Changeset 15076 for NEMO/branches/2021
- Timestamp:
- 2021-07-02T17:16:58+02:00 (3 years ago)
- Location:
- NEMO/branches/2021/dev_r14383_PISCES_NEWDEV_PISCO/cfgs/SHARED
- Files:
-
- 3 edited
-
axis_def_nemo.xml (modified) (1 diff)
-
field_def_nemo-pisces.xml (modified) (2 diffs)
-
namelist_sediment_ref (modified) (6 diffs)
Legend:
- Unmodified
- Added
- Removed
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NEMO/branches/2021/dev_r14383_PISCES_NEWDEV_PISCO/cfgs/SHARED/axis_def_nemo.xml
r14072 r15076 29 29 <axis id="section_ice" n_glo="4" /> 30 30 <axis id="gau" /> 31 <axis id="profsed" long_name="Vertical S levels" unit="cm" positive="down"/> 31 32 </axis_definition> -
NEMO/branches/2021/dev_r14383_PISCES_NEWDEV_PISCO/cfgs/SHARED/field_def_nemo-pisces.xml
r14963 r15076 152 152 <field id="FlxSO4" long_name="SO4 sediment flux" unit="mol/cm2/s" /> 153 153 <field id="FlxFe2" long_name="Fe2+ sediment flux" unit="mol/cm2/s" /> 154 <field id="FlxLig" long_name="Ligand sediment flux" unit="mol/cm2/s" /> 154 155 <field id="dzdep" long_name="Sedimentation rate" unit="cm/s" /> 155 156 <field id="sflxclay" long_name="Clay sedimentation rate" unit="g/cm2/s" /> … … 157 158 <field id="sflxpoc" long_name="POC sedimentation rate" unit="g/cm2/s" /> 158 159 <field id="sflxcal" long_name="Calcite sedimentation rate" unit="g/cm2/s" /> 160 <field id="sflxfeo" long_name="Fe(OH)3 Sedimentation rate" unit="mol/cm2/s" /> 159 161 <field id="FlxClay" long_name="Clay burial rate" unit="g/cm2/s" /> 160 162 <field id="FlxCaCO3" long_name="Calcite burial rate" unit="g/cm2/s" /> -
NEMO/branches/2021/dev_r14383_PISCES_NEWDEV_PISCO/cfgs/SHARED/namelist_sediment_ref
r14385 r15076 12 12 &nam_run ! Characteristics of the simulation 13 13 !----------------------------------------------------------------------- 14 nrseddt = 2 ! Nb of iterations for fast species15 14 ln_sed_2way = .false. ! 2 way coupling with pisces 16 15 / … … 25 24 porsurf = 0.9 ! Sediment porosity at the surface 26 25 porinf = 0.75 ! Sediment porosity at infinite depth 27 rhox = 0. 33! Length scale of porosity variation (cm)26 rhox = 0.25 ! Length scale of porosity variation (cm) 28 27 / 29 28 !----------------------------------------------------------------------- … … 33 32 ! ! name ! title of the field ! units ! initial data from file or not ! 34 33 ! ! ! ! ! 35 sedsol(1) = 'Sed BSi ' , 'Biogenic Silicate Concentration', '%'36 sedsol(2) = 'Sed Clay ' , 'Clay Concentration', '%'34 sedsol(1) = 'SedFeO ' , 'Fe(OH)3 Concentration ', '%' 35 sedsol(2) = 'SedFeS ' , 'FeS Concentration ', '%' 37 36 sedsol(3) = 'SedPOC ' , 'POC Concentration ', '%' 38 sedsol(4) = 'SedCaCO3' , 'Calcite Concentration ', '%' 39 sedsol(5) = 'SedPOS ' , 'Semi-ref POC Concentration ', '%' 40 sedsol(6) = 'SedPOR ' , 'Refractory POC Concentration ', '%' 41 sedsol(7) = 'SedFeO ' , 'Fe(OH)3 Concentration ', '%' 42 sedsol(8) = 'SedFeS ' , 'FeS Concentration ', '%' 43 sedwat(1) = 'SedSil ' , 'Silicate Concentration ', 'mol/L' 44 sedwat(2) = 'SedO2 ' , 'Dissolved Oxygen Concentration ', 'mol/L' 45 sedwat(3) = 'SedDIC ' , 'Dissolved inorganic Concentration ', 'mol/L' 46 sedwat(4) = 'SedNO3 ' , 'Nitrates Concentration ', 'mol/L' 47 sedwat(5) = 'SedPO4 ' , 'Phosphate Concentration ', 'mol/L' 48 sedwat(6) = 'SedAlkalini' , 'Total Alkalinity