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Notebook + data & results

data_small.npy

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+version https://git-lfs.github.com/spec/v1
+oid sha256:3c6b0011ad155aeb1a775fd470094db03ba18839a09df48c449c3b05fd52c836
+size 1000128

inference.ipynb

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+{
+ "cells": [
+  {
+   "cell_type": "code",
+   "execution_count": 1,
+   "id": "b247863c",
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "import numpy as np\n",
+    "import math\n",
+    "import torch\n",
+    "from dlsia.core import helpers\n",
+    "from dlsia.core.networks import sms3d\n",
+    "from dlsia.core.networks import baggins\n",
+    "import napari"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 2,
+   "id": "855a85d5",
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "nets = []\n",
+    "for ii in range(5):\n",
+    "    net = sms3d.SMSNetwork3D_from_file(\"3d_%i_2023_06_10_depth_25.pt\"%ii)\n",
+    "    nets.append(net.eval())"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 3,
+   "id": "0acd6f5b",
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "bilbo = baggins.model_baggin(nets, \n",
+    "                             model_type='classification', \n",
+    "                             returns_normalized=False,\n",
+    "                             average_type=\"arithmetic\")"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 4,
+   "id": "4d662643",
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "data_small = np.load(\"data_small.npy\")"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 5,
+   "id": "forward-pickup",
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "v = napari.view_image(data_small)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "blessed-wesley",
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "tdata = torch.Tensor(data_small).unsqueeze(0).unsqueeze(0)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "educated-family",
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "if runit:\n",
+    "    with torch.no_grad():\n",
+    "        m,s = bilbo.eval()(tdata, return_std=True)\n",
+    "else:\n",
+    "    m = np.load(\"mean_small.npy\")\n",
+    "    s = np.load(\"std_small.npy\")"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "subject-british",
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "_ = v.add_image(m.numpy()[0,1])\n",
+    "_ = v.add_image(s.numpy()[0,1])"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "dying-publicity",
+   "metadata": {},
+   "outputs": [],
+   "source": []
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "lonely-resource",
+   "metadata": {},
+   "outputs": [],
+   "source": []
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "embedded-blackjack",
+   "metadata": {},
+   "outputs": [],
+   "source": []
+  }
+ ],
+ "metadata": {
+  "kernelspec": {
+   "display_name": "dlsia-dev",
+   "language": "python",
+   "name": "dlsia-dev"
+  },
+  "language_info": {
+   "codemirror_mode": {
+    "name": "ipython",
+    "version": 3
+   },
+   "file_extension": ".py",
+   "mimetype": "text/x-python",
+   "name": "python",
+   "nbconvert_exporter": "python",
+   "pygments_lexer": "ipython3",
+   "version": "3.9.0"
+  }
+ },
+ "nbformat": 4,
+ "nbformat_minor": 5
+}

mean_small.npy

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+version https://git-lfs.github.com/spec/v1
+oid sha256:647620e3079a4bd324d2a645e2d0ca3c59c0464d37b30d01641038d2f1ddf69b
+size 8000128

std_small.npy

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+version https://git-lfs.github.com/spec/v1
+oid sha256:035191f5ad9f976f3e4502b146a75c4c05a69d04118658f5aa4afdb5a7f9c980
+size 8000128