medsam.ipynb

{
  "nbformat": 4,
  "nbformat_minor": 0,
  "metadata": {
    "colab": {
      "provenance": [],
      "gpuType": "T4",
      "authorship_tag": "ABX9TyMnDALtVmg0pmAB+xah4XTR",
      "include_colab_link": true
    },
    "kernelspec": {
      "name": "python3",
      "display_name": "Python 3"
    },
    "language_info": {
      "name": "python"
    },
    "accelerator": "GPU"
  },
  "cells": [
    {
      "cell_type": "markdown",
      "metadata": {
        "id": "view-in-github",
        "colab_type": "text"
      },
      "source": [
        "<a href=\"https://colab.research.google.com/github/pascal-maker/brain-tumor/blob/master/medsam.ipynb\" target=\"_parent\"><img src=\"https://colab.research.google.com/assets/colab-badge.svg\" alt=\"Open In Colab\"/></a>"
      ]
    },
    {
      "cell_type": "code",
      "execution_count": null,
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "mfJhMtTZs8is",
        "outputId": "f23b736e-95eb-42ee-cbbf-a023fc7de894"
      },
      "outputs": [
        {
          "output_type": "stream",
          "name": "stdout",
          "text": [
            "Cloning into 'Medical-SAM-Adapter'...\n",
            "remote: Enumerating objects: 1365, done.\u001b[K\n",
            "remote: Counting objects: 100% (1365/1365), done.\u001b[K\n",
            "remote: Compressing objects: 100% (830/830), done.\u001b[K\n",
            "remote: Total 1365 (delta 579), reused 1232 (delta 517), pack-reused 0\u001b[K\n",
            "Receiving objects: 100% (1365/1365), 17.14 MiB | 18.90 MiB/s, done.\n",
            "Resolving deltas: 100% (579/579), done.\n"
          ]
        }
      ],
      "source": [
        "! git clone https://github.com/KidsWithTokens/Medical-SAM-Adapter"
      ]
    },
    {
      "cell_type": "code",
      "source": [
        "# Download Miniconda installer\n",
        "!wget -c https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh\n",
        "\n",
        "# Install Miniconda\n",
        "!chmod +x Miniconda3-latest-Linux-x86_64.sh\n",
        "!bash ./Miniconda3-latest-Linux-x86_64.sh -b -f -p /usr/local\n",
        "\n",
        "# Initialize Conda\n",
        "import sys\n",
        "sys.path.append('/usr/local/lib/python3.10/site-packages/')\n",
        "\n",
        "# Update Conda\n",
        "!conda update -n base -c defaults conda -y\n"
      ],
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "09c_hY6z3DJw",
        "outputId": "26156028-942b-4702-a4a1-1f734db2f29a"
      },
      "execution_count": null,
      "outputs": [
        {
          "output_type": "stream",
          "name": "stdout",
          "text": [
            "--2024-05-29 09:03:10--  https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh\n",
            "Resolving repo.anaconda.com (repo.anaconda.com)... 104.16.32.241, 104.16.191.158, 2606:4700::6810:bf9e, ...\n",
            "Connecting to repo.anaconda.com (repo.anaconda.com)|104.16.32.241|:443... connected.\n",
            "HTTP request sent, awaiting response... 200 OK\n",
            "Length: 143808873 (137M) [application/octet-stream]\n",
            "Saving to: ‘Miniconda3-latest-Linux-x86_64.sh’\n",
            "\n",
            "Miniconda3-latest-L 100%[===================>] 137.15M   203MB/s    in 0.7s    \n",
            "\n",
            "2024-05-29 09:03:11 (203 MB/s) - ‘Miniconda3-latest-Linux-x86_64.sh’ saved [143808873/143808873]\n",
            "\n",
            "PREFIX=/usr/local\n",
            "Unpacking payload ...\n",
            "\n",
            "Installing base environment...\n",
            "\n",
            "Preparing transaction: ...working... done\n",
            "Executing transaction: ...working... done\n",
            "installation finished.\n",
            "WARNING:\n",
            "    You currently have a PYTHONPATH environment variable set. This may cause\n",
            "    unexpected behavior when running the Python interpreter in Miniconda3.\n",
            "    For best results, please verify that your PYTHONPATH only points to\n",
            "    directories of packages that are compatible with the Python interpreter\n",
            "    in Miniconda3: /usr/local\n",
            "Channels:\n",
            " - defaults\n",
            "Platform: linux-64\n",
            "Collecting package metadata (repodata.json): - \b\b\\ \b\b| \b\b/ \b\b- \b\b\\ \b\b| \b\b/ \b\b- \b\b\\ \b\bdone\n",
            "Solving environment: / \b\b- \b\bdone\n",
            "\n",
            "## Package Plan ##\n",
            "\n",
            "  environment location: /usr/local\n",
            "\n",
            "  added / updated specs:\n",
            "    - conda\n",
            "\n",
            "\n",
            "The following packages will be downloaded:\n",
            "\n",
            "    package                    |            build\n",
            "    ---------------------------|-----------------\n",
            "    conda-24.5.0               |  py312h06a4308_0         1.2 MB\n",
            "    frozendict-2.4.2           |  py312h06a4308_0          36 KB\n",
            "    openssl-3.0.13             |       h7f8727e_2         5.2 MB\n",
            "    ------------------------------------------------------------\n",
            "                                           Total:         6.5 MB\n",
            "\n",
            "The following NEW packages will be INSTALLED:\n",
            "\n",
            "  frozendict         pkgs/main/linux-64::frozendict-2.4.2-py312h06a4308_0 \n",
            "\n",
            "The following packages will be UPDATED:\n",
            "\n",
            "  conda                              24.4.0-py312h06a4308_0 --> 24.5.0-py312h06a4308_0 \n",
            "  openssl                                 3.0.13-h7f8727e_1 --> 3.0.13-h7f8727e_2 \n",
            "\n",
            "\n",
            "\n",
            "Downloading and Extracting Packages:\n",
            "openssl-3.0.13       | 5.2 MB    | :   0% 0/1 [00:00<?, ?it/s]\n",
            "conda-24.5.0         | 1.2 MB    | :   0% 0/1 [00:00<?, ?it/s]\u001b[A\n",
            "\n",
            "frozendict-2.4.2     | 36 KB     | :   0% 0/1 [00:00<?, ?it/s]\u001b[A\u001b[A\n",
            "openssl-3.0.13       | 5.2 MB    | :   0% 0.002992912657148922/1 [00:00<00:45, 45.68s/it]\n",
            "\n",
            "frozendict-2.4.2     | 36 KB     | :  44% 0.43853215920344746/1 [00:00<00:00,  3.02it/s]\u001b[A\u001b[A\n",
            "\n",
            "frozendict-2.4.2     | 36 KB     | : 100% 1.0/1 [00:00<00:00,  3.02it/s]                \u001b[A\u001b[A\n",
            "conda-24.5.0         | 1.2 MB    | : 100% 1.0/1 [00:00<00:00,  2.44it/s]                \u001b[A\n",
            "                                                                        \n",
            "                                                                        \u001b[A\n",
            "\n",
            "                                                                        \u001b[A\u001b[A\n",
            "Preparing transaction: | \b\bdone\n",
            "Verifying transaction: - \b\b\\ \b\b| \b\bdone\n",
            "Executing transaction: - \b\bdone\n"
          ]
        }
      ]
    },
    {
      "cell_type": "code",
      "source": [
        "# Set up the environment variables for Conda\n",
        "import os\n",
        "os.environ['PATH'] = '/usr/local/condabin:' + os.environ['PATH']\n",
        "\n",
        "# Verify Conda installation\n",
        "!conda --version\n"
      ],
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "Yp-pnz2nrg83",
        "outputId": "c48ad9ff-2b7c-4978-d922-5760372ff2ef"
      },
      "execution_count": null,
      "outputs": [
        {
          "output_type": "stream",
          "name": "stdout",
          "text": [
            "conda 24.5.0\n"
          ]
        }
      ]
    },
    {
      "cell_type": "code",
      "source": [
        "! conda init\n"
      ],
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "T4Vh8h0rrrZI",
        "outputId": "d0812f95-adcf-4351-bfff-6e0468756897"
      },
      "execution_count": null,
      "outputs": [
        {
          "output_type": "stream",
          "name": "stdout",
          "text": [
