ISIC2018_Preprocessing.ipynb

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  "metadata": {
    "colab": {
      "name": "ISIC2018_Preprocessing.ipynb",
      "provenance": [],
      "collapsed_sections": [],
      "include_colab_link": true
    },
    "kernelspec": {
      "display_name": "Python 3",
      "name": "python3"
    }
  },
  "cells": [
    {
      "cell_type": "markdown",
      "metadata": {
        "id": "view-in-github",
        "colab_type": "text"
      },
      "source": [
        "<a href=\"https://colab.research.google.com/github/akibkhan1/skin-lesion-classification/blob/main/ISIC2018_Preprocessing.ipynb\" target=\"_parent\"><img src=\"https://colab.research.google.com/assets/colab-badge.svg\" alt=\"Open In Colab\"/></a>"
      ]
    },
    {
      "cell_type": "markdown",
      "metadata": {
        "id": "Zp9Gdvrr6W-k"
      },
      "source": [
        "#Modifying the Ground Truth CSV for Preprocessing"
      ]
    },
    {
      "cell_type": "code",
      "metadata": {
        "id": "d1Zqd6Ay6Wit"
      },
      "source": [
        "import pandas as pd\n",
        "import numpy as np"
      ],
      "execution_count": null,
      "outputs": []
    },
    {
      "cell_type": "code",
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/",
          "height": 356
        },
        "id": "uQPaZKBx6yBO",
        "outputId": "e6055483-05d5-4aef-f098-77b36f209e74"
      },
      "source": [
        "one_hot_labels = pd.read_csv('/content/ISIC2018_Task3_Training_GroundTruth.csv')\n",
        "one_hot_labels.head(10)"
      ],
      "execution_count": null,
      "outputs": [
        {
          "output_type": "execute_result",
          "data": {
            "text/html": [
              "<div>\n",
              "<style scoped>\n",
              "    .dataframe tbody tr th:only-of-type {\n",
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              "\n",
              "    .dataframe tbody tr th {\n",
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              "    }\n",
              "\n",
              "    .dataframe thead th {\n",
              "        text-align: right;\n",
              "    }\n",
              "</style>\n",
              "<table border=\"1\" class=\"dataframe\">\n",
              "  <thead>\n",
              "    <tr style=\"text-align: right;\">\n",
              "      <th></th>\n",
              "      <th>image</th>\n",
              "      <th>MEL</th>\n",
              "      <th>NV</th>\n",
              "      <th>BCC</th>\n",
              "      <th>AKIEC</th>\n",
              "      <th>BKL</th>\n",
              "      <th>DF</th>\n",
              "      <th>VASC</th>\n",
              "    </tr>\n",
              "  </thead>\n",
              "  <tbody>\n",
              "    <tr>\n",
              "      <th>0</th>\n",
              "      <td>ISIC_0024306</td>\n",
              "      <td>0.0</td>\n",
              "      <td>1.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "    </tr>\n",
              "    <tr>\n",
              "      <th>1</th>\n",
              "      <td>ISIC_0024307</td>\n",
              "      <td>0.0</td>\n",
              "      <td>1.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "    </tr>\n",
              "    <tr>\n",
              "      <th>2</th>\n",
              "      <td>ISIC_0024308</td>\n",
              "      <td>0.0</td>\n",
              "      <td>1.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "    </tr>\n",
              "    <tr>\n",
              "      <th>3</th>\n",
              "      <td>ISIC_0024309</td>\n",
              "      <td>0.0</td>\n",
              "      <td>1.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "    </tr>\n",
              "    <tr>\n",
              "      <th>4</th>\n",
              "      <td>ISIC_0024310</td>\n",
              "      <td>1.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "    </tr>\n",
              "    <tr>\n",
              "      <th>5</th>\n",
              "      <td>ISIC_0024311</td>\n",
              "      <td>0.0</td>\n",
