def test_topn(self):
self.check_skip()
L = 21
dims = (L, L + 2) # avoid square images in tests
cols = ['x', 'y']
PRECISION = 0.1
# top 2
pos1 = np.array([7, 7])
pos2 = np.array([14, 14])
pos3 = np.array([7, 14])
image = np.ones(dims, dtype='uint8')
draw_point(image, pos1, 100)
draw_point(image, pos2, 90)
draw_point(image, pos3, 80)
actual = tp.locate(image, 5, 1, topn=2, preprocess=False,
engine=self.engine)[cols]
actual = actual.sort(['x', 'y']) # sort for reliable comparison
expected = DataFrame([pos1, pos2], columns=cols).sort(['x', 'y'])
assert_allclose(actual, expected, atol=PRECISION)
# top 1
actual = tp.locate(image, 5, 1, topn=1, preprocess=False,
engine=self.engine)[cols]
actual = actual.sort(['x', 'y']) # sort for reliable comparison
expected = DataFrame([pos1], columns=cols).sort(['x', 'y'])
assert_allclose(actual, expected, atol=PRECISION)
def test_compute_lima_on_off_image():
"""
Test Li & Ma image with snippet from the H.E.S.S. survey data.
"""
filename = "$GAMMAPY_DATA/tests/unbundled/hess/survey/hess_survey_snippet.fits.gz"
n_on = Map.read(filename, hdu="ON")
n_off = Map.read(filename, hdu="OFF")
a_on = Map.read(filename, hdu="ONEXPOSURE")
a_off = Map.read(filename, hdu="OFFEXPOSURE")
significance = Map.read(filename, hdu="SIGNIFICANCE")
kernel = Tophat2DKernel(5)
results = compute_lima_on_off_image(n_on, n_off, a_on, a_off, kernel)
# Reproduce safe significance threshold from HESS software
results["significance"].data[results["n_on"].data < 5] = 0
# crop the image at the boundaries, because the reference image
# is cut out from a large map, there is no way to reproduce the
# result with regular boundary handling
actual = results["significance"].crop(kernel.shape).data
desired = significance.crop(kernel.shape).data
# Set boundary to NaN in reference image
assert_allclose(actual, desired, atol=1e-5)
def test_add_source_space_distances_limited():
"""Test adding distances to source space with a dist_limit."""
tempdir = _TempDir()
src = read_source_spaces(fname)
src_new = read_source_spaces(fname)
del src_new[0]['dist']
del src_new[1]['dist']
n_do = 200 # limit this for speed
src_new[0]['vertno'] = src_new[0]['vertno'][:n_do].copy()
src_new[1]['vertno'] = src_new[1]['vertno'][:n_do].copy()
out_name = op.join(tempdir, 'temp-src.fif')
try:
add_source_space_distances(src_new, dist_limit=0.007)
except RuntimeError: # what we throw when scipy version is wrong
raise SkipTest('dist_limit requires scipy > 0.13')
write_source_spaces(out_name, src_new)
src_new = read_source_spaces(out_name)
for so, sn in zip(src, src_new):
assert_array_equal(so['dist_limit'], np.array([-0.007], np.float32))
assert_array_equal(sn['dist_limit'], np.array([0.007], np.float32))
do = so['dist']
dn = sn['dist']
# clean out distances > 0.007 in C code
do.data[do.data > 0.007] = 0
do.eliminate_zeros()
# make sure we have some comparable distances
assert np.sum(do.data < 0.007) > 400
# do comparison over the region computed
d = (do - dn)[:sn['vertno'][n_do - 1]][:, :sn['vertno'][n_do - 1]]
assert_allclose(np.zeros_like(d.data), d.data, rtol=0, atol=1e-6)
def test_distmod():
d = Distance(10, u.pc)
assert d.distmod.value == 0
d = Distance(distmod=20)
assert d.distmod.value == 20
assert d.kpc == 100
d = Distance(distmod=-1., unit=u.au)
npt.assert_allclose(d.value, 1301442.9440836983)
with pytest.raises(ValueError):
d = Distance(value=d, distmod=20)
with pytest.raises(ValueError):
d = Distance(z=.23, distmod=20)
# check the Mpc/kpc/pc behavior
assert Distance(distmod=1).unit == u.pc
assert Distance(distmod=11).unit == u.kpc
assert Distance(distmod=26).unit == u.Mpc
assert Distance(distmod=-21).unit == u.AU
# if an array, uses the mean of the log of the distances
assert Distance(distmod=[1, 11, 26]).unit == u.kpc
def test_dimensionless_operations(self):
# test conversion to dimensionless
dq = 3. * u.m / u.km
dq1 = dq + 1. * u.mm / u.km
assert dq1.value == 3.001
assert dq1.unit == dq.unit
dq2 = dq + 1.
