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This code implements a basic Retrieval-Augmented Generation (RAG) system for processing and querying PDF document(s). The system uses a pipeline that encodes the documents and creates nodes. These nodes then can be used to build a vector index to retrieve relevant information.
Key Components
- PDF processing and text extraction
- Text chunking for manageable processing
- Ingestion pipeline creation using FAISS as vector store and OpenAI embeddings
- Retriever setup for querying the processed documents
- Evaluation of the RAG system
Method Details
Document Preprocessing
- The PDF is loaded using SimpleDirectoryReader.
- The text is split into nodes/chunks using SentenceSplitter with specified chunk size and overlap.
Text Cleaning
A custom transformation TextCleaner is applied to clean the texts. This likely addresses specific formatting issues in the PDF.
Ingestion Pipeline Creation
- OpenAI embeddings are used to create vector representations of the text nodes.
- A FAISS vector store is created from these embeddings for efficient similarity search.
Retriever Setup
- A retriever is configured to fetch the top 2 most relevant chunks for a given query.
Key Features
- Modular Design: The ingestion process is encapsulated in a single function for easy reuse.
- Configurable Chunking: Allows adjustment of chunk size and overlap.
- Efficient Retrieval: Uses FAISS for fast similarity search.
- Evaluation: Includes a function to evaluate the RAG system’s performance.
Usage Example
The code includes a test query: “What is the main cause of climate change?”. This demonstrates how to use the retriever to fetch relevant context from the processed document.
Evaluation
The system includes an evaluate_rag function to assess the performance of the retriever, though the specific metrics used are not detailed in the provided code.
Benefits of this Approach
- Scalability: Can handle large documents by processing them in chunks.
- Flexibility: Easy to adjust parameters like chunk size and number of retrieved results.
- Efficiency: Utilizes FAISS for fast similarity search in high-dimensional spaces.
- Integration with Advanced NLP: Uses OpenAI embeddings for state-of-the-art text representation.
This simple RAG system provides a solid foundation for building more complex information retrieval and question-answering systems. By encoding document content into a searchable vector store, it enables efficient retrieval of relevant information in response to queries. This approach is particularly useful for applications requiring quick access to specific information within large documents or document collections.
Import libraries and environment variables
In [1]:
from typing import List
from llama_index.core import SimpleDirectoryReader, VectorStoreIndex
from llama_index.core.ingestion import IngestionPipeline
from llama_index.core.schema import BaseNode, TransformComponent
from llama_index.vector_stores.faiss import FaissVectorStore
from llama_index.core.text_splitter import SentenceSplitter
from llama_index.embeddings.openai import OpenAIEmbedding
from llama_index.core import Settings
import faiss
import os
import sys
from dotenv import load_dotenv
sys.path.append(os.path.abspath(os.path.join(os.getcwd(), '..'))) # Add the parent directory to the path sicnce we work with notebooks
EMBED_DIMENSION = 512
# Chunk settings are way different than langchain examples
# Beacuse for the chunk length langchain uses length of the string,
# while llamaindex uses length of the tokens
CHUNK_SIZE = 200
CHUNK_OVERLAP = 50
# Load environment variables from a .env file
load_dotenv()
# Set the OpenAI API key environment variable
os.environ["OPENAI_API_KEY"] = os.getenv('OPENAI_API_KEY')
# Set embeddig model on LlamaIndex global settings
Settings.embed_model = OpenAIEmbedding(model="text-embedding-3-small", dimensions=EMBED_DIMENSION)
Read Docs
In [ ]:
path = "../data/"
node_parser = SimpleDirectoryReader(input_dir=path, required_exts=['.pdf'])
documents = node_parser.load_data()
print(documents[0])
Vector Store
In [3]:
# Create FaisVectorStore to store embeddings
faiss_index = faiss.IndexFlatL2(EMBED_DIMENSION)
vector_store = FaissVectorStore(faiss_index=faiss_index)
Text Cleaner Transformation
In [4]:
class TextCleaner(TransformComponent):
"""
Transformation to be used within the ingestion pipeline.
Cleans clutters from texts.
