Benchmark/GEOS-Chem 12.6.0

This page includes information about all benchmark simulations for GEOS-Chem 12.6.0.

GEOS-Chem Classic 1-month benchmark

Benchmark plots

Enable PDF bookmarks¹ in the files linked below to navigate between species. See the Species in GEOS-Chem wiki page for species definitions and details.

Species Category2	Plots					Additional Information
	Level Map		Zonal Mean		Emissions
Oxidants O3, CO, OH, NOx	sfc	500hPa	full column	stratosphere	sfc
Aerosols NH4, NIT, SO4, DST1, DST2, DST3, DST4, BC, OC, AERI, BrSALA, BrSALC, ISALA, ISALC, NITs, SALA, SALC, SO4s, SOA_Simple, SOA_Complex	sfc	500hPa	full column	stratosphere	sfc	AOD
Bromine Bry, BrOx, Br, Br2, BrCl, BrNO2, BrNO3, BrO, CH4Br, CH2Br2, CH2Br2, CH3Br3, HOBr, HBr	sfc	500hPa	full column	stratosphere	sfc
Chlorine Cly, ClOx, Cl, ClO, Cl2, Cl2O2, ClOO, ClNO2, ClNO3, CCl4, CFCs, CH3Cl, CH2Cl2, CH4CCl3, HOCl, HCl, Halons, HCFCs, OClO	sfc	500hPa	full column	stratosphere	--
Iodine Iy, IxOy, I, I2, IBr, ICl, IO, INO2, IONO2, CH3I, CH2I2, CH2ICl, CH2IBr, HI, HOI, OIO	sfc	500hPa	full column	stratosphere	sfc
Nitrogen NOy, NOx, HNO2, HNO3, HNO4, IMPN, NIT, NO, NO2, NO3, N2O5, MPN, PAN, PPN, N2O, NHx, NH3, NH4	sfc	500hPa	full column	stratosphere	sfc
Primary Organics ALK4, BENZ, CH4, C2H6, C2H4, C3H8, PRPE, TOLU, XYLE, ISOP, MTPA, MTPO, LIMO, GLYX, HCOOH, MAP, MBO, MOH, RCHO	sfc	500hPa	full column	stratosphere	sfc
Secondary Organics ACET, MEK, MVK, ALD2, CH2O, HPALD, MP, ISOPN, IEPOX, ACTA, EOH, MOH	sfc	500hPa	full column	stratosphere	sfc
Secondary Organic Aerosols SOAP, SOAS, TSOA0, TSOA1, TSOA2, TSOA3, ISOA1, ISOA2, ISOA3, ASOA1, ASOA2, ASOA3, ASOAN, TSOG0, TSOG1, TSOG2, TSOG3, ISOG1, ISOG2, ISOG3, ASOG1, ASOG2, ASOG3, INDIOL, ISN1OA, LVOCOA, SOAIE, SOAGX, SOAME, SOAMG	sfc	500hPa	full column	stratosphere	sfc
Sulfur SOx, DMS, OCS, SO2, SO4	sfc	500hPa	full column	stratosphere	sfc
ROy H2O2, H, H2, H2O, HO2, O1D, OH, RO2	sfc	500hPa	full column	stratosphere	--
J-values	sfc	500hPa	full column	stratosphere	--	--
Emissions by HEMCO category	Total, Aircraft, Anthropogenic, Biomass Burning, Biogenic, Lightning, Natural, Ocean, Seabirds, Decaying Plants, Ship, Soil, Degassing Volcanoes, Erupting Volcanoes
Emission totals	Tables by species, Tables by inventory
Global mass	Entire atmosphere, Troposphere only
Budget	Ox and CO budgets
OH metrics	OH concentration, MCF lifetime, CH4 lifetime

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²Species category and lumped species definitions are simple to adjust. Updating them requires only editing the json files.

