From e11da1dfea14cc1ee358855d201d1fd608733748 Mon Sep 17 00:00:00 2001
From: Shiza Charania <86497160+shizacharania@users.noreply.github.com>
Date: Wed, 2 Feb 2022 20:21:33 -0500
Subject: [PATCH] Add files via upload
---
Brain_Tumour_Classification.ipynb | 4820 +++++++++++++++++++++++++++++
1 file changed, 4820 insertions(+)
create mode 100644 Brain_Tumour_Classification.ipynb
diff --git a/Brain_Tumour_Classification.ipynb b/Brain_Tumour_Classification.ipynb
new file mode 100644
index 0000000..eaaf7a6
--- /dev/null
+++ b/Brain_Tumour_Classification.ipynb
@@ -0,0 +1,4820 @@
+{
+ "cells": [
+ {
+ "cell_type": "code",
+ "execution_count": 1,
+ "metadata": {
+ "id": "MAyLN3L40fLX"
+ },
+ "outputs": [],
+ "source": [
+ "# install kaggle\n",
+ "!pip install -q kaggle"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 2,
+ "metadata": {
+ "colab": {
+ "base_uri": "https://localhost:8080/",
+ "height": 90,
+ "resources": {
+ "http://localhost:8080/nbextensions/google.colab/files.js": {
+ "data": 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+ "headers": [
+ [
+ "content-type",
+ "application/javascript"
+ ]
+ ],
+ "ok": true,
+ "status": 200,
+ "status_text": ""
+ }
+ }
+ },
+ "id": "OvitX6-b0ozJ",
+ "outputId": "6ee8ecb3-50c5-48f8-cba6-b4ccc78942e2"
+ },
+ "outputs": [
+ {
+ "output_type": "display_data",
+ "data": {
+ "text/html": [
+ "\n",
+ " \n",
+ " \n",
+ " "
+ ],
+ "text/plain": [
+ ""
+ ]
+ },
+ "metadata": {}
+ },
+ {
+ "output_type": "stream",
+ "name": "stdout",
+ "text": [
+ "Saving kaggle.json to kaggle.json\n"
+ ]
+ },
+ {
+ "output_type": "execute_result",
+ "data": {
+ "text/plain": [
+ "{'kaggle.json': b'{\"username\":\"shizacharania\",\"key\":\"f4d4c61a9252e57ae14d3185e707df48\"}'}"
+ ]
+ },
+ "metadata": {},
+ "execution_count": 2
+ }
+ ],
+ "source": [
+ "# upload the generated api token in .json format from local system\n",
+ "from google.colab import files\n",
+ "files.upload()"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 3,
+ "metadata": {
+ "id": "XyndXf2t0q2y"
+ },
+ "outputs": [],
+ "source": [
+ "# make a kaggle directory in my files\n",
+ "!mkdir ~/.kaggle"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 4,
+ "metadata": {
+ "id": "yFxsSFYw0s0h"
+ },
+ "outputs": [],
+ "source": [
+ "# put the kaggle.json file in that directory\n",
+ "!cp kaggle.json ~/.kaggle/"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 5,
+ "metadata": {
+ "id": "BkdhKkxi0ujM"
+ },
+ "outputs": [],
+ "source": [
+ "# grant permission for the .json file to act\n",
+ "!chmod 600 ~/.kaggle/kaggle.json"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 6,
+ "metadata": {
+ "colab": {
+ "base_uri": "https://localhost:8080/"
+ },
+ "id": "M3VcUxnA0wbW",
+ "outputId": "1dce1b25-33c8-43a0-9b55-515da8f2125d"
+ },
+ "outputs": [
+ {
+ "output_type": "stream",
+ "name": "stdout",
+ "text": [
+ "Warning: Looks like you're using an outdated API Version, please consider updating (server 1.5.12 / client 1.5.4)\n",
+ "ref title size lastUpdated downloadCount \n",
+ "---------------------------------------------------------- ------------------------------------------------- ----- ------------------- ------------- \n",
