{"metadata":{"kernelspec":{"language":"python","display_name":"Python 3","name":"python3"},"language_info":{"pygments_lexer":"ipython3","nbconvert_exporter":"python","version":"3.6.4","file_extension":".py","codemirror_mode":{"name":"ipython","version":3},"name":"python","mimetype":"text/x-python"}},"nbformat_minor":4,"nbformat":4,"cells":[{"cell_type":"code","source":"import cv2\nimport os\nimport gc\nimport pandas as pd\nimport tifffile as tiff","metadata":{"_uuid":"8f2839f25d086af736a60e9eeb907d3b93b6e0e5","_cell_guid":"b1076dfc-b9ad-4769-8c92-a6c4dae69d19","execution":{"iopub.status.busy":"2022-07-07T20:17:56.156438Z","iopub.execute_input":"2022-07-07T20:17:56.157186Z","iopub.status.idle":"2022-07-07T20:17:56.565604Z","shell.execute_reply.started":"2022-07-07T20:17:56.157079Z","shell.execute_reply":"2022-07-07T20:17:56.564289Z"},"trusted":true},"execution_count":null,"outputs":[]},{"cell_type":"code","source":"input_dir = \"../input/mayo-clinic-strip-ai\"\noutput_dir = \"./\"\nscale = 4\n\nfor folder in [\"train\", \"other\"]:\n\n    output_image_dir = os.path.join(output_dir, folder)\n    if not os.path.exists(output_image_dir):\n        os.makedirs(output_image_dir)\n\n    df = pd.read_csv(os.path.join(input_dir, f\"{folder}.csv\"))\n    image_ids = df[\"image_id\"].unique()\n    for image_id in image_ids:\n        \n        # Skip 2c3c06_0.tif as it is too large to read.\n        if image_id == \"2c3c06_0\":\n            continue\n\n        print(f\"{folder}_{image_id}\")\n        image = tiff.imread(os.path.join(input_dir, folder, f\"{image_id}.tif\"))\n        print(f\"{image.shape}\")\n        cv2.imwrite(os.path.join(output_image_dir, f\"{image_id}.jpg\"), image[::scale,::scale,::-1])\n        del image\n        gc.collect()","metadata":{"execution":{"iopub.status.busy":"2022-07-07T12:28:48.591299Z","iopub.execute_input":"2022-07-07T12:28:48.591701Z"},"trusted":true},"execution_count":null,"outputs":[]},{"cell_type":"code","source":"","metadata":{},"execution_count":null,"outputs":[]}]}