How to connect Seqera to Hermes Agent
Connect Seqera to Hermes with ClawLink: paste your Seqera key once and 14 tools work from chat. No MCP server to run, nothing stored on your machine.
SeqeraAPI KEYMCPSeqera Platform is an intuitive, centralized command post that enables data analysis at scale, allowing users to launch, manage, and monitor scalable Nextflow pipelines and compute environments on-premises or across cloud providers.. Once connected, Hermes Agent can read and act on Seqera from chat — pairing, token refresh, and tool wiring handled for you.
Most guides for giving Hermes Agent Seqera access start with registering your own OAuth app or pasting API keys into env files, then leave the token refresh and tool wiring to you. ClawLink gives Hermes a more practical Seqera setup: pair once in the browser and your always-on Hermes agent can act on Seqera for you, reading and doing real work on your behalf with no auth, token refresh, or tool wiring to build yourself.
Setup
It takes three steps to connect Hermes to Seqera.
1Install and pair
Install the ClawLink plugin, then pair Hermes with a one-time browser approval:
hermes plugins install ClawLink-HQ/hermes-plugin --enable- 2
Connect Seqera
Paste your API key in the dashboard.
- 3
Use it from chat
Ask Hermes Agent: "What can you do with Seqera?"
Install by command
The prompt above walks Hermes through this. By hand, it is four commands and a browser approval:
hermes plugins install ClawLink-HQ/hermes-plugin --enable
hermes clawlink begin # prints an approval link — open it and approve
hermes clawlink finish # after approving in the browser
hermes clawlink testThen connect Seqera in the ClawLink dashboard — paste your Seqera API key once.
Verify the connection by asking Hermes:
Pull the relevant data from Seqera, summarize it in plain English, and point out anything that needs attention.
Using a different agent?
The Hermes plugin is one client of ClawLink's MCP server. Claude Code, Cursor, Codex, or any agent that can run a shell command pairs with the same ClawLink account through the CLI:
npx -y @useclawlink/cli loginlogin opens the same browser approval and stores a credential locally. Once Seqera is connected in the dashboard, that agent calls the same 14 Seqera tools over MCP. Full setup for MCP clients and shell agents: connect apps to any AI agent.
Seqera MCP for Hermes
Looking for a Seqera MCP server for Hermes Agent? ClawLink connects Seqera to Hermes Agent and exposes 14 Seqera tools your agent can call over MCP, with hosted auth and nothing to run or maintain yourself. Using OpenClaw instead? The OpenClaw Seqera integration works the same way.
What the Hermes Agent Seqera integration can do
14 Seqera tools are ready for Hermes Agent once the account is connected.
All 14 Seqera tools for Hermes
| Tool | What it does |
|---|---|
Get organization details seqera_get_organization_details | Retrieve detailed information about a specific organization |
Get service info seqera_get_service_info | Retrieve information about the Seqera API service |
Get user info seqera_get_user_info | Retrieve information about the authenticated user |
Get wave build logs seqera_get_wave_build_logs | Get logs for a container build by build ID |
Get wave build status seqera_get_wave_build_status | Retrieve the status of a Wave container build by build ID |
Inspect wave container seqera_inspect_wave_container | Inspect container image metadata via Wave |
List action event types seqera_list_action_event_types | List supported action event types |
List compute environments seqera_list_compute_environments | Retrieve a list of compute environments |
List organizations seqera_list_organizations | List all organizations |
List pipelines seqera_list_pipelines | List all pipelines accessible to the authenticated user |
List workflows seqera_list_workflows | List workflows |
Validate action name seqera_validate_action_name | Validate action name |
Validate pipeline name seqera_validate_pipeline_name | Validate a pipeline name |
Create wave container seqera_create_wave_container | Submit a request to Wave for accessing a private container registry or building a container |
Try it: find the Seqera tool you need
Browse the 14 Seqera tools
Click any tool to see exactly what Hermes can do and copy a ready-to-use prompt.
Example prompts
Pull the relevant data from Seqera, summarize it in plain English, and point out anything that needs attention.
Pull the relevant data from Seqera, summarize it in plain English, and point out anything that needs attention.
Pull the relevant data from Seqera, summarize it in plain English, and point out anything that needs attention.
Pull the relevant data from Seqera, summarize it in plain English, and point out anything that needs attention.