            "no change     /usr/local/condabin/conda\n",
            "no change     /usr/local/bin/conda\n",
            "no change     /usr/local/bin/conda-env\n",
            "no change     /usr/local/bin/activate\n",
            "no change     /usr/local/bin/deactivate\n",
            "no change     /usr/local/etc/profile.d/conda.sh\n",
            "no change     /usr/local/etc/fish/conf.d/conda.fish\n",
            "no change     /usr/local/shell/condabin/Conda.psm1\n",
            "no change     /usr/local/shell/condabin/conda-hook.ps1\n",
            "no change     /usr/local/lib/python3.12/site-packages/xontrib/conda.xsh\n",
            "no change     /usr/local/etc/profile.d/conda.csh\n",
            "modified      /root/.bashrc\n",
            "\n",
            "==> For changes to take effect, close and re-open your current shell. <==\n",
            "\n"
          ]
        }
      ]
    },
    {
      "cell_type": "code",
      "source": [
        "!conda env create -f /content/Medical-SAM-Adapter/environment.yml\n"
      ],
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "JlQsD_Rlrvxb",
        "outputId": "51c3e4d8-22bf-49b2-ac05-624badb1365e"
      },
      "execution_count": null,
      "outputs": [
        {
          "output_type": "stream",
          "name": "stdout",
          "text": [
            "\n",
            "CondaValueError: prefix already exists: /usr/local/envs/sam_adapt\n",
            "\n"
          ]
        }
      ]
    },
    {
      "cell_type": "code",
      "source": [
        "!conda init\n"
      ],
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "OqLzu-KYtGlp",
        "outputId": "1742ad34-b2f7-4774-d661-e5b4dc913df5"
      },
      "execution_count": null,
      "outputs": [
        {
          "output_type": "stream",
          "name": "stdout",
          "text": [
            "no change     /usr/local/condabin/conda\n",
            "no change     /usr/local/bin/conda\n",
            "no change     /usr/local/bin/conda-env\n",
            "no change     /usr/local/bin/activate\n",
            "no change     /usr/local/bin/deactivate\n",
            "no change     /usr/local/etc/profile.d/conda.sh\n",
            "no change     /usr/local/etc/fish/conf.d/conda.fish\n",
            "no change     /usr/local/shell/condabin/Conda.psm1\n",
            "no change     /usr/local/shell/condabin/conda-hook.ps1\n",
            "no change     /usr/local/lib/python3.12/site-packages/xontrib/conda.xsh\n",
            "no change     /usr/local/etc/profile.d/conda.csh\n",
            "no change     /root/.bashrc\n",
            "No action taken.\n"
          ]
        }
      ]
    },
    {
      "cell_type": "code",
      "source": [
        "import os\n",
        "\n",
        "# Create and initialize the environment\n",
        "os.system('conda env create -f /content/Medical-SAM-Adapter/environment.yml')\n",
        "os.system('conda init')\n",
        "\n",
        "# Activate the environment (this might not work as expected directly in the notebook)\n",
        "# os.system('conda activate sam_adapt')\n",
        "\n",
        "# Alternatively, you can install the required packages directly within the notebook environment\n",
        "os.system('conda install --yes --file /content/Medical-SAM-Adapter/environment.yml')\n"
      ],
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "68O4y7EttIIN",
        "outputId": "c2c5f257-aabe-4afd-d00e-47b86b6abe74"
      },
      "execution_count": null,
      "outputs": [
        {
          "output_type": "execute_result",
          "data": {
            "text/plain": [
              "256"
            ]
          },
          "metadata": {},
          "execution_count": 5
        }
      ]
    },
    {
      "cell_type": "code",
      "source": [
        "import sys\n",
        "print(sys.executable)\n",
        "!conda list\n"
      ],
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "14XtsgVrtlwP",
        "outputId": "978e35a6-7c50-4000-e068-951f2be0d2a1"
      },
      "execution_count": null,
      "outputs": [
        {
          "output_type": "stream",
          "name": "stdout",
          "text": [
            "/usr/bin/python3\n",
            "# packages in environment at /usr/local:\n",
            "#\n",
            "# Name                    Version                   Build  Channel\n",
            "_libgcc_mutex             0.1                        main  \n",
            "_openmp_mutex             5.1                       1_gnu  \n",
            "anaconda-anon-usage       0.4.4           py312hfc0e8ea_100  \n",
            "archspec                  0.2.3              pyhd3eb1b0_0  \n",
            "boltons                   23.0.0          py312h06a4308_0  \n",
            "brotli-python             1.0.9           py312h6a678d5_8  \n",
            "bzip2                     1.0.8                h5eee18b_6  \n",
            "c-ares                    1.19.1               h5eee18b_0  \n",
            "ca-certificates           2024.3.11            h06a4308_0  \n",
            "certifi                   2024.2.2        py312h06a4308_0  \n",
            "cffi                      1.16.0          py312h5eee18b_1  \n",
            "charset-normalizer        2.0.4              pyhd3eb1b0_0  \n",
            "conda                     24.5.0          py312h06a4308_0  \n",
            "conda-content-trust       0.2.0           py312h06a4308_1  \n",
            "conda-libmamba-solver     24.1.0             pyhd3eb1b0_0  \n",
            "conda-package-handling    2.2.0           py312h06a4308_1  \n",
            "conda-package-streaming   0.9.0           py312h06a4308_0  \n",
            "cryptography              42.0.5          py312hdda0065_1  \n",
            "distro                    1.9.0           py312h06a4308_0  \n",
            "expat                     2.6.2                h6a678d5_0  \n",
            "fmt                       9.1.0                hdb19cb5_1  \n",
            "frozendict                2.4.2           py312h06a4308_0  \n",
            "icu                       73.1                 h6a678d5_0  \n",
            "idna                      3.7             py312h06a4308_0  \n",
            "jsonpatch                 1.33            py312h06a4308_1  \n",
            "jsonpointer               2.1                pyhd3eb1b0_0  \n",
            "krb5                      1.20.1               h143b758_1  \n",
            "ld_impl_linux-64          2.38                 h1181459_1  \n",
            "libarchive                3.6.2                h6ac8c49_3  \n",
            "libcurl                   8.7.1                h251f7ec_0  \n",
            "libedit                   3.1.20230828         h5eee18b_0  \n",
            "libev                     4.33                 h7f8727e_1  \n",
            "libffi                    3.4.4                h6a678d5_1  \n",
            "libgcc-ng                 11.2.0               h1234567_1  \n",
            "libgomp                   11.2.0               h1234567_1  \n",
            "libmamba                  1.5.8                hfe524e5_2  \n",
            "libmambapy                1.5.8           py312h2dafd23_2  \n",
            "libnghttp2                1.57.0               h2d74bed_0  \n",
            "libsolv                   0.7.24               he621ea3_1  \n",
            "libssh2                   1.11.0               h251f7ec_0  \n",
            "libstdcxx-ng              11.2.0               h1234567_1  \n",
            "libuuid                   1.41.5               h5eee18b_0  \n",
            "libxml2                   2.10.4               hfdd30dd_2  \n",
            "lz4-c                     1.9.4                h6a678d5_1  \n",
            "menuinst                  2.0.2           py312h06a4308_1  \n",
            "ncurses                   6.4                  h6a678d5_0  \n",
            "openssl                   3.0.13               h7f8727e_2  \n",
            "packaging                 23.2            py312h06a4308_0  \n",
            "pcre2                     10.42                hebb0a14_1  \n",
            "pip                       24.0            py312h06a4308_0  \n",
            "platformdirs              3.10.0          py312h06a4308_0  \n",
