diff --git a/notebooks/run_agent_api_key_keyring.ipynb b/notebooks/run_agent_api_key_keyring.ipynb
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+{
+ "cells": [
+ {
+ "cell_type": "markdown",
+ "id": "ebf13cb8",
+ "metadata": {},
+ "source": [
+ "## Before running this notebook\n",
+ "\n",
+ "- Start Asyncroscopy MCP server + Tango devices \n",
+ " Repo: https://github.com/pycroscopy/asyncroscopy \n",
+ " Script: `scripts/run_mcp_and_devices.py`\n",
+ "\n",
+ "- Useful references \n",
+ " - `docs/Operation/tango_db_mode.md`\n",
+ " - `notebooks/9_MCP_Server_Tutorial.ipynb`\n",
+ "\n",
+ "- Keep a Gemini/HF/OPenrouter API key ready.\n",
+ "\n",
+ "---\n",
+ "\n",
+ "## Note from my setup On my MacBook\n",
+ "\n",
+ "I used `ThermoMicroscope` with the real microscope backend.\n",
+ "\n",
+ "Steps I followed:\n",
+ "\n",
+ "1. Followed `9_MCP_Server_Tutorial.ipynb`\n",
+ "2. Started Tango devices manually\n",
+ "3. Started MCP server:\n",
+ "\n",
+ "```bash\n",
+ "uv run scripts/start_mcp_server_cli.py\n",
+ "Enter Tango DB host [127.0.0.1]: localhost\n",
+ "Enter Tango DB port [9094]: 9094"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 1,
+ "id": "5ec55c30",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stderr",
+ "output_type": "stream",
+ "text": [
+ "/Users/utkarshpratiush/project/just-learning/Atomonous/.venv/lib/python3.12/site-packages/tqdm/auto.py:21: TqdmWarning: IProgress not found. Please update jupyter and ipywidgets. See https://ipywidgets.readthedocs.io/en/stable/user_install.html\n",
+ " from .autonotebook import tqdm as notebook_tqdm\n"
+ ]
+ }
+ ],
+ "source": [
+ "import os\n",
+ "import sys\n",
+ "\n",
+ "sys.path.insert(0, os.path.abspath(os.path.join(os.getcwd(), \"..\")))\n",
+ "\n",
+ "from atomonous import settings\n",
+ "\n",
+ "# Uncomment the line below if you want to specify the local model's download path.\n",
+ "# settings.hf_cache_dir = \"/lustre/isaac24/scratch/dpelaia/hf_cache/\""
+ ]
+ },
+ {
+ "cell_type": "markdown",
+ "id": "de2f5bd7",
+ "metadata": {},
+ "source": [
+ "## Save your Gemini API key securely\n",
+ "\n",
+ "We use `keyring` to store the Gemini API key securely, instead of hardcoding it in the notebook.\n",
+ "\n",
+ "Run this cell **once**:\n",
+ "\n",
+ "```python\n",
+ "import keyring\n",
+ "\n",
+ "keyring.set_password(\n",
+ " \"gemini\", # service name\n",
+ " \"utkarsh\", # key identifier / username\n",
+ " \"YOUR_API_KEY\"\n",
+ ")"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 2,
+ "id": "386e0e99",
+ "metadata": {},
+ "outputs": [],
+ "source": [
+ "# Below cell needs to be run just one and then comment it out\n",
+ "# import getpass\n",
+ "# import keyring\n",
+ "\n",
+ "# api_key = getpass.getpass(\"Enter Gemini API key: \")\n",
+ "\n",
+ "# keyring.set_password(\n",
+ "# \"openrouter\",\n",
+ "# \"utkarsh\",\n",
+ "# api_key\n",
+ "# )\n",
+ "\n",
+ "# print(\"API key saved successfully.\")"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 3,
+ "id": "6de0fad6",
+ "metadata": {},
+ "outputs": [],
+ "source": [
+ "import keyring\n",
+ "from atomonous.agent.core import Agent\n",
+ "\n",
+ "api_key = keyring.get_password(\n",
+ " \"openrouter\",\n",
+ " \"utkarsh\"\n",
+ ")\n"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 4,
+ "id": "e539f042",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stdout",
+ "output_type": "stream",
+ "text": [
+ "[SessionMemory] Created session: artifacts/2026-05-25_13-59-58\n"
+ ]
+ }
+ ],
+ "source": [
+ "agent = Agent.from_api_key(\n",
+ "model_id=\"openrouter/google/gemma-3-27b-it\",\n",
+ "api_base=\"https://openrouter.ai/api/v1\",\n",
+ "api_key=api_key\n",
+ ")"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 5,
+ "id": "08ea65ea",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stdout",
+ "output_type": "stream",
+ "text": [
+ "Available Agent Tools:\n",
+ "- symbolic_regression\n",
+ "- final_answer\n",
+ "- list_devices\n",
+ "- ThermoMicroscope_Connect\n",
+ "- ThermoMicroscope_Disconnect\n",
+ "- ThermoMicroscope_State\n",
+ "- ThermoMicroscope_Status\n",
+ "- ThermoMicroscope_auto_focus\n",
+ "- ThermoMicroscope_blank_beam\n",
+ "- ThermoMicroscope_get_camera_image\n",
+ "- ThermoMicroscope_get_fov\n",
+ "- ThermoMicroscope_get_image_data_cached\n",
+ "- ThermoMicroscope_get_images\n",
+ "- ThermoMicroscope_get_scanned_image\n",
+ "- ThermoMicroscope_get_screen_current\n",
+ "- ThermoMicroscope_get_spectrum\n",
+ "- ThermoMicroscope_get_stage\n",
+ "- ThermoMicroscope_move_stage\n",