Benchmark assessment form

Description

New features added into GEOS-Chem

Feature Submitted by Updates that will affect full-chemistry simulations Feature Submitted by 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) HNO3 cold-temperature deposition Viral Shah (Harvard) Quick fix for aerosol pH calculation when dry Becky Alexander (UW) Xuan Wang (Harvard) Remove isoprene in VBS (leaving aqueous) Melissa Sulprizio (GCST) Updated aerosol hygroscopicity and optics Robyn Latimer (Dalhousie) Jun Meng (Dalhousie) Simple parameterization for CO2 dependence of stomatal resistance (off by default) Amos Tai (CUHK) Aerosol nitrate photolysis option (off by default) Tomas Sherwen (York) Prasad Kasibhatla (Duke) Updates that will NOT affect full-chemistry simulations CMake in GEOS-Chem Classic (optional) Liam Bindle (Dalhousie) Enable GEOS-Chem "Classic" netCDF (History) diagnostics to be subsetted vertically and horizontally Bob Yantosca (GCST) BB4CMIP historical biomass burning emissions (1750-2014) NOTE: This is an optional emissions inventory. Pengfei Liu (Harvard) Surface diagnostic (O3, HNO3) with user-selected height Katie Travis (MIT) GCST APM update and integration with GEOS-Chem 12 Gan Luo (SUNY-Albany) Fangqun Yu (SUNY-Albany) Version, resolution, met fields used: GEOS-FP (72L), 4x5, July 2016 1-month benchmark finished on: Sat Sep 14 03:12:29 EDT 2019 Performance statistics: Compiled with ifort 17.0.4 Ran on 24 CPUs of holyjacob01.rc.fas.harvard.edu (Intel(R) Xeon(R) CPU E5-2680 v3 "Haswell" @ 2.50 GHz) Wall time: 07:10:48 CPU time / wall time: 21.4499 % of ideal performance: 89.37% Memory: 13.0503 GB Compared to previous benchmark: 12.5.0 This update will impact: (select all that apply with boldface) Advection, BL Mixing, Convection, Met Fields, Dry Dep, Wet Dep, Stratosphere, Emissions, Photolysis, Chemistry, Other (please specify): Unit test results may be viewed at: http://ftp.as.harvard.edu/gcgrid/geos-chem/1mo_benchmarks/GC_12/12.6.0/GCC/Plots/GC_12.6.0_Aug13.results.html Metrics Global mean OH from log file (% change): 11.7776515135847 x 105 molec/cm3 (-5.54%) Methyl chloroform lifetime (% change): 5.3395 (4.07%) Methane lifetime (% change): 8.9801 years (3.83%) List all SURFACE species, J-Values, and COLUMN AOD values that changed by 10% or more: Oxidants: NOx Aerosols: NH4 NIT BCPI BCPO AERI BrSALA BrSALC ISALC NITs SO4s Complex_SOA Nitrogen: NOy NOx HNO3 HNO4 IPMN NIT NO NO2 NO3 N2O5 MPN PAN PPN NH3 NH4 ROy: RO2 Sulfur: DMS SO2 Iodine: IxOy I I2 ICl IO INO2 IONO2 CH2I2 OIO Bromine: Bry BrOx Br Br2 BrCl BrNO2 BrNO3 BrO HOBr HBr Chlorine: Cly ClOx Cl ClO Cl2 Cl2O2 ClOO ClNO2 ClNO3 HOCl HCl OClO Primary_Organics: ALK4 PRPE TOLU XYLE ISOP MTPA MTPO LIMO GLYX RCHO Secondary_Organics: MVK ALD2 HPALD ISOPN IEPOX EOH Secondary_Organic_Aerosols: TSOA0 TSOA1 TSOA2 TSOA3 ASOA1 ASOA2 ASOA3 TSOG0 TSOG1 TSOG2 TSOG3 ASOG1 ASOG2 ASOG3 INDIOL ISN1OA SOAIE SOAGX SOAME SOAMG J-Values: CCl4 CFC11 CFC113 CFC114 CFC115 CFC12 CH2Cl2 CH3CCl3 CH3Cl HCFC123 HCFC141b HCFC142b HCFC22 N2O O2 Column AOD: BCPI SO4 SOA_from_Aqueous_ISOP Total List all 500 hPa species and J-Values that changed by 10% or more : List all ZONAL MEAN species and J-Values that changed by 10% or more: Oxidants: OH NOx Aerosols: NIT BCPO AERI BrSALA BrSALC SO4s Nitrogen: NOx HNO3 IPMN NIT NO NO2 NO3 N2O5 MPN PPN NH3 ROy: H2O2 H HO2 OH RO2 Sulfur: DMS SO2 Iodine: IxOy I I2 IBr ICl IO INO2 IONO2 CH2I2 CH2ICl CH2IBr OIO Bromine: Bry BrOx Br Br2 BrCl BrNO2 BrNO3 BrO HOBr HBr Chlorine: Cly ClOx Cl ClO Cl2 Cl2O2 ClOO ClNO2 ClNO3 HOCl HCl OClO Primary_Organics: BENZ PRPE TOLU XYLE ISOP MTPA MTPO LIMO GLYX MAP RCHO Secondary_Organics: MEK MVK ALD2 HPALD MP ISOPN IEPOX ACTA EOH Secondary_Organic_Aerosols: TSOA1 TSOA3 ASOA3 TSOG0 TSOG1 TSOG2 TSOG3 ASOG1 ASOG2 ASOG3 INDIOL ISN1OA LVOCOA SOAIE SOAGX SOAME SOAMG J-Values: CCl4 CFC11 CFC113 CFC114 CFC115 CFC12 CH2Cl2 CH3CCl3 CH3Cl HCFC123 HCFC141b HCFC142b HCFC22 N2O O2 List all EMISSIONS that