            "pluggy                    1.0.0           py312h06a4308_1  \n",
            "pybind11-abi              5                    hd3eb1b0_0  \n",
            "pycosat                   0.6.6           py312h5eee18b_1  \n",
            "pycparser                 2.21               pyhd3eb1b0_0  \n",
            "pysocks                   1.7.1           py312h06a4308_0  \n",
            "python                    3.12.3               h996f2a0_1  \n",
            "readline                  8.2                  h5eee18b_0  \n",
            "reproc                    14.2.4               h6a678d5_2  \n",
            "reproc-cpp                14.2.4               h6a678d5_2  \n",
            "requests                  2.31.0          py312h06a4308_1  \n",
            "ruamel.yaml               0.17.21         py312h5eee18b_0  \n",
            "setuptools                69.5.1          py312h06a4308_0  \n",
            "sqlite                    3.45.3               h5eee18b_0  \n",
            "tk                        8.6.14               h39e8969_0  \n",
            "tqdm                      4.66.2          py312he106c6f_0  \n",
            "truststore                0.8.0           py312h06a4308_0  \n",
            "tzdata                    2024a                h04d1e81_0  \n",
            "urllib3                   2.1.0           py312h06a4308_1  \n",
            "wheel                     0.43.0          py312h06a4308_0  \n",
            "xz                        5.4.6                h5eee18b_1  \n",
            "yaml-cpp                  0.8.0                h6a678d5_1  \n",
            "zlib                      1.2.13               h5eee18b_1  \n",
            "zstandard                 0.22.0          py312h2c38b39_0  \n",
            "zstd                      1.5.5                hc292b87_2  \n"
          ]
        }
      ]
    },
    {
      "cell_type": "code",
      "source": [
        "from google.colab import drive\n",
        "drive.mount('/content/drive')\n"
      ],
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "4p8MtiXVtqfL",
        "outputId": "2af18baf-d177-43ed-c892-66d16ad6d89f"
      },
      "execution_count": null,
      "outputs": [
        {
          "output_type": "stream",
          "name": "stdout",
          "text": [
            "Mounted at /content/drive\n"
          ]
        }
      ]
    },
    {
      "cell_type": "code",
      "source": [
        "!mkdir -p /content/drive/MyDrive/ISIC/data/isic\n"
      ],
      "metadata": {
        "id": "tCRaG2ORt6Wf"
      },
      "execution_count": null,
      "outputs": []
    },
    {
      "cell_type": "code",
      "source": [
        "! conda init"
      ],
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "-kRtydF3uLOD",
        "outputId": "8776de09-1ff8-475c-8122-a6f1a415f0f8"
      },
      "execution_count": null,
      "outputs": [
        {
          "output_type": "stream",
          "name": "stdout",
          "text": [
            "no change     /usr/local/condabin/conda\n",
            "no change     /usr/local/bin/conda\n",
            "no change     /usr/local/bin/conda-env\n",
            "no change     /usr/local/bin/activate\n",
            "no change     /usr/local/bin/deactivate\n",
            "no change     /usr/local/etc/profile.d/conda.sh\n",
            "no change     /usr/local/etc/fish/conf.d/conda.fish\n",
            "no change     /usr/local/shell/condabin/Conda.psm1\n",
            "no change     /usr/local/shell/condabin/conda-hook.ps1\n",
            "no change     /usr/local/lib/python3.12/site-packages/xontrib/conda.xsh\n",
            "no change     /usr/local/etc/profile.d/conda.csh\n",
            "no change     /root/.bashrc\n",
            "No action taken.\n"
          ]
        }
      ]
    },
    {
      "cell_type": "code",
      "source": [
        "! conda activate sam_adapt"
      ],
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "tdsexjj1t-hN",
        "outputId": "a6db6ce6-33a3-412f-9fd0-9da606b99dd7"
      },
      "execution_count": null,
      "outputs": [
        {
          "output_type": "stream",
          "name": "stdout",
          "text": [
            "\n",
            "CondaError: Run 'conda init' before 'conda activate'\n",
            "\n"
          ]
        }
      ]
    },
    {
      "cell_type": "code",
      "source": [
        "! wget https://dl.fbaipublicfiles.com/segment_anything/sam_vit_b_01ec64.pth"
      ],
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "JAJ3HFlJuRFf",
        "outputId": "13850971-ca21-4c68-bd71-4c53a3899f5e"
      },
      "execution_count": null,
      "outputs": [
        {
          "output_type": "stream",
          "name": "stdout",
          "text": [
            "--2024-05-29 09:10:43--  https://dl.fbaipublicfiles.com/segment_anything/sam_vit_b_01ec64.pth\n",
            "Resolving dl.fbaipublicfiles.com (dl.fbaipublicfiles.com)... 108.156.60.102, 108.156.60.51, 108.156.60.69, ...\n",
            "Connecting to dl.fbaipublicfiles.com (dl.fbaipublicfiles.com)|108.156.60.102|:443... connected.\n",
            "HTTP request sent, awaiting response... 200 OK\n",
            "Length: 375042383 (358M) [binary/octet-stream]\n",
            "Saving to: ‘sam_vit_b_01ec64.pth’\n",
            "\n",
            "sam_vit_b_01ec64.pt 100%[===================>] 357.67M  35.7MB/s    in 6.3s    \n",
            "\n",
            "2024-05-29 09:10:49 (57.2 MB/s) - ‘sam_vit_b_01ec64.pth’ saved [375042383/375042383]\n",
            "\n"
          ]
        }
      ]
    },
    {
      "cell_type": "code",
      "source": [
        "import os\n",
        "\n",
        "# Define the directory path\n",
        "directory = './checkpoint/sam'\n",
        "\n",
        "# Create the directory if it does not exist\n",
        "os.makedirs(directory, exist_ok=True)\n",
        "\n",
        "# Move the file to the directory\n",
        "!mv sam_vit_b_01ec64.pth ./checkpoint/sam\n"
      ],
      "metadata": {
        "id": "XoSYUvimufKv"
      },
      "execution_count": null,
      "outputs": []
    },
    {
      "cell_type": "code",
      "source": [
        "!test -d ./checkpoint/sam\n"
      ],
      "metadata": {
        "id": "E2XfmFJBuYFh"
      },
      "execution_count": null,
      "outputs": []
    },
    {
      "cell_type": "code",
      "source": [
        "import os\n",
        "\n",
        "# Define the directory path\n",
        "directory = '/content/drive/My Drive/ISIC_Dataset'\n",
        "\n",
        "# Create the directory if it does not exist\n",
        "os.makedirs(directory, exist_ok=True)\n"
      ],
      "metadata": {
        "id": "JP3krtfPve8h"
      },
      "execution_count": null,
      "outputs": []
    },
    {
      "cell_type": "code",
      "source": [
        "from google.colab import drive\n",
        "import os\n",
        "\n",
        "# Step 1: Mount Google Drive\n",
        "drive.mount('/content/drive')\n",
        "\n",
        "# Step 2: Define the path to the ZIP file and the destination directory\n",
        "zip_path = '/content/ISBI2016_ISIC_Part1_Test_GroundTruth.zip'\n",
        "destination_path = '/content/drive/My Drive/ISIC/'\n",
        "\n",
        "# Step 3: Unzip the file\n",
        "if os.path.exists(zip_path):\n",
        "    !unzip -q \"$zip_path\" -d \"$destination_path\"\n",
        "else:\n",
        "    print(f\"Zip file not found at {zip_path}\")\n",
        "\n",
        "# Step 4: Verify the contents of the destination directory\n",
        "print(\"Contents of the destination directory:\", os.listdir(destination_path))\n"
      ],
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "nyQ-N-e216Fi",
        "outputId": "cb99393d-06a5-4565-8c16-6b8f1b4a78f4"
      },
      "execution_count": null,
      "outputs": [
        {
          "output_type": "stream",
          "name": "stdout",
          "text": [
            "Drive already mounted at /content/drive; to attempt to forcibly remount, call drive.mount(\"/content/drive\", force_remount=True).\n",
            "Zip file not found at /content/ISBI2016_ISIC_Part1_Test_GroundTruth.zip\n",
