Index

_

__add__() (Parameter method) (ReactionElement method) (ReactionSide method) (RefList method) (ResultSelector method) __and__() (ComplexSelector method) (RefList method) (SubUnitSelector method) __call__() (DiffBoundary method) (Diffusion method) (SimPath method) (Vesicle method) (VesicleReference method) (XDepFunc method) __contains__() (RefList method) (SubUnitSelector method) (TetList method) __eq__() (RefList method) __getattr__() (HDF5Group method) (NamedObject method) (Parameter method) (ResultSelector method) (SimPath method) (Simulation method) (SQLiteGroup method) __getitem__() (Complex method) (Current method) (Diffusion method) (HDF5Handler method) (HDF5MultiFileReader method) (Reaction method) (ReactionManager method) (RefList method) (SimPath method) (SQLiteDBHandler method) (SubUnitSelector method) (SubUnitState method) (TetList method)

__invert__() (SubUnitSelector method) (SubUnitState method) __iter__() (Complex method) (ComplexSelector method) (ComplexState method) (HDF5Handler method) (HDF5MultiFileReader method) (RefList method) (SQLiteDBHandler method) (SubUnit method) __len__() (ComplexSelector method) (RefList method) __lshift__() (ComplexSelector method) (ResultSelector method) __mul__() (Parameter method) (ResultSelector method) (XDepFunc method) __neg__() (Parameter method) __or__() (ComplexSelector method) (ComplexState method) (RefList method) (SubUnitSelector method) (SubUnitState method) __pow__() (Parameter method) (ResultSelector method) __rmul__() (ReactionElement method) (XDepFunc method) __round__() (Parameter method) __sub__() (Parameter method) (RefList method) (ResultSelector method) __truediv__() (Parameter method) (ResultSelector method) __xor__() (RefList method)

A

A (SimPath attribute) A0 (Simulation property) Active (SimPath attribute) add() (SimDisplay method) addBranch() (VesiclePathReference method) addComp() (ShadowMesh method) addCompSpecDist() (PlotDisplay method) addCompSpecPlot() (PlotDisplay method) addCompSumSpecsPlot() (PlotDisplay method) addGroup() (ElementProxy method) addItem() (SimDisplay method) addItems() (SimDisplay method) addPatch() (ShadowMesh method) addPatchSpecDist() (PlotDisplay method) addPatchSpecPlot() (PlotDisplay method) addPatchSumSpecsPlot() (PlotDisplay method) addPoint() (VesiclePathReference method) addRaft() (SimPath method) addROI() (ShadowMesh method) (Tetmesh method) addROISpecDist() (PlotDisplay method) addSurfsys() (Patch method) (TmPatch method) addSystem() (Compartment method) (Patch method) (Raft method) (Vesicle method) addTetsSpecDist() (PlotDisplay method) addTetsSpecPlot() (PlotDisplay method) addTrisSpecDist() (PlotDisplay method) addTrisSpecPlot() (PlotDisplay method) addVesicle() (SimPath method) (VesiclePathReference method)

addVesicleDiffusionGroup() (Simulation method) addVesiclePath() (Simulation method) addVolsys() (Comp method) (TmComp method) advance() (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) ALL() (NamedObject method) (SimPath method) (Simulation method) Amount (SimPath attribute) AntiDependencies (RaftDis property) (Reaction property) append() (BarList method) (RefList method) (TetList method) (TriList method) (VertList method) Area (Membrane property) (Patch property) area (Patch property) Area (ROI property) (SimPath attribute) area (TmPatch property) Area (TriList property) (TriReference property) asGlobal() (DistMesh method) asLocal() (DistMesh method) autoCheckpoint() (Simulation method)

B

BarList (class in steps.API_2.geom) BarReference (class in steps.API_2.geom) bars (DistMesh property) (SDiffBoundary property), [1] (TetList property) (TetMesh property) (TriList property) (TriReference property) bbox (Compartment property) (DistMesh property) (Patch property) (TetMesh property)

binTetsByAxis() (in module steps.API_1.utilities.geom_decompose) blockBegin() (ElementProxy method) blockEnd() (ElementProxy method) blocksToGroups() (ElementProxy method) BoundingBox (class in steps.API_2.geom) boundNodesAsROI() (in module steps.API_1.utilities.steps_cubit) boundTetsAsComp() (in module steps.API_1.utilities.steps_cubit) boundTetsAsROI() (in module steps.API_1.utilities.steps_cubit) boundTrisAsPatch() (in module steps.API_1.utilities.steps_cubit) boundTrisAsROI() (in module steps.API_1.utilities.steps_cubit)

C

C (SimPath attribute) Capac (SimPath attribute) Capacitance (Membrane property) center (BarReference property) (BoundingBox property) (TetReference property) (TriReference property) chan (ChanState property) Chan (class in steps.API_1.model) Channel (class in steps.API_2.model) ChanState (class in steps.API_1.model) chanState (GHKcurr property) checkpoint() (Simulation method) (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) checkROI() (Tetmesh method) Clamped (SimPath attribute) clear() (ResultSelector method) closeEvent() (SimControl method) (SimDisplay method) combineWithOperator() (RefList method) Comp (class in steps.API_1.geom) comp (TetReference property) Compartment (class in steps.API_2.geom) (SimPath attribute) CompDepCond (class in steps.API_2.model) CompDepDcst (class in steps.API_2.model) CompDepFunc (class in steps.API_2.model) CompDepP (class in steps.API_2.model)

CompDepRate (class in steps.API_2.model) Complex (class in steps.API_2.model) ComplexSelector (class in steps.API_2.model) ComplexState (class in steps.API_2.model) comps (DiffBoundary property) Conc (SimPath attribute) Conductivity (Compartment property) container (Comp property) (DiffBoundary property) (Patch property) (SDiffBoundary property) (TmComp property) (TmPatch property) containsPoint() (TetReference method) convertTo() (Parameter method) ConvertToMetis() (TetMesh method) Count (SimPath attribute) Count() (ComplexState method) countBars() (Tetmesh method) countTets() (Tetmesh method) (TmComp method) countTris() (Memb method) (Tetmesh method) countVertices() (Tetmesh method) countVerts() (Memb method) countVirtTris() (Memb method) countVolTets() (Memb method) create() (in module steps.API_1.rng) Create() (NamedObject class method) create_mt19937() (in module steps.API_1.rng) createColorMap() (in module steps.API_1.visual) Current (class in steps.API_2.model) CustomResults (class in steps.API_2.saving)

