GEOS-Chem 14.2.1

Release date: 10 Oct 2023

From CHANGELOG.md

Added

• Script test/difference/diffTest.sh, checks 2 different integration tests for differences
• Added GCHP environment file and export/unset env variables in run script for NASA Pleiades cluster
  SatDiagnEdge collection to all GEOS-Chem Classic HISTORY.rc templates
• Added new GCHP config file ESMF.rc for configuring ESMF logging
• Added several new run directory files for use with GEOS-Chem in GEOS
• GCClassic integration tests now display proper commit info in results.compile.log
• Stopped OCEAN_CONC from needlessly being pushed through vertical regridding for Hg simulations
• Added warning in GCHP HISTORY.rc about outputting area-dependent variables on custom grids
• Added option to use a single advected species in the carbon simulation
• Added option to perturb CH4 boundary conditions in CH4 simulation
• Added option to perturb OH in CH4 simulation using scale factor in HEMCO_Config.rc

Changed

• Update DiagnFreq in GCClassic integration tests to ensure HEMCO diagnostic output
• Rename restart files in GCHP integration tests (as we do in non-test runs)
• Request 6 hours of execution time for GEOS-Chem Classic integration tests
• Invert directory structure where integration and parallel test scripts are stored
• Error check to stop run if any MW_g values are undefined
• Explicitly define tagCH4 simulations in Input_Opt rather than basing off of number of advected species
• The fullchem mechanism must now be built with KPP 3.0.0 or later
• Changed the AEIC 2019 monthly climatology specification format in ExtData.rc to match standard convention for climatology
• Changed default ESMF logging in GCHP to be ESMF_LOGKIND_NONE (no log)
• NetCDF utilities in NcdfUtil folder now use the netCDF-F90 API
• GEOS-only updates for running GEOS-Chem in GEOS
• Boundary conditions for nested-grid simulations are now imposed at every time step instead of 3-hourly
• Update GeosCore/carbon_gases_mod.F90 for consistency with config file updates in PR #1916
• Update MPI usage in CESM-only code to match new conventions in CAM
• Updated GEPA inventory to GHGI v2 for CH4 and carbon simulations
• Updated integration tests scripts to run on the WashU Compute1 cluster

Fixed

• Add missing mol wt for HgBrO in run/shared/species_database_hg.yml
• Moved the EDGAR REF_TRF CH4 emissions to the Oil emissions category so it is superseded by GFEIv2 for carbon simulations.
• Prevent State_Diag%SatDiagnCount from not being allocated
• For satellite diagnostics, do not test for id_OH if OH is not a species
• Fixed parallelization in Luo wetdep simulations caused by uninitialized variable
• Fixed parallelization for Hg0 species in GeosCore/drydep_mod.F90
• Fixed incorrect time-slice when reading nested-grid boundary conditions
• Fixed initialization of advected species missing in GCHP restart file
• Fixed comments in GeosUtil/unitconv_mod.F90 to reflect code implementation
• Fixed compilation issues for KPP/custom; updated equations in custom.eqn
• Prevent users from creating GCClassic rundirs at 0.25 x 0.3125 resolution for MERRA-2 met
• Added fix to set RUNDIR_GRID_HALF_POLAR option for global grids at 0.25x0.3125 or 0.5x0.625 resolutions
• Moved OCEAN_MASK out of ExtData.rc.TransportTracers and into the
  meteorology template files
• Update ExtData.rc.CO2 to get meteorology entries from template files
• Added fix for CH4 analytical inversions to convert the state vector value read from file to the nearest integer before comparing to the Input_Opt%StateVectorElement read from geoschem_config.yml