            "Contents of the destination directory: ['data', 'ISBI2016_ISIC_Part1_Training_GroundTruth.csv', 'ISBI2016_ISIC_Part1_Test_GroundTruth.csv', 'ISBI2016_ISIC_Part1_Training_GroundTruth', 'ISBI2016_ISIC_Part1_Training_Data', 'ISBI2016_ISIC_Part1_Test_Data', 'ISBI2016_ISIC_Part1_Test_GroundTruth']\n"
          ]
        }
      ]
    },
    {
      "cell_type": "code",
      "source": [
        "!python /content/Medical-SAM-Adapter/train.py -net sam -mod sam_adpt -exp_name pas_exp -sam_ckpt ./checkpoint/sam/sam_vit_b_01ec64.pth -image_size 1024 -b 32 -dataset isic -data_path /content/drive/MyDrive/ISIC"
      ],
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "VfY_4k4MeYc8",
        "outputId": "318c6040-cf7b-4f7e-c9f0-b5171ee64539"
      },
      "execution_count": 18,
      "outputs": [
        {
          "output_type": "stream",
          "name": "stdout",
          "text": [
            "Namespace(net='sam', baseline='unet', encoder='default', seg_net='transunet', mod='sam_adpt', exp_name='pas_exp', type='map', vis=None, reverse=False, pretrain=False, val_freq=5, gpu=True, gpu_device=0, sim_gpu=0, epoch_ini=1, image_size=1024, out_size=256, patch_size=2, dim=512, depth=1, heads=16, mlp_dim=1024, w=4, b=32, s=True, warm=1, lr=0.0001, uinch=1, imp_lr=0.0003, weights=0, base_weights=0, sim_weights=0, distributed='none', dataset='isic', sam_ckpt='./checkpoint/sam/sam_vit_b_01ec64.pth', thd=False, chunk=None, num_sample=4, roi_size=96, evl_chunk=None, mid_dim=None, multimask_output=1, data_path='/content/drive/MyDrive/ISIC', path_helper={'prefix': 'logs/pas_exp_2024_05_29_09_38_31', 'ckpt_path': 'logs/pas_exp_2024_05_29_09_38_31/Model', 'log_path': 'logs/pas_exp_2024_05_29_09_38_31/Log', 'sample_path': 'logs/pas_exp_2024_05_29_09_38_31/Samples'})\n",
            "/usr/local/lib/python3.12/site-packages/torch/utils/data/dataloader.py:558: UserWarning: This DataLoader will create 8 worker processes in total. Our suggested max number of worker in current system is 2, which is smaller than what this DataLoader is going to create. Please be aware that excessive worker creation might get DataLoader running slow or even freeze, lower the worker number to avoid potential slowness/freeze if necessary.\n",
            "  warnings.warn(_create_warning_msg(\n",
            "Epoch 0:   0% 0/29 [02:06<?, ?img/s]\n",
            "Traceback (most recent call last):\n",
            "  File \"/content/Medical-SAM-Adapter/train.py\", line 147, in <module>\n",
            "    main()\n",
            "  File \"/content/Medical-SAM-Adapter/train.py\", line 109, in main\n",
            "    loss = function.train_sam(args, net, optimizer, nice_train_loader, epoch, writer, vis = args.vis)\n",
            "           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n",
            "  File \"/content/Medical-SAM-Adapter/function.py\", line 148, in train_sam\n",
            "    imge= net.image_encoder(imgs)\n",
            "          ^^^^^^^^^^^^^^^^^^^^^^^\n",
            "  File \"/usr/local/lib/python3.12/site-packages/torch/nn/modules/module.py\", line 1532, in _wrapped_call_impl\n",
            "    return self._call_impl(*args, **kwargs)\n",
            "           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n",
            "  File \"/usr/local/lib/python3.12/site-packages/torch/nn/modules/module.py\", line 1541, in _call_impl\n",
            "    return forward_call(*args, **kwargs)\n",
            "           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n",
            "  File \"/content/Medical-SAM-Adapter/models/sam/modeling/image_encoder.py\", line 134, in forward\n",
            "    x = blk(x)\n",
            "        ^^^^^^\n",
            "  File \"/usr/local/lib/python3.12/site-packages/torch/nn/modules/module.py\", line 1532, in _wrapped_call_impl\n",
            "    return self._call_impl(*args, **kwargs)\n",
            "           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n",
            "  File \"/usr/local/lib/python3.12/site-packages/torch/nn/modules/module.py\", line 1541, in _call_impl\n",
            "    return forward_call(*args, **kwargs)\n",
            "           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n",
            "  File \"/content/Medical-SAM-Adapter/models/ImageEncoder/vit/adapter_block.py\", line 94, in forward\n",
            "    x = self.attn(x)\n",
            "        ^^^^^^^^^^^^\n",
            "  File \"/usr/local/lib/python3.12/site-packages/torch/nn/modules/module.py\", line 1532, in _wrapped_call_impl\n",
            "    return self._call_impl(*args, **kwargs)\n",
            "           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n",
            "  File \"/usr/local/lib/python3.12/site-packages/torch/nn/modules/module.py\", line 1541, in _call_impl\n",
            "    return forward_call(*args, **kwargs)\n",
            "           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n",
            "  File \"/content/Medical-SAM-Adapter/models/ImageEncoder/vit/adapter_block.py\", line 158, in forward\n",
            "    attn = (q * self.scale) @ k.transpose(-2, -1)\n",
            "           ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~\n",
            "torch.cuda.OutOfMemoryError: CUDA out of memory. Tried to allocate 24.00 GiB. GPU \n"
          ]
        }
      ]
    },
    {
      "cell_type": "code",
      "source": [
        "! pip install SimpleITK\n"
      ],
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "tsk_NO4Rq84g",
        "outputId": "e221b336-2c35-42c2-9c9f-9e2c7bdb5b75"
      },
      "execution_count": 14,
      "outputs": [
        {
          "output_type": "stream",
          "name": "stdout",
          "text": [
            "Collecting SimpleITK\n",
            "  Downloading SimpleITK-2.3.1-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (7.9 kB)\n",
            "Downloading SimpleITK-2.3.1-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (52.7 MB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m52.7/52.7 MB\u001b[0m \u001b[31m12.6 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hInstalling collected packages: SimpleITK\n",
            "Successfully installed SimpleITK-2.3.1\n",
            "\u001b[33mWARNING: Running pip as the 'root' user can result in broken permissions and conflicting behaviour with the system package manager. It is recommended to use a virtual environment instead: https://pip.pypa.io/warnings/venv\u001b[0m\u001b[33m\n",
            "\u001b[0m"
          ]
        }
      ]
    },
    {
      "cell_type": "code",
      "source": [
        "!pip install opencv-python\n"
      ],
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "50YnSrLCqwk5",
        "outputId": "65cadcfc-2fa3-47c3-b298-a0561e4a378f"
      },
      "execution_count": 11,
      "outputs": [
        {
          "output_type": "stream",
          "name": "stdout",
          "text": [
            "Collecting opencv-python\n",
            "  Downloading opencv_python-4.9.0.80-cp37-abi3-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (20 kB)\n",
            "Requirement already satisfied: numpy>=1.21.2 in /usr/local/lib/python3.12/site-packages (from opencv-python) (1.26.4)\n",
            "Downloading opencv_python-4.9.0.80-cp37-abi3-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (62.2 MB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m62.2/62.2 MB\u001b[0m \u001b[31m14.6 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hInstalling collected packages: opencv-python\n",
            "Successfully installed opencv-python-4.9.0.80\n",
            "\u001b[33mWARNING: Running pip as the 'root' user can result in broken permissions and conflicting behaviour with the system package manager. It is recommended to use a virtual environment instead: https://pip.pypa.io/warnings/venv\u001b[0m\u001b[33m\n",
            "\u001b[0m"
          ]
        }
      ]
    },
    {
      "cell_type": "code",
      "source": [
        "! pip install nibabel"
      ],
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "3lVgPgR_qg7n",
        "outputId": "673873b1-6765-4baa-ab9f-bfd8aeedc428"
      },
      "execution_count": 9,
      "outputs": [
        {
          "output_type": "stream",
          "name": "stdout",
          "text": [
