1 | check_conservation: false |
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2 | require_initialization: true |
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3 | instances: |
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4 | zenithAngle: |
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5 | model: ersem/zenith_angle |
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6 | light: |
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7 | model: ersem/light_iop_ady |
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8 | parameters: |
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9 | a0w: 0.03 # absorption coefficient of clear water (1/m), default = 0.036 |
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10 | b0w: 0.0015 # backscatter coefficient of clear water (1/m), default = 0.0016 |
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11 | pEIR_eow: 0.5 # photosynthetically active fraction of shortwave radiation (-), default = 0.5 |
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12 | relax: 0.143 # relaxation towards satellite gelbstoff absorption (1/d), default=0.033 |
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13 | initialization: |
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14 | ADY: 0.05 |
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15 | N1: |
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16 | long_name: phosphate |
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17 | model: ersem/pelagic_base |
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18 | parameters: |
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19 | composition: p # elemental composition |
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20 | c0: 0.001 # background carbon concentration (mg C/m^3), default = 0.0 |
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21 | initialization: |
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22 | p: 0.4 # phosphorus (mmol P/m^3) |
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23 | N3: |
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24 | long_name: nitrate |
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25 | model: ersem/pelagic_base |
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26 | parameters: |
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27 | composition: n # elemental composition |
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28 | c0: 0.001 # background carbon concentration (mg C/m^3), default = 0.0 |
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29 | initialization: |
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30 | n: 8.0 # nitrogen (mmol N/m^3) |
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31 | N4: |
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32 | long_name: ammonium |
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33 | model: ersem/pelagic_base |
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34 | parameters: |
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35 | composition: n # elemental composition |
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36 | c0: 0.001 # background carbon concentration (mg C/m^3), default = 0.0 |
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37 | initialization: |
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38 | n: 0.1 # nitrogen (mmol N/m^3) |
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39 | N5: |
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40 | long_name: silicate |
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41 | model: ersem/pelagic_base |
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42 | parameters: |
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43 | composition: s # elemental composition |
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44 | s0: 0.0003 # background silicon concentration (mmol Si/m^3), default = 0.0 |
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45 | initialization: |
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46 | s: 4.5 # silicate (mmol Si/m^3) |
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47 | O2: |
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48 | long_name: oxygen |
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49 | model: ersem/oxygen |
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50 | parameters: |
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51 | ISWO2: 2 # saturation formulation (1: legacy ERSEM, 2: Weiss 1970) |
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52 | initialization: |
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53 | o: 300.0 # oxygen (mmol O_2/m^3) |
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54 | O3: |
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55 | long_name: carbonate |
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56 | model: ersem/carbonate |
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57 | parameters: |
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58 | iswCO2: 1 # carbonate system diagnostics (0: off, 1: on), default = 1 |
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59 | iswASFLUX: 1 # air-sea CO2 exchange (0: none, 1: Nightingale and Liss, 2: Wanninkhof 1992 without chemical enhancement, 3: Wanninkhof 1992 with chemical enhancement, 4: Wanninkhof 1999), default = 1 |
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60 | iswtalk: 2 # alkalinity formulation (1-4: from salinity and temperature, 5: dynamic alkalinity), default = 5 |
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61 | iswbioalk: 1 |
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62 | initialization: |
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63 | c: 2130.0 # total dissolved inorganic carbon (mmol C/m^3) |
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64 | R1: |
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65 | long_name: labile dissolved organic matter |
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66 | model: ersem/pelagic_base |
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67 | parameters: |
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68 | composition: cnp # elemental composition |
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69 | c0: 0.0034 # background carbon concentration (mg C/m^3), default = 0.0 |
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70 | initialization: |
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71 | c: 10.0 # carbon (mg C/m^3) |
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72 | n: 0.14 # nitrogen (mmol N/m^3) |
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73 | p: 0.01 # phosphorus (mmol P/m^3) |
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74 | R2: |
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75 | long_name: semi-labile dissolved organic matter |
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76 | model: ersem/pelagic_base |
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77 | parameters: |
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78 | composition: c # elemental composition |
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79 | c0: 0.0033 # background carbon concentration (mg C/m^3), default = 0.0 |
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80 | initialization: |
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81 | c: 12.0 # carbon (mg C/m^3) |
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82 | R3: |
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83 | long_name: semi-refractory dissolved organic matter |
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84 | model: ersem/pelagic_base |
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85 | parameters: |
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86 | composition: c # elemental composition |
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87 | c0: 0.0033 # background carbon concentration (mg C/m^3), default = 0.0 |
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88 | initialization: |
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89 | c: 12.0 # carbon (mg C/m^3) |
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90 | R4: |
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91 | long_name: small-size pom |
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92 | model: ersem/pelagic_base |
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93 | parameters: |
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94 | composition: cnpf # elemental composition |
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95 | rm: 1.0 # sinking velocity (m/d), default = 0.0 |
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96 | ndeposition: 2 # number of target pools where the sedimentation flux goes (-) |
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97 | qxc2: 0.1 |
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98 | qxn2: 0.1 |
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99 | qxp2: 0.06 |
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100 | c0: 0.0033 # background carbon concentration (mg C/m^3), default = 0.0 |
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101 | initialization: |
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102 | c: 7.2 # carbon (mg C/m^3) |
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103 | n: 0.1 # nitrogen (mmol N/m^3) |
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104 | p: 0.007 # phosphorus (mmol P/m^3) |
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105 | coupling: |
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106 | deposition_target1: Q6/surface |
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107 | deposition_target2: Q7/surface |
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108 | R6: |
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109 | long_name: medium-size pom |
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110 | model: ersem/pelagic_base |
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111 | parameters: |
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112 | composition: cnpsf # elemental composition |
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113 | rm: 5.0 # sinking velocity (m/d), default = 0.0 |
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114 | ndeposition: 2 # number of target pools where the sedimentation flux goes (-) |
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115 | qxc2: 0.1 |
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116 | qxn2: 0.1 |
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117 | qxp2: 0.06 |
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118 | qxs2: 0.0 |
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119 | c0: 0.0033 # background carbon concentration (mg C/m^3), default = 0.0 |
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120 | initialization: |
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121 | c: 17.0 # carbon (mg C/m^3) |
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122 | n: 0.24 # nitrogen (mmol N/m^3) |
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123 | p: 0.02 # phosphorus (mmol P/m^3) |
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124 | s: 0.1 # silicate (mmol Si/m^3) |
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125 | coupling: |
