def test_gravity():
geo_model = gp.create_model('2-layers')
gp.init_data(geo_model,
extent=[0, 12, -2, 2, 0, 4],
resolution=[500, 1, 500])
geo_model.add_surfaces('surface 1')
geo_model.add_surfaces('surface 2')
geo_model.add_surfaces('basement')
dz = geo_model.grid.regular_grid.dz
geo_model.surfaces.add_surfaces_values([dz, 0, 0], ['dz'])
geo_model.surfaces.add_surfaces_values([2.6, 2.4, 3.2], ['density'])
geo_model.add_surface_points(3, 0, 3.05, 'surface 1')
geo_model.add_surface_points(9, 0, 3.05, 'surface 1')
geo_model.add_surface_points(3, 0, 1.02, 'surface 2')
geo_model.add_surface_points(9, 0, 1.02, 'surface 2')
geo_model.add_orientations(6, 0, 4, 'surface 1', [0, 0, 1])
device_loc = np.array([[6, 0, 4]])
geo_model.set_centered_grid(device_loc,
resolution=[10, 10, 100],
radius=16000)
gp.set_interpolator(geo_model,
output=['gravity'],
pos_density=2,
gradient=True,
theano_optimizer='fast_compile')
gp.compute_model(geo_model, set_solutions=True, compute_mesh=False)
print(geo_model.solutions.fw_gravity)
np.testing.assert_almost_equal(geo_model.solutions.fw_gravity,
np.array([-9291.8003]),
decimal=4)
def test_pile_geomodel_2():
ve = 3
extent = [451e3, 456e3, 6.7820e6, 6.7840e6, -2309 * ve, -1651 * ve]
geo_model = gp.create_model('Topology-Gullfaks')
gp.init_data(geo_model,
extent, [30, 30, 30],
path_o=input_path + "/filtered_orientations.csv",
path_i=input_path + "/filtered_surface_points.csv",
default_values=True)
series_distribution = {
"fault3": "fault3",
"fault4": "fault4",
"unconformity": "BCU",
"sediments": ("tarbert", "ness", "etive"),
}
gp.map_series_to_surfaces(geo_model,
series_distribution,
remove_unused_series=True)
geo_model.reorder_series(
["unconformity", "fault3", "fault4", "sediments", "Basement"])
geo_model.set_is_fault(["fault3"])
geo_model.set_is_fault(["fault4"])
rel_matrix = np.array([[0, 0, 0, 0, 0], [0, 0, 0, 1, 1], [0, 0, 0, 1, 1],
[0, 0, 0, 0, 0], [0, 0, 0, 0, 0]])
geo_model.set_fault_relation(rel_matrix)
surf_groups = pd.read_csv(input_path +
"/filtered_surface_points.csv").group
geo_model.surface_points.df["group"] = surf_groups
orient_groups = pd.read_csv(input_path +
"/filtered_orientations.csv").group
geo_model.orientations.df["group"] = orient_groups
geo_model.surface_points.df.reset_index(inplace=True, drop=True)
geo_model.orientations.df.reset_index(inplace=True, drop=True)
gp.set_interpolator(geo_model,
verbose=['mask_matrix_loop', 'mask_e', 'nsle'])
gp.compute_model(geo_model)
gp.plot.plot_section(geo_model,
cell_number=25,
direction='y',
show_data=True)
from gempy.plot.plot_api import plot_2d
p = plot_2d(geo_model, cell_number=[25])
plt.savefig(os.path.dirname(__file__) + '/../figs/test_pile_lith_block')
return geo_model
def test_kriging_mutation(interpolator, map_sequential_pile):
geo_model = map_sequential_pile
geo_model.set_theano_graph(interpolator)
gp.compute_model(geo_model, compute_mesh=False)
gp.plot.plot_2d(geo_model, cell_number=25, show_scalar=True, series_n=1, N=15,
direction='y', show_data=True)
print(geo_model.solutions.lith_block, geo_model._additional_data)
#plt.savefig(os.path.dirname(__file__)+'/figs/test_kriging_mutation')
geo_model.modify_kriging_parameters('range', 1)
geo_model.modify_kriging_parameters('drift equations', [0, 3])
print(geo_model.solutions.lith_block, geo_model._additional_data)
# copy dataframe before interpolator is calculated
pre = geo_model._additional_data.kriging_data.df.copy()
gp.set_interpolator(geo_model, compile_theano=True,
theano_optimizer='fast_compile', update_kriging=False)
gp.compute_model(geo_model, compute_mesh=False)
gp.plot.plot_2d(geo_model, cell_number=25, series_n=1, N=15, show_boundaries=False,
direction='y', show_data=True, show_lith=True)
print(geo_model.solutions.lith_block, geo_model._additional_data)
plt.savefig(os.path.dirname(__file__)+'/../figs/test_kriging_mutation2')
assert geo_model._additional_data.kriging_data.df['range'][0] == pre['range'][0]
def vista_obj(self) -> vs.Vista:
"""Return a GemPy Vista instance with basic geomodel attached."""
