pbcommand
0.6.0
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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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pbcommand
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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