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126 | deposition_target1: Q6/surface |
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127 | deposition_target2: Q7/surface |
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128 | R8: |
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129 | long_name: large-size pom |
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130 | model: ersem/pelagic_base |
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131 | parameters: |
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132 | composition: cnps # elemental composition |
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133 | rm: 10.0 # sinking velocity (m/d), default = 0.0 |
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134 | ndeposition: 2 # number of target pools where the sedimentation flux goes (-) |
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135 | qxc2: 0.1 |
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136 | qxn2: 0.1 |
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137 | qxp2: 0.06 |
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138 | qxs2: 0.0 |
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139 | c0: 0.0033 # background carbon concentration (mg C/m^3), default = 0.0 |
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140 | initialization: |
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141 | c: 0.17 # carbon (mg C/m^3) |
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142 | n: 0.0024 # nitrogen (mmol N/m^3) |
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143 | p: 0.0002 # phosphorus (mmol P/m^3) |
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144 | s: 0.001 # silicate (mmol Si/m^3) |
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145 | coupling: |
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146 | deposition_target1: Q6/surface |
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147 | deposition_target2: Q7/surface |
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148 | Q1: |
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149 | long_name: benthic dissolved organic matter |
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150 | model: ersem/benthic_base |
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151 | parameters: |
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152 | composition: cnp # elemental composition |
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153 | c0: 0.001 # background carbon concentration (mg C/m^2) |
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154 | initialization: |
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155 | c: 18.9 # carbon (mg C/m^2) |
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156 | n: 0.6 # nitrogen (mmol N/m^2) |
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157 | p: 0.0035 # phosphorus (mmol P/m^2) |
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158 | Q6: |
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159 | long_name: benthic particulate organic matter |
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160 | model: ersem/benthic_column_particulate_matter |
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161 | parameters: |
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162 | composition: cnpsf # elemental composition |
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163 | resuspension: true # enable resuspension, default = false |
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164 | c0: 0.001 # background carbon concentration (mg C/m^2) |
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165 | initialization: |
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166 | c: 3052.0 # carbon (mg C/m^2) |
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167 | n: 3.5 # nitrogen (mmol N/m^2) |
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168 | p: 0.5 # phosphorus (mmol P/m^2) |
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169 | s: 149.0 # silicate (mmol Si/m^2) |
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170 | pen_depth_c: 0.0173 # penetration depth of carbon (m) |
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171 | pen_depth_n: 0.02 # penetration depth of nitrogen (m) |
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172 | pen_depth_p: 0.025 # penetration depth of phosphorus (m) |
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173 | pen_depth_s: 0.0313 # penetration depth of silicate (m) |
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174 | coupling: |
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175 | RP: R6 |
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176 | Q7: |
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177 | long_name: benthic refractory matter |
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178 | model: ersem/benthic_column_particulate_matter |
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179 | parameters: |
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180 | composition: cnp # elemental composition |
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181 | burial: true # enable burial, default = false |
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182 | c0: 0.001 # background carbon concentration (mg C/m^2) |
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183 | initialization: |
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184 | c: 30520.0 # carbon (mg C/m^2) |
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185 | n: 80.0 # nitrogen (mmol N/m^2) |
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186 | p: 8.0 # phosphorus (mmol P/m^2) |
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187 | pen_depth_c: 0.2 # penetration depth of carbon (m) |
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188 | pen_depth_n: 0.25 # penetration depth of nitrogen (m) |
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189 | pen_depth_p: 0.313 # penetration depth of phosphorus (m) |
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190 | coupling: |
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191 | burial_target: Q17 |
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192 | Q17: |
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193 | long_name: benthic buried matter |
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194 | model: ersem/benthic_base |
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195 | parameters: |
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196 | composition: cnp # elemental composition |
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197 | initialization: |
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198 | c: 0.0 # carbon (mg C/m^2) |
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199 | n: 0.0 # nitrogen (mmol N/m^2) |
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200 | p: 0.0 # phosphorus (mmol P/m^2) |
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201 | B1: |
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202 | long_name: bacteria |
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203 | model: ersem/bacteria_docdyn |
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204 | parameters: |
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205 | iswBlim: 2 # nutrient limitation (1: minimum of inorganic and organic availability, 2: additive availability) |
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206 | q10: 2.0 # Q_10 temperature coefficient (-) |
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207 | chdo: 0.31 # Michaelis-Menten constant for oxygen limitation (-) |
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208 | chn: 0.5 # Michaelis-Menten constant for nitrate limitation (mmol N/m^3) |
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209 | chp: 0.1 # Michaelis-Menten constant for phosphate limitation (mmol P/m^3) |
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210 | sd: 0.05 # specific mortality at reference temperature (1/d) |
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211 | sum: 2.2 # maximum specific uptake at reference temperature (1/d) |
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212 | pu: 0.6 # efficiency at high oxygen levels (-) |
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213 | puo: 0.2 # efficiency at low oxygen levels (-) |
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214 | srs: 0.1 # specific rest respiration at reference temperature (1/d) |
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215 | sR1: 1.0 # maximum turn-over rate of DOM (1/d), default = 1.0 |
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216 | qpc: 0.0019 # maximum phosphorus to carbon ratio (mmol P/mg C) |
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217 | qnc: 0.0167 # maximum nitrogen to carbon ratio (mmol N/mg C) |
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218 | ur_O2: 0.1 # oxygen consumed per carbon respired (mmol O_2/mg C) |
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219 | sR1N1: 0.0 # mineralisation rate of labile dissolved organic phosphorus (1/d) |
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220 | sR1N4: 0.0 # mineralisation rate of labile dissolved organic nitrogen (1/d) |
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221 | fsink: 7e-05 # scavenging rate for iron (1/d) |
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222 | c0: 0.01 # background carbon concentration (mg C/m^3) |
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223 | nRP: 3 # number of substrates, default = 0 |
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224 | sRP1R1: 0.01 # remineralisation of substrate 1 to DOM (1/d) |
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225 | sRP2R1: 0.0025 # remineralisation of substrate 2 to DOM (1/d) |
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226 | sRP3R1: 0.001 # remineralisation of substrate 3 to DOM (1/d) |
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227 | rR2: 0.0075 # fraction of semi-labile DOC available to bacteria (-) |
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228 | rR3: 0.0025 # fraction of semi-refractory DOC available to bacteria (-) |
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229 | frR3: 0.3 # fraction of activity respiration converted to semi-refractory DOC (-) |
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230 | initialization: |
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231 | c: 15.7 # carbon (mg C/m^3) |
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232 | n: 0.26 # nitrogen (mmol N/m^3) |
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233 | p: 0.029 # phosphorus (mmol P/m^3) |
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234 | coupling: |
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235 | RP1: R4 |
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236 | RP2: R6 |
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237 | RP3: R8 |
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238 | N1p: N1/p # phosphate (mmol P/m^3) |
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239 | N4n: N4/n # ammonium (mmol N/m^3) |
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240 | R1c: R1/c # labile dissolved organic carbon (mg C/m^3) |
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241 | R1p: R1/p # labile dissolved organic phosphorus (mmol P/m^3) |
