Difference between revisions of "Bugs and fixes"
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Please also be sure to visit our [[Common GEOS-Chem error messages]] wiki page for more general information about some frequently encountered errors. Also visit our [[Currently unresolved issues in GEOS-Chem]] and [[Known issues caused by compiler bugs]] wiki pages for more information about unresolved issues. | Please also be sure to visit our [[Common GEOS-Chem error messages]] wiki page for more general information about some frequently encountered errors. Also visit our [[Currently unresolved issues in GEOS-Chem]] and [[Known issues caused by compiler bugs]] wiki pages for more information about unresolved issues. | ||
+ | |||
+ | == Bugs and fixes lists have now been migrated to Github == | ||
+ | |||
+ | We have been migrating bug reports to our GEOS-Chem issue tracker, which is located on our Github repository: https://github.com/geoschem/geos-chem/issues/. We recommend that you also look through both the open and closed issues on this page, as your issue might be listed there. | ||
+ | |||
+ | {| border=1 cellspacing=0 cellpadding=5 | ||
+ | |-bgcolor="#CCCCCC" | ||
+ | !Version | ||
+ | !Released | ||
+ | !colspan="2"|List of bugs and issues (now posted on the listed Github repository) | ||
+ | |||
+ | |-valign="top" | ||
+ | |13.0.0 | ||
+ | |TBD | ||
+ | |[https://github.com/geoschem/geos-chem geoschem/geos-chem] | ||
+ | | | ||
+ | *[https://github.com/geoschem/geos-chem/milestone/8 '''Milestone 13.0.0''' (open issues)] | ||
+ | *[https://github.com/geoschem/geos-chem/milestone/8?closed=1 '''Milestone 13.0.0''' (closed issues)] | ||
+ | |||
+ | |-valign="top" | ||
+ | |[[GEOS-Chem 12#12.9.0|12.9.0]] | ||
+ | |TBD | ||
+ | |[https://github.com/geoschem/geos-chem geoschem/geos-chem] | ||
+ | | | ||
+ | *[https://github.com/geoschem/geos-chem/milestone/10 '''Milestone 12.9.0''' (open issues)] | ||
+ | *[https://github.com/geoschem/geos-chem/milestone/10?closed=1 '''Milestone 12.9.0''' (closed issues)] | ||
+ | |||
+ | |-valign="top" | ||
+ | |[[GEOS-Chem 12#12.8.1|12.8.1]] | ||
+ | |TBD | ||
+ | |[https://github.com/geoschem/geos-chem geoschem/geos-chem] | ||
+ | | | ||
+ | *[https://github.com/geoschem/geos-chem/milestone/12 '''Milestone 12.8.1''' (open issues)] | ||
+ | *[https://github.com/geoschem/geos-chem/milestone/12?closed=1 '''Milestone 12.8.1''' (closed issues)] | ||
+ | |||
+ | |-valign="top" | ||
+ | |[[GEOS-Chem 12#12.8.0|12.8.0]] | ||
+ | |pending | ||
+ | |[https://github.com/geoschem/geos-chem geoschem/geos-chem] | ||
+ | |[https://github.com/geoschem/geos-chem/milestone/7?closed=1 '''Milestone 12.8.0'''] | ||
+ | |||
+ | |-valign="top" | ||
+ | |[[GEOS-Chem 12#12.7.2|12.7.2]] | ||
+ | |09 Mar 2020 | ||
+ | |[https://github.com/geoschem/geos-chem geoschem/geos-chem] | ||
+ | |[https://github.com/geoschem/geos-chem/milestone/11?closed=1 '''Milestone 12.7.2'''] | ||
+ | |||
+ | |-valign="top" | ||
+ | |[[GEOS-Chem 12#12.7.1|12.7.1]] | ||
+ | |19 Feb 2020 | ||
+ | |[https://github.com/geoschem/geos-chem geoschem/geos-chem] | ||
+ | |[https://github.com/geoschem/geos-chem/milestone/9?closed=1 '''Milestone 12.7.1'''] | ||
+ | |||
+ | |-valign="top" | ||
+ | |[[GEOS-Chem 12#12.7.0|12.7.0]] | ||
+ | |03 Feb 2020 | ||
+ | |[https://github.com/geoschem/geos-chem geoschem/geos-chem] | ||
+ | |[https://github.com/geoschem/geos-chem/milestone/4?closed=1 '''Milestone 12.7.0'''] | ||
+ | |||
+ | |-valign="top" | ||
+ | |[[GEOS-Chem 12#12.6.3|12.6.3]] | ||
+ | |25 Nov 2019 | ||
+ | |[https://github.com/geoschem/gchp geoschem/gchp] | ||
+ | |[https://github.com/geoschem/gchp/milestone/2?closed=1 '''Milestone 12.6.3'''] | ||
+ | |||
+ | |-valign="top" | ||
+ | |[[GEOS-Chem 12#12.6.2|12.6.2]] | ||
+ | |15 Nov 2019 | ||
+ | |[https://github.com/geoschem/geos-chem geoschem/geos-chem] | ||
+ | |[https://github.com/geoschem/geos-chem/milestone/6?closed=1 '''Milestone 12.6.2'''] | ||
+ | |||
+ | |-valign="top" | ||
+ | |[[GEOS-Chem 12#12.6.1|12.6.1]] | ||
+ | |28 Oct 2019 | ||
+ | |[https://github.com/geoschem/geos-chem geoschem/geos-chem] | ||
+ | |[https://github.com/geoschem/geos-chem/milestone/5?closed=1 '''Milestone 12.6.1'''] | ||
+ | |||
+ | |-valign="top" | ||
+ | |width="80px"|[[GEOS-Chem 12#12.6.0|12.6.0]] | ||
+ | |width="100px"|18 Oct 2019 | ||
+ | |width="200px"|[https://github.com/geoschem/geos-chem geoschem/geos-chem] | ||
+ | |width="400px"|[https://github.com/geoschem/geos-chem/milestone/2?closed=1 '''Milestone 12.6.0'''] | ||
+ | |||
+ | |} | ||
== Issues resolved in GEOS-Chem 12.5.0 == | == Issues resolved in GEOS-Chem 12.5.0 == | ||
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{| border=1 cellspacing=0 cellpadding=5 | {| border=1 cellspacing=0 cellpadding=5 | ||
