop); + // if (selectivity != null) { + // MetierSeasonInfo infoMet = metier.getMetierSeasonInfo(month); + // for (int z=0; z < zones.size(); z++) { + // Zone zone = zones.get(z); + // double effort = effortPerZonePop(str,metier,date,zone); + // if (effort > 0){ // put value only if <> 0 + // for (int g=0; g < groups.size(); g++) { + // PopulationGroup group = groups.get(g); -// /** -// * @param date -// * @param group -// * @param zone -// * @return -// * @throws TopiaException -// * @throws IsisFishException -// */ -// private double totalFishingMortality(Date date, PopulationGroup group, Zone zone) throws TopiaException, IsisFishException { -// List<Strategy> strategies = getStrategies(date); -// -// float result = 0; -// -//// for(Strategy str : strategies){ -//// List<Metier> metierStr = getMetiers(str, date); -//// for (Metier metier : metierStr) { -//// // TODO peut etre ne pas le faire si classe.pop n'est pas -//// /// peche par le metier -//// result += fishingMortality(str, metier, date, group, zone); -//// } -//// } -// -// // Optimisation Hilaire -// for(Strategy str : strategies){ -// List<Metier> metierStr = getMetiers(str, date); -// for (Metier metier : metierStr) { -// double effort=effortPerZonePop(str,metier,date,zone); -// if (effort>0) -// result += fishingMortality(str, metier, date, group, zone, effort); -// } -// } -// -// return result; -// } + // // getTargetFactor seem to be simple + // double ciblage = infoMet.getTargetFactor(group); + // if (ciblage != 0) { // check 0, this prevent next call, for default value + // // getCapturability is check matrix validity and create matrix if needed and get one value in + // double capturability = infoPop.getCapturability(group); + // if (capturability != 0) { // check 0, this prevent next call, for default value + // // getCoefficient is equation evaluation + // double coeff = selectivity.getCoefficient(pop, group, metier); + // if (coeff != 0) { // check 0, this prevent next call, for default value + // double value = coeff * capturability * ciblage * effort; + // result.setValue(str, metier, group, zone, value); + // } + // } + // } + // } + // } + // } + // } + // } + // } + // return result; + // } + // /** + // * @param date + // * @param group + // * @param zone + // * @return + // * @throws TopiaException + // * @throws IsisFishException + // */ + // private double totalFishingMortality(Date date, PopulationGroup group, Zone zone) throws TopiaException, IsisFishException { + // List<Strategy> strategies = getStrategies(date); + // + // float result = 0; + // + //// for(Strategy str : strategies){ + //// List<Metier> metierStr = getMetiers(str, date); + //// for (Metier metier : metierStr) { + //// // TODO peut etre ne pas le faire si classe.pop n'est pas + //// /// peche par le metier + //// result += fishingMortality(str, metier, date, group, zone); + //// } + //// } + // + // // Optimisation Hilaire + // for(Strategy str : strategies){ + // List<Metier> metierStr = getMetiers(str, date); + // for (Metier metier : metierStr) { + // double effort=effortPerZonePop(str,metier,date,zone); + // if (effort>0) + // result += fishingMortality(str, metier, date, group, zone, effort); + // } + // } + // + // return result; + // } // fusion fishingMortality and matrixFishingMortality for performance reason -// /** -// * @param str -// * @param metier -// * @param date -// * @param group -// * @param zone -// * @return -// * @throws IsisFishException -// */ -// private double fishingMortality(Strategy str, Metier metier, Date date, PopulationGroup group, Zone zone, double effort) throws IsisFishException { -// Month month = date.getMonth(); -// Population pop = group.getPopulation(); -// Gear gear = metier.getGear(); -// -// Selectivity selectivity = gear.getPopulationSelectivity(pop); -// -// double result = 0; -// -// if (selectivity != null) { -// MetierSeasonInfo infoMet = metier.getMetierSeasonInfo(month); -// double ciblage = infoMet.getTargetFactor(group); -// -// PopulationSeasonInfo infoPop = pop.getPopulationSeasonInfo(month); -// double capturability = infoPop.getCapturability(group); -// -// double coeff = selectivity.getCoefficient(pop, group, metier); -// -// // Optimisation Hilaire -//// double effort = effortPerZonePop(str, metier, date, zone); -// -// // la methode est appeler des millions de fois, donc meme si -// // on ne perd pas beaucoup de temps avec le if, on en perd deja -// // trop -//// if(log.isDebugEnabled()) { -//// log.debug( -//// " strategy=" + str + -//// " metier=" + metier + -//// " ciblage=" + ciblage + -//// " capturabilite=" + capturability + -//// " selectivity=" + coeff + -//// " effort=" + effort); -//// } -// -// result = coeff * capturability * ciblage * effort; -// } -// -// return result; -// } + // /** + // * @param str + // * @param metier + // * @param date + // * @param group + // * @param zone + // * @return + // * @throws IsisFishException + // */ + // private double fishingMortality(Strategy str, Metier metier, Date date, PopulationGroup group, Zone zone, double effort) throws IsisFishException { + // Month month = date.getMonth(); + // Population pop = group.getPopulation(); + // Gear gear = metier.getGear(); + // + // Selectivity selectivity = gear.getPopulationSelectivity(pop); + // + // double result = 0; + // + // if (selectivity != null) { + // MetierSeasonInfo infoMet = metier.getMetierSeasonInfo(month); + // double ciblage = infoMet.getTargetFactor(group); + // + // PopulationSeasonInfo infoPop = pop.getPopulationSeasonInfo(month); + // double capturability = infoPop.getCapturability(group); + // + // double coeff = selectivity.getCoefficient(pop, group, metier); + // + // // Optimisation Hilaire + //// double effort = effortPerZonePop(str, metier, date, zone); + // + // // la methode est appeler des millions de fois, donc meme si + // // on ne perd pas beaucoup de temps avec le if, on en perd deja + // // trop + //// if(log.isDebugEnabled()) { + //// log.debug( + //// " strategy=" + str + + //// " metier=" + metier + + //// " ciblage=" + ciblage + + //// " capturabilite=" + capturability + + //// " selectivity=" + coeff + + //// " effort=" + effort); + //// } + // + // result = coeff * capturability * ciblage * effort; + // } + // + // return result; + // } // Supprimee suite a demande Steph et Sigrid: 20080208 (NouvellesEquationsfev2008ParCelluleAvecAlgo.odt) -// /** -// * @param str -// * @param metier -// * @param date -// * @param zone -// * @return -// */ -// private double effortPerZonePop(Strategy str, Metier metier, Date date, Zone zonePop) { -// Month month = date.getMonth(); -// Collection<Zone> zoneMet = metier.getMetierSeasonInfo(month).getZone(); -// double inter = nbCellInter(zoneMet, zonePop); -// -// double effortPerStrategyPerCell = effortPerStrategyPerCell(str, metier, date); -// -// if(log.isDebugEnabled()) { -// log.debug( -// " strategy=" + str + -// " metier=" + metier + -// " inter=" + inter + -// " effortPerStrategyPerCell=" + effortPerStrategyPerCell -// ); -// } -// -// double result = effortPerStrategyPerCell * inter; -// return result; -// } + // /** + // * @param str + // * @param metier + // * @param date + // * @param zone + // * @return + // */ + // private double effortPerZonePop(Strategy str, Metier metier, Date date, Zone zonePop) { + // Month month = date.getMonth(); + // Collection<Zone> zoneMet = metier.getMetierSeasonInfo(month).getZone(); + // double inter = nbCellInter(zoneMet, zonePop); + // + // double effortPerStrategyPerCell = effortPerStrategyPerCell(str, metier, date); + // + // if(log.isDebugEnabled()) { + // log.debug( + // " strategy=" + str + + // " metier=" + metier + + // " inter=" + inter + + // " effortPerStrategyPerCell=" + effortPerStrategyPerCell + // ); + // } + // + // double result = effortPerStrategyPerCell * inter; + // return result; + // } /** * @param str @@ -1129,32 +1191,31 @@ * @param date * @return */ - private double effortPerStrategyPerCell(Strategy str, Metier metier, Date date) { + private double effortPerStrategyPerCell(Strategy str, Metier metier, + Date date) { Month month = date.getMonth(); StrategyMonthInfo smi = str.getStrategyMonthInfo(month); Collection<Zone> zones = metier.getMetierSeasonInfo(month).getZone(); double nbCell = getCells(zones).size(); - if(nbCell == 0){ + if (nbCell == 0) { // normalement il devrait y avoir des mailles, mais pour les // ancienne zone AuPort, il n'y en avait pas - if(log.isWarnEnabled()) log.warn("Calcul d'une distance pour le metier "+metier+" pour le mois "+month+" avec une zone sans maille: " + zones); + if (log.isWarnEnabled()) + log.warn("Calcul d'une distance pour le metier " + metier + + " pour le mois " + month + + " avec une zone sans maille: " + zones); return 0; } + double effortPerStrategy = effortPerStrategyMet(str, metier, date); - double effortPerStrategy = effortPerStrategyMet(str, metier, date); - - if(log.isDebugEnabled()) { - log.debug( - " strategy=" + str + - " metier=" + metier + - " nbCell=" + nbCell + - " effortPerStrategy=" + effortPerStrategy - ); + if (log.isDebugEnabled()) { + log.debug(" strategy=" + str + " metier=" + metier + " nbCell=" + + nbCell + " effortPerStrategy=" + effortPerStrategy); } - double result = effortPerStrategy/nbCell; + double result = effortPerStrategy / nbCell; return result; } @@ -1174,18 +1235,15 @@ double propStrMet = smi.getProportionMetier(metier); double effortPerVessel = effortPerStrategyPerVessel(str, metier, date); - if(log.isDebugEnabled()) { - log.debug( - " strategy=" + str + - " metier=" + metier + - " propSetOfVessels=" + propSetOfVessels + - " nbOfVessels=" + nbOfVessels + - " propStrMet=" + propStrMet + - " effortPerVessel=" + effortPerVessel - ); + if (log.isDebugEnabled()) { + log.debug(" strategy=" + str + " metier=" + metier + + " propSetOfVessels=" + propSetOfVessels + " nbOfVessels=" + + nbOfVessels + " propStrMet=" + propStrMet + + " effortPerVessel=" + effortPerVessel); } - double result = propSetOfVessels * nbOfVessels * propStrMet * effortPerVessel; + double result = propSetOfVessels * nbOfVessels * propStrMet + * effortPerVessel; return result; } @@ -1196,23 +1254,21 @@ * @param date * @return */ - private double effortPerStrategyPerVessel(Strategy str, Metier metier, Date date) { + private double effortPerStrategyPerVessel(Strategy str, Metier metier, + Date date) { Month month = date.getMonth(); StrategyMonthInfo smi = str.getStrategyMonthInfo(month); double nbTrips = smi.getNumberOfTrips(); double fishingTime = fishingTimePerTrip(str, metier, date); - double stdEffortPerHour = stdEffortPerHour(date, str.getSetOfVessels(), metier); + double stdEffortPerHour = stdEffortPerHour(date, str.getSetOfVessels(), + metier); - if(log.isDebugEnabled()) { - log.debug( - " strategy=" + str + - " metier=" + metier + - " nbTrips=" + nbTrips + - " fishingTime=" + fishingTime + - " stdEffortPerHour=" + stdEffortPerHour - ); + if (log.isDebugEnabled()) { + log.debug(" strategy=" + str + " metier=" + metier + " nbTrips=" + + nbTrips + " fishingTime=" + fishingTime + + " stdEffortPerHour=" + stdEffortPerHour); } - + double result = nbTrips * fishingTime * stdEffortPerHour; return result; @@ -1232,38 +1288,36 @@ Collection<Zone> zone = metier.getMetierSeasonInfo(month).getZone(); if (zone == null) { - if(log.isWarnEnabled()) log.warn( - "missing zone for metier =" + metier + - " for month" + month - ); + if (log.isWarnEnabled()) + log.warn("missing zone for metier =" + metier + " for month" + + month); } - double tripDuration = smi.getTripType().getTripDuration().getHour(); + double tripDuration = smi.getTripType().getTripDuration().getHour(); double travelTime = travelTimePerTrip(str.getSetOfVessels(), zone); double result = tripDuration - travelTime; - if (result < 0 ) { - if(log.isWarnEnabled()) log.warn( - " strategy=" + str + - " metier=" + metier + - " tripDuration=" + tripDuration + - " travelTime=" + travelTime - ); + if (result < 0) { + if (log.isWarnEnabled()) + log.warn(" strategy=" + str + " metier=" + metier + + " tripDuration=" + tripDuration + " travelTime=" + + travelTime); } return result; } /** - * + * * @param setOfVessels * @param zone * @return */ - protected double travelTimePerTrip(SetOfVessels sov, Collection<Zone> zoneMetier) { + protected double travelTimePerTrip(SetOfVessels sov, + Collection<Zone> zoneMetier) { Cell maille = sov.getPort().getCell(); - double result = - 2 * distance(zoneMetier, maille) / sov.getVesselType().getSpeed(); + double result = 2 * distance(zoneMetier, maille) + / sov.getVesselType().getSpeed(); return result; } @@ -1277,24 +1331,24 @@ double result = 0; List<Cell> cells = getCells(zones); - if(cells.size() == 0){ + if (cells.size() == 0) { // normalement il devrait y avoir des mailles, mais pour les // ancienne zone AuPort, il n'y en avait pas - if(log.isWarnEnabled()) { + if (log.isWarnEnabled()) { log.warn("Calcul d'une distance avec une zone sans maille"); } return 0; } - for(Cell c : cells){ + for (Cell c : cells) { result += distance(c, cell); } - if(log.isDebugEnabled()) { - log.debug(" result=" + result + " nbMaille="+cells.size()); + if (log.isDebugEnabled()) { + log.debug(" result=" + result + " nbMaille=" + cells.size()); } - - result = result / (double)cells.size(); + + result = result / (double) cells.size(); return result; } @@ -1305,61 +1359,54 @@ */ private double distance(Cell m1, Cell m2) { double earthRadius = 6378.388; - double p = 180/Math.PI; + double p = 180 / Math.PI; - if(log.isDebugEnabled()) log.debug("p: " + p); + if (log.isDebugEnabled()) + log.debug("p: " + p); double m1lat = m1.getLatitude(); double m2lat = m2.getLatitude(); double m1lon = m1.getLongitude(); double m2lon = m2.getLongitude(); - if(log.isDebugEnabled()) log.debug( - " m1lat=" + m1lat + - " m2lat=" + m2lat + - " m1lon=" + m1lon + - " m2lonx=" + m2lon - ); + if (log.isDebugEnabled()) + log.debug(" m1lat=" + m1lat + " m2lat=" + m2lat + " m1lon=" + m1lon + + " m2lonx=" + m2lon); - double m1lat_div_p = m1lat/p; - double m2lat_div_p = m2lat/p; - double m1lon_div_p = m1lon/p; - double m2lon_div_p = m2lon/p; + double m1lat_div_p = m1lat / p; + double m2lat_div_p = m2lat / p; + double m1lon_div_p = m1lon / p; + double m2lon_div_p = m2lon / p; - if(log.isDebugEnabled()) log.debug( - " m1lat_div_p=" + m1lat_div_p + - " m2lat_div_p=" + m2lat_div_p + - " m1lon_div_p=" + m1lon_div_p + - " m2lon_div_p=" + m2lon_div_p - ); + if (log.isDebugEnabled()) + log.debug(" m1lat_div_p=" + m1lat_div_p + " m2lat_div_p=" + + m2lat_div_p + " m1lon_div_p=" + m1lon_div_p + + " m2lon_div_p=" + m2lon_div_p); double sin_m1lat_div_p = Math.sin(m1lat_div_p); double sin_m2lat_div_p = Math.sin(m2lat_div_p); double cos_m1lat_div_p = Math.cos(m1lat_div_p); double cos_m2lat_div_p = Math.cos(m2lat_div_p); - if(log.isDebugEnabled()) log.debug( - " sin_m1lat_div_p=" + sin_m1lat_div_p + - " sin_m2lat_div_p=" + sin_m2lat_div_p + - " cos_m1lat_div_p=" + cos_m1lat_div_p + - " cos_m2lat_div_p=" + cos_m2lat_div_p - ); + if (log.isDebugEnabled()) + log.debug(" sin_m1lat_div_p=" + sin_m1lat_div_p + + " sin_m2lat_div_p=" + sin_m2lat_div_p + + " cos_m1lat_div_p=" + cos_m1lat_div_p + + " cos_m2lat_div_p=" + cos_m2lat_div_p); - double cos_m1lon_div_p_minus_m2lon_div_p = Math.cos(m1lon_div_p - m2lon_div_p); + double cos_m1lon_div_p_minus_m2lon_div_p = Math.cos(m1lon_div_p + - m2lon_div_p); - if(log.isDebugEnabled()) log.debug( - " cos_m1lon_div_p_minus_m2lon_div_p=" + cos_m1lon_div_p_minus_m2lon_div_p); + if (log.isDebugEnabled()) + log.debug(" cos_m1lon_div_p_minus_m2lon_div_p=" + + cos_m1lon_div_p_minus_m2lon_div_p); - double acos = Math.acos( - sin_m1lat_div_p - * sin_m2lat_div_p - + - cos_m1lat_div_p - * cos_m2lat_div_p - * cos_m1lon_div_p_minus_m2lon_div_p - ); + double acos = Math.acos(sin_m1lat_div_p * sin_m2lat_div_p + + cos_m1lat_div_p * cos_m2lat_div_p + * cos_m1lon_div_p_minus_m2lon_div_p); - if(log.isDebugEnabled()) log.debug(" acos=" + acos); + if (log.isDebugEnabled()) + log.debug(" acos=" + acos); double result = earthRadius * acos; @@ -1374,19 +1421,18 @@ private double stdEffortPerHour(Date date, SetOfVessels sov, Metier metier) { double result = 0; EffortDescription ed = sov.getPossibleMetiers(metier); - if(ed != null){ + if (ed != null) { double fstd = metier.getGear().getStandardisationFactor(); double etp = sov.getTechnicalEfficiency(date, metier); - double val = - fstd * etp * ed.getFishingOperation() * ed.getGearsNumberPerOperation(); + double val = fstd * etp * ed.getFishingOperation() + * ed.getGearsNumberPerOperation(); result = val; } - result = result/24; // 24 heures + result = result / 24; // 24 heures return result; } - /** * used here and in Rule (CantonnementPreSimu) * @@ -1400,7 +1446,7 @@ } return result; } - + /** * used here and in Rule (CantonnementPreSimu) * @@ -1414,76 +1460,81 @@ tmp.retainAll(zonePop.getCell()); return tmp.size(); } - + /////////////////////////////////////////////////////////////////////////// // // // /////////////////////////////////////////////////////////////////////////// - + /** * @param N * @param pop * @param date * @return - * @throws IsisFishException - * @throws TopiaException + * @throws IsisFishException + * @throws TopiaException */ private MatrixND matrixAbundancePerCell(MatrixND N, Population pop, - Date date, MatrixND matrixFishingMortality) throws TopiaException, IsisFishException { + Date date, MatrixND matrixFishingMortality) throws TopiaException, + IsisFishException { List<PopulationGroup> groups = pop.getPopulationGroup(); List<Zone> zones = pop.getPopulationZone(); List<Cell> allCells = getCells(zones); - + MatrixND result = MatrixFactory.getInstance().create( ResultName.MATRIX_ABUNDANCE + "_PER_CELL", - new List[]{groups, zones, allCells}, - new String[]{n_("Groups"), n_("Zones"), n_("Cells")}); + new List[] { groups, zones, allCells }, + new String[] { n_("Groups"), n_("Zones"), n_("Cells") }); - for (int g=0; g < groups.size(); g++) { + for (int g = 0; g < groups.size(); g++) { PopulationGroup group = groups.get(g); - for (int z=0; z < zones.size(); z++) { + for (int z = 0; z < zones.size(); z++) { Zone zone = zones.get(z); List<Cell> cells = zone.getCell(); - for (int c=0; c<cells.size(); c++) { + for (int c = 0; c < cells.size(); c++) { Cell cell = cells.get(c); - double value = survivalRatePerCell(date, group, zone, - cell, matrixFishingMortality); + double value = survivalRatePerCell(date, group, zone, cell, + matrixFishingMortality); double n = N.getValue(g, z) / zone.sizeCell(); value *= n; result.setValue(g, z, c, value); } } } - + return result; } - + /** * Utilise pour le calcule en Cell + * * @param N * @param pop * @param date * @return - * @throws IsisFishException - * @throws TopiaException + * @throws IsisFishException + * @throws TopiaException */ public MatrixND matrixAbundance(MatrixND N, Population pop, Date date) throws TopiaException, IsisFishException { - - MatrixND matrixFishingMortalityPerCell = matrixFishingMortalityPerCell(date, pop); - - MatrixND result = matrixAbundancePerCell(N, pop, date, matrixFishingMortalityPerCell); + + MatrixND matrixFishingMortalityPerCell = matrixFishingMortalityPerCell( + date, pop); + + MatrixND result = matrixAbundancePerCell(N, pop, date, + matrixFishingMortalityPerCell); result = result.sumOverDim(2); result = result.reduceDims(2); result.setName(ResultName.MATRIX_ABUNDANCE); - - return result; + + return result; } /** * Utilise pour le calcule en Zone + * * @param N * @param pop * @param date @@ -1491,20 +1542,22 @@ * @throws IsisFishException * @throws TopiaException */ - public MatrixND matrixAbundance(MatrixND N, Population pop, Date date, MatrixND matrixFishingMortality) throws TopiaException, IsisFishException { + public MatrixND matrixAbundance(MatrixND N, Population pop, Date date, + MatrixND matrixFishingMortality) throws TopiaException, + IsisFishException { List<PopulationGroup> groups = pop.getPopulationGroup(); List<Zone> zones = pop.getPopulationZone(); MatrixND result = MatrixFactory.getInstance().create( - ResultName.MATRIX_ABUNDANCE, - new List[]{groups, zones}, - new String[]{n_("Groups"), n_("Zones")}); + ResultName.MATRIX_ABUNDANCE, new List[] { groups, zones }, + new String[] { n_("Groups"), n_("Zones") }); - for (int g=0; g < groups.size(); g++) { + for (int g = 0; g < groups.size(); g++) { PopulationGroup group = groups.get(g); - for (int z=0; z < zones.size(); z++) { + for (int z = 0; z < zones.size(); z++) { Zone zone = zones.get(z); - double value = survivalRatePerZone(date, group, zone, matrixFishingMortality); + double value = survivalRatePerZone(date, group, zone, + matrixFishingMortality); double n = N.getValue(g, z); value *= n; result.setValue(g, z, value); @@ -1517,6 +1570,7 @@ /** * Utilise pour la mortalite des poissons, lorsqu'aucune strategie n'est * selectionnee. + * * @param N * @param pop * @param date @@ -1524,21 +1578,23 @@ * @throws IsisFishException * @throws TopiaException */ - public MatrixND matrixAbundanceSsF(MatrixND N, Population pop, Date date) throws TopiaException, IsisFishException { + public MatrixND matrixAbundanceSsF(MatrixND N, Population pop, Date date) + throws TopiaException, IsisFishException { List<PopulationGroup> groups = pop.getPopulationGroup(); List<Zone> zones = pop.getPopulationZone(); MatrixND result = MatrixFactory.getInstance().create( - ResultName.MATRIX_ABUNDANCE, - new List[]{groups, zones}, - new String[]{n_("Groups"), n_("Zones")}); + ResultName.MATRIX_ABUNDANCE, new List[] { groups, zones }, + new String[] { n_("Groups"), n_("Zones") }); - for (int g=0; g < groups.size(); g++) { + for (int g = 0; g < groups.size(); g++) { PopulationGroup group = groups.get(g); - for (int z=0; z < zones.size(); z++) { + for (int z = 0; z < zones.size(); z++) { Zone zone = zones.get(z); - double M = group.getNaturalDeathRate(zone)/(double)Month.NUMBER_OF_MONTH; - double value = (double)Math.exp(-M);; + double M = group.getNaturalDeathRate(zone) + / (double) Month.NUMBER_OF_MONTH; + double value = (double) Math.exp(-M); + ; double n = N.getValue(g, z); value *= n; result.setValue(g, z, value); @@ -1556,31 +1612,36 @@ * @throws IsisFishException * @throws TopiaException */ - private double survivalRatePerZone(Date date, PopulationGroup group, Zone zone, MatrixND matrixFishingMortality) throws TopiaException, IsisFishException { - double F = totalFishingMortality(date, matrixFishingMortality).getValue(group, zone); //totalFishingMortality(date, group, zone); // rem perf: totalFishingMortality a deja ete calcul� - double M = group.getNaturalDeathRate(zone)/(double)Month.NUMBER_OF_MONTH; - double result = Math.exp(-(F+M)); + private double survivalRatePerZone(Date date, PopulationGroup group, + Zone zone, MatrixND matrixFishingMortality) throws TopiaException, + IsisFishException { + double F = totalFishingMortality(date, matrixFishingMortality) + .getValue(group, zone); //totalFishingMortality(date, group, zone); // rem perf: totalFishingMortality a deja ete calcul� + double M = group.getNaturalDeathRate(zone) + / (double) Month.NUMBER_OF_MONTH; + double result = Math.exp(-(F + M)); return result; } - /** * @param date * @param group * @param zone * @return - * @throws IsisFishException - * @throws TopiaException + * @throws IsisFishException + * @throws TopiaException */ - private double survivalRatePerCell(Date date, PopulationGroup group, Zone zone, - Cell cell, MatrixND matrixFishingMortalityPerCell) throws TopiaException, IsisFishException { - - double F = totalFishingMortalityPerCell(date, matrixFishingMortalityPerCell) - .getValue(group, zone, cell); //totalFishingMortality(date, group, zone); // rem perf: totalFishingMortality a deja ete calcul� - double M = group.getNaturalDeathRate(zone)/(double)Month.NUMBER_OF_MONTH; - double result = (double)Math.exp(-(F+M)); + private double survivalRatePerCell(Date date, PopulationGroup group, + Zone zone, Cell cell, MatrixND matrixFishingMortalityPerCell) + throws TopiaException, IsisFishException { + double F = totalFishingMortalityPerCell(date, + matrixFishingMortalityPerCell).getValue(group, zone, cell); //totalFishingMortality(date, group, zone); // rem perf: totalFishingMortality a deja ete calcul� + double M = group.getNaturalDeathRate(zone) + / (double) Month.NUMBER_OF_MONTH; + double result = (double) Math.exp(-(F + M)); + return result; } @@ -1589,7 +1650,7 @@ // // /////////////////////////////////////////////////////////////////////////// - + /** * @param n * @param pop @@ -1601,32 +1662,31 @@ List<Zone> zones = N.getSemantics(1); MatrixND result = MatrixFactory.getInstance().create( - ResultName.MATRIX_BIOMASS, - new List[]{groups, zones}, - new String[]{n_("Groups"), n_("Zones")}); + ResultName.MATRIX_BIOMASS, new List[] { groups, zones }, + new String[] { n_("Groups"), n_("Zones") }); - for (int g=0; g < groups.size(); g++) { + for (int g = 0; g < groups.size(); g++) { PopulationGroup group = groups.get(g); double meanWeight = group.getMeanWeight(); - for (int z=0; z < zones.size(); z++) { + for (int z = 0; z < zones.size(); z++) { Zone zone = zones.get(z); double n = N.getValue(group, zone); double value = n * meanWeight; result.setValue(group, zone, value); } } - + return result; } - public MatrixND matrixBiomassBeginMonth(MatrixND N, Population pop, Date date) { + public MatrixND matrixBiomassBeginMonth(MatrixND N, Population pop, + Date date) { List<PopulationGroup> groups = N.getSemantics(0); List<Zone> zones = N.getSemantics(1); MatrixND result = MatrixFactory.getInstance().create( - ResultName.MATRIX_BIOMASS, - new List[]{groups, zones}, - new String[]{n_("Groups"), n_("Zones")}); + ResultName.MATRIX_BIOMASS, new List[] { groups, zones }, + new String[] { n_("Groups"), n_("Zones") }); for (int g = 0; g < groups.size(); g++) { PopulationGroup group = groups.get(g); @@ -1641,14 +1701,14 @@ return result; } - public MatrixND matrixAbondanceBeginMonth(MatrixND N, Population pop, Date date) { + public MatrixND matrixAbondanceBeginMonth(MatrixND N, Population pop, + Date date) { List<PopulationGroup> groups = N.getSemantics(0); List<Zone> zones = N.getSemantics(1); MatrixND result = MatrixFactory.getInstance().create( - ResultName.MATRIX_ABUNDANCE, - new List[]{groups, zones}, - new String[]{n_("Groups"), n_("Zones")}); + ResultName.MATRIX_ABUNDANCE, new List[] { groups, zones }, + new String[] { n_("Groups"), n_("Zones") }); for (int g = 0; g < groups.size(); g++) { PopulationGroup group = groups.get(g); @@ -1661,17 +1721,16 @@ return result; } - /////////////////////////////////////////////////////////////////////////// // // // /////////////////////////////////////////////////////////////////////////// - + /** * @param date * @return - * @throws TopiaException + * @throws TopiaException */ public MatrixND matrixEffortPerStrategyMet(Date date) throws TopiaException { List<Strategy> strategies = getStrategies(date); @@ -1679,26 +1738,26 @@ MatrixND result = MatrixFactory.getInstance().create( ResultName.MATRIX_EFFORT_PER_STRATEGY_MET, - new List[]{strategies, metiers}, - new String[]{n_("Strategies"), n_("Metiers")}); + new List[] { strategies, metiers }, + new String[] { n_("Strategies"), n_("Metiers") }); - for (int s=0; s < strategies.size(); s++) { + for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); metiers = getMetiers(str, date); - for (int m=0; m < metiers.size(); m++) { + for (int m = 0; m < metiers.size(); m++) { Metier metier = metiers.get(m); double value = effortPerStrategyMet(str, metier, date); result.setValue(str, metier, value); } } -// for(Strategy str : strategies){ -// List<Metier> metierStr = getMetiers(str, date); -// for(Metier metier : metierStr) { -// double val = effortPerStrategyMet(str, metier, date); // rem perf: effortPerStrategyMet a deja ete calcul� -// result.setValue(str, metier, val); -// } -// } + // for(Strategy str : strategies){ + // List<Metier> metierStr = getMetiers(str, date); + // for(Metier metier : metierStr) { + // double val = effortPerStrategyMet(str, metier, date); // rem perf: effortPerStrategyMet a deja ete calcule + // result.setValue(str, metier, val); + // } + // } return result; } @@ -1708,28 +1767,28 @@ // // /////////////////////////////////////////////////////////////////////////// - -// /** -// * @param pop -// * @param date -// * @return -// */ -// public MatrixND matrixCatchWeightPerStrategyMet(Population pop, -// Date date, MatrixND matrixCatchPerStrategyMet) { -// List<PopulationGroup> groups = pop.getPopulationGroup(); -// -// MatrixND result = matrixCatchPerStrategyMet.copy(); -// result.setName(ResultName.MATRIX_CATCH_WEIGHT_PER_STRATEGY_MET); -// -// for(PopulationGroup group : groups){ -// MatrixND sub = result.getSubMatrix(2, group, 1); -// double meanWeight = group.getMeanWeight(); -// sub.mults(meanWeight); -// } -// -// return result; -// } + // /** + // * @param pop + // * @param date + // * @return + // */ + // public MatrixND matrixCatchWeightPerStrategyMet(Population pop, + // Date date, MatrixND matrixCatchPerStrategyMet) { + // List<PopulationGroup> groups = pop.getPopulationGroup(); + // + // MatrixND result = matrixCatchPerStrategyMet.copy(); + // result.setName(ResultName.MATRIX_CATCH_WEIGHT_PER_STRATEGY_MET); + // + // for(PopulationGroup group : groups){ + // MatrixND sub = result.getSubMatrix(2, group, 1); + // double meanWeight = group.getMeanWeight(); + // sub.mults(meanWeight); + // } + // + // return result; + // } + /** * * @@ -1739,18 +1798,18 @@ */ public MatrixND matrixDiscardWeightPerStrategyMetPerZonePop(Population pop, Date date, MatrixND matrixDiscardPerStrategyMetPerZonePop) { - List<PopulationGroup> groups = pop.getPopulationGroup(); + List<PopulationGroup> groups = pop.getPopulationGroup(); - MatrixND result = matrixDiscardPerStrategyMetPerZonePop.copy(); - result.setName(ResultName.MATRIX_DISCARDS_WEIGHT_PER_STR_MET); + MatrixND result = matrixDiscardPerStrategyMetPerZonePop.copy(); + result.setName(ResultName.MATRIX_DISCARDS_WEIGHT_PER_STR_MET); - for(PopulationGroup group : groups){ - MatrixND sub = result.getSubMatrix(2, group, 1); - double meanWeight = group.getMeanWeight(); - sub.mults(meanWeight); - } + for (PopulationGroup group : groups) { + MatrixND sub = result.getSubMatrix(2, group, 1); + double meanWeight = group.getMeanWeight(); + sub.mults(meanWeight); + } - return result; + return result; } }

