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Suppression de classes
by Bastien Preuss 24 Oct '11

24 Oct '11

Bonjour, Dans mon modèle jai 15 classes dâge que je souhaiterais réduire à 10. Je pense donc redéfinir le nbr de classe à 10 dans longlet saisie des populations. Puis-je faire cette modification sans risque pour les paramètres des classes qui vont rester ? Merci. Bastien Bastien Preuss Doctorant (PhD Student) IFREMER - IRD - Université de Nouvelle-Calédonie 101 Promenade Roger Laroque BP A5 98848 Noumea cedex New-Caledonia Tel: (+687) 260 723 P afin de contribuer au respect de l'environnement, merci de n'imprimer ce mail qu'en cas de nécessité

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ISIS et R
by Paul MARCHAL 24 Oct '11

24 Oct '11

Bonjour, Youen et moi sommes en train de développer une règle (en adaptant un script initialement écrit par Benoît Archambault), qui invoque R. Or, l'invocation à R ne se fait pas, bien que nous ayions modifié le path. En fait la simu bloque à jan 0 sans s'arrêter, et la ligne suivante est répétée dans le debug.txt jusqu'à ce qu'on l'interrompe. INFO [Thread-7] (SimulationControl.java:194) setText - Rules initialisation:[rules.XSA@144c133, rules.CalcTAC@e81590, rules.FleetManagementDeep@dfd5b8] Je vous joins la règle xsa.java (invoquant R) ainsi que le fichier debug.txt Merci d'avance pour votre aide Paul -- Paul Marchal IFREMER RBE/HMMN 150, Quai Gambetta BP 699 62321 Boulogne sur mer FRANCE Tel: (+33) 321 99 56 86 Fax: (+33) 321 99 56 01 Mail: paul.marchal(a)ifremer.fr /* * Copyright (C) 2010 ben * * This program is free software; you can redistribute it and/or * modify it under the terms of the GNU General Public License * as published by the Free Software Foundation; either version 2 * of the License, or (at your option) any later version. * * This program is distributed in the hope that it will be useful, * but WITHOUT ANY WARRANTY; without even the implied warranty of * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * GNU General Public License for more details. * * You should have received a copy of the GNU General Public License * along with this program; if not, write to the Free Software * Foundation, Inc., 59 Temple Place - Suite 330, Boston, MA 02111-1307, USA. */ package rules; import static org.nuiton.i18n.I18n._; import org.nuiton.j2r.REngine; import org.nuiton.j2r.RException; import org.nuiton.j2r.RProxy; import org.nuiton.j2r.types.RDataFrame; import scripts.ResultName; import scripts.SiMatrix; import org.apache.commons.logging.Log; import org.apache.commons.logging.LogFactory; import fr.ifremer.isisfish.types.Date; import fr.ifremer.isisfish.types.Month; import scripts.ResultName; import java.io.Writer; import fr.ifremer.isisfish.export.Export; import java.io.File; import java.util.Arrays; import java.util.ArrayList; import java.util.List; import org.nuiton.util.FileUtil; import org.nuiton.math.matrix.*; import fr.ifremer.isisfish.entities.Population; import fr.ifremer.isisfish.util.Doc; 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 org.nuiton.math.matrix.MatrixIterator; import org.nuiton.topia.TopiaContext; import fr.ifremer.isisfish.simulator.SimulationControl; import fr.ifremer.isisfish.simulator.SimulationProperties; /** * XSA.java * * Created: 11 mars 2010 * * @author ben <user.name(a)vcs.hostName> * @version $Revision: 1545 $ * Last update: $Date: 12 juillet 2011 $ * by : $Author: Paul et Youen $ */ public class XSA extends AbstractRule { /** to use log facility, just put in your code: log.info("..."); */ private static Log log = LogFactory.getLog(XSA.class); protected TopiaContext db = null; private MatrixND catchYear0; private MatrixND effortS1Met0; private MatrixND catchS1Met0; public MatrixND matrixCpue; public static double ssbExport, fbarExport; // Configuration @Doc("Population evaluee par xsa") public Population param_pop = null; @Doc("Mois de l'evaluation") public Month param_month = Month.JANUARY; @Doc("Nom du dossier d'export des matrices") public String param_dossierexport = "C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/VPA"; @Doc("Chemin des fichiers XSA a importer") public String param_pathtovpadata="C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/VPA"; @Doc("Nom du fichier index des donnees XSA") public String param_nomindex="bli567ind.txt"; @Doc("Nom du fichier de flotte de tuning") public String param_tuningfile="bli567fl.txt"; @Doc("Nom du stock") public String param_stockname="BlueLingSouth"; @Doc("Pas de rejets") public boolean param_discardabsence ; public String discardAbsence=""; // Matrices necessaires public String [] necessaryResult = { ResultName.MATRIX_ABUNDANCE, ResultName.MATRIX_BIOMASS, ResultName.MATRIX_CATCH_PER_STRATEGY_MET_PER_ZONE_POP, ResultName.MATRIX_DISCARDS_PER_STR_MET_PER_ZONE_POP, ResultName.MATRIX_DISCARDS_WEIGHT_PER_STR_MET_PER_ZONE_POP }; public String[] getNecessaryResult() { return this.necessaryResult; } /** * 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 _("Fait une XSA, enfin le fera un jour"); } //methode pour generer les strings a partir des matrices public String exporttostring(MatrixND mat) throws Exception { String ExportName=""; for (MatrixIterator i=mat.iterator(); i.hasNext();){ i.next(); Object[]sems = i.getSemanticsCoordinates(); PopulationGroup group = (PopulationGroup)sems[0]; double val=i.getValue(); ExportName+= group.getId() +";"+val+"\n"; } return ExportName; } // idem sauf que fait sum sur strategy public String exporttostring2(MatrixND mat2) throws Exception { String ExportName2=""; if (mat2 != null) { // can be null if simulation is stopped before last year simulation mat2 = mat2.sumOverDim(0); //sum on strategy for (MatrixIterator i = mat2.iterator(); i.hasNext();) { i.next(); Object[] sems = i.getSemanticsCoordinates(); Metier metier = (Metier) sems[1]; PopulationGroup group = (PopulationGroup) sems[2]; Zone zone = (Zone) sems[3]; double val = i.getValue(); ExportName2+= group.getId() +";"+val+"\n"; } } return ExportName2; } /** * @param simulation La simulation pour lequel on utilise cette regle */ public void init(SimulationContext context) throws Exception { Date date = new Date(0); List<Strategy> strs = SiMatrix.getSiMatrix(context).getStrategies(date); List<Metier> metiers = SiMatrix.getSiMatrix(context).getMetiers(date); List<Month> months = Arrays.asList(Month.MONTH); List<Population> populations = SiMatrix.getSiMatrix(context).getPopulations(date); List<PopulationGroup> agegroupsall = new ArrayList<PopulationGroup>(); this.db = context.getDB(); for (Population pop : populations) { if (pop.getName().compareTo("BlueLingSouth") == 0){ for (PopulationGroup age : pop.getPopulationGroup()) { PopulationGroup tmp = (PopulationGroup) db.findByTopiaId(age.getTopiaId()); agegroupsall.add(tmp); } } } catchYear0 = MatrixFactory.getInstance().create( "catchYear0", new List[]{agegroupsall}, new String[]{"AgeGroupsAll"}); catchS1Met0 = MatrixFactory.getInstance().create( "catchS1MetYear0", new List[]{agegroupsall,metiers}, new String[]{"AgeGroupsAll","Metiers"}); effortS1Met0 = MatrixFactory.getInstance().create( "effortS1MetYear0", new List[]{metiers}, new String[]{"Metiers"}); matrixCpue = MatrixFactory.getInstance().create( "matrixCpue", new List[]{agegroupsall}, new String[]{"AgeGroupsAll"}); REngine engine = new RProxy(); engine.voidEval("library(FLXSA)"); //engine.voidEval("DossierExportIsis<-\""+param_dossierexport+"\""); //engine.voidEval("PathToIsisVPA<-\"C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/VPA\""); //Specifier ici le dossier ou seront stockÃƒÆ’Ã†â€™Ãƒâ€ Ã¢â‚¬â„¢ÃƒÆ’Ã¢â‚¬Â ÃƒÂ¢Ã¢â€šÂ¬Ã¢â€žÂ¢ÃƒÆ’Ã†â€™ÃƒÂ¢Ã¢â€šÂ¬Ã‚Â ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â‚¬Å¡Ã‚Â¬ÃƒÂ¢Ã¢â‚¬Å¾Ã‚Â¢ÃƒÆ’Ã†â€™Ãƒâ€ Ã¢â‚¬â„¢ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â‚¬Å¡Ã‚Â¬Ãƒâ€šÃ‚Â ÃƒÆ’Ã†â€™Ãƒâ€šÃ‚Â¢ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â€šÂ¬Ã…Â¡Ãƒâ€šÃ‚Â¬ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â€šÂ¬Ã…Â¾Ãƒâ€šÃ‚Â¢ÃƒÆ’Ã†â€™Ãƒâ€ Ã¢â‚¬â„¢ÃƒÆ’Ã¢â‚¬Â ÃƒÂ¢Ã¢â€šÂ¬Ã¢â€žÂ¢ÃƒÆ’Ã†â€™Ãƒâ€šÃ‚Â¢ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â€šÂ¬Ã…Â¡Ãƒâ€šÃ‚Â¬ÃƒÆ’Ã¢â‚¬Â¦Ãƒâ€šÃ‚Â¡ÃƒÆ’Ã†â€™Ãƒâ€ Ã¢â‚¬â„¢ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â‚¬Å¡Ã‚Â¬Ãƒâ€¦Ã‚Â¡ÃƒÆ’Ã†â€™ÃƒÂ¢Ã¢â€šÂ¬Ã…Â¡ÃƒÆ’Ã¢â‚¬Å¡Ãƒâ€šÃ‚Â©s les matrices gÃƒÆ’Ã†â€™Ãƒâ€ Ã¢â‚¬â„¢ÃƒÆ’Ã¢â‚¬Â ÃƒÂ¢Ã¢â€šÂ¬Ã¢â€žÂ¢ÃƒÆ’Ã†â€™ÃƒÂ¢Ã¢â€šÂ¬Ã‚Â ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â‚¬Å¡Ã‚Â¬ÃƒÂ¢Ã¢â‚¬Å¾Ã‚Â¢ÃƒÆ’Ã†â€™Ãƒâ€ Ã¢â‚¬â„¢ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â‚¬Å¡Ã‚Â¬Ãƒâ€šÃ‚Â ÃƒÆ’Ã†â€™Ãƒâ€šÃ‚Â¢ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â€šÂ¬Ã…Â¡Ãƒâ€šÃ‚Â¬ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â€šÂ¬Ã…Â¾Ãƒâ€šÃ‚Â¢ÃƒÆ’Ã†â€™Ãƒâ€ Ã¢â‚¬â„¢ÃƒÆ’Ã¢â‚¬Â ÃƒÂ¢Ã¢â€šÂ¬Ã¢â€žÂ¢ÃƒÆ’Ã†â€™Ãƒâ€šÃ‚Â¢ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â€šÂ¬Ã…Â¡Ãƒâ€šÃ‚Â¬ÃƒÆ’Ã¢â‚¬Â¦Ãƒâ€šÃ‚Â¡ÃƒÆ’Ã†â€™Ãƒâ€ Ã¢â‚¬â„¢ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â‚¬Å¡Ã‚Â¬Ãƒâ€¦Ã‚Â¡ÃƒÆ’Ã†â€™ÃƒÂ¢Ã¢â€šÂ¬Ã…Â¡ÃƒÆ’Ã¢â‚¬Å¡Ãƒâ€šÃ‚Â©nÃƒÆ’Ã†â€™Ãƒâ€ Ã¢â‚¬â„¢ÃƒÆ’Ã¢â‚¬Â ÃƒÂ¢Ã¢â€šÂ¬Ã¢â€žÂ¢ÃƒÆ’Ã†â€™ÃƒÂ¢Ã¢â€šÂ¬Ã‚Â ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â‚¬Å¡Ã‚Â¬ÃƒÂ¢Ã¢â‚¬Å¾Ã‚Â¢ÃƒÆ’Ã†â€™Ãƒâ€ Ã¢â‚¬â„¢ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â‚¬Å¡Ã‚Â¬Ãƒâ€šÃ‚Â ÃƒÆ’Ã†â€™Ãƒâ€šÃ‚Â¢ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â€šÂ¬Ã…Â¡Ãƒâ€šÃ‚Â¬ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â€šÂ¬Ã…Â¾Ãƒâ€šÃ‚Â¢ÃƒÆ’Ã†â€™Ãƒâ€ Ã¢â‚¬â„¢ÃƒÆ’Ã¢â‚¬Â ÃƒÂ¢Ã¢â€šÂ¬Ã¢â€žÂ¢ÃƒÆ’Ã†â€™Ãƒâ€šÃ‚Â¢ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â€šÂ¬Ã…Â¡Ãƒâ€šÃ‚Â¬ÃƒÆ’Ã¢â‚¬Â¦Ãƒâ€šÃ‚Â¡ÃƒÆ’Ã†â€™Ãƒâ€ Ã¢â‚¬â„¢ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â‚¬Å¡Ã‚Â¬Ãƒâ€¦Ã‚Â¡ÃƒÆ’Ã†â€™ÃƒÂ¢Ã¢â€šÂ¬Ã…Â¡ÃƒÆ’Ã¢â‚¬Å¡Ãƒâ€šÃ‚Â©rÃƒÆ’Ã†â€™Ãƒâ€ Ã¢â‚¬â„¢ÃƒÆ’Ã¢â‚¬Â ÃƒÂ¢Ã¢â€šÂ¬Ã¢â€žÂ¢ÃƒÆ’Ã†â€™ÃƒÂ¢Ã¢â€šÂ¬Ã‚Â ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â‚¬Å¡Ã‚Â¬ÃƒÂ¢Ã¢â‚¬Å¾Ã‚Â¢ÃƒÆ’Ã†â€™Ãƒâ€ Ã¢â‚¬â„¢ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â‚¬Å¡Ã‚Â¬Ãƒâ€šÃ‚Â ÃƒÆ’Ã†â€™Ãƒâ€šÃ‚Â¢ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â€šÂ¬Ã…Â¡Ãƒâ€šÃ‚Â¬ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â€šÂ¬Ã…Â¾Ãƒâ€šÃ‚Â¢ÃƒÆ’Ã†â€™Ãƒâ€ Ã¢â‚¬â„¢ÃƒÆ’Ã¢â‚¬Â ÃƒÂ¢Ã¢â€šÂ¬Ã¢â€žÂ¢ÃƒÆ’Ã†â€™Ãƒâ€šÃ‚Â¢ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â€šÂ¬Ã…Â¡Ãƒâ€šÃ‚Â¬ÃƒÆ’Ã¢â‚¬Â¦Ãƒâ€šÃ‚Â¡ÃƒÆ’Ã†â€™Ãƒâ€ Ã¢â‚¬â„¢ÃƒÆ’Ã‚Â¢ÃƒÂ¢Ã¢â‚¬Å¡Ã‚Â¬Ãƒâ€¦Ã‚Â¡ÃƒÆ’Ã†â€™ÃƒÂ¢Ã¢â€šÂ¬Ã…Â¡ÃƒÆ’Ã¢â‚¬Å¡Ãƒâ€šÃ‚Â©es. //engine.voidEval("IsisFilesPath<-paste(PathToIsisVPA,DossierExportIsis,sep=\"/\")"); //engine.voidEval("datapath<-\""+param_pathtovpadata+"\""); //engine.voidEval("listingfile.name<-\""+param_nomindex+"\""); //engine.voidEval("tuningfile.name<-\""+param_tuningfile+"\""); //engine.voidEval("stock.name<-\""+param_stockname+"\""); //engine.voidEval("stock.description<-\"Southern blue ling\""); //if(param_discardabsence=true) //{ discardAbsence="TRUE"; //} //else{ //discardAbsence="FALSE"; //} // A modifier en fonction de la XSA a realiser //engine.voidEval("discards.absence<-"+discardAbsence+""); //engine.voidEval("setwd(datapath)"); engine.voidEval("stock<-readFLStock(\"C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/VPA/bli567ind.txt\")"); // engine.voidEval("indices<-readFLIndices(\"C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/VPA/bli567fl.txt\" )"); // Parametres XSA engine.voidEval("tol<-1.e-09"); engine.voidEval("maxit<-1000"); engine.voidEval("min.nse<-0.3"); engine.voidEval("fse<-2.0"); engine.voidEval("rage<-9"); engine.voidEval("qage<-17"); engine.voidEval("shk.n<-TRUE"); engine.voidEval("shk.f<-TRUE"); engine.voidEval("shk.yrs<-5"); engine.voidEval("shk.ages<-5"); engine.voidEval("window<-100"); engine.voidEval("tsrange<-20"); engine.voidEval("tspower<-3"); // stock dans FLXSA les parametres engine.voidEval("xsa.control<-FLXSA.control(tol=tol,maxit=maxit,min.nse=min.nse,fse=fse,rage=rage,qage=qage,shk.n=shk.n,shk.f=shk.f,shk.yrs=shk.yrs,shk.ages=shk.ages,window=window,tsrange=tsrange,tspower=tspower,vpa=FALSE)"); //engine.voidEval("xsa<-FLXSA(stock,indices,xsa.control)"); //engine.voidEval("range(stock)[3]<-range(xsa)[3]"); //engine.voidEval("stock<-stock+xsa"); //Double ssb = ((Double) engine.eval("ssb<-as.numeric(as.data.frame(ssb(stock)[1,ncol(ssb(stock))]))[7]")).doubleValue(); //engine.voidEval("setwd(IsisFilesPath)"); engine.voidEval("save.image(file=\"C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/VPA/xsaRes.RData)\""); // sauver l'objet pour pouvoir le rouvrir ensuite pour utilisation //System.out.println("Spawning stock biomass "+ ssb); } /** * La condition qui doit etre vrai pour faire les actions * @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 { Month currentMonth = date.getMonth(); if (currentMonth.equals(param_month) && (date.getYear() > 0)) { return true; } else return false; } // Booleen permettant que ne boucler que sur un seul metier dans la preaction : boolean first = true; /** * @param simulation La simulation pour lequel on utilise cette regle */ public void preAction(SimulationContext context, Date date, Metier metier) throws Exception { if (first){ List<Strategy> strs = SiMatrix.getSiMatrix(context).getStrategies(date); List<Metier> metiers = SiMatrix.getSiMatrix(context).getMetiers(date); List<Month> months = Arrays.asList(Month.MONTH); List<Population> populations = SiMatrix.getSiMatrix(context).getPopulations(date); ResultStorage resultmanager = context.getSimulationStorage().getResultStorage(); for (Population pop : populations) { if (pop.getName().compareTo("BlueLingSouth") == 0){ List<PopulationGroup> agegroups = pop.getPopulationGroup(); for (PopulationGroup age : agegroups){ catchYear0.setValue(age,0.0); for (Strategy str : strs){ if (str.getName().compareTo("S1") == 0){ for (Metier met : metiers){ catchS1Met0.setValue(pop,met,0.0); effortS1Met0.setValue(met,0.0); } } } } // end of age loop; for (Date dat = date.previousYear(); dat.before(date); dat = dat.next()) { MatrixND CatchPop = resultmanager.getMatrix(dat,pop,ResultName.MATRIX_CATCH_PER_STRATEGY_MET_PER_ZONE_POP); MatrixND EffortS1Met = resultmanager.getMatrix(dat,ResultName.MATRIX_EFFORT_NOMINAL_PER_STRATEGY_MET); MatrixND Prov2 = CatchPop.sumOverDim(0); // sum over strategies; Prov2 = Prov2.sumOverDim(1); // sum over metiers; Prov2 = Prov2.sumOverDim(3); // sum over zones; MatrixND Prov3 = CatchPop.sumOverDim(3); // sum over zones; for (PopulationGroup age : agegroups){ catchYear0.setValue(age,catchYear0.getValue(age)+Prov2.getValue(0,0,age,0)); } //end of age loop; for (Strategy str : strs){ if (str.getName().compareTo("S1") == 0){ for (Metier met : metiers){ for (PopulationGroup age : agegroups){ catchS1Met0.setValue(age,met,catchS1Met0.getValue(pop,met)+ Prov3.getValue(str,met,0,0)); } // end of age loop; effortS1Met0.setValue(met,effortS1Met0.getValue(met)+ EffortS1Met.getValue(str,met)); } // end of metier loop; } // end of str = S1 if-test; } // end of str loop; } // end of dat loop; for (PopulationGroup age : agegroups){ double dummyCpue = 0.0; int dummyMet = 0; for (Metier met : metiers){ if (effortS1Met0.getValue(met) > 0.0){ dummyCpue += catchS1Met0.getValue(age,met)/effortS1Met0.getValue(met); dummyMet++; } } // end of metier loop; if (dummyMet > 0){ matrixCpue.setValue(age,pop,dummyCpue/dummyMet); } else{ matrixCpue.setValue(age,-99.99); } } // end of age loop; // Si on est au moi de Janvier, avant le pas de temps: // Recuperer les captures aux ages etc du pas de temps precedent // realiser la xsa REngine engine = new RProxy(); engine.voidEval("load(file=\"C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/VPA/xsaRes.RData)\""); // etendre l'objet FLR // Objet Stock engine.voidEval("stock<-window(stock,end=range(stock)[5]+1)"); // On agrandit la fenetre temporelle du stock de 1 YV MatrixND caaAexprter = catchYear0.getSubMatrix(0,7,14) ; engine.voidEval("stock@catch.n[,dim(stock@catch.n)[2],,,] <-" + caaAexprter ); // recupere les capt aux ages de l annee precedente engine.voidEval("stock@catch.wt[,dim(stock@catch.n)[2],,,]<-as.vector(rowMeans(stock@catch.wt[,c((dim(stock@catch.wt)[2] - 1):(dim(stock@catch.wt)[2] - 3)),,,]))"); // calcule la moyenne des poids aux ages sur les 3 dernieres annees engine.voidEval("stock@landings.n[,dim(stock@landings.n)[2],,,]<-stock@catch.n[,dim(stock@catch.n)[2],,,] "); // pas de rejets les capt==debarquements engine.voidEval("stock@landings.wt[,dim(stock@landings.wt)[2],,,]<-as.vector(rowMeans(stock@landings.wt[,c((dim(stock@landings.n)[2] - 1):(dim(stock@landings.n)[2] - 3)),,,]))"); // calcule la moyenne des poids aux ages sur les 3 dernieres annees engine.voidEval("stock@m[,dim(stock@m)[2],,,]<-stock@m[,dim(stock@m)[2] - 1,,,] "); // copie la M de l'anne precedente engine.voidEval("stock@mat[,dim(stock@mat)[2],,,]<-stock@mat[,dim(stock@mat)[2] - 1,,,] "); // copie la Maturite de l'anne precedente engine.voidEval("stock@harvest.spwn[,dim(stock@harvest.spwn)[2],,,]<-stock@harvest.spwn[,dim(stock@harvest.spwn)[2] - 1,,,] "); // engine.voidEval("stock@m.spwn[,dim(stock@m.spwn)[2],,,]<-stock@m.spwn[,dim(stock@m.spwn)[2] - 1,,,] "); // // Objet fleet