|-bgcolor="#CCCCCC" | |-bgcolor="#CCCCCC" | ||
− | !width=" | + | !width="200px"|Module or area |
− | !width=" | + | !width="650px"|Issue that was resolved |
+ | !width="130px"|Git commit ID | ||
|-valign="top" | |-valign="top" | ||
|Chemistry | |Chemistry | ||
| | | | ||
− | + | #[[Stratospheric_chemistry#Bug_fix:_make_sure_stratospheric_BrY_concentrations_are_read_properly_each_month|Bug fix: Make sure stratospheric BrY concentrations are properly read each month]] | |
− | + | #[[FAST-JX_v7.0_photolysis_mechanism#FAST-JX_directory|Add photolysis menu to input.geos for specifying FAST-JX directory]] | |
+ | #[[GEOS-Chem_12#Corrections_for_CFCs_in_the_chemistry_mechanism|Correction for CFCs in the chemistry mechanism]] | ||
+ | #[[GEOS-Chem_12#Fix_typo_in_CLD_PARAMS_routine_in_gckpp_HetRates.F90|Fix typo in CLD_PARAMS routine in gckpp_HetRates.F90]] | ||
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem-unittest/commit/0588a269376e0f1d8c7acd04f4b954402e31a76a 0588a269] | ||
+ | #[https://github.com/geoschem/geos-chem/commit/03e94fed99cf2bb538dfc59ec514690a122b01a9 03e94fed] | ||
+ | #[https://github.com/geoschem/geos-chem/commit/1b9f69f048243cfb59226a69885ef152bfd33441 1b9f69f0] | ||
+ | #[https://github.com/geoschem/geos-chem/commit/95d124e0302d46d64f51ac4ff8db57febb81dda9 95d124e0] | ||
+ | |||
+ | |-valign="top" | ||
+ | |Diagnostics | ||
+ | | | ||
+ | #[[List_of_diagnostics_archived_to_netCDF_format#Sample_HISTORY.rc_diagnostic_input_file|Enable GEOS-Chem "Classic" netCDF (History) diagnostics to be subsetted vertically and horizontally]] | ||
+ | #[[GEOS-Chem 12#Enable accurate cloud pH diagnostic calculation|Enable accurate cloud pH diagnostic calculation via post-processing ]] | ||
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem/commit/6acd4ce393d9fdc4be8e8a70a532e6391f54b218 6acd4ce3] | ||
+ | #[https://github.com/geoschem/geos-chem/pull/37/commits/1c15e54ad1c4f34ecdbb03266716c992001c8cc5 1c15e54a] | ||
+ | |||
+ | |-valign="top" | ||
+ | |Structural updates | ||
+ | | | ||
+ | #Add optional capability to compile GEOS-Chem Classic and GCHP using CMake | ||
+ | | | ||
+ | #[https://github.com/geoschem/gchp/pull/27/commits pull/27] | ||
|-valign="top" | |-valign="top" | ||
|Emissions | |Emissions | ||
| | | | ||
− | + | #Fixes for GFED4 biomass burning emissions, including: | |
− | + | #*Change the HEMCO cycling flag so that the model crashes if it doesn't find the right GFED year | |
− | + | #*Remove the 27% scaling of POG to POA and emit 1:1 instead | |
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem-unittest/commit/3813a6fbd8a016842b16d7daa81f623d3d4edeb6 381386fb] | ||
+ | |-valign="top" | ||
+ | !colspan="3" bgcolor="#CCFFFF"|Fixes affecting GCHP only: | ||
+ | |||
+ | |-valign="top" | ||
+ | |Structural updates | ||
+ | | | ||
+ | #Update GCHP to use MAPL v1.0.0 and ESMF v8.0.0 beta snapshot 28 | ||
+ | #*Will introuduce faster parallel I/O | ||
+ | #*Will enable full use of gfortran compiler | ||
+ | | | ||
|} | |} | ||
+ | |||
+ | --[[User:Bmy|Bob Yantosca]] ([[User talk:Bmy|talk]]) 17:03, 15 July 2019 (UTC) | ||
== Issues resolved in GEOS-Chem 12.4.0 == | == Issues resolved in GEOS-Chem 12.4.0 == | ||
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{| border=1 cellspacing=0 cellpadding=5 | {| border=1 cellspacing=0 cellpadding=5 | ||
|-bgcolor="#CCCCCC" | |-bgcolor="#CCCCCC" | ||
− | !width=" | + | !width="200px"|Module or area |
− | !width=" | + | !width="650px"|Issue that was resolved |
+ | !width="130px"|Git commit ID | ||
|-valign="top" | |-valign="top" | ||
|Photolysis | |Photolysis | ||
| | | | ||
− | + | #[[FAST-JX_v7.0_photolysis_mechanism#Further_fix_added_in_12.4.0|Bug fix: Rebuild chemical mechanisms for FAST-JX fix added in 12.3.2]] | |
− | + | #[[FAST-JX_v7.0_photolysis_mechanism#FAST-JX_directory|Add photolysis menu to input.geos for specifying FAST-JX directory]] | |
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem/commit/fcd0cfba13d63ee0b94c8fd06d29f6e49156aff6 fcd0cfba] | ||
+ | #[https://github.com/geoschem/geos-chem-unittest/commit/d34a9cd29f1272d85cd1355183ca02373f0b2ee8 d34a9cd2] | ||
|} | |} | ||
+ | |||
+ | --[[User:Bmy|Bob Yantosca]] ([[User talk:Bmy|talk]]) 17:04, 15 July 2019 (UTC) | ||
== Issues resolved in GEOS-Chem 12.3.2 == | == Issues resolved in GEOS-Chem 12.3.2 == | ||
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{| border=1 cellspacing=0 cellpadding=5 | {| border=1 cellspacing=0 cellpadding=5 | ||
|-bgcolor="#CCCCCC" | |-bgcolor="#CCCCCC" | ||
− | !width=" | + | !width="200px"|Module or area |
− | !width=" | + | !width="650px"|Issue that was resolved |
+ | !width="130px"|Git commit ID | ||
|-valign="top" | |-valign="top" | ||
|Chemistry | |Chemistry | ||
| | | | ||