+ "- ThermoMicroscope_place_beam\n",
+ "- ThermoMicroscope_place_beam_list\n",
+ "- ThermoMicroscope_set_fov\n",
+ "- ThermoMicroscope_set_image_shift\n",
+ "- ThermoMicroscope_set_screen_current\n",
+ "- ThermoMicroscope_unblank_beam\n",
+ "- SCAN_Activate\n",
+ "- SCAN_State\n",
+ "- SCAN_Status\n"
+ ]
+ }
+ ],
+ "source": [
+ "# Connect to the MCP client (by default, this connects settings.mcp_url over https)\n",
+ "agent.connect_mcp_client(\n",
+ " server_parameters={\n",
+ " \"url\": \"http://localhost:8000/mcp\",\n",
+ " \"transport\": \"streamable-http\"\n",
+ " }\n",
+ ")\n",
+ "\n",
+ "# Print the loaded tools\n",
+ "print(\"Available Agent Tools:\")\n",
+ "for tool in agent.tools:\n",
+ " print(f\"- {tool.name}\")"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 7,
+ "id": "8d0bfc7f",
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+ "data": {
+ "text/html": [
+ "╭──────────────────────────────────────────────────── New run ────────────────────────────────────────────────────╮\n",
+ "│ │\n",
+ "│ Take a new image use get_scanned_image() │\n",
+ "│ │\n",
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+ " ─ Executing parsed code: ──────────────────────────────────────────────────────────────────────────────────────── \n",
+ " image_data = ThermoMicroscope_get_scanned_image() \n",
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+ "[SessionMemory] Saved PIL image: /Users/utkarshpratiush/project/just-learning/Atomonous/notebooks/artifacts/2026-05-25_13-59-58/image_step_1_20260525_140048_427350.png\n"
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+ " ─ Executing parsed code: ──────────────────────────────────────────────────────────────────────────────────────── \n",
+ " final_answer(image_data) \n",
+ " ───────────────────────────────────────────────────────────────────────────────────────────────────────────────── \n",
+ "
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+ ],
+ "text/plain": [
+ " ─ \u001b[1mExecuting parsed code:\u001b[0m ──────────────────────────────────────────────────────────────────────────────────────── \n",
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+ " ───────────────────────────────────────────────────────────────────────────────────────────────────────────────── \n"
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+ "data": {
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+ "Final answer: <PIL.Image.Image image mode=L size=512x512 at 0x133655F40>\n",
+ "
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+ ],
+ "text/plain": [
+ "\u001b[1;38;2;212;183;2mFinal answer: \u001b[0m\n"
+ ]
+ },
+ "metadata": {},
+ "output_type": "display_data"
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+ "data": {
+ "text/html": [
+ "[Step 2: Duration 1.33 seconds| Input tokens: 0 | Output tokens: 0]\n",
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+ ]
+ },
+ "metadata": {},
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+ }
+ ],
+ "source": [
+ "# Ask the agent something\n",
+ "query = \"Take a new image use get_scanned_image()\"\n",
+ "# You do not need to print the result (though you can)\n",
+ "# Because smolagents automatically streams the run\n",
+ "response = agent.chat(query)"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": null,
+ "id": "20451f27",
+ "metadata": {},
+ "outputs": [],
+ "source": []
+ }
+ ],
+ "metadata": {
+ "kernelspec": {
+ "display_name": "microscopy-ai-agent-demo (3.12.9)",
+ "language": "python",
+ "name": "python3"
+ },
+ "language_info": {
+ "codemirror_mode": {
+ "name": "ipython",
+ "version": 3
+ },
+ "file_extension": ".py",
+ "mimetype": "text/x-python",
+ "name": "python",
+ "nbconvert_exporter": "python",
+ "pygments_lexer": "ipython3",
+ "version": "3.12.9"
+ }
+ },
+ "nbformat": 4,
+ "nbformat_minor": 5
+}
diff --git a/pyproject.toml b/pyproject.toml
index 2232886..e6f280e 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -26,6 +26,7 @@ dependencies = [
"h5py",
"torch",
"gplearn",
+ "keyring>=25.7.0",
]
[project.optional-dependencies]
diff --git a/uv.lock b/uv.lock
index 49ff69b..432c59a 100644
--- a/uv.lock
+++ b/uv.lock
@@ -590,6 +590,48 @@ wheels = [
{ url = "https://files.pythonhosted.org/packages/cb/b1/3846dd7f199d53cb17f49cba7e651e9ce294d8497c8c150530ed11865bb8/iniconfig-2.3.0-py3-none-any.whl", hash = "sha256:f631c04d2c48c52b84d0d0549c99ff3859c98df65b3101406327ecc7d53fbf12", size = 7484, upload-time = "2025-10-18T21:55:41.639Z" },
]
+[[package]]
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