GEOS-Chem 12 benchmark history

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GEOS-Chem v11-02-final will also carry the designation GEOS-Chem 12.0.0. We are migrating to a purely numeric versioning system in order to adhere more closely to software development best practices. For a complete description of the new versioning system, please see our GEOS-Chem version numbering system wiki page.


On this page we have posted complete information about all benchmark simulations (both 1-month and 1-year) for GEOS-Chem 12.

1-year full-chemistry benchmarks

12.0.0

Three GEOS-Chem model versions were compared to each other:

Color Model Version Met Type Year Updates affecting the benchmark simulation Annual Mean OH
[105 molec/cm3] 		O3 STE
[Tg a-1]
Black Observations          
Green 12.0.0 GEOS-FP,
72L, 4x5 		2016 Updates introduced in this benchmark: 11.648 606.580
Blue v11-02f-Run1 GEOS-FP,
72L, 4x5 		2016 Updates introduced in this benchmark: 11.532 593.857
Red v11-02e-Run1 GEOS-FP,
72L, 4x5 		2016 Updates introduced in this benchmark:
  • Use GEOS-FP 4x5 met fields for 2016
 11.541 603.246

The output plots for this run may be downloaded from: 

ftp ftp.as.harvard.edu
cd gcgrid/geos-chem/1yr_benchmarks/GC_12/12.0.0/Run0/output
mget *

You may also view the PDF files online by pointing your browser to 

http://ftp.as.harvard.edu/gcgrid/geos-chem/1yr_benchmarks/GC_12/12.0.0/Run0/output/

Please also view the following pages comparing this version to past 1-year benchmarks:

--Melissa Sulprizio (talk) 11:44, 10 August 2018 (UTC)

1-year Rn-Pb-Be benchmarks

TBD

1-month benchmarks

12.0.0

This section includes the assessment form for the 1-month benchmark simulation of 12.0.0.