Removed

• Remove references to the obsolete tagged Hg simulation

New Contributors

• @nicholasbalasus made their first contribution in #1856

Full Changelog: 14.2.0...14.2.1

GEOS-Chem 14.2.0

Release date: 05 Oct 2023

What's Changed

• Bug fix: restore consideration of sea salt alkalinity to heterogenerous acid-catalyzed reactions of halogens on sea salt aerosols by @yantosca in #1548
• Consolidate existing integration test scripts (slurm, lsf, interactive); Add LSF capability by @yantosca in #1565
• Integration/parallelization test scripts now place test scripts & artifacts into subdirectories of the root test folder by @yantosca in #1636
• Add reminders to compile with CMake options to createRunDir.sh scripts by @yantosca in #1638
• Convert log file prints to debug prints by @yantosca in #1549
• Fix bug where writing species metadata yaml file always attempted by @lizziel in #1644
• Remove NcdfUtil/perl folder by @yantosca in #1567
• Reset SPC_ time entry from EFYO to CYS for integration tests and fullchem_benchmark runs by @yantosca in #1647
• Remove LWI from carbon simulation run directories by @lizziel in #1643
• GEOS-only updates from Christoph Keller by @lizziel in #1653
• Update rundir configuration files to point to corrected NEI day-of-week scale factors (Closes #1608) by @yantosca in #1633
• Add entries for GFAS methanol to HEMCO_Config.rc templates by @yantosca in #1632
• Archive State_Chm%H2SO4_PRDR for production rate of H2SO4 (mol/mol) for CESM-GC by @jimmielin in #1624
• Apply work-around for GFAS pFe bug in GC-Classic and GCHP by @lizziel in #1621
• Simplify Github issue and pull request templates by @msulprizio in #1650
• Avoid compiler warning and compilation restart for KPP/fullchem/gckpp_Jacobian.F90 by @yantosca in #1657
• Change HEMCO time cycle flag in benchmark rundir & integration tests for 14.1.1 by @yantosca in #1656
• Removal of module variables from ucx_mod by @jimmielin in #1583
• Fix incorrect comparison in GET_IJ routine; Fix leftover issues from PR #1656 by @yantosca in #1663
• Fix bug in RRTMG optic diagnostics (AOD, SSA, Asym) by @lizziel in #1669
• Ask users for PI at registration; abstract user registration code into a single script by @yantosca in #1674
• Move GC-Classic run scripts to operational_examples directory by @lizziel in #1677
• Fix several issues with GitHub issue and PR templates by @yantosca in #1679
• Remove X-HRS printout from GEOS-Chem log file by @msulprizio in #1678
• Remove references to Compute Canada from data download scripts by @msulprizio in #1681
• Add lumped furans to chemistry and biomass burning emissions by @msulprizio in #1642
• Abstract fullchem mechanism history into CHANGELOG_fullchem.md - closes #1689 by @yantosca in #1690
• Fix typo in GCClassic/createRunDir.sh preventing benchmark run script from being copied to run directory by @msulprizio in #1694
• Prevent divide by zero in sulfur chemistry by @lizziel in #1698
• Turn on sea salt debromination for full-chemistry simulations by @msulprizio in #1703
• Now use consistent behavior when the first call to "Integrate" fails by @yantosca in #1609
• Reset "EFY" to "CYS" for nested boundary conditions in GCClassic integration & parallel tests by @yantosca in #1706
• Restore Iy sink reactions and rebuild fullchem mechanism with KPP 3.0.0 by @yantosca in #1620
• Restore consideration of sea salt alkalinity to heterogenerous acid-catalyzed reactions of halogens on sea salt aerosols by @msulprizio in #1702
