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OpenHCS MCP Server

by openhcsdev Your server? Claim it
local only

OpenHCS runs on your own machine — the client starts it, so there is no endpoint to ping. 359 installs a week from pypi. Last commit 31 Oct 2026.

Inspect, author, validate, and run high-content microscopy workflows.

Installs per day peak 648 · avg 145 · -70% w/w
a month agotoday
359
Installs / week
pypi · openhcs
7
Stars
10 open issues
31 Oct 2026
Last commit
from GitHub
MIT
License
Python

What the code does

We read the source, 1 d ago · rules 995398eba69f

Capabilities

What this server is able to do. For an MCP server this is often the job itself — a terminal server runs commands because that is what it is for. Listed so you know what you are plugging in, not as an accusation.

Runs a command on install [пакет] package.json:1
setup.py: выполняет код при установке пакета
File ships in the package but is absent from the source [пакет] openhcs/formats/pattern/pattern_resolver.py:1, [пакет] openhcs/processing/backends/cellprofiler/object_measurement_columnar_rows.py:1, [пакет] openhcs/core/pipeline/step_snapshot.py:1 и ещё 114
этот файл ставится пользователю, но в репозитории его нет
Executes code built at runtime [пакет] openhcs/core/function_step_document.py:58, [пакет] openhcs/core/pipeline_document.py:80, [пакет] openhcs/ui/shared/plate_manager_code_document.py:168 и ещё 17
        exec(code, namespace)
Unsafe deserialization [пакет] openhcs/pyqt_gui/widgets/step_parameter_editor.py:149, [пакет] openhcs/omero/plugin/omero_openhcs/views.py:44, [пакет] openhcs/agent/services/viewer_window_service.py:1209 и ещё 11
                step_data = pickle.load(handle)
            let process = Process()
Builds a file path from a variable [пакет] openhcs/formats/pattern/pattern_discovery.py:93, [пакет] openhcs/microscopes/microscope_base.py:659, openhcs/formats/pattern/pattern_discovery.py:87 и ещё 1
            file_path = os.path.join(
                directory_path, pattern_str
            )  # Use os.path.join instead of /
Dumps the whole environment [пакет] openhcs/mcp/client_registration.py:87, openhcs/mcp/client_registration.py:121
            environ=dict(os.environ),

Is this your server and something here is wrong? Tell us — corrections are free and do not require a plan.

This code can reach further than it looks

We found places where it runs commands, builds paths or queries from values it is given. None of that is a flaw by itself — it becomes one when the code changes, and code changes quietly between releases. We re-read it on every one.

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Connect this server

This server runs on your own machine — install it with the package manager and the client starts it for you. Package name taken from the official registry entry.

run in your terminal
claude mcp add openhcs -- uvx openhcs
~/Library/Application Support/Claude/claude_desktop_config.json
{
  "mcpServers": {
    "openhcs": {
      "command": "uvx",
      "args": [
        "openhcs"
      ]
    }
  }
}
~/.codex/config.toml
[mcp_servers.openhcs]
command = "uvx"
args = ["openhcs"]
.cursor/mcp.json
{
  "mcpServers": {
    "openhcs": {
      "command": "uvx",
      "args": [
        "openhcs"
      ]
    }
  }
}
.vscode/mcp.json
{
  "servers": {
    "openhcs": {
      "type": "stdio",
      "command": "uvx",
      "args": [
        "openhcs"
      ]
    }
  }
}

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OpenHCS — questions

Answers built from our own checks of this server.

Why is there no uptime for OpenHCS?
OpenHCS runs on your own machine over stdio — there is no network address to reach, so uptime cannot be measured for it by anyone. What can be measured is adoption: the pypi package openhcs was installed 359 times last week.
How do I connect OpenHCS?
Copy the ready config from this page. We generate it for Claude Code, Claude Desktop, Codex, Cursor and VS Code, each in the form that client actually reads. It runs locally, so the command pulls openhcs straight from pypi; nothing to host, nothing to sign up for.
How many people use OpenHCS?
The pypi package openhcs was installed 359 times in the last week. Week over week that is -70%. We show installs rather than GitHub stars on purpose: a star is a bookmark, an install is someone actually running it.
Is OpenHCS open source?
Yes — it is published under the MIT licence, written in Python, 7 stars on GitHub and 10 open issues. The source link is on this page, so you can read exactly what it does with your data before you connect it.