1 0

r127 - trunk/sensitivity
by jcouteau＠users.labs.libre-entreprise.org April 29, 2009

April 29, 2009

Author: jcouteau Date: 2009-04-29 08:39:41 +0000 (Wed, 29 Apr 2009) New Revision: 127 Modified: trunk/sensitivity/SensitivityCalculatorRRandomLHS.java Log: Fixed error Modified: trunk/sensitivity/SensitivityCalculatorRRandomLHS.java =================================================================== --- trunk/sensitivity/SensitivityCalculatorRRandomLHS.java 2009-04-29 08:39:07 UTC (rev 126) +++ trunk/sensitivity/SensitivityCalculatorRRandomLHS.java 2009-04-29 08:39:41 UTC (rev 127) @@ -324,7 +324,7 @@ log.info("Message sent to R : " + data); // Creating the factors vector. - String rInstruction = "factornames<-c("; + rInstruction = "factornames<-c("; for (int i = 0; i < factornumber; i++) { if (i != (factornumber - 1)) { rInstruction = rInstruction + "\""

1 0

r126 - trunk/sensitivity
by jcouteau＠users.labs.libre-entreprise.org April 29, 2009

April 29, 2009

Author: jcouteau Date: 2009-04-29 08:39:07 +0000 (Wed, 29 Apr 2009) New Revision: 126 Modified: trunk/sensitivity/SensitivityCalculatorROptimumLHS.java trunk/sensitivity/SensitivityCalculatorRRandomLHS.java Log: Adaptation des m?\195?\169thodes Hypercube latin au nouveau CDC. Possibilit?\195?\169 de modifier les instructions R. Pop-up d'erreur si facteurs non corrects. Modified: trunk/sensitivity/SensitivityCalculatorROptimumLHS.java =================================================================== --- trunk/sensitivity/SensitivityCalculatorROptimumLHS.java 2009-04-28 13:43:11 UTC (rev 125) +++ trunk/sensitivity/SensitivityCalculatorROptimumLHS.java 2009-04-29 08:39:07 UTC (rev 126) @@ -19,9 +19,14 @@ package sensitivity; import java.io.File; -import java.io.Serializable; import java.util.List; +import javax.swing.Box; +import javax.swing.JLabel; +import javax.swing.JOptionPane; +import javax.swing.JScrollPane; +import javax.swing.JTextPane; + import org.apache.commons.logging.Log; import org.apache.commons.logging.LogFactory; import org.codelutin.j2r.REngine; @@ -31,38 +36,42 @@ import org.codelutin.util.FileUtil; import fr.ifremer.isisfish.datastore.SimulationStorage; +import fr.ifremer.isisfish.simulator.sensitivity.AbstractSensitivityCalculator; import fr.ifremer.isisfish.simulator.sensitivity.DesignPlan; +import fr.ifremer.isisfish.simulator.sensitivity.Domain; import fr.ifremer.isisfish.simulator.sensitivity.Factor; import fr.ifremer.isisfish.simulator.sensitivity.Scenario; -import fr.ifremer.isisfish.simulator.sensitivity.SensitivityCalculator; -import fr.ifremer.isisfish.simulator.sensitivity.AbstractSensitivityCalculator; import fr.ifremer.isisfish.simulator.sensitivity.SensitivityException; import fr.ifremer.isisfish.simulator.sensitivity.SensitivityScenarios; import fr.ifremer.isisfish.simulator.sensitivity.domain.ContinuousDomain; +import fr.ifremer.isisfish.simulator.sensitivity.domain.DiscreteDomain; import fr.ifremer.isisfish.simulator.sensitivity.domain.EquationContinuousDomain; import fr.ifremer.isisfish.simulator.sensitivity.domain.MatrixContinuousDomain; import fr.ifremer.isisfish.util.Doc; -/**save.image() - * Implementation of Optimum Latin Hypercube method using R. +/** + * save.image() Implementation of Optimum Latin Hypercube method using R. * * @author jcouteau * @version $Revision: 1.0 $ * */ @Doc("Optimum Latin Hypercube") -public class SensitivityCalculatorROptimumLHS extends AbstractSensitivityCalculator { +public class SensitivityCalculatorROptimumLHS extends + AbstractSensitivityCalculator { /** to use log facility, just put in your code: log.info("..."); */ static private Log log = LogFactory .getLog(SensitivityCalculatorROptimumLHS.class); @Doc("Number of simulations (default=10)") - public int param_simulationNumber; + public int param_simulationNumber = 10; @Doc("The maximum number of times the Columnwise Pairwise algorithm is applied to all the columns(default=2).") - public int param_MaxSweeps; + public int param_MaxSweeps = 2; @Doc("The optimal stopping criterion (between 0 and 1) (default=0.1).") - public double param_eps; + public double param_eps = 0.1; + @Doc("True to be able to modify the code sent to R") + public boolean param_modifR = false; /** * Retourne vrai si le calculateur sait gerer la cardinalité des facteurs @@ -77,12 +86,28 @@ public SensitivityScenarios compute(DesignPlan plan, File outputdirectory) throws SensitivityException { + setIsisFactorsR(plan, outputdirectory); + int factornumber = plan.getFactors().size(); List<Factor> factors = plan.getFactors(); double[] dataframe = new double[0]; SensitivityScenarios thisExperiment = new SensitivityScenarios(); List<Scenario> thisExperimentScenarios = thisExperiment.getScenarios(); + //Test all factors, if one is discrete, return null + for (int i = 0; i < factornumber; i++) { + if (factors.get(i).getDomain() instanceof DiscreteDomain) { + JOptionPane + .showMessageDialog( + null, + "Error", + factors.get(i).getName() + + " has a discrete domain, this is not acceptable for this method.", + JOptionPane.ERROR_MESSAGE); + return null; + } + } + REngine engine = new RProxy(); if ((Integer) param_simulationNumber == 0) { @@ -98,14 +123,46 @@ try { + //Set working directory to get Isis R session + log.info("setwd(\"" + outputdirectory.getParent() + "\")"); + engine.voidEval("setwd(\"" + outputdirectory.getParent() + "\")"); + + //Get Isis R session + log.info("load(\".RData\")"); + engine.voidEval("load(\".RData\")"); + //Load the lhs library engine.voidEval("library(lhs)"); log.info("Message sent to R : " + "library(lhs)"); - String rInstruction = "x<-optimumLHS(n=" + param_simulationNumber - + ",k=" + factornumber + ",maxSweeps=" + param_MaxSweeps - + ",eps=" + param_eps + ")"; + //Remove all objects that will be used + engine.voidEval("remove(\"isis.factor.distribution\")"); + engine.voidEval("remove(\"isis.simule\")"); + engine.voidEval("remove(\"isis.MethodExp\")"); + engine.voidEval("remove(\"isis.methodAnalyse\")"); + String rInstruction = "x<-optimumLHS(n=%s,k=%s,maxSweeps=%s,eps=%s)"; + + String rCall = String.format(rInstruction, param_simulationNumber, + factornumber, param_MaxSweeps, param_eps); + + if (param_modifR) { + JLabel label = new JLabel( + "Modifier le code R envoyé si vous le souhaitez"); + JTextPane text = new JTextPane(); + text.setText(rCall); + text.setSize(400, 400); + text.setPreferredSize(text.getSize()); + + Box box = Box.createVerticalBox(); + box.add(label); + box.add(new JScrollPane(text)); + + JOptionPane.showMessageDialog(null, box, "R modif", + JOptionPane.QUESTION_MESSAGE); + rCall = text.getText(); + } + //Create the scenarios engine.voidEval(rInstruction); log.info("Message sent to R : " + rInstruction); @@ -122,8 +179,7 @@ for (int j = 0; j < param_simulationNumber; j++) { Scenario experimentScenario = new Scenario(); for (int i = 0; i < factornumber; i++) { - Factor factor = plan.getFactors() - .get(i); + Factor factor = plan.getFactors().get(i); if ((factor.getDomain() instanceof MatrixContinuousDomain) || (factor.getDomain() instanceof EquationContinuousDomain)) { factor @@ -145,13 +201,78 @@ thisExperiment.setScenarios(thisExperimentScenarios); } - //Create the factors vectors - for (int j = 0; j < factornumber; j++) { - Factor factor = thisExperimentScenarios - .get(0).getFactors().get(j); + String isisFactorDistribution = "isis.factor.distribution<-data.frame(NomFacteur=c(%s),NomDistribution=c(%s),ParametreDistribution=c(%s))"; + + String distribution = ""; + String parameters = ""; + String factorNames = ""; + + for (int i = 0; i < factors.size(); i++) { + Domain domain = factors.get(i).getDomain(); + if (i != 0) { + distribution += ","; + factorNames += ","; + parameters += ","; + } + + factorNames += "\"" + factors.get(i).getName() + "\""; + distribution += "\"qunif\""; + parameters += "\"[" + ((ContinuousDomain) domain).getMinBound() + + ";" + ((ContinuousDomain) domain).getMaxBound() + + "]\""; + } + + log.info("Message sent to R : " + + String.format(isisFactorDistribution, factorNames, + distribution, parameters)); + engine.voidEval(String.format(isisFactorDistribution, factorNames, + distribution, parameters)); + + log.info("Message sent to R : " + "call<-" + "\"x<-optimumLHS(n=" + + param_simulationNumber + ",k=" + factornumber + + ",maxSweeps=" + param_MaxSweeps + ",eps=" + param_eps + + ")\""); + engine.voidEval("call<-" + "\"x<-optimumLHS(n=" + + param_simulationNumber + ",k=" + factornumber + + ",maxSweeps=" + param_MaxSweeps + ",eps=" + param_eps + + ")\""); + + log + .info("Message sent to R : " + + "isis.MethodExp<-list(\"isis.factors\"=isis.factors,\"isis.factor.distribution\"=isis.factor.distribution,\"call\"=call)"); + engine + .voidEval("isis.MethodExp<-list(\"isis.factors\"=isis.factors,\"isis.factor.distribution\"=isis.factor.distribution,\"call\"=call)"); + + log + .info("Message sent to R : " + + "attr(isis.MethodExp,\"nomModel\")<-\"isis-fish-externe-R\""); + engine + .voidEval("attr(isis.MethodExp,\"nomModel\")<-\"isis-fish-externe-R\""); + + log.info("Message sent to R : " + "isis.simule<-data.frame(x)"); + engine.voidEval("isis.simule<-data.frame(x)"); + + log + .info("Message sent to R : " + + "attr(isis.simule,\"nomModel\")<-\"isis-fish-externe-R\""); + engine + .voidEval("attr(isis.simule,\"nomModel\")<-\"isis-fish-externe-R\""); + + log.info("Message sent to R : " + + "names(isis.simule)<-isis.factors[[1]]"); + engine.voidEval("names(isis.simule)<-isis.factors[[1]]"); + + String data = "data<-data.frame("; + + //Create the factors vectors and the dataframe instruction + for (int j = 0; j < factors.size(); j++) { + Factor factor = thisExperimentScenarios.get(0).getFactors() + .get(j); if (factor.getDomain() instanceof EquationContinuousDomain) { - String vector = "factor" + j + "<-c("; + //String vector = "factor" + j + "<-c("; + String vector = factor.getName().replaceAll(" ", "") + + "<-c("; for (int i = 0; i < param_simulationNumber; i++) { if (i < (param_simulationNumber - 1)) { vector = vector @@ -170,7 +291,9 @@ engine.voidEval(vector); log.info("Message sent to R : " + vector); } else if (factor.getDomain() instanceof MatrixContinuousDomain) { - String vector = "factor" + j + "<-c("; + //String vector = "factor" + j + "<-c("; + String vector = factor.getName().replaceAll(" ", "") + + "<-c("; for (int i = 0; i < param_simulationNumber; i++) { if (i < (param_simulationNumber - 1)) { vector = vector @@ -189,7 +312,9 @@ engine.voidEval(vector); log.info("Message sent to R : " + vector); } else { - String vector = "factor" + j + "<-c("; + //String vector = "factor" + j + "<-c("; + String vector = factor.getName().replaceAll(" ", "") + + "<-c("; for (int i = 0; i < param_simulationNumber; i++) { if (i < (param_simulationNumber - 1)) { vector = vector @@ -207,15 +332,13 @@ engine.voidEval(vector); log.info("Message sent to R : " + vector); } - } - //Create the data data.frame from the factors - String data = "data<-data.frame("; - for (int j = 0; j < factornumber; j++) { - if (j < factornumber - 1) { - data = data + "factor" + j + "=factor(factor" + j + "),"; + if (j < factors.size() - 1) { + data += factor.getName().replaceAll(" ", "") + "=factor(" + + factor.getName().replaceAll(" ", "") + "),"; } else { - data = data + "factor" + j + "=factor(factor" + j + "))"; + data += factor.getName().replaceAll(" ", "") + "=factor(" + + factor.getName().replaceAll(" ", "") + "))"; } } @@ -237,7 +360,7 @@ rInstruction += ")"; engine.voidEval(rInstruction); - log.info("Message sent to R : " + rInstruction); + log.info("Message sent to R" + rInstruction); // Set output directory engine.voidEval("setwd(\"" + outputdirectory.getAbsolutePath() @@ -245,7 +368,7 @@ log.info("Message sent to R : " + "setwd(\"" + outputdirectory.getAbsolutePath() + "\")"); - // Export the scenario matrix for the second run in a .randomlhs.csv file + // Export the scenario matrix for the second run in a .optimumlhs.csv file engine.voidEval("write.csv(data,file=\".optimumlhs.csv\")"); log.info("Message sent to R : " + "write.csv(data,file=\".optimumlhs.csv\")"); @@ -255,6 +378,14 @@ log.info("Message sent to R" + "dput(factornames,file=\".factornames\")"); + //Set working directory to save Isis R session + log.info("setwd(\"" + outputdirectory.getParent() + "\")"); + engine.voidEval("setwd(\"" + outputdirectory.getParent() + "\")"); + + // Save Isis R session + log.info("save.image()"); + engine.voidEval("save.image()"); + engine.terminate(); } catch (Exception e) { @@ -282,36 +413,48 @@ REngine engine = new RProxy(); try { - int sensitivityNumber = simulationStorages.get(0).getParameter() - .getSensitivityExport().size(); + //Set working directory to get Isis R session + log.info("setwd(\"" + outputdirectory.getParent() + "\")"); + engine.voidEval("setwd(\"" + outputdirectory.getParent() + "\")"); - for (int k = 0; k < sensitivityNumber; k++) { + //Get Isis R session + log.info("load(\".RData\")"); + engine.voidEval("load(\".RData\")"); - // Set output directory - engine.voidEval("setwd(\"" + outputdirectory.getAbsolutePath() - + "\")"); - log.info("Message sent to R : setwd(\"" - + outputdirectory.getAbsolutePath() + "\")"); + // Set output directory + engine.voidEval("setwd(\"" + outputdirectory.getAbsolutePath() + + "\")"); + log.info("Message sent to R : setwd(\"" + + outputdirectory.getAbsolutePath() + "\")"); - //Get back the scenarios - //engine.voidEval("factors<-read.csv(\".expandgrid.csv\",row.names=1,col.names=1)"); - engine.voidEval("factors<-read.csv(\".optimumlhs.csv\")"); - log - .info("Message sent to R : factors<-read.csv(\".optimumlhs.csv\")"); + //Get back the scenarios + engine.voidEval("factors<-read.csv(\".optimumlhs.csv\")"); + log + .info("Message sent to R : factors<-read.csv(\".optimumlhs.csv\")"); - // Get the factornames object in the .factornames file - engine.voidEval("factornames<-dget(\".factornames\")"); - log.info("Message sent to R : " - + "factornames<-dget(\".factornames\")"); + // Get the factornames object in the .factornames file + engine.voidEval("factornames<-dget(\".factornames\")"); + log.info("Message sent to R : " + + "factornames<-dget(\".factornames\")"); - //Get back the factors number - int factorNumber = ((Double) engine.eval("length(factors)-1")) - .intValue(); - //factorNumber=factorNumber-1; + //Get back the factors number + int factorNumber = ((Double) engine.eval("length(factors)-1")) + .intValue(); - //Create the results vectors - String result = "result<-c("; - for (int l = 0; l < simulationStorages.size(); l++) { + //Get back the simulation number + param_simulationNumber = (Integer) (engine + .eval("length(factors[,1])")); + + int sensitivityNumber = simulationStorages.get(0).getParameter() + .getSensitivityExport().size(); + + for (int k = 0; k < sensitivityNumber; k++) { + + // Creates the R expression to import results in R + String name = simulationStorages.get(0).getParameter() + .getSensitivityExport().get(k).getExportFilename(); + String rInstruction = name + "<-c("; + for (int l = 0; l < param_simulationNumber; l++) { File importFile = new File(simulationStorages.get(l) .getDirectory().toString() + File.separator @@ -324,28 +467,65 @@ .getExtensionFilename()); String simulResult = FileUtil.readAsString(importFile); double simulationResult = Double.valueOf(simulResult); - if (l < simulationStorages.size() - 1) { - result = result + simulationResult + ","; + if (l < param_simulationNumber - 1) { + rInstruction = rInstruction + simulationResult + ","; } else { - result = result + simulationResult; + rInstruction = rInstruction + simulationResult; } } - result = result + ")"; - engine.voidEval(result); - log.info("Message sent to R : " + result); + rInstruction = rInstruction + ")"; + log.info("Message sent to R : " + rInstruction); + + // Send the simulation results + engine.voidEval(rInstruction); + + //Put results in isis.simule + engine.voidEval("isis.simule<-data.frame(isis.simule," + name + + ")"); + log.info("Message sent to R : " + + "isis.simule<-data.frame(isis.simule," + name + ")"); + } + + //adding attribute to isis.Simule + log + .info("Message sent to R : " + + "attr(isis.simule,\"nomModel\")<-\"isis-fish-externe-R\""); + engine + .voidEval("attr(isis.simule,\"nomModel\")<-\"isis-fish-externe-R\""); + + log.info("Message sent to R : " + + "attr(isis.simule,\"call\")<-isis.MethodExp$call"); + engine.voidEval("attr(isis.simule,\"call\")<-isis.MethodExp$call"); + + for (int k = 0; k < sensitivityNumber; k++) { + + // Creates the R expression to import results in R + String name = simulationStorages.get(0).getParameter() + .getSensitivityExport().get(k).getExportFilename(); + //Create the dataforaov data.frame - String dataframe = "dataforaov<-data.frame(factors,result=result)"; + String dataframe = "dataforaov<-data.frame(factors," + name + + "=" + name + ")"; engine.voidEval(dataframe); log.info("Message sent to R : " + dataframe); //Call aov() - String aovCall = "aovresult<-aov(result~"; + String aovCall = "aovresult<-aov(" + name + "~"; for (int j = 0; j < factorNumber; j++) { + log.info("Message sent to R : " + "names(factors)[" + + (j + 2) + "]"); + if (j < (factorNumber - 1)) { - aovCall = aovCall + "factor" + j + "+"; + aovCall = aovCall + + engine + .eval("names(factors)[" + (j + 2) + "]") + + "+"; } else { - aovCall = aovCall + "factor" + j + ",data=dataforaov)"; + aovCall = aovCall + + engine + .eval("names(factors)[" + (j + 2) + "]") + + ",data=dataforaov)"; } } engine.voidEval(aovCall); @@ -388,14 +568,6 @@ log.info("Message sent to R : " + "row.names(exportsensitivity)<-factornames"); - /*Set the export directory - *Export directory is the first simulation export directory. - */ - engine.voidEval("setwd(\"" + outputdirectory.getAbsolutePath() - + "\")"); - log.info("Message sent to R : setwd(\"" - + outputdirectory.getAbsolutePath() + "\")"); - //Set dataforaov names engine .voidEval("resultsnames<-c(\"Simulation\",factornames,\"Result\")"); @@ -406,6 +578,14 @@ log.info("Message sent to R : " + "names(dataforaov)<-resultsnames"); + /*Set the export directory + *Export directory is the first simulation export directory. + */ + engine.voidEval("setwd(\"" + outputdirectory.getAbsolutePath() + + "\")"); + log.info("Message sent to R : setwd(\"" + + outputdirectory.getAbsolutePath() + "\")"); + //Save the results with the scenarios. engine.voidEval("write.csv(dataforaov,\"" + simulationStorages.get(0).getParameter() @@ -428,10 +608,71 @@ .getExportFilename() + "_SensitivityIndices.csv\")"); //FIXME export through java to enable export when using Rserve (when distant Rserve). - engine.terminate(); + + //creating isis.methodAnalyse + log + .info("Message sent to R : " + + "isis.methodAnalyse<-list(\"isis.factors\"=isis.factors,\"isis.factor.distribution\"=isis.factor.distribution,\"isis.simule\"=isis.simule,call_method=\"" + + aovCall + "\"" + ",aovresult)"); + engine + .voidEval("isis.methodAnalyse<-list(\"isis.factors\"=isis.factors,\"isis.factor.distribution\"=isis.factor.distribution,\"isis.simule\"=isis.simule,call_method=\"" + + aovCall + "\"" + ",aovresult)"); + + log + .info("Message sent to R : " + + "attr(isis.methodAnalyse,\"nomModel\")<-\"isis-fish-externe-R\""); + engine + .voidEval("attr(isis.methodAnalyse,\"nomModel\")<-\"isis-fish-externe-R\""); + + String renameIsisMethodAnalyse = "%s.isis.methodAnalyse<-isis.methodAnalyse"; + String simulationName = simulationStorages.get(0).getName() + .replaceAll("-", ""); + log.info("Message sent to R : " + + String.format(renameIsisMethodAnalyse, simulationName + + "." + name)); + engine.voidEval(String.format(renameIsisMethodAnalyse, + simulationName + "." + name)); + } - log.info("end"); + //Rename R objects for saving purpose + + String renameIsisSimule = "%s.isis.simule<-isis.simule"; + String renameIsisFactorDistribution = "%s.isis.factor.distribution<-isis.factor.distribution"; + String renameIsisFactor = "%s.isis.factor<-isis.factors"; + String renameIsisMethodExp = "%s.isis.methodExp<-isis.MethodExp"; + + String simulationName = simulationStorages.get(0).getName() + .replaceAll("-", ""); + + log.info("Message sent to R : " + + String.format(renameIsisSimule, simulationName)); + engine.voidEval(String.format(renameIsisSimule, simulationName)); + + log.info("Message sent to R : " + + String.format(renameIsisFactorDistribution, + simulationName)); + engine.voidEval(String.format(renameIsisFactorDistribution, + simulationName)); + + log.info("Message sent to R : " + + String.format(renameIsisFactor, simulationName)); + engine.voidEval(String.format(renameIsisFactor, simulationName)); + + log.info("Message sent to R : " + + String.format(renameIsisMethodExp, simulationName)); + engine.voidEval(String.format(renameIsisMethodExp, simulationName)); + + //Set working directory to save Isis R session + log.info("setwd(\"" + outputdirectory.getParent() + "\")"); + engine.voidEval("setwd(\"" + outputdirectory.getParent() + "\")"); + + // Save Isis R session + log.info("save.image()"); + engine.voidEval("save.image()"); + + engine.terminate(); + } catch (Exception e) { e.printStackTrace(); // Error while processing Modified: trunk/sensitivity/SensitivityCalculatorRRandomLHS.java =================================================================== --- trunk/sensitivity/SensitivityCalculatorRRandomLHS.java 2009-04-28 13:43:11 UTC (rev 125) +++ trunk/sensitivity/SensitivityCalculatorRRandomLHS.java 2009-04-29 08:39:07 UTC (rev 126) @@ -21,7 +21,11 @@ import java.io.File; import java.util.List; +import javax.swing.Box; +import javax.swing.JLabel; import javax.swing.JOptionPane; +import javax.swing.JScrollPane; +import javax.swing.JTextPane; import org.apache.commons.logging.Log; import org.apache.commons.logging.LogFactory; @@ -62,6 +66,8 @@ @Doc("Simulation number (default=10)") public int param_simulationNumber = 10; + @Doc("True to be able to modify the code sent to R") + public boolean param_modifR = false; /** * Retourne vrai si le calculateur sait gerer la cardinalité des facteurs @@ -112,17 +118,39 @@ //Get Isis R session log.info("load(\".RData\")"); engine.voidEval("load(\".RData\")"); + + //Set working directory for other results + log.info("setwd(\"" + outputdirectory + "\")"); + engine.voidEval("setwd(\"" + outputdirectory + "\")"); //Load the lhs library engine.voidEval("library(lhs)"); log.info("Message sent to R : " + "library(lhs)"); //Create the scenarios - engine.voidEval("x<-randomLHS(" + param_simulationNumber + "," - + factornumber + ")"); - log.info("Message sent to R : " + "x<-randomLHS(" - + param_simulationNumber + "," + factornumber + ")"); + String rInstruction = "x<-randomLHS(%s,%s)"; + String rCall = String.format(rInstruction,param_simulationNumber,factornumber); + + if (param_modifR) { + JLabel label = new JLabel( + "Modifier le code R envoyé si vous le souhaitez"); + JTextPane text = new JTextPane(); + text.setText(rCall); + text.setSize(400, 400); + text.setPreferredSize(text.getSize()); + Box box = Box.createVerticalBox(); + box.add(label); + box.add(new JScrollPane(text)); + + JOptionPane.showMessageDialog(null, box, "R modif", + JOptionPane.QUESTION_MESSAGE); + rCall = text.getText(); + } + + engine.voidEval(rCall); + log.info("Message sent to R : " + rCall); + // Get back experiment plan dataframe = (double[]) engine.eval("x"); log.info("Message sent to R" + "x"); @@ -139,9 +167,7 @@ if ((factor.getDomain() instanceof MatrixContinuousDomain) || (factor.getDomain() instanceof EquationContinuousDomain)) { factor - .setValueForIdentifier(Double.valueOf( - morris.getValue(new int[] { i, j })) - .toString()); + .setValueForIdentifier(morris.getValue(new int[] { i, j })); } else { Double value = (Double) ((ContinuousDomain) factor .getDomain()).getMinBound() @@ -385,13 +411,16 @@ //Get back the factors number int factorNumber = ((Double) engine.eval("length(factors)-1")) .intValue(); + + //Get back the simulation number + param_simulationNumber = (Integer)(engine.eval("length(factors[,1])")); - param_simulationNumber = simulationStorages.get(0).getParameter() + int sensitivityNumber = simulationStorages.get(0).getParameter() .getSensitivityExport().size(); - for (int k = 0; k < param_simulationNumber; k++) { + for (int k = 0; k < sensitivityNumber; k++) { - // Creates the R expression to import results in R + // Creates the R expression to import results in R String name = simulationStorages.get(0).getParameter() .getSensitivityExport().get(k).getExportFilename(); String rInstruction = name + "<-c("; @@ -408,7 +437,7 @@ .getExtensionFilename()); String simulResult = FileUtil.readAsString(importFile); double simulationResult = Double.valueOf(simulResult); - if (l < simulationStorages.size() - 1) { + if (l < param_simulationNumber - 1) { rInstruction = rInstruction + simulationResult + ","; } else { rInstruction = rInstruction + simulationResult; @@ -439,7 +468,7 @@ + "attr(isis.simule,\"call\")<-isis.MethodExp$call"); engine.voidEval("attr(isis.simule,\"call\")<-isis.MethodExp$call"); - for (int k = 0; k < param_simulationNumber; k++) { + for (int k = 0; k < sensitivityNumber; k++) { // Creates the R expression to import results in R String name = simulationStorages.get(0).getParameter()

1 0

r125 - in trunk: rules scripts simulators
by jcouteau＠users.labs.libre-entreprise.org April 28, 2009

