• BCO App User Manual
  • Welcome to the BCO App
  • 1 Introduction
  • 2 BioCompute Objects
    • 2.1 BCO App Overview
    • 2.2 Menu Options
    • 2.3 Installing and Accessing the BCO App
      • 2.3.1 Containerized app
      • 2.3.2 Cancer Genomics Cloud hosted app
    • 2.4 Getting Started with the BCO App
      • 2.4.1 Login Page (Deployment Specific)
      • 2.4.2 Landing Page
    • 2.5 Generating BioCompute Objects with BCO App
      • 2.5.1 Platform Composer
      • 2.5.2 Step 1 - Import the Target CWL App
      • 2.5.3 Step 2 - Provenance, Usability, and Extension Domains
      • 2.5.4 Step 3 - Execution and Parametric Domains
      • 2.5.5 Step 4 - Description Domain
      • 2.5.6 Step 5 - I/O and Error Domain
      • 2.5.7 Step 6 - Review and Export
    • 2.6 BioCompute Object Utilities
      • 2.6.1 BioCompute Object (BCO) Validator
      • 2.6.2 Interactive BCO Browser
  • Appendix I : Platform Authentication Guide
    • Authentication Token
    • Locate Authentication Token
  • Appendix II: BioCompute Object Domains
    • Top Level Field
    • Provenance Domain
    • Usability Domain
    • Extension Domain
    • Description Domain
    • Execution Domain
    • Parametric Domain
    • Input Output Domain
    • Error Domain
  • © 2020 Seven Bridges

BioCompute Object App User Manual

2.2 Menu Options

The following menu options are available from the BCO App:

Menu Entry Description
Home App landing page with links to generators and help screen
Generators Tools for generating BCO JSON Files, generating a BCO PDF, and publishing BCO to a GitHub page
Text Composer Interface allows users to interactively enter text into BCO fields. The composer steps the user through completing each of the BCO domains.
CWL Composer Interface allows a user to select a CWL file from their local machine to pre-populate the BCO fields with workflow related fields. Once loaded, the interface is identical to the Text Composer.
Platform Composer Interface allows a user to select a CWL Workflow or Task on the Cancer Genomics Cloud to pre-populate the BCO fields with workflow/task related fields. Once loaded, the interface is identical to the Text Composer
Utilities Tools that support BCO use.
Browser The browser facilitates interactive review of a BCO JSON file
Validator The validator allows a user to compare a BCO JSON file to the BCO specification.
Standard The Standard feature provides an interface to review the BCO field definitions by domain.
Help Brief description of Menu items