more tools for experiment assessment

data/tools/debug.py

@@ -8,6 +8,7 @@ import matplotlib.pyplot as plt
 from debug.outliers import outliers
 from debug.friction import truncated_friction
 from debug.state import aging_law
+from debug.diffplot import diffplot
 
 from support.maximum import maximum
 from support.norm import norm
@@ -16,6 +17,7 @@ from support.slip_beginnings import slip_beginnings
 from support.slip_endings import slip_endings
 from support.max_distance import max_distance
 
+from support.iterations import iterations
 
 NBODIES = 2
 FINAL_TIME = 15  # s
@@ -65,7 +67,7 @@ for body_ID in range(NBODIES):
         continue
 
     # velocity data
-    v = np.array(h5file[body + '/velocity'])
+    v = abs(np.array(h5file[body + '/velocity']))
 
     # statistics
     avg_v = np.average(v[:,:,TANGENTIAL_COORDS], axis=1)
@@ -124,6 +126,10 @@ for body_ID in range(NBODIES):
     plt.ylabel('friction coefficient')
     #-------------------------
 
+    diffplot(friction_coeff[1], friction_coeff_calc[1], 'diff friction coeff')
+
+    iterations(h5file, FINAL_TIME)
+
     plt.show()
 
 h5file.close()
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data/tools/debug/diffplot.py

+import numpy as np
+import matplotlib.pyplot as plt
+
+def diffplot(v1, v2, title):
+    v_diff = v1 - v2
+    t = np.linspace(0, len(v_diff)-1, len(v_diff), endpoint=True)
+
+    # plot
+    fig = plt.figure()
+    ax = fig.add_subplot(1, 1, 1)
+    ax.plot(t, v1, color='black', linestyle='--')
+    ax.plot(t, v2, color='gray', linestyle='--')
+    ax.plot(t, v_diff, color='red', linestyle='-')
+    ax.set_ylabel(title)
+    #-------------------------
+
+    fig.canvas.draw()
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data/tools/main.py

+import configparser as cp
+import os
+import numpy as np
+import csv
+import h5py
+import matplotlib.pyplot as plt
+
+from debug.outliers import outliers
+from debug.friction import truncated_friction
+from debug.state import aging_law
+from debug.diffplot import diffplot
+
+from support.maximum import maximum
+from support.norm import norm
+from support.find_quakes import find_quakes
+from support.slip_beginnings import slip_beginnings
+from support.slip_endings import slip_endings
+from support.max_distance import max_distance
+
+from support.iterations import iterations
+from support.friction_stats import friction_stats
+
+def build_patch(coords, percentage):
+    x_coords = coords[:, 0]
+    xmin = np.min(x_coords)
+    xmax = np.max(x_coords)
+    delta_x = (1 - percentage)*(xmax - xmin)/2
+
+    xmin = xmin + delta_x
+    xmax = xmax - delta_x
+
+    return [i for i in range(len(x_coords)) if x_coords[i]>=xmin and x_coords[i]<=xmax]
+
+
+NBODIES = 2
+FINAL_TIME = 15  # s
+FINAL_VELOCITY = 1e-5  # m/s
+THRESHOLD_VELOCITY = 0.5*FINAL_VELOCITY  # 1000e-6 + FINAL_VELOCITY
+
+TANGENTIAL_COORDS = 1
+
+# friction params
+params = {
+    'L'  : 1e-5,
+    'V0' : 1e-6,
+    'mu0': 0.6,
+    'a'  : 0.010,
+    'b'  : 0.015
+}
+
+# read config ini
+config = cp.ConfigParser()
+config_path = os.path.join('tools/config.ini')
+config.read(config_path)
+sim_path = config.get('directories', 'simulation')
+exp_path = config.get('directories', 'experiment')
+out_path = config.get('directories', 'output')
+
+# read hdf5 output file
+h5path = os.path.join(sim_path)
+h5file = h5py.File(os.path.join(h5path, 'output.h5'), 'r')
+
+print(list(h5file.keys()))
+print(list(h5file['body1'].keys()))
+
+iterations(h5file, FINAL_TIME)
+
+for body_ID in range(NBODIES):
+    body = 'body' + str(body_ID)
+
+    if body not in h5file:
+        continue
+
+    coords = np.array(h5file[body + '/coordinates'])
+    patch = build_patch(coords, 0.1)
+
+    friction_stats(h5file, body_ID, FINAL_TIME, patch, [])
+    
+plt.show()
+
+h5file.close()
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data/tools/support/friction_stats.py

