GEOS-Chem 12: Difference between revisions

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=== 13.0.0 ===
<span style="color:darkorange">'''''Please see our [[GEOS-Chem 13]] wiki page.'''''</span>


== Current stable version ==
== Current stable version ==

Revision as of 18:35, 23 July 2020

GEOS-Chem Main Page | GCHP Main Page

Version history summary

Past releases Current release: GEOS-Chem 12.9.1 Future releases

The sections below describe each GEOS-Chem feature version and GEOS-Chem bug fix patch version belonging to the GEOS-Chem 12 series. Each feature version carries the tag 12.Y.0, which indicates that the version will be (or has been) validated with a 1-month benchmark simulation (and one or more 1-year benchmark simulations if necessary). Each patch version carries the tag 12.Y.Z, which denotes that the version preserves backwards-compatibility with the prior feature version 12.Y.0. For more information, please see our GEOS-Chem version numbering system wiki page.

Several GEOS-Chem updates have been proposed by the relevant Working Groups, but have not yet been assigned to a specific GEOS-Chem version. For a complete list of these updates, please visit our GEOS-Chem model development priorities wiki page.

Current versions in development

The GEOS-Chem versions listed below are currently under development.

12.9.2

This version contains fixes for bugs and technical issues discovered during the 12.9.0 benchmarking process.

Feature Submitted by Type Notes and References
Updates that WILL NOT AFFECT the full-chemistry simulation
Bug fixes for the CO2 and tagged CO2 simulations:
  1. Fix for inconsistent tagged CO2 species names
  2. Fix for reading A3dyn met fields in the default HEMCO_Config.rc file for CO2 simulations
 Bob Yantosca (GCST) Bug fix
Add OPOA to PM2.5 definition in complex SOA simulations Maggie Marvin (Edinburgh)
Aerosols Working Group 		Bug fix
  • This will not affect Standard or Benchmark simulations, only complex SOA.
Bug fix for dry-run issues in 12.9.0+ Lee Murray (Rochester)
Bob Yantosca (GCST) 		Bug fix

13.0.0

Please see our GEOS-Chem 13 wiki page.

Current stable version

The GEOS-Chem version listed below is considered stable and can be used to start a new research project. This version corresponds to the master branch of the GEOS-Chem source code repository on Github.

Each released version of GEOS-Chem will be assigned a unique Digital Object Identifier (DOI). This will allow you to cite each GEOS-Chem version in publications. We also have obtained a "Concept DOI", which will always point to the current stable version of GEOS-Chem: DOI 10.5281/zenodo.1343546. This can be convenient if you wish to cite GEOS-Chem without making reference to a particular version.

12.9.1

This version was released on 17 Jul 2020.

DOI: TBD

You can use the following Git commands to download the GEOS-Chem 12.9.1 source code and GEOS-Chem Unit Tester package. 

 # Download the GEOS-Chem source code
 git clone https://github.com/geoschem/geos-chem Code.12.9.1
 cd Code.12.9.1
 
 # Create and checkout a new branch "GC_12.9.1" at the tag "12.9.1"
 git checkout -b GC_12.9.1 12.9.1
 cd .. 

 # Download the GEOS-Chem Unit Tester, from which run directories can be generated
 git clone https://github.com/geoschem/geos-chem-unittest UT
 cd UT
 
 # Create and checkout a new branch "GC_12.9.1" at the tag "12.9.1"
 git checkout -b GC_12.9.1 12.9.1

Important: Make sure you also download the new data directories for this version and for version 12.9.0.

This version contains fixes for bugs and technical issues discovered during the 12.9.0 benchmarking process.

Feature Submitted by Type Notes and References
Updates that WILL NOT AFFECT the full-chemistry simulation
Bug fix: Fixed a lingering issue that caused the GEOS-Chem dry-run not to recognize missing files Bob Yantosca (GCST) Bug fix
Fix run-time error when optional Luo wet deposition scheme is turned on Lizzie Lundgren (GCST) Bug fix
Fixes for interpolating RCP emissions data via HEMCO Jenny Fisher (Wollongong)
Melissa Sulprizio (GCST)
Bob Yantosca (GCST) 		Bug fix
  • The RCP emissions are turned off by default in the full-chemistry simulations. This update will not affect benchmark results.

New data directories in 12.9.1

The following data directories have been added or updated in this version. You will have to download the directories relevant to your simulation.

Inventory Type What was added? Directory
RCP OPTIONAL Fixes for interpolating RCP emissions data via HEMCO HEMCO/RCP/v2020-07/

Previously released stable versions

We list below past releases of GEOS-Chem. But we recommend that you always download the current stable version listed above when starting a new research project.

12.9.0

This version was released on 17 Jul 2020.

DOI: TBD

You can use the following Git commands to download the GEOS-Chem 12.9.0 source code and GEOS-Chem Unit Tester package. 

 # Download the GEOS-Chem source code
 git clone https://github.com/geoschem/geos-chem Code.12.9.0
 cd Code.12.9.0
 
 # Create and checkout a new branch "GC_12.9.0" at the tag "12.9.0"
 git checkout -b GC_12.9.0 12.9.0
 cd .. 

 # Download the GEOS-Chem Unit Tester, from which run directories can be generated
 git clone https://github.com/geoschem/geos-chem-unittest UT
 cd UT
 
 # Create and checkout a new branch "GC_12.9.0" at the tag "12.9.0"
 git checkout -b GC_12.9.0 12.9.0

Important: Make sure you also download the new data directories for this version.

Please see the following links for complete information about the validation of GEOS-Chem 12.9.0:

  1. 1-month benchmark for GEOS-Chem Classic
  2. 1-month benchmark for GCHP
  3. 1-year full-chemistry benchmark for GEOS-Chem Classic
Feature Submitted by Type Notes and References
Updates that WILL AFFECT the full-chemistry simulation
Updated halogen chemistry Xuan Wang (Harvard) Science
Improved cloudwater pH Viral Shah (Harvard)
Jonathan Moch (Harvard) 		Science
Update offline lightning data through Dec 2019 Lee Murray (Rochester) Science
Convert GEOS-Chem species database to YAML format, includes: Melissa Sulprizio (GCST)
Bob Yantosca (GCST) 		Structural
Update GEOS-Chem core to apply masking and scaling to HEMCO inputs Lizzie Lundgren (GCST) Structural
  • Will introduce numerical noise differences due to precision change
Bug fix: Restore missing photolysis reactions from 12.8.0 and add an extra error check Melissa Sulprizio (GCST) Bug fix
Bug fix: remove inefficient code that was slowing down computation of heterogenous chemistry rates Bob Yantosca (GCST) Bug fix
  • Will introduce numerical differences due to removing inconsistently-defined parameters
Updates that WILL NOT AFFECT the full-chemistry simulation
Corrected issue in GEOS-Chem dry-run where some files were not being properly marked for download Bob Yantosca (GCST) Bug fix
Bug fixes for the ObsPack diagnostic: Bob Yantosca (GCST) Bug fix
Fixes for reading meteorology fields in HEMCO: Melissa Sulprizio (GCST) Bug fix
Restore missing metadata for satellite timeseries diagnostics Melissa Sulprizio (GCST) Bug fix
Fix bug compiling with Luo wet deposition scheme option Lizzie Lundgren (GCST) Bug fix
Updates that affect GCHP only
Fix bug where non-advected species not updated in restart file Sebastian Eastham (MIT) Bug fix

New data directories in 12.9.0

The following data directories have been added or updated in this version. You will have to download the directories relevant to your simulation.

Inventory Type What was added? Directory
OFFLINE_LIGHTNING DEFAULT
(full-chemistry simulations) 		Update offline lightning data through Dec 2019 HEMCO/OFFLINE_LIGHTNING/v2020-03/

12.8.2

This version was released on 27 May 2020.

DOI: 10.5281/zenodo.3860693

GEOS-Chem 12.8.2 contains minor fixes, as well as structural changes needed for WRF-GC development.

Feature Submitted by Type Notes and References
Updates that WILL NOT AFFECT the full-chemistry simulation
Bug fix: Set version numbers to 12.8.2 in CMakeLists.txt and gc_classic_version.H Bob Yantosca (GCST) Bug fix
Updates to facilitate WRF-GC development: Haipeng Lin (Harvard) Structural

12.8.1

This version was released on 21 May 2020.

DOI: 10.5281/zenodo.3837666

GEOS-Chem 12.8.1 fixes several issues that were discovered during and after the 12.8.0 benchmarking process.

You can use the following Git commands to download the GEOS-Chem 12.8.1 source code and GEOS-Chem Unit Tester package. 

 # Download the GEOS-Chem source code
 git clone https://github.com/geoschem/geos-chem Code.12.8.1
 cd Code.12.8.1
 
 # Create and checkout a new branch "GC_12.8.1" at the tag "12.8.1"
 git checkout -b GC_12.8.1 12.8.1
 cd .. 

 # Download the GEOS-Chem Unit Tester, from which run directories can be generated
 git clone https://github.com/geoschem/geos-chem-unittest UT
 cd UT
 
 # Create and checkout a new branch "GC_12.8.1" at the tag "12.8.1"
 git checkout -b GC_12.8.1 12.8.1

For GCHP users only: Make sure you also download the new data directories for this version.

Feature Submitted by Type Notes
Features NOT affecting the full-chemistry simulation:
Update the dry-run download data script to make files group-writeable Bob Yantosca (GCST) Bug fix
Add more timers for gas-phase chemistry Melissa Sulprizio (GCST) Structural
Reduce the amount of memory that GEOS-Chem dry-runs require Bob Yantosca (GCST) Bug fix
Add bounds-checking and floating point exceptions to CMake "Debug" target Melissa Sulprizio (GCST) Structural
Fix incorrect indexing for AOD diagnostics Melissa Sulprizio (GCST) Bug fix
Updates for GEOS-Chem "Classic" HISTORY diagnostics: Bob Yantosca (GCST) Bug fix
Allow for missing species in boundary conditions Melissa Sulprizio (GCST) Bug fix
Disable FlexGrid checks to allow for running with any horizontal or vertical grid Melissa Sulprizio (GCST) Bug fix
Fixes for WRF-GC and CESM-GC, including: Haipeng Lin (Harvard) Bug fix
Add fix for POPs emissions diagnostics Melissa Sulprizio (GCST) Bug fix
Avoid memory corruption bug in HEMCO when certain debug flags are on Sebastian Eastham (MIT) Bug fix
Fix bug causing seg fault when ConcAboveSfc diagnostic collection is on Lizzie Lundgren (Harvard) Bug fix
Fix bug causing crash if not starting on the first day and time of the month Lizzie Lundgren (Harvard) Bug fix
Features affecting GCHP only:
Fix incorrect GCHP config file entry for surf_iodide source file in 12.8.0 Lizzie Lundgren (Harvard) Bug fix
Avoid unexpected behavior if dynamic timestep is changed to non-default values Lizzie Lundgren (Harvard) Bug fix
Fix input data to avoid crashing in late Dec/early Jan if using offline biogenic VOCs Lizzie Lundgren (Harvard) Bug fix
  • See updated data directories section below
Add internal state met variables to benchmark and transport tracers simulations Lizzie Lundgren (Harvard) Output data
  • For use in benchmarking
Enable all budget diagnostics output in GCHP transport tracer simulation by default Lizzie Lundgren (Harvard) Output data
  • For use in benchmarking

New or updated data directories in 12.8.1

The following data directories have been added or updated in this version. You will have to download the directories relevant to your simulation.

