Difference between revisions of "Bugs and fixes"
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[[GEOS-Chem v9-02]] is our development version. We expect a public release by late 2013. | [[GEOS-Chem v9-02]] is our development version. We expect a public release by late 2013. | ||
− | + | #[[GEOS-Chem_v9-02#Correction_for_GEOS-5_PBL_heights|Correction for GEOS-5 PBL heights]] | |
− | + | #[[GEOS-Chem_v9-01-03#Bug_fix_in_hdf_mod.F|Bug fix in hdf_mod.F]] | |
− | + | #[[GEOS-Chem_v9-02#Bug_fixes_for_tagged_CO_simulation|Bug fixes for tagged CO simulation]] | |
− | + | #[[GEOS-Chem_v9-02#Bug_fix_in_nei2005_anthro_mod.F|Bug fix in nei2005_anthro_mod.F]] | |
− | + | #[[GEOS-Chem_v9-02#Bug_fix_for_updated_CAC_emissions|Bug fix for updated CAC emissions]] | |
− | + | #[[GEOS-Chem_v9-02#Bug_fix_for_Br2_emissions|Bug fix for Br2 emissions]] | |
− | + | #[[GEOS-Chem_v9-02#Bug_in_regridding_of_anthropogenic_emissions|Bug fix in regridding of anthro emissions]] | |
− | + | #[[GEOS-Chem_v9-02#Additional_bug_fixes_for_MAP_A2A_regridding_algorithm|Additional bug fixes for MAP_A2A regridding]] | |
− | + | #[[GEOS-Chem_v9-02#Bug_in_MEGAN_emissions_when_running_with_MERRA_or_GEOS-FP|Bug in MEGAN emissions when using MERRA or GEOS-FP]] | |
− | + | #[[Mercury#Bug_fixes_for_nested_Hg_simulation|Bug fixes for nested Hg simulation]] | |
− | + | #[[GEOS-Chem_v9-02#Prevent_bad_drydep_flux_values_from_being_passed_to_the_soil_NOx_emissions_module|Prevent bad drydep flux values from being passed to the soil NOx module]] | |
− | + | #[[GEOS-Chem_v9-02#Bug_fix_for_declaration_of_GEOS-FP_PFICU.2C_PFLCU.2C_PFILSAN.2C_PFLLSAN_fields|Bug fix for declaration of certain GEOS-FP met fields]] | |
− | + | #[[David_Streets_regional_emissions_for_China_and_SE_Asia#Bug_in_EMIS_STREETS_ANTHRO_05x0666|Bug fix in EMIS_STREETS_ANTHRO_05x0666]] | |
− | + | #[[GEOS-Chem_v9-02#Bug_fix_for_reading_OH_file_in_offline_simulations|Bug fix for reading OH file in offline simulations]] | |
− | + | #[[Passing_array_arguments_efficiently_in_GEOS-Chem|Eliminate inefficient subroutine calls]] | |
− | + | #[[Wet_deposition#Bug_in_Henry.27s_constant|Bug fix in Henry's law constant]] | |
− | + | #[[Acetone#DRYACET_is_missing_from_globchem.dat|Add missing DRYACET to globchem.dat mechanism file]] | |
− | + | #[[GEOS-Chem_v9-02#Bug_fixes_in_biofuel_mod.F_and_emfossil.F|Bug fixes in biofuel_mod.F and emfossil.F]] | |
− | + | #[[Biomass_burning_emissions#Bug_fix_for_3-hourly_GFED3_emissions|Bug fix for 3-hourly GFED3 emissions]] | |
− | + | #[[Regridding_in_GEOS-Chem#Bug_in_grid_mod.F90|Bug fix in grid_mod.F90]] | |
− | + | #[[Volcanic_SO2_emissions_from_Aerocom#Typo_in_VOLCPRESS_definition|Fixed typo in Aerocom volcanic SO2 emissions routine]] | |
− | + | #[[GEOS-Chem_v9-02#Bug_fixes_in_day-of-week_computation|Bug fixes in day-of-week computation]] | |
− | + | #[[GEOS-Chem_v9-02#Bug_fixes_in_diag48_mod.F|Bug fixes in diag48_mod.F]] | |
− | + | #[[Aerosol-only_simulation#Emissions_not_included_when_using_non-local_PBL_mixing_scheme|Now include emissions in the aerosol-only simulation when using non-local PBL mixing]] | |