D

D (SimPath attribute) data (ResultSelector property) DatabaseGroup (class in steps.API_2.saving) DatabaseHandler (class in steps.API_2.saving) dcst (Diff property) Dcst (Diffusion property) (LinkSpecies property) (Raft property) (SimPath attribute) (Vesicle property) delComp() (Geom method) (Tetmesh method) delDiff() (Surfsys method) (Volsys method) delete() (VesicleReference method) delGHKcurr() (Surfsys method) delOhmicCurr() (Surfsys method) delPatch() (Geom method) (Tetmesh method) delReac() (Volsys method) delSpec() (Model method) delSReac() (Surfsys method) delSurfsys() (Model method) (Patch method) (TmPatch method) delVDepSReac() (Surfsys method)

delVolsys() (Comp method) (Model method) (TmComp method) Dependencies (Endocytosis property) (Exocytosis property) (RaftEndocytosis property) (RaftGen property) (Reaction property) (VesicleBind property) description (ResultSelector property) Diameter (Raft property) (Vesicle property) Diff (class in steps.API_1.model) DiffBoundary (class in steps.API_1.geom) (class in steps.API_2.geom) Diffusion (class in steps.API_2.model) DiffusionActive (SimPath attribute) dilate() (TetList method) DIRECT (NextEventSearchMethod attribute) DistMesh (class in steps.API_2.geom) DISTRIBUTED_SOLVERS (Simulation attribute) DistributionMethod (class in steps.API_2.sim) drawComp() (in module steps.API_1.utilities.steps_cubit) drawPatch() (in module steps.API_1.utilities.steps_cubit) drawROI() (in module steps.API_1.utilities.steps_cubit) dumpDepGraphToFile() (Simulation method)

E

edges (Patch property) (TriList property) EF_DEFAULT (MPI attribute) EF_DV_BDSYS (MPI attribute) EF_DV_PETSC (MPI attribute) EF_NONE (MPI attribute) EfieldDT (Simulation property) ElementDisplay (class in steps.API_2.visual) ElementProxy (class in steps.API_1.utilities.meshio) EndocyticZone (class in steps.API_2.geom) Endocytosis (class in steps.API_2.model) ERev (OhmicCurr property)

erev (OhmicCurr property) Erev (SimPath attribute) erode() (TetList method) Events (SimPath attribute) exists() (RaftReference method) (VesicleReference method) Exocytosis (class in steps.API_2.model) ExportParameters() (in module steps.API_2.utils) exportTo() (ShadowComp method) (ShadowMesh method) (ShadowPatch method) Extent (SimPath attribute)

F

faces (TetReference property) filter() (DatabaseHandler method) findOverlapSurfTris() (in module steps.API_1.utilities.meshctrl) findOverlapTris() (in module steps.API_1.utilities.meshctrl) findSurfTrisInComp() (in module steps.API_1.utilities.meshctrl) findSurfTrisInTets() (in module steps.API_1.utilities.meshctrl)

findTetByPoint() (Tetmesh method) findTetByPointLinear() (Tetmesh method) findTetByPointWalk() (Tetmesh method) FromData() (TetMesh class method) FromFile() (ResultSelector class method) func (XDepFunc property)