• Add S(IV) + HOBr and S(IV) + HOCl to the fullchem mechanism (Closes #1627) by @yantosca in #1630
• Update entrainmment-limited kinetics in clouds by @cdholmes in #1292
• Include nitrate aerosol photolysis in the troposphere by @viral211 in #1623
• Update HEMCO_Config.rc and ExtData.rc template files to read GFED4 data thru 2022 by @yantosca in #1709
• Add lightning climatology option to HEMCO_Config.rc by @msulprizio in #1628
• Restore vertical emission distributions to CEDS energy and industry emissions by @msulprizio in #1712
• Add fix for CEDS energy and industry emissions to distribute vertically by @msulprizio in #1730
• GCHP bug fixes and run directory updates by @lizziel in #1724
• Add run configuration files for WRF-GC by @jimmielin in #1692
• Fix bug renaming midrun checkpoint files by @lizziel in #1737
• Fix computation of planeCount for Harvard Cannon GCHP run scripts and integration test scripts by @yantosca in #1686
• Restructure photolysis by @lizziel in #1733
• Update text displayed at user registration during rundir creation by @yantosca in #1732
• Remove array temporaries in carbon_mod.F90 and seasalt_mod.F90 by @yantosca in #1729
• Modify HEMCO_Config.rc templates to read HEMCO restart files from the rundir "Restarts/" subdirectory by @yantosca in #1718
• Prevent repeated printout of concs, rxn rates when KPP fails twice by @yantosca in #1749
• Fix bug in photolysis off option by @lizziel in #1750
• Fix bug in HOBr uptake rate calculation (closes #1746) by @yantosca in #1751
• Set CO2 concentration to 421 ppm in fullchem simulations -- fixes CO2 error norm for KPP by @yantosca in #1731
• Add GFED4 climatology emissions as an option in HEMCO_Config.rc by @msulprizio in #1758
• Update global_ch4_mod.F90 to correct bug that incorrectly selects troposphere-stratosphere boundary by @toddmooring in #1710
• Update global anthropogenic CH4 emissions to EDGARv7.0 by @msulprizio in #1773
• Remove operator splitting in CH4 simulation that biases diagnostics (closes #1738) by @yantosca in #1740
• Update CH4 simulation to use loss frequencies from GCClassic 14.0.0 10-year benchmark by @msulprizio in #1776
• Update README.md and AUTHORS.txt for 14.2.0 by @yantosca in #1774
• Update GCHP check for python and bc libs to prevent error checking fail by @lizziel in #1777
• Add modifications to sea salt chemistry in order to avoid KPP integration errors by @yantosca in #1779
• Add CH4 emissions from hydroelectric reservoirs by @msulprizio in #1784
• Add RxnConst diagnostic for archiving reaction rate constants by @jimmielin in #1728
• Fix GCHP time_mod start and elapsed times by @lizziel in #1781
• Update partitions and env files in Harvard Cannon operational examples by @yantosca in #1811
• Change relative tolerance back to 0.5e-2 to address model slowdown by @msulprizio in #1815
• Allow the use of OFFLINE_SEASALT for seasalt alkalinity, Cl, and Br in GEOS-Chem within CESM by @jimmielin in #1804
• Update transport tracer simulation for consistency with GMAO's tracer gridded component by @msulprizio in #1816
• Bug fixes for GEOS-only runs by @lizziel in #1842
• Add correct TransportTracers species names to GCHP HISTORY.rc.TransportTracers template by @yantosca in #1840
• Prevent run-time crash if using GEOS-IT meteorolology by @lizziel in #1846
• Fix GC-Classic run directory runScriptSamples symbolic link by @lizziel in #1852
• Fix bug in state_chm_mod that printed line of equals signs to log from every core by @lizziel in https://g...