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242 | R1n: R1/n # labile dissolved organic nitrogen (mmol N/m^3) |
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243 | R2c: R2/c # semi-labile dissolved organic carbon (mg C/m^3) |
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244 | R3c: R3/c # semi-refractory DOC (mg C/m^3) |
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245 | O3c: O3/c # carbon dioxide (mmol C/m^3) |
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246 | O2o: O2/o # oxygen (mmol O_2/m^3) |
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247 | pel_nit: |
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248 | long_name: pelagic nitrification |
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249 | model: ersem/nitrification |
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250 | parameters: |
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251 | q10: 2.0 # Q_10 temperature coefficient (-) |
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252 | ISWph: 1 # pH impact on nitrification (0: off, 1: on) |
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253 | sN4N3: 0.5 # specific nitrification rate (1/d) |
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254 | chN3o: 2700.0 # Michaelis-Menten constant for cubic oxygen dependence of nitrification ((mmol O_2/m^3)^3) |
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255 | chN4n: 0.5 # Michaelis-Menten constant for cubic ammonium dependence of nitrification ((mmol N/m^3)^3), default = 0.0 |
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256 | coupling: |
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257 | N3n: N3/n # nitrate (mmol N/m^3) |
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258 | N4n: N4/n # ammonium (mmol N/m^3) |
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259 | O2o: O2/o # oxygen (mmol O_2/m^3) |
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260 | P1: |
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261 | long_name: diatoms |
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262 | model: ersem/primary_producer |
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263 | parameters: |
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264 | sum: 1.375 # maximum specific productivity at reference temperature (1/d) |
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265 | q10: 2.0 # Q_10 temperature coefficient (-) |
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266 | srs: 0.04 # specific rest respiration at reference temperature (1/d) |
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267 | pu_ea: 0.2 # excreted fraction of primary production (-) |
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268 | pu_ra: 0.2 # respired fraction of primary production (-) |
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269 | qnlc: 0.0042 # minimum nitrogen to carbon ratio (mmol N/mg C) |
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270 | qplc: 0.0001 # minimum phosphorus to carbon ratio (mmol P/mg C) |
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271 | xqcp: 1.0 # threshold for phosphorus limitation (relative to Redfield ratio) (-) |
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272 | xqcn: 1.0 # threshold for nitrogen limitation (relative to Redfield ratio) (-) |
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273 | xqp: 2.0 # maximum phosphorus to carbon ratio (relative to Redfield ratio) (-) |
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274 | xqn: 1.075 # maximum nitrogen to carbon ratio (relative to Redfield ratio) (-) |
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275 | qun3: 0.0025 # nitrate affinity (m^3/mg C/d) |
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276 | qun4: 0.0025 # ammonium affinity (m^3/mg C/d) |
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277 | qurp: 0.003 # phosphate affinity (m^3/mg C/d) |
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278 | snplux: 1.0 # specific tendency of luxury uptake of nutrients towards maximum quota (1/d), default = 1.0 |
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279 | use_Si: true # use silicate, default = false |
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280 | qsc: 0.0118 # maximum silicate to carbon ratio (mmol Si/mg C) |
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281 | chs: 0.2 # Michaelis-Menten constant for silicate limitation (mmol/m^3) |
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282 | sdo: 0.05 # 1.1 of minimal specific lysis rate (1/d) |
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283 | alpha: 4.0 # initial slope of PI-curve (mg C m^2/mg Chl/W/d) |
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284 | beta: 0.07 # photoinhibition parameter (mg C m^2/mg Chl/W/d) |
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285 | phim: 0.06 # maximum effective chlorophyll to carbon photosynthesis ratio (mg Chl/mg C) |
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286 | Limnut: 1 # nitrogen-phosphorus colimitation formulation (0: geometric mean, 1: minimum, 2: harmonic mean) |
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287 | docdyn: true # use dynamic ratio of labile to semi-labile DOM production, default = false |
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288 | uB1c_O2: 0.11 # oxygen produced per unit of carbon fixed (mmol O_2/mg C) |
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289 | urB1_O2: 0.1 # oxygen consumed per unit of carbon respired (mmol O_2/mg C) |
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290 | iopABS: 0.007 # specific shortwave absorption (m^2/mg Chl), default = 0.008 |
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291 | iopBBS: 0.00048 # specific shortwave backscatter (m^2/mg Chl), default = 0.003 |
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292 | c0: 0.0001 # background carbon concentration (mg C/m^3), default = 0.0 |
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293 | resm: 5.0 # maximum nutrient-limitation-induced sinking velocity (m/d), default = 0.0 |
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294 | esni: 0.7 # level of nutrient limitation below which sinking commences (-) |
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295 | cenh: false # enable atmospheric CO2 influence on photosynthesis, default = false |
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296 | ndeposition: 3 # number of target pools for sedimentation, default = 1 |
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297 | qxc2: 0.2 # fraction of carbon sinking into deposition target 2 (-) |
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298 | qxc3: 0.005 # fraction of carbon sinking into deposition target 3 (-) |
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299 | qxn2: 0.2 # fraction of nitrogen sinking into deposition target 2 (-) |
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300 | qxn3: 0.005 # fraction of nitrogen sinking into deposition target 3 (-) |
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301 | qxp2: 0.24 # fraction of phosphorus sinking into deposition target 2 (-) |
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302 | qxp3: 0.003 # fraction of phosphorus sinking into deposition target 3 (-) |
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303 | qxs2: 0.0 # fraction of silicate sinking into deposition target 2 (-) |
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304 | qxs3: 0.0 # fraction of silicate sinking into deposition target 3 (-) |
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305 | initialization: |
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306 | c: 8.0 # carbon (mg C/m^3) |
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307 | n: 0.1114 # nitrogen (mmol N/m^3) |
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308 | p: 0.009 # phosphorus (mmol P/m^3) |
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309 | s: 0.128 # silicate (mmol Si/m^3) |
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310 | Chl: 0.4 # chlorophyll a (mg/m^3) |
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311 | coupling: |
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312 | RP: R6 |
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313 | deposition_target1: Q6/surface |
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314 | deposition_target2: Q1 |
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315 | deposition_target3: Q7/surface |
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316 | N1p: N1/p # phosphate (mmol P/m^3) |
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317 | N3n: N3/n # nitrate (mmol N/m^3) |
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318 | N4n: N4/n # ammonium (mmol N/m^3) |
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319 | N5s: N5/s # silicate (mmol Si/m^3) |
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320 | R1c: R1/c # dissolved organic carbon (mg C/m^3) |
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321 | R1p: R1/p # dissolved organic phosphorus (mmol P/m^3) |
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322 | R1n: R1/n # dissolved organic nitrogen (mmol N/m^3) |
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323 | R2c: R2/c # semi-labile dissolved organic carbon (mg C/m^3) |
---|
324 | O2o: O2/o # oxygen (mmol O_2/m^3) |
---|
325 | O3c: O3/c # carbon dioxide (mmol C/m^3) |
---|
326 | P2: |
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327 | long_name: nanophytoplankton |
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328 | model: ersem/primary_producer |
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329 | parameters: |
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330 | sum: 1.625 # maximum specific productivity at reference temperature (1/d) |
---|
331 | q10: 2.0 # Q_10 temperature coefficient (-) |
---|
332 | srs: 0.04 # specific rest respiration at reference temperature (1/d) |
---|
333 | pu_ea: 0.2 # excreted fraction of primary production (-) |
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334 | pu_ra: 0.2 # respired fraction of primary production (-) |
---|
335 | qnlc: 0.005 # minimum nitrogen to carbon ratio (mmol N/mg C) |
---|
336 | qplc: 0.000225 # minimum phosphorus to carbon ratio (mmol P/mg C) |
---|
337 | xqcp: 1.0 # threshold for phosphorus limitation (relative to Redfield ratio) (-) |
---|
338 | xqcn: 1.0 # threshold for nitrogen limitation (relative to Redfield ratio) (-) |
---|
339 | xqp: 2.0 # maximum phosphorus to carbon ratio (relative to Redfield ratio) (-) |
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340 | xqn: 1.075 # maximum nitrogen to carbon ratio (relative to Redfield ratio) (-) |
---|
341 | qun3: 0.004 # nitrate affinity (m^3/mg C/d) |
---|
342 | qun4: 0.004 # ammonium affinity (m^3/mg C/d) |
---|
343 | qurp: 0.004 # phosphate affinity (m^3/mg C/d) |
---|
344 | snplux: 1.0 # specific tendency of luxury uptake of nutrients towards maximum quota (1/d), default = 1.0 |
---|
345 | use_Si: false # use silicate, default = false |
---|
346 | sdo: 0.05 # 1.1 of minimal specific lysis rate (1/d) |
---|
347 | alpha: 5.0 # initial slope of PI-curve (mg C m^2/mg Chl/W/d) |
---|
348 | beta: 0.1 # photoinhibition parameter (mg C m^2/mg Chl/W/d) |
---|