              "      <td>1.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "    </tr>\n",
              "    <tr>\n",
              "      <th>6</th>\n",
              "      <td>ISIC_0024312</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>1.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "    </tr>\n",
              "    <tr>\n",
              "      <th>7</th>\n",
              "      <td>ISIC_0024313</td>\n",
              "      <td>1.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "    </tr>\n",
              "    <tr>\n",
              "      <th>8</th>\n",
              "      <td>ISIC_0024314</td>\n",
              "      <td>0.0</td>\n",
              "      <td>1.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "    </tr>\n",
              "    <tr>\n",
              "      <th>9</th>\n",
              "      <td>ISIC_0024315</td>\n",
              "      <td>1.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "      <td>0.0</td>\n",
              "    </tr>\n",
              "  </tbody>\n",
              "</table>\n",
              "</div>"
            ],
            "text/plain": [
              "          image  MEL   NV  BCC  AKIEC  BKL   DF  VASC\n",
              "0  ISIC_0024306  0.0  1.0  0.0    0.0  0.0  0.0   0.0\n",
              "1  ISIC_0024307  0.0  1.0  0.0    0.0  0.0  0.0   0.0\n",
              "2  ISIC_0024308  0.0  1.0  0.0    0.0  0.0  0.0   0.0\n",
              "3  ISIC_0024309  0.0  1.0  0.0    0.0  0.0  0.0   0.0\n",
              "4  ISIC_0024310  1.0  0.0  0.0    0.0  0.0  0.0   0.0\n",
              "5  ISIC_0024311  0.0  1.0  0.0    0.0  0.0  0.0   0.0\n",
              "6  ISIC_0024312  0.0  0.0  0.0    0.0  1.0  0.0   0.0\n",
              "7  ISIC_0024313  1.0  0.0  0.0    0.0  0.0  0.0   0.0\n",
              "8  ISIC_0024314  0.0  1.0  0.0    0.0  0.0  0.0   0.0\n",
              "9  ISIC_0024315  1.0  0.0  0.0    0.0  0.0  0.0   0.0"
            ]
          },
          "metadata": {
            "tags": []
          },
          "execution_count": 14
        }
      ]
    },
    {
      "cell_type": "code",
      "metadata": {
        "id": "q65KSzuN67Mk"
      },
      "source": [
        "classes = ['MEL', 'NV', 'BCC', 'AKIEC', 'BKL', 'DF', 'VASC']\n",
        "rows = []\n",
        "\n",
        "for i in range(len(one_hot_labels)):\n",
        "  label = []\n",
        "  row = []\n",
        "  for cls in classes:\n",
        "    label.append(one_hot_labels.iloc[i][cls])\n",
        "\n",
        "  row.append(one_hot_labels.iloc[i]['image'])\n",
        "  row.append(classes[np.argmax(label)])\n",
        "  rows.append(row)\n",
        "\n",
        "# print(rows)"
      ],
      "execution_count": null,
      "outputs": []
    },
    {
      "cell_type": "code",
      "metadata": {
        "id": "vsSgAH_TAGYg"
      },
      "source": [
        "df = pd.DataFrame(rows, columns=['img_id', 'diagnostic'])"
      ],
      "execution_count": null,
      "outputs": []
    },
    {
      "cell_type": "code",
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/",
          "height": 356
        },
        "id": "eDTcIp3eAaA7",
        "outputId": "2703271c-4d1e-46c8-aee7-c012ac8b9387"
      },
      "source": [
        "df.head(10)"
      ],
      "execution_count": null,
      "outputs": [
        {
          "output_type": "execute_result",
          "data": {
            "text/html": [
              "<div>\n",
              "<style scoped>\n",
              "    .dataframe tbody tr th:only-of-type {\n",
              "        vertical-align: middle;\n",
              "    }\n",
              "\n",
              "    .dataframe tbody tr th {\n",
              "        vertical-align: top;\n",
              "    }\n",
              "\n",
              "    .dataframe thead th {\n",
              "        text-align: right;\n",
              "    }\n",
              "</style>\n",
              "<table border=\"1\" class=\"dataframe\">\n",
              "  <thead>\n",
              "    <tr style=\"text-align: right;\">\n",
              "      <th></th>\n",
              "      <th>img_id</th>\n",
              "      <th>diagnostic</th>\n",
