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| 1 | +{ |
| 2 | + "cells": [ |
| 3 | + { |
| 4 | + "cell_type": "code", |
| 5 | + "execution_count": null, |
| 6 | + "id": "2c36e403-7e73-47f2-a06b-75830ec7be39", |
| 7 | + "metadata": {}, |
| 8 | + "outputs": [], |
| 9 | + "source": [ |
| 10 | + "import numpy as np\n", |
| 11 | + "from scipy.fft import fftn, ifftn, fftshift\n", |
| 12 | + "import plotly.express as px\n", |
| 13 | + "import plotly.graph_objects as go\n", |
| 14 | + "from plotly.subplots import make_subplots" |
| 15 | + ] |
| 16 | + }, |
| 17 | + { |
| 18 | + "cell_type": "code", |
| 19 | + "execution_count": null, |
| 20 | + "id": "396e6242-f067-47f8-b0cd-7d228b25818a", |
| 21 | + "metadata": {}, |
| 22 | + "outputs": [], |
| 23 | + "source": [ |
| 24 | + "vol_size = (128, 128, 128)\n", |
| 25 | + "vol_centre = (vol_size[1] // 2, vol_size[2] // 2)\n", |
| 26 | + "offset = (10, 20)\n", |
| 27 | + "radius_inner = 10\n", |
| 28 | + "radius_outer = 40\n", |
| 29 | + "cylinder_base = np.zeros(vol_size)\n", |
| 30 | + "cylinder_internal = np.zeros(vol_size)\n", |
| 31 | + "\n", |
| 32 | + "x = np.arange(-vol_size[1]//2,vol_size[1]//2,dtype=float)\n", |
| 33 | + "y = x\n", |
| 34 | + "z = x\n", |
| 35 | + "X,Y,Z = np.meshgrid(x,y,z)\n", |
| 36 | + "\n", |
| 37 | + "cylinder_base[X**2+Y**2<=radius_outer**2] = 1\n", |
| 38 | + "\n", |
| 39 | + "cylinder_internal[(X-offset[0])**2+(Y-offset[1])**2<=radius_inner**2] += 0.1" |
| 40 | + ] |
| 41 | + }, |
| 42 | + { |
| 43 | + "cell_type": "code", |
| 44 | + "execution_count": null, |
| 45 | + "id": "2921239d-062b-4f50-bb5b-fd568be46e9d", |
| 46 | + "metadata": {}, |
| 47 | + "outputs": [], |
| 48 | + "source": [ |
| 49 | + "kx = X\n", |
| 50 | + "ky = Y\n", |
| 51 | + "kz = Z\n", |
| 52 | + "KK = (kx**2 + ky**2 + kz**2)\n", |
| 53 | + "KK[KK==0] = np.nan\n", |
| 54 | + "dipole_kernel = 2./3 - (kx**2)/(KK)\n", |
| 55 | + "dipole_kernel[(kx**2 + ky**2 + kz**2) == 0] = 0" |
| 56 | + ] |
| 57 | + }, |
| 58 | + { |
| 59 | + "cell_type": "code", |
| 60 | + "execution_count": null, |
| 61 | + "id": "aa56b729-59da-4fbb-b4cb-c9863d9ee04a", |
| 62 | + "metadata": {}, |
| 63 | + "outputs": [], |
| 64 | + "source": [ |
| 65 | + "fieldmap = np.real(ifftn(fftshift(dipole_kernel) * (fftn(cylinder_internal))))" |
| 66 | + ] |
| 67 | + }, |
| 68 | + { |
| 69 | + "cell_type": "code", |
| 70 | + "execution_count": null, |
| 71 | + "id": "17152f62-03e7-4d10-95a7-7ad3bae45c39", |
| 72 | + "metadata": {}, |
| 73 | + "outputs": [], |
| 74 | + "source": [ |
| 75 | + "idx = 64\n", |
| 76 | + "\n", |
| 77 | + "fig = make_subplots(rows=1, cols=3, shared_xaxes=False, horizontal_spacing=0.1,\n", |
| 78 | + " subplot_titles=(\"Geometry\",\n", |
| 79 | + " \"Dipole kernel\",\n", |
| 80 | + " \"Fieldmap\"),\n", |
| 81 | + " specs=[[{\"type\": \"Heatmap\"}, {\"type\": \"Heatmap\"}, {\"type\": \"Heatmap\"}]])\n", |
| 82 | + "fig.add_trace(go.Heatmap(z=cylinder_base[:,:,idx]+cylinder_internal[:,:,64], colorscale='gray'), 1, 1)\n", |
| 83 | + "fig.add_trace(go.Heatmap(z=dipole_kernel[:,:,idx], colorscale='gray'), 1, 2)\n", |
| 84 | + "fig.add_trace(go.Heatmap(z=fieldmap[:,:,idx], colorscale='gray'), 1, 3)\n", |
| 85 | + "fig.show()" |
| 86 | + ] |
| 87 | + }, |
| 88 | + { |
| 89 | + "cell_type": "code", |
| 90 | + "execution_count": null, |
| 91 | + "id": "97876e43-7be3-41d1-b725-c2ca14b66d94", |
| 92 | + "metadata": {}, |
| 93 | + "outputs": [], |
| 94 | + "source": [ |
| 95 | + "fig = go.Figure()\n", |
| 96 | + "\n", |
| 97 | + "for step in np.arange(10, 60, 20):\n", |
| 98 | + " fig.add_trace(\n", |
| 99 | + " go.Heatmap(\n", |
| 100 | + " visible=False,\n", |
| 101 | + " z=fieldmap*step % np.pi))\n", |
| 102 | + "\n", |
| 103 | + "fig.data[0].visible = True\n", |
| 104 | + "\n", |
| 105 | + "# Create and add slider\n", |
| 106 | + "steps = []\n", |
| 107 | + "for i in range(len(fig.data)):\n", |
| 108 | + " step = dict(\n", |
| 109 | + " method=\"update\",\n", |
| 110 | + " args=[{\"visible\": [False] * len(fig.data)},\n", |
| 111 | + " {\"title\": \"TE=\" + str(i) + \" ms\"}], # layout attribute\n", |
| 112 | + " )\n", |
| 113 | + " step[\"args\"][0][\"visible\"][i] = True # Toggle i'th trace to \"visible\"\n", |
| 114 | + " steps.append(step)\n", |
| 115 | + " \n", |
| 116 | + "print('ok')\n", |
| 117 | + "\n", |
| 118 | + "sliders = [dict(\n", |
| 119 | + " active=10,\n", |
| 120 | + " currentvalue={\"prefix\": \"Frequency: \"},\n", |
| 121 | + " pad={\"t\": 50},\n", |
| 122 | + " steps=steps\n", |
| 123 | + ")]\n", |
| 124 | + "\n", |
| 125 | + "fig.update_layout(\n", |
| 126 | + " sliders=sliders\n", |
| 127 | + ")\n", |
| 128 | + "\n", |
| 129 | + "fig.show()" |
| 130 | + ] |
| 131 | + } |
| 132 | + ], |
| 133 | + "metadata": { |
| 134 | + "kernelspec": { |
| 135 | + "display_name": "Python 3 (ipykernel)", |
| 136 | + "language": "python", |
| 137 | + "name": "python3" |
| 138 | + }, |
| 139 | + "language_info": { |
| 140 | + "name": "" |
| 141 | + } |
| 142 | + }, |
| 143 | + "nbformat": 4, |
| 144 | + "nbformat_minor": 5 |
| 145 | +} |
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