def test15(self):
particles = datamodel.Particles(2)
particles.x = [0.0,10.0] | nbody_system.length
particles.y = 0.0 | nbody_system.length
particles.z = 0.0 | nbody_system.length
particles.vx = 0.0 | nbody_system.speed
particles.vy = 0.0 | nbody_system.speed
particles.vz = 0.0 | nbody_system.speed
particles.mass = 1.0 | nbody_system.mass
instance = SmallN()
instance.particles.add_particles(particles)
instance.commit_particles()
self.assertEquals(instance.particles[0].radius, 0.0 | nbody_system.length)
p = datamodel.Particle(
x = 1.0 | nbody_system.length,
y = 2.0 | nbody_system.length,
z = 3.0 | nbody_system.length,
vx = 1.0 | nbody_system.speed,
vy = 2.0 | nbody_system.speed,
vz = 3.0 | nbody_system.speed,
mass = 1.0 | nbody_system.mass,
radius = 4.0 | nbody_system.length,
)
instance.particles.add_particle(p)
self.assertEquals(instance.particles[0].radius, 0.0 | nbody_system.length)
self.assertEquals(instance.particles[1].radius, 0.0 | nbody_system.length)
self.assertEquals(instance.particles[2].radius, 4.0 | nbody_system.length)
instance.stop()
def test17(self):
particles = datamodel.Particles(keys=[1, 2, 3, 4, 5, 6, 7])
particles.mass = 0.001 | nbody_system.mass
particles.radius = 0.1 | nbody_system.length
particles.x = [-100.5, -99.5, -0.5, 0.5, 99.5, 100.5, 120.0
] | nbody_system.length
particles.y = 0 | nbody_system.length
particles.z = 0 | nbody_system.length
particles.velocity = [[2, 0, 0], [-2, 0, 0], [2, 0, 0], [-2, 0, 0],
[2, 0, 0], [-2, 0, 0], [-4, 0, 0]
] | nbody_system.speed
instance = SmallN()
instance.particles.add_particles(particles)
collisions = instance.stopping_conditions.collision_detection
collisions.enable()
instance.evolve_model(1.0 | nbody_system.time)
self.assertTrue(collisions.is_set())
self.assertTrue(instance.model_time < 0.5 | nbody_system.time)
self.assertEquals(len(collisions.particles(0)), 3)
self.assertEquals(len(collisions.particles(1)), 3)
self.assertEquals(
len(particles - collisions.particles(0) - collisions.particles(1)),
1)
self.assertEquals(
abs(collisions.particles(0).x - collisions.particles(1).x) <=
(collisions.particles(0).radius + collisions.particles(1).radius),
[True, True, True])
def initialize_isOverCode(**kwargs):
converter = kwargs.get("converter", None)
if converter == None:
converter = nbody_system.nbody_to_si(1 | units.MSun, 100 | units.AU)
isOverCode = SmallN(redirection="none", convert_nbody=converter)
isOverCode.initialize_code()
isOverCode.parameters.set_defaults()
isOverCode.parameters.allow_full_unperturbed = 0
return isOverCode
def test3(self):
convert_nbody = nbody_system.nbody_to_si(1.0 | units.MSun,
149.5e6 | units.km)
instance = SmallN(convert_nbody)
instance.initialize_code()
instance.dt_dia = 5000
stars = datamodel.Stars(2)
star1 = stars[0]
star2 = stars[1]
star1.mass = units.MSun(1.0)
star1.position = units.AU(numpy.array((-1.0, 0.0, 0.0)))
star1.velocity = units.AUd(numpy.array((0.0, 0.0, 0.0)))
star1.radius = units.RSun(1.0)
star2.mass = units.MSun(1.0)
star2.position = units.AU(numpy.array((1.0, 0.0, 0.0)))
star2.velocity = units.AUd(numpy.array((0.0, 0.0, 0.0)))
star2.radius = units.RSun(100.0)
instance.particles.add_particles(stars)
for x in range(1, 2000, 10):
instance.evolve_model(x | units.day)
instance.particles.copy_values_of_all_attributes_to(stars)
stars.savepoint()
instance.stop()
def test6(self):
print("Test6: Testing SmallN parameters")
convert_nbody = nbody_system.nbody_to_si(1.0 | units.yr,
1.0 | units.AU)
instance = SmallN(convert_nbody)
instance.initialize_code()
value = instance.get_eta()
self.assertEqual(0.14, value)
self.assertAlmostEqual(0.14, instance.parameters.timestep_parameter)
for x in [0.001, 0.01, 0.1]:
instance.parameters.timestep_parameter = x
self.assertAlmostEqual(x, instance.parameters.timestep_parameter)
value = instance.get_time()
self.assertEqual(0 | units.yr, value)
value = instance.get_gamma()
self.assertEqual(1e-6, value)
self.assertAlmostEqual(1e-6, instance.parameters.unperturbed_threshold)
for x in [0.001, 0.01, 0.1]:
instance.parameters.unperturbed_threshold = x
self.assertAlmostEqual(x,
instance.parameters.unperturbed_threshold)
instance.stop()
def test5(self):
convert_nbody = nbody_system.nbody_to_si(5.0 | units.kg,
10.0 | units.m)
instance = SmallN(convert_nbody)
instance.initialize_code()
particles = datamodel.Particles(2)
self.assertEqual(len(instance.particles), 0)
particles.mass = [15.0, 30.0] | units.kg
particles.radius = [10.0, 20.0] | units.m
particles.position = [[10.0, 20.0, 30.0], [20.0, 40.0, 60.0]] | units.m
particles.velocity = [[0.0, 0.0, 0.0], [0.0, 0.0, 0.0]
] | units.m / units.s
instance.particles.add_particles(particles)
self.assertEqual(len(instance.particles), 2)
instance.set_state(1, 16 | units.kg, 20.0 | units.m, 40.0 | units.m,
60.0 | units.m, 1.0 | units.ms, 1.0 | units.ms,
1.0 | units.ms, 20.0 | units.m)
curr_state = instance.get_state(1)
for expected, actual in zip([
16 | units.kg, 20.0 | units.m, 40.0 | units.m, 60.0 | units.m,
1.0 | units.ms, 1.0 | units.ms, 1.0 | units.ms, 20.0 | units.m
], curr_state):
self.assertAlmostRelativeEquals(expected, actual)
instance.stop()
self.assertEqual(curr_state[0], 16 | units.kg, 8)
def test20(self):
p = datamodel.Particles(3)
p[0].mass = 6.667e-01 | nbody_system.mass
p[0].radius = 4.000e-03 | nbody_system.length
p[0].x = -1.309e+01 | nbody_system.length
p[0].y = 1.940e+01 | nbody_system.length
p[0].z = -1.163e+01 | nbody_system.length
p[0].vx = 2.366e-01 | nbody_system.speed