GEOS-Chem 14.1.1

Release date: 03 Mar 2023

From CHANGELOG.md

Added

• New integration test functions in test/GCClassic/integration and test/GCHP/integration
• New parallelization test functions in test/GCClassic/parallel
• Added README.md files for integration and parallelization tests in the test folder structure
• Added GCHP integration test for the tagO3 simulation
• Added GCHP and GCClassic integration tests for the carbon simulation
• Integration and parallelization test folders have been separated into subdirectories to minimize clutter.
• GEOS-only updates
• Add about to GitHub issue templates (ensures they will be displayed)
• Added .github/ISSUE_TEMPLATE/config.yml file w/ Github issue options

Changed

• GCClassic integration tests now use a single set of scripts
• GCHP integration tests now use a single set of scripts
• Integration test run directories are created with the default names assigned by createRunDir.sh
• Several bash functions in test/shared/commonFunctionsForTests.sh have been combined so that they will work for both GCClassic and GCHP integration tests
• ./cleanRunDir.sh functions now take an argument for non-interactive execution (facilitates integration & parallelization tests)
• Moved several module variables from GeosCore/ucx_mod.F90 to Headers/state_chm_mod.F90. This facilitates using GEOS-Chem in CESM.
• Time cycle flags EFYO are changed to CYS for all GCClassic integration/parallel tests, and for GCClassic fullchem_benchmarksimulations.
• Ask users for the name of their research institution at registration
• Ask users for the name of their PI at registration
• Do not compile GCHP for tagO3 integration tests; use the default build instead
• Moved GC-Classic sample run scripts to operational_examples/harvard_cannon
• The GitHub PR template is now named ./github/PULL_REQUEST_TEMPLATE.md

Fixed

• Fixed bug in where writing species metadata yaml file write was always attempted
• Prevent a warning from being generated when compiling gckpp_Jacobian.F90
• Fixed a bug in routine GET_IJ where X and Y were swapped in an IF comparison.

Removed

• Removed intTest*_slurm.sh, intTest_*lsf.sh, and intTest*_interactive.sh integration test scripts
• Removed State_Met%LWI and input meteorology LWI from carbon simulation run config files
• Removed function CLEANUP_UCX; deallocations are now done in state_chm_mod.F90

Full Changelog: 14.1.0...14.1.1

GEOS-Chem 14.1.0

Release date: 01 Feb 2023

This is a release features the updates and fixes listed below.

From CHANGELOG.md

Added

• 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.yml template files
• Added HTAPv3 inventory as a global emissions option (off by default)
• Added carbon simulation and KPP mechanism for CO-CO2-CH4-OCS
• Added GCHP run script and environment file for UCI Australia cluster Gadi

Changed

• 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
• Updated the time refresh settings for O3_PROD and O3_LOSS in ExtData.rc.tagO3 to read data on the first of each month.

Fixed

• 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)
• Fixed bug in logic that caused restart files not to be linked to the Restarts/ folder of the GCHP tagO3 run directory
• Fixed timestamp for GCClassic History diagnostic so time-averaged collections match the reference time
• Fixed double-titration of seasalt alkalinity

Removed

• Removed LRED_JNO2 and AERO_HG2_PARTITON switches from HEMCO_Config.rc (and related code)

See the GEOS-Chem 14.1.0 page for a complete list of updates.