              "    </tr>\n",
              "  </thead>\n",
              "  <tbody>\n",
              "    <tr>\n",
              "      <th>0</th>\n",
              "      <td>ISIC_0024306</td>\n",
              "      <td>NV</td>\n",
              "    </tr>\n",
              "    <tr>\n",
              "      <th>1</th>\n",
              "      <td>ISIC_0024307</td>\n",
              "      <td>NV</td>\n",
              "    </tr>\n",
              "    <tr>\n",
              "      <th>2</th>\n",
              "      <td>ISIC_0024308</td>\n",
              "      <td>NV</td>\n",
              "    </tr>\n",
              "    <tr>\n",
              "      <th>3</th>\n",
              "      <td>ISIC_0024309</td>\n",
              "      <td>NV</td>\n",
              "    </tr>\n",
              "    <tr>\n",
              "      <th>4</th>\n",
              "      <td>ISIC_0024310</td>\n",
              "      <td>MEL</td>\n",
              "    </tr>\n",
              "    <tr>\n",
              "      <th>5</th>\n",
              "      <td>ISIC_0024311</td>\n",
              "      <td>NV</td>\n",
              "    </tr>\n",
              "    <tr>\n",
              "      <th>6</th>\n",
              "      <td>ISIC_0024312</td>\n",
              "      <td>BKL</td>\n",
              "    </tr>\n",
              "    <tr>\n",
              "      <th>7</th>\n",
              "      <td>ISIC_0024313</td>\n",
              "      <td>MEL</td>\n",
              "    </tr>\n",
              "    <tr>\n",
              "      <th>8</th>\n",
              "      <td>ISIC_0024314</td>\n",
              "      <td>NV</td>\n",
              "    </tr>\n",
              "    <tr>\n",
              "      <th>9</th>\n",
              "      <td>ISIC_0024315</td>\n",
              "      <td>MEL</td>\n",
              "    </tr>\n",
              "  </tbody>\n",
              "</table>\n",
              "</div>"
            ],
            "text/plain": [
              "         img_id diagnostic\n",
              "0  ISIC_0024306         NV\n",
              "1  ISIC_0024307         NV\n",
              "2  ISIC_0024308         NV\n",
              "3  ISIC_0024309         NV\n",
              "4  ISIC_0024310        MEL\n",
              "5  ISIC_0024311         NV\n",
              "6  ISIC_0024312        BKL\n",
              "7  ISIC_0024313        MEL\n",
              "8  ISIC_0024314         NV\n",
              "9  ISIC_0024315        MEL"
            ]
          },
          "metadata": {
            "tags": []
          },
          "execution_count": 25
        }
      ]
    },
    {
      "cell_type": "code",
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "xiTzXtzOBGK_",
        "outputId": "4958a66e-f34f-40da-ba92-8faf694aae29"
      },
      "source": [
        "print(len(df[df['diagnostic'] == 'MEL']))\n",
        "print(len(df[df['diagnostic'] == 'NV']))\n",
        "print(len(df[df['diagnostic'] == 'BCC']))\n",
        "print(len(df[df['diagnostic'] == 'AKIEC']))\n",
        "print(len(df[df['diagnostic'] == 'BKL']))\n",
        "print(len(df[df['diagnostic'] == 'DF']))\n",
        "print(len(df[df['diagnostic'] == 'VASC']))"
      ],
      "execution_count": null,
      "outputs": [
        {
          "output_type": "stream",
          "text": [
            "1113\n",
            "6705\n",
            "514\n",
            "327\n",
            "1099\n",
            "115\n",
            "142\n"
          ],
          "name": "stdout"
        }
      ]
    },
    {
      "cell_type": "code",
      "metadata": {
        "id": "gkKIn0BkAplX"
      },
      "source": [
        "df.to_csv('ISIC_GroundTruth.csv')"
      ],
      "execution_count": null,
      "outputs": []
    },
    {
      "cell_type": "markdown",
      "metadata": {
        "id": "HnRcC7PkOtyv"
      },
      "source": [
        "# Data Preprocessing for ISIC 2018 Skin Lesion Classification\n",
        "\n",
        "**Authors:**\n",
        "<br>\n",
        "Akib Mohammed Khan, Alif Asharafee, Fahim Shahriar Khan,\n",
        "<br>\n",
        "Islamic University of Techonology."
