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| a | b/interpolate-scans.ipynb | ||
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| 1 | { |
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| 2 | "cells": [ |
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| 3 | { |
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| 4 | "cell_type": "markdown", |
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| 5 | "metadata": {}, |
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| 6 | "source": [ |
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| 7 | "## Interpolate scans so that all have same number of slices" |
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| 8 | ] |
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| 9 | }, |
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| 10 | { |
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| 11 | "cell_type": "code", |
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| 12 | "execution_count": 10, |
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| 13 | "metadata": {}, |
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| 14 | "outputs": [], |
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| 15 | "source": [ |
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| 16 | "import numpy as np\n", |
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| 17 | "from scipy import ndimage as nd\n", |
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| 18 | "import os" |
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| 19 | ] |
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| 20 | }, |
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| 21 | { |
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| 22 | "cell_type": "code", |
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| 23 | "execution_count": 5, |
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| 24 | "metadata": {}, |
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| 25 | "outputs": [ |
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| 26 | { |
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| 27 | "name": "stdout", |
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| 28 | "output_type": "stream", |
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| 29 | "text": [ |
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| 30 | "\u001b[01;34m..\u001b[00m\r\n", |
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| 31 | "├── \u001b[01;34mdata\u001b[00m\r\n", |
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| 32 | "│ ├── \u001b[01;34mtrain\u001b[00m\r\n", |
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| 33 | "│ │ ├── \u001b[01;34maxial\u001b[00m\r\n", |
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| 34 | "│ │ ├── \u001b[01;34mcoronal\u001b[00m\r\n", |
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| 35 | "│ │ └── \u001b[01;34msagittal\u001b[00m\r\n", |
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| 36 | "│ └── \u001b[01;34mvalid\u001b[00m\r\n", |
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| 37 | "│ ├── \u001b[01;34maxial\u001b[00m\r\n", |
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| 38 | "│ ├── \u001b[01;34mcoronal\u001b[00m\r\n", |
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| 39 | "│ └── \u001b[01;34msagittal\u001b[00m\r\n", |
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| 40 | "├── \u001b[01;34mdata24\u001b[00m\r\n", |
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| 41 | "│ ├── \u001b[01;34mtrain\u001b[00m\r\n", |
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| 42 | "│ │ ├── \u001b[01;34maxial\u001b[00m\r\n", |
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| 43 | "│ │ ├── \u001b[01;34mcoronal\u001b[00m\r\n", |
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| 44 | "│ │ └── \u001b[01;34msagittal\u001b[00m\r\n", |
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| 45 | "│ └── \u001b[01;34mvalid\u001b[00m\r\n", |
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| 46 | "│ ├── \u001b[01;34maxial\u001b[00m\r\n", |
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| 47 | "│ ├── \u001b[01;34mcoronal\u001b[00m\r\n", |
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| 48 | "│ └── \u001b[01;34msagittal\u001b[00m\r\n", |
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| 49 | "└── \u001b[01;34mmrnet-fastai\u001b[00m\r\n", |
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| 50 | " ├── \u001b[01;34m__pycache__\u001b[00m\r\n", |
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| 51 | " ├── \u001b[01;34mexp\u001b[00m\r\n", |
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| 52 | " ├── \u001b[01;34mmodels\u001b[00m\r\n", |
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| 53 | " └── \u001b[01;34mpaper-code\u001b[00m\r\n", |
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| 54 | " └── \u001b[01;34mMRNet-master\u001b[00m\r\n", |
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| 55 | "\r\n", |
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| 56 | "24 directories\r\n" |
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| 57 | ] |
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| 58 | } |
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| 59 | ], |
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| 60 | "source": [ |
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| 61 | "! tree -d .." |
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| 62 | ] |
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| 63 | }, |
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| 64 | { |
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| 65 | "cell_type": "code", |
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| 66 | "execution_count": 17, |
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| 67 | "metadata": {}, |
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| 68 | "outputs": [ |
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| 69 | { |
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| 70 | "data": { |
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| 71 | "text/plain": [ |
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| 72 | "True" |
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| 73 | ] |
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| 74 | }, |
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| 75 | "execution_count": 17, |
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| 76 | "metadata": {}, |
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| 77 | "output_type": "execute_result" |
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| 78 | } |
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| 79 | ], |
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| 80 | "source": [ |
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| 81 | "os.listdir('../data/train/axial')[0][-4:]=='.npy'" |
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| 82 | ] |
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| 83 | }, |
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| 84 | { |
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| 85 | "cell_type": "markdown", |
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| 86 | "metadata": {}, |
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| 87 | "source": [ |
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| 88 | "Copy data to another directory, for example `/data24`, for 24 slices per scan. " |
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| 89 | ] |
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| 90 | }, |
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| 91 | { |
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| 92 | "cell_type": "code", |
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| 93 | "execution_count": 4, |
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| 94 | "metadata": {}, |
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| 95 | "outputs": [], |
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| 96 | "source": [ |