            "Collecting nibabel\n",
            "  Downloading nibabel-5.2.1-py3-none-any.whl.metadata (8.8 kB)\n",
            "Requirement already satisfied: numpy>=1.20 in /usr/local/lib/python3.12/site-packages (from nibabel) (1.26.4)\n",
            "Requirement already satisfied: packaging>=17 in /usr/local/lib/python3.12/site-packages (from nibabel) (23.2)\n",
            "Downloading nibabel-5.2.1-py3-none-any.whl (3.3 MB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m3.3/3.3 MB\u001b[0m \u001b[31m23.6 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hInstalling collected packages: nibabel\n",
            "Successfully installed nibabel-5.2.1\n",
            "\u001b[33mWARNING: Running pip as the 'root' user can result in broken permissions and conflicting behaviour with the system package manager. It is recommended to use a virtual environment instead: https://pip.pypa.io/warnings/venv\u001b[0m\u001b[33m\n",
            "\u001b[0m"
          ]
        }
      ]
    },
    {
      "cell_type": "code",
      "source": [
        "! pip install seaborn"
      ],
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "vfaqJqfqlWlG",
        "outputId": "cbf7fd43-2a77-434d-ce8b-6fab5bb66d0b"
      },
      "execution_count": 4,
      "outputs": [
        {
          "output_type": "stream",
          "name": "stdout",
          "text": [
            "Requirement already satisfied: seaborn in /usr/local/lib/python3.12/site-packages (0.13.2)\n",
            "Requirement already satisfied: numpy!=1.24.0,>=1.20 in /usr/local/lib/python3.12/site-packages (from seaborn) (1.26.4)\n",
            "Requirement already satisfied: pandas>=1.2 in /usr/local/lib/python3.12/site-packages (from seaborn) (2.2.2)\n",
            "Requirement already satisfied: matplotlib!=3.6.1,>=3.4 in /usr/local/lib/python3.12/site-packages (from seaborn) (3.9.0)\n",
            "Requirement already satisfied: contourpy>=1.0.1 in /usr/local/lib/python3.12/site-packages (from matplotlib!=3.6.1,>=3.4->seaborn) (1.2.1)\n",
            "Requirement already satisfied: cycler>=0.10 in /usr/local/lib/python3.12/site-packages (from matplotlib!=3.6.1,>=3.4->seaborn) (0.12.1)\n",
            "Requirement already satisfied: fonttools>=4.22.0 in /usr/local/lib/python3.12/site-packages (from matplotlib!=3.6.1,>=3.4->seaborn) (4.52.4)\n",
            "Requirement already satisfied: kiwisolver>=1.3.1 in /usr/local/lib/python3.12/site-packages (from matplotlib!=3.6.1,>=3.4->seaborn) (1.4.5)\n",
            "Requirement already satisfied: packaging>=20.0 in /usr/local/lib/python3.12/site-packages (from matplotlib!=3.6.1,>=3.4->seaborn) (23.2)\n",
            "Requirement already satisfied: pillow>=8 in /usr/local/lib/python3.12/site-packages (from matplotlib!=3.6.1,>=3.4->seaborn) (10.3.0)\n",
            "Requirement already satisfied: pyparsing>=2.3.1 in /usr/local/lib/python3.12/site-packages (from matplotlib!=3.6.1,>=3.4->seaborn) (3.1.2)\n",
            "Requirement already satisfied: python-dateutil>=2.7 in /usr/local/lib/python3.12/site-packages (from matplotlib!=3.6.1,>=3.4->seaborn) (2.9.0.post0)\n",
            "Requirement already satisfied: pytz>=2020.1 in /usr/local/lib/python3.12/site-packages (from pandas>=1.2->seaborn) (2024.1)\n",
            "Requirement already satisfied: tzdata>=2022.7 in /usr/local/lib/python3.12/site-packages (from pandas>=1.2->seaborn) (2024.1)\n",
            "Requirement already satisfied: six>=1.5 in /usr/local/lib/python3.12/site-packages (from python-dateutil>=2.7->matplotlib!=3.6.1,>=3.4->seaborn) (1.16.0)\n",
            "\u001b[33mWARNING: Running pip as the 'root' user can result in broken permissions and conflicting behaviour with the system package manager. It is recommended to use a virtual environment instead: https://pip.pypa.io/warnings/venv\u001b[0m\u001b[33m\n",
            "\u001b[0m"
          ]
        }
      ]
    },
    {
      "cell_type": "code",
      "source": [
        "!pip install timm\n"
      ],
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "KU1b-PGclP4g",
        "outputId": "6fab4e6d-b2a1-4e38-b1b5-c655c6cede45"
      },
      "execution_count": 5,
      "outputs": [
        {
          "output_type": "stream",
          "name": "stdout",
          "text": [
            "Collecting timm\n",
            "  Downloading timm-1.0.3-py3-none-any.whl.metadata (43 kB)\n",
            "\u001b[?25l     \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m0.0/43.6 kB\u001b[0m \u001b[31m?\u001b[0m eta \u001b[36m-:--:--\u001b[0m\r\u001b[2K     \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m43.6/43.6 kB\u001b[0m \u001b[31m2.2 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hRequirement already satisfied: torch in /usr/local/lib/python3.12/site-packages (from timm) (2.3.0)\n",
            "Requirement already satisfied: torchvision in /usr/local/lib/python3.12/site-packages (from timm) (0.18.0)\n",
            "Collecting pyyaml (from timm)\n",
            "  Downloading PyYAML-6.0.1-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)\n",
            "Collecting huggingface_hub (from timm)\n",
            "  Downloading huggingface_hub-0.23.2-py3-none-any.whl.metadata (12 kB)\n",
            "Collecting safetensors (from timm)\n",
            "  Downloading safetensors-0.4.3-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.8 kB)\n",
            "Requirement already satisfied: filelock in /usr/local/lib/python3.12/site-packages (from huggingface_hub->timm) (3.14.0)\n",
            "Requirement already satisfied: fsspec>=2023.5.0 in /usr/local/lib/python3.12/site-packages (from huggingface_hub->timm) (2024.5.0)\n",
            "Requirement already satisfied: packaging>=20.9 in /usr/local/lib/python3.12/site-packages (from huggingface_hub->timm) (23.2)\n",
            "Requirement already satisfied: requests in /usr/local/lib/python3.12/site-packages (from huggingface_hub->timm) (2.31.0)\n",
            "Requirement already satisfied: tqdm>=4.42.1 in /usr/local/lib/python3.12/site-packages (from huggingface_hub->timm) (4.66.2)\n",
            "Requirement already satisfied: typing-extensions>=3.7.4.3 in /usr/local/lib/python3.12/site-packages (from huggingface_hub->timm) (4.12.0)\n",
            "Requirement already satisfied: sympy in /usr/local/lib/python3.12/site-packages (from torch->timm) (1.12)\n",
            "Requirement already satisfied: networkx in /usr/local/lib/python3.12/site-packages (from torch->timm) (3.3)\n",
            "Requirement already satisfied: jinja2 in /usr/local/lib/python3.12/site-packages (from torch->timm) (3.1.4)\n",
            "Requirement already satisfied: nvidia-cuda-nvrtc-cu12==12.1.105 in /usr/local/lib/python3.12/site-packages (from torch->timm) (12.1.105)\n",
            "Requirement already satisfied: nvidia-cuda-runtime-cu12==12.1.105 in /usr/local/lib/python3.12/site-packages (from torch->timm) (12.1.105)\n",
            "Requirement already satisfied: nvidia-cuda-cupti-cu12==12.1.105 in /usr/local/lib/python3.12/site-packages (from torch->timm) (12.1.105)\n",
            "Requirement already satisfied: nvidia-cudnn-cu12==8.9.2.26 in /usr/local/lib/python3.12/site-packages (from torch->timm) (8.9.2.26)\n",
            "Requirement already satisfied: nvidia-cublas-cu12==12.1.3.1 in /usr/local/lib/python3.12/site-packages (from torch->timm) (12.1.3.1)\n",
            "Requirement already satisfied: nvidia-cufft-cu12==11.0.2.54 in /usr/local/lib/python3.12/site-packages (from torch->timm) (11.0.2.54)\n",
            "Requirement already satisfied: nvidia-curand-cu12==10.3.2.106 in /usr/local/lib/python3.12/site-packages (from torch->timm) (10.3.2.106)\n",
            "Requirement already satisfied: nvidia-cusolver-cu12==11.4.5.107 in /usr/local/lib/python3.12/site-packages (from torch->timm) (11.4.5.107)\n",
            "Requirement already satisfied: nvidia-cusparse-cu12==12.1.0.106 in /usr/local/lib/python3.12/site-packages (from torch->timm) (12.1.0.106)\n",
            "Requirement already satisfied: nvidia-nccl-cu12==2.20.5 in /usr/local/lib/python3.12/site-packages (from torch->timm) (2.20.5)\n",
            "Requirement already satisfied: nvidia-nvtx-cu12==12.1.105 in /usr/local/lib/python3.12/site-packages (from torch->timm) (12.1.105)\n",
