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GEOS–Chem Wiki

The GEOS–Chem model is a global 3-D model of atmospheric composition driven by assimilated meteorological observations from the Goddard Earth Observing System (GEOS) of the NASA Global Modeling and Assimilation Office. It is applied by research groups around the world to a wide range of atmospheric composition problems, Central management and support of the model is provided by the Atmospheric Chemistry Modeling Group at Harvard University.

This wiki is meant to facilitate communication between GEOS-Chem users and developers. If this is your first time here, check out the features page. If you would like to contribute to the wiki, please register as a user by clicking create account at the top right corner of this page.

New information is continually being added to the wiki, so please check back here often, or even better, subscribe to the recent changes' RSS feed: you will not miss a discussion!

Current public release: GEOS-Chem v9-01-03

Version in development: GEOS-Chem v9-02 (view benchmark history)

 

General information about GEOS–Chem
Introduction and overview	Steering Committee And Working Groups
GEOS-Chem welcome letter for new users Features of the GEOS-Chem public wiki GEOS-Chem Overview GEOS-Chem People & Projects User Resources, Code Development Guidelines, and Debugging Tips GEOS-Chem Support Team GEOS-Chem newsletters GEOS-Chem Search Engines Recommendations for offering co-authorships to GEOS-Chem developers GEOS-Chem code development history	GEOS-Chem Steering Committee GEOS-Chem model development priorities GEOS-Chem Working Groups Adjoint Model and Data Assimilation Working Group Aerosols Working Group Carbon Cycle Working Group Chemistry-Climate Working Group Hg and POPs Working Group Organics Working Group Oxidants and Chemistry Working Group Nested Model Working Group Sources and Sinks Working Group Transport Working Group
Getting Started With GEOS-Chem	General Technical Information
Frequently asked questions about GEOS-Chem Minimum system requirements for GEOS-Chem GEOS-Chem supported platforms and compilers Downloading GEOS-Chem source code and data GEOS-Chem code development cycle GEOS-Chem programming resources (e.g. tutorials, user guides, etc.) GEOS-Chem Programming Style Guide Running GEOS-Chem with TESTRUN	Initial conditions for GEOS-Chem Tips on how to debug GEOS-Chem effectively Reporting GEOS-Chem bugs Debugging with the GEOS-Chem unit tester Parallelizing GEOS-Chem with the OpenMP directives Common GEOS-Chem error messages Adding advected tracers and chemical species to GEOS-Chem Adding passive (CO-like) tracers to GEOS-Chem

 