− | + | #[[GEOS-Chem 12#Inconsistency in H2402 concentrations in GCHP vs GEOS-Chem Classic|Fix inconsistency for species H2402 between GCHP and GEOS-Chem "Classic"]] | |
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem/releases/tag/12.3.2 rel/12.3.2] | ||
|-valign="top" | |-valign="top" | ||
|Photolysis | |Photolysis | ||
| | | | ||
− | + | #[[FAST-JX_v7.0_photolysis_mechanism#Duplicate_entries_for_species_ClNO2_in_FJX_j2j.dat_file|Remove duplicate entry for species ClNO2 in the FJX_j2j.dat file]] | |
− | + | #[[FAST-JX_v7.0_photolysis_mechanism#Species_DHDC_was_not_listed_as_photolyzing_in_the_species_database|Species DHDC was not listed as photolyzing in the GEOS-Chem species database]] | |
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem/releases/tag/12.3.2 rel/12.3.2] | ||
+ | #[https://github.com/geoschem/gchp/commit/d7c48d144707aa25ac65bb7270466864e0559a0f d7c48d14] | ||
|- | |- | ||
− | !colspan=" | + | !colspan="3" bgcolor="#CCFFFF"|Fixes affecting GCHP only: |
|-valign="top" | |-valign="top" | ||
|Emissions | |Emissions | ||
| | | | ||
− | + | #Disable Br2 offline seasalt emissions to match GEOS-Chem Classic default | |
− | + | #Fix HEMCO diagnostics settings for lightning NO and seasalt emissions | |
+ | | | ||
+ | #[https://github.com/geoschem/gchp/commit/f6ac477ad7637d7cfc4a6f2d479fd2509ecca9ef f6ac477a] | ||
+ | #[https://github.com/geoschem/gchp/commit/cda5044e9c8430954fc6a0d550553f9f9a80bb33 cda5044e] | ||
|} | |} | ||
− | --[[User:Bmy|Bob Yantosca]] ([[User talk:Bmy|talk]]) 16: | + | --[[User:Bmy|Bob Yantosca]] ([[User talk:Bmy|talk]]) 16:37, 15 July 2019 (UTC) |
== Issues resolved in GEOS-Chem 12.3.1 == | == Issues resolved in GEOS-Chem 12.3.1 == | ||
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{| border=1 cellspacing=0 cellpadding=5 | {| border=1 cellspacing=0 cellpadding=5 | ||
|-bgcolor="#CCCCCC" | |-bgcolor="#CCCCCC" | ||
− | !width=" | + | !width="200px"|Module or area |
− | !width=" | + | !width="650px"|Issue that was resolved |
+ | !width="130px"|Git commit ID | ||
|-valign="top" | |-valign="top" | ||
|Diagnostics | |Diagnostics | ||
| | | | ||
− | + | #[[Planeflight_diagnostic#Planeflight_diagnostic_now_writes_out_data_for_the_last_timestep_of_the_day|Planeflight diagnostic now writes out data for the last timestep of the day]] | |
− | + | #[[List_of_diagnostics_archived_to_netCDF_format#The_JValuesLocalNoon_collection|Fix the netCDF diagnostic for noontime J-values]] | |
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem/commit/04da94cdbe01c9032904a9f7d14ec3a5aded5aee 04da94cd] | ||
+ | #[https://github.com/geoschem/gchp/commit/f4d43b7ace1d74adc2b8aed1bcd7b4d33a594878 f4d43b7a] | ||
|-valign="top" | |-valign="top" | ||
|Structural | |Structural | ||
| | | | ||
− | + | #[[Stratospheric_chemistry#Do not allocate memory to array MINIT in strat_chem_mod.F90|Do not allocate memory to array MINIT in <tt>strat_chem_mod.F90</tt>]] | |
− | + | #[[GEOS-Chem_12#Declare_State_Met.25AREA_M2_as_2-dimensional.2C_not_3-dimensional|Declare <tt>State_Met%Area_M2</tt> as 2-dimensional, not 3-dimensional]] | |
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem/commit/729fd2a7ed79b8a6a4a7fd6231097fbb1c4baf21 729fd2a7] | ||
+ | #[https://github.com/geoschem/gchp/commit/e4af25f3b893263d1236c3a35c64e2e46f2e78cb e4af25f3b] | ||
|} | |} | ||
− | --[[User:Bmy|Bob Yantosca]] ([[User talk:Bmy|talk]]) | + | --[[User:Bmy|Bob Yantosca]] ([[User talk:Bmy|talk]]) 20:06, 16 July 2019 (UTC) |
== Issues resolved in GEOS-Chem 12.3.0 == | == Issues resolved in GEOS-Chem 12.3.0 == | ||
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{| border=1 cellspacing=0 cellpadding=5 | {| border=1 cellspacing=0 cellpadding=5 | ||
|-bgcolor="#CCCCCC" | |-bgcolor="#CCCCCC" | ||
− | !width=" | + | !width="200px"|Module or area |
− | !width=" | + | !width="650px"|Issue that was resolved |
+ | !width="130px"|Git commit ID | ||
|-valign="top" | |-valign="top" | ||
|Diagnostics / Restart files | |Diagnostics / Restart files | ||
| | | | ||
− | + | #[[#Further_bug_fix_to_prevent_incorrect_restart_file_output_when_spanning_leap_year_days|Further bug fix for netCDF diagnostics spanning leap years]] | |
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem/commit/fb093d61b8321834d5f1d9565760e2828138b321 fb093d61] | ||
|-valign="top" | |-valign="top" | ||
|Emissions | |Emissions | ||
| | | | ||
− | + | #[[HEMCO_versions#Bug_fixes_for_HEMCO_interpolation_algorithm|Bug fixes for the HEMCO interpolation algorithm]] | |
− | + | #[[HEMCO_versions#Updates from the NASA GEOS development branch|Updates from the NASA GEOS development branch]] | |
− | + | #[[HEMCO_versions#Add_option_to_always_use_simulation_year_for_specified_fields|Add option to always use simulation year for specified fields]] | |
− | + | #[[HEMCO_versions#Prevent zero emissions for MEGAN_Mono extension species|Prevent zero emissions for MEGAN_Mono extension species]] | |