+ "nkitgupta/jigsaw-regression-based-data Jigsaw Regression Based Data 3GB 2022-01-10 06:29:59 676 \n",
+ "yamqwe/omicron-covid19-variant-daily-cases Omicron daily cases by country (COVID-19 variant) 432KB 2022-01-30 09:11:54 12099 \n",
+ "prasertk/netflix-subscription-price-in-different-countries Netflix subscription fee in different countries 3KB 2022-01-15 07:06:09 1691 \n",
+ "yasserh/wine-quality-dataset Wine Quality Dataset 21KB 2022-01-15 19:15:11 1508 \n",
+ "iamsouravbanerjee/analytics-industry-salaries-2022-india Data Professionals Salary - 2022 57KB 2022-02-02 04:35:21 1896 \n",
+ "yamqwe/netflix-showse Netflix Shows 11KB 2022-01-23 00:03:01 979 \n",
+ "sanjeetsinghnaik/top-1000-highest-grossing-movies Top 1000 Highest Grossing Movies 106KB 2022-01-15 16:26:14 1008 \n",
+ "yasserh/amazon-product-reviews-dataset Amazon Product Reviews Dataset 708KB 2022-01-23 17:21:16 499 \n",
+ "vishalmane10/anime-dataset-2022 Anime DataSet 2022 5MB 2022-01-16 13:56:16 799 \n",
+ "carlmcbrideellis/gdp-20152019-finland-norway-and-sweden GDP 2015-2019: Finland, Norway, and Sweden 365B 2022-01-05 07:48:49 542 \n",
+ "sandipdevre/petrol-prices-in-india Petrol Prices In India 3KB 2022-01-27 09:07:35 318 \n",
+ "yamqwe/shark-tank-companiese 📱 Shark Tank Companies 70KB 2022-01-30 21:01:58 184 \n",
+ "dansbecker/melbourne-housing-snapshot Melbourne Housing Snapshot 451KB 2018-06-05 12:52:24 79829 \n",
+ "yamqwe/men-s-shoe-pricese 🩰 Men's Shoe Prices 6MB 2022-01-24 15:19:48 405 \n",
+ "nenamalikah/nft-collections-by-sales-volume Top NFT Collections 47KB 2022-01-17 00:47:41 545 \n",
+ "meetnagadia/netflix-stock-price-data-set-20022022 Netflix Stock Price Data set 2002-2022 94KB 2022-01-12 05:28:11 507 \n",
+ "datasnaek/youtube-new Trending YouTube Video Statistics 201MB 2019-06-03 00:56:47 164782 \n",
+ "zynicide/wine-reviews Wine Reviews 51MB 2017-11-27 17:08:04 153488 \n",
+ "fedesoriano/stellar-classification-dataset-sdss17 Stellar Classification Dataset - SDSS17 7MB 2022-01-15 17:11:30 489 \n",
+ "rtatman/188-million-us-wildfires 1.88 Million US Wildfires 168MB 2020-05-12 21:03:49 18748 \n"
+ ]
+ }
+ ],
+ "source": [
+ "# list available datsets to ensure that the API worked and kaggle's linked\n",
+ "!kaggle datasets list"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 7,
+ "metadata": {
+ "colab": {
+ "base_uri": "https://localhost:8080/"
+ },
+ "id": "uuey68EO05vZ",
+ "outputId": "42036609-1b36-417f-f016-ad40c8f4d0e8"
+ },
+ "outputs": [
+ {
+ "output_type": "stream",
+ "name": "stdout",
+ "text": [
+ "Downloading brain-tumor-classification-mri.zip to /content\n",
+ " 93% 81.0M/86.8M [00:00<00:00, 109MB/s] \n",
+ "100% 86.8M/86.8M [00:00<00:00, 116MB/s]\n"
+ ]
+ }
+ ],
+ "source": [
+ "# download the mri segmentation datset with its api command\n",
+ "!kaggle datasets download -d sartajbhuvaji/brain-tumor-classification-mri"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 8,
+ "metadata": {
+ "colab": {
+ "base_uri": "https://localhost:8080/"
+ },
+ "id": "IoTxc8NB4q24",
+ "outputId": "2f791846-9aa7-4787-d346-9cb7c3af0a5b"
+ },
+ "outputs": [
+ {
+ "output_type": "stream",
+ "name": "stdout",
+ "text": [
+ "Archive: /content/brain-tumor-classification-mri.zip\n",
+ " inflating: Testing/glioma_tumor/image(1).jpg \n",