GEOS–Chem Code Developers' Forums
Coding	Diagnostics
GEOS-Chem versions under development List of GEOS-Chem bugs and in which version they were resolved Currently unresolved issues in GEOS-Chem Common GEOS-Chem error messages GEOS-Chem performance Machine issues & portability Passing array arguments efficiently in GEOS-Chem Floating point math issues Version control with Git	Overview of diagnostics characteristics Diagnostic time step Mass Flux (ND24/25/26) Additional diagnostics
Emissions	Chemistry
Emissions overview Aerosol emissions Aircraft emissions Anthropogenic emissions Anthropogenic emissions in GEOS-Chem v8-02-03 Anthropogenic emissions in GEOS-Chem v8-01-04 Anthropogenic emissions prior to v8-01-01 Scale factors for anthropogenic emissions Biofuel emissions Biogenic emissions Biomass burning emissions Lightning NOx emissions Ship emissions Soil NOx emissions Volcanic emissions	GEOS-Chem chemistry mechanisms Updating standard chemistry with JPL 10-6 NOx-Ox-hydrocarbon-aerosol (aka "full-chemistry") simulation KPP chemical solver Linoz stratospheric ozone chemistry Stratospheric chemistry FAST-J photolysis mechanism Optional chemistry mechanisms in GEOS-Chem Dicarbonyls simulation Caltech isoprene chemistry scheme (v8-03-01+) Bromine chemistry mechanism Offline chemistry simulations in GEOS-Chem Other resources Chemistry Issues Process Analysis Diagnostics Development of Fast-JX in GEOS-Chem DSMACC chemical box model List of recent papers about isoprene Linking GEOS-Chem to CMAQ
Dynamics	Deposition
Advection scheme TPCORE Boundary layer mixing Cloud convection Dynamic tropopause	Dry deposition Leaf area indices in GEOS-Chem Wet deposition
Aerosols	Met Fields
Aerosols working group Aerosol-only simulation Aerosol optical properties Aerosol thermodynamical equilibrium Carbonaceous aerosols Mineral dust aerosols Secondary organic aerosols Sea salt aerosols Sulfate aerosols Aerosol Microphysics APM TOMAS	GCAP Overview of GMAO met data products GMAO GEOS-4 GMAO GEOS-5.2.0 List of GEOS-5.2.0 met fields used by GEOS-Chem Issues with GEOS-5.2.0 met data GMAO MERRA "reanalysis" List of MERRA met fields used by GEOS-Chem Implementing MERRA into GEOS-Chem GMAO GEOS-FP List of GEOS-FP met fields used by GEOS-Chem Implementing GEOS-FP into GEOS-Chem GEOS-Chem Met Fields (from website) Notes regarding GEOS vertical grids
Nested Grid Simulations	Earth System Model Framework
GEOS-Chem nested grid simulations Setting up GEOS-Chem nested grid simulations Available met data for nested grid simulations Protocol for nested-grid data downloads	Installing ESMF and other required libraries Code development with the Earth System Model Framework Generating automatic LaTeX documentation with protex Web-based LaTeX tutorial
Benchmarking and Evaluation	Related Projects
General info about GEOS-Chem benchmark simulations List of GEOS-Chem 1-year benchmark simulations Mean OH lifetime in GEOS-Chem FTP site with output from 1-year GEOS-Chem benchmark simulations GEOS-Chem participation in community intercomparisons Satellite Instrument Specifications Table	Grid-independent GEOS-Chem GEOS-Chem Adjoint GEOS-Chem Near-Real-Time Simulations FlexAOD

 

Reference Section
IDL	GAMAP
Exelis Visual Information Solutions (vendor) Online IDL Reference Manual @ Exelis website Structures in IDL Pointers in IDL Overview of Mathematics in IDL Coyote's Guide to IDL Programming (David Fanning's Web Site) - Lots of tips on how to accomplish programming tasks IDL Page at Max Planck Institute for Meteorology Martin Schultz's IDL Tutorial (PDF Format) IDL Astronomy User's Library JHU/APL/S1R IDL routines page Craig Markwardt's IDL library The Underground Guide to IDL by Liam Gumley (PDF) Reading binary files in IDL	GAMAP web page GAMAP on-line users' guide GAMAP bugs and fixes GAMAP tips and tricks General GAMAP usage TVMAP cheat sheet File I/O with GAMAP Working with timeseries output in GAMAP Color and graphics with GAMAP Loading Color Tables in GAMAP v2.12 Working with color in IDL by Chris Holmes Regridding with GAMAP Date and time computations with GAMAP Text manipulation with GAMAP
Fortran	Perl
Intel Fortran Compiler Version 11.1 Version 12.1 Version XE 13.1 PGI Fortran IBM XL Fortran Sun Studio 11 Fortran Compiler Modular Programming w/ Fortran 90 (U. Liverpool) Other University of Liverpool F90 tutorials and courses User Notes on FORTRAN Programming Fortran 90 for the FORTRAN 77 Programmer Fortran 90 Home Page at King's College, London Object Oriented Fortran 90 Programming	Perl.com Beginning Perl by Simon Cozens (free online book) Perl in 20 pages MediaWiki User's Guide Comprehensive Perl Archive Network (CPAN.org)
R	Python
The R project for statistical computing The R journal R by example Using R to analyze GEOS-Chem data	Python code for GEOS-Chem Python.org: Main site for all things Python Python.org Tutorial PythonWiki.org: List of tutorials and resources Google's Python tutorial
Wiki Documentation
Sandbox MediaWiki FAQ MediaWiki User's Guide Examples of Wiki markup text One-page editing reference card Configuration Settings list MediaWiki release mailing list