- Isis-fish-users - mailman.cloud.codelutin.com

Equation prix
by maillarl 14 Nov '24

14 Nov '24

Bonjour, j'essaye de simuler des espèces pélagiques issus de la base DEFIPEL, mais j'obtiens une erreur venant de l'équation de prix. L'erreur persiste même quand la partie problématique est en commentaire. Avez vous une idée pour résoudre mon problème ? Ci dessous le log : Bonne journée. Louis. NFO|17:20:59,774|InProcessSimulatorLauncher.java|338|localSimulateSameThread|13/11/2024 17:20 Java version: 21.0.1+12-LTS-29 Isis-fish version: 4.4.8.1-SNAPSHOT INFO|17:21:01,379|InProcessSimulatorLauncher.java|201|message|Mise en place des aspects Cache INFO|17:21:01,381|SimulationControl.java|206|setText|Mise en place des aspects Cache INFO|17:21:08,134|DataStorage.java|163|getMemStorage|Create new memory storage for sim_sim_Test_forcage_2018_2020_sardine_2024-11-13-13-30_2024-11-13-17-13 INFO|17:21:09,311|DataStorage.java|208|getStorage|Create new storage for sim_sim_Test_forcage_2018_2020_sardine_2024-11-13-13-30_2024-11-13-17-13 INFO|17:21:21,332|InProcessSimulatorLauncher.java|201|message|Simulation execution INFO|17:21:21,332|SimulationControl.java|206|setText|Simulation execution INFO|17:21:21,351|SimulationContext.java|497|message|Exécution des scripts de Presimulation INFO|17:21:21,351|SimulationControl.java|206|setText|Exécution des scripts de Presimulation INFO|17:21:27,920|InProcessSimulatorLauncher.java|434|localSimulateSameThread|Matrix backend: org.nuiton.math.matrix.DoubleBigVector and org.nuiton.math.matrix.DoubleSparseHashVector threshold: 1000 INFO|17:21:28,074|IsisCacheBackendOnGuava.java|238|adjustedCache|Cache size ajusted to 1,512Go (equivalent to 0 step need) INFO|17:21:30,677|SimulationControl.java|206|setText|Rules initialisation:[rules.Forcage_DELMOGES@6e7e23e1] INFO|17:21:30,688|IsisCacheBackendOnGuava.java|104|weigh|Cache can't compute value size of class scripts.SiMatrixEffortByCell INFO|17:21:34,558|DefaultSimulator.java|136|simulate|Rule Forcage_DELMOGES initialized INFO|17:21:34,566|SimulationControl.java|206|setText|begin step janvier 0 INFO|17:21:34,571|SimulationControl.java|206|setText|Reloading parameters INFO|17:21:44,627|ResultManager.java|199|isEnabled|Enabled result: [MatrixAbundanceBeginMonth, MatrixLandingWeight, MatrixAbundance, MatrixGrossValueOfLandingsPerStrategyMet, MatrixCatchWeightPerStrategyMetPerZonePop, MatrixBiomass, MatrixBiomassBeginMonth, MatrixEffortNominalPerStrategyMet] INFO|17:21:44,629|SimulationControl.java|206|setText|Evaluate rules conditions (1 rules) INFO|17:21:44,640|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,640|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,640|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,641|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,641|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,641|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,641|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,641|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,642|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,642|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,643|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,643|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,643|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,643|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,643|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,644|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,644|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,644|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,644|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,644|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,645|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,645|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,645|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,645|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,646|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,646|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,647|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,647|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,648|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,648|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,648|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,648|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,649|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,649|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,650|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,650|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,650|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,651|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,651|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,651|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,651|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,652|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,652|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,652|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,652|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,652|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,652|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,652|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,652|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,653|DefaultSimulator.java|206|simulate|Activate