G

G (OhmicCurr property) g (OhmicCurr property) genPointsInTet() (Tetmesh method) genPointsInTri() (Tetmesh method) genROITetVisualPointsNP() (Tetmesh method) genROITriVisualPointsNP() (Tetmesh method) genTetVisualPointsNP() (Tetmesh method) genTriVisualPointsNP() (Tetmesh method) Geom (class in steps.API_1.geom) geom (Simulation property) Geometry (class in steps.API_2.geom) get() (Complex method) (DatabaseHandler method) getA0() (Tetexact method) (TetOpSplit method) (Wmdirect method) getAllBarIndices() (SDiffBoundary method) getAllChans() (Model method) getAllChanStates() (Chan method) getAllComplexReacs() (Volsys method) getAllComplexSReacs() (Surfsys method) getAllComps() (Geom method) (Tetmesh method) getAllData() (ElementProxy method) getAllDiffs() (Comp method) (Surfsys method) (TmComp method) (Volsys method) getAllEndocyticZones() (TmPatch method) getAllEndocytosis() (Surfsys method) getAllGHKcurrs() (Surfsys method) getAllLinkSpecs() (Model method) getAllOhmicCurrs() (Surfsys method) getAllPatches() (Geom method) (Tetmesh method) getAllRaftGens() (Surfsys method) getAllRafts() (Model method) getAllRaftsyss() (Model method) getAllReacs() (Comp method) (TmComp method) (Volsys method) getAllROINames() (Tetmesh method) getAllSpecs() (Comp method) (Diff method) (Model method) (Patch method) (Reac method) (SReac method) (Surfsys method) (TmComp method) (TmPatch method) (VDepSReac method) (Volsys method) getAllSReacs() (Patch method) (Surfsys method) (TmPatch method) getAllSurfsyss() (Model method) getAllTetIndices() (TmComp method) getAllTriIndices() (DiffBoundary method) (Memb method) (TmPatch method) getAllVDepSReacs() (Surfsys method) getAllVertIndices() (Memb method) getAllVesBinds() (Volsys method) getAllVesicles() (Model method) getAllVesSurfsyss() (Model method) getAllVesUnbinds() (Volsys method) getAllVirtTriIndices() (Memb method) getAllVolsyss() (Model method) getAllVolTetIndices() (Memb method) getArea() (Patch method) (TmPatch method) getAutoAdjust() (VisualTetsSpec method) (VisualTrisSpec method) getBar() (Tetmesh method) getBatchTetCounts() (Tetexact method) (TetOpSplit method) getBatchTetCountsNP() (Tetexact method) (TetOpSplit method) getBatchTets() (Tetmesh method) getBatchTetsNP() (Tetmesh method) getBatchTetVolsNP() (Tetmesh method) getBatchTetVsNP() (TetOpSplit method) getBatchTriAreasNP() (Tetmesh method) getBatchTriBatchGHKIsNP() (TetOpSplit method) getBatchTriBatchOhmicIsNP() (TetOpSplit method) getBatchTriCounts() (Tetexact method) (TetOpSplit method) getBatchTriCountsNP() (Tetexact method) (TetOpSplit method) getBatchTriGHKIsNP() (TetOpSplit method) getBatchTriOhmicIsNP() (TetOpSplit method) getBatchTris() (Tetmesh method) getBatchTrisNP() (Tetmesh method) getBatchTriVsNP() (TetOpSplit method) getBatchVertices() (Tetmesh method) getBatchVerticesNP() (Tetmesh method) getBlocks() (ElementProxy method) getBoundMax() (Tetmesh method) (TmComp method) (TmPatch method) getBoundMin() (Tetmesh method) (TmComp method) (TmPatch method) getCenter() (in module steps.API_1.utilities.geom_decompose) getChan() (ChanState method) (Model method) getChanState() (Chan method) (GHKcurr method) (OhmicCurr method) getComp() (Geom method) (Tetmesh method) getCompAmount() (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) getCompClamped() (Tetexact method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) getCompConc() (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) getCompCount() (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) getCompDiffActive() (Tetexact method) (TetOpSplit method) getCompDiffD() (Tetexact method) (TetOpSplit method) getCompReacA() (Tetexact method) (TetOpSplit method) (Wmdirect method) (Wmrssa method) getCompReacActive() (Tetexact method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) getCompReacC() (Tetexact method) (TetOpSplit method) (Wmdirect method) (Wmrssa method) getCompReacExtent() (Tetexact method) (TetOpSplit method) (Wmdirect method) (Wmrssa method) getCompReacH() (Tetexact method) (TetOpSplit method) (Wmdirect method) (Wmrssa method) getCompReacK() (Tetexact method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) getComps() (DiffBoundary method) getCompTime() (TetOpSplit method) getCompVol() (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) getContainer() (Comp method) (DiffBoundary method) (Memb method) (Patch method) (SDiffBoundary method) (TmComp method) (TmPatch method) getDataFromImportID() (ElementProxy method) getDataFromSTEPSID() (ElementProxy method) getDcst() (Diff method) getDiff() (Surfsys method) (Volsys method) getDiffBoundaryDiffusionActive() (Tetexact method) (TetOpSplit method) getDiffExtent() (TetOpSplit method) getEndocytosis() (Surfsys method) getERev() (OhmicCurr method) getG() (OhmicCurr method) getGeom() (Interface method) getGHKcurr() (Surfsys method) getGroup() (ElementProxy method) getGroups() (ElementProxy method) getIComp() (Patch method) (TmPatch method) getID() (Chan method) (ChanState method) (Comp method) (Diff method) (DiffBoundary method) (GHKcurr method) (Memb method) (OhmicCurr method) (Patch method) (Reac method) (SDiffBoundary method) (Spec method) (SReac method) (Surfsys method) (TmComp method) (TmPatch method) (VDepSReac method) (Volsys method) getIdleTime() (TetOpSplit method) getILHS() (SReac method) (VDepSReac method) getImportID() (ElementProxy method) getIon() (GHKcurr method) getIPatches() (Comp method) (TmComp method) getIRHS() (SReac method) (VDepSReac method) getItems() (SimDisplay method) getK() (VDepSReac method) getKcst() (Reac method) (SReac method) getLHS() (Reac method) getLig() (Diff method) getLinkSpec() (Model method) getMaxDensity() (VisualTetsSpec method) (VisualTrisSpec method) getMaxNSpec() (VisualTetsSpec method) (VisualTrisSpec method) getMeshVolume() (Tetmesh method) getModel() (Chan method) (ChanState method) (Diff method) (GHKcurr method) (Interface method) (OhmicCurr method) (Reac method) (Spec method) (SReac method) (Surfsys method) (VDepSReac method) (Volsys method) getNIteration() (TetOpSplit method) getNodesBoundInSelectedVols() (in module steps.API_1.utilities.steps_cubit) getNROIs() (Tetmesh method) getNSteps() (Tetexact method) (TetOpSplit method) (Wmdirect method) (Wmrssa method) getOComp() (Patch method) (TmPatch method) getOhmicCurr() (Surfsys method) getOLHS() (SReac method) (VDepSReac method) getOPatches() (Comp method) (TmComp method) getOrder() (Reac method) (SReac method) (VDepSReac method) getORHS() (SReac method) (VDepSReac method) getP() (GHKcurr method) getPatch() (Geom method) (Tetmesh method) getPatchAmount() (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) getPatchArea() (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) getPatchClamped() (Tetexact method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method)