Inventory Type What was added? Directory
OFFLINE_BIOVOC Default Update time dimension attribute to reflect current day in late December and early January for all GEOS-FP and MERRA2 years. This update impacts only GCHP. HEMCO/OFFLINE_BIOVOC/v2019-10


12.8.0

This version was released on 04 May 2020.

DOI: 10.5281/zenodo.3784796

You can use the following Git commands to download the GEOS-Chem 12.8.0 source code and GEOS-Chem Unit Tester package. 

 # Download the GEOS-Chem source code
 git clone https://github.com/geoschem/geos-chem Code.12.8.0
 cd Code.12.8.0
 
 # Create and checkout a new branch "GC_12.8.0" at the tag "12.8.0"
 git checkout -b GC_12.8.0 12.8.0
 cd .. 

 # Download the GEOS-Chem Unit Tester, from which run directories can be generated
 git clone https://github.com/geoschem/geos-chem-unittest UT
 cd UT
 
 # Create and checkout a new branch "GC_12.8.0" at the tag "12.8.0"
 git checkout -b GC_12.8.0 12.8.0

Important: Make sure you also download the new data directories for this version.

Please see the following links for complete information about the validation of GEOS-Chem 12.8.0:

  1. 1-month benchmark for GEOS-Chem Classic
  2. 1-month benchmark for GCHP
  3. 1-year transport tracer benchmark for GEOS-Chem Classic
  4. 1-year full-chemistry benchmark for GEOS-Chem Classic
Feature Submitted by Type Notes and References
Features affecting the full-chemistry simulation:
Isoprene chemistry Kelvin Bates (Harvard) Science
Wet deposition parameterization Kelvin Bates (Harvard)
Sarah Safieddine (MIT) 		Science
Ozone deposition to the ocean Ryan Pound (York)
Mat Evans (York) 		Science
Use online DustDead, MEGAN, SeaSalt, and SoilNOx emissions for benchmark simulations Melissa Sulprizio (GCST) Science
Shift CMIP6 time from middle to start of month to allow start in January Lizzie Lundgren (GCST) Bug fix
Features NOT affecting the full-chemistry simulation:
GFED 4.1s beta emissions for 2017-2019 Maggie Marvin (U. Edinburgh) Science
Replace State_Chm%nAero with State_Chm%nAeroSpc and State_Chm%nAeroType Seb Eastham (MIT)
Bob Yantosca (GCST) 		Structural
Convert all files in GeosCore, GeosUtil, and Headers to .F90 Melissa Sulprizio (GCST) Structural
Change GEOS-Chem timers from a CPP switch to an option in input.geos Melissa Sulprizio (GCST) Structural
Remove potential for surface CH4 retrieval error in SET_CH4 due to reliance on HEMCO emissions year Christoph Keller (GMAO) Bug fix
Features affecting GCHP only:
Fix leap year handling bug in GCHP multi-run script Lizzie Lundgren (Harvard) Bug Fix
Fix SH surface ozone bias Sebastian Eastham (MIT)
Lizzie Lundgren (Harvard) 		Bug Fix

New data directories in 12.8.0

The following data directories have been added or updated in this version. You will have to download the directories relevant to your simulation.

Inventory Type What was added? Directory
CMIP6 DEFAULT
(UCX-based simulations) 		Shift time values from middle of month to start of month HEMCO/CMIP6/v2020-03
OCEAN_O3_DRYDEP DEFAULT Ozone deposition to the ocean HEMCO/OCEAN_O3_DRYDEP/v2020-02
GFED4 DEFAULT GFED 4.1s beta emissions for 2017-2019 (previous years are unchanged from GFED4/v2015-10) HEMCO/GFED4/v2020-02

12.7.2

This version was released on 09 Mar 2020.

DOI: 10.5281/zenodo.3701669

You can use the following Git commands to download the GEOS-Chem 12.7.2 source code and GEOS-Chem Unit Tester package. 

 # Download the GEOS-Chem source code
 git clone https://github.com/geoschem/geos-chem Code.12.7.2
 cd Code.12.7.2
 
 # Create and checkout a new branch "GC_12.7.2" at the tag "12.7.2"
 git checkout -b GC_12.7.2 12.7.2
 cd .. 

 # Download the GEOS-Chem Unit Tester, from which run directories can be generated
 git clone https://github.com/geoschem/geos-chem-unittest UT
 cd UT
 
 # Create and checkout a new branch "GC_12.7.2" at the tag "12.7.2"
 git checkout -b GC_12.7.2 12.7.2

Important: Make sure you also download the new data directories for this version.

This version fixed several minor issues identified during the 12.7.0 benchmarking process.

Feature Submitted by Type Notes and References
Features affecting the full-chemistry simulation:
Restrict wet scavenging to troposphere in Luo et al 2019 wetdep scheme
  • NOTE: The Luo et al 2019 wetdep scheme is turned OFF by default, but can be used for research purposes.
 Gan Luo (Albany)
Transport Working Group
Bob Yantosca (GCST) 		Bug fix
Bug fix for reading 3-hourly boundary condition files after hour 21 Melissa Sulprizio (GCST) Bug fix
Remove unused routines in regrid_a2a_mod.F90 Haipeng Lin (Harvard) Structural
Features affecting the GCHP only:
Fix pointer retrieval error in SET_CH4 introduced in 12.7.0 when running at c180+
  • NOTE: This also corrects a long-standing and previously unidentified issue when running with reduced timesteps
 Lizzie Lundgren (GCST) Bug fix
Use new Ordonez files to avoid error in MAPL when running at c360 Lizzie Lundgren (GCST) Bug fix

New data directories in 12.7.2

The following data directories have been added or updated in this version. You will have to download the directories relevant to your simulation.

Inventory Type What was added? Directory
IODINE Default (GCHP) Shifted latitude range HEMCO/IODINE/v2020-02

12.7.1

This version was released on 19 Feb 2020.

DOI: 10.5281/zenodo.3676008

You can use the following Git commands to download the GEOS-Chem 12.7.1 source code and GEOS-Chem Unit Tester package. 

 # Download the GEOS-Chem source code
 git clone https://github.com/geoschem/geos-chem Code.12.7.1
 cd Code.12.7.1
 
 # Create and checkout a new branch "GC_12.7.1" at the tag "12.7.1"
 git checkout -b GC_12.7.1 12.7.1
 cd .. 

 # Download the GEOS-Chem Unit Tester, from which run directories can be generated
 git clone https://github.com/geoschem/geos-chem-unittest UT
 cd UT
 
 # Create and checkout a new branch "GC_12.7.1" at the tag "12.7.1"
 git checkout -b GC_12.7.1 12.7.1

Important: Make sure you also download the new data directories for this version.

This version fixed several minor issues identified during the 12.7.0 benchmarking process.

Feature Submitted by Type Notes and References
Features NOT affecting the full-chemistry simulation:
Prevent excessive scavenging in the stratosphere in the Luo et al 2019 wet deposition scheme
  • The Luo wetdep scheme is turned off by default in the standard simulation.
  • Further fixes will be applied in 12.7.2.
 Gan Luo (Albany)
Transport Working Group
Bob Yantosca (GCST) 		Bug fix
Bug fixes for the TOMAS microphysics simulation Dana McGuffin (CMU)
Bob Yantosca (GCST) 		Bug fix
Bug fix for ND51/ND51b satellite timeseries w/ nested-grid simulations Bob Yantosca (GCST) Bug fix
Bug fix in computation of AOD from isoprene SOA diagnostic Jun Meng (GCST)
Bob Yantosca (GCST) 		Bug fix
Bug fixes for ObsPack diagnostic re: instantaneous sampling Charley Fite (FSU) Bug fix
Fix for segmentation fault when dry deposition is turned off Lizzie Lundgren (GCST) Bug fix
Fix WRF-GC SetGridFromCtrEdges interface Haipeng Lin (Harvard) Bug fix
Features only affecting GCHP:
Fix bug where GCHP 12.7.0 standard run failed if emissions turned off Lizzie Lundgren (GCST) Bug fix
https://github.com/geoschem/geos-chem/issues/227 Update MEGAN file used in GCHP 12.7.0 that caused run failure if using gfortran] Lizzie Lundgren (GCST) Bug fix
Add MODEL_GCHP (and MODEL_CLASSIC) as CPP options in GEOS-Chem Lizzie Lundgren (GCST) Structural

New data directories in 12.7.1

The following data directories have been added or updated in this version. You will have to download the directories relevant to your simulation.

Inventory Type What was added? Directory
MEGAN Default (GCHP) Changed seconds string in time dimension units attribute from '0.0' to '00' HEMCO/MEGAN/v2020-02

12.7.0

This version was released on 03 Feb 2020.

DOI: 10.5281/zenodo.3634864

You can use the following Git commands to download the GEOS-Chem 12.7.0 source code and 12.7.0 GEOS-Chem Unit Tester package.

You can also use our GEOS-Chem 12.7.0 tutorial AMI to initialize your Amazon Web Services cloud instance with a pre-compiled GEOS-Chem 12.7.0 executable and all required software libraries. For more details, see our Quick Start Guide at cloud.geos-chem.org. 