Concentration ', 'eq/L ' 49 sedwat(7) = 'SedNH4 ' , 'Total Ammonium Concentration ', 'mol/L ' 50 sedwat(8) = 'SedH2S ' , 'Total H2S Concentration ', 'mol/L ' 51 sedwat(9) = 'SedSO4 ' , 'Total SO4 Concentration ', 'mol/L ' 52 sedwat(10) = 'SedFe2 ' , 'Total Fe2+ Concentration ', 'mol/L ' 37 sedsol(4) = 'SedPOS ' , 'Semi-ref POC Concentration ', '%' 38 sedsol(5) = 'SedPOR ' , 'Refractory POC Concentration ', '%' 39 sedsol(6) = 'SedCaCO3' , 'Calcite Concentration ', '%' 40 sedsol(7) = 'SedBSi ' , 'Biogenic Silicate Concentration ', '%' 41 sedsol(8) = 'SedClay ' , 'Clay Concentration ', '%' 42 sedwat(1) = 'SedO2 ' , 'Dissolved Oxygen Concentration ', 'mol/L' 43 sedwat(2) = 'SedNO3 ' , 'Nitrates Concentration ', 'mol/L' 44 sedwat(3) = 'SedPO4 ' , 'Phosphate Concentration ', 'mol/L' 45 sedwat(4) = 'SedNH4 ' , 'Total Ammonium Concentration ', 'mol/L ' 46 sedwat(5) = 'SedH2S ' , 'Total H2S Concentration ', 'mol/L ' 47 sedwat(6) = 'SedSO4 ' , 'Total SO4 Concentration ', 'mol/L ' 48 sedwat(7) = 'SedFe2 ' , 'Total Fe2+ Concentration ', 'mol/L ' 49 sedwat(8) = 'SedAlkalini' , 'Total Alkalinity Concentration ', 'eq/L ' 50 sedwat(9) = 'Sedligand ' , 'Total ligand Concentration ', 'mol/L ' 51 sedwat(10) = 'SedDIC ' , 'Dissolved inorganic Concentration ', 'mol/L' 52 sedwat(11) = 'SedSil ' , 'Silicate Concentration ', 'mol/L' 53 53 / 54 54 !----------------------------------------------------------------------- … … 58 58 seddiag3d(1) = 'SedpH ' , 'pH ', '- ' 59 59 seddiag3d(2) = 'SedCO3por ' , 'Dissolved CO3 concentration ', 'mol/L' 60 seddiag3d(3) = 'S edligand ' , 'ligand concentration ', 'mol/L'61 seddiag 3d(4) = 'SaturCO3 ' , 'CO3 saturation ', '-'62 seddiag2d( 1) = 'FlxSi ' , 'Silicateflux ', 'mol/cm2/s'63 seddiag2d( 2) = 'FlxO2 ' , 'Dissolved Oxygen Flux ', 'mol/L'64 seddiag2d( 3) = 'FlxDIC ' , 'Dissolved inorganic carbon flux', 'mol/cm2/s'65 seddiag2d( 4) = 'FlxNO3 ' , 'Nitrates flux', 'mol/cm2/s'66 seddiag2d( 5) = 'FlxPO4 ' , 'Phosphateflux ', 'mol/cm2/s'67 seddiag2d( 6) = 'FlxAlkalini' , 'Total Alkalinity flux', 'mol/cm2/s'68 seddiag2d( 7) = 'FlxNH4 ' , 'Total Ammonium flux', 'mol/cm2/s'69 seddiag2d( 8) = 'FlxH2S ' , 'Total H2S flux', 'mol/cm2/s'70 seddiag2d( 9) = 'FlxSO4 ' , 'Total SO4 flux', 'mol/cm2/s'71 seddiag2d(1 0) = 'FlxFe2 ' , 'Total Fe2+ flux', 'mol/cm2/s'72 seddiag2d(1 1) = 'FlxBSi ' , 'Total net BSi burial rate ', 'g/cm2/s'73 seddiag2d(1 2) = 'FlxClay ' , 'Total net CLay burial rate ', 'g/cm2/s'74 seddiag2d(1 3) = 'FlxPOC ' , 'Total net POC burial rate ', 'g/cm2/s'75 seddiag2d(1 4) = 'FlxCaCO3 ' , 'Total net CaCO3 burial rate ', 'g/cm2/s'76 seddiag2d(1 5) = 'FlxPOS ' , 'Total net POS burial rate ', 'g/cm2/s'77 seddiag2d(1 6) = 'FlxPOR ' , 'Total net POR burial rate ', 'g/cm2/s'78 seddiag2d(1 7) = 'FlxFeO ' , 'Total net FeO burial rate ', 'g/cm2/s'79 seddiag2d(1 8) = 'FlxFeS ' , 'Total net FeS burial rate ', 'g/cm2/s'80 seddiag2d( 19) = 'Flxtot ' , 'Total burial flux ', 'mol/cm2/s'81 seddiag2d(2 0) = 'dzdep ' , 'Sedimentation rate ', 'cm/s'60 seddiag3d(3) = 'SaturCO3 ' , 'CO3 saturation ', '-' 61 seddiag2d(1) = 'FlxO2 ' , 'Dissolved Oxygen Flux ', 'mol/L' 62 seddiag2d(2) = 'FlxNO3 ' , 'Nitrates flux ', 'mol/cm2/s' 63 seddiag2d(3) = 'FlxPO4 ' , 'Phosphate flux ', 'mol/cm2/s' 64 seddiag2d(4) = 'FlxNH4 ' , 'Total Ammonium flux ', 'mol/cm2/s' 65 