# -*- coding: utf-8 -*- """ @author: Kevin Renehan """ #%% Load the file import numpy as np import matplotlib.pyplot as plt # Map locations numbers to ROI positions location_to_position = { 1: (-8, 8), \ 2: (0, 8), \ 3: (8, 8), \ 4: (-8, 0), \ 5: (0, 0), \ 6: (8, 0), \ 7: (-8, -8), \ 8: (0, -8), \ 9: (8, -8), \ } # Create depth axis based on heights number_of_locations = 9 locations = np.arange(number_of_locations)+1 #%% Load data npz = np.load('moment_changes.npz') contrast = npz['contrast'] mean_time = npz['mean_time'] laplace = npz['laplace'] #%% Figure 4B plots def cylinder(center_x,center_y,radius,height_z): z = np.linspace(0, height_z, 50) theta = np.linspace(0, 2*np.pi, 50) theta_grid, z_grid=np.meshgrid(theta, z) x_grid = radius*np.cos(theta_grid) + center_x y_grid = radius*np.sin(theta_grid) + center_y return x_grid,y_grid,z_grid from matplotlib.patches import Circle, Rectangle import mpl_toolkits.mplot3d.art3d as art3d no_background = True plt.close('all') plt.style.use('default') plt.rcParams['axes.labelsize'] = 12 plt.rcParams['font.sans-serif'] = 'Arial' plt.rcParams['lines.linewidth'] = 3 plt.rcParams['savefig.dpi'] = 600 plt.rcParams['lines.markersize'] = 6 legendsize=14 xpos_arr = np.array([np.arange(-12, 12+8, 8)[::-1] for i in range(4)]).reshape(16) ypos_arr = np.array([12, 12, 12, 12, 4, 4, 4, 4, -4, -4, -4, -4, -12, -12, -12, -12]) # Sources and detectors to plot s_to_plot = [0, 3] d_to_plot = np.arange(16) loc_to_plot = [1,9] m_to_plot = [0,1,3] w_to_plot = [0] loc_to_plot = np.array([np.where(locations==l)[0][0] for l in loc_to_plot]) color_list = ['#1f77b4', '#ff7f0e', '#2ca02c', '#d62728'] dx = 0.8 dy = 0.8 offset_x = dx + 0.05 offset_y = dy + 0.05 source_size = 1 # Plot for l in loc_to_plot: for w in w_to_plot: for s in s_to_plot: # Create figure - fig = plt.figure() ax = plt.axes(projection='3d') ax.set_xlabel('X Position (cm)') ax.set_ylabel('Y Position (cm)') ax.set_zlabel('Sensitivity Change') xticks=np.arange(-20, 20+10, 10) yticks=np.arange(-20, 20+10, 10) ax.set_xticks(xticks) ax.set_yticks(yticks) ax.set_xticklabels([str(xt/10) for xt in xticks]) ax.set_yticklabels([str(yt/10) for yt in yticks]) ax.set_xlim([min(xticks)*1.05, max(xticks)*1.05]) ax.set_ylim([min(yticks)*1.05, max(yticks)*1.05]) ax.view_init(elev=30, azim=53) for d in d_to_plot: # Norm norm0 = -1 norm1 = -1 norm3 = -1 # Find the largest thing to plot m0p = contrast[l][s][w][d]/norm0 * 100 m1p = mean_time[l][s][w][d]/norm1 * 100 m3p = laplace[l][s][w][d]/norm3 * 100 # Defaults m0_offset_x = offset_x m0_offset_y = -offset_y m1_offset_x = 0 m1_offset_y = 0 m3_offset_x = -offset_x m3_offset_y = offset_y if d == s: source_circle = Circle((xpos_arr[d], ypos_arr[d]), 2, facecolor='darkred', alpha=1, edgecolor='k') ax.add_patch(source_circle) art3d.pathpatch_2d_to_3d(source_circle, z=0, zdir="z") else: # Plot positive values linestyle = '-' if (m0p>0) else ':' ax.bar3d(xpos_arr[d]+m0_offset_x-dx, ypos_arr[d]+m0_offset_y-dy, 0, dx, dy, np.abs(m0p), alpha=1, color=color_list[0], edgecolor='k', shade=False, linestyle=linestyle) m0_proxy = Rectangle((0, 0), 1, 1, fc=color_list[0], edgecolor='k') linestyle = '-' if (m1p>0) else ':' ax.bar3d(xpos_arr[d]+m1_offset_x-dx, ypos_arr[d]+m1_offset_y-dy, 0, dx, dy, np.abs(m1p), alpha=1, color=color_list[1], edgecolor='k', shade=False, linestyle=linestyle) m1_proxy = Rectangle((0, 0), 1, 1, fc=color_list[1], edgecolor='k') linestyle = '-' if (m3p>0) else ':' ax.bar3d(xpos_arr[d]+m3_offset_x-dx, ypos_arr[d]+m3_offset_y-dy, 0, dx, dy, np.abs(m3p), alpha=1, color=color_list[2], edgecolor='k', shade=False, linestyle=linestyle) m3_proxy = Rectangle((0, 0), 1, 1, fc=color_list[2], edgecolor='k') # Plot a cylinder ax.set_zlim((0, 5*1.1)) cylinder_radius = 2.5 cylinder_height = (ax.get_zlim()[1] - ax.get_zlim()[0]) / (ax.get_xlim()[1] - ax.get_xlim()[0]) * cylinder_radius*2 cylinder_offset = ax.get_zlim()[1] Xc,Yc,Zc = cylinder(location_to_position[locations[l]][0],location_to_position[locations[l]][1],cylinder_radius,cylinder_height) ax.plot_surface(Xc, Yc, Zc+cylinder_offset, alpha=0.5, color='k') floor = plt.Circle((location_to_position[locations[l]][0], location_to_position[locations[l]][1]), cylinder_radius, color='k', alpha=0.5) ceiling = plt.Circle((location_to_position[locations[l]][0], location_to_position[locations[l]][1]), cylinder_radius, color='k', alpha=0.5) ax.add_patch(floor) ax.add_patch(ceiling) art3d.pathpatch_2d_to_3d(floor, z=cylinder_offset, zdir="z") art3d.pathpatch_2d_to_3d(ceiling, z=cylinder_offset+cylinder_height, zdir="z") # Plot a circular projection of the ROI onto the z=0 plane roi_projection_circle = Circle((location_to_position[locations[l]][0],location_to_position[locations[l]][1]), cylinder_radius, color='k', alpha=0.5) ax.add_patch(roi_projection_circle) art3d.pathpatch_2d_to_3d(roi_projection_circle, z=0, zdir="z") zt = np.arange(0, 5+1, 1) ax.set_zticks(zt) ax.set_zticklabels([str(tick)+"%" for tick in zt]) # Add array outline device = plt.Rectangle((-40/2,-40/2), 40, 40, edgecolor=(0,0,0,1), facecolor=(1,1,1,0), linewidth=2) ax.add_patch(device) art3d.pathpatch_2d_to_3d(device, z=0, zdir="z") # Add the cable device = plt.Rectangle((-40/2-20, -10), 20, 20, edgecolor=(0,0,0,1), facecolor=(1,1,1,0), linewidth=2) ax.add_patch(device) art3d.pathpatch_2d_to_3d(device, z=0, zdir="z") # Add the pinholes for i, x, y in zip(range(len(xpos_arr)), xpos_arr, ypos_arr): if s == i: continue device = plt.Rectangle((x-2, y-2), 4, 4, facecolor=(0,0,0,.15), edgecolor='k', linewidth=2) ax.add_patch(device) art3d.pathpatch_2d_to_3d(device, z=0, zdir="z")