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| 97 | "#! cp -R ../data ../data24" |
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| 98 | ] |
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| 99 | }, |
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| 100 | { |
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| 101 | "cell_type": "markdown", |
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| 102 | "metadata": {}, |
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| 103 | "source": [ |
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| 104 | "Recurse through /train and /valid directories, load the scan file (.npy), interpolate to 24 slices and overwrite." |
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| 105 | ] |
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| 106 | }, |
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| 107 | { |
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| 108 | "cell_type": "code", |
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| 109 | "execution_count": 26, |
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| 110 | "metadata": {}, |
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| 111 | "outputs": [ |
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| 112 | { |
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| 113 | "name": "stdout", |
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| 114 | "output_type": "stream", |
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| 115 | "text": [ |
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| 116 | "Found 50 .npy files in ../data24/train/axial\n", |
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| 117 | "Converting ../data24/train/axial/0032.npy\n", |
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| 118 | "Number of slices for this scan: 24\n", |
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| 119 | "Interpolation factors for this scan: [1.0, 1.0, 1.0]\n", |
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| 120 | "Converting ../data24/train/axial/0026.npy\n", |
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| 121 | "Number of slices for this scan: 39\n", |
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| 122 | "Interpolation factors for this scan: [0.6153846153846154, 1.0, 1.0]\n", |
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| 123 | "Converting ../data24/train/axial/0027.npy\n", |
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| 124 | "Number of slices for this scan: 22\n", |
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| 125 | "Interpolation factors for this scan: [1.0909090909090908, 1.0, 1.0]\n", |
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| 126 | "Converting ../data24/train/axial/0033.npy\n", |
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| 127 | "Number of slices for this scan: 45\n", |
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| 128 | "Interpolation factors for this scan: [0.5333333333333333, 1.0, 1.0]\n", |
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| 129 | "Converting ../data24/train/axial/0019.npy\n", |
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| 130 | "Number of slices for this scan: 38\n", |
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| 131 | "Interpolation factors for this scan: [0.631578947368421, 1.0, 1.0]\n", |
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| 132 | "Converting ../data24/train/axial/0025.npy\n", |
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| 133 | "Number of slices for this scan: 24\n", |
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| 134 | "Interpolation factors for this scan: [1.0, 1.0, 1.0]\n", |
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| 135 | "Converting ../data24/train/axial/0031.npy\n", |
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| 136 | "Number of slices for this scan: 51\n", |
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| 137 | "Interpolation factors for this scan: [0.47058823529411764, 1.0, 1.0]\n", |
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| 138 | "Converting ../data24/train/axial/0030.npy\n", |
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| 139 | "Number of slices for this scan: 40\n", |
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| 140 | "Interpolation factors for this scan: [0.6, 1.0, 1.0]\n", |
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| 141 | "Converting ../data24/train/axial/0024.npy\n", |
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| 142 | "Number of slices for this scan: 38\n", |
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| 143 | "Interpolation factors for this scan: [0.631578947368421, 1.0, 1.0]\n", |
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| 144 | "Converting ../data24/train/axial/0018.npy\n", |
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| 145 | "Number of slices for this scan: 30\n", |
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| 146 | "Interpolation factors for this scan: [0.8, 1.0, 1.0]\n", |
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| 147 | "Converting ../data24/train/axial/0020.npy\n", |
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| 148 | "Number of slices for this scan: 36\n", |
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| 149 | "Interpolation factors for this scan: [0.6666666666666666, 1.0, 1.0]\n", |
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| 150 | "Converting ../data24/train/axial/0034.npy\n", |
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| 151 | "Number of slices for this scan: 39\n", |
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| 152 | "Interpolation factors for this scan: [0.6153846153846154, 1.0, 1.0]\n", |
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| 153 | "Converting ../data24/train/axial/0008.npy\n", |
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| 154 | "Number of slices for this scan: 38\n", |
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| 155 | "Interpolation factors for this scan: [0.631578947368421, 1.0, 1.0]\n", |
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| 156 | "Converting ../data24/train/axial/0009.npy\n", |
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| 157 | "Number of slices for this scan: 34\n", |
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| 158 | "Interpolation factors for this scan: [0.7058823529411765, 1.0, 1.0]\n", |
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| 159 | "Converting ../data24/train/axial/0035.npy\n", |
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| 160 | "Number of slices for this scan: 40\n", |
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| 161 | "Interpolation factors for this scan: [0.6, 1.0, 1.0]\n", |
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| 162 | "Converting ../data24/train/axial/0021.npy\n", |
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| 163 | "Number of slices for this scan: 32\n", |
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| 164 | "Interpolation factors for this scan: [0.75, 1.0, 1.0]\n", |
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| 165 | "Converting ../data24/train/axial/0037.npy\n", |
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| 166 | "Number of slices for this scan: 26\n", |
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| 167 | "Interpolation factors for this scan: [0.9230769230769231, 1.0, 1.0]\n", |
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| 168 | "Converting ../data24/train/axial/0023.npy\n", |
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| 169 | "Number of slices for this scan: 36\n", |
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| 170 | "Interpolation factors for this scan: [0.6666666666666666, 1.0, 1.0]\n", |
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| 171 | "Converting ../data24/train/axial/0022.npy\n", |
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| 172 | "Number of slices for this scan: 36\n", |
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| 173 | "Interpolation factors for this scan: [0.6666666666666666, 1.0, 1.0]\n", |