seddiag2d(5) = 'FlxH2S ' , 'Total H2S flux ', 'mol/cm2/s' 66 seddiag2d(6) = 'FlxSO4 ' , 'Total SO4 flux ', 'mol/cm2/s' 67 seddiag2d(7) = 'FlxFe2 ' , 'Total Fe2+ flux ', 'mol/cm2/s' 68 seddiag2d(8) = 'FlxAlkalini' , 'Total Alkalinity flux ', 'mol/cm2/s' 69 seddiag2d(9) = 'FlxLig ' , 'Total Ligand flux ', 'mol/cm2/s' 70 seddiag2d(10) = 'FlxDIC ' , 'Dissolved inorganic carbon flux ', 'mol/cm2/s' 71 seddiag2d(11) = 'FlxSi ' , 'Silicate flux ', 'mol/cm2/s' 72 seddiag2d(12) = 'FlxFeO ' , 'FeO burial flux ', 'mol/cm2/s' 73 seddiag2d(13) = 'FlxFeS ' , 'FeS burial flux ', 'mol/cm2/s' 74 seddiag2d(14) = 'FlxPOC ' , 'POC burial flux ', 'mol/cm2/s' 75 seddiag2d(15) = 'FlxPOS ' , 'POS burial flux ', 'mol/cm2/s' 76 seddiag2d(16) = 'FlxPOR ' , 'POR burial flux ', 'mol/cm2/s' 77 seddiag2d(17) = 'FlxCaCO3 ' , 'Calcite burial flux ', 'mol/cm2/s' 78 seddiag2d(18) = 'FlxBSi ' , 'BSi burial flux ', 'mol/cm2/s' 79 seddiag2d(19) = 'FlxClay ' , 'Clay burial flux ', 'mol/cm2/s' 80 seddiag2d(20) = 'Flxtot ' , 'Total burial flux ', 'mol/cm2/s' 81 seddiag2d(21) = 'dzdep ' , 'Sedimentation rate ', 'cm/s' 82 82 / 83 83 !----------------------------------------------------------------------- … … 100 100 rcorgl = 10. ! Reactivity for labile POC [an-1] 101 101 rcorgs = 0.1 ! Reactivity for semi-refractory POC [an-1] 102 rcorgr = 5.E-4 ! Reactivity for refractory POC [an-1]102 rcorgr = 1.E-4 ! Reactivity for refractory POC [an-1] 103 103 rcnh4 = 1E7 ! Reactivity for O2/NH4 [l.mol-1.an-1] 104 rch2s = 2E8! Reactivity for O2/H2S [l.mol-1.an-1]105 rcfe2 = 1E 8! Reactivity for O2/Fe2+ [l.mol-1.an-1]104 rch2s = 1E7 ! Reactivity for O2/H2S [l.mol-1.an-1] 105 rcfe2 = 1E9 ! Reactivity for O2/Fe2+ [l.mol-1.an-1] 106 106 rcfeh2s = 1E4 ! Reactivity for FEOH/H2S [l.mol-1.an-1] 107 rcfes = 1E6 ! Reactivity for FE2+/H2S [l.mol-1.an-1] 108 rcfeso = 2E7 ! Reactivity for FES/O2 [l.mol-1.an-1] 109 xksedo2 = 4.E-6 ! Half-saturation constant for oxic remin [mol/l] 110 xksedno3 = 10.E-6 ! Half-saturation constant for denitrification [mol/l] 107 rcfeso = 2E6 ! Reactivity for FES/O2 [l.mol-1.an-1] 108 rcfesp = 5E-6 ! Precipitation of FeS [mol.l-1.an-1] 109 rcfesd = 1.E-3 ! Dissolution of FeS [an-1] 110 xksedo2 = 1.E-6 ! Half-saturation constant for oxic remin [mol/l] 111 xksedno3 = 5.E-6 ! Half-saturation constant for denitrification [mol/l] 111 112 xksedfeo = 0.007 ! Half-saturation constant for iron remin [%] 112 113 xksedso4 = 2E-3 ! Half-saturation constant for SO4 remin [mol/l] … … 115 116 &nam_btb ! parameters for bioturbation and bioirrigation 116 117 !----------------------------------------------------------------------- 117 dbiot = 10.! Bioturbation coefficient (in cm2/yr)118 dbiot = 8. ! Bioturbation coefficient (in cm2/yr) 118 119 ln_btbz = .true. ! Depth varying bioturbation 119 dbtbzsc = 6.0 ! coefficient for btb attenuation. If no variation, depth of the mixed layer 120 adsnh4 = 1.3 ! Adsorption coefficient of NH4 120 dbtbzsc = 4.0 ! coefficient for btb attenuation. If no variation, depth of the mixed layer 121 adsnh4 = 4.16 ! Adsorption coefficient of NH4 122 adsfe2 = 0.0 ! Adsorption coefficient of Fe2 121 123 ln_irrig = .true. ! Bioirrigation in sediment 122 124 xirrzsc = 1.5 ! Vertical scale of the attentuation of bioirrigation [cm]
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