What's Changed

• Adding in dry deposition updates to Hg0 from Feinberg22 ESPI publication + AMAP emissions by @arifein in #1367
• Add MO2 + NO3 = NO2 + CH2O + HO2 reaction via KPP by @yantosca in #1444
• Bug fix: Change sign of Arrhenius "A" coefficient in rxn ETO = HO2 + 2CH2O by @yantosca in #1447
• Bug fix: HOBr + SO2 and HOCl +SO2 now produce SO4 instead of SO4s; Closes #1298 by @yantosca in #1448
• Update MW_g value of CH4 from 16.05 to 16.04 by @yantosca in #1445
• Add "WD_CoarseAer:true" for SO4s and NITs in species_database.yml by @yantosca in #1426
• Fix bug in computing State_Met fields IsLand, IsWater, IsOcean, IsIce by @lizziel in #1425
• Add capability to write metadata for defined species to a YAML file by @yantosca in #1316
• Move in-module variables in GLOBAL_CH4_MOD to State_Chm by @jimmielin in #1407
• GEOS-Chem Classic netCDF satellite diagnostics (supersedes PR #1134) by @yantosca in #1478
• Removes HCO_Interface_GC_Mod module variables SZAFACT, JNO2, JOH by @jimmielin in #1348
• Add MAPL ExtData format option required in MAPL 2.26.0 by @lizziel in #1489
• Add capability to save SpeciesConc diagnostic in units v/v or molec/cm3 by @msulprizio in #1572
• KPP 3.0.0 with auto-reduction solver by @yantosca in #1482
• Retire LWI met-field by @lizziel in #1435
• Fix GCHP bug where fraction snow all zeros by @lizziel in #1577
• Add missing J-value diagnostics to GCHP HISTORY.rc by @msulprizio in #1582
• Fix bug in GCHP HISTORY.rc names for HCFCs by @lizziel in #1590
• Fix list of Complex SOA species checked in input_mod.F90 by @jimmielin in #1546
• Add GCHP operational scripts for UoY by @kilicomu in #1570
• Add GCHP operational run scripts for MIT clusters by @lizziel in #1571
• Add GC-Classic operational scripts for York by @kilicomu in #1592
• Add tagged O3 run directory for GCHP by @Jourdan-He in #1380
• Fix parsing error for ObsPack diagnostic species in input_mod.F90 -- Closes #1542 by @yantosca in #1554
• Add GCHP upwards mass flux diagnostic to config files by @lizziel in #1584
• Remove LRED_JNO2 and AERO_HG2_PARTITION switches and related code by @yantosca in #1588
• Fix typos and add explanatory comments for Hg simulation emissions by @jennyfisher in #1591
• Add timestep menu back to GCHP geoschem_config.yml templates by @yantosca in #1589
• Fix timecycle flag for QFED and OFFLINE emissions in HEMCO_Config.rc by @msulprizio in #1595
• Add HTAPv3 inventory as a global emissions option by @yantosca in #1551
• Fix logic error in GCHP createRunDir.sh for tagO3 simulation by @yantosca in #1597
• Time-averaged file timestamp changed from averaging period mid-point to start by @yantosca in #1600
• Add fixes for minor issues in the GCHP tagO3 simulation by @yantosca in #1601
• Fix double-titration of seasalt alkalinity error -- Closes #1506 by @yantosca in #1521
• Add GCHP operational run files for NCI Australia cluster Gadi by @lizziel in #1615
• Add carbon simulation and KPP mechanism by @msulprizio in #1605
• Change Harvard Cannon "huce_cascade" partition name to "seas_compute" in sample run scripts by @yantosca in #1611
• Bug fix: Rename GCHP operational run script example directory for Australia's NCI Gadi cluster by @msulprizio in #1619

New Contributors

• @arifein made their first contribution in #1367
• @kilicomu made their first contribution in #1570
• @jennyfisher made their first contribution in #1591

Full Changelog: 14.0.2...14.1.0

GEOS-Chem 14.0.2

Release date: 29 Nov 2022

This is a bug fix release featuring the updates and fixes listed below.

From CHANGELOG.md

Fixed

• 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_bpch section ofgeoschem_config.yml template files
• Removed "dry air" from the metadata of fields State_Met%AIRVOL and State_Met%BXHEIGHT
• Applied fixes for CESM runs: Turned off sea salt emissions; Modified time cycle flag for YUAN_MODIS_LAI

Changed

• 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

What's Changed

• Bug fix: Only write dry-run header to HEMCO.log if it has a unit number by @yantosca in #1476
• Update KPP diagnostics archive flags by @christophkeller in #1477
• Fix units of RxnRate diagnostic in Get_MetaData_State_Diag routine by @yantosca in #1483
• Fix memory leaks and other issues identified by the code sanitizer by @yantosca in #1353
• Fix indentation issue in geoschem_config.yml templates by @laestrada in #1505
• Add fix for EDGAR v6 CH4 emissions by @msulprizio in #1507
• Add fixes to restore the analytical inversion option for CH4 simulations by @msulprizio in #1512
• GEOS-Chem diagnostics in CESM by @lizziel in #1509
• Disallow wildcards in HISTORY.rc for CESM model by @jimmielin in #1513
• Close GEOS-Chem Classic restart files to disk immediately after writing -- Closes #1464 by @yantosca in #1515
• Replace HEMCO time slice selection from 'I' to 'C' in CESM by @lizziel in #1519
• Turn off GEOS-Chem seasalt emissions in CESM by @lizziel in #1520
• Update CH4 lake emission files to correct for wrong time units by @msulprizio in #1526
• Update sample fullchem restart files and specialty simulation oxidant fields to 14.0.0 10-year benchmark output by @msulprizio in #1530
• Restore CH4_RICE emissions in HEMCO_Config.rc.CH4 by @msulprizio in #1540

Full Changelog: 14.0.1...14.0.2

GEOS-Chem 14.0.1

Release date: 31 Oct 2022

This is a bug fix release featuring minor fixes and updates since 14.0.0.

