isbi2019cancer-master/run.ipynb

{
 "cells": [
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "cd8aaf96",
   "metadata": {},
   "outputs": [],
   "source": [
    "!pip install pandas tqdm"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "26bd5e25",
   "metadata": {
    "scrolled": true
   },
   "outputs": [],
   "source": [
    "!python3 main_manual.py --dataroot \"/home/feoktistovar67431/data/isbi2019\" --batch-size 32 --epochs 100 --seed 30042022 --device cuda --out results"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 55,
   "id": "b753e6b8",
   "metadata": {
    "scrolled": false
   },
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Loading model\n",
      "Classifying\n",
      "59it [00:41,  1.43it/s]                                                         \n",
      "Positive: 1234\n",
      "Negative: 633\n",
      "AUC: 0.8797024225483345\n"
     ]
    }
   ],
   "source": [
    "!python3 submission.py --modelroot \"/home/feoktistovar67431/isbi2019cancer-master/results/20220216T154306Z.AZHL\" --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC/phase2\" --batch-size 32"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "3246460b",
   "metadata": {},
   "outputs": [],
   "source": [
    "# TRAIN\n",
    "# dataset : CNMC\n",
    "# res     : 32\n",
    "# epochs  : 100\n",
    "!python3 main_manual.py --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC\" --batch-size 32 --epochs 100 --seed 30042022 --device cuda --out results --res 32"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "8a953a39",
   "metadata": {},
   "outputs": [],
   "source": [
    "# TRAIN\n",
    "# dataset : CNMC\n",
    "# res     : 128\n",
    "# epochs  : 100\n",
    "!python3 main_manual.py --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC\" --batch-size 32 --epochs 100 --seed 30042022 --device cuda --out results --res 128"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "12c15b33",
   "metadata": {},
   "outputs": [],
   "source": [
    "# TRAIN\n",
    "# dataset : CNMC\n",
    "# res     : 224\n",
    "# epochs  : 100\n",
    "!python3 main_manual.py --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC\" --batch-size 32 --epochs 100 --seed 30042022 --device cuda --out results --res 224"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "08ba15b4",
   "metadata": {},
   "outputs": [],
   "source": [
    "# TRAIN\n",
    "# dataset : CNMC\n",
    "# res     : 256\n",
    "# epochs  : 100\n",
    "!python3 main_manual.py --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC\" --batch-size 32 --epochs 100 --seed 30042022 --device cuda --out results --res 256"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "3cf25ec3",
   "metadata": {},
   "outputs": [],
   "source": [
    "# TRAIN\n",
    "# dataset : CNMC\n",
    "# res     : 450\n",
    "# epochs  : 100\n",
    "!python3 main_manual.py --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC\" --batch-size 32 --epochs 100 --seed 30042022 --device cuda --out results --res 450"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "73b9d9d3",
   "metadata": {},
   "outputs": [],
   "source": [
    "# TRAIN\n",
    "# dataset : CNMC_Grayscale\n",
    "# res     : 450\n",
    "# epochs  : 100\n",
    "!python3 main_manual.py --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC_grayscale\" --batch-size 32 --epochs 100 --seed 30042022 --device cuda --out results --res 450"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "ce16353c",
   "metadata": {},
   "outputs": [],
   "source": [
    "# TRAIN\n",
    "# dataset : CNMC_no_red\n",
    "# res     : 450\n",
    "# epochs  : 100\n",
    "!python3 main_manual.py --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC_no_red\" --batch-size 32 --epochs 100 --seed 30042022 --device cuda --out results --res 450"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "959ab837",
   "metadata": {},
   "outputs": [],
   "source": [
    "# TRAIN\n",
    "# dataset : CNMC_no_green\n",
    "# res     : 450\n",
    "# epochs  : 100\n",
    "!python3 main_manual.py --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC_no_green\" --batch-size 32 --epochs 100 --seed 30042022 --device cuda --out results --res 450"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "879beb46",