rule: Forcage_DELMOGES INFO|17:21:44,654|SimulationControl.java|206|setText|Do pre action Rules INFO|17:21:49,914|SimulationControl.java|206|setText|Simulate one month INFO|17:21:49,926|DefaultSimulator.java|402|computeMonth|====================== begin janvier 0 - PIL_pop_GdG =========================== 1731514909922 INFO|17:21:49,926|DefaultSimulator.java|405|computeMonth|N: MatrixAbundance matrix2D [ 0.0,0.0,0.0,0.0,0.0,0.0,0.0, 0.0,0.0,0.0,0.0,0.0,0.0,0.0, 0.0,0.0,0.0,0.0,0.0,0.0,0.0, 0.0,0.0,0.0,0.0,0.0,0.0,0.0, 0.0,0.0,0.0,0.0,0.0,0.0,0.0, 0.0,0.0,0.0,0.0,0.0,0.0,0.0, 0.0,0.0,0.0,0.0,0.0,0.0,0.0, 0.0,0.0,0.0,0.0,0.0,0.0,0.0, 6.401362954E8,0.0,0.0,0.0,0.0,0.0,0.0, 7.75601533434E8,0.0,0.0,0.0,0.0,0.0,0.0, 5.23955966714069E8,1891466.22754953,0.0,0.0,0.0,0.0,0.0, 6.51844105304531E8,2353138.79245047,0.0,0.0,0.0,0.0,0.0, 0.0,2.40828950387238E8,2.73260725893435E8,1.09935356403674E8,2.88170231727619E7,1.01030520756919E7,3.11641241746813E7, 0.0,9.20066444592762E8,1.04396927410656E9,4.19998643596326E8,1.10092976827238E8,3.85978479243081E7,1.19059875825319E8,] INFO|17:21:50,709|SimulationControl.java|206|setText|Add some results INFO|17:21:50,749|SimulationControl.java|206|setText|Do post action Rules INFO|17:21:51,209|SimulationControl.java|206|setText|Compute discard and landing INFO|17:21:51,245|SimulationControl.java|206|setText|Add economics results ERROR|17:21:51,256|InProcessSimulatorLauncher.java|496|localSimulateSameThread|Error during simulation fr.ifremer.isisfish.IsisFishRuntimeException: Can't evaluate equation at fr.ifremer.isisfish.util.EvaluatorHelper.catchEvaluateException(EvaluatorHelper.java:333) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] at fr.ifremer.isisfish.entities.PopulationGroupImpl.getPrice(PopulationGroupImpl.java:140) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] at scripts.GravityModel.matrixGrossValueOfLandingsPerSpeciesPerStrategyMet_aroundBody30(GravityModel.java:479) ~[?:?] at scripts.GravityModel$AjcClosure31.run(GravityModel.java:1) ~[?:?] at org.aspectj.runtime.reflect.JoinPointImpl.proceed(JoinPointImpl.java:179) ~[aspectjweaver-1.9.21.jar:?] at fr.ifremer.isisfish.util.cache.IsisCache.realCall(IsisCache.java:196) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] at fr.ifremer.isisfish.util.cache.IsisCache.get(IsisCache.java:137) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] at fr.ifremer.isisfish.aspect.CacheAspect.call(CacheAspect.java:73) ~[?:?] at scripts.GravityModel.matrixGrossValueOfLandingsPerSpeciesPerStrategyMet(GravityModel.java:455) ~[?:?] at scripts.GravityModel.matrixGrossValueOfLandingsPerStrategyMet_aroundBody40(GravityModel.java:630) ~[?:?] at scripts.GravityModel$AjcClosure41.run(GravityModel.java:1) ~[?:?] at org.aspectj.runtime.reflect.JoinPointImpl.proceed(JoinPointImpl.java:179) ~[aspectjweaver-1.9.21.jar:?] at fr.ifremer.isisfish.util.cache.IsisCache.realCall(IsisCache.java:196) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] at fr.ifremer.isisfish.util.cache.IsisCache.get(IsisCache.java:137) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] at fr.ifremer.isisfish.aspect.CacheAspect.call(CacheAspect.java:73) ~[?:?] at scripts.GravityModel.matrixGrossValueOfLandingsPerStrategyMet(GravityModel.java:630) ~[?:?] at simulators.DefaultSimulator.saveGravityModel(DefaultSimulator.java:601) ~[?:?] at simulators.DefaultSimulator.simulate(DefaultSimulator.java:359) ~[?:?] at fr.ifremer.isisfish.simulator.launcher.InProcessSimulatorLauncher.localSimulateSameThread(InProcessSimulatorLauncher.java:435) [isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] at fr.ifremer.isisfish.simulator.launcher.InProcessSimulatorLauncher$SimThread.run(InProcessSimulatorLauncher.java:262) [isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] Caused by: fr.ifremer.isisfish.IsisFishRuntimeException: Impossible d'évaluer l'équation: // Price equation (DiscardLess/Prices/ISIS-Prices.r) estimated on 2005-2015 data (SACROIS) /* double intercept = 2.48295; double elast = -0.1151255; double [] monCoeff = {-0.07106902, 0.01328236, 0.09040206, 0.18154457, 0.04743849, 0.11498531, 0.116823, 0.08515962, 0.00815031, -0.14004487, -0.17750797, -0.26916387}; double [] catCoeff = {-0.31705877, -0.08405542, 0.1707226, 0.34583786}; // 10, 20, 30, 40 double [] catBounds = {67/1000, 42/1000, 28/1000, 15/1000}; // lower weight bounds of categories in Kg double MCRS = 11; TimeStep date = context.getSimulationControl().getStep() ; int m = context.getSimulationControl().getStep().getMonth().getMonthNumber(); // equivalence commercial category - weight int g = 0; while (catBounds[g] > group.getMeanWeight()) g++; g = Math.min(g,catBounds.length); // get landings last month Population pop = group.getPopulation(); String[] necessaryResult = {MatrixLandingWeight.NAME}; String name = "MatrixLandingWeight.NAME";//PerMet" ; MatrixND landing = context.getResultManager().getMatrix(date,pop,name).copy(); Double landingSum = landing.sumAll(); double prix = 0 ; if (landingSum > 10){ prix = (intercept + monCoeff[m] + catCoeff[g] + elast*Math.log(landingSum)); } if(group.getLength() < MCRS){ return 0; } else { return prix; } */ return 0.7; at fr.ifremer.isisfish.entities.EquationImpl.evaluate(EquationImpl.java:89) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103) ~[?:?] at java.base/java.lang.reflect.Method.invoke(Method.java:580) ~[?:?] at org.hibernate.proxy.pojo.bytebuddy.ByteBuddyInterceptor.intercept(ByteBuddyInterceptor.java:56) ~[hibernate-core-5.6.5.Final.jar:5.6.5.Final] at org.hibernate.proxy.ProxyConfiguration$InterceptorDispatcher.intercept(ProxyConfiguration.java:95) ~[hibernate-core-5.6.5.Final.jar:5.6.5.Final] at fr.ifremer.isisfish.entities.EquationImpl$HibernateProxy$Kg4JfhvO.evaluate(Unknown Source) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] at fr.ifremer.isisfish.entities.PopulationGroupImpl.getPrice(PopulationGroupImpl.java:138) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] ... 