Files in roliveros-ramos/osmose
Object Oriented Simulator of Marine Ecosystems

.Rbuildignore
.gitignore
DESCRIPTION
NAMESPACE
NEWS.md R/aaa-.R R/osmose-auxiliar.R R/osmose-class.R R/osmose-internal.R R/osmose-main.R R/osmose-package.R R/osmose-plot.R R/osmose.config-class.R R/osmose.config-internal.R R/osmose.interannual-auxiliar.R R/osmose.interannual-fishing.R R/osmose.interannual-internal.R R/osmose.interannual.R R/osmose.maps.R README.md cran-comments.md
inst/extdata/data_fishing.csv
inst/extdata/inputs/calibration-parameters.csv
inst/extdata/inputs/config.csv
inst/extdata/inputs/grid_mask_gabes_all99.csv
inst/extdata/inputs/osm_all-parameters.csv
inst/extdata/inputs/osm_param-fishing.csv
inst/extdata/inputs/osm_param-grid.csv
inst/extdata/inputs/osm_param-init-pop.csv
inst/extdata/inputs/osm_param-ltl.csv
inst/extdata/inputs/osm_param-movement.csv
inst/extdata/inputs/osm_param-mpa.csv
inst/extdata/inputs/osm_param-natural-mortality.csv
inst/extdata/inputs/osm_param-output.csv
inst/extdata/inputs/osm_param-predation.csv
inst/extdata/inputs/osm_param-reproduction.csv
inst/extdata/inputs/osm_param-species.csv
inst/extdata/inputs/osm_param-speciesAge.csv
inst/extdata/inputs/osm_param-starvation.csv
inst/extdata/inputs/predation-accessibility.csv
inst/extdata/inputs/reproduction-seasonality-sp0.csv
inst/extdata/inputs/reproduction-seasonality-sp1.csv
inst/extdata/inputs/reproduction-seasonality-sp10.csv
inst/extdata/inputs/reproduction-seasonality-sp2.csv
inst/extdata/inputs/reproduction-seasonality-sp3.csv
inst/extdata/inputs/reproduction-seasonality-sp4.csv
inst/extdata/inputs/reproduction-seasonality-sp5.csv
inst/extdata/inputs/reproduction-seasonality-sp6.csv
inst/extdata/inputs/reproduction-seasonality-sp7.csv
inst/extdata/inputs/reproduction-seasonality-sp8.csv
inst/extdata/inputs/reproduction-seasonality-sp9.csv
inst/extdata/inputs/reproduction-seasonality.csv
inst/extdata/outputs/AgeIndicators/gogosm_biomassDistribByAge_Simu0.csv
inst/extdata/outputs/Mortality/gogosm_mortalityRate-DiplodusAnnularis_Simu0.csv
inst/extdata/outputs/Mortality/gogosm_mortalityRate-EngraulisEncrasicolus_Simu0.csv
inst/extdata/outputs/Mortality/gogosm_mortalityRate-MelicertusKerathurus_Simu0.csv
inst/extdata/outputs/Mortality/gogosm_mortalityRate-MerlucciusMerluccius_Simu0.csv
inst/extdata/outputs/Mortality/gogosm_mortalityRate-MetapenaeusMonoceros_Simu0.csv
inst/extdata/outputs/Mortality/gogosm_mortalityRate-MustelusMustelus_Simu0.csv
inst/extdata/outputs/Mortality/gogosm_mortalityRate-OctopusVulgaris_Simu0.csv
inst/extdata/outputs/Mortality/gogosm_mortalityRate-PagellusErythrinus_Simu0.csv
inst/extdata/outputs/Mortality/gogosm_mortalityRate-SardinaPilchardus_Simu0.csv
inst/extdata/outputs/Mortality/gogosm_mortalityRate-SardinellaAurita_Simu0.csv
inst/extdata/outputs/Mortality/gogosm_mortalityRate-TrachurusTrachurus_Simu0.csv
inst/extdata/outputs/SizeIndicators/gogosm_biomassDistribBySize_Simu0.csv
inst/extdata/outputs/SizeIndicators/gogosm_meanSizeCatch_Simu0.csv
inst/extdata/outputs/SizeIndicators/gogosm_meanSize_Simu0.csv