engine.voidEval("indices<-window(indices,end=range(indices)[4]+1)"); // On agrandit la fenetre temporelle de fleet de 1 YV MatrixND iaAexprter = matrixCpue.getSubMatrix(0,7,14) ; engine.voidEval("indices@.Data[[1]]@catch.n[,dim(indices@.Data[[1]]@catch.n)[2],,,]<-" + iaAexprter);// recupere les indices aux ages de l annee precedente engine.voidEval("indices@.Data[[1]]@effort[,dim(indices@.Data[[1]]@effort)[2],,,]<-1");// recupere les indices aux ages de l annee precedente // Faire la xsa engine.voidEval("xsa<-FLXSA(stock,indices,xsa.control"); // retourner ssb et f de la derniere annee engine.voidEval("range(stock)[3]<-range(xsa)[3]"); engine.voidEval("stock<-stock+xsa"); Double ssb = ((Double) engine.eval("ssb<-as.numeric(as.data.frame(ssb(stock)[1,ncol(ssb(stock))]))[7]")).doubleValue(); Double fbar = ((Double) engine.eval("ssb<-as.numeric(as.data.frame(fbar(stock)[1,ncol(fbar(stock))]))[7]")).doubleValue(); ssbExport = ssb; fbarExport = fbar; engine.voidEval("save.image(file=\"C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/VPA/xsaRes.RData)\""); } // end of pop=bli if-test; } // end of pop loop; first = false; } // end of (first) if-test; } /** * @param simulation La simulation pour lequel on utilise cette regle */ public void postAction(SimulationContext context, Date date, Metier metier) throws Exception { } } [Script] R_HOME found with value C:\Program Files\R\R-2.9.2 [Script] Path = C:\Program Files\Rtools\bin;C:\Program Files\Java\jdk1.6.0_06\bin;C:\Program Files\Rtools\perl\bin;C:\Program Files\Rtools\MinGW\bin;C:\WINDOWS\system32;C:\WINDOWS;C:\WINDOWS\System32\Wbem;C:\Program Files\Wave Systems Corp\Dell Preboot Manager\Access Client\v5\;C:\Program Files\Fichiers communs\Roxio Shared\DLLShared\;C:\Program Files\System Center Operations Manager 2007\;C:\Program Files\ESTsoft\ALZip\;C:\Program Files\SAS\Shared Files\Formats;C:\Program Files\Java\jdk1.6.0_06\bin;C:\Program Files\ESTsoft\ALZip\;C:\Program Files\R\R-2.9.2\bin INFO [main] (IsisFish.java:314) init - Starting Isis-Fish with args : [] INFO [main] (IsisFish.java:319) init - 13/07/11 17:06 Java version: 1.6.0_06-b02 Isis-fish version: 3.3.0.3 INFO [main] (URLConverter.java:68) <init> - org.nuiton.util.URLConverter@134f69a INFO [main] (ConverterUtil.java:163) initConverters - register converter org.nuiton.util.URLConverter@134f69a INFO [main] (ConverterUtil.java:163) initConverters - register converter org.nuiton.util.URIConverter@12c7568 INFO [main] (ConverterUtil.java:163) initConverters - register converter org.nuiton.util.VersionConverter@e91f5d INFO [main] (ConverterUtil.java:163) initConverters - register converter org.nuiton.util.LocaleConverter@1c92535 INFO [main] (ApplicationConfig.java:1028) parse - Chargement du fichier de config: C:\Documents and Settings\pmarchal\.isis-config-3 INFO [main] (IsisConfig.java:907) parse - Check configuration change INFO [main] (IsisConfig.java:928) parse - Config file migration done INFO [main] (Resource.java:361) getURLs - search URLs pattern: .*i18n/.+\.properties in 9 urls in 263.211ms INFO [main] (I18nLoader.java:162) init - 9 bundle(s) found, [18 file(s)] in 5.91ms INFO [main] (I18nLoader.java:233) addLanguage - Language <locale: fr_FR,nbStences:1325>, nbEntries: 9, nbSentences: 1325 in 19.245ms INFO [main] (IsisFish.java:432) initVCS - Check state of local repository: C:\Documents and Settings\pmarchal\isis-database-3 INFO [main] (VCSSVN.java:135) getSVNManager - Try to connect to svn://labs.libre-entreprise.org/svnroot/isis-fish-data INFO [main] (VCSSVN.java:223) isConnected - Connexion au serveur disponible, passage en mode connecté : svn://labs.libre-entreprise.org/svnroot/isis-fish-data/ INFO [main] (IsisFish.java:142) main - after init done in 2.922. INFO [main] (SimulationExecutor.java:72) <init> - SimulationExecutor started with 2 thread for dans un sous processus INFO [main] (SimulationExecutor.java:72) <init> - SimulationExecutor started with 1 thread for sur le serveur Caparmor INFO [main] (SimulationExecutor.java:72) <init> - SimulationExecutor started with 1 thread for dans le même processus INFO [main] (IsisTray.java:110) getInstance - Use system tray: fr.ifremer.isisfish.IsisTray$AWTSystemTray INFO [main] (Editor.java:121) addEditor - Can't find your editor class: org.nuiton.widget.editor.SDocEditor INFO [main] (Editor.java:121) addEditor - Can't find your editor class: org.nuiton.widget.editor.JEditEditor C:\Documents and Settings\pmarchal\isis-database-3\rules\CalcTACSAV20110525.java:71: class CalcTAC is public, should be declared in a file named CalcTAC.java public class CalcTAC extends AbstractRule { ^ Note: C:\Documents and Settings\pmarchal\isis-database-3\scripts\SiMatrix.java uses unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. 1 error INFO [main] (CompileHelper.java:116) loadClass - Can't load class: rules.CalcTACSAV20110525 java.lang.ClassNotFoundException: rules.CalcTACSAV20110525 at java.net.URLClassLoader$1.run(URLClassLoader.java:200) at java.security.AccessController.doPrivileged(Native Method) at java.net.URLClassLoader.findClass(URLClassLoader.java:188) at java.lang.ClassLoader.loadClass(ClassLoader.java:306) at java.lang.ClassLoader.loadClass(ClassLoader.java:251) at fr.ifremer.isisfish.util.CompileHelper.loadClass(CompileHelper.java:114) at fr.ifremer.isisfish.datastore.JavaSourceStorage.getCodeClass(JavaSourceStorage.java:140) at fr.ifremer.isisfish.datastore.JavaSourceStorage.getNewInstance(JavaSourceStorage.java:155) at fr.ifremer.isisfish.datastore.RuleStorage.getNewRuleInstance(RuleStorage.java:126) at fr.ifremer.isisfish.ui.models.rule.RuleComboRenderer.getListCellRendererComponent(RuleComboRenderer.java:81) at javax.swing.plaf.basic.BasicComboBoxUI.getDisplaySize(BasicComboBoxUI.java:1291) at javax.swing.plaf.metal.MetalComboBoxUI.getMinimumSize(MetalComboBoxUI.java:316) at javax.swing.plaf.basic.BasicComboBoxUI.getPreferredSize(BasicComboBoxUI.java:865) at javax.swing.JComponent.getPreferredSize(JComponent.java:1632) at java.awt.GridBagLayout.GetLayoutInfo(GridBagLayout.java:1092) at java.awt.GridBagLayout.getLayoutInfo(GridBagLayout.java:893) at java.awt.GridBagLayout.preferredLayoutSize(GridBagLayout.java:713) at java.awt.Container.preferredSize(Container.java:1616) at java.awt.Container.getPreferredSize(Container.java:1601) at javax.swing.JComponent.getPreferredSize(JComponent.java:1634) at java.awt.GridBagLayout.GetLayoutInfo(GridBagLayout.java:1092) at java.awt.GridBagLayout.getLayoutInfo(GridBagLayout.java:893) at java.awt.GridBagLayout.preferredLayoutSize(GridBagLayout.java:713) at java.awt.Container.preferredSize(Container.java:1616) at java.awt.Container.getPreferredSize(Container.java:1601) at javax.swing.JComponent.getPreferredSize(JComponent.java:1634) at java.awt.GridBagLayout.GetLayoutInfo(GridBagLayout.java:1092) at java.awt.GridBagLayout.getLayoutInfo(GridBagLayout.java:893) at java.awt.GridBagLayout.ArrangeGrid(GridBagLayout.java:2048) at java.awt.GridBagLayout.arrangeGrid(GridBagLayout.java:2008) at java.awt.GridBagLayout.layoutContainer(GridBagLayout.java:789) at java.awt.Container.layout(Container.java:1432) at java.awt.Container.doLayout(Container.java:1421) at java.awt.Container.validateTree(Container.java:1519) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validate(Container.java:1491) at java.awt.Window.show(Window.java:825) at java.awt.Component.show(Component.java:1422) at java.awt.Component.setVisible(Component.java:1375) at java.awt.Window.setVisible(Window.java:806) at fr.ifremer.isisfish.IsisFish.launchUI(IsisFish.java:623) at fr.ifremer.isisfish.IsisFish.main(IsisFish.java:150) C:\Documents and Settings\pmarchal\isis-database-3\rules\FleetManagementDeepSAV20110525.java:46: class FleetManagementDeep is public, should be declared in a file named FleetManagementDeep.java public class FleetManagementDeep extends AbstractRule { ^ Note: C:\Documents and Settings\pmarchal\isis-database-3\scripts\SiMatrix.java uses unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. 1 error INFO [main] (CompileHelper.java:116) loadClass - Can't load class: rules.FleetManagementDeepSAV20110525 java.lang.ClassNotFoundException: rules.FleetManagementDeepSAV20110525 at java.net.URLClassLoader$1.run(URLClassLoader.java:200) at java.security.AccessController.doPrivileged(Native Method) at java.net.URLClassLoader.findClass(URLClassLoader.java:188) at java.lang.ClassLoader.loadClass(ClassLoader.java:306) at java.lang.ClassLoader.loadClass(ClassLoader.java:251) at fr.ifremer.isisfish.util.CompileHelper.loadClass(CompileHelper.java:114) at fr.ifremer.isisfish.datastore.JavaSourceStorage.getCodeClass(JavaSourceStorage.java:140) at fr.ifremer.isisfish.datastore.JavaSourceStorage.getNewInstance(JavaSourceStorage.java:155) at fr.ifremer.isisfish.datastore.RuleStorage.getNewRuleInstance(RuleStorage.java:126) at fr.ifremer.isisfish.ui.models.rule.RuleComboRenderer.getListCellRendererComponent(RuleComboRenderer.java:81) at javax.swing.plaf.basic.BasicComboBoxUI.getDisplaySize(BasicComboBoxUI.java:1291) at javax.swing.plaf.metal.MetalComboBoxUI.getMinimumSize(MetalComboBoxUI.java:316) at javax.swing.plaf.basic.BasicComboBoxUI.getPreferredSize(BasicComboBoxUI.java:865) at javax.swing.JComponent.getPreferredSize(JComponent.java:1632) at java.awt.GridBagLayout.GetLayoutInfo(GridBagLayout.java:1092) at java.awt.GridBagLayout.getLayoutInfo(GridBagLayout.java:893) at java.awt.GridBagLayout.preferredLayoutSize(GridBagLayout.java:713) at java.awt.Container.preferredSize(Container.java:1616) at java.awt.Container.getPreferredSize(Container.java:1601) at javax.swing.JComponent.getPreferredSize(JComponent.java:1634) at java.awt.GridBagLayout.GetLayoutInfo(GridBagLayout.java:1092) at java.awt.GridBagLayout.getLayoutInfo(GridBagLayout.java:893) at java.awt.GridBagLayout.preferredLayoutSize(GridBagLayout.java:713) at java.awt.Container.preferredSize(Container.java:1616) at java.awt.Container.getPreferredSize(Container.java:1601) at javax.swing.JComponent.getPreferredSize(JComponent.java:1634) at java.awt.GridBagLayout.GetLayoutInfo(GridBagLayout.java:1092) at java.awt.GridBagLayout.getLayoutInfo(GridBagLayout.java:893) at java.awt.GridBagLayout.ArrangeGrid(GridBagLayout.java:2048) at java.awt.GridBagLayout.arrangeGrid(GridBagLayout.java:2008) at java.awt.GridBagLayout.layoutContainer(GridBagLayout.java:789) at java.awt.Container.layout(Container.java:1432) at java.awt.Container.doLayout(Container.java:1421) at java.awt.Container.validateTree(Container.java:1519) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validate(Container.java:1491) at java.awt.Window.show(Window.java:825) at java.awt.Component.show(Component.java:1422) at java.awt.Component.setVisible(Component.java:1375) at java.awt.Window.setVisible(Window.java:806) at fr.ifremer.isisfish.IsisFish.launchUI(IsisFish.java:623) at fr.ifremer.isisfish.IsisFish.main(IsisFish.java:150) C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:24: cannot find symbol symbol: class AnalysePlanIndependent public class SAtest implements AnalysePlanIndependent { ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:26: cannot find symbol symbol : class Log location: class analyseplans.SAtest static private Log log = LogFactory.getLog(SAtest.class); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:30: cannot find symbol symbol : class MatrixND location: class analyseplans.SAtest private MatrixND matrix = null; ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:85: cannot find symbol symbol : class AnalysePlanContext location: class analyseplans.SAtest public void init(AnalysePlanContext context) throws Exception { ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:155: cannot find symbol symbol : class TopiaContext location: class analyseplans.SAtest private Rule getRule(TopiaContext tc, String name, int simulation) throws Exception { ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:155: cannot find symbol symbol : class Rule location: class analyseplans.SAtest private Rule getRule(TopiaContext tc, String name, int simulation) throws Exception { ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:178: cannot find symbol symbol : class AnalysePlanContext location: class analyseplans.SAtest public boolean beforeSimulation(AnalysePlanContext context, SimulationStorage nextSimulation) throws Exception { ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:178: cannot find symbol symbol : class SimulationStorage location: class analyseplans.SAtest public boolean beforeSimulation(AnalysePlanContext context, SimulationStorage nextSimulation) throws Exception { ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:326: cannot find symbol symbol : class AnalysePlanContext location: class analyseplans.SAtest public boolean afterSimulation(AnalysePlanContext context, SimulationStorage lastSimulation) throws Exception { ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:326: cannot find symbol symbol : class SimulationStorage location: class analyseplans.SAtest public boolean afterSimulation(AnalysePlanContext context, SimulationStorage lastSimulation) throws Exception { ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:26: cannot find symbol symbol : variable LogFactory location: class analyseplans.SAtest static private Log log = LogFactory.getLog(SAtest.class); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:88: cannot find symbol symbol : class File location: class analyseplans.SAtest File dir = new File(param_directory); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:88: cannot find symbol symbol : class File location: class analyseplans.SAtest File dir = new File(param_directory); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:89: cannot find symbol symbol : variable MatrixFactory location: class analyseplans.SAtest matrix = MatrixFactory.getInstance().create(new int[]{8704, param_parameterNumber}); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:90: cannot find symbol symbol : class FileReader location: class analyseplans.SAtest matrix.importCSV(new FileReader(new File(dir, MATRIX + ".txt")), new double[]{0,0}); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:90: cannot find symbol symbol : class File location: class analyseplans.SAtest matrix.importCSV(new FileReader(new File(dir, MATRIX + ".txt")), new double[]{0,0}); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:91: cannot find symbol symbol : variable REPRODUCTION location: class analyseplans.SAtest matrix.setSemantic(1, Arrays.asList(new String[]{ALPHA,REPRODUCTION,REPROpil,GROWTH,EFFORTpel1,EFFORTpel2, EFFORTbol1,EFFORTbol2,EFFORTesp,COEFRUMpel1,COEFRUMpel2,COEFRUMbol1,COEFRUMbol2,TACMPARUM,MPAESP,TACESP,TAE})); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:91: cannot find symbol symbol : variable COEFRUMpel1 location: class analyseplans.SAtest matrix.setSemantic(1, Arrays.asList(new String[]{ALPHA,REPRODUCTION,REPROpil,GROWTH,EFFORTpel1,EFFORTpel2, EFFORTbol1,EFFORTbol2,EFFORTesp,COEFRUMpel1,COEFRUMpel2,COEFRUMbol1,COEFRUMbol2,TACMPARUM,MPAESP,TACESP,TAE})); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:91: cannot find symbol symbol : variable COEFRUMpel2 location: class analyseplans.SAtest matrix.setSemantic(1, Arrays.asList(new String[]{ALPHA,REPRODUCTION,REPROpil,GROWTH,EFFORTpel1,EFFORTpel2, EFFORTbol1,EFFORTbol2,EFFORTesp,COEFRUMpel1,COEFRUMpel2,COEFRUMbol1,COEFRUMbol2,TACMPARUM,MPAESP,TACESP,TAE})); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:91: cannot find symbol symbol : variable COEFRUMbol1 location: class analyseplans.SAtest matrix.setSemantic(1, Arrays.asList(new String[]{ALPHA,REPRODUCTION,REPROpil,GROWTH,EFFORTpel1,EFFORTpel2, EFFORTbol1,EFFORTbol2,EFFORTesp,COEFRUMpel1,COEFRUMpel2,COEFRUMbol1,COEFRUMbol2,TACMPARUM,MPAESP,TACESP,TAE})); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:91: cannot find symbol symbol : variable COEFRUMbol2 location: class analyseplans.SAtest matrix.setSemantic(1, Arrays.asList(new String[]{ALPHA,REPRODUCTION,REPROpil,GROWTH,EFFORTpel1,EFFORTpel2, EFFORTbol1,EFFORTbol2,EFFORTesp,COEFRUMpel1,COEFRUMpel2,COEFRUMbol1,COEFRUMbol2,TACMPARUM,MPAESP,TACESP,TAE})); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:91: cannot find symbol symbol : variable Arrays location: class analyseplans.SAtest matrix.setSemantic(1, Arrays.asList(new String[]{ALPHA,REPRODUCTION,REPROpil,GROWTH,EFFORTpel1,EFFORTpel2, EFFORTbol1,EFFORTbol2,EFFORTesp,COEFRUMpel1,COEFRUMpel2,COEFRUMbol1,COEFRUMbol2,TACMPARUM,MPAESP,TACESP,TAE})); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:105: cannot find symbol symbol : class File location: class analyseplans.SAtest File dir = new File(param_directory); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:105: cannot find symbol symbol : class File location: class analyseplans.SAtest File dir = new File(param_directory); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:106: cannot find symbol symbol : class Properties location: class analyseplans.SAtest Properties prop = new Properties(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:106: cannot find symbol symbol : class Properties location: class analyseplans.SAtest Properties prop = new Properties(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:107: cannot find symbol symbol : class BufferedReader location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name + ".