   "metadata": {},
   "outputs": [],
   "source": [
    "# TRAIN\n",
    "# dataset : CNMC_no_blue\n",
    "# res     : 450\n",
    "# epochs  : 100\n",
    "!python3 main_manual.py --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC_no_blue\" --batch-size 32 --epochs 100 --seed 30042022 --device cuda --out results --res 450"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "6d545dce",
   "metadata": {},
   "outputs": [],
   "source": [
    "# TRAIN\n",
    "# dataset : CNMC_red_only\n",
    "# res     : 450\n",
    "# epochs  : 100\n",
    "!python3 main_manual.py --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC_red_only\" --batch-size 32 --epochs 100 --seed 30042022 --device cuda --out results --res 450"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "25480226",
   "metadata": {},
   "outputs": [],
   "source": [
    "# TRAIN\n",
    "# dataset : CNMC_green_only\n",
    "# res     : 450\n",
    "# epochs  : 100\n",
    "!python3 main_manual.py --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC_green_only\" --batch-size 32 --epochs 100 --seed 30042022 --device cuda --out results --res 450"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "a064d169",
   "metadata": {},
   "outputs": [],
   "source": [
    "# TRAIN\n",
    "# dataset : CNMC_blue_only\n",
    "# res     : 450\n",
    "# epochs  : 100\n",
    "!python3 main_manual.py --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC_blue_only\" --batch-size 32 --epochs 100 --seed 30042022 --device cuda --out results --res 450"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "8d53828a",
   "metadata": {},
   "outputs": [],
   "source": [
    "# TRAIN\n",
    "# dataset : CNMC\n",
    "# res     : 450\n",
    "# epochs  : 100\n",
    "!python3 main_manual.py --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC\" --batch-size 32 --epochs 100 --seed 30042022 --device cuda --out results --res 450"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 183,
   "id": "ea9c2f23",
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "PROPOSAL\n",
      "68.51\t83.57 ± 5.16\t89.61\n",
      "84.33\t89.06 ± 2.09\t92.95\n",
      "38.73\t73.26 ± 11.77\t84.72\n",
      "66.76\t83.35 ± 5.61\t89.57\n",
      "66.81\t83.36 ± 5.60\t89.55\n",
      "68.51\t83.57 ± 5.16\t89.61\n",
      "\n",
      "Figure(900x500)\n",
      "Figure(900x200)\n",
      "Figure(900x200)\n"
     ]
    }
   ],
   "source": [
    "# PLOT\n",
    "# dataset : CNMC\n",
    "# res     : 450\n",
    "# epochs  : 100\n",
    "!python3 plot.py"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "8c92073d",
   "metadata": {},
   "source": [
    "# EVALUATION"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 135,
   "id": "b25a4267",
   "metadata": {
    "scrolled": false
   },
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Loading model\n",
      "Classifying\n",
      "59it [00:05, 11.69it/s]                                                         \n",
      "Positive: 1425\n",
      "Negative: 442\n",
      "AUC: 0.6153299354864846\n"
     ]
    }
   ],
   "source": [
    "# EVALUATION \n",
    "# dataset : CNMC\n",
    "# res     : 32\n",
    "# epochs  : 100\n",
    "!python3 submission.py --modelroot \"/home/feoktistovar67431/isbi2019cancer-master/results/model_cnmc_res_32\" --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC/phase2\" --batch-size 32 --res 32"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 136,
   "id": "b14e3e67",
   "metadata": {
    "scrolled": false
   },
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Loading model\n",
      "Classifying\n",
      "59it [00:09,  6.24it/s]                                                         \n",
      "Positive: 1315\n",
      "Negative: 552\n",
      "AUC: 0.7711131113339208\n"
     ]
    }
   ],
   "source": [
    "# EVALUATION\n",
    "# dataset : CNMC\n",
    "# res     : 128\n",
    "# epochs  : 100\n",
    "!python3 submission.py --modelroot \"/home/feoktistovar67431/isbi2019cancer-master/results/model_cnmc_res_128\" --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC/phase2\" --batch-size 32 --res 128"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 137,