getPatchCount() (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) getPatches() (SDiffBoundary method) getPatchSReacA() (Tetexact method) (TetOpSplit method) (Wmdirect method) (Wmrssa method) getPatchSReacActive() (Tetexact method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) getPatchSReacC() (Tetexact method) (TetOpSplit method) (Wmdirect method) (Wmrssa method) getPatchSReacExtent() (Tetexact method) (TetOpSplit method) (Wmdirect method) (Wmrssa method) getPatchSReacH() (Tetexact method) (TetOpSplit method) (Wmdirect method) (Wmrssa method) getPatchSReacK() (Tetexact method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) getPatchVDepSReacActive() (Tetexact method) (TetOpSplit method) getRaft() (Model method) getRaftGen() (Surfsys method) getRaftsys() (Model method) getReac() (Volsys method) getReacExtent() (TetOpSplit method) getRHS() (Reac method) getROI() (Tetmesh method) getROIAmount() (Tetexact method) (TetOpSplit method) getROIArea() (Tetexact method) (Tetmesh method) (TetOpSplit method) getROIConc() (Tetexact method) (TetOpSplit method) getROICount() (Tetexact method) (TetOpSplit method) getROIData() (Tetmesh method) getROIDataSize() (Tetmesh method) getROIDiffExtent() (Tetexact method) (TetOpSplit method) getROIReacExtent() (Tetexact method) (TetOpSplit method) getROISReacExtent() (Tetexact method) (TetOpSplit method) getROITetBarycenters() (Tetmesh method) getROITetBarycentersNP() (Tetmesh method) getROITetBarycentres() (Tetmesh method) getROITetBarycentresNP() (Tetmesh method) getROITetCounts() (Tetexact method) (TetOpSplit method) getROITetCountsNP() (Tetexact method) (TetOpSplit method) getROITets() (Tetmesh method) getROITetsNP() (Tetmesh method) getROITetVerticesMappingSetNP() (Tetmesh method) getROITetVerticesSetSizeNP() (Tetmesh method) getROITetVolsNP() (Tetmesh method) getROITriAreasNP() (Tetmesh method) getROITriBarycenters() (Tetmesh method) getROITriBarycentersNP() (Tetmesh method) getROITriBarycentres() (Tetmesh method) getROITriBarycentresNP() (Tetmesh method) getROITriCounts() (Tetexact method) (TetOpSplit method) getROITriCountsNP() (Tetexact method) (TetOpSplit method) getROITris() (Tetmesh method) getROITrisNP() (Tetmesh method) getROITriVerticesMappingSetNP() (Tetmesh method) getROITriVerticesSetSizeNP() (Tetmesh method) getROIType() (Tetmesh method) getROIVertices() (Tetmesh method) getROIVerticesNP() (Tetmesh method) getROIVol() (Tetexact method) (Tetmesh method) (TetOpSplit method) getSDiffBoundaryDiffusionActive() (Tetexact method) (TetOpSplit method) getSelectedNodes() (in module steps.API_1.utilities.steps_cubit) getSelectedSurfaces() (in module steps.API_1.utilities.steps_cubit) getSelectedTets() (in module steps.API_1.utilities.steps_cubit) getSelectedTris() (in module steps.API_1.utilities.steps_cubit) getSelectedVolumes() (in module steps.API_1.utilities.steps_cubit) getSize() (ElementProxy method) getSLHS() (SReac method) (VDepSReac method) getSolverAuthors() (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) getSolverDesc() (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) getSolverEmail() (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) getSolverName() (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) getSpec() (Model method) getSpecColor() (VisualTetsSpec method) (VisualTrisChannel method) (VisualTrisSpec method) getSpecSize() (VisualTetsSpec method) (VisualTrisChannel method) (VisualTrisSpec method) getSReac() (Surfsys method) getSRHS() (SReac method) (VDepSReac method) getSTEPSID() (ElementProxy method) getSurfsys() (Diff method) (GHKcurr method) (Model method) (OhmicCurr method) (Patch method) (SReac method) (TmPatch method) (VDepSReac method) getSurfTris() (Tetmesh method) getSyncTime() (TetOpSplit method) getTemp() (Tetexact method) (TetODE method) (TetOpSplit method) getTet() (Tetmesh method) getTetAmount() (Tetexact method) (TetODE method) (TetOpSplit method) getTetBarycenter() (Tetmesh method) getTetClamped() (Tetexact method) (TetOpSplit method) getTetComp() (Tetmesh method) getTetConc() (Tetexact method) (TetODE method) (TetOpSplit method) getTetCount() (Tetexact method) (TetODE method) (TetOpSplit method) getTetDiffA() (Tetexact method) (TetOpSplit method) getTetDiffActive() (Tetexact method) (TetOpSplit method) getTetDiffD() (Tetexact method) (TetOpSplit method) getTetPartitionTable() (in module steps.API_1.utilities.geom_decompose) getTetQualityRER() (Tetmesh method) getTetReacA() (Tetexact method) (TetOpSplit method) getTetReacActive() (Tetexact method) (TetOpSplit method) getTetReacC() (Tetexact method) (TetOpSplit method) getTetReacH() (Tetexact method) (TetOpSplit method) getTetReacK() (Tetexact method) (TetOpSplit method) getTetsBoundInSelectedVols() (in module steps.API_1.utilities.steps_cubit) getTetSpecDefined() (Tetexact method) (TetOpSplit method) getTetTetNeighb() (Tetmesh method) getTetTriNeighb() (Tetmesh method) getTetV() (Tetexact method) (TetODE method) (TetOpSplit method) getTetVClamped() (Tetexact method) (TetODE method) (TetOpSplit method) getTetVerticesMappingSetNP() (Tetmesh method) getTetVerticesSetSizeNP() (Tetmesh method) getTetVol() (Tetexact method) (Tetmesh method) (TetODE method) (TetOpSplit method) getTime() (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) getTri() (Tetmesh method) getTriAmount() (Tetexact method) (TetODE method) (TetOpSplit method) getTriArea() (Tetexact method) (Tetmesh method) (TetODE method) (TetOpSplit method) getTriBars() (Tetmesh method) getTriBarycenter() (Tetmesh method) getTriClamped() (Tetexact method) (TetOpSplit method) getTriCount() (Tetexact method) (TetODE method) (TetOpSplit method) getTriDiffBoundary() (Tetmesh method) getTriGHKI() (Tetexact method) (TetOpSplit method) getTriI() (Tetexact method) (TetODE method) (TetOpSplit method) getTriNorm() (Tetmesh method) getTriOhmicI() (Tetexact method) (TetOpSplit method) getTriPartitionTable() (in module steps.API_1.utilities.geom_decompose) getTriPatch() (Tetmesh method) getTrisBoundInSelectedVols() (in module steps.API_1.utilities.steps_cubit) getTriSDiffD() (Tetexact method) (TetOpSplit method) getTriSpecDefined() (Tetexact method) (TetOpSplit method) getTriSReacA() (Tetexact method) (TetOpSplit method) getTriSReacActive() (Tetexact method) (TetOpSplit method) getTriSReacC() (Tetexact method) (TetOpSplit method) getTriSReacH() (Tetexact method) (TetOpSplit method) getTriSReacK() (Tetexact method) (TetOpSplit method) getTriTetNeighb() (Tetmesh method) getTriTriNeighb() (Tetmesh method) getTriTriNeighbs() (Tetmesh method) getTriV() (Tetexact method) (TetODE method) (TetOpSplit method) getTriVClamped() (Tetexact method) (TetODE method) (TetOpSplit method) getTriVDepSReacActive() (Tetexact method) (TetOpSplit method) getTriVerticesMappingSetNP() (Tetmesh method) getTriVerticesSetSizeNP() (Tetmesh method) getType() (ElementProxy method) getValence() (ChanState method) (Spec method) getVDepSReac() (Surfsys method) getVertex() (Tetmesh method) getVertV() (Tetexact method) (TetODE method) (TetOpSplit method) getVertVClamped() (Tetexact method) (TetODE method) (TetOpSplit method) getVesBind() (Volsys method) getVesicle() (Model method) getVesSurfsys() (Model method) getVesUnbind() (Volsys method) getVol() (Comp method) (TmComp method) getVolsys() (Comp method) (Diff method) (Model method) (Reac method) (TmComp method) GHKcurr (class in steps.API_1.model) GHKCurr (class in steps.API_2.model) GIBSON_BRUCK (NextEventSearchMethod attribute) GmshPartition() (in module steps.API_2.geom)

H

H (SimPath attribute) HDF5Group (class in steps.API_2.saving) HDF5Handler (class in steps.API_2.saving) HDF5MultiFileReader (class in steps.API_2.saving)

hideItem() (SimDisplay method) highlightComp() (in module steps.API_1.utilities.steps_cubit) highlightPatch() (in module steps.API_1.utilities.steps_cubit) highlightROI() (in module steps.API_1.utilities.steps_cubit) hoc2morph() (in module steps.API_1.utilities.morph_support)

