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• iDyno_New_Released_Version_Check() : idyno.Idynomics
• increaseCopyNumber() : simulator.agent.zoo.MultiEpisome
• indexCalc() : simulator.geometry.FluctEnv
• init() : simulator.agent.ActiveParam , simulator.agent.zoo.BactAdaptableParam , simulator.agent.zoo.ParticulateEPS , simulator.geometry.boundaryConditions.BoundaryZeroFlux , simulator.geometry.boundaryConditions.IsBC , simulator.agent.zoo.ParticulateEPSParam , simulator.reaction.FirstOrder , simulator.reaction.kinetic.FirstOrderKinetic , simulator.agent.zoo.BactEPSParam , simulator.detachment.DS_Biomass , simulator.reaction.kinetic.HaldaneKinetic , simulator.reaction.kinetic.HillKinetic , simulator.detachment.DS_Proportional , simulator.reaction.kinetic.IsKineticFactor , simulator.reaction.kinetic.LinearKinetic , simulator.agent.LocatedGroup , simulator.agent.zoo.Bacterium , simulator.detachment.DS_Quadratic , simulator.reaction.kinetic.MonodKinetic , simulator.reaction.kinetic.SimpleInhibition , simulator.detachment.DS_SolGrad , simulator.reaction.Reaction , simulator.reaction.ReactionFactor , simulator.agent.zoo.BacteriumParam , simulator.detachment.LevelSet , simulator.reaction.ReactionFactorWithConstant , simulator.reaction.ReactionGrowthFitness , simulator.diffusionSolver.DiffusionSolver , simulator.reaction.SingleMonod , simulator.World , simulator.agent.LocatedParam , simulator.agent.zoo.Episome , simulator.diffusionSolver.Solver_chemostat , utils.Chart , simulator.diffusionSolver.Solver_multigrid , simulator.agent.zoo.EpisomeParam , simulator.diffusionSolver.Solver_pressure , simulator.geometry.boundaryConditions.AllBC , simulator.agent.SpeciesParam , simulator.agent.zoo.MultiEpisome , simulator.geometry.boundaryConditions.BoundaryBulk , simulator.geometry.boundaryConditions.BoundaryConstant , simulator.agent.zoo.MultiEpisomeParam , simulator.geometry.boundaryConditions.BoundaryCyclic , simulator.geometry.boundaryConditions.BoundaryGasMembrane
• initAndSolve() : simulator.diffusionSolver.DiffusionSolver
• initFromAgent() : simulator.reaction.FirstOrder , simulator.reaction.kinetic.FirstOrderKinetic , simulator.reaction.kinetic.HaldaneKinetic , simulator.reaction.kinetic.HillKinetic , simulator.reaction.kinetic.IsKineticFactor , simulator.reaction.kinetic.LinearKinetic , simulator.reaction.kinetic.MonodKinetic , simulator.reaction.kinetic.SimpleInhibition , simulator.reaction.Reaction , simulator.reaction.ReactionFactor , simulator.reaction.ReactionFactorWithConstant , simulator.reaction.ReactionGrowthFitness , simulator.reaction.SingleMonod
• initFromProtocolFile() : simulator.agent.Agent , simulator.agent.LocatedAgent , simulator.agent.SpecialisedAgent , simulator.agent.zoo.BactAdaptable , simulator.agent.zoo.Bacterium , simulator.agent.zoo.Episome , simulator.agent.zoo.MultiEpisome , simulator.agent.zoo.ParticulateEPS , simulator.agent.ActiveAgent
• initFromResultFile() : simulator.agent.ActiveAgent , simulator.agent.Agent , simulator.agent.LocatedAgent , simulator.agent.zoo.BactAdaptable , simulator.agent.zoo.Bacterium , simulator.agent.zoo.Episome , simulator.agent.zoo.ParticulateEPS
• initGrids() : simulator.SpatialGrid
• initializeConcentrationFields() : simulator.diffusionSolver.DiffusionSolver , simulator.diffusionSolver.Solver_chemostat , simulator.diffusionSolver.Solver_multigrid , simulator.diffusionSolver.Solver_pressure
• initializeCvf() : simulator.detachment.ConnectedVolume
• initLoop() : simulator.diffusionSolver.multigrid.MultigridSolute
• initPovRay() : povray.PovRayWriter
• initSimulation() : idyno.Idynomics
• instanceCreator() : utils.XMLParser
• interact() : simulator.agent.LocatedAgent , simulator.agent.SpecialisedAgent
• internalStep() : simulator.agent.Agent , simulator.agent.InfoAgent , simulator.agent.LocatedAgent , simulator.agent.zoo.MultiEpisome , simulator.agent.zoo.BactEPS , simulator.agent.zoo.Bacterium , simulator.agent.zoo.Episome , simulator.agent.zoo.ParticulateEPS , simulator.agent.zoo.BactAdaptable , simulator.agent.ActiveAgent
• intersection() : simulator.geometry.shape.Planar , simulator.geometry.shape.IsShape
• inverse() : utils.FftOperations
• is3D() : simulator.SpatialGrid , simulator.geometry.Domain
• isActive() : simulator.geometry.boundaryConditions.IsBC , simulator.geometry.boundaryConditions.AllBC , simulator.diffusionSolver.DiffusionSolver
• isAgentInContactWithAgentInBiofilm() : simulator.agent.Species
• isAttached() : simulator.agent.LocatedAgent
• isCompatible() : simulator.agent.zoo.Episome
• isConsistent() : utils.GridOperations
• isCurrentTimeStepInSetInRange() : idyno.SimTimer
• isCyclic() : simulator.geometry.boundaryConditions.AllBC , simulator.geometry.boundaryConditions.IsBC
• isDuringNextStep() : idyno.SimTimer
• isMoving() : simulator.agent.LocatedAgent , simulator.agent.SpecialisedAgent
• isNewCoordAboveBoundaryLayer() : simulator.agent.Species
• isOnBoundary() : simulator.geometry.shape.Planar , simulator.geometry.boundaryConditions.BoundaryCyclic , simulator.geometry.shape.IsShape
• isOnShape() : simulator.geometry.shape.Planar
• isOutside() : simulator.geometry.shape.Planar , simulator.geometry.boundaryConditions.BoundaryCyclic , simulator.geometry.boundaryConditions.AllBC , simulator.geometry.boundaryConditions.IsBC , simulator.geometry.shape.IsShape , simulator.geometry.boundaryConditions.AllBC
• isReadyToConjugate() : simulator.agent.zoo.MultiEpisome , simulator.agent.zoo.Episome
• isSupport() : simulator.geometry.boundaryConditions.AllBC , simulator.geometry.boundaryConditions.IsBC
• isTransConjugant() : simulator.agent.zoo.MultiEpisome
• isValid() : simulator.SpatialGrid , simulator.AgentContainer , simulator.geometry.ContinuousVector , simulator.SpatialGrid
• isValidOrPadded() : simulator.SpatialGrid
• isValidorPadded() : simulator.SpatialGrid
• isZero() : simulator.geometry.ContinuousVector