18 more Caused by: fr.ifremer.isisfish.IsisFishRuntimeException: Can't invoke method 'public abstract double fr.ifremer.isisfish.equation.PopulationPrice.compute(fr.ifremer.isisfish.simulator.SimulationContext,fr.ifremer.isisfish.entities.PopulationGroup) throws java.lang.Exception' for class formules.PopulationPricefr_ifremer_isisfish_entities_Equation_1708945644805_0_4983254199587347 at fr.ifremer.isisfish.util.EvaluatorHelper.invoke(EvaluatorHelper.java:517) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] at fr.ifremer.isisfish.util.EvaluatorHelper.evaluate(EvaluatorHelper.java:356) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] at fr.ifremer.isisfish.entities.EquationImpl.evaluate(EquationImpl.java:74) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103) ~[?:?] at java.base/java.lang.reflect.Method.invoke(Method.java:580) ~[?:?] at org.hibernate.proxy.pojo.bytebuddy.ByteBuddyInterceptor.intercept(ByteBuddyInterceptor.java:56) ~[hibernate-core-5.6.5.Final.jar:5.6.5.Final] at org.hibernate.proxy.ProxyConfiguration$InterceptorDispatcher.intercept(ProxyConfiguration.java:95) ~[hibernate-core-5.6.5.Final.jar:5.6.5.Final] at fr.ifremer.isisfish.entities.EquationImpl$HibernateProxy$Kg4JfhvO.evaluate(Unknown Source) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] at fr.ifremer.isisfish.entities.PopulationGroupImpl.getPrice(PopulationGroupImpl.java:138) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] ... 18 more Caused by: java.lang.reflect.InvocationTargetException at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:115) ~[?:?] at java.base/java.lang.reflect.Method.invoke(Method.java:580) ~[?:?] at fr.ifremer.isisfish.util.EvaluatorHelper.invoke(EvaluatorHelper.java:514) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] at fr.ifremer.isisfish.util.EvaluatorHelper.evaluate(EvaluatorHelper.java:356) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] at fr.ifremer.isisfish.entities.EquationImpl.evaluate(EquationImpl.java:74) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103) ~[?:?] at java.base/java.lang.reflect.Method.invoke(Method.java:580) ~[?:?] at org.hibernate.proxy.pojo.bytebuddy.ByteBuddyInterceptor.intercept(ByteBuddyInterceptor.java:56) ~[hibernate-core-5.6.5.Final.jar:5.6.5.Final] at org.hibernate.proxy.ProxyConfiguration$InterceptorDispatcher.intercept(ProxyConfiguration.java:95) ~[hibernate-core-5.6.5.Final.jar:5.6.5.Final] at fr.ifremer.isisfish.entities.EquationImpl$HibernateProxy$Kg4JfhvO.evaluate(Unknown Source) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] at fr.ifremer.isisfish.entities.PopulationGroupImpl.getPrice(PopulationGroupImpl.java:138) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] ... 18 more Caused by: java.lang.NullPointerException: Cannot invoke "org.nuiton.math.matrix.MatrixND.copy()" because the return value of "fr.ifremer.isisfish.simulator.ResultManager.getMatrix(fr.ifremer.isisfish.types.TimeStep, fr.ifremer.isisfish.entities.Population, String)" is null at formules.PopulationPricefr_ifremer_isisfish_entities_Equation_1708945644805_0_4983254199587347.compute(PopulationPricefr_ifremer_isisfish_entities_Equation_1708945644805_0_4983254199587347.java:22) ~[?:?] at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103) ~[?:?] at java.base/java.lang.reflect.Method.invoke(Method.java:580) ~[?:?] at fr.ifremer.isisfish.util.EvaluatorHelper.invoke(EvaluatorHelper.java:514) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] at fr.ifremer.isisfish.util.EvaluatorHelper.evaluate(EvaluatorHelper.java:356) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] at fr.ifremer.isisfish.entities.EquationImpl.evaluate(EquationImpl.java:74) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103) ~[?:?] at java.base/java.lang.reflect.Method.invoke(Method.java:580) ~[?:?] at org.hibernate.proxy.pojo.bytebuddy.ByteBuddyInterceptor.intercept(ByteBuddyInterceptor.java:56) ~[hibernate-core-5.6.5.Final.jar:5.6.5.Final] at org.hibernate.proxy.ProxyConfiguration$InterceptorDispatcher.intercept(ProxyConfiguration.java:95) ~[hibernate-core-5.6.5.Final.jar:5.6.5.Final] at fr.ifremer.isisfish.entities.EquationImpl$HibernateProxy$Kg4JfhvO.evaluate(Unknown Source) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] at fr.ifremer.isisfish.entities.PopulationGroupImpl.getPrice(PopulationGroupImpl.java:138) ~[isis-fish-4.4.8.1-SNAPSHOT.jar:4.4.8.1-SNAPSHOT] ... 18 more INFO|17:21:51,357|InProcessSimulatorLauncher.java|524|localSimulateSameThread|Simulation time: 51.562 INFO|17:21:51,371|IsisCacheBackendOnGuava.java|238|adjustedCache|Cache size ajusted to 7,605Mo (equivalent to 2 step need) INFO|17:21:51,591|InProcessSimulatorLauncher.java|201|message|Simulation terminée INFO|17:21:51,592|SimulationControl.java|206|setText|Simulation terminée