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:107: cannot find symbol symbol : class FileReader location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name + ".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:107: cannot find symbol symbol : class File location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name + ".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:122: cannot find symbol symbol : class File location: class analyseplans.SAtest File dir = new File(param_directory); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:122: cannot find symbol symbol : class File location: class analyseplans.SAtest File dir = new File(param_directory); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:123: cannot find symbol symbol : class Properties location: class analyseplans.SAtest Properties prop = new Properties(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:123: cannot find symbol symbol : class Properties location: class analyseplans.SAtest Properties prop = new Properties(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:124: cannot find symbol symbol : class BufferedReader location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name + ".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:124: cannot find symbol symbol : class FileReader location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name + ".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:124: cannot find symbol symbol : class File location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name + ".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:129: cannot find symbol symbol : variable StringUtil location: class analyseplans.SAtest double [] result = StringUtil.toArrayDouble(prop.getProperty(""+mod).split(";")); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:140: cannot find symbol symbol : class File location: class analyseplans.SAtest File dir = new File(param_directory); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:140: cannot find symbol symbol : class File location: class analyseplans.SAtest File dir = new File(param_directory); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:141: cannot find symbol symbol : class Properties location: class analyseplans.SAtest Properties prop = new Properties(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:141: cannot find symbol symbol : class Properties location: class analyseplans.SAtest Properties prop = new Properties(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:142: cannot find symbol symbol : class BufferedReader location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name + ".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:142: cannot find symbol symbol : class FileReader location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name + ".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:142: cannot find symbol symbol : class File location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name + ".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:156: cannot find symbol symbol : class File location: class analyseplans.SAtest File dir = new File(param_directory); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:156: cannot find symbol symbol : class File location: class analyseplans.SAtest File dir = new File(param_directory); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:157: cannot find symbol symbol : class Properties location: class analyseplans.SAtest Properties prop = new Properties(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:157: cannot find symbol symbol : class Properties location: class analyseplans.SAtest Properties prop = new Properties(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:158: cannot find symbol symbol : class BufferedReader location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name+".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:158: cannot find symbol symbol : class FileReader location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name+".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:158: cannot find symbol symbol : class File location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name+".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:165: cannot find symbol symbol : class RuleStorage location: class analyseplans.SAtest RuleStorage ruleStorage = RuleStorage.getRule(ruleName); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:165: cannot find symbol symbol : variable RuleStorage location: class analyseplans.SAtest RuleStorage ruleStorage = RuleStorage.getRule(ruleName); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:166: cannot find symbol symbol : class Rule location: class analyseplans.SAtest Rule rule = ruleStorage.getNewRuleInstance(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:167: cannot find symbol symbol : variable RuleHelper location: class analyseplans.SAtest RuleHelper.populateRule(mod, tc, rule, prop); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:190: cannot find symbol symbol : variable COEFRUMpel1 location: class analyseplans.SAtest double coefvpuepel1 = getDouble(COEFVPUEpel1,COEFRUMpel1,simNum); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:191: cannot find symbol symbol : variable COEFRUMpel2 location: class analyseplans.SAtest double coefvpuepel2 = getDouble(COEFVPUEpel2,COEFRUMpel2,simNum); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:192: cannot find symbol symbol : variable COEFRUMbol1 location: class analyseplans.SAtest double coefvpuebol1 = getDouble(COEFVPUEbol1,COEFRUMbol1,simNum); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:193: cannot find symbol symbol : variable COEFRUMbol2 location: class analyseplans.SAtest double coefvpuebol2 = getDouble(COEFVPUEbol2,COEFRUMbol2,simNum); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:207: cannot find symbol symbol : class List location: class analyseplans.SAtest List <Strategy> strat = nextSimulation.getParameter().getStrategies(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:207: cannot find symbol symbol : class Strategy location: class analyseplans.SAtest List <Strategy> strat = nextSimulation.getParameter().getStrategies(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:208: cannot find symbol symbol : class Map location: class analyseplans.SAtest Map<Strategy,double[]> inactivity = new HashMap<Strategy,double[]>(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:208: cannot find symbol symbol : class Strategy location: class analyseplans.SAtest Map<Strategy,double[]> inactivity = new HashMap<Strategy,double[]>(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:208: cannot find symbol symbol : class HashMap location: class analyseplans.SAtest Map<Strategy,double[]> inactivity = new HashMap<Strategy,double[]>(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:208: cannot find symbol symbol : class Strategy location: class analyseplans.SAtest Map<Strategy,double[]> inactivity = new HashMap<Strategy,double[]>(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:209: cannot find symbol symbol : class Strategy location: class analyseplans.SAtest for(Strategy str : strat){ ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:227: cannot find symbol symbol : class Rule location: class analyseplans.SAtest Rule mpaEsp = getRule(nextSimulation.getStorage(), MPAESP, simNum); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:228: cannot find symbol symbol : class Rule location: class analyseplans.SAtest Rule tacEsp = getRule(nextSimulation.getStorage(), TACESP, simNum); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:229: cannot find symbol symbol : class Rule location: class analyseplans.SAtest Rule paita = getRule(nextSimulation.getStorage(), PAITA, simNum); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:230: cannot find symbol symbol : class Rule location: class analyseplans.SAtest Rule tacmparum= getRule(nextSimulation.getStorage(), TACMPARUM, simNum); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:231: cannot find symbol symbol : class Rule location: class analyseplans.SAtest Rule tae = getRule(nextSimulation.getStorage(), TAE, simNum); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:234: cannot find symbol symbol : variable ChalPel location: class analyseplans.SAtest paramRules.add(ChalPel); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:234: cannot find symbol symbol : variable paramRules location: class analyseplans.SAtest paramRules.add(ChalPel); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:235: cannot find symbol symbol : variable paramRules location: class analyseplans.SAtest paramRules.add(mpaEsp); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:236: cannot find symbol symbol : variable paramRules location: class analyseplans.SAtest paramRules.add(tacEsp); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:237: cannot find symbol symbol : variable paramRules location: class analyseplans.SAtest paramRules.add(paita); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:238: cannot find symbol symbol : variable paramRules location: class analyseplans.SAtest paramRules.add(tacmparum); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:239: cannot find symbol symbol : variable paramRules location: class analyseplans.SAtest paramRules.add(tae); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:243: cannot find symbol symbol : class Properties location: class analyseplans.SAtest Properties prop = new Properties(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:243: cannot find symbol symbol : class Properties location: class analyseplans.SAtest Properties prop = new Properties(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:255: cannot find symbol symbol : class RuleStorage location: class analyseplans.SAtest RuleStorage ruleStorage = RuleStorage.getRule(ruleName); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:255: cannot find symbol symbol : variable RuleStorage location: class analyseplans.SAtest RuleStorage ruleStorage = RuleStorage.getRule(ruleName); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:256: cannot find symbol symbol : class Rule location: class analyseplans.SAtest Rule rule = ruleStorage.getNewRuleInstance(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:257: cannot find symbol symbol : variable RuleHelper location: class analyseplans.SAtest RuleHelper.populateRule(0, nextSimulation.getStorage(), rule, prop); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:258: cannot find symbol symbol : variable paramRules location: class analyseplans.SAtest paramRules.add(rule); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:268: cannot find symbol symbol : class TopiaContext location: class analyseplans.SAtest TopiaContext tx = nextSimulation.getStorage().beginTransaction(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:269: cannot find symbol symbol : class PopulationDAO location: class analyseplans.SAtest PopulationDAO popDAO = IsisFishDAOHelper.getPopulationDAO(tx); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:269: cannot find symbol symbol : variable IsisFishDAOHelper location: class analyseplans.SAtest PopulationDAO popDAO = IsisFishDAOHelper.getPopulationDAO(tx); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:272: cannot find symbol symbol : class Population location: class analyseplans.SAtest Population popAnc = popDAO.findByName("Anchois_long"); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:273: cannot find symbol symbol : class Population location: class analyseplans.SAtest Population popSar = popDAO.findByName("Sardine"); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:274: cannot find symbol symbol : class Population location: class analyseplans.SAtest Population popTho = popDAO.findByName("GermonATN"); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:275: cannot find symbol symbol : class Population location: class analyseplans.SAtest Population popBarM = popDAO.findByName("Bar_Manche"); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:276: cannot find symbol symbol : class Population location: class analyseplans.SAtest Population popBarG = popDAO.findByName("Bar_GdG"); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:277: cannot find symbol symbol : class List location: class analyseplans.SAtest List<Population> popsDAO = new ArrayList<Population>(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:277: cannot find symbol symbol : class Population location: class analyseplans.SAtest List<Population> popsDAO = new ArrayList<Population>(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:277: cannot find symbol symbol : class ArrayList location: class analyseplans.SAtest List<Population> popsDAO = new ArrayList<Population>(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:277: cannot find symbol symbol : class Population location: class analyseplans.SAtest List<Population> popsDAO = new ArrayList<Population>(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:284: cannot find symbol symbol : class List location: class analyseplans.SAtest List<PopulationGroup> groups = popAnc.getPopulationGroup(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:284: cannot find symbol symbol : class PopulationGroup location: class analyseplans.SAtest List<PopulationGroup> groups = popAnc.getPopulationGroup(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:285: cannot find symbol symbol : class List location: class analyseplans.SAtest List<Population> pops = nextSimulation.getParameter().getPopulations(); ^ 100 errors INFO [main] (CompileHelper.java:116) loadClass - Can't load class: analyseplans.SAtest java.lang.ClassNotFoundException: analyseplans.SAtest at java.net.URLClassLoader$1.run(URLClassLoader.java:200) at java.security.AccessController.doPrivileged(Native Method) at java.net.URLClassLoader.findClass(URLClassLoader.java:188) at java.lang.ClassLoader.loadClass(ClassLoader.java:306) at java.lang.ClassLoader.loadClass(ClassLoader.java:251) at fr.ifremer.isisfish.util.CompileHelper.loadClass(CompileHelper.java:114) at fr.ifremer.isisfish.datastore.JavaSourceStorage.getCodeClass(JavaSourceStorage.java:140) at fr.ifremer.isisfish.datastore.JavaSourceStorage.getNewInstance(JavaSourceStorage.java:155) at fr.ifremer.isisfish.datastore.AnalysePlanStorage.getNewAnalysePlanInstance(AnalysePlanStorage.java:121) at fr.ifremer.isisfish.ui.models.analyzeplan.AnalyzePlanComboRenderer.getListCellRendererComponent(AnalyzePlanComboRenderer.java:83) at javax.swing.plaf.basic.BasicComboBoxUI.getDisplaySize(BasicComboBoxUI.java:1291) at javax.swing.plaf.metal.MetalComboBoxUI.getMinimumSize(MetalComboBoxUI.java:316) at javax.swing.plaf.basic.BasicComboBoxUI.getPreferredSize(BasicComboBoxUI.java:865) at javax.swing.JComponent.getPreferredSize(JComponent.java:1632) at java.awt.GridBagLayout.GetLayoutInfo(GridBagLayout.java:1092) at java.awt.GridBagLayout.getLayoutInfo(GridBagLayout.java:893) at java.awt.GridBagLayout.ArrangeGrid(GridBagLayout.java:2048) at java.awt.GridBagLayout.arrangeGrid(GridBagLayout.java:2008) at java.awt.GridBagLayout.layoutContainer(GridBagLayout.java:789) at java.awt.Container.layout(Container.java:1432) at java.awt.Container.doLayout(Container.java:1421) at java.awt.Container.validateTree(Container.java:1519) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validate(Container.java:1491) at java.awt.Window.show(Window.java:825) at java.awt.Component.show(Component.java:1422) at java.awt.Component.setVisible(Component.java:1375) at java.awt.Window.setVisible(Window.java:806) at fr.ifremer.isisfish.IsisFish.launchUI(IsisFish.java:623) at fr.ifremer.isisfish.IsisFish.main(IsisFish.java:150) C:\Documents and Settings\pmarchal\isis-database-3\rules\CalcTACSAV20110525.java:71: class CalcTAC is public, should be declared in a file named CalcTAC.java public class CalcTAC extends AbstractRule { ^ Note: C:\Documents and Settings\pmarchal\isis-database-3\scripts\SiMatrix.java uses unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. 