Difference between revisions of "GEOS-Chem 13.4.0"
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<blockquote>Changes in benchmark output related to this update are: | <blockquote>Changes in benchmark output related to this update are: | ||
− | *Very small changes in OH metrics | + | *Very small changes in the OH metrics (Mean OH -0.0698%, MCF lifetime +0.10%; CH4 lifetime +0.05%) |
− | *Cl/Br species concentrations have significant changes primarily in the | + | *Small changes in Trop+Strat masses for most species. |
− | + | *Cl/Br species concentrations have significant changes primarily in the extratropics. | |
</blockquote> | </blockquote> | ||
Revision as of 22:06, 25 January 2022
This page includes information about GEOS-Chem 13.4.0 (currently under development)
Contents
Version overview
The following items have been added to GEOS-Chem 13.4.0 since the last GEOS-Chem version GEOS-Chem 13.3.4. Also see the following Github pages:
- 13.4.0 milestone for geoschem/geos-chem
- 13.4.0 milestone for geoschem/GCHP
- 3.4.0 milestone for geoschem/HEMCO
Feature | Contributor(s) | Model scope | Notes and references |
---|---|---|---|
Updates that will affect full-chemistry benchmark simulations | |||
Migrating sulfate chemistry into KPP | Mike Long (GCST) Viral Shah (Harvard) Bob Yantosca (GCST) |
Chemistry & Structural |
|
Fix bug in Henry law CALC_HEFF routine in hetchem computations | Viral Shah (Harvard) | Chemistry | |
Bug fix: Remove double-counting of HCl uptake on acidic sea salt | Viral Shah (Harvard) | Chemistry | |
Update surface resistance for ozone deposition to ice/snow | Ryan Pound (York) Shuting Zhai (UW) |
Drydep | |
Use updated definition of PM2.5; Add PM10 diagnostic | Bob Yantosca (GCST) | Diagnostics & Benchmarking |
|
Fix scale factors applied to VOC aircraft emissions in AEIC inventory | Flavio Quadros (TU Delft) Seb Eastham (GCST) |
Emissions & Bug Fix |
|
HEMCO bug fix: restore archiving via manual diagnostics (which had been inadvertently disabled in a prior update) | Melissa Sulprizio (GCST) Bob Yantosca (GCST) |
Emissions | |
Use degassing-only volcano emissions in GEOS-Chem benchmark simulations | Christoph Keller (GMAO) Daniel Jacob (Harvard) |
Emissions & Benchmarking |
|
Add option for driving GEOS-Chem with native GEOS meteorological files | Liam Bindle (GCST) | Structural | |
Updates that will NOT affect full-chemistry benchmark simulations | |||
Updated Hg chemistry in KPP | Viral Shah (Harvard) Colin Thackray (Harvard) Mike Long (GCST) Bob Yantosca (GCST) |
Chemistry |
|
Bug fix: Use REAL*8 precision in for CH3O2 + OH reaction definition in fullchem.eqn | Bob Yantosca (GCST) | Chemistry |
|
Updated Global Inventory of Methane Emissions from Oil/Gas/Coal (GFEI v2) | Tia Scarpelli (U. Edinburgh) | Emissions |
|
Anthropogenic Methane Emission Inventory for Canada | Tia Scarpelli (U. Edinburgh) | Emissions |
|
Use EDGARv6 global anthro emissions for CH4 simulation | Melissa Sulprizio (GCST) | Emissions | |
Updated Rn-222 emissions for TransportTracers simulations | Bo Zhang (NIA) | Emissions |
|
Retire HEMCO extension for CH4 wetland emissions | Melissa Sulprizio (GCST) | Emissions |
|
Updates to enable automated run directory creation | Liam Bindle (GCST) Melissa Sulprizio (GCST) |
Run directory |
|
Bug fix: Allow GEOS-Chem Classic History to archive irregular intervals (e.g. a month and a day) | Bob Yantosca (GCST) | Diagnostics |
|
Updates for running GEOS-Chem within GEOS | Christoph Keller (GMAO) Lizzie Lundgren (GCST) |
GEOS |
|
Updates that will only affect GCHP | |||
Add capability to use mass fluxes in advection | Sebastian Eastham (MIT) Liam Bindle (GCST) |
Advection |
|
Define a GCHP "Default" diagnostic collection that will archive a small number of commonly-requested diagnostic fields | Liam Bindle (GCST) | Structural | |
Add capability to read native meteorological data files | Liam Bindle (GCST) Bob Yantosca (GCST) |
Structural |
|
New data directories
The following data directories have been added or updated in this version. You will have to download the directories relevant to your simulation.