assert dq2.value == 1.003
assert dq2.unit == u.dimensionless_unscaled
# this test will check that operations with dimensionless Quantities
# don't work
with pytest.raises(u.UnitsError):
self.q1 + u.Quantity(0.1, unit=u.Unit(""))
with pytest.raises(u.UnitsError):
self.q1 - u.Quantity(0.1, unit=u.Unit(""))
# and test that scaling of integers works
q = u.Quantity(np.array([1, 2, 3]), u.m / u.km, dtype=int)
q2 = q + np.array([4, 5, 6])
assert q2.unit == u.dimensionless_unscaled
assert_allclose(q2.value, np.array([4.001, 5.002, 6.003]))
# but not if doing it inplace
with pytest.raises(TypeError):
q += np.array([1, 2, 3])
# except if it is actually possible
q = np.array([1, 2, 3]) * u.km / u.m
q += np.array([4, 5, 6])
assert q.unit == u.dimensionless_unscaled
assert np.all(q.value == np.array([1004, 2005, 3006]))
def test_reindl(irrad_data, ephem_data, dni_et):
result = irradiance.reindl(40, 180, irrad_data['dhi'], irrad_data['dni'],
irrad_data['ghi'], dni_et,
ephem_data['apparent_zenith'],
ephem_data['azimuth'])
# values from matlab 1.4 code
assert_allclose(result, [np.nan, 27.9412, 104.1317, 34.1663], atol=1e-4)
def test_function(self):
val = np.random.random((4, 2))
input_val = np.random.random((4, 2))
xth = KTH.variable(val)
xtf = KTF.variable(val)
yth = KTH.placeholder(ndim=2)
ytf = KTF.placeholder(ndim=2)
exp_th = KTH.square(xth) + yth
exp_tf = KTF.square(xtf) + ytf
update_th = xth * 2
update_tf = xtf * 2
fth = KTH.function([yth], [exp_th], updates=[(xth, update_th)])
ftf = KTF.function([ytf], [exp_tf], updates=[(xtf, update_tf)])
function_outputs_th = fth([input_val])[0]
function_outputs_tf = ftf([input_val])[0]
assert function_outputs_th.shape == function_outputs_tf.shape
assert_allclose(function_outputs_th, function_outputs_tf, atol=1e-05)
new_val_th = KTH.get_value(xth)
new_val_tf = KTF.get_value(xtf)
assert new_val_th.shape == new_val_tf.shape
assert_allclose(new_val_th, new_val_tf, atol=1e-05)
def test_c_warp_gray():
target_transform = AffineTransform.identity(2).from_vector(initial_params)
warped_im = gray_image.warp_to(template_mask, target_transform,
interpolator='c')
assert(warped_im.shape == gray_template.shape)
assert_allclose(warped_im.pixels, gray_template.pixels)
def test_haydavies(irrad_data, ephem_data, dni_et):
result = irradiance.haydavies(40, 180, irrad_data['dhi'], irrad_data['dni'],
dni_et,
ephem_data['apparent_zenith'],
ephem_data['azimuth'])
# values from matlab 1.4 code
assert_allclose(result, [0, 27.1775, 102.9949, 33.1909], atol=1e-4)
def test_sequential_model_saving():
model = Sequential()
model.add(Dense(2, input_shape=(3,)))
model.add(RepeatVector(3))
model.add(TimeDistributed(Dense(3)))
model.compile(loss=losses.MSE,
optimizer=optimizers.RMSprop(lr=0.0001),
metrics=[metrics.categorical_accuracy],
sample_weight_mode='temporal')
x = np.random.random((1, 3))
y = np.random.random((1, 3, 3))
model.train_on_batch(x, y)
out = model.predict(x)
_, fname = tempfile.mkstemp('.h5')
save_model(model, fname)
new_model = load_model(fname)
os.remove(fname)
out2 = new_model.predict(x)
