Sandbox

Dear GEOS-Chem Users,

Here is the June 2009 GEOS-Chem Newsletter.

Bob Yantosca, Philippe Le Sager, and Claire Carouge
geos-chem-support@as.harvard.edu

GEOS-Chem Update

GEOS-Chem v8-02-02

GEOS-Chem v8-02-02 "beta" has now been released. This version includes the new boundary layer mixing scheme (developed by Jintai Lin) as well as updated Bond emission inventories for BC & OC (prepared by Eric Leibensperger). The new version may be downloaded from:

 ftp ftp.as.harvard.edu
 cd pub/geos-chem/beta_releases
 get GEOS-Chem.v8-02-02-beta.stdrun.tar.gz

NOTE: We currently working on enabling access to our CVS repository to outside users so that you will be able to obtain the GEOS-Chem source code without having to download a large TAR file. Stay tuned...

GEOS-Chem Steering Committee

The GEOS-Chem Steering Committee held a telecon on June 11, 2009. Click HERE to view the meeting minutes.

Since the GEOS-Chem meeting, a number of GEOS-Chem model development priorities that were identified by the Steering Committee and Working Groups have now been implemented into GEOS-Chem:

Item	Author(s)	Completion Date
Improved BL mixing scheme	Jintai Lin	Now included in GEOS-Chem v8-02-02; released 08 Jun 2009
BC/OC aerosol emissions from Bond inventory	Eric Leibensperger	Now included in GEOS-Chem v8-02-02; released 08 Jun 2009
Chemical updates	Mat Evans Fabien Paulot Jingqiu Mao Paul Palmer	Updated chemical mechanism and photolysis files globchem.dat, jv_spec.dat, ratj.d (see documentation) Now included in GEOS-Chem v8-02-01; released 26 May 2009

At the June 10, 2009 telecon, the GEOS-Chem Steering Committee identified the following remaining model development items as top priorities (listed in order):

#	Development priority	Point person(s)	Status
1.	GEOS-5 ozone columns	GC support team	Validation is ongoing
2	KPP implementation	GC support team Virginia Tech	In beta testing
3.	TOMAS implementation	Win Trivitayanurak GC Support Team	Telecon to discuss implementation scheduled for June 16th
4.	Linoz	Dylan Jones and U. Toronto group	In beta testing
5.	Updated methane simulation	Christopher Pickett-Heaps Kevin Wecht	Debugging and code cleanup is ongoing
6.	Updated CO2 Simulation	Ray Nassar
7.	Updated MEGAN emission from terpenes	Dylan Millet
8.	COADS ship emissions	Chulkyu Lee
9.	Include updated aerosol optics	Colette Heald Randall Martin and aerosols Working Group
10.	Include aromatic SOA	Daven Henze
11.	Archive OH fields from benchmark for use in off-line simulations	GC support team	&nbsp}

GEOS-Chem Working Groups

A couple of the GEOS-Chem Working Groups have been merged together:

• "Carbon Gases" and "Organics" is now "Carbon Gases & Organics" (co-chairs Dylan Jones, Dylan Millet)
• "Regional Air Quality"

We ask that each GEOS-Chem user join the Working Group that is most relevant to his/her area of research. The Working Groups are meant to foster communication and information sharing between GEOS-Chem users, as well as to identify priorities for model development to the GEOS-Chem Steering Committee.

For more information about a particular working group, please contact the Working Group Chairperson(s).

Subscribing to the GEOS-Chem email lists

There are now several GEOS-Chem email lists:

Email list address	Intended audience
geos-chem@seas.harvard.edu	All GEOS-Chem users and developers NOTE: This is the email list to which information about new model versions, bugs & fixes, etc. will be sent
geos-chem-adjoint@seas.harvard.edu	Members of the Adjoint Model and Data Assimilation Working Group
geos-chem-aerosols@seas.harvard.edu	Members of the Aerosols Working Group
geos-chem-carbon@seas.harvard.edu	Members of the Carbon Gases and Organics Working Group
geos-chem-emissions@seas.harvard.edu	Members of the Emissions Working Group
geos-chem-oxidants@seas.harvard.edu	Members of the Oxidants and Chemistry Working Group
geos-chem-regional@seas.harvard.edu	Members of the Regional Air Quality Working Group

To subscribe to any of these lists, please visit the page: https://lists.seas.harvard.edu/mailman/listinfo and then click on the name of the list to which you wish to subscribe. You will be taken to a page where you can specify your email address and a password and then click SUBMIT. You will then receive a confirmation email from the system. Follow the directions in the confirmation email and then you will be added to the list.