Description
New features added into GEOS-Chem
Feature Submitted by
Features affecting the full-chemistry simulation:
Turn off TRASH emissions by default to avoid double counting GCST
Eloise Marais (U. Birmingham)
Add entries to HEMCO_Config.rc for SOAP and pFe in CEDS inventory GCST
Bug fix for liquid water content in gckpp_HetRates.F90 Jiayue Huang (U. Washington)
Quanjie Chen (U. Washington)
Bug fix for CH4 boundary conditions Lee Murray (Rochester)
Fixed typo in call to GAMMA_HOBr_AER Xuan Wang
GCST
Correct issues when specifying DICE-Africa emissions: Eloise Marais (U. Birmingham)
GCST
Add missing Criegee intermediate reaction Xin Chen (UMN)
Bug fix for ARCTAS_SHIP in HEMCO_Config.rc files Barron Henderson (EPA)
Avoid double counting CEDS and GEIA NH3 biofuel emissions Christoph Keller (NASA/GMAO)
GCST
Bug fix in FlexChem: do not zero out ACTA, EOH, HCOOH concentrations Katie Travis (MIT)
Add GFED4.1 data for 2015 and 2016; Use GFED4.1 2016 in benchmarks Kate O'Dell (CSU)
GCST
Features NOT affecting the full-chemistry simulation:
Minor fixes for mercury chemistry updates implemented in v11-02f Colin Thackray (Harvard)
Restore default timestep for MERRA-2 nested grid simulations to 10/20 Ke Li (Harvard)
Remove duplicate C3HI spectrum in FJX_spec.dat and FJX_j2j.dat Tomas Sherwen (York)
Fixed typo that prevented PM2.5 from being archived to netCDF output Jonathan Moch (Harvard)
GCST
Bring two-way nested-grid code option up-to-date Yingying Yan (PKU)
Jintai Lin (PKU)
Do not force L=1 by default in planeflight_mod.F Katie Travis (MIT)
GCST
Add PH2O2 to the default list of prod/loss families in the KPP mechanisms GCST
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
Bug fix for reference time in netCDF diagnostic files GCST
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)
Fix issues in complexSOA and complexSOA_SVPOA restart files Eloise Marais (U. Birmingham)
Bug fixes for v11-02 simulations using the RRTMG radiative transfer model Chris Holmes (U. Florida)
Now always declare the netCDF time variable with an unlimited dimension Chris Holmes (U. Florida)
Version, resolution, met fields used: v11-02, GEOS-FP (72L), 4x5, July 2016
1-month benchmark finished on: Mon Jul 30 21:05:43 EDT 2018
Performance statistics:
  • Ran on 24 CPUs of holyjacob01.rc.fas.harvard.edu (Intel(R) Xeon(R) CPU E5-2680 v3 "Haswell" @ 2.50 GHz)
  • Wall time: 06:38:04
  • CPU time / wall time: 21.9237
  • % of ideal performance: 91.35%
  • Memory: 7.3247 GB
Compared to previous benchmark: v11-02-rc
This update will impact:
(select all that apply with boldface) 		Advection, BL Mixing, Convection, Met Fields, Dry Dep, Wet Dep, Stratosphere, Anthro Emiss, Biogenic Emiss, Biomass Emiss, Photolysis, Chemistry, Other (please specify):
Unit test results may be viewed at: http://ftp.as.harvard.edu/gcgrid/geos-chem/1mo_benchmarks/v12/v12.0.0/output/v12.0.0.results.html
Plots may be viewed at: http://ftp.as.harvard.edu/gcgrid/geos-chem/1mo_benchmarks/v12/v12.0.0/output/
Metrics
Global mean OH from log file (% change): 12.5734575378792 x 105 molec/cm3 (+1.80%)
Methyl chloroform lifetime (% change): 4.9162 years (-1.91%)
Methane lifetime (% change): 8.2830 years (-1.85%)
O3 STE flux (% change): 495.1870 Tg O3/year (-0.18%)
At the SURFACE, list all species that changed by 10% or more: NO, O3, PAN, CO, ALK4, ISOP, HNO3, H2O2, ACET, MEK, ALD2, RCHO, MVK, MACR, NPMN, PPN, R4N2, PRPE, C3H8, CH2O, C2H6, N2O5, HNO4, MP, DMS, SO2, SO4, SO4s, NH3, NH4, NIT, NITs, BCPI, BCPO, OCPI, OCPO, Br2, Br, BrO, HOBr, HBr, BrNO2, BrNO3, MPN, ISOPND, ISOPNB, MOBA, PROPNN, HAC, GLYC, MVKN, MACRN, MAP, NO2, NO3, HNO2, BENZ, TOLU, XYLE, MTPA, LIMO, MTPO, TSOG*, TSOA*, ISOG*, ISOA*, ASOG*, ASOA*, SOAP, SOAS, EOH, MGLY, GLYX, ACTA, HPALD, DHDN, ETHLN, HCOOH, IEPOX*, ISN1, RIP*, IMAE, SOAIE, SOAME, SOAGX, SOAMG, LVOC, LVOCOA, ISN1OG, ISN1OA, MONITS, MONITU, HONIT, MONITA, INDIOL, IPMN, HC187, BrCl, HCl, Cl, ClO, HOCl, ClNO3, ClNO2, ClOO, OClO, Cl2, Cl2O2, BrSALA, BrSALC, CH2I2, CH2ICl, CH2IBr, HOI, I2, IBr, ICl, I, IO, HI, OIO, INO, IONO, IONO2, I2O2, I2O3, I2O4, ISALA, ISALC, AERI, pFe, OH, HO2
Comments on SURFACE differences: Below we summarize the notable changes caused by specific updates.


Turn off TRASH emissions by default to avoid double counting

  • This update resulted in slightly reduced concentrations over land for many species.

Add entries to HEMCO_Config.rc for SOAP and pFe in CEDS inventory

  • This fix caused increases in SOAP, SOAS, and pFe concentrations globally.

Bug fix for CH4 boundary conditions

  • This fix resulted in increased CH4 concentrations in the troposphere.

Bug fix for liquid water content in gckpp_HetRates.F90

  • This fix reduced many Br and Cl species concentrations globally while increasing HBr, BrSALA, and BrSALC.

Fix typo in call to GAMMA_HOBr_AER

  • This fix caused slight changes in Br and Cl species concentrations, mainly over the oceans

Fixes to DICE-Africa emissions

  • These updates primarily caused increases in species concentrations near the surface over and downwind of Africa.

Bug fix in FlexChem: do not zero out ACTA, EOH, HCOOH concentrations

  • This fix caused large increases in ACTA and HCOOH at all levels

Add GFED4.1 data for 2016 and 2016

  • Updating the GFED4 year from 2014 to 2016 caused >10% increases and decreases in species concentrations over land globally.