From CHANGELOG.md

Fixed

• 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

Changed

• 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

What's Changed

• Fix incorrect RETURN for deallocation in Cleanup_Vdiff by @jimmielin in #1400
• Populate mid-run checkpoints with non-species data every timeset by @lizziel in #1442
• Update units metadata for State_Met%AirNumDen (should be molec cm-3); Closes #1441 by @yantosca in #1451
• Document and clean up run script operational examples by @lizziel in #1443
• Update README.md and AUTHORS.txt for 14.0.0 by @msulprizio in #1463
• Fix typo preventing the ND51 satellite diagnostic from turning on by @msulprizio in #1468
• add operational run script for wustl_compute1 by @Jourdan-He in #1462
• Improve GCHP crash error message in run scripts by @lizziel in #1456
• Point GCHP species to internal state and remove unused GCHP code by @lizziel in #1458
• Update Restart collection in HISTORY.rc to include BXHEIGHT and TROPLEV for all simulations by @msulprizio in #1473

New Contributors

• @Jourdan-He made their first contribution in #1462

Full Changelog: 14.0.0...14.0.1

GEOS-Chem 14.0.0

Release date: 25 Oct 2022

This is a major version release featuring the following updates:

• Converted input.geos to geoschem_config.yml
• Fixed bugs causing differences when splitting up simulations in time
• Remove unnecessary met-fields from GCClassic restart file
• Updated offline emissions
• Rebuilt mechanisms with KPP 2.5.0
• Changed 4D State_Chm%Species array to vector of 3D arrays
• Boundary conditions are now saved on first timestep
• Updated HEMCO to version 3.5.0
• Updated GMAO libraries for GCHP
• Added option to use native GEOS-FP winds for GCHP
• Fixed bug in GCHP vertical mass flux diagnostic
• Fix compilation errors for custom mechanism
• Bug fixes for the Hg simulation
• Updates for GEOS from GMAO
• Updates for GEOS-Chem and HEMCO in CESM
• Updates for GEOS-Chem in WRF-GC
• Use newest CEDS data in CO2 simulation
• Fix typo in HEMCO_Config.rc for GCHP
• Bug fix in rundir creation for GCAP2
• GEOS-Chem user registration

See the GEOS-Chem 14.0.0 page for a complete list of updates.