I

i (ReactionElement property) I (SimPath attribute) IClamp (SimPath attribute) icomp (Patch property) (TmPatch property) id (Chan property) (ChanState property) (Comp property) (Diff property) (DiffBoundary property) (GHKcurr property) (OhmicCurr property) (Patch property) (Reac property) (SDiffBoundary property) (Spec property) (SReac property) (Surfsys property) (TmComp property) (TmPatch property) (VDepSReac property) (Volsys property) idx (Reference property) ilhs (SReac property) (VDepSReac property) Immobility (SimPath attribute) Immobilization (Reaction property) (VesicleBind property) (VesicleUnbind property) importAbaqus() (in module steps.API_1.utilities.meshio) importAbaqus2() (in module steps.API_1.utilities.meshio) importFrom() (ShadowComp static method) (ShadowMesh static method) (ShadowPatch static method) importGmsh() (in module steps.API_1.utilities.meshio)

importTetGen() (in module steps.API_1.utilities.meshio) importVTK() (in module steps.API_1.utilities.meshio) IN (Location attribute) In() (in module steps.API_2.model) index() (BarList method) (RefList method) (TetList method) (TriList method) (VertList method) indices (RefList property) Indices (SimPath attribute) initialize() (RNG method) innerComp (Patch property) insert() (ElementProxy method) Interface (class in steps.API_1.utilities.sbml) intersect() (DistMesh method) (TetMesh method) (Tetmesh method) intersectIndependentSegments() (DistMesh method) (TetMesh method) (Tetmesh method) ion (GHKcurr property) ipatches (Comp property) (TmComp property) irhs (SReac property) (VDepSReac property) isBarInside() (SDiffBoundary method) isLocal() (Reference method) (RefList method) isPointInCylinder() (in module steps.API_1.utilities.geom_decompose) isPointInTet() (Tetmesh method) isPointInTruncatedCone() (in module steps.API_1.utilities.geom_decompose) isTetInside() (TmComp method) isTriInside() (DiffBoundary method) (Memb method) (TmPatch method)

J

JOIN() (ResultSelector class method)

K

K (Endocytosis property) (Exocytosis property) (RaftDis property) (RaftEndocytosis property) (RaftGen property) (Reaction property) (SimPath attribute) (VesicleBind property) (VesicleUnbind property)

kcst (Reac property) (SReac property) KissAndRun (Exocytosis property) KnRPartialRelease (Exocytosis property) KnRSpecChanges (Exocytosis property)

L

labels (ResultSelector property) LengthMax (VesicleBind property) LengthMin (VesicleBind property) lhs (Reac property) lig (Diff property) LinearMeshPartition() (in module steps.API_2.geom) linearPartition() (in module steps.API_1.utilities.geom_decompose) LinkedTo (SimPath attribute) LINKSPEC() (SimPath method) LinkSpecies (class in steps.API_2.model) LinkSpecList (class in steps.API_2.sim)

LINKSPECS() (SimPath method) LIST() (SimPath method) Load() (Morph class method) (TetMesh class method) LoadAbaqus() (TetMesh class method) LoadGmsh() (TetMesh class method) LoadHOC() (Morph class method) loadMesh() (in module steps.API_1.utilities.meshio) LoadSWC() (Morph class method) LoadTetGen() (TetMesh class method) LoadVTK() (TetMesh class method) Location (class in steps.API_2.model)

M

mapMorphTetmesh() (in module steps.API_1.utilities.morph_support) MATCH() (SimPath method) max (BoundingBox property) MAX() (ResultSelector class method) MaxDistance (Reaction property) Memb (class in steps.API_1.geom) Membrane (class in steps.API_2.geom) merge() (SimDisplay method) MeshPartition (class in steps.API_2.geom) metaData (ResultSelector property) MetisPartition() (in module steps.API_2.geom) min (BoundingBox property) MIN() (ResultSelector class method) model (Chan property) (ChanState property) Model (class in steps.API_1.model) (class in steps.API_2.model) model (Diff property) (GHKcurr property) (OhmicCurr property) (Reac property) (Simulation property) (Spec property) (SReac property) (Surfsys property) (VDepSReac property) (Volsys property)

module steps.API_1.geom steps.API_1.model steps.API_1.mpi.solver steps.API_1.rng steps.API_1.solver steps.API_1.utilities.geom_decompose steps.API_1.utilities.meshctrl steps.API_1.utilities.meshio steps.API_1.utilities.metis_support steps.API_1.utilities.morph_support steps.API_1.utilities.sbml steps.API_1.utilities.steps_cubit steps.API_1.visual steps.API_2.geom steps.API_2.model steps.API_2.rng steps.API_2.saving steps.API_2.sim steps.API_2.utils steps.API_2.visual Morph (class in steps.API_2.geom) MorphPartition() (in module steps.API_2.geom) MPI (class in steps.API_2.sim) MULTINOMIAL (DistributionMethod attribute)

N

name (DatabaseGroup property) (HDF5Group property) (Parameter property) (SQLiteGroup property) NamedObject (class in steps.API_2.utils) neighbs (TetReference property) neuron2morph() (in module steps.API_1.utilities.morph_support) NewRow (class in steps.API_2.visual) newRun() (SBMLSimulation method) (Simulation method)

NextEventSearchMethod (class in steps.API_2.sim) nhosts (MPI attribute) NoOrdering() (in module steps.API_2.model) norm (TriReference property) NSteps (Simulation property) ntets (Tetmesh property) ntris (Tetmesh property) nverts (Tetmesh property)

O

o (ReactionElement property) ocomp (Patch property) (TmPatch property) OhmicCurr (class in steps.API_1.model) (class in steps.API_2.model) olhs (SReac property) (VDepSReac property) opatches (Comp property) (TmComp property) open (Membrane property)

open() (Memb method) order (Reac property) (SReac property) (VDepSReac property) orhs (SReac property) (VDepSReac property) OUT (Location attribute) Out() (in module steps.API_2.model) outerComp (Patch property) OverlapTets (SimPath attribute)