− | + | #[[HEMCO_versions#Updates to the volcanic emissions extension|Updates to the volcanic emissions extension]] | |
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem/commit/e947fc8027b75eaa4ff5e22b65f046728b5ee7fb e947fc80] | ||
+ | #[https://github.com/geoschem/geos-chem/commit/7df3fc8eefd47b8835335bd5c48f469d5c7e4385 7df3fc8e] | ||
+ | #[https://github.com/geoschem/geos-chem-unittest/commit/23189032720058b34d7b8140aac52989cfe4c1ee 23189032] | ||
+ | #[https://github.com/geoschem/geos-chem/commit/af86c4ddc10e240662a572d8542292b2d30f5cc7 af86c4dd] | ||
+ | #[https://github.com/geoschem/geos-chem/commit/07c103190221e1d77feaa97dfdd71749767c248a 07c10319] | ||
|} | |} | ||
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{| border=1 cellspacing=0 cellpadding=5 | {| border=1 cellspacing=0 cellpadding=5 | ||
|-bgcolor="#CCCCCC" | |-bgcolor="#CCCCCC" | ||
− | !width=" | + | !width="200px"|Module or area |
− | !width=" | + | !width="650px"|Issue that was resolved |
+ | !width="130px"|Git commit ID | ||
|-valign="top" | |-valign="top" | ||
|Diagnostics / Restart files | |Diagnostics / Restart files | ||
| | | | ||
− | + | #[[GEOS-Chem 12#Bug fix: netCDF diagnostic collections with frequency "End" now properly span leap year days|Bug fix: netCDF diagnostic collections with frequency "End" now properly span leap year days]] | |
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem/commit/ca68f508b956a24663cf49722b437c638e9e9c6f ca68f508] | ||
|-valign="top" | |-valign="top" | ||
|CO2 simulation | |CO2 simulation | ||
| | | | ||
− | + | #[[CO2_simulation#Prevent_double-counting_in_CO2_chemical_source|Fix for CO2 simulation chemical source]] | |
+ | | | ||
+ | #N/A | ||
|-valign="top" | |-valign="top" | ||
|TOMAS simulations | |TOMAS simulations | ||
| | | | ||
− | + | #[[TOMAS_aerosol_microphysics#Restore_DST1.2C_DST2.2C_DST3.2C_and_DST4_in_TOMAS_simulations|Restore DST1, DST2, DST3, and DST4 in TOMAS simulations]] | |
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem-unittest/commit/5ed3e9cf3bdccfd7b144b5d768e64d0059357a7b 5ed3e9cf] | ||
|- | |- | ||
− | !colspan=" | + | !colspan="3" bgcolor="#CCFFFF"|Fixes affecting GCHP only: |
|-valign="top" | |-valign="top" | ||
|Emissions etc. | |Emissions etc. | ||
| | | | ||
− | + | #[[GEOS-Chem_12#Use_online_sea_flux_emissions_by_default_in_GCHP|Use online sea flux emissions by default in GCHP]] | |
− | + | #[[GEOS-Chem_12#GCHP_uses_outdated_MODIS_files_missing_projection_error_fix|Update MODIS LAI source directory to match GEOS-Chem Classic]] | |
+ | | | ||
+ | #[https://github.com/geoschem/gchp/commit/9759d26bcbbb593f6e845a0dc67e1b7bde4b6410 9759d26b] | ||
+ | #N/A | ||
|-valign="top" | |-valign="top" | ||
|Met fields | |Met fields | ||
| | | | ||
− | + | #[[GEOS-Chem_12#Missing_scaling_factors_for_MERRA-2_simulations_with_GCHP|Missing scaling factors for MERRA-2 simulations with GCHP]] | |
+ | | | ||
+ | #? | ||
|} | |} | ||
− | --[[User:Bmy|Bob Yantosca]] ([[User talk:Bmy|talk]]) | + | --[[User:Bmy|Bob Yantosca]] ([[User talk:Bmy|talk]]) 17:03, 15 July 2019 (UTC) |
== Issues resolved in GEOS-Chem 12.2.0 == | == Issues resolved in GEOS-Chem 12.2.0 == | ||
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{| border=1 cellspacing=0 cellpadding=5 | {| border=1 cellspacing=0 cellpadding=5 | ||
|-bgcolor="#CCCCCC" | |-bgcolor="#CCCCCC" | ||
− | !width=" | + | !width="200px"|Module or area |
− | !width=" | + | !width="650px"|Issue that was resolved |
+ | !width="130px"|Git commit ID | ||
|-valign="top" | |-valign="top" | ||
|Diagnostics | |Diagnostics | ||
| | | | ||
− | + | #[[GEOS-Chem_12#Fix_bug_in_stratosperic_aerosol_surface_area_netcdf_diagnostics|Fix bug in stratospheric aerosol surface area in netCDF diagnostics]] | |
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem/commit/e4fecf01c87aa76169751c6e0a515ee717573121 e4fecf01] | ||
|- | |- | ||
− | !colspan=" | + | !colspan="3" bgcolor="#CCFFFF"|Fixes affecting GCHP only: |
|-valign="top" | |-valign="top" | ||
|Restart files | |Restart files | ||
| | | | ||
− | + | #[[GEOS-Chem_12#GCHP_Bug_fix:_use_checkpoint_output_file_as_subsequent_run_restart|GCHP bug fix: Use checkpoint output as the subsequent restart file]] | |
− | + | | | |
+ | # | ||
|} | |} | ||
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{| border=1 cellspacing=0 cellpadding=5 | {| border=1 cellspacing=0 cellpadding=5 | ||
|-bgcolor="#CCCCCC" | |-bgcolor="#CCCCCC" | ||
− | !width=" | + | !width="200px"|Module or area |
− | !width=" | + | !width="650px"|Issue that was resolved |
+ | !width="130px"|Git commit ID | ||
|-valign="top" | |-valign="top" | ||
|Compilation issues | |Compilation issues | ||
| | | | ||