   "id": "dfb25744",
   "metadata": {
    "scrolled": false
   },
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Loading model\n",
      "Classifying\n",
      "59it [00:14,  4.19it/s]                                                         \n",
      "Positive: 1262\n",
      "Negative: 605\n",
      "AUC: 0.8143717274835677\n"
     ]
    }
   ],
   "source": [
    "# EVALUATION\n",
    "# dataset : CNMC\n",
    "# res     : 224\n",
    "# epochs  : 100\n",
    "!python3 submission.py --modelroot \"/home/feoktistovar67431/isbi2019cancer-master/results/model_cnmc_res_224\" --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC/phase2\" --batch-size 32 --res 224"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 138,
   "id": "68600db4",
   "metadata": {
    "scrolled": false
   },
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Loading model\n",
      "Classifying\n",
      "59it [00:41,  1.44it/s]                                                         \n",
      "Positive: 1195\n",
      "Negative: 672\n",
      "AUC: 0.8400701597139936\n"
     ]
    }
   ],
   "source": [
    "# EVALUATION\n",
    "# dataset : CNMC\n",
    "# res     : 256\n",
    "# epochs  : 100\n",
    "!python3 submission.py --modelroot \"/home/feoktistovar67431/isbi2019cancer-master/results/model_cnmc_res_256\" --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC/phase2\" --batch-size 32 --res 256"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 139,
   "id": "71a5547e",
   "metadata": {
    "scrolled": false
   },
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Loading model\n",
      "Classifying\n",
      "59it [00:41,  1.42it/s]                                                         \n",
      "Positive: 1241\n",
      "Negative: 626\n",
      "AUC: 0.8813918512441892\n"
     ]
    }
   ],
   "source": [
    "# EVALUATION\n",
    "# dataset : CNMC\n",
    "# res     : 450\n",
    "# epochs  : 100\n",
    "!python3 submission.py --modelroot \"/home/feoktistovar67431/isbi2019cancer-master/results/model_cnmc_res_450\" --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC/phase2\" --batch-size 32 --res 450"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 154,
   "id": "58450362",
   "metadata": {
    "scrolled": false
   },
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Loading model\n",
      "Classifying\n",
      "59it [00:41,  1.42it/s]                                                         \n",
      "Positive: 1261\n",
      "Negative: 606\n",
      "AUC: 0.8045073375262055\n"
     ]
    }
   ],
   "source": [
    "# EVALUATION\n",
    "# dataset : CNMC_Grayscale\n",
    "# res     : 450\n",
    "# epochs  : 100\n",
    "!python3 submission.py --modelroot \"/home/feoktistovar67431/isbi2019cancer-master/results/model_cnmc_res_450_grayscale\" --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC_grayscale/phase2\" --batch-size 32 --res 450"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 155,
   "id": "48c40f18",
   "metadata": {
    "scrolled": false
   },
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Loading model\n",
      "Classifying\n",
      "59it [00:44,  1.33it/s]                                                         \n",
      "Positive: 1178\n",
      "Negative: 689\n",
      "AUC: 0.8661869929814967\n"
     ]
    }
   ],
   "source": [
    "# EVALUATION\n",
    "# dataset : CNMC_no_red\n",
    "# res     : 450\n",
    "# epochs  : 100\n",
    "!python3 submission.py --modelroot \"/home/feoktistovar67431/isbi2019cancer-master/results/model_cnmc_res_450_no_red\" --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC_no_red/phase2\" --batch-size 32 --res 450"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 156,
   "id": "b6ad9232",
   "metadata": {
    "scrolled": false
   },
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Loading model\n",
      "Classifying\n",
      "59it [00:52,  1.12it/s]                                                         \n",
      "Positive: 1266\n",
      "Negative: 601\n",
      "AUC: 0.8018310900454735\n"
     ]
    }
   ],
   "source": [
    "# EVALUATION\n",
    "# dataset : CNMC_no_green\n",
    "# res     : 450\n",
    "# epochs  : 100\n",