 # Download the GEOS-Chem source code
 git clone https://github.com/geoschem/geos-chem Code.12.7.0
 cd Code.12.7.0
 
 # Create and checkout a new branch "GC_12.7.0" at the tag "12.7.0"
 git checkout -b GC_12.7.0
 cd .. 

 # Download the GEOS-Chem Unit Tester, from which run directories can be generated
 git clone https://github.com/geoschem/geos-chem-unittest UT
 cd UT
 
 # Create and checkout a new branch "GC_12.7.0" at the tag "12.7.0"
 git checkout -b GC_12.7.0 12.7.0

Please see the following links for complete information about the validation of GEOS-Chem 12.7.0:

  1. 1-month benchmark for GEOS-Chem Classic
  2. 1-month benchmark for GCHP
  3. 1-year transport tracer benchmark for GEOS-Chem Classic
Feature Submitted by Type Notes and References
Features affecting the full-chemistry simulation:
Small alkyl nitrate chemistry Jenny Fisher (Wollongong) Science
Methanol as part of standard chemical mechanism Xin Chen (UMN)
Dylan Millet (UMN)
Katie Travis (NASA) 		Science
Update to Yuan processed MODIS LAI product (covering years 2005-2016) GCST Science
Latitudinally and monthly resolved fixed surface concentrations for long-lived organohalogen species (1750-2014) and methane (prior to 1979) Tomás Sherwen (York)
Lee Murray (Rochester) 		Science
Bug fix: Prevent differences in chemistry caused by toggling the ND65 bpch diagnostics off or on Bob Yantosca (GCST) Bug fix
Fix incorrect uptake coefficient for N2O5 in heterogeneous chemistry Hyeonmin Kim (Seoul Nat'l U.)
Chris Holmes (FSU) 		Bug fix
Fix offline dust scale factors Jun Meng (GCST) Bug fix
Features NOT affecting the full-chemistry simulation:
Add GEOS-Chem "dry-run" option to obtain a list of required input files Haipeng Lin (Harvard)
Jiawei Zhuang (Harvard)
Bob Yantosca (GCST) 		Structural
HEMCO 2.2.0: Updates and fixes to improve file I/O Melissa Sulprizio (GCST) Structural
  • Needed for Yuan processed MODIS LAI
Implement Gan Luo et al wetdep (GMD-12-3439-2019) as an option Gan Luo (SUNY-Albany)
Fangqun Yu (SUNY-Albany)
Bob Yantosca (GCST) 		Science (optional)
CH4 soil absorption from MeMo model Melissa Sulprizio (Harvard) Science
Removal of most binary punch (aka "bpch") diagnostics

NOTE: The following bpch diagnostics will be preserved for the time being:

  • For RRTMG: ND72
  • For TOMAS: ND06, ND44, ND59, ND60, ND61
  • For Hg: ND03
  • For POPS: ND53
  • For Satellite timeseries: ND51, ND51b
 GCST Structural
Add netCDF diagnostic for UV fluxes from FAST-JX Jonathan Moch (Harvard)
Bob Yantosca (GCST) 		Structural
KPP equation reactivity rate and OH reactivity diagnostics Christoph Keller (GMAO) Structural
Bug fix for HEMCO standalone using high-resolution input grids Chris Holmes (FSU) Bug fix
Incorrect units returned from GET_OH in sulfate_mod.F Rong Tian (NUIST) Bug fix
Use common build_mechanism.sh script for all KPP mechanisms Lizzie Lundgren (GCST) Structural
Features only affecting GCHP:
Preserve mass conservation when advection is off by adding delta pressure to internal state for mixing ratio scaling during initialization Lizzie Lundgren (GCST) Bug fix
Use same CEDS anthropogenic emissions inventory as GC Classic, including 1750-1949 and additional VOC species Lizzie Lundgren (GCST) Structural
Assorted GCHP structural changes to facilitate GEOS-Chem in GEOS Lizzie Lundgren (GCST) Structural
Use same precision in non-species Internal state variables and the equivalent GEOS-Chem states (REAL8) Lizzie Lundgren (GCST) Bug fix
Update ESMF to v8.0.0 public release Lizzie Lundgren (GCST) Structural

New data directories in 12.7.0

The following data directories have been added or updated in this version. You will have to download the directories relevant to your simulation.

NOTE: In GEOS-Chem 12.7.0 and later versions, you can use the GEOS-Chem dry-run option to simplify the data download process!

Inventory Type What was added? Directory
OFFLINE_BIOVOC Default Offline biogenic VOC emissions generated using GEOS-Chem 12.3.0 and the Yuan-processed MODIS-LAI product HEMCO/OFFLINE_BIOVOC/v2019-10
XUAN_XLAI DEFAULT Yuan-processed MODIS LAI product (covering years 2005-2016) HEMCO/Yuan_XLAI/v2019-03
RONO2 DEFAULT Monthly seawater concentrations of methyl nitrate (MENO3) and ethyl nitrate (ETNO3) needed for small alkyl nitrate chemistry HEMCO/RONO2/v2019-05
MOH DEFAULT Methanol emissions as described in Chen et al. (2019) HEMCO/MOH/v2019-12
CMIP6 DEFAULT
(UCX-based simulations) 		Latitudinally and monthly resolved fixed surface concentrations for long-lived organohalogen species (1750-2014) and methane (prior to 1979) HEMCO/CMIP6/v2019-12
SfcFix DEFAULT
(UCX-based simulations) 		Latitudinally and monthly resolved fixed surface concentrations for long-lived organohalogen species from GMI and UCX (1959-2099) HEMCO/SfcFix/v2019-12
MODIS_CHLR OPTIONAL MODIS-Aqua Chlorophyll-A data for use in the marinePOA simulation HEMCO/MODIS_CHLR/v2019-11

12.6.3

This version was released on 25 Nov 2019.

DOI: 10.5281/zenodo.3552959

You can use the following Git commands to download the GEOS-Chem 12.6.3 source code and 12.6.0 GEOS-Chem Unit Tester package. 

 # Download the GEOS-Chem source code
 git clone https://github.com/geoschem/geos-chem Code.12.6.3
 cd Code.12.6.3
 
 # Create and checkout a new branch "GC_12.6.3" at the tag "12.6.3"
 git checkout -b GC_12.6.3 12.6.3
 cd .. 

 # Download the GEOS-Chem Unit Tester, from which run directories can be generated
 git clone https://github.com/geoschem/geos-chem-unittest UT
 cd UT
 
 # Create and checkout a new branch "GC_12.6.0" at the tag "12.6.0"
 # NOTE: You can use 12.6.0 rundirs, as GC 12.6.3 does not change rundirs.
 git checkout -b GC_12.6.0 12.6.0

Important: Make sure you also download the new data directories for this version.

Feature Submitted by Type Notes and References
Features only affecting GCHP:
Fix bug preventing successful transport tracer simulation runs Lizzie Lundgren (GCST) Bug fix

12.6.2

This version was released on 15 Nov 2019.

DOI: 10.5281/zenodo.3543702

You can use the following Git commands to download the GEOS-Chem 12.6.2 source code and 12.6.0 GEOS-Chem Unit Tester package. 

 # Download the GEOS-Chem source code
 git clone https://github.com/geoschem/geos-chem Code.12.6.12
 cd Code.12.6.2
 
 # Create and checkout a new branch "GC_12.6.2" at the tag "12.6.2"
 git checkout -b GC_12.6.2 12.6.2
 cd .. 

 # Download the GEOS-Chem Unit Tester, from which run directories can be generated
 git clone https://github.com/geoschem/geos-chem-unittest UT
 cd UT
 
 # Create and checkout a new branch "GC_12.6.0" at the tag "12.6.0"
 # NOTE: You can use 12.6.0 rundirs, as GC 12.6.2 does not change rundirs.
 git checkout -b GC_12.6.0 12.6.0

Important: Make sure you also download the new data directories for this version.

Feature Submitted by Type Notes and References
Features NOT affecting the full-chemistry simulation:
geoschem/geos-chem Now make sure the HEMCO standalone gets the proper met field name and grid resolution Jun Meng (GCST)
Bob Yantosca (GCST) 		Bug Fix
Prevent overwriting restart variables H2O2AfterChem and SO2AfterChem if present Lizzie Lundgren (GCST) Bug Fix
Features only affecting GCHP:
Fix incorrect vertical flipping of MAPL 3D imports impacting mesospheric chemistry Lizzie Lundgren (GCST)
Sebastian Eastham (MIT) 		Bug fix
  • Fixes issue introduced in 12.5.0
Fix incorrect mapping between internal state H2O2AfterChem and the equivalent State_Chm field Lizzie Lundgren (GCST) Bug fix
Fix two timestep delay in update time for LAI upon day change Lizzie Lundgren (GCST) Bug fix

12.6.1

This version was released on 28 Oct 2019.

DOI: 10.5281/zenodo.3520966

You can use the following Git commands to download the GEOS-Chem 12.6.1 source code and 12.6.0 GEOS-Chem Unit Tester package. 

 # Download the GEOS-Chem source code
 git clone https://github.com/geoschem/geos-chem Code.12.6.1
 cd Code.12.6.1
 
 # Create and checkout a new branch "GC_12.6.1" at the tag "12.6.1"
 git checkout -b GC_12.6.1 12.6.1
 cd .. 

 # Download the GEOS-Chem Unit Tester, from which run directories can be generated
 git clone https://github.com/geoschem/geos-chem-unittest UT
 cd UT
 
 # Create and checkout a new branch "GC_12.6.0" at the tag "12.6.0"
 # NOTE: You can use 12.6.0 rundirs, as GC 12.6.1 does not change rundirs.
 git checkout -b GC_12.6.0 12.6.0

Important: Make sure you also download the new data directories for this version.

Feature Submitted by Type Notes and References
Updates that will NOT affect full-chemistry simulations
Fix CMake error message for when NetCDF is not found Liam Bindle (Dalhousie) Bug fix
Fix units for PRECANV, PRECCON, PRECLSC, PRECTOT in state_met_mod.F90 Tomas Sherwen (York) Bug fix
Various minor structural updates:
  1. ObsPack now defaults to hourly sampling if a sampling interval is not found in data files
  2. GEOS-Chem now prints the full path of each file that is read
  3. GNU Fortran 9.2.1 can now compile GEOS-Chem
  4. Use Microsoft Azure DevOps instead of TravisCI for continuous integration
 Bob Yantosca (GCST)
Liam Bindle (GCST) 		Structural
Features only affecting GCHP:
Fix regridding bug at poles Lizzie Lundgren (GCST) Bug fix
  • Corrects problem running with MERRA2

12.6.0

This version was released on 18 Oct 2019.

DOI: 10.5281/zenodo.3507501

You can use the following Git commands to download the GEOS-Chem 12.6.0 source code and GEOS-Chem Unit Tester package. 

 # Download the GEOS-Chem source code
 git clone https://github.com/geoschem/geos-chem Code.12.6.0
 cd Code.12.6.0
 
 # Create and checkout a new branch "GC_12.6.0" at the tag "12.6.0"
 git checkout -b GC_12.6.0 12.6.0
 cd .. 

 # Download the GEOS-Chem Unit Tester, from which run directories can be generated
 git clone https://github.com/geoschem/geos-chem-unittest UT
 cd UT
 
 # Create and checkout a new branch "GC_12.6.0" at the tag "12.6.0"
 git checkout -b GC_12.6.0 12.6.0

Important: Make sure you also download the new data directories for this version.