      ]
    },
    {
      "cell_type": "code",
      "metadata": {
        "id": "dn-6c02VmqiN"
      },
      "source": [
        "import os\n",
        "import zipfile\n",
        "import glob\n",
        "import random\n",
        "import tensorflow as tf\n",
        "import pandas as pd\n",
        "import numpy as np\n",
        "from tensorflow.keras.optimizers import RMSprop\n",
        "from tensorflow.keras.preprocessing.image import ImageDataGenerator\n",
        "from tensorflow.keras import layers\n",
        "from tensorflow.keras import Model\n",
        "from shutil import copyfile, move"
      ],
      "execution_count": null,
      "outputs": []
    },
    {
      "cell_type": "code",
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "ZUdKGmJH9u25",
        "outputId": "9fc1a377-bb73-4b35-f235-8369310310fc"
      },
      "source": [
        "from tensorflow.python.client import device_lib\n",
        "device_lib.list_local_devices()"
      ],
      "execution_count": null,
      "outputs": [
        {
          "output_type": "execute_result",
          "data": {
            "text/plain": [
              "[name: \"/device:CPU:0\"\n",
              " device_type: \"CPU\"\n",
              " memory_limit: 268435456\n",
              " locality {\n",
              " }\n",
              " incarnation: 16501932769295188467]"
            ]
          },
          "metadata": {
            "tags": []
          },
          "execution_count": 32
        }
      ]
    },
    {
      "cell_type": "markdown",
      "metadata": {
        "id": "Oie34Vr_ZRJ0"
      },
      "source": [
        "###Download Zip"
      ]
    },
    {
      "cell_type": "code",
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "WmhZTpF4zL_u",
        "outputId": "11ce2645-8931-4801-de77-0dabfa366979"
      },
      "source": [
        "!gdown --id \"1RBzMmkKmz42L1xZpx4_F0Kwn5MN0Rq8c\""
      ],
      "execution_count": null,
      "outputs": [
        {
          "output_type": "stream",
          "text": [
            "Downloading...\n",
            "From: https://drive.google.com/uc?id=1RBzMmkKmz42L1xZpx4_F0Kwn5MN0Rq8c\n",
            "To: /content/ISIC2018_Task3_Training_Input.zip\n",
            "2.77GB [00:36, 76.1MB/s]\n"
          ],
          "name": "stdout"
        }
      ]
    },
    {
      "cell_type": "code",
      "metadata": {
        "id": "3sd9dQWa23aj"
      },
      "source": [
        "local_zip = '/content/ISIC2018_Task3_Training_Input.zip'\n",
        "zip_ref = zipfile.ZipFile(local_zip, 'r')\n",
        "zip_ref.extractall('/content/')\n",
        "zip_ref.close()"
      ],
      "execution_count": null,
      "outputs": []
    },
    {
      "cell_type": "markdown",
      "metadata": {
        "id": "I7jD4XDNacqE"
      },
      "source": [
        "###Check Directory Length"
      ]
    },
    {
      "cell_type": "code",
      "metadata": {
        "id": "gi3yD62a6X3S",
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "outputId": "c08e72ea-1981-4315-832d-31f16990d695"
      },
      "source": [
        "print(len(os.listdir('/content/ISIC2018_Task3_Training_Input')))"
      ],
      "execution_count": null,
      "outputs": [
        {
          "output_type": "stream",
          "text": [
            "10017\n"
          ],
          "name": "stdout"
        }
      ]
    },
    {
      "cell_type": "code",
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "Q0KuU6f0K7Q7",
        "outputId": "eeadd5fc-e602-4a9d-d9b8-3fe654624018"
      },
      "source": [
        "txt_files = glob.glob('/content/ISIC2018_Task3_Training_Input/*txt')\n",
        "\n",
        "for f in txt_files:\n",
        "  os.remove(f)\n",
        "print(len(os.listdir('/content/ISIC2018_Task3_Training_Input')))"
      ],
      "execution_count": null,
      "outputs": [
        {
          "output_type": "stream",
          "text": [
            "10015\n"
          ],
          "name": "stdout"
        }
      ]
    },
    {
      "cell_type": "markdown",
      "metadata": {
        "id": "reqRbRRucFCp"
      },
      "source": [
        "###Creating File Paths from CSV"
      ]
    },
    {
      "cell_type": "code",
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "cSvIixuXzrSq",
        "outputId": "09322965-f338-4105-fa79-185fc9a76f80"
      },
      "source": [
        "!gdown --id '1qz2SOPbmNlOi0XS8WQb8ZHh_es6c8hvc'"
      ],
      "execution_count": null,
      "outputs": [
        {
          "output_type": "stream",
          "text": [
            "Downloading...\n",
            "From: https://drive.google.com/uc?id=1qz2SOPbmNlOi0XS8WQb8ZHh_es6c8hvc\n",
            "To: /content/ISIC_GroundTruth.csv\n",
            "\r  0% 0.00/213k [00:00<?, ?B/s]\r100% 213k/213k [00:00<00:00, 21.1MB/s]\n"
          ],
          "name": "stdout"
        }
      ]
    },
    {
      "cell_type": "code",
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/",
          "height": 202
        },
        "id": "eGBsQyGncHsv",
        "outputId": "a9d8c1f1-8853-46d4-aeb1-1383cb50cc83"
      },
      "source": [
        "files = pd.read_csv('ISIC_GroundTruth.csv')\n",
        "files.head(5)"
      ],
      "execution_count": null,
      "outputs": [
        {
          "output_type": "execute_result",
          "data": {
            "text/html": [
              "<div>\n",
              "<style scoped>\n",
              "    .dataframe tbody tr th:only-of-type {\n",
              "        vertical-align: middle;\n",
              "    }\n",