changed by 10% or more: Anthro: BCPI BCPO Ship: NO O3 Total: BCPI BCPO NO Comments on observed differences: Below we summarize the notable changes caused by specific updates. Scale DICE-Africa emissions to address errors in inventory This update contributes to changes in BC and OC concentrations over and just downwind of Africa. Slight differences can also be seen over Africa in the emission maps. The impact on the inventory emission totals are included below. ############################################################################### ### Inventory totals for DICEAfrica ### ### Ref = GC_12.5.0; Dev = GC_12.6.0 ### ############################################################################### Ref Dev Dev - Ref DICEAfrica BCPI  : 0.004153 0.006925 0.002772 Tg DICEAfrica BCPO  : 0.016612 0.027698 0.011087 Tg The following updates produced small changes: Comments on additional differences in GCHP: Approval Requires further investigation: Approved by: Date of approval: GCHP 1-month benchmark The following sections contain validation plots for GCHP 12.6.0. Comparison of GCHP versions This table contains plots comparing GCHP 12.5.0 (Ref) and GCHP 12.6.0 (Dev) for a 1-month simulation. Category Plots Additional Information Level Map Zonal Mean Emissions Oxidants sfc 500hPa full column stratosphere full column Aerosols sfc 500hPa full column stratosphere full column Column AOD Bromine sfc 500hPa full column stratosphere full column Chlorine sfc 500hPa full column stratosphere -- Iodine sfc 500hPa full column stratosphere full column Nitrogen sfc 500hPa full column stratosphere full column Primary Organics sfc 500hPa full column stratosphere full column Secondary Organics sfc 500hPa full column stratosphere full column Secondary Organics sfc 500hPa full column stratosphere full column Sulfur sfc 500hPa full column stratosphere full column Emissions by HEMCO category Aircraft, Anthro, Bioburn, Biogenic, Lightning, Monoterp, Natural, Ocean, Seabirds, DecayingPlants, Ship, Soil, Total, VolcDegas, VolcErupt, Emission totals Comparison of GCHP and GEOS-Chem Classic This table contains plots comparing GEOS-Chem Classic 12.6.0 (Ref) against GCHP 12.6.0 (Dev) for a 1-month simulation. Category Plots Additional Information Level Map Zonal Mean Emissions Oxidants sfc 500hPa full column stratosphere full column Aerosols sfc 500hPa full column stratosphere full column Column AOD Bromine sfc 500hPa full column stratosphere full column Chlorine sfc 500hPa full column stratosphere -- Iodine sfc 500hPa full column stratosphere full column Nitrogen sfc 500hPa full column stratosphere full column Primary Organics sfc 500hPa full column stratosphere full column Secondary Organics sfc 500hPa full column stratosphere full column Secondary Organic Aerosols sfc 500hPa full column stratosphere full column Sulfur sfc 500hPa full column stratosphere full column Emissions by HEMCO category Aircraft, Anthro, Bioburn, Biogenic, Lightning, Monoterp, Natural, Ocean, Seabirds, DecayingPlants, Ship, Soil, Total, VolcDegas, VolcErupt, Emission totals GCHP and GEOS-Chem Classic difference of differences This table contains plots comparing the difference [GCHP 12.6.0 - GCHP 12.5.0] against the difference [GC Classic 12.6.0 - GC Classic 12.5.0], taken from 1-month benchmark simulations. Category Plots Level Map Zonal Mean Oxidants sfc 500hPa full column stratosphere Aerosols sfc 500hPa full column stratosphere Bromine sfc 500hPa full column stratosphere Chlorine sfc 500hPa full column stratosphere Iodine sfc 500hPa full column stratosphere Nitrogen sfc 500hPa full column stratosphere Primary Organics sfc 500hPa full column stratosphere Secondary Organics sfc 500hPa full column stratosphere Secondary Organic Aerosols sfc 500hPa full column stratosphere Sulfur sfc 500hPa full column stratosphere NOTE: At present, we have only created the diff-of-diffs plots for species concentration. This can be extended to other categories in the future.