− | + | #[[GCAP#Fixed_bugs_caused_by_GIGC_edits|Fixed typos in GCAP code]] | |
− | + | #[[Anthropogenic_emissions#Prevent_negative_emissions_over_Canada|Prevent negative emissions over Canada]] | |
− | + | #[[TOMAS_aerosol_microphysics#Minor_bug_in_TOMAS_sulfate_emissions|Minor bug fix in TOMAS sulfate emissions]] | |
− | + | #[[GEOS-Chem_v9-02#Bug_in_ND36_diagnostic_when_ship_emissions_are_turned_off|Bug fix in ND36 diagnostic when ship emissions are turned off]] | |
− | + | #[[Dry_deposition#Error_in_definition_of_RIP_and_IEPOX_drydep_species|Bug fix in definition of RIP, IEPOX drydep species]] | |
− | + | #[[Numerical issues discovered in GEOS-Chem|Corrected several floating-point errors]] | |
− | + | #[[Aerosol_optical_properties#Fix_to_jv_spec_aod.dat|Add fix to jv_spec_aod.dat file]] | |
--[[User:Bmy|Bob Y.]] 16:24, 2 October 2013 (EDT) | --[[User:Bmy|Bob Y.]] 16:24, 2 October 2013 (EDT) |
Revision as of 20:24, 2 October 2013
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.
Contents
- 1 Issues resolved in GEOS-Chem v9-02
- 2 Issues resolved in GEOS-Chem v9-01-03
- 3 Issues resolved in GEOS-Chem v9-01-02
- 4 Issues resolved in GEOS-Chem v9-01-01
- 5 Issues resolved in GEOS-Chem v8-03-02
- 6 Issues resolved in GEOS-Chem v8-03-01
- 7 Issues resolved in GEOS-Chem v8-02-04
- 8 Issues resolved in GEOS-Chem v8-02-03
- 9 Issues resolved in GEOS-Chem v8-02-02
- 10 Issues resolved in GEOS-Chem v8-02-01
- 11 Issues resolved in GEOS-Chem v8-01-04
- 12 Issues resolved in GEOS-Chem v8-01-03
- 13 Issues resolved in GEOS-Chem v8-01-02
- 14 Issues resolved in GEOS-Chem v8-01-01
- 15 Issues resolved in GEOS-Chem v7-04-13
- 16 Issues resolved in GEOS-Chem v7-04-10
Issues resolved in GEOS-Chem v9-02
GEOS-Chem v9-02 is our development version. We expect a public release by late 2013.
- Correction for GEOS-5 PBL heights
- Bug fix in hdf_mod.F
- Bug fixes for tagged CO simulation
- Bug fix in nei2005_anthro_mod.F
- Bug fix for updated CAC emissions
- Bug fix for Br2 emissions
- Bug fix in regridding of anthro emissions
- Additional bug fixes for MAP_A2A regridding
- Bug in MEGAN emissions when using MERRA or GEOS-FP
- Bug fixes for nested Hg simulation
- Prevent bad drydep flux values from being passed to the soil NOx module
- Bug fix for declaration of certain GEOS-FP met fields
- Bug fix in EMIS_STREETS_ANTHRO_05x0666
- Bug fix for reading OH file in offline simulations
- Eliminate inefficient subroutine calls
- Bug fix in Henry's law constant
- Add missing DRYACET to globchem.dat mechanism file
- Bug fixes in biofuel_mod.F and emfossil.F
- Bug fix for 3-hourly GFED3 emissions
- Bug fix in grid_mod.F90
- Fixed typo in Aerocom volcanic SO2 emissions routine
- Bug fixes in day-of-week computation
- Bug fixes in diag48_mod.F
- Now include emissions in the aerosol-only simulation when using non-local PBL mixing
- Fixed typos in GCAP code
- Prevent negative emissions over Canada
- Minor bug fix in TOMAS sulfate emissions
- Bug fix in ND36 diagnostic when ship emissions are turned off
- Bug fix in definition of RIP, IEPOX drydep species
- Corrected several floating-point errors
- Add fix to jv_spec_aod.dat file