1 error INFO [main] (CompileHelper.java:116) loadClass - Can't load class: rules.CalcTACSAV20110525 java.lang.ClassNotFoundException: rules.CalcTACSAV20110525 at java.net.URLClassLoader$1.run(URLClassLoader.java:200) at java.security.AccessController.doPrivileged(Native Method) at java.net.URLClassLoader.findClass(URLClassLoader.java:188) at java.lang.ClassLoader.loadClass(ClassLoader.java:306) at java.lang.ClassLoader.loadClass(ClassLoader.java:251) at fr.ifremer.isisfish.util.CompileHelper.loadClass(CompileHelper.java:114) at fr.ifremer.isisfish.datastore.JavaSourceStorage.getCodeClass(JavaSourceStorage.java:140) at fr.ifremer.isisfish.datastore.JavaSourceStorage.getNewInstance(JavaSourceStorage.java:155) at fr.ifremer.isisfish.datastore.RuleStorage.getNewRuleInstance(RuleStorage.java:126) at fr.ifremer.isisfish.ui.models.rule.RuleComboRenderer.getListCellRendererComponent(RuleComboRenderer.java:81) at javax.swing.plaf.basic.BasicComboBoxUI.getDisplaySize(BasicComboBoxUI.java:1291) at javax.swing.plaf.metal.MetalComboBoxUI.getMinimumSize(MetalComboBoxUI.java:316) at javax.swing.plaf.basic.BasicComboBoxUI.getPreferredSize(BasicComboBoxUI.java:865) at javax.swing.JComponent.getPreferredSize(JComponent.java:1632) at java.awt.GridBagLayout.GetLayoutInfo(GridBagLayout.java:1092) at java.awt.GridBagLayout.getLayoutInfo(GridBagLayout.java:893) at java.awt.GridBagLayout.preferredLayoutSize(GridBagLayout.java:713) at java.awt.Container.preferredSize(Container.java:1616) at java.awt.Container.getPreferredSize(Container.java:1601) at javax.swing.JComponent.getPreferredSize(JComponent.java:1634) at java.awt.GridBagLayout.GetLayoutInfo(GridBagLayout.java:1092) at java.awt.GridBagLayout.getLayoutInfo(GridBagLayout.java:893) at java.awt.GridBagLayout.preferredLayoutSize(GridBagLayout.java:713) at java.awt.Container.preferredSize(Container.java:1616) at java.awt.Container.getPreferredSize(Container.java:1601) at javax.swing.JComponent.getPreferredSize(JComponent.java:1634) at java.awt.GridBagLayout.GetLayoutInfo(GridBagLayout.java:1092) at java.awt.GridBagLayout.getLayoutInfo(GridBagLayout.java:893) at java.awt.GridBagLayout.ArrangeGrid(GridBagLayout.java:2048) at java.awt.GridBagLayout.arrangeGrid(GridBagLayout.java:2008) at java.awt.GridBagLayout.layoutContainer(GridBagLayout.java:789) at java.awt.Container.layout(Container.java:1432) at java.awt.Container.doLayout(Container.java:1421) at java.awt.Container.validateTree(Container.java:1519) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validate(Container.java:1491) at java.awt.Window.show(Window.java:825) at java.awt.Component.show(Component.java:1422) at java.awt.Component.setVisible(Component.java:1375) at java.awt.Window.setVisible(Window.java:806) at fr.ifremer.isisfish.IsisFish.launchUI(IsisFish.java:623) at fr.ifremer.isisfish.IsisFish.main(IsisFish.java:150) C:\Documents and Settings\pmarchal\isis-database-3\rules\FleetManagementDeepSAV20110525.java:46: class FleetManagementDeep is public, should be declared in a file named FleetManagementDeep.java public class FleetManagementDeep extends AbstractRule { ^ Note: C:\Documents and Settings\pmarchal\isis-database-3\scripts\SiMatrix.java uses unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. 1 error INFO [main] (CompileHelper.java:116) loadClass - Can't load class: rules.FleetManagementDeepSAV20110525 java.lang.ClassNotFoundException: rules.FleetManagementDeepSAV20110525 at java.net.URLClassLoader$1.run(URLClassLoader.java:200) at java.security.AccessController.doPrivileged(Native Method) at java.net.URLClassLoader.findClass(URLClassLoader.java:188) at java.lang.ClassLoader.loadClass(ClassLoader.java:306) at java.lang.ClassLoader.loadClass(ClassLoader.java:251) at fr.ifremer.isisfish.util.CompileHelper.loadClass(CompileHelper.java:114) at fr.ifremer.isisfish.datastore.JavaSourceStorage.getCodeClass(JavaSourceStorage.java:140) at fr.ifremer.isisfish.datastore.JavaSourceStorage.getNewInstance(JavaSourceStorage.java:155) at fr.ifremer.isisfish.datastore.RuleStorage.getNewRuleInstance(RuleStorage.java:126) at fr.ifremer.isisfish.ui.models.rule.RuleComboRenderer.getListCellRendererComponent(RuleComboRenderer.java:81) at javax.swing.plaf.basic.BasicComboBoxUI.getDisplaySize(BasicComboBoxUI.java:1291) at javax.swing.plaf.metal.MetalComboBoxUI.getMinimumSize(MetalComboBoxUI.java:316) at javax.swing.plaf.basic.BasicComboBoxUI.getPreferredSize(BasicComboBoxUI.java:865) at javax.swing.JComponent.getPreferredSize(JComponent.java:1632) at java.awt.GridBagLayout.GetLayoutInfo(GridBagLayout.java:1092) at java.awt.GridBagLayout.getLayoutInfo(GridBagLayout.java:893) at java.awt.GridBagLayout.preferredLayoutSize(GridBagLayout.java:713) at java.awt.Container.preferredSize(Container.java:1616) at java.awt.Container.getPreferredSize(Container.java:1601) at javax.swing.JComponent.getPreferredSize(JComponent.java:1634) at java.awt.GridBagLayout.GetLayoutInfo(GridBagLayout.java:1092) at java.awt.GridBagLayout.getLayoutInfo(GridBagLayout.java:893) at java.awt.GridBagLayout.preferredLayoutSize(GridBagLayout.java:713) at java.awt.Container.preferredSize(Container.java:1616) at java.awt.Container.getPreferredSize(Container.java:1601) at javax.swing.JComponent.getPreferredSize(JComponent.java:1634) at java.awt.GridBagLayout.GetLayoutInfo(GridBagLayout.java:1092) at java.awt.GridBagLayout.getLayoutInfo(GridBagLayout.java:893) at java.awt.GridBagLayout.ArrangeGrid(GridBagLayout.java:2048) at java.awt.GridBagLayout.arrangeGrid(GridBagLayout.java:2008) at java.awt.GridBagLayout.layoutContainer(GridBagLayout.java:789) at java.awt.Container.layout(Container.java:1432) at java.awt.Container.doLayout(Container.java:1421) at java.awt.Container.validateTree(Container.java:1519) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validate(Container.java:1491) at java.awt.Window.show(Window.java:825) at java.awt.Component.show(Component.java:1422) at java.awt.Component.setVisible(Component.java:1375) at java.awt.Window.setVisible(Window.java:806) at fr.ifremer.isisfish.IsisFish.launchUI(IsisFish.java:623) at fr.ifremer.isisfish.IsisFish.main(IsisFish.java:150) INFO [Thread-11] (CronService.java:77) run - Starting 1 registered services INFO [AWT-EventQueue-0] (RegionStorage.java:237) getRegion - Try to open region Deep(C:\Documents and Settings\pmarchal\isis-database-3\regions\Deep) INFO [AWT-EventQueue-0] (DataStorage.java:205) getStorage - Create new storage for Deep INFO [AWT-EventQueue-0] (TopiaContextImpl.java:199) loadServices - Le service topia.service.migration chargé par org.nuiton.topia.migration.TopiaMigrationServiceImpl INFO [AWT-EventQueue-0] (MigrationServiceImpl.java:226) migrateSchema - Starting Topia Migration Service INFO [AWT-EventQueue-0] (MigrationServiceImpl.java:252) migrateSchema - Application version : 3.3, database version : 3.3 INFO [AWT-EventQueue-0] (Resource.java:361) getURLs - search URLs pattern: .*oldmappings/IsisFish/3.3/.*\.hbm\.xml in 84 urls in 2,19s INFO [AWT-EventQueue-0] (MigrationServiceImpl.java:286) migrateSchema - Database is up to date, no migration needed. OpenMap(tm) Version 4.6.5 Copyright (C) BBNT Solutions LLC. All rights reserved. See http://openmap.bbn.com/ for details. INFO [AWT-EventQueue-0] (SimulationStorage.java:462) getSimulation - Try to open simulation sim_sim_deep_2011-05-27-11-02_2011-07-12-18-35(C:\Documents and Settings\pmarchal\isis-database-3\simulations\sim_sim_deep_2011-05-27-11-02_2011-07-12-18-35) INFO [AWT-EventQueue-0] (SimulationStorage.java:462) getSimulation - Try to open simulation sim_sim_deepCalib_2011-05-16-15-55_2011-05-23-17-01(C:\Documents and Settings\pmarchal\isis-database-3\simulations\sim_sim_deepCalib_2011-05-16-15-55_2011-05-23-17-01) INFO [AWT-EventQueue-0] (SimulationStorage.java:462) getSimulation - Try to open simulation sim_deep_2011-05-26-19-12(C:\Documents and Settings\pmarchal\isis-database-3\simulations\sim_deep_2011-05-26-19-12) INFO [AWT-EventQueue-0] (SimulationStorage.java:462) getSimulation - Try to open simulation sim_deep_2011-05-26-19-29(C:\Documents and Settings\pmarchal\isis-database-3\simulations\sim_deep_2011-05-26-19-29) INFO [AWT-EventQueue-0] (SimulationStorage.java:462) getSimulation - Try to open simulation sim_deep_2011-05-27-09-32(C:\Documents and Settings\pmarchal\isis-database-3\simulations\sim_deep_2011-05-27-09-32) INFO [AWT-EventQueue-0] (SimulationStorage.java:462) getSimulation - Try to open simulation sim_deep_2011-05-27-10-05(C:\Documents and Settings\pmarchal\isis-database-3\simulations\sim_deep_2011-05-27-10-05) INFO [AWT-EventQueue-0] (SimulationStorage.java:462) getSimulation - Try to open simulation sim_deep_2011-07-13-15-26(C:\Documents and Settings\pmarchal\isis-database-3\simulations\sim_deep_2011-07-13-15-26) INFO [AWT-EventQueue-0] (SimulAction.java:327) loadOldSimulation - No xml design plan file found C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:24: cannot find symbol symbol: class AnalysePlanIndependent public class SAtest implements AnalysePlanIndependent { ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:26: cannot find symbol symbol : class Log location: class analyseplans.SAtest static private Log log = LogFactory.getLog(SAtest.class); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:30: cannot find symbol symbol : class MatrixND location: class analyseplans.SAtest private MatrixND matrix = null; ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:85: cannot find symbol symbol : class AnalysePlanContext location: class analyseplans.SAtest public void init(AnalysePlanContext context) throws Exception { ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:155: cannot find symbol symbol : class TopiaContext location: class analyseplans.SAtest private Rule getRule(TopiaContext tc, String name, int simulation) throws Exception { ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:155: cannot find symbol symbol : class Rule location: class analyseplans.SAtest private Rule getRule(TopiaContext tc, String name, int simulation) throws Exception { ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:178: cannot find symbol symbol : class AnalysePlanContext location: class analyseplans.SAtest public boolean beforeSimulation(AnalysePlanContext context, SimulationStorage nextSimulation) throws Exception { ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:178: cannot find symbol symbol : class SimulationStorage location: class analyseplans.SAtest public boolean beforeSimulation(AnalysePlanContext context, SimulationStorage nextSimulation) throws Exception { ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:326: cannot find symbol symbol : class AnalysePlanContext location: class analyseplans.SAtest public boolean afterSimulation(AnalysePlanContext context, SimulationStorage lastSimulation) throws Exception { ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:326: cannot find symbol symbol : class SimulationStorage location: class analyseplans.SAtest public boolean afterSimulation(AnalysePlanContext context, SimulationStorage lastSimulation) throws Exception { ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:26: cannot find symbol symbol : variable LogFactory location: class analyseplans.SAtest static private Log log = LogFactory.getLog(SAtest.class); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:88: cannot find symbol symbol : class File location: class analyseplans.SAtest File dir = new File(param_directory); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:88: cannot find symbol symbol : class File location: class analyseplans.SAtest File dir = new File(param_directory); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:89: cannot find symbol symbol : variable MatrixFactory location: class analyseplans.SAtest matrix = MatrixFactory.getInstance().create(new int[]{8704, param_parameterNumber}); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:90: cannot find symbol symbol : class FileReader location: class analyseplans.SAtest matrix.importCSV(new FileReader(new File(dir, MATRIX + ".txt")), new double[]{0,0}); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:90: cannot find symbol symbol : class File location: class analyseplans.SAtest matrix.importCSV(new FileReader(new File(dir, MATRIX + ".txt")), new double[]{0,0}); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:91: cannot find symbol symbol : variable REPRODUCTION location: class analyseplans.SAtest matrix.setSemantic(1, Arrays.asList(new String[]{ALPHA,REPRODUCTION,REPROpil,GROWTH,EFFORTpel1,EFFORTpel2, EFFORTbol1,EFFORTbol2,EFFORTesp,COEFRUMpel1,COEFRUMpel2,COEFRUMbol1,COEFRUMbol2,TACMPARUM,MPAESP,TACESP,TAE})); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:91: cannot find symbol symbol : variable COEFRUMpel1 location: class analyseplans.SAtest matrix.setSemantic(1, Arrays.asList(new String[]{ALPHA,REPRODUCTION,REPROpil,GROWTH,EFFORTpel1,EFFORTpel2, EFFORTbol1,EFFORTbol2,EFFORTesp,COEFRUMpel1,COEFRUMpel2,COEFRUMbol1,COEFRUMbol2,TACMPARUM,MPAESP,TACESP,TAE})); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:91: cannot find symbol symbol : variable COEFRUMpel2 location: class analyseplans.SAtest matrix.setSemantic(1, Arrays.asList(new String[]{ALPHA,REPRODUCTION,REPROpil,GROWTH,EFFORTpel1,EFFORTpel2, EFFORTbol1,EFFORTbol2,EFFORTesp,COEFRUMpel1,COEFRUMpel2,COEFRUMbol1,COEFRUMbol2,TACMPARUM,MPAESP,TACESP,TAE})); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:91: cannot find symbol symbol : variable COEFRUMbol1 location: class analyseplans.SAtest matrix.setSemantic(1, Arrays.asList(new String[]{ALPHA,REPRODUCTION,REPROpil,GROWTH,EFFORTpel1,EFFORTpel2, EFFORTbol1,EFFORTbol2,EFFORTesp,COEFRUMpel1,COEFRUMpel2,COEFRUMbol1,COEFRUMbol2,TACMPARUM,MPAESP,TACESP,TAE})); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:91: cannot find symbol symbol : variable COEFRUMbol2 location: class analyseplans.SAtest matrix.setSemantic(1, Arrays.asList(new String[]{ALPHA,REPRODUCTION,REPROpil,GROWTH,EFFORTpel1,EFFORTpel2, EFFORTbol1,EFFORTbol2,EFFORTesp,COEFRUMpel1,COEFRUMpel2,COEFRUMbol1,COEFRUMbol2,TACMPARUM,MPAESP,TACESP,TAE})); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:91: cannot find symbol symbol : variable Arrays location: class analyseplans.SAtest matrix.setSemantic(1, Arrays.asList(new String[]{ALPHA,REPRODUCTION,REPROpil,GROWTH,EFFORTpel1,EFFORTpel2, EFFORTbol1,EFFORTbol2,EFFORTesp,COEFRUMpel1,COEFRUMpel2,COEFRUMbol1,COEFRUMbol2,TACMPARUM,MPAESP,TACESP,TAE})); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:105: cannot find symbol symbol : class File location: class analyseplans.SAtest File dir = new File(param_directory); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:105: cannot find symbol symbol : class File location: class analyseplans.SAtest File dir = new File(param_directory); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:106: cannot find symbol symbol : class Properties location: class analyseplans.SAtest Properties prop = new Properties(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:106: cannot find symbol symbol : class Properties location: class analyseplans.SAtest Properties prop = new Properties(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:107: cannot find symbol symbol : class BufferedReader location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name + ".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:107: cannot find symbol symbol : class FileReader location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name + ".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:107: cannot find symbol symbol : class File location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name + ".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:122: cannot find symbol symbol : class File location: class analyseplans.SAtest File dir = new File(param_directory); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:122: cannot find symbol symbol : class File location: class analyseplans.SAtest File dir = new File(param_directory); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:123: cannot find symbol symbol : class Properties location: class analyseplans.SAtest Properties prop = new Properties(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:123: cannot find symbol symbol : class Properties location: class analyseplans.SAtest Properties prop = new Properties(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:124: cannot find symbol symbol : class BufferedReader location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name + ".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:124: cannot find symbol symbol : class FileReader location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name + ".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:124: cannot find symbol symbol : class File location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name + ".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:129: cannot find symbol symbol : variable StringUtil location: class analyseplans.SAtest double [] result = StringUtil.toArrayDouble(prop.getProperty(""+mod).split(";")); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:140: cannot find symbol symbol : class File location: class analyseplans.SAtest File dir = new File(param_directory); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:140: cannot find symbol symbol : class File location: class analyseplans.SAtest File dir = new File(param_directory); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:141: cannot find symbol symbol : class Properties location: class analyseplans.SAtest Properties prop = new Properties(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:141: cannot find symbol symbol : class Properties location: class analyseplans.SAtest Properties prop = new Properties(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:142: cannot find symbol symbol : class BufferedReader location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name + ".