inst/extdata/outputs/SizeIndicators/gogosm_yieldDistribBySize_Simu0.csv
inst/extdata/outputs/Trophic/gogosm_biomassPredPreyIni_Simu0.csv
inst/extdata/outputs/Trophic/gogosm_dietMatrix_Simu0.csv
inst/extdata/outputs/Trophic/gogosm_meanTLCatch_Simu0.csv
inst/extdata/outputs/Trophic/gogosm_meanTL_Simu0.csv
inst/extdata/outputs/Trophic/gogosm_predatorPressure_Simu0.csv
inst/extdata/outputs/gogosm_biomass_Simu0.csv
inst/extdata/outputs/gogosm_yield_Simu0.csv
inst/java/lib/ncCore-4.2.jar
inst/java/lib/opencsv-2.3.jar
inst/java/osmose_stable_3.jar
java/build.xml
java/lib/ncCore-4.2.jar
java/lib/opencsv-2.3.jar
java/nbproject/build-impl.xml
java/nbproject/genfiles.properties
java/nbproject/private/config.properties
java/nbproject/private/private.properties
java/nbproject/private/private.xml
java/nbproject/project.properties
java/nbproject/project.xml
java/src/fr/ird/osmose/Cell.java
java/src/fr/ird/osmose/Configuration.java
java/src/fr/ird/osmose/IAggregation.java
java/src/fr/ird/osmose/IMarineOrganism.java
java/src/fr/ird/osmose/Osmose.java
java/src/fr/ird/osmose/Plankton.java
java/src/fr/ird/osmose/Prey.java
java/src/fr/ird/osmose/School.java
java/src/fr/ird/osmose/SchoolSet.java
java/src/fr/ird/osmose/Simulation.java
java/src/fr/ird/osmose/Species.java
java/src/fr/ird/osmose/Swarm.java
java/src/fr/ird/osmose/UniformPlankton.java
java/src/fr/ird/osmose/grid/AbstractGrid.java
java/src/fr/ird/osmose/grid/BFMGrid.java
java/src/fr/ird/osmose/grid/ECO3MGrid.java
java/src/fr/ird/osmose/grid/IGrid.java
java/src/fr/ird/osmose/grid/NcGrid.java
java/src/fr/ird/osmose/grid/OriginalGrid.java
java/src/fr/ird/osmose/ltl/AbstractLTLForcing.java
java/src/fr/ird/osmose/ltl/LTLFastForcing.java
java/src/fr/ird/osmose/ltl/LTLFastForcingBFM.java
java/src/fr/ird/osmose/ltl/LTLFastForcingECO3M.java
java/src/fr/ird/osmose/ltl/LTLFastForcingRomsPisces.java
java/src/fr/ird/osmose/ltl/LTLForcing.java
java/src/fr/ird/osmose/ltl/LTLForcingBFM.java
java/src/fr/ird/osmose/ltl/LTLForcingECO3M.java
java/src/fr/ird/osmose/ltl/LTLForcingLaure.java
java/src/fr/ird/osmose/ltl/LTLForcingRomsPisces.java
java/src/fr/ird/osmose/output/AbstractDistribOutput.java
java/src/fr/ird/osmose/output/AbstractMeanDistribOutput.java
java/src/fr/ird/osmose/output/AbstractOutput.java
java/src/fr/ird/osmose/output/AbundanceDistribOutput.java
java/src/fr/ird/osmose/output/AbundanceOutput.java
java/src/fr/ird/osmose/output/BiomassDietStageOutput.java
java/src/fr/ird/osmose/output/BiomassDistribOutput.java
java/src/fr/ird/osmose/output/BiomassOutput.java
java/src/fr/ird/osmose/output/DietDistribOutput.java
java/src/fr/ird/osmose/output/DietOutput.java
java/src/fr/ird/osmose/output/IOutput.java
java/src/fr/ird/osmose/output/LTLOutput.java
java/src/fr/ird/osmose/output/MeanSizeCatchOutput.java
java/src/fr/ird/osmose/output/MeanSizeDistribOutput.java
java/src/fr/ird/osmose/output/MeanSizeOutput.java
java/src/fr/ird/osmose/output/MeanTrophicLevelCatchOutput.java
java/src/fr/ird/osmose/output/MeanTrophicLevelDistribOutput.java
java/src/fr/ird/osmose/output/MeanTrophicLevelOutput.java
java/src/fr/ird/osmose/output/MortalityOutput.java
