Welcome to yggdrasil’s documentation!

Contents:

• Overview
• Installation
  • Conda/Mamba Installation (recommended)
  • Development Installation
  • Manual Installation
  • User Defined rapidjson
  • Additional Steps on Windows
  • Additional Steps for Matlab Models
  • Additional Steps for R Models
  • Additional Steps for RabbitMQ Message Passing
  • Additional Steps for OpenSimRoot
• Getting started
  • Running a model
  • Running multiple models
  • Running remote models
  • Model file input/output
  • Model-to-model communication (with connections)
  • Model-to-model communication (with drivers)
• Formatted I/O
  • Scalars
  • Tables by Row
  • Tables as Arrays
  • Tables as Pandas Data Frames
  • 3D Structures as Ply/Obj
  • Tables as Pandas Data Frames
  • Config style Mappings
  • JSON Files
  • YAML Files
• Server/Client I/O
  • One Server, One Client
  • Using Existing Inputs/Outputs
  • One Server, Two Clients
  • Two Servers, Two Clients
  • Wrapped Function Server
• Autowrapping Model Functions
  • Notes on Autowrapping C/C++ Model Functions
• Conditional I/O
  • Conditional Output
  • Filter Options
• Transformed I/O
  • Transformed Output
  • Transform Options
• Timestep Synchronization
  • Example Using Defaults
  • Controlling Synchonization
• YAML Files
  • Models
  • Connections
  • Validation
  • Model Options
  • Input/Output Options
  • File Options
  • Connection Options
  • Driver Method
• Configuration Files
  • Updating the Compilation Tools
  • Debug Options
  • Language Options
  • RabbitMQ Options
  • Parallel Options
• Units
  • Schema Datatypes
  • Python Objects
• Command Line Interface (CLI)
  • yggdrasil Command
  • yggcc Command
  • yggccflags Command
  • yggcctool Command
  • yggclean Command
  • yggcompile Command
  • yggconfig Command
  • yggdevup Command
  • ygggha Command
  • ygginfo Command
  • ygginstall Command
  • yggldflags Command
  • yggldtool Command
  • yggmetaschema Command
  • yggmodelform Command
  • yggrun Command
  • yggschema Command
  • yggvalidate Command
• High Performance Computing (HPC)
  • Setup
  • Writing the Job Script
• Running Integrations as Services
  • Setting Up an Integration as a Service
  • Connecting an Integration to a Remote Service
  • Performance
• Docker Containers
  • Release Images
  • Executable Images
  • Service Images
  • Development Images
  • Building New Images
• C-Style Format Strings
• Debugging
  • Tips for Debugging
  • Possible Errors
• OpenMP Threading in Models
• Examples
• Advanced
  • Serialization
  • JSON Metaschema
  • Schemas
  • Input/Output Drivers
  • Model Drivers
  • Model Base Classes
  • Model Interface
  • Code
• Development
  • General Development Notes
  • Release Steps
  • Adding Support for a New Language
  • Defining New Datatypes
  • TODO
• Publications
  • Publications Using yggdrasil
• Welcome to the 2018 Crops in Silico Hackathon!
  • Installation
  • Introduction
  • Model Transformation
  • Connecting Models to Models
• Welcome to the 2019 Crops in Silico Hackathon!
  • Installation
  • Introduction to Yggdrasil
  • Introduction to the User Interface
  • Model Transformation
  • Connecting Models to Models
• Welcome to the 2021 Crops in Silico Hackathon!
  • Setup
  • Debugging
  • Introduction to Yggdrasil
  • Introduction to Jupyter Notebooks
  • Command Line Interfaces (CLIs)
  • Integration Tips
• Glossary

Indices and tables

• Index

• Module Index

• Search Page