Downloads: 1
507 lines (507 with data), 47.7 kB
{
"metadata": {
"language_info": {
"codemirror_mode": {
"name": "ipython",
"version": 3
},
"file_extension": ".py",
"mimetype": "text/x-python",
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.8.5-final"
},
"orig_nbformat": 2,
"kernelspec": {
"name": "python3",
"display_name": "Python 3",
"language": "python"
}
},
"nbformat": 4,
"nbformat_minor": 2,
"cells": [
{
"cell_type": "code",
"execution_count": 1,
"metadata": {},
"outputs": [],
"source": [
"import gzip\n",
"import shutil\n",
"import os"
]
},
{
"cell_type": "code",
"execution_count": 2,
"metadata": {},
"outputs": [],
"source": [
"def do_zip(file):\n",
" with open(file, 'rb') as f_in:\n",
" with gzip.open(file+'.gz', 'wb') as f_out:\n",
" shutil.copyfileobj(f_in, f_out)\n",
" if os.path.exists(file):\n",
" os.remove(file)\n",
" else:\n",
" print(\"The file does not exist\")\n"
]
},
{
"cell_type": "code",
"execution_count": 3,
"metadata": {},
"outputs": [],
"source": [
"# aaa i should have threaded this, i forgot\n",
"def zip_everything(path):\n",
" print(path)\n",
" if not os.path.isdir(path): # If this iteration isn't a directory:\n",
" do_zip(path)\n",
" else:\n",
" for new in os.listdir(path):\n",
" new_path = os.path.join(path, new)\n",
" zip_everything(new_path)\n"
]
},
{
"cell_type": "code",
"execution_count": 4,
"metadata": {
"tags": [
"outputPrepend"
]
},
"outputs": [
{
"output_type": "stream",
"name": "stdout",
"text": [
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"BraTS2020_TrainingData\\MICCAI_BraTS2020_TrainingData\\name_mapping.csv\n",
"BraTS2020_TrainingData\\MICCAI_BraTS2020_TrainingData\\survival_info.csv\n"
]
}
],
"source": [
"starting_path = 'BraTS2020_TrainingData'\n",
"zip_everything(starting_path)"
]
},
{
"cell_type": "code",
"execution_count": 5,
"metadata": {
"tags": [
"outputPrepend"
]
},
"outputs": [
{
"output_type": "stream",
"name": "stdout",
"text": [
"_ValidationData\\BraTS20_Validation_088\\BraTS20_Validation_088_flair.nii\n",
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"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_119\\BraTS20_Validation_119_t2.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_120\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_120\\BraTS20_Validation_120_flair.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_120\\BraTS20_Validation_120_t1.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_120\\BraTS20_Validation_120_t1ce.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_120\\BraTS20_Validation_120_t2.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_121\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_121\\BraTS20_Validation_121_flair.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_121\\BraTS20_Validation_121_t1.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_121\\BraTS20_Validation_121_t1ce.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_121\\BraTS20_Validation_121_t2.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_122\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_122\\BraTS20_Validation_122_flair.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_122\\BraTS20_Validation_122_t1.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_122\\BraTS20_Validation_122_t1ce.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_122\\BraTS20_Validation_122_t2.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_123\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_123\\BraTS20_Validation_123_flair.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_123\\BraTS20_Validation_123_t1.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_123\\BraTS20_Validation_123_t1ce.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_123\\BraTS20_Validation_123_t2.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_124\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_124\\BraTS20_Validation_124_flair.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_124\\BraTS20_Validation_124_t1.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_124\\BraTS20_Validation_124_t1ce.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_124\\BraTS20_Validation_124_t2.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_125\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_125\\BraTS20_Validation_125_flair.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_125\\BraTS20_Validation_125_t1.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_125\\BraTS20_Validation_125_t1ce.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\BraTS20_Validation_125\\BraTS20_Validation_125_t2.nii\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\name_mapping_validation_data.csv\n",
"BraTS2020_ValidationData\\MICCAI_BraTS2020_ValidationData\\survival_evaluation.csv\n"
]
}
],
"source": [
"starting_path = 'BraTS2020_ValidationData'\n",
"zip_everything(starting_path)"
]
}
]
}