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| 174 | "Converting ../data24/train/axial/0036.npy\n", |
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| 175 | "Number of slices for this scan: 26\n", |
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| 176 | "Interpolation factors for this scan: [0.9230769230769231, 1.0, 1.0]\n", |
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| 177 | "Converting ../data24/train/axial/0045.npy\n", |
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| 178 | "Number of slices for this scan: 46\n", |
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| 179 | "Interpolation factors for this scan: [0.5217391304347826, 1.0, 1.0]\n", |
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| 180 | "Converting ../data24/train/axial/0044.npy\n", |
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| 181 | "Number of slices for this scan: 24\n", |
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| 182 | "Interpolation factors for this scan: [1.0, 1.0, 1.0]\n", |
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| 183 | "Converting ../data24/train/axial/0046.npy\n", |
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| 184 | "Number of slices for this scan: 32\n", |
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| 185 | "Interpolation factors for this scan: [0.75, 1.0, 1.0]\n", |
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| 186 | "Converting ../data24/train/axial/0047.npy\n", |
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| 187 | "Number of slices for this scan: 24\n", |
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| 188 | "Interpolation factors for this scan: [1.0, 1.0, 1.0]\n", |
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| 189 | "Converting ../data24/train/axial/0043.npy\n", |
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| 190 | "Number of slices for this scan: 44\n", |
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| 191 | "Interpolation factors for this scan: [0.5454545454545454, 1.0, 1.0]\n", |
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| 192 | "Converting ../data24/train/axial/0042.npy\n", |
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| 193 | "Number of slices for this scan: 38\n", |
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| 194 | "Interpolation factors for this scan: [0.631578947368421, 1.0, 1.0]\n", |
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| 195 | "Converting ../data24/train/axial/0040.npy\n", |
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| 196 | "Number of slices for this scan: 29\n", |
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| 197 | "Interpolation factors for this scan: [0.8275862068965517, 1.0, 1.0]\n", |
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| 198 | "Converting ../data24/train/axial/0041.npy\n", |
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| 199 | "Number of slices for this scan: 40\n", |
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| 200 | "Interpolation factors for this scan: [0.6, 1.0, 1.0]\n", |
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| 201 | "Converting ../data24/train/axial/0049.npy\n", |
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| 202 | "Number of slices for this scan: 40\n", |
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| 203 | "Interpolation factors for this scan: [0.6, 1.0, 1.0]\n", |
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| 204 | "Converting ../data24/train/axial/0048.npy\n", |
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| 205 | "Number of slices for this scan: 34\n", |
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| 206 | "Interpolation factors for this scan: [0.7058823529411765, 1.0, 1.0]\n", |
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| 207 | "Converting ../data24/train/axial/0013.npy\n", |
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| 208 | "Number of slices for this scan: 39\n", |
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| 209 | "Interpolation factors for this scan: [0.6153846153846154, 1.0, 1.0]\n", |
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| 210 | "Converting ../data24/train/axial/0007.npy\n", |
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| 211 | "Number of slices for this scan: 32\n", |
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| 212 | "Interpolation factors for this scan: [0.75, 1.0, 1.0]\n", |
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| 213 | "Converting ../data24/train/axial/0006.npy\n", |
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| 214 | "Number of slices for this scan: 29\n", |
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| 215 | "Interpolation factors for this scan: [0.8275862068965517, 1.0, 1.0]\n", |
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| 216 | "Converting ../data24/train/axial/0012.npy\n", |
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| 217 | "Number of slices for this scan: 46\n", |
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| 218 | "Interpolation factors for this scan: [0.5217391304347826, 1.0, 1.0]\n", |
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| 219 | "Converting ../data24/train/axial/0038.npy\n", |
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| 220 | "Number of slices for this scan: 38\n", |
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| 221 | "Interpolation factors for this scan: [0.631578947368421, 1.0, 1.0]\n", |
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| 222 | "Converting ../data24/train/axial/0004.npy\n", |
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| 223 | "Number of slices for this scan: 40\n", |
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| 224 | "Interpolation factors for this scan: [0.6, 1.0, 1.0]\n", |
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| 225 | "Converting ../data24/train/axial/0010.npy\n", |
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| 226 | "Number of slices for this scan: 38\n", |
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| 227 | "Interpolation factors for this scan: [0.631578947368421, 1.0, 1.0]\n", |
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| 228 | "Converting ../data24/train/axial/0011.npy\n", |
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| 229 | "Number of slices for this scan: 44\n", |
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| 230 | "Interpolation factors for this scan: [0.5454545454545454, 1.0, 1.0]\n", |
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| 231 | "Converting ../data24/train/axial/0005.npy\n", |
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| 232 | "Number of slices for this scan: 41\n", |
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| 233 | "Interpolation factors for this scan: [0.5853658536585366, 1.0, 1.0]\n", |
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| 234 | "Converting ../data24/train/axial/0039.npy\n", |
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| 235 | "Number of slices for this scan: 36\n", |
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| 236 | "Interpolation factors for this scan: [0.6666666666666666, 1.0, 1.0]\n", |
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| 237 | "Converting ../data24/train/axial/0001.npy\n", |
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| 238 | "Number of slices for this scan: 30\n", |
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| 239 | "Interpolation factors for this scan: [0.8, 1.0, 1.0]\n", |
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| 240 | "Converting ../data24/train/axial/0015.npy\n", |
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| 241 | "Number of slices for this scan: 32\n", |
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| 242 | "Interpolation factors for this scan: [0.75, 1.0, 1.0]\n", |
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| 243 | "Converting ../data24/train/axial/0029.npy\n", |
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| 244 | "Number of slices for this scan: 45\n", |