assert_allclose(out, out2, atol=1e-05)
# test that new updates are the same with both models
x = np.random.random((1, 3))
y = np.random.random((1, 3, 3))
model.train_on_batch(x, y)
new_model.train_on_batch(x, y)
out = model.predict(x)
out2 = new_model.predict(x)
assert_allclose(out, out2, atol=1e-05)
def test_maskandscale():
t = np.linspace(20, 30, 15)
t[3] = 100
tm = np.ma.masked_greater(t, 99)
fname = pjoin(TEST_DATA_PATH, 'example_2.nc')
with netcdf_file(fname, maskandscale=True) as f:
Temp = f.variables['Temperature']
assert_equal(Temp.missing_value, 9999)
assert_equal(Temp.add_offset, 20)
assert_equal(Temp.scale_factor, np.float32(0.01))
found = Temp[:].compressed()
del Temp # Remove ref to mmap, so file can be closed.
expected = np.round(tm.compressed(), 2)
assert_allclose(found, expected)
with in_tempdir():
newfname = 'ms.nc'
f = netcdf_file(newfname, 'w', maskandscale=True)
f.createDimension('Temperature', len(tm))
temp = f.createVariable('Temperature', 'i', ('Temperature',))
temp.missing_value = 9999
temp.scale_factor = 0.01
temp.add_offset = 20
temp[:] = tm
f.close()
with netcdf_file(newfname, maskandscale=True) as f:
Temp = f.variables['Temperature']
assert_equal(Temp.missing_value, 9999)
assert_equal(Temp.add_offset, 20)
assert_equal(Temp.scale_factor, np.float32(0.01))
expected = np.round(tm.compressed(), 2)
found = Temp[:].compressed()
del Temp
assert_allclose(found, expected)
def test_measure_curve_of_growth():
"""Test measure_curve_of_growth function"""
image = generate_gaussian_image()
radius, containment = measure_curve_of_growth(image, 0, 0, 0.6, 0.05)
sigma = 0.2
containment_ana = 1 - np.exp(-0.5 * (radius / sigma) ** 2)
assert_allclose(containment, containment_ana, rtol=0.1)
def test_saving_multiple_metrics_outputs():
inputs = Input(shape=(5,))
x = Dense(5)(inputs)
output1 = Dense(1, name='output1')(x)
output2 = Dense(1, name='output2')(x)
model = Model(inputs=inputs, outputs=[output1, output2])
metrics = {'output1': ['mse', 'binary_accuracy'],
'output2': ['mse', 'binary_accuracy']
}
loss = {'output1': 'mse', 'output2': 'mse'}
model.compile(loss=loss, optimizer='sgd', metrics=metrics)
# assure that model is working
x = np.array([[1, 1, 1, 1, 1]])
out = model.predict(x)
_, fname = tempfile.mkstemp('.h5')
save_model(model, fname)
model = load_model(fname)
os.remove(fname)
out2 = model.predict(x)
assert_allclose(out, out2, atol=1e-05)
def test_fuzz(self):
# try a bunch of crazy inputs
rfuncs = (
np.random.uniform,
np.random.normal,
np.random.standard_cauchy,
np.random.exponential)
ntests = 100
for i in range(ntests):
rfunc = random.choice(rfuncs)
target_norm_1 = random.expovariate(1.0)
n = random.randrange(2, 16)
A_original = rfunc(size=(n,n))
E_original = rfunc(size=(n,n))
A_original_norm_1 = scipy.linalg.norm(A_original, 1)
scale = target_norm_1 / A_original_norm_1
A = scale * A_original
E = scale * E_original
M = np.vstack([
np.hstack([A, E]),
np.hstack([np.zeros_like(A), A])])
expected_expm = scipy.linalg.expm(A)
expected_frechet = scipy.linalg.expm(M)[:n, n:]
