seqera

name

seqera

description

Seqera is a workflow orchestration and data operations platform for scientific computing that provides tools for running, monitoring, and scaling bioinformatics and other data-intensive pipelines, allowing research and engineering teams to manage reproducible workflows across cloud, on-premises, and hybrid infrastructure. Read and write Seqera data through One: datasets, datalinks, pipelines, actions, studios, credentials and more, 229 actions with real parameter documentation. Use whenever the user asks to look something up in Seqera, create or update a record there, or build code against the Seqera API.

Seqera through One

Seqera is a workflow orchestration and data operations platform for scientific computing that provides tools for running, monitoring, and scaling bioinformatics and other data-intensive pipelines, allowing research and engineering teams to manage reproducible workflows across cloud, on-premises, and hybrid infrastructure.

One exposes Seqera through four MCP tools. The table below carries real action ids from One's knowledge base, so for a common operation you can skip search and go straight to reading the action's parameters.

How to run an action

1. Find the action in the table below, or call search_one_platform_actions with platform seqera if it is not listed.
2. Call get_one_action_knowledge with the action id. Do this every time, including for actions in this table. The table gives you the id, not the parameters.
3. Call execute_one_action with parameters copied from that knowledge.

Never guess a parameter name, a body field, or an enum value. The knowledge has the real schema, and a guessed field is either a 400 or a silent write of the wrong thing.

Before you start

Call list_one_integrations once and confirm Seqera is connected. If it is missing, the user has not connected it: say so and point them at https://app.withone.ai rather than reaching for raw HTTP.

Each connection carries an access field. If it reports {"policy": "methods", "methods": ["GET"]} the agent is read-only here, so plan a read-only answer instead of attempting a write that will be refused.

Before a write

Creates, updates, deletes and sends land on a real Seqera account and cannot be recalled. State the action and the specific target in one line before the first write in a task, and let the user stop you. Reads need no confirmation.

Actions

Datasets

Action	Method	Path	Action id
Describe a Dataset's Metadata	GET	/datasets/{{datasetId}}/metadata	conn_mod_def::GK0x7vxrwoA::QOqSZxXBQNiubFIEpBiVlA
Describe a Workspace Dataset's Metadata	GET	/workspaces/{{workspaceId}}/datasets/{{datasetId}}/metadata	conn_mod_def::GK0x7wNNzIg::0N9qYajtTUCPla8zfIUvbw
Download Dataset Content for a Dataset Version	GET	/datasets/{{datasetId}}/v/{{version}}/n/{{fileName}}	conn_mod_def::GK0x7wrEPsA::XdutrdULTu6Yl3NwZxNn3Q
List a Workspace's Available Datasets	GET	/workspaces/{{workspaceId}}/datasets	conn_mod_def::GK0x74clN9A::L5iqh1onS42sJdMkeaF6Og
List Datasets	GET	/datasets	conn_mod_def::GK0x8DCJUsA::oAzS_kxpS2i78Yfw1Ey-ZQ
Preview a Dataset Version's Linked Content	GET	/datasets/{{datasetId}}/v/{{version}}/preview	conn_mod_def::GK0x8Cs8rfg::6PitymkKTO6Weg3av5AKvQ
Add Labels to Datasets	POST	/datasets/labels/add	conn_mod_def::GK0x8-qoSEg::OdhDojZUR-yNXqv6chlvug
Create a Workspace Dataset	POST	/workspaces/{{workspaceId}}/datasets	conn_mod_def::GK0x7nVscug::CGhi7WlQTle8TwRxsuEMPg
Create Dataset	POST	/datasets	conn_mod_def::GK0x7nVjP3A::i2u2CDkmSoi_yEMzBkPveA
Delete a Workspace's Dataset	DELETE	/workspaces/{{workspaceId}}/datasets/{{datasetId}}	conn_mod_def::GK0x7l-lHcA::rYIu9tXqS4-yqd4BYCNlwQ
Delete Dataset	DELETE	/datasets/{{datasetId}}	conn_mod_def::GK0x7lyzKgg::GFDvbgmMTfehaMi-LYz3yA

11 more Datasets actions are available through search.