What's Changed

• Bug fix for GCHP run directories using GEOS-FP meteorology by @LiamBindle in #1224
• Change 4D State_Chm%Species array to vector of 3D concentration arrays by @lizziel in #990
• Convert input.geos to YAML format; save rundir_vars.txt in the runConfig subdirectory - Closes #1111 by @yantosca in #1128
• GCHP restart updates for compatibility with newer MAPL by @yantosca in #1106
• Bug fixes to remove GCHP diffs if splitting up simulations in time by @lizziel in #1229
• Remove TMPU1, SPHU1, PS1_WET, and PS1_DRY from GC-Classic restart file by @lizziel in #1250
• Rebuild fullchem and Hg mechanisms with KPP 2.5.0 by @yantosca in #1258
• Avoid div-by-zero in routine MMR_Compute_Flux -- Closes #1215 by @yantosca in #1216
• Fix HEMCO diagnostic counter zero warnings in full chemistry simulation by @lizziel in #1260
• Reduce root logging level for MAPL to WARNING by @sdeastham in #1262
• Added native versions of GEOS-FP as menu options in GCHP run directory creation by @LiamBindle in #1230
• Bug fixes for building and running GEOS-Chem 14.0 in GEOS by @lizziel in #1270
• GCHP run directory changes to easily segment runs in time by @lizziel in #1259
• Bug fix for GCHP transport tracers simulation in 14.0.0-rc.0 by @lizziel in #1271
• GEOS-Chem updates for GEOS from GMAO by @lizziel in #1272
• Update offline biogenic VOC and soil NOx emissions by @msulprizio in #1281
• Change GCHP restart filename convention to exclude seconds by @lizziel in #1302
• Remove seconds from gchp log filename to match time in new restart filename by @lizziel in #1303
• Updated the KPP/custom mechanism files so that it builds out-of-the-box -- Closes #1332 by @yantosca in #1333
• Bug fixes for the Hg simulation with KPP by @yantosca in #1336
• Fix bug in setCommonRunSettings.sh that cause "RECORD_REF_DATE: cap_restart" and "RECORD_REF_TIME: cap_restart" by @LiamBindle in #1343
• Update HEMCO_Config.rc for compatibility with GC 13.4.x and 14.0.0 in CESM by @jimmielin in #1344
• Bug fixes for Prod/Loss diagnostics for Hg simulation -- Closes #1284, #1285 by @yantosca in #1356
• Updates for CESM in GEOS-Chem by @lizziel in #1164
• Updates for GEOS from GMAO by @lizziel in #1328
• Add per-domain FIRST switch in ExtState_SetFields for WRF-GC by @jimmielin in #1354
• Feature/user registration: optionally register first time users with dynamodb database by @laestrada in #1279
• Revert GCClassic_Output/14.0.0 data to GCClassic_Output/13.0.0 by @yantosca in #1385
• Add special treatment for MOH in dry deposition if not over land by @lizziel in #1389
• Bug fix: revert GC-Classic pressure fixer to v13.3 by @lizziel in #1387
• Add missing entries for POG1, POG2, and pFe to HEMCO_Config.rc by @msulprizio in #1299
• Specify AOD wavelength 999 nm for use in FAST-JX by @lizziel in #1319
• Update registration to allow for user to input computational environment by @msulprizio in #1408
• Update the README file that gets placed in the rundir for 14.0.0 by @yantosca in #1433
• Bug fix: disable analytical inversion by default for CH4 simulations by @yantosca in #1437
• Add CHANGELOG.md by @msulprizio in #1446
• Update createdRunDir.sh for 14.0.0 release by @msulprizio in #1461

Full Changelog: 13.4.1...14.0.0

GEOS-Chem 13.4.1

Release date: 19 May 2022

This is a bug fix release and features the following updates:

• Bug fix for anthropogenic CH4 emissions over the US, Canada, and Mexico

See the GEOS-Chem 13.4.1 page for more information on these fixes.

What's Changed

• Bug fixes for CH4 emissions by @msulprizio in #1257

Full Changelog: 13.4.0...13.4.1

GEOS-Chem 13.4.0

Release date: 02 May 2022

This is a minor version release and features the following updates:

• Migrated sulfate chemistry to KPP
• Increased surface resistance for O3 drydep on ice/snow
• Updated benchmarks to use degassing-only volcano climatology
• Added Rn222 emissions from Zhang et al (2021)
• Updated automated run-directory creation
• Updated Hg simulation via KPP
• Added bug fixes for HCl uptake on seasalt and Henry's law computation in hetchem
• Updated HEMCO to version 3.4.0

See the GEOS-Chem 13.4.0 page for a complete list of updates.