349 | phim: 0.025 # maximum effective chlorophyll to carbon photosynthesis ratio (mg Chl/mg C) |
---|
350 | Limnut: 1 # nitrogen-phosphorus colimitation formulation (0: geometric mean, 1: minimum, 2: harmonic mean) |
---|
351 | docdyn: true # use dynamic ratio of labile to semi-labile DOM production, default = false |
---|
352 | uB1c_O2: 0.11 # oxygen produced per unit of carbon fixed (mmol O_2/mg C) |
---|
353 | urB1_O2: 0.1 # oxygen consumed per unit of carbon respired (mmol O_2/mg C) |
---|
354 | iopABS: 0.0041 # specific shortwave absorption (m^2/mg Chl), default = 0.008 |
---|
355 | iopBBS: 0.003 # specific shortwave backscatter (m^2/mg Chl), default = 0.003 |
---|
356 | c0: 0.001 # background carbon concentration (mg C/m^3), default = 0.0 |
---|
357 | calcify: true # calcify, default = false |
---|
358 | resm: 0.0 # maximum nutrient-limitation-induced sinking velocity (m/d), default = 0.0 |
---|
359 | esni: 0.7 # level of nutrient limitation below which sinking commences (-) |
---|
360 | cenh: false # enable atmospheric CO2 influence on photosynthesis, default = false |
---|
361 | ndeposition: 3 # number of target pools for sedimentation, default = 1 |
---|
362 | qxc2: 0.5 # fraction of carbon sinking into deposition target 2 (-) |
---|
363 | qxc3: 0.05 # fraction of carbon sinking into deposition target 3 (-) |
---|
364 | qxn2: 0.5 # fraction of nitrogen sinking into deposition target 2 (-) |
---|
365 | qxn3: 0.05 # fraction of nitrogen sinking into deposition target 3 (-) |
---|
366 | qxp2: 0.6 # fraction of phosphorus sinking into deposition target 2 (-) |
---|
367 | qxp3: 0.03 # fraction of phosphorus sinking into deposition target 3 (-) |
---|
368 | initialization: |
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369 | c: 5.9 # carbon (mg C/m^3) |
---|
370 | n: 0.0926 # nitrogen (mmol N/m^3) |
---|
371 | p: 0.0036 # phosphorus (mmol P/m^3) |
---|
372 | Chl: 0.3 # chlorophyll a (mg/m^3) |
---|
373 | coupling: |
---|
374 | RP: R4 |
---|
375 | deposition_target1: Q6/surface |
---|
376 | deposition_target2: Q1 |
---|
377 | deposition_target3: Q7/surface |
---|
378 | N1p: N1/p # phosphate (mmol P/m^3) |
---|
379 | N3n: N3/n # nitrate (mmol N/m^3) |
---|
380 | N4n: N4/n # ammonium (mmol N/m^3) |
---|
381 | R1c: R1/c # dissolved organic carbon (mg C/m^3) |
---|
382 | R1p: R1/p # dissolved organic phosphorus (mmol P/m^3) |
---|
383 | R1n: R1/n # dissolved organic nitrogen (mmol N/m^3) |
---|
384 | R2c: R2/c # semi-labile dissolved organic carbon (mg C/m^3) |
---|
385 | O2o: O2/o # oxygen (mmol O_2/m^3) |
---|
386 | O3c: O3/c # carbon dioxide (mmol C/m^3) |
---|
387 | RainR: L2/RainR # rain ratio (PIC : POC) (-) |
---|
388 | L2c: L2/c # free calcite (mg C/m^3) |
---|
389 | P3: |
---|
390 | long_name: picophytoplankton |
---|
391 | model: ersem/primary_producer |
---|
392 | parameters: |
---|
393 | sum: 2.0 # maximum specific productivity at reference temperature (1/d) |
---|
394 | q10: 2.0 # Q_10 temperature coefficient (-) |
---|
395 | srs: 0.045 # specific rest respiration at reference temperature (1/d) |
---|
396 | pu_ea: 0.2 # excreted fraction of primary production (-) |
---|
397 | pu_ra: 0.2 # respired fraction of primary production (-) |
---|
398 | qnlc: 0.006 # minimum nitrogen to carbon ratio (mmol N/mg C) |
---|
399 | qplc: 0.00035 # minimum phosphorus to carbon ratio (mmol P/mg C) |
---|
400 | xqcp: 1.0 # threshold for phosphorus limitation (relative to Redfield ratio) (-) |
---|
401 | xqcn: 1.0 # threshold for nitrogen limitation (relative to Redfield ratio) (-) |
---|
402 | xqp: 1.5 # maximum phosphorus to carbon ratio (relative to Redfield ratio) (-) |
---|
403 | xqn: 1.05 # maximum nitrogen to carbon ratio (relative to Redfield ratio) (-) |
---|
404 | qun3: 0.006 # nitrate affinity (m^3/mg C/d) |
---|
405 | qun4: 0.007 # ammonium affinity (m^3/mg C/d) |
---|
406 | qurp: 0.006 # phosphate affinity (m^3/mg C/d) |
---|
407 | snplux: 1.0 # specific tendency of luxuary uptake of nutrients towards maximum quoata (1/d) |
---|
408 | use_Si: false # use silicate, default = false |
---|
409 | sdo: 0.055 # 1.1 of minimal specific lysis rate (1/d) |
---|
410 | alpha: 6.0 # initial slope of PI-curve (mg C m^2/mg Chl/W/d) |
---|
411 | beta: 0.12 # photoinhibition parameter (mg C m^2/mg Chl/W/d) |
---|
412 | phim: 0.015 # maximum effective chlorophyll to carbon photosynthesis ratio (mg Chl/mg C) |
---|
413 | Limnut: 1 # nitrogen-phosphorus colimitation formulation (0: geometric mean, 1: minimum, 2: harmonic mean) |
---|
414 | docdyn: true # use dynamic ratio of labile to semi-labile DOM production, default = false |
---|
415 | uB1c_O2: 0.11 # oxygen produced per unit of carbon fixed (mmol O_2/mg C) |
---|
416 | urB1_O2: 0.1 # oxygen consumed per unit of carbon respired (mmol O_2/mg C) |
---|
417 | iopABS: 0.023 # specific shortwave absorption (m^2/mg Chl), default = 0.008 |
---|
418 | iopBBS: 0.003 # specific shortwave backscatter (m^2/mg Chl), default = 0.003 |
---|
419 | c0: 0.0088 # background carbon concentration (mg C/m^3), default = 0.0 |
---|
420 | resm: 0.0 # maximum nutrient-limitation-induced sinking velocity (m/d), default = 0.0 |
---|
421 | esni: 0.7 # level of nutrient limitation below which sinking commences (-) |
---|
422 | cenh: false # enable atmospheric CO2 influence on photosynthesis, default = false |
---|
423 | ndeposition: 3 # number of target pools for sedimentation, default = 1 |
---|
424 | qxc2: 0.5 # fraction of carbon sinking into deposition target 2 (-) |
---|
425 | qxc3: 0.05 # fraction of carbon sinking into deposition target 3 (-) |
---|
426 | qxn2: 0.5 # fraction of nitrogen sinking into deposition target 2 (-) |
---|
427 | qxn3: 0.05 # fraction of nitrogen sinking into deposition target 3 (-) |
---|
428 | qxp2: 0.6 # fraction of phosphorus sinking into deposition target 2 (-) |
---|
429 | qxp3: 0.03 # fraction of phosphorus sinking into deposition target 3 (-) |
---|
430 | initialization: |
---|
431 | c: 5.9 # carbon (mg C/m^3) |
---|
432 | n: 0.0926 # nitrogen (mmol N/m^3) |
---|
433 | p: 0.0036 # phosphorus (mmol P/m^3) |
---|
434 | Chl: 0.3 # chlorophyll a (mg/m^3) |
---|
435 | coupling: |
---|
436 | RP: R4 |
---|
437 | deposition_target1: Q6/surface |
---|
438 | deposition_target2: Q1 |
---|
439 | deposition_target3: Q7/surface |
---|
440 | N1p: N1/p # phosphate (mmol P/m^3) |
---|
441 | N3n: N3/n # nitrate (mmol N/m^3) |
---|
442 | N4n: N4/n # ammonium (mmol N/m^3) |
---|
443 | R1c: R1/c # dissolved organic carbon (mg C/m^3) |
---|
444 | R1p: R1/p # dissolved organic phosphorus (mmol P/m^3) |
---|
445 | R1n: R1/n # dissolved organic nitrogen (mmol N/m^3) |
---|
446 | R2c: R2/c # semi-labile dissolved organic carbon (mg C/m^3) |
---|
447 | O2o: O2/o # oxygen (mmol O_2/m^3) |
---|
448 | O3c: O3/c # carbon dioxide (mmol C/m^3) |
---|
449 | P4: |
---|
450 | long_name: microphytoplankton |
---|
451 | model: ersem/primary_producer |
---|
452 | parameters: |
---|
453 | sum: 1.125 # maximum specific productivity at reference temperature (1/d) |
---|
454 | q10: 2.0 # Q_10 temperature coefficient (-) |
---|
455 | srs: 0.035 # specific rest respiration at reference temperature (1/d) |
---|
456 | pu_ea: 0.2 # excreted fraction of primary production (-) |
---|
457 | pu_ra: 0.2 # respired fraction of primary production (-) |
---|
458 | qnlc: 0.0042 # minimum nitrogen to carbon ratio (mmol N/mg C) |
---|
459 | qplc: 0.0001 # minimum phosphorus to carbon ratio (mmol P/mg C) |
---|
460 | xqcp: 1.0 # threshold for phosphorus limitation (relative to Redfield ratio) (-) |
---|
461 | xqcn: 1.0 # threshold for nitrogen limitation (relative to Redfield ratio) (-) |
---|
462 | xqp: 2.7 # maximum phosphorus to carbon ratio (relative to Redfield ratio) (-) |
---|
463 | xqn: 1.1 # maximum nitrogen to carbon ratio (relative to Redfield ratio) (-) |
---|
464 | qun3: 0.002 # nitrate affinity (m^3/mg C/d) |
---|
465 | qun4: 0.002 # ammonium affinity (m^3/mg C/d) |
---|
466 | qurp: 0.002 # phosphate affinity (m^3/mg C/d) |
---|
467 | snplux: 1.0 # specific tendency of luxuary uptake of nutrients towards maximum quoata (1/d) |
---|
468 | use_Si: false # use silicate, default = false |
---|
469 | sdo: 0.045 # 1.1 of minimal specific lysis rate (1/d) |
---|
470 | alpha: 3.0 # initial slope of PI-curve (mg C m^2/mg Chl/W/d) |
---|
471 | beta: 0.06 # photoinhibition parameter (mg C m^2/mg Chl/W/d) |
---|
472 | phim: 0.045 # maximum effective chlorophyll to carbon photosynthesis ratio (mg Chl/mg C) |
---|
473 | Limnut: 1 # nitrogen-phosphorus colimitation formulation (0: geometric mean, 1: minimum, 2: harmonic mean) |
---|
474 | docdyn: true # use dynamic ratio of labile to semi-labile DOM production, default = false |
---|
475 | uB1c_O2: 0.11 # oxygen produced per unit of carbon fixed (mmol O_2/mg C) |
---|
476 | urB1_O2: 0.1 # oxygen consumed per unit of carbon respired (mmol O_2/mg C) |
---|
477 | iopABS: 0.008 # specific shortwave absorption (m^2/mg Chl), default = 0.008 |
---|
478 | iopBBS: 0.00048 # specific shortwave backscatter (m^2/mg Chl), default = 0.003 |
---|
479 | c0: 0.0001 # background carbon concentration (mg C/m^3), default = 0.0 |
---|
480 | resm: 5.0 # maximum nutrient-limitation-induced sinking velocity (m/d), default = 0.0 |
---|
481 | esni: 0.7 # level of nutrient limitation below which sinking commences (-) |
---|
482 | cenh: false # enable atmospheric CO2 influence on photosynthesis, default = false |
---|
483 | ndeposition: 3 # number of target pools for sedimentation, default = 1 |
---|
484 | qxc2: 0.5 # fraction of carbon sinking into deposition target 2 (-) |
---|
485 | qxc3: 0.05 # fraction of carbon sinking into deposition target 3 (-) |
---|
486 | qxn2: 0.5 # fraction of nitrogen sinking into deposition target 2 (-) |
---|
487 | qxn3: 0.05 # fraction of nitrogen sinking into deposition target 3 (-) |
---|
488 | qxp2: 0.6 # fraction of phosphorus sinking into deposition target 2 (-) |
---|
489 | qxp3: 0.03 # fraction of phosphorus sinking into deposition target 3 (-) |
---|
490 | initialization: |
---|
491 | c: 5.9 # carbon (mg C/m^3) |
---|
492 | n: 0.0926 # nitrogen (mmol N/m^3) |
---|
493 | p: 0.0036 # phosphorus (mmol P/m^3) |
---|
494 | Chl: 0.3 # chlorophyll a (mg/m^3) |
---|
495 | coupling: |
---|
496 | RP: R6 |
---|
497 | deposition_target1: Q6/surface |
---|
498 | deposition_target2: Q1 |
---|
499 | deposition_target3: Q7/surface |
---|
500 | N1p: N1/p # phosphate (mmol P/m^3) |
---|
501 | N3n: N3/n # nitrate (mmol N/m^3) |
---|
502 | N4n: N4/n # ammonium (mmol N/m^3) |
---|
503 | R1c: R1/c # dissolved organic carbon (mg C/m^3) |
---|
504 | R1p: R1/p # dissolved organic phosphorus (mmol P/m^3) |
---|
505 | R1n: R1/n # dissolved organic nitrogen (mmol N/m^3) |
---|
506 | R2c: R2/c # semi-labile dissolved organic carbon (mg C/m^3) |
---|
507 | O2o: O2/o # oxygen (mmol O_2/m^3) |
---|
508 | O3c: O3/c # carbon dioxide (mmol C/m^3) |
---|
509 | Z4: |
---|
510 | long_name: mesozooplankton |
---|
511 | model: ersem/mesozooplankton |
---|
512 | parameters: |
---|
513 | q10: 2.0 # Q_10 temperature coefficient (-) |
---|
514 | minfood: 12.0 # Michaelis-Menten constant to perceive food (mg C/m^3) |
---|
515 | chuc: 36.0 # Michaelis-Menten constant for food uptake (mg C/m^3) |
---|
516 | sum: 1.0 # maximum specific uptake at reference temperature (1/d) |
---|
517 | pu: 0.6 # assimilation efficiency (-) |
---|