− | + | #[[GEOS-Chem_12#Always_enable_BCPH_TPBC_to_allow_saving_out_BC_files_in_global_simulations|Always enable BPCH_TPBC to allow saving out BC files in global simulations]] | |
− | + | #[https://github.com/geoschem/geos-chem/commit/096ad29d02afbdba64a5dd138df0c976ddee3140 Add hco_interface_mod.o to list of dependencies for get_met_mod.o and only compile get_met_mod.F90 and flexgrid_mod.F90 for GEOS-Chem "Classic"] | |
− | + | #[https://github.com/geoschem/geos-chem/commit/f9b2f19593afeaa396ff3ee3d315148d5a6f8600 Add flexgrid_read_mod.o to list of dependencies for hcoi_gc_main_mod.o] | |
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem/commit/072ec9d61580105bcfa755081bc5d238e1b3f60d 072ec9d6] | ||
+ | #[https://github.com/geoschem/geos-chem/commit/096ad29d02afbdba64a5dd138df0c976ddee3140 096ad29d] | ||
+ | #[https://github.com/geoschem/geos-chem/commit/f9b2f19593afeaa396ff3ee3d315148d5a6f8600 f9b2f195] | ||
|-valign="top" | |-valign="top" | ||
|Diagnostics | |Diagnostics | ||
| | | | ||
− | + | #[[GEOS-Chem_12#Skip_planeflight_observations_outside_a_nested_domain|Skip planeflight observations outside a nested domain]] | |
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem/commit/f6f90fd404cae1f911277f27f7a4fcb15b3bb039 f6f90fd4] | ||
|-valign="top" | |-valign="top" | ||
|Tagged CO simulation | |Tagged CO simulation | ||
| | | | ||
− | + | #[[Tagged CO simulation#Do not multiply emission timestep by 60|Bug fix for tagged CO: don't multiply emissions timestep by 60]] | |
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem/commit/8a1b078e337edfa5fdfb0a5d9ca636b6d0c0634a 8a1b078e] | ||
|- | |- | ||
− | !colspan=" | + | !colspan="3" bgcolor="#CCFFFF"|Fixes affecting GCHP only: |
|-valign="top" | |-valign="top" | ||
|Transport (FvDycore) | |Transport (FvDycore) | ||
| | | | ||
− | + | #[[GEOS-Chem_12#GCHP_transport_fix_to_prevent_instant_propagation_from_troposphere_to_stratosphere|GCHP transport fix to prevent instant propagation from troposphere to stratosphere]] | |
+ | | | ||
|} | |} | ||
− | --[[User:Bmy|Bob Yantosca]] ([[User talk:Bmy|talk]]) | + | --[[User:Bmy|Bob Yantosca]] ([[User talk:Bmy|talk]]) 14:12, 16 July 2019 (UTC) |
== Issues resolved in GEOS-Chem 12.1.0 == | == Issues resolved in GEOS-Chem 12.1.0 == | ||
Line 240: | Line 419: | ||
{| border=1 cellspacing=0 cellpadding=5 | {| border=1 cellspacing=0 cellpadding=5 | ||
|-bgcolor="#CCCCCC" | |-bgcolor="#CCCCCC" | ||
− | !width=" | + | !width="200px"|Module or area |
− | !width=" | + | !width="650px"|Issue that was resolved |
+ | !width="130px"|Git commit ID | ||
|-valign="top" | |-valign="top" | ||
|CH4 simulation | |CH4 simulation | ||
| | | | ||
− | + | #[[CH4_simulation#Add_fixes_for_seasonal_scale_factors_in_CH4_simulations|Add fixes for seasonal scale factors in CH4 simulations]] | |
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem-unittest/commit/6f48d04570ea616a0c39f8dd02c2c902e6183393 6f48d045] | ||
|-valign="top" | |-valign="top" | ||
|Chemistry and Photolysis | |Chemistry and Photolysis | ||
| | | | ||
− | + | #[[FAST-JX_v7.0_photolysis_mechanism#Allow_for_SZA_to_98_degrees_when_getting_photolysis_rates|Allow for SZA to 98 degrees when getting photolysis rates]] | |
− | + | #[[GEOS-Chem_v11-02#Code_cleanup_suggestions|Move Fast-JX .dat files from the <tt>geos-chem-unittest</tt> repository to <tt>gcgrid/ExtData</tt>]] | |
− | + | ||
− | + | ||
− | + | ||
| | | | ||
− | + | #[https://github.com/geoschem/geos-chem/commit/d06ae04ad44defd15854a9c4dadd36923dee0498 d06ae04a] | |
+ | #[https://github.com/geoschem/geos-chem/commit/03e94fed99cf2bb538dfc59ec514690a122b01a9 03e94fed] | ||
|-valign="top" | |-valign="top" | ||
|Emissions | |Emissions | ||
− | | | + | | |
− | + | #[[CEDS_anthropogenic_emissions#Add_missing_RCO_sector_to_CEDS_emissions_entries|Add missing RCO sector to CEDS emissions entries]] | |
− | + | #[[CEDS_anthropogenic_emissions#Include_CEDS_ship_emissions|Include CEDS ship emissions as default global ship emissions inventory]] | |
− | + | #[[CEDS_anthropogenic_emissions#Reduce_file_size_for_CEDS_inventory|Reduce file size for CEDS inventory]] | |
− | + | #[[Implementation_of_HEMCO_in_GEOS-Chem#Bug_fix:_Read_data_with_the_.22E.22_cycle_flag_just_once|HEMCO bug fix: prevent excessive attempts to read the HEMCO restart file when using GEOS-Chem "Classic"]] | |
− | + | #[[Implementation_of_HEMCO_in_GEOS-Chem#Add_fix_for_collapsing_model_levels_to_reduced_grid|Add fix for collapsing model levels to reduced grid]] | |
− | + | #[[Implementation_of_HEMCO_in_GEOS-Chem#Fix_unit_conversion_in_HCO_UNIT_GetAreaScal|Fix unit conversion in HCO_UNIT_GetAreaScal]] | |
− | + | | | |
− | + | #[https://github.com/geoschem/geos-chem-unittest/commit/642dd0af874e9ddfa87d096158a61f1d9f9c0fe6 642dd0af] | |
+ | #[https://github.com/geoschem/geos-chem-unittest/commit/e71d0d6754faeed0adcfc9ed94846677551337f3 e71d0d67] | ||