from gempy.plot import vista as vs
geo_model = gp.create_data(
[0, 2000, 0, 2000, 0, 2000], [50, 50, 50],
path_o=input_path + '/input_data/tut_chapter1'
'/simple_fault_model_orientations.csv',
path_i=input_path + '/input_data/tut_chapter1'
'/simple_fault_model_points.csv')
gp.set_series(
geo_model, {
"Fault_Series":
'Main_Fault',
"Strat_Series":
('Sandstone_2', 'Siltstone', 'Shale', 'Sandstone_1')
})
geo_model.set_is_fault(['Fault_Series'])
gp.set_interpolator(geo_model)
gp.compute_model(geo_model)
# with open(os.path.dirname(__file__)+"input_data/geomodel_fabian_sol.p", "rb") as f:
# geo_model.solutions = load(f)
return vs.Vista(geo_model)
def test_magnetics_api():
# TODO add the check
geo_model = gp.create_model('test_center_grid_slicing')
geo_model.set_default_surfaces()
geo_model.add_surface_points(X=-1, Y=0, Z=0, surface='surface1')
geo_model.add_surface_points(X=1, Y=0, Z=0, surface='surface1')
geo_model.add_orientations(X=0,
Y=0,
Z=0,
surface='surface1',
pole_vector=(0, 0, 1))
geo_model.surfaces.add_surfaces_values([0.037289, 0.0297],
['susceptibility'])
# needed constants
mu_0 = 4.0 * np.pi * 10e-7 # magnetic permeability in free space [N/A^2]
cm = mu_0 / (4.0 * np.pi) # constant for SI unit
incl = 77.0653 # NOAA
decl = 6.8116
B_ext = 52819.8506939139e-9 # T
geo_model.set_regular_grid(extent=[-5, 5, -5, 5, -5, 5],
resolution=[5, 5, 5])
geo_model.set_centered_grid(np.array([0, 0, 0]),
resolution=[10, 10, 15],
radio=5000)
gp.set_interpolator(geo_model, output=['magnetics'], incl=incl, decl=decl)
gp.compute_model(geo_model)
print(geo_model.interpolator.theano_graph.lg0.get_value())
return geo_model
def test_issue_569(data_path):
surface_points_df = df = pd.read_csv(data_path + "/coordinates_mwe.csv")
orientations_df = pd.read_csv(data_path + "/orientations_mwe.csv")
geo_model = gp.create_model("Deltatest")
gp.init_data(geo_model, [
df.X.min() - 50,
df.X.max() + 50,
df.Y.min() - 50,
df.Y.max() + 50,
df.Z.min() - 50,
df.Z.max() + 50,
], [50, 50, 50],
surface_points_df=surface_points_df,
orientations_df=orientations_df,
default_values=True)
fault_list = []
series = {
"Strat_Series":
surface_points_df.loc[
~surface_points_df["formation"].str.contains("fault"),
"formation"].unique().tolist()
}
for fault in surface_points_df.loc[
surface_points_df["formation"].str.contains("fault"),
"formation"].unique():
series[fault] = fault
fault_list.append(fault)
gp.map_stack_to_surfaces(geo_model, series, remove_unused_series=True)
geo_model.set_is_fault(fault_list)
geo_model.reorder_features(['fault_a', 'fault_b', 'Strat_Series'])
geo_model.add_surfaces("basement")
plot = gp.plot_2d(geo_model,
show_lith=False,
show_boundaries=True,
direction=['z'])
plt.show(block=False)
gp.set_interpolator(
geo_model,
compile_theano=True,
theano_optimizer='fast_compile',
)
gp.get_data(geo_model, 'kriging')
sol = gp.compute_model(geo_model, sort_surfaces=True)
gp.plot_2d(geo_model, show_scalar=True, series_n=0)
gp.plot_2d(geo_model, series_n=0)
gp.plot_3d(geo_model, image=True)
def test_gempy_th_op_set_grav():
path_dir = os.getcwd(
) + '/../../examples/tutorials/ch5_probabilistic_modeling'
geo_model = gp.load_model(r'2-layers', path=path_dir, recompile=False)
gp.set_interpolator(geo_model, output='grav')
gto = GemPyThOp(geo_model)
th_op_grav = gto.set_th_op('gravity')
i = geo_model.interpolator.get_python_input_block()
th_f = theano.function([], th_op_grav(*i), on_unused_input='warn')
def create_model(resolution=[50, 50, 50]):
geo_data = gp.create_data(
'fault',
extent=[0, 1000, 0, 1000, 0, 1000],
resolution=resolution,
path_o=path_to_data + "model5_orientations.csv",
path_i=path_to_data + "model5_surface_points.csv")
geo_data.get_data()
gp.map_stack_to_surfaces(geo_data, {
"Fault_Series": 'fault',
"Strat_Series": ('rock2', 'rock1')
})
geo_data.set_is_fault(['Fault_Series'])
interp_data = gp.set_interpolator(geo_data,
theano_optimizer='fast_compile')
sol = gp.compute_model(geo_data)
geo = gp.plot_2d(geo_data,
direction='y',
show_data=True,
show_lith=True,
show_boundaries=False)
geo.axes[0].set_title("")
plt.tight_layout()
plt.close()
return geo.axes[0].figure
def test_axial_anisotropy(model):
# Location box
geo_model = model
geo_model._rescaling.toggle_axial_anisotropy()
# gp.compute_model(geo_model, compute_mesh_options={'mask_topography': False})
geo_model.surface_points.df[['X', 'Y',
'Z']] = geo_model.surface_points.df[[
'X_c', 'Y_c', 'Z_c'
]]
geo_model.orientations.df[['X', 'Y', 'Z']] = geo_model.orientations.df[[
'X_c', 'Y_c', 'Z_c'
]]
# This is a hack
geo_model._grid.topography.extent = geo_model._grid.extent_c
geo_model.set_regular_grid(geo_model._grid.extent_c, [50, 50, 50])
geo_model.modify_kriging_parameters('range', 0.1)
geo_model.modify_kriging_parameters('drift equations', [9, 9, 9, 9, 9])
geo_model.modify_surface_points(geo_model.surface_points.df.index,
smooth=0.001)
gp.set_interpolator(geo_model,
theano_optimizer='fast_run',
dtype='float64')
gp.compute_model(geo_model,
compute_mesh_options={
'mask_topography': False,
'masked_marching_cubes': False
})
gp.plot_2d(
geo_model,
section_names=['topography'],
show_topography=True,
)
plt.show()
gp.plot_3d(geo_model,
ve=None,
show_topography=False,
image=True,
show_lith=False,
kwargs_plot_data={'arrow_size': 10})
def test_simple_model_gempy_engine():
import numpy
numpy.set_printoptions(precision=3, linewidth=200)
g = gempy.create_data("test_engine",
extent=[-4, 4, -4, 4, -4, 4],
resolution=[4, 1, 4])
sp = np.array([[-3, 0, 0], [0, 0, 0], [2, 0, 0.5], [2.5, 0, 1.2],
[3, 0, 2], [1, 0, .2], [2.8, 0, 1.5]])
g.set_default_surfaces()
for i in sp:
g.add_surface_points(*i, surface="surface1")
g.add_orientations(-3, 0, 2, pole_vector=(0, 0, 1), surface="surface1")
g.add_orientations(2, 0, 3, pole_vector=(-.2, 0, .8), surface="surface1")
g.modify_orientations([0, 1], smooth=0.000000000001)
g.modify_surface_points(g._surface_points.df.index, smooth=0.0000000001)
gempy.set_interpolator(g,
verbose=[
"n_surface_op_float_sigmoid",
"scalar_field_iter", "compare", "sigma"
])
g.modify_kriging_parameters("range", 50)
# g.modify_kriging_parameters("$C_o$", 5 ** 2 / 14 / 3)
g.modify_kriging_parameters("drift equations", [0])
import theano
dtype = "float32"
g._interpolator.theano_graph.i_reescale.set_value(np.cast[dtype](1.))