April 28, 2009

Author: jcouteau Date: 2009-04-28 13:43:11 +0000 (Tue, 28 Apr 2009) New Revision: 125 Modified: trunk/rules/TailleMin.java trunk/scripts/GravityModel.java trunk/simulators/DefaultSimulator.java Log: Fin de l'adaptation aux scripts de Stephanie Modified: trunk/rules/TailleMin.java =================================================================== --- trunk/rules/TailleMin.java 2009-04-28 13:31:17 UTC (rev 124) +++ trunk/rules/TailleMin.java 2009-04-28 13:43:11 UTC (rev 125) @@ -2,27 +2,27 @@ import static org.codelutin.i18n.I18n._; +import java.util.List; + import org.apache.commons.logging.Log; import org.apache.commons.logging.LogFactory; +import org.codelutin.math.matrix.MatrixIterator; +import org.codelutin.math.matrix.MatrixND; import scripts.ResultName; import scripts.SiMatrix; - -import java.io.Writer; -import java.util.List; - -import org.codelutin.math.matrix.*; - +import fr.ifremer.isisfish.entities.Metier; +import fr.ifremer.isisfish.entities.MetierSeasonInfo; +import fr.ifremer.isisfish.entities.Population; +import fr.ifremer.isisfish.entities.PopulationGroup; +import fr.ifremer.isisfish.entities.Species; +import fr.ifremer.isisfish.entities.TargetSpecies; +import fr.ifremer.isisfish.rule.AbstractRule; import fr.ifremer.isisfish.simulator.PopulationMonitor; import fr.ifremer.isisfish.simulator.SimulationContext; import fr.ifremer.isisfish.types.Date; -import fr.ifremer.isisfish.entities.*; -import fr.ifremer.isisfish.rule.AbstractRule; -import fr.ifremer.isisfish.datastore.SimulationStorage; -import fr.ifremer.isisfish.datastore.ResultStorage; +import fr.ifremer.isisfish.util.Doc; -import fr.ifremer.isisfish.util.Doc; // pour pouvoir afficher une aide contextuelle (BUG#1605) - /** * TailleMin.java * @@ -43,18 +43,18 @@ /** to use log facility, just put in your code: log.info("..."); */ static private Log log = LogFactory.getLog(TailleMin.class); - @Doc(value="do the doc of param beginDate") + @Doc(value = "do the doc of param beginDate") public Date param_beginDate = new Date(0); - @Doc(value="do the doc of param endDate") + @Doc(value = "do the doc of param endDate") public Date param_endDate = new Date(119); - @Doc(value="do the doc of param species") + @Doc(value = "do the doc of param species") public Species param_species = null; - @Doc(value="do the doc of param TailleMin") + @Doc(value = "do the doc of param TailleMin") public double param_TailleMin = 27; - @Doc(value="do the doc of param propSurvie") + @Doc(value = "do the doc of param propSurvie") public double param_propSurvie = 0; - public String [] necessaryResult = { + public String[] necessaryResult = { // put here all necessary result for this rule // example: // ResultName.MATRIX_BIOMASS, @@ -67,21 +67,24 @@ /** * Permet d'afficher a l'utilisateur une aide sur la regle. + * * @return L'aide ou la description de la regle */ public String getDescription() throws Exception { // TODO return _("TODO description rule"); } - + /** * Appelé au démarrage de la simulation, cette méthode permet d'initialiser * des valeurs - * @param simulation La simulation pour lequel on utilise cette regle + * + * @param simulation + * La simulation pour lequel on utilise cette regle */ public void init(SimulationContext context) throws Exception { } - + /** * @param context * @param date @@ -93,16 +96,19 @@ MetierSeasonInfo info = metier.getMetierSeasonInfo(date.getMonth()); TargetSpecies target = info.getSpeciesTargetSpecies(species); boolean result = target != null; - + return result; } - + /** * La condition qui doit etre vrai pour faire les actions - * @param simulation La simulation pour lequel on utilise cette regle + * + * @param simulation + * La simulation pour lequel on utilise cette regle * @return vrai si on souhaite que les actions soit faites */ - public boolean condition(SimulationContext context, Date date, Metier metier) throws Exception { + public boolean condition(SimulationContext context, Date date, Metier metier) + throws Exception { log.info("Recherche si la taille Minimale s'applique"); boolean result = true; if (date.before(param_beginDate)) { @@ -110,56 +116,64 @@ } else if (date.after(param_endDate)) { result = false; } else if (isCaptureDate(date, param_species, metier) != true) { - result=false; + result = false; } log.info("fin de condition TailleMin:" + result); return result; - + // fin - + /* -writeln("Recherche si la taille Minimale s'applique (oldValue="+oldValue); -var metier=p.metier; -var result = true; -if(oldValue != undefined) - result = oldValue; -else if (Regle_libUtil.isCaptureDate(p.date,p.metapop, metier)!=true) - result=false; -else if(p.date.before(p.dateDeb)) - result = false; -else if(p.date.after(p.dateFin)) - result = false; + writeln("Recherche si la taille Minimale s'applique (oldValue="+oldValue); + var metier=p.metier; + var result = true; + if(oldValue != undefined) + result = oldValue; + else if (Regle_libUtil.isCaptureDate(p.date,p.metapop, metier)!=true) + result=false; + else if(p.date.before(p.dateDeb)) + result = false; + else if(p.date.after(p.dateFin)) + result = false; -writeln("fin de condition TailleMin:"+result); -return result; -*/ + writeln("fin de condition TailleMin:"+result); + return result; + */ } - + /** - * Si la condition est vrai alors cette action est executée avant le pas - * de temps de la simulation. - * @param simulation La simulation pour lequel on utilise cette regle + * Si la condition est vrai alors cette action est executée avant le pas de + * temps de la simulation. + * + * @param simulation + * La simulation pour lequel on utilise cette regle */ - public void preAction(SimulationContext context, Date date, Metier metier) throws Exception { + public void preAction(SimulationContext context, Date date, Metier metier) + throws Exception { // nothing } - + /** - * Si la condition est vrai alors cette action est executée apres le pas - * de temps de la simulation. - * @param simulation La simulation pour lequel on utilise cette regle + * Si la condition est vrai alors cette action est executée apres le pas de + * temps de la simulation. + * + * @param simulation + * La simulation pour lequel on utilise cette regle */ - public void postAction(SimulationContext context, Date date, Metier metier) throws Exception { - log.info("*$*$*$* TailleMin.actionApres:" + date + " metapop:" + param_species + " metier:" + metier); + public void postAction(SimulationContext context, Date date, Metier metier) + throws Exception { + log.info("*$*$*$* TailleMin.actionApres:" + date + " metapop:" + + param_species + " metier:" + metier); - if(isCaptureDate(date, param_species, metier)){ - log.info("*$*$*$* ok affecte capture infÃ?rieure Ã? TailleMin au rejet"); + if (isCaptureDate(date, param_species, metier)) { + log + .info("*$*$*$* ok affecte capture infÃ?rieure Ã? TailleMin au rejet"); // ATTENTION // les captures pour cette metapop ne sont plus du qu'au metier pour qui // l'espece est secondaire: elles sont affectees aux rejets - + //pb : ne se fait pas par metier //il faut une matrice pour chaques pas de temps qui stocke les rejets //par metier, par metapop et par classes d'age (comme pour les captures) @@ -169,67 +183,69 @@ PopulationMonitor popMon = context.getPopulationMonitor(); SiMatrix siMatrix = SiMatrix.getSiMatrix(context); List<Population> pops = siMatrix.getPopulations(date); - + for (Population pop : pops) { if (pop.getSpecies().equals(param_species)) { if (popMon.getDiscard(date, pop) == null) { MatrixND discard = popMon.getCatch(pop).copy(); MatrixND eff = popMon.getN(pop); - - for (MatrixIterator i=discard.iterator(); i.next();) { - Object [] coordonnees = i.getSemanticsCoordinates(); - PopulationGroup group = (PopulationGroup)coordonnees[2]; + + for (MatrixIterator i = discard.iterator(); i.next();) { + Object[] coordonnees = i.getSemanticsCoordinates(); + PopulationGroup group = (PopulationGroup) coordonnees[2]; if (group.getLength() >= param_TailleMin) { i.setValue(0); } else if (param_propSurvie > 0) { eff.setValue(coordonnees[2], coordonnees[3], - eff.getValue(coordonnees[2], coordonnees[3]) - + i.getValue() * param_propSurvie); + eff.getValue(coordonnees[2], + coordonnees[3]) + + i.getValue() + * param_propSurvie); } } - discard.setName(ResultName.MATRIX_DISCARDS_PER_STR_MET_PER_ZONE_POP); + discard.setName(ResultName.MATRIX_DISCARDS_PER_STR_MET); popMon.addDiscard(date, pop, discard); } } } - + log.info("fin de affecterCaptureRejetTailleMin"); - - //on a affecte une fois cette meta pop au rejet il ne faut pas le refaire + + //on a affecte une fois cette meta pop au rejet il ne faut pas le refaire } // fin - + /* -writeln("*$*$*$* TailleMin.actionApres:"+p.date+" metapop:"+p.metapop+" metier:"+p.metier); -if(Regle_libUtil.isCaptureDate(p.date,p.metapop, p.metier)){ - writeln("*$*$*$* ok affecte capture infÃ?rieure Ã? TailleMin au rejet"); - // ATTENTION - // les captures pour cette metapop ne sont plus du qu'au metier pour qui - // l'espece est secondaire: elles sont affectees aux rejets + writeln("*$*$*$* TailleMin.actionApres:"+p.date+" metapop:"+p.metapop+" metier:"+p.metier); + if(Regle_libUtil.isCaptureDate(p.date,p.metapop, p.metier)){ + writeln("*$*$*$* ok affecte capture infÃ?rieure Ã? TailleMin au rejet"); + // ATTENTION + // les captures pour cette metapop ne sont plus du qu'au metier pour qui + // l'espece est secondaire: elles sont affectees aux rejets - //pb : ne se fait pas par metier - //il faut une matrice pour chaques pas de temps qui stocke les rejets - //par metier, par metapop et par classes d'age (comme pour les captures) - ////// -writeln("deb de affecterCaptureREJETTailleMin"); -var suivi = null; + //pb : ne se fait pas par metier + //il faut une matrice pour chaques pas de temps qui stocke les rejets + //par metier, par metapop et par classes d'age (comme pour les captures) + ////// + writeln("deb de affecterCaptureREJETTailleMin"); + var suivi = null; -//recherche du suivi pour les pop qui ont une certaine meta pop -for(var i=0; i< suiviePop.size(); i++){ - if(suiviePop.get(i).getPop().getMetaPopulation().equals(metapop)){ + //recherche du suivi pour les pop qui ont une certaine meta pop + for(var i=0; i< suiviePop.size(); i++){ + if(suiviePop.get(i).getPop().getMetaPopulation().equals(metapop)){ suivi = suiviePop.get(i); var populations=suivi.getPop(); - //si on a pas deja creer le rejet on le cree et on en fait un resultat + //si on a pas deja creer le rejet on le cree et on en fait un resultat var matRejet = suivi.getRejet(date); if (matRejet==null){ var matRejetBis = MatrixFactory.create(suivi.getCapture()); var eff=suivi.getN(); -//on encapsule les objets des 4 dimensions de la matrice capture + //on encapsule les objets des 4 dimensions de la matrice capture for (var iiterateur=matRejetBis.iterator();iiterateur.next();){ var coordonnees=iiterateur.getSemanticsCoordinates(); var classe=coordonnees[2]; @@ -243,18 +259,18 @@ matRejetBis.setName("Rejet par metier"); suivi.addRejet(date,matRejetBis); } - } -} + } + } -writeln("fin de affecterCaptureRejetTailleMin"); + writeln("fin de affecterCaptureRejetTailleMin"); - //on a affecte une fois cette meta pop au rejet il ne faut pas le refaire -} + //on a affecte une fois cette meta pop au rejet il ne faut pas le refaire + } -return p.gestionMetier; -*/ + return p.gestionMetier; + */ } } Modified: trunk/scripts/GravityModel.java =================================================================== --- trunk/scripts/GravityModel.java 2009-04-28 13:31:17 UTC (rev 124) +++ trunk/scripts/GravityModel.java 2009-04-28 13:43:11 UTC (rev 125) @@ -31,7 +31,6 @@ package scripts; -import static org.codelutin.i18n.I18n._; import static org.codelutin.i18n.I18n.n_; import java.util.Collection; @@ -58,17 +57,16 @@ import fr.ifremer.isisfish.types.Month; import fr.ifremer.isisfish.types.TimeUnit; - /** * @author poussin - * + * */ public class GravityModel { /** to use log facility, just put in your code: log.info("..."); */ static private Log log = LogFactory.getLog(GravityModel.class); - + protected SimulationContext context = null; protected TopiaContext db = null; protected SiMatrix siMatrix = null; @@ -76,20 +74,24 @@ /** * Method used to get GravityModel used for simulation - * @param context context simulation + * + * @param context + * context simulation * @return GravityModel or null if no GravityModel created for simulation */ public static GravityModel getGravityModel(SimulationContext context) { - GravityModel result = (GravityModel)context.getValue(GravityModel.class.getName()); + GravityModel result = (GravityModel) context + .getValue(GravityModel.class.getName()); return result; } - - private static void setGravityModel(SimulationContext context, GravityModel gravityModel) { + + private static void setGravityModel(SimulationContext context, + GravityModel gravityModel) { context.setValue(GravityModel.class.getName(), gravityModel); } - - - public GravityModel(SimulationContext context, SiMatrix siMatrix) throws TopiaException, StorageException{ + + public GravityModel(SimulationContext context, SiMatrix siMatrix) + throws TopiaException, StorageException { this.context = context; this.db = context.getDB(); this.resultManager = context.getSimulationStorage().getResultStorage(); @@ -105,82 +107,85 @@ // MatrixFishingTimePerMonthPerVessel ////////////////////////////////////////////////////////////////////// - public MatrixND matrixFishingTimePerMonthPerVessel(Date date) throws TopiaException{ + public MatrixND matrixFishingTimePerMonthPerVessel(Date date) + throws TopiaException { List<Strategy> strategies = siMatrix.getStrategies(date); List<Metier> metiers = siMatrix.getMetiers(date); MatrixND result = MatrixFactory.getInstance().create( ResultName.MATRIX_FISHING_TIME_PER_MONTH_PER_VESSEL, - new List[]{strategies, metiers}, - new String[]{n_("Strategies"), n_("Metiers")}); + new List[] { strategies, metiers }, + new String[] { n_("Strategies"), n_("Metiers") }); - for (int s=0; s < strategies.size(); s++) { + for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); metiers = siMatrix.getMetiers(str, date); - for (int m=0; m < metiers.size(); m++) { + for (int m = 0; m < metiers.size(); m++) { Metier metier = metiers.get(m); double value = fishingTimePerMonthPerVessel(str, metier, date); result.setValue(str, metier, value); } } - -// for(Strategy str : strategies){ -// metiers = siMatrix.getMetiers(str, date); -// for(Metier metier : metiers) { -// double value = fishingTimePerMonthPerVessel(str, metier, date); -// result.setValue(str, metier, value); -// } -// } + // for(Strategy str : strategies){ + // metiers = siMatrix.getMetiers(str, date); + // for(Metier metier : metiers) { + // double value = fishingTimePerMonthPerVessel(str, metier, date); + // result.setValue(str, metier, value); + // } + // } + return result; } /** * implant� suivant document ModifTable3PourBP25-07-2006.doc - * FishingTimePerMonthPerVessel[str,met,month] = FishingTimePerTrip[str,met,month]NbTripsPerMonth[str,month] - + * FishingTimePerMonthPerVessel[str,met,month] = + * FishingTimePerTrip[str,met,month]NbTripsPerMonth[str,month] + * * @param str * @param metier * @param date * @return */ - private double fishingTimePerMonthPerVessel(Strategy str, Metier metier, Date date) { - Month month = date.getMonth(); - double timePerTrip = siMatrix.fishingTimePerTrip(str, metier, date); - double nbTrip = str.getStrategyMonthInfo(month).getNumberOfTrips(); - return timePerTrip * nbTrip; - } + private double fishingTimePerMonthPerVessel(Strategy str, Metier metier, + Date date) { + Month month = date.getMonth(); + double timePerTrip = siMatrix.fishingTimePerTrip(str, metier, date); + double nbTrip = str.getStrategyMonthInfo(month).getNumberOfTrips(); + return timePerTrip * nbTrip; + } - ////////////////////////////////////////////////////////////////////// // matrixFuelCostsOfTravelPerVessel ////////////////////////////////////////////////////////////////////// - public MatrixND matrixFuelCostsOfTravelPerVessel(Date date) throws TopiaException{ + public MatrixND matrixFuelCostsOfTravelPerVessel(Date date) + throws TopiaException { List<Strategy> strategies = siMatrix.getStrategies(date); List<Metier> metiers = siMatrix.getMetiers(date); MatrixND result = MatrixFactory.getInstance().create( ResultName.MATRIX_FUEL_COSTS_OF_TRAVEL_PER_VESSEL, - new List[]{strategies, metiers}, - new String[]{n_("Strategies"), n_("Metiers")}); + new List[] { strategies, metiers }, + new String[] { n_("Strategies"), n_("Metiers") }); - for (int s=0; s < strategies.size(); s++) { + for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); metiers = siMatrix.getMetiers(str, date); - for (int m=0; m < metiers.size(); m++) { + for (int m = 0; m < metiers.size(); m++) { Metier metier = metiers.get(m); double value = fuelCostsOfTravelPerVessel(str, metier, date); result.setValue(str, metier, value); } } -// for(Strategy str : strategies){ -// metiers = siMatrix.getMetiers(str, date); -// for(Metier metier : metiers) { -// double value = fuelCostsOfTravelPerVessel(str, metier, date); -// result.setValue(str, metier, value); -// } -// } + // for(Strategy str : strategies){ + // metiers = siMatrix.getMetiers(str, date); + // for(Metier metier : metiers) { + // double value = fuelCostsOfTravelPerVessel(str, metier, date); + // result.setValue(str, metier, value); + // } + // } return result; } @@ -188,20 +193,23 @@ /** * implant� suivant document ModifTable3PourBP25-07-2006.doc * FuelCostsOfTravelPerVessel[sov,met,month]�=�NbTripsPerMonth[str,month]*TravelTimePerTrip[sov,met,month]*UnitFuelCostsOfTravel[vt] - * + * * @param str * @param metier * @param date * @return */ - private double fuelCostsOfTravelPerVessel(Strategy str, Metier metier, Date date) { + private double fuelCostsOfTravelPerVessel(Strategy str, Metier metier, + Date date) { Month month = date.getMonth(); double nbTrip = str.getStrategyMonthInfo(month).getNumberOfTrips(); Collection<Zone> zone = metier.getMetierSeasonInfo(month).getZone(); // TODO: verifier que travelTime est bien en heure, car le unitFuelCost est l'unite par heure - double travelTime = siMatrix.travelTimePerTrip(str.getSetOfVessels(), zone); - double unitFuelCost = str.getSetOfVessels().getVesselType().getUnitFuelCostOfTravel(); + double travelTime = siMatrix.travelTimePerTrip(str.getSetOfVessels(), + zone); + double unitFuelCost = str.getSetOfVessels().getVesselType() + .getUnitFuelCostOfTravel(); return nbTrip * travelTime * unitFuelCost; } @@ -210,94 +218,101 @@ // matrixCostsOfFishingPerVessel ////////////////////////////////////////////////////////////////////// - public MatrixND matrixCostsOfFishingPerVessel(Date date) throws TopiaException{ + public MatrixND matrixCostsOfFishingPerVessel(Date date) + throws TopiaException { List<Strategy> strategies = siMatrix.getStrategies(date); List<Metier> metiers = siMatrix.getMetiers(date); MatrixND result = MatrixFactory.getInstance().create( ResultName.MATRIX_COSTS_OF_FISHING_PER_VESSEL, - new List[]{strategies, metiers}, - new String[]{n_("Strategies"), n_("Metiers")}); + new List[] { strategies, metiers }, + new String[] { n_("Strategies"), n_("Metiers") }); - for (int s=0; s < strategies.size(); s++) { + for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); metiers = siMatrix.getMetiers(str, date); - for (int m=0; m < metiers.size(); m++) { + for (int m = 0; m < metiers.size(); m++) { Metier metier = metiers.get(m); double value = costsOfFishingPerVessel(str, metier, date); result.setValue(str, metier, value); } } -// for(Strategy str : strategies){ -// metiers = siMatrix.getMetiers(str, date); -// for(Metier metier : metiers) { -// double value = costsOfFishingPerVessel(str, metier, date); -// result.setValue(str, metier, value); -// } -// } + // for(Strategy str : strategies){ + // metiers = siMatrix.getMetiers(str, date); + // for(Metier metier : metiers) { + // double value = costsOfFishingPerVessel(str, metier, date); + // result.setValue(str, metier, value); + // } + // } return result; } /** * implant� suivant document ModifTable3PourBP25-07-2006.doc - * CostsOfFishingPerVessel[str,met,month]= FishingTimePerMonthPerVessel [str,met,month] {NbFishingOperationsPerDay[sov,met] UnitCostsOfFishing[sov,met] / 24} + * CostsOfFishingPerVessel[str,met,month]= FishingTimePerMonthPerVessel + * [str,met,month] {NbFishingOperationsPerDay[sov,met] + * UnitCostsOfFishing[sov,met] / 24} * * @param str * @param metier * @param date * @return */ - private double costsOfFishingPerVessel(Strategy str, Metier metier, Date date) { + private double costsOfFishingPerVessel(Strategy str, Metier metier, + Date date) { double fishingTime = fishingTimePerMonthPerVessel(str, metier, date); - EffortDescription