2 1

Correction du bug de rafraichissement de l'interface dans la V4.4.8.1 ?
by Sigrid LEHUTA 13 Nov '24

13 Nov '24

Bonjour, desolee si j'ai raté l'info. La correction du bug de rafraichissement de l'interface a t'elle ete appliquée a la 8.1 (ou seulement à la 8.2) ? si oui, ou puis-je la telecharger ? Merci -- Sigrid LEHUTA ><> __/\__ ~ ><> ~ \____/ ~ Fisheries modeller IFREMER - HALGO-EMH Ecology and modeling for fisheries science DECOD Dynamics and sustainability of ecosystems: from source to sea AFH Association Française d'Halieutique (AFH) Centre Atlantique - Rue de l'Ile d'Yeu BP 21105 - 44311 Nantes Cedex 03 Tel. : 02 40 37 42 38 (8238) Participez à l'ENQUETE Réduction des captures de dauphins : https://http-proxy.cloud.codelutin.com/enquete_delmoges https://peche.ifremer.fr/Le-role-de-l-Ifremer/Recherche/Projets/Description… https://www.francefilierepeche.fr/projets/gemmbe/ https://delmoges.recherche.univ-lr.fr/presentation-du-projet/ https://www.ices.dk/advice/ESD/Pages/Bay-of-Biscay-and-the-Iberian-Coast_La… https://halgo.ifremer.fr/en https://www.umr-decod.fr/en https://www.association-francaise-halieutique.fr/

2 1

mystere export step
by Sigrid LEHUTA 14 Oct '24

14 Oct '24

hello je viens que m'arracher les cheveux sur cet export qui n exporte pas a chaque pas de temps. il le fait bien a la fin mais pas en cours de route. je compare avec Biomasse.java qui lui marche bien. j ai été jusqu a remplacé dans Biomasses.java uniquement les bouts de code différents mais rien a faire. je n ai meme pas les titres qui sont ecrits dans le begin... qu est ce que je rate ? Merci ! -- Sigrid LEHUTA ><> __/\__ ~ ><> ~ \____/ ~ Fisheries modeller IFREMER - HALGO-EMH Ecology and modeling for fisheries science DECOD Dynamics and sustainability of ecosystems: from source to sea AFH Association Française d'Halieutique (AFH) Centre Atlantique - Rue de l'Ile d'Yeu BP 21105 - 44311 Nantes Cedex 03 Tel. : 02 40 37 42 38 (8238) Participez à l'ENQUETE Réduction des captures de dauphins : https://http-proxy.cloud.codelutin.com/enquete_delmoges https://peche.ifremer.fr/Le-role-de-l-Ifremer/Recherche/Projets/Description… https://www.francefilierepeche.fr/projets/gemmbe/ https://delmoges.recherche.univ-lr.fr/presentation-du-projet/ https://www.ices.dk/advice/ESD/Pages/Bay-of-Biscay-and-the-Iberian-Coast_La… https://halgo.ifremer.fr/en https://www.umr-decod.fr/en https://www.association-francaise-halieutique.fr/