observed_expm, observed_frechet = expm_frechet(A, E)
assert_allclose(expected_expm, observed_expm)
assert_allclose(expected_frechet, observed_frechet)
def test_small_norm_expm_frechet(self):
# methodically test matrices with a range of norms, for better coverage
M_original = np.array([
[1, 2, 3, 4],
[5, 6, 7, 8],
[0, 0, 1, 2],
[0, 0, 5, 6],
], dtype=float)
A_original = np.array([
[1, 2],
[5, 6],
], dtype=float)
E_original = np.array([
[3, 4],
[7, 8],
], dtype=float)
A_original_norm_1 = scipy.linalg.norm(A_original, 1)
selected_m_list = [1, 3, 5, 7, 9, 11, 13, 15]
m_neighbor_pairs = zip(selected_m_list[:-1], selected_m_list[1:])
for ma, mb in m_neighbor_pairs:
ell_a = scipy.linalg._expm_frechet.ell_table_61[ma]
ell_b = scipy.linalg._expm_frechet.ell_table_61[mb]
target_norm_1 = 0.5 * (ell_a + ell_b)
scale = target_norm_1 / A_original_norm_1
M = scale * M_original
A = scale * A_original
E = scale * E_original
expected_expm = scipy.linalg.expm(A)
expected_frechet = scipy.linalg.expm(M)[:2, 2:]
observed_expm, observed_frechet = expm_frechet(A, E)
assert_allclose(expected_expm, observed_expm)
assert_allclose(expected_frechet, observed_frechet)
def test_briggs_helper_function(self):
np.random.seed(1234)
for a in np.random.randn(10) + 1j * np.random.randn(10):
for k in range(5):
x_observed = _matfuncs_inv_ssq._briggs_helper_function(a, k)
x_expected = a ** np.exp2(-k) - 1
assert_allclose(x_observed, x_expected)
def test_add_patch_info():
"""Test adding patch info to source space."""
# let's setup a small source space
src = read_source_spaces(fname_small)
src_new = read_source_spaces(fname_small)
for s in src_new:
s['nearest'] = None
s['nearest_dist'] = None
s['pinfo'] = None
# test that no patch info is added for small dist_limit
try:
add_source_space_distances(src_new, dist_limit=0.00001)
except RuntimeError: # what we throw when scipy version is wrong
pass
else:
assert all(s['nearest'] is None for s in src_new)
assert all(s['nearest_dist'] is None for s in src_new)
assert all(s['pinfo'] is None for s in src_new)
# now let's use one that works
add_source_space_distances(src_new)
for s1, s2 in zip(src, src_new):
assert_array_equal(s1['nearest'], s2['nearest'])
assert_allclose(s1['nearest_dist'], s2['nearest_dist'], atol=1e-7)
assert_equal(len(s1['pinfo']), len(s2['pinfo']))
for p1, p2 in zip(s1['pinfo'], s2['pinfo']):
assert_array_equal(p1, p2)
def test_sequential_update_disabling():
val_a = np.random.random((10, 4))
val_out = np.random.random((10, 4))
model = keras.models.Sequential()
model.add(keras.layers.BatchNormalization(input_shape=(4,)))
model.trainable = False
assert not model.updates
model.compile('sgd', 'mse')
assert not model.updates
x1 = model.predict(val_a)
model.train_on_batch(val_a, val_out)
x2 = model.predict(val_a)
assert_allclose(x1, x2, atol=1e-7)
model.trainable = True
model.compile('sgd', 'mse')
assert model.updates
model.train_on_batch(val_a, val_out)
x2 = model.predict(val_a)
assert np.abs(np.sum(x1 - x2)) > 1e-5
def test_ODP_data():