effort = str.getSetOfVessels().getPossibleMetiers(metier); + EffortDescription effort = str.getSetOfVessels().getPossibleMetiers( + metier); int nbOperation = 0; double unitCostOfFishing = 0; - if(effort != null){ + if (effort != null) { nbOperation = effort.getFishingOperation(); unitCostOfFishing = effort.getUnitCostOfFishing(); } - return fishingTime * ( nbOperation * unitCostOfFishing / TimeUnit.HOUR_PER_DAY); + return fishingTime + * (nbOperation * unitCostOfFishing / TimeUnit.HOUR_PER_DAY); } ////////////////////////////////////////////////////////////////////// // matrixFuelCostsPerVessel ////////////////////////////////////////////////////////////////////// - - public MatrixND matrixFuelCostsPerVessel(Date date) throws TopiaException{ + + public MatrixND matrixFuelCostsPerVessel(Date date) throws TopiaException { List<Strategy> strategies = siMatrix.getStrategies(date); List<Metier> metiers = siMatrix.getMetiers(date); MatrixND result = MatrixFactory.getInstance().create( ResultName.MATRIX_FUEL_COSTS_PER_VESSEL, - new List[]{strategies, metiers}, - new String[]{n_("Strategies"), n_("Metiers")}); + new List[] { strategies, metiers }, + new String[] { n_("Strategies"), n_("Metiers") }); - for (int s=0; s < strategies.size(); s++) { + for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); metiers = siMatrix.getMetiers(str, date); - for (int m=0; m < metiers.size(); m++) { + for (int m = 0; m < metiers.size(); m++) { Metier metier = metiers.get(m); double value = fuelCostsPerVessel(str, metier, date); result.setValue(str, metier, value); } } -// for(Strategy str : strategies){ -// metiers = siMatrix.getMetiers(str, date); -// for(Metier metier : metiers) { -// double value = fuelCostsPerVessel(str, metier, date); -// result.setValue(str, metier, value); -// } -// } + // for(Strategy str : strategies){ + // metiers = siMatrix.getMetiers(str, date); + // for(Metier metier : metiers) { + // double value = fuelCostsPerVessel(str, metier, date); + // result.setValue(str, metier, value); + // } + // } return result; } /** * implant� suivant document ModifTable3PourBP25-07-2006.doc - * FuelCostsPerVessel[str,met,month] = FuelCostsOfTravelPerVessel [sov,met,month] + CostsOfFishingPerVessel [str,met,month] + * FuelCostsPerVessel[str,met,month] = FuelCostsOfTravelPerVessel + * [sov,met,month] + CostsOfFishingPerVessel [str,met,month] * * @param str * @param metier @@ -314,52 +329,57 @@ ////////////////////////////////////////////////////////////////////// // matrixRepairAndMaintenanceGearCostsPerVessel ////////////////////////////////////////////////////////////////////// - - public MatrixND matrixRepairAndMaintenanceGearCostsPerVessel(Date date) throws TopiaException{ + + public MatrixND matrixRepairAndMaintenanceGearCostsPerVessel(Date date) + throws TopiaException { List<Strategy> strategies = siMatrix.getStrategies(date); List<Metier> metiers = siMatrix.getMetiers(date); MatrixND result = MatrixFactory.getInstance().create( ResultName.MATRIX_REPAIR_AND_MAINTENANCE_GEAR_COSTS_PER_VESSEL, - new List[]{strategies, metiers}, - new String[]{n_("Strategies"), n_("Metiers")}); + new List[] { strategies, metiers }, + new String[] { n_("Strategies"), n_("Metiers") }); - for (int s=0; s < strategies.size(); s++) { + for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); metiers = siMatrix.getMetiers(str, date); - for (int m=0; m < metiers.size(); m++) { + for (int m = 0; m < metiers.size(); m++) { Metier metier = metiers.get(m); - double value = repairAndMaintenanceGearCostsPerVessel(str, metier, date); + double value = repairAndMaintenanceGearCostsPerVessel(str, + metier, date); result.setValue(str, metier, value); } } -// for(Strategy str : strategies){ -// metiers = siMatrix.getMetiers(str, date); -// for(Metier metier : metiers) { -// double value = repairAndMaintenanceGearCostsPerVessel(str, metier, date); -// result.setValue(str, metier, value); -// } -// } + // for(Strategy str : strategies){ + // metiers = siMatrix.getMetiers(str, date); + // for(Metier metier : metiers) { + // double value = repairAndMaintenanceGearCostsPerVessel(str, metier, date); + // result.setValue(str, metier, value); + // } + // } return result; } /** * implant� suivant document ModifTable3PourBP25-07-2006.doc - * RepairAndMaintenanceGearCostsPerVessel[str,met,month]�=�FishingTimePerMonthPerVessel[str,met,month] *RepairAndMaintenanceGearCostsPerDay[sov,met]/NbHoursPerDay + * RepairAndMaintenanceGearCostsPerVessel[str,met,month]�=�FishingTimePerMonthPerVessel[str,met,month] + * *RepairAndMaintenanceGearCostsPerDay[sov,met]/NbHoursPerDay * * @param str * @param metier * @param date * @return */ - private double repairAndMaintenanceGearCostsPerVessel(Strategy str, Metier metier, Date date) { + private double repairAndMaintenanceGearCostsPerVessel(Strategy str, + Metier metier, Date date) { double fishingTime = fishingTimePerMonthPerVessel(str, metier, date); - EffortDescription effort = str.getSetOfVessels().getPossibleMetiers(metier); + EffortDescription effort = str.getSetOfVessels().getPossibleMetiers( + metier); double repair = 0; - if(effort != null){ + if (effort != null) { repair = effort.getRepairAndMaintenanceGearCost(); } // FIXME verifier qu'il faut bien retourner 0, si pas d'effort @@ -369,52 +389,56 @@ ////////////////////////////////////////////////////////////////////// // matrixOtherRunningCostsPerVessel ////////////////////////////////////////////////////////////////////// - - public MatrixND matrixOtherRunningCostsPerVessel(Date date) throws TopiaException{ + + public MatrixND matrixOtherRunningCostsPerVessel(Date date) + throws TopiaException { List<Strategy> strategies = siMatrix.getStrategies(date); List<Metier> metiers = siMatrix.getMetiers(date); MatrixND result = MatrixFactory.getInstance().create( ResultName.MATRIX_OTHER_RUNNING_COSTS_PER_VESSEL, - new List[]{strategies, metiers}, - new String[]{n_("Strategies"), n_("Metiers")}); + new List[] { strategies, metiers }, + new String[] { n_("Strategies"), n_("Metiers") }); - for (int s=0; s < strategies.size(); s++) { + for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); metiers = siMatrix.getMetiers(str, date); - for (int m=0; m < metiers.size(); m++) { + for (int m = 0; m < metiers.size(); m++) { Metier metier = metiers.get(m); double value = otherRunningCostsPerVessel(str, metier, date); result.setValue(str, metier, value); } } -// for(Strategy str : strategies){ -// metiers = siMatrix.getMetiers(str, date); -// for(Metier metier : metiers) { -// double value = otherRunningCostsPerVessel(str, metier, date); -// result.setValue(str, metier, value); -// } -// } + // for(Strategy str : strategies){ + // metiers = siMatrix.getMetiers(str, date); + // for(Metier metier : metiers) { + // double value = otherRunningCostsPerVessel(str, metier, date); + // result.setValue(str, metier, value); + // } + // } return result; } /** * implant� suivant document ModifTable3PourBP25-07-2006.doc - * OtherRunningCostsPerVessel[str,met,month]=�FishingTimePerMonthPerVessel[str,met,month]*OtherRunningCostsPerDay[sov,met]/ NbHoursPerDay + * OtherRunningCostsPerVessel[str,met,month]=�FishingTimePerMonthPerVessel[str,met,month]*OtherRunningCostsPerDay[sov,met]/ + * NbHoursPerDay * * @param str * @param metier * @param date * @return */ - private double otherRunningCostsPerVessel(Strategy str, Metier metier, Date date) { + private double otherRunningCostsPerVessel(Strategy str, Metier metier, + Date date) { double fishingTime = fishingTimePerMonthPerVessel(str, metier, date); - EffortDescription effort = str.getSetOfVessels().getPossibleMetiers(metier); + EffortDescription effort = str.getSetOfVessels().getPossibleMetiers( + metier); double otherCosts = 0; - if(effort != null){ + if (effort != null) { otherCosts = effort.getOtherRunningCost(); } // FIXME verifier qu'il faut bien retourner 0, si pas d'effort @@ -424,156 +448,170 @@ ////////////////////////////////////////////////////////////////////// // matrixSharedNotFixedCostsPerVessel ////////////////////////////////////////////////////////////////////// - - public MatrixND matrixSharedNotFixedCostsPerVessel(Date date) throws TopiaException{ + + public MatrixND matrixSharedNotFixedCostsPerVessel(Date date) + throws TopiaException { List<Strategy> strategies = siMatrix.getStrategies(date); List<Metier> metiers = siMatrix.getMetiers(date); MatrixND result = MatrixFactory.getInstance().create( ResultName.MATRIX_SHARED_NOT_FIXED_COSTS_PER_VESSEL, - new List[]{strategies, metiers}, - new String[]{n_("Strategies"), n_("Metiers")}); + new List[] { strategies, metiers }, + new String[] { n_("Strategies"), n_("Metiers") }); - for (int s=0; s < strategies.size(); s++) { + for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); metiers = siMatrix.getMetiers(str, date); - for (int m=0; m < metiers.size(); m++) { + for (int m = 0; m < metiers.size(); m++) { Metier metier = metiers.get(m); double value = sharedNotFixedCostsPerVessel(str, metier, date); result.setValue(str, metier, value); } } -// for(Strategy str : strategies){ -// metiers = siMatrix.getMetiers(str, date); -// for(Metier metier : metiers) { -// double value = sharedNotFixedCostsPerVessel(str, metier, date); -// result.setValue(str, metier, value); -// } -// } + // for(Strategy str : strategies){ + // metiers = siMatrix.getMetiers(str, date); + // for(Metier metier : metiers) { + // double value = sharedNotFixedCostsPerVessel(str, metier, date); + // result.setValue(str, metier, value); + // } + // } return result; } /** * implant� suivant document ModifTable3PourBP25-07-2006.doc - * SharedNotFixedCostsPerVessel[str,met,month]=�FuelCostsPerVessel[str,met,month] +�OtherRunningCostsPerVessel[str,met,month] - * + * SharedNotFixedCostsPerVessel[str,met,month]=�FuelCostsPerVessel[str,met,month] + * +�OtherRunningCostsPerVessel[str,met,month] + * * @param str * @param metier * @param date * @return */ - private double sharedNotFixedCostsPerVessel(Strategy str, Metier metier, Date date) { + private double sharedNotFixedCostsPerVessel(Strategy str, Metier metier, + Date date) { double fuelCostsPerVessel = fuelCostsPerVessel(str, metier, date); - double otherRunningCostsPerVessel = otherRunningCostsPerVessel(str, metier, date); + double otherRunningCostsPerVessel = otherRunningCostsPerVessel(str, + metier, date); return fuelCostsPerVessel + otherRunningCostsPerVessel; - } + } ////////////////////////////////////////////////////////////////////// // matrixSharedFixedCostsPerVesselPerMet ////////////////////////////////////////////////////////////////////// -// Supprime avec Steph le 20070227 -// public MatrixND matrixSharedFixedCostsPerVesselPerMet(Date date) throws TopiaException{ -// List<Strategy> strategies = siMatrix.getStrategies(date); -// -// MatrixND result = MatrixFactory.getInstance().create( -// ResultName.MATRIX_SHARED_FIXED_COSTS_PER_VESSEL_PER_MET, -// new List[]{strategies}, -// new String[]{n_("Strategies")}); -// -// for (int s=0; s < strategies.size(); s++) { -// Strategy str = strategies.get(s); -// double value = sharedFixedCostsPerVesselPerMet(str, date); -// result.setValue(s, value); -// } -//// for(Strategy str : strategies){ -//// double value = sharedFixedCostsPerVesselPerMet(str, date); -//// result.setValue(str, value); -//// } -// -// return result; -// } -// -// /** -// * implant� suivant document ModifTable3PourBP25-07-2006.doc -// * SharedFixedCostsPerVesselPerMet [str,month]=FixedCostsPerMonth[sov]/NbMet[sov] -// * -// * @param str -// * @param date -// * @return -// */ -// private double sharedFixedCostsPerVesselPerMet(Strategy str, Date date) { -// SetOfVessels sov = str.getSetOfVessels(); -// double fixedCosts = sov.getFixedCosts(); -// int nbMet = sov.sizePossibleMetiers(); -// -// return fixedCosts / (double)nbMet; -// } + // Supprime avec Steph le 20070227 + // public MatrixND matrixSharedFixedCostsPerVesselPerMet(Date date) throws TopiaException{ + // List<Strategy> strategies = siMatrix.getStrategies(date); + // + // MatrixND result = MatrixFactory.getInstance().create( + // ResultName.MATRIX_SHARED_FIXED_COSTS_PER_VESSEL_PER_MET, + // new List[]{strategies}, + // new String[]{n_("Strategies")}); + // + // for (int s=0; s < strategies.size(); s++) { + // Strategy str = strategies.get(s); + // double value = sharedFixedCostsPerVesselPerMet(str, date); + // result.setValue(s, value); + // } + //// for(Strategy str : strategies){ + //// double value = sharedFixedCostsPerVesselPerMet(str, date); + //// result.setValue(str, value); + //// } + // + // return result; + // } + // + // /** + // * implant� suivant document ModifTable3PourBP25-07-2006.doc + // * SharedFixedCostsPerVesselPerMet [str,month]=FixedCostsPerMonth[sov]/NbMet[sov] + // * + // * @param str + // * @param date + // * @return + // */ + // private double sharedFixedCostsPerVesselPerMet(Strategy str, Date date) { + // SetOfVessels sov = str.getSetOfVessels(); + // double fixedCosts = sov.getFixedCosts(); + // int nbMet = sov.sizePossibleMetiers(); + // + // return fixedCosts / (double)nbMet; + // } ////////////////////////////////////////////////////////////////////// // matrixGrossValueOfLandingsPerSpeciesPerStrategyMet ////////////////////////////////////////////////////////////////////// - - public MatrixND matrixGrossValueOfLandingsPerSpeciesPerStrategyMet(Date date) throws TopiaException{ + public MatrixND matrixGrossValueOfLandingsPerSpeciesPerStrategyMet(Date date) + throws TopiaException { List<Strategy> strategies = siMatrix.getStrategies(date); List<Metier> metiers = siMatrix.getMetiers(date); List<Population> pops = siMatrix.getPopulations(date); - MatrixND result = MatrixFactory.getInstance().create( - ResultName.MATRIX_GROSS_VALUE_OF_LANDINGS_PER_SPECIES_PER_STRATEGY_MET, - new List[]{strategies, metiers, pops}, - new String[]{n_("Strategies"), n_("Metiers"), n_("Populations")}); + MatrixND result = MatrixFactory + .getInstance() + .create( + ResultName.MATRIX_GROSS_VALUE_OF_LANDINGS_PER_SPECIES_PER_STRATEGY_MET, + new List[] { strategies, metiers, pops }, + new String[] { n_("Strategies"), n_("Metiers"), + n_("Populations") }); - for (int p=0; p < pops.size(); p++) { + for (int p = 0; p < pops.size(); p++) { Population pop = pops.get(p); - for (int s=0; s < strategies.size(); s++) { + for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); metiers = siMatrix.getMetiers(str, date); - for (int m=0; m < metiers.size(); m++) { + for (int m = 0; m < metiers.size(); m++) { Metier metier = metiers.get(m); - double value = grossValueOfLandingsPerSpeciesPerStrategyMet(str, metier, pop, date); + double value = grossValueOfLandingsPerSpeciesPerStrategyMet( + str, metier, pop, date); result.setValue(str, metier, pop, value); } } } -// for(Population pop : pops){ -// for(Strategy str : strategies){ -// metiers = siMatrix.getMetiers(str, date); -// for(Metier metier : metiers) { -// double value = grossValueOfLandingsPerSpeciesPerStrategyMet(str, metier, pop, date); -// result.setValue(str, metier, pop, value); -// } -// } -// } + // for(Population pop : pops){ + // for(Strategy str : strategies){ + // metiers = siMatrix.getMetiers(str, date); + // for(Metier metier : metiers) { + // double value = grossValueOfLandingsPerSpeciesPerStrategyMet(str, metier, pop, date); + // result.setValue(str, metier, pop, value); + // } + // } + // } return result; } /** * implant� suivant document ModifTable3PourBP25-07-2006.doc - * GrossValueOfLandingsPerSpeciesPerStrategyMet[str,met,pop,month]�=�sum over classes_cl of [PricePerKg(pop,cl, t)* (CatchWeightPerStrategyMet [str,met,pop,cl,month] ?DiscardsWeightPerStrategyMet [str,met,pop,cl,mo -nth] - * GrossValueOfLandingsPerSpeciesPerStrategyMet[str,met,pop,month] = sum over classes_cl of [PricePerKg(pop,cl, t)* (CatchWeightPerStrategyMet [str,met,pop,cl,month] -DiscardsWeightPerStrategyMet [str,met,pop,cl,mo -nth])] - * + * GrossValueOfLandingsPerSpeciesPerStrategyMet[str,met,pop,month]�=�sum + * over classes_cl of [PricePerKg(pop,cl, t)* (CatchWeightPerStrategyMet + * [str,met,pop,cl,month] ?DiscardsWeightPerStrategyMet [str,met,pop,cl,mo + * nth] GrossValueOfLandingsPerSpeciesPerStrategyMet[str,met,pop,month] = + * sum over classes_cl of [PricePerKg(pop,cl, t)* (CatchWeightPerStrategyMet + * [str,met,pop,cl,month] -DiscardsWeightPerStrategyMet [str,met,pop,cl,mo + * nth])] + * * @param str * @param metier * @param pop * @param date * @return */ - private double grossValueOfLandingsPerSpeciesPerStrategyMet(Strategy str, Metier metier, Population pop, Date date) { + private double grossValueOfLandingsPerSpeciesPerStrategyMet(Strategy str, + Metier metier, Population pop, Date date) { List<PopulationGroup> groups = pop.getPopulationGroup(); double result = 0; - for(PopulationGroup group : groups){ + for (PopulationGroup group : groups) { double price = group.getPrice(); Collection<Zone> zones = pop.getPopulationZone(); - for(Zone zone : zones){ - double catchWeight = getCatchWeightPerStrMetPerZonePop(str, metier, group, zone, date); - double discardsWeight = getDiscardsWeightPerStrMet(str, metier, group, zone, date); + for (Zone zone : zones) { + double catchWeight = getCatchWeightPerStrMetPerZonePop(str, + metier, group, zone, date); + double discardsWeight = getDiscardsWeightPerStrMet(str, metier, + group, zone, date); // FIXME demander/verifier que ce le bon calcule result += price * (catchWeight - discardsWeight); } @@ -589,10 +627,12 @@ * @param date * @return */ - private double getCatchWeightPerStrMetPerZonePop(Strategy str, Metier metier, PopulationGroup group, Zone zone, Date date) { - MatrixND mat = resultManager.getMatrix(date, group.getPopulation(), ResultName.MATRIX_CATCH_WEIGHT_PER_STRATEGY_MET_PER_ZONE_POP); - double result = 0; - if(mat != null){ + private double getCatchWeightPerStrMetPerZonePop(Strategy str, + Metier metier, PopulationGroup group, Zone zone, Date date) { + MatrixND mat = resultManager.getMatrix(date, group.getPopulation(), + ResultName.MATRIX_CATCH_WEIGHT_PER_STRATEGY_MET); + double result = 0; + if (mat != null) { result = mat.getValue(str, metier, group, zone); } return result; @@ -606,10 +646,12 @@ * @param date * @return */ - private double getDiscardsWeightPerStrMet(Strategy str, Metier metier, PopulationGroup group, Zone zone, Date date) { - MatrixND mat = resultManager.getMatrix(date, group.getPopulation(), ResultName.MATRIX_DISCARDS_WEIGHT_PER_STR_MET_PER_ZONE_POP); - double result = 0; - if(mat != null){ + private double getDiscardsWeightPerStrMet(Strategy str, Metier metier, + PopulationGroup group, Zone zone, Date date) { + MatrixND mat = resultManager.getMatrix(date, group.getPopulation(), + ResultName.MATRIX_DISCARDS_WEIGHT_PER_STR_MET); + double result = 0; + if (mat != null) { result = mat.getValue(str, metier, group, zone); } return result; @@ -618,33 +660,35 @@ ////////////////////////////////////////////////////////////////////// // matrixGrossValueOfLandingsPerStrategyMet ////////////////////////////////////////////////////////////////////// - - public MatrixND matrixGrossValueOfLandingsPerStrategyMet(Date date) throws TopiaException{ + + public MatrixND matrixGrossValueOfLandingsPerStrategyMet(Date date) + throws TopiaException { List<Strategy> strategies = siMatrix.getStrategies(date); List<Metier> metiers = siMatrix.getMetiers(date); MatrixND result = MatrixFactory.getInstance().create( ResultName.MATRIX_GROSS_VALUE_OF_LANDINGS_PER_STRATEGY_MET, - new List[]{strategies, metiers}, - new String[]{n_("Strategies"), n_("Metiers")}); + new List[] { strategies, metiers }, + new String[] { n_("Strategies"), n_("Metiers") }); - for (int s=0; s < strategies.size(); s++) { + for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); metiers = siMatrix.getMetiers(str, date); - for (int m=0; m < metiers.size(); m++) { + for (int m = 0; m < metiers.size(); m++) { Metier metier = metiers.get(m); - double value = grossValueOfLandingsPerStrategyMet(str, metier, date); + double value = grossValueOfLandingsPerStrategyMet(str, metier, + date); result.setValue(str, metier, value); } } -// for(Strategy str : strategies){ -// metiers = siMatrix.getMetiers(str, date); -// for(Metier metier : metiers) { -// double value = grossValueOfLandingsPerStrategyMet(str, metier, date); -// result.setValue(str, metier, value); -// } -// } - + // for(Strategy str : strategies){ + // metiers = siMatrix.getMetiers(str, date); + // for(Metier metier : metiers) { + // double value = grossValueOfLandingsPerStrategyMet(str, metier, date); + // result.setValue(str, metier, value); + // } + // } + return result; } @@ -653,14 +697,16 @@ * @param metier * @param date * @return - * @throws TopiaException + * @throws TopiaException */ - private double grossValueOfLandingsPerStrategyMet(Strategy str, Metier metier, Date date) throws TopiaException { + private double grossValueOfLandingsPerStrategyMet(Strategy str, + Metier metier, Date date) throws TopiaException { List<Population> pops = siMatrix.getPopulations(date); double result = 0; - for(int i=0; i<pops.size(); i++){ - Population pop = (Population)pops.get(i); - result += grossValueOfLandingsPerSpeciesPerStrategyMet(str, metier, pop, date); + for (int i = 0; i < pops.size(); i++) { + Population pop = (Population) pops.get(i); + result += grossValueOfLandingsPerSpeciesPerStrategyMet(str, metier, + pop, date); } return result; } @@ -668,87 +714,97 @@ ////////////////////////////////////////////////////////////////////// // matrixGrossValueOfLandingsPerStrategyMetPerVessel ////////////////////////////////////////////////////////////////////// - - public MatrixND matrixGrossValueOfLandingsPerStrategyMetPerVessel(Date date) throws TopiaException{ + + public MatrixND matrixGrossValueOfLandingsPerStrategyMetPerVessel(Date date) + throws TopiaException { List<Strategy> strategies = siMatrix.getStrategies(date); List<Metier> metiers = siMatrix.getMetiers(date); - MatrixND result = MatrixFactory.getInstance().create( - ResultName.MATRIX_GROSS_VALUE_OF_LANDINGS_PER_STRATEGY_MET_PER_VESSEL, - new List[]{strategies, metiers}, - new String[]{n_("Strategies"), n_("Metiers")}); + MatrixND result = MatrixFactory + .getInstance() + .create( + ResultName.MATRIX_GROSS_VALUE_OF_LANDINGS_PER_STRATEGY_MET_PER_VESSEL, + new List[] { strategies, metiers }, + new String[] { n_("Strategies"), n_("Metiers") }); - for (int s=0; s < strategies.size(); s++) { + for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); metiers = siMatrix.getMetiers(str, date); - for (int m=0; m < metiers.size(); m++) { + for (int m = 0; m < metiers.size(); m++) { Metier metier = metiers.get(m); - double value = grossValueOfLandingsPerStrategyMetPerVessel(str, metier, date); + double value = grossValueOfLandingsPerStrategyMetPerVessel(str, + metier, date); result.setValue(str, metier, value); } } -// for(Strategy str : strategies){ -// metiers = siMatrix.getMetiers(str, date); -// for(Metier metier : metiers) { -// double value = grossValueOfLandingsPerStrategyMetPerVessel(str, metier, date); -// result.setValue(str, metier, value); -// } -// } + // for(Strategy str : strategies){ + // metiers = siMatrix.getMetiers(str, date); + // for(Metier metier : metiers) { + // double value = grossValueOfLandingsPerStrategyMetPerVessel(str, metier, date); + // result.setValue(str, metier, value); + // } + // } return result; } /** * implant� suivant document ModifTable3PourBP25-07-2006.doc - * GrossValueOfLandingsPerStrategyMetPerVessel[str,met,month]�= GrossValueOfLandingsPerStrategyMet[str,met,month]�/[PropNbVessels(str,sov)*NbVesselsSetOfVessels(sov)] + * GrossValueOfLandingsPerStrategyMetPerVessel[str,met,month]�= + * GrossValueOfLandingsPerStrategyMet[str,met,month]�/[PropNbVessels(str,sov)*NbVesselsSetOfVessels(sov)] * * @param str * @param metier * @param date * @return - * @throws TopiaException + * @throws TopiaException */ - private double grossValueOfLandingsPerStrategyMetPerVessel(Strategy str, Metier metier, Date date) throws TopiaException { - double grossValueOfLandingsPerStrategyMet = grossValueOfLandingsPerStrategyMet(str, metier, date); + private double grossValueOfLandingsPerStrategyMetPerVessel(Strategy str, + Metier metier, Date date) throws TopiaException { + double grossValueOfLandingsPerStrategyMet = grossValueOfLandingsPerStrategyMet( + str, metier, date); // FIXME verifier que c bien cette donn�e qu'il faut utiliser dans le doc: PropNbVessels(str, sov) double proportionSetOfVessels = str.getProportionSetOfVessels(); double numberOfVessels = str.getSetOfVessels().getNumberOfVessels(); - double grossValueOfLandingsOtherSpeciesPerStrategyMet = grossValueOfLandingsOtherSpeciesPerStrategyMet(str,metier,date); + double grossValueOfLandingsOtherSpeciesPerStrategyMet = grossValueOfLandingsOtherSpeciesPerStrategyMet( + str, metier, date); - - return (grossValueOfLandingsPerStrategyMet + grossValueOfLandingsOtherSpeciesPerStrategyMet) / (proportionSetOfVessels * numberOfVessels); + return (grossValueOfLandingsPerStrategyMet + grossValueOfLandingsOtherSpeciesPerStrategyMet) + / (proportionSetOfVessels * numberOfVessels); } ////////////////////////////////////////////////////////////////////// // matrixNetValueOfLandingsPerStrategyMet ////////////////////////////////////////////////////////////////////// - - public MatrixND matrixNetValueOfLandingsPerStrategyMet(Date date) throws TopiaException{ + + public MatrixND matrixNetValueOfLandingsPerStrategyMet(Date date) + throws TopiaException { List<Strategy> strategies = siMatrix.getStrategies(date); List<Metier> metiers = siMatrix.getMetiers(date); MatrixND result = MatrixFactory.getInstance().create( ResultName.MATRIX_NET_VALUE_OF_LANDINGS_PER_STRATEGY_MET, - new List[]{strategies, metiers}, - new String[]{n_("Strategies"), n_("Metiers")}); + new List[] { strategies, metiers }, + new String[] { n_("Strategies"), n_("Metiers") }); - for (int s=0; s < strategies.size(); s++) { + for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); metiers = siMatrix.getMetiers(str, date); - for (int m=0; m < metiers.size(); m++) { + for (int m = 0; m < metiers.size(); m++) { Metier metier = metiers.get(m); - double value = netValueOfLandingsPerStrategyMet(str, metier, date); + double value = netValueOfLandingsPerStrategyMet(str, metier, + date); result.setValue(str, metier, value); } } -// for(Strategy str : strategies){ -// metiers = siMatrix.getMetiers(str, date); -// for(Metier metier : metiers) { -// double value = netValueOfLandingsPerStrategyMet(str, metier, date); -// result.setValue(str, metier, value); -// } -// } + // for(Strategy str : strategies){ + // metiers = siMatrix.getMetiers(str, date); + // for(Metier metier : metiers) { + // double value = netValueOfLandingsPerStrategyMet(str, metier, date); + // result.setValue(str, metier, value); + // } + // } return result; } @@ -761,61 +817,70 @@ * @param metier * @param date * @return - * @throws TopiaException + * @throws TopiaException */ - private double netValueOfLandingsPerStrategyMet(Strategy str, Metier metier, Date date) throws TopiaException { - double grossValue = grossValueOfLandingsPerStrategyMet(str, metier, date); - EffortDescription effort = str.getSetOfVessels().getPossibleMetiers(metier); + private double netValueOfLandingsPerStrategyMet(Strategy str, + Metier metier, Date date) throws TopiaException { + double grossValue = grossValueOfLandingsPerStrategyMet(str, metier, + date); + EffortDescription effort = str.getSetOfVessels().getPossibleMetiers( + metier); double landingCost = 1; // FIXME demander si le metier n'a pas d'effort s'il faut que landingCost soit bien a 1 - if(effort != null){ + if (effort != null) { landingCost -= effort.getLandingCosts(); } - double grossValueOfLandingsOtherSpeciesPerStrategyMet = grossValueOfLandingsOtherSpeciesPerStrategyMet(str,metier,date); - - double result = (grossValue + grossValueOfLandingsOtherSpeciesPerStrategyMet)* landingCost; + double grossValueOfLandingsOtherSpeciesPerStrategyMet = grossValueOfLandingsOtherSpeciesPerStrategyMet( + str, metier, date); + + double result = (grossValue + grossValueOfLandingsOtherSpeciesPerStrategyMet) + * landingCost; return result; - } + } - private double grossValueOfLandingsOtherSpeciesPerStrategyMet(Strategy str, Metier metier, Date date) throws TopiaException { + private double grossValueOfLandingsOtherSpeciesPerStrategyMet(Strategy str, + Metier metier, Date date) throws TopiaException { // FIXME evaluer l'equation dans suivant le doc des equations return 0; } - + ////////////////////////////////////////////////////////////////////// // matrixNetValueOfLandingsPerStrategyMetPerVessel ////////////////////////////////////////////////////////////////////// - - public MatrixND matrixNetValueOfLandingsPerStrategyMetPerVessel(Date date) throws TopiaException{ + + public MatrixND matrixNetValueOfLandingsPerStrategyMetPerVessel(Date date) + throws TopiaException { List<Strategy> strategies = siMatrix.getStrategies(date); List<Metier> metiers = siMatrix.getMetiers(date); - MatrixND result = MatrixFactory.getInstance().create( - ResultName.MATRIX_NET_VALUE_OF_LANDINGS_PER_STRATEGY_MET_PER_VESSEL, - new List[]{strategies, metiers}, - new String[]{n_("Strategies"), n_("Metiers")}); + MatrixND result = MatrixFactory + .getInstance() + .create( + ResultName.MATRIX_NET_VALUE_OF_LANDINGS_PER_STRATEGY_MET_PER_VESSEL, + new List[] { strategies, metiers }, + new String[] { n_("Strategies"), n_("Metiers") }); - for (int s=0; s < strategies.size(); s++) { + for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); metiers = siMatrix.getMetiers(str, date); - for (int m=0; m < metiers.size(); m++) { + for (int m = 0; m < metiers.size(); m++) { Metier metier = metiers.get(m); - double value = netValueOfLandingsPerStrategyMetPerVessel(str, metier, date); + double value = netValueOfLandingsPerStrategyMetPerVessel(str, + metier, date); result.setValue(str, metier, value); } } -// for(Strategy str : strategies){ -// metiers = siMatrix.getMetiers(str, date); -// for(Metier metier : metiers) { -// double value = netValueOfLandingsPerStrategyMetPerVessel(str, metier, date); -// result.setValue(str, metier, value); -// } -// } + // for(Strategy str : strategies){ + // metiers = siMatrix.getMetiers(str, date); + // for(Metier metier : metiers) { + // double value = netValueOfLandingsPerStrategyMetPerVessel(str, metier, date); + // result.setValue(str, metier, value); + // } + // } return result; } - /** * implant� suivant document ModifTable3PourBP25-07-2006.doc @@ -825,104 +890,118 @@ * @param metier * @param date * @return - * @throws TopiaException + * @throws TopiaException */ - private double netValueOfLandingsPerStrategyMetPerVessel(Strategy str, Metier metier, Date date) throws TopiaException { - double netValueOfLandingsPerStrategyMet = netValueOfLandingsPerStrategyMet(str, metier, date); + private double netValueOfLandingsPerStrategyMetPerVessel(Strategy str, + Metier metier, Date date) throws TopiaException { + double netValueOfLandingsPerStrategyMet = netValueOfLandingsPerStrategyMet( + str, metier, date); // FIXME verifier que c bien cette donn�e qu'il faut utiliser dans le doc: PropNbVessels(str, sov) double proportionSetOfVessels = str.getProportionSetOfVessels(); double numberOfVessels = str.getSetOfVessels().getNumberOfVessels(); - return netValueOfLandingsPerStrategyMet / (proportionSetOfVessels * numberOfVessels); + return netValueOfLandingsPerStrategyMet + / (proportionSetOfVessels * numberOfVessels); } ////////////////////////////////////////////////////////////////////// // matrixNetRenevueToSharePerStrategyMetPerVessel ////////////////////////////////////////////////////////////////////// - - public MatrixND matrixNetRenevueToSharePerStrategyMetPerVessel(Date date) throws TopiaException{ + + public MatrixND matrixNetRenevueToSharePerStrategyMetPerVessel(Date date) + throws TopiaException { List<Strategy> strategies = siMatrix.getStrategies(date); List<Metier> metiers = siMatrix.getMetiers(date); - MatrixND result = MatrixFactory.getInstance().create( - ResultName.MATRIX_NET_RENEVUE_TO_SHARE_PER_STRATEGY_MET_PER_VESSEL, - new List[]{strategies, metiers}, - new String[]{n_("Strategies"), n_("Metiers")}); + MatrixND result = MatrixFactory + .getInstance() + .create( + ResultName.MATRIX_NET_RENEVUE_TO_SHARE_PER_STRATEGY_MET_PER_VESSEL, + new List[] { strategies, metiers }, + new String[] { n_("Strategies"), n_("Metiers") }); - for (int s=0; s < strategies.size(); s++) { + for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); metiers = siMatrix.getMetiers(str, date); - for (int m=0; m < metiers.size(); m++) { + for (int m = 0; m < metiers.size(); m++) { Metier metier = metiers.get(m); - double value = netRenevueToSharePerStrategyMetPerVessel(str, metier, date); + double value = netRenevueToSharePerStrategyMetPerVessel(str, + metier, date); result.setValue(str, metier, value); } } -// for(Strategy str : strategies){ -// metiers = siMatrix.getMetiers(str, date); -// for(Metier metier : metiers) { -// double value = netRenevueToSharePerStrategyMetPerVessel(str, metier, date); -// result.setValue(str, metier, value); -// } -// } + // for(Strategy str : strategies){ + // metiers = siMatrix.getMetiers(str, date); + // for(Metier metier : metiers) { + // double value = netRenevueToSharePerStrategyMetPerVessel(str, metier, date); + // result.setValue(str, metier, value); + // } + // } return result; } /** * implant� suivant document ModifTable3PourBP25-07-2006.doc - * NetRevenueToSharePerStrategyMetPerVessel[str,met,month]�=�NetValueOfLandingsPerStrategyMetPerVessel[str,met,month]�-�SharedNotFixedCostsPerVessel [str,met,month]*PropStr(str,met,month) - SharedFixedCostsPerVessel -PerMet[str,month] - * + * NetRevenueToSharePerStrategyMetPerVessel[str,met,month]�=�NetValueOfLandingsPerStrategyMetPerVessel[str,met,month]�-�SharedNotFixedCostsPerVessel + * [str,met,month]*PropStr(str,met,month) - SharedFixedCostsPerVessel + * PerMet[str,month] + * * @param str * @param metier * @param date * @return - * @throws TopiaException + * @throws TopiaException */ - private double netRenevueToSharePerStrategyMetPerVessel(Strategy str, Metier metier, Date date) throws TopiaException { - double netRenevueToSharePerStrategyMetPerVessel = netValueOfLandingsPerStrategyMetPerVessel(str, metier, date); - double sharedNotFixedCostsPerVessel = sharedNotFixedCostsPerVessel(str, metier, date); - double propStr = str.getStrategyMonthInfo(date.getMonth()).getProportionMetier(metier); + private double netRenevueToSharePerStrategyMetPerVessel(Strategy str, + Metier metier, Date date) throws TopiaException { + double netRenevueToSharePerStrategyMetPerVessel = netValueOfLandingsPerStrategyMetPerVessel( + str, metier, date); + double sharedNotFixedCostsPerVessel = sharedNotFixedCostsPerVessel(str, + metier, date); + double propStr = str.getStrategyMonthInfo(date.getMonth()) + .getProportionMetier(metier); - double result = netRenevueToSharePerStrategyMetPerVessel - sharedNotFixedCostsPerVessel * propStr; + double result = netRenevueToSharePerStrategyMetPerVessel + - sharedNotFixedCostsPerVessel * propStr; return result; } ////////////////////////////////////////////////////////////////////// // matrixCrewSharePerStrategyMetPerVessel ////////////////////////////////////////////////////////////////////// - - public MatrixND matrixCrewSharePerStrategyMetPerVessel(Date date) throws TopiaException{ + + public MatrixND matrixCrewSharePerStrategyMetPerVessel(Date date) + throws TopiaException { List<Strategy> strategies = siMatrix.getStrategies(date); List<Metier> metiers = siMatrix.getMetiers(date); MatrixND result = MatrixFactory.getInstance().create( ResultName.MATRIX_CREW_SHARE_PER_STRATEGY_MET_PER_VESSEL, - new List[]{strategies, metiers}, - new String[]{n_("Strategies"), n_("Metiers")}); + new List[] { strategies, metiers }, + new String[] { n_("Strategies"), n_("Metiers") }); - for (int s=0; s < strategies.size(); s++) { + for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); metiers = siMatrix.getMetiers(str, date); - for (int m=0; m < metiers.size(); m++) { + for (int m = 0; m < metiers.size(); m++) { Metier metier = metiers.get(m); - double value = crewSharePerStrategyMetPerVessel(str, metier, date); + double value = crewSharePerStrategyMetPerVessel(str, metier, + date); result.setValue(str, metier, value); } } -// for(Strategy str : strategies){ -// metiers = siMatrix.getMetiers(str, date); -// for(Metier metier : metiers) { -// double value = crewSharePerStrategyMetPerVessel(str, metier, date); -// result.setValue(str, metier, value); -// } -// } + // for(Strategy str : strategies){ + // metiers = siMatrix.getMetiers(str, date); + // for(Metier metier : metiers) { + // double value = crewSharePerStrategyMetPerVessel(str, metier, date); + // result.setValue(str, metier, value); + // } + // } return result; } - /** * implant� suivant document ModifTable3PourBP25-07-2006.doc * CrewSharePerStrategyMetPerVessel[str,met,month]�=�NetRevenueToSharePerStrategyMetPerVessel[str,met,month]*CrewShareRate[sov,met] @@ -931,170 +1010,200 @@ * @param metier * @param date * @return - * @throws TopiaException + * @throws TopiaException */ - private double crewSharePerStrategyMetPerVessel(Strategy str, Metier metier, Date date) throws TopiaException { - double netRenevueToShare = netRenevueToSharePerStrategyMetPerVessel(str, metier, date); + private double crewSharePerStrategyMetPerVessel(Strategy str, + Metier metier, Date date) throws TopiaException { + double netRenevueToShare = netRenevueToSharePerStrategyMetPerVessel( + str, metier, date); - EffortDescription effort = str.getSetOfVessels().getPossibleMetiers(metier); + EffortDescription effort = str.getSetOfVessels().getPossibleMetiers( + metier); double crewShareRate = 0; - if(effort != null){ + if (effort != null) { crewShareRate = effort.getCrewShareRate(); } // FIXME verifier qu'il faut bien retourner 0, si pas d'effort return netRenevueToShare * crewShareRate; - } + } ////////////////////////////////////////////////////////////////////// // matrixOwnerMarginOverVariableCostsPerStrategyMetPerVessel ////////////////////////////////////////////////////////////////////// - - public MatrixND matrixOwnerMarginOverVariableCostsPerStrategyMetPerVessel(Date date) throws TopiaException{ + + public MatrixND matrixOwnerMarginOverVariableCostsPerStrategyMetPerVessel( + Date date) throws TopiaException { List<Strategy> strategies = siMatrix.getStrategies(date); List<Metier> metiers = siMatrix.getMetiers(date); - MatrixND result = MatrixFactory.getInstance().create( - ResultName.MATRIX_OWNER_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY_MET_PER_VESSEL, - new List[]{strategies, metiers}, - new String[]{n_("Strategies"), n_("Metiers")}); + MatrixND result = MatrixFactory + .getInstance() + .create( + ResultName.MATRIX_OWNER_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY_MET_PER_VESSEL, + new List[] { strategies, metiers }, + new String[] { n_("Strategies"), n_("Metiers") }); - for (int s=0; s < strategies.size(); s++) { + for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); metiers = siMatrix.getMetiers(str, date); - for (int m=0; m < metiers.size(); m++) { + for (int m = 0; m < metiers.size(); m++) { Metier metier = metiers.get(m); - double value = ownerMarginOverVariableCostsPerStrategyMetPerVessel(str, metier, date); + double value = ownerMarginOverVariableCostsPerStrategyMetPerVessel( + str, metier, date); result.setValue(str, metier, value); } } -// for(Strategy str : strategies){ -// metiers = siMatrix.getMetiers(str, date); -// for(Metier metier : metiers) { -// double value = ownerMarginOverVariableCostsPerStrategyMetPerVessel(str, metier, date); -// result.setValue(str, metier, value); -// } -// } + // for(Strategy str : strategies){ + // metiers = siMatrix.getMetiers(str, date); + // for(Metier metier : metiers) { + // double value = ownerMarginOverVariableCostsPerStrategyMetPerVessel(str, metier, date); + // result.setValue(str, metier, value); + // } + // } return result; } - /** - * implant� suivant document ModifTable3PourBP25-07-2006.doc - * OwnerMarginOverVariableCostsPerStrategyMetPerVessel[str,met,month] = NetRevenueToSharePerStrategyMetPerVessel[str,met,month]�- CrewSharePerStrategyMetPerVessel[str,met,month]�- RepairAndMaintenanceGearCostsPerVes -sel[str,met,month]�* PropStr(str,met,month) + * implant� suivant document ModifTable3PourBP25-07-2006.doc + * OwnerMarginOverVariableCostsPerStrategyMetPerVessel[str,met,month] = + * NetRevenueToSharePerStrategyMetPerVessel[str,met,month]�- + * CrewSharePerStrategyMetPerVessel[str,met,month]�- + * RepairAndMaintenanceGearCostsPerVes sel[str,met,month]�* + * PropStr(str,met,month) * * @param str * @param metier * @param date * @return - * @throws TopiaException + * @throws TopiaException */ - private double ownerMarginOverVariableCostsPerStrategyMetPerVessel(Strategy str, Metier metier, Date date) throws TopiaException { - double netRenevueToShare = netRenevueToSharePerStrategyMetPerVessel(str, metier, date); + private double ownerMarginOverVariableCostsPerStrategyMetPerVessel( + Strategy str, Metier metier, Date date) throws TopiaException { + double netRenevueToShare = netRenevueToSharePerStrategyMetPerVessel( + str, metier, date); double crewShare = crewSharePerStrategyMetPerVessel(str, metier, date); - double repair = repairAndMaintenanceGearCostsPerVessel(str, metier, date); - double propStr = str.getStrategyMonthInfo(date.getMonth()).getProportionMetier(metier); + double repair = repairAndMaintenanceGearCostsPerVessel(str, metier, + date); + double propStr = str.getStrategyMonthInfo(date.getMonth()) + .getProportionMetier(metier); return netRenevueToShare - crewShare - repair * propStr; - } + } - ////////////////////////////////////////////////////////////////////// // matrixVesselMarginOverVariableCostsPerStrategyMetPerVessel ////////////////////////////////////////////////////////////////////// - - public MatrixND matrixVesselMarginOverVariableCostsPerStrategyMetPerVessel(Date date) throws TopiaException{ + + public MatrixND matrixVesselMarginOverVariableCostsPerStrategyMetPerVessel( + Date date) throws TopiaException { List<Strategy> strategies = siMatrix.getStrategies(date); List<Metier> metiers = siMatrix.getMetiers(date); - MatrixND result = MatrixFactory.getInstance().create( - ResultName.MATRIX_VESSEL_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY_MET_PER_VESSEL, - new List[]{strategies, metiers}, - new String[]{n_("Strategies"), n_("Metiers")}); + MatrixND result = MatrixFactory + .getInstance() + .create( + ResultName.MATRIX_VESSEL_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY_MET_PER_VESSEL, + new List[] { strategies, metiers }, + new String[] { n_("Strategies"), n_("Metiers") }); - for (int s=0; s < strategies.size(); s++) { + for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); metiers = siMatrix.getMetiers(str, date); - for (int m=0; m < metiers.size(); m++) { + for (int m = 0; m < metiers.size(); m++) { Metier metier = metiers.get(m); - double value = vesselMarginOverVariableCostsPerStrategyMetPerVessel(str, metier, date); + double value = vesselMarginOverVariableCostsPerStrategyMetPerVessel( + str, metier, date); result.setValue(str, metier, value); } } -// for(Strategy str : strategies){ -// metiers = siMatrix.getMetiers(str, date); -// for(Metier metier : metiers) { -// double value = vesselMarginOverVariableCostsPerStrategyMetPerVessel(str, metier, date); -// result.setValue(str, metier, value); -// } -// } + // for(Strategy str : strategies){ + // metiers = siMatrix.getMetiers(str, date); + // for(Metier metier : metiers) { + // double value = vesselMarginOverVariableCostsPerStrategyMetPerVessel(str, metier, date); + // result.setValue(str, metier, value); + // } + // } return result; } /** * implant� suivant document ModifTable3PourBP25-07-2006.doc - * VesselMarginOverVariableCostsPerStrategyMetPerVessel�[str,met,month]�=NetRevenueToSharePerStrategyMetPerVessel[str,met,month]- RepairAndMaintenanceGearCostsPerVessel [str,met,month]�* PropStr(str,met,month) + * VesselMarginOverVariableCostsPerStrategyMetPerVessel�[str,met,month]�=NetRevenueToSharePerStrategyMetPerVessel[str,met,month]- + * RepairAndMaintenanceGearCostsPerVessel [str,met,month]�* + * PropStr(str,met,month) * * @param str * @param metier * @param date * @return - * @throws TopiaException + * @throws TopiaException */ - private double vesselMarginOverVariableCostsPerStrategyMetPerVessel(Strategy str, Metier metier, Date date) throws TopiaException { - double netRenevueToShare = netRenevueToSharePerStrategyMetPerVessel(str, metier, date); - double repair = repairAndMaintenanceGearCostsPerVessel(str, metier, date); - double propStr = str.getStrategyMonthInfo(date.getMonth()).getProportionMetier(metier); + private double vesselMarginOverVariableCostsPerStrategyMetPerVessel( + Strategy str, Metier metier, Date date) throws TopiaException { + double netRenevueToShare = netRenevueToSharePerStrategyMetPerVessel( + str, metier, date); + double repair = repairAndMaintenanceGearCostsPerVessel(str, metier, + date); + double propStr = str.getStrategyMonthInfo(date.getMonth()) + .getProportionMetier(metier); return netRenevueToShare - repair * propStr; - } - + } + ////////////////////////////////////////////////////////////////////// // matrixOwnerMarginOverVariableCostsPerStrategyPerVessel ////////////////////////////////////////////////////////////////////// - - public MatrixND matrixOwnerMarginOverVariableCostsPerStrategyPerVessel(Date date) throws TopiaException{ + + public MatrixND matrixOwnerMarginOverVariableCostsPerStrategyPerVessel( + Date date) throws TopiaException { List<Strategy> strategies = siMatrix.getStrategies(date); - MatrixND result = MatrixFactory.getInstance().create( - ResultName.MATRIX_OWNER_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY_PER_VESSEL, - new List[]{strategies}, - new String[]{n_("Strategies")}); + MatrixND result = MatrixFactory + .getInstance() + .create( + ResultName.MATRIX_OWNER_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY_PER_VESSEL, + new List[] { strategies }, + new String[] { n_("Strategies") }); - for (int s=0; s < strategies.size(); s++) { + for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); - double value = ownerMarginOverVariableCostsPerStrategyPerVessel(str, date); + double value = ownerMarginOverVariableCostsPerStrategyPerVessel( + str, date); result.setValue(s, value); } -// for(Strategy str : strategies){ -// double value = ownerMarginOverVariableCostsPerStrategyPerVessel(str, date); -// result.setValue(str, value); -// } + // for(Strategy str : strategies){ + // double value = ownerMarginOverVariableCostsPerStrategyPerVessel(str, date); + // result.setValue(str, value); + // } return result; } - + /** * implant� suivant document ModifTable3PourBP25-07-2006.doc - * OwnerMarginOverVariableCostsPerStrategyPerVessel[str,month]�=�somme sur tous les m�tiers de OwnerMarginOverVariableCostsPerStrategyMetPerVessel [str,met,month] + * OwnerMarginOverVariableCostsPerStrategyPerVessel[str,month]�=�somme sur + * tous les m�tiers de OwnerMarginOverVariableCostsPerStrategyMetPerVessel + * [str,met,month] * * @param str * @param date * @return - * @throws TopiaException + * @throws TopiaException */ - private double ownerMarginOverVariableCostsPerStrategyPerVessel(Strategy str, Date date) throws TopiaException { + private double ownerMarginOverVariableCostsPerStrategyPerVessel( + Strategy str, Date date) throws TopiaException { SetOfVessels sov = str.getSetOfVessels(); Collection<EffortDescription> efforts = sov.getPossibleMetiers(); float result = 0; - + for (EffortDescription effort : efforts) { Metier metier = effort.getPossibleMetiers(); - result += ownerMarginOverVariableCostsPerStrategyMetPerVessel(str, metier, date); + result += ownerMarginOverVariableCostsPerStrategyMetPerVessel(str, + metier, date); } return result; } @@ -1102,24 +1211,27 @@ ////////////////////////////////////////////////////////////////////// // matrixOwnerMarginOverVariableCostsPerStrategy ////////////////////////////////////////////////////////////////////// - - public MatrixND matrixOwnerMarginOverVariableCostsPerStrategy(Date date) throws TopiaException{ + + public MatrixND matrixOwnerMarginOverVariableCostsPerStrategy(Date date) + throws TopiaException { List<Strategy> strategies = siMatrix.getStrategies(date); - MatrixND result = MatrixFactory.getInstance().create( - ResultName.MATRIX_OWNER_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY, - new List[]{strategies}, - new String[]{n_("Strategies")}); + MatrixND result = MatrixFactory + .getInstance() + .create( + ResultName.MATRIX_OWNER_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY, + new List[] { strategies }, + new String[] { n_("Strategies") }); - for (int s=0; s < strategies.size(); s++) { + for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); double value = ownerMarginOverVariableCostsPerStrategy(str, date); result.setValue(s, value); } -// for(Strategy str : strategies){ -// double value = ownerMarginOverVariableCostsPerStrategy(str, date); -// result.setValue(str, value); -// } + // for(Strategy str : strategies){ + // double value = ownerMarginOverVariableCostsPerStrategy(str, date); + // result.setValue(str, value); + // } return result; } @@ -1131,51 +1243,61 @@ * @param str * @param date * @return - * @throws TopiaException + * @throws TopiaException */ - private double ownerMarginOverVariableCostsPerStrategy(Strategy str, Date date) throws TopiaException { - double ownerMarginOverVariableCostsPerStrategyPerVessel = ownerMarginOverVariableCostsPerStrategyPerVessel(str, date); + private double ownerMarginOverVariableCostsPerStrategy(Strategy str, + Date date) throws TopiaException { + double ownerMarginOverVariableCostsPerStrategyPerVessel = ownerMarginOverVariableCostsPerStrategyPerVessel( + str, date); double proportionSetOfVessels = str.getProportionSetOfVessels(); double numberOfVessels = str.getSetOfVessels().getNumberOfVessels(); - return ownerMarginOverVariableCostsPerStrategyPerVessel * (proportionSetOfVessels * numberOfVessels); - } + return ownerMarginOverVariableCostsPerStrategyPerVessel + * (proportionSetOfVessels * numberOfVessels); + } ////////////////////////////////////////////////////////////////////// // matrixVesselMarginOverVariableCostsPerStrategyPerVessel ////////////////////////////////////////////////////////////////////// - - public MatrixND matrixVesselMarginOverVariableCostsPerStrategyPerVessel(Date date) throws TopiaException{ + + public MatrixND matrixVesselMarginOverVariableCostsPerStrategyPerVessel( + Date date) throws TopiaException { List<Strategy> strategies = siMatrix.getStrategies(date); - MatrixND result = MatrixFactory.getInstance().create( - ResultName.MATRIX_VESSEL_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY_PER_VESSEL, - new List[]{strategies}, - new String[]{n_("Strategies")}); + MatrixND result = MatrixFactory + .getInstance() + .create( + ResultName.MATRIX_VESSEL_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY_PER_VESSEL, + new List[] { strategies }, + new String[] { n_("Strategies") }); - for (int s=0; s < strategies.size(); s++) { + for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); - double value = vesselMarginOverVariableCostsPerStrategyPerVessel(str, date); + double value = vesselMarginOverVariableCostsPerStrategyPerVessel( + str, date); result.setValue(s, value); } -// for(Strategy str : strategies){ -// double value = vesselMarginOverVariableCostsPerStrategyPerVessel(str, date); -// result.setValue(str, value); -// } + // for(Strategy str : strategies){ + // double value = vesselMarginOverVariableCostsPerStrategyPerVessel(str, date); + // result.setValue(str, value); + // } return result; } - + /** * implant� suivant document ModifTable3PourBP25-07-2006.doc - * VesselMarginOverVariableCostsPerStrategyPerVessel[str,month]�= somme sur tous les m�tiers de VesselMarginOverVariableCostsPerStrategyMetPerVessel� [str,met,month] + * VesselMarginOverVariableCostsPerStrategyPerVessel[str,month]�= somme sur + * tous les m�tiers de VesselMarginOverVariableCostsPerStrategyMetPerVessel� + * [str,met,month] * * @param str * @param date * @return - * @throws TopiaException + * @throws TopiaException */ - private double vesselMarginOverVariableCostsPerStrategyPerVessel(Strategy str, Date date) throws TopiaException { + private double vesselMarginOverVariableCostsPerStrategyPerVessel( + Strategy str, Date date) throws TopiaException { SetOfVessels sov = str.getSetOfVessels(); Collection<EffortDescription> efforts = sov.getPossibleMetiers(); @@ -1183,74 +1305,83 @@ for (EffortDescription effort : efforts) { Metier metier = effort.getPossibleMetiers(); - result += vesselMarginOverVariableCostsPerStrategyMetPerVessel(str, metier, date); + result += vesselMarginOverVariableCostsPerStrategyMetPerVessel(str, + metier, date); } return result; - } + } - ////////////////////////////////////////////////////////////////////// // matrixVesselMarginOverVariableCostsPerStrategy ////////////////////////////////////////////////////////////////////// - - public MatrixND matrixVesselMarginOverVariableCostsPerStrategy(Date date) throws TopiaException{ + + public MatrixND matrixVesselMarginOverVariableCostsPerStrategy(Date date) + throws TopiaException { List<Strategy> strategies = siMatrix.getStrategies(date); - MatrixND result = MatrixFactory.getInstance().create( - ResultName.MATRIX_VESSEL_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY, - new List[]{strategies}, - new String[]{n_("Strategies")}); + MatrixND result = MatrixFactory + .getInstance() + .create( + ResultName.MATRIX_VESSEL_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY, + new List[] { strategies }, + new String[] { n_("Strategies") }); - for (int s=0; s < strategies.size(); s++) { + for (int s = 0; s < strategies.size(); s++) { Strategy str = strategies.get(s); double value = vesselMarginOverVariableCostsPerStrategy(str, date); result.setValue(s, value); } -// for(Strategy str : strategies){ -// double value = vesselMarginOverVariableCostsPerStrategy(str, date); -// result.setValue(str, value); -// } + // for(Strategy str : strategies){ + // double value = vesselMarginOverVariableCostsPerStrategy(str, date); + // result.setValue(str, value); + // } return result; } /** * implant� suivant document ModifTable3PourBP25-07-2006.doc - * VesselMarginOverVariableCostsPerStrategy[str,month]�=VesselMarginOverVariableCostsPerStrategyPerVessel�[str,month] *[PropNbVessels(str,sov)*NbVesselsSetOfVessels(sov)] + * VesselMarginOverVariableCostsPerStrategy[str,month]�=VesselMarginOverVariableCostsPerStrategyPerVessel�[str,month] + * *[PropNbVessels(str,sov)*NbVesselsSetOfVessels(sov)] * * @param str * @param date * @return - * @throws TopiaException + * @throws TopiaException */ - private double vesselMarginOverVariableCostsPerStrategy(Strategy str, Date date) throws TopiaException { - double vesselMarginOverVariableCostsPerStrategyPerVessel = vesselMarginOverVariableCostsPerStrategyPerVessel(str, date); + private double vesselMarginOverVariableCostsPerStrategy(Strategy str, + Date date) throws TopiaException { + double vesselMarginOverVariableCostsPerStrategyPerVessel = vesselMarginOverVariableCostsPerStrategyPerVessel( + str, date); double proportionSetOfVessels = str.getProportionSetOfVessels(); double numberOfVessels = str.getSetOfVessels().getNumberOfVessels(); - return vesselMarginOverVariableCostsPerStrategyPerVessel * (proportionSetOfVessels * numberOfVessels); + return vesselMarginOverVariableCostsPerStrategyPerVessel + * (proportionSetOfVessels * numberOfVessels); } - /////////////////////////////////////////////////////////////////////////// // // Methode non utilis�e directement dans GravityModel, mais dans les rules // /////////////////////////////////////////////////////////////////////////// - public double valuePerUnitFishingEffort(Strategy str, Metier metier, Date date) throws TopiaException{ - List<Population> pops = siMatrix.getPopulations(date); + public double valuePerUnitFishingEffort(Strategy str, Metier metier, + Date date) throws TopiaException { + List<Population> pops = siMatrix.getPopulations(date); - double result = 0; + double result = 0; - for(Population pop : pops){ + for (Population pop : pops) { List<PopulationGroup> groups = pop.getPopulationGroup(); Collection<Zone> zones = pop.getPopulationZone(); - for(PopulationGroup group : groups){ + for (PopulationGroup group : groups) { double price = group.getPrice(); - for(Zone zone : zones){ - double catchValue = getCatchWeightPerStrMetPerZonePop(str, metier, group, zone, date); - double discards = getDiscardsWeightPerStrMet(str, metier, group, zone, date); + for (Zone zone : zones) { + double catchValue = getCatchWeightPerStrMetPerZonePop(str, + metier, group, zone, date); + double discards = getDiscardsWeightPerStrMet(str, metier, + group, zone, date); result += price * (catchValue - discards); } } @@ -1258,7 +1389,7 @@ double effort = getEffortPerStrategyMet(str, metier, date); - if(effort == 0){ + if (effort == 0) { result = 0; } else { result = result / effort; @@ -1274,28 +1405,32 @@ * @return */ public double getEffortPerStrategyMet(Strategy str, Metier metier, Date date) { - MatrixND mat = resultManager.getMatrix(date, ResultName.MATRIX_EFFORT_PER_STRATEGY_MET); + MatrixND mat = resultManager.getMatrix(date, + ResultName.MATRIX_EFFORT_PER_STRATEGY_MET); double result = 0; - if(mat != null){ + if (mat != null) { result = mat.getValue(str, metier); } return result; } - public double landingPerUnitFishingEffort(Strategy str, Metier metier, Date date) throws TopiaException{ + public double landingPerUnitFishingEffort(Strategy str, Metier metier, + Date date) throws TopiaException { List<Population> pops = siMatrix.getPopulations(date); double effort = getEffortPerStrategyMet(str, metier, date); double result = 0; - if(effort != 0){ // s'il n'y a pas d'effort on retournera 0 - for(Population pop : pops){ + if (effort != 0) { // s'il n'y a pas d'effort on retournera 0 + for (Population pop : pops) { List<PopulationGroup> groups = pop.getPopulationGroup(); Collection<Zone> zones = pop.getPopulationZone(); - for(PopulationGroup group : groups){ - for(Zone zone : zones){ - double catchValue = getCatchWeightPerStrMetPerZonePop(str, metier, group, zone, date); - double discards = getDiscardsWeightPerStrMet(str, metier, group, zone, date); + for (PopulationGroup group : groups) { + for (Zone zone : zones) { + double catchValue = getCatchWeightPerStrMetPerZonePop( + str, metier, group, zone, date); + double discards = getDiscardsWeightPerStrMet(str, + metier, group, zone, date); result += catchValue - discards; } } @@ -1307,5 +1442,3 @@ } } - - Modified: trunk/simulators/DefaultSimulator.java =================================================================== --- trunk/simulators/DefaultSimulator.java 2009-04-28 13:31:17 UTC (rev 124) +++ trunk/simulators/DefaultSimulator.java 2009-04-28 13:43:11 UTC (rev 125) @@ -34,7 +34,6 @@ import static org.codelutin.i18n.I18n._; import static org.codelutin.i18n.I18n.n_; -import java.util.Collection; import java.util.List; import org.apache.commons.logging.Log; @@ -52,8 +51,6 @@ import fr.ifremer.isisfish.entities.Metier; import fr.ifremer.isisfish.entities.Population; import fr.ifremer.isisfish.entities.PopulationSeasonInfo; -import fr.ifremer.isisfish.entities.Strategy; -import fr.ifremer.isisfish.entities.Zone; import fr.ifremer.isisfish.rule.Rule; import fr.ifremer.isisfish.simulator.MetierMonitor; import fr.ifremer.isisfish.simulator.PopulationMonitor; @@ -68,11 +65,11 @@ /** * @author poussin - * + * */ public class DefaultSimulator implements Simulator { - + /** to use log facility, just put in your code: log.info("..."); */ static private Log log = LogFactory.getLog(DefaultSimulator.class); @@ -81,31 +78,32 @@ */ public void simulate(SimulationContext context) throws Exception { - SimulationParameter param = context.getSimulationStorage().getParameter(); + SimulationParameter param = context.getSimulationStorage() + .getParameter(); SimulationControl control = context.getSimulationControl(); int lastYear = param.getNumberOfYear(); int lastDate = lastYear * Month.NUMBER_OF_MONTH; Date date = control.getDate(); - + ResultManager resManager = context.getResultManager(); TopiaContext db = context.getDB(); - + SiMatrix siMatrix = SiMatrix.getSiMatrix(context); GravityModel gravityModel = new GravityModel(context, siMatrix); - + PopulationMonitor populationMonitor = context.getPopulationMonitor(); MetierMonitor metierMonitor = context.getMetierMonitor(); RuleMonitor ruleMonitor = context.getRuleMonitor(); - + List<Population> allpops = siMatrix.getPopulations(date); populationMonitor.init(allpops); - + for (Population pop : allpops) { MatrixND N = param.getNumberOf(pop); N.setName(ResultName.MATRIX_ABUNDANCE); populationMonitor.setN(pop, N); } - + // // Rule initialisation // @@ -113,14 +111,16 @@ control.setText("Rules initialisation:" + rules); for (Rule rule : rules) { rule.init(context); - log.info("Rule " +rule.getClass().getSimpleName()+ " initialized"); + log + .info("Rule " + rule.getClass().getSimpleName() + + " initialized"); } - + // // Commit all change done un init rules methods. // context.getDB().commitTransaction(); - + // // Simulation loop // @@ -131,14 +131,14 @@ if (control.isStopSimulationRequest()) { break; } - + control.setDate(date); control.setProgress(date.getDate()); control.setText(_("begin step " + date)); - + // raz des metiers interdits et des licences metierMonitor.clear(); - + if (date.getMonth().equals(Month.JANUARY)) { populationMonitor.clearCatch(); } @@ -147,17 +147,18 @@ if (siMatrix.getStrategies(date).size() > 0) { if (resManager.isEnabled(ResultName.MATRIX_NO_ACTIVITY)) { MatrixND mat = metierMonitor.getOrCreateNoActivity(date, - ResultName.MATRIX_NO_ACTIVITY, - siMatrix.getStrategies(date), - siMatrix.getMetiers(date)); + ResultName.MATRIX_NO_ACTIVITY, siMatrix + .getStrategies(date), siMatrix + .getMetiers(date)); resManager.addResult(date, mat); } } - + // // Rule condition evaluation // - control.setText("Evalute Rules conditions ("+rules.size()+" rules)"); + control.setText("Evalute Rules conditions (" + rules.size() + + " rules)"); for (Rule rule : rules) { for (Metier metier : siMatrix.getMetiers(date)) { boolean active = false; @@ -165,30 +166,34 @@ active = rule.condition(context, date, metier); } catch (Exception eee) { if (log.isWarnEnabled()) { - log.warn("Can't evaluate rule condition for: " + rule, eee); + log.warn("Can't evaluate rule condition for: " + + rule, eee); } } - ruleMonitor.setEvaluationCondition(date, rule, metier, active); + ruleMonitor.setEvaluationCondition(date, rule, metier, + active); if (active) { - log.info("Activate rule: " + rule.getClass().getSimpleName()); + log.info("Activate rule: " + + rule.getClass().getSimpleName()); resManager.addActiveRule(date, rule); } } } - + // // Rule pre action // control.setText("Do pre action Rules"); for (Rule rule : rules) { for (Metier metier : siMatrix.getMetiers(date)) { - boolean condition = ruleMonitor.getEvalutionCondition(date, rule, metier); + boolean condition = ruleMonitor.getEvalutionCondition(date, + rule, metier); if (condition) { rule.preAction(context, date, metier); } } } - + // // Keep modification's information done in rule // @@ -196,7 +201,7 @@ MatrixND metierZone = siMatrix.getMetierZone(date); resManager.addResult(date, metierZone); } - + // // Simulate one step for all pop // @@ -204,40 +209,45 @@ for (Population pop : siMatrix.getPopulations(date)) { computeMonth(context, siMatrix, date, pop); } - + // // Add some result not population dependante // - + // only if there are one or more strategy if (siMatrix.getStrategies(date).size() > 0) { control.setText("Add some results"); - if (resManager.isEnabled(ResultName.MATRIX_EFFORT_PER_STRATEGY_MET)) { - MatrixND effortPerStrategyMet = siMatrix.matrixEffortPerStrategyMet(date); + if (resManager + .isEnabled(ResultName.MATRIX_EFFORT_PER_STRATEGY_MET)) { + MatrixND effortPerStrategyMet = siMatrix + .matrixEffortPerStrategyMet(date); resManager.addResult(date, effortPerStrategyMet); } - - if (resManager.isEnabled(ResultName.MATRIX_STD_TRAVEL_EFFORT_PER_STRATEGY_MET)) { - MatrixND stdTravelEffortPerStrategyMet = siMatrix.matrixEffortPerStrategyMet(date); + + if (resManager + .isEnabled(ResultName.MATRIX_STD_TRAVEL_EFFORT_PER_STRATEGY_MET)) { + MatrixND stdTravelEffortPerStrategyMet = siMatrix + .matrixEffortPerStrategyMet(date); resManager.addResult(date, stdTravelEffortPerStrategyMet); } - + if (resManager.isEnabled(ResultName.MATRIX_EFFORT_PER_ZONE_POP)) { - MatrixND effortPerZonePop = siMatrix.matrixEffortPerStrategyMet(date); + MatrixND effortPerZonePop = siMatrix + .matrixEffortPerStrategyMet(date); resManager.addResult(date, effortPerZonePop); - } + } - // // Add economics results // - if (!"false".equalsIgnoreCase(param.getTagValue().get("ecoResult"))) { + if (!"false".equalsIgnoreCase(param.getTagValue().get( + "ecoResult"))) { control.setText("Add economics results"); saveGravityModel(date, resManager, gravityModel); } } - + // // Add economics results // @@ -248,8 +258,6 @@ } } - - // // Rule post action // @@ -274,18 +282,25 @@ MatrixND discard = populationMonitor.getDiscard(date, pop); if (discard != null || date.getDate() == 0) { // force discard for the first month to have discard in result if (discard == null) { - discard = MatrixFactory.getInstance().create(ResultName.MATRIX_DISCARDS_PER_STR_MET_PER_ZONE_POP, - new List[]{siMatrix.getStrategies(date), - siMatrix.getMetiers(date), - pop.getPopulationGroup(), - pop.getPopulationZone()}, - new String[]{n_("Strategies"), n_("Metiers"), n_("Groups"), n_("Zones")}); + discard = MatrixFactory.getInstance().create( + ResultName.MATRIX_DISCARDS_PER_STR_MET, + new List[] { siMatrix.getStrategies(date), + siMatrix.getMetiers(date), + pop.getPopulationGroup(), + pop.getPopulationZone() }, + new String[] { n_("Strategies"), + n_("Metiers"), n_("Groups"), + n_("Zones") }); } resManager.addResult(date, pop, discard); - if (resManager.isEnabled(ResultName.MATRIX_DISCARDS_WEIGHT_PER_STR_MET_PER_ZONE_POP)) { - MatrixND discardWeightPerStrategyMet = siMatrix.matrixDiscardWeightPerStrategyMetPerZonePop(pop, date, discard); - resManager.addResult(date, pop, discardWeightPerStrategyMet); + if (resManager + .isEnabled(ResultName.MATRIX_DISCARDS_WEIGHT_PER_STR_MET)) { + MatrixND discardWeightPerStrategyMet = siMatrix + .matrixDiscardWeightPerStrategyMetPerZonePop( + pop, date, discard); + resManager.addResult(date, pop, + discardWeightPerStrategyMet); } } @@ -294,7 +309,8 @@ // add landing result // if (resManager.isEnabled(ResultName.MATRIX_LANDING_PER_MET)) { - MatrixND landing = MatrixFactory.getInstance().create(populationMonitor.getCatch(pop)); + MatrixND landing = MatrixFactory.getInstance().create( + populationMonitor.getCatch(pop)); if (discard != null) { landing = landing.minus(discard); } @@ -309,14 +325,14 @@ // control.setText("Rollback rules changes"); db.rollbackTransaction(); - + // // commit result // control.setText("Commit results"); TopiaContext tx = context.getDbResult(); tx.commitTransaction(); - + // // Go next step // @@ -330,45 +346,50 @@ return result; } - protected void computeMonth(SimulationContext context, SiMatrix siMatrix, Date date, Population pop) throws IsisFishException, TopiaException { + protected void computeMonth(SimulationContext context, SiMatrix siMatrix, + Date date, Population pop) throws IsisFishException, TopiaException { // to add result - ResultStorage resManager = context.getSimulationStorage().getResultStorage(); + ResultStorage resManager = context.getSimulationStorage() + .getResultStorage(); PopulationMonitor popMon = context.getPopulationMonitor(); MatrixND N = popMon.getN(pop); - + if (log.isInfoEnabled()) { - log.info("====================== begin "+ date + " - " + pop +" =========================== " + System.currentTimeMillis()); + log.info("====================== begin " + date + " - " + pop + + " =========================== " + + System.currentTimeMillis()); log.info("N: " + N); } - + // add N and biomass result now, before computation // N is reassigned during computation - resManager.addResult(date, pop, N); + resManager.addResult(date, pop, N); if (resManager.isEnabled(ResultName.MATRIX_BIOMASS)) { MatrixND biomass = siMatrix.matrixBiomass(N, pop, date); resManager.addResult(date, pop, biomass); } - + Month month = date.getMonth(); PopulationSeasonInfo info = pop.getPopulationSeasonInfo(month); - + // group change MatrixND CA = null; if (date.getDate() == 0) { - CA = MatrixFactory.getInstance().matrixId(pop.sizePopulationGroup()*pop.sizePopulationZone()); + CA = MatrixFactory.getInstance().matrixId( + pop.sizePopulationGroup() * pop.sizePopulationZone()); } else { CA = info.getGroupChangeMatrix(month); } log.debug("CA: " + CA); - + //migration - MatrixND M = info.getMigrationMatrix(month, N); + MatrixND M = info.getMigrationMatrix(month, N); log.debug("M: " + M); //emigration - MatrixND EM = info.getEmigrationMatrix(month, N); + MatrixND EM = info.getEmigrationMatrix(month, N); log.debug("EM: " + EM); //immigration MatrixND IM = info.getImmigrationMatrix(month, N).transpose(); @@ -382,9 +403,9 @@ MatrixND tmp1 = M.minus(EM); MatrixND tmp2 = tmp0.mult(tmp1); MatrixND tmp3 = tmp2.add(IM); - + log.debug("N1D after mig: " + tmp3); - + // On reconvertie en une matrice Semantique N = pop.split2D(tmp3); @@ -393,32 +414,32 @@ //Recrutement MatrixND R = info.getReproductionMatrix(month, N); log.debug("R: " + R); - + // ajout de la matrice R dans le suivi de la pop comme etant // la reproduction pour le mois courant. popMon.setReproduction(date, pop, R); - + // recrutement MatrixND recruitment = popMon.getRecruitment(date, pop); log.debug("recruitment: " + recruitment); - + // mortalite de la reproduction popMon.applyReproductionMortality(pop); - + N = N.add(recruitment); log.debug("N after recru: " + N); - if (resManager.isEnabled(ResultName.MATRIX_ABONDANCE_BEGIN_MONTH)) { - MatrixND abondanceBM = siMatrix.matrixAbondanceBeginMonth(N, pop, date); + if (resManager.isEnabled(ResultName.MATRIX_ABUNDANCE)) { + MatrixND abondanceBM = siMatrix.matrixAbondanceBeginMonth(N, pop, + date); resManager.addResult(date, pop, abondanceBM); } - if (resManager.isEnabled(ResultName.MATRIX_BIOMASS_BEGIN_MONTH)) { + if (resManager.isEnabled(ResultName.MATRIX_BIOMASS)) { MatrixND biomassBM = siMatrix.matrixBiomassBeginMonth(N, pop, date); resManager.addResult(date, pop, biomassBM); } - MatrixND abundance = N; // compute fishing matrix only if there are one or more strategy if (siMatrix.getStrategies(date).size() > 0) { @@ -429,153 +450,193 @@ if (isEffortByCell(context)) { abundance = siMatrix.matrixAbundance(N, pop, date); - catchPerStrategyMetPerZonePop = - siMatrix.matrixCatchPerStrategyMetPerZonePop(N, pop, date); + catchPerStrategyMetPerZonePop = siMatrix + .matrixCatchPerStrategyMetPerZonePop(N, pop, date); } else { // en zone - MatrixND matrixFishingMortality = siMatrix.matrixFishingMortality(date, pop); + MatrixND matrixFishingMortality = siMatrix + .matrixFishingMortality(date, pop); resManager.addResult(date, pop, matrixFishingMortality); - - abundance = siMatrix.matrixAbundance(N, pop, date, matrixFishingMortality); + abundance = siMatrix.matrixAbundance(N, pop, date, + matrixFishingMortality); + // this matrix is necessary for matrixCatchPerStrategyMet - MatrixND catchRatePerStrategyMet = siMatrix.matrixCatchRatePerStrategyMetPerZone(pop, date, matrixFishingMortality); + MatrixND catchRatePerStrategyMet = siMatrix + .matrixCatchRatePerStrategyMetPerZone(pop, date, + matrixFishingMortality); resManager.addResult(date, pop, catchRatePerStrategyMet); - catchPerStrategyMetPerZonePop = - siMatrix.matrixCatchPerStrategyMetPerZone(N, pop, date, catchRatePerStrategyMet); + catchPerStrategyMetPerZonePop = siMatrix + .matrixCatchPerStrategyMetPerZone(N, pop, date, + catchRatePerStrategyMet); } - + popMon.holdCatch(pop, catchPerStrategyMetPerZonePop); resManager.addResult(date, pop, catchPerStrategyMetPerZonePop); - - if (resManager.isEnabled(ResultName.MATRIX_CATCH_WEIGHT_PER_STRATEGY_MET_PER_ZONE_POP)) { - MatrixND catchWeightPerStrategyMet = - siMatrix.matrixCatchWeightPerStrategyMetPerZonePop(date, pop, - catchPerStrategyMetPerZonePop); + + if (resManager + .isEnabled(ResultName.MATRIX_CATCH_WEIGHT_PER_STRATEGY_MET)) { + MatrixND catchWeightPerStrategyMet = siMatrix + .matrixCatchWeightPerStrategyMetPerZonePop(date, pop, + catchPerStrategyMetPerZonePop); resManager.addResult(date, pop, catchWeightPerStrategyMet); } if (isEffortByCell(context)) { - MatrixND catchPerStrategyMetPerZoneMet = - siMatrix.matrixCatchPerStrategyMetPerZoneMet(N, pop, date); + MatrixND catchPerStrategyMetPerZoneMet = siMatrix + .matrixCatchPerStrategyMetPerZoneMet(N, pop, date); resManager.addResult(date, pop, catchPerStrategyMetPerZoneMet); - if (resManager.isEnabled(ResultName.MATRIX_CATCH_WEIGHT_PER_STRATEGY_MET_PER_ZONE_MET)) { - MatrixND catchWeightPerStrategyMet = - siMatrix.matrixCatchWeightPerStrategyMetPerZoneMet(date, pop, - catchPerStrategyMetPerZoneMet); + if (resManager + .isEnabled(ResultName.MATRIX_CATCH_WEIGHT_PER_STRATEGY_MET)) { + MatrixND catchWeightPerStrategyMet = siMatrix + .matrixCatchWeightPerStrategyMetPerZoneMet(date, + pop, catchPerStrategyMetPerZoneMet); resManager.addResult(date, pop, catchWeightPerStrategyMet); } } - - + } else { // no strategies // compute only if fishing mortality =0 to apply Natural Mortality abundance = siMatrix.matrixAbundanceSsF(N, pop, date); } log.debug("abundance: " + abundance); - + // Keep new N popMon.setN(pop, abundance); - log.debug("====================== end " + date + " - " + pop +" ==========================="); - + log.debug("====================== end " + date + " - " + pop + + " ==========================="); + } - + /** * @param date * @param resManager - * @throws IsisFishException - * @throws TopiaException + * @throws IsisFishException + * @throws TopiaException */ - private void saveGravityModel(Date date, ResultManager resManager, GravityModel gravityModel) throws IsisFishException, TopiaException { - if (resManager.isEnabled(ResultName.MATRIX_FISHING_TIME_PER_MONTH_PER_VESSEL)) { - MatrixND mat = gravityModel.matrixFishingTimePerMonthPerVessel(date); + private void saveGravityModel(Date date, ResultManager resManager, + GravityModel gravityModel) throws IsisFishException, TopiaException { + if (resManager + .isEnabled(ResultName.MATRIX_FISHING_TIME_PER_MONTH_PER_VESSEL)) { + MatrixND mat = gravityModel + .matrixFishingTimePerMonthPerVessel(date); resManager.addResult(date, mat); - } - if (resManager.isEnabled(ResultName.MATRIX_FUEL_COSTS_OF_TRAVEL_PER_VESSEL)) { - MatrixND mat = gravityModel.matrixFuelCostsOfTravelPerVessel(date); + } + if (resManager + .isEnabled(ResultName.MATRIX_FUEL_COSTS_OF_TRAVEL_PER_VESSEL)) { + MatrixND mat = gravityModel.matrixFuelCostsOfTravelPerVessel(date); resManager.addResult(date, mat); - } + } if (resManager.isEnabled(ResultName.MATRIX_COSTS_OF_FISHING_PER_VESSEL)) { - MatrixND mat = gravityModel.matrixCostsOfFishingPerVessel(date); + MatrixND mat = gravityModel.matrixCostsOfFishingPerVessel(date); resManager.addResult(date, mat); - } + } if (resManager.isEnabled(ResultName.MATRIX_FUEL_COSTS_PER_VESSEL)) { - MatrixND mat = gravityModel.matrixFuelCostsOfTravelPerVessel(date); + MatrixND mat = gravityModel.matrixFuelCostsOfTravelPerVessel(date); resManager.addResult(date, mat); - } - if (resManager.isEnabled(ResultName.MATRIX_REPAIR_AND_MAINTENANCE_GEAR_COSTS_PER_VESSEL)) { - MatrixND mat = gravityModel.matrixRepairAndMaintenanceGearCostsPerVessel(date); + } + if (resManager + .isEnabled(ResultName.MATRIX_REPAIR_AND_MAINTENANCE_GEAR_COSTS_PER_VESSEL)) { + MatrixND mat = gravityModel + .matrixRepairAndMaintenanceGearCostsPerVessel(date); resManager.addResult(date, mat); - } - if (resManager.isEnabled(ResultName.MATRIX_OTHER_RUNNING_COSTS_PER_VESSEL)) { - MatrixND mat = gravityModel.matrixOtherRunningCostsPerVessel(date); + } + if (resManager + .isEnabled(ResultName.MATRIX_OTHER_RUNNING_COSTS_PER_VESSEL)) { + MatrixND mat = gravityModel.matrixOtherRunningCostsPerVessel(date); resManager.addResult(date, mat); - } - if (resManager.isEnabled(ResultName.MATRIX_SHARED_NOT_FIXED_COSTS_PER_VESSEL)) { - MatrixND mat = gravityModel.matrixSharedNotFixedCostsPerVessel(date); + } + if (resManager + .isEnabled(ResultName.MATRIX_SHARED_NOT_FIXED_COSTS_PER_VESSEL)) { + MatrixND mat = gravityModel + .matrixSharedNotFixedCostsPerVessel(date); resManager.addResult(date, mat); - } -// if (resManager.isEnabled(ResultName.MATRIX_SHARED_FIXED_COSTS_PER_VESSEL_PER_MET)) { -// MatrixND mat = gravityModel.matrixSharedFixedCostsPerVesselPerMet(date); -// resManager.addResult(date, mat); -// } - if (resManager.isEnabled(ResultName.MATRIX_GROSS_VALUE_OF_LANDINGS_PER_SPECIES_PER_STRATEGY_MET)) { - MatrixND mat = gravityModel.matrixGrossValueOfLandingsPerSpeciesPerStrategyMet(date); + } + // if (resManager.isEnabled(ResultName.MATRIX_SHARED_FIXED_COSTS_PER_VESSEL_PER_MET)) { + // MatrixND mat = gravityModel.matrixSharedFixedCostsPerVesselPerMet(date); + // resManager.addResult(date, mat); + // } + if (resManager + .isEnabled(ResultName.MATRIX_GROSS_VALUE_OF_LANDINGS_PER_SPECIES_PER_STRATEGY_MET)) { + MatrixND mat = gravityModel + .matrixGrossValueOfLandingsPerSpeciesPerStrategyMet(date); resManager.addResult(date, mat); - } - if (resManager.isEnabled(ResultName.MATRIX_GROSS_VALUE_OF_LANDINGS_PER_STRATEGY_MET)) { - MatrixND mat = gravityModel.matrixGrossValueOfLandingsPerStrategyMet(date); + } + if (resManager + .isEnabled(ResultName.MATRIX_GROSS_VALUE_OF_LANDINGS_PER_STRATEGY_MET)) { + MatrixND mat = gravityModel + .matrixGrossValueOfLandingsPerStrategyMet(date); resManager.addResult(date, mat); - } - if (resManager.isEnabled(ResultName.MATRIX_GROSS_VALUE_OF_LANDINGS_PER_STRATEGY_MET_PER_VESSEL)) { - MatrixND mat = gravityModel.matrixGrossValueOfLandingsPerStrategyMetPerVessel(date); + } + if (resManager + .isEnabled(ResultName.MATRIX_GROSS_VALUE_OF_LANDINGS_PER_STRATEGY_MET_PER_VESSEL)) { + MatrixND mat = gravityModel + .matrixGrossValueOfLandingsPerStrategyMetPerVessel(date); resManager.addResult(date, mat); - } - if (resManager.isEnabled(ResultName.MATRIX_NET_VALUE_OF_LANDINGS_PER_STRATEGY_MET)) { - MatrixND mat = gravityModel.matrixNetValueOfLandingsPerStrategyMet(date); + } + if (resManager + .isEnabled(ResultName.MATRIX_NET_VALUE_OF_LANDINGS_PER_STRATEGY_MET)) { + MatrixND mat = gravityModel + .matrixNetValueOfLandingsPerStrategyMet(date); resManager.addResult(date, mat); - } - if (resManager.isEnabled(ResultName.MATRIX_NET_VALUE_OF_LANDINGS_PER_STRATEGY_MET_PER_VESSEL)) { - MatrixND mat = gravityModel.matrixNetValueOfLandingsPerStrategyMetPerVessel(date); + } + if (resManager + .isEnabled(ResultName.MATRIX_NET_VALUE_OF_LANDINGS_PER_STRATEGY_MET_PER_VESSEL)) { + MatrixND mat = gravityModel + .matrixNetValueOfLandingsPerStrategyMetPerVessel(date); resManager.addResult(date, mat); - } - if (resManager.isEnabled(ResultName.MATRIX_NET_RENEVUE_TO_SHARE_PER_STRATEGY_MET_PER_VESSEL)) { - MatrixND mat = gravityModel.matrixNetRenevueToSharePerStrategyMetPerVessel(date); + } + if (resManager + .isEnabled(ResultName.MATRIX_NET_RENEVUE_TO_SHARE_PER_STRATEGY_MET_PER_VESSEL)) { + MatrixND mat = gravityModel + .matrixNetRenevueToSharePerStrategyMetPerVessel(date); resManager.addResult(date, mat); - } - if (resManager.isEnabled(ResultName.MATRIX_CREW_SHARE_PER_STRATEGY_MET_PER_VESSEL)) { - MatrixND mat = gravityModel.matrixCrewSharePerStrategyMetPerVessel(date); + } + if (resManager + .isEnabled(ResultName.MATRIX_CREW_SHARE_PER_STRATEGY_MET_PER_VESSEL)) { + MatrixND mat = gravityModel + .matrixCrewSharePerStrategyMetPerVessel(date); resManager.addResult(date, mat); } - if (resManager.isEnabled(ResultName.MATRIX_OWNER_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY_MET_PER_VESSEL)) { - MatrixND mat = gravityModel.matrixOwnerMarginOverVariableCostsPerStrategyMetPerVessel(date); + if (resManager + .isEnabled(ResultName.MATRIX_OWNER_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY_MET_PER_VESSEL)) { + MatrixND mat = gravityModel + .matrixOwnerMarginOverVariableCostsPerStrategyMetPerVessel(date); resManager.addResult(date, mat); } - if (resManager.isEnabled(ResultName.MATRIX_VESSEL_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY_MET_PER_VESSEL)) { - MatrixND mat = gravityModel.matrixVesselMarginOverVariableCostsPerStrategyMetPerVessel(date); + if (resManager + .isEnabled(ResultName.MATRIX_VESSEL_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY_MET_PER_VESSEL)) { + MatrixND mat = gravityModel + .matrixVesselMarginOverVariableCostsPerStrategyMetPerVessel(date); resManager.addResult(date, mat); - } - if (resManager.isEnabled(ResultName.MATRIX_OWNER_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY_PER_VESSEL)) { - MatrixND mat = gravityModel.matrixOwnerMarginOverVariableCostsPerStrategyPerVessel(date); + } + if (resManager + .isEnabled(ResultName.MATRIX_OWNER_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY_PER_VESSEL)) { + MatrixND mat = gravityModel + .matrixOwnerMarginOverVariableCostsPerStrategyPerVessel(date); resManager.addResult(date, mat); - } - if (resManager.isEnabled(ResultName.MATRIX_OWNER_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY)) { - MatrixND mat = gravityModel.matrixOwnerMarginOverVariableCostsPerStrategy(date); + } + if (resManager + .isEnabled(ResultName.MATRIX_OWNER_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY)) { + MatrixND mat = gravityModel + .matrixOwnerMarginOverVariableCostsPerStrategy(date); resManager.addResult(date, mat); - } - if (resManager.isEnabled(ResultName.MATRIX_VESSEL_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY_PER_VESSEL)) { - MatrixND mat = gravityModel.matrixVesselMarginOverVariableCostsPerStrategyPerVessel(date); - resManager.addResult(date, mat); } - if (resManager.isEnabled(ResultName.MATRIX_VESSEL_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY)) { - MatrixND mat = gravityModel.matrixVesselMarginOverVariableCostsPerStrategy(date); + if (resManager + .isEnabled(ResultName.MATRIX_VESSEL_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY_PER_VESSEL)) { + MatrixND mat = gravityModel + .matrixVesselMarginOverVariableCostsPerStrategyPerVessel(date); resManager.addResult(date, mat); } + if (resManager + .isEnabled(ResultName.MATRIX_VESSEL_MARGIN_OVER_VARIABLE_COSTS_PER_STRATEGY)) { + MatrixND mat = gravityModel + .matrixVesselMarginOverVariableCostsPerStrategy(date); + resManager.addResult(date, mat); + } } } - -