p[0].vy = -3.813e-01 | nbody_system.speed
p[0].vz = 2.486e-01 | nbody_system.speed
p[1].mass = 3.333e-01 | nbody_system.mass
p[1].radius = 1.000e-03 | nbody_system.length
p[1].x = -1.506e+01 | nbody_system.length
p[1].y = 1.937e+01 | nbody_system.length
p[1].z = -1.163e+01 | nbody_system.length
p[1].vx = 3.483e-01 | nbody_system.speed
p[1].vy = -4.513e-01 | nbody_system.speed
p[1].vz = 2.486e-01 | nbody_system.speed
p[2].mass = 5.000e-01 | nbody_system.mass
p[2].radius = 2.000e-03 | nbody_system.length
p[2].x = 2.749e+01 | nbody_system.length
p[2].y = -3.877e+01 | nbody_system.length
p[2].z = 2.325e+01 | nbody_system.length
p[2].vx = -5.476e-01 | nbody_system.speed
p[2].vy = 8.092e-01 | nbody_system.speed
p[2].vz = -4.972e-01 | nbody_system.speed
instance = SmallN()
instance.initialize_code()
instance.parameters.set_defaults
N = 3
t_begin = 0.0 | nbody_system.time
t_end = 100.0 | nbody_system.time
particles = p
instance.particles.add_particles(particles)
instance.commit_particles()
sc = instance.stopping_conditions.collision_detection
sc.enable()
isCollision = False
instance.evolve_model(t_end)
isCollision = sc.is_set()
instance.stop()
self.assertTrue(isCollision, "no collision detected")
def test3(self):
convert_nbody = nbody_system.nbody_to_si(1.0 | units.MSun, 149.5e6 | units.km)
instance = SmallN(convert_nbody)
instance.initialize_code()
instance.dt_dia = 5000
stars = datamodel.Stars(2)
star1 = stars[0]
star2 = stars[1]
star1.mass = units.MSun(1.0)
star1.position = units.AU(numpy.array((-1.0,0.0,0.0)))
star1.velocity = units.AUd(numpy.array((0.0,0.0,0.0)))
star1.radius = units.RSun(1.0)
star2.mass = units.MSun(1.0)
star2.position = units.AU(numpy.array((1.0,0.0,0.0)))
star2.velocity = units.AUd(numpy.array((0.0,0.0,0.0)))
star2.radius = units.RSun(100.0)
instance.particles.add_particles(stars)
for x in range(1,2000,10):
instance.evolve_model(x | units.day)
instance.particles.copy_values_of_all_attributes_to(stars)
stars.savepoint()
instance.stop()
def test5(self):
convert_nbody = nbody_system.nbody_to_si(5.0 | units.kg, 10.0 | units.m)
instance = SmallN(convert_nbody)
instance.initialize_code()
particles = datamodel.Particles(2)
self.assertEquals(len(instance.particles), 0)
particles.mass = [15.0, 30.0] | units.kg
particles.radius = [10.0, 20.0] | units.m
particles.position = [[10.0, 20.0, 30.0], [20.0, 40.0, 60.0]] | units.m
particles.velocity = [[0.0, 0.0, 0.0], [0.0, 0.0, 0.0]] | units.m / units.s
instance.particles.add_particles(particles)
self.assertEquals(len(instance.particles), 2)
instance.set_state(1, 16|units.kg,
20.0|units.m, 40.0|units.m, 60.0|units.m,
1.0|units.ms, 1.0|units.ms, 1.0|units.ms ,
20.0|units.m)
curr_state = instance.get_state(1)
for expected, actual in zip([16|units.kg,
20.0|units.m, 40.0|units.m, 60.0|units.m,
1.0|units.ms, 1.0|units.ms, 1.0|units.ms ,
20.0|units.m], curr_state):
self.assertAlmostRelativeEquals(expected, actual)
instance.stop()
self.assertEquals(curr_state[0], 16|units.kg, 8)
def test6(self):
print "Test6: Testing SmallN parameters"
convert_nbody = nbody_system.nbody_to_si(1.0 | units.yr, 1.0 | units.AU)
instance = SmallN(convert_nbody)
instance.initialize_code()
value = instance.get_eta()
self.assertEquals(0.14, value)
self.assertAlmostEquals(0.14, instance.parameters.timestep_parameter)
for x in [0.001, 0.01, 0.1]:
instance.parameters.timestep_parameter = x
self.assertAlmostEquals(x, instance.parameters.timestep_parameter)
value = instance.get_time()
self.assertEquals(0| units.yr, value)
value = instance.get_gamma()
self.assertEquals(1e-6, value)
self.assertAlmostEquals(1e-6, instance.parameters.unperturbed_threshold)
for x in [0.001, 0.01, 0.1]:
instance.parameters.unperturbed_threshold = x
self.assertAlmostEquals(x, instance.parameters.unperturbed_threshold)
instance.stop()
def test20(self):
p = datamodel.Particles(3)
p[0].mass = 6.667e-01 | nbody_system.mass
p[0].radius = 4.000e-03 | nbody_system.length
p[0].x = -1.309e+01 | nbody_system.length
p[0].y = 1.940e+01 | nbody_system.length
p[0].z = -1.163e+01 | nbody_system.length
p[0].vx = 2.366e-01 | nbody_system.speed
p[0].vy = -3.813e-01 | nbody_system.speed
p[0].vz = 2.486e-01 | nbody_system.speed
p[1].mass = 3.333e-01 | nbody_system.mass
p[1].radius = 1.000e-03 | nbody_system.length
p[1].x = -1.506e+01 | nbody_system.length
p[1].y = 1.937e+01 | nbody_system.length
p[1].z = -1.163e+01 | nbody_system.length
p[1].vx = 3.483e-01 | nbody_system.speed
p[1].vy = -4.513e-01 | nbody_system.speed
p[1].vz = 2.486e-01 | nbody_system.speed
p[2].mass = 5.000e-01 | nbody_system.mass
p[2].radius = 2.000e-03 | nbody_system.length
p[2].x = 2.749e+01 | nbody_system.length
p[2].y = -3.877e+01 | nbody_system.length
p[2].z = 2.325e+01 | nbody_system.length
p[2].vx = -5.476e-01 | nbody_system.speed
p[2].vy = 8.092e-01 | nbody_system.speed
p[2].vz = -4.972e-01 | nbody_system.speed
instance = SmallN()
instance.initialize_code()
instance.parameters.set_defaults
N = 3
t_begin = 0.0 | nbody_system.time
t_end = 100.0 | nbody_system.time
particles = p
instance.particles.add_particles(particles)
instance.commit_particles()
sc = instance.stopping_conditions.collision_detection
sc.enable()
isCollision = False
instance.evolve_model(t_end)
isCollision = sc.is_set()
instance.stop()
self.assertTrue(isCollision, "no collision detected")
def init_smalln():
global SMALLN
sys.stdout.flush()
SMALLN = SmallN()
sys.stdout.flush()
SMALLN.parameters.timestep_parameter = 0.1
#SMALLN.parameters.cm_index = 2001 # don't set this here!!
