medical-platform / offline_document_processor.py
Ndg07's picture
Created standalone script to use Voyage AI for testing embeddings directly from local storage
fcc8bdc
"""
Offline Document Processor with Voyage AI
Standalone script for processing documents without running the main server
Perfect for admin testing and bulk uploads with generous free tier
Usage:
python offline_document_processor.py "path/to/document.pdf" --user-id YOUR_USER_ID
Features:
- Uses Voyage AI (10M tokens/month free)
- Processes documents independently
- Direct database connection
- Shows progress in terminal
- No server needed
"""
import os
import sys
import asyncio
import argparse
import uuid
import hashlib
from datetime import datetime, timedelta
from pathlib import Path
import PyPDF2
from dotenv import load_dotenv
from supabase import create_client
import httpx
# Load environment variables
load_dotenv()
class OfflineDocumentProcessor:
"""Standalone document processor using Voyage AI"""
def __init__(self, user_id: str):
self.user_id = user_id
self.voyage_api_key = os.getenv("VOYAGE_API_KEY")
self.supabase_url = os.getenv("SUPABASE_URL")
self.supabase_key = os.getenv("SUPABASE_SERVICE_KEY")
if not self.voyage_api_key:
raise ValueError("VOYAGE_API_KEY not found in .env file")
if not self.supabase_url or not self.supabase_key:
raise ValueError("Supabase credentials not found in .env file")
self.supabase = create_client(self.supabase_url, self.supabase_key)
self.voyage_url = "https://api.voyageai.com/v1/embeddings"
def extract_pdf_text(self, pdf_path: str) -> str:
"""Extract text from PDF file"""
print(f"\n📄 Extracting text from PDF...")
with open(pdf_path, 'rb') as file:
pdf_reader = PyPDF2.PdfReader(file)
total_pages = len(pdf_reader.pages)
print(f"📊 Total pages: {total_pages}")
text = ""
for i, page in enumerate(pdf_reader.pages):
try:
page_text = page.extract_text()
if page_text:
text += page_text + "\n\n"
# Show progress every 50 pages
if (i + 1) % 50 == 0:
print(f" Processed {i + 1}/{total_pages} pages...")
except Exception as e:
print(f" ⚠️ Warning: Failed to extract page {i + 1}: {str(e)}")
continue
print(f"✅ Extracted {len(text)} characters")
return text.strip()
def chunk_text(self, text: str, chunk_size: int = 1000, overlap: int = 200) -> list:
"""Split text into overlapping chunks"""
print(f"\n✂️ Chunking text...")
chunks = []
start = 0
text_length = len(text)
while start < text_length:
end = start + chunk_size
chunk = text[start:end]
# Try to break at sentence boundary
if end < text_length:
last_period = chunk.rfind('.')
last_newline = chunk.rfind('\n')
break_point = max(last_period, last_newline)
if break_point > chunk_size * 0.5:
chunk = chunk[:break_point + 1]
end = start + break_point + 1
chunks.append(chunk.strip())
start = end - overlap
# Filter out tiny chunks
chunks = [c for c in chunks if len(c.strip()) > 50]
print(f"✅ Created {len(chunks)} chunks")
return chunks
async def generate_voyage_embedding(self, text: str) -> dict:
"""Generate embedding using Voyage AI"""
headers = {
"Authorization": f"Bearer {self.voyage_api_key}",
"Content-Type": "application/json"
}
payload = {
"input": text,
"model": "voyage-large-2"
}
async with httpx.AsyncClient(timeout=30.0) as client:
response = await client.post(self.voyage_url, headers=headers, json=payload)
if response.status_code == 429:
# Rate limit hit - wait 20 seconds
return {"success": False, "error": "rate_limit", "retry_after": 20}
if response.status_code != 200:
return {"success": False, "error": f"API error: {response.status_code}"}
result = response.json()
if "data" in result and len(result["data"]) > 0:
embedding = result["data"][0]["embedding"]
return {"success": True, "embedding": embedding, "dimension": len(embedding)}
return {"success": False, "error": "Invalid response format"}
def pad_embedding_to_4096(self, embedding: list) -> list:
"""Pad embedding from 1536 to 4096 dimensions"""
if len(embedding) >= 4096:
return embedding[:4096]
# Pad with zeros
return embedding + [0.0] * (4096 - len(embedding))
async def process_document(self, pdf_path: str, feature: str = "chat"):
"""Process document and store in database"""
# Validate file
if not os.path.exists(pdf_path):
print(f"❌ Error: File not found: {pdf_path}")
return
file_path = Path(pdf_path)
filename = file_path.name
file_size = file_path.stat().st_size
print(f"\n{'='*60}")
print(f"📄 Processing Document")
print(f"{'='*60}")
print(f"File: {filename}")
print(f"Size: {file_size / (1024*1024):.2f} MB")
print(f"User ID: {self.user_id}")
# Extract text
text = self.extract_pdf_text(pdf_path)
if not text or len(text) < 100:
print(f"❌ Error: Insufficient text extracted from PDF")
return
# Chunk text
chunks = self.chunk_text(text)
# Create document record
print(f"\n💾 Creating document record...")
document_id = str(uuid.uuid4())
# Calculate retention days (default 30 for admin)
expires_at = datetime.now() + timedelta(days=365) # 1 year for admin
document_data = {
"id": document_id,
"user_id": self.user_id,
"filename": filename,
"file_type": "application/pdf",
"file_size": file_size,
"storage_path": f"offline/{self.user_id}/{document_id}.pdf",
"processing_status": "processing",
"processing_progress": 0,
"processing_stage": "Generating embeddings...",
"feature": feature,
"expires_at": expires_at.isoformat(),
"created_at": datetime.now().isoformat(),
"total_chunks": len(chunks),
"chunks_with_embeddings": 0
}
self.supabase.table("documents").insert(document_data).execute()
print(f"✅ Document record created: {document_id}")
# Process chunks with embeddings
print(f"\n🔄 Generating embeddings with Voyage AI...")