            "Requirement already satisfied: nvidia-nvjitlink-cu12 in /usr/local/lib/python3.12/site-packages (from nvidia-cusolver-cu12==11.4.5.107->torch->timm) (12.5.40)\n",
            "Requirement already satisfied: numpy in /usr/local/lib/python3.12/site-packages (from torchvision->timm) (1.26.4)\n",
            "Requirement already satisfied: pillow!=8.3.*,>=5.3.0 in /usr/local/lib/python3.12/site-packages (from torchvision->timm) (10.3.0)\n",
            "Requirement already satisfied: MarkupSafe>=2.0 in /usr/local/lib/python3.12/site-packages (from jinja2->torch->timm) (2.1.5)\n",
            "Requirement already satisfied: charset-normalizer<4,>=2 in /usr/local/lib/python3.12/site-packages (from requests->huggingface_hub->timm) (2.0.4)\n",
            "Requirement already satisfied: idna<4,>=2.5 in /usr/local/lib/python3.12/site-packages (from requests->huggingface_hub->timm) (3.7)\n",
            "Requirement already satisfied: urllib3<3,>=1.21.1 in /usr/local/lib/python3.12/site-packages (from requests->huggingface_hub->timm) (2.1.0)\n",
            "Requirement already satisfied: certifi>=2017.4.17 in /usr/local/lib/python3.12/site-packages (from requests->huggingface_hub->timm) (2024.2.2)\n",
            "Requirement already satisfied: mpmath>=0.19 in /usr/local/lib/python3.12/site-packages (from sympy->torch->timm) (1.3.0)\n",
            "Downloading timm-1.0.3-py3-none-any.whl (2.3 MB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m2.3/2.3 MB\u001b[0m \u001b[31m19.3 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading huggingface_hub-0.23.2-py3-none-any.whl (401 kB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m401.7/401.7 kB\u001b[0m \u001b[31m19.5 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading PyYAML-6.0.1-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (724 kB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m725.0/725.0 kB\u001b[0m \u001b[31m21.5 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading safetensors-0.4.3-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (1.2 MB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m1.2/1.2 MB\u001b[0m \u001b[31m22.1 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hInstalling collected packages: safetensors, pyyaml, huggingface_hub, timm\n",
            "Successfully installed huggingface_hub-0.23.2 pyyaml-6.0.1 safetensors-0.4.3 timm-1.0.3\n",
            "\u001b[33mWARNING: Running pip as the 'root' user can result in broken permissions and conflicting behaviour with the system package manager. It is recommended to use a virtual environment instead: https://pip.pypa.io/warnings/venv\u001b[0m\u001b[33m\n",
            "\u001b[0m"
          ]
        }
      ]
    },
    {
      "cell_type": "code",
      "source": [
        "! pip install monai"
      ],
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "oBguBYPOk_nB",
        "outputId": "ce10cca8-de1a-4997-ceb8-5f70d9c87b00"
      },
      "execution_count": 6,
      "outputs": [
        {
          "output_type": "stream",
          "name": "stdout",
          "text": [
            "Collecting monai\n",
            "  Downloading monai-1.3.1-py3-none-any.whl.metadata (10 kB)\n",
            "Requirement already satisfied: torch>=1.9 in /usr/local/lib/python3.12/site-packages (from monai) (2.3.0)\n",
            "Requirement already satisfied: numpy>=1.20 in /usr/local/lib/python3.12/site-packages (from monai) (1.26.4)\n",
            "Requirement already satisfied: filelock in /usr/local/lib/python3.12/site-packages (from torch>=1.9->monai) (3.14.0)\n",
            "Requirement already satisfied: typing-extensions>=4.8.0 in /usr/local/lib/python3.12/site-packages (from torch>=1.9->monai) (4.12.0)\n",
            "Requirement already satisfied: sympy in /usr/local/lib/python3.12/site-packages (from torch>=1.9->monai) (1.12)\n",
            "Requirement already satisfied: networkx in /usr/local/lib/python3.12/site-packages (from torch>=1.9->monai) (3.3)\n",
            "Requirement already satisfied: jinja2 in /usr/local/lib/python3.12/site-packages (from torch>=1.9->monai) (3.1.4)\n",
            "Requirement already satisfied: fsspec in /usr/local/lib/python3.12/site-packages (from torch>=1.9->monai) (2024.5.0)\n",
            "Requirement already satisfied: nvidia-cuda-nvrtc-cu12==12.1.105 in /usr/local/lib/python3.12/site-packages (from torch>=1.9->monai) (12.1.105)\n",
            "Requirement already satisfied: nvidia-cuda-runtime-cu12==12.1.105 in /usr/local/lib/python3.12/site-packages (from torch>=1.9->monai) (12.1.105)\n",
            "Requirement already satisfied: nvidia-cuda-cupti-cu12==12.1.105 in /usr/local/lib/python3.12/site-packages (from torch>=1.9->monai) (12.1.105)\n",
            "Requirement already satisfied: nvidia-cudnn-cu12==8.9.2.26 in /usr/local/lib/python3.12/site-packages (from torch>=1.9->monai) (8.9.2.26)\n",
            "Requirement already satisfied: nvidia-cublas-cu12==12.1.3.1 in /usr/local/lib/python3.12/site-packages (from torch>=1.9->monai) (12.1.3.1)\n",
            "Requirement already satisfied: nvidia-cufft-cu12==11.0.2.54 in /usr/local/lib/python3.12/site-packages (from torch>=1.9->monai) (11.0.2.54)\n",
            "Requirement already satisfied: nvidia-curand-cu12==10.3.2.106 in /usr/local/lib/python3.12/site-packages (from torch>=1.9->monai) (10.3.2.106)\n",
            "Requirement already satisfied: nvidia-cusolver-cu12==11.4.5.107 in /usr/local/lib/python3.12/site-packages (from torch>=1.9->monai) (11.4.5.107)\n",
            "Requirement already satisfied: nvidia-cusparse-cu12==12.1.0.106 in /usr/local/lib/python3.12/site-packages (from torch>=1.9->monai) (12.1.0.106)\n",
            "Requirement already satisfied: nvidia-nccl-cu12==2.20.5 in /usr/local/lib/python3.12/site-packages (from torch>=1.9->monai) (2.20.5)\n",
            "Requirement already satisfied: nvidia-nvtx-cu12==12.1.105 in /usr/local/lib/python3.12/site-packages (from torch>=1.9->monai) (12.1.105)\n",
            "Requirement already satisfied: nvidia-nvjitlink-cu12 in /usr/local/lib/python3.12/site-packages (from nvidia-cusolver-cu12==11.4.5.107->torch>=1.9->monai) (12.5.40)\n",
            "Requirement already satisfied: MarkupSafe>=2.0 in /usr/local/lib/python3.12/site-packages (from jinja2->torch>=1.9->monai) (2.1.5)\n",
            "Requirement already satisfied: mpmath>=0.19 in /usr/local/lib/python3.12/site-packages (from sympy->torch>=1.9->monai) (1.3.0)\n",
            "Downloading monai-1.3.1-py3-none-any.whl (1.4 MB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m1.4/1.4 MB\u001b[0m \u001b[31m11.5 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hInstalling collected packages: monai\n",
            "Successfully installed monai-1.3.1\n",
            "\u001b[33mWARNING: Running pip as the 'root' user can result in broken permissions and conflicting behaviour with the system package manager. It is recommended to use a virtual environment instead: https://pip.pypa.io/warnings/venv\u001b[0m\u001b[33m\n",
            "\u001b[0m"
          ]
        }
      ]
    },
    {
      "cell_type": "code",
      "source": [
        "!pip install einops\n"
      ],
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "EcaFPpc3k5LG",
        "outputId": "9d99bccd-4760-4e90-ec3f-3dfc25b02adc"
      },
      "execution_count": 7,
      "outputs": [
        {
          "output_type": "stream",
          "name": "stdout",
          "text": [
            "Collecting einops\n",
            "  Downloading einops-0.8.0-py3-none-any.whl.metadata (12 kB)\n",
            "Downloading einops-0.8.0-py3-none-any.whl (43 kB)\n",
            "\u001b[?25l   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m0.0/43.2 kB\u001b[0m \u001b[31m?\u001b[0m eta \u001b[36m-:--:--\u001b[0m\r\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m43.2/43.2 kB\u001b[0m \u001b[31m2.5 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hInstalling collected packages: einops\n",
            "Successfully installed einops-0.8.0\n",
            "\u001b[33mWARNING: Running pip as the 'root' user can result in broken permissions and conflicting behaviour with the system package manager. It is recommended to use a virtual environment instead: https://pip.pypa.io/warnings/venv\u001b[0m\u001b[33m\n",