sys.stdout.flush()
def new_smalln_si(self):
if not self.previous is None:
self.previous.stop()
converter = nbody_system.nbody_to_si(units.MSun, units.parsec)
result = SmallN(converter)
result.parameters.timestep_parameter = 0.1
result.parameters.cm_index = 2001
return result
def new_smalln(self):
if not self.previous is None:
self.previous.stop()
result = SmallN()
result.parameters.timestep_parameter = 0.1
result.parameters.cm_index = 2001
self.previous = result
return result
def test16(self):
convert_nbody = nbody_system.nbody_to_si(1.0 | units.MSun, 149.5e6 | units.km)
smalln = SmallN(convert_nbody)
smalln.initialize_code()
smalln.dt_dia = 5000
stars = self.new_system_of_sun_and_earth()
moon = datamodel.Particle()
moon.mass = units.kg(7.3477e22)
moon.radius = units.km(1737.10)
moon.position = units.km(numpy.array((149.5e6 + 384.399 ,0.0,0.0)))
moon.velocity = units.ms(numpy.array((0.0,29800 + 1022,0.0)))
stars.add_particle(moon)
earth = stars[1]
smalln.particles.add_particles(stars)
smalln.evolve_model(365.0 | units.day)
smalln.update_particle_tree()
smalln.update_particle_set()
self.assertEquals(len(smalln.particles), 5)
self.assertEarthAndMoonWasDetectedAsBinary(smalln.particles, stars)
inmemory = smalln.particles.copy()
self.assertEarthAndMoonWasDetectedAsBinary(inmemory, stars)
test_results_path = self.get_path_to_results()
output_file = os.path.join(test_results_path, "newsmalln-test16.hdf5")
if os.path.exists(output_file):
os.remove(output_file)
io.write_set_to_file(smalln.particles, output_file, "hdf5")
fromfile = io.read_set_from_file(output_file, "hdf5")
self.assertEarthAndMoonWasDetectedAsBinary(fromfile, stars)
def test18(self):
particles = datamodel.Particles(keys=[1, 2])
particles.mass = 1 | nbody_system.mass
particles.radius = 0.1 | nbody_system.length
particles.x = [1, -1] | nbody_system.length
particles.y = [1, -1] | nbody_system.length
particles.z = 0 | nbody_system.length
particles.velocity = [[-1, 0, 0], [1, 0, 0]] | nbody_system.speed
instance = SmallN()
instance.particles.add_particles(particles)
stopping_condition = instance.stopping_conditions.interaction_over_detection
stopping_condition.enable()
instance.evolve_model(10.0 | nbody_system.time)
self.assertTrue(stopping_condition.is_set())
self.assertTrue(instance.model_time < 11.0 | nbody_system.time)
def test18(self):
particles = datamodel.Particles(keys=[1,2])
particles.mass = 1 | nbody_system.mass
particles.radius = 0.1 | nbody_system.length
particles.x = [1, -1] | nbody_system.length
particles.y = [1, -1] | nbody_system.length
particles.z = 0 | nbody_system.length
particles.velocity = [[-1, 0, 0], [1, 0, 0]] | nbody_system.speed
instance = SmallN()
instance.particles.add_particles(particles)
stopping_condition = instance.stopping_conditions.interaction_over_detection
stopping_condition.enable()
instance.evolve_model(10.0 | nbody_system.time)
self.assertTrue(stopping_condition.is_set())
self.assertTrue(instance.model_time < 11.0 | nbody_system.time)
def test15(self):
particles = datamodel.Particles(2)
particles.x = [0.0, 10.0] | nbody_system.length
particles.y = 0.0 | nbody_system.length
particles.z = 0.0 | nbody_system.length
particles.vx = 0.0 | nbody_system.speed
particles.vy = 0.0 | nbody_system.speed
particles.vz = 0.0 | nbody_system.speed
particles.mass = 1.0 | nbody_system.mass
instance = SmallN()
instance.particles.add_particles(particles)
instance.commit_particles()
self.assertEqual(instance.particles[0].radius,
0.0 | nbody_system.length)
p = datamodel.Particle(
x=1.0 | nbody_system.length,
y=2.0 | nbody_system.length,
z=3.0 | nbody_system.length,
vx=1.0 | nbody_system.speed,
vy=2.0 | nbody_system.speed,
vz=3.0 | nbody_system.speed,
mass=1.0 | nbody_system.mass,
radius=4.0 | nbody_system.length,
)
instance.particles.add_particle(p)
self.assertEqual(instance.particles[0].radius,
0.0 | nbody_system.length)
self.assertEqual(instance.particles[1].radius,
0.0 | nbody_system.length)
self.assertEqual(instance.particles[2].radius,
4.0 | nbody_system.length)
instance.stop()
def test2(self):
convert_nbody = nbody_system.nbody_to_si(1.0 | units.MSun, 149.5e6 | units.km)
instance = SmallN(convert_nbody)
instance.initialize_code()
instance.dt_dia = 5000
stars = self.new_system_of_sun_and_earth()
earth = stars[1]
instance.particles.add_particles(stars)
for x in range(1,2000,10):
instance.evolve_model(x | units.day)
instance.particles.copy_values_of_all_attributes_to(stars)
stars.savepoint()
if HAS_MATPLOTLIB:
figure = pyplot.figure()
plot = figure.add_subplot(1,1,1)
x_points = earth.get_timeline_of_attribute("x")
y_points = earth.get_timeline_of_attribute("y")
