This file documents all notable changes to the GEOS-Chem repository since version 13.4.1, including all GEOS-Chem Classic and GCHP run directory updates.
The format is based on Keep a Changelog, and this project adheres to Semantic Versioning.
- Added dry deposition updates to Hg0 from Feinberg22 ESPI publication + AMAP emissions
- Added MO2 + NO3 = NO2 + CH2O + HO2 reaction
- Added capability to write species metadata to YAML file
- Added satellite diagnostic (SatDiagn) collection, to archive several fields within a user-defined local-time interval. CAVEAT: For now, only one local-time interval is permitted.
- Added adaptive solver (
rosenbrock_autoreduce) option for fullchem mechanism - Added entries for BALD, BENZP, BZCO3H, NPHEN to JValues collection in HISTORY.rc for GCHP
- Added GCHP run script and environment files for MIT clusters Hex and Svante
- Added operational GCHP and GCClassic environment and run scripts for the University of York cluster, Viking
- Added tagO3 run directory for GCHP
- Added upwards mass flux diagnostic to GCHP History collection LevelEdgeDiags
- Added timestep menu to GCHP
geoschem_config.ymltemplate files - Added HTAPv3 inventory as a global emissions option (off by default)
- Moved in-module variables in global_ch4_mod.F90 to State_Chm
- Moved in-module variables in hco_interface_gc_mod.F90 to State_Met and State_Chm
- Modified SpeciesConc diagnostic to include option to output units in v/v or molec/cm3
- Rebuilt fullchem and Hg mechanisms with KPP 3.0.0
- Changed HEMCO timecycle flag for QFED and offline emissions from EF to EFY
- Fixed sign of Arrhenius "A" coefficient in reaction ETO = HO2 + 2CH2O
- Fixed products in HOBr + SO2 and HOCl + SO2 reactions
- Changed MW_g value of CH4 from 16.05 to 16.04
- Added "WD_CoarseAer:true" for SO4s and NITs in species_database.yml
- Fixed bug in computing State_Met surface type logicals (IsLand, IsWater, etc)
- Fixed bug where State_Met%FRSNO (fraction snow) was all zeros in GCHP
- Fixed HCFC141b and HCFC142b names in GCHP HISTORY.rc
- Fixed list of complex SOA species checked in input_mod.F90
- Now use a string array for reading the list of ObsPack diagnostic species (in
GeosCore/input_mod.F90)
- Removed LRED_JNO2 and AERO_HG2_PARTITON switches from HEMCO_Config.rc (and related code)
- Added fix for writing dry-run header to log file
- Updated KPP diagnostics archive flags
- Rewrote code to avoid memory leaks (identified by the code sanitizer)
- Updated EDGAR v6 CH4 emission files to correct timestamp issue
- Updated CH4 Lakes emission files to correct time unit issue
- Added fix for CH4_RICE emissions from EDGAR v6
- Fixed indentation error in the
legacy_bpchsection ofgeoschem_config.ymltemplate files - Removed "dry air" from the metadata of fields
State_Met%AIRVOLandState_Met%BXHEIGHT - Applied fixes for CESM runs: Turned off sea salt emissions; Modified time cycle flag for YUAN_MODIS_LAI
- Updated CESM HISTORY.rc to work with new CESM-GC diagnostics interface
- Updated sample fullchem restart files copied to run directories to 14.0.0 10-year benchmark output
- Use met-field surface type fractions instead of input land-water-ice (LWI) index
- Removed State_Met%LWI and LWI as a met-field input
- Corrected units in metadata for State_Met%AirNumDen and State_Met%PHIS
- Fixed file path for AEIC2019_DAILY emissions for aerosol-only simulations
- Fixed GCHP bug to populate non-species data in mid-run restart files
- Fixed typo preventing ND51 satellite diagnostic from turning on
- Documented and cleaned up GCHP run script operational examples
- Updated README.md and AUTHORS.txt
- Set species concentration arrays as pointers to internal state in GCHP
- Updated Restart collection in HISTORY.rc to save out BXHEIGHT and TROPLEV for all simulations
- Added user registration with dynamodb database during run directory creation
- Added Hg simulation with KPP
- Added yaml-format config file geoschem_config.yml which replaces input.geos
- Added native GEOS-FP and mass fluxes options to GCHP run directory creation
- Added cap_restart file to GCHP run directories to set simulation start time
- Added updates for compatibility with CESM, GEOS, and WRF-GC
- Fixed missing output boundary conditions on first timestep of run
- Added missing entries for POG1, POG2, and pFe to HEMCO_Config.rc
- Reverted GC-Classic pressure fixer to v13.3 to fix bug in v13.4
- Fixed dry deposition of methanol over oceans
- Fixed issues in creating run directory for GCAP2
- Removed duplicate species for SO4 in aciduptake.eqn
- Fixed CEDS_CO2_SHP emissions in HEMCO_Config.rc file for CO2 simulation
- Fixed Volcano_Table entry in HEMCO config template for GCHP
- Fixed transport tracers simulation in GCHP
- Applied fix to avoid divide-by-zero in routine MMR_Compute_FLux
- Fixed HEMCO diagnostic counter zero warnings in full chemistry simulation
- Fixed bug in totalOC diagnostic
- Fixed bugs causing differences when splitting up GC-Classic and GCHP simulations in time
- Fixed bug setting GEOS-FP meteorology in GCHP run directories
- Updated KPP to version 2.5.0
- Updated GCHP run scripts to easily segment runs in time
- Changed GCHP restart filename convention to exclude seconds
- Updated offline biogenic VOC and soil NOx emissions
- Reduced root logging level for MAPL from INFO to WARNING
- Changed 4D State_Chm%Species array to vector of 3D concentration arrays
- Renamed GCHP config file runConfig.sh to setCommonRunSettings.sh
- Moved restart file location in run directory to Restarts subdirectory
- Updated sample restart files copied to run directories to 14.0.0 1-year benchmark output
- Removed TMPU1, SPHU1, PS1_WET, and PS1_DRY from GC-Classic restart file
- Removed input.geos; replaced with geoschem_config.yml
- Removed HEMCO.log output file; HEMCO log info now sent to main GEOS-Chem log