What's Changed

• Bug fix: Replace single precision constants in fullchem.eqn w/ doubles (closes #951) by @yantosca in #952
• Added a 'DefaultCollection' to GCHP by @LiamBindle in #1008
• Add PM10 diagnostic according to suggestions from Aerosols WG (Closes #958) by @yantosca in #992
• Remove duplicate call to Init_and_Register for the SpeciesConc diagnostic (Closes #1021) by @yantosca in #1023
• Run directory updates enabling automated run directory creation for GCHP and GCClassic by @LiamBindle in #459
• Prevent double-counting of HCl uptake on sea-salt aerosols (Closes #1034) by @yantosca in #1041
• Allow negative pKa but skip missing values in routine CALC_HEFF (Closes #1001) by @yantosca in #1042
• Update O3 deposition surface resistance to ice & snow (Supersedes #1013, Closes #997) by @yantosca in #1055
• GEOS-Chem Classic and GCHP fullchem benchmarks now use degassing volcano climatology (Closes #1005) by @yantosca in #1053
• Added support for driving GEOS-Chem with native GEOS meteorological files by @LiamBindle in #945
• Retire CH4 wetland emissions extension by @msulprizio in #1073
• Implement Hg chemistry via KPP by @yantosca in #1063
• Fix scale factors applied to AEIC VOC emissions - Closes #915 by @flavioquadros in #1067
• GEOS-Chem Classic History can now archive irregular intervals (e.g. a month and a day) -- Closes #1020 by @yantosca in #1090
• Add sulfur in-cloud and on seasalt reactions via KPP (Supersedes #934) by @yantosca in #1054
• GCHP mass flux updates to geoschem/geos-chem by @LiamBindle in #1097
• GEOS-Chem 13.3.4 in GEOSgcm by @lizziel in #1088
• Updates from GEOS developers by @lizziel in #1102
• Updates for CH4 anthropogenic emissions by @msulprizio in #1104
• Fix occasional RRTMG compile error encountered during linking stage by @lizziel in #1112
• Fixed timesteps and Dust_SF for stretched-grid simulations (runConfig.sh) by @LiamBindle in #1124
• Add capability for analytical inversions with CH4 simulations by @msulprizio in #1142
• CH4 pseudo flux diagnostic by @lizziel in #1148
• Add capability to write GEOS-Chem Classic timer output to a JSON file by @yantosca in #1120
• Updates to tagged O3 simulaton for efficiency and correctness - Closes #1109 by @yantosca in #1150
• Fix unit conversion error in tagged CO simulation by @msulprizio in #1151
• Fix typos for MULTISEAICE and CEDS_NO_SHIP entries in HEMCO_Config.rc by @msulprizio in #1159
• Updated data period for CEDS_NO_SHP v2021-06 when ParaNOx is OFF by @LiamBindle in #1161
• Add updates for numerical stability (should be merged before #1170) by @yantosca in #1169
• Increase minimum value of ConcEduct from 1e-8 to 1.0 molec/cm3 - Closes #1115 by @yantosca in #1123
• SIV chemistry updates from Mike Long merged atop PR #1161 -- Supersedes #1166 by @yantosca in #1170
• GCHP fix: move setup_wetscav so C_H2O is not all zeros in first timestep by @lizziel in #1178
• Extend QFED range end from 2020 to 2022 by @lizziel in #1182
• Turn off sea salt aerosol debromination by default by @msulprizio in #1177
• Updated HEMCO_Config.rc and ExtData.rc templates for AEIC2019 emissions by @yantosca in #1183
• Fix parallelization issue in sulfate chemistry (plus other fixes for numerical stability) by @yantosca in #1190
• Revert update for addressing numerical noise in tpcore by @msulprizio in #1194
• Remove goto 9999 statement from chemistry_mod.F90 by @msulprizio in #1211
• Prevent numerical instability in the hetchem function CloudHet -- Closes #1206 by @yantosca in #1206
• Updates to Hg simulation config files and other necessary fixes -- Closes #1192 by @yantosca in #1196

New Contributors

• @flavioquadros made their first contribution in #1067

Full Changelog: 13.3.4...13.4.0

GEOS-Chem 13.3.4

Release date: 07 Dec 2021

This is a bug fix release and features the following updates:

• Now use proper restart file path for dry-run data download
• Now check GEOS-Chem Classic History diagnostic subset regions properly

See the GEOS-Chem 13.3.4 page for more information on these updates.

What's Changed

• Bug fixes: (1) Now check GCClassic History subset regions properly; (2) Use proper restart file paths for dry-run data download (Closes #1039, Closes #1045) by @yantosca in #1047

Full Changelog: 13.3.3...13.3.4