Difference between revisions of "GEOS-Chem v10-01"
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Revision as of 20:51, 14 May 2014
Contents
- 1 Overview
- 2 Previous issues now resolved in GEOS-Chem v10-01
- 2.1 Now use correct value of molecular weight for the PROPNN tracer in input.geos
- 2.2 Now use MAP_A2A to regrid 1x1 TOMS O3 to model resolution
- 2.3 Bug fix for determining when to use TOMS O3 columns
- 2.4 Fixes for the stratospheric chemistry module
- 2.5 Various updates for GEOS-Chem specialty simulations
- 2.6 Updates to speed up GEOS-Chem execution
- 2.7 Bug fixes and and updates for v10-01d
- 3 Outstanding issues not yet resolved in GEOS-Chem v10-01
Overview
History
The table below shows the previous, current, and successive versions of GEOS-Chem:
| Previous version | This version | Next version |
|---|---|---|
| GEOS-Chem v9-02 | GEOS-Chem v10-01 | TBD |
| PUBLIC RELEASE 03 Mar 2014 | TBD | TBD |
| View v9-02 benchmark history | View v10-01 benchmark history | TBD |
--Bob Y. 13:17, 16 January 2014 (EST)
What's new in this version
GEOS-Chem v10-01 will be released after a fixed interval of time (approxmiately 9 months after the release of the prior version, GEOS-Chem v9-02). The GEOS-Chem Steering Committee has prioritized the following updates and improvements for inclusion into GEOS-Chem v10-01. (This list is subject to change.) Updates that do not get included into GEOS-Chem v10-01 will be held over for the next version.
NOTE: v10-01a, v10-02b, etc. denote 1-month benchmark simulations, which are designed to evaluate GEOS-Chem's performance at intermediate stages of development.
Alternating stripes of color (white & cyan) in the table below group together features that were evaluated in the same 1-month benchmark.
| Feature | Type | Submitted by | Benchmark(s) | Status |
|---|---|---|---|---|
| Updates to dry deposition when using the Olson 2001 land map | Science | Patrick Kim (Harvard) | v10-01a | Approved 05 Feb 2014 |
| Now use correct molecular weight for the PROPNN tracer in input.geos | Bug fix | Jenny Fisher (U. Wollongong) | v10-01b | Approved 06 Mar 2014 |
| Use MAP_A2A to regrid 1x1 TOMS O3 to model resolution | Structural | Jintai Lin (Peking U.) | " " | " " |
| UCX strat chem mechanism, includes: | Science | UCX: Sebastian Eastham (MIT) Fast-JX: Sebastian Eastham (MIT), Jingqiu Mao (Princeton) |
v10-01c | Pending approval |
| Bug fix for determining when to use TOMS O3 columns | Bug fix | GEOS-Chem Support Team | " " | " " |
| Add support for TAU performance profiler | Structural | John Linford (ParaTools, Inc.) GEOS-Chem Support Team |
" " | " " |
| Fixes for timeseries diagnostics to allow for more transported tracers | Bug fix | GEOS-Chem Support Team | " " | " " |
| Fixes for the stratospheric chemistry module | Structural | GEOS-Chem Support Team | " " | " " |
| Various updates for GEOS-Chem specialty simulations | Bug fix & Structural |
Jeff Pierce (CSU) Kevin Wecht (Harvard) Matthew Johnson (NASA) GEOS-Chem Support Team |
" " | " " |
| Updates to speed up GEOS-Chem execution | Structural | GEOS-Chem Support Team | " " | " " |
| Fix error in ISOPO2 isomerization reaction in globchem.dat | Bug fix | Ploy Achakulwisut (Harvard) | v10-01d | TBD |
| Avoid NaN values for WASHFRAC in routine DO_MERRA_CONVECTION | Bug fix | Qiaoqiao Wang (Max Planck Institute) | " " | " " |
| Modify NcdfUtil code to allow re-opening of netCDF "define mode" | Structural | GEOS-Chem Support Team | " " | " " |
| HEMCO emissions component | Structural | Christoph Keller (Harvard) GEOS-Chem Support Team GMAO |
TBD | TBD |