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| 245 | "Interpolation factors for this scan: [0.5333333333333333, 1.0, 1.0]\n", |
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| 246 | "Converting ../data24/train/axial/0028.npy\n", |
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| 247 | "Number of slices for this scan: 33\n", |
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| 248 | "Interpolation factors for this scan: [0.7272727272727273, 1.0, 1.0]\n", |
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| 249 | "Converting ../data24/train/axial/0014.npy\n", |
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| 250 | "Number of slices for this scan: 24\n", |
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| 251 | "Interpolation factors for this scan: [1.0, 1.0, 1.0]\n", |
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| 252 | "Converting ../data24/train/axial/0000.npy\n", |
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| 253 | "Number of slices for this scan: 44\n", |
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| 254 | "Interpolation factors for this scan: [0.5454545454545454, 1.0, 1.0]\n", |
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| 255 | "Converting ../data24/train/axial/0016.npy\n", |
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| 256 | "Number of slices for this scan: 48\n", |
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| 257 | "Interpolation factors for this scan: [0.5, 1.0, 1.0]\n", |
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| 258 | "Converting ../data24/train/axial/0002.npy\n", |
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| 259 | "Number of slices for this scan: 38\n", |
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| 260 | "Interpolation factors for this scan: [0.631578947368421, 1.0, 1.0]\n", |
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| 261 | "Converting ../data24/train/axial/0003.npy\n", |
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| 262 | "Number of slices for this scan: 33\n", |
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| 263 | "Interpolation factors for this scan: [0.7272727272727273, 1.0, 1.0]\n", |
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| 264 | "Converting ../data24/train/axial/0017.npy\n", |
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| 265 | "Number of slices for this scan: 25\n", |
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| 266 | "Interpolation factors for this scan: [0.96, 1.0, 1.0]\n", |
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| 267 | "===============================\n", |
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| 268 | "===============================\n", |
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| 269 | "Found 50 .npy files in ../data24/train/coronal\n", |
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| 270 | "Converting ../data24/train/coronal/0032.npy\n", |
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| 271 | "Number of slices for this scan: 31\n", |
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| 272 | "Interpolation factors for this scan: [0.7741935483870968, 1.0, 1.0]\n", |
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| 273 | "Converting ../data24/train/coronal/0026.npy\n", |
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| 274 | "Number of slices for this scan: 42\n", |
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| 275 | "Interpolation factors for this scan: [0.5714285714285714, 1.0, 1.0]\n", |
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| 276 | "Converting ../data24/train/coronal/0027.npy\n", |
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| 277 | "Number of slices for this scan: 28\n", |
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| 278 | "Interpolation factors for this scan: [0.8571428571428571, 1.0, 1.0]\n", |
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| 279 | "Converting ../data24/train/coronal/0033.npy\n", |
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| 280 | "Number of slices for this scan: 41\n", |
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| 281 | "Interpolation factors for this scan: [0.5853658536585366, 1.0, 1.0]\n", |
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| 282 | "Converting ../data24/train/coronal/0019.npy\n", |
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| 283 | "Number of slices for this scan: 32\n", |
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| 284 | "Interpolation factors for this scan: [0.75, 1.0, 1.0]\n", |
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| 285 | "Converting ../data24/train/coronal/0025.npy\n", |
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| 286 | "Number of slices for this scan: 20\n", |
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| 287 | "Interpolation factors for this scan: [1.2, 1.0, 1.0]\n", |
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| 288 | "Converting ../data24/train/coronal/0031.npy\n", |
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| 289 | "Number of slices for this scan: 35\n", |
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| 290 | "Interpolation factors for this scan: [0.6857142857142857, 1.0, 1.0]\n", |
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| 291 | "Converting ../data24/train/coronal/0030.npy\n", |
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| 292 | "Number of slices for this scan: 36\n", |
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| 293 | "Interpolation factors for this scan: [0.6666666666666666, 1.0, 1.0]\n" |
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| 294 | ] |
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| 295 | }, |
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| 296 | { |
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| 297 | "name": "stdout", |
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| 298 | "output_type": "stream", |
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| 299 | "text": [ |
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| 300 | "Converting ../data24/train/coronal/0024.npy\n", |
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| 301 | "Number of slices for this scan: 37\n", |
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| 302 | "Interpolation factors for this scan: [0.6486486486486487, 1.0, 1.0]\n", |
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| 303 | "Converting ../data24/train/coronal/0018.npy\n", |
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| 304 | "Number of slices for this scan: 22\n", |
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| 305 | "Interpolation factors for this scan: [1.0909090909090908, 1.0, 1.0]\n", |
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| 306 | "Converting ../data24/train/coronal/0020.npy\n", |
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| 307 | "Number of slices for this scan: 20\n", |
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| 308 | "Interpolation factors for this scan: [1.2, 1.0, 1.0]\n", |
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| 309 | "Converting ../data24/train/coronal/0034.npy\n", |
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| 310 | "Number of slices for this scan: 42\n", |
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| 311 | "Interpolation factors for this scan: [0.5714285714285714, 1.0, 1.0]\n", |
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| 312 | "Converting ../data24/train/coronal/0008.npy\n", |
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| 313 | "Number of slices for this scan: 38\n", |
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| 314 | "Interpolation factors for this scan: [0.631578947368421, 1.0, 1.0]\n", |
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| 315 | "Converting ../data24/train/coronal/0009.npy\n", |
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| 316 | "Number of slices for this scan: 27\n", |