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:142: cannot find symbol symbol : class FileReader location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name + ".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:142: cannot find symbol symbol : class File location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name + ".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:156: cannot find symbol symbol : class File location: class analyseplans.SAtest File dir = new File(param_directory); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:156: cannot find symbol symbol : class File location: class analyseplans.SAtest File dir = new File(param_directory); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:157: cannot find symbol symbol : class Properties location: class analyseplans.SAtest Properties prop = new Properties(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:157: cannot find symbol symbol : class Properties location: class analyseplans.SAtest Properties prop = new Properties(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:158: cannot find symbol symbol : class BufferedReader location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name+".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:158: cannot find symbol symbol : class FileReader location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name+".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:158: cannot find symbol symbol : class File location: class analyseplans.SAtest prop.load(new BufferedReader(new FileReader(new File(dir, name+".txt")))); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:165: cannot find symbol symbol : class RuleStorage location: class analyseplans.SAtest RuleStorage ruleStorage = RuleStorage.getRule(ruleName); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:165: cannot find symbol symbol : variable RuleStorage location: class analyseplans.SAtest RuleStorage ruleStorage = RuleStorage.getRule(ruleName); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:166: cannot find symbol symbol : class Rule location: class analyseplans.SAtest Rule rule = ruleStorage.getNewRuleInstance(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:167: cannot find symbol symbol : variable RuleHelper location: class analyseplans.SAtest RuleHelper.populateRule(mod, tc, rule, prop); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:190: cannot find symbol symbol : variable COEFRUMpel1 location: class analyseplans.SAtest double coefvpuepel1 = getDouble(COEFVPUEpel1,COEFRUMpel1,simNum); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:191: cannot find symbol symbol : variable COEFRUMpel2 location: class analyseplans.SAtest double coefvpuepel2 = getDouble(COEFVPUEpel2,COEFRUMpel2,simNum); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:192: cannot find symbol symbol : variable COEFRUMbol1 location: class analyseplans.SAtest double coefvpuebol1 = getDouble(COEFVPUEbol1,COEFRUMbol1,simNum); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:193: cannot find symbol symbol : variable COEFRUMbol2 location: class analyseplans.SAtest double coefvpuebol2 = getDouble(COEFVPUEbol2,COEFRUMbol2,simNum); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:207: cannot find symbol symbol : class List location: class analyseplans.SAtest List <Strategy> strat = nextSimulation.getParameter().getStrategies(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:207: cannot find symbol symbol : class Strategy location: class analyseplans.SAtest List <Strategy> strat = nextSimulation.getParameter().getStrategies(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:208: cannot find symbol symbol : class Map location: class analyseplans.SAtest Map<Strategy,double[]> inactivity = new HashMap<Strategy,double[]>(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:208: cannot find symbol symbol : class Strategy location: class analyseplans.SAtest Map<Strategy,double[]> inactivity = new HashMap<Strategy,double[]>(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:208: cannot find symbol symbol : class HashMap location: class analyseplans.SAtest Map<Strategy,double[]> inactivity = new HashMap<Strategy,double[]>(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:208: cannot find symbol symbol : class Strategy location: class analyseplans.SAtest Map<Strategy,double[]> inactivity = new HashMap<Strategy,double[]>(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:209: cannot find symbol symbol : class Strategy location: class analyseplans.SAtest for(Strategy str : strat){ ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:227: cannot find symbol symbol : class Rule location: class analyseplans.SAtest Rule mpaEsp = getRule(nextSimulation.getStorage(), MPAESP, simNum); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:228: cannot find symbol symbol : class Rule location: class analyseplans.SAtest Rule tacEsp = getRule(nextSimulation.getStorage(), TACESP, simNum); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:229: cannot find symbol symbol : class Rule location: class analyseplans.SAtest Rule paita = getRule(nextSimulation.getStorage(), PAITA, simNum); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:230: cannot find symbol symbol : class Rule location: class analyseplans.SAtest Rule tacmparum= getRule(nextSimulation.getStorage(), TACMPARUM, simNum); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:231: cannot find symbol symbol : class Rule location: class analyseplans.SAtest Rule tae = getRule(nextSimulation.getStorage(), TAE, simNum); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:234: cannot find symbol symbol : variable ChalPel location: class analyseplans.SAtest paramRules.add(ChalPel); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:234: cannot find symbol symbol : variable paramRules location: class analyseplans.SAtest paramRules.add(ChalPel); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:235: cannot find symbol symbol : variable paramRules location: class analyseplans.SAtest paramRules.add(mpaEsp); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:236: cannot find symbol symbol : variable paramRules location: class analyseplans.SAtest paramRules.add(tacEsp); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:237: cannot find symbol symbol : variable paramRules location: class analyseplans.SAtest paramRules.add(paita); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:238: cannot find symbol symbol : variable paramRules location: class analyseplans.SAtest paramRules.add(tacmparum); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:239: cannot find symbol symbol : variable paramRules location: class analyseplans.SAtest paramRules.add(tae); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:243: cannot find symbol symbol : class Properties location: class analyseplans.SAtest Properties prop = new Properties(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:243: cannot find symbol symbol : class Properties location: class analyseplans.SAtest Properties prop = new Properties(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:255: cannot find symbol symbol : class RuleStorage location: class analyseplans.SAtest RuleStorage ruleStorage = RuleStorage.getRule(ruleName); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:255: cannot find symbol symbol : variable RuleStorage location: class analyseplans.SAtest RuleStorage ruleStorage = RuleStorage.getRule(ruleName); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:256: cannot find symbol symbol : class Rule location: class analyseplans.SAtest Rule rule = ruleStorage.getNewRuleInstance(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:257: cannot find symbol symbol : variable RuleHelper location: class analyseplans.SAtest RuleHelper.populateRule(0, nextSimulation.getStorage(), rule, prop); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:258: cannot find symbol symbol : variable paramRules location: class analyseplans.SAtest paramRules.add(rule); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:268: cannot find symbol symbol : class TopiaContext location: class analyseplans.SAtest TopiaContext tx = nextSimulation.getStorage().beginTransaction(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:269: cannot find symbol symbol : class PopulationDAO location: class analyseplans.SAtest PopulationDAO popDAO = IsisFishDAOHelper.getPopulationDAO(tx); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:269: cannot find symbol symbol : variable IsisFishDAOHelper location: class analyseplans.SAtest PopulationDAO popDAO = IsisFishDAOHelper.getPopulationDAO(tx); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:272: cannot find symbol symbol : class Population location: class analyseplans.SAtest Population popAnc = popDAO.findByName("Anchois_long"); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:273: cannot find symbol symbol : class Population location: class analyseplans.SAtest Population popSar = popDAO.findByName("Sardine"); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:274: cannot find symbol symbol : class Population location: class analyseplans.SAtest Population popTho = popDAO.findByName("GermonATN"); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:275: cannot find symbol symbol : class Population location: class analyseplans.SAtest Population popBarM = popDAO.findByName("Bar_Manche"); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:276: cannot find symbol symbol : class Population location: class analyseplans.SAtest Population popBarG = popDAO.findByName("Bar_GdG"); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:277: cannot find symbol symbol : class List location: class analyseplans.SAtest List<Population> popsDAO = new ArrayList<Population>(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:277: cannot find symbol symbol : class Population location: class analyseplans.SAtest List<Population> popsDAO = new ArrayList<Population>(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:277: cannot find symbol symbol : class ArrayList location: class analyseplans.SAtest List<Population> popsDAO = new ArrayList<Population>(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:277: cannot find symbol symbol : class Population location: class analyseplans.SAtest List<Population> popsDAO = new ArrayList<Population>(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:284: cannot find symbol symbol : class List location: class analyseplans.SAtest List<PopulationGroup> groups = popAnc.getPopulationGroup(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:284: cannot find symbol symbol : class PopulationGroup location: class analyseplans.SAtest List<PopulationGroup> groups = popAnc.getPopulationGroup(); ^ C:\Documents and Settings\pmarchal\isis-database-3\analyseplans\SAtest.java:285: cannot find symbol symbol : class List location: class analyseplans.SAtest List<Population> pops = nextSimulation.getParameter().getPopulations(); ^ 100 errors INFO [AWT-EventQueue-0] (CompileHelper.java:116) loadClass - Can't load class: analyseplans.SAtest java.lang.ClassNotFoundException: analyseplans.SAtest at java.net.URLClassLoader$1.run(URLClassLoader.java:200) at java.security.AccessController.doPrivileged(Native Method) at java.net.URLClassLoader.findClass(URLClassLoader.java:188) at java.lang.ClassLoader.loadClass(ClassLoader.java:306) at java.lang.ClassLoader.loadClass(ClassLoader.java:251) at fr.ifremer.isisfish.util.CompileHelper.loadClass(CompileHelper.java:114) at fr.ifremer.isisfish.datastore.JavaSourceStorage.getCodeClass(JavaSourceStorage.java:140) at fr.ifremer.isisfish.datastore.JavaSourceStorage.getNewInstance(JavaSourceStorage.java:155) at fr.ifremer.isisfish.datastore.AnalysePlanStorage.getNewAnalysePlanInstance(AnalysePlanStorage.java:121) at fr.ifremer.isisfish.ui.models.analyzeplan.AnalyzePlanComboRenderer.getListCellRendererComponent(AnalyzePlanComboRenderer.java:83) at javax.swing.plaf.basic.BasicComboBoxUI.getDisplaySize(BasicComboBoxUI.java:1291) at javax.swing.plaf.metal.MetalComboBoxUI.getMinimumSize(MetalComboBoxUI.java:316) at javax.swing.plaf.basic.BasicComboBoxUI.getPreferredSize(BasicComboBoxUI.java:865) at javax.swing.JComponent.getPreferredSize(JComponent.java:1632) at java.awt.GridBagLayout.GetLayoutInfo(GridBagLayout.java:1092) at java.awt.GridBagLayout.getLayoutInfo(GridBagLayout.java:893) at java.awt.GridBagLayout.ArrangeGrid(GridBagLayout.java:2048) at java.awt.GridBagLayout.arrangeGrid(GridBagLayout.java:2008) at java.awt.GridBagLayout.layoutContainer(GridBagLayout.java:789) at java.awt.Container.layout(Container.java:1432) at java.awt.Container.doLayout(Container.java:1421) at java.awt.Container.validateTree(Container.java:1519) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validateTree(Container.java:1526) at java.awt.Container.validate(Container.java:1491) at javax.swing.RepaintManager.validateInvalidComponents(RepaintManager.java:635) at javax.swing.SystemEventQueueUtilities$ComponentWorkRequest.run(SystemEventQueueUtilities.java:127) at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209) at java.awt.EventQueue.dispatchEvent(EventQueue.java:597) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:273) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:183) at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:173) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:168) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:160) at java.awt.EventDispatchThread.run(EventDispatchThread.java:121) INFO [AWT-EventQueue-0] (RuleHelper.java:114) populateRule - Properties: {libLogLevel=error, numberOfSensitivitySimulation=-1, population.BlueLingSouth.number=[[0.0, 0.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [102510.0, 1036490.0], [86490.0, 874510.0], [61200.0, 618800.0], [37440.0, 378560.0], [21780.0, 220220.0], [15390.0, 155610.0], [7380.0, 74620.0], [4410.0, 44590.0], [2340.0, 23660.0], [2340.0, 23660.0], [990.0, 10010.0], [540.0, 5460.0], [10080.0, 101920.0]], rule.0.parameter.dossierexport=C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/VPA, preScript=, usePreScript=false, population.Bsf5b6712b.number=[[0.0]], population.Rng5b6712b.number=[[0.0]], numberOfYear=6, population.Skh5b67.number=[[0.0]], scriptLogLevel=info, rule.0.parameter.pathtovpadata=C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/VPA, simulLogLevel=info, rules=XSA,CalcTAC,FleetManagementDeep,, useOptimization=true, useStatistic=false, useAnalysePlan=false, isisFishVersion=3.3.0.3, rule.0.parameter.discardabsence=false, rule.0.parameter.stockname=BlueLingSouth, regionName=Deep, populations=BlueLingSouth,Pok3a46,Rng5b6712b,Bsf5b6712b,Skh5b67, description=, population.Pok3a46.number=[[0.0], [1.21834E8], [1.21834E8], [1.21834E8], [5.052E7], [8.1267E7], [1.2022E7], [3.952E7], [6387000.0], [5929000.0], [8364000.0]], rule.0.parameter.month=0, plans=, rule.0.parameter.tuningfile=bli567fl.txt, simulatorName=DefaultSimulator.java, strategies=S2,S1, analysePlanNumber=-1, rule.0.parameter.nomindex=bli567ind.txt, exports=Abundances.java,Biomasses.java,CapturesNombre.java,CapturesPoids.java,EffortsMetier.java,, resultNames=matrixEffortNominalPerStrategyMet,matrixCatchRatePerStrategyMet,matrixCatchPerStrategyMetPerZoneMet,matrixCatchWeightPerStrategyMetPerZoneMet,matrixCatchWeightPerStrategyMetPerZonePop,matrixFishingMortality,matrixAbundance,matrixAbundanceBeginMonth,matrixBiomass,matrixBiomassBeginMonth,matrixGrossValueOfLandingsPerSpeciesPerStrategyMet,} WARN [AWT-EventQueue-0] (RuleHelper.java:115) populateRule - Can't reload field pop for rule XSA with value null org.apache.commons.beanutils.ConversionException: Can't convert 'null' to org.nuiton.topia.persistence.TopiaEntity at fr.ifremer.isisfish.util.TopiaEntityConverter.convert(TopiaEntityConverter.java:85) at org.apache.commons.beanutils.ConvertUtilsBean.convert(ConvertUtilsBean.java:470) at fr.ifremer.isisfish.rule.RuleHelper.populateRule(RuleHelper.java:106) at fr.ifremer.isisfish.simulator.SimulationParameter.getRules(SimulationParameter.java:824) at fr.ifremer.isisfish.ui.simulator.SimulAction.getRules(SimulAction.java:350) at fr.ifremer.isisfish.ui.simulator.ParamsUI.setRulesListModel(ParamsUI.java:339) at fr.ifremer.isisfish.ui.simulator.ParamsUI.refresh(ParamsUI.java:152) at fr.ifremer.isisfish.ui.simulator.ParamsUI$1.run(ParamsUI.java:170) at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209) at java.awt.EventQueue.dispatchEvent(EventQueue.java:597) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:273) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:183) at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:173) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:168) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:160) at java.awt.EventDispatchThread.run(EventDispatchThread.java:121) INFO [AWT-EventQueue-0] (SimulationControl.java:194) setText - backup database en cours INFO [AWT-EventQueue-0] (SimulationControl.java:194) setText - backup database terminé INFO [AWT-EventQueue-0] (RuleHelper.java:114) populateRule - Properties: {libLogLevel=error, numberOfSensitivitySimulation=-1, population.BlueLingSouth.number=[[0.0, 0.