DataLinks

Action	Method	Path	Action id
Describe a Data-Link	GET	/data-links/{{dataLinkId}}	conn_mod_def::GK0x7IUXkPg::xBBHTdQsToef5TY1KSfguw
Download a Data-Link File at Path	GET	/data-links/{{dataLinkId}}/download/{{filePath}}	conn_mod_def::GK0x7GnrIVA::gTPsuwq4RhmSmB1XJasAxQ
Explore a Data-link Path	GET	/data-links/{{dataLinkId}}/browse/{{path}}	conn_mod_def::GK0x7S3tTpg::qSfaGlJsTQuMN-U0mZ0fTw
Explore a Data-Link Tree	GET	/data-links/{{dataLinkId}}/browse-tree	conn_mod_def::GK0x7HDHIHg::qW8BHN4HT92OOslSxslTng
Explore a Data-Link's Contents	GET	/data-links/{{dataLinkId}}/browse	conn_mod_def::GK0x7IM79xA::gtbWIYJ6QQqlNsv0lLzjfA
Generate a Data-Link File Download URL	GET	/data-links/{{dataLinkId}}/generate-download-url	conn_mod_def::GK0x7T4xGEg::oIJojuIXQZSMzXsAFaMjIg
Generate Download Script for a Data-Link	GET	/data-links/{{dataLinkId}}/script/download	conn_mod_def::GK0x7eMbERA::CkWzT7mBTZGs9MMA643VpA
List Data-Links	GET	/data-links	conn_mod_def::GK0x7ctbnTg::LdxA7GJqRgOOZ1ehCNAJrQ
List Mounted Data-Links	GET	/studios/data-links	conn_mod_def::GK0x_bepeTA::7QjvTOxhTBaiiGY66n3icA
Create Data-Link	POST	/data-links	conn_mod_def::GK0x68OLFtA::CuISd6qaRnetTMfMR7JIdA
Delete a Data-Link	DELETE	/data-links/{{dataLinkId}}	conn_mod_def::GK0x68N6Omg::lzyu7kY1T1SiPJmVJrw4ZA
Finish a Data-Link File Upload	POST

4 more DataLinks actions are available through search.

Pipelines

Action	Method	Path	Action id
Describe a Pipeline	GET	/pipelines/{{pipelineId}}	conn_mod_def::GK0x-a4-zRg::teFaZjg9S-iyHMlHH7YbAQ
Describe a Pipeline Launch	GET	/pipelines/{{pipelineId}}/launch	conn_mod_def::GK0x-bLy22A::modrMErYQ4en9lIr10H2ZA
Describe a Remote Pipeline Repository	GET	/pipelines/info	conn_mod_def::GK0x-dJSlHg::whDoyX27RX63m1xGk_DEFA
List Pipeline Repositories	GET	/pipelines/repositories	conn_mod_def::GK0x-lRCRGA::Gk67pZMvQ9a5y6Q2eVOFcQ
List Pipelines	GET	/pipelines	conn_mod_def::GK0x-ofnPrA::tiG8GeRISLS5fGUgGHBfBQ
Validate Pipeline Name	GET	/pipelines/validate	conn_mod_def::GK0x-l9ElKg::HPacakiFQG67hFgXryj-2Q
Add Labels to Pipelines	POST	/pipelines/labels/add	conn_mod_def::GK0x86dm68A::Uu7XcPu2QuSGhsc0RYs6og
Create Pipeline	POST	/pipelines	conn_mod_def::GK0x-RNeSZA::js3F-qylSl6CdZG_sgDxwg
Delete Pipeline	DELETE	/pipelines/{{pipelineId}}	conn_mod_def::GK0x-az-Zag::5gxT62UrQq2sVnW6rSsGwg
Remove Labels From Pipelines	POST	/pipelines/labels/remove	conn_mod_def::GK0x9RYivZA::5n8TBVuPRUmASZM-GSfYyw
Replace Pipeline Labels	POST	/pipelines/labels/apply	conn_mod_def::GK0x9ZnHvpg::rV9g7eBRRSeTVXVHVGK97A
Update a Pipeline	PUT	/pipelines/{{pipelineId}}	conn_mod_def::GK0x-l9P05A::LIqT4X8pRZqpVYXLmh8n_g

1 more Pipelines actions are available through search.

Actions

Action	Method	Path	Action id
Describe an Action	GET	/actions/{{actionId}}	conn_mod_def::GK0x6J4d9Ng::Iu-OJPM_Qz-wUe6gNdrbvw
List Actions	GET	/actions	conn_mod_def::GK0x6It-i9A::Qnv0xm16QXu_Cv2gUWuUfQ
Validate Action Name	GET	/actions/validate	conn_mod_def::GK0x6TyQeMA::17HT4yNCQ3qIXsjJpsuiGA
Add Labels to Actions	POST	/actions/labels/add	conn_mod_def::GK0x86xReyg::UXtucsBTTniiVnrcZj4W_g
Apply Labels to Actions	POST	/actions/labels/apply	conn_mod_def::GK0x9QX-46g::NgR_33EYQjaJORMnmn1NYw
Create Action	POST	/actions	conn_mod_def::GK0x6KMgxzA::HoqXdCLwRaOrIJtFrdO39g
Delete an Action	DELETE	/actions/{{actionId}}	conn_mod_def::GK0x6LaHJdA::qfrCwRAlSfC2k2ArzRLADQ
Pause or Resume an Action	POST	/actions/{{actionId}}/pause	conn_mod_def::GK0x6Tymw8g::g4mZXd4_SlOZYAnkCkOUyA
Remove Labels From Actions	POST	/actions/labels/remove	conn_mod_def::GK0x9HfPK4g::ODXXv3M1StyTvpELWabB2Q
Update an Action	PUT	/actions/{{actionId}}	conn_mod_def::GK0x6T89WOA::hczhIgqSTnyrK1pJXU5__A