3 8

resultExports EffortNominalMetier annuel
by P.-Y. Hernvann 11 Oct '24

11 Oct '24

Hello Sigrid et moi voulons récupérer les séries temporelles d'effort nominal total annuel par stratégie et métier. On a ce script d'export collé ci-dessous, qui devrait nous retourner une ligne par an/strategie/metier mais nous en genere un fichier (1) avec autant de lignes qu'il y a de mois et (2) dont la somme des valeurs sur l'annee n'est pas coherent avec ce qu'on trouve dans la table MatrixEffortNominalPerStrategyMet (une fois somme sur l'annee realisee par strategie/metier realisee). Une idee ? PY code: /* * Copyright (C) 2024 pyhernva * * 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 3 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, see * <http://www.gnu.org/licenses/gpl-3.0.html>. */ package exports; import org.apache.commons.logging.Log; import org.apache.commons.logging.LogFactory; import java.io.Writer; import org.nuiton.math.matrix.*; import resultinfos.*; import fr.ifremer.isisfish.annotations.Doc; import fr.ifremer.isisfish.entities.*; import fr.ifremer.isisfish.export.ExportStep; import fr.ifremer.isisfish.datastore.SimulationStorage; import fr.ifremer.isisfish.simulator.ResultManager; import fr.ifremer.isisfish.types.TimeStep; /** * EffortNominalMetiersYear.java */ public class EffortNominalMetiersYear implements ExportStep { /** to use log facility, just put in your code: log.info(\"...\"); */ private static Log log = LogFactory.getLog(EffortNominalMetiersYear.class); protected String [] necessaryResult = { MatrixEffortNominalPerStrategyMet.NAME }; @Override public String[] getNecessaryResult() { return this.necessaryResult; } @Override public String getExportFilename() { return "EffortsNominalMetierYear"; } @Override public String getExtensionFilename() { return ".csv"; } @Override public String getDescription() { return "retourne un tableau year;strategie;metier;effort"; } /*@Override public void export(SimulationStorage simulation, Writer out) throws Exception { MatrixND mat = simulation.getResultStorage().getMatrix(MatrixEffortPerStrategyMet.NAME); for (MatrixIterator i = mat.iterator(); i.hasNext();) { i.next(); Object [] sems = i.getSemanticsCoordinates(); TimeStep step = (TimeStep)sems[0]; Strategy str = (Strategy)sems[1]; Metier metier = (Metier)sems[2]; double val = i.getValue(); out.write(str.getName() +";"+ metier.getName() +";"+ step.getStep() +";"+ val +"\n"); } }*/ @Override public void exportBegin(SimulationStorage simulation, Writer out) throws Exception { out.write("year;strategy;metier;value\n"); } @Override public void export(SimulationStorage simulation, TimeStep step, Writer out) throws Exception { MatrixND mat = simulation.getResultStorage().getMatrix(MatrixEffortNominalPerStrategyMet.NAME); if (mat != null) { mat = mat.sumOverDim(0,12); //sum per year for (MatrixIterator i = mat.iterator(); i.hasNext();) { i.next(); Object [] sems = i.getSemanticsCoordinates(); int year = (int) sems[0]; Strategy str = (Strategy)sems[1]; Metier metier = (Metier)sems[2]; double val = i.getValue(); if(val!=0){ out.write(year +";" + str.getName() + ";" + metier.getName() + ";" + val + "\n"); } } } } @Override public void exportEnd(SimulationStorage simulation, Writer out) throws Exception { } } -- ><{{{{"> <"}}}}>< Pierre-Yves HERNVANN Happy PhD and Enthusiastic Postdoc in Marine Ecology / Fisheries Science Twitter: @PyHernvann Skype: PY HERNVANN ResearchGate profile UMR DECOD Dynamics & sustainability of ecosystems: from the source to the ocean Ecology and models applied to fishery resources (EMH) IFREMER 44311 Cedex 03, Rue de L’Ile d’Yeu 44980 Nantes, FRANCE Tel: +33 2 40 37 40 09 (intern : 80 09) ><{{{{"> <"}}}}>< Ⱡ \ ˂˃ ⁄≡≡≡≡≡≡≡≡›› ˅ ˅ ⁄ \\ | □ □ □ | \ ˅ ⁄ \\⃝ _|_○______|_‗‗‗‗‗‗\‗‗‗‗¸ ⁄ []__\\_[][]⁄¯ ____________⁄ ⁄ | ⁄ˊ ¯`•.¸.•´¯`•.¸.•´¯`•.¸.•´¯`•.¸.•´¯`•.¸.•´¯`•.¸.•´¯`•.¸.•´¯`•.¸.•´¯

3 2

la page web API des matrices ne marche pas
by Sigrid LEHUTA 10 Oct '24

10 Oct '24

http://nuiton.page.nuiton.org/nuiton-matrix/nuiton-matrix/apidocs/org/nuito… J'ai besoin de la methode qui recupere la liste des objets d'une dimension de la matrice est ce que c'est getSemantic(int) ou getDim(int)? merci -- Sigrid LEHUTA ><> __/\__ ~ ><> ~ \____/ ~ Fisheries modeller IFREMER - HALGO-EMH Ecology and modeling for fisheries science DECOD Dynamics and sustainability of ecosystems: from source to sea AFH Association Française d'Halieutique (AFH) Centre Atlantique - Rue de l'Ile d'Yeu BP 21105 - 44311 Nantes Cedex 03 Tel. : 02 40 37 42 38 (8238) Participez à l'ENQUETE Réduction des captures de dauphins : https://http-proxy.cloud.codelutin.com/enquete_delmoges https://peche.ifremer.fr/Le-role-de-l-Ifremer/Recherche/Projets/Description… https://www.francefilierepeche.fr/projets/gemmbe/ https://delmoges.recherche.univ-lr.fr/presentation-du-projet/ https://www.ices.dk/advice/ESD/Pages/Bay-of-Biscay-and-the-Iberian-Coast_La… https://halgo.ifremer.fr/en https://www.umr-decod.fr/en https://www.association-francaise-halieutique.fr/

