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{
"cells": [
{
"cell_type": "code",
"execution_count": 1,
"id": "945c420e-bb44-4ffb-b899-e049caf0d918",
"metadata": {},
"outputs": [],
"source": [
"import os\n",
"os.chdir('..')"
]
},
{
"cell_type": "code",
"execution_count": 2,
"id": "f2bdefb3-3e59-409a-81b4-2e9ffbdfdb1a",
"metadata": {},
"outputs": [
{
"name": "stderr",
"output_type": "stream",
"text": [
"/root/anaconda3/envs/kg_rag_test_2/lib/python3.10/site-packages/tqdm/auto.py:21: TqdmWarning: IProgress not found. Please update jupyter and ipywidgets. See https://ipywidgets.readthedocs.io/en/stable/user_install.html\n",
" from .autonotebook import tqdm as notebook_tqdm\n"
]
}
],
"source": [
"import pandas as pd\n",
"from kg_rag.utility import *\n",
"from tqdm import tqdm\n",
"\n"
]
},
{
"cell_type": "code",
"execution_count": 3,
"id": "19fc98b9-64a8-40c0-9e5a-92b4392e6969",
"metadata": {},
"outputs": [],
"source": [
"data = pd.read_csv('data/dataset_for_entity_retrieval_accuracy_analysis.csv')\n"
]
},
{
"cell_type": "code",
"execution_count": 14,
"id": "2851be4c-2a76-4f6d-b5f4-118e8122b155",
"metadata": {},
"outputs": [],
"source": [
"VECTOR_DB_PATH = config_data[\"VECTOR_DB_PATH\"]\n",
"SENTENCE_EMBEDDING_MODEL_FOR_NODE_RETRIEVAL = config_data[\"SENTENCE_EMBEDDING_MODEL_FOR_NODE_RETRIEVAL\"]\n",
"\n",
"vectorstore = load_chroma(VECTOR_DB_PATH, SENTENCE_EMBEDDING_MODEL_FOR_NODE_RETRIEVAL)\n"
]
},
{
"cell_type": "code",
"execution_count": 16,
"id": "7255fbab-d8b4-43a3-b870-9d67ad79d061",
"metadata": {},
"outputs": [
{
"name": "stderr",
"output_type": "stream",
"text": [
"322it [00:05, 56.20it/s]"
]
},
{
"name": "stdout",
"output_type": "stream",
"text": [
"CPU times: user 4.74 s, sys: 896 ms, total: 5.64 s\n",
"Wall time: 5.73 s\n"
]
},
{
"name": "stderr",
"output_type": "stream",
"text": [
"\n"
]
}
],
"source": [
"%%time\n",
"\n",
"correct_retrieval = 0\n",
"\n",
"for index, row in tqdm(data.iterrows()):\n",
" question = row['text']\n",
" entities = disease_entity_extractor_v2(question) \n",
" for entity in entities:\n",
" node_search_result = vectorstore.similarity_search_with_score(entity, k=1)\n",
" if node_search_result[0][0].page_content == row['node_hits']:\n",
" correct_retrieval += 1 \n",
" break\n",
" \n"
]
},
{
"cell_type": "code",
"execution_count": 20,
"id": "2f997335-bff7-431c-bbd8-608513eddcc7",
"metadata": {},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"Retrieval accuracy is 99.7%\n"
]
}
],
"source": [
"retrieval_accuracy = 100*correct_retrieval/data.shape[0]\n",
"print(f'Retrieval accuracy is {round(retrieval_accuracy,1)}%')\n"
]
},
{
"cell_type": "code",
"execution_count": null,
"id": "afe971ab-b8b9-4c88-9657-c588813b412f",
"metadata": {},
"outputs": [],
"source": []
}
],
"metadata": {
"kernelspec": {
"display_name": "Python 3 (ipykernel)",
"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": "3.10.9"
}
},
"nbformat": 4,
"nbformat_minor": 5
}
|