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| 317 | "Interpolation factors for this scan: [0.8888888888888888, 1.0, 1.0]\n", |
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| 318 | "Converting ../data24/train/coronal/0035.npy\n", |
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| 319 | "Number of slices for this scan: 34\n", |
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| 320 | "Interpolation factors for this scan: [0.7058823529411765, 1.0, 1.0]\n", |
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| 321 | "Converting ../data24/train/coronal/0021.npy\n", |
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| 322 | "Number of slices for this scan: 20\n", |
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| 323 | "Interpolation factors for this scan: [1.2, 1.0, 1.0]\n", |
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| 324 | "Converting ../data24/train/coronal/0037.npy\n", |
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| 325 | "Number of slices for this scan: 22\n", |
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| 326 | "Interpolation factors for this scan: [1.0909090909090908, 1.0, 1.0]\n", |
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| 327 | "Converting ../data24/train/coronal/0023.npy\n", |
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| 328 | "Number of slices for this scan: 36\n", |
||
| 329 | "Interpolation factors for this scan: [0.6666666666666666, 1.0, 1.0]\n", |
||
| 330 | "Converting ../data24/train/coronal/0022.npy\n", |
||
| 331 | "Number of slices for this scan: 30\n", |
||
| 332 | "Interpolation factors for this scan: [0.8, 1.0, 1.0]\n", |
||
| 333 | "Converting ../data24/train/coronal/0036.npy\n", |
||
| 334 | "Number of slices for this scan: 24\n", |
||
| 335 | "Interpolation factors for this scan: [1.0, 1.0, 1.0]\n", |
||
| 336 | "Converting ../data24/train/coronal/0045.npy\n", |
||
| 337 | "Number of slices for this scan: 40\n", |
||
| 338 | "Interpolation factors for this scan: [0.6, 1.0, 1.0]\n", |
||
| 339 | "Converting ../data24/train/coronal/0044.npy\n", |
||
| 340 | "Number of slices for this scan: 21\n", |
||
| 341 | "Interpolation factors for this scan: [1.1428571428571428, 1.0, 1.0]\n", |
||
| 342 | "Converting ../data24/train/coronal/0046.npy\n", |
||
| 343 | "Number of slices for this scan: 18\n", |
||
| 344 | "Interpolation factors for this scan: [1.3333333333333333, 1.0, 1.0]\n", |
||
| 345 | "Converting ../data24/train/coronal/0047.npy\n", |
||
| 346 | "Number of slices for this scan: 18\n", |
||
| 347 | "Interpolation factors for this scan: [1.3333333333333333, 1.0, 1.0]\n", |
||
| 348 | "Converting ../data24/train/coronal/0043.npy\n", |
||
| 349 | "Number of slices for this scan: 46\n", |
||
| 350 | "Interpolation factors for this scan: [0.5217391304347826, 1.0, 1.0]\n", |
||
| 351 | "Converting ../data24/train/coronal/0042.npy\n", |
||
| 352 | "Number of slices for this scan: 34\n", |
||
| 353 | "Interpolation factors for this scan: [0.7058823529411765, 1.0, 1.0]\n", |
||
| 354 | "Converting ../data24/train/coronal/0040.npy\n", |
||
| 355 | "Number of slices for this scan: 20\n", |
||
| 356 | "Interpolation factors for this scan: [1.2, 1.0, 1.0]\n", |
||
| 357 | "Converting ../data24/train/coronal/0041.npy\n", |
||
| 358 | "Number of slices for this scan: 37\n", |
||
| 359 | "Interpolation factors for this scan: [0.6486486486486487, 1.0, 1.0]\n", |
||
| 360 | "Converting ../data24/train/coronal/0049.npy\n", |
||
| 361 | "Number of slices for this scan: 30\n", |
||
| 362 | "Interpolation factors for this scan: [0.8, 1.0, 1.0]\n", |
||
| 363 | "Converting ../data24/train/coronal/0048.npy\n", |
||
| 364 | "Number of slices for this scan: 30\n", |
||
| 365 | "Interpolation factors for this scan: [0.8, 1.0, 1.0]\n", |
||
| 366 | "Converting ../data24/train/coronal/0013.npy\n", |
||
| 367 | "Number of slices for this scan: 36\n", |
||
| 368 | "Interpolation factors for this scan: [0.6666666666666666, 1.0, 1.0]\n", |
||
| 369 | "Converting ../data24/train/coronal/0007.npy\n", |
||
| 370 | "Number of slices for this scan: 24\n", |
||
| 371 | "Interpolation factors for this scan: [1.0, 1.0, 1.0]\n", |
||
| 372 | "Converting ../data24/train/coronal/0006.npy\n", |
||
| 373 | "Number of slices for this scan: 23\n", |
||
| 374 | "Interpolation factors for this scan: [1.0434782608695652, 1.0, 1.0]\n", |
||
| 375 | "Converting ../data24/train/coronal/0012.npy\n", |
||
| 376 | "Number of slices for this scan: 41\n", |
||
| 377 | "Interpolation factors for this scan: [0.5853658536585366, 1.0, 1.0]\n", |
||
| 378 | "Converting ../data24/train/coronal/0038.npy\n", |
||
| 379 | "Number of slices for this scan: 40\n", |
||
| 380 | "Interpolation factors for this scan: [0.6, 1.0, 1.0]\n", |
||
| 381 | "Converting ../data24/train/coronal/0004.npy\n", |
||
| 382 | "Number of slices for this scan: 34\n", |
||
| 383 | "Interpolation factors for this scan: [0.7058823529411765, 1.0, 1.0]\n", |
||
| 384 | "Converting ../data24/train/coronal/0010.npy\n", |
||
| 385 | "Number of slices for this scan: 42\n", |
||
| 386 | "Interpolation factors for this scan: [0.5714285714285714, 1.0, 1.0]\n", |
||
| 387 | "Converting ../data24/train/coronal/0011.npy\n", |
||
| 388 | "Number of slices for this scan: 38\n", |
||
| 389 | "Interpolation factors for this scan: [0.631578947368421, 1.0, 1.0]\n", |
||
| 390 | "Converting ../data24/train/coronal/0005.npy\n", |
||
| 391 | "Number of slices for this scan: 38\n", |
||
| 392 | "Interpolation factors for this scan: [0.631578947368421, 1.0, 1.0]\n", |
||
| 393 | "Converting ../data24/train/coronal/0039.npy\n", |
||
| 394 | "Number of slices for this scan: 32\n", |
||
| 395 | "Interpolation factors for this scan: [0.75, 1.0, 1.0]\n", |
||
| 396 | "Converting ../data24/train/coronal/0001.npy\n", |
||
| 397 | "Number of slices for this scan: 20\n", |
||
| 398 | "Interpolation factors for this scan: [1.2, 1.0, 1.0]\n", |
||
| 399 | "Converting ../data24/train/coronal/0015.npy\n", |
||
| 400 | "Number of slices for this scan: 30\n", |
||
| 401 | "Interpolation factors for this scan: [0.8, 1.0, 1.0]\n", |
||
| 402 | "Converting ../data24/train/coronal/0029.npy\n", |
||
| 403 | "Number of slices for this scan: 38\n", |
||
| 404 | "Interpolation factors for this scan: [0.631578947368421, 1.0, 1.0]\n", |
||
| 405 | "Converting ../data24/train/coronal/0028.npy\n", |
||
| 406 | "Number of slices for this scan: 34\n", |
||
| 407 | "Interpolation factors for this scan: [0.7058823529411765, 1.0, 1.0]\n", |
||
| 408 | "Converting ../data24/train/coronal/0014.npy\n", |
||
| 409 | "Number of slices for this scan: 22\n", |
||
| 410 | "Interpolation factors for this scan: [1.0909090909090908, 1.0, 1.0]\n", |
||
| 411 | "Converting ../data24/train/coronal/0000.npy\n", |
||
| 412 | "Number of slices for this scan: 36\n", |
||
| 413 | "Interpolation factors for this scan: [0.6666666666666666, 1.0, 1.0]\n", |
||
| 414 | "Converting ../data24/train/coronal/0016.npy\n", |
||
| 415 | "Number of slices for this scan: 44\n", |
||
| 416 | "Interpolation factors for this scan: [0.5454545454545454, 1.0, 1.0]\n", |
||
| 417 | "Converting ../data24/train/coronal/0002.npy\n", |
||
| 418 | "Number of slices for this scan: 32\n", |
||
| 419 | "Interpolation factors for this scan: [0.75, 1.0, 1.0]\n", |
||
| 420 | "Converting ../data24/train/coronal/0003.npy\n", |
||
| 421 | "Number of slices for this scan: 28\n", |
||
| 422 | "Interpolation factors for this scan: [0.8571428571428571, 1.0, 1.0]\n", |
||
| 423 | "Converting ../data24/train/coronal/0017.npy\n", |
||
| 424 | "Number of slices for this scan: 25\n", |
||
| 425 | "Interpolation factors for this scan: [0.96, 1.0, 1.0]\n", |
||
| 426 | "===============================\n", |
||
| 427 | "===============================\n", |
||
| 428 | "Found 50 .npy files in ../data24/train/sagittal\n", |
||
| 429 | "Converting ../data24/train/sagittal/0032.npy\n", |
||
| 430 | "Number of slices for this scan: 34\n", |
||
| 431 | "Interpolation factors for this scan: [0.7058823529411765, 1.0, 1.0]\n", |
||
| 432 | "Converting ../data24/train/sagittal/0026.npy\n", |
||