2 2

Calibrar : Erreur de chargement de la fonction setup_calibration
by dedah.ahmed-babou＠ird.fr 08 Oct '24

08 Oct '24

Bonjour à tous, Je voudrais lancer une calibration sur datarmor. Le code R se plante car il ne trouve pas la fonction calibration_setup de la librairie calibrar. Je pense tout de même que j'ai bien accès au répertoire : NICO_REPO=/home1/datawork/nbarrier/libs/R/lib. Ci-joint mes fichiers log, le pbs et le .R. Si quelqu'un a une idée, merci par avance. Dedah.

2 2

Ressources Isis-fish
by Postmaster ISIS-Fish 30 Sep '24

30 Sep '24

Amis utilisateurs d'ISIS-Fish, Ce mail automatique, envoyé tous les 3 mois sur les listes de diffusions du projet, a pour but de vous rappeler toutes les ressources disponibles pour toutes vos éventuelles questions et problèmes. Documentation et manuel utilisateurs ------------------------------------ La documentation d'ISIS-Fish est présente sur le site à cette adresse : http://isis-fish.org/index.html. N'hésitez pas à nous remonter les parties qui ne sont pas claires ou les parties qui ne sont pas à jour, le logiciel évoluant, certaines parties de la documentation sont peut-être obsolètes. Questions et FAQ ---------------- Vous pouvez poser vos questions à cette même liste de diffusion en envoyant un mail à isis-fish-users(a)list.isis-fish.org. Toutes les personnes abonnées le recevront et pourront répondre à vos éventuelles questions. N'oubliez pas, avant de poser votre question, de rechercher parmis les archives de la liste (http://list.isis-fish.org/pipermail/isis-fish-users/) votre question a peut-être déjà été posée. Les questions les plus fréquemment posées sont regroupées sur le site sur la page FAQ : http://isis-fish.org/v4/user/FAQ.html Forge, rapports de bug, suivi des évolutions -------------------------------------------- Si vous rencontrez un bug, vous pouvez vérifier sur la forge ISIS-Fish (http://forge.codelutin.com/projects/isis-fish/issues) si nous en avons déjà connaissance. Si nous n'en avons pas connaissance, vous pouvez nous rapporter le bug, nous l'intègrerons dans la liste des évolutions prévues (http://forge.codelutin.com/projects/isis-fish/roadmap) Pour rapporter un bug (ou une demande d'évolution), donnez nous le maximum de détails sur ce bug (comment vous l'avez obtenu ? votre base, vos paramètres et le fichier debug.txt). Plus nous avons d'informations, plus nous pourrons vous aider simplement. L'équipe ISIS-Fish

1 0

auto completion des methodes dans IntelliJ
by Sigrid LEHUTA 27 Sep '24

27 Sep '24

Hello, j'utilise intelliJ communuty pour l'edition de mes scripts java. j'ai crée un projet pour le dossier isis-community-database. Sur mon ancien PC il me proposait les méthodes associées aux objets isis mais là il ne reconnait que les objets java... que faut il faire pour qu'il ait acces à l'API isis ? Merci ! -- Sigrid LEHUTA ><> __/\__ ~ ><> ~ \____/ ~ Fisheries modeller IFREMER - HALGO-EMH Ecology and modeling for fisheries science DECOD Dynamics and sustainability of ecosystems: from source to sea AFH Association Française d'Halieutique (AFH) Centre Atlantique - Rue de l'Ile d'Yeu BP 21105 - 44311 Nantes Cedex 03 Tel. : 02 40 37 42 38 (8238) Participez à l'ENQUETE Réduction des captures de dauphins : https://http-proxy.cloud.codelutin.com/enquete_delmoges https://peche.ifremer.fr/Le-role-de-l-Ifremer/Recherche/Projets/Description… https://www.francefilierepeche.fr/projets/gemmbe/ https://delmoges.recherche.univ-lr.fr/presentation-du-projet/ https://www.ices.dk/advice/ESD/Pages/Bay-of-Biscay-and-the-Iberian-Coast_La… https://halgo.ifremer.fr/en https://www.umr-decod.fr/en https://www.association-francaise-halieutique.fr/

2 2

identifier tous les reusltats necessaires en debut de simu
by Stephanie MAHEVAS 05 Sep '24