dat_calc = [ODP_data[i].sum() for i in ['ODP2 Max', 'ODP2 Min', 'ODP1 Max', 'ODP1 Min', 'ODP2 Design', 'ODP1 Design', 'Lifetime']]
dat = [77.641999999999996, 58.521999999999998, 64.140000000000001, 42.734000000000002, 63.10509761272651, 47.809027930358717, 2268.1700000000001]
assert_allclose(dat_calc, dat)
assert ODP_data.index.is_unique
def check_kurt_expect(distfn, arg, m, v, k, msg):
if np.isfinite(k):
m4e = distfn.expect(lambda x: np.power(x-m, 4), arg)
npt.assert_allclose(m4e, (k + 3.) * np.power(v, 2), atol=1e-5, rtol=1e-5,
err_msg=msg + ' - kurtosis')
else:
npt.assert_(np.isnan(k))
def test_image(self, operation):
image_1 = utils.block_reduce_hdu(self.image, (2, 4), func=operation)
if operation == np.sum:
ref1 = [[8, 8, 8, 8, 8, 8], [8, 8, 8, 8, 8, 8]]
if operation == np.mean:
ref1 = [[1, 1, 1, 1, 1, 1], [1, 1, 1, 1, 1, 1]]
assert_allclose(image_1.data, ref1)
def test_ref_pixel():
image = utils.make_empty_image(101, 101, proj='CAR')
footprint = WCS(image.header).calc_footprint(center=False)
image_1 = utils.block_reduce_hdu(image, (10, 10), func=np.sum)
footprint_1 = WCS(image_1.header).calc_footprint(center=False)
# Lower left corner shouldn't change
assert_allclose(footprint[0], footprint_1[0])
def assert_image_equal(actual, expected):
if np.issubdtype(actual.dtype, np.integer):
assert_equal(actual, expected)
else:
if np.issubdtype(expected.dtype, np.integer):
expected = expected/float(np.iinfo(expected.dtype).max)
assert_allclose(actual, expected, atol=1/256.)
def test_breakdown_underdetermined(self):
# Should find LSQ solution in the Krylov span in one inner
# iteration, despite solver breakdown from nilpotent A.
A = np.array([[0, 1, 1, 1],
[0, 0, 1, 1],
[0, 0, 0, 1],
[0, 0, 0, 0]], dtype=float)
bs = [
np.array([1, 1, 1, 1]),
np.array([1, 1, 1, 0]),
np.array([1, 1, 0, 0]),
np.array([1, 0, 0, 0]),
]
for b in bs:
xp, info = lgmres(A, b, maxiter=1)
resp = np.linalg.norm(A.dot(xp) - b)
K = np.c_[b, A.dot(b), A.dot(A.dot(b)), A.dot(A.dot(A.dot(b)))]
y, _, _, _ = np.linalg.lstsq(A.dot(K), b)
x = K.dot(y)
res = np.linalg.norm(A.dot(x) - b)
assert_allclose(resp, res, err_msg=repr(b))
def test_SVGP_vs_SGPR(session_tf):
"""
With a Gaussian likelihood the sparse Gaussian variational (SVGP) model should be equivalent to the analytically
optimial sparse regression model (SGPR) after a single nat grad step of size 1
"""
N, M, D = 4, 3, 2
X = np.random.randn(N, D)
Z = np.random.randn(M, D)
Y = np.random.randn(N, 1)
kern = gpflow.kernels.RBF(D)
lik_var = 0.1
lik = gpflow.likelihoods.Gaussian()
lik.variance = lik_var
m_svgp = gpflow.models.SVGP(X, Y, kern, lik, Z=Z)
m_sgpr = gpflow.models.SGPR(X, Y, kern, Z=Z)
m_sgpr.likelihood.variance = lik_var
m_svgp.set_trainable(False)
m_svgp.q_mu.set_trainable(True)
m_svgp.q_sqrt.set_trainable(True)
NatGradOptimizer(1.).minimize(m_svgp, [[m_svgp.q_mu, m_svgp.q_sqrt]], maxiter=1)
assert_allclose(m_sgpr.compute_log_likelihood(),
m_svgp.compute_log_likelihood(), atol=1e-5)
def test_hypers_SVGP_vs_SGPR_tensors(session_tf, svgp, sgpr):
"""
Test SVGP vs SGPR. Running optimization as tensors w/o GPflow wrapper.
