Welcome to Seamless’s documentation!

Introduction

• Seamless: a cell-based interactive workflow framework
  • Features
  • Try out Seamless
  • Quick installation
  • Basic example
• Installation
  • Quick installation (for the impatient)
  • Docker-based installation
  • Conda-only installation
• Getting started with Seamless
  • Overview
  • Getting started
  • Further documentation
  • Examples and tests
• Beginner’s guide
  • Learning the basics
  • Dividing the work into phases
  • How to keep it simple
  • Do’s and don’ts
  • Troubleshooting
• Seamless explained
  • Core concepts
  • Essential mechanics
  • Guidelines for experienced developers
• Seamless projects
  • A. Setting up a collaborative project
  • B. Setting up a solo project
  • C. Project implementation
  • D. Advanced configuration

Seamless features

• Contexts
  • Creating a new workflow child
  • Transformation
  • Translation
• Cells
  • Alternative subcell syntax
  • Cell types and conversion
• Transformers
  • Pins
  • Transformer execution
  • Transformer result
  • Transformer programming languages
  • Python transformers
  • Preliminary results and progress
  • Bash transformers
  • Compiled transformers
  • Adding new transformer languages
• Mounting to the file system
• The Seamless shareserver
• The help system
• Visualization
  • Using Jupyter notebooks
  • Using web visualization
  • Web interface generator
  • Modifying the web status generator
• Validation
  • Silk
• Libraries and libinstances
• Modules
  • Python modules
  • IPython modules
  • Compiled modules
• Debugging
  • Debugging with print statements
  • Debugging sessions
• Environments
  • Transformer environments
  • Context environments
  • Relevant test examples
• Data storage
  • Data storage explained
  • The Seamless database
• Job management
• Deployment
  • Deploying a workflow as an interactive web service
  • Cloudless
  • Jobless
  • Section on deployment of environments (jobless)
  • Buffer server
  • Big data and deployment

Advanced features

• Deep cells
  • Mapping contexts
  • Performance considerations
• Macros and the low level

stdlib documentation

• stdlib.merge
• stdlib.select
• stdlib.switch
• stdlib.instantiate
• stdlib.map.map_dict
• stdlib.map.map_dict_chunk

Reference

• Reference
  • load_graph()
  • Context class
  • Cell class
  • Transformer class

Indices and tables

• Index

• Module Index

• Search Page