g._interpolator.theano_graph.gi_reescale.set_value(np.cast[dtype](1.))
gempy.compute_model(g)
print(g.additional_data)
print(g.solutions.scalar_field_matrix)
gempy.plot_2d(g)
print(g.grid.values)
print(g.solutions.weights_vector)
def interpolator(self):
# Importing the data from csv files and settign extent and resolution
geo_data = gempy.import_data([0, 10, 0, 10, -10, 0], [50, 50, 50],
path_f="./GeoModeller/test_a/test_a_Foliations.csv",
path_i="./GeoModeller/test_a/test_a_Points.csv")
data_interp = gempy.set_interpolator(geo_data,
dtype="float64",
verbose=['solve_kriging'])
def test_issue_564(data_path):
geo_model = gp.create_model('SBPM')
gp.init_data(geo_model, [550, 730, -200, 1000, 20, 55], [50, 50, 50],
path_i=data_path + "/564_Points.csv",
path_o=data_path + "/564_Orientations_.csv",
default_values=True)
gp.map_stack_to_surfaces(geo_model, {
"Q": 'Quartaer',
"vK": 'verwKeuper',
"Sa": 'Sandstein',
"Sc": 'Schluffstein',
"b": 'basement'
},
remove_unused_series=True)
gp.set_interpolator(geo_model,
compile_theano=True,
theano_optimizer='fast_compile')
sol = gp.compute_model(geo_model)
gp.plot_2d(geo_model)
gpv = gp.plot_3d(geo_model,
image=True,
plotter_type='basic',
ve=5,
show_lith=False)
geo_model.set_bottom_relation(
["Q", "vK", "Sa", "Sc", "b"],
["Onlap", "Onlap", "Onlap", "Onlap", "Onlap"])
sol = gp.compute_model(geo_model)
gp.plot_2d(geo_model)
gpv = gp.plot_3d(geo_model,
image=True,
plotter_type='basic',
ve=5,
show_lith=True)
def geo_model():
geo_model = gp.create_model('Test_uncomformities')
# Importing the data from CSV-files and setting extent and resolution
gp.init_data(
geo_model, [0, 10., 0, 2., 0, 5.], [100, 3, 100],
path_o=input_path + '/05_toy_fold_unconformity_orientations.csv',
path_i=input_path + '/05_toy_fold_unconformity_interfaces.csv',
default_values=True)
gp.map_series_to_surfaces(
geo_model, {
"Flat_Series": 'Flat',
"Inclined_Series": 'Inclined',
"Fold_Series": ('Basefold', 'Topfold', 'basement')
})
# Create the theano model
gp.set_interpolator(geo_model, theano_optimizer='fast_compile')
return geo_model
def topology_jan_unconf():
geo_model = gp.create_data(
[0, 1000, 0, 1000, 0, 1000],
resolution=[50, 50, 50],
path_o=data_path / "jan_models/model6_orientations.csv",
path_i=data_path / "jan_models/model6_surface_points.csv")
gp.map_series_to_surfaces(
geo_model, {
"Strat_Series1": ('rock3'),
"Strat_Series2": ('rock2', 'rock1'),
"Basement_Series": ('basement')
})
# with open("input_data/geomodel_jan_sol.p", "rb") as f:
# geo_model.solutions = load(f)
gp.set_interpolator(geo_model)
gp.compute_model(geo_model)
edges, centroids = tp.compute_topology(geo_model, voxel_threshold=1)
return edges, centroids
def create_gempy_model(resolution=[20, 20, 20], type=2):
if type == 1:
data_path = 'https://raw.githubusercontent.com/cgre-aachen/gempy_data/master/'
path_to_data = data_path + "/data/input_data/jan_models/"
geo_data = gp.create_data(
'fold',
extent=[0, 1000, 0, 1000, 0, 1000],
resolution=resolution,
path_o=path_to_data + "model2_orientations.csv",
path_i=path_to_data + "model2_surface_points.csv")
gp.map_stack_to_surfaces(geo_data, {
"Strat_Series": ('rock2', 'rock1'),
"Basement_Series": ('basement')
})
interp_data = gp.set_interpolator(geo_data,
theano_optimizer='fast_compile')
sol = gp.compute_model(geo_data)
elif type == 2:
data_path = 'https://raw.githubusercontent.com/cgre-aachen/gempy_data/master/'
path_to_data = data_path + "/data/input_data/jan_models/"
geo_data = gp.create_data(
'unconformity',
extent=[0, 1000, 0, 1000, 0, 1000],
resolution=[50, 50, 50],
path_o=path_to_data + "model6_orientations.csv",
path_i=path_to_data + "model6_surface_points.csv")
gp.map_stack_to_surfaces(
geo_data, {
"Strat_Series1": ('rock3'),
"Strat_Series2": ('rock2', 'rock1'),
"Basement_Series": ('basement')
})
interp_data = gp.set_interpolator(geo_data,
theano_optimizer='fast_compile')
sol = gp.compute_model(geo_data)
return geo_data
def topology_fabian():
"""Return a GemPy Vista instance with basic geomodel attached."""