| 433 | "Number of slices for this scan: 40\n", |
||
| 434 | "Interpolation factors for this scan: [0.6, 1.0, 1.0]\n", |
||
| 435 | "Converting ../data24/train/sagittal/0027.npy\n", |
||
| 436 | "Number of slices for this scan: 19\n", |
||
| 437 | "Interpolation factors for this scan: [1.263157894736842, 1.0, 1.0]\n", |
||
| 438 | "Converting ../data24/train/sagittal/0033.npy\n", |
||
| 439 | "Number of slices for this scan: 44\n", |
||
| 440 | "Interpolation factors for this scan: [0.5454545454545454, 1.0, 1.0]\n", |
||
| 441 | "Converting ../data24/train/sagittal/0019.npy\n", |
||
| 442 | "Number of slices for this scan: 30\n", |
||
| 443 | "Interpolation factors for this scan: [0.8, 1.0, 1.0]\n", |
||
| 444 | "Converting ../data24/train/sagittal/0025.npy\n", |
||
| 445 | "Number of slices for this scan: 24\n", |
||
| 446 | "Interpolation factors for this scan: [1.0, 1.0, 1.0]\n", |
||
| 447 | "Converting ../data24/train/sagittal/0031.npy\n", |
||
| 448 | "Number of slices for this scan: 30\n", |
||
| 449 | "Interpolation factors for this scan: [0.8, 1.0, 1.0]\n", |
||
| 450 | "Converting ../data24/train/sagittal/0030.npy\n", |
||
| 451 | "Number of slices for this scan: 36\n", |
||
| 452 | "Interpolation factors for this scan: [0.6666666666666666, 1.0, 1.0]\n", |
||
| 453 | "Converting ../data24/train/sagittal/0024.npy\n", |
||
| 454 | "Number of slices for this scan: 33\n", |
||
| 455 | "Interpolation factors for this scan: [0.7272727272727273, 1.0, 1.0]\n", |
||
| 456 | "Converting ../data24/train/sagittal/0018.npy\n", |
||
| 457 | "Number of slices for this scan: 21\n", |
||
| 458 | "Interpolation factors for this scan: [1.1428571428571428, 1.0, 1.0]\n", |
||
| 459 | "Converting ../data24/train/sagittal/0020.npy\n", |
||
| 460 | "Number of slices for this scan: 30\n", |
||
| 461 | "Interpolation factors for this scan: [0.8, 1.0, 1.0]\n", |
||
| 462 | "Converting ../data24/train/sagittal/0034.npy\n", |
||
| 463 | "Number of slices for this scan: 40\n", |
||
| 464 | "Interpolation factors for this scan: [0.6, 1.0, 1.0]\n", |
||
| 465 | "Converting ../data24/train/sagittal/0008.npy\n", |
||
| 466 | "Number of slices for this scan: 35\n", |
||
| 467 | "Interpolation factors for this scan: [0.6857142857142857, 1.0, 1.0]\n", |
||
| 468 | "Converting ../data24/train/sagittal/0009.npy\n", |
||
| 469 | "Number of slices for this scan: 29\n", |
||
| 470 | "Interpolation factors for this scan: [0.8275862068965517, 1.0, 1.0]\n", |
||
| 471 | "Converting ../data24/train/sagittal/0035.npy\n", |
||
| 472 | "Number of slices for this scan: 33\n", |
||
| 473 | "Interpolation factors for this scan: [0.7272727272727273, 1.0, 1.0]\n", |
||
| 474 | "Converting ../data24/train/sagittal/0021.npy\n", |
||
| 475 | "Number of slices for this scan: 26\n", |
||
| 476 | "Interpolation factors for this scan: [0.9230769230769231, 1.0, 1.0]\n" |
||
| 477 | ] |
||
| 478 | }, |
||
| 479 | { |
||
| 480 | "name": "stdout", |
||
| 481 | "output_type": "stream", |
||
| 482 | "text": [ |
||
| 483 | "Converting ../data24/train/sagittal/0037.npy\n", |
||
| 484 | "Number of slices for this scan: 24\n", |
||
| 485 | "Interpolation factors for this scan: [1.0, 1.0, 1.0]\n", |
||
| 486 | "Converting ../data24/train/sagittal/0023.npy\n", |
||
| 487 | "Number of slices for this scan: 33\n", |
||
| 488 | "Interpolation factors for this scan: [0.7272727272727273, 1.0, 1.0]\n", |
||
| 489 | "Converting ../data24/train/sagittal/0022.npy\n", |
||
| 490 | "Number of slices for this scan: 32\n", |
||
| 491 | "Interpolation factors for this scan: [0.75, 1.0, 1.0]\n", |
||
| 492 | "Converting ../data24/train/sagittal/0036.npy\n", |
||
| 493 | "Number of slices for this scan: 26\n", |
||
| 494 | "Interpolation factors for this scan: [0.9230769230769231, 1.0, 1.0]\n", |
||
| 495 | "Converting ../data24/train/sagittal/0045.npy\n", |
||
| 496 | "Number of slices for this scan: 36\n", |
||
| 497 | "Interpolation factors for this scan: [0.6666666666666666, 1.0, 1.0]\n", |
||
| 498 | "Converting ../data24/train/sagittal/0044.npy\n", |
||
| 499 | "Number of slices for this scan: 26\n", |
||
| 500 | "Interpolation factors for this scan: [0.9230769230769231, 1.0, 1.0]\n", |
||
| 501 | "Converting ../data24/train/sagittal/0046.npy\n", |
||
| 502 | "Number of slices for this scan: 20\n", |
||
| 503 | "Interpolation factors for this scan: [1.2, 1.0, 1.0]\n", |
||
| 504 | "Converting ../data24/train/sagittal/0047.npy\n", |
||
| 505 | "Number of slices for this scan: 26\n", |
||
| 506 | "Interpolation factors for this scan: [0.9230769230769231, 1.0, 1.0]\n", |
||
| 507 | "Converting ../data24/train/sagittal/0043.npy\n", |
||
| 508 | "Number of slices for this scan: 46\n", |
||
| 509 | "Interpolation factors for this scan: [0.5217391304347826, 1.0, 1.0]\n", |
||
| 510 | "Converting ../data24/train/sagittal/0042.npy\n", |
||
| 511 | "Number of slices for this scan: 36\n", |
||
| 512 | "Interpolation factors for this scan: [0.6666666666666666, 1.0, 1.0]\n", |
||
| 513 | "Converting ../data24/train/sagittal/0040.npy\n", |
||
| 514 | "Number of slices for this scan: 27\n", |
||
| 515 | "Interpolation factors for this scan: [0.8888888888888888, 1.0, 1.0]\n", |
||
| 516 | "Converting ../data24/train/sagittal/0041.npy\n", |
||
| 517 | "Number of slices for this scan: 35\n", |
||
| 518 | "Interpolation factors for this scan: [0.6857142857142857, 1.0, 1.0]\n", |
||
| 519 | "Converting ../data24/train/sagittal/0049.npy\n", |
||
| 520 | "Number of slices for this scan: 32\n", |
||
| 521 | "Interpolation factors for this scan: [0.75, 1.0, 1.0]\n", |
||
| 522 | "Converting ../data24/train/sagittal/0048.npy\n", |
||
| 523 | "Number of slices for this scan: 28\n", |
||
| 524 | "Interpolation factors for this scan: [0.8571428571428571, 1.0, 1.0]\n", |
||
| 525 | "Converting ../data24/train/sagittal/0013.npy\n", |
||
| 526 | "Number of slices for this scan: 32\n", |
||
| 527 | "Interpolation factors for this scan: [0.75, 1.0, 1.0]\n", |
||
| 528 | "Converting ../data24/train/sagittal/0007.npy\n", |
||
| 529 | "Number of slices for this scan: 26\n", |
||
| 530 | "Interpolation factors for this scan: [0.9230769230769231, 1.0, 1.0]\n", |
||
| 531 | "Converting ../data24/train/sagittal/0006.npy\n", |
||
| 532 | "Number of slices for this scan: 28\n", |
||
| 533 | "Interpolation factors for this scan: [0.8571428571428571, 1.0, 1.0]\n", |
||
| 534 | "Converting ../data24/train/sagittal/0012.npy\n", |
||
| 535 | "Number of slices for this scan: 36\n", |
||
| 536 | "Interpolation factors for this scan: [0.6666666666666666, 1.0, 1.0]\n", |
||
| 537 | "Converting ../data24/train/sagittal/0038.npy\n", |
||
| 538 | "Number of slices for this scan: 45\n", |
||
| 539 | "Interpolation factors for this scan: [0.5333333333333333, 1.0, 1.0]\n", |
||
| 540 | "Converting ../data24/train/sagittal/0004.npy\n", |
||
| 541 | "Number of slices for this scan: 32\n", |
||
| 542 | "Interpolation factors for this scan: [0.75, 1.0, 1.0]\n", |
||
| 543 | "Converting ../data24/train/sagittal/0010.npy\n", |
||
| 544 | "Number of slices for this scan: 38\n", |
||
| 545 | "Interpolation factors for this scan: [0.631578947368421, 1.0, 1.0]\n", |
||
| 546 | "Converting ../data24/train/sagittal/0011.npy\n", |
||
| 547 | "Number of slices for this scan: 38\n", |
||
| 548 | "Interpolation factors for this scan: [0.631578947368421, 1.0, 1.0]\n", |
||
| 549 | "Converting ../data24/train/sagittal/0005.npy\n", |
||
| 550 | "Number of slices for this scan: 37\n", |
||
| 551 | "Interpolation factors for this scan: [0.6486486486486487, 1.0, 1.0]\n", |
||
| 552 | "Converting ../data24/train/sagittal/0039.npy\n", |
||
| 553 | "Number of slices for this scan: 32\n", |
||
| 554 | "Interpolation factors for this scan: [0.75, 1.0, 1.0]\n", |
||
| 555 | "Converting ../data24/train/sagittal/0001.npy\n", |
||
| 556 | "Number of slices for this scan: 26\n", |
||
| 557 | "Interpolation factors for this scan: [0.9230769230769231, 1.0, 1.0]\n", |
||
| 558 | "Converting ../data24/train/sagittal/0015.npy\n", |
||
| 559 | "Number of slices for this scan: 33\n", |
||
| 560 | "Interpolation factors for this scan: [0.7272727272727273, 1.0, 1.0]\n", |