ClawLink vs. building it yourself
The alternative to ClawLink is usually manual API key setup plus your own token handling, permission troubleshooting, and tool plumbing for Hermes Agent. That is fine if you want to build and maintain the integration yourself. Most teams just want Seqera working from chat.
| Manual | ClawLink | |
|---|---|---|
| Credential handling | Collect, validate, store, and rotate the Seqera API key yourself, then make sure every tool call uses the right account. | Users complete the hosted ClawLink setup once and the connected Seqera account becomes available to the agent without you building credential management. |
| Ongoing maintenance | You own refresh logic, permission debugging, environment config, and every provider-specific edge case for Seqera. | ClawLink handles the repetitive integration plumbing so your team can focus on the workflow instead of the infrastructure. |
| Agent usability | You still need to expose the right Seqera actions to the runtime in a format your agent can reliably use. | 14 tools for Seqera are already exposed through ClawLink, so the agent can read and act from chat immediately. |
ClawLink vs. Composio
Composio also exposes Seqera to AI agents. It is developer infrastructure: Python and TypeScript SDKs, an MCP server, and a catalog past 1,000 apps, aimed at teams shipping agent products. ClawLink is built for Hermes Agent users instead. You install the plugin once, connect Seqera in the browser, and the 14 tools above work from chat. There is no SDK and no config file, and the Seqera key you paste at setup is stored server-side rather than kept in your environment. Choosing between them? Read the full Composio alternatives comparison.
Troubleshooting
Hermes paired but still can't use Seqera
Pairing is a two-step handshake: run hermes clawlink begin, approve the link in your browser, then run hermes clawlink finish. If you ran finish before approving, or the approval link expired, run hermes clawlink begin again to get a fresh link. Confirm the plugin was installed with --enable, then verify with hermes clawlink test.
Connection succeeds but no tools appear
Reconnect Seqera from the dashboard, then start a fresh chat if the runtime still has the old tool catalog loaded.
"Tool schema not loaded yet" error when calling Seqera tools
Seqera tool schemas load on demand the first time a tool runs and are cached after that, so this error usually clears on its own: wait a few seconds and retry the same request. If every Seqera call keeps failing with it in a fresh chat, reconnect from the dashboard, and contact support if it still persists — that pattern points to a configuration problem on our side, not something you can fix by reconnecting again.
Seqera returns 403 or "permission denied" on one action while others work
Two usual causes. The connected account may not have access to the specific workspace, inbox, store, or project in the request — check that first. If access looks right, the agent may have sent a placeholder value (like "YOUR_ID" or an example id from documentation) instead of a real one: ask it to run a list or search tool first, then retry the action with a real id from those results. Most failures at this stage are one of these two, not ClawLink bugs.
API key setup works but results look incomplete
Double-check that the API key for Seqera has the right scopes or account access. A valid key can still be too limited for some reads or writes.
FAQ
Is there a Hermes Agent Seqera integration?
Yes. ClawLink is the fastest way to connect Hermes to Seqera: link your Seqera account once in the browser and Hermes Agent can call the Seqera API through 14 ready-made tools — no custom code or token handling.
How do I connect Seqera to Hermes with ClawLink?
Install the plugin with hermes plugins install ClawLink-HQ/hermes-plugin --enable, then pair once: run hermes clawlink begin, approve the link in your browser, and run hermes clawlink finish. Connect Seqera in the dashboard and Hermes can use it from the next message — no config files, and the Seqera key you paste is stored server-side instead of in your environment.
How long does it take to connect Seqera to Hermes Agent?
About two minutes. Sign in, click Connect next to Seqera in the dashboard, authenticate, and Hermes Agent can use it from the next chat message.
Why use ClawLink instead of wiring Seqera up myself?
The alternative to ClawLink is usually manual API key setup plus your own token handling, permission troubleshooting, and tool plumbing for Hermes Agent. That is fine if you want to build and maintain the integration yourself. Most teams just want Seqera working from chat.
Hermes paired but still can't use Seqera
Pairing is a two-step handshake: run hermes clawlink begin, approve the link in your browser, then run hermes clawlink finish. If you ran finish before approving, or the approval link expired, run hermes clawlink begin again to get a fresh link. Confirm the plugin was installed with --enable, then verify with hermes clawlink test.