    "!python3 submission.py --modelroot \"/home/feoktistovar67431/isbi2019cancer-master/results/model_cnmc_res_450_no_green\" --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC_no_green/phase2\" --batch-size 32 --res 450"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 157,
   "id": "1ba76d51",
   "metadata": {
    "scrolled": false
   },
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Loading model\n",
      "Classifying\n",
      "59it [00:48,  1.23it/s]                                                         \n",
      "Positive: 1248\n",
      "Negative: 619\n",
      "AUC: 0.8570821813062721\n"
     ]
    }
   ],
   "source": [
    "# EVALUATION\n",
    "# dataset : CNMC_no_blue\n",
    "# res     : 450\n",
    "# epochs  : 100\n",
    "!python3 submission.py --modelroot \"/home/feoktistovar67431/isbi2019cancer-master/results/model_cnmc_res_450_no_blue\" --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC_no_blue/phase2\" --batch-size 32 --res 450"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 158,
   "id": "05cfaf9c",
   "metadata": {
    "scrolled": false
   },
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Loading model\n",
      "Classifying\n",
      "59it [00:52,  1.12it/s]                                                         \n",
      "Positive: 1239\n",
      "Negative: 628\n",
      "AUC: 0.8013924335875389\n"
     ]
    }
   ],
   "source": [
    "# EVALUATION\n",
    "# dataset : CNMC_red_only\n",
    "# res     : 450\n",
    "# epochs  : 100\n",
    "!python3 submission.py --modelroot \"/home/feoktistovar67431/isbi2019cancer-master/results/model_cnmc_res_450_red_only\" --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC_red_only/phase2\" --batch-size 32 --res 450"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 159,
   "id": "1ad09456",
   "metadata": {
    "scrolled": false
   },
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Loading model\n",
      "Classifying\n",
      "59it [00:52,  1.13it/s]                                                         \n",
      "Positive: 1221\n",
      "Negative: 646\n",
      "AUC: 0.8590070792695896\n"
     ]
    }
   ],
   "source": [
    "# EVALUATION\n",
    "# dataset : CNMC_green_only\n",
    "# res     : 450\n",
    "# epochs  : 100\n",
    "!python3 submission.py --modelroot \"/home/feoktistovar67431/isbi2019cancer-master/results/model_cnmc_res_450_green_only\" --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC_green_only/phase2\" --batch-size 32 --res 450"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 160,
   "id": "41e8d3a0",
   "metadata": {
    "scrolled": false
   },
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Loading model\n",
      "Classifying\n",
      "59it [00:52,  1.12it/s]                                                         \n",
      "Positive: 1255\n",
      "Negative: 612\n",
      "AUC: 0.8268636253152251\n"
     ]
    }
   ],
   "source": [
    "# EVALUATION\n",
    "# dataset : CNMC_blue_only\n",
    "# res     : 450\n",
    "# epochs  : 100\n",
    "!python3 submission.py --modelroot \"/home/feoktistovar67431/isbi2019cancer-master/results/model_cnmc_res_450_blue_only\" --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC_blue_only/phase2\" --batch-size 32 --res 450"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 186,
   "id": "88bc18db",
   "metadata": {
    "scrolled": false
   },
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Loading model\n",
      "Classifying\n",
      "59it [01:24,  1.43s/it]                                                         \n",
      "Positive: 1235\n",
      "Negative: 632\n",
      "AUC: 0.8588406050294211\n"
     ]
    }
   ],
   "source": [
    "# EVALUATION\n",
    "# dataset : CNMC-blackborder\n",
    "# res     : 450\n",
    "# epochs  : 100\n",
    "!python3 submission.py --modelroot \"/home/feoktistovar67431/isbi2019cancer-master/results/model_cnmc_res_450_w_blackborder\" --dataroot \"/home/feoktistovar67431/data/isbi2019/CNMC/phase2\" --batch-size 32 --res 450"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "ec31125a",
   "metadata": {},
   "outputs": [],
   "source": []
  }
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