Studios

Action	Method	Path	Action id
Describe a Studio Session	GET	/studios/{{sessionId}}	conn_mod_def::GK0x_Rku8oA::ezPUwzQoTke5tkmCn9dn8w
List Studios	GET	/studios	conn_mod_def::GK0x_aPeFzA::HE_QapxQS1y5z9lnwyh2dQ
Validate a Studio Name	GET	/studios/validate	conn_mod_def::GK0x_pqH7yA::JkW3iV6lQm6rBvvgq-znTw
Create Studio	POST	/studios	conn_mod_def::GK0x_RkzR-A::GqLx6o83SVeHbQiWSCfhRw
Delete a Studio by Session ID	DELETE	/studios/{{sessionId}}	conn_mod_def::GK0x_QA6dWA::P2OeJq-OTXqvn-LqefyOVg
Extend a Studio Session's Lifespan	POST	/studios/{{sessionId}}/lifespan	conn_mod_def::GK0x_Rk2Ocg::od7A0xTGR9-qOtL7ZnIMXA
Start a Studio Session	PUT	/studios/{{sessionId}}/start	conn_mod_def::GK0x_pjqa8A::DTlQpgQiQSaI8c1uUooNQg
Stop a Studio Session	PUT	/studios/{{sessionId}}/stop	conn_mod_def::GK0x_qVROcA::1q91YERxR12cFZYLAdcCGA
Update a Studio	PUT	/studios/{{sessionId}}	conn_mod_def::GK0x_pjoEjA::pmPiER6RRxGhcAkJL-2TMQ

Credentials

Action	Method	Path	Action id
Describe Credentials	GET	/credentials/{{credentialsId}}	conn_mod_def::GK0x6zeUSzg::b2yto7raT0eQVSjWhNkjyg
Get Encrypted Credentials	GET	/credentials/{{credentialsId}}/keys	conn_mod_def::GK0x60LnX0g::hLQD8kXXQ9W3XdzbRprd7A
List Credentials	GET	/credentials	conn_mod_def::GK0x67zgDtA::3N7g4tfzRz6SfhNaLBB8KA
Validate Credential Name	GET	/credentials/validate	conn_mod_def::GK0x69voLiA::lFcZp9rWSQWGhfgmV2qcNg
Create Credentials	POST	/credentials	conn_mod_def::GK0x60M8UWA::n9y4_iVFQNGqNcEtl5GR4w
Delete Credentials	DELETE	/credentials/{{credentialsId}}	conn_mod_def::GK0x60RS2hA::u9dh8jzWTIyp0XyRAF3xwg
Update Credentials	PUT	/credentials/{{credentialsId}}	conn_mod_def::GK0x68dcHAA::2YmIQ9YMSMqmY5mt-XWZ3A

Organizations

Action	Method	Path	Action id
Describe an Organization	GET	/orgs/{{orgId}}	conn_mod_def::GK0x9jng-Vg::8owiYstXRgmcAAtp6q9cmw
List Organizations	GET	/orgs	conn_mod_def::GK0x9uL7dKA::33nG5kwjSmGV5-FjZ3hGUA
Validate Organization Name	GET	/orgs/validate	conn_mod_def::GK0x94U8hOg::19kA8abASiOVv8CFPXytpg
Create Organization	POST	/orgs	conn_mod_def::GK0x9i6d5vA::nKRn4UhyRtC1zCz7gSOhvg
Delete Organization	DELETE	/orgs/{{orgId}}	conn_mod_def::GK0x9h0bMLg::APqYRZk_RH-p6nsWs-A73g
Leave an Organization	DELETE	/orgs/{{orgId}}/members/leave	conn_mod_def::GK0x9uHW6gA::fiyRWbcVSy2aekYin0pDrA
Update an Organization	PUT	/orgs/{{orgId}}	conn_mod_def::GK0x937dHEg::rBc38OzpR7WxQtfsS2XWDg