x_points_in_AU = map(lambda (t,x) : x.value_in(units.AU), x_points)
y_points_in_AU = map(lambda (t,x) : x.value_in(units.AU), y_points)
plot.scatter(x_points_in_AU,y_points_in_AU, color = "b", marker = 'o')
plot.set_xlim(-1.5, 1.5)
plot.set_ylim(-1.5, 1.5)
test_results_path = self.get_path_to_results()
output_file = os.path.join(test_results_path, "smalln-earth-sun2.svg")
figure.savefig(output_file)
instance.cleanup_code()
instance.stop()
def test17(self):
particles = datamodel.Particles(keys=[1,2,3,4,5,6,7])
particles.mass = 0.001 | nbody_system.mass
particles.radius = 0.1 | nbody_system.length
particles.x = [
-100.5, -99.5,
-0.5, 0.5,
99.5, 100.5,
120.0
] | nbody_system.length
particles.y = 0 | nbody_system.length
particles.z = 0 | nbody_system.length
particles.velocity = [
[2, 0, 0], [-2, 0, 0],
[2, 0, 0], [-2, 0, 0],
[2, 0, 0], [-2, 0, 0],
[-4, 0, 0]
] | nbody_system.speed
instance = SmallN()
instance.particles.add_particles(particles)
collisions = instance.stopping_conditions.collision_detection
collisions.enable()
instance.evolve_model(1.0 | nbody_system.time)
self.assertTrue(collisions.is_set())
self.assertTrue(instance.model_time < 0.5 | nbody_system.time)
self.assertEquals(len(collisions.particles(0)), 3)
self.assertEquals(len(collisions.particles(1)), 3)
self.assertEquals(len(particles - collisions.particles(0) - collisions.particles(1)), 1)
self.assertEquals(abs(collisions.particles(0).x - collisions.particles(1).x) <=
(collisions.particles(0).radius + collisions.particles(1).radius),
[True, True, True])
instance.stop()
def test4(self):
convert_nbody = nbody_system.nbody_to_si(5.0 | units.kg,
10.0 | units.m)
instance = SmallN(convert_nbody)
instance.initialize_code()
particles = datamodel.Particles(2)
self.assertEqual(len(instance.particles), 0)
particles.mass = [15.0, 30.0] | units.kg
particles.radius = [10.0, 20.0] | units.m
particles.position = [[10.0, 20.0, 30.0], [20.0, 40.0, 60.0]] | units.m
particles.velocity = [[0.0, 0.0, 0.0], [0.0, 0.0, 0.0]
] | units.m / units.s
instance.particles.add_particles(particles)
self.assertEqual(len(instance.particles), 2)
instance.particles.mass = [17.0, 33.0] | units.kg
self.assertEqual(instance.get_mass(1), 17.0 | units.kg)
self.assertEqual(instance.get_mass(2), 33.0 | units.kg)
instance.stop()
def test4(self):
convert_nbody = nbody_system.nbody_to_si(5.0 | units.kg, 10.0 | units.m)
instance = SmallN(convert_nbody)
instance.initialize_code()
particles = datamodel.Particles(2)
self.assertEquals(len(instance.particles), 0)
particles.mass = [15.0, 30.0] | units.kg
particles.radius = [10.0, 20.0] | units.m
particles.position = [[10.0, 20.0, 30.0], [20.0, 40.0, 60.0]] | units.m
particles.velocity = [[0.0, 0.0, 0.0], [0.0, 0.0, 0.0]] | units.m / units.s
instance.particles.add_particles(particles)
self.assertEquals(len(instance.particles), 2)
instance.particles.mass = [17.0, 33.0] | units.kg
self.assertEquals(instance.get_mass(1), 17.0| units.kg)
self.assertEquals(instance.get_mass(2), 33.0| units.kg)
instance.stop()
def run_smallN(particles,
end_time=1000 | nbody_system.time,
delta_t=10 | nbody_system.time,
accuracy_parameter=0.1):
gravity = SmallN(redirection="none") # , debugger="gdb")
gravity.initialize_code()
gravity.parameters.set_defaults()
gravity.parameters.timestep_parameter = accuracy_parameter
gravity.parameters.cm_index = 2001
gravity.commit_parameters()
time = 0 | nbody_system.time
print("\nadding particles to smallN")
sys.stdout.flush()
gravity.set_time(time)
gravity.particles.add_particles(particles)
print("committing particles to smallN")
gravity.commit_particles()
print("smallN: number_of_stars =", len(particles))
print("smallN: evolving to time =", end_time.number, end=' ')
print("in steps of", delta_t.number)
sys.stdout.flush()
E0 = print_log('smallN', gravity)
# Channel to copy values from the code to the set in memory.
channel = gravity.particles.new_channel_to(particles)
while time < end_time:
time += delta_t
print('evolving smallN to time', time.number)
sys.stdout.flush()
gravity.evolve_model(time)
print_log('smallN', gravity, E0)
over = gravity.is_over()
if over.number:
print('interaction is over\n')
sys.stdout.flush()
# Create a tree in the module representing the binary structure.
gravity.update_particle_tree()
# Return the tree structure to AMUSE. Children are
# identified by get_children_of_particle in interface.??,
# and the information is returned in the copy operation.
gravity.update_particle_set()
gravity.particles.synchronize_to(particles)
channel.copy()
channel.copy_attribute("index_in_code", "id")
gravity.stop()