+ | #[https://github.com/geoschem/geos-chem-unittest/commit/20451cb47bf8dace9b9fc7878bca6720b6fe3a56 20451cb4] | ||
+ | #[https://github.com/geoschem/geos-chem/commit/3f62e74954136cbbabda166a453cbd3811689ac4 3f62e749] | ||
+ | #[https://github.com/geoschem/geos-chem/commit/820b8d7d9b25a50f79cf6688a359c9dcc91d8c2b 820b8d7d] | ||
+ | #[https://github.com/geoschem/geos-chem/commit/7dfd99da3d750046dc08478978b3f2cbd0a31018 7dfd99da] | ||
|-valign="top" | |-valign="top" | ||
|PBL Mixing | |PBL Mixing | ||
| | | | ||
− | + | #[[Boundary_layer_mixing#Mass_is_not_conserved_when_using_non-local_PBL_mixing|Fix mass conservation in non-local PBL mixing]] | |
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem-unittest/commit/57c75178c4f9b809c5abca5e3b236c3db7889669 57c75178] | ||
+ | |||
+ | |-valign="top" | ||
+ | |Tagged CO simulation | ||
+ | | | ||
+ | #[[GEOS-Chem_12#Update_HEMCO_configuration_file_for_tagged_CO_simulation|Update HEMCO configuration file for the tagged CO simulation]] | ||
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem-unittest/commit/02aaad73d32cbd54bba450b0a5b2abce6a5cad5e 02aaad73] | ||
|- | |- | ||
− | !colspan=" | + | !colspan="3" bgcolor="#CCFFFF"|Fixes affecting GCHP only: |
|-valign="top" | |-valign="top" | ||
|Emissions (GCHP) | |Emissions (GCHP) | ||
| | | | ||
− | + | #[[GEOS-Chem_12#Fix_masked_anthropogenic_emissions_bug_in_GCHP|Fix masking bug to correctly apply anthropogenic emissions]] | |
− | + | #[[GEOS-Chem_12#Fix_regional_tile_file_used_for_APEI_inventory_in_GCHP|Remove erroneous 180 degree longitude shift in APEI regridding]] | |
+ | | | ||
|-valign="top" | |-valign="top" | ||
Line 289: | Line 484: | ||
| | | | ||
*Move GCHP run directory creation from GEOS-Chem Unit Tester to GCHP repository | *Move GCHP run directory creation from GEOS-Chem Unit Tester to GCHP repository | ||
+ | | | ||
|} | |} | ||
− | --[[User:Bmy|Bob Yantosca]] ([[User talk:Bmy|talk]]) | + | --[[User:Bmy|Bob Yantosca]] ([[User talk:Bmy|talk]]) 15:12, 16 July 2019 (UTC) |
== Issues resolved in GEOS-Chem 12.0.3 == | == Issues resolved in GEOS-Chem 12.0.3 == | ||
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{| border=1 cellspacing=0 cellpadding=5 | {| border=1 cellspacing=0 cellpadding=5 | ||
|-bgcolor="#CCCCCC" | |-bgcolor="#CCCCCC" | ||
− | !width=" | + | !width="200px"|Module or area |
− | !width=" | + | !width="650px"|Issue that was resolved |
+ | !width="130px"|Git commit ID | ||
|-valign="top" | |-valign="top" | ||
− | !colspan=" | + | !colspan="3" bgcolor="#CCFFFF"|Fixes affecting GCHP only: |
|-valign="top" | |-valign="top" | ||
|Emissions (GCHP) | |Emissions (GCHP) | ||
| | | | ||
− | + | #[[#Fix_incorrect_run_configuration_for_offline_sea_salt_emissions_in_GCHP|Fix incorrect run configuration for offline sea salt emissions in GCHP]] | |
− | + | #[[#Fix_bug_in_application_of_CFC_surface_mixing_ratios_in_GCHP|Fix bug in application of CFC surface mixing ratios in GCHP]] | |
+ | | | ||
|} | |} | ||
Line 321: | Line 519: | ||
{| border=1 cellspacing=0 cellpadding=5 | {| border=1 cellspacing=0 cellpadding=5 | ||
|-bgcolor="#CCCCCC" | |-bgcolor="#CCCCCC" | ||
− | !width=" | + | !width="200px"|Module or area |
− | !width=" | + | !width="650px"|Issue that was resolved |
+ | !width="130px"|Git commit ID | ||
|-valign="top" | |-valign="top" | ||
|Diagnostics | |Diagnostics | ||
| | | | ||
− | + | #[[GEOS-Chem 12#Fixed_local-time_averaging_in_ND51_and_ND51b_satellite_timeseries_diagnostics|Fixed local-time averaging in ND51 and ND51b satellite timeseries diagnostics]] | |
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem/commit/14b29d3df84994a9251dd9b2fb0082b75c4affbc 14b29d3d] | ||
|-valign="top" | |-valign="top" | ||
|Specialty simulations | |Specialty simulations | ||
| | | | ||
− | + | #[[TOMAS_aerosol_microphysics#Fixes_for_missing_biomass_emissions_and_incorrect_aerosol_dry_deposition|Correct missing BC/OC biomass emissions and aerosol drydep in TOMAS simulations]] | |
− | + | #[[CO2_simulation#CO2_emissions_are_double_counted|Avoid double-counting of emissions in the CO2 simulation]] | |
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem/commit/6a944b929764b6e1e7d22f0fd396a3d1515f71dc 6a944b92] | ||
+ | #[https://github.com/geoschem/geos-chem/commit/8320e73d06d94b3e39dd0440f6eb0b1cf3fa0e98 8320e73d] | ||
|} | |} | ||
− | --[[User:Bmy|Bob Yantosca]] ([[User talk:Bmy|talk]]) | + | --[[User:Bmy|Bob Yantosca]] ([[User talk:Bmy|talk]]) 19:16, 16 July 2019 (UTC) |
== Issues resolved in GEOS-Chem 12.0.1 == | == Issues resolved in GEOS-Chem 12.0.1 == | ||
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{| border=1 cellspacing=0 cellpadding=5 | {| border=1 cellspacing=0 cellpadding=5 | ||
|-bgcolor="#CCCCCC" | |-bgcolor="#CCCCCC" | ||