518 | pu_ea: 0.5 # fraction of unassimilated prey that is excreted (not respired) (-) |
---|
519 | pu_eaR: 0.9 # fraction of unassimilated detritus that is excreted (not respired) (-) |
---|
520 | pe_R1: 0.5 # dissolved fraction of excreted/dying matter (-) |
---|
521 | srs: 0.015 # specific rest respiration at reference temperature (1/d) |
---|
522 | sd: 0.05 # basal mortality (1/d) |
---|
523 | sdo: 0.2 # maximum mortality due to oxygen limitation (1/d) |
---|
524 | chro: 7.81 # Michaelis-Menten constant for oxygen limitation (-) |
---|
525 | qpc: 0.000786 # phosphorus to carbon ratio (mmol P/mg C) |
---|
526 | qnc: 0.0126 # nitrogen to carbon ratio (mmol N/mg C) |
---|
527 | Minprey: 300.0 # food threshold for overwintering state (mg C/m^2) |
---|
528 | repw: 0.0025 # specific overwintering respiration (1/d) |
---|
529 | mort: 0.0025 # specific overwintering mortality (1/d) |
---|
530 | R1R2: 1.0 # labile fraction of produced dissolved organic carbon (-) |
---|
531 | xR1p: 1.2 # transfer of phosphorus to DOM, relative to POM (-), default = 0.0 |
---|
532 | xR1n: 1.0 # transfer of nitrogen to DOM, relative to POM (-), default = 0.0 |
---|
533 | urB1_O2: 0.1 # oxygen consumed per carbon respired (mmol O_2/mg C) |
---|
534 | gutdiss: 0.5 # fraction of prey calcite that dissolves after ingestion (-) |
---|
535 | c0: 0.0033 # background concentration (mg C/m^3) |
---|
536 | nprey: 9 # number of prey types, default = 0 |
---|
537 | suprey1: 0.15 # relative affinity for prey type 1 (-) |
---|
538 | suprey2: 0.05 # relative affinity for prey type 2 (-) |
---|
539 | suprey3: 0.0 # relative affinity for prey type 3 (-) |
---|
540 | suprey4: 0.15 # relative affinity for prey type 4 (-) |
---|
541 | suprey5: 0.25 # relative affinity for prey type 5 (-) |
---|
542 | suprey6: 0.25 # relative affinity for prey type 6 (-) |
---|
543 | suprey7: 0.05 # relative affinity for prey type 7 (-) |
---|
544 | suprey8: 0.0 # relative affinity for prey type 8 (-) |
---|
545 | suprey9: 0.1 # relative affinity for prey type 9 (-) |
---|
546 | prey9ispom: true # prey type 9 is detritus, default = false |
---|
547 | initialization: |
---|
548 | c: 1.2 # carbon (mg C/m^3) |
---|
549 | coupling: |
---|
550 | prey1: P1 |
---|
551 | prey2: P2 |
---|
552 | prey3: P3 |
---|
553 | prey4: P4 |
---|
554 | prey5: Z4 |
---|
555 | prey6: Z5 |
---|
556 | prey7: Z6 |
---|
557 | prey8: B1 |
---|
558 | prey9: R6 |
---|
559 | RP: R8 |
---|
560 | N1p: N1/p # phosphate (mmol P/m^3) |
---|
561 | N4n: N4/n # ammonium (mmol N/m^3) |
---|
562 | R1c: R1/c # dissolved organic carbon (mg C/m^3) |
---|
563 | R1p: R1/p # dissolved organic phosphorus (mmol P/m^3) |
---|
564 | R1n: R1/n # dissolved organic nitrogen (mmol N/m^3) |
---|
565 | R2c: R2/c # semi-labile dissolved organic carbon (mg C/m^3) |
---|
566 | O2o: O2/o # oxygen source (mmol O_2/m^3) |
---|
567 | O3c: O3/c # carbon dioxide sink (mmol C/m^3) |
---|
568 | L2c: L2/c # calcite (mg C/m^3) |
---|
569 | Z5: |
---|
570 | long_name: microzooplankton |
---|
571 | model: ersem/microzooplankton |
---|
572 | parameters: |
---|
573 | q10: 2.0 # Q_10 temperature coefficient (-) |
---|
574 | minfood: 12.0 # Michaelis-Menten constant to perceive food (mg C/m^3) |
---|
575 | chuc: 32.0 # Michaelis-Menten constant for food uptake (mg C/m^3) |
---|
576 | sum: 1.25 # maximum specific uptake at reference temperature (1/d) |
---|
577 | pu: 0.5 # assimilation efficiency (-) |
---|
578 | pu_ea: 0.5 # fraction of unassimilated prey that is excreted (not respired) (-) |
---|
579 | pe_R1: 0.5 # dissolved fraction of excreted/dying matter (-) |
---|
580 | srs: 0.02 # specific rest respiration at reference temperature (1/d) |
---|
581 | sd: 0.05 # basal mortality (1/d) |
---|
582 | sdo: 0.25 # maximum mortality due to oxygen limitation (1/d) |
---|
583 | chro: 7.81 # Michaelis-Menten constant for oxygen limitation (-) |
---|
584 | qpc: 0.001 # maximum phosphorus to carbon ratio (mmol P/mg C) |
---|
585 | qnc: 0.0167 # maximum nitrogen to carbon ratio (mmol N/mg C) |
---|
586 | stempp: 0.5 # specific excretion rate of excess phosphorus (1/d) |
---|
587 | stempn: 0.5 # specific excretion rate of excess nitrogen (1/d) |
---|
588 | R1R2: 1.0 # labile fraction of produced dissolved organic carbon (-) |
---|
589 | xR1p: 1.2 # transfer of phosphorus to DOM, relative to POM (-), default = 1.0 |
---|
590 | xR1n: 1.0 # transfer of nitrogen to DOM, relative to POM (-), default = 1.0 |
---|
591 | urB1_O2: 0.1 # oxygen consumed per carbon respired (mmol O_2/mg C) |
---|
592 | gutdiss: 0.5 # fraction of prey calcite that dissolves after ingestion (-) |
---|
593 | c0: 0.0033 # background concentration (mg C/m^3) |
---|
594 | nprey: 7 # number of prey types, default = 0 |
---|
595 | suprey1: 0.1 # relative affinity for prey type 1 (-) |
---|
596 | suprey2: 0.15 # relative affinity for prey type 2 (-) |
---|
597 | suprey3: 0.15 # relative affinity for prey type 3 (-) |
---|
598 | suprey4: 0.15 # relative affinity for prey type 4 (-) |
---|
599 | suprey5: 0.1 # relative affinity for prey type 5 (-) |
---|
600 | suprey6: 0.15 # relative affinity for prey type 6 (-) |
---|
601 | suprey7: 0.2 # relative affinity for prey type 7 (-) |
---|
602 | initialization: |
---|
603 | c: 7.2 # carbon (mg C/m^3) |
---|
604 | n: 0.12 # nitrogen (mmol N/m^3) |
---|
605 | p: 0.0113 # phosphorus (mmol P/m^3) |
---|
606 | coupling: |
---|
607 | prey1: B1 |
---|
608 | prey2: P1 |
---|
609 | prey3: P2 |
---|
610 | prey4: P3 |
---|
611 | prey5: P4 |
---|
612 | prey6: Z5 |
---|
613 | prey7: Z6 |
---|
614 | RP: R6 |
---|
615 | N1p: N1/p # phosphate (mmol P/m^3) |
---|
616 | N4n: N4/n # ammonium (mmol N/m^3) |
---|
617 | R1c: R1/c # dissolved organic carbon (mg C/m^3) |
---|
618 | R1p: R1/p # dissolved organic phosphorus (mmol P/m^3) |
---|
619 | R1n: R1/n # dissolved organic nitrogen (mmol N/m^3) |
---|
620 | R2c: R2/c # semi-labile dissolved organic carbon (mg C/m^3) |
---|
621 | O2o: O2/o # oxygen source (mmol O_2/m^3) |
---|
622 | O3c: O3/c # carbon dioxide sink (mmol C/m^3) |
---|
623 | L2c: L2/c # calcite (mg C/m^3) |
---|
624 | Z6: |
---|
625 | long_name: nanoflagellates |
---|
626 | model: ersem/microzooplankton |
---|
627 | parameters: |
---|
628 | q10: 2.0 # Q_10 temperature coefficient (-) |
---|
629 | minfood: 12.0 # Michaelis-Menten constant to perceive food (mg C/m^3) |
---|
630 | chuc: 28.0 # Michaelis-Menten constant for food uptake (mg C/m^3) |
---|
631 | sum: 1.5 # maximum specific uptake at reference temperature (1/d) |
---|
632 | pu: 0.4 # assimilation efficiency (-) |
---|
633 | pu_ea: 0.5 # fraction of unassimilated prey that is excreted (not respired) (-) |
---|
634 | pe_R1: 0.5 # dissolved fraction of excreted/dying matter (-) |
---|
635 | srs: 0.025 # specific rest respiration at reference temperature (1/d) |
---|
636 | sd: 0.05 # basal mortality (1/d) |
---|
637 | sdo: 0.3 # maximum mortality due to oxygen limitation (1/d) |
---|
638 | chro: 7.81 # Michaelis-Menten constant for oxygen limitation (-) |
---|
639 | qpc: 0.001 # maximum phosphorus to carbon ratio (mmol P/mg C) |
---|
640 | qnc: 0.0167 # maximum nitrogen to carbon ratio (mmol N/mg C) |
---|
641 | stempp: 0.5 # specific excretion rate of excess phosphorus (1/d) |
---|
642 | stempn: 0.5 # specific excretion rate of excess nitrogen (1/d) |
---|
643 | R1R2: 1.0 # labile fraction of produced dissolved organic carbon (-) |
---|
644 | xR1p: 1.2 # transfer of phosphorus to DOM, relative to POM (-), default = 1.0 |
---|
645 | xR1n: 1.0 # transfer of nitrogen to DOM, relative to POM (-), default = 1.0 |
---|
646 | urB1_O2: 0.1 # oxygen consumed per carbon respired (mmol O_2/mg C) |
---|
647 | gutdiss: 0.5 # fraction of prey calcite that dissolves after ingestion (-) |
---|
648 | c0: 0.0033 # background concentration (mg C/m^3) |
---|
649 | nprey: 4 # number of prey types, default = 0 |
---|
650 | suprey1: 0.45 # relative affinity for prey type 1 (-) |
---|
651 | suprey2: 0.15 # relative affinity for prey type 2 (-) |
---|
652 | suprey3: 0.25 # relative affinity for prey type 3 (-) |
---|
653 | suprey4: 0.15 # relative affinity for prey type 4 (-) |
---|
654 | initialization: |
---|
655 | c: 2.421 # carbon (mg C/m^3) |
---|
656 | n: 0.0505 # nitrogen (mmol N/m^3) |
---|
657 | p: 0.047 # phosphorus (mmol P/m^3) |
---|
658 | coupling: |
---|
659 | prey1: B1 |
---|
660 | prey2: P2 |
---|
661 | prey3: P3 |
---|
662 | prey4: Z6 |
---|
663 | RP: R4 |
---|
664 | N1p: N1/p # phosphate (mmol P/m^3) |
---|
665 | N4n: N4/n # ammonium (mmol N/m^3) |
---|
666 | R1c: R1/c # dissolved organic carbon (mg C/m^3) |
---|
667 | R1p: R1/p # dissolved organic phosphorus (mmol P/m^3) |
---|
668 | R1n: R1/n # dissolved organic nitrogen (mmol N/m^3) |
---|
669 | R2c: R2/c # semi-labile dissolved organic carbon (mg C/m^3) |
---|
670 | RPs: R6/s # particulate organic silicate (mmol Si/m^3) |
---|
671 | O2o: O2/o # oxygen source (mmol O_2/m^3) |
---|
672 | O3c: O3/c # carbon dioxide sink (mmol C/m^3) |
---|
673 | L2c: L2/c # calcite (mg C/m^3) |
---|
674 | L2: |
---|
675 | long_name: calcite |
---|
676 | model: ersem/calcification |
---|
677 | parameters: |
---|
678 | iswcal: 1 # calcification/dissolution dependence on calcite saturation (1: power law, 2: hyperbolic) |
---|
679 | ncalc: 0.81 # power of the calcification law (Ridgwell et al. 2007, mineral calcite) (-) |
---|
680 | ndiss: 2.22 # power of the dissolution law (Keir 1980) (-) |
---|
681 | Rain0: 0.6 # maximum rain ratio from PISCES (-) |
---|
682 | sedL2: 10.0 # sinking velocity (m/d) |
---|
683 | sL2O3: 0.03 # maximum specific dissolution rate (1/d), default = 1.0 |
---|
684 | c0: 1e-05 # background concentration (mg C/m^3), default = 0.0 |
---|
685 | ndeposition: 1 # number of target pools for sedimentation, default = 1 |
---|
686 | initialization: |
---|
687 | c: 0.05 # carbon (mg C/m^3) |
---|
688 | coupling: |
---|
689 | deposition_target1: bL2 |
---|
690 | om_cal: O3/Om_cal # calcite saturation (-) |
---|
691 | O3c: O3/c # total dissolved inorganic carbon (mmol C/m^3) |
---|
692 | bL2: |
---|
693 | long_name: benthic calcite |
---|
694 | model: ersem/benthic_calcite |
---|
695 | parameters: |
---|
696 | iswcal: 1 # dissolution dependence on calcite saturation (0: none, 1: power law, 2: hyperbolic) |
---|
697 | ndiss: 2.22 # power of the dissolution law (Keir 1980) (-) |
---|
698 | fdissmax: 30.0 # maximum specific dissolution rate (1/d), default = 0.0 |
---|
699 | fdissmin: 0.05 # minimum specific dissolution rate (1/d), default = 0.03 |
---|
700 | c0: 1e-05 # background calcite concentration (mg C/m^2), default = 0.0 |
---|
701 | initialization: |
---|
702 | c: 0.05 # carbon (mg C/m^2) |
---|
703 | coupling: |
---|
704 | Om_Cal: O3/Om_cal # calcite saturation (-) |
---|
705 | O3c: O3/c # dissolved inorganic carbon (mmol/m^3) |
---|
706 | ben_col: |
---|
707 | long_name: benthic column |
---|
708 | model: ersem/benthic_column |
---|
709 | parameters: |
---|
710 | qPW: 0.4 # sediment porosity (-) |
---|
711 | EDZ_mix: 20.0 # equilibrium diffusive speed between sediment surface water (d/m) |
---|
712 | d_tot: 0.3 # depth of sediment column (m) |
---|
713 | Etur: 2e-06 # basal bioturbation rate (m^2/d) |
---|
714 | mtur: 10.0 # maximum relative turbation enhancement (-) |
---|
715 | htur: 116.0 # Michaelis-Menten constant for bioturbation (mg C/m^2/d) |
---|
716 | dtur: 0.02 # bioturbation depth (m) |
---|
717 | EDZ_1: 5e-05 # diffusivity in oxygenated layer (m^2/d) |