Please see the following links for complete information about the validation of GEOS-Chem 12.6.0:

  1. 1-month benchmark for GEOS-Chem Classic
  2. 1-month benchmark for GCHP
  3. 1-year benchmark for GEOS-Chem Classic
Feature Submitted by Type Notes and References
Updates that will affect full-chemistry simulations
Combined heterogeneous chemistry updates, includes
  • N2O5, NO3, NO2 reactive uptake updates
  • Subgrid cloud NOy chemistry
 Chris Holmes (FSU)
Erin McDuffie (Dalhousie)
Viral Shah (UW)
Lyatt Jaegle (UW) 		Science
HNO3 cold-temperature deposition Viral Shah (Harvard) Science


Quick fix for aerosol pH calculation when dry Becky Alexander (UW)
Xuan Wang (Harvard) 		Science
Remove isoprene in VBS (leaving aqueous) Melissa Sulprizio (GCST) Science
Updated aerosol hygroscopicity and optics Robyn Latimer (Dalhousie)
Jun Meng (Dalhousie) 		Science See New data directories in 12.6.0
Add EDGAR BCPI and BCPO emissions for remaining sectors to DICE-Africa Tomas Sherwen (York)
Eloise Marais (Leicester) 		Bug fix geoschem/geos-chem-unittest PR #9
Updates that will NOT affect full-chemistry simulations
Simple parameterization for CO2 dependence of stomatal resistance (off by default) Amos Tai (CUHK) Science geoschem/geos-chem PR #41
Aerosol nitrate photolysis option (off by default) Tomas Sherwen (York)
Prasad Kasibhatla (Duke) 		Science geoschem/geos-chem PR #32
CMake in GEOS-Chem Classic (optional) Liam Bindle (Dalhousie) Structural geoschem/geos-chem PR #35
Enable GEOS-Chem "Classic" netCDF (History) diagnostics to be subsetted vertically and horizontally Bob Yantosca (GCST) Structural
BB4CMIP historical biomass burning emissions (1750-2014)
  • NOTE: This is an optional emissions inventory.
 Pengfei Liu (Harvard) Science See New data directories in 12.6.0
Surface diagnostic (O3, HNO3) with user-selected height Katie Travis (MIT)
GCST 		Science
APM update and integration with GEOS-Chem 12 Gan Luo (SUNY-Albany)
Fangqun Yu (SUNY-Albany) 		Science geoschem/geos-chem PR #40
  • More work (e.g. converting RF diagnostics to netCDF) will be done in a later version

New data directories in 12.6.0

The following data directories have been added or updated in this version. You will have to download the directories relevant to your simulation.

Inventory Type What was added? Directory
FAST_JX DEFAULT CHEM_INPUTS/FAST_JX/v2019-06
BB4CMIP6 OPTIONAL Historical biomass burning emissions (1750-2015, BB4CMIP) HEMCO/BB4CMIP6/v2019-06

12.5.0

This version was released on 09 Sep 2019.

DOI: 10.5281/zenodo.3403111

You can use the following Git commands to download the GEOS-Chem 12.5.0 source code and GEOS-Chem Unit Tester package. 

 # Download the GEOS-Chem source code
 git clone https://github.com/geoschem/geos-chem Code.12.5.0
 cd Code.12.5.0
 
 # Create and checkout a new branch "GC_12.5.0" at the tag "12.5.0"
 git checkout -b GC_12.5.0 12.5.0
 cd .. 

 # Download the GEOS-Chem Unit Tester, from which run directories can be generated
 git clone https://github.com/geoschem/geos-chem-unittest UT
 cd UT
 
 # Create and checkout a new branch "GC_12.5.0" at the tag "12.5.0"
 git checkout -b GC_12.5.0 12.5.0

Important: Make sure you also download the new data directories for this version.

Please see the following links for complete information about the validation of GEOS-Chem 12.5.0:

  1. 1-month benchmark for GEOS-Chem Classic
  2. 1-month benchmark for GCHP

This version includes the updates listed below.

Feature Submitted by Type Notes and References
Updates that will affect full-chemistry simulations
Retire obsolete emission inventories Eloise Marais (Leicester)
Emissions and Deposition Working Group 		Science
Updated offline biogenic emissions generated with GEOS-Chem 12.3.0 Hongjian Weng (PKU) Science
Updated volcano emissions to include eruptive emissions through April 2018 Christoph Keller (NASA/GMAO) Science
Remove CO from MEGAN HEMCO extension to avoid double counting Jenny Fisher (Wollongong) Bug fix
Fixes for GFED4 emissions, including:
  • Change the HEMCO cycling flag so that the model crashes if it doesn't find the right GFED year
  • Remove the 27% scaling of POG to POA and emit 1:1 instead
 Sidhant Pai (MIT) Bug fix
Scale DICE-Africa emissions to address errors in inventory Eloise Marais (Leicester) Bug fix
Bug fix for C3H8 anthropogenic emissions Melissa Sulprizio (GCST) Bug fix
Separate anthropogenic PM2.5 dust source from the DustDead extension Melissa Sulprizio (GCST) Bug fix
Corrections for CFCs in the chemistry mechanism Xuan Wang (Harvard) Bug fix
Fix typo in CLD_PARAMS routine in gckpp_HetRates.F90 Stephen Steenrod (NASA GMAO) Bug fix
Bug fix: make sure stratospheric BrY concentrations are read properly each month Lyatt Jaeglé (U. Washington) Bug fix
Updates that will NOT affect full-chemistry simulations
Enable accurate cloud pH diagnostic calculation via post-processing Jonathan Moch (Harvard) Structural geoschem/geos-chem PR #37
  • Applies to NetCDF diagnostic only
Bug fix for proposed Henry's law constants Jenny Fisher (Wollongong) Bug fix
Updates that will only affect GCHP
Update GCHP to use MAPL v1.0.0 and ESMF v8.0.0 beta snapshot 28 Lizzie Lundgren (GCST) Structural
  • Replaces external tile files with online ESMF regridding weights
  • Includes parallel file I/O module
  • Enables use of GNU fortran compiler
Replace 4x5 input files in GCHP with higher resolution equivalents to avoid ESMF domain decomposition issue at high core counts Lizzie Lundgren (GCST) Emissions

New data directories in 12.5.0

The following data directories have been added or updated in this version. You will have to download the directories relevant to your simulation.

Inventory Type What was added? Directory
OFFLINE_BIOVOC Default Offline biogenic VOC emissions generated using GEOS-Chem 12.3.0 and:
  • GEOS-FP meteorology (0.25°x0.3125°, 2014-2017)
  • MERRA-2 meteorlogy (0.5°x0.625°, 1980-2017)
 HEMCO/OFFLINE_BIOVOC/v2019-08
Volcano Default Updated volcanic SO2 emissions (1978-2019), with eruptive emissions through 28 April 2018 HEMCO/VOLCANO/v2019-08
AFCID Default Separate anthropogenic PM2.5 dust emissions from the DustDead extension HEMCO/AFCID/v2018-04
C2H6_2010 Default Removed unused lev dimension and include 2x2.5 files regridded from 4x5 HEMCO/C2H6_2010/v2019-06
DUST_DEAD Optional Changed longitude dimension format from integer to float and time units seconds string from '0.0' to '00' HEMCO/DUST_DEAD/v2019-06
UVALBEDO Default Changed seconds string in time dimension units attribute from '0.0' to '00' HEMCO/UVALBEDO/v2019-06
TOMS/SBUV Default Changed seconds string in time dimension units attribute from '0.0' to '00' HEMCO/TOMS_SBUV/v2019-06
India mask Default Removed unused attribute 'valid_range' HEMCO/MASKS/v2019-05
BIOFUEL Default Regridded from 4x5 to 2x2.5 HEMCO/BIOFUEL/v2019-08

12.4.0

This version was released on 05 Aug 2019.

DOI 10.5281/zenodo.3360635

NOTE: We recommend users update to GEOS-Chem 12.5.0, which contains some bug fixes and updates for the offline biogenic VOC and volcano emissions.

Please see the following links for complete information about the validation of GEOS-Chem 12.4.0:

  1. 1-month benchmark for GEOS-Chem Classic
  2. 1-month benchmark for GCHP
  3. 1-year benchmark for GEOS-Chem Classic

This version includes the updates listed below.

Feature Submitted by Type Notes and References
Features affecting the full-chemistry simulation:
Grid-independent dust emissions (hourly) David Ridley (CARB, formerly MIT)
Jun Meng (Dalhousie) 		Science See New data directories in 12.4.0
Grid-independent lightning NOx emissions (3-hourly) Lee Murray (Rochester) Science See New data directories in 12.4.0
Grid-independent biogenic emissions (hourly) Jintai Lin (PKU)
Hongjian Meng (PKU) 		Science See New data directories in 12.4.0
Grid-independent sea salt emissions (hourly) Jintai Lin (PKU)
Hongjian Meng (PKU) 		Science See New data directories in 12.4.0
Grid-independent soil NOx emissions (hourly) Jintai Lin (PKU)
Hongjian Meng (PKU) 		Science See New data directories in 12.4.0
Updated volcano emissions (1978-2019) Christoph Keller (NASA/GMAO) Science See New data directories in 12.4.0
Bug fix: Rebuild chemical mechanisms for FAST-JX fix added in 12.3.2 Katie Travis (NASA) Bug fix
Features NOT affecting the full-chemistry simulation:
FlexGrid Stage 2: Add capability to define custom grids Melissa Sulprizio (GCST)
Jiawei Zhuang (Harvard) 		Structural
Add photolysis menu to input.geos for specifying FAST-JX directory Tomas Sherwen (York) Structural geoschem/geos-chem PR #34

New data directories in 12.4.0

The following data directories have been added or updated in this version. You will have to download the directories relevant to your simulation.

Inventory Type What was added? Directory
OFFLINE_DUST Default Offline dust emissions generated with:
  • GEOS-FP meteorology (0.25°x0.3125°, 2014-present)
  • MERRA-2 meteorlogy (0.5°x0.625°, 1980-present)
 HEMCO/OFFLINE_DUST/v2019-01
OFFLINE_LIGHTNING Default Offline lightning flash densities and convective-cloud depths generated with:
  • GEOS-FP meteorology (0.25x0.3125, 2014-2018)
  • MERRA-2 meteorology (0.5x0.625, 1980-2018).
 HEMCO/OFFLINE_LIGHTNING/v2019-01
OFFLINE_BIOVOC Default Offline biogenic VOC emissions generated using GEOS-Chem v11-02 and:
  • GEOS-FP meteorology (0.25°x0.3125°, 2014-2017)
  • MERRA-2 meteorlogy (0.5°x0.625°, 1980-2017)
 HEMCO/OFFLINE_BIOVOC/v2019-01
OFFLINE_SEASALT Default Offline sea salt emissions generated with:
  • GEOS-FP meteorology (0.25°x0.3125°, 2014-2017)
  • MERRA-2 meteorlogy (0.5°x0.625°, 1980-2017)
 HEMCO/OFFLINE_SEASALT/v2019-01
OFFLINE_SOILNOX Default Offline soil NOx emissions generated with:
  • GEOS-FP meteorology (0.25°x0.3125°, 2014-2017)
  • MERRA-2 meteorlogy (0.5°x0.625°, 1980-2017)
 HEMCO/OFFLINE_SOILNOX/v2019-01
Volcano Default Updated volcanic SO2 emissions (1978-2019), with eruptive emissions through 3 Dec 2015 HEMCO/VOLCANO/v2019-04/

12.3.2

This version was released on 02 May 2019.