Inventory | Needed for | What was added? | Directory |
---|---|---|---|
ZHANG_Rn222 | TransportTracers simulations only | Updated Rn222 emissions for TransportTracers simulations. See Bo Zhang et al (2021) | HEMCO/ZHANG_Rn222/v2021-11 |
Updated Hg simulation restart file | Hg simulations only | Sample restart file for the updated Hg mechanism. See Viral Shah et al (2021) | ExtData/GEOSCHEM_RESTARTS/v2021-12 |
Updated TOMAS simulation restart files | TOMAS simulations only | Added HSO3m and SO3mm species to TOMAS restart files | ExtData/GEOSCHEM_RESTARTS/v2021-12 |
1-month benchmarks
Model setup for 1-month benchmarks
The following table describes the GEOS-Chem setup for both GEOS-Chem Classic and GCHP 1-month benchmark simulations.
Git tag(s): |
|
Compared to previous benchmark: | 13.3.0 |
Software environment: | gcc 10.2.0 OpenMPI 4.1.0 netcdf-fortran 4.5.3 CMake 3.17.3 ESMF 8.0.1 |
Model resolution: |
|
Meteorology fields: | MERRA-2
|
Initial conditions: | July 1, 2019
|
Benchmark month: | July 2019 |
Emissions setup: | TBD |
Chemistry mechanism: | TBD |
This version will impact: (select all that apply with boldface) |
|
1-month fullchem: GEOS-Chem Classic 13.4.0-rc.0 vs 13.3.0
NOTES:
- Enable PDF bookmarks in the file links to navigate between species. If you do not see bookmarks in your browser try using a different browser (not Safari) or installing an Adobe Acrobat plug-in.
- See the species database for species definitions and details.
- Species categories and lumped species are defined in YAML files within the GEOS-Chem post-processing software GCPy.
TBD
Benchmark assessment form
Performance | GEOS-Chem Classic (rc.0) | GCHP (rc.0) | ||
---|---|---|---|---|
Grid resolution: | 4° x 5° | C48 | ||
# CPUs, nodes: | 48 CPUs 1 node (Intel Cascade Lake) |
48 CPUs 2 nodes (Intel Cascade Lake) | ||
Wall time: | 03:37:13 | 06:20:26 | ||
CPU time / wall time: | 31.79 | 95.0732 | ||
% of ideal performance: | 66.23% | 99.03% | ||
Memory: | 11.4128 GB | 108.5 GB | ||
Global mean OH: (% change from previous version) |
11.70790814279 x 105 molec/cm3 (-0.329%) |
TBD | ||
Methyl chloroform lifetime: (% change from previous version) |
5.294530 years (+0.557%) |
TBD | ||
Methane lifetime: (% change from previous version) |
8.923431 years (+0.581%) |
TBD | ||
Details | ||||
Species, J-Values, and COLUMN AOD values that changed by 10% or more at the surface: | GEOS-Chem Classic 13.4.0-rc.1 vs. 13.3.0-rc.0 |
TBD | ||
Species and J-Values that changed by 10% or more at 500 hPa: | GEOS-Chem Classic 13.4.0-rc.1 vs. 13.3.0-rc.0 |
TBD | ||
Species and J-Values that changed by 10% or more in zonal mean: | GEOS-Chem Classic 13.4.0-rc.1 vs. 13.3.0-rc.0 |
TBD | ||
Emissions that changed by 10% or more: | GEOS-Chem Classic 13.4.0-rc.1 vs. 13.3.0-rc.0 |
TBD | ||
Overview | ||||
Below we summarize the notable changes caused by specific updates. Supplementary plots may be viewed at http://ftp.as.harvard.edu/gcgrid/geos-chem/validation/InternalBenchmarks/13.4.0/.