"""
anchor = False
variationals = [(svgp.q_mu, svgp.q_sqrt)]
svgp.q_mu.trainable = False
svgp.q_sqrt.trainable = False
o1 = NatGradOptimizer(Datum.gamma)
o1_tensor = o1.make_optimize_tensor(svgp, var_list=variationals)
o2 = GradientDescentOptimizer(Datum.learning_rate)
o2_tensor = o2.make_optimize_tensor(svgp)
o3 = NatGradOptimizer(Datum.gamma)
o3_tensor = o3.make_optimize_tensor(svgp, var_list=variationals)
session_tf.run(o1_tensor)
sgpr_likelihood = sgpr.compute_log_likelihood()
svgp_likelihood = svgp.compute_log_likelihood()
assert_allclose(sgpr_likelihood, svgp_likelihood, atol=1e-5)
session_tf.run(o2_tensor)
session_tf.run(o3_tensor)
GradientDescentOptimizer(Datum.learning_rate).minimize(sgpr, maxiter=1, anchor=anchor)
sgpr_likelihood = sgpr.compute_log_likelihood()
svgp_likelihood = svgp.compute_log_likelihood()
assert_allclose(sgpr_likelihood, svgp_likelihood, atol=1e-5)
def test_small_q_sqrt_handeled_correctly(session_tf):
"""
This is an extra test to make sure things still work when q_sqrt is small. This was breaking (#767)
"""
N, D = 3, 2
X = np.random.randn(N, D)
Y = np.random.randn(N, 1)
kern = gpflow.kernels.RBF(D)
lik_var = 0.1
lik = gpflow.likelihoods.Gaussian()
lik.variance = lik_var
m_vgp = gpflow.models.VGP(X, Y, kern, lik)
m_gpr = gpflow.models.GPR(X, Y, kern)
m_gpr.likelihood.variance = lik_var
m_vgp.set_trainable(False)
m_vgp.q_mu.set_trainable(True)
m_vgp.q_sqrt.set_trainable(True)
m_vgp.q_mu = np.random.randn(N, 1)
m_vgp.q_sqrt = np.eye(N)[None, :, :] * 1e-3
NatGradOptimizer(1.).minimize(m_vgp, [(m_vgp.q_mu, m_vgp.q_sqrt)], maxiter=1)
assert_allclose(m_gpr.compute_log_likelihood(),
m_vgp.compute_log_likelihood(), atol=1e-4)
def check(fn, stype):
for _ in range(N):
ndim = 2
shape = np.random.randint(1, 6, size=(ndim,))
npy = np.random.normal(0, 1, size=shape)
nd = mx.nd.array(npy).tostype(stype)
assert_allclose(fn(npy), fn(nd).asnumpy(), rtol=1e-4, atol=1e-4)
def test_arrays():
np.random.seed(8234)
f = run_arrays(1000, model1)