| Online Radiative Transfer in GEOS-Chem | Science | David Ridley (MIT) Colette Heald (MIT) |
TBD | TBD |
| NEI 2008 emissions with hourly resolution | Science | Katie Travis (Harvard) | TBD | TBD; Will be added via HEMCO |
| Update to MEGAN2.1 | Science | Dylan Millet (U. Minnesota) | TBD | TBD; Will be added via HEMCO |
| Update to EDGAR 4.2 anthropogenic emissions | Science | Meng Li and Qiang Zhang (Tsinghua) Sajeev Philip (Dalhousie) |
TBD | TBD; Will be added via HEMCO |
| PAN / Organics | Science | Emily Fischer (CSU) | TBD | TBD |
| CO2 direct effect on isoprene emissions | Science | Amos Tai (The Chinese University of Hong Kong) | TBD | TBD |
| Arctic Hg cycling | Science | Jenny Fisher (U. Wollongong) | TBD | TBD |
| Criegee intermediate | Science | Dylan Millet (U. Minnesota) | TBD | TBD |
| Impaction scavenging for hydrophobic BC | Science | Qiaoqiao Wang (formerly Harvard, now Max-Planck Institute) | TBD | TBD |
| Homogeneous IN removal | Science | Qiaoqiao Wang (formerly Harvard, now Max-Planck Institute) | TBD | TBD |
| MASAGE NH3 inventory | Science | Fabien Paulot (Harvard) | TBD | TBD; Will be added via HEMCO |
| HTAP and hi-res Asian emissions | Science | Qiang Zhang (Tsinghua U.) | TBD | TBD; Will be added via HEMCO |
| Two-way coupling between global and nested GEOS-Chem models | Science | Jintai Lin (Peking U.) | TBD | TBD |
| Improve temporal resolution of anthropogenic CO2 sources | Science | Ray Nassar (Environment Canada) | TBD | TBD; Will be added via HEMCO |
| Replace CASA CO2 biosphere climatology with year-specific fluxes | Science | Ray Nassar (Environment Canada) Dylan Jones (U. Toronto) |
TBD | TBD; Will be added via HEMCO |
| Acid uptake on dust aerosols | Science | T. Duncan Fairlie (NASA/LARC) | TBD | TBD |
| UNEP 2010 anthropogenic Hg emissions | Science | Shaojie Song (MIT) | TBD | TBD; Will be added via HEMCO |
| Historical anthropogenic atmospheric emissions of Hg | Science | Bess Corbitt (Harvard) | TBD | TBD; Will be added via HEMCO |
| Subsurface ocean Hg concentration update | Science | Anne Soerensen (Harvard) | TBD | TBD |
| NEI 2008 Hg emission inventory | Science | Yanxu Zhang (Harvard) | TBD | TBD; Will be added via HEMCO |
| RRTMG radiative transfer code in APM aerosol microphysics | Science | Fangqun Yu (SUNY Albany) | TBD | TBD |
| Interannual lightning | Science | Lee Murray (Harvard) | TBD | TBD |
| FINN biomass burning emissions | Science | Jenny Fisher (U. Wollongong) Min Huang (JPL) |
TBD | TBD; Will be added via HEMCO |
| Updates to PAH code | Science | Carey Friedman (MIT) Helen Amos (Harvard) |
TBD | TBD |
| Improved dust size distribution scheme | Science | Li Zhang (Colorado U.) Daven Henze (Colorado U.) |
TBD | TBD |
| Update EMEP emissions for 2008-2010 | Science | Aaron van Donkelaar (Dalhousie) | TBD | TBD; Will be added via HEMCO |
--Melissa Sulprizio 12:19, 9 May 2014 (EDT)
New data directories
The following new data directories have been added for GEOS-Chem v10-01. You will have to download the directories relevant to your simulation.
You can download these directories with anonymous FTP or the Wget utility. For instructions, please see Chapter 2.4, Downloading the GEOS-Chem shared data directories in the GEOS-Chem Online User's Guide.
GEOS_NATIVE/UCX_201403 # Input files for the UCX mechanism
--Melissa Sulprizio 15:24, 24 February 2014 (EST)
Previous issues now resolved in GEOS-Chem v10-01
Now use correct value of molecular weight for the PROPNN tracer in input.geos
This update was tested in the 1-month benchmark simulation v10-01b and approved on 06 Mar 2014.