PLEASE NOTE: If you wish to send an email to any of the above GEOS-Chem mailing lists, then please be sure to send your email from the same address with which you subscribed to the list. Otherwise your email may bounce back to you. The GEOS-Chem mailing lists are set up to reject emails from non-list members. This is done in order to prevent spam.

Being a member of the GEOS-Chem community

We would like to encourage all new GEOS-Chem users to take a moment to read our GEOS-Chem welcome letter for new users.

We expect that each GEOS-Chem user will possess at least some familiarity with the following:

• The Fortran programming language (F77 OK, F90 preferred)
• IDL (preferred), or other graphics software (e.g. Splus, Matlab)
• The Unix environment (i.e. commands, file paths, etc.)
• Unix scripts (not strictly required but is very helpful to know!)

The GEOS-Chem support team cannot provide you with general instruction in programming languages or answer general programming questions. We would like to invite you to view to view the list of tutorials and other relevant resources that are listed on the GEOS-Chem web page at GEOS-Chem Resources Page.

We invite you to read our document on User Resources, Code Development Guidelines, and Debugging Tips.

Each GEOS-Chem user is also expected to adhere to our list of best practices.

We also would like to invite all GEOS-Chem users outside Harvard who have run the 1-month benchmark simulation on their own systems to update the table of GEOS-Chem supported platforms and compilers with your timing information.

Adjoint Model Update

A successful meeting was held at Virginia Tech to develop a standard version of the GC adjoint merging the capabilities developed by individual groups: participants were Kumaresh Singh, Adrian Sandu, Monika Kopacz, Changshub Shim, and Daven Henze. The result was an integrated adjoint code based on v8-02-01 with GEOS-5 and including updates from the different groups, improved file formats and input files, etc.

GEOS-5 met field reprocessing

Status

As described in the April-May 2009 newsletter, we are reprocessing the entire archive of GEOS-5 met field data. As of May 6, 2009 the following fields have been completed:

• 2003: December only
• 2004: entire year
• 2005: entire year
• 2006: entire year
• 2007: thru May 2007
• 2008: entire year

for each of the following geographic domains:

• China nested 0.5 x 0.667
• Global 2 x 2.5
• Global 4 x 5

MOTE:

The files have been TAR'd and Gzip'd for your convienience (as this dramatically reduces the size of the data). In each directory there are files 01.tar.gz, 02.tar.gz .. 12.tar.gz, each of which contains a single month of met field data. GEOS-Chem users outside Harvard may obtain these data files via anonymous FTP:

 ftp ftp.as.harvard.edu
 cd pub/geos-chem/data/GEOS_0.5x0.666_CH.d/GEOS_5/YYYY/MM/
 mget *
 cd pub/geos-chem/data/GEOS_2x2.5.d/GEOS_5/YYYY/MM/
 mget *
 cd pub/geos-chem/data/GEOS_4x5.d/GEOS_5/YYYY/MM/
 mget *

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

However, to simplify the FTP process you might want to use a 3rd party FTP software program with a GUI interface, such as Mozilla FireFTP.

We are currently working on reprocessing GEOS-5 met data for 2006; however, this effort has been slowed down by some filesystem problems at Harvard.

ESMF update

Development of the GEOS-Chem column chemistry module continues to proceed swiftly. The SMVGEAR solver has been columnized and is now in testing to ensure that it gives similar results to the existing GEOS-Chem. Also, the dust, sea salt, and carbon aerosol chemistry routines have been columnized and are working correctly.

--Bob Y. 11:33, 15 June 2009 (EDT)