print(f" Rate limit: 3 requests/minute (20 seconds between requests)")
print(f" Estimated time: {len(chunks) * 20 / 60:.1f} minutes\n")
embeddings_generated = 0
embeddings_failed = 0
for i, chunk in enumerate(chunks):
# Show progress
progress = int((i / len(chunks)) * 100)
remaining_chunks = len(chunks) - i
remaining_seconds = remaining_chunks * 20
remaining_minutes = remaining_seconds / 60
print(f" ✓ Chunk {i+1}/{len(chunks)} ({progress}%) - {remaining_minutes:.1f} min remaining", end='\r')
# Generate embedding
result = await self.generate_voyage_embedding(chunk)
if result["success"]:
# Pad to 4096 dimensions
embedding_1536 = result["embedding"]
embedding_4096 = self.pad_embedding_to_4096(embedding_1536)
# Split into 3 parts for indexing
part1 = embedding_4096[:1365]
part2 = embedding_4096[1365:2730]
part3 = embedding_4096[2730:]
# Format as PostgreSQL vectors
embedding_str = '[' + ','.join(str(x) for x in embedding_4096) + ']'
part1_str = '[' + ','.join(str(x) for x in part1) + ']'
part2_str = '[' + ','.join(str(x) for x in part2) + ']'
part3_str = '[' + ','.join(str(x) for x in part3) + ']'
# Store chunk
chunk_data = {
"document_id": document_id,
"chunk_index": i,
"content": chunk,
"embedding": embedding_str,
"embedding_part1": part1_str,
"embedding_part2": part2_str,
"embedding_part3": part3_str,
"created_at": datetime.now().isoformat()
}
self.supabase.table("document_chunks").insert(chunk_data).execute()
embeddings_generated += 1
# Update progress every 10 chunks
if (i + 1) % 10 == 0:
self.supabase.table("documents").update({
"processing_progress": progress,
"chunks_with_embeddings": embeddings_generated
}).eq("id", document_id).execute()
# Wait 20 seconds to respect rate limit (3 RPM)
if i < len(chunks) - 1: # Don't wait after last chunk
await asyncio.sleep(20)
elif result.get("error") == "rate_limit":
# Rate limit hit - wait and retry
print(f"\n ⚠️ Rate limit hit, waiting {result['retry_after']} seconds...")
await asyncio.sleep(result["retry_after"])
# Retry this chunk
result = await self.generate_voyage_embedding(chunk)
if result["success"]:
# Process successful retry (same code as above)
embedding_1536 = result["embedding"]
embedding_4096 = self.pad_embedding_to_4096(embedding_1536)
part1 = embedding_4096[:1365]
part2 = embedding_4096[1365:2730]
part3 = embedding_4096[2730:]
embedding_str = '[' + ','.join(str(x) for x in embedding_4096) + ']'
part1_str = '[' + ','.join(str(x) for x in part1) + ']'
part2_str = '[' + ','.join(str(x) for x in part2) + ']'
part3_str = '[' + ','.join(str(x) for x in part3) + ']'
chunk_data = {
"document_id": document_id,
"chunk_index": i,
"content": chunk,
"embedding": embedding_str,
"embedding_part1": part1_str,
"embedding_part2": part2_str,
"embedding_part3": part3_str,
"created_at": datetime.now().isoformat()
}
self.supabase.table("document_chunks").insert(chunk_data).execute()
embeddings_generated += 1
else:
embeddings_failed += 1
else:
embeddings_failed += 1
print(f"\n ❌ Failed to generate embedding for chunk {i+1}: {result.get('error')}")
# Final update
print(f"\n\n✅ Embedding generation complete!")
print(f" Generated: {embeddings_generated}/{len(chunks)}")
print(f" Failed: {embeddings_failed}/{len(chunks)}")
# Mark document as completed
self.supabase.table("documents").update({
"processing_status": "completed",
"processing_progress": 100,
"processing_stage": "Completed",
"processed_at": datetime.now().isoformat(),
"chunks_with_embeddings": embeddings_generated
}).eq("id", document_id).execute()
print(f"\n{'='*60}")
print(f"✅ Document processed successfully!")
print(f"{'='*60}")
print(f"Document ID: {document_id}")
print(f"Filename: {filename}")
print(f"Chunks: {len(chunks)}")
print(f"Embeddings: {embeddings_generated}")
print(f"\n🎉 Document is now ready for search in the app!")
print(f"{'='*60}\n")
async def main():
parser = argparse.ArgumentParser(description='Offline Document Processor with Voyage AI')
parser.add_argument('pdf_path', help='Path to PDF file')
parser.add_argument('--user-id', required=True, help='User ID for document ownership')
parser.add_argument('--feature', default='chat', help='Feature to enable RAG for (default: chat)')
args = parser.parse_args()
try:
processor = OfflineDocumentProcessor(args.user_id)
await processor.process_document(args.pdf_path, args.feature)
except KeyboardInterrupt:
print(f"\n\n⚠️ Process interrupted by user")
sys.exit(1)
except Exception as e:
print(f"\n\n❌ Error: {str(e)}")
import traceback
traceback.print_exc()
sys.exit(1)
if __name__ == "__main__":
asyncio.run(main())