            "\u001b[0m"
          ]
        }
      ]
    },
    {
      "cell_type": "code",
      "source": [
        "!pip install scikit-image\n"
      ],
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "MCGdHPKEklFd",
        "outputId": "4ac3cc2f-6996-40f4-e320-cbb586f1bd12"
      },
      "execution_count": 2,
      "outputs": [
        {
          "output_type": "stream",
          "name": "stdout",
          "text": [
            "Collecting scikit-image\n",
            "  Downloading scikit_image-0.23.2-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (14 kB)\n",
            "Requirement already satisfied: numpy>=1.23 in /usr/local/lib/python3.12/site-packages (from scikit-image) (1.26.4)\n",
            "Requirement already satisfied: scipy>=1.9 in /usr/local/lib/python3.12/site-packages (from scikit-image) (1.13.1)\n",
            "Requirement already satisfied: networkx>=2.8 in /usr/local/lib/python3.12/site-packages (from scikit-image) (3.3)\n",
            "Requirement already satisfied: pillow>=9.1 in /usr/local/lib/python3.12/site-packages (from scikit-image) (10.3.0)\n",
            "Collecting imageio>=2.33 (from scikit-image)\n",
            "  Downloading imageio-2.34.1-py3-none-any.whl.metadata (4.9 kB)\n",
            "Collecting tifffile>=2022.8.12 (from scikit-image)\n",
            "  Downloading tifffile-2024.5.22-py3-none-any.whl.metadata (30 kB)\n",
            "Requirement already satisfied: packaging>=21 in /usr/local/lib/python3.12/site-packages (from scikit-image) (23.2)\n",
            "Collecting lazy-loader>=0.4 (from scikit-image)\n",
            "  Downloading lazy_loader-0.4-py3-none-any.whl.metadata (7.6 kB)\n",
            "Downloading scikit_image-0.23.2-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (14.9 MB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m14.9/14.9 MB\u001b[0m \u001b[31m43.1 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading imageio-2.34.1-py3-none-any.whl (313 kB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m313.5/313.5 kB\u001b[0m \u001b[31m29.2 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading lazy_loader-0.4-py3-none-any.whl (12 kB)\n",
            "Downloading tifffile-2024.5.22-py3-none-any.whl (225 kB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m225.5/225.5 kB\u001b[0m \u001b[31m18.7 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hInstalling collected packages: tifffile, lazy-loader, imageio, scikit-image\n",
            "Successfully installed imageio-2.34.1 lazy-loader-0.4 scikit-image-0.23.2 tifffile-2024.5.22\n",
            "\u001b[33mWARNING: Running pip as the 'root' user can result in broken permissions and conflicting behaviour with the system package manager. It is recommended to use a virtual environment instead: https://pip.pypa.io/warnings/venv\u001b[0m\u001b[33m\n",
            "\u001b[0m"
          ]
        }
      ]
    },
    {
      "cell_type": "code",
      "source": [
        "!pip install numpy torch torchvision Pillow scikit-learn tensorboardX tqdm matplotlib\n"
      ],
      "metadata": {
        "colab": {
          "base_uri": "https://localhost:8080/"
        },
        "id": "D0jmn7ZGheku",
        "outputId": "72014bad-1fda-4fa1-c352-eaf13e8d570a"
      },
      "execution_count": 1,
      "outputs": [
        {
          "output_type": "stream",
          "name": "stdout",
          "text": [
            "Requirement already satisfied: numpy in /usr/local/lib/python3.12/site-packages (1.26.4)\n",
            "Collecting torch\n",
            "  Downloading torch-2.3.0-cp312-cp312-manylinux1_x86_64.whl.metadata (26 kB)\n",
            "Collecting torchvision\n",
            "  Downloading torchvision-0.18.0-cp312-cp312-manylinux1_x86_64.whl.metadata (6.6 kB)\n",
            "Requirement already satisfied: Pillow in /usr/local/lib/python3.12/site-packages (10.3.0)\n",
            "Collecting scikit-learn\n",
            "  Downloading scikit_learn-1.5.0-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (11 kB)\n",
            "Collecting tensorboardX\n",
            "  Downloading tensorboardX-2.6.2.2-py2.py3-none-any.whl.metadata (5.8 kB)\n",
            "Requirement already satisfied: tqdm in /usr/local/lib/python3.12/site-packages (4.66.2)\n",
            "Requirement already satisfied: matplotlib in /usr/local/lib/python3.12/site-packages (3.9.0)\n",
            "Collecting filelock (from torch)\n",
            "  Downloading filelock-3.14.0-py3-none-any.whl.metadata (2.8 kB)\n",
            "Collecting typing-extensions>=4.8.0 (from torch)\n",
            "  Downloading typing_extensions-4.12.0-py3-none-any.whl.metadata (3.0 kB)\n",
            "Collecting sympy (from torch)\n",
            "  Downloading sympy-1.12-py3-none-any.whl.metadata (12 kB)\n",
            "Collecting networkx (from torch)\n",
            "  Downloading networkx-3.3-py3-none-any.whl.metadata (5.1 kB)\n",
            "Collecting jinja2 (from torch)\n",
            "  Downloading jinja2-3.1.4-py3-none-any.whl.metadata (2.6 kB)\n",
            "Collecting fsspec (from torch)\n",
            "  Downloading fsspec-2024.5.0-py3-none-any.whl.metadata (11 kB)\n",
            "Collecting nvidia-cuda-nvrtc-cu12==12.1.105 (from torch)\n",
            "  Downloading nvidia_cuda_nvrtc_cu12-12.1.105-py3-none-manylinux1_x86_64.whl.metadata (1.5 kB)\n",
            "Collecting nvidia-cuda-runtime-cu12==12.1.105 (from torch)\n",
            "  Downloading nvidia_cuda_runtime_cu12-12.1.105-py3-none-manylinux1_x86_64.whl.metadata (1.5 kB)\n",
            "Collecting nvidia-cuda-cupti-cu12==12.1.105 (from torch)\n",
            "  Downloading nvidia_cuda_cupti_cu12-12.1.105-py3-none-manylinux1_x86_64.whl.metadata (1.6 kB)\n",
            "Collecting nvidia-cudnn-cu12==8.9.2.26 (from torch)\n",
            "  Downloading nvidia_cudnn_cu12-8.9.2.26-py3-none-manylinux1_x86_64.whl.metadata (1.6 kB)\n",
            "Collecting nvidia-cublas-cu12==12.1.3.1 (from torch)\n",
            "  Downloading nvidia_cublas_cu12-12.1.3.1-py3-none-manylinux1_x86_64.whl.metadata (1.5 kB)\n",
            "Collecting nvidia-cufft-cu12==11.0.2.54 (from torch)\n",
            "  Downloading nvidia_cufft_cu12-11.0.2.54-py3-none-manylinux1_x86_64.whl.metadata (1.5 kB)\n",
            "Collecting nvidia-curand-cu12==10.3.2.106 (from torch)\n",
            "  Downloading nvidia_curand_cu12-10.3.2.106-py3-none-manylinux1_x86_64.whl.metadata (1.5 kB)\n",
            "Collecting nvidia-cusolver-cu12==11.4.5.107 (from torch)\n",
            "  Downloading nvidia_cusolver_cu12-11.4.5.107-py3-none-manylinux1_x86_64.whl.metadata (1.6 kB)\n",
            "Collecting nvidia-cusparse-cu12==12.1.0.106 (from torch)\n",
            "  Downloading nvidia_cusparse_cu12-12.1.0.106-py3-none-manylinux1_x86_64.whl.metadata (1.6 kB)\n",
            "Collecting nvidia-nccl-cu12==2.20.5 (from torch)\n",
            "  Downloading nvidia_nccl_cu12-2.20.5-py3-none-manylinux2014_x86_64.whl.metadata (1.8 kB)\n",
            "Collecting nvidia-nvtx-cu12==12.1.105 (from torch)\n",
            "  Downloading nvidia_nvtx_cu12-12.1.105-py3-none-manylinux1_x86_64.whl.metadata (1.7 kB)\n",
            "Collecting nvidia-nvjitlink-cu12 (from nvidia-cusolver-cu12==11.4.5.107->torch)\n",
            "  Downloading nvidia_nvjitlink_cu12-12.5.40-py3-none-manylinux2014_x86_64.whl.metadata (1.5 kB)\n",
            "Collecting scipy>=1.6.0 (from scikit-learn)\n",
            "  Downloading scipy-1.13.1-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (60 kB)\n",
            "\u001b[2K     \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m60.6/60.6 kB\u001b[0m \u001b[31m5.3 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hCollecting joblib>=1.2.0 (from scikit-learn)\n",
            "  Downloading joblib-1.4.2-py3-none-any.whl.metadata (5.4 kB)\n",
            "Collecting threadpoolctl>=3.1.0 (from scikit-learn)\n",
            "  Downloading threadpoolctl-3.5.0-py3-none-any.whl.metadata (13 kB)\n",
            "Requirement already satisfied: packaging in /usr/local/lib/python3.12/site-packages (from tensorboardX) (23.2)\n",
            "Collecting protobuf>=3.20 (from tensorboardX)\n",