# Basic diagnostics: BinaryTreesOnAParticleSet creates
# binary tree structure for all particles in the set; then
# we loop over roots (top-level nodes) and print data on
# all binaries below each.
print("smallN binaries:")
sys.stdout.flush()
x = trees.BinaryTreesOnAParticleSet(particles, "child1", "child2")
roots = list(x.iter_roots())
for r in roots:
for level, particle in r.iter_levels():
print(' ' * level, int(particle.id.number), end=' ')
if not particle.child1 is None:
M, a, e, r, E = get_cm_binary_elements(particle)
print(" mass = %.5e" % (M.number))
m1 = particle.child1.mass
m2 = particle.child2.mass
print_elements(' ', a, e, r, E * m1 * m2 / M)
else:
print('')
sys.stdout.flush()
return E0
sys.stdout.flush()
gravity.stop()
raise Exception("Did not finish the small-N simulation " +
"before end time {0}".format(end_time))
def new_smalln():
result = SmallN()
result.parameters.timestep_parameter = 0.1
#result.parameters.cm_index = 2001
return result
def init_smalln():
global SMALLN
SMALLN = SmallN()
def test16(self):
convert_nbody = nbody_system.nbody_to_si(1.0 | units.MSun,
149.5e6 | units.km)
smalln = SmallN(convert_nbody)
smalln.initialize_code()
smalln.dt_dia = 5000
stars = self.new_system_of_sun_and_earth()
moon = datamodel.Particle()
moon.mass = units.kg(7.3477e22)
moon.radius = units.km(1737.10)
moon.position = units.km(numpy.array((149.5e6 + 384.399, 0.0, 0.0)))
moon.velocity = units.ms(numpy.array((0.0, 29800 + 1022, 0.0)))
stars.add_particle(moon)
earth = stars[1]
smalln.particles.add_particles(stars)
smalln.evolve_model(365.0 | units.day)
smalln.update_particle_tree()
smalln.update_particle_set()
self.assertEqual(len(smalln.particles), 5)
self.assertEarthAndMoonWasDetectedAsBinary(smalln.particles, stars)
inmemory = smalln.particles.copy()
self.assertEarthAndMoonWasDetectedAsBinary(inmemory, stars)
test_results_path = self.get_path_to_results()
output_file = os.path.join(test_results_path, "newsmalln-test16.hdf5")
if os.path.exists(output_file):
os.remove(output_file)
io.write_set_to_file(smalln.particles, output_file, "hdf5")
fromfile = io.read_set_from_file(output_file, "hdf5")
self.assertEarthAndMoonWasDetectedAsBinary(fromfile, stars)
smalln.stop()
def test1(self):
convert_nbody = nbody_system.nbody_to_si(1.0 | units.MSun,
149.5e6 | units.km)
smalln = SmallN(convert_nbody)
smalln.initialize_code()
smalln.dt_dia = 5000
stars = self.new_system_of_sun_and_earth()
earth = stars[1]
smalln.particles.add_particles(stars)
smalln.evolve_model(365.0 | units.day)
smalln.particles.copy_values_of_all_attributes_to(stars)
position_at_start = earth.position.value_in(units.AU)[0]
position_after_full_rotation = earth.position.value_in(units.AU)[0]
self.assertAlmostEqual(position_at_start, position_after_full_rotation,
6)
smalln.evolve_model(365.0 + (365.0 / 2) | units.day)
smalln.particles.copy_values_of_all_attributes_to(stars)
position_after_half_a_rotation = earth.position.value_in(units.AU)[0]
self.assertAlmostEqual(-position_at_start,
position_after_half_a_rotation, 2)
smalln.evolve_model(365.0 + (365.0 / 2) + (365.0 / 4) | units.day)
smalln.particles.copy_values_of_all_attributes_to(stars)
position_after_half_a_rotation = earth.position.value_in(units.AU)[1]
self.assertAlmostEqual(-position_at_start,
position_after_half_a_rotation, 3)
smalln.cleanup_code()
smalln.stop()
assert is_mpd_running()
# Instantiate worker modules once only and pass them to scatter32
# as arguments.
# Kepler manages two-body dynamics.
kep = Kepler(redirection="none") #, debugger="gdb")
kep.initialize_code()
kep.set_random(random_seed) # ** Note potential conflict between C++
# ** and Python random generators.
# Gravity manages the N-body integration.
gravity = SmallN(redirection="none")
gravity.initialize_code()
gravity.parameters.set_defaults()
gravity.parameters.timestep_parameter = accuracy_parameter
gravity.parameters.unperturbed_threshold = gamma
# Treecheck determines the structure of the 3-body system.
# Treecheck = gravity is OK.
treecheck = SmallN(redirection="none")
treecheck.initialize_code()
treecheck.parameters.set_defaults()
treecheck.parameters.timestep_parameter = accuracy_parameter
treecheck.parameters.unperturbed_threshold = gamma
# Timing:
def new_smalln(self):
result = SmallN()
result.parameters.timestep_parameter = 0.1
result.parameters.cm_index = 50000
return result
def new_smalln():
code = SmallN()
code.initialize_code()
code.parameters.set_defaults()
return code
def run_collision(GravitatingBodies, end_time, delta_time, save_file, **kwargs):
# Define Additional User Options and Set Defaults Properly
converter = kwargs.get("converter", None)
doEncPatching = kwargs.get("doEncPatching", False)
doVerboseSaves = kwargs.get("doVerboseSaves", False)
if converter == None:
converter = nbody_system.nbody_to_si(GravitatingBodies.mass.sum(), 2 * np.max(GravitatingBodies.radius.number) | GravitatingBodies.radius.unit)
# Storing Initial Center of Mass Information for the Encounter
rCM_i = GravitatingBodies.center_of_mass()
vCM_i = GravitatingBodies.center_of_mass_velocity()
# Fixing Stored Encounter Particle Set to Feed into SmallN
GravitatingBodies = Particles(particles=GravitatingBodies)
if 'child1' in GravitatingBodies.get_attribute_names_defined_in_store():
del GravitatingBodies.child1, GravitatingBodies.child2
# Moving the Encounter's Center of Mass to the Origin and Setting it at Rest
GravitatingBodies.position -= rCM_i
GravitatingBodies.velocity -= vCM_i
# Setting Up Gravity Code
gravity = SmallN(redirection = 'none', convert_nbody = converter)
gravity.initialize_code()
gravity.parameters.set_defaults()
gravity.parameters.allow_full_unperturbed = 0
gravity.particles.add_particles(GravitatingBodies) # adds bodies to gravity calculations
gravity.commit_particles()
channel_from_grav_to_python = gravity.particles.new_channel_to(GravitatingBodies)
channel_from_grav_to_python.copy()
# Setting Coarse Timesteps
list_of_times = np.arange(0. | units.yr, end_time, delta_time)