geo_model = gp.create_data(
[0, 2000, 0, 2000, 0, 2000], [50, 50, 50],
path_o=data_path / 'tut_chapter1/simple_fault_model_orientations.csv',
path_i=data_path / 'tut_chapter1/simple_fault_model_points.csv')
gp.set_series(
geo_model, {
"Fault_Series": 'Main_Fault',
"Strat_Series":
('Sandstone_2', 'Siltstone', 'Shale', 'Sandstone_1')
})
geo_model.set_is_fault(['Fault_Series'])
gp.set_interpolator(geo_model)
gp.compute_model(geo_model)
# with open("input_data/geomodel_fabian_sol.p", "rb") as f:
# geo_model.solutions = load(f)
edges, centroids = tp.compute_topology(geo_model, voxel_threshold=1)
return edges, centroids
# %%
gp.plot.plot_section_traces(geo_model)
# %%
# Faults
# ''''''
#
# %%
geo_model.set_is_fault(['fault_right', 'fault_left', 'fault_lr'],
change_color=True)
# %%
gp.set_interpolator(geo_model,
output=['geology'],
compile_theano=True,
theano_optimizer='fast_run',
dtype='float64',
verbose=[])
# %%
# Topography
# ~~~~~~~~~~
#
# %%
geo_model.set_topography(source='gdal', filepath=path_dem)
# %%
geo_model.surfaces
# %%
".csv")
gp.map_stack_to_surfaces(
geo_model, {
"Fault_1":
'Fault_1',
"Fault_2":
'Fault_2',
"Strat_Series":
('Sandstone', 'Siltstone', 'Shale', 'Sandstone_2', 'Schist', 'Gneiss')
})
geo_model.set_is_fault(['Fault_1', 'Fault_2'])
geo_model.set_topography()
gp.set_interpolator(geo_model)
gp.compute_model(geo_model, compute_mesh=True)
# %%
# Basic plotting API
# ------------------
#
# %%
# Data plot
# ~~~~~~~~~
#
# %%
gp.plot_3d(geo_model,
show_surfaces=False,
# %%
geo_model.modify_order_series(4, 'Default series')
# %%
# Lastly, so far we did not specify which series/faults are actula faults:
#
# %%
geo_model.set_is_fault(['Fault1', 'Fault2', 'Fault3'])
# %%
# Now we are good to go:
#
# %%
gp.set_interpolator(geo_model, theano_optimizer='fast_run', dtype='float64')
# %%
# The default range is always the diagonal of the extent. Since in this
# model data is very close we will need to reduce the range to 5-10% of
# that value:
#
# %%
new_range = geo_model.get_additional_data().loc[('Kriging', 'range'),
'values'] * 0.2
geo_model.modify_kriging_parameters('range', new_range)
# %%
gp.compute_model(geo_model, sort_surfaces=True, compute_mesh=False)
def test_complex_model():
geo_model = gp.create_model('Geological_Model1')
geo_model = gp.init_data(geo_model,
extent=[0, 4000, 0, 2775, 200, 1500],
resolution=[100, 10, 100])
gp.set_interpolator(geo_model, theano_optimizer='fast_run', verbose=[])
geo_model.add_features(['Fault2', 'Cycle2', 'Fault1', 'Cycle1'])
geo_model.delete_features('Default series')
geo_model.add_surfaces(['F2', 'H', 'G', 'F1', 'D', 'C', 'B', 'A'])
gp.map_stack_to_surfaces(geo_model, {
'Fault1': 'F1',
'Fault2': 'F2',
'Cycle2': ['G', 'H']
})
geo_model.set_is_fault(['Fault1', 'Fault2'])
###Cycle 1
# surface B - before F1
geo_model.add_surface_points(X=584, Y=285, Z=500, surface='B')
geo_model.add_surface_points(X=494, Y=696, Z=500, surface='B')
geo_model.add_surface_points(X=197, Y=1898, Z=500, surface='B')
geo_model.add_surface_points(X=473, Y=2180, Z=400, surface='B')
geo_model.add_surface_points(X=435, Y=2453, Z=400, surface='B')
# surface C - before F1
geo_model.add_surface_points(X=946, Y=188, Z=600, surface='C')
geo_model.add_surface_points(X=853, Y=661, Z=600, surface='C')
geo_model.add_surface_points(X=570, Y=1845, Z=600, surface='C')
geo_model.add_surface_points(X=832, Y=2132, Z=500, surface='C')
geo_model.add_surface_points(X=767, Y=2495, Z=500, surface='C')
# Surface D - Before F1
geo_model.add_surface_points(X=967, Y=1638, Z=800, surface='D')
geo_model.add_surface_points(X=1095, Y=996, Z=800, surface='D')
# Adding orientation to Cycle 1
geo_model.add_orientations(X=832,
Y=2132,
Z=500,
surface='C',
orientation=[76, 17.88, 1])
# surface B - After F1
geo_model.add_surface_points(X=1447, Y=2554, Z=500, surface='B')
geo_model.add_surface_points(X=1511, Y=2200, Z=500, surface='B')
geo_model.add_surface_points(X=1549, Y=629, Z=600, surface='B')
geo_model.add_surface_points(X=1630, Y=287, Z=600, surface='B')
# surface C - After F1
geo_model.add_surface_points(X=1891, Y=2063, Z=600, surface='C')
geo_model.add_surface_points(X=1605, Y=1846, Z=700, surface='C')
geo_model.add_surface_points(X=1306, Y=1641, Z=800, surface='C')