DOI 10.5281/zenodo.2658178

You can use the following Git commands to download the GEOS-Chem 12.3.1 source code and GEOS-Chem Unit Tester package. 

 # Download the GEOS-Chem source code
 git clone -b 12.3.2 https://github.com/geoschem/geos-chem Code.12.3.2
 cd Code.12.3.2
 git checkout 12.3.2
 cd ..

 # Download the GEOS-Chem Unit Tester, from which run directories can be generated
 git clone -b 12.3.2 https://github.com/geoschem/geos-chem-unittest UT
 cd UT
 git checkout 12.3.2
 cd ..

Please see the following links for complete information about the validation of GEOS-Chem 12.3.2:

  1. 1-month benchmark simulation 12.3.2 for GCC and GCHP (unofficial)

This version includes the updates listed below.

Feature Submitted by Type Notes
Features affecting the full-chemistry simulation:
Fix inconsistency for species H2402 between GCHP and GEOS-Chem "Classic" Sebastian Eastham (MIT)
GCST 		Bug fix
  • This update results in very minor changes w/r/t the prior 1-month benchmark (Bug fixes for the FAST-JX mechanism):
    • Mean OH changed by -0.0002%
    • MCF lifetime was unchanged
    • CH4 lifetime changed by +0.0012%
Bug fixes for the FAST-JX photolysis mechanism: Bob Yantosca (GCST) Bug fix
  • This update results in very minor changes w/r/t the 12.3.0 1-month benchmark:
    • Mean OH changed by +0.2782%
    • MCF lifetime changed by -0.3597%
    • CH4 lifetime changed by -0.3936%
Updates and fixes for HEMCO diagnostics, including:
  • Enable saving out fertilizer NOx emissions
  • Lightning NOx emissions are 3D not, 2D
  • HNO3 ship emissions are 2D, not 3D
  • Update and fill in missing inventory diagnostics (currently used in only in benchmark simulations)
 Melissa Sulprizio (GCST) Bug fix
  • These fixes impact both GEOS-Chem "Classic" and GCHP
Features NOT affecting the full-chemistry simulation:
Extending the CEDS anthropogenic emissions inventory to include 1750-1949 and additional VOC species Melissa Sulprizio (GCST) Science
Features only affecting GCHP:
Disable Br2 offline seasalt emissions to match GEOS-Chem Classic default Sebastian Eastham (MIT) Bug fix
Assorted GCHP run directory feature updates
  • Rename Makefile clean and build options
  • Remove deprecated Makefile/build.sh clean and build options
  • Remove aliases from sample run scripts
  • Remove output file runConfig.log; send to gchp.log instead
  • Update benchmark run directory to match GEOS-Chem Classic settings
 Lizzie Lundgren (GCST) Structural
  • Users should use 'make' or 'make help' at the command prompt to view all clean and compile options
Embed GEOS code within select GCHP files Lizzie Lundgren (GCST) Structural
  • All GEOS-only code is within if defined MODEL_GEOS blocks and will not impact GCHP simulations

New data directories in 12.3.2

The following data directories have been added or updated in this version. You will have to download the directories relevant to your simulation.

Inventory Type What was added? Directory
FAST_JX DEFAULT
  • The FJX_j2j.dat file (which lists the photolyzing species for FAST-JX) was edited to remove a duplicate entry for ClNO2. This was causing the J-values of ClNO2 to be passed to the solver twice. The new FJX_j2j.dat file corrects this issue.
 CHEM_INPUTS/FAST_JX/v2019-04
UCX chemistry mechanism DEFAULT CHEM_INPUTS/UCX_201904
CEDS OPTIONAL
  • CEDS anthropogenic emissions for 1750-1949. Data now encompasses the entire CEDS record of 1750-2014.
  • New files for additional NMVOCs
 HEMCO/CEDS/v2018-08

12.3.1

This version was released on 08 Apr 2019.

DOI 10.5281/zenodo.2633278

You can use the following Git commands to download the GEOS-Chem 12.3.1 source code and GEOS-Chem Unit Tester package. 

 # Download the GEOS-Chem source code
 git clone -b 12.3.1 https://github.com/geoschem/geos-chem Code.12.3.1

 # Download the GEOS-Chem Unit Tester, from which run directories can be generated
 git clone -b 12.3.1 https://github.com/geoschem/geos-chem-unittest UT
Feature Submitted by Type Notes
Features NOT affecting the full-chemistry simulation:
Fix the netCDF diagnostic for noontime J-values GCST Bug fix
Planeflight diagnostic now writes out data for the last timestep of the day Luke Schiferl (LDEO/Columbia)
GCST 		Bug fix
Reduce memory footprint: Do not allocate memory to array MINIT in strat_chem_mod.F90 Bob Yantosca (GCST) Bug fix
Features only affecting GCHP:
Declare State_Met%AREA_M2 as 2-dimensional, not 3-dimensional GCST Bug fix

12.3.0

This version was released on 01 Apr 2019.

DOI: 10.5281/zenodo.2620535

You can use the following Git commands to download the GEOS-Chem 12.3.0 source code and GEOS-Chem Unit Tester package. 

 # Download the GEOS-Chem source code
 git clone https://github.com/geoschem/geos-chem Code.12.3.0
 cd Code.12.3.0
 
 # Create and checkout a new branch "GC_12.3.0" at the tag "12.3.0"
 git checkout -b GC_12.3.0 12.3.0
 cd .. 

 # Download the GEOS-Chem Unit Tester, from which run directories can be generated
 git clone https://github.com/geoschem/geos-chem-unittest UT
 cd UT
 
 # Create and checkout a new branch "GC_12.3.0" at the tag "12.3.0"
 git checkout -b GC_12.3.0 12.3.0

Important: Make sure you also download the new data directories for this version.

Please see the following links for complete information about the validation of GEOS-Chem 12.3.0:

  1. Approval form for 1-month benchmark simulation 12.3.0

This version includes the updates listed below.

Feature Submitted by Type Notes
Features affecting the full-chemistry simulation:
Update ISORROPIA from v2.0 to v2.2, in order to remove persistent noise in output Seb Eastham (Harvard) Science
Updated PFT file for MEGAN Jenny Fisher (Wollongong)
Dylan Millet (UMN) 		Science
Bug fix for eruptive volcanic emissions Barron Henderson (EPA) Bug fix
Read in and regrid existing MODIS LAI and OLSON data via HEMCO Bob Yantosca (GCST) Structural
Update from HEMCO version 2.1.011 to 2.1.012 Christoph Keller (NASA/GMAO)
GCST 		Bug fix &
Structural
Features NOT affecting the full-chemistry simulation:
Update to Yuan processed MODIS LAI product (covering years 2005-2016)
  • Off while we investigate an issue in the HEMCO interpolation
 Jenny Fisher (Wollongong)
Barron Henderson (US EPA) 		Science
OMI-based Volcanic emissions 2005-2012 (off by default) Cui Ge (U. Iowa)
Jun Wang (U. Iowa)
GCST 		Science
Further bug fix for netCDF diagnostics spanning leap years Bob Yantosca (GCST) Bug fix
Fix GFAS_SOAP entry in HEMCO_Config.rc Killian Murphy (York) Bug fix
Tagged CO bug fixes: Fix CO units and write secondary production into a netcdf file Beata Bukosa (Wollongong) Bug fix
Features affecting GCHP only:
Enable running time backwards in GCHP Atanas Trayanov (GMAO), Lizzie Lundgren (GCST) Structural
  • Off by default

New data directories in 12.3.0

The following data directories have been added or updated in this version. You will have to download the directories relevant to your simulation.

Inventory Type What was added? Directory
OLSON_MAP DEFAULT Olson 2001 land map masks, separated into 73 netCDF variables (one per land type). This format facilitates regridding by HEMCO. HEMCO/OLSON_MAP/v2019-02
MODIS_XLAI DEFAULT MODIS LAI data (corresponding to ExtData/CHEM_INPUTS/MODIS_LAI_201707)

This data has been processed into 73 netCDF variables (one corresponding to each Olson land type), which facilitates regridding by HEMCO.

HEMCO/MODIS_XLAI/v2017-07
MEGAN DEFAULT Updated PFT file for MEGAN HEMCO/MEGAN/v2018-05/

NOTES:

  1. DEFAULT denotes that the inventory is part of the default HEMCO emissions configuration that you get when you run GEOS-Chem "out-of-the-box".
  2. OPTIONAL denotes optional inventories that you may use (or not) according to your research needs.

12.2.1

This version was released on 28 Feb 2019.

DOI: 10.5281/zenodo.2580198

You can use the following Git commands to download the GEOS-Chem 12.2.1 source code and GEOS-Chem Unit Tester package. 

 # Download the GEOS-Chem source code
 git clone https://github.com/geoschem/geos-chem Code.12.2.1
 cd Code.12.2.1
 
 # Create and checkout a new branch "GC_12.2.1" at the tag "12.2.1"
 git checkout -b GC_12.2.1 12.2.1
 cd .. 

 # Download the GEOS-Chem Unit Tester, from which run directories can be generated
 git clone https://github.com/geoschem/geos-chem-unittest UT
 cd UT
 
 # Create and checkout a new branch "GC_12.2.1" at the tag "12.2.1"
 git checkout -b GC_12.2.1 12.2.1

Important: Make sure you also download the new data directories for this version.

This version includes the updates listed below.

Feature Submitted by Type Notes
Features NOT affecting the full-chemistry simulation:
Bug fix: netCDF diagnostic collections with frequency "End" now properly span leap year days Amos Tai (CUHK)
GCST 		Structural
Move module-level variables from Linoz and MODIS LAI Haipeng Lin (PKU) Structural
Make polar bromine explosion the default option in Hg simulation Colin Thackray (Harvard)
Jenny Fisher (Wollongong) 		Science
TOMAS updates Emily Ramnarine (Colorado State)
Jeff Pierce (Colorado State)
Betty Croft (Dalhousie) 		Science
Fix Henry's Law coefficient for C2H6 Chris Holmes (FSU) Bug fix
Add routine to save the GC species database to JSON format (commented out) Bob Yantosca (GCST) Structural
Add RRTMG fluxes to netCDF diagnostics Bob Yantosca (GCST) Structural
  • Still needs to be validated
Fix for CO2 simulation chemical source Beata Bukosa (U. Wollongong) Bug fix
Features affecting GCHP only:
Update MODIS LAI source directory to match GEOS-Chem Classic GCST Bug fix
Missing scaling factors for MERRA-2 simulations with GCHP Sebastian Eastham (MIT) Bug fix
Use online sea flux emissions by default in GCHP GCST Emissions

New data directories in 12.2.1

The following data directories have been added or updated in this version. You will have to download the directories relevant to your simulation.