stepNumber = 0
# Integrate the Encounter Until Over ...
for current_time in list_of_times:
# Evolve the Model to the Desired Current Time
gravity.evolve_model(current_time)
# Update Python Set in In-Code Set
channel_from_grav_to_python.copy() # original
channel_from_grav_to_python.copy_attribute("index_in_code", "id")
# Handle Writing Output of Integration
if doVerboseSaves:
# Write a Save Every Coarse Timestep
write_set_to_file(GravitatingBodies.savepoint(current_time), save_file, 'hdf5')
else:
# Write a Save at the Begninning, Middle & End Times
if stepNumber==0 or stepNumber==len(list_of_times) or stepNumber==len(list_of_times)/2:
# Write Set to File
write_set_to_file(GravitatingBodies.savepoint(current_time), save_file, 'hdf5')
# Check to See if the Encounter is Declared "Over" Every 50 Timesteps
if stepNumber%50:
over = gravity.is_over()
if over:
gravity.update_particle_tree()
gravity.update_particle_set()
gravity.particles.synchronize_to(GravitatingBodies)
channel_from_grav_to_python.copy()
print "Encounter has finished at Step #", stepNumber
break
else:
print "Encounter has NOT finished at Step #", stepNumber
stepNumber +=1
# Stop the Gravity Code Once the Encounter Finishes
gravity.stop()
# Seperate out the Systems to Prepare for Encounter Patching
if doEncPatching:
ResultingPSystems = stellar_systems.get_planetary_systems_from_set(GravitatingBodies, converter=converter, RelativePosition=True)
else:
ResultingPSystems = stellar_systems.get_planetary_systems_from_set(GravitatingBodies, converter=converter, RelativePosition=False)
return ResultingPSystems
def init_smalln(converter):
global SMALLN
SMALLN = SmallN(convert_nbody=converter)
def test2(self):
convert_nbody = nbody_system.nbody_to_si(1.0 | units.MSun,
149.5e6 | units.km)
instance = SmallN(convert_nbody)
instance.initialize_code()
instance.dt_dia = 5000
stars = self.new_system_of_sun_and_earth()
earth = stars[1]
instance.particles.add_particles(stars)
for x in range(1, 2000, 10):
instance.evolve_model(x | units.day)
instance.particles.copy_values_of_all_attributes_to(stars)
stars.savepoint()
if HAS_MATPLOTLIB:
figure = pyplot.figure()
plot = figure.add_subplot(1, 1, 1)
x_points = earth.get_timeline_of_attribute("x")
y_points = earth.get_timeline_of_attribute("y")
x_points_in_AU = [t_x[1].value_in(units.AU) for t_x in x_points]
y_points_in_AU = [t_x1[1].value_in(units.AU) for t_x1 in y_points]
plot.scatter(x_points_in_AU, y_points_in_AU, color="b", marker='o')
plot.set_xlim(-1.5, 1.5)
plot.set_ylim(-1.5, 1.5)
test_results_path = self.get_path_to_results()
output_file = os.path.join(test_results_path,
"smalln-earth-sun2.svg")
figure.savefig(output_file)
instance.cleanup_code()
instance.stop()
def test1(self):
convert_nbody = nbody_system.nbody_to_si(1.0 | units.MSun, 149.5e6 | units.km)
smalln = SmallN(convert_nbody)
smalln.initialize_code()
smalln.dt_dia = 5000
stars = self.new_system_of_sun_and_earth()
earth = stars[1]
smalln.particles.add_particles(stars)
smalln.evolve_model(365.0 | units.day)
smalln.particles.copy_values_of_all_attributes_to(stars)
position_at_start = earth.position.value_in(units.AU)[0]
position_after_full_rotation = earth.position.value_in(units.AU)[0]
self.assertAlmostEqual(position_at_start, position_after_full_rotation, 6)
smalln.evolve_model(365.0 + (365.0 / 2) | units.day)
smalln.particles.copy_values_of_all_attributes_to(stars)
position_after_half_a_rotation = earth.position.value_in(units.AU)[0]
self.assertAlmostEqual(-position_at_start, position_after_half_a_rotation, 2)
smalln.evolve_model(365.0 + (365.0 / 2) + (365.0 / 4) | units.day)
smalln.particles.copy_values_of_all_attributes_to(stars)
position_after_half_a_rotation = earth.position.value_in(units.AU)[1]
self.assertAlmostEqual(-position_at_start, position_after_half_a_rotation, 3)
smalln.cleanup_code()
smalln.stop()
def run_smallN(
particles,
end_time = 1000 | nbody_system.time,
delta_t = 10 | nbody_system.time,
accuracy_parameter = 0.1
):
gravity = SmallN(redirection = "none") # , debugger="gdb")
gravity.initialize_code()
gravity.parameters.set_defaults()
gravity.parameters.timestep_parameter = accuracy_parameter
gravity.parameters.cm_index = 2001
gravity.commit_parameters()
time = 0 | nbody_system.time
print "\nadding particles to smallN"
sys.stdout.flush()
gravity.set_time(time);
gravity.particles.add_particles(particles)
print "committing particles to smallN"
gravity.commit_particles()
print "smallN: number_of_stars =", len(particles)
print "smallN: evolving to time =", end_time.number,
print "in steps of", delta_t.number
sys.stdout.flush()
E0 = print_log('smallN', gravity)
# Channel to copy values from the code to the set in memory.
channel = gravity.particles.new_channel_to(particles)
while time < end_time:
time += delta_t
print 'evolving smallN to time', time.number
sys.stdout.flush()
gravity.evolve_model(time)
print_log('smallN', gravity, E0)
over = gravity.is_over()
if over.number:
print 'interaction is over\n'; sys.stdout.flush()
# Create a tree in the module representing the binary structure.
gravity.update_particle_tree()
# Return the tree structure to AMUSE. Children are
# identified by get_children_of_particle in interface.??,
# and the information is returned in the copy operation.
gravity.update_particle_set()
gravity.particles.synchronize_to(particles)
channel.copy()
channel.copy_attribute("index_in_code", "id")
gravity.stop()
