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Updates to sea ice bgc registry and history fields #6644

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merged 3 commits into from
Oct 10, 2024
Merged

Updates to sea ice bgc registry and history fields #6644

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af5d1e3
Updates to bgc registry and history fields
njeffery Sep 24, 2024
712d71f
Zero aerosol diagnostics to prevent NaNs during bgc only runs
njeffery Sep 26, 2024
468866d
Make bld files consistent with Registry
jonbob Oct 9, 2024
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4 changes: 2 additions & 2 deletions components/mpas-seaice/bld/namelist_files/namelist_definition_mpassi.xml
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Original file line number Diff line number Diff line change
Expand Up @@ -1077,7 +1077,7 @@ Default: Defined in namelist_defaults.xml

<entry id="config_use_humics" type="logical"
category="biogeochemistry" group="biogeochemistry">
Use the humic matter tracer
Use the humic (refractory dissolved organic matter) tracer

Valid values: true or false
Default: Defined in namelist_defaults.xml
Expand Down Expand Up @@ -1949,7 +1949,7 @@ Default: Defined in namelist_defaults.xml

<entry id="config_mobility_type_humics" type="real"
category="biogeochemistry" group="biogeochemistry">
Transport type of humics
Transport type of humics (refractory dissolved organic matter)

Valid values: -1 = entirely in the mobile phase; 0 = retention dominated; 1 = release dominated; 0.5 = equal but rapid exchange; 2 = equal but slow exchange
Default: Defined in namelist_defaults.xml
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57 changes: 48 additions & 9 deletions components/mpas-seaice/cime_config/buildnml
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Expand Up @@ -924,22 +924,41 @@ def buildnml(case, caseroot, compname):
lines.append(' <var name="bergLatentHeatFlux"/>')

if ice_bgc == 'ice_bgc':
lines.append(' <var name="totalVerticalBiologyIce"/>')
lines.append(' <var name="totalChlorophyll"/>')
lines.append(' <var name="primaryProduction"/>')
lines.append(' <var name="bioShortwaveFlux"/>')
lines.append(' <var name="netBrineHeight"/>')
lines.append(' <var name="newlyFormedIce"/>')
lines.append(' <var name="snowThicknessChange"/>')
lines.append(' <var name="verticalAlgaeIceCell"/>')
lines.append(' <var name="totalVerticalDiatomIce"/>')
lines.append(' <var name="totalVerticalSmallPlanktonIce"/>')
lines.append(' <var name="totalVerticalAlgaeCarbonIce"/>')
lines.append(' <var name="totalVerticalNitrateIce"/>')
lines.append(' <var name="totalVerticalAmmoniumIce"/>')
lines.append(' <var name="totalVerticalSilicateIce"/>')
lines.append(' <var name="totalVerticalProteinsIce"/>')
lines.append(' <var name="totalVerticalDOCLabileIce"/>')
lines.append(' <var name="totalVerticalHumicsIce"/>')
lines.append(' <var name="totalVerticalDissolvedIronIce"/>')
lines.append(' <var name="totalVerticalParticulateIronIce"/>')
lines.append(' <var name="totalVerticalBCIce"/>')
lines.append(' <var name="totalVerticalBCSnow"/>')
lines.append(' <var name="totalVerticalDustIce"/>')
lines.append(' <var name="totalVerticalDustSnow"/>')
lines.append(' <var name="totalVerticalDissolvedIronSnow"/>')
lines.append(' <var name="verticalAlgaeTotalCarbonIceCell"/>')
lines.append(' <var name="verticalDOCLabileIceCell"/>')
lines.append(' <var name="verticalDONIceCell"/>')
lines.append(' <var name="verticalDICIceCell"/>')
lines.append(' <var name="verticalNitrateIceCell"/>')
lines.append(' <var name="verticalSilicateIceCell"/>')
lines.append(' <var name="verticalAmmoniumIceCell"/>')
lines.append(' <var name="verticalDMSIceCell"/>')
lines.append(' <var name="verticalDMSPdIceCell"/>')
lines.append(' <var name="verticalNonreactiveIceCell"/>')
lines.append(' <var name="verticalHumicsIceCell"/>')
lines.append(' <var name="verticalDissolvedIronIceCell"/>')
lines.append(' <var name="verticalBCTotalIceCell"/>')
lines.append(' <var name="verticalDustTotalIceCell"/>')
lines.append(' <var name="verticalBCTotalSnowCell"/>')
lines.append(' <var name="verticalDustTotalSnowCell"/>')
lines.append(' <var name="iceEnthalpyCell"/>')
lines.append(' <var name="iceSalinityCell"/>')
lines.append(' <var name="oceanBioFluxes"/>')
Expand Down Expand Up @@ -999,15 +1018,35 @@ def buildnml(case, caseroot, compname):
lines.append(' <var name="snowAlbedoCell"/>')
lines.append(' <var name="bareIceAlbedoCell"/>')
lines.append(' <var name="pondAlbedoCell"/>')
lines.append(' <var name="verticalAlgaeIceCell"/>')
lines.append(' <var name="totalVerticalDiatomIce"/>')
lines.append(' <var name="totalVerticalSmallPlanktonIce"/>')
lines.append(' <var name="totalVerticalAlgaeCarbonIce"/>')
lines.append(' <var name="totalVerticalNitrateIce"/>')
lines.append(' <var name="totalVerticalAmmoniumIce"/>')
lines.append(' <var name="totalVerticalSilicateIce"/>')
lines.append(' <var name="totalVerticalProteinsIce"/>')
lines.append(' <var name="totalVerticalDOCLabileIce"/>')
lines.append(' <var name="totalVerticalHumicsIce"/>')
lines.append(' <var name="totalVerticalDissolvedIronIce"/>')
lines.append(' <var name="totalVerticalParticulateIronIce"/>')
lines.append(' <var name="totalVerticalBCIce"/>')
lines.append(' <var name="totalVerticalBCSnow"/>')
lines.append(' <var name="totalVerticalDustIce"/>')
lines.append(' <var name="totalVerticalDustSnow"/>')
lines.append(' <var name="totalVerticalDissolvedIronSnow"/>')
lines.append(' <var name="verticalAlgaeTotalCarbonIceCell"/>')
lines.append(' <var name="verticalDOCLabileIceCell"/>')
lines.append(' <var name="verticalDONIceCell"/>')
lines.append(' <var name="verticalDICIceCell"/>')
lines.append(' <var name="verticalNitrateIceCell"/>')
lines.append(' <var name="verticalSilicateIceCell"/>')
lines.append(' <var name="verticalAmmoniumIceCell"/>')
lines.append(' <var name="verticalDMSIceCell"/>')
lines.append(' <var name="verticalDMSPdIceCell"/>')
lines.append(' <var name="verticalNonreactiveIceCell"/>')
lines.append(' <var name="verticalHumicsIceCell"/>')
lines.append(' <var name="verticalDissolvedIronIceCell"/>')
lines.append(' <var name="verticalBCTotalIceCell"/>')
lines.append(' <var name="verticalDustTotalIceCell"/>')
lines.append(' <var name="verticalBCTotalSnowCell"/>')
lines.append(' <var name="verticalDustTotalSnowCell"/>')
lines.append(' <var name="iceEnthalpyCell"/>')
lines.append(' <var name="iceSalinityCell"/>')
lines.append(' <var name="oceanBioFluxes"/>')
Expand Down
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