− | !width=" | + | !width="200px"|Module or area |
− | !width=" | + | !width="650px"|Issue that was resolved |
+ | !width="130px"|Git commit ID | ||
|-valign="top" | |-valign="top" | ||
|Diagnostics | |Diagnostics | ||
| | | | ||
− | + | #[[GEOS-Chem 12#Fix typo when registering the State_Chm%SSAlk field|Fix typo when registering the <tt>State_Chm%SSAlk</tt> field]] | |
− | + | #[[Sulfate aerosols#Fix mis-indexing in the ND05 diagnostic|Fix mis-indexing in the ND05 diagnostic]] | |
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem/commit/55d1687384bcd1e0091cf96ad42fed4fa69cb450 55d16873] | ||
+ | #[https://github.com/geoschem/geos-chem/commit/8e118c0e00403edac7f8d91a7c68c1144a0e64a6 8e118c0e] | ||
|-valign="top" | |-valign="top" | ||
|Mercury | |Mercury | ||
| | | | ||
− | + | #[[Mercury#Restore_biomass_emissions_and_do_not_double_count_anthropogenic_emissions|Fixes for the Hg specialty simualtion: Restore biomass emissions and do not double-count anthropogenic emissions]] | |
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem/commit/e1e6668b901a49e82e78302bc83e03271af011b0 e1e6668b] | ||
|-valign="top" | |-valign="top" | ||
|Structural updates | |Structural updates | ||
| | | | ||
− | + | #Nullify rather than deallocate 3D met arrays for compatibility with gfortran 6+ when using GCHP | |
− | + | #[[GEOS-Chem_Makefile_Structure#Add a more robust test for netCDF-Fortran in Makefile_header.mk|Add a more robust test for netCDF-Fortran in Makefile_header.mk]] | |
− | + | #[[GNU_Fortran_compiler#Compiliation_issues_with_GNU_Fortran_8.2.0|Fix compilation issues encountered with GNU Fortran 8.2.0]] | |
− | + | #[[Intel_Fortran_Compiler#Compilation_issues_with_Intel_Fortran_18|Fix compilation issues encountered with Intel Fortran 18]] | |
+ | | | ||
+ | #[https://github.com/geoschem/geos-chem/commit/ff7b0c3c73faafa1fdbebaf163178d0a7d224af7 ff7b0c3c] | ||
+ | #[https://github.com/geoschem/geos-chem/commit/a4d550552ecd3a4e2a9dc0b2b63f79500d7eae10 a4d55055] | ||
+ | #[https://github.com/geoschem/geos-chem/commit/e0959563c23b9fe19d9a4e064be846b10cafbc63 e0959563] | ||
+ | #[https://github.com/geoschem/geos-chem/commit/9833fff44cc1b12b41306140dbbd653004c71b54 9833fff4] | ||
|} | |} | ||
− | --[[User:Bmy|Bob Yantosca]] ([[User talk:Bmy|talk]]) | + | --[[User:Bmy|Bob Yantosca]] ([[User talk:Bmy|talk]]) 19:20, 16 July 2019 (UTC) |
== Issues resolved in GEOS-Chem 12.0.0 == | == Issues resolved in GEOS-Chem 12.0.0 == |
Revision as of 15:25, 3 April 2020
On this page we list the GEOS-Chem specific bugs and issues that users have recently encountered, and how to fix them.
Please also be sure to visit our Common GEOS-Chem error messages wiki page for more general information about some frequently encountered errors. Also visit our Currently unresolved issues in GEOS-Chem and Known issues caused by compiler bugs wiki pages for more information about unresolved issues.
Contents
- 1 Bugs and fixes lists have now been migrated to Github
- 2 Issues resolved in GEOS-Chem 12.5.0
- 3 Issues resolved in GEOS-Chem 12.4.0
- 4 Issues resolved in GEOS-Chem 12.3.2
- 5 Issues resolved in GEOS-Chem 12.3.1
- 6 Issues resolved in GEOS-Chem 12.3.0
- 7 Issues resolved in GEOS-Chem 12.2.1
- 8 Issues resolved in GEOS-Chem 12.2.0
- 9 Issues resolved in GEOS-Chem 12.1.1
- 10 Issues resolved in GEOS-Chem 12.1.0
- 11 Issues resolved in GEOS-Chem 12.0.3
- 12 Issues resolved in GEOS-Chem 12.0.2
- 13 Issues resolved in GEOS-Chem 12.0.1
- 14 Issues resolved in GEOS-Chem 12.0.0
- 15 Issues resolved in GEOS-Chem v11-01
- 16 Bugs and fixes in older GEOS-Chem versions
Bugs and fixes lists have now been migrated to Github
We have been migrating bug reports to our GEOS-Chem issue tracker, which is located on our Github repository: https://github.com/geoschem/geos-chem/issues/. We recommend that you also look through both the open and closed issues on this page, as your issue might be listed there.
Version | Released | List of bugs and issues (now posted on the listed Github repository) | |
---|---|---|---|
13.0.0 | TBD | geoschem/geos-chem | |
12.9.0 | TBD | geoschem/geos-chem | |
12.8.1 | TBD | geoschem/geos-chem | |
12.8.0 | pending | geoschem/geos-chem | Milestone 12.8.0 |
12.7.2 | 09 Mar 2020 | geoschem/geos-chem | Milestone 12.7.2 |
12.7.1 | 19 Feb 2020 | geoschem/geos-chem | Milestone 12.7.1 |
12.7.0 | 03 Feb 2020 | geoschem/geos-chem | Milestone 12.7.0 |
12.6.3 | 25 Nov 2019 | geoschem/gchp | Milestone 12.6.3 |
12.6.2 | 15 Nov 2019 | geoschem/geos-chem | Milestone 12.6.2 |
12.6.1 | 28 Oct 2019 | geoschem/geos-chem | Milestone 12.6.1 |
12.6.0 | 18 Oct 2019 | geoschem/geos-chem | Milestone 12.6.0 |
Issues resolved in GEOS-Chem 12.5.0
The bugs and technical issues listed below will be resolved GEOS-Chem 12.5.0, release date TBD.