--Bob Y. 16:24, 2 October 2013 (EDT)
Issues resolved in GEOS-Chem v9-01-03
- Bug fix for GLCO3 and GLPAN in standard mechanism
- Structural changes to clarify science behind washout
- Correct out-of-bounds error in offline aerosol simulation
- Bug fix for mass transport flux diagnostics
- Bug fix in ND67 sea level pressure diagnostic
- Bug fixes for nested-grid simulation
- Bug fix in streets_anthro_mod.F for offline simulations
- Bug fixes for dicarbonyls simulation
- Bug fixes for regional emission masks
--Bob Y. 10:19, 13 November 2012 (EST)
Issues resolved in GEOS-Chem v9-01-02
- Corrected mis-indexing error in partition.f caused by the dynamic tropopause
- Corrected out-of-bounds error in readchem.f
- Fix for mis-indexing issue in CSPEC restart file
- Various bug fixes for the offline Hg simulation
- Bug fixes for leap years when using GCAP met fields
- Minor bug fixes for emissions routines affecting offline simulations
- Minor bug fixes for emissions routines affecting offline simulations
- Fixes for better compatibility with the PGI compiler
- Washout fix for non-aerosol species
- Fix for GEIA emissions scaling factor over Botswana
- Fixed minor issues in MERRA cloud convection routine
- Fix for vertical regridding of offline OH for offline simulations
- Further bug fixes for the offline Hg simulation
- Further fixes for nested-grid simulations
- Fix for partitioning chemical species
- Bug fixes for biofuel emissions
- Fix bug in EDGAR ship emissions code
- Bug fix for ship NOx emissions
- Prevent out-of-bounds errors in ND01 and ND02 diagnostics (Rn-Pb-Be simulation)
- Do not use erroneous MEGAN AEF data for nested-grid simulations
--Melissa Payer 12:08, 21 November 2011 (EST)
--Bob Y. 12:05, 28 November 2011 (EST)
Issues resolved in GEOS-Chem v9-01-01
- Standardization of patches from v8-03-02
- Bug fix for biofuels in EPA/NEI05
- Important bug fixes for ship emissions
- Duplicate diagnostics
- Starting runs at times other than 00 GMT
- Fix ND15 for non-local PBL scheme
- Fix to prevent div-by-zero in sulfate_mod.f
- PEDGE-$ in timeseries diagnostics
- Running offline simulations on the GEOS-5 72L grid
- Fixes to improve efficiency in vdiff_mod.f90
- Typos in megan_mod.f
- Typos in edgar_mod.f
--Bob Y. 11:25, 18 February 2011 (EST)
Issues resolved in GEOS-Chem v8-03-02
- Fix for EPA/NEI 2005 emissions
- Minor fixes in gamap_mod.f
- Bug fix for ND42 diagnostic and ISORROPIA II
- Minor fix for AOD calculation
- Avoid using unallocated arrays in edgar_mod.f
- Transport fix for GEOS-5 nested grid simulations
--Bob Y. 16:53, 7 September 2010 (EDT)
Issues resolved in GEOS-Chem v8-03-01
- Patch to enable call to SOA PARA INIT
- Patch to fix declaration of IONIC in ISORROPIA_II
- Patch to fix bug in Aromatic SOA
- Patch to scale AOD diagnostic output to other wavelengths
- Photolysis now computed at midpoint of chemistry timestep
- Bug fix in ISORROPIA for offline aerosol
- Minor bug fix in SRCSO2
- Bug in GET_EMMONOT_MEGAN
- Bug in READ_ANTHRO_NH3
- Fix for initialization of EMEP ship emissions
- Bug fix in AVGPOLE
- Bug fix in EMITHIGH (carbon_mod.f)
- Fix to prevent numerical overflow in EXP function