Inventory Type What was added? Directory
Updated chemical source for CO2 simulation OPTIONAL Reprocessed the chemical source file for the CO2 simulation, because the existing file was somehow corrupted. HEMCO/CO2/v2019-02/CHEM/
FINN OPTIONAL Files containing the number of fires per grid box for use with the biomass burning subgrid coagulation option in TOMAS simulations. HEMCO/FINN/v2015-02/

--Bob Yantosca (talk) 16:34, 13 February 2019 (UTC)

12.2.0

This version was released on 19 Feb 2019.

10.5281/zenodo.2572887

You can use the following Git commands to download the GEOS-Chem 12.2.0 source code and GEOS-Chem Unit Tester package. 

 # Download the GEOS-Chem source code
 git clone https://github.com/geoschem/geos-chem Code.12.2.0
 cd Code.12.2.0
 
 # Create and checkout a new branch "GC_12.2.0" at the tag "12.2.0"
 git checkout -b GC_12.2.0 12.2.0
 cd .. 

 # Download the GEOS-Chem Unit Tester, from which run directories can be generated
 git clone https://github.com/geoschem/geos-chem-unittest UT
 cd UT
 
 # Create and checkout a new branch "GC_12.2.0" at the tag "12.2.0"
 git checkout -b GC_12.2.0 12.2.0

Important: Make sure you also download the new data directories for this version.

Please see the following links for complete information about the validation of GEOS-Chem 12.2.0:

  1. Approval form for 1-month benchmark simulation 12.2.0
  2. 1-year transport benchmark simulation

This version includes the updates listed below.

Feature Submitted by Type Notes
Features affecting the full-chemistry simulation:
Retire BRAVO emissions and use CEDS for Mexico instead Melissa Sulprizio (GCST) Science
Update mask file applied to NEI2011 emissions Melissa Sulprizio (GCST) Bug fix
Features NOT affecting the full-chemistry simulation:
Transport Tracers simulation: a common set of tracers in GEOS-Chem and GEOS Transport WG
Melissa Sulprizio (GCST) 		Benchmarking
  • Added to the GEOS-Chem Rn-Pb-Be simulation, but may be added to any simulation by following these steps.
  • This will facilitate comparisons of transport between GEOS-Chem "Classic" and/or GCHP vs. the NASA GEOS-DAS system.
ObsPack diagnostic Andy Jacobson (NOAA/ESRL)
Bob Yantosca (GCST) 		Structural
GFAS biomass burning emissions (as an option) Mat Evans (York)
Killian Murphy (York) 		Science
Fix bug in stratosperic aerosol surface area netcdf diagnostics Jonathan Moch (Harvard)
Christoph Keller (GMAO) 		Bug fix
Update from HEMCO 2.1.010 to HEMCO 2.1.011: GCST Structural
Features affecting GCHP only:
Update ESMF version in GCHP from v5.2.0rp2 to v7.1.0r Lizzie Lundgren (GCST) Structural
  • Currently compatible with Intel compilers only
New fields in GCHP output restart file Lizzie Lundgren (GCST) Bug Fix &
Structural
  • Adds additional variables to GCHP internal state for carrying across multi-segmented runs
  • Equivalent to GEOS-Chem Classic update in 12.1.0
Bug fix: use checkpoint output file as subsequent run restart Lizzie Lundgren (GCST) Bug Fix
  • Does not impact single duration runs

New data directories in 12.2.0

The following data directories have been added or updated in this version. You will have to download the directories relevant to your simulation.

Inventory Type What was added? Directory
GFAS biomass burning emissions OPTIONAL GFAS biomass burning emissions for 2003-present (updated monthly) HEMCO/GFAS/v2018-09/
EDGAR v4.2 emissions of SF6 DEFAULT EDGAR v4.2 emissions of SF6 for 1970-2008 HEMCO/SF6/v2019-01/
MASKS DEFAULT Update mask file applied to NEI2011 emissions HEMCO/MASKS/v2018-09/
TileFiles DEFAULT
(in GCHP) 		New tile files for 0.1x0.1 CONUS, Canada, and Mexico mask files GCHP/TileFiles

NOTES:

  1. DEFAULT denotes that the inventory is part of the default HEMCO emissions configuration that you get when you run GEOS-Chem "out-of-the-box".
  2. OPTIONAL denotes optional inventories that you may use (or not) according to your research needs.

12.1.1

This version was released on 13 Dec 2018.

DOI: 10.5281/zenodo.2249246

You can use the following Git commands to download the GEOS-Chem 12.1.1 source code and GEOS-Chem Unit Tester package. 

 # Download the GEOS-Chem source code
 git clone https://github.com/geoschem/geos-chem Code.12.1.1
 cd Code.12.1.1
 
 # Create and checkout a new branch "GC_12.1.1" at the tag "12.1.1"
 git checkout -b GC_12.1.1 12.1.1
 cd .. 

 # Download the GEOS-Chem Unit Tester, from which run directories can be generated
 git clone https://github.com/geoschem/geos-chem-unittest UT
 cd UT
 
 # Create and checkout a new branch "GC_12.1.1" at the tag "12.1.1"
 git checkout -b GC_12.1.1 12.1.1

Important: Make sure you also download the new data directories for 12.1.0 if you haven't already.

This version includes the updates listed below.

Feature Submitted by Type Notes
Features NOT affecting the full-chemistry (benchmark) simulation:
Bug fix for tagged CO: don't multiply emissions timestep by 60 Dylan Jones (U. Toronto) Bug fix
Skip planeflight observations outside a nested domain Lei Zhu (Harvard) Bug fix
Always enable BCPH_TPBC to allow saving out BC files in global simulations Yanxu Zhang (Nanjing) Bug fix
Fix compilation issues:
Bob Yantosca (GCST)
Haipeng Lin (PKU) 		Bug fix
Features affecting GCHP only:
GCHP transport fix to prevent instant propagation from troposphere to stratosphere Seb Eastham (MIT) Bug fix

--Lizzie Lundgren (talk) 16:05, 6 December 2018 (UTC)

12.1.0

This version was released on 26 Nov 2018.

DOI: 10.5281/zenodo.1553349

You can use the following Git commands to download the GEOS-Chem 12.1.0 source code and GEOS-Chem Unit Tester package. 

 # Download the GEOS-Chem source code
 git clone https://github.com/geoschem/geos-chem Code.12.1.0
 cd Code.12.1.0
 
 # Create and checkout a new branch "GC_12.1.0" at the tag "12.1.0"
 git checkout -b GC_12.1.0 12.1.0
 cd .. 

 # Download the GEOS-Chem Unit Tester, from which run directories can be generated
 git clone https://github.com/geoschem/geos-chem-unittest UT
 cd UT
 
 # Create and checkout a new branch "GC_12.1.0" at the tag "12.1.0"
 git checkout -b GC_12.1.0 12.1.0

Important: Make sure you also download the new data directories for this version.

Please see the following links for complete information about the validation of GEOS-Chem 12.1.0:

  1. Approval form for 1-month benchmark simulation 12.1.0

This version includes the updates listed below.

Feature Submitted by Type Notes
Features affecting the full-chemistry simulation:
Budget diagnostics Lizzie Lundgren (GCST)
Chris Holmes (Florida State) 		Diagnostics
  • This update introduces differences on the level of numerical noise due to unit conversions
Anthropogenic PM2.5 dust source Sajeev Philip (Dalhousie) Science
  • This update introduces the following changes:
    • DST1 emissions increased by 1.09 Tg/mon (13.1 Tg/yr)
    • Δ Mean OH: -0.000066%
    • Δ MCF lifetime: 0.0020%
    • Δ CH4 lifetime: 0.0012%
GEOS-Chem restart file updates Melissa Sulprizio (GCST) Bug Fix &
Structural
  • GEOS-Chem Classic only update
  • This update introduces the following changes:
    • Δ Mean OH: -0.016%
    • Δ MCF lifetime: 0.022%
    • Δ CH4 lifetime: 0.024%
Updates and fixes for the CEDS anthropogenic emissions inventory:
Pengfei Liu (Harvard)
Melissa Sulprizio (GCST)
Jiawei Zhuang (Harvard) 		Bug fix
  • This update introduces the following changes:
    • Δ Mean OH: 0.17%
    • Δ MCF lifetime: -0.37%
    • Δ CH4 lifetime: -0.40%
HEMCO fixes:
Bob Yantosca (GCST)
Melissa Sulprizio (GCST)
Erin McDuffie (Dalhousie) 		Bug fix
  • This update introduces very small changes:
    • Δ Mean OH: -0.952%
    • Δ MCF lifetime: 1.454%
    • Δ CH4 lifetime: 1.502%
Fix mass conservation in non-local PBL mixing Jintai Lin (PKU) Bug fix
  • This update introduces very small changes:
    • Δ Mean OH: 0.0057%
    • Δ MCF lifetime: -0.0061%
    • Δ CH4 lifetime: -0.0073%
Allow for SZA to 98 degrees when getting photolysis rates Eric Fleming (GMAO) Bug fix
  • This update introduces the following changes:
    • Δ Mean OH: 0.3982%
    • Δ MCF lifetime: -0.3665%
    • Δ CH4 lifetime: -0.3680%
Features NOT affecting the full-chemistry simulation:
FlexGrid Stage 1: Use HEMCO to read met fields Jiawei Zhuang (Harvard)
Jintai Lin (PKU) 		Structural
Add support for continuous integration with TravisCI – automatically test each commit as soon as it is pushed to Github Jiawei Zhuang (Harvard)
Bob Yantosca (GCST) 		Structural
Added netCDF diagnostics in the following areas: Bob Yantosca (GCST) Diagnostics
  • NOTE: The remaining netCDF diagnostics will be implemented into 12.2.0 and later versions, as time allows.
Convert input data for RRTMG from bpch to netCDF for input via HEMCO Bob Yantosca (GCST) Structural
Add fixes for seasonal scale factors in CH4 simulations Bram Maasakkers (SRON)
Melissa Sulprizio (GCST) 		Bug fix
Move Fast-JX .dat files from the geos-chem-unittest repository to gcgrid/ExtData Chris Holmes (Florida State)
GCST 		Structural
Update HEMCO configuration file for the tagged CO simulation Bob Yantosca (GCST) Bug fix
Structural updates to facilitate interfacing GEOS-Chem into WRF Haipeng Lin (Peking U)
GCST 		Structural
  • This process will be ongoing throughout the GEOS-Chem 12 series of releases.
Structural updates to facilitate interfacing GEOS-Chem into GEOS-5 Christoph Keller (GMAO)
Lizzie Lundgren (GCST) 		Structural
  • This process will be ongoing throughout the GEOS-Chem 12 series of releases.
Features affecting GCHP only:
Fix masking bug to correctly apply anthropogenic emissions Lizzie Lundgren (GCST) Bug fix
Remove erroneous 180 degree longitude shift in APEI regridding Lizzie Lundgren (GCST) Bug fix
Move GCHP run directory creation from GEOS-Chem Unit Tester to GCHP repository Lizzie Lundgren (GCST) Structural

--Melissa Sulprizio (talk) 15:21, 26 November 2018 (UTC)

New data directories in 12.1.0

The following data directories have been added or updated in this version. You will have to download the directories relevant to your simulation.

