Arvados™ Docs
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  1. Welcome
    1. Welcome to Arvados™!
    2. Arvados Community and Getting Help
  2. Run a workflow using Workbench
    1. Accessing Arvados Workbench
    2. Running a workflow using Workbench
    3. Create a Workflow with Composer
  3. Access an Arvados virtual machine
    1. Accessing an Arvados VM with Webshell
    2. Accessing an Arvados VM with SSH - Unix Environments
    3. Accessing an Arvados VM with SSH - Windows Environments
    4. Checking your environment
    5. Getting an API token
  4. Working with data sets
    1. Uploading data
    2. Downloading data
    3. Accessing Keep from GNU/Linux
    4. Accessing Keep from OS X
    5. Accessing Keep from Windows
    6. How Keep works
    7. Keep collection lifecycle
    8. Using arv-copy
    9. Using storage classes
    10. Using collection versioning
  5. Running workflows at the command line
    1. Running an Arvados workflow
    2. Using arvados-cwl-runner
  6. Working with git repositories
    1. Adding a new Arvados git repository
    2. Working with an Arvados git repository
  7. Develop an Arvados workflow
    1. Introduction to Crunch
    2. Writing a CWL workflow
    3. Federated Multi-Cluster Workflows
    4. Best Practices for writing CWL
    5. Arvados CWL Extensions
    6. Customizing Crunch environment using Docker
  8. Reference
    1. Linking alternate login accounts
    2. Arvados SDK Examples
  9. Arvados License
    1. Arvados Free Software Licenses
    2. GNU Affero General Public License
    3. Apache License
    4. Creative Commons
  10. Obsolete documentation
    1. Running an Arvados pipeline
    2. Using arv-run
    3. Writing a pipeline template
    4. Tools for writing Crunch pipelines
    5. Writing a Crunch script
    6. Running on an Arvados cluster
    7. Concurrent Crunch tasks
    8. run-command reference
    9. Pipeline template reference
    10. Scripts provided by Arvados
    11. Querying the Metadata Database

Pipeline template reference

Note:

Arvados pipeline templates are deprecated. The recommended way to develop new workflows for Arvados is using the Common Workflow Language.

Pipeline template options are described on the pipeline template schema page.

Previous: run-command reference Next: Scripts provided by Arvados

The content of this documentation is licensed under the Creative Commons Attribution-Share Alike 3.0 United States licence.
Code samples in this documentation are licensed under the Apache License, Version 2.0.