              "\n",
              "    .dataframe tbody tr th {\n",
              "        vertical-align: top;\n",
              "    }\n",
              "\n",
              "    .dataframe thead th {\n",
              "        text-align: right;\n",
              "    }\n",
              "</style>\n",
              "<table border=\"1\" class=\"dataframe\">\n",
              "  <thead>\n",
              "    <tr style=\"text-align: right;\">\n",
              "      <th></th>\n",
              "      <th>Unnamed: 0</th>\n",
              "      <th>img_id</th>\n",
              "      <th>diagnostic</th>\n",
              "    </tr>\n",
              "  </thead>\n",
              "  <tbody>\n",
              "    <tr>\n",
              "      <th>0</th>\n",
              "      <td>0</td>\n",
              "      <td>ISIC_0024306</td>\n",
              "      <td>NV</td>\n",
              "    </tr>\n",
              "    <tr>\n",
              "      <th>1</th>\n",
              "      <td>1</td>\n",
              "      <td>ISIC_0024307</td>\n",
              "      <td>NV</td>\n",
              "    </tr>\n",
              "    <tr>\n",
              "      <th>2</th>\n",
              "      <td>2</td>\n",
              "      <td>ISIC_0024308</td>\n",
              "      <td>NV</td>\n",
              "    </tr>\n",
              "    <tr>\n",
              "      <th>3</th>\n",
              "      <td>3</td>\n",
              "      <td>ISIC_0024309</td>\n",
              "      <td>NV</td>\n",
              "    </tr>\n",
              "    <tr>\n",
              "      <th>4</th>\n",
              "      <td>4</td>\n",
              "      <td>ISIC_0024310</td>\n",
              "      <td>MEL</td>\n",
              "    </tr>\n",
              "  </tbody>\n",
              "</table>\n",
              "</div>"
            ],
            "text/plain": [
              "   Unnamed: 0        img_id diagnostic\n",
              "0           0  ISIC_0024306         NV\n",
              "1           1  ISIC_0024307         NV\n",
              "2           2  ISIC_0024308         NV\n",
              "3           3  ISIC_0024309         NV\n",
              "4           4  ISIC_0024310        MEL"
            ]
          },
          "metadata": {
            "tags": []
          },
          "execution_count": 50
        }
      ]
    },
    {
      "cell_type": "markdown",
      "metadata": {
        "id": "1MfnujWxhf0h"
      },
      "source": [
        "###File List Generator Function"
      ]
    },
    {
      "cell_type": "code",
      "metadata": {
        "id": "u4OQUrXqhfgh"
      },
      "source": [
        "def filename_filter(classname):\n",
        "  return files[files['diagnostic'] == classname]['img_id']"
      ],
      "execution_count": null,
      "outputs": []
    },
    {
      "cell_type": "code",
      "metadata": {
        "id": "P2z8xNGgeIQ8"
      },
      "source": [
        "MEL_filenames = filename_filter('MEL')\n",
        "NV_filenames = filename_filter('NV')\n",
        "BCC_filenames = filename_filter('BCC')\n",
        "AKIEC_filenames = filename_filter('AKIEC')\n",
        "BKL_filenames = filename_filter('BKL')\n",
        "DF_filenames = filename_filter('DF')\n",
        "VASC_filenames = filename_filter('VASC')"
      ],
      "execution_count": null,
      "outputs": []
    },
    {
      "cell_type": "markdown",
      "metadata": {
        "id": "3ud1rZiwid5w"
      },
      "source": [
        "###Make Folders to Move Images to their Respective Class Directories"
      ]
    },
    {
      "cell_type": "code",
      "metadata": {
        "id": "glfp0Ygkg1Q4"
      },
      "source": [
        "try:\n",
        "  os.mkdir(\"/content/ISIC-full/\")\n",
        "  os.mkdir(\"/content/ISIC-full/MEL/\")\n",
        "  os.mkdir(\"/content/ISIC-full/NV/\")\n",
        "  os.mkdir(\"/content/ISIC-full/BCC/\")\n",
        "  os.mkdir(\"/content/ISIC-full/AKIEC/\")\n",
        "  os.mkdir(\"/content/ISIC-full/BKL/\")\n",
        "  os.mkdir(\"/content/ISIC-full/DF/\")\n",
        "  os.mkdir(\"/content/ISIC-full/VASC/\")\n",
        "except OSError:\n",
        "    pass"
      ],
      "execution_count": null,
      "outputs": []
    },
    {
      "cell_type": "markdown",
      "metadata": {
        "id": "4bfwV00AfbXk"
      },
      "source": [
        "###Mover Function"
      ]
    },
    {
      "cell_type": "code",
      "metadata": {
        "id": "KSpYN3GXfd_N"
      },
      "source": [
        "def mover(filenames, dst):\n",
        "  src = \"/content/ISIC2018_Task3_Training_Input\"\n",
        "  count = 0\n",
        "  for image in filenames:\n",
        "    image = image + \".jpg\"\n",
        "    move(os.path.join(src, image), os.path.join(dst, image))\n",
        "    count += 1\n",
        "  print(f'{count} files moved to {dst}')"
      ],
      "execution_count": null,
      "outputs": []
    },
    {
      "cell_type": "code",
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "hXF3upmHfoEP",
        "outputId": "8e5f45a5-07ec-4327-dbb6-f718aa9fd103"
      },
      "source": [
        "MEL_Destination = \"/content/ISIC-full/MEL/\"\n",
        "mover(MEL_filenames, MEL_Destination)\n",
        "\n",
        "NV_Destination = \"/content/ISIC-full/NV/\"\n",
        "mover(NV_filenames, NV_Destination)\n",
        "\n",
        "BCC_Destination = \"/content/ISIC-full/BCC/\"\n",
        "mover(BCC_filenames, BCC_Destination)\n",
        "\n",