||
| 561 | "Converting ../data24/train/sagittal/0029.npy\n", |
||
| 562 | "Number of slices for this scan: 34\n", |
||
| 563 | "Interpolation factors for this scan: [0.7058823529411765, 1.0, 1.0]\n", |
||
| 564 | "Converting ../data24/train/sagittal/0028.npy\n", |
||
| 565 | "Number of slices for this scan: 32\n", |
||
| 566 | "Interpolation factors for this scan: [0.75, 1.0, 1.0]\n", |
||
| 567 | "Converting ../data24/train/sagittal/0014.npy\n", |
||
| 568 | "Number of slices for this scan: 20\n", |
||
| 569 | "Interpolation factors for this scan: [1.2, 1.0, 1.0]\n", |
||
| 570 | "Converting ../data24/train/sagittal/0000.npy\n", |
||
| 571 | "Number of slices for this scan: 36\n", |
||
| 572 | "Interpolation factors for this scan: [0.6666666666666666, 1.0, 1.0]\n", |
||
| 573 | "Converting ../data24/train/sagittal/0016.npy\n", |
||
| 574 | "Number of slices for this scan: 42\n", |
||
| 575 | "Interpolation factors for this scan: [0.5714285714285714, 1.0, 1.0]\n", |
||
| 576 | "Converting ../data24/train/sagittal/0002.npy\n", |
||
| 577 | "Number of slices for this scan: 32\n", |
||
| 578 | "Interpolation factors for this scan: [0.75, 1.0, 1.0]\n", |
||
| 579 | "Converting ../data24/train/sagittal/0003.npy\n", |
||
| 580 | "Number of slices for this scan: 30\n", |
||
| 581 | "Interpolation factors for this scan: [0.8, 1.0, 1.0]\n", |
||
| 582 | "Converting ../data24/train/sagittal/0017.npy\n", |
||
| 583 | "Number of slices for this scan: 26\n", |
||
| 584 | "Interpolation factors for this scan: [0.9230769230769231, 1.0, 1.0]\n", |
||
| 585 | "===============================\n", |
||
| 586 | "===============================\n", |
||
| 587 | "Found 20 .npy files in ../data24/valid/axial\n", |
||
| 588 | "Converting ../data24/valid/axial/1139.npy\n", |
||
| 589 | "Number of slices for this scan: 33\n", |
||
| 590 | "Interpolation factors for this scan: [0.7272727272727273, 1.0, 1.0]\n", |
||
| 591 | "Converting ../data24/valid/axial/1138.npy\n", |
||
| 592 | "Number of slices for this scan: 28\n", |
||
| 593 | "Interpolation factors for this scan: [0.8571428571428571, 1.0, 1.0]\n", |
||
| 594 | "Converting ../data24/valid/axial/1148.npy\n", |
||
| 595 | "Number of slices for this scan: 26\n", |
||
| 596 | "Interpolation factors for this scan: [0.9230769230769231, 1.0, 1.0]\n", |
||
| 597 | "Converting ../data24/valid/axial/1149.npy\n", |
||
| 598 | "Number of slices for this scan: 29\n", |
||
| 599 | "Interpolation factors for this scan: [0.8275862068965517, 1.0, 1.0]\n", |
||
| 600 | "Converting ../data24/valid/axial/1144.npy\n", |
||
| 601 | "Number of slices for this scan: 42\n", |
||
| 602 | "Interpolation factors for this scan: [0.5714285714285714, 1.0, 1.0]\n", |
||
| 603 | "Converting ../data24/valid/axial/1145.npy\n", |
||
| 604 | "Number of slices for this scan: 36\n", |
||
| 605 | "Interpolation factors for this scan: [0.6666666666666666, 1.0, 1.0]\n", |
||
| 606 | "Converting ../data24/valid/axial/1147.npy\n", |
||
| 607 | "Number of slices for this scan: 29\n", |
||
| 608 | "Interpolation factors for this scan: [0.8275862068965517, 1.0, 1.0]\n", |
||
| 609 | "Converting ../data24/valid/axial/1146.npy\n", |
||
| 610 | "Number of slices for this scan: 24\n", |
||
| 611 | "Interpolation factors for this scan: [1.0, 1.0, 1.0]\n", |
||
| 612 | "Converting ../data24/valid/axial/1142.npy\n", |
||
| 613 | "Number of slices for this scan: 37\n", |
||
| 614 | "Interpolation factors for this scan: [0.6486486486486487, 1.0, 1.0]\n", |
||
| 615 | "Converting ../data24/valid/axial/1143.npy\n", |
||
| 616 | "Number of slices for this scan: 38\n", |
||
| 617 | "Interpolation factors for this scan: [0.631578947368421, 1.0, 1.0]\n", |
||
| 618 | "Converting ../data24/valid/axial/1141.npy\n", |
||
| 619 | "Number of slices for this scan: 38\n", |
||
| 620 | "Interpolation factors for this scan: [0.631578947368421, 1.0, 1.0]\n", |
||
| 621 | "Converting ../data24/valid/axial/1140.npy\n", |
||
| 622 | "Number of slices for this scan: 42\n", |
||
| 623 | "Interpolation factors for this scan: [0.5714285714285714, 1.0, 1.0]\n", |
||
| 624 | "Converting ../data24/valid/axial/1133.npy\n", |
||
| 625 | "Number of slices for this scan: 25\n", |
||
| 626 | "Interpolation factors for this scan: [0.96, 1.0, 1.0]\n", |
||
| 627 | "Converting ../data24/valid/axial/1132.npy\n", |
||
| 628 | "Number of slices for this scan: 24\n", |
||
| 629 | "Interpolation factors for this scan: [1.0, 1.0, 1.0]\n", |
||
| 630 | "Converting ../data24/valid/axial/1130.npy\n", |
||
| 631 | "Number of slices for this scan: 25\n", |
||
| 632 | "Interpolation factors for this scan: [0.96, 1.0, 1.0]\n", |
||
| 633 | "Converting ../data24/valid/axial/1131.npy\n", |
||
| 634 | "Number of slices for this scan: 28\n", |
||
| 635 | "Interpolation factors for this scan: [0.8571428571428571, 1.0, 1.0]\n", |
||
| 636 | "Converting ../data24/valid/axial/1135.npy\n", |
||
| 637 | "Number of slices for this scan: 30\n", |
||
| 638 | "Interpolation factors for this scan: [0.8, 1.0, 1.0]\n", |
||
| 639 | "Converting ../data24/valid/axial/1134.npy\n", |
||
| 640 | "Number of slices for this scan: 31\n", |
||
| 641 | "Interpolation factors for this scan: [0.7741935483870968, 1.0, 1.0]\n", |
||
| 642 | "Converting ../data24/valid/axial/1136.npy\n", |
||
| 643 | "Number of slices for this scan: 52\n", |
||
| 644 | "Interpolation factors for this scan: [0.46153846153846156, 1.0, 1.0]\n", |
||
| 645 | "Converting ../data24/valid/axial/1137.npy\n", |
||
| 646 | "Number of slices for this scan: 23\n", |
||
| 647 | "Interpolation factors for this scan: [1.0434782608695652, 1.0, 1.0]\n", |
||
| 648 | "===============================\n", |
||
| 649 | "===============================\n", |
||
| 650 | "Found 20 .npy files in ../data24/valid/coronal\n", |
||
| 651 | "Converting ../data24/valid/coronal/1139.npy\n", |
||
| 652 | "Number of slices for this scan: 30\n", |
||
| 653 | "Interpolation factors for this scan: [0.8, 1.0, 1.0]\n", |
||
| 654 | "Converting ../data24/valid/coronal/1138.npy\n", |
||
| 655 | "Number of slices for this scan: 17\n", |
||
| 656 | "Interpolation factors for this scan: [1.411764705882353, 1.0, 1.0]\n" |
||
| 657 | ] |
||
| 658 | }, |
||
| 659 | { |
||
| 660 | "name": "stdout", |
||
| 661 | "output_type": "stream", |
||
| 662 | "text": [ |
||
| 663 | "Converting ../data24/valid/coronal/1148.npy\n", |
||
| 664 | "Number of slices for this scan: 20\n", |
||
| 665 | "Interpolation factors for this scan: [1.2, 1.0, 1.0]\n", |
||
| 666 | "Converting ../data24/valid/coronal/1149.npy\n", |
||
| 667 | "Number of slices for this scan: 20\n", |
||
| 668 | "Interpolation factors for this scan: [1.2, 1.0, 1.0]\n", |
||
| 669 | "Converting ../data24/valid/coronal/1144.npy\n", |
||
| 670 | "Number of slices for this scan: 35\n", |
||
| 671 | "Interpolation factors for this scan: [0.6857142857142857, 1.0, 1.0]\n", |
||
| 672 | "Converting ../data24/valid/coronal/1145.npy\n", |
||
| 673 | "Number of slices for this scan: 42\n", |
||
| 674 | "Interpolation factors for this scan: [0.5714285714285714, 1.0, 1.0]\n", |
||
| 675 | "Converting ../data24/valid/coronal/1147.npy\n", |
||
| 676 | "Number of slices for this scan: 20\n", |
||
| 677 | "Interpolation factors for this scan: [1.2, 1.0, 1.0]\n", |
||
| 678 | "Converting ../data24/valid/coronal/1146.npy\n", |
||
| 679 | "Number of slices for this scan: 21\n", |
||
| 680 | "Interpolation factors for this scan: [1.1428571428571428, 1.0, 1.0]\n", |
||
| 681 | "Converting ../data24/valid/coronal/1142.npy\n", |
||
| 682 | "Number of slices for this scan: 34\n", |
||
| 683 | "Interpolation factors for this scan: [0.7058823529411765, 1.0, 1.0]\n", |
||
| 684 | "Converting ../data24/valid/coronal/1143.npy\n", |
||
| 685 | "Number of slices for this scan: 36\n", |
||
| 686 | "Interpolation factors for this scan: [0.6666666666666666, 1.0, 1.0]\n", |
||
| 687 | "Converting ../data24/valid/coronal/1141.npy\n", |
||
| 688 | "Number of slices for this scan: 30\n", |
||
| 689 | "Interpolation factors for this scan: [0.8, 1.0, 1.0]\n", |
||