1. Migrating sulfate chemistry into KPP TBD 2. Fix bug in Henry law CALC_HEFF routine in hetchem computations Changes in benchmark output related to this update are: 3. Fix scale factors applied to VOC aircraft emissions in AEIC inventory The updated scale factors, which corrected the conversion from atoms C to kg species, resulted in significant decreases in emissions for VOC species. This was observed mostly in the northern hemisphere and up to the lower stratosphere (where most aircraft emissions occur). ################################################################################### ### Emissions totals for inventory AEIC [Tg] ### ### Ref = GCC_13.3.0-rc.1; Dev = GCC_13.4.0-rc.0 ### ################################################################################### Ref Dev Dev - Ref % diff AEIC ACET : 0.000139 0.000086 -0.000053 -38.027 AEIC ALD2 : 0.001829 0.000996 -0.000833 -45.529 AEIC ALK4 : 0.005617 0.004274 -0.001343 -23.912 AEIC C2H6 : 0.000152 0.000122 -0.000031 -20.213 AEIC C3H8 : 0.000022 0.000018 -0.000004 -18.386 AEIC MACR : 0.001827 0.000100 -0.001727 -94.522 AEIC PRPE : 0.004855 0.003779 -0.001076 -22.168 AEIC RCHO : 0.001384 0.003358 0.001974 142.621 However, this update resulted in minimal changes to global quantities, as VOC aircraft emissions are typically less than 1Gg for the simulation month. 4. Bug fix: Remove double-counting of HCl uptake on acidic sea salt Changes in benchmark output related to this update are: 5. Update surface resistance for ozone deposition to ice/snow Barten et.al 2021 (https://doi.org/10.5194/acp-21-10229-2021) increased the surface resistance of ozone dry deposition to snow and ice to 1E4 s m−1, this results in a reduction of ozone deposition velocity to ice of <= 0.01 cm s−1 (~ 66% reduction) which has better agreement with observations and results in improved comparison between Ozone observations in the arctic. This update causes very slight changes in NOx soil and fertilizer emissions, as shown below. The HEMCO soil NOx extension uses an manual diagnostic to keep track of NOx from fertilizers. ################################################################################### ### Emissions totals for species NO [Tg] ### ### Ref = GCC_13.3.0-rc.1; Dev = GCC_13.4.0-rc.0 ### ################################################################################### Ref Dev Dev - Ref % diff NO Aircraft : 0.156922 0.156922 0.000000 0.000 NO Anthro : 5.327773 5.327773 0.000000 0.000 NO BioBurn : 1.882279 1.882279 0.000000 0.000 NO Fert : 0.359627 0.359458 -0.000169 -0.047 NO Lightning : 1.664984 1.664984 0.000000 0.000 NO Ship : 0.073301 0.074878 0.001577 2.152 NO Soil : 1.745616 1.745500 -0.000115 -0.007 ----------------------------------------------------------------------------------- NO Total : 10.850869 10.852331 0.001462 0.013 7. Use degassing-only volcano emissions in GEOS-Chem benchmark simulations Removing eruptive volcanoes from the benchmark simulations reduces the amount of SO2 emitted to the atmosphere by 1%: ################################################################################### ### Emissions totals for species SO2 [Tg] ### ### Ref = GCC_13.3.0-rc.1; Dev = GCC_13.4.0-rc.0 ### ################################################################################### Ref Dev Dev - Ref % diff SO2 Aircraft : 0.019036 0.019036 0.000000 0.000 SO2 Anthro : 5.872509 5.872509 0.000000 0.000 SO2 BioBurn : 0.555350 0.555350 0.000000 0.000 SO2 Ship : 0.951114 0.951114 0.000000 0.000 SO2 VolcDegas : 1.826465 1.826465 0.000000 0.000 SO2 VolcErupt : 0.101063 0.000000 -0.101063 -100.000 ----------------------------------------------------------------------------------- SO2 Total : 9.325534 9.224471 -0.101063 -1.084 Other changes in benchmark output related to this update are: 8. Add option for driving GEOS-Chem & GCHP with native GEOS meteorological files TBD The following updates introduced differences on the order of numerical noise: TBD The following were zero-difference updates:
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Approval | ||||
Requires further investigation: | ||||
Approved by: | ||||
Date of approval: |