geo_model.add_surface_points(X=1476, Y=979, Z=800, surface='C')
geo_model.add_surface_points(X=1839, Y=962, Z=700, surface='C')
geo_model.add_surface_points(X=2185, Y=893, Z=600, surface='C')
geo_model.add_surface_points(X=2245, Y=547, Z=600, surface='C')
# Surface D - After F1
geo_model.add_surface_points(X=2809, Y=2567, Z=600, surface='D')
geo_model.add_surface_points(X=2843, Y=2448, Z=600, surface='D')
geo_model.add_surface_points(X=2873, Y=876, Z=700, surface='D')
# Surface D - After F2
geo_model.add_surface_points(X=3056, Y=2439, Z=650, surface='D')
geo_model.add_surface_points(X=3151, Y=1292, Z=700, surface='D')
### Fault 1
# Surface F1
geo_model.add_surface_points(X=1203, Y=138, Z=600, surface='F1')
geo_model.add_surface_points(X=1250, Y=1653, Z=800, surface='F1')
# orientation to Fault 1
geo_model.add_orientations(X=1280,
Y=2525,
Z=500,
surface='F1',
orientation=[272, 90, 1])
### Cycle 2
# Surface G - Before F2
geo_model.add_surface_points(X=1012, Y=1493, Z=900, surface='G')
geo_model.add_surface_points(X=1002, Y=1224, Z=900, surface='G')
geo_model.add_surface_points(X=1579, Y=1376, Z=850, surface='G')
geo_model.add_surface_points(X=2489, Y=336, Z=750, surface='G')
geo_model.add_surface_points(X=2814, Y=1848, Z=750, surface='G')
# Surface H - Before F2
geo_model.add_surface_points(X=2567, Y=129, Z=850, surface='H')
geo_model.add_surface_points(X=3012, Y=726, Z=800, surface='H')
# Orientation to cycle 2
geo_model.add_orientations(X=1996,
Y=47,
Z=800,
surface='G',
orientation=[92, 5.54, 1])
# Surface G - After F2
geo_model.add_surface_points(X=3031, Y=2725, Z=800, surface='G')
geo_model.add_surface_points(X=3281, Y=2314, Z=750, surface='G')
geo_model.add_surface_points(X=3311, Y=1357, Z=750, surface='G')
geo_model.add_surface_points(X=3336, Y=898, Z=750, surface='G')
# Surface H - After F2
geo_model.add_surface_points(X=3218, Y=1818, Z=890, surface='H')
geo_model.add_surface_points(X=3934, Y=1207, Z=810, surface='H')
geo_model.add_surface_points(X=3336, Y=704, Z=850, surface='H')
### Fault 2
geo_model.add_surface_points(X=3232, Y=178, Z=1000, surface='F2')
geo_model.add_surface_points(X=2912, Y=2653, Z=700, surface='F2')
# Add orientation to Fault 2
geo_model.add_orientations(X=3132,
Y=951,
Z=700,
surface='F2',
orientation=[85, 90, 1])
gp.compute_model(geo_model, sort_surfaces=False)
module = GemPyModule(geo_model=geo_model,
extent=extent,
box=[1000, 800],
load_examples=False)
module.show_boundary = True
module.show_lith = True
module.show_hillshades = True
module.show_contour = True
module.show_fill_contour = False
sb_params = module.update(pytest.sb_params)
sb_params['fig'].show()
def test_map2loop_model_no_faults():
# Location box
bbox = (500000, 7490000, 545000, 7520000)
model_base = -3200 # Original 3200
model_top = 800
# Input files
geo_model = gp.create_model('test_map2Loop')
gp.init_data(
geo_model,
extent=[bbox[0], bbox[2], bbox[1], bbox[3], model_base, model_top],
resolution=[50, 50, 80],
path_o=orientations_file,
path_i=contacts_file
)
gp.set_interpolator(geo_model)
# Load Topology
geo_model.set_topography(source='gdal', filepath=fp)
# Stack Processing
contents = np.genfromtxt(series_file,
delimiter=',', dtype='U100')[1:, 4:-1]
map_series_to_surfaces = {}
for pair in contents:
map_series_to_surfaces.setdefault(pair[1], []).append(pair[0])
gp.map_stack_to_surfaces(geo_model, map_series_to_surfaces,
remove_unused_series=False)
gp.plot_2d(geo_model, ve=10, show_topography=False)
plt.show()
# Plot in 3D
gp.plot_3d(geo_model, ve=10, show_topography=False, image=True)
# Stack Processing
contents = np.genfromtxt(series_file,
delimiter=',', dtype='U100')[1:, 4:-1]
map_series_to_surfaces = {}
for pair in contents:
map_series_to_surfaces.setdefault(pair[1], []).append(pair[0])
gp.map_stack_to_surfaces(geo_model, map_series_to_surfaces,
remove_unused_series=False)
# Adding axial rescale
#geo_model._rescaling.toggle_axial_anisotropy()
# Increasing nugget effect
geo_model.modify_surface_points(
geo_model.surface_points.df.index,
smooth=0.001
)
geo_model.modify_kriging_parameters('drift equations', [9, 9, 9, 9, 9])
gp.compute_model(geo_model)
gp.plot_2d(geo_model,
section_names=['topography'],
show_topography=True,
)
plt.show()
gp.plot_3d(geo_model, ve=10, show_topography=True,
image=True,
show_lith=False,
)