java/src/fr/ird/osmose/output/MortalitySpeciesOutput.java
java/src/fr/ird/osmose/output/NDeadSchoolDistribOutput.java
java/src/fr/ird/osmose/output/NDeadSchoolOutput.java
java/src/fr/ird/osmose/output/NSchoolDistribOutput.java
java/src/fr/ird/osmose/output/NSchoolOutput.java
java/src/fr/ird/osmose/output/OutputManager.java
java/src/fr/ird/osmose/output/PredatorPressureDistribOutput.java
java/src/fr/ird/osmose/output/PredatorPressureOutput.java
java/src/fr/ird/osmose/output/SSBOutput.java
java/src/fr/ird/osmose/output/SchoolSetSnapshot.java
java/src/fr/ird/osmose/output/SpatialOutput.java
java/src/fr/ird/osmose/output/YieldDistribOutput.java
java/src/fr/ird/osmose/output/YieldNDistribOutput.java
java/src/fr/ird/osmose/output/YieldNOutput.java
java/src/fr/ird/osmose/output/YieldOutput.java
java/src/fr/ird/osmose/output/distribution/AbstractDistribution.java
java/src/fr/ird/osmose/output/distribution/AgeDistribution.java
java/src/fr/ird/osmose/output/distribution/DistributionType.java
java/src/fr/ird/osmose/output/distribution/SizeDistribution.java
java/src/fr/ird/osmose/output/distribution/TLDistribution.java
java/src/fr/ird/osmose/populator/AbstractPopulator.java
java/src/fr/ird/osmose/populator/NetcdfPopulator.java
java/src/fr/ird/osmose/process/AbstractProcess.java
java/src/fr/ird/osmose/process/GrowthProcess.java
java/src/fr/ird/osmose/process/IncomingFluxProcess.java
java/src/fr/ird/osmose/process/PopulatingProcess.java
java/src/fr/ird/osmose/process/ReproductionProcess.java
java/src/fr/ird/osmose/process/mortality/AbstractMortality.java
java/src/fr/ird/osmose/process/mortality/AbstractMortalitySpecies.java
java/src/fr/ird/osmose/process/mortality/AdditionalMortality.java
java/src/fr/ird/osmose/process/mortality/FishingMortality.java
java/src/fr/ird/osmose/process/mortality/IterativeMortalityProcess.java
java/src/fr/ird/osmose/process/mortality/MortalityCause.java
java/src/fr/ird/osmose/process/mortality/MortalityProcess.java
java/src/fr/ird/osmose/process/mortality/OutMortality.java
java/src/fr/ird/osmose/process/mortality/PredationMortality.java
java/src/fr/ird/osmose/process/mortality/StarvationMortality.java
java/src/fr/ird/osmose/process/mortality/StochasticMortalityProcess.java
java/src/fr/ird/osmose/process/mortality/additional/AnnualAdditionalMortality.java
java/src/fr/ird/osmose/process/mortality/additional/ByDtAdditionalMortality.java
java/src/fr/ird/osmose/process/mortality/additional/ByDtByClassAdditionalMortality.java
java/src/fr/ird/osmose/process/mortality/additional/ByDtLarvaMortality.java
java/src/fr/ird/osmose/process/mortality/additional/ConstantLarvaMortality.java
java/src/fr/ird/osmose/process/mortality/fishing/AbstractFishingMortality.java
java/src/fr/ird/osmose/process/mortality/fishing/AnnualFishingMortality.java
java/src/fr/ird/osmose/process/mortality/fishing/BySeasonFishingMortality.java
java/src/fr/ird/osmose/process/mortality/fishing/ByYearBySeasonFishingMortality.java
java/src/fr/ird/osmose/process/mortality/fishing/CatchesByDtByClassFishingMortality.java
java/src/fr/ird/osmose/process/mortality/fishing/RateByDtByClassFishingMortality.java
