CLM 0.0 Table of Contents - erika72/clm-docs GitHub Wiki

Dedicated to the Land Model Working Group, winners of the 2008 CCSM Distinguished Achievement Award. May you continue to collaborate together well, and continue to drive the science of land surface modeling forward with your diligent and persistent efforts.

• 0.1 Acknowledgments
• 0.2 Introduction
• 0.3 Introduction to the CLM4.5 User's Guide
• 0.4 Important Notes and Best Practices for Usage of CLM4.5
• 0.5 How to Use This Document
• 0.6 What is new with CLM4.5 in CESM1.2.0 since previous public releases?
• 0.7 Quickstart to using CLM4.5
• 0.8 What is scientifically validated and functional in CLM4.5 in CESM1.2.0?
• 0.9 What are the UNIX utilities required to use CLM4.5?
• 0.10 Other resources to get help from

• 1.1 Choosing a compset using CLM
• 1.2 Customizing the CLM setup
• 1.3 Customizing the CLM namelist
• 1.4 Customizing the DATM Namelist and Streams files
• 1.5 Conclusion to customizing chapter

• 2.1 Common environment variables and options used in building the FORTRAN tools
• 2.2 General information on running the FORTRAN tools
• 2.3 Using NCL scripts
• 2.4 The File Creation Process
• 2.5 Using the cprnc tool to compare two history files
• 2.6 Using interpinic to interpolate initial conditions to different resolutions
• 2.7 Creating an output SCRIP grid file at a resolution to run the model on
• 2.8 Creating mapping files that mksurfdata_map will use
• 2.9 Creating a domain file for CLM and DATM
• 2.10 Using mksurfdata_map to create surface datasets from grid datasets
• 2.11 Converting unstructured grid output to gridded datasets for post processing
• 2.12 How to Customize Datasets for particular Observational Sites
• 2.13 Conclusion of tools description

• 3.1 Managing Your Own Data-files
• 3.2 Adding Resolution Names
• 3.3 Adding or Changing Default Filenames

• 4.1 Running with the prognostic crop model on
• 4.2 Running with the irrigation model on (for CLM4.0)
• 4.3 Spinning up the Satellite Phenology Model (CLMSP spinup)
• 4.4 Spinning up the CLM4.5 biogeochemistry (CLMBGC spinup)
• 4.5 Spinning up the CLM4.0 biogeochemistry Carbon-Nitrogen Model (CN spinup)
• 4.6 Spinning up the CLM4.0 Carbon-Nitrogen Dynamic Global Vegetation Model (CNDV spinup)
• 4.7 Running with MOAR data as atmospheric forcing to spinup the model
• 4.8 Running with your own previous simulation as atmospheric forcing to spinup the model
• 4.9 Running stand-alone CLM with transient historical CO2 concentration

• 5.1 Which Single Point Option Should I choose?
• 5.2 Running PTS_MODE configurations
• 5.3 Warning about Running with a Single-Processor on a Batch Machine
• 5.4 Running Supported Single-point/Regional Datasets
• 5.5 Creating your own single-point/regional surface datasets
• 5.6 Running with your own atmosphere forcing

• 6.1 Introduction to PTCLM
• 6.2 Guide to the options of PTCLM
• 6.3 Examples using PTCLM
• 6.4 Adding data for use by PTCLM
• 6.5 A bit about the structure of PTCLM, what it does, and how it works

• 7.1 Trouble with Setup
• 7.2 Trouble with Building
• 7.3 Trouble with Running

• 8.1 Testing CLM Using the CESM Test Scripts
• 8.2 Testing CLM tools using the CLM Specific Stand-Alone Tools Testing Scripts
• 8.3 Testing PTCLM use the PTCLM test script

• A.1-1-1. Scientifically Supported I Compsets
• A.1-1-2. Functionally Supported I Compsets
• A.1-1-3. CLM History Fields
• A.1-3-1. Required Files for Different Configurations and Simulation Types
• A.1-5-1. Atmosphere Forcing Fields

• A.2-2-1. Data Flow for Creation of Surface Datasets from Raw SCRIP Grid Files
• A.2-2-2. Legend for Data Flow Figures
• A.2-2-3. Details of running mkmapdata.sh
• A.2-2-4. Global Domain file creation
• A.2-2-5. Domain file creation using mknoocnmap.pl
• A.2-2-6. Details of running mksurfdata_map

• A.3-1-1. Example user_nl_clm namelist file
• A.3-1-2. Default CLM Namelist
• A.3-1-3. Example user_nl_clm namelist adding and removing fields on primary history file
• A.3-1-4. Example user_nl_clm namelist adding auxiliary history files and changing output frequency
• A.3-1-5. Example user_nl_clm namelist removing all history fields
• A.3-1-6. Example user_nl_clm namelist with various ways to average history fields
• A.3-1-7. Example user_nl_clm namelist outputting some files in 1D Vector format
• A.3-2-1. Example of running CLM to create a template file for interpinic to interpolate to
• A.3-2-2. Example of building and running interpinic to interpolate a 1-degree finidat dataset to 10x15
• A.3-2-3. Example of running mksurfdata.pl to create a 4x5 resolution fsurdat for a 1850 simulation year
• A.3-2-4. Getting the raw datasets for mksurfdata_map to your local machine using the check_input_data script
• A.3-4-1. Example Crop Simulation
• A.3-4-2. Example Irrigation Simulation
• A.3-4-3. Example AD_SPINUP Simulation for CLM4.5-BGC
• A.3-4-4. Example Final CLMBGC Spinup Simulation for CLM4.5-BGC
• A.3-4-5. Example AD_SPINUP Simulation for CLM4.0-CN
• A.3-4-6. Example EXIT_SPINUP Simulation for CLM4.0-CN
• A.3-4-7. Example Final CN Spinup Simulation for CLM4.0-CN
• A.3-4-8. Example CLM4.0 CNDV Spinup Simulation
• A.3-4-9. Example Simulation with MOAR Data on yellowstone
• A.3-4-10. Example Fully Coupled Simulation to Create Data to Force Next Example Simulation
• A.3-4-11. Example Simulation Forced with Data from the Previous Simulation
• A.3-4-12. Example Transient Simulation with Historical CO2
• A.3-5-1. Example of running CLM over a single-point test site in Brazil with the default Qian atmosphere data forcing.
• A.3-5-2. Example of running CLM over the single-point of Mexicocity Mexico with the default Qian atmosphere data forcing.
• A.3-5-3. Example of running CLM over the single-point of Vancouver Canada with supplied atmospheric forcing data for Vancouver.
• A.3-5-4. Example of using CLM_USRDAT_NAME to run a simulation using user datasets for a specific region over Alaska
• A.3-5-5. Example of creating a surface dataset for a single point
• A.3-5-6. Example of setting up a case from the single-point surface dataset just created
• A.3-5-7. Example of setting up a case with your own atmosphere forcing
• A.3-5-8. Example of DATM streams files with your own forcing for 3-hourly data
• A.3-6-1. Example of running PTCLM1 for US-UMB on yellowstone
• A.3-6-2. Example of running PTCLM for the Mexicocity supported single point dataset
• A.3-6-3. Example of running PTCLM for a spinup simulation with Qian data for tower years.
• A.3-6-4. Example of running PTCLM on a user-defined machine with global PFT and soil types dataset
• A.3-6-5. Example of running PTCLM for transient land-use 1991-2006 for US-Ha1 on yellowstone_intel
• A.3-7-1. Example of cesm_setup problem with missing datasets