            "  Downloading protobuf-5.27.0-cp38-abi3-manylinux2014_x86_64.whl.metadata (592 bytes)\n",
            "Requirement already satisfied: contourpy>=1.0.1 in /usr/local/lib/python3.12/site-packages (from matplotlib) (1.2.1)\n",
            "Requirement already satisfied: cycler>=0.10 in /usr/local/lib/python3.12/site-packages (from matplotlib) (0.12.1)\n",
            "Requirement already satisfied: fonttools>=4.22.0 in /usr/local/lib/python3.12/site-packages (from matplotlib) (4.52.4)\n",
            "Requirement already satisfied: kiwisolver>=1.3.1 in /usr/local/lib/python3.12/site-packages (from matplotlib) (1.4.5)\n",
            "Requirement already satisfied: pyparsing>=2.3.1 in /usr/local/lib/python3.12/site-packages (from matplotlib) (3.1.2)\n",
            "Requirement already satisfied: python-dateutil>=2.7 in /usr/local/lib/python3.12/site-packages (from matplotlib) (2.9.0.post0)\n",
            "Requirement already satisfied: six>=1.5 in /usr/local/lib/python3.12/site-packages (from python-dateutil>=2.7->matplotlib) (1.16.0)\n",
            "Collecting MarkupSafe>=2.0 (from jinja2->torch)\n",
            "  Downloading MarkupSafe-2.1.5-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.0 kB)\n",
            "Collecting mpmath>=0.19 (from sympy->torch)\n",
            "  Downloading mpmath-1.3.0-py3-none-any.whl.metadata (8.6 kB)\n",
            "Downloading torch-2.3.0-cp312-cp312-manylinux1_x86_64.whl (779.1 MB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m779.1/779.1 MB\u001b[0m \u001b[31m1.4 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading nvidia_cublas_cu12-12.1.3.1-py3-none-manylinux1_x86_64.whl (410.6 MB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m410.6/410.6 MB\u001b[0m \u001b[31m4.1 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading nvidia_cuda_cupti_cu12-12.1.105-py3-none-manylinux1_x86_64.whl (14.1 MB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m14.1/14.1 MB\u001b[0m \u001b[31m66.0 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading nvidia_cuda_nvrtc_cu12-12.1.105-py3-none-manylinux1_x86_64.whl (23.7 MB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m23.7/23.7 MB\u001b[0m \u001b[31m37.7 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading nvidia_cuda_runtime_cu12-12.1.105-py3-none-manylinux1_x86_64.whl (823 kB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m823.6/823.6 kB\u001b[0m \u001b[31m41.7 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading nvidia_cudnn_cu12-8.9.2.26-py3-none-manylinux1_x86_64.whl (731.7 MB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m731.7/731.7 MB\u001b[0m \u001b[31m867.9 kB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading nvidia_cufft_cu12-11.0.2.54-py3-none-manylinux1_x86_64.whl (121.6 MB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m121.6/121.6 MB\u001b[0m \u001b[31m7.4 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading nvidia_curand_cu12-10.3.2.106-py3-none-manylinux1_x86_64.whl (56.5 MB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m56.5/56.5 MB\u001b[0m \u001b[31m11.4 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading nvidia_cusolver_cu12-11.4.5.107-py3-none-manylinux1_x86_64.whl (124.2 MB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m124.2/124.2 MB\u001b[0m \u001b[31m8.0 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading nvidia_cusparse_cu12-12.1.0.106-py3-none-manylinux1_x86_64.whl (196.0 MB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m196.0/196.0 MB\u001b[0m \u001b[31m6.0 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading nvidia_nccl_cu12-2.20.5-py3-none-manylinux2014_x86_64.whl (176.2 MB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m176.2/176.2 MB\u001b[0m \u001b[31m6.7 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading nvidia_nvtx_cu12-12.1.105-py3-none-manylinux1_x86_64.whl (99 kB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m99.1/99.1 kB\u001b[0m \u001b[31m9.4 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading torchvision-0.18.0-cp312-cp312-manylinux1_x86_64.whl (7.0 MB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m7.0/7.0 MB\u001b[0m \u001b[31m90.8 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading scikit_learn-1.5.0-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m13.1/13.1 MB\u001b[0m \u001b[31m91.2 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading tensorboardX-2.6.2.2-py2.py3-none-any.whl (101 kB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m101.7/101.7 kB\u001b[0m \u001b[31m9.7 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading joblib-1.4.2-py3-none-any.whl (301 kB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m301.8/301.8 kB\u001b[0m \u001b[31m26.8 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading protobuf-5.27.0-cp38-abi3-manylinux2014_x86_64.whl (309 kB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m309.2/309.2 kB\u001b[0m \u001b[31m28.7 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading scipy-1.13.1-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (38.2 MB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m38.2/38.2 MB\u001b[0m \u001b[31m15.1 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading threadpoolctl-3.5.0-py3-none-any.whl (18 kB)\n",
            "Downloading typing_extensions-4.12.0-py3-none-any.whl (37 kB)\n",
            "Downloading filelock-3.14.0-py3-none-any.whl (12 kB)\n",
            "Downloading fsspec-2024.5.0-py3-none-any.whl (316 kB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m316.1/316.1 kB\u001b[0m \u001b[31m29.0 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading jinja2-3.1.4-py3-none-any.whl (133 kB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m133.3/133.3 kB\u001b[0m \u001b[31m14.0 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading networkx-3.3-py3-none-any.whl (1.7 MB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m1.7/1.7 MB\u001b[0m \u001b[31m76.2 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading sympy-1.12-py3-none-any.whl (5.7 MB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m5.7/5.7 MB\u001b[0m \u001b[31m122.4 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading MarkupSafe-2.1.5-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (28 kB)\n",
            "Downloading mpmath-1.3.0-py3-none-any.whl (536 kB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m536.2/536.2 kB\u001b[0m \u001b[31m42.9 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hDownloading nvidia_nvjitlink_cu12-12.5.40-py3-none-manylinux2014_x86_64.whl (21.3 MB)\n",
            "\u001b[2K   \u001b[90m━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━\u001b[0m \u001b[32m21.3/21.3 MB\u001b[0m \u001b[31m89.0 MB/s\u001b[0m eta \u001b[36m0:00:00\u001b[0m\n",
            "\u001b[?25hInstalling collected packages: mpmath, typing-extensions, threadpoolctl, sympy, scipy, protobuf, nvidia-nvtx-cu12, nvidia-nvjitlink-cu12, nvidia-nccl-cu12, nvidia-curand-cu12, nvidia-cufft-cu12, nvidia-cuda-runtime-cu12, nvidia-cuda-nvrtc-cu12, nvidia-cuda-cupti-cu12, nvidia-cublas-cu12, networkx, MarkupSafe, joblib, fsspec, filelock, tensorboardX, scikit-learn, nvidia-cusparse-cu12, nvidia-cudnn-cu12, jinja2, nvidia-cusolver-cu12, torch, torchvision\n",
            "Successfully installed MarkupSafe-2.1.5 filelock-3.14.0 fsspec-2024.5.0 jinja2-3.1.4 joblib-1.4.2 mpmath-1.3.0 networkx-3.3 nvidia-cublas-cu12-12.1.3.1 nvidia-cuda-cupti-cu12-12.1.105 nvidia-cuda-nvrtc-cu12-12.1.105 nvidia-cuda-runtime-cu12-12.1.105 nvidia-cudnn-cu12-8.9.2.26 nvidia-cufft-cu12-11.0.2.54 nvidia-curand-cu12-10.3.2.106 nvidia-cusolver-cu12-11.4.5.107 nvidia-cusparse-cu12-12.1.0.106 nvidia-nccl-cu12-2.20.5 nvidia-nvjitlink-cu12-12.5.40 nvidia-nvtx-cu12-12.1.105 protobuf-5.27.0 scikit-learn-1.5.0 scipy-1.13.1 sympy-1.12 tensorboardX-2.6.2.2 threadpoolctl-3.5.0 torch-2.3.0 torchvision-0.18.0 typing-extensions-4.12.0\n",
            "\u001b[33mWARNING: Running pip as the 'root' user can result in broken permissions and conflicting behaviour with the system package manager. It is recommended to use a virtual environment instead: https://pip.pypa.io/warnings/venv\u001b[0m\u001b[33m\n",
            "\u001b[0m"
          ]
        }
      ]
    }
  ]
}