---|
718 | EDZ_2: 5e-05 # diffusivity in oxidized layer (m^2/d) |
---|
719 | EDZ_3: 5e-05 # diffusivity in anoxic layer (m^2/d) |
---|
720 | irr_min: 2.0 # minimum diffusion enhancement through bioirrigation (-) |
---|
721 | mirr: 10.0 # maximum relative diffusion enhancement due to bioirrigation (-) |
---|
722 | hirr: 101.0 # Michaelis-Menten constant for bioirrigation (mg C/m^2/d) |
---|
723 | initialization: |
---|
724 | D1m: 0.009 # depth of bottom interface of oxygenated layer (m) |
---|
725 | D2m: 0.05 # depth of bottom interface of oxidized layer (m) |
---|
726 | K1: |
---|
727 | long_name: benthic phosphate |
---|
728 | model: ersem/benthic_column_dissolved_matter |
---|
729 | parameters: |
---|
730 | composition: p # composition (any combination of c,n,p,s,o,a) |
---|
731 | ads1: 100.0 # adsorption in layer 1 (total:dissolved) (-), default = 1.0 |
---|
732 | ads2: 100.0 # adsorption in layer 2 (total:dissolved) (-), default = 1.0 |
---|
733 | ads3: 2.0 # adsorption in layer 3 (total:dissolved) (-), default = 1.0 |
---|
734 | c0: 0.0003 # background concentration (mg C/m^2) |
---|
735 | initialization: |
---|
736 | p: 6.8 # phosphorus (mmol/m^2) |
---|
737 | coupling: |
---|
738 | p_pel: N1/p # pelagic phosphorus (mmol/m^3) |
---|
739 | K3: |
---|
740 | long_name: benthic nitrate |
---|
741 | model: ersem/benthic_column_dissolved_matter |
---|
742 | parameters: |
---|
743 | composition: n # composition (any combination of c,n,p,s,o,a) |
---|
744 | last_layer: 2 # sediment layer where concentration drops to zero, default = 3 |
---|
745 | relax: 5.0 # rate of relaxation towards equilibrium concentration profile (1/d) |
---|
746 | minD: 0.0001 # minimum depth of zero-concentration isocline (m) |
---|
747 | c0: 0.0003 # background concentration (mg C/m^2) |
---|
748 | initialization: |
---|
749 | n: 0.584 # nitrogen (mmol/m^2) |
---|
750 | coupling: |
---|
751 | n_pel: N3/n # pelagic nitrogen (mmol/m^3) |
---|
752 | K4: |
---|
753 | long_name: benthic ammonium |
---|
754 | model: ersem/benthic_column_dissolved_matter |
---|
755 | parameters: |
---|
756 | composition: n # composition (any combination of c,n,p,s,o,a) |
---|
757 | ads1: 3.0 # adsorption in layer 1 (total:dissolved) (-), default = 1.0 |
---|
758 | ads2: 3.0 # adsorption in layer 2 (total:dissolved) (-), default = 1.0 |
---|
759 | ads3: 3.0 # adsorption in layer 3 (total:dissolved) (-), default = 1.0 |
---|
760 | correction: true # move losses in oxygenic layer to deeper layers if pelagic concentration is limiting, default = false |
---|
761 | c0: 0.0003 # background concentration (mg C/m^2) |
---|
762 | initialization: |
---|
763 | n: 25.0 # nitrogen (mmol/m^2) |
---|
764 | coupling: |
---|
765 | n_pel: N4/n # pelagic nitrogen (mmol/m^3) |
---|
766 | K5: |
---|
767 | long_name: benthic silicate |
---|
768 | model: ersem/benthic_column_dissolved_matter |
---|
769 | parameters: |
---|
770 | composition: s # composition (any combination of c,n,p,s,o,a) |
---|
771 | c0: 9.e-05 # background concentration (mg C/m^2) |
---|
772 | initialization: |
---|
773 | s: 20.1 # silicate (mmol/m^2) |
---|
774 | coupling: |
---|
775 | s_pel: N5/s # pelagic silicate (mmol/m^3) |
---|
776 | G2: |
---|
777 | long_name: benthic oxygen |
---|
778 | model: ersem/benthic_column_dissolved_matter |
---|
779 | parameters: |
---|
780 | composition: o # composition (any combination of c,n,p,s,o,a) |
---|
781 | last_layer: 1 # sediment layer where concentration drops to zero, default = 3 |
---|
782 | relax: 5.0 # rate of relaxation towards equilibrium concentration profile (1/d) |
---|
783 | minD: 0.0001 # minimum depth of zero-concentration isocline (m) |
---|
784 | initialization: |
---|
785 | o: 0.0225 # oxygen (mmol/m^2) |
---|
786 | coupling: |
---|
787 | o_pel: O2/o # pelagic oxygen (mmol/m^3) |
---|
788 | G3: |
---|
789 | long_name: benthic dissolved inorganic carbon |
---|
790 | model: ersem/benthic_column_dissolved_matter |
---|
791 | parameters: |
---|
792 | composition: c # composition (any combination of c,n,p,s,o,a) |
---|
793 | initialization: |
---|
794 | c: 375.0 # carbon (mmol/m^2) |
---|
795 | coupling: |
---|
796 | c_pel: O3/c # pelagic carbon (mmol/m^3) |
---|
797 | Q6s_aerobic: |
---|
798 | long_name: aerobic particulate silicate |
---|
799 | model: ersem/benthic_column_particulate_matter_layer |
---|
800 | parameters: |
---|
801 | composition: s # elemental composition |
---|
802 | remin: 0.007 # remineralization rate (1/d), default = 0.0 |
---|
803 | minimum_depth: 0.0 # minimum depth (m), default = 0.0 |
---|
804 | variable_maximum_depth: true # maximum depth is variable, default = false |
---|
805 | coupling: |
---|
806 | Q: Q6 |
---|
807 | maximum_depth: ben_col/D1m # maximum depth (m) |
---|
808 | s_remin_target: K5/per_layer/s1 # sink for remineralized silicate (mmol Si/m^2) |
---|
809 | Q6s_anaerobic: |
---|
810 | long_name: anaerobic particulate silicate |
---|
811 | model: ersem/benthic_column_particulate_matter_layer |
---|
812 | parameters: |
---|
813 | composition: s # elemental composition |
---|
814 | remin: 0.007 # remineralization rate (1/d), default = 0.0 |
---|
815 | variable_minimum_depth: true # minimum depth is variable, default = false |
---|
816 | maximum_depth: 0.3 # maximum depth (m), default = 0.0 |
---|
817 | source_depth_distribution: 2 # vertical distribution of changes (1: constant absolute rate, 2: constant relative rate, 3: constant carbon-based relative rate), default = 1 |
---|
818 | coupling: |
---|
819 | Q: Q6 |
---|
820 | minimum_depth: ben_col/D1m # minimum depth (m) |
---|
821 | s_remin_target: K5/per_layer/s2 # sink for remineralized silicate (mmol Si/m^2) |
---|
822 | ben_nit: |
---|
823 | long_name: benthic nitrogen cycle |
---|
824 | model: ersem/benthic_nitrogen_cycle |
---|
825 | parameters: |
---|
826 | q10nit: 2.0 # Q_10 temperature coefficient (-) |
---|
827 | hM4M3: 10.0 # Michaelis-Menten constant for nitrate limitation (mmol/m^3) |
---|
828 | ISWph: 1 # pH impact on nitrification (0: off, 1: on), default = 0 |
---|
829 | sM4M3: 4.0 # maximum nitrification rate at 10 degrees Celsius (1/d) |
---|
830 | xno3: 2.0 # oxygen consumed per nitrate produced (mol O_2/mol N) |
---|
831 | pammon: 0.5 # fraction of oxygen demand fulfilled by denitrification under anaerobic conditions (-) |
---|
832 | pdenit: 0.05 # fraction of denitrification producing dinitrogen gas (remainder produces ammonium) (-) |
---|
833 | xn2: 1.25 # oxygen produced per N2 produced (-) |
---|
834 | hM3G4: 1.0 # Michaelis-Menten constant for nitrate limitation of denitrification (mmol N/m^3) |
---|
835 | coupling: |
---|
836 | K3n: K3/per_layer/n1 # nitrate (mmol N/m^2) |
---|
837 | K4n: K4/per_layer/n1 # ammonium (mmol N/m^2) |
---|
838 | G2o: G2/per_layer/o1 # oxygen (mmol O_2/m^2) |
---|
839 | N4n: N4/n # pelagic ammonium (mmol N/m^3) |
---|
840 | benTA: zero_hz # benthic alkalinity in aerobic layer (mEq/m^2) |
---|
841 | benTA2: zero_hz # benthic alkalinity in anaerobic layer (mEq/m^2) |
---|
842 | K3n2: K3/per_layer/n2 # benthic nitrate in 2nd layer (mmol N/m^2) |
---|
843 | K4n2: K4/per_layer/n2 # benthic ammonium in 2nd layer (mmol N/m^2) |
---|
844 | G2o2: G2/per_layer/o2 # oxygen in 2nd layer (mmol O_2/m^2) |
---|
845 | layer2_thickness: ben_col/layer2_thickness # thickness of 2nd layer (m) |
---|
846 | H1: |
---|
847 | long_name: benthic aerobic bacteria |
---|
848 | model: ersem/benthic_bacteria |
---|
849 | parameters: |
---|
850 | qnc: 0.0167 # nitrogen to carbon ratio (mmol N/mg C) |
---|
851 | qpc: 0.00125 # phosphorus to carbon ratio (mmol P/mg C) |
---|
852 | c0: 1.e-06 # background carbon concentration (mg C/m^2) |
---|
853 | q10: 2.0 # Q_10 temperature coefficient (-) |
---|
854 | dd: 0.001 # Michaelis-Menten constant for oxygen limitation through layer thickness (m) |
---|
855 | nfood: 3 # number of food sources |
---|
856 | su1: 0.0005 # base affinity for food source 1 (m^2/mg C/d) |
---|
857 | su2: 2.e-05 # base affinity for food source 2 (m^2/mg C/d) |
---|
858 | suf2: 0.0002 # additional affinity for food source 2 subject to nutrient limitation (m^2/mg C/d), default = 0.0 |
---|
859 | puinc2: 2.0 # affinity for nutrients relative to carbon in food source 2 (-), default = 1.0 |
---|
860 | pue2: 0.1 # fraction of consumed food source 2 that is excreted (-), default = 0.0 |
---|
861 | su3: 2.e-06 # base affinity for food source 3 (m^2/mg C/d) |
---|
862 | pue3: 0.1 # fraction of consumed food source 3 that is excreted (-), default = 0.0 |
---|
863 | pur: 0.3 # fraction of consumed carbon that is respired (-) |
---|
864 | sr: 0.02 # specific rest respiration (1/d) |
---|
865 | pdQ1: 0.1 # fraction of dying matter that is dissolved (-) |
---|
866 | sd: 0.05 # specific maximum mortality related to oxygen limitation (1/d) |
---|
867 | initialization: |
---|
868 | c: 25.0 # carbon (mg C/m^2) |
---|
869 | coupling: |
---|
870 | Q1: Q1 |
---|
871 | Q6: H1_Q6 |
---|
872 | food1: Q1 |
---|
873 | food2: H1_Q6 |
---|
874 | food3: H1_Q7 |
---|
875 | Dm: ben_col/D1m # depth interval available to bacteria (m) |
---|
876 | K4n: K4/per_layer/n1_pw # ammonium (mmol N/m^2) |
---|
877 | K1p: K1/per_layer/p1_pw # phosphate (mmol N/m^2) |
---|
878 | G2o: G2/per_layer/o1 # oxygen (mmol O_2/m^2) |
---|
879 | G3c: G3/per_layer/c1 # dissolved inorganic carbon (mmol C/m^2) |
---|
880 | benTA: zero_hz # benthic alkalinity (mEq/m^2) |
---|
881 | H1_Q6: |
---|
882 | long_name: benthic aerobic bacteria POM |
---|
883 | model: ersem/benthic_column_particulate_matter_layer |
---|
884 | parameters: |
---|
885 | composition: cnps # elemental composition |
---|
886 | minimum_depth: 0.0 # minimum depth (m), default = 0.0 |
---|
887 | variable_maximum_depth: true # maximum depth is variable, default = false |
---|
888 | coupling: |
---|
889 | Q: Q6 |
---|
890 | maximum_depth: ben_col/D1m # maximum depth (m) |
---|
891 | H1_Q7: |
---|
892 | long_name: benthic aerobic bacteria refractory POM |
---|
893 | model: ersem/benthic_column_particulate_matter_layer |
---|
894 | parameters: |
---|
895 | composition: cnp # elemental composition |
---|
896 | minimum_depth: 0.0 # minimum depth (m), default = 0.0 |
---|
897 | variable_maximum_depth: true # maximum depth is variable, default = false |
---|
898 | coupling: |
---|
899 | Q: Q7 |
---|
900 | maximum_depth: ben_col/D1m # maximum depth (m) |
---|
901 | H2: |
---|
902 | long_name: benthic anaerobic bacteria |
---|
903 | model: ersem/benthic_bacteria |
---|
904 | parameters: |
---|
905 | qnc: 0.0167 # nitrogen to carbon ratio (mmol N/mg C) |
---|
906 | qpc: 0.00125 # phosphorus to carbon ratio (mmol P/mg C) |
---|
907 | c0: 1.e-06 # background carbon concentration (mg C/m^2) |
---|
908 | q10: 2.0 # Q_10 temperature coefficient (-) |
---|
909 | dd: 0.01 # Michaelis-Menten constant for oxygen limitation through layer thickness (m) |
---|
910 | nfood: 2 # number of food sources |
---|
911 | su1: 2e-05 # base affinity for food source 1 (m^2/mg C/d) |
---|
912 | suf1: 0.0002 # additional affinity for food source 1 subject to nutrient limitation (m^2/mg C/d), default = 0.0 |
---|
913 | puinc1: 2.0 # affinity for nutrients relative to carbon in food source 1 (-), default = 1.0 |
---|
914 | pue1: 0.0 # fraction of consumed food source 1 that is excreted (-), default = 0.0 |
---|
915 | su2: 2e-06 # base affinity for food source 2 (m^2/mg C/d) |
---|
