pbcommand 1.7.0
  • Site
      • Common Commandline Interface
      • Advanced Task/ToolContract Types
      • SMRT Service commandline interface
      • Report Models
      • Report Specs
      • pbcommand API docs
      • Cookbook SMRT Link Webservices using pbcommand
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      • pbcommand
  • Common Comman... »
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pbcommandΒΆ

Contents:

  • Common Commandline Interface
    • Motivation And High Level Example
    • Benefits
    • Terms
    • Hello World Dev Example
    • Details of Tool Contract
    • Programmatically defining a Parser to Emit a Tool Contract
    • Details and Example of a Resolved Tool Contract
    • Testing Tool Contracts
    • Tips
  • Advanced Task/ToolContract Types
    • Scattering/Chunking Tool Contract
    • PipelineChunk Data Model
    • Defining a Scatter Tool Contract
    • Advanced Scattering/Chunking Patterns
    • Gather ToolContract
  • SMRT Service commandline interface
    • Client Layer
    • Commandline Tool Interface to Services
  • Report Models
    • Report
    • Attribute
    • Table
    • PlotGroup
  • Report Specs
    • Format strings
  • pbcommand API docs
    • Library API documentation
  • Cookbook SMRT Link Webservices using pbcommand
    • Configure and Get Status
    • Get SubreadSet from SMRT Link Services
    • Get Analysis (pbsmrtpipe) Job
    • Example of Getting Mulitple Jobs and extracting Metrics to build a Table

Indices and tables:

  • Index
  • Module Index
  • Search Page

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© Copyright 2015-2017, Michael Kocher.
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