05 Sep '24

Hello une fonctionnalité que je coyais disponible dans la V8.1 mais qui ne l'est pas ... Par ex quand une équation de pop a besoin de BiomasseBeginMonth ou AbondanceBeginMonth et que ce résultat n'est pas sélectionné dans l'interface de lancement, la simu plante... ce qui est pas cool quand ca arrive dans une grosse simu ou un plan. Pour l'utilisateur c'est pas facile d'y penser. Avoir une recherche de tous les necessary results en debut de simu pour les charger automatiquement serait pratique a+ Steph -- ...................................................................... Stephanie MAHEVAS UMR MARBEC - site de Sète IFREMER/HM https://annuaire.ifremer.fr/cv/16343/ Tel: (33) 04 99 57 32 39 (8239) - 06 75 83 59 33 o \ o / _ o __| \ / |__ o _ \ o / o /|\ | /\ ___\o \o | o/ o/__ /\ | /|\ / \ / \ | \ /) | ( \ /o\ / ) | (\ / | / \ / \ ......................................................................

2 1

lancement sur datarmor depuis l'interface
by slehuta 03 Sep '24

03 Sep '24

hello je tente de lancer une simu sur datarmor depuis l interface. j ai testé la connexion qui marche. mais j ai cette erreur Merci de votre aide ! 2024-09-03 11:38:51,676 INFO [pool-4-thread-2] (SimulationJob.java:208) run - Start simulation: sim_SEAwise template Scenario0_2024-09-03-11-38_0 2024-09-03 11:38:51,676 INFO [pool-4-thread-2] (SSHSimulatorLauncher.java:184) message - Connexion à Datarmor 2024-09-03 11:38:51,676 INFO [pool-4-thread-2] (SimulationControl.java:206) setText - Connexion à Datarmor 2024-09-03 11:38:51,678 INFO [pool-4-thread-2] (SSHSimulatorLauncher.java:184) message - Upload de la simulation 2024-09-03 11:38:51,678 INFO [pool-4-thread-2] (SimulationControl.java:206) setText - Upload de la simulation 2024-09-03 11:38:52,460 INFO [pool-4-thread-2] (SSHSimulatorLauncher.java:184) message - Attente de la fin de la simulation 2024-09-03 11:38:52,460 INFO [pool-4-thread-2] (SimulationControl.java:206) setText - Attente de la fin de la simulation 2024-09-03 11:38:53,452 INFO [pool-4-thread-2] (SSHUtils.java:220) exec - JSch channel exit-status: 2 2024-09-03 11:38:53,452 ERROR [pool-4-thread-2] (SSHSimulatorLauncher.java:316) simulate - Impossible de lancer une simulation sur serveur distant 2024-09-03 11:38:53,452 WARN [pool-4-thread-2] (SimulationJob.java:291) run - Can't simulate sim_SEAwise template Scenario0_2024-09-03-11-38_0 java.rmi.RemoteException: Impossible de lancer une simulation sur serveur distant; nested exception is: fr.ifremer.isisfish.util.ssh.SSHException: Command 'qsub -o "$SCRATCH/eftp/isis-temp-4/simulation-sim_SEAwise template Scenario0_2024-09-03-11-38-pbs.out" -e "$SCRATCH/eftp/isis-temp-4/simulation-sim_SEAwise template Scenario0_2024-09-03-11-38-pbs.err" -m n -l mem=2GB -l walltime=01:00:00 "$SCRATCH/eftp/isis-temp-4/simulation-sim_SEAwise template Scenario0_2024-09-03-11-38-script.seq"|tee "$SCRATCH/eftp/isis-temp-4/simulation-sim_SEAwise template Scenario0_2024-09-03-11-38-pbs.id"' fail to execute at fr.ifremer.isisfish.simulator.launcher.SSHSimulatorLauncher.simulate(SSHSimulatorLauncher.java:318) ~[isis-fish-4.4.8.2.jar:4.4.8.2] at fr.ifremer.isisfish.simulator.launcher.SimulationJob.run(SimulationJob.java:286) [isis-fish-4.4.8.2.jar:4.4.8.2] at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1136) [?:?] at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) [?:?] at java.base/java.lang.Thread.run(Thread.java:833) [?:?] Caused by: fr.ifremer.isisfish.util.ssh.SSHException: Command 'qsub -o "$SCRATCH/eftp/isis-temp-4/simulation-sim_SEAwise template Scenario0_2024-09-03-11-38-pbs.out" -e "$SCRATCH/eftp/isis-temp-4/simulation-sim_SEAwise template Scenario0_2024-09-03-11-38-pbs.err" -m n -l mem=2GB -l walltime=01:00:00 "$SCRATCH/eftp/isis-temp-4/simulation-sim_SEAwise template Scenario0_2024-09-03-11-38-script.seq"|tee "$SCRATCH/eftp/isis-temp-4/simulation-sim_SEAwise template Scenario0_2024-09-03-11-38-pbs.id"' fail to execute at fr.ifremer.isisfish.simulator.launcher.SSHSimulatorLauncher.sendStartSimulationRequest(SSHSimulatorLauncher.java:1115) ~[isis-fish-4.4.8.2.jar:4.4.8.2] at fr.ifremer.isisfish.simulator.launcher.SSHSimulatorLauncher.startSimulation(SSHSimulatorLauncher.java:977) ~[isis-fish-4.4.8.2.jar:4.4.8.2] at fr.ifremer.isisfish.simulator.launcher.SSHSimulatorLauncher.simulate(SSHSimulatorLauncher.java:312) ~[isis-fish-4.4.8.2.jar:4.4.8.2] ... 