The following updates impacted species concentrations slightly, but the changes did not amount to >10%.

At 500 hPa, list all species that changed by 10% or more: NO, PAN, CO, ALK4, ISOP, HNO3, ACET, MEK, ALD2, RCHO, MVK, MACR, NPMN, PPN, R4N2, PRPE, C3H8, C2H6, N2O5, HNO4, MP, DMS, SO2, SO4, NH3, NH4, NIT, NITs, BCPI, BCPO, OCPI, OCPO, Br2, Br, BrO, HOBr, HBr, BrNO2, BrNO3, MPN, ISOPND, ISOPNB, MOBA, PROPNN, HAC, GLYC, MVKN, MACRN, MAP, NO2, NO3, HNO2, BENZ, TOLU, XYLE, MTPA, LIMO, MTPO, TSOG*, TSOA*, ISOG*, ISOA*, ASOG*, ASOA*, SOAP, SOAS, EOH, MGLY, GLYX, ACTA, HPALD, DHDN, ETHLN, HCOOH, IEPOX*, ISN1, RIP*, IMAE, SOAIE, SOAME, SOAGX, SOAMG, LVOC, LVOCOA, ISN1OG, ISN1OA, MONITS, MONITU, HONIT, MONITA, INDIOL, IPMN, HC187, BrCl, HCl, Cl, ClO, HOCl, ClNO3, ClNO2, ClOO, OClO, Cl2, Cl2O2, BrSALA, BrSALC, CH2I2, CH2ICl, CH2IBr, HOI, I2, IBr, ICl, I, IO, HI, OIO, INO, IONO, IONO2, I2O2, I2O3, I2O4, pFe, OH
Comments on 500 hPa differences: See comments for surface differences
In the ZONAL MEAN differences, list all species that changed by 10% or more: NO, PAN, CO, ALK4, ISOP, HNO3, H2O2, ACET, MEK, ALD2, RCHO, MVK, MACR, NPMN, PPN, R4N2, PRPE, C3H8, CH2O, C2H6, N2O5, HNO4, MP, DMS, SO2, SO4, SO4s, NH3, NH4, NIT, NITs, BCPI, BCPO, OCPI, OCPO, Br2, Br, BrO, HOBr, HBr, BrNO2, BrNO3, MPN, ISOPND, ISOPNB, MOBA, PROPNN, HAC, GLYC, MVKN, MACRN, MAP, NO2, NO3, HNO2, BENZ, TOLU, XYLE, MTPA, LIMO, MTPO, TSOG*, TSOA*, ISOG*, ISOA*, ASOG*, ASOA*, SOAP, SOAS, EOH, MGLY, GLYX, ACTA, HPALD, DHDN, ETHLN, HCOOH, IEPOX*, ISN1, RIP*, IMAE, SOAIE, SOAME, SOAGX, SOAMG, LVOC, ISN1OG, ISN1OA, MONITS, MONITU, HONIT, IONITA, MONITA, INDIOL, IPMN, HC187, CH4, BrCl, HCl, Cl, ClO, HOCl, ClNO3, ClNO2, ClOO, OClO, Cl2, Cl2O2, BrSALA, BrSALC, CH2I2, CH2IBr, HOI, I2, ICl, I, IO, HI, OIO, INO, IONO, IONO2, I2O2, I2O3, I2O4, pFe, OH, HO2
Comments on ZONAL MEAN differences: See comments for surface differences
In the EMISSION RATIO maps, list all species that changed by 10% or more:
  • Anthropogenic emissions: ACET, ALD2, ALK4, C3H8, CO, MEK, NH3, NO, OC, PRPE, SO2, SO4, XYLE
  • Biomass burning emissions: ACET, ALD2, ALK4, BC, BENZ, C2H6, C3H8, CH2O, CO, EOH, MEK, MTPA, NH3, NO, OC, PRPE, SO2, TOLU, XYLE
  • NO fertilizer & soil emissions
  • SO2 ship emissions
Comments on EMISSION RATIO differences:
Additional or summary comments:
Approval
Requires further investigation: TBD
Approved by: TBD
Date of approval: TBD

--Melissa Sulprizio (talk) 17:10, 31 July 2018 (UTC)

GCHP benchmarks

TBD

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