{
  "cells": [
    {
      "cell_type": "code",
      "execution_count": null,
      "metadata": {
        "collapsed": false
      },
      "outputs": [],
      "source": [
        "%matplotlib inline"
      ]
    },
    {
      "cell_type": "markdown",
      "metadata": {},
      "source": [
        "\n# Deidentify DICOM files\n\nUse this script to deidentify DICOM files in external storage.\n"
      ]
    },
    {
      "cell_type": "code",
      "execution_count": null,
      "metadata": {
        "collapsed": false
      },
      "outputs": [],
      "source": [
        "from pathlib import Path\nfrom typing import List\n\nfrom encord import EncordUserClient\n\n\ndef deidentify(\n    integration_title: str,\n    dicom_urls: List[str],\n) -> List[str]:\n    # Authentication: adapt the following line to your private key path\n    private_key_path = Path.home() / \".ssh\" / \"id_ed25519\"\n\n    with private_key_path.open() as f:\n        private_key = f.read()\n\n    user_client = EncordUserClient.create_with_ssh_private_key(private_key)\n\n    integration_hash = None\n\n    # Find integration_hash for requested integration_title\n    for integration in user_client.get_cloud_integrations():\n        if integration.title == integration_title:\n            integration_hash = integration.id\n\n    if not integration_hash:\n        raise Exception(\n            f\"Intgration with integration_title={integration_title} not found\"\n        )\n\n    deidentified_dicom_urls = []\n\n    for dicom_url in dicom_urls:\n        # requesting deidentification with batch == 1\n        deidentified_dicom_url = user_client.deidentify_dicom_files(\n            dicom_urls=[dicom_url],\n            integration_hash=integration_hash,\n        )[0]\n        print(f\"Deidentified url: {deidentified_dicom_url}\")\n        deidentified_dicom_urls.append(deidentified_dicom_url)\n\n    return deidentified_dicom_urls\n\n\n_integration_title = \"deid-demo-0dae9c7b-integration\"\n_dicom_urls = [\n    \"s3://deid-demo-0dae9c7b/dicom_0.dcm\",\n    \"s3://deid-demo-0dae9c7b/dicom_1.dcm\",\n]\n_deidentified_dicom_urls = deidentify(_integration_title, _dicom_urls)"
      ]
    }
  ],
  "metadata": {
    "kernelspec": {
      "display_name": "Python 3",
      "language": "python",
      "name": "python3"
    },
    "language_info": {
      "codemirror_mode": {
        "name": "ipython",
        "version": 3
      },
      "file_extension": ".py",
      "mimetype": "text/x-python",
      "name": "python",
      "nbconvert_exporter": "python",
      "pygments_lexer": "ipython3",
      "version": "3.7.16"
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  "nbformat": 4,
  "nbformat_minor": 0
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