916 | pue2: 0.0 # fraction of consumed food source 2 that is excreted (-), default = 0.0 |
---|
917 | pur: 0.3 # fraction of consumed carbon that is respired (-) |
---|
918 | sr: 0.02 # specific rest respiration (1/d) |
---|
919 | pdQ1: 0.0 # fraction of dying matter that is dissolved (-) |
---|
920 | sd: 0.05 # specific maximum mortality related to oxygen limitation (1/d) |
---|
921 | initialization: |
---|
922 | c: 400.0 # carbon (mg C/m^2) |
---|
923 | coupling: |
---|
924 | Q1: Q1 |
---|
925 | Q6: H2_Q6 |
---|
926 | food1: H2_Q6 |
---|
927 | food2: H2_Q7 |
---|
928 | Dm: ben_col/layer2_thickness # depth interval available to bacteria (m) |
---|
929 | K4n: K4/per_layer/n2_pw # ammonium (mmol N/m^2) |
---|
930 | K1p: K1/per_layer/p2_pw # phosphate (mmol N/m^2) |
---|
931 | G2o: ben_nit/K6_calculator/K6 # oxygen (mmol O_2/m^2) |
---|
932 | G3c: G3/per_layer/c2 # dissolved inorganic carbon (mmol C/m^2) |
---|
933 | benTA: zero_hz # benthic alkalinity (mEq/m^2) |
---|
934 | H2_Q6: |
---|
935 | long_name: benthic anaerobic bacteria POM |
---|
936 | model: ersem/benthic_column_particulate_matter_layer |
---|
937 | parameters: |
---|
938 | composition: cnps # elemental composition |
---|
939 | variable_minimum_depth: true # minimum depth is variable, default = false |
---|
940 | maximum_depth: 0.3 # maximum depth (m), default = 0.0 |
---|
941 | source_depth_distribution: 3 # vertical distribution of changes (1: constant absolute rate, 2: constant relative rate, 3: constant carbon-based relative rate), default = 1 |
---|
942 | coupling: |
---|
943 | Q: Q6 |
---|
944 | minimum_depth: ben_col/D1m # minimum depth (m) |
---|
945 | H2_Q7: |
---|
946 | long_name: benthic anaerobic bacteria refractory POM |
---|
947 | model: ersem/benthic_column_particulate_matter_layer |
---|
948 | parameters: |
---|
949 | composition: cnp # elemental composition |
---|
950 | variable_minimum_depth: true # minimum depth is variable, default = false |
---|
951 | maximum_depth: 0.3 # maximum depth (m), default = 0.0 |
---|
952 | source_depth_distribution: 3 # vertical distribution of changes (1: constant absolute rate, 2: constant relative rate, 3: constant carbon-based relative rate), default = 1 |
---|
953 | coupling: |
---|
954 | Q: Q7 |
---|
955 | minimum_depth: ben_col/D1m # minimum depth (m) |
---|
956 | Y2: |
---|
957 | long_name: benthic deposit feeder |
---|
958 | model: ersem/benthic_fauna |
---|
959 | parameters: |
---|
960 | qnc: 0.0119 # nitrogen to carbon ratio (mmol N/mg C) |
---|
961 | qpc: 0.000792 # phosphorus to carbon ratio (mmol P/mg C) |
---|
962 | c0: 0.001 # background carbon concentration (mg C/m^2) |
---|
963 | q10: 2.0 # Q_10 temperature coefficient (-) |
---|
964 | rlO2: 0.0 # minimum pelagic oxygen concentration (mmol O2/m^3) |
---|
965 | hO2: 0.0 # Michaelis-Menten constant for oxygen limitation (mmol O2/m^3) |
---|
966 | xcl: 2500.0 # abundance above which crowding reduces food uptake (mg C/m^2) |
---|
967 | xcs: 3000.0 # Michaelis-Menten constant for the impact of crowding (mg C/m^2) |
---|
968 | xch: 5000.0 # abundance determining asymptotic threshold of crowding limitation (-> xch/(Yc+xch) for Yc-> inf) (mg C/m^2) |
---|
969 | su: 0.11 # specific maximum uptake at reference temperature (1/d) |
---|
970 | lu: 250.0 # Michaelis-Menten constant for food preference as function of food concentration (mg C/m^2) |
---|
971 | hu: 3000.0 # Michaelis-Menten constant for gross carbon uptake (mg C/m^2) |
---|
972 | pue: 0.35 # fraction of carbon in consumed live food that goes to faeces (-) |
---|
973 | pueQ: 0.8 # fraction of carbon in consumed detritus that goes to faeces (-) |
---|
974 | pudil: 0.8 # relative nutrient content of faeces (-) |
---|
975 | sd: 0.001 # specific mortality at reference temperature (1/d) |
---|
976 | sdmO2: 1.0 # specific maximum additional mortality due to oxygen stress (1/d) |
---|
977 | sdc: 0.022 # specific maximum additional mortality induced by cold temperature (1/d) |
---|
978 | xdc: -0.7 # e-folding temperature factor of cold mortality response (1/degree_C) |
---|
979 | sr: 0.0027 # specific rest respiration at reference temperature (1/d) |
---|
980 | pur: 0.35 # fraction of assimilated food that is respired (-) |
---|
981 | nfood: 4 # number of food sources, default = 0 |
---|
982 | pufood1: 1.0 # preference for food source 1 (-) |
---|
983 | pufood2: 1.0 # preference for food source 2 (-) |
---|
984 | pufood3: 0.1 # preference for food source 3 (-) |
---|
985 | pufood4: 1.0 # preference for food source 4 (-) |
---|
986 | food3ispom: true # food source 3 is detritus, default = false |
---|
987 | ptur: 1.0 # relative contribution to bioturbation (-), default = 0.0 |
---|
988 | pirr: 1.0 # relative contribution to bioirrigation (-), default = 0.0 |
---|
989 | initialization: |
---|
990 | c: 3000.0 # carbon (mg C/m^2) |
---|
991 | coupling: |
---|
992 | food1: H1 |
---|
993 | food2: H2 |
---|
994 | food3: Y2_Q6_source |
---|
995 | food4: Y4 |
---|
996 | Q: Y2_Q6_sink |
---|
997 | Dm: ben_col/D1m # depth of limiting layer for uptake (m) |
---|
998 | O2o: O2/o # pelagic oxygen (mmol O_2/m^3) |
---|
999 | G3c: G3/per_layer/c1 # carbon dioxide (mmol C/m^2) |
---|
1000 | G2o: G2/per_layer/o1 # oxygen (mmol O_2/m^2) |
---|
1001 | K1p: K1/per_layer/p1 # benthic phosphate in aerobic layer (mmol P/m^2) |
---|
1002 | K4n: K4/per_layer/n1 # benthic ammonium in aerobic layer (mmol N/m^2) |
---|
1003 | K1p2: K1/per_layer/p2 # benthic phosphate in anaerobic layer (mmol P/m^2) |
---|
1004 | K4n2: K4/per_layer/n2 # benthic ammonium in anaerobic layer (mmol N/m^2) |
---|
1005 | benTA: zero_hz # benthic alkalinity in aerobic layer (mEq/m^2) |
---|
1006 | benTA2: zero_hz # benthic alkalinity in anaerobic layer (mEq/m^2) |
---|
1007 | food2c_an: H2/c # food source 2 carbon in anaerobic layer (mg C/m^2) |
---|
1008 | food3c_an: Y2_Q6_source_anaerobic/c # food source 3 carbon in anaerobic layer (mg C/m^2) |
---|
1009 | Y2_Q6_source: |
---|
1010 | long_name: benthic deposit feeder total POM |
---|
1011 | model: ersem/benthic_column_particulate_matter_layer |
---|
1012 | parameters: |
---|
1013 | composition: cnps # elemental composition |
---|
1014 | minimum_depth: 0.0025 # minimum depth (m), default = 0.0 |
---|
1015 | maximum_depth: 0.3 # maximum depth (m), default = 0.0 |
---|
1016 | coupling: |
---|
1017 | Q: Q6 |
---|
1018 | Y2_Q6_source_anaerobic: |
---|
1019 | long_name: benthic deposit feeder anaerobic POM |
---|
1020 | model: ersem/benthic_column_particulate_matter_layer |
---|
1021 | parameters: |
---|
1022 | composition: cnps # elemental composition |
---|
1023 | variable_minimum_depth: true # minimum depth is variable, default = false |
---|
1024 | maximum_depth: 0.3 # maximum depth (m), default = 0.0 |
---|
1025 | coupling: |
---|
1026 | Q: Q6 |
---|
1027 | minimum_depth: ben_col/D1m # minimum depth (m) |
---|
1028 | Y2_Q6_sink: |
---|
1029 | long_name: benthic deposit feeder POM sink |
---|
1030 | model: ersem/benthic_column_particulate_matter_layer |
---|
1031 | parameters: |
---|
1032 | composition: cnps # elemental composition |
---|
1033 | minimum_depth: 0.0 # minimum depth (m), default = 0.0 |
---|
1034 | variable_maximum_depth: true # maximum depth is variable, default = false |
---|
1035 | coupling: |
---|
1036 | Q: Q6 |
---|
1037 | maximum_depth: Q6/pen_depth_c # maximum depth (m) |
---|
1038 | Y3: |
---|
1039 | long_name: benthic suspension feeder |
---|
1040 | model: ersem/benthic_fauna |
---|
1041 | parameters: |
---|
1042 | qnc: 0.0119 # nitrogen to carbon ratio (mmol N/mg C) |
---|
1043 | qpc: 0.000792 # phosphorus to carbon ratio (mmol P/mg C) |
---|
1044 | c0: 0.001 # background carbon concentration (mg C/m^2) |
---|
1045 | q10: 2.0 # Q_10 temperature coefficient (-) |
---|
1046 | rlO2: 0.0 # minimum pelagic oxygen concentration (mmol O2/m^3) |
---|
1047 | hO2: 0.0 # Michaelis-Menten constant for oxygen limitation (mmol O2/m^3) |
---|
1048 | xcl: 2500.0 # abundance above which crowding reduces food uptake (mg C/m^2) |
---|
1049 | xcs: 3000.0 # Michaelis-Menten constant for the impact of crowding (mg C/m^2) |
---|
1050 | xch: 5000.0 # abundance determining asymptotic threshold of crowding limitation (-> xch/(Yc+xch) for Yc-> inf) (mg C/m^2) |
---|
1051 | su: 0.09 # specific maximum uptake at reference temperature (1/d) |
---|
1052 | lu: 10.0 # Michaelis-Menten constant for food preference as function of food concentration (mg C/m^2) |
---|
1053 | hu: 300.0 # Michaelis-Menten constant for gross carbon uptake (mg C/m^2) |
---|
1054 | pue: 0.35 # fraction of carbon in consumed live food that goes to faeces (-) |
---|
1055 | pueQ: 0.85 # fraction of carbon in consumed detritus that goes to faeces (-) |
---|
1056 | pudil: 0.8 # relative nutrient content of faeces (-) |
---|
1057 | sd: 0.001 # specific mortality at reference temperature (1/d) |
---|
1058 | sdmO2: 1.0 # specific maximum additional mortality due to oxygen stress (1/d) |
---|
1059 | sdc: 0.022 # specific maximum additional mortality induced by cold temperature (1/d) |
---|
1060 | xdc: -0.7 # e-folding temperature factor of cold mortality response (1/degree_C) |
---|
1061 | sr: 0.0027 # specific rest respiration at reference temperature (1/d) |
---|
1062 | pur: 0.4 # fraction of assimilated food that is respired (-) |
---|
1063 | nfood: 6 # number of food sources, default = 0 |
---|
1064 | food1ispel: true # food source 1 is pelagic, default = false |
---|
1065 | food2ispel: true # food source 2 is pelagic, default = false |
---|
1066 | food3ispel: true # food source 3 is pelagic, default = false |
---|
1067 | food4ispel: true # food source 4 is pelagic, default = false |
---|
1068 | food5_ll: true # availability of food source 5 is limited by aerobic layer height, default = false |
---|
1069 | pufood1: 1.0 # preference for food source 1 (-) |
---|
1070 | pufood2: 1.0 # preference for food source 2 (-) |
---|
1071 | pufood3: 1.0 # preference for food source 3 (-) |
---|
1072 | pufood4: 1.0 # preference for food source 4 (-) |
---|
1073 | pufood5: 1.0 # preference for food source 5 (-) |
---|
1074 | pufood6: 0.1 # preference for food source 6 (-) |
---|
1075 | food4ispom: true # food source 4 is detritus, default = false |
---|
1076 | food6ispom: true # food source 6 is detritus, default = false |
---|
1077 | dwat: 1.0 # water layer accessible for pelagic food uptake (m), default = 1.0 |
---|
1078 | dQ6: 0.0025 # depth of available sediment layer (m), default = 0.0 |
---|
1079 | initialization: |
---|
1080 | c: 2000.0 # carbon (mg C/m^2) |
---|
1081 | coupling: |
---|
1082 | food1: P1 |
---|
1083 | food2: P2 |
---|
1084 | food3: P3 |
---|
1085 | food4: R6 |
---|
1086 | food5: H1 |
---|
1087 | food6: Y3_Q6 |
---|
1088 | Q: Y3_Q6 |
---|
1089 | Dm: ben_col/D1m # depth of limiting layer for uptake (m) |
---|
1090 | O2o: O2/o # pelagic oxygen (mmol O_2/m^3) |
---|
1091 | G3c: G3/per_layer/c1 # carbon dioxide (mmol C/m^2) |
---|
1092 | G2o: G2/per_layer/o1 # oxygen (mmol O_2/m^2) |
---|
1093 | K1p: K1/per_layer/p1 # benthic phosphate in aerobic layer (mmol P/m^2) |
---|
1094 | K4n: K4/per_layer/n1 # benthic ammonium in aerobic layer (mmol N/m^2) |
---|
1095 | K1p2: K1/per_layer/p2 # benthic phosphate in anaerobic layer (mmol P/m^2) |
---|
1096 | K4n2: K4/per_layer/n2 # benthic ammonium in anaerobic layer (mmol N/m^2) |
---|
1097 | benTA: zero_hz # benthic alkalinity in aerobic layer (mEq/m^2) |
---|
