| __init__(self, dimensions, spacing, name="unnamed", defaultRegion="default") | pyLM.RDME.RDMESimulation | |
| _repr_html_(self) | pyLM.RDME.RDMESimulation | protected |
| addCuboidRegion(self, name, a, b) | pyLM.RDME.RDMESimulation | |
| addParticleAt(self, index, particleType) | pyLM.RDME.RDMESimulation | |
| addParticleAtIdx(self, index, particleType) | pyLM.RDME.RDMESimulation | |
| addParticles(self, species='unknown', region='default', count=1) | pyLM.RDME.RDMESimulation | |
| addRegion(self, region) | pyLM.RDME.RDMESimulation | |
| addShape(self, shape) | pyLM.RDME.RDMESimulation | |
| allocateLattice(self) | pyLM.RDME.RDMESimulation | |
| buildCapsidCell(self, length, diameter, membraneThickness, points=False) | pyLM.RDME.RDMESimulation | |
| buildDifference(self, arg1, arg2, arg3) | pyLM.RDME.RDMESimulation | |
| buildDiffusionModel(self) | pyLM.RDME.RDMESimulation | |
| buildEllipse(self, arg1, arg2, arg3, arg4, arg5, arg6, arg7) | pyLM.RDME.RDMESimulation | |
| buildPoint(self, arg1, arg2, arg3) | pyLM.RDME.RDMESimulation | |
| buildReactionModel(self) | pyLM.RDME.RDMESimulation | |
| buildSpatialModel(self) | pyLM.RDME.RDMESimulation | |
| buildSphere(self, arg1, arg2, arg3) | pyLM.RDME.RDMESimulation | |
| buildSphericalCell(self, diameter, membraneThickness, point=False) | pyLM.RDME.RDMESimulation | |
| buildVector(self, arg1, arg2, arg3) | pyLM.RDME.RDMESimulation | |
| bytesPerParticle | pyLM.RDME.RDMESimulation | |
| continousDimensions | pyLM.RDME.RDMESimulation | |
| customAddedParticleList | pyLM.RDME.RDMESimulation | |
| defineSpecies(self, species) | pyLM.RDME.RDMESimulation | |
| filename | pyLM.RDME.RDMESimulation | |
| getLattice(self, force=False) | pyLM.RDME.RDMESimulation | |
| getLatticeSite(self, index) | pyLM.RDME.RDMESimulation | |
| hasBeenDiscretized | pyLM.RDME.RDMESimulation | |
| initial_counts | pyLM.RDME.RDMESimulation | |
| lattice | pyLM.RDME.RDMESimulation | |
| latticeSpacing | pyLM.RDME.RDMESimulation | |
| lm_builder | pyLM.RDME.RDMESimulation | |
| modifyRegion(self, region) | pyLM.RDME.RDMESimulation | |
| name | pyLM.RDME.RDMESimulation | |
| packRegion(self, region, radius, percentage, obstacleID) | pyLM.RDME.RDMESimulation | |
| parameters | pyLM.RDME.RDMESimulation | |
| particleMap | pyLM.RDME.RDMESimulation | |
| regions | pyLM.RDME.RDMESimulation | |
| replicates | pyLM.RDME.RDMESimulation | |
| run(self, filename, method, replicates=1, seed=None, cudaDevices=None, checkpointInterval=0) | pyLM.RDME.RDMESimulation | |
| runMPI(self, filename, method, replicates=1, driver="mpirun", ppe=1, seed=None) | pyLM.RDME.RDMESimulation | |
| runSolver(self, filename, solver, replicates=1, cudaDevices=None, checkpointInterval=0) | pyLM.RDME.RDMESimulation | |
| save(self, filename) | pyLM.RDME.RDMESimulation | |
| setHookInterval(self, time) | pyLM.RDME.RDMESimulation | |
| setLatticeSite(self, index, siteType) | pyLM.RDME.RDMESimulation | |
| setLatticeWriteInterval(self, time) | pyLM.RDME.RDMESimulation | |
| setOverflowHandler(self, mode) | pyLM.RDME.RDMESimulation | |
| setRandomSeed(self, seed) | pyLM.RDME.RDMESimulation | |
| setSimulationTime(self, time) | pyLM.RDME.RDMESimulation | |
| setTimestep(self, time) | pyLM.RDME.RDMESimulation | |
| setTransitionRate(self, species, via, to, rate) | pyLM.RDME.RDMESimulation | |
| setTwoWayTransitionRate(self, species, one, two, rate) | pyLM.RDME.RDMESimulation | |
| setWriteInterval(self, time) | pyLM.RDME.RDMESimulation | |
| siteTypes | pyLM.RDME.RDMESimulation | |
| siteVolume(self) | pyLM.RDME.RDMESimulation | |
| species_id | pyLM.RDME.RDMESimulation | |
| transitionRates | pyLM.RDME.RDMESimulation | |
1.14.0