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [102510.0, 1036490.0], [86490.0, 874510.0], [61200.0, 618800.0], [37440.0, 378560.0], [21780.0, 220220.0], [15390.0, 155610.0], [7380.0, 74620.0], [4410.0, 44590.0], [2340.0, 23660.0], [2340.0, 23660.0], [990.0, 10010.0], [540.0, 5460.0], [10080.0, 101920.0]], rule.0.parameter.dossierexport=C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/VPA, preScript=, usePreScript=false, population.Bsf5b6712b.number=[[0.0]], population.Rng5b6712b.number=[[0.0]], numberOfYear=6, population.Skh5b67.number=[[0.0]], scriptLogLevel=info, rule.0.parameter.pathtovpadata=C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/VPA, simulLogLevel=info, rules=XSA,CalcTAC,FleetManagementDeep,, useOptimization=true, useStatistic=false, useAnalysePlan=false, isisFishVersion=3.3.0.3, rule.0.parameter.stockname=BlueLingSouth, rule.0.parameter.discardabsence=false, regionName=Deep, populations=BlueLingSouth,Pok3a46,Rng5b6712b,Bsf5b6712b,Skh5b67, description=, population.Pok3a46.number=[[0.0], [1.21834E8], [1.21834E8], [1.21834E8], [5.052E7], [8.1267E7], [1.2022E7], [3.952E7], [6387000.0], [5929000.0], [8364000.0]], rule.0.parameter.month=0, plans=, rule.0.parameter.tuningfile=bli567fl.txt, simulatorName=DefaultSimulator.java, strategies=S2,S1, analysePlanNumber=-1, rule.0.parameter.nomindex=bli567ind.txt, exports=Abundances.java,Biomasses.java,CapturesNombre.java,CapturesPoids.java,EffortsMetier.java,, resultNames=matrixEffortNominalPerStrategyMet,matrixCatchRatePerStrategyMet,matrixCatchPerStrategyMetPerZoneMet,matrixCatchWeightPerStrategyMetPerZoneMet,matrixCatchWeightPerStrategyMetPerZonePop,matrixFishingMortality,matrixAbundance,matrixAbundanceBeginMonth,matrixBiomass,matrixBiomassBeginMonth,matrixGrossValueOfLandingsPerSpeciesPerStrategyMet,} WARN [AWT-EventQueue-0] (RuleHelper.java:115) populateRule - Can't reload field pop for rule XSA with value null org.apache.commons.beanutils.ConversionException: Can't convert 'null' to org.nuiton.topia.persistence.TopiaEntity at fr.ifremer.isisfish.util.TopiaEntityConverter.convert(TopiaEntityConverter.java:85) at org.apache.commons.beanutils.ConvertUtilsBean.convert(ConvertUtilsBean.java:470) at fr.ifremer.isisfish.rule.RuleHelper.populateRule(RuleHelper.java:106) at fr.ifremer.isisfish.simulator.SimulationParameter.getRules(SimulationParameter.java:824) at fr.ifremer.isisfish.simulator.launcher.SimulationService.prepareSimulationZipFile(SimulationService.java:994) at fr.ifremer.isisfish.simulator.launcher.SimulationService.submit(SimulationService.java:391) at fr.ifremer.isisfish.ui.simulator.SimulAction.launchSimulation(SimulAction.java:981) at fr.ifremer.isisfish.ui.simulator.ParamsUI.launchSimulation(ParamsUI.java:253) at fr.ifremer.isisfish.ui.simulator.ParamsUI.doActionPerformed__on__buttonSimulParamsSimulate(ParamsUI.java:658) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25) at java.lang.reflect.Method.invoke(Method.java:597) at jaxx.runtime.Util$1.invoke(Util.java:144) at $Proxy4.actionPerformed(Unknown Source) at javax.swing.AbstractButton.fireActionPerformed(AbstractButton.java:1995) at javax.swing.AbstractButton$Handler.actionPerformed(AbstractButton.java:2318) at javax.swing.DefaultButtonModel.fireActionPerformed(DefaultButtonModel.java:387) at javax.swing.DefaultButtonModel.setPressed(DefaultButtonModel.java:242) at javax.swing.plaf.basic.BasicButtonListener.mouseReleased(BasicButtonListener.java:236) at java.awt.Component.processMouseEvent(Component.java:6041) at javax.swing.JComponent.processMouseEvent(JComponent.java:3265) at java.awt.Component.processEvent(Component.java:5806) at java.awt.Container.processEvent(Container.java:2058) at java.awt.Component.dispatchEventImpl(Component.java:4413) at java.awt.Container.dispatchEventImpl(Container.java:2116) at java.awt.Component.dispatchEvent(Component.java:4243) at java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4322) at java.awt.LightweightDispatcher.processMouseEvent(Container.java:3986) at java.awt.LightweightDispatcher.dispatchEvent(Container.java:3916) at java.awt.Container.dispatchEventImpl(Container.java:2102) at java.awt.Window.dispatchEventImpl(Window.java:2440) at java.awt.Component.dispatchEvent(Component.java:4243) at java.awt.EventQueue.dispatchEvent(EventQueue.java:599) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:273) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:183) at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:173) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:168) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:160) at java.awt.EventDispatchThread.run(EventDispatchThread.java:121) INFO [AWT-EventQueue-0] (SimulationControl.java:194) setText - Converting file to unicode parsing for html-charset/xml-encoding attribute with codepage: US-ASCII parsing for html-charset/xml-encoding attribute with codepage: US-ASCII parsing for html-charset/xml-encoding attribute with codepage: US-ASCII parsing for html-charset/xml-encoding attribute with codepage: US-ASCII parsing for html-charset/xml-encoding attribute with codepage: US-ASCII parsing for html-charset/xml-encoding attribute with codepage: US-ASCII parsing for html-charset/xml-encoding attribute with codepage: US-ASCII parsing for html-charset/xml-encoding attribute with codepage: US-ASCII parsing for html-charset/xml-encoding attribute with codepage: US-ASCII INFO [AWT-EventQueue-0] (SimulationControl.java:194) setText - Scripts and rules Compilation Note: C:\DOCUME~1\pmarchal\LOCALS~1\Temp\isisfish-simulation-1310569850608-preparation\scripts\SiMatrix.java uses unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. INFO [AWT-EventQueue-0] (SimulationControl.java:194) setText - Temps de compilation 1.672s INFO [pool-2-thread-1] (SimulationJob.java:204) run - Start simulation: sim_deep_2011-07-13-17-10 INFO [pool-2-thread-1] (SimulationMonitor.java:353) simulationStart - Saving simulation sim_deep_2011-07-13-17-10 as started INFO [pool-2-thread-1] (SubProcessSimulationLauncher.java:128) message - Préparation de la simulation INFO [pool-2-thread-1] (SimulationControl.java:194) setText - Préparation de la simulation INFO [pool-2-thread-1] (SubProcessSimulationLauncher.java:199) subProcessSimulate - SubProcess start: java.lang.ProcessImpl@1fba6e [C:\Program Files\Java\jdk1.6.0_06\jre\bin\java, -Xmx1024M, -classpath, ;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/isis-fish-3.3.0.3.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/nuiton-utils-1.1.4.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/log4j-1.2.16.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/commons-logging-1.1.1.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/commons-primitives-1.0.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/commons-collections-3.2.1.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/commons-beanutils-1.8.3.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/nuiton-i18n-api-1.0.1.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/topia-persistence-2.3.0-beta-6.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/hibernate-core-3.3.2.GA.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/antlr-2.7.7.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/dom4j-1.6.1.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/xml-apis-1.0.b2.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/jta-1.1.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/slf4j-api-1.5.10.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/hibernate-ehcache-3.3.2.GA.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/ehcache-1.2.3.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/javassist-3.8.0.GA.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/topia-service-migration-2.3.0-beta-6.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/commons-lang-2.5.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/nuiton-matrix-2.0.1.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/jaxx-runtime-swing-1.7.1.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/jaxx-runtime-api-1.7.1.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/nuiton-widgets-1.0.1.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/mail-1.4.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/activation-1.1.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/looks-1.2.2.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/l2fprod-common-0.1.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/javahelp-2.0.02.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/jxlayer-3.0.3.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/commons-jxpath-1.3.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/xwork-2.1.3.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/ognl-2.6.11.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/jaxx-runtime-swing-widget-1.7.1.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/swingx-1.6.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/filters-2.0.235.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/swing-worker-1.1.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/commons-io-1.4.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/nuiton-j2r-1.0.1.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/JRI-0.8-0.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/REngine-0.6-0.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/Rserve-0.6-0.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/commons-math-2.0.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/slf4j-log4j12-1.5.10.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/jfreechart-1.0.12.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/jcommon-1.0.15.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/bsh-2.0b4.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/openmap-4.6.5.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/rsyntaxtextarea-1.4.0.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/jsch-0.1.42.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/xercesImpl-2.9.1.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/jaxen-1.1.1.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/jdom-1.0.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/xom-1.0.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/xmlParserAPIs-2.6.2.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/xalan-2.6.0.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/icu4j-2.6.1.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/h2-1.2.128.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/aspectwerkz-2.0.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/qdox-1.4.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/trove-1.0.2.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/jrexx-1.1.1.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/aspectwerkz-jdk5-2.0.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/aspectwerkz-core-2.0.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/asm-1.5.4-snapshot.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/asm-attrs-1.5.4-snapshot.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/asm-util-1.5.4-snapshot.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/ssj-2.1.1.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/interpreter-1.6.8.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/logger-1.6.4.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/language-1.6.7.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/Blas-20081007.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/colt-20081007.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/optimization-20081007.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/svnkit-1.3.2-1.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/jna-3.2.2.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/trilead-ssh2-build213-svnkit-1.3-patch.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/sqljet-1.0.1.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/antlr-runtime-3.1.3.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/stringtemplate-3.2.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/freemarker-2.3.16.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/cpdetector-1.0.7.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/jchardet-1.0.jar;/C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/isis-fish-3.3.0.3-bin/isis-fish-3.3.0.3/lib/tools-1.6.0.16.jar;C:\Paul\2005-2011\DPCP\P6\DEEPFISHMAN\Science\WP5\isis-fish-3.3.0.3-bin\isis-fish-3.3.0.3\isis-fish-3.3.0.3.jar, fr.ifremer.isisfish.IsisFish, --option, launch.ui, false, --simulateWithSimulation, sim_deep_2011-07-13-17-10, C:\DOCUME~1\pmarchal\LOCALS~1\Temp\isisfish-simulation-1310569850608-preparation.zip] INFO [pool-2-thread-1] (SubProcessSimulationLauncher.java:240) <init> - Lancement du thread de surveillance des simulations externes INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (IsisFish.java:314) init - Starting Isis-Fish with args : [--option, launch.ui, false, --simulateWithSimulation, sim_deep_2011-07-13-17-10, C:\DOCUME~1\pmarchal\LOCALS~1\Temp\isisfish-simulation-1310569850608-preparation.zip] INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (IsisFish.java:319) init - 13/07/11 17:10 Java version: 1.6.0_06-b02 Isis-fish version: 3.3.0.3 INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (URLConverter.java:68) <init> - org.nuiton.util.URLConverter@12c7568 INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (ConverterUtil.java:163) initConverters - register converter org.nuiton.util.URLConverter@12c7568 INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (ConverterUtil.java:163) initConverters - register converter org.nuiton.util.URIConverter@a9c09e INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (ConverterUtil.java:163) initConverters - register converter org.nuiton.util.VersionConverter@9f671b INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (ConverterUtil.java:163) initConverters - register converter org.nuiton.util.LocaleConverter@f1bb78 INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (ApplicationConfig.java:1028) parse - Chargement du fichier de config: C:\Documents and Settings\pmarchal\.isis-config-3 INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (IsisConfig.java:907) parse - Check configuration change INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (IsisConfig.java:928) parse - Config file migration done INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (Resource.java:361) getURLs - search URLs pattern: .*i18n/.+\.properties in 10 urls in 407.369ms INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (I18nLoader.java:162) init - 9 bundle(s) found, [18 file(s)] in 6.181ms INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (I18nLoader.java:233) addLanguage - Language <locale: fr_FR,nbStences:1325>, nbEntries: 9, nbSentences: 1325 in 19.179ms INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (IsisFish.java:142) main - after init done in 0.719. INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (SimulationAction.java:131) simulateWithSimulationAndScript - Command line action : simulateWithSimulationAndScript (sim_deep_2011-07-13-17-10, C:\DOCUME~1\pmarchal\LOCALS~1\Temp\isisfish-simulation-1310569850608-preparation.zip, null) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (SimulationExecutor.java:72) <init> - SimulationExecutor started with 2 thread for dans un sous processus INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (SimulationExecutor.java:72) <init> - SimulationExecutor started with 1 thread for sur le serveur Caparmor INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (SimulationExecutor.java:72) <init> - SimulationExecutor started with 1 thread for dans le même processus INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (InProcessSimulatorLauncher.java:95) simulate - simulate sim_deep_2011-07-13-17-10 with file C:\DOCUME~1\pmarchal\LOCALS~1\Temp\isisfish-simulation-1310569850608-preparation.zip INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> WARN [main] (InProcessSimulatorLauncher.java:103) simulate - Warning , simulation sim_deep_2011-07-13-17-10 aleady exists INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> WARN [main] (InProcessSimulatorLauncher.java:104) simulate - Deleting it before doing simulation INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (SimulationStorage.java:462) getSimulation - Try to open simulation sim_deep_2011-07-13-17-10(C:\Documents and Settings\pmarchal\isis-database-3\simulations\sim_deep_2011-07-13-17-10) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (SimulationStorage.java:667) importAndRenameZip - Import simulation file C:\DOCUME~1\pmarchal\LOCALS~1\Temp\isisfish-simulation-1310569850608-preparation.zip in directory C:\Documents and Settings\pmarchal\isis-database-3\simulations and rename from ^.