History collections for species concentrations
Previous | Next | Guide to GEOS-Chem History diagnostics
- Overview of History diagnostics
- Legend for History diagnostics
- Collections for History diagnostics
- History collections for advection and mixing
- History collections for aerosols
- History collections for budgets
- History collections for chemistry and photolysis
- History collections for convection and wet deposition
- History collections for dry deposition
- History collections for mercury and POPs
- History collections for met fields and related quantities
- History collections for methane
- History collections for species concentrations
- History collections for TransportTracers
- Replicating the behavior of the prior timeseries diagnostics
- Adding new History diagnostics
Contents
The BoundaryConditions collection
NOTE: If you are not setting up for a nested-grid simulation, then you can disable this collection.
The BoundaryConditions diagnostic collection contains advected species concentrations (archived from a global simulation) that will be used by nested-grid simulations as transport boundary conditions. Like SpeciesConc, it archives data with units of mol/mol dry air.
Here is a sample definition section for the SpeciesConc collection.
- If this collection is not already present in the HISTORY.rc file in the GEOS-Chem run directory for your selected simulation, you can copy and paste this into your HISTORY.rc file and edit accordingly.
- To prevent an individual field from being included in the diagnostic output, place a comment character # in front of the field name.
- Please see our Legend for History diagnostics page for more information about each of the collection tags.
BoundaryConditions.template: '%y4%m2%d2_%h2%n2z.nc4', BoundaryConditions.format: 'CFIO', BoundaryConditions.frequency: 00000000 030000 BoundaryConditions.duration: 00000100 000000 BoundaryConditions.mode: 'instantaneous' BoundaryConditions.fields: 'SpeciesBC_?ADV? ', 'GIGCchem', ::
This table describes the diagnostic quantities belonging to the BoundaryConditions collection:
Diagnostic name | Description | Units | Wildcards | Simulations | Notes |
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SpeciesBC_<spcname> | Advected species concentrations used as boundary conditions for nested-grid simulations | mol/mol dry air |
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--Bob Yantosca (talk) 20:54, 18 July 2019 (UTC)
The ConcAboveSfc collection
The ConcAboveSfc collection is listed on our History collections for dry deposition page.
--Bob Yantosca (talk) 21:24, 18 July 2019 (UTC)
The ConcAfterChem collection
The ConcAfterChem collection is listed on our History collections for chemistry and photolysis page.
--Bob Yantosca (talk) 14:21, 19 July 2019 (UTC)
The Restart collection
The Restart diagnostic collection contains fields for saving out to the GEOS-Chem restart file. This type of diagnostic output is used in all GEOS-Chem simulations; therefore, we have listed Restart first in the HISTORY.rc files that ship with each GEOS-Chem run directory.
Here is a sample definition section for the Restart collection.
- If this collection is not already present in the HISTORY.rc file in the GEOS-Chem run directory for your selected simulation, you can copy and paste this into your HISTORY.rc file and edit accordingly.
- To prevent an individual field from being included in the diagnostic output, place a comment character # in front of the field name.
- Please see our Legend for History diagnostics page for more information about each of the collection tags.
NOTE: The restart file will be created in the GEOS_Chem run directory, not in the OutputDir sub-folder.
Restart.filename: './GEOSChem.Restart.%y4%m2%d2_%h2%n2z.nc4', Restart.format: 'CFIO', Restart.frequency: 'End', Restart.duration: 'End', Restart.mode: 'instantaneous' Restart.fields: 'SpeciesRst_?ALL? ', 'GIGCchem', 'Chem_H2O2AfterChem ', 'GIGCchem', 'Chem_SO2AfterChem ', 'GIGCchem', 'Chem_DryDepNitrogen ', 'GIGCchem', 'Chem_WetDepNitrogen ', 'GIGCchem', 'Chem_KPPHvalue ', 'GIGCchem', 'Met_DELPDRY ', 'GIGCchem', 'Met_PS1WET ', 'GIGCchem', 'Met_PS1DRY ', 'GIGCchem', 'Met_SPHU1 ', 'GIGCchem', 'Met_TMPU1 ', 'GIGCchem', ::
This table describes the diagnostic quantities belonging to the SpeciesConc collection:
Diagnostic name | Description | Units | Wildcards | Simulations | Notes |
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SpeciesRst_<spcname> | Instantaneous chemical species concentrations for use in starting subsequent GEOS-Chem simulations | mol/mol dry air |
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Chm_H2O2AfterChem | Concentration of H2O2 after sulfate chemistry | v/v |
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Chm_SO2AfterChem | Concentration of SO2 after sulfate chemistry | v/v |
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Chm_DryDepNitrogen | Dry deposited nitrogen | molec/cm2/s |
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Chm_WetDepNitrogen | Wet deposited nitrogen | molec/cm2/s |
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Chm_KPPHvalue | H-value for Rosenbrock solver | unitless |
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Chm_StatePSC | Polar stratospheric cloud type | count |
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Met_DELPDRY | Delta-pressure across grid box (dry air) | hPa |
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Met_PS1WET | Wet surface pressure at dt start | hPa |
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Met_PS1DRY | Dry surface pressure at dt start | hPa |
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Met_SPHU1 | Instantaneous specific humidity at time=T | g kg-1 |
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Met_TMPU1 | Instantaneous temperature at time=T | K |
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--Melissa Sulprizio (talk) 16:05, 7 November 2018 (UTC)
The SpeciesConc collection
The SpeciesConc diagnostic collection contains advected species concentrations. This type of diagnostic output is used in all GEOS-Chem simulations.
Here is a sample definition section for the SpeciesConc collection.
- If this collection is not already present in the HISTORY.rc file in the GEOS-Chem run directory for your selected simulation, you can copy and paste this into your HISTORY.rc file and edit accordingly.
- To prevent an individual field from being included in the diagnostic output, place a comment character # in front of the field name.
- Please see our Legend for History diagnostics page for more information about each of the collection tags.
SpeciesConc.template: '%y4%m2%d2_%h2%n2z.nc4', SpeciesConc.format: 'CFIO', SpeciesConc.frequency: 00000100 000000 SpeciesConc.duration: 00000100 000000 SpeciesConc.mode: 'time-averaged' SpeciesConc.fields: 'SpeciesConc_?ADV? ', 'GIGCchem', ::
This table describes the diagnostic quantities belonging to the SpeciesConc collection:
Diagnostic name | Description | Units | Wildcards | Simulations | Notes | Bpch equiv. |
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SpeciesConc_<spcname> | Chemical species concentrations | mol/mol dry air |
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--Bob Yantosca (talk) 20:36, 18 July 2019 (UTC)