        "AKIEC_Destination = \"/content/ISIC-full/AKIEC/\"\n",
        "mover(AKIEC_filenames, AKIEC_Destination)\n",
        "\n",
        "BKL_Destination = \"/content/ISIC-full/BKL/\"\n",
        "mover(BKL_filenames, BKL_Destination)\n",
        "\n",
        "DF_Destination = \"/content/ISIC-full/DF/\"\n",
        "mover(DF_filenames, DF_Destination)\n",
        "\n",
        "VASC_Destination = \"/content/ISIC-full/VASC/\"\n",
        "mover(VASC_filenames, VASC_Destination)"
      ],
      "execution_count": null,
      "outputs": [
        {
          "output_type": "stream",
          "text": [
            "1113 files moved to /content/ISIC-full/MEL/\n",
            "6705 files moved to /content/ISIC-full/NV/\n",
            "514 files moved to /content/ISIC-full/BCC/\n",
            "327 files moved to /content/ISIC-full/AKIEC/\n",
            "1099 files moved to /content/ISIC-full/BKL/\n",
            "115 files moved to /content/ISIC-full/DF/\n",
            "142 files moved to /content/ISIC-full/VASC/\n"
          ],
          "name": "stdout"
        }
      ]
    },
    {
      "cell_type": "code",
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "ynex-DbsqWE2",
        "outputId": "cffea8ac-e9ce-44be-af6d-ea648c6eb22b"
      },
      "source": [
        "print(len(os.listdir(MEL_Destination)))\n",
        "print(len(os.listdir(NV_Destination)))\n",
        "print(len(os.listdir(BCC_Destination)))\n",
        "print(len(os.listdir(AKIEC_Destination)))\n",
        "print(len(os.listdir(BKL_Destination)))\n",
        "print(len(os.listdir(DF_Destination)))\n",
        "print(len(os.listdir(VASC_Destination)))"
      ],
      "execution_count": null,
      "outputs": [
        {
          "output_type": "stream",
          "text": [
            "1113\n",
            "6705\n",
            "514\n",
            "327\n",
            "1099\n",
            "115\n",
            "142\n"
          ],
          "name": "stdout"
        }
      ]
    },
    {
      "cell_type": "markdown",
      "metadata": {
        "id": "OZUtz_yXaoHb"
      },
      "source": [
        "###Make Necessary Directories for Train Valid Split"
      ]
    },
    {
      "cell_type": "code",
      "metadata": {
        "id": "F-QkLjxpmyK2"
      },
      "source": [
        "try:\n",
        "  os.mkdir(\"/content/ISIC-full-split/\")\n",
        "  os.mkdir(\"/content/ISIC-full-split/training/\")\n",
        "  os.mkdir(\"/content/ISIC-full-split/training/MEL/\")\n",
        "  os.mkdir(\"/content/ISIC-full-split/training/NV/\")\n",
        "  os.mkdir(\"/content/ISIC-full-split/training/BCC/\")\n",
        "  os.mkdir(\"/content/ISIC-full-split/training/AKIEC/\")\n",
        "  os.mkdir(\"/content/ISIC-full-split/training/BKL/\")\n",
        "  os.mkdir(\"/content/ISIC-full-split/training/DF/\")\n",
        "  os.mkdir(\"/content/ISIC-full-split/training/VASC/\")\n",
        "  os.mkdir(\"/content/ISIC-full-split/validation/\")\n",
        "  os.mkdir(\"/content/ISIC-full-split/validation/MEL/\")\n",
        "  os.mkdir(\"/content/ISIC-full-split/validation/NV/\")\n",
        "  os.mkdir(\"/content/ISIC-full-split/validation/BCC/\")\n",
        "  os.mkdir(\"/content/ISIC-full-split/validation/AKIEC/\")\n",
        "  os.mkdir(\"/content/ISIC-full-split/validation/BKL/\")\n",
        "  os.mkdir(\"/content/ISIC-full-split/validation/DF/\")\n",
        "  os.mkdir(\"/content/ISIC-full-split/validation/VASC/\")\n",
        "except OSError:\n",
        "    pass"
      ],
      "execution_count": null,
      "outputs": []
    },
    {
      "cell_type": "markdown",
      "metadata": {
        "id": "4dUoYUikmZP4"
      },
      "source": [
        "###Validation Split"
      ]
    },
    {
      "cell_type": "code",
      "metadata": {
        "id": "zvSODo0f9LaU"
      },
      "source": [
        "def split_data(SOURCE, TRAINING, VALIDATION, SPLIT_SIZE):\n",
        "  source_files = os.listdir(SOURCE)\n",
        "  randomized_source_files = random.sample(source_files, len(source_files))\n",
        "\n",
        "  train_split = randomized_source_files[ :int(SPLIT_SIZE * len(source_files))]\n",
        "  valid_split = randomized_source_files[int(SPLIT_SIZE * len(source_files)): ]\n",
        "\n",
        "  for file in train_split:\n",
        "      if os.path.getsize(os.path.join(SOURCE, file)) != 0:\n",
        "          move(os.path.join(SOURCE, file), os.path.join(TRAINING, file))\n",
        "\n",
        "  for file in valid_split:\n",
        "      if os.path.getsize(os.path.join(SOURCE, file)) != 0:\n",
        "          move(os.path.join(SOURCE, file), os.path.join(VALIDATION, file))\n",
        "\n",
        "MEL_Dir = \"/content/ISIC-full/MEL/\"\n",
        "MEL_Training = \"/content/ISIC-full-split/training/MEL/\"\n",
        "MEL_Testing = \"/content/ISIC-full-split/validation/MEL/\"\n",
        "\n",
        "NV_Dir = \"/content/ISIC-full/NV/\"\n",
        "NV_Training = \"/content/ISIC-full-split/training/NV/\"\n",
        "NV_Testing = \"/content/ISIC-full-split/validation/NV/\"\n",
        "\n",
        "BCC_Dir = \"/content/ISIC-full/BCC/\"\n",
        "BCC_Training = \"/content/ISIC-full-split/training/BCC/\"\n",
        "BCC_Testing = \"/content/ISIC-full-split/validation/BCC/\"\n",
        "\n",
        "AKIEC_Dir = \"/content/ISIC-full/AKIEC/\"\n",
        "AKIEC_Training = \"/content/ISIC-full-split/training/AKIEC/\"\n",
        "AKIEC_Testing = \"/content/ISIC-full-split/validation/AKIEC/\"\n",
        "\n",