+ " inflating: Testing/glioma_tumor/image(10).jpg \n",
+ " inflating: Testing/glioma_tumor/image(100).jpg \n",
+ " inflating: Testing/glioma_tumor/image(11).jpg \n",
+ " inflating: Testing/glioma_tumor/image(12).jpg \n",
+ " inflating: Testing/glioma_tumor/image(13).jpg \n",
+ " inflating: Testing/glioma_tumor/image(14).jpg \n",
+ " inflating: Testing/glioma_tumor/image(15).jpg \n",
+ " inflating: Testing/glioma_tumor/image(16).jpg \n",
+ " inflating: Testing/glioma_tumor/image(17).jpg \n",
+ " inflating: Testing/glioma_tumor/image(18).jpg \n",
+ " inflating: Testing/glioma_tumor/image(19).jpg \n",
+ " inflating: Testing/glioma_tumor/image(2).jpg \n",
+ " inflating: Testing/glioma_tumor/image(20).jpg \n",
+ " inflating: Testing/glioma_tumor/image(21).jpg \n",
+ " inflating: Testing/glioma_tumor/image(22).jpg \n",
+ " inflating: Testing/glioma_tumor/image(23).jpg \n",
+ " inflating: Testing/glioma_tumor/image(24).jpg \n",
+ " inflating: Testing/glioma_tumor/image(25).jpg \n",
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+ " inflating: Training/pituitary_tumor/p (799).jpg \n",
+ " inflating: Training/pituitary_tumor/p (8).jpg \n",
+ " inflating: Training/pituitary_tumor/p (80).jpg \n",
+ " inflating: Training/pituitary_tumor/p (800).jpg \n",
+ " inflating: Training/pituitary_tumor/p (801).jpg \n",
+ " inflating: Training/pituitary_tumor/p (802).jpg \n",
+ " inflating: Training/pituitary_tumor/p (803).jpg \n",
+ " inflating: Training/pituitary_tumor/p (804).jpg \n",
+ " inflating: Training/pituitary_tumor/p (805).jpg \n",
+ " inflating: Training/pituitary_tumor/p (806).jpg \n",
+ " inflating: Training/pituitary_tumor/p (807).jpg \n",
+ " inflating: Training/pituitary_tumor/p (808).jpg \n",
+ " inflating: Training/pituitary_tumor/p (809).jpg \n",
+ " inflating: Training/pituitary_tumor/p (81).jpg \n",
+ " inflating: Training/pituitary_tumor/p (810).jpg \n",
+ " inflating: Training/pituitary_tumor/p (811).jpg \n",
+ " inflating: Training/pituitary_tumor/p (812).jpg \n",
+ " inflating: Training/pituitary_tumor/p (813).jpg \n",
+ " inflating: Training/pituitary_tumor/p (814).jpg \n",
+ " inflating: Training/pituitary_tumor/p (815).jpg \n",
+ " inflating: Training/pituitary_tumor/p (816).jpg \n",
+ " inflating: Training/pituitary_tumor/p (817).jpg \n",
+ " inflating: Training/pituitary_tumor/p (818).jpg \n",
+ " inflating: Training/pituitary_tumor/p (819).jpg \n",
+ " inflating: Training/pituitary_tumor/p (82).jpg \n",
+ " inflating: Training/pituitary_tumor/p (820).jpg \n",
+ " inflating: Training/pituitary_tumor/p (821).jpg \n",
+ " inflating: Training/pituitary_tumor/p (822).jpg \n",
+ " inflating: Training/pituitary_tumor/p (823).jpg \n",
+ " inflating: Training/pituitary_tumor/p (824).jpg \n",
+ " inflating: Training/pituitary_tumor/p (825).jpg \n",
+ " inflating: Training/pituitary_tumor/p (826).jpg \n",
+ " inflating: Training/pituitary_tumor/p (827).jpg \n",
+ " inflating: Training/pituitary_tumor/p (83).jpg \n",
+ " inflating: Training/pituitary_tumor/p (84).jpg \n",
+ " inflating: Training/pituitary_tumor/p (85).jpg \n",
+ " inflating: Training/pituitary_tumor/p (86).jpg \n",
+ " inflating: Training/pituitary_tumor/p (87).jpg \n",