Workspaces

Action	Method	Path	Action id
Describe a Workspace	GET	/orgs/{{orgId}}/workspaces/{{workspaceId}}	conn_mod_def::GK0yBOkjVdg::3PSDAZweQEu70inor7UW8A
List a Team's Workspaces	GET	/orgs/{{orgId}}/teams/{{teamId}}/workspaces	conn_mod_def::GK0yAAccDpA::JbjvCyZPTw6Mi33heppUwA
List an Organization's Workspaces	GET	/orgs/{{orgId}}/workspaces	conn_mod_def::GK0yBYM4ioA::5EwAXGAHSEeColCP8La5Rg
Validate a Workspace Name	GET	/orgs/{{orgId}}/workspaces/validate	conn_mod_def::GK0yBipqshA::2fKLS0FrSLWPeRrXok-KiA
Create an Organization Workspace	POST	/orgs/{{orgId}}/workspaces	conn_mod_def::GK0yBHaYCDg::Xqfk0wqCSb-ifoIgIsrkhQ
Delete a Workspace in an Organization	DELETE	/orgs/{{orgId}}/workspaces/{{workspaceId}}	conn_mod_def::GK0yBQf6zCA::20BC4geKQGS5xFxwg1KLAg
Update a Workspace	PUT	/orgs/{{orgId}}/workspaces/{{workspaceId}}	conn_mod_def::GK0yBhVNc-A::QqBYBVf0Q7-PfDoIdGOpcA

Workflow

Action	Method	Path	Action id
Describe a Workflow	GET	/workflow/{{workflowId}}	conn_mod_def::GK0yAngrnvA::caZXsCKpT2WupwByokydvA
Generate a Random Workflow Name	GET	/workflow/random-name	conn_mod_def::GK0yAwBKSQg::9wkgZoN0RVuMMjubuMN4Qw
Cancel Workflow	POST	/workflow/{{workflowId}}/cancel	conn_mod_def::GK0yAenGAfA::QcTFUonHQ4yW__wosnVctg
Delete a Workflow	DELETE	/workflow/{{workflowId}}	conn_mod_def::GK0yAmnF6-A::bl1dwofARxykeMEgtCL3rA
Launch Workflow	POST	/workflow/launch	conn_mod_def::GK0yA76R4QA::kpHOBJ1WQtuYOfIvT8wbBA
Star a Workflow	POST	/workflow/{{workflowId}}/star	conn_mod_def::GK0yBGiqqdg::siryUoQMQwuXGh-K1D5GVA
Unstar a Workflow	DELETE	/workflow/{{workflowId}}/star	conn_mod_def::GK0yBGq8GQA::0y4k2dBXRgupRgqs74wFIQ

Workflows

Action	Method	Path	Action id
Download a Workflow's Files	GET	/workflow/{{workflowId}}/download	conn_mod_def::GK0yAwliPhA::K8JZhkozRqqTwbCH2E8lMg
List Workflows	GET	/workflow	conn_mod_def::GK0yA907VfA::Il1Quk16QOO-Ldl67gC4hg
Add Labels to Workflows	POST	/workflow/labels/add	conn_mod_def::GK0x85YA0cA::1eNvO9smTsm2Qv_-Y04UYQ
Delete Workflows	POST	/workflow/delete	conn_mod_def::GK0yAnRSzag::QV9RumCkRbidcrNeU8bTIw
Remove Labels From Workflows	POST	/workflow/labels/remove	conn_mod_def::GK0x9RZBRfg::7-1tuvfwQqyqNQM9gy6_Hg
Replace Workflow Labels	POST	/workflow/labels/apply	conn_mod_def::GK0x9aTpfcA::DuAL1KXqQBCxqGrtZEhFoA

Roles

Action	Method	Path	Action id
Describe a Role by Name	GET	/roles/{{roleName}}	conn_mod_def::GK0x-wt-2gg::r3WZnH24R-6MrXbU48Eazw

5 more Roles actions are available through search.

This lists 90 of 229 actions. For anything not here, call search_one_platform_actions with platform seqera. The full catalog is at https://www.withone.ai/knowledge/seqera.

When a call fails

The error comes from Seqera, not from One. A 400 or 422 means your parameters do not match the schema, so re-read the knowledge and fix the field. A 401 or 403 means the connection needs re-authorizing, which no retry will fix. A 404 means the id is not on this account. A 429 means slow down. Never retry a write more than once: the first attempt may have landed.

Full catalog: https://www.withone.ai/knowledge/seqera

Integration knowledge by One (withone.ai), licensed under One-Knowledge-1.0. Attribution must be preserved in derivative works.