GEOS-Chem Newsletter July 2009

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Dear GEOS-Chem Users,

Here is the July 2009 GEOS-Chem Newsletter. Please take a moment to read it, as it contains the latest news about the GEOS-5 met field reprocessing.

Thank you for your continued support of GEOS-Chem!

Bob Yantosca, Philippe Le Sager, and Claire Carouge

Web site update

Please note that the Harvard Atmospheric Chemistry Modeling Group, GEOS-Chem, and GAMAP web pages have now moved to their new URL's (see below). Please update your browser web bookmarks accordingly.

Site Old URL (now obsolete) New URL
Main site
GEOS-Chem site
GAMAP site

Also, web links from the GEOS-Chem wiki pages have been updated to use the new URL's. However, if you should still find any broken links, please let the GEOS-Chem support team know and we will correct them.

GEOS-Chem Update

GEOS-Chem Steering Committee

Latest GEOS-Chem Steering Committee news:

GEOS-Chem Working Groups

We ask that each GEOS-Chem user join the Working Group that is most relevant to his/her area of research. For more information about a particular working group, please contact the appropriate Working Group Chairperson(s).

The Working Group Wiki pages are constantly being updated! Please be sure to check them often for the latest news:

GFED2 monthly data for 2008

As of July 2009, the GFED2 monthly data is now available for years 1997-2008. The new 2008 data is available in bpch format at:

cd pub/geos-chem/data/GEOS_1x1/GFED2_200601/2008

You will need to make a small modification in routine GFED2_COMPUTE_BIOMASS (in gfed2_biomass_mod.f) in order to update the maximum available year of data. Look for the lines:

     ! Availability of MONTHLY data
        CALL GFED2_AVAILABLE( YYYY, 1997, 2007 )

and change the 2007 to 2008:

     ! Availability of MONTHLY data
        ! Prior to 7/8/09:
        ! GFED2 2008 monthly data is now available (bmy, 7/8/09)
        !CALL GFED2_AVAILABLE( YYYY, 1997, 2007 )
        CALL GFED2_AVAILABLE( YYYY, 1997, 2008 )

You may also download the updated version of gfed2_biomass_mod.f from:

cd pub/geos-chem/patches/v8-02-02
get gfed2_biomass_mod.f

This fix will be standardized in GEOS-Chem v8-02-03.

NOAA sea-surface temperature for 2005-2008

Lyatt Jaegle has processed the NOAA sea-surface-temperature files for the years 2005-2008. These will be available from our FTP site:

cd pub/geos-chem/data/GEOS_1x1/SST_200508
get SST.geos.1x1.2005
get SST.geos.1x1.2006
get SST.geos.1x1.2007
get SST.geos.1x1.2008

after Tuesday (July 14th) morning's reboot.

You will also need to update the line of code in routine READ_SST (in sulfate_mod.f) from:

     IF ( THISYEAR >= 1985 .and. THISYEAR <= 2004 ) THEN 


     IF ( THISYEAR >= 1985 .and. THISYEAR <= 2008 ) THEN 

Or, if you wish, you may download the updated version of sulfate_mod.f from

cd pub/geos-chem/patches/v8-01-02
get sulfate_mod.f

This fix will be standardized in GEOS-Chem v8-02-03.

GEOS-Chem v8-02-03

The next release of GEOS-Chem will be GEOS-Chem v8-02-03. This beta version will contain everything in GEOS-Chem v8-02-02, plus:

  • Kpp chemical solver package (Adrian Sandu group @ Virginia Tech)
  • ICOADS ship emissions (Chulkyu Lee)
  • Use of GEOS-5 ozone columns (C. Carouge, still in validation)
  • Removal of support for obsolete SGI and COMPAQ compilers

This version is currently in beta-testing. Stay tuned for more information!

GEOS-5 met field reprocessing


As of July 2009, the complete GEOS-5 archive from 2004-2008 has now been reprocessed in order to correct the optical depth problem reported several months ago.

You may download the data from:

 Nested China
 cd pub/geos-chem/data/GEOS_0.5x0.666_CH.d/GEOS_5/YYYY/MM/

 2 x 2.5 Global
 cd pub/geos-chem/data/GEOS_2x2.5.d/GEOS_5/YYYY/MM/

 4 x 5 Global
 cd pub/geos-chem/data/GEOS_4x5.d/GEOS_5/YYYY/MM/

where YYYY/MM/ are the year and month of data that you wish to download.

As of July 13, 2009, GEOS-5 data is available from 2003/12 thru 2009/05. We should get caught-up to real-time later this week.

Updated OTD/LIS redistribution factors for lightning

Lee Murray has regenerated the OTD/LIS local redistribution factors for use with the new reprocessed GEOS-5 met data fields. The scale factors were based on GEOS-5 met data from Dec 2003 through Feb 2009.

You may obtain the new OTD/LIS scale factors from:

cd pub/geos-chem/data/GEOS_4x5/lightning_NOx_200907
mget *
cd pub/geos-chem/data/GEOS_2x2.5/lightning_NOx_200907
mget *
cd pub/geos-chem/data/GEOS_0.5x0.666_CH/lightning_NOx_200907
mget *

The OTD/LIS files are named with the following convention:


Note that the version of the data has been updated from v3 to v4, in order to distinguish them from the files in the previous directory lightning_NOx_200709/.

NOTE: The GEOS-4 files in lightning_NOx_200907/ are identical to those in lightning_NOx_200709/. For consistency and simplicity of coding, they have been renamed from v3 to v4.

You will also need to get an updated version of source code file lightning_nox_mod.f, which has been modified to read in these new OTD/LIS local factors. You may obtain this from:

cd /lustre/pub/ftp/pub/geos-chem/patches/v8-02-02

NOTE: You must also compile GEOS-Chem with the


switch activated in the define.h header file. However, at a later time the IN_CLOUD_OD switch will be removed from the code. We will keep it for now in case some GEOS-Chem users may not have all of the GEOS-5 met data downloaded onto their systems.

ESMF and Column Code Update

We have created a new GEOS-Chem column code wiki page. Please check back here for the latest developments!

--Bob Y. 13:01, 13 July 2009 (EDT)