        "BKL_Dir = \"/content/ISIC-full/BKL/\"\n",
        "BKL_Training = \"/content/ISIC-full-split/training/BKL/\"\n",
        "BKL_Testing = \"/content/ISIC-full-split/validation/BKL/\"\n",
        "\n",
        "DF_Dir = \"/content/ISIC-full/DF/\"\n",
        "DF_Training = \"/content/ISIC-full-split/training/DF/\"\n",
        "DF_Testing = \"/content/ISIC-full-split/validation/DF/\"\n",
        "\n",
        "VASC_Dir = \"/content/ISIC-full/VASC/\"\n",
        "VASC_Training = \"/content/ISIC-full-split/training/VASC/\"\n",
        "VASC_Testing = \"/content/ISIC-full-split/validation/VASC/\"\n",
        "\n",
        "split_size = .80\n",
        "\n",
        "split_data(MEL_Dir, MEL_Training, MEL_Testing, split_size)\n",
        "split_data(NV_Dir, NV_Training, NV_Testing, split_size)\n",
        "split_data(BCC_Dir, BCC_Training, BCC_Testing, split_size)\n",
        "split_data(AKIEC_Dir, AKIEC_Training, AKIEC_Testing, split_size)\n",
        "split_data(BKL_Dir, BKL_Training, BKL_Testing, split_size)\n",
        "split_data(DF_Dir, DF_Training, DF_Testing, split_size)\n",
        "split_data(VASC_Dir, VASC_Training, VASC_Testing, split_size)"
      ],
      "execution_count": null,
      "outputs": []
    },
    {
      "cell_type": "code",
      "metadata": {
        "id": "luthalB76ufC",
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "outputId": "828ec208-833b-4eb6-e0f3-08057357f571"
      },
      "source": [
        "print('MEL -> Training:', len(os.listdir(MEL_Training)), 'Testing:', len(os.listdir(MEL_Testing)))\n",
        "print('NV -> Training:', len(os.listdir(NV_Training)), 'Testing:', len(os.listdir(NV_Testing)))\n",
        "print('BCC -> Training:', len(os.listdir(BCC_Training)), 'Testing:', len(os.listdir(BCC_Testing)))\n",
        "print('AKIEC -> Training:', len(os.listdir(AKIEC_Training)), 'Testing:', len(os.listdir(AKIEC_Testing)))\n",
        "print('BKL -> Training:', len(os.listdir(BKL_Training)), 'Testing:', len(os.listdir(BKL_Testing)))\n",
        "print('DF -> Training:', len(os.listdir(DF_Training)), 'Testing:', len(os.listdir(DF_Testing)))\n",
        "print('VASC -> Training:', len(os.listdir(VASC_Training)), 'Testing:', len(os.listdir(VASC_Testing)))"
      ],
      "execution_count": null,
      "outputs": [
        {
          "output_type": "stream",
          "text": [
            "MEL -> Training: 890 Testing: 223\n",
            "NV -> Training: 5364 Testing: 1341\n",
            "BCC -> Training: 411 Testing: 103\n",
            "AKIEC -> Training: 261 Testing: 66\n",
            "BKL -> Training: 879 Testing: 220\n",
            "DF -> Training: 92 Testing: 23\n",
            "VASC -> Training: 113 Testing: 29\n"
          ],
          "name": "stdout"
        }
      ]
    },
    {
      "cell_type": "code",
      "metadata": {
        "id": "TzCui2LZx1Sw",
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "outputId": "0624281a-c4c7-4007-9df0-55683cb6c7f9"
      },
      "source": [
        "!zip -r ISIC-split.zip ISIC-full-split"
      ],
      "execution_count": null,
      "outputs": [
        {
          "output_type": "stream",
          "text": [
            "\u001b[1;30;43mStreaming output truncated to the last 5000 lines.\u001b[0m\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0032950.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0027459.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0030820.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0025496.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0028090.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0026669.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0029379.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0026087.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0034257.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0024543.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0030920.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0028538.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0027617.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0028949.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0028828.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0028942.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0031880.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0026975.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0030290.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0033435.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0025728.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0030518.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0024924.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0026381.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0029550.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0030550.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0029955.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0026288.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0034232.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0026725.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0026809.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0032233.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0028886.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0032739.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0029119.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0032584.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0028664.