MITGCM USER MANUAL

John Marshall - Alistair Adcroft - Jean-Michel Campin - Patrick Heimbach - Andrea Molod - Stephanie Dutkiewicz - Helen Hill - Martin Losch - Baylor Fox-Kemper - Dimitris Menemenlis - David Ferreira - Ed Hill - Mick Follows - Chris Hill - Constantinos Evangelinos - Gael Forget


MIT Department of EAPS
77 Massachusetts Ave.
Cambridge, MA 02139-4307

Date: August 19, 2004

• Contents
• 1. Overview of MITgcm
  • 1.1 Introduction
  • 1.2 Illustrations of the model in action
  • 1.3 Continuous equations in `r' coordinates
  • 1.4 Appendix ATMOSPHERE
  • 1.5 Appendix OCEAN
  • 1.6 Appendix:OPERATORS
  
  
• 2. Discretization and Algorithm
  • 2.1 Notation
  • 2.2 Time-stepping
  • 2.3 Pressure method with rigid-lid
  • 2.4 Pressure method with implicit linear free-surface
  • 2.5 Explicit time-stepping: Adams-Bashforth
  • 2.6 Implicit time-stepping: backward method
  • 2.7 Synchronous time-stepping: variables co-located in time
  • 2.8 Staggered baroclinic time-stepping
  • 2.9 Non-hydrostatic formulation
  • 2.10 Variants on the Free Surface
  • 2.11 Spatial discretization of the dynamical equations
  • 2.12 Continuity and horizontal pressure gradient terms
  • 2.13 Hydrostatic balance
  • 2.14 Flux-form momentum equations
  • 2.15 Vector invariant momentum equations
  • 2.16 Tracer equations
  • 2.17 Linear advection schemes
  • 2.18 Non-linear advection schemes
  • 2.19 Comparison of advection schemes
  • 2.20 Shapiro Filter
  • 2.21 Nonlinear Viscosities for Large Eddy Simulation
  
  
• 3. Getting Started with MITgcm
  • 3.1 Where to find information
  • 3.2 Obtaining the code
  • 3.3 Model and directory structure
  • 3.4 Building MITgcm
  • 3.5 Running MITgcm
  • 3.6 Customizing MITgcm
  • 3.7 Testing
  • 3.8 MITgcm Example Experiments
  • 3.9 Barotropic Gyre MITgcm Example
  • 3.10 Baroclinic Gyre MITgcm Example
  • 3.11 Global Ocean MITgcm Exmaple
  • 3.12 P coordinate Global Ocean MITgcm Example
  • 3.13 Held-Suarez Atmosphere MITgcm Example
  • 3.14 Surface Driven Convection
  • 3.15 Gravity Plume On a Continental Slope
  • 3.16 Centennial Time Scale Tracer Injection
  • 3.17 Biogeochemistry Tutorial
  • 3.18 Global Ocean State Estimation Example
  • 3.19 Sensitivity of Air-Sea Exchange to Tracer Injection Site
  • 3.20 Offline Example
  • 3.21 A Rotating Tank in Cylindrical Coordinates
  
  
• 4. Software Architecture
  • 4.1 Overall architectural goals
  • 4.2 WRAPPER
  • 4.3 Using the WRAPPER
  • 4.4 MITgcm execution under WRAPPER
  
  
• 5. Automatic Differentiation
  • 5.1 Some basic algebra
  • 5.2 TLM and ADM generation in general
  • 5.3 The gradient check package
  • 5.4 Adjoint dump & restart - divided adjoint (DIVA)
  
  
• 6. Physical Parameterizations - Packages I
  • 6.1 Using MITgcm Packages
  • 6.2 Packages Related to Hydrodynamical Kernel
  • 6.3 Ocean Packages
  • 6.4 Atmosphere Packages
  • 6.5 Sea Ice Packages
  • 6.6 Packages Related to Coupled Model
  • 6.7 Biogeochemistry Packages
  
  
• 7. Diagnostics and I/O - Packages II, and Post-Processing Utilities
  • 7.1 Diagnostics-A Flexible Infrastructure
  • 7.2 NetCDF I/O: MNC
  • 7.3 Fortran Native I/O: MDSIO and RW
  • 7.4 Monitor: Simulation state monitoring toolkit
  • 7.5 Grid Generation
  • 7.6 Pre- and Post-Processing Scripts and Utilities
  
  
• 8. Interface with ECCO
  • 8.1 The ECCO state estimation cost function DRAFT!!!
  • 8.2 The line search optimisation algorithm
  
  
• 9. Previous Applications of MITgcm
• Bibliography
• About this document ...

Copyright © 2006 Massachusetts Institute of Technology