# Basic diagnostics: BinaryTreesOnAParticleSet creates
# binary tree structure for all particles in the set; then
# we loop over roots (top-level nodes) and print data on
# all binaries below each.
print "smallN binaries:"; sys.stdout.flush()
x = trees.BinaryTreesOnAParticleSet(particles, "child1", "child2")
roots = list(x.iter_roots())
for r in roots:
for level, particle in r.iter_levels():
print ' '*level, int(particle.id.number),
if not particle.child1 is None:
M,a,e,r,E = get_cm_binary_elements(particle)
print " mass = %.5e" % (M.number)
m1 = particle.child1.mass
m2 = particle.child2.mass
print_elements(' ', a, e, r, E*m1*m2/M)
else:
print ''
sys.stdout.flush()
return E0
sys.stdout.flush()
gravity.stop()
raise Exception("Did not finish the small-N simulation "
+"before end time {0}".format(end_time))
def init_smalln():
global SMALLN
SMALLN = SmallN(redirection="none")
SMALLN.parameters.timestep_parameter = 0.05
def evolve_triple_with_wind(M1, M2, M3, Pora, Pin_0, ain_0, aout_0,
ein_0, eout_0, t_end, nsteps, scheme, integrator,
t_stellar, dt_se, dtse_fac, interp):
import random
from amuse.ext.solarsystem import get_position
numpy.random.seed(42)
print("Initial masses:", M1, M2, M3)
triple = Particles(3)
triple[0].mass = M1
triple[1].mass = M2
triple[2].mass = M3
stellar = SeBa()
stellar.particles.add_particles(triple)
channel_from_stellar = stellar.particles.new_channel_to(triple)
# Evolve to t_stellar.
stellar.evolve_model(t_stellar)
channel_from_stellar.copy_attributes(["mass"])
M1 = triple[0].mass
M2 = triple[1].mass
M3 = triple[2].mass
print("t=", stellar.model_time.in_(units.Myr))
print("M=", stellar.particles.mass.in_(units.MSun))
print("R=", stellar.particles.radius.in_(units.RSun))
print("L=", stellar.particles.luminosity.in_(units.LSun))
print("T=", stellar.particles.temperature.in_(units.K))
print("Mdot=", \
-stellar.particles.wind_mass_loss_rate.in_(units.MSun/units.yr))
# Start the dynamics.
# Inner binary:
tmp_stars = Particles(2)
tmp_stars[0].mass = M1
tmp_stars[1].mass = M2
if Pora == 1:
ain_0 = semimajor_axis(Pin_0, M1+M2)
else:
Pin_0 = orbital_period(ain_0, M1+M2)
print('Pin =', Pin_0)
print('ain_0 =', ain_0)
print('M1+M2 =', M1+M2)
print('Pin_0 =', Pin_0.value_in(units.day), '[day]')
#print 'semi:', semimajor_axis(Pin_0, M1+M2).value_in(units.AU), 'AU'
#print 'period:', orbital_period(ain_0, M1+M2).value_in(units.day), '[day]'
dt_init = 0.01*Pin_0
ma = 180
inc = 60
aop = 180
lon = 0
r,v = get_position(M1, M2, ein_0, ain_0, ma, inc, aop, lon, dt_init)
tmp_stars[1].position = r
tmp_stars[1].velocity = v
tmp_stars.move_to_center()
# Outer binary:
r,v = get_position(M1+M2, M3, eout_0, aout_0, 0, 0, 0, 0, dt_init)
tertiary = Particle()
tertiary.mass = M3
tertiary.position = r
tertiary.velocity = v
tmp_stars.add_particle(tertiary)
tmp_stars.move_to_center()
triple.position = tmp_stars.position
triple.velocity = tmp_stars.velocity
Mtriple = triple.mass.sum()
Pout = orbital_period(aout_0, Mtriple)
print("T=", stellar.model_time.in_(units.Myr))
print("M=", stellar.particles.mass.in_(units.MSun))
print("Pout=", Pout.in_(units.Myr))
print('tK =', ((M1+M2)/M3)*Pout**2*(1-eout_0**2)**1.5/Pin_0)
converter = nbody_system.nbody_to_si(triple.mass.sum(), aout_0)
if integrator == 0:
gravity = Hermite(converter)
gravity.parameters.timestep_parameter = 0.01
elif integrator == 1:
gravity = SmallN(converter)
gravity.parameters.timestep_parameter = 0.01
gravity.parameters.full_unperturbed = 0
elif integrator == 2:
gravity = Huayno(converter)
gravity.parameters.inttype_parameter = 20
gravity.parameters.timestep = (1./256)*Pin_0
else:
gravity = symple(converter)
gravity.parameters.integrator = 10
#gravity.parameters.timestep_parameter = 0.
gravity.parameters.timestep = (1./128)*Pin_0
print(gravity.parameters)
gravity.particles.add_particles(triple)
channel_from_framework_to_gd = triple.new_channel_to(gravity.particles)
channel_from_gd_to_framework = gravity.particles.new_channel_to(triple)
Etot_init = gravity.kinetic_energy + gravity.potential_energy
Etot_prev = Etot_init
gravity.particles.move_to_center()
# Note: time = t_diag = 0 at the start of the dynamical integration.
dt_diag = t_end/float(nsteps)
t_diag = dt_diag
time = 0.0 | t_end.unit
t_se = t_stellar + time
print('t_end =', t_end)
print('dt_diag =', dt_diag)
ain, ein, aout, eout = get_orbital_elements_of_triple(triple)
print("Triple elements t=", time, \
"inner:", triple[0].mass, triple[1].mass, ain, ein, \
"outer:", triple[2].mass, aout, eout)
t = [time.value_in(units.Myr)]
Mtot = triple.mass.sum()
mtot = [Mtot.value_in(units.MSun)]
smai = [ain/ain_0]
ecci = [ein/ein_0]
smao = [aout/aout_0]
ecco = [eout/eout_0]
if interp:
# Create arrays of stellar times and masses for interpolation.
times = [time]
masses = [triple.mass.copy()]
while time < t_end:
time += dt_se
stellar.evolve_model(t_stellar+time)
channel_from_stellar.copy_attributes(["mass"])
times.append(time)
masses.append(triple.mass.copy())
time = 0.0 | t_end.unit
print('\ntimes:', times, '\n')
# Evolve the system.
def advance_stellar(t_se, dt):
E0 = gravity.kinetic_energy + gravity.potential_energy
t_se += dt
if interp:
t = t_se-t_stellar
i = int(t/dt_se)
mass = masses[i] + (t-times[i])*(masses[i+1]-masses[i])/dt_se
triple.mass = mass
#print 't_se =', t_se, 'masses =', mass
else:
stellar.evolve_model(t_se)
channel_from_stellar.copy_attributes(["mass"])
channel_from_framework_to_gd.copy_attributes(["mass"])
return t_se, gravity.kinetic_energy + gravity.potential_energy - E0
def advance_gravity(tg, dt):
tg += dt
gravity.evolve_model(tg)
channel_from_gd_to_framework.copy()
return tg
while time < t_end:
if scheme == 1:
# Advance to the next diagnostic time.
dE_se = zero
dt = t_diag - time
if dt > 0|dt.unit:
time = advance_gravity(time, dt)
elif scheme == 2:
# Derive dt from Pin using dtse_fac.
dt = dtse_fac*Pin_0
if time + dt > t_diag: dt = t_diag - time
if dt > 0|dt.unit:
t_se, dE_se = advance_stellar(t_se, dt)
time = advance_gravity(time, dt)
elif scheme == 3:
# Derive dt from Pin using dtse_fac.
dt = dtse_fac*Pin_0
if time + dt > t_diag: dt = t_diag - time
if dt > 0|dt.unit:
time = advance_gravity(time, dt)
t_se, dE_se = advance_stellar(t_se, dt)
elif scheme == 4:
# Derive dt from Pin using dtse_fac.
dt = dtse_fac*Pin_0
if time + dt > t_diag: dt = t_diag - time
if dt > 0|dt.unit:
t_se, dE_se = advance_stellar(t_se, 0.5*dt)
time = advance_gravity(time, dt)
t_se, dE_se2 = advance_stellar(t_se, 0.5*dt)
dE_se += dE_se2
elif scheme == 5:
# Use the specified dt_se.
dE_se = zero
dt = dt_se
if time + dt > t_diag: dt = t_diag - time
if dt > 0|dt.unit:
# For use with symple only: set up average mass loss.
channel_from_stellar.copy_attributes(["mass"])
m0 = triple.mass.copy()
stellar.evolve_model(t_se+dt)
channel_from_stellar.copy_attributes(["mass"])
t_se = stellar.model_time
m1 = triple.mass
dmdt = (m1-m0)/dt
for i in range(len(dmdt)):
gravity.set_dmdt(i, dmdt[i])
time = advance_gravity(time, dt)
else:
print('unknown option')
sys.exit(0)
if time >= t_diag:
t_diag = time + dt_diag
Ekin = gravity.kinetic_energy
Epot = gravity.potential_energy
Etot = Ekin + Epot
dE = Etot_prev - Etot
Mtot = triple.mass.sum()
print("T=", time, end=' ')
print("M=", Mtot, "(dM[SE]=", Mtot/Mtriple, ")", end=' ')
print("E= ", Etot, "Q= ", Ekin/Epot, end=' ')
print("dE=", (Etot_init-Etot)/Etot, "ddE=", (Etot_prev-Etot)/Etot, end=' ')
print("(dE[SE]=", dE_se/Etot, ")")
Etot_init -= dE
Etot_prev = Etot
ain, ein, aout, eout = get_orbital_elements_of_triple(triple)
print("Triple elements t=", t_stellar + time, \
"inner:", triple[0].mass, triple[1].mass, ain, ein, \
"outer:", triple[2].mass, aout, eout)
t.append(time.value_in(units.yr))
mtot.append(Mtot.value_in(units.MSun))
smai.append(ain/ain_0)
ecci.append(ein/ein_0)
smao.append(aout/aout_0)
ecco.append(eout/eout_0)
if eout > 1 or aout <= zero:
print("Binary ionized or merged")
break
gravity.stop()
stellar.stop()
return t, mtot, smai, ecci, smao, ecco
def get_smalln(converter):
instance = SmallN(converter)
instance.initialize_code()
instance.parameters.set_defaults()
return instance
else:
print "unexpected argument", o
if random_seed <= 0:
numpy.random.seed()
random_seed = numpy.random.randint(1, pow(2, 31) - 1)
numpy.random.seed(random_seed)
print "random seed =", random_seed, numpy.random.random()
#-----------------------------------------------------------------
assert is_mpd_running()
# Instantiate workers once only and pass to scatter3 as arguments.
gravity = SmallN(redirection="none")
#gravity = SmallN(redirection = "none", debugger="valgrind") # search for
# memory leaks
gravity.initialize_code()
gravity.parameters.set_defaults()
gravity.parameters.timestep_parameter = accuracy_parameter
gravity.parameters.unperturbed_threshold = gamma
kep = Kepler(redirection="none") #, debugger="gdb")
kep.initialize_code()
kep.set_random(random_seed) # ** Note potential conflict between C++
# ** and Python random generators.
# Timing:
cpu = numpy.zeros(4)
def init_smalln():
global SMALLN
#SMALLN = SmallN(redirection="none", debugger="xterm")
SMALLN = SmallN(redirection="none")
SMALLN.parameters.timestep_parameter = 0.1
assert is_mpd_running()
# Instantiate worker modules once only and pass them to scatter32
# as arguments.
# Kepler manages two-body dynamics.
kep = Kepler(redirection = "none") #, debugger="gdb")
kep.initialize_code()
kep.set_random(random_seed) # ** Note potential conflict between C++
# ** and Python random generators.
# Gravity manages the N-body integration.
gravity = SmallN(redirection = "none")
gravity.initialize_code()
gravity.parameters.set_defaults()
gravity.parameters.timestep_parameter = accuracy_parameter
gravity.parameters.unperturbed_threshold = gamma
# Treecheck determines the structure of the 3-body system.
# Treecheck = gravity is OK.
treecheck = SmallN(redirection = "none")
treecheck.initialize_code()
treecheck.parameters.set_defaults()
treecheck.parameters.timestep_parameter = accuracy_parameter
treecheck.parameters.unperturbed_threshold = gamma
# Timing:
else:
print "unexpected argument", o
if random_seed <= 0:
numpy.random.seed()
random_seed = numpy.random.randint(1, pow(2,31)-1)
numpy.random.seed(random_seed)
print "random seed =", random_seed, numpy.random.random()
#-----------------------------------------------------------------
assert is_mpd_running()
# Instantiate workers once only and pass to scatter3 as arguments.
gravity = SmallN(redirection = "none")
#gravity = SmallN(redirection = "none", debugger="valgrind") # search for
# memory leaks
gravity.initialize_code()
gravity.parameters.set_defaults()
gravity.parameters.timestep_parameter = accuracy_parameter
gravity.parameters.unperturbed_threshold = gamma
kep = Kepler(redirection = "none") #, debugger="gdb")
kep.initialize_code()
kep.set_random(random_seed) # ** Note potential conflict between C++
# ** and Python random generators.
# Timing:
cpu = numpy.zeros(4)