P

P (GHKCurr property) PARALLEL_SOLVERS (Simulation attribute) Parameter (class in steps.API_2.utils) parameters (DatabaseHandler property) (HDF5Group property) (SQLiteGroup property) Params (class in steps.API_2.utils) PartitionDisplay (class in steps.API_2.visual) partitionTris() (in module steps.API_1.utilities.geom_decompose) Patch (class in steps.API_1.geom) (class in steps.API_2.geom) (SimPath attribute) patch (TriReference property) patches (SDiffBoundary property)

patchTriNeighbs (TriReference property) PathPositions (SimPath attribute) pickColorF() (in module steps.API_1.visual) PInfo() (GHKCurr class method) PlotDisplay (class in steps.API_1.visual) (class in steps.API_2.visual) Point (class in steps.API_2.geom) POINTSPEC() (SimPath method) POINTSPECS() (SimPath method) Pos (SimPath attribute) PosSpherical (SimPath attribute) Potential (SimPath attribute) printColorF() (in module steps.API_1.visual) printPartitionStat() (in module steps.API_1.utilities.geom_decompose) printStats() (MeshPartition method)

Q

qualityRER (TetReference property)

R

r (ReactionElement property) Raft (class in steps.API_2.model) (Exocytosis property) (RaftGen property) RAFT() (SimPath method) RaftDis (class in steps.API_2.model) RaftEndocytosis (class in steps.API_2.model) RaftGen (class in steps.API_2.model) RaftList (class in steps.API_2.sim) RaftReference (class in steps.API_2.sim) RAFTS() (SimPath method) RAFTSURF (Location attribute) RaftSurf() (in module steps.API_2.model) RaftSurfaceSystem (class in steps.API_2.model) rank (MPI attribute) Reac (class in steps.API_1.model) ReactingElement (class in steps.API_2.model) Reaction (class in steps.API_2.model) ReactionElement (class in steps.API_2.model) ReactionManager (class in steps.API_2.model) ReactionSide (class in steps.API_2.model) readPartition() (in module steps.API_1.utilities.metis_support) reduceBatchTetPointCountsNP() (Tetmesh method) reduceBatchTriPointCountsNP() (Tetmesh method) ReducedVol (SimPath attribute) reduceROITetPointCountsNP() (Tetmesh method) reduceROITriPointCountsNP() (Tetmesh method) Reference (class in steps.API_2.geom) RefList (class in steps.API_2.geom) refresh() (SimDisplay method) remove() (BarList method) (RefList method) (TetList method) (TriList method) (VertList method) removeItem() (SimDisplay method) removeROI() (ShadowMesh method) (Tetmesh method) repartitionAndReset() (TetOpSplit method) replaceROI() (Tetmesh method) Res (SimPath attribute) reset() (Interface method) (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method)

resetCompReacExtent() (Tetexact method) (TetOpSplit method) (Wmdirect method) (Wmrssa method) resetPatchSReacExtent() (Tetexact method) (TetOpSplit method) (Wmdirect method) (Wmrssa method) resetROIDiffExtent() (Tetexact method) (TetOpSplit method) resetROIReacExtent() (Tetexact method) (TetOpSplit method) resetROISReacExtent() (Tetexact method) (TetOpSplit method) restore() (Simulation method) (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) results (HDF5Group property) (SQLiteGroup property) ResultSelector (class in steps.API_2.saving) rhs (Reac property) RNG (class in steps.API_1.rng) (class in steps.API_2.rng) rng (Simulation property) ROI (class in steps.API_2.geom) rotateItem() (SimDisplay method) rotateItems() (SimDisplay method) RotationalSymmetryOrdering() (in module steps.API_2.model) RSSA (SSAMethod attribute) run() (SBMLSimulation method) (SimControl method) (Simulation method) (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method)

S

s (ReactionElement property) save() (CustomResults method) Save() (Morph method) save() (ResultSelector method) Save() (TetMesh method) saveMembOpt() (Simulation method) (Tetexact method) saveMesh() (in module steps.API_1.utilities.meshio) SBMLSimulation (class in steps.API_2.sim) SDiffBoundary (class in steps.API_1.geom) (class in steps.API_2.geom) SDiffD (SimPath attribute) selectedNodesAsROI() (in module steps.API_1.utilities.steps_cubit) selectedSurfacesAsPatch() (in module steps.API_1.utilities.steps_cubit) selectedTetsAsComp() (in module steps.API_1.utilities.steps_cubit) selectedTetsAsROI() (in module steps.API_1.utilities.steps_cubit) selectedTrisAsPatch() (in module steps.API_1.utilities.steps_cubit) selectedTrisAsROI() (in module steps.API_1.utilities.steps_cubit) selectedVolumesAsComp() (in module steps.API_1.utilities.steps_cubit) SERIAL_SOLVERS (Simulation attribute) setArea() (Patch method) (TmPatch method) setAutoAdjust() (VisualTetsSpec method) (VisualTrisSpec method) setChanState() (GHKcurr method) (OhmicCurr method) setCompAmount() (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) setCompClamped() (Tetexact method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) setCompConc() (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) setCompCount() (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) setCompDiffActive() (Tetexact method) (TetOpSplit method) setCompDiffD() (Tetexact method) (TetOpSplit method) setCompReacActive() (Tetexact method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) setCompReacK() (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) setCompVol() (Wmdirect method) (Wmrk4 method) (Wmrssa method) setDcst() (Diff method) setDiffBoundaryDcst() (Tetexact method) (TetOpSplit method) setDiffBoundaryDiffusionActive() (Tetexact method) (TetOpSplit method) setDT() (Simulation method) setEfieldDT() (Tetexact method) (TetOpSplit method) setEfieldTolerances() (Simulation method) setERev() (OhmicCurr method) setG() (OhmicCurr method) setID() (Chan method) (ChanState method) (Comp method) (Diff method) (DiffBoundary method) (GHKcurr method) (OhmicCurr method) (Patch method) (Reac method) (SDiffBoundary method) (Spec method) (SReac method) (Surfsys method) (TmComp method) (TmPatch method) (VDepSReac method) (Volsys method) setILHS() (SReac method) (VDepSReac method) setIon() (GHKcurr method) setIRHS() (SReac method) (VDepSReac method) setKcst() (Reac method) (SReac method) setLHS() (Reac method) setLig() (Diff method) setMaxDensity() (VisualTetsSpec method) (VisualTrisSpec method) setMaxNSpec() (VisualTetsSpec method) (VisualTrisSpec method) setMaxNumSteps() (TetODE method) setMembCapac() (Tetexact method) (TetODE method) (TetOpSplit method) setMembPotential() (Tetexact method) (TetODE method) (TetOpSplit method) setMembRes() (Tetexact method) (TetODE method) (TetOpSplit method) setMembVolRes() (Tetexact method) (TetODE method) (TetOpSplit method) setOLHS() (SReac method) (VDepSReac method) setORHS() (SReac method) (VDepSReac method) setP() (GHKcurr method) setPatchAmount() (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) setPatchArea() (Wmdirect method) (Wmrk4 method) (Wmrssa method) setPatchClamped() (Tetexact method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) setPatchCount() (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) setPatchSReacActive() (Tetexact method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) setPatchSReacK() (Tetexact method) (TetODE method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) setPatchVDepSReacActive() (Tetexact method) (TetOpSplit method) setPetscOptions() (Simulation method) setPInfo() (GHKcurr method) setPos() (VesicleReference method) setRHS() (Reac method) setRk4DT() (Simulation method) (Wmrk4 method) setROIClamped() (Tetexact method) (TetOpSplit method) setROICount() (Tetexact method) (TetOpSplit method) setROIDiffActive() (Tetexact method) (TetOpSplit method) setROIDiffD() (Tetexact method) (TetOpSplit method) setROIReacActive() (Tetexact method) (TetOpSplit method) setROIReacK() (Tetexact method) (TetOpSplit method) setROISReacActive() (Tetexact method) (TetOpSplit method) setROISReacK() (Tetexact method) (TetOpSplit method) setROIVDepSReacActive() (Tetexact method) (TetOpSplit method) setSDiffBoundaryDcst() (Tetexact method) (TetOpSplit method) setSDiffBoundaryDiffusionActive() (Tetexact method) (TetOpSplit method) setSLHS() (SReac method) (VDepSReac method)