#
# Once we have made sure that we have defined all our primary information
# as desired in our object ``DataManagement.InputData`` (named
# ``geo_data`` in these tutorials), we can continue with the next step
# towards creating our geological model: preparing the input data for
# interpolation.
#
# This is done by generating an ``InterpolatorData`` object (named
# ``interp_data`` in these tutorials) from our ``InputData`` object via
# the following function:
#
# %%
gp.set_interpolator(
geo_model,
compile_theano=True,
theano_optimizer='fast_compile',
)
# %%
# This function rescales the extent and coordinates of the original data
# (and stores it in the attribute ``geo_data_res`` which behaves as a usual
# ``InputData`` object) and adds mathematical parameters that are needed
# for conducting the interpolation. The computation of this step may take
# a while, as it also compiles a theano function which is required for the
# model computation. However, should this not be needed, we can skip it by
# declaring ``compile_theano = False`` in the function.
#
# Furthermore, this preparation process includes an assignment of numbers
# to each formation. Note that GemPy always creates a default basement
# formation as the last formation number. Afterwards, numbers are
geo_model.set_fault_relation(fr)
# %%
# %matplotlib inline
gp.plot_2d(geo_model, direction=['z'])
# %%
geo_model.set_topography(source='random')
# %%
gp.plot_3d(geo_model)
# %%
interp_data = gp.set_interpolator(geo_model,
compile_theano=True,
theano_optimizer='fast_run',
gradient=False,
dtype='float32')
# %%
gp.compute_model(geo_model)
# %%
gp.plot_2d(geo_model, cell_number=[25])
# %%
gp.plot_2d(geo_model, cell_number=[25], series_n=-1, show_scalar=True)
# %%
gp.plot_2d(geo_model,
cell_number=[12],
# as well as the lithologies. In addition we need either to pass the density
# block (see below). Or the position of density on the surface(in the
# future the name) to compute the density block at running time.
#
# %%
geo_model.surfaces
# %%
# In this case the densities of each layer are at the loc 1 (0 is the id)
#
# New way
gp.set_interpolator(geo_model,
output=['gravity'],
pos_density=1,
gradient=False,
theano_optimizer='fast_run')
# %%
# Once we have created a gravity interpolator we can call it from compute
# model as follows:
#
# %%
sol = gp.compute_model(geo_model)
grav = sol.fw_gravity
# %%
gp.plot_2d(geo_model,
direction=['z'],
def create_example_model(name,
extent=[0, 1000, 0, 1000, 0, 1800],
do_sections=False,
change_color=False,
data_path=path_to_data,
resolution=[20, 20, 20],
theano_optimizer='fast_compile'):
# _test_data['gempy_data'], theano_optimizer='fast_compile'):
"""
Create all the example models
Args:
name: Name of the model to create
extent: extent of the model in model units
do_sections: False
change_color: False
data_path: Path to the .csv files storing the information
theano_optimizer: 'fast_compile'
Returns:
geo_model
"""
assert name in all_models, 'possible model names are ' + str(all_models)
if name == 'Horizontal_layers':
geo_model = gp.create_data(
name,
extent=extent,
resolution=resolution,
path_o=data_path + "model1_orientations.csv",
path_i=data_path + "model1_surface_points.csv")
gp.map_stack_to_surfaces(geo_model, {
"Strat_Series": ('rock2', 'rock1'),
"Basement_Series": ('basement')
})
if change_color:
geo_model.surfaces.colors.change_colors({
"rock2": '#9f0052',
'rock1': '#e36746',
'basement': '#f9f871'
})
elif name == 'Anticline':
geo_model = gp.create_data(
name,
extent=extent,
resolution=resolution,
path_o=data_path + "model2_orientations.csv",
path_i=data_path + "model2_surface_points.csv")
gp.map_stack_to_surfaces(geo_model, {
"Strat_Series": ('rock2', 'rock1'),
"Basement_Series": ('basement')
})
elif name == 'Recumbent_fold':
geo_model = gp.create_data(
name,
extent=extent,
resolution=resolution,
path_o=data_path + "model3_orientations.csv",
path_i=data_path + "model3_surface_points.csv")
gp.map_stack_to_surfaces(geo_model, {
"Strat_Series": ('rock2', 'rock1'),
"Basement_Series": ('basement')
})
if change_color:
geo_model.surfaces.colors.change_colors({
"rock2": '#e36746',
'rock1': '#c0539f',
'basement': '#006fa8'
})
elif name == 'Pinchout':
geo_model = gp.create_data(
name,
extent=extent,
resolution=resolution,
path_o=data_path + "model4_orientations.csv",
path_i=data_path + "model4_surface_points.csv")
gp.map_stack_to_surfaces(geo_model, {
"Strat_Series": ('rock2', 'rock1'),
"Basement_Series": ('basement')
})
if change_color:
geo_model.surfaces.colors.change_colors({
"rock2": '#a1b455',
'rock1': '#ffbe00',
'basement': '#006471'
})
elif name == 'Fault':
geo_model = gp.create_data(
name,
extent=extent,
resolution=resolution,
path_o=data_path + "model5_orientations.csv",
path_i=data_path + "model5_surface_points.csv")
gp.map_stack_to_surfaces(geo_model, {
"Fault_Series": 'fault',
"Strat_Series": ('rock2', 'rock1')
})
geo_model.set_is_fault(['Fault_Series'], change_color=False)
if change_color:
geo_model.surfaces.colors.change_colors({
"rock2": '#00c2d0',
'rock1': '#a43d00',