This unresolved issue from GEOS-Chem v9-02 has now been corrected.
--Bob Y. 15:45, 12 March 2014 (EDT)
Now use MAP_A2A to regrid 1x1 TOMS O3 to model resolution
This update was tested in the 1-month benchmark simulation v10-01b and approved on 06 Mar 2014.
For complete information about this issue, please see this post on our Photolysis mechanism wiki page.
--Bob Y. 15:47, 12 March 2014 (EDT)
Bug fix for determining when to use TOMS O3 columns
This update is being tested in the 1-month benchmark simulation v10-01c.
For complete information about this issue, please see this post on our Photolysis mechanism wiki page.
--Bob Y. 15:57, 12 March 2014 (EDT)
Fixes for the stratospheric chemistry module
These updates are being tested in the 1-month benchmark simulation v10-01c.
We have introduced the following fixes to the stratospheric chemistry module. Please see the following posts for more information:
- Reduce memory footprint of the stratospheric chemistry module
- Bug fix in routine GET_RATES_INTERP. affecting nested-grid simulations
--Bob Y. 16:52, 11 April 2014 (EDT)
Various updates for GEOS-Chem specialty simulations
These updates are being tested in the 1-month benchmark simulation v10-01c.
We have added several updates (both structural updates and minor bug fixes) to the GEOS-Chem specialty simulations. Please view the following posts for more information:
NOTE: Initializing the various specialty simulations from routine GIGC_Init_Extra is necessaary for compatibility with our Grid-Independent GEOS-Chem (aka GIGC) development. We need to initialize all GEOS-Chem simulations at the start of the simulation, and not on the first chemistry or emissiosn timestep after the simulation has already started. This is a requirement of the Earth System Model Framework (ESMF) software upon which our GIGC code relies.
--Bob Y. 14:13, 14 April 2014 (EDT)
Updates to speed up GEOS-Chem execution
These updates are being tested in the 1-month benchmark simulation v10-01c.
We used the GEOS-Chem Unit Tester and the Tuning and Analysis Utilities (TAU) to locate and fix the following inefficiencies in GEOS-Chem:
| Location | Problem | Solution |
|---|---|---|
| Olson land map module | Performance bottleneck | Speed up computations in subroutine COMPUTE_OLSON_LANDMAP |
| GEOS-4 convection module | Array temporary | Removed array temporaries in the call to the GEOS-4 convection routine |
| GCAP convection module | Array temporary | Removed array temporaries in the call to the GCAP convection routine |
| Ocean mercury module | Array temporary | Removed array temporaries in subroutine READ_HG2_PARTITIONING |
| GEOS-5 / GEOS-FP / MERRA advection module | Passing a pointer to an explicit-shape array (inefficiency) | Reduce time spent in advection driver routine TPCORE_FVDAS |
| GEOS-FP / MERRA convection module | Inefficient load balancing | Reduce time spent in routine DO_CONVECTION when using GEOS-FP or MERRA |
--Bob Y. 14:58, 17 April 2014 (EDT)
Bug fixes and and updates for v10-01d
These updates are being tested in the 1-month benchmark simulation v10-01d.
GEOS-Chem v10-01d contains minor fixes for the following issues:
| Location | Problem | Solution |
|---|---|---|
| globchem.dat input file | Typo | Remove duplicate GLYX product from RIO2 reaction |
| GeosCore/convection_mod.F | NaN values in WASHFRAC variable | #Avoid NaN values for WASHFRAC in routine DO_MERRA_CONVECTION |
| NcdfUtil/m_netcdf_io_define.F90 | Need to re-open netCDF define mode to facilitate HEMCO I/O | Added routine NcBegin_Def to open or re-open the netCDF definition mode. This lets you define a netCDF variable and all its attributes, and then to write its data to disk. You can then repeat the process for additional netCDF variables. Without this fix you would have to pre-define all variables and attributes before writing any data to the netCDF file. |
--Bob Y. 16:50, 14 May 2014 (EDT)
Outstanding issues not yet resolved in GEOS-Chem v10-01
TBD