1 0

r124 - trunk/exports
by jcouteau＠users.labs.libre-entreprise.org April 28, 2009

April 28, 2009

Author: jcouteau Date: 2009-04-28 13:31:17 +0000 (Tue, 28 Apr 2009) New Revision: 124 Modified: trunk/exports/RejetsNombre.java trunk/exports/RejetsPoids.java Log: Adaptation aux scripts de St?\195?\169phanie Modified: trunk/exports/RejetsNombre.java =================================================================== --- trunk/exports/RejetsNombre.java 2009-04-28 13:29:04 UTC (rev 123) +++ trunk/exports/RejetsNombre.java 2009-04-28 13:31:17 UTC (rev 124) @@ -21,25 +21,22 @@ /** * RejetsNombre.java - * + * * Created: 23 novembre 2006 - * + * * @author anonymous <anonymous(a)labs.libre-entreprise.org> * @version $Revision: 1.4 $ - * - * Last update: $Date: 2007-05-24 09:30:07 $ - * by : $Author: bpoussin $ + * + * Last update: $Date: 2007-05-24 09:30:07 $ by : $Author: bpoussin $ */ - @Doc(value="do the doc of class RejetsNombre") +@Doc(value = "do the doc of class RejetsNombre") public class RejetsNombre implements Export { /** to use log facility, just put in your code: log.info("..."); */ static private Log log = LogFactory.getLog(RejetsNombre.class); - protected String [] necessaryResult = { - ResultName.MATRIX_DISCARDS_PER_STR_MET_PER_ZONE_POP - }; - + protected String[] necessaryResult = { ResultName.MATRIX_DISCARDS_PER_STR_MET }; + public String[] getNecessaryResult() { return this.necessaryResult; } @@ -47,74 +44,79 @@ public String getExportFilename() { return "RejetsNombre"; } - + public String getExtensionFilename() { return ".csv"; } - + public String getDescription() { return _("Export les rejets en nombre de la simulation. tableau pop;metier;id;zone;date;nombre"); } - public void export(SimulationStorage simulation, Writer out) throws Exception { - Date lastDate = simulation.getResultStorage().getLastDate(); - + public void export(SimulationStorage simulation, Writer out) + throws Exception { + Date lastDate = simulation.getResultStorage().getLastDate(); + for (Population pop : simulation.getParameter().getPopulations()) { - for (Date date = new Date(0); !date.after(lastDate); date = date.next() ) { - MatrixND mat = simulation.getResultStorage().getMatrix(date, pop, ResultName.MATRIX_DISCARDS_PER_STR_MET_PER_ZONE_POP); + for (Date date = new Date(0); !date.after(lastDate); date = date + .next()) { + MatrixND mat = simulation.getResultStorage().getMatrix(date, + pop, ResultName.MATRIX_DISCARDS_PER_STR_MET); if (mat != null) { // can be null if simulation is stopped before last year simulation mat = mat.sumOverDim(0); //sum on strategy - for (MatrixIterator i=mat.iterator(); i.hasNext();) { + for (MatrixIterator i = mat.iterator(); i.hasNext();) { i.next(); - Object [] sems = i.getSemanticsCoordinates(); - Metier metier = (Metier)sems[1]; - PopulationGroup group = (PopulationGroup)sems[2]; - Zone zone = (Zone)sems[3]; - + Object[] sems = i.getSemanticsCoordinates(); + Metier metier = (Metier) sems[1]; + PopulationGroup group = (PopulationGroup) sems[2]; + Zone zone = (Zone) sems[3]; + double val = i.getValue(); - out.write(pop.getName() +";"+ metier.getName() +";"+ group.getId() +";"+ zone.getName() +";"+ date.getDate() +";"+ val +"\n"); + out.write(pop.getName() + ";" + metier.getName() + ";" + + group.getId() + ";" + zone.getName() + ";" + + date.getDate() + ";" + val + "\n"); } } } } -/* -var Parametre=sim.getParametre(); -var Populations=Parametre.getPopulations(); -var PDate=Packages.fr.ifremer.nodb.Date; + /* + var Parametre=sim.getParametre(); + var Populations=Parametre.getPopulations(); + var PDate=Packages.fr.ifremer.nodb.Date; -var capture=0.0; -var result=""; -writeln("debut de export rejets nombre"); -var dateexport=new Packages.java.util.Date(); -var formatteur= new Packages.java.text.SimpleDateFormat(); -writeln("heure de debut: "+formatteur.format(dateexport)); -var finsimu=resultats.getLastDate().getDate(); + var capture=0.0; + var result=""; + writeln("debut de export rejets nombre"); + var dateexport=new Packages.java.util.Date(); + var formatteur= new Packages.java.text.SimpleDateFormat(); + writeln("heure de debut: "+formatteur.format(dateexport)); + var finsimu=resultats.getLastDate().getDate(); -for (var ipop=Populations.iterator();ipop.hasNext();){ - var pop=ipop.next(); - for (var idate=0;idate<=finsimu;idate++){ - var date=new PDate(idate); - var matrice=resultats.getMatrix(date,pop ,"Rejet par metier"); - if (matrice==null){ - matrice=MatrixFactory.create(resultats.getMatrix(new PDate(0),pop ,"Rejet par metier")); - matrice.mults(0); - } - var temp=matrice.sumOverDim(0); - writeln("on a la matrice"); - for (var iiterateur=temp.iterator();iiterateur.next();){ - var coordonnees=iiterateur.getSemanticsCoordinates(); - var metier=coordonnees[1]; - var c=coordonnees[2]; - var z=coordonnees[3]; - capture=iiterateur.getValue(); - result+=pop.getNom()+";"+metier.getNom()+";"+c.getId()+";"+z.getNom()+";"+idate+";"+capture+"\n"; - } - } -} + for (var ipop=Populations.iterator();ipop.hasNext();){ + var pop=ipop.next(); + for (var idate=0;idate<=finsimu;idate++){ + var date=new PDate(idate); + var matrice=resultats.getMatrix(date,pop ,"Rejet par metier"); + if (matrice==null){ + matrice=MatrixFactory.create(resultats.getMatrix(new PDate(0),pop ,"Rejet par metier")); + matrice.mults(0); + } + var temp=matrice.sumOverDim(0); + writeln("on a la matrice"); + for (var iiterateur=temp.iterator();iiterateur.next();){ + var coordonnees=iiterateur.getSemanticsCoordinates(); + var metier=coordonnees[1]; + var c=coordonnees[2]; + var z=coordonnees[3]; + capture=iiterateur.getValue(); + result+=pop.getNom()+";"+metier.getNom()+";"+c.getId()+";"+z.getNom()+";"+idate+";"+capture+"\n"; + } + } + } -writeln("fin de RejetsNombre"); -return ""+result; -*/ + writeln("fin de RejetsNombre"); + return ""+result; + */ } } Modified: trunk/exports/RejetsPoids.java =================================================================== --- trunk/exports/RejetsPoids.java 2009-04-28 13:29:04 UTC (rev 123) +++ trunk/exports/RejetsPoids.java 2009-04-28 13:31:17 UTC (rev 124) @@ -21,26 +21,24 @@ /** * RejetsPoids.java - * + * * Created: 23 novembre 2006 - * + * * @author anonymous <anonymous(a)labs.libre-entreprise.org> * @version $Revision: 1.4 $ - * - * Last update: $Date: 2007-05-24 09:30:07 $ - * by : $Author: bpoussin $ + * + * Last update: $Date: 2007-05-24 09:30:07 $ by : $Author: bpoussin $ */ - @Doc(value="do the doc of class RejetsPoids") +@Doc(value = "do the doc of class RejetsPoids") public class RejetsPoids implements Export { /** to use log facility, just put in your code: log.info("..."); */ static private Log log = LogFactory.getLog(RejetsPoids.class); - protected String [] necessaryResult = { - ResultName.MATRIX_DISCARDS_WEIGHT_PER_STR_MET_PER_ZONE_POP - + protected String[] necessaryResult = { ResultName.MATRIX_DISCARDS_WEIGHT_PER_STR_MET + }; - + public String[] getNecessaryResult() { return this.necessaryResult; } @@ -48,73 +46,78 @@ public String getExportFilename() { return "RejetsPoids"; } - + public String getExtensionFilename() { return ".csv"; } - + public String getDescription() { return _("Export les rejets en poids de la simulation. tableau pop;metier;id;zone;date;nombre"); } - public void export(SimulationStorage simulation, Writer out) throws Exception { - Date lastDate = simulation.getResultStorage().getLastDate(); - + public void export(SimulationStorage simulation, Writer out) + throws Exception { + Date lastDate = simulation.getResultStorage().getLastDate(); + for (Population pop : simulation.getParameter().getPopulations()) { - for (Date date = new Date(0); !date.after(lastDate); date = date.next() ) { - MatrixND mat = simulation.getResultStorage().getMatrix(date, pop, ResultName.MATRIX_DISCARDS_WEIGHT_PER_STR_MET_PER_ZONE_POP); + for (Date date = new Date(0); !date.after(lastDate); date = date + .next()) { + MatrixND mat = simulation.getResultStorage().getMatrix(date, + pop, ResultName.MATRIX_DISCARDS_WEIGHT_PER_STR_MET); if (mat != null) { // can be null if simulation is stopped before last year simulation mat = mat.sumOverDim(0); //sum on strategy - for (MatrixIterator i=mat.iterator(); i.hasNext();) { + for (MatrixIterator i = mat.iterator(); i.hasNext();) { i.next(); - Object [] sems = i.getSemanticsCoordinates(); - Metier metier = (Metier)sems[1]; - PopulationGroup group = (PopulationGroup)sems[2]; - Zone zone = (Zone)sems[3]; + Object[] sems = i.getSemanticsCoordinates(); + Metier metier = (Metier) sems[1]; + PopulationGroup group = (PopulationGroup) sems[2]; + Zone zone = (Zone) sems[3]; double val = i.getValue(); - out.write(pop.getName() +";"+ metier.getName() +";"+ group.getId() +";"+ zone.getName() +";"+ date.getDate() +";"+ val +"\n"); + out.write(pop.getName() + ";" + metier.getName() + ";" + + group.getId() + ";" + zone.getName() + ";" + + date.getDate() + ";" + val + "\n"); } } } } -/* -var Parametre=sim.getParametre(); -var Populations=Parametre.getPopulations(); -var PDate=Packages.fr.ifremer.nodb.Date; + /* + var Parametre=sim.getParametre(); + var Populations=Parametre.getPopulations(); + var PDate=Packages.fr.ifremer.nodb.Date; -var capture=0.0; -var result=""; -writeln("debut de export rejets poids"); -var dateexport=new Packages.java.util.Date(); -var formatteur= new Packages.java.text.SimpleDateFormat(); -writeln("heure de debut: "+formatteur.format(dateexport)); -var finsimu=resultats.getLastDate().getDate(); + var capture=0.0; + var result=""; + writeln("debut de export rejets poids"); + var dateexport=new Packages.java.util.Date(); + var formatteur= new Packages.java.text.SimpleDateFormat(); + writeln("heure de debut: "+formatteur.format(dateexport)); + var finsimu=resultats.getLastDate().getDate(); -for (var ipop=Populations.iterator();ipop.hasNext();){ - var pop=ipop.next(); - for (var idate=0;idate<=finsimu;idate++){ - var date=new PDate(idate); - var matrice=resultats.getMatrix(date, pop, "Rejet par metier"); - if (matrice==null){ - matrice=MatrixFactory.create(resultats.getMatrix(new PDate(0),pop ,"Rejet par metier")); - matrice.mults(0); - } - var temp=matrice.sumOverDim(0); - for (var iiterateur=temp.iterator();iiterateur.next();){ - var coordonnees=iiterateur.getSemanticsCoordinates(); - var metier=coordonnees[1]; - var c=coordonnees[2]; - var z=coordonnees[3]; - capture=iiterateur.getValue()*c.getPoidsMoyen(); - result+=pop.getNom()+";"+metier.getNom()+";"+c.getId()+";"+z.getNom()+";"+idate+";"+capture+"\n"; - } - } -} + for (var ipop=Populations.iterator();ipop.hasNext();){ + var pop=ipop.next(); + for (var idate=0;idate<=finsimu;idate++){ + var date=new PDate(idate); + var matrice=resultats.getMatrix(date, pop, "Rejet par metier"); + if (matrice==null){ + matrice=MatrixFactory.create(resultats.getMatrix(new PDate(0),pop ,"Rejet par metier")); + matrice.mults(0); + } + var temp=matrice.sumOverDim(0); + for (var iiterateur=temp.iterator();iiterateur.next();){ + var coordonnees=iiterateur.getSemanticsCoordinates(); + var metier=coordonnees[1]; + var c=coordonnees[2]; + var z=coordonnees[3]; + capture=iiterateur.getValue()*c.getPoidsMoyen(); + result+=pop.getNom()+";"+metier.getNom()+";"+c.getId()+";"+z.getNom()+";"+idate+";"+capture+"\n"; + } + } + } -writeln("fin de RejetsPoids"); -return ""+result; -*/ + writeln("fin de RejetsPoids"); + return ""+result; + */ } }

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r123 - trunk/exports
by jcouteau＠users.labs.libre-entreprise.org April 28, 2009

April 28, 2009

Author: jcouteau Date: 2009-04-28 13:29:04 +0000 (Tue, 28 Apr 2009) New Revision: 123 Modified: trunk/exports/CapturesNombre.java trunk/exports/CapturesPoids.java Log: Adpatation aux scripts de St?\195?\169phanie Modified: trunk/exports/CapturesNombre.java =================================================================== --- trunk/exports/CapturesNombre.java 2009-04-28 13:25:06 UTC (rev 122) +++ trunk/exports/CapturesNombre.java 2009-04-28 13:29:04 UTC (rev 123) @@ -37,7 +37,7 @@ static private Log log = LogFactory.getLog(CapturesNombre.class); protected String [] necessaryResult = { - ResultName.MATRIX_CATCH_PER_STRATEGY_MET_PER_ZONE_POP + ResultName.MATRIX_CATCH_PER_STRATEGY_MET }; public String[] getNecessaryResult() { @@ -62,7 +62,7 @@ for (Population pop : simulation.getParameter().getPopulations()) { for (Date date = new Date(0); !date.after(lastDate); date = date.next() ) { MatrixND mat = simulation.getResultStorage().getMatrix(date, pop, - ResultName.MATRIX_CATCH_PER_STRATEGY_MET_PER_ZONE_POP); + ResultName.MATRIX_CATCH_PER_STRATEGY_MET); if (mat != null) { // can be null if simulation is stopped before last year simulation mat = mat.sumOverDim(0); //sum on strategy for (MatrixIterator i=mat.iterator(); i.hasNext();) { Modified: trunk/exports/CapturesPoids.java =================================================================== --- trunk/exports/CapturesPoids.java 2009-04-28 13:25:06 UTC (rev 122) +++ trunk/exports/CapturesPoids.java 2009-04-28 13:29:04 UTC (rev 123) @@ -37,7 +37,7 @@ static private Log log = LogFactory.getLog(CapturesPoids.class); protected String [] necessaryResult = { - ResultName.MATRIX_CATCH_WEIGHT_PER_STRATEGY_MET_PER_ZONE_POP + ResultName.MATRIX_CATCH_WEIGHT_PER_STRATEGY_MET }; public String[] getNecessaryResult() { @@ -62,7 +62,7 @@ for (Population pop : simulation.getParameter().getPopulations()) { for (Date date = new Date(0); !date.after(lastDate); date = date.next() ) { MatrixND mat = simulation.getResultStorage().getMatrix(date, pop, - ResultName.MATRIX_CATCH_WEIGHT_PER_STRATEGY_MET_PER_ZONE_POP); + ResultName.MATRIX_CATCH_WEIGHT_PER_STRATEGY_MET); if (mat != null) { // can be null if simulation is stopped before last year simulation mat = mat.sumOverDim(0); //sum on strategy for (MatrixIterator i=mat.iterator(); i.hasNext();) {

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