Module or area | Issue that was resolved | Git commit ID |
---|---|---|
Chemistry | ||
Diagnostics | ||
Structural updates |
|
|
Emissions |
|
|
Fixes affecting GCHP only: | ||
Structural updates |
|
--Bob Yantosca (talk) 17:03, 15 July 2019 (UTC)
Issues resolved in GEOS-Chem 12.4.0
The bugs and technical issues listed below will be resolved GEOS-Chem 12.4.0, release date TBD.
Module or area | Issue that was resolved | Git commit ID |
---|---|---|
Photolysis |
--Bob Yantosca (talk) 17:04, 15 July 2019 (UTC)
Issues resolved in GEOS-Chem 12.3.2
The bugs and technical issues listed below will be resolved GEOS-Chem 12.3.2.
Module or area | Issue that was resolved | Git commit ID |
---|---|---|
Chemistry | ||
Photolysis | ||
Fixes affecting GCHP only: | ||
Emissions |
|
--Bob Yantosca (talk) 16:37, 15 July 2019 (UTC)
Issues resolved in GEOS-Chem 12.3.1
The bugs and technical issues listed below were resolved GEOS-Chem 12.3.1 (release 08 Apr 2019).
Module or area | Issue that was resolved | Git commit ID |
---|---|---|
Diagnostics | ||
Structural |
--Bob Yantosca (talk) 20:06, 16 July 2019 (UTC)
Issues resolved in GEOS-Chem 12.3.0
The bugs and technical issues listed below were resolved GEOS-Chem 12.3.0 (release date TBD).
Module or area | Issue that was resolved | Git commit ID |
---|---|---|
Diagnostics / Restart files | ||
Emissions |
--Bob Yantosca (talk) 15:53, 21 March 2019 (UTC)
Issues resolved in GEOS-Chem 12.2.1
The bugs and technical issues listed below were resolved GEOS-Chem 12.2.1 (release date 28 Feb 2019).
Module or area | Issue that was resolved | Git commit ID |
---|---|---|
Diagnostics / Restart files | ||
CO2 simulation |
| |
TOMAS simulations | ||
Fixes affecting GCHP only: | ||
Emissions etc. |
| |
Met fields |
|
--Bob Yantosca (talk) 17:03, 15 July 2019 (UTC)
Issues resolved in GEOS-Chem 12.2.0
The bugs and technical issues listed below were resolved GEOS-Chem 12.2.0 (release date 19 Feb 2019).
Module or area | Issue that was resolved | Git commit ID |
---|---|---|
Diagnostics | ||
Fixes affecting GCHP only: | ||
Restart files |
|
--Bob Yantosca (talk) 20:02, 14 March 2019 (UTC)
Issues resolved in GEOS-Chem 12.1.1
The bugs and technical issues listed below were resolved in GEOS-Chem 12.1.1, which was released on 13 Dec 2018.
Module or area | Issue that was resolved | Git commit ID |
---|---|---|
Compilation issues | ||
Diagnostics | ||
Tagged CO simulation | ||
Fixes affecting GCHP only: | ||
Transport (FvDycore) |
--Bob Yantosca (talk) 14:12, 16 July 2019 (UTC)
Issues resolved in GEOS-Chem 12.1.0
The bugs and technical issues listed below were resolved in GEOS-Chem 12.1.0, which was released on 26 Nov 2018.
Module or area | Issue that was resolved | Git commit ID |
---|---|---|
CH4 simulation | ||
Chemistry and Photolysis | ||
Emissions |
|
|
PBL Mixing | ||
Tagged CO simulation | ||
Fixes affecting GCHP only: | ||
Emissions (GCHP) | ||
Structural (GCHP) |
|
--Bob Yantosca (talk) 15:12, 16 July 2019 (UTC)
Issues resolved in GEOS-Chem 12.0.3
The bugs and technical issues listed below were resolved in GEOS-Chem 12.0.3, which was released on 16 Oct 2018.
Module or area | Issue that was resolved | Git commit ID |
---|---|---|
Fixes affecting GCHP only: | ||
Emissions (GCHP) |
--Bob Yantosca (talk) 22:01, 21 December 2018 (UTC)
Issues resolved in GEOS-Chem 12.0.2
The bugs and technical issues listed below were be resolved in GEOS-Chem 12.0.2, which was released on 10 Oct 2018.
Module or area | Issue that was resolved | Git commit ID |
---|---|---|
Diagnostics | ||
Specialty simulations |
--Bob Yantosca (talk) 19:16, 16 July 2019 (UTC)
Issues resolved in GEOS-Chem 12.0.1
The bugs and technical issues listed below were resolved in GEOS-Chem 12.0.1, which was released on 24 Aug 2018.
Module or area | Issue that was resolved | Git commit ID |
---|---|---|
Diagnostics | ||
Mercury | ||
Structural updates |
|
--Bob Yantosca (talk) 19:20, 16 July 2019 (UTC)
Issues resolved in GEOS-Chem 12.0.0
The bugs and technical issues listed below were resolved in GEOS-Chem 12.0.0, which was released on 10 Aug 2018.
Issues resolved in GEOS-Chem v11-01
The bugs and technical issues listed below were resolved in GEOS-Chem v11-01. Also be sure to visit our Known issues caused by compiler bugs wiki page for a list of compiler-related issues and workarounds.
--Bob Yantosca (talk) 19:57, 23 January 2017 (UTC)
Bugs and fixes in older GEOS-Chem versions
For a complete list of bugs and fixes in older GEOS-Chem versions, please see:
--Bob Yantosca (talk) 20:47, 2 January 2019 (UTC)