From fbabaa3c80d421a572295f076a1c596476ee8f46 Mon Sep 17 00:00:00 2001
From: skeleton2024 <azariastyon@gmail.com>
Date: Tue, 4 Aug 2026 23:07:06 +0800
Subject: [PATCH] Add SciChemAgent-C1 community agent

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 agentdir/SciChemAgent-C1/README.md | 56 ++++++++++++++++++++++++++++++
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+# SciChemAgent-C1
+
+**Category:** Chemistry / Drug Discovery
+
+**Repository:** https://github.com/skeleton2024/SciChemAgent-C1
+
+## Overview
+
+SciChemAgent-C1 is a deterministic, offline RDKit baseline for all 18
+SciAgentArena Chemical Data Preprocessing (C1) tasks. It implements molecular
+standardization and descriptors, exact mass, strict indole matching, Morgan
+similarity ranking, XYZ-to-SMILES reconstruction, disease-target resolution,
+and physiological formal-charge assignment.
+
+The agent reads the public batch payload from `AGENT4S_INPUT_JSON`, prints the
+task-specific JSON schema to stdout, and makes no network or hosted-LLM calls
+during evaluation. The repository includes pinned dependencies, an index-driven
+18-task runner, aggregate results, and an independent result verifier.
+
+## Requirements
+
+- Python 3.12
+- RDKit 2026.3.5
+- SciAgentArena commit `c413f660304bf5def1c54a23619267e3ee2ef6ad`
+
+## Installation and evaluation
+
+```powershell
+git clone https://github.com/skeleton2024/SciChemAgent-C1.git
+cd SciChemAgent-C1
+python -m venv .venv
+.\.venv\Scripts\python.exe -m pip install -r requirements-c1.txt
+```
+
+Follow the repository README to obtain the pinned SciAgentArena checkout and
+apply its documented exact-MW scorer compatibility patch, then run:
+
+```powershell
+.\.venv\Scripts\python.exe scripts\run_c1.py
+.\.venv\Scripts\python.exe scripts\verify_results.py
+```
+
+## Reproduced C1 result
+
+| Metric | Result |
+|---|---:|
+| Tasks accounted for | 18/18 |
+| Mean executability | 1.0000 |
+| Mean validity | 1.0000 |
+| Mean correctness | 0.9244444444 |
+| Full-correctness tasks | 15/18 |
+
+This is a community-submitted result, not an official leaderboard result until
+the maintainers reproduce and accept it. The repository also documents one
+scientific-consistency discrepancy in the pinned acetic-acid formal-charge
+ground truth rather than hard-coding the conflicting value.