POP User’s Guide

• 1. Introduction
  • 1.1. Brief history of POP development
  • 1.2. Improvements introduced in POP
    • 1.2.1. Surface-pressure formulation of barotropic mode
    • 1.2.2. Free-surface boundary condition
    • 1.2.3. Latitudinal scaling of horizontal diffusion
    • 1.2.4. Pressure-averaging
    • 1.2.5. Designed for parallel computers
    • 1.2.6. General orthogonal coordinates in horizontal
  • 1.3. POP applications to date
    • 1.3.1. High-resolution global and regional modeling
  • 1.4. Running POP
• 2. Operational control
  • 2.1. Processor configuration
  • 2.2. Input/Output
  • 2.3. Parallel I/O
  • 2.4. Time management
• 3. Grid and bottom-topography definition
• 4. Initializing the model state
  • 4.1. Temperature and salinity distribution
  • 4.2. Restart control
• 5. Computational options
  • 5.1. Barotropic mode solver
  • 5.2. Advection methods
  • 5.3. Pressure gradient options
• 6. Vertical mixing and convection parameterizations
  • 6.1. Constant coefficients
  • 6.2. Richardson-number mixing
  • 6.3. KPP mixing
  • 6.4. Tidal mixing
• 7. Horizontal mixing parameterizations
  • 7.1. Laplacian horizontal mixing.
  • 7.2. Biharmonic horizontal mixing.
  • 7.3. Gent-McWilliams isopycnic tracer diffusion
  • 7.4. Anisotropic viscosity options
• 8. Physical process options
  • 8.1. Equation of state approximation
  • 8.2. Baroclinic-mode parameters
  • 8.3. Sea-ice emulation parameters
  • 8.4. Topographic stress
• 9. Forcing options (ocean-only mode)
  • 9.1. Periodicity of forcing data
  • 9.2. Temporal interpolation of forcing data
  • 9.3. Forcing formulation
  • 9.4. Forcing files
  • 9.5. Forcing units
  • 9.6. Updating the forcing values
  • 9.7. Forcing modules
  • 9.8. Forcing namelists
• 10. Model diagnostics and output
• 11. Output formats
  • 11.1. netCDF
  • 11.2. binary
• 12. File-naming conventions
• 13. Model diagnostics
  • 13.1. Transport diagnostics
• 14. Model output files
  • 14.1. Time-averaged history files
  • 14.2. Snapshot history files
  • 14.3. Movie files
• 15. POP Tools
  • 15.1. Visualizing output
  • 15.2. Transformations from general grids
  • 15.3. File format conversion
  • 15.4. Generating grid and bottom topography files
    • 15.4.1. Horizontal grid and topography
    • 15.4.2. Vertical grid
• 16. Trouble-shooting
  • 16.1. Timestep stability criteria
  • 16.2. Checking the global energy and work balances
  • 16.3. Getting the right combination of mixing options
  • 16.4. Getting the right combination of forcing options
  • 16.5. Properly normalizing input salinity values