- reformat

BrainLesion · Jan 16, 2024 · 693fb82 · 693fb82
1 parent 0c8b34a
commit 693fb82
Showing 1 changed file with 7 additions and 27 deletions.
diff --git a/Tutorial.ipynb b/Tutorial.ipynb
@@ -72,51 +72,31 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "__Minimal example__"
+    "__Minimal example__\n",
+    "\n",
+    "Logging will be messed up when used from a juypter notebook."
    ]
   },
   {
    "cell_type": "code",
-   "execution_count": 1,
+   "execution_count": 6,
    "metadata": {},
    "outputs": [
-    {
-     "name": "stderr",
-     "output_type": "stream",
-     "text": [
-      "2024-01-16 20:13:13 INFO: Initialized AuroraGPUInferer with config: AuroraInfererConfig(output_mode=<DataMode.NIFTI_FILE: 'NIFTI_FILEPATH'>, log_level=20, tta=False, sliding_window_batch_size=1, workers=0, threshold=0.5, sliding_window_overlap=0.5, crop_size=(192, 192, 32), model_selection=<ModelSelection.BEST: 'best'>, include_whole_network_in_numpy_output_mode=False, include_metastasis_network_in_numpy_output_mode=False)\n",
-      "2024-01-16 20:13:13 INFO: Using device: cuda\n",
-      "2024-01-16 20:13:13 INFO: Logging to: test_output/segmentation.nii.log\n",
-      "2024-01-16 20:13:13 INFO: Running inference on cuda\n",
-      "2024-01-16 20:13:13 INFO: Successfully validated input images. Input mode: NIFTI_FILEPATH\n",
-      "2024-01-16 20:13:13 INFO: Received files: T1: True, T1C: False, T2: False, FLAIR: False\n",
-      "2024-01-16 20:13:13 INFO: Inference mode: t1-o\n",
-      "2024-01-16 20:13:13 INFO: No loaded compatible model found. Loading Model and weights\n",
-      "2024-01-16 20:13:13 INFO: Setting up Dataloader\n"
-     ]
-    },
     {
      "name": "stdout",
      "output_type": "stream",
      "text": [
       "BasicUNet features: (32, 32, 64, 128, 256, 32).\n"
      ]
-    },
-    {
-     "name": "stderr",
-     "output_type": "stream",
-     "text": [
-      "2024-01-16 20:13:20 INFO: Saved segmentation to test_output/segmentation.nii.gz\n",
-      "2024-01-16 20:13:20 INFO: Finished inference \n",
-      "\n"
-     ]
     }
    ],
    "source": [
     "from brainles_aurora.inferer.inferer import AuroraGPUInferer, AuroraInferer\n",
     "from brainles_aurora.inferer.dataclasses import AuroraInfererConfig\n",
     "\n",
-    "config = AuroraInfererConfig(tta=False) # disable tta for faster inference in this showcase\n",
+    "config = AuroraInfererConfig(\n",
+    "    tta=False\n",
+    ")  # disable tta for faster inference in this showcase\n",
     "\n",
     "# If you don-t have a GPU that supports CUDA use the CPU version: AuroraInferer(config=config)\n",
     "inferer = AuroraGPUInferer(config=config)\n",