Inventory Type What was added? Directory
DUST DEAD DEFAULT Anthropogenic PM2.5 dust source HEMCO/DUST_DEAD/v2018-04/
GEOS-Chem restart files DEFAULT GEOS-Chem restart file updates: New variables, new variable names, new file names GEOSCHEM_RESTARTS/v2018-11/
Input files for FAST-JX DEFAULT Move Fast-JX .dat files from the geos-chem-unittest repository to gcgrid/ExtData CHEM_INPUTS/FAST_JX/v2018-09/
RRTMG input data OPTIONAL netCDF input data files for the RRTMG specialty simulation (converted from the old "binary punch" format files) HEMCO/RRTMG/v2018-11/
CEDS anthropogenic emissions DEFAULT Reduce file size for CEDS inventory HEMCO/CEDS/v2018-08/YYYY
MASKS DEFAULT Clean up mask file directory to remove obsolete files HEMCO/MASKS/v2018-09/

NOTES:

  1. DEFAULT denotes that the inventory is part of the default HEMCO emissions configuration that you get when you run GEOS-Chem "out-of-the-box".
  2. OPTIONAL denotes optional inventories that you may use (or not) according to your research needs.

12.0.3

This version was released on 16 Oct 2018.

DOI: 10.5281/zenodo.1464210

You can use the following Git commands to download the GEOS-Chem 12.0.3 source code and GEOS-Chem Unit Tester package. 

# Download the GEOS-Chem source code
 git clone https://github.com/geoschem/geos-chem Code.12.0.3
 cd Code.12.0.3
 
 # Create and checkout a new branch "GC_12.0.3" at the tag "12.0.3"
 git checkout -b GC_12.0.3 12.0.3
 cd .. 

 # Download the GEOS-Chem Unit Tester, from which run directories can be generated
 git clone https://github.com/geoschem/geos-chem-unittest UT
 cd UT
  
 # Create and checkout a new branch "GC_12.0.3" at the tag "12.0.3"
 git checkout -b GC_12.0.3 12.0.3

Important: Make sure you also download the new data directories for 12.0.0 if you haven't already.

This version contains fixes that will only impact GCHP.

Feature Submitted by Type Notes
Features affecting GCHP only:
Fix incorrect run configuration for offline sea salt emissions in GCHP Sebastian Eastham (MIT) Bug fix
Fix bug in application of CFC surface mixing ratios in GCHP Sebastian Eastham (MIT) Bug fix

--Lizzie Lundgren (talk) 18:21, 16 October 2018 (UTC)

12.0.2

This version was released on 10 Oct 2018.

DOI: 10.5281/zenodo.1455215

You can use the following Git commands to download the GEOS-Chem 12.0.2 source code and GEOS-Chem Unit Tester package. 

 # Download the GEOS-Chem source code
 git clone https://github.com/geoschem/geos-chem Code.12.0.2
 cd Code.12.0.2
 
 # Create and checkout a new branch "GC_12.0.2" at the tag "12.0.2"
 git checkout -b GC_12.0.2 12.0.2
 cd .. 

 # Download the GEOS-Chem Unit Tester, from which run directories can be generated
 git clone https://github.com/geoschem/geos-chem-unittest UT
 cd UT
 
 # Create and checkout a new branch "GC_12.0.2" at the tag "12.0.2"
 git checkout -b GC_12.0.2 12.0.2

Important: Make sure you also download the new data directories for 12.0.0 if you haven't already.

This version includes the updates listed below.

Feature Submitted by Type Notes
Features NOT affecting the full-chemistry (benchmark) simulation:
Fixed local-time averaging in ND51 and ND51b satellite timeseries diagnostics Bo Zhang (NIA) Bug fix Implemented 04 Oct 2018
Fixes to correct missing BC/OC biomass emissions and incorrect aerosol drydep in TOMAS simulations Pengfei Liu (Harvard) Bug fix Implemented 25 Sep 2018
Avoid double-counting of emissions in the CO2 simulation Beata Bukosa (U. Wollongong)
Christoph Keller (GMAO) 		Bug fix Implemented 24 Sep 2018.

--Lizzie Lundgren (talk) 18:21, 16 October 2018 (UTC)

12.0.1

This version was released on 24 Aug 2018.

DOI: 10.5281/zenodo.1403144

You can use the following Git commands to download the GEOS-Chem 12.0.1 source code and GEOS-Chem Unit Tester package. 

 # Download the GEOS-Chem source code
 git clone https://github.com/geoschem/geos-chem Code.12.0.1
 cd Code.12.0.1
 
 # Create and checkout a new branch "GC_12.0.1" at the tag "12.0.1"
 git checkout -b GC_12.0.1 12.0.1
 cd .. 

 # Download the GEOS-Chem Unit Tester, from which run directories can be generated
 git clone https://github.com/geoschem/geos-chem-unittest UT
 cd UT
 
 # Create and checkout a new branch "GC_12.0.1" at the tag "12.0.1"
 git checkout -b GC_12.0.1 12.0.1

Important: Make sure you also download the new data directories for 12.0.0 if you haven't already.

This version includes the updates listed below.

Feature Submitted by Type Notes
Features NOT affecting the full-chemistry (benchmark) simulation:
Fix typo when registering the State_Chm%SSAlk field Shuting Zhai (U. Washington)
GCST 		Bug fix
Add fixes for several compilation issues:
  1. Nullify rather than deallocate 3D met arrays for compatibility with gfortran 6+ when using GCHP
  2. Add a more robust test for netCDF-Fortran in Makefile_header.mk
  3. Fix compilation issues encountered with GNU Fortran 8.2.0
  4. Fix compilation issues encountered with Intel Fortran 18
 GCST Bug fix
Fixes for the Hg specialty simualtion: Restore biomass emissions and do not double-count anthropogenic emissions Colin Thackray (Harvard) Bug fix
Fix mis-indexing in the ND05 diagnostic GCST Bug fix
Minor updates to facilitate interfacing GEOS-Chem into GEOS-5 Lizzie Lundgren (GCST) Structural

--Bob Yantosca (talk) 14:31, 10 October 2018 (UTC)

12.0.0

This version was released on 10 Aug 2018

DOI 10.5281/zenodo.1343547

You can use the following Git commands to download the GEOS-Chem 12.0.0 source code and GEOS-Chem Unit Tester package. 

 # Download the GEOS-Chem source code
 git clone https://github.com/geoschem/geos-chem Code.12.0.0
 cd Code.12.0.0
 
 # Create and checkout a new branch "GC_12.0.0" at the tag "12.0.0"
 git checkout -b GC_12.0.0 12.0.0
 cd .. 

 # Download the GEOS-Chem Unit Tester, from which run directories can be generated
 git clone https://github.com/geoschem/geos-chem-unittest UT
 cd UT
 
 # Create and checkout a new branch "GC_12.0.0" at the tag "12.0.0"
 git checkout -b GC_12.0.0 12.0.0

Important: Make sure you also download the new data directories for this version.

For more information about getting set up with GEOS-Chem, please see the GEOS-Chem Online User's Guide.

The table below shows the updates that were added to GEOS-Chem 12.0.0. Most of these fix issues that were reported by users during the GEOS-Chem v11-02 release candidate testing period (June 22 thru August 10 2018).

Please see the following links for complete information about the validation of GEOS-Chem 12.0.0:

  1. Approval form for 1-month benchmark simulation 12.0.0
  2. Results for 1-year benchmark simulation 12.0.0-Run0
Feature Submitted by Type Notes
Features affecting the full-chemistry (benchmark) simulation:
Turn off TRASH emissions by default to avoid double counting GCST
Eloise Marais (U. Birmingham) 		Bug fix
  • This update introduces relatively small changes:
    • Mean OH decreased by 0.12%
    • MCF lifetime increased by 0.23%
    • CH4 lifetime increased by 0.24%
    • O3 STE flux increased by 0.042%
Add entries to HEMCO_Config.rc for SOAP and pFe in CEDS inventory GCST Bug fix
  • This update introduces relatively small changes:
    • Mean OH decreased by 0.15%
    • MCF lifetime increased by 0.28%
    • CH4 lifetime increased by 0.29%
    • O3 STE flux increased by 0.043%
Bug fix for liquid water content in gckpp_HetRates.F90 Jiayue Huang (U. Washington)
Quanjie Chen (U. Washington) 		Bug fix
  • This update introduces relatively small changes:
    • Mean OH increased by 1.91%
    • MCF lifetime decreased by 2.41%
    • CH4 lifetime decreased by 2.41%
    • O3 STE flux decreased by 0.18%
Bug fix for CH4 boundary conditions Lee Murray (Rochester) Bug fix
  • Results approved by Lee Murray
  • This update introduces small changes:
    • Mean OH decreased by 0.48%
    • MCF lifetime increased by 0.82%
    • O3 STE decreased by: 0.022%
Fixed typo in call to GAMMA_HOBr_AER Xuan Wang
GCST 		Bug fix
  • This update produced only very small differences w/r/t internal run v11-02-rc-DICEnewrc
    • Mean OH decreased by -0.058%
    • MCF lifetime increased by 0.082%
    • CH4 lifetime increased by 0.084%
    • O3 STE flux decreased by 0.005%
Correct issues when specifying DICE-Africa emissions: Eloise Marais (U. Birmingham)
GCST 		Bug Fix
  • Results approved by Eloise Marais.
  • This update produced only very small differences w/r/t internal run v11-02-rc-arctasship:
    • Mean OH increased by 0.07%
    • MCF lifetime decreased by 0.12%
    • CH4 lifetime decreased by 0.13%
    • O3 STE flux decreased by -0.0023%
Add missing Criegee intermediate reaction Xin Chen (UMN) Bug fix
  • This update produced only very small differences w/r/t internal run v11-02-rc-arctasship:
    • Mean OH decreased by 0.00002%
    • MCF lifetime was unchanged
    • CH4 lifetime increased by 0.001%
    • O3 STE flux increased by 0.0001%
Bug fix for ARCTAS_SHIP in HEMCO_Config.rc files Barron Henderson (EPA) Bug Fix
  • This update only produced very small differences w/r/t internal run v11-02-rc-gfed2016:
    • Mean OH decreased by 0.0004%
    • O3 STE flux decreased by 0.0007%
    • MCF and CH4 lifetimes were unchanged
Bug fix in FlexChem: do not zero out ACTA, EOH, HCOOH concentrations Katie Travis (MIT) Bug Fix
  • This update only produced very small differences w/r/t v11-02-rc:
    • Mean OH decreased by 0.083%
    • MCF lifefime increased by 0.112%
    • CH4 lifetime increased by 0.112%
    • O3 STE flux decreased by 0.011%
Add GFED4.1 data for 2015 and 2016; Use GFED4.1 2016 in benchmarks Kate O'Dell (CSU)
GCST 		Science
  • Data files downloaded 27 Jun 2018
  • This update only produced small differences:
    • Mean OH increased by 0.60%
    • MCF lifefime decreased by 0.65%
    • CH4 lifetime decreased by 0.64%
    • O3 STE flux decreased by 0.0093%
Features NOT affecting the full-chemistry simulation:
Bug fixes for stratospheric chemistry: GCST Bug fix
Limit flash rate density in hcox_lightnox_mod.F90 Lee Murray (Rochester) Bug fix
Initial structural modifications for interfacing GEOS-Chem into WRF Haipeng Lin (Peking U.) Structural
  • This process is ongoing in GEOS-Chem 12
Minor fixes for mercury chemistry updates implemented in v11-02f Colin Thackray (Harvard) Bug fix
Restore default timestep for MERRA-2 nested grid simulations to 10/20 Ke Li (Harvard) Bug fix
Remove duplicate C3HI spectrum in FJX_spec.dat and FJX_j2j.dat Tomas Sherwen (York) Bug fix
  • A difference test w/r/t the previous commit yielded identical results
Fixed typo that prevented PM2.5 from being archived to netCDF output Jonathan Moch (Harvard)
GCST 		Bug fix
Bring two-way nested-grid code option up-to-date Yingying Yan (PKU)
Jintai Lin (PKU) 		Structural
  • This option is invoked by compiling with EXCHANGE=y
  • A difference test w/r/t the previous commit yielded identical results.
Do not force L=1 by default in planeflight_mod.F Katie Travis (MIT)
GCST 		Bug fix
Add PH2O2 to the default list of prod/loss families in the KPP mechanisms GCST Structural
  • This update facilitates saving out oxidant fields from a full-chemistry simulation that can be used to drive an aerosol-only simulation.
Update to HEMCO v2.1.008, which includes minor updates:
  1. Fixed error in HEMCO "exact" cycling option
    • NOTE: This update introduced an unforeseen side-effect which will be fixed in GEOS-Chem 12.1.0.

Update to HEMCO v2.1.007, which includes minor updates:

  1. Stop with error if multiple containers have the same name
  2. Bug fix for distributing emissions in the vertical dimension
  3. Add extra error checks in HEMCO standalone module
  4. Remove null string character from netCDF unit string
  5. Bug fix for HEMCO soil NOx error with ifort 17
 GCST
Christoph Keller
Jenny Fisher 		Structural &
Bug fix
Bug fix for reference time in netCDF diagnostic files GCST Bug fix
Updates for QFED biomass burning emissions:
  1. Update to QFED v2.5r1
  2. Fix QFED v2.4r6 files for 2016/10/13
 Christoph Keller (NASA GMAO) Bug fix
Fix issues in complexSOA and complexSOA_SVPOA restart files Eloise Marais (U. Birmingham) Bug fix
Avoid double counting CEDS and GEIA NH3 biofuel emissions Christoph Keller (NASA/GMAO)
GCST 		Bug fix
  • The default HEMCO behavior is to prioritize CEDS over GEIA NH3 anthro and biofuel emissions. But to avoid confusion, we will explicitly request this behavior in the HEMCO_Config.rc files that ship with the GEOS-Chem Unit Tester.
Bug fixes for v11-02 simulations using the RRTMG radiative transfer model Chris Holmes (U. Florida) Bug Fix
  • This only affects the RRTMG simulations. Full-chemistry difference-tests yielded identical results w/r/t v11-02-rc.
Now always declare the netCDF time variable with an unlimited dimension Chris Holmes (U. Florida) Structural
  • Full-chemistry difference-tests yielded identical results w/r/t v11-02-rc.

New data directories in 12.0.0

The following data directories have been added or updated in this version. You will have to download the directories relevant to your simulation.

Inventory Type What was added? Version added Directory
QFED biomass burning emissions OPTIONAL New data files for QFED v2.5r1 12.0.0 HEMCO/QFED/v2018-07
GFED4 biomass burning emissions DEFAULT GFED4.1 data files for 2015 and 2016 have been added 12.0.0 HEMCO/GFED4/v2015-10/
MEGAN DEFAULT Global 0.25x0.3125 CLM4 PFT and emission factor input files for MEGAN v11-02f HEMCO/MEGAN/v2017-07/
MODIS LAI DEFAULT Updated 0.25 x 0.25 MODIS LAI files (2005-2011) v11-02f CHEM_INPUTS/MODIS_LAI_201707/
Lightning NOx DEFAULT GEOS-FP OTD-LIS redistribution factors for Apr 2012 - Jul 2017 and MERRA-2 OTD-LIS redistribution factors for any date v11-02f HEMCO/LIGHTNOX/v2017-09/
Volcanic SO2 emissions DEFAULT OMI-based volcanic emissions for 2005-2012 v11-02f HEMCO/VOLCANO/v2018-03/
APEI DEFAULT Historical Canadian emissions v11-02f HEMCO/APEI/v2016-11/
EDGAR v4.3 OPTIONAL Annual global anthropogenic emissions for 1970-2010 at 0.1x0.1 resolution v11-02f HEMCO/EDGARv43/v2016-11/
C2H6_2010 DEFAULT Global fossil fuel and biofuel emissions of C2H6 for 2010 v11-02f HEMCO/C2H6_2010/v2017-05/
DICE-Africa DEFAULT Biofuel and diffuse anthropogenic emissions for Africa v11-02f HEMCO/DICE_Africa/v2016-10/
Trash burning emissions OPTIONAL Global trash burning emissions from Wiedinmyer et al. (2014) v11-02f HEMCO/TrashEmis/v2015-03/
SEABIRD NH3 DEFAULT NH3 emissions from arctic sea birds v11-02f HEMCO/NH3/v2018-04
OMOC OPTIONAL Spatially varying OM/OC ratio v11-02e HEMCO/OMOC/v2018-01
NOAA GMD CH4 DEFAULT Monthly mean surface methane distributions v11-02e HEMCO/NOAA_GMD/v2018-01
UCX Tropchem only Input files for applying linearized stratospheric chemistry production and loss rates saved out from a UCX simulation using GEOS-Chem v11-02d v11-02e HEMCO/UCX/v2018-02/
IODINE DEFAULT Monthly emission fluxes of organic iodine compounds (CH3I, CH2I2, CH2ICl, CH2IBr) from Carlos Ordonez. v11-02d HEMCO/IODINE/v2017-09/
GMI DEFAULT New symbolic links:
  • gmi.clim.RIPA.geos5.2x25.nc -> gmi.clim.RIP.geos5.2x25
  • gmi.clim.RIPB.geos5.2x25.nc -> gmi.clim.RIP.geos5.2x25
  • gmi.clim.RIPD.geos5.2x25.nc -> gmi.clim.RIP.geos5.2x25
  • gmi.clim.IPMN.geos5.2x25.nc -> gmi.clim.PMN.geos5.2x25
  • gmi.clim.NPMN.geos5.2x25.nc -> gmi.clim.PMN.geos5.2x25
 v11-02c HEMCO/GMI/v2015-02/
NEI2011 North American emissions DEFAULT (global)
OPTIONAL (nested NA) 		Monthly mean data files (created from the existing hourly data in HEMCO/NEI2011/v2015-03) v11-02a HEMCO/NEI2011/v2017-02-MM/
ALD2 DEFAULT Fields for ALD2 emissions, including:
  • Seawater concentration of acetaldehyde
  • Heterotrophic respiration rates, used to compute biogenic emissions of ALD2 and EOH

(added with the PAN updates)

v11-02a HEMCO/ALD2/v2017-03/
POET DEFAULT Anthropogenic emissions of ethanol from the POET inventory
(added with the PAN updates) 		v11-02a HEMCO/POET/v2017-03/
Soil NOx DEFAULT New file: DepReservoirDefault.nc
Read default DEP_RESERVOIR fields from file when not found in HEMCO restart file 		v11-02a HEMCO/SOILNOX/v2014-07/

NOTES:

  1. DEFAULT denotes that the inventory is part of the default HEMCO emissions configuration that you get when you run GEOS-Chem "out-of-the-box".
  2. OPTIONAL denotes optional inventories that you may use (or not) according to your research needs.

--Bob Yantosca (talk) 20:02, 29 June 2018 (UTC)

Validation

In this section we provide information about the benchmarks and tests that we have done to validate GEOS-Chem v11-03.

1-month and 1-year benchmarks

For complete information about the benchmark simulations used to validate GEOS-Chem v11-03, please see our GEOS-Chem 12 benchmark history wiki page.

Performance

Please see the following resources below for more information about the performance of GEOS-Chem 12.0.0.

GEOS-Chem "Classic" performance

We have performed several timing tests with GEOS-Chem "Classic" 12.0.0 and have posted our results on the wiki:

We invite you to add your own time test results to the wiki.

--Bob Yantosca (talk) 18:06, 17 August 2018 (UTC)

GCHP performance

Help us pool performance information across systems by contributing your GCHP run information on our GCHP Timing Tests page.

--Bob Yantosca (talk) 18:06, 17 August 2018 (UTC)

Previous issues now resolved in GEOS-Chem 12

Please see Issues now resolved in GEOS-Chem 12 for a list of bugs and/or technical issues have been resolved in GEOS-Chem 12.0.0 through GEOS-Chem 12.5.0. Issues resolved after GEOS-Chem 12.5.0 can be found on the following Github pages:

Outstanding issues not yet resolved in GEOS-Chem 12

Unresolved issues are listed on the following Github pages:

GEOS-Chem Main Page | GCHP Main Page

Retrieved from "https://wiki.seas.harvard.edu/geos-chem/index.php?title=GEOS-Chem_12&oldid=47539"