4 more 2024-09-03 11:38:53,452 INFO [pool-4-thread-1] (SimulationJob.java:208) run - Start simulation: sim_SEAwise template Scenario0_2024-09-03-11-38_0 2024-09-03 11:38:53,453 INFO [pool-4-thread-1] (SSHSimulatorLauncher.java:184) message - Connexion à Datarmor 2024-09-03 11:38:53,453 INFO [pool-4-thread-1] (SimulationControl.java:206) setText - Connexion à Datarmor 2024-09-03 11:38:53,456 INFO [pool-4-thread-1] (SSHSimulatorLauncher.java:184) message - Upload de la simulation 2024-09-03 11:38:53,456 INFO [pool-4-thread-1] (SimulationControl.java:206) setText - Upload de la simulation 2024-09-03 11:38:54,431 INFO [pool-4-thread-1] (SSHSimulatorLauncher.java:184) message - Attente de la fin de la simulation 2024-09-03 11:38:54,431 INFO [pool-4-thread-1] (SimulationControl.java:206) setText - Attente de la fin de la simulation 2024-09-03 11:38:55,504 INFO [pool-4-thread-1] (SSHUtils.java:220) exec - JSch channel exit-status: 2 2024-09-03 11:38:55,504 ERROR [pool-4-thread-1] (SSHSimulatorLauncher.java:316) simulate - Impossible de lancer une simulation sur serveur distant 2024-09-03 11:38:55,504 WARN [pool-4-thread-1] (SimulationJob.java:291) run - Can't simulate sim_SEAwise template Scenario0_2024-09-03-11-38_0 java.rmi.RemoteException: Impossible de lancer une simulation sur serveur distant; nested exception is: fr.ifremer.isisfish.util.ssh.SSHException: Command 'qsub -o "$SCRATCH/eftp/isis-temp-4/simulation-sim_SEAwise template Scenario0_2024-09-03-11-38-pbs.out" -e "$SCRATCH/eftp/isis-temp-4/simulation-sim_SEAwise template Scenario0_2024-09-03-11-38-pbs.err" -m n -l mem=2GB -l walltime=01:00:00 "$SCRATCH/eftp/isis-temp-4/simulation-sim_SEAwise template Scenario0_2024-09-03-11-38-script.seq"|tee "$SCRATCH/eftp/isis-temp-4/simulation-sim_SEAwise template Scenario0_2024-09-03-11-38-pbs.id"' fail to execute at fr.ifremer.isisfish.simulator.launcher.SSHSimulatorLauncher.simulate(SSHSimulatorLauncher.java:318) ~[isis-fish-4.4.8.2.jar:4.4.8.2] at fr.ifremer.isisfish.simulator.launcher.SimulationJob.run(SimulationJob.java:286) [isis-fish-4.4.8.2.jar:4.4.8.2] at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1136) [?:?] at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) [?:?] at java.base/java.lang.Thread.run(Thread.java:833) [?:?] Caused by: fr.ifremer.isisfish.util.ssh.SSHException: Command 'qsub -o "$SCRATCH/eftp/isis-temp-4/simulation-sim_SEAwise template Scenario0_2024-09-03-11-38-pbs.out" -e "$SCRATCH/eftp/isis-temp-4/simulation-sim_SEAwise template Scenario0_2024-09-03-11-38-pbs.err" -m n -l mem=2GB -l walltime=01:00:00 "$SCRATCH/eftp/isis-temp-4/simulation-sim_SEAwise template Scenario0_2024-09-03-11-38-script.seq"|tee "$SCRATCH/eftp/isis-temp-4/simulation-sim_SEAwise template Scenario0_2024-09-03-11-38-pbs.id"' fail to execute at fr.ifremer.isisfish.simulator.launcher.SSHSimulatorLauncher.sendStartSimulationRequest(SSHSimulatorLauncher.java:1115) ~[isis-fish-4.4.8.2.jar:4.4.8.2] at fr.ifremer.isisfish.simulator.launcher.SSHSimulatorLauncher.startSimulation(SSHSimulatorLauncher.java:977) ~[isis-fish-4.4.8.2.jar:4.4.8.2] at fr.ifremer.isisfish.simulator.launcher.SSHSimulatorLauncher.simulate(SSHSimulatorLauncher.java:312) ~[isis-fish-4.4.8.2.jar:4.4.8.2] ... 4 more

2 1