protocol-extraction-from-pdf
Extract laboratory protocols from PDF documents using Thoth-Plan to convert experimental procedures into structured text.
Datos de origen
- Repositorio
- InternScience/scp
- Última actividad en el origen
- 27 de febrero de 2026 a las 07:42
- Idioma detectado de SKILL.md
- inglés
- Estrellas
- 173
- Forks
- 10
Opciones de instalación
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SKILL.md
Instrucciones de origen · Vista previa de solo lectura- name
- protocol-extraction-from-pdf
- description
- Extract laboratory protocols from PDF documents using Thoth-Plan to convert experimental procedures into structured text.
- license
- MIT license
- metadata
- {"skill-author":"PJLab"}
# Protocol Extraction from PDF
## Usage
```python
import asyncio
import json
from mcp.client.streamable_http import streamablehttp_client
from mcp import ClientSession
class ThothClient:
def __init__(self, server_url: str):
self.server_url = server_url
self.session = None
async def connect(self):
try:
self.transport = streamablehttp_client(url=self.server_url, sse_read_timeout=60 * 10)
self.read, self.write, self.get_session_id = await self.transport.__aenter__()
self.session_ctx = ClientSession(self.read, self.write)
self.session = await self.session_ctx.__aenter__()
await self.session.initialize()
return True
except Exception as e:
return False
async def disconnect(self):
if self.session:
await self.session_ctx.__aexit__(None, None, None)
if hasattr(self, 'transport'):
await self.transport.__aexit__(None, None, None)
def parse_result(self, result):
try:
if hasattr(result, 'content') and result.content:
content = result.content[0]
if hasattr(content, 'text'):
return json.loads(content.text)
return str(result)
except:
try:
return result.content[0].text
except:
return {"error": "parse error", "raw": str(result)}
## Initialize and use
client = ThothClient("https://scp.intern-ai.org.cn/api/v1/mcp/19/Thoth-Plan")
await client.connect()
# PDF URL (must be publicly accessible)
pdf_url = "https://example.com/protocol.pdf"
result = await client.session.call_tool("extract_protocol_from_pdf", arguments={"pdf_url": pdf_url})
protocol = client.parse_result(result)
print("Extracted Protocol:")
print(protocol)
await client.disconnect()
```
### Tool: `extract_protocol_from_pdf`
- Args: `pdf_url` (str) - Public URL to PDF file
- Returns: Structured protocol text with numbered steps
### Use Cases
- Lab protocol digitization, SOP extraction, experimental workflow documentation
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