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0027039.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0026252.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0027902.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0031084.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0033223.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0032891.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0030495.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0033083.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0025848.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0032830.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0024399.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0026445.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0031809.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0025211.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0027738.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0030934.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0032155.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0027427.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0029381.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0032237.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0027882.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0032127.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0024861.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0026937.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0031982.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0025415.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0031636.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0026323.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0030858.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0025624.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0030735.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0025272.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0030229.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0029255.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0026915.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0034254.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0031845.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0032153.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0031748.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/NV/ISIC_0024811.jpg (deflated 0%)\n",
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            "  adding: ISIC-full-split/training/BCC/ISIC_0033020.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0024472.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0028283.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0028815.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0024443.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0030230.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0031651.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0028568.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0032696.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0031943.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0028316.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0030094.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0026324.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0031318.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0026321.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0026192.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0030574.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0024431.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0034306.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0027920.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0033571.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0027677.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0032316.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0030800.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0025826.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0029755.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0032429.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0029034.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0029053.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0027814.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0031697.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0025718.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0032174.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0026845.jpg (deflated 0%)\n",
            "  adding: ISIC-full-split/training/BCC/ISIC_0027629.jpg (deflated 0%)\n"
          ],
          "name": "stdout"
        }
      ]
    },
    {
      "cell_type": "code",
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "NmhkPTiXyY_I",
        "outputId": "6c551eff-6c6a-4ac5-e1d1-76d425239974"
      },
      "source": [
        "from google.colab import drive\n",
        "drive.mount('/content/drive')"
      ],
      "execution_count": null,
      "outputs": [
        {
          "output_type": "stream",
          "text": [
            "Mounted at /content/drive\n"
          ],
          "name": "stdout"
        }
      ]
    },
    {
      "cell_type": "code",
      "metadata": {
        "id": "GCDsGg28zVW7"
      },
      "source": [
        "!cp ISIC-split.zip '/content/drive/MyDrive/Thesis Skin Lesion/ISIC2018/'"
      ],
      "execution_count": null,
      "outputs": []
    }
  ]
}