mod = f.model
f.summary() # Smoke test
# Compare the parameter estimates to population values.
epar = np.concatenate(model1())
assert_allclose(f.params, epar, atol=0.3, rtol=0.3)
# Test the fitted covariance matrix
cv = f.covariance(mod.time[0:5], mod.exog_scale[0:5, :],
mod.exog_smooth[0:5, :])
assert_allclose(cv, cv.T) # Check symmetry
a, _ = np.linalg.eig(cv)
assert_equal(a > 0, True) # Check PSD
# Test predict
yhat = f.predict()
assert_equal(np.corrcoef(yhat, mod.endog)[0, 1] > 0.2, True)
yhatm = f.predict(exog=mod.exog)
assert_equal(yhat, yhatm)
yhat0 = mod.predict(params=f.params, exog=mod.exog)
assert_equal(yhat, yhat0)
# Smoke test t-test
f.t_test(np.eye(len(f.params)))
def test_formulas():
np.random.seed(8789)
f, df = run_formula(1000, model1)
mod = f.model
f.summary() # Smoke test
# Compare the parameter estimates to population values.
epar = np.concatenate(model1())
assert_allclose(f.params, epar, atol=0.1, rtol=1)
# Test the fitted covariance matrix
exog_scale = pd.DataFrame(mod.exog_scale[0:5, :],
columns=["xsc1", "xsc2"])
exog_smooth = pd.DataFrame(mod.exog_smooth[0:5, :],
columns=["xsm1", "xsm2"])
cv = f.covariance(mod.time[0:5], exog_scale, exog_smooth)
assert_allclose(cv, cv.T)
a, _ = np.linalg.eig(cv)
assert_equal(a > 0, True)
# Test predict
yhat = f.predict()
assert_equal(np.corrcoef(yhat, mod.endog)[0, 1] > 0.2, True)
yhatm = f.predict(exog=df)
assert_equal(yhat, yhatm)
yhat0 = mod.predict(params=f.params, exog=df)
assert_equal(yhat, yhat0)
# Smoke test t-test
f.t_test(np.eye(len(f.params)))
def test_first_solar_spectral_correction_supplied():
# use the cdte coeffs
coeffs = (0.87102, -0.040543, -0.00929202, 0.10052, 0.073062, -0.0034187)
out = atmosphere.first_solar_spectral_correction(1, 1, coefficients=coeffs)
expected = 0.99134828
assert_allclose(out, expected, atol=1e-3)
def test_wireless_half_duplex_line_network_with_cross_traffic(num_stations):
sr = simulate(
WirelessHalfDuplexLineNetwork,
stime_limit=SIM_TIME_LIMIT,
params=dict(
num_stations=num_stations,
active_sources=range(num_stations - 1),
payload_size=PAYLOAD_SIZE,
source_interval=Exponential(SOURCE_INTERVAL.mean()),
mac_header_size=MAC_HEADER,
phy_header_size=PHY_HEADER,
ack_size=ACK_SIZE,
preamble=PREAMBLE,
bitrate=BITRATE,
difs=DIFS,
sifs=SIFS,
slot=SLOT,
cwmin=CWMIN,
cwmax=CWMAX,
distance=DISTANCE,
connection_radius=CONNECTION_RADIUS,
speed_of_light=SPEED_OF_LIGHT,
),
loglevel=Logger.Level.ERROR
)
client = sr.data.stations[0]
server = sr.data.stations[-1]
source_id = client.source.source_id
expected_interval_avg = SOURCE_INTERVAL.mean()
expected_number_of_packets = floor(SIM_TIME_LIMIT / expected_interval_avg)
assert_allclose(
client.source.num_packets_sent,
expected_number_of_packets,
rtol=0.25
)
assert_allclose(
server.sink.num_packets_received,
(num_stations - 1) * expected_number_of_packets,
rtol=0.2
)
mean_payload = PAYLOAD_SIZE.mean()
expected_service_time = (
DIFS + CWMIN/2 * SLOT
+ PREAMBLE + (mean_payload + MAC_HEADER + PHY_HEADER) / BITRATE
+ SIFS + PREAMBLE + (PHY_HEADER + ACK_SIZE) / BITRATE
+ 2 * DISTANCE / SPEED_OF_LIGHT
)