'basement': '#76a237',
'fault': '#000000'
})
elif name == 'Unconformity':
geo_model = gp.create_data(
name,
extent=extent,
resolution=resolution,
path_o=data_path + "model6_orientations.csv",
path_i=data_path + "model6_surface_points.csv")
gp.map_stack_to_surfaces(
geo_model, {
"Strat_Series1": ('rock3'),
"Strat_Series2": ('rock2', 'rock1'),
"Basement_Series": ('basement')
})
else:
raise NotImplementedError(name, "Not available in example models")
if do_sections:
geo_model.set_section_grid(
{'section' + ' ' + name: ([0, 500], [1000, 500], [30, 30])})
interp_data = gp.set_interpolator(
geo_model, # compile_theano=True,
theano_optimizer=theano_optimizer)
sol = gp.compute_model(geo_model, compute_mesh=False)
if do_sections:
gp.plot_2d(geo_model,
section_names=['section' + ' ' + name],
show_data=False)
return geo_model
imageio.mimsave('./hard1.mov', image_list2, fps=9)
# %%
# Plot 3D
# -------
#
# %%
geo_model.set_regular_grid(geo_model.grid.regular_grid.extent, [40, 20, 40])
# %%
geo_model.set_active_grid('regular', reset=True)
# %%
gp.set_interpolator(geo_model,
output=['geology'],
gradient=False,
theano_optimizer='fast_run')
# %%
gp.compute_model(geo_model)
# %%
import pyvista
pyvista.set_plot_theme('doc')
# %%
pv = gp._plot.plot_3d(geo_model,
plotter_type='background',
render_surfaces=False)
# %%
#
# %%
gp.map_stack_to_surfaces(geo_data,
{"Strat_Series": ('rock2', 'rock1'),
"Basement_Series": ('basement')})
# %%
gp.plot_2d(geo_data, direction=['y'])
# %%
# Calculating the model:
#
# %%
interp_data = gp.set_interpolator(geo_data, theano_optimizer='fast_compile')
# %%
sol = gp.compute_model(geo_data)
# %%
# Displaying the result in x and y direction:
#
# %%
gp.plot_2d(geo_data, cell_number=[25],
direction=['x'], show_data=True)
# %%
# sphinx_gallery_thumbnail_number = 3
gp.plot_2d(geo_data, cell_number=[25],
def extract_borehole(geo_model: gp.core.model.Project,
geo_data: gemgis.GemPyData, loc: List[Union[int, float]],
**kwargs):
"""
Extracting a borehole at a provided location from a recalculated GemPy Model
Args:
geo_model: gp.core.model.Project - previously calculated GemPy Model
geo_data: gemgis.GemPyData - GemGIS GemPy Data class used to calculate the previous model
loc: list of x and y point pair representing the well location
Kwargs:
zmax: int/float indicating the maximum depth of the well, default is minz of the previous model
res: int indicating the resolution of the model in z-direction
Returns:
"""
# Checking if geo_model is a GemPy geo_model
if not isinstance(geo_model, gp.core.model.Project):
raise TypeError('geo_model must be a GemPy geo_model')
# Checking if geo_data is a GemGIS GemPy Data Class
if not isinstance(geo_data, gemgis.GemPyData):
raise TypeError('geo_data must be a GemPy Data object')
# Checking if loc is of type list
if not isinstance(loc, list):
raise TypeError(
'Borehole location must be provided as a list of a x- and y- coordinate'
)
# Checking if elements of loc are of type int or float
if not all(isinstance(n, (int, float)) for n in loc):
raise TypeError(
'Location values must be provided as integers or floats')
# Selecting DataFrame columns and create deep copy of DataFrame
orientations_df = geo_model.orientations.df[[
'X', 'Y', 'Z', 'surface', 'dip', 'azimuth', 'polarity'
]].copy(deep=True)
interfaces_df = geo_model.surface_points.df[['X', 'Y', 'Z',
'surface']].copy(deep=True)
# Creating formation column
orientations_df['formation'] = orientations_df['surface']
interfaces_df['formation'] = interfaces_df['surface']
# Deleting surface column
del orientations_df['surface']
del interfaces_df['surface']
# Getting maximum depth and resolution
zmax = kwargs.get('zmax', geo_model.grid.regular_grid.extent[5])
res = kwargs.get('res', geo_model.grid.regular_grid.resolution[2])
# Checking if zmax is of type int or float
if not isinstance(zmax, (int, float)):
raise TypeError('Maximum depth must be of type int or float')
# Checking if res is of type int
if not isinstance(res, (int, float, np.int32)):
raise TypeError('Resolution must be of type int')
# Creating variable for maximum depth
z = geo_model.grid.regular_grid.extent[5] - zmax
# Prevent printing
# sys.stdout = open(os.devnull, 'w')
# Create GemPy Model
well_model = gp.create_model('Well_Model')
# Initiate Data for GemPy Model
gp.init_data(well_model,
extent=[
loc[0] - 5, loc[0] + 5, loc[1] - 5, loc[1] + 5,
geo_model.grid.regular_grid.extent[4],
geo_model.grid.regular_grid.extent[5] - z
],
resolution=[5, 5, res],
orientations_df=orientations_df.dropna(),
surface_points_df=interfaces_df.dropna(),
default_values=False)
# Map Stack to surfaces
gp.map_stack_to_surfaces(well_model,
geo_data.stack,
remove_unused_series=True)
# Add Basement surface
well_model.add_surfaces('basement')
# Change colors of surfaces
well_model.surfaces.colors.change_colors(geo_data.surface_colors)
# Set Interpolator
gp.set_interpolator(well_model,
compile_theano=True,
theano_optimizer='fast_run',
dtype='float64',
update_kriging=False,
verbose=[])
# Set faults active
for i in geo_model.surfaces.df[geo_model.surfaces.df['isFault'] ==