| 690 | "Converting ../data24/valid/coronal/1140.npy\n", |
||
| 691 | "Number of slices for this scan: 39\n", |
||
| 692 | "Interpolation factors for this scan: [0.6153846153846154, 1.0, 1.0]\n", |
||
| 693 | "Converting ../data24/valid/coronal/1133.npy\n", |
||
| 694 | "Number of slices for this scan: 22\n", |
||
| 695 | "Interpolation factors for this scan: [1.0909090909090908, 1.0, 1.0]\n", |
||
| 696 | "Converting ../data24/valid/coronal/1132.npy\n", |
||
| 697 | "Number of slices for this scan: 24\n", |
||
| 698 | "Interpolation factors for this scan: [1.0, 1.0, 1.0]\n", |
||
| 699 | "Converting ../data24/valid/coronal/1130.npy\n", |
||
| 700 | "Number of slices for this scan: 25\n", |
||
| 701 | "Interpolation factors for this scan: [0.96, 1.0, 1.0]\n", |
||
| 702 | "Converting ../data24/valid/coronal/1131.npy\n", |
||
| 703 | "Number of slices for this scan: 22\n", |
||
| 704 | "Interpolation factors for this scan: [1.0909090909090908, 1.0, 1.0]\n", |
||
| 705 | "Converting ../data24/valid/coronal/1135.npy\n", |
||
| 706 | "Number of slices for this scan: 30\n", |
||
| 707 | "Interpolation factors for this scan: [0.8, 1.0, 1.0]\n", |
||
| 708 | "Converting ../data24/valid/coronal/1134.npy\n", |
||
| 709 | "Number of slices for this scan: 30\n", |
||
| 710 | "Interpolation factors for this scan: [0.8, 1.0, 1.0]\n", |
||
| 711 | "Converting ../data24/valid/coronal/1136.npy\n", |
||
| 712 | "Number of slices for this scan: 34\n", |
||
| 713 | "Interpolation factors for this scan: [0.7058823529411765, 1.0, 1.0]\n", |
||
| 714 | "Converting ../data24/valid/coronal/1137.npy\n", |
||
| 715 | "Number of slices for this scan: 21\n", |
||
| 716 | "Interpolation factors for this scan: [1.1428571428571428, 1.0, 1.0]\n", |
||
| 717 | "===============================\n", |
||
| 718 | "===============================\n", |
||
| 719 | "Found 20 .npy files in ../data24/valid/sagittal\n", |
||
| 720 | "Converting ../data24/valid/sagittal/1139.npy\n", |
||
| 721 | "Number of slices for this scan: 27\n", |
||
| 722 | "Interpolation factors for this scan: [0.8888888888888888, 1.0, 1.0]\n", |
||
| 723 | "Converting ../data24/valid/sagittal/1138.npy\n", |
||
| 724 | "Number of slices for this scan: 22\n", |
||
| 725 | "Interpolation factors for this scan: [1.0909090909090908, 1.0, 1.0]\n", |
||
| 726 | "Converting ../data24/valid/sagittal/1148.npy\n", |
||
| 727 | "Number of slices for this scan: 22\n", |
||
| 728 | "Interpolation factors for this scan: [1.0909090909090908, 1.0, 1.0]\n", |
||
| 729 | "Converting ../data24/valid/sagittal/1149.npy\n", |
||
| 730 | "Number of slices for this scan: 24\n", |
||
| 731 | "Interpolation factors for this scan: [1.0, 1.0, 1.0]\n", |
||
| 732 | "Converting ../data24/valid/sagittal/1144.npy\n", |
||
| 733 | "Number of slices for this scan: 38\n", |
||
| 734 | "Interpolation factors for this scan: [0.631578947368421, 1.0, 1.0]\n", |
||
| 735 | "Converting ../data24/valid/sagittal/1145.npy\n", |
||
| 736 | "Number of slices for this scan: 40\n", |
||
| 737 | "Interpolation factors for this scan: [0.6, 1.0, 1.0]\n", |
||
| 738 | "Converting ../data24/valid/sagittal/1147.npy\n", |
||
| 739 | "Number of slices for this scan: 26\n", |
||
| 740 | "Interpolation factors for this scan: [0.9230769230769231, 1.0, 1.0]\n", |
||
| 741 | "Converting ../data24/valid/sagittal/1146.npy\n", |
||
| 742 | "Number of slices for this scan: 24\n", |
||
| 743 | "Interpolation factors for this scan: [1.0, 1.0, 1.0]\n", |
||
| 744 | "Converting ../data24/valid/sagittal/1142.npy\n", |
||
| 745 | "Number of slices for this scan: 34\n", |
||
| 746 | "Interpolation factors for this scan: [0.7058823529411765, 1.0, 1.0]\n", |
||
| 747 | "Converting ../data24/valid/sagittal/1143.npy\n", |
||
| 748 | "Number of slices for this scan: 34\n", |
||
| 749 | "Interpolation factors for this scan: [0.7058823529411765, 1.0, 1.0]\n", |
||
| 750 | "Converting ../data24/valid/sagittal/1141.npy\n", |
||
| 751 | "Number of slices for this scan: 30\n", |
||
| 752 | "Interpolation factors for this scan: [0.8, 1.0, 1.0]\n", |
||
| 753 | "Converting ../data24/valid/sagittal/1140.npy\n", |
||
| 754 | "Number of slices for this scan: 41\n", |
||
| 755 | "Interpolation factors for this scan: [0.5853658536585366, 1.0, 1.0]\n", |
||
| 756 | "Converting ../data24/valid/sagittal/1133.npy\n", |
||
| 757 | "Number of slices for this scan: 21\n", |
||
| 758 | "Interpolation factors for this scan: [1.1428571428571428, 1.0, 1.0]\n", |
||
| 759 | "Converting ../data24/valid/sagittal/1132.npy\n", |
||
| 760 | "Number of slices for this scan: 24\n", |
||
| 761 | "Interpolation factors for this scan: [1.0, 1.0, 1.0]\n", |
||
| 762 | "Converting ../data24/valid/sagittal/1130.npy\n", |
||
| 763 | "Number of slices for this scan: 27\n", |
||
| 764 | "Interpolation factors for this scan: [0.8888888888888888, 1.0, 1.0]\n", |
||
| 765 | "Converting ../data24/valid/sagittal/1131.npy\n", |
||
| 766 | "Number of slices for this scan: 23\n", |
||
| 767 | "Interpolation factors for this scan: [1.0434782608695652, 1.0, 1.0]\n", |
||
| 768 | "Converting ../data24/valid/sagittal/1135.npy\n", |
||
| 769 | "Number of slices for this scan: 30\n", |
||
| 770 | "Interpolation factors for this scan: [0.8, 1.0, 1.0]\n", |
||
| 771 | "Converting ../data24/valid/sagittal/1134.npy\n", |
||
| 772 | "Number of slices for this scan: 30\n", |
||
| 773 | "Interpolation factors for this scan: [0.8, 1.0, 1.0]\n", |
||
| 774 | "Converting ../data24/valid/sagittal/1136.npy\n", |
||
| 775 | "Number of slices for this scan: 32\n", |
||
| 776 | "Interpolation factors for this scan: [0.75, 1.0, 1.0]\n", |
||
| 777 | "Converting ../data24/valid/sagittal/1137.npy\n", |
||
| 778 | "Number of slices for this scan: 24\n", |
||
| 779 | "Interpolation factors for this scan: [1.0, 1.0, 1.0]\n", |
||
| 780 | "===============================\n", |
||
| 781 | "===============================\n" |
||
| 782 | ] |
||
| 783 | } |
||
| 784 | ], |
||
| 785 | "source": [ |
||
| 786 | "slices = 24\n", |
||
| 787 | "for d in ('train','valid'):\n", |
||
| 788 | " for p in ('axial','coronal','sagittal'):\n", |
||
| 789 | " dirpath = '../data{}/{}/{}'.format(slices, d, p)\n", |
||
| 790 | " npy_files = [f for f in os.listdir(dirpath) if f[-4:]=='.npy']\n", |
||
| 791 | " print('Found {} .npy files in {}'.format(len(npy_files), dirpath))\n", |
||
| 792 | "\n", |
||
| 793 | " for f in npy_files:\n", |
||
| 794 | " filepath = dirpath + '/' + f\n", |
||
| 795 | " print('Converting {}'.format(filepath))\n", |
||
| 796 | " # load the array\n", |
||
| 797 | " scanarray = np.load(filepath)\n", |
||
| 798 | " # calculate interpolation factor(s)\n", |
||
| 799 | " print('Number of slices for this scan: {}'.format(scanarray.shape[0]))\n", |
||
| 800 | " interpolation_factors = [w/float(f) for w,f in zip([slices,256,256], scanarray.shape)]\n", |
||
| 801 | " print('Interpolation factors for this scan: {}'.format(interpolation_factors))\n", |
||
| 802 | " # interpolate/zoom\n", |
||
| 803 | " interpolated_scan = nd.interpolation.zoom(scanarray, zoom=interpolation_factors)\n", |
||
| 804 | " assert interpolated_scan.shape == (slices, 256, 256)\n", |
||
| 805 | " # write over old data (since working with copy of data)\n", |
||
| 806 | " np.save(filepath, interpolated_scan)\n", |
||
| 807 | " \n", |
||
| 808 | " print('===============================')\n", |
||
| 809 | " print('===============================') " |
||
| 810 | ] |
||
| 811 | } |
||
| 812 | ], |
||
| 813 | "metadata": { |
||
| 814 | "kernelspec": { |
||
| 815 | "display_name": "Python 3", |
||
| 816 | "language": "python", |
||
| 817 | "name": "python3" |
||
| 818 | }, |
||
| 819 | "language_info": { |
||
| 820 | "codemirror_mode": { |
||
| 821 | "name": "ipython", |
||
| 822 | "version": 3 |
||
| 823 | }, |
||
| 824 | "file_extension": ".py", |
||
| 825 | "mimetype": "text/x-python", |
||
| 826 | "name": "python", |
||
| 827 | "nbconvert_exporter": "python", |
||
| 828 | "pygments_lexer": "ipython3", |
||
| 829 | "version": "3.7.2" |
||
| 830 | } |
||
| 831 | }, |
||
| 832 | "nbformat": 4, |
||
| 833 | "nbformat_minor": 2 |
||
| 834 | } |