def setUpClass(cls):
cls.kernel_provider = api.KernelProvider.get()
cls.kernel_provider.load_from_dir(putils.get_readdy_plugin_dir())
cls.dir = tempfile.mkdtemp("test-config-io")
cls.fname = os.path.join(cls.dir, "test_io_utils.h5")
sim = api.Simulation()
sim.set_kernel("CPU")
sim.register_particle_type("A", 1., 0.)
sim.register_particle_type("B", 2., 0.)
sim.register_particle_type("C", 3., 0.)
sim.register_reaction_conversion("mylabel", "A", "B", .00001)
sim.register_reaction_conversion("A->B", "A", "B", 1.)
fusion_rate = 0.4
educt_distance = 0.2
sim.register_reaction_fusion("B+C->A", "B", "C", "A", fusion_rate, educt_distance, .5, .5)
with contextlib.closing(io.File(cls.fname, io.FileAction.CREATE, io.FileFlag.OVERWRITE)) as f:
sim.run_scheme_readdy(True).write_config_to_file(f).configure_and_run(1, 0.1)
def setUpClass(cls):
cls.dir = tempfile.mkdtemp("test-config-io")
cls.fname = os.path.join(cls.dir, "test_io_utils.h5")
context = api.Context()
context.particle_types.add("A", 1.)
context.particle_types.add("B", 2.)
context.particle_types.add("C", 3.)
context.reactions.add_conversion("mylabel", "A", "B", .00001)
context.reactions.add_conversion("A->B", "A", "B", 1.)
fusion_rate = 0.4
educt_distance = 0.2
context.reactions.add_fusion("B+C->A", "B", "C", "A", fusion_rate,
educt_distance, .5, .5)
sim = api.Simulation("CPU", context)
with contextlib.closing(io.File.create(cls.fname)) as f:
loop = sim.create_loop(.1)
loop.write_config_to_file(f)
loop.run(1)
def setUpClass(cls):
cls.kernel_provider = api.KernelProvider.get()
cls.kernel_provider.load_from_dir(putils.get_readdy_plugin_dir())
cls.dir = tempfile.mkdtemp("test-config-io")
cls.fname = os.path.join(cls.dir, "test_io_utils.h5")
sim = api.Simulation("CPU")
sim.context.particle_types.add("A", 1.)
sim.context.particle_types.add("B", 2.)
sim.context.particle_types.add("C", 3.)
sim.context.reactions.add_conversion("mylabel", "A", "B", .00001)
sim.context.reactions.add_conversion("A->B", "A", "B", 1.)
fusion_rate = 0.4
educt_distance = 0.2
sim.context.reactions.add_fusion("B+C->A", "B", "C", "A", fusion_rate,
educt_distance, .5, .5)
with contextlib.closing(io.File.create(cls.fname)) as f:
loop = sim.create_loop(.1)
loop.write_config_to_file(f)
loop.run(1)