setSpecColor() (VisualTetsSpec method) (VisualTrisChannel method) (VisualTrisSpec method) setSpecSize() (VisualTetsSpec method) (VisualTrisChannel method) (VisualTrisSpec method) setSRHS() (SReac method) (VDepSReac method) setTemp() (Tetexact method) (TetODE method) (TetOpSplit method) setTetAmount() (Tetexact method) (TetODE method) (TetOpSplit method) setTetClamped() (Tetexact method) (TetOpSplit method) setTetComp() (Tetmesh method) setTetConc() (Tetexact method) (TetODE method) (TetOpSplit method) setTetCount() (Tetexact method) (TetODE method) (TetOpSplit method) setTetDiffActive() (Tetexact method) (TetOpSplit method) setTetDiffD() (Tetexact method) (TetOpSplit method) setTetReacActive() (Tetexact method) (TetOpSplit method) setTetReacK() (Tetexact method) (TetODE method) (TetOpSplit method) setTetV() (Tetexact method) (TetODE method) (TetOpSplit method) setTetVClamped() (Tetexact method) (TetODE method) (TetOpSplit method) setTolerances() (Simulation method) (TetODE method) setTriAmount() (Tetexact method) (TetODE method) (TetOpSplit method) setTriClamped() (Tetexact method) (TetOpSplit method) setTriCount() (Tetexact method) (TetODE method) (TetOpSplit method) setTriDiffBoundary() (Tetmesh method) setTriIClamp() (Tetexact method) (TetODE method) (TetOpSplit method) setTriPatch() (Tetmesh method) setTriSDiffD() (Tetexact method) (TetOpSplit method) setTriSReacActive() (Tetexact method) (TetOpSplit method) setTriSReacK() (Tetexact method) (TetODE method) (TetOpSplit method) setTriV() (Tetexact method) (TetODE method) (TetOpSplit method) setTriVClamped() (Tetexact method) (TetODE method) (TetOpSplit method) setTriVDepSReacActive() (Tetexact method) (TetOpSplit method) setupSim() (Interface method) setValence() (ChanState method) (Spec method) SetVerbosity() (in module steps.API_2.utils) setVertIClamp() (Tetexact method) (TetODE method) (TetOpSplit method) setVertV() (Tetexact method) (TetODE method) (TetOpSplit method) setVertVClamped() (Tetexact method) (TetODE method) (TetOpSplit method) setVesicleDT() (Simulation method) setVol() (Comp method) (TmComp method) ShadowComp (class in steps.API_1.utilities.steps_cubit) ShadowMesh (class in steps.API_1.utilities.steps_cubit) ShadowPatch (class in steps.API_1.utilities.steps_cubit) showItem() (SimDisplay method) SimControl (class in steps.API_1.visual) (class in steps.API_2.visual) SimDisplay (class in steps.API_1.visual) (class in steps.API_2.visual) SimPath (class in steps.API_2.sim) Simulation (class in steps.API_2.sim) slhs (SReac property) (VDepSReac property) solver (Simulation property) SpatialPlot (class in steps.API_2.visual) Spec (class in steps.API_1.model) Species (class in steps.API_2.model) splitToROIs() (BarList method) (RefList method) (TetList method) (TriList method) (VertList method) SQLiteDBHandler (class in steps.API_2.saving) SQLiteGroup (class in steps.API_2.saving) SReac (class in steps.API_1.model) srhs (VDepSReac property) SSA (SSAMethod attribute) SSAMethod (class in steps.API_2.sim) staticData (HDF5Group property) (SQLiteGroup property) step() (Simulation method) (Tetexact method) (TetOpSplit method) (Wmdirect method) (Wmrk4 method) (Wmrssa method) steps.API_1.geom module steps.API_1.model module steps.API_1.mpi.nhosts (built-in variable) steps.API_1.mpi.rank (built-in variable) steps.API_1.mpi.solver module steps.API_1.rng module steps.API_1.solver module steps.API_1.utilities.geom_decompose module steps.API_1.utilities.meshctrl module steps.API_1.utilities.meshio module steps.API_1.utilities.metis_support module steps.API_1.utilities.morph_support module steps.API_1.utilities.sbml module steps.API_1.utilities.steps_cubit module steps.API_1.visual module steps.API_2.geom module steps.API_2.model module steps.API_2.rng module steps.API_2.saving module steps.API_2.sim module steps.API_2.utils module steps.API_2.visual module steps.mpi.solver.EF_DEFAULT (built-in variable) steps.mpi.solver.EF_DV_BDSYS (built-in variable) steps.mpi.solver.EF_DV_PETSC (built-in variable) steps.mpi.solver.EF_NONE (built-in variable) StrongOrdering() (in module steps.API_2.model) SubUnit (class in steps.API_2.model) SubUnitSelector (class in steps.API_2.model) SubUnitState (class in steps.API_2.model) SUM() (ResultSelector class method) sumBatchTetCountsNP() (TetOpSplit method) sumBatchTriCountsNP() (TetOpSplit method) sumBatchTriGHKIsNP() (TetOpSplit method) sumBatchTriOhmicIsNP() (TetOpSplit method) SURF (Location attribute) Surf() (in module steps.API_2.model) surface (Compartment property) (DistMesh property) (TetList property) (TetMesh property) SurfaceSystem (class in steps.API_2.model) Surfsys (class in steps.API_1.model) surfsys (Diff property) (GHKcurr property) (OhmicCurr property) (Patch property) (SReac property) (TmPatch property) (VDepSReac property) swc2morph() (in module steps.API_1.utilities.morph_support)