delay_low_bound = expected_service_time * (num_stations - 1) * 0.9999
assert server.sink.source_delays[source_id].mean() >= delay_low_bound
expected_busy_ratio = expected_service_time / SOURCE_INTERVAL.mean()
client_iface = sr.data.get_iface(0)
assert client_iface.transmitter.busy_trace.timeavg() >= expected_busy_ratio
# Here we make sure that out interfaces for all middle stations
# have non-empty queues since they also generate traffic at almost the same
# time as they receive packets from connected stations:
for i in range(0, num_stations - 2):
prev_if = sr.data.get_iface(i)
next_if = sr.data.get_iface(i + 1)
assert next_if.queue.size_trace.timeavg() > 0
if i > 0:
next_busy_rate = next_if.transmitter.busy_trace.timeavg()
prev_busy_rate = prev_if.transmitter.busy_trace.timeavg()
assert_allclose(
next_busy_rate, prev_busy_rate + expected_busy_ratio, rtol=0.35
)
mean = accum_mean / N
var = accum_var / N - mean**2
std = np.sqrt(var)
return mean, std, var
if __name__ == "__main__":
for _ in range(100):
N = np.random.randint(low=1, high=100000)
D = np.random.randint(low=1, high=10)
#(N, D) = (21, 2)
axis = np.random.randint(low=0, high=2)
X = np.random.rand(N, D)
mean, std, var = mean_std_var(X, axis=axis)
# I'm not 100% sure about this since there is something
# strange with the tolerate that can't go below 1e-4.
# I'm not sure if I'm missing some indices or if it's
# just a rounding thing. It certainly looks goods upon
# visual inspection.
rtol = 1e-4
npt.assert_allclose(mean, np.mean(X, axis=axis), rtol=rtol)
npt.assert_allclose(std, np.std(X, axis=axis), rtol=rtol)
npt.assert_allclose(var, np.var(X, axis=axis), rtol=rtol)
def test_map_maker(pars, observations, keepdims):
maker = MapMaker(geom=pars["geom"], geom_true=pars["geom_true"], offset_max="2 deg")
maps = maker.run(observations)
counts = maps["counts"]
assert counts.unit == ""
assert_allclose(counts.data.sum(), pars["counts"], rtol=1e-5)
exposure = maps["exposure"]
assert exposure.unit == "m2 s"
assert_allclose(exposure.data.sum(), pars["exposure"], rtol=1e-5)
background = maps["background"]
assert background.unit == ""
assert_allclose(background.data.sum(), pars["background"], rtol=1e-5)
images = maker.run_images(keepdims=keepdims)
counts = images["counts"]
assert counts.unit == ""
assert_allclose(counts.data.sum(), pars["counts"], rtol=1e-5)
exposure = images["exposure"]
assert exposure.unit == "m2 s"
assert_allclose(exposure.data.sum(), pars["exposure_image"], rtol=1e-5)
background = images["background"]
assert background.unit == ""
assert_allclose(background.data.sum(), pars["background"], rtol=1e-5)
def test_measure_containment_radius():
"""Test measure_containment_radius function"""
image = generate_gaussian_image()
rad = measure_containment_radius(image, 0, 0, 0.8)
assert_allclose(rad, 0.2 * np.sqrt(2 * np.log(5)), rtol=0.01)
def test_first_solar_spectral_correction(module_type, expect):
ams = np.array([1, 3, 5])
pws = np.array([1, 3, 5])
ams, pws = np.meshgrid(ams, pws)
out = atmosphere.first_solar_spectral_correction(pws, ams, module_type)
assert_allclose(out, expect, atol=0.001)