*?/(.*)$ to sim_deep_2011-07-13-17-10/$1 INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (SimulationStorage.java:674) importAndRenameZip - Last entry was sim_deep_2011-07-13-17-10/simulators/DefaultSimulator.java extract name sim_deep_2011-07-13-17-10 INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (DataStorage.java:205) getStorage - Create new storage for sim_deep_2011-07-13-17-10 INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (TopiaContextImpl.java:199) loadServices - Le service topia.service.migration chargé par org.nuiton.topia.migration.TopiaMigrationServiceImpl INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (MigrationServiceImpl.java:226) migrateSchema - Starting Topia Migration Service INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus>ERROR [main] (JDBCExceptionReporter.java:101) logExceptions - Table "TMS_VERSION" not found; SQL statement: INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus>select this_.version as version26_0_ from tms_version this_ [42102-128] INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (MigrationServiceImpl.java:249) migrateSchema - Database version not found, so database schema is considered as V0 INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (MigrationServiceImpl.java:252) migrateSchema - Application version : 3.3, database version : 0 INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (Resource.java:361) getURLs - search URLs pattern: .*oldmappings/IsisFish/0/.*\.hbm\.xml in 86 urls in 2,309s INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (MigrationServiceImpl.java:286) migrateSchema - Database is up to date, no migration needed. INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (TopiaMigrationServiceImpl.java:249) postRestoreSchema - postRestoreSchema event detected, redo, schema migration INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (MigrationServiceImpl.java:226) migrateSchema - Starting Topia Migration Service INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (MigrationServiceImpl.java:252) migrateSchema - Application version : 3.3, database version : 3.3 INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (Resource.java:361) getURLs - search URLs pattern: .*oldmappings/IsisFish/3.3/.*\.hbm\.xml in 86 urls in 2,332s INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [main] (MigrationServiceImpl.java:286) migrateSchema - Database is up to date, no migration needed. INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [SimThread sim_deep_2011-07-13-17-10] (InProcessSimulatorLauncher.java:311) localSimulateSameThread - 13/07/11 17:11 Java version: 1.6.0_06-b02 Isis-fish version: 3.3.0.3 INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus>AspectWerkz - INFO - Pre-processor org.codehaus.aspectwerkz.transform.AspectWerkzPreProcessor loaded and initialized INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [SimThread sim_deep_2011-07-13-17-10] (InProcessSimulatorLauncher.java:285) changeClassLoader - Classloader used for simulation: fr.ifremer.isisfish.aspect.AspectClassLoader@6e3e5e [file:/C:/Documents%20and%20Settings/pmarchal/isis-database-3/simulations/sim_deep_2011-07-13-17-10/, file:/C:/Documents%20and%20Settings/pmarchal/isis-build/sim_deep_2011-07-13-17-10/] INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [SimThread sim_deep_2011-07-13-17-10] (SimulationStorage.java:322) setParameter - DEBUG: store param: {libLogLevel=error, numberOfSensitivitySimulation=-1, population.BlueLingSouth.number=[[0.0, 0.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [102510.0, 1036490.0], [86490.0, 874510.0], [61200.0, 618800.0], [37440.0, 378560.0], [21780.0, 220220.0], [15390.0, 155610.0], [7380.0, 74620.0], [4410.0, 44590.0], [2340.0, 23660.0], [2340.0, 23660.0], [990.0, 10010.0], [540.0, 5460.0], [10080.0, 101920.0]], rule.0.parameter.dossierexport=C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/VPA, preScript=, usePreScript=false, population.Bsf5b6712b.number=[[0.0]], population.Rng5b6712b.number=[[0.0]], numberOfYear=6, population.Skh5b67.number=[[0.0]], scriptLogLevel=info, rule.0.parameter.pathtovpadata=C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/VPA, simulLogLevel=info, rules=XSA,CalcTAC,FleetManagementDeep,, useOptimization=true, useStatistic=false, useAnalysePlan=false, isisFishVersion=3.3.0.3, rule.0.parameter.stockname=BlueLingSouth, rule.0.parameter.discardabsence=false, regionName=Deep, populations=BlueLingSouth,Pok3a46,Rng5b6712b,Bsf5b6712b,Skh5b67, description=, population.Pok3a46.number=[[0.0], [1.21834E8], [1.21834E8], [1.21834E8], [5.052E7], [8.1267E7], [1.2022E7], [3.952E7], [6387000.0], [5929000.0], [8364000.0]], rule.0.parameter.month=0, plans=, rule.0.parameter.tuningfile=bli567fl.txt, simulatorName=DefaultSimulator.java, strategies=S2,S1, analysePlanNumber=-1, rule.0.parameter.nomindex=bli567ind.txt, exports=Abundances.java,Biomasses.java,CapturesNombre.java,CapturesPoids.java,EffortsMetier.java,, resultNames=matrixEffortNominalPerStrategyMet,matrixCatchRatePerStrategyMet,matrixCatchPerStrategyMetPerZoneMet,matrixCatchWeightPerStrategyMetPerZoneMet,matrixCatchWeightPerStrategyMetPerZonePop,matrixFishingMortality,matrixAbundance,matrixAbundanceBeginMonth,matrixBiomass,matrixBiomassBeginMonth,matrixGrossValueOfLandingsPerSpeciesPerStrategyMet,} INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [SimThread sim_deep_2011-07-13-17-10] (InProcessSimulatorLauncher.java:197) message - Mise en place des aspects Cache INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [SimThread sim_deep_2011-07-13-17-10] (SimulationControl.java:194) setText - Mise en place des aspects Cache INFO [Thread-7] (SimulationControl.java:194) setText - Mise en place des aspects Cache INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [SimThread sim_deep_2011-07-13-17-10] (DataStorage.java:158) getMemStorage - Create new memory storage for sim_deep_2011-07-13-17-10 INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [SimThread sim_deep_2011-07-13-17-10] (InProcessSimulatorLauncher.java:197) message - Simulation execution INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [SimThread sim_deep_2011-07-13-17-10] (SimulationControl.java:194) setText - Simulation execution INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [SimThread sim_deep_2011-07-13-17-10] (SimulationContext.java:319) message - Exécution des scripts de Presimulation INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [SimThread sim_deep_2011-07-13-17-10] (SimulationControl.java:194) setText - Exécution des scripts de Presimulation INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [SimThread sim_deep_2011-07-13-17-10] (RuleHelper.java:114) populateRule - Properties: {libLogLevel=error, numberOfSensitivitySimulation=-1, population.BlueLingSouth.number=[[0.0, 0.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [227629.0, 2301581.0], [102510.0, 1036490.0], [86490.0, 874510.0], [61200.0, 618800.0], [37440.0, 378560.0], [21780.0, 220220.0], [15390.0, 155610.0], [7380.0, 74620.0], [4410.0, 44590.0], [2340.0, 23660.0], [2340.0, 23660.0], [990.0, 10010.0], [540.0, 5460.0], [10080.0, 101920.0]], rule.0.parameter.dossierexport=C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/VPA, preScript=, usePreScript=false, population.Bsf5b6712b.number=[[0.0]], population.Rng5b6712b.number=[[0.0]], numberOfYear=6, population.Skh5b67.number=[[0.0]], scriptLogLevel=info, rule.0.parameter.pathtovpadata=C:/Paul/2005-2011/DPCP/P6/DEEPFISHMAN/Science/WP5/VPA, simulLogLevel=info, useStatistic=false, useOptimization=true, rules=XSA,CalcTAC,FleetManagementDeep,, useAnalysePlan=false, isisFishVersion=3.3.0.3, rule.0.parameter.stockname=BlueLingSouth, rule.0.parameter.discardabsence=false, regionName=Deep, populations=BlueLingSouth,Pok3a46,Rng5b6712b,Bsf5b6712b,Skh5b67, description=, population.Pok3a46.number=[[0.0], [1.21834E8], [1.21834E8], [1.21834E8], [5.052E7], [8.1267E7], [1.2022E7], [3.952E7], [6387000.0], [5929000.0], [8364000.0]], rule.0.parameter.month=0, simulatorName=DefaultSimulator.java, rule.0.parameter.tuningfile=bli567fl.txt, plans=, strategies=S2,S1, analysePlanNumber=-1, rule.0.parameter.nomindex=bli567ind.txt, exports=Abundances.java,Biomasses.java,CapturesNombre.java,CapturesPoids.java,EffortsMetier.java,, resultNames=matrixEffortNominalPerStrategyMet,matrixCatchRatePerStrategyMet,matrixCatchPerStrategyMetPerZoneMet,matrixCatchWeightPerStrategyMetPerZoneMet,matrixCatchWeightPerStrategyMetPerZonePop,matrixFishingMortality,matrixAbundance,matrixAbundanceBeginMonth,matrixBiomass,matrixBiomassBeginMonth,matrixGrossValueOfLandingsPerSpeciesPerStrategyMet,} INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> WARN [SimThread sim_deep_2011-07-13-17-10] (RuleHelper.java:115) populateRule - Can't reload field pop for rule XSA with value null INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus>org.apache.commons.beanutils.ConversionException: Can't convert 'null' to org.nuiton.topia.persistence.TopiaEntity INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at fr.ifremer.isisfish.util.TopiaEntityConverter.convert(TopiaEntityConverter.java:85) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at org.apache.commons.beanutils.ConvertUtilsBean.convert(ConvertUtilsBean.java:470) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at fr.ifremer.isisfish.rule.RuleHelper.populateRule(RuleHelper.java:106) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at fr.ifremer.isisfish.simulator.SimulationParameter.getRules(SimulationParameter.java:824) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at fr.ifremer.isisfish.simulator.SimulationParameter.reloadContextParameters(SimulationParameter.java:1925) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at simulators.DefaultSimulator.simulate(DefaultSimulator.java:108) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at fr.ifremer.isisfish.simulator.launcher.InProcessSimulatorLauncher.localSimulateSameThread(InProcessSimulatorLauncher.java:392) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at fr.ifremer.isisfish.simulator.launcher.InProcessSimulatorLauncher$SimThread.run(InProcessSimulatorLauncher.java:259) INFO [Thread-7] (SimulationControl.java:194) setText - Exécution des scripts de Presimulation INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [SimThread sim_deep_2011-07-13-17-10] (SimulationControl.java:194) setText - Rules initialisation:[rules.XSA@144c133, rules.CalcTAC@e81590, rules.FleetManagementDeep@dfd5b8] INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus>ERROR [SimThread sim_deep_2011-07-13-17-10] (RNetEngine.java:125) init - Unable to establish a connection to the R server. Maybe you forgot to start it. Try using the command "R CMD Rserve". INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus>org.rosuda.REngine.Rserve.RserveException: Cannot connect: Connection refused: connect INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at org.rosuda.REngine.Rserve.RConnection.<init>(RConnection.java:88) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at org.rosuda.REngine.Rserve.RConnection.<init>(RConnection.java:60) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at org.nuiton.j2r.net.RNetEngine.init(RNetEngine.java:123) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at org.nuiton.j2r.net.RNetEngine.init(RNetEngine.java:106) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at org.nuiton.j2r.RProxy.initOnNet(RProxy.java:131) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at org.nuiton.j2r.RProxy.init(RProxy.java:78) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at org.nuiton.j2r.RProxy.init(RProxy.java:170) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at org.nuiton.j2r.RProxy.<init>(RProxy.java:57) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at rules.XSA.aw$original$_AW_$init$_AW_$rules_XSA(XSA.java:205) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at rules.XSA_1__1260650406_1714870043___AW_JoinPoint.proceed(Unknown Source) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at fr.ifremer.isisfish.aspect.RuleAspect.makeTimedCall(RuleAspect.java:119) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at fr.ifremer.isisfish.aspect.RuleAspect.initCall(RuleAspect.java:69) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at rules.XSA_1__1260650406_1714870043___AW_JoinPoint.proceed(Unknown Source) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at rules.XSA_1__1260650406_1714870043___AW_JoinPoint.invoke(Unknown Source) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at rules.XSA.init(XSA.java) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at simulators.DefaultSimulator.simulate(DefaultSimulator.java:116) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at fr.ifremer.isisfish.simulator.launcher.InProcessSimulatorLauncher.localSimulateSameThread(InProcessSimulatorLauncher.java:392) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at fr.ifremer.isisfish.simulator.launcher.InProcessSimulatorLauncher$SimThread.run(InProcessSimulatorLauncher.java:259) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus>ERROR [SimThread sim_deep_2011-07-13-17-10] (RProxy.java:82) init - Initialization of R with Network failed, trying JNI INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus>Cannot find JRI native library! INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus>Please make sure that the JRI native library is in a directory listed in java.library.path. INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus>java.lang.UnsatisfiedLinkError: no jri in java.library.path INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at java.lang.ClassLoader.loadLibrary(ClassLoader.java:1682) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at java.lang.Runtime.loadLibrary0(Runtime.java:823) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at java.lang.System.loadLibrary(System.java:1030) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at org.rosuda.JRI.Rengine.<clinit>(Rengine.java:19) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at org.nuiton.j2r.jni.RJniEngine.init(RJniEngine.java:77) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at org.nuiton.j2r.RProxy.initOnJNI(RProxy.java:114) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at org.nuiton.j2r.RProxy.init(RProxy.java:85) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at org.nuiton.j2r.RProxy.init(RProxy.java:170) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at org.nuiton.j2r.RProxy.<init>(RProxy.java:57) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at rules.XSA.aw$original$_AW_$init$_AW_$rules_XSA(XSA.java:205) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at rules.XSA_1__1260650406_1714870043___AW_JoinPoint.proceed(Unknown Source) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at fr.ifremer.isisfish.aspect.RuleAspect.makeTimedCall(RuleAspect.java:119) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at fr.ifremer.isisfish.aspect.RuleAspect.initCall(RuleAspect.java:69) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at rules.XSA_1__1260650406_1714870043___AW_JoinPoint.proceed(Unknown Source) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at rules.XSA_1__1260650406_1714870043___AW_JoinPoint.invoke(Unknown Source) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at rules.XSA.init(XSA.java) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at simulators.DefaultSimulator.simulate(DefaultSimulator.java:116) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at fr.ifremer.isisfish.simulator.launcher.InProcessSimulatorLauncher.localSimulateSameThread(InProcessSimulatorLauncher.java:392) INFO [Thread-41] (SubProcessSimulationLauncher.java:264) run - dans un sous processus> at fr.ifremer.isisfish.simulator.launcher.InProcessSimulatorLauncher$SimThread.run(InProcessSimulatorLauncher.java:259) INFO [pool-2-thread-1] (SubProcessSimulationLauncher.java:212) subProcessSimulate - SubProcess finished INFO [pool-2-thread-1] (SimulationStorage.java:462) getSimulation - Try to open simulation sim_deep_2011-07-13-17-10(C:\Documents and Settings\pmarchal\isis-database-3\simulations\sim_deep_2011-07-13-17-10) INFO [Thread-7] (SimulationControl.java:194) setText - Rules initialisation:[rules.XSA@144c133, rules.CalcTAC@e81590, rules.FleetManagementDeep@dfd5b8] INFO [Thread-7] (SimulationControl.java:194) setText - Rules initialisation:[rules.XSA@144c133, rules.CalcTAC@e81590, rules.FleetManagementDeep@dfd5b8] INFO [AWT-EventQueue-0] (QueueAction.java:83) stopSimulation - User stop simulation sim_deep_2011-07-13-17-10 INFO [Thread-7] (SimulationMonitor.java:467) waitAndCheckProgression - Job sim_deep_2011-07-13-17-10 finished INFO [Thread-7] (SimulationMonitor.java:579) doPostSimulationOperation - Do post simulation operation for sim_deep_2011-07-13-17-10 INFO [Thread-7] (SimulationMonitor.java:397) simulationStop - Saving simulation sim_deep_2011-07-13-17-10 as stopped