+import numpy as np
+import matplotlib.pyplot as plt
+
+TANGENTIAL_COORDS = 1
+
+def friction_stats(h5file, body_ID, FINAL_TIME, patch=[], interval=[]):
+    body = 'body' + str(body_ID)
+
+    coords = np.array(h5file[body + '/coordinates'])
+    if len(patch) == 0:
+        patch = np.linspace(0, len(coords)-1, len(coords), endpoint=True, dtype='int8')
+
+    print(len(patch))
+
+    # read time
+    time = np.array(h5file['relativeTime']) * FINAL_TIME
+    time = np.delete(time, 0)
+    if len(interval) == 0:
+        interval = [0, FINAL_TIME]
+    t = [i for i in range(len(time)) if time[i]>=interval[0] and time[i]<=interval[1]]
+    time = time[t]
+
+    fig = plt.figure()
+
+    # velocity data
+    v = abs(np.array(h5file[body + '/velocity']))
+    v_t = v[t,:,TANGENTIAL_COORDS]
+    v_tx = v_t[:,patch]
+    # statistics
+    avg_v = np.average(v_tx, axis=1)
+    min_v = np.min(v_tx, axis=1)
+    max_v = np.max(v_tx, axis=1)
+    # plot
+    ax_slip = fig.add_subplot(3, 1, 1)
+    ax_slip.plot(time, min_v, color='gray', linestyle='--')
+    ax_slip.plot(time, avg_v, color='black', linestyle='-')
+    ax_slip.plot(time, max_v, color='gray', linestyle='--')
+    ax_slip.set_ylabel('slip rate')
+    #-------------------------
+
+    # state
+    states = np.array(h5file[body + '/state'])
+    states_t = states[t,:]
+    states_tx = states_t[:,patch]
+    # statistics
+    avg_states = np.average(states_tx, axis=1)
+    min_states = np.min(states_tx, axis=1)
+    max_states = np.max(states_tx, axis=1)
+    # plot
+    ax_state = fig.add_subplot(3, 1, 2)
+    ax_state.plot(time, min_states, color='gray', linestyle='--')
+    ax_state.plot(time, avg_states, color='black', linestyle='-')
+    ax_state.plot(time, max_states, color='gray', linestyle='--')
+    ax_state.set_ylabel('state')
+    #-------------------------
+
+    # friction coefficient
+    friction_coeff = np.array(h5file[body + '/coefficient'])
+    friction_coeff_t = friction_coeff[t,:]
+    friction_coeff_tx = friction_coeff_t[:,patch]
+    # statistics
+    avg_friction_coeff = np.average(friction_coeff_tx, axis=1)
+    min_friction_coeff = np.min(friction_coeff_tx, axis=1)
+    max_friction_coeff = np.max(friction_coeff_tx, axis=1)
+    # plot
+    ax_friction = fig.add_subplot(3, 1, 3)
+    ax_friction.plot(time, min_friction_coeff, color='gray', linestyle='--')
+    ax_friction.plot(time, avg_friction_coeff, color='black', linestyle='-')
+    ax_friction.plot(time, max_friction_coeff, color='gray', linestyle='--')
+    ax_friction.set_ylabel('friction coefficient')
+    #-------------------------
+
+    fig.canvas.draw()
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data/tools/support/iterations.py

+import numpy as np
+import matplotlib.pyplot as plt
+
+def iterations(h5file, FINAL_TIME, interval = []):
+
+    # read time steps
+    tau = np.array(h5file['relativeTimeIncrement']) * FINAL_TIME
+    tau = np.delete(tau, 0)
+
+    # read fpi iterations
+    fpi_final = np.array(h5file['iterations/fixedPoint/final'])
+    fpi_final = np.delete(fpi_final, 0)
+    #fpi_total = np.array(h5file['iterations/fixedPoint/total'])
+
+    # read multigrid iterations
+    multigrid_final = np.array(h5file['iterations/multiGrid/final'])
+    multigrid_final = np.delete(multigrid_final, 0)
+    #multigrid_total = np.array(h5file['iterations/multiGrid/total'])
+
+    if len(interval) == 0:
+        interval = [0, len(tau)-1]
+    t = np.linspace(interval[0], interval[1], interval[1]-interval[0]+1, endpoint=True, dtype='int8')
+
+     # plot
+    fig = plt.figure()
+
+    ax_fpi = fig.add_subplot(3, 1, 1)
+    ax_fpi.plot(t, fpi_final[t], color='black', linestyle='-')
+    ax_fpi.set_ylabel('fpi')
+    #-------------------------
+
+    ax_mg = fig.add_subplot(3, 1, 2)
+    ax_mg.plot(t, multigrid_final[t], color='black', linestyle='-')
+    ax_mg.set_ylabel('multigrid')
+    #-------------------------
+
+    ax_tau = fig.add_subplot(3, 1, 3)
+    ax_tau.plot(t, tau[t], color='black', linestyle='-')
+    ax_tau.set_ylabel('tau')
+    #-------------------------
+
+    fig.canvas.draw()
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