True]['surface'].values.tolist():
well_model.set_is_fault([i])
# Compute Model
sol = gp.compute_model(well_model, compute_mesh=False)
# Reshape lith_block
well = sol.lith_block.reshape(well_model.grid.regular_grid.resolution[0],
well_model.grid.regular_grid.resolution[1],
well_model.grid.regular_grid.resolution[2])
# Select colors for plotting
color_dict = well_model.surfaces.colors.colordict
surface = well_model.surfaces.df.copy(deep=True)
surfaces = surface[~surface['id'].isin(np.unique(np.round(sol.lith_block))
)]
for key in surfaces['surface'].values.tolist():
color_dict.pop(key)
cols = list(color_dict.values())
# Calculate boundaries
boundaries = np.where(
np.round(well.T[:, 1])[:-1] != np.round(well.T[:, 1])[1:]
)[0][::well_model.grid.regular_grid.resolution[0]]
# Create Plot
plt.figure(figsize=(3, 10))
plt.imshow(
np.rot90(np.round(well.T[:, 1]), 2),
cmap=ListedColormap(cols),
extent=(0, (well_model.grid.regular_grid.extent[5] -
well_model.grid.regular_grid.extent[4]) / 8,
well_model.grid.regular_grid.extent[4],
well_model.grid.regular_grid.extent[5]),
)
list_values = np.unique(np.round(well.T[:, 1])[:, 0]).tolist()
# Display depths of layer boundaries
for i in boundaries:
plt.text((well_model.grid.regular_grid.extent[5] -
well_model.grid.regular_grid.extent[4]) / 7,
i * geo_model.grid.regular_grid.dz +
geo_model.grid.regular_grid.extent[4] +
geo_model.grid.regular_grid.dz,
'%d m' % (i * geo_model.grid.regular_grid.dz +
geo_model.grid.regular_grid.extent[4]),
fontsize=14)
del list_values[list_values.index(np.round(well.T[:, 1])[:, 0][i + 1])]
# Plot last depth
plt.text(
(well_model.grid.regular_grid.extent[5] -
well_model.grid.regular_grid.extent[4]) / 7,
geo_model.grid.regular_grid.extent[4] + geo_model.grid.regular_grid.dz,
'%d m' % (geo_model.grid.regular_grid.extent[4]),
fontsize=14)
list_values = np.unique(np.round(well.T[:, 1])[:, 0]).tolist()
# Display lithology IDs
for i in boundaries:
plt.text((well_model.grid.regular_grid.extent[5] -
well_model.grid.regular_grid.extent[4]) / 24,
i * geo_model.grid.regular_grid.dz +
geo_model.grid.regular_grid.extent[4] +
2 * geo_model.grid.regular_grid.dz,
'ID: %d' % (np.round(well.T[:, 1])[:, 0][i + 1]),
fontsize=14)
del list_values[list_values.index(np.round(well.T[:, 1])[:, 0][i + 1])]
# Plot last ID
plt.text((well_model.grid.regular_grid.extent[5] -
well_model.grid.regular_grid.extent[4]) / 24,
geo_model.grid.regular_grid.extent[4] +
1 * geo_model.grid.regular_grid.dz,
'ID: %d' % (list_values[0]),
fontsize=14)
# Set legend handles
patches = [
mpatches.Patch(
color=cols[i],
label="{formation}".format(formation=surface[surface['id'].isin(
np.unique(np.round(sol.lith_block)))].surface.to_list()[i]))
for i in range(
len(surface[surface['id'].isin(np.unique(np.round(
sol.lith_block)))].surface.to_list()))
]
# Remove xticks
plt.tick_params(axis='x', labelsize=0, length=0)
# Set ylabel
plt.ylabel('Depth [m]')
# Set legend
plt.legend(handles=patches, bbox_to_anchor=(3, 1))
# Create depth dict
depth_dict = {
int(np.round(well.T[:, 1])[:, 0][i + 1]):
i * geo_model.grid.regular_grid.dz +
geo_model.grid.regular_grid.extent[4]
for i in boundaries
}
depth_dict[int(list_values[0])] = geo_model.grid.regular_grid.extent[4]
depth_dict = dict(sorted(depth_dict.items()))
return sol, well_model, depth_dict
# %%
# Check which series/faults are affected by other faults (rows offset
# columns):
#
# %%
geo_model.faults.faults_relations_df
# %%
# Now we are good to go:
#
# %%
gp.set_interpolator(geo_model, theano_optimizer='fast_run',
compile_theano=True)
# %%
gp.compute_model(geo_model)
# %%
sect = [35]
gp.plot_2d(geo_model, cell_number=sect, series_n=1, show_scalar=True, direction='x')
# %%
gp.plot_2d(geo_model, cell_number=sect, show_data=True, direction='x')
# %%
gp.plot_2d(geo_model, cell_number=[28], series_n=0, direction='y', show_scalar=True)
geo_model = gp.create_model('Model1')
geo_model = gp.init_data(geo_model,
extent=[0, 791, 0, 200, -582, 0],
resolution=[100, 10, 100])
# %%
# GemPy core code is written in Python. However for efficiency (and other
# reasons) most of heavy computations happend in optimize compile code,
# either C or CUDA for GPU. To do so, GemPy rely on the library theano. To
# guarantee maximum optimization theano requires to compile the code for
# every Python kernel. The compilation is done by calling the following
# line at any point (before computing the model):
#
# %%
gp.set_interpolator(geo_model, theano_optimizer='fast_compile', verbose=[])
# %%
# Creating figure:
# ~~~~~~~~~~~~~~~~
#
# GemPy uses matplotlib and pyvista-vtk libraries for 2d and 3d
# visualization of the model respectively. One of the design decisions of
# GemPy is to allow real time construction of the model. What this means
# is that you can start adding input data and see in real time how the 3D
# surfaces evolve. Lets initialize the visualization windows.
#
# The first one is the 2d figure. Just place the window where you can see
# it (maybe move the jupyter notebook to half screen and use the other
# half for the renderers).
#