"""
def __call__(self, nodes, **kwargs) -> List[BaseNode]:
for node in nodes:
node.text = node.text.replace('\t', ' ') # Replace tabs with spaces
node.text = node.text.replace(' \n', ' ') # Replace paragraph seperator with spacaes
return nodes
Ingestion Pipeline
In [5]:
text_splitter = SentenceSplitter(chunk_size=CHUNK_SIZE, chunk_overlap=CHUNK_OVERLAP)
# Create a pipeline with defined document transformations and vectorstore
pipeline = IngestionPipeline(
transformations=[
TextCleaner(),
text_splitter,
],
vector_store=vector_store,
)
In [6]:
# Run pipeline and get generated nodes from the process
nodes = pipeline.run(documents=documents)
Create retriever
In [7]:
vector_store_index = VectorStoreIndex(nodes)
retriever = vector_store_index.as_retriever(similarity_top_k=2)
Test retriever
In [8]:
def show_context(context):
"""
Display the contents of the provided context list.
Args:
context (list): A list of context items to be displayed.
Prints each context item in the list with a heading indicating its position.
"""
for i, c in enumerate(context):
print(f"Context {i+1}:")
print(c.text)
print("\n")
In [9]:
test_query = "What is the main cause of climate change?"
context = retriever.retrieve(test_query)
show_context(context)
Context 1: Chapter 2: Causes of Climate Change Greenhouse Gases The primary cause of recent climate change is the increase in greenhouse gases in the atmosphere. Greenhouse gases, such as carbon dioxide (CO2), methane (CH4), and nitrous oxide (N2O), trap heat from the sun, creating a "greenhouse effect." This effect is essential for life on Earth, as it keeps the planet warm enough to support life. However, human activities have intensified this natural process, leading to a warmer climate. Fossil Fuels Burning fossil fuels for energy releases large amounts of CO2. Context 2: The Intergovernmental Panel on Climate Change (IPCC) has documented these changes extensively. Ice core samples, tree rings, and ocean sediments provide a historical record that scientists use to understand past climate conditions and predict future trends. The evidence overwhelmingly shows that recent changes are primarily driven by human activities, particularly the emission of greenhou se gases. Chapter 2: Causes of Climate Change Greenhouse Gases The primary cause of recent climate change is the increase in greenhouse gases in the atmosphere.
Let’s see how well does it perform:
In [ ]:
import json
from deepeval import evaluate
from deepeval.metrics import GEval, FaithfulnessMetric, ContextualRelevancyMetric
from deepeval.test_case import LLMTestCaseParams
from evaluation.evalute_rag import create_deep_eval_test_cases
# Set llm model for evaluation of the question and answers
LLM_MODEL = "gpt-4o"
# Define evaluation metrics
correctness_metric = GEval(
name="Correctness",
model=LLM_MODEL,
evaluation_params=[
LLMTestCaseParams.EXPECTED_OUTPUT,
LLMTestCaseParams.ACTUAL_OUTPUT
],
evaluation_steps=[
"Determine whether the actual output is factually correct based on the expected output."
],
)
faithfulness_metric = FaithfulnessMetric(
threshold=0.7,
model=LLM_MODEL,
include_reason=False
)
relevance_metric = ContextualRelevancyMetric(
threshold=1,
model=LLM_MODEL,
include_reason=True
)
def evaluate_rag(query_engine, num_questions: int = 5) -> None:
"""
Evaluate the RAG system using predefined metrics.
Args:
query_engine: Query engine to ask questions and get answers along with retrieved context.
num_questions (int): Number of questions to evaluate (default: 5).
"""
# Load questions and answers from JSON file
q_a_file_name = "../data/q_a.json"
with open(q_a_file_name, "r", encoding="utf-8") as json_file:
q_a = json.load(json_file)
questions = [qa["question"] for qa in q_a][:num_questions]
ground_truth_answers = [qa["answer"] for qa in q_a][:num_questions]
generated_answers = []
retrieved_documents = []
# Generate answers and retrieve documents for each question
for question in questions:
response = query_engine.query(question)
context = [doc.text for doc in response.source_nodes]
retrieved_documents.append(context)
generated_answers.append(response.response)
# Create test cases and evaluate
test_cases = create_deep_eval_test_cases(questions, ground_truth_answers, generated_answers, retrieved_documents)
evaluate(
test_cases=test_cases,
metrics=[correctness_metric, faithfulness_metric, relevance_metric]
)
Evaluate results
In [ ]:
query_engine = vector_store_index.as_query_engine(similarity_top_k=2)
evaluate_rag(query_engine, num_questions=1)