--Bob Y. 15:05, 30 June 2010 (EDT)
Issues resolved in GEOS-Chem v8-02-04
- Memory issue with KPP
- Updated reactions in sulfate_mod.f
- Bug fix for EMEP ship emissions
- Minor fix for molecular weights in drydep_mod.f
- Bug fix in biomass_mod.f
- Minor bug fix in gamap_mod.f
- Fixes and updates in seasalt_mod.f
- Bug fix in emfossil.f for 0.5 x 0.666 nested grid tagged-CO option
- Bug fix in DIAG20 (diag_pl_mod.f)
- Div-by-zero error encountered in arsl1k.f
- Fix for diagnostic arrays in TPCORE
- MEGAN now uses MODIS LAI by default
--Bob Y. 16:29, 23 February 2010 (EST)
Issues resolved in GEOS-Chem v8-02-03
- Patch for KPP solver for v8-02-03
- Corrected Bond et al BC/OC emissions
- Several bug fixes in sulfate_mod.f
- Missing NOx data in S.E.-Asia
- Mis-calculation of Courant numbers in tpcore_fvdas_mod.f90
- Format problem in planeflight_mod.f
--Bob Y. 16:55, 4 February 2010 (EST)
Issues resolved in GEOS-Chem v8-02-02
- EPA/NEI inventory: reset other species to zero
- Scale factor for oceanic acetone for GEOS5 2x2.5 was fixed in GEOS-Chem v8-02-02.
- Bug with PRIVATE declaration in sulfate_mod.f
- Bug with online 2ndary aerosol
- Typo in HO2 uptake
--Bob Y. 16:40, 11 January 2010 (EST)
Issues resolved in GEOS-Chem v8-02-01
- Output selected tracers only for dry and wet deposition, convection and rain diagnotics
- On-the-fly regridding for 0.5x0.667 nested grids
- Bug with EMEP ship emissions for nested grids
- Bug in sulfate_mod.f to turn off biomass emissions
- Minor error in gamap_mod.f
- Bug fix for Streets emissions on 0.5x0.666 nested grid
--Bob Y. 09:55, 12 January 2010 (EST)
Issues resolved in GEOS-Chem v8-01-04
- Seg fault in GEOS-5 China nested grid simulation
- Error message in partition.f
- Erroneous O3 diagnostic (ND45)
- Post-Release Patches
--Bob Y. 09:58, 12 January 2010 (EST)
Issues resolved in GEOS-Chem v8-01-03
- TPCORE replaced with version based on GMI model
- Output of ND51 does not match output in the ctm.bpch file
- ND22 (J-value) diagnostic
- ND34 (biofuel emissions) diagnostic
- Change of location of calls to diagnostics in main.f
--Bob Y. 10:29, 12 January 2010 (EST)
Issues resolved in GEOS-Chem v8-01-02
- Quick fix for GEOS-5 optical depth
- Please see the discussion about this quick fix for the GEOS-5 optical depths.
- NOTE: if you are using GEOS-Chem v8-01-04 or higher with the reprocessed GEOS-5 met fields, then you do not need to use this quick fix.
- Corrected labeling of SOA quantities in carbon_mod.f
- Double-substitution error in GET_ALK
- Robustness fix for reading anthropogenic SO2 and NH3
- Minor bug in gasconc.f & calcrate.f
- Minor bug in emfossil.f
- Fix for mass balance of HNO3 and NIT
- Bug in ND43
- Problem w/ ND65 diagnostic and dynamic tropopause
- Albedo diagnostic in GEOS-4
- Pressure diagnostic : PS-PTOP vs. PEDGE
- Minor bug in log file output
--Bob Y. 10:29, 12 January 2010 (EST)
Issues resolved in GEOS-Chem v8-01-01
--Bob Y. 10:35, 12 January 2010 (EST)
Issues resolved in GEOS-Chem v7-04-13
--Bob Y. 10:49, 12 January 2010 (EST)
Issues resolved in GEOS-Chem v7-04-10
--Bob Y. 10:53, 12 January 2010 (EST)