<< All versions
Skill v1.0.1
currentAutomated scan100/100internscience/scp/drugsda-linker-sampling
1 files
──Details
PublishedJune 14, 2026 at 01:00 AM
Content Hashsha256:8a1e027115b31fe1...
Git SHAcea539856403
Bump Typepatch
──Files
Files (1 file, 3.6 KB)
SKILL.md3.6 KBactive
SKILL.md · 116 lines · 3.6 KB
version: "1.0.1" name: drugsda-linker-sampling description: Generate new molecules sampling from the input two warhead fragments. license: MIT license metadata: skill-author: PJLab
Molecule Generation
Usage
1. MCP Server Definition
python
import jsonfrom mcp.client.streamable_http import streamablehttp_clientfrom mcp import ClientSessionclass DrugSDAClient:def __init__(self, server_url: str):self.server_url = server_urlself.session = Noneasync def connect(self):print(f"server url: {self.server_url}")try:self.transport = streamablehttp_client(url=self.server_url,headers={"SCP-HUB-API-KEY": "sk-a0033dde-b3cd-413b-adbe-980bc78d6126"})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()session_id = self.get_session_id()print(f"✓ connect success")return Trueexcept Exception as e:print(f"✗ connect failure: {e}")import tracebacktraceback.print_exc()return Falseasync def disconnect(self):try:if self.session:await self.session_ctx.__aexit__(None, None, None)if hasattr(self, 'transport'):await self.transport.__aexit__(None, None, None)print("✓ already disconnect")except Exception as e:print(f"✗ disconnect error: {e}")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 Exception as e:return {"error": f"parse error: {e}", "raw": str(result)}
2. Mol2Mol Sampling
The description of tool linkinvent_linker_sampling_by_warheads.
tex
Generate new molecules sampling from the input two warhead fragments.Args:warheads (str): SMILES of two warheads separated by '|', e.g., '*c1ccc(O)cc1|*N1CCNCC1'n (int): Number of molecules for samplingfilter_preset (str): Filter preset, options: ['none', 'minimal', 'default', 'strict'], default is 'default'lipinski (bool): Whether to apply Lipinski's rule of five filtering, default is Truemin_linker_atoms (int): Minimum number of atoms in the linker, default is 0max_linker_atoms (int): Maximum number of atoms in the linker, default is 0Return:status (str): success/errormsg (str): messagesave_smiles_file (str): Path to the saved SMILES fileoutput_smiles_list (List[str]): List of generated SMILES strings
How to use tool linkinvent_linker_sampling_by_warheads :
python
client = DrugSDAClient("https://scp.intern-ai.org.cn/api/v1/mcp/2/DrugSDA-Tool")if not await client.connect():print("connection failed")returnresponse = await client.session.call_tool("linkinvent_linker_sampling_by_warheads",arguments={"warheads": warheads,"n": n,"lipinski": True,"filter_preset": filter_type,"min_linker_atoms": min_linker_atoms,"max_linker_atoms": max_linker_atoms})result = client.parse_result(response)output_smiles_list = result["output_smiles_list"]await client.disconnect()