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isbi2019cancer-master/run.ipynb
Artur Feoktistov c7a6997e9f init
2022-04-29 19:33:43 +02:00

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{
"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": []
}
],
"metadata": {
"kernelspec": {
"display_name": "Python 3",
"language": "python",
"name": "python3"
},
"language_info": {
"codemirror_mode": {
"name": "ipython",
"version": 3
},
"file_extension": ".py",
"mimetype": "text/x-python",
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.6.9"
}
},
"nbformat": 4,
"nbformat_minor": 5
}
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