6 29

Warn entities
by Bastien Preuss 24 Oct '11

24 Oct '11

Bonjour, Dans mon debug jai un « warn » qui semble pointer un problème avec lune de mes zones. Mais je ne comprends pas quel est le problème et à quelle zone cela correspond il. Comment puis-je le savoir ? Les lignes correspondantes sont : INFO [Thread-238] (SubProcessSimulationLauncher.java:273) run - dans un sous processus> WARN [SimThread sim_Test_Dawa_1a_2011-10-21-16-43] (MatrixType.java:234) splitObjects - Continuing but can't convert object in matrix isisfish.populationSeasonInfo.migration from String: 'org.nuiton.topia.persistence.TopiaEntity(fr.ifremer.isisfish.entities.Zone# 1301349218125#0.09025190928069848)' INFO [Thread-238] (SubProcessSimulationLauncher.java:273) run - dans un sous processus> WARN [SimThread sim_Test_Dawa_1a_2011-10-21-16-43] (MatrixType.java:234) splitObjects - Continuing but can't convert object in matrix isisfish.populationSeasonInfo.migration from String: 'org.nuiton.topia.persistence.TopiaEntity(fr.ifremer.isisfish.entities.Zone# 1301349218125#0.09025190928069848)' INFO [Thread-238] (SubProcessSimulationLauncher.java:273) run - dans un sous processus> WARN [SimThread sim_Test_Dawa_1a_2011-10-21-16-43] (MatrixType.java:234) splitObjects - Continuing but can't convert object in matrix isisfish.populationSeasonInfo.migration from String: 'org.nuiton.topia.persistence.TopiaEntity(fr.ifremer.isisfish.entities.Zone# 1301349218125#0.09025190928069848)' INFO [Thread-238] (SubProcessSimulationLauncher.java:273) run - dans un sous processus> WARN [SimThread sim_Test_Dawa_1a_2011-10-21-16-43] (MatrixType.java:234) splitObjects - Continuing but can't convert object in matrix isisfish.populationSeasonInfo.migration from String: 'org.nuiton.topia.persistence.TopiaEntity(fr.ifremer.isisfish.entities.Zone# 1301349218125#0.09025190928069848)' Merci. Bastien Bastien Preuss Doctorant (PhD Student) IFREMER - IRD - Université de Nouvelle-Calédonie 101 Promenade Roger Laroque BP A5 98848 Noumea cedex New-Caledonia Tel: (+687) 260 723 P afin de contribuer au respect de l'environnement, merci de n'imprimer ce mail qu'en cas de nécessité

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Re: [Isis-fish-users] ISIS et R et la gestion des bits....
by Bastien Preuss 21 Oct '11

21 Oct '11

Pour revenir sur la question d'Isis 64 bits. Si je comprends bien on peut utiliser ISIS 64 uniquement si les actions demandées à Isis ne nécessitent pas d'appels à R. Si c'est bien le cas. Dans quels cas exactement Isis fait-il appel à R? Merci. Bastien -----Message d'origine----- De : isis-fish-users-bounces(a)list.isis-fish.org [mailto:isis-fish-users-bounces@list.isis-fish.org] De la part de Eric Chatellier Envoyé : mardi 20 septembre 2011 18:33 À : isis-fish-users(a)list.isis-fish.org Objet : Re: [Isis-fish-users] ISIS et R et la gestion des bits.... Le 20/09/2011 09:24, Youen VERMARD a écrit : > Salut! Bonjour, > > Une petite question. > > J'ai repris le code qu'on avait développé avec Paul pour faire communiquer > ISIS et FLR sur mon nouvel ordi tout beau tout neuf. > > Pb c'est un 64 bits, du coup je lance ISIS 64, mais la version de R qui est > utilisée existe uniquement en version 32... > > Stéphanie m'a dit qu'éric avait déjà géré ça. > Y a-t-il quelque chose à faire? Isis, R et Java doivent être dans la même architecture pour fonctionner. Dans votre cas, il faut changer Java en 32 bits et lancer Isis 32. Cordialement, -- Éric Chatellier <chatellier(a)codelutin.com> Tel: 02.40.50.29.28 http://www.codelutin.com _______________________________________________ Isis-fish-users mailing list Isis-fish-users(a)list.isis-fish.org http://list.isis-fish.org/cgi-bin/mailman/listinfo/isis-fish-users

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Pb coefficient de migration
by Bastien Preuss 20 Oct '11

20 Oct '11

Bonjour, Dans mon debug, jai 2 problèmes concernant des coefficients de migration. Le première à lieu lors des mois de juillet et indique que le coefficient est négatif (ligne 13265 du debug). Jai été voir dans le PopulationSeasonInfoImpl à la ligne correspondante (528) et cela correspond au cas ou « ancienne_val < 0 ». Je crois comprendre que cela veut dire quaprès application de mon coeff de migration et départ de leffectif correspondant, leffectif restant dans la zone de départ est négatif ? Mais je ne vois pas comment cela est possible, car je calcule mes coefficients comme le rapport entre la surface de la zone darrive sur la surface totale de mes zones darrivée. Donc au total, ça ne devrait pas dépasser 1, et leffectif restant ne devrait pas être négatif. Je mets mon debug et le code de calcul du coeff en PJ. Le second problème à lieu lors du mois daout par exemple, et concerne visiblement une partie de mon code Java pour le calcul dun autre coef de migration. Toutes mon équation est affichée dans le debug (ligne 40044), mais je ne comprends pas linfo donnée par les « caused by ». Il semble y avoir entre autre un problème de nullPointerExeption. Je mets mon debug et le code de calcul du coeff en PJ si quelquun voit de quoi il sagit. Merci. Bastien Bastien Preuss Doctorant (PhD Student) IFREMER - IRD - Université de Nouvelle-Calédonie 101 Promenade Roger Laroque BP A5 98848 Noumea cedex New-Caledonia Tel: (+687) 260 723 P afin de contribuer au respect de l'environnement, merci de n'imprimer ce mail qu'en cas de nécessité

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Récupérer les vraies valeurs simulées dans une AS ?
by Loic GASCHE 12 Oct '11

12 Oct '11

Bonjour, Je suis allé faire un tour sur la FAQ mais je n'ai pas vu de sujet se rapportant à ça, alors je viens poser la question ici... Est-il possible de récupérer facilement les coordonnées réelles des points simulés lors d'une analyse de sensibilité ? En effet, "isis.factors" donne pour chaque paramètre la valeur nominale et les bornes supérieures et inférieures, mais c'est tout. Et comme lors des simulations les valeurs simulées évoluent entre 0 et 1 on récupère en sortie pour la plupart des paramètres des valeurs entre 0 et 1 qui dépendent du nombre de cardinalités choisies... Et il pourrait être bon de revenir à quelque chose de plus concret avec les vraies valeurs auxquelles cela correspond pour chaque paramètre. Je ne sais pas si j'ai été très clair, en tout cas si quelqu'un sait si ISIS donne ces données en sortie je suis preneur... Bonne journée. Loïc

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Re: [Isis-fish-users] Message FATAL reproduction
by Bastien Preuss 10 Oct '11

10 Oct '11

Eric, je pense avoir trouvé l'erreur: La matrice de correspondance entre zones repro et zones de recrutement ne s'était pas actualisée, et contenait une zone que j'avais supprimée de la liste des zones de reproduction. Je ne sais pas pourquoi c'était resté ainsi. En sélectionnant de nouveau mes zones de repro dans la liste, je n'ai plus d'erreur dans le debug lors de la repro. Bastien -----Message d'origine----- De : isis-fish-users-bounces(a)list.isis-fish.org [mailto:isis-fish-users-bounces@list.isis-fish.org] De la part de Eric Chatellier Envoyé : lundi 10 octobre 2011 20:16 À : isis-fish-users(a)list.isis-fish.org Objet : Re: [Isis-fish-users] Message FATAL reproduction Le 10/10/2011 11:13, Bastien Preuss a écrit : > Bonjour, > > > > Lors des mois de reproduction, jai dans le log un message concernant mon > équation de repro qui pourtant compile bien. > > Le message est le suivant : > > > > INFO [Thread-86] (SubProcessSimulationLauncher.java:273) run - dans un sous > processus>FATAL [SimThread sim_Test_Saumonee_1a_2011-10-10-19-10] > (PopulationSeasonInfoImpl.java:836) getReproductionMatrix - Error in matrix > reproduction creation L'erreur intérressante est dans les lignes suivantes. Tu peux les envoyer ? ou le debug ? Merci. -- Éric Chatellier <chatellier(a)codelutin.com> Tel: 02.40.50.29.28 http://www.codelutin.com _______________________________________________ Isis-fish-users mailing list Isis-fish-users(a)list.isis-fish.org http://list.isis-fish.org/cgi-bin/mailman/listinfo/isis-fish-users

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Re: [Isis-fish-users] Message FATAL reproduction
by Bastien Preuss 10 Oct '11

10 Oct '11

Ok, voici mon debug en PJ. Le passage en question n'est pas loin de la fin. Merci. Bastien -----Message d'origine----- De : isis-fish-users-bounces(a)list.isis-fish.org [mailto:isis-fish-users-bounces@list.isis-fish.org] De la part de Eric Chatellier Envoyé : lundi 10 octobre 2011 20:16 À : isis-fish-users(a)list.isis-fish.org Objet : Re: [Isis-fish-users] Message FATAL reproduction Le 10/10/2011 11:13, Bastien Preuss a écrit : > Bonjour, > > > > Lors des mois de reproduction, jai dans le log un message concernant mon > équation de repro qui pourtant compile bien. > > Le message est le suivant : > > > > INFO [Thread-86] (SubProcessSimulationLauncher.java:273) run - dans un sous > processus>FATAL [SimThread sim_Test_Saumonee_1a_2011-10-10-19-10] > (PopulationSeasonInfoImpl.java:836) getReproductionMatrix - Error in matrix > reproduction creation L'erreur intérressante est dans les lignes suivantes. Tu peux les envoyer ? ou le debug ? Merci. -- Éric Chatellier <chatellier(a)codelutin.com> Tel: 02.40.50.29.28 http://www.codelutin.com _______________________________________________ Isis-fish-users mailing list Isis-fish-users(a)list.isis-fish.org http://list.isis-fish.org/cgi-bin/mailman/listinfo/isis-fish-users

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Message FATAL reproduction
by Bastien Preuss 10 Oct '11

10 Oct '11

Bonjour, Lors des mois de reproduction, jai dans le log un message concernant mon équation de repro qui pourtant compile bien. Le message est le suivant : INFO [Thread-86] (SubProcessSimulationLauncher.java:273) run - dans un sous processus>FATAL [SimThread sim_Test_Saumonee_1a_2011-10-10-19-10] (PopulationSeasonInfoImpl.java:836) getReproductionMatrix - Error in matrix reproduction creation Quel est exactement le problème avec la création de la matrice de repro. Merci. Bastien Bastien Preuss Doctorant (PhD Student) IFREMER - IRD - Université de Nouvelle-Calédonie 101 Promenade Roger Laroque BP A5 98848 Noumea cedex New-Caledonia Tel: (+687) 260 723 P afin de contribuer au respect de l'environnement, merci de n'imprimer ce mail qu'en cas de nécessité

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Affichage log bizarre coeff migration mois
by Bastien Preuss 10 Oct '11

10 Oct '11

Bonjour, Je constate quelque chose détrange et je voudrais savoir si cest normal. Jai mis en place des migrations en utilisant les équations, et jai des saisons qui durent 1 mois, donc 1 saison = 1 mois. Je fais afficher dans les logs le nom de la zone de départ pour une migration qui à lieu au mois de mars (saison = mars), ainsi que la valeur du coefficient de migration correspondant. Ce qui est bizarre, cest que jai effectivement ces informations qui saffichent pour le mois de mars, mais aussi pour le mois davril, alors que ce nest pas la même équation, et que je nai mis aucun affichage dans les log pour les migration du mois davril. Lorsque je modifie les informations à afficher dans les log pour le mois de mars, je constate la même modification pour les log du mois davril. Y a-t-il une raison à cela ? Merci. Bastien Bastien Preuss Doctorant (PhD Student) IFREMER - IRD - Université de Nouvelle-Calédonie 101 Promenade Roger Laroque BP A5 98848 Noumea cedex New-Caledonia Tel: (+687) 260 723 P afin de contribuer au respect de l'environnement, merci de n'imprimer ce mail qu'en cas de nécessité

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