+ " inflating: Training/pituitary_tumor/p (88).jpg \n",
+ " inflating: Training/pituitary_tumor/p (89).jpg \n",
+ " inflating: Training/pituitary_tumor/p (9).jpg \n",
+ " inflating: Training/pituitary_tumor/p (90).jpg \n",
+ " inflating: Training/pituitary_tumor/p (91).jpg \n",
+ " inflating: Training/pituitary_tumor/p (92).jpg \n",
+ " inflating: Training/pituitary_tumor/p (93).jpg \n",
+ " inflating: Training/pituitary_tumor/p (94).jpg \n",
+ " inflating: Training/pituitary_tumor/p (95).jpg \n",
+ " inflating: Training/pituitary_tumor/p (96).jpg \n",
+ " inflating: Training/pituitary_tumor/p (97).jpg \n",
+ " inflating: Training/pituitary_tumor/p (98).jpg \n",
+ " inflating: Training/pituitary_tumor/p (99).jpg \n"
+ ]
+ }
+ ],
+ "source": [
+ "!unzip /content/brain-tumor-classification-mri.zip"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 9,
+ "metadata": {
+ "colab": {
+ "base_uri": "https://localhost:8080/"
+ },
+ "id": "kQ-LwPoT6TIQ",
+ "outputId": "e4305fab-d038-49a6-9b3d-b194a27a9dc6"
+ },
+ "outputs": [
+ {
+ "output_type": "stream",
+ "name": "stdout",
+ "text": [
+ "2870 394\n",
+ "3264\n"
+ ]
+ }
+ ],
+ "source": [
+ "import glob\n",
+ "import cv2\n",
+ "import os\n",
+ "\n",
+ "\n",
+ "tr_gt = glob.glob(\"/content/Training/glioma_tumor/*\") # training images glioma tumor\n",
+ "tr_mt = glob.glob(\"/content/Training/meningioma_tumor/*\")\n",
+ "tr_none = glob.glob(\"/content/Training/no_tumor/*\")\n",
+ "tr_pt = glob.glob(\"/content/Training/pituitary_tumor/*\")\n",
+ "\n",
+ "te_gt = glob.glob(\"/content/Testing/glioma_tumor/*\") # training images glioma tumor\n",
+ "te_mt = glob.glob(\"/content/Testing/meningioma_tumor/*\")\n",
+ "te_none = glob.glob(\"/content/Testing/no_tumor/*\")\n",
+ "te_pt = glob.glob(\"/content/Testing/pituitary_tumor/*\")\n",
+ "\n",
+ "training_files = []\n",
+ "testing_files = []\n",
+ "\n",
+ "def appendimages(list_files, g_files, m_files, none_files, p_files):\n",
+ " for gt in g_files:\n",
+ " list_files.append(gt)\n",
+ " for mt in m_files:\n",
+ " list_files.append(mt)\n",
+ " for nonet in none_files:\n",
+ " list_files.append(nonet)\n",
+ " for pt in p_files:\n",
+ " list_files.append(pt)\n",
+ "\n",
+ "appendimages(training_files, tr_gt, tr_mt, tr_none, tr_pt)\n",
+ "appendimages(testing_files, te_gt, te_mt, te_none, te_pt)\n",
+ "\n",
+ "total_files = []\n",
+ "for one_file1 in training_files:\n",
+ " total_files.append(one_file1)\n",
+ "for one_file2 in testing_files:\n",
+ " total_files.append(one_file2)\n",
+ "\n",
+ "print(len(training_files), len(testing_files))\n",
+ "print(len(total_files))"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 66,
+ "metadata": {
+ "colab": {
+ "base_uri": "https://localhost:8080/",
+ "height": 355
+ },
+ "id": "XX6hm2jjqkBi",
+ "outputId": "59941dc4-1751-4830-c352-e0aac5c46a11"
+ },
+ "outputs": [
+ {
+ "output_type": "stream",
+ "name": "stdout",
+ "text": [
+ "926 937 500 901\n"
+ ]
+ },
+ {
+ "output_type": "execute_result",
+ "data": {
+ "text/plain": [
+ ""
+ ]
+ },
+ "metadata": {},
+ "execution_count": 66
+ },
+ {
+ "output_type": "display_data",
+ "data": {
+ "image/png": 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\n",
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+ "