T

Temp (Simulation property) TET() (SimPath method) Tetexact (class in steps.API_1.solver) tetGroups (DistMesh property) (TetMesh property) TetList (class in steps.API_2.geom) Tetmesh (class in steps.API_1.geom) TetMesh (class in steps.API_2.geom) tetmesh2metis() (in module steps.API_1.utilities.metis_support) tetNeighbs (TriReference property) TetODE (class in steps.API_1.solver) TetOpSplit (class in steps.API_1.mpi.solver) TetOpSplit.steps.API_1.mpi.solver.EF_DEFAULT (in module steps.API_1.mpi.solver) TetOpSplit.steps.API_1.mpi.solver.EF_DV_BDSYS (in module steps.API_1.mpi.solver) TetOpSplit.steps.API_1.mpi.solver.EF_DV_PETSC (in module steps.API_1.mpi.solver) TetOpSplit.steps.API_1.mpi.solver.EF_NONE (in module steps.API_1.mpi.solver) tetPart (MeshPartition property) TetPartitionDisplay (class in steps.API_1.visual) tetProxy (TetMesh property) TetReference (class in steps.API_2.geom) tets (Compartment property) (DistMesh property) (ROI property) (TetMesh property) (TmComp property) TETS() (SimPath method) tetTable (MeshPartition property) this (Chan attribute) (ChanState attribute) (Comp attribute) (Diff attribute) (DiffBoundary attribute) (Geom attribute) (GHKcurr attribute) (Memb attribute) (Model attribute) (OhmicCurr attribute) (Patch attribute) (Reac attribute) (SDiffBoundary attribute) (Spec attribute) (SReac attribute) (Surfsys attribute) (Tetmesh attribute) (TmComp attribute) (TmPatch attribute) (VDepSReac attribute) (Volsys attribute)

time (ResultSelector property) Time (Simulation property) TimePlot (class in steps.API_2.visual) TmComp (class in steps.API_1.geom) TmPatch (class in steps.API_1.geom) toDB() (Simulation method) toFile() (ResultSelector method) toGlobal() (Reference method) (RefList method) toList() (BarReference method) (Reference method) (TetReference method) (TriReference method) (VertReference method) toLocal() (Reference method) (RefList method) toSave() (Simulation method) toStr() (in module steps.API_1.utilities.steps_cubit) TRI() (SimPath method) triGroups (DistMesh property) (TetMesh property) TriList (class in steps.API_2.geom) triNeighbs (TriReference property) triPart (MeshPartition property) TriPartitionDisplay (class in steps.API_1.visual) triProxy (TetMesh property) TriReference (class in steps.API_2.geom) tris (DiffBoundary property), [1] (DistMesh property) (EndocyticZone property) (Memb property) (Membrane property) (Patch property) (ROI property) (TetList property) (TetMesh property) (TmPatch property) TRIS() (SimPath method) triTable (MeshPartition property)

U

UNIFORM (DistributionMethod attribute) units (Parameter property) updateItem() (VisualTetsSpec method) (VisualTrisChannel method) (VisualTrisSpec method)

updateItems() (SimDisplay method) updateSim() (Interface method)

V

v (ReactionElement property) V (SimPath attribute) valence (Species property) validate() (MeshPartition method) validatePartition() (in module steps.API_1.utilities.geom_decompose) value (Parameter property) VClamped (SimPath attribute) VDepFunc (class in steps.API_2.model) VDepRate (class in steps.API_2.model) VDepSReac (class in steps.API_1.model) VERT() (SimPath method) vertGroups (DistMesh property) (TetMesh property) VertList (class in steps.API_2.geom) vertProxy (TetMesh property) VertReference (class in steps.API_2.geom) verts (BarList property) (BarReference property) (DistMesh property) (ROI property) (TetList property) (TetMesh property) (TetReference property) (TriList property) (TriReference property) VERTS() (SimPath method) Ves (SimPath attribute) Vesicle (class in steps.API_2.model) (Endocytosis property) (RaftEndocytosis property) VESICLE() (SimPath method) VesicleBind (class in steps.API_2.model) VesicleList (class in steps.API_2.sim) VesiclePathReference (class in steps.API_2.sim) VesicleReference (class in steps.API_2.sim)

Vesicles (VesicleBind property) (VesicleUnbind property) VESICLES() (SimPath method) VesicleSurfaceSystem (class in steps.API_2.model) VesicleUnbind (class in steps.API_2.model) VESSURF (Location attribute) VesSurf() (in module steps.API_2.model) VisualCompMesh (class in steps.API_1.visual) VisualCompSpec (class in steps.API_1.visual) VisualPatchChannel (class in steps.API_1.visual) VisualPatchMesh (class in steps.API_1.visual) VisualPatchSpec (class in steps.API_1.visual) VisualROITetsSpec (class in steps.API_1.visual) VisualROITrisChannel (class in steps.API_1.visual) VisualROITrisSpec (class in steps.API_1.visual) VisualTetsSpec (class in steps.API_1.visual) VisualTrisChannel (class in steps.API_1.visual) VisualTrisSpec (class in steps.API_1.visual) VOConc (GHKCurr property) vol (Comp property) Vol (Compartment property) (DistMesh property) (ROI property) (SimPath attribute) (TetList property) (TetMesh property) (TetReference property) vol (TmComp property) VolRes (SimPath attribute) Volsys (class in steps.API_1.model) volsys (Comp property) (Diff property) (Reac property) (TmComp property) VolumeSystem (class in steps.API_2.model) vrange (VDepFunc property)

W

Wmdirect (class in steps.API_1.solver) wmPart (MeshPartition property)

Wmrk4 (class in steps.API_1.solver) Wmrssa (class in steps.API_1.solver) writeToTetmesh() (ShadowMesh method)

X

x (Point property)

XDepFunc (class in steps.API_2.model) XDMFHandler (class in steps.API_2.saving)

Y

y (Point property)

Z

z (Point property)