java/src/fr/ird/osmose/process/movement/AbstractDistribution.java
java/src/fr/ird/osmose/process/movement/MapDistribution.java
java/src/fr/ird/osmose/process/movement/MovementProcess.java
java/src/fr/ird/osmose/process/movement/RandomDistribution.java
java/src/fr/ird/osmose/stage/AbstractStage.java
java/src/fr/ird/osmose/stage/AccessibilityStage.java
java/src/fr/ird/osmose/stage/AgeStage.java
java/src/fr/ird/osmose/stage/DietOutputStage.java
java/src/fr/ird/osmose/stage/IStage.java
java/src/fr/ird/osmose/stage/PredPreyStage.java
java/src/fr/ird/osmose/stage/SizeStage.java
java/src/fr/ird/osmose/step/AbstractStep.java
java/src/fr/ird/osmose/step/DefaultStep.java
java/src/fr/ird/osmose/ui/GridUI.java
java/src/fr/ird/osmose/ui/SimulationUI.java
java/src/fr/ird/osmose/ui/SpatialMapUI.java
java/src/fr/ird/osmose/util/GridMap.java
java/src/fr/ird/osmose/util/GridPoint.java
java/src/fr/ird/osmose/util/MPA.java
java/src/fr/ird/osmose/util/MapSet.java
java/src/fr/ird/osmose/util/Properties.java
java/src/fr/ird/osmose/util/Separator.java
java/src/fr/ird/osmose/util/SimulationLinker.java
java/src/fr/ird/osmose/util/XSRandom.java
java/src/fr/ird/osmose/util/filter/AliveSchoolFilter.java
java/src/fr/ird/osmose/util/filter/DeadSchoolFilter.java
java/src/fr/ird/osmose/util/filter/FilteredSet.java
java/src/fr/ird/osmose/util/filter/FilteredSets.java
java/src/fr/ird/osmose/util/filter/IFilter.java
java/src/fr/ird/osmose/util/filter/OutSchoolFilter.java
java/src/fr/ird/osmose/util/filter/PresentSchoolFilter.java
java/src/fr/ird/osmose/util/filter/SpeciesFilter.java
java/src/fr/ird/osmose/util/io/IOTools.java
java/src/fr/ird/osmose/util/io/MetaFilenameFilter.java
java/src/fr/ird/osmose/util/logging/OLogger.java
java/src/fr/ird/osmose/util/logging/OsmoseLogFormatter.java
java/src/fr/ird/osmose/util/logging/SimulationLogFormatter.java
java/src/fr/ird/osmose/util/timeseries/ByClassTimeSeries.java
java/src/fr/ird/osmose/util/timeseries/ByYearTimeSeries.java
java/src/fr/ird/osmose/util/timeseries/SingleTimeSeries.java
java/src/fr/ird/osmose/util/timeseries/SpeciesTimeSeries.java
java/src/fr/ird/osmose/util/version/AbstractVersion.java
java/src/fr/ird/osmose/util/version/Version3.java
java/src/fr/ird/osmose/util/version/Version3Update1.java
java/src/fr/ird/osmose/util/version/Version3Update2.java
java/src/fr/ird/osmose/util/version/VersionManager.java
man/configureCalibration.Rd man/getAverageMortality.Rd man/getFishingBaseRate.Rd man/getFishingBaseRate.byDt.Rd man/getFishingBaseRate.byYear.Rd man/getFishingBaseRate.constant.Rd man/getFishingBaseRate.linear.Rd man/getFishingMortality.Rd man/getMortality.Rd man/getMortalityDeviation.Rd man/getOsmoseParameter.Rd man/getSizeSpectrum.Rd man/getVar.Rd man/getVar.osmose.Rd man/osmose-package.Rd man/plot.osmose.Rd man/print.osmose.Rd man/print.summary.osmose.Rd man/readOsmoseConfiguration.Rd man/readOsmoseFiles.Rd man/read_osmose.Rd man/runOsmose.Rd man/summary.osmose.Rd man/write.osmose.Rd man/writeFishingFiles.Rd
roliveros-ramos/osmose documentation built on Jan. 11, 2018, 1:20 p.m.