1098 | benTA2: zero_hz # benthic alkalinity in anaerobic layer (mEq/m^2) |
---|
1099 | Y3_Q6: |
---|
1100 | long_name: benthic suspension feeder POM |
---|
1101 | model: ersem/benthic_column_particulate_matter_layer |
---|
1102 | parameters: |
---|
1103 | composition: cnps # elemental composition |
---|
1104 | minimum_depth: 0.0 # minimum depth (m), default = 0.0 |
---|
1105 | maximum_depth: 0.0025 # maximum depth (m), default = 0.0 |
---|
1106 | coupling: |
---|
1107 | Q: Q6 |
---|
1108 | Y4: |
---|
1109 | long_name: benthic meiofauna |
---|
1110 | model: ersem/benthic_fauna |
---|
1111 | parameters: |
---|
1112 | qnc: 0.0119 # nitrogen to carbon ratio (mmol N/mg C) |
---|
1113 | qpc: 0.000792 # phosphorus to carbon ratio (mmol P/mg C) |
---|
1114 | c0: 0.001 # background carbon concentration (mg C/m^2) |
---|
1115 | q10: 2.0 # Q_10 temperature coefficient (-) |
---|
1116 | rlO2: 0.0 # minimum pelagic oxygen concentration (mmol O2/m^3) |
---|
1117 | hO2: 0.0 # Michaelis-Menten constant for oxygen limitation (mmol O2/m^3) |
---|
1118 | xcl: 25000.0 # abundance above which crowding reduces food uptake (mg C/m^2) |
---|
1119 | xcs: 3000.0 # Michaelis-Menten constant for the impact of crowding (mg C/m^2) |
---|
1120 | xch: 5000.0 # abundance determining asymptotic threshold of crowding limitation (-> xch/(Yc+xch) for Yc-> inf) (mg C/m^2) |
---|
1121 | su: 0.4 # specific maximum uptake at reference temperature (1/d) |
---|
1122 | lu: 50.0 # Michaelis-Menten constant for food preference as function of food concentration (mg C/m^2) |
---|
1123 | hu: 1000.0 # Michaelis-Menten constant for gross carbon uptake (mg C/m^2) |
---|
1124 | pue: 0.25 # fraction of carbon in consumed live food that goes to faeces (-) |
---|
1125 | pueQ: 0.4 # fraction of carbon in consumed detritus that goes to faeces (-) |
---|
1126 | pudil: 0.8 # relative nutrient content of faeces (-) |
---|
1127 | sd: 0.01 # specific mortality at reference temperature (1/d) |
---|
1128 | sdmO2: 1.0 # specific maximum additional mortality due to oxygen stress (1/d) |
---|
1129 | sdc: 0.02 # specific maximum additional mortality induced by cold temperature (1/d) |
---|
1130 | xdc: -0.7 # e-folding temperature factor of cold mortality response (1/degree_C) |
---|
1131 | sr: 0.01 # specific rest respiration at reference temperature (1/d) |
---|
1132 | pur: 0.45 # fraction of assimilated food that is respired (-) |
---|
1133 | nfood: 4 # number of food sources, default = 0 |
---|
1134 | pufood1: 1.0 # preference for food source 1 (-) |
---|
1135 | pufood2: 1.0 # preference for food source 2 (-) |
---|
1136 | pufood3: 1.0 # preference for food source 3 (-) |
---|
1137 | pufood4: 0.3 # preference for food source 4 (-) |
---|
1138 | food4ispom: true # food source 4 is detritus, default = false |
---|
1139 | pirr: 0.2 # relative contribution to bioirrigation (-), default = 0.0 |
---|
1140 | initialization: |
---|
1141 | c: 200.0 # carbon (mg C/m^2) |
---|
1142 | coupling: |
---|
1143 | food1: H1 |
---|
1144 | food2: H2 |
---|
1145 | food3: Y4 |
---|
1146 | food4: Y4_Q6 |
---|
1147 | Q: Y4_Q6 |
---|
1148 | Dm: ben_col/D1m # depth of limiting layer for uptake (m) |
---|
1149 | O2o: O2/o # pelagic oxygen (mmol O_2/m^3) |
---|
1150 | G3c: G3/per_layer/c1 # carbon dioxide (mmol C/m^2) |
---|
1151 | G2o: G2/per_layer/o1 # oxygen (mmol O_2/m^2) |
---|
1152 | K1p: K1/per_layer/p1 # benthic phosphate in aerobic layer (mmol P/m^2) |
---|
1153 | K4n: K4/per_layer/n1 # benthic ammonium in aerobic layer (mmol N/m^2) |
---|
1154 | K1p2: K1/per_layer/p2 # benthic phosphate in anaerobic layer (mmol P/m^2) |
---|
1155 | K4n2: K4/per_layer/n2 # benthic ammonium in anaerobic layer (mmol N/m^2) |
---|
1156 | benTA: zero_hz # benthic alkalinity in aerobic layer (mEq/m^2) |
---|
1157 | benTA2: zero_hz # benthic alkalinity in anaerobic layer (mEq/m^2) |
---|
1158 | Y4_Q6: |
---|
1159 | long_name: benthic meiofauna POM |
---|
1160 | model: ersem/benthic_column_particulate_matter_layer |
---|
1161 | parameters: |
---|
1162 | composition: cnps # elemental composition |
---|
1163 | minimum_depth: 0.0 # minimum depth (m), default = 0.0 |
---|
1164 | maximum_depth: 0.03 # maximum depth (m), default = 0.0 |
---|
1165 | coupling: |
---|
1166 | Q: Q6 |
---|
1167 | N3_flux: |
---|
1168 | model: external_surface_flux |
---|
1169 | coupling: |
---|
1170 | target: N3/n |
---|
1171 | N4_flux: |
---|
1172 | model: external_surface_flux |
---|
1173 | coupling: |
---|
1174 | target: N4/n |
---|
1175 | erosion: |
---|
1176 | model: ersem/benthic_erosion |
---|
1177 | #Diagnostics: |
---|
1178 | PON: |
---|
1179 | long_name: particulate organic nitrogen |
---|
1180 | model: weighted_sum |
---|
1181 | parameters: |
---|
1182 | n: 11 |
---|
1183 | weight5: 0.0126 |
---|
1184 | coupling: |
---|
1185 | term1: P1/n |
---|
1186 | term2: P2/n |
---|
1187 | term3: P3/n |
---|
1188 | term4: P4/n |
---|
1189 | term5: Z4/c |
---|
1190 | term6: Z5/n |
---|
1191 | term7: Z6/n |
---|
1192 | term8: B1/n |
---|
1193 | term9: R4/n |
---|
1194 | term10: R6/n |
---|
1195 | term11: R8/n |
---|
1196 | POP: |
---|
1197 | long_name: particulate organic phosphorus |
---|
1198 | model: weighted_sum |
---|
1199 | parameters: |
---|
1200 | n: 11 |
---|
1201 | weight5: 0.000786 |
---|
1202 | coupling: |
---|
1203 | term1: P1/p |
---|
1204 | term2: P2/p |
---|
1205 | term3: P3/p |
---|
1206 | term4: P4/p |
---|
1207 | term5: Z4/c |
---|
1208 | term6: Z5/p |
---|
1209 | term7: Z6/p |
---|
1210 | term8: B1/p |
---|
1211 | term9: R4/p |
---|
1212 | term10: R6/p |
---|
1213 | term11: R8/p |
---|
1214 | POSi: |
---|
1215 | model: weighted_sum |
---|
1216 | parameters: |
---|
1217 | n: 3 |
---|
1218 | coupling: |
---|
1219 | term1: P1/s |
---|
1220 | term2: R6/s |
---|
1221 | term3: R8/s |
---|
1222 | P1_fPIRIc: |
---|
1223 | long_name: diatom loss to organic carbon |
---|
1224 | model: weighted_sum |
---|
1225 | parameters: |
---|
1226 | n: 3 |
---|
1227 | coupling: |
---|
1228 | term1: P1/fPIR1c |
---|
1229 | term2: P1/fPIR2c |
---|
1230 | term3: P1/fPIRPc |
---|
1231 | P2_fPIRIc: |
---|
1232 | long_name: nanophytoplankton loss to organic carbon |
---|
1233 | model: weighted_sum |
---|
1234 | parameters: |
---|
1235 | n: 3 |
---|
1236 | coupling: |
---|
1237 | term1: P2/fPIR1c |
---|
1238 | term2: P2/fPIR2c |
---|
1239 | term3: P2/fPIRPc |
---|
1240 | P3_fPIRIc: |
---|
1241 | long_name: picophytoplankton loss to organic carbon |
---|
1242 | model: weighted_sum |
---|
1243 | parameters: |
---|
1244 | n: 3 |
---|
1245 | coupling: |
---|
1246 | term1: P3/fPIR1c |
---|
1247 | term2: P3/fPIR2c |
---|
1248 | term3: P3/fPIRPc |
---|
1249 | P4_fPIRIc: |
---|
1250 | long_name: microphytoplankton loss to organic carbon |
---|
1251 | model: weighted_sum |
---|
1252 | parameters: |
---|
1253 | n: 3 |
---|
1254 | coupling: |
---|
1255 | term1: P4/fPIR1c |
---|
1256 | term2: P4/fPIR2c |
---|
1257 | term3: P4/fPIRPc |
---|
1258 | phytoplankton_loss_to_labile_DOC: |
---|
1259 | long_name: phytoplankton loss to labile dissolved organic carbon |
---|
1260 | model: weighted_sum |
---|
1261 | parameters: |
---|
1262 | n: 4 |
---|
1263 | coupling: |
---|
1264 | term1: P1/fPIR1c |
---|
1265 | term2: P2/fPIR1c |
---|
1266 | term3: P3/fPIR1c |
---|
1267 | term4: P4/fPIR1c |
---|
1268 | phytoplankton_loss_to_labile_DON: |
---|
1269 | long_name: phytoplankton loss to labile dissolved organic nitrogen |
---|
1270 | model: weighted_sum |
---|
1271 | parameters: |
---|
1272 | n: 4 |
---|
1273 | coupling: |
---|
1274 | term1: P1/fPIR1n |
---|
1275 | term2: P2/fPIR1n |
---|
1276 | term3: P3/fPIR1n |
---|
1277 | term4: P4/fPIR1n |
---|
1278 | phytoplankton_loss_to_labile_DOP: |
---|
1279 | long_name: phytoplankton loss to labile dissolved organic phosphorus |
---|
1280 | model: weighted_sum |
---|
1281 | parameters: |
---|
1282 | n: 4 |
---|
1283 | coupling: |
---|
1284 | term1: P1/fPIR1p |
---|
1285 | term2: P2/fPIR1p |
---|
1286 | term3: P3/fPIR1p |
---|
1287 | term4: P4/fPIR1p |
---|
1288 | phytoplankton_loss_to_non_labile_DOC: |
---|
1289 | long_name: phytoplankton loss to non-labile dissolved organic carbon |
---|
1290 | model: weighted_sum |
---|
1291 | parameters: |
---|
1292 | n: 4 |
---|
1293 | coupling: |
---|
1294 | term1: P1/fPIR2c |
---|
1295 | term2: P2/fPIR2c |
---|
1296 | term3: P3/fPIR2c |
---|
1297 | term4: P4/fPIR2c |
---|
1298 | phytoplankton_loss_to_POC: |
---|
1299 | long_name: phytoplankton loss to particulate organic carbon |
---|
1300 | model: weighted_sum |
---|
1301 | parameters: |
---|
1302 | n: 4 |
---|
1303 | coupling: |
---|
1304 | term1: P1/fPIRPc |
---|
1305 | term2: P2/fPIRPc |
---|
1306 | term3: P3/fPIRPc |
---|
1307 | term4: P4/fPIRPc |
---|
1308 | phytoplankton_loss_to_PON: |
---|
1309 | long_name: phytoplankton loss to particulate organic nitrogen |
---|
1310 | model: weighted_sum |
---|
1311 | parameters: |
---|
1312 | n: 4 |
---|
1313 | coupling: |
---|
1314 | term1: P1/fPIRPn |
---|
1315 | term2: P2/fPIRPn |
---|
1316 | term3: P3/fPIRPn |
---|
1317 | term4: P4/fPIRPn |
---|
1318 | phytoplankton_loss_to_POP: |
---|
1319 | long_name: phytoplankton loss to particulate organic phosphorus |
---|
1320 | model: weighted_sum |
---|
1321 | parameters: |
---|
1322 | n: 4 |
---|
1323 | coupling: |
---|
1324 | term1: P1/fPIRPp |
---|
1325 | term2: P2/fPIRPp |
---|
1326 | term3: P3/fPIRPp |
---|
1327 | term4: P4/fPIRPp |
---|
1328 | phytoplankton_uptake_oxN: |
---|
1329 | long_name: phytoplankton uptake of oxidized nitrogen |
---|
1330 | model: weighted_sum |
---|
1331 | parameters: |
---|
1332 | n: 4 |
---|
1333 | coupling: |
---|
1334 | term1: P1/fN3PIn |
---|
1335 | term2: P2/fN3PIn |
---|
1336 | term3: P3/fN3PIn |
---|
1337 | term4: P4/fN3PIn |
---|
1338 | phytoplankton_uptake_redN: |
---|
1339 | long_name: phytoplankton uptake of reduced nitrogen |
---|
1340 | model: weighted_sum |
---|
1341 | parameters: |
---|
1342 | n: 4 |
---|
1343 | coupling: |
---|
1344 | term1: P1/fN4PIn |
---|
1345 | term2: P2/fN4PIn |
---|
1346 | term3: P3/fN4PIn |
---|
1347 | term4: P4/fN4PIn |
---|
1348 | phytoplankton_uptake_DIP: |
---|
1349 | long_name: phytoplankton uptake of dissolved inorganic phosphorus |
---|
1350 | model: weighted_sum |
---|
1351 | parameters: |
---|
1352 | n: 4 |
---|
1353 | coupling: |
---|
1354 | term1: P1/fN1PIp |
---|
1355 | term2: P2/fN1PIp |
---|
1356 | term3: P3/fN1PIp |
---|
1357 | term4: P4/fN1PIp |
---|
1358 | Z4_fphytoc: |
---|
1359 | long_name: mesozooplankton grazing of phytoplankton carbon |
---|
1360 | model: weighted_sum |
---|
1361 | parameters: |
---|
1362 | n: 4 |
---|
1363 | coupling: |
---|
1364 | term1: Z4/fprey1c |
---|
1365 | term2: Z4/fprey2c |
---|
1366 | term3: Z4/fprey3c |
---|
1367 | term4: Z4/fprey4c |
---|
1368 | Z4_fphyton: |
---|
1369 | long_name: mesozooplankton grazing of phytoplankton nitrogen |
---|
1370 | model: weighted_sum |
---|
1371 | parameters: |
---|
1372 | n: 4 |
---|
1373 | coupling: |
---|
1374 | term1: Z4/fprey1n |
---|
1375 | term2: Z4/fprey2n |
---|
1376 | term3: Z4/fprey3n |
---|
1377 | term4: Z4/fprey4n |
---|
1378 | Z4_fphytop: |
---|
1379 | long_name: mesozooplankton grazing of phytoplankton phosphorus |
---|
1380 | model: weighted_sum |
---|
1381 | parameters: |
---|
1382 | n: 4 |
---|
1383 | coupling: |
---|
1384 | term1: Z4/fprey1p |
---|
1385 | term2: Z4/fprey2p |
---|
1386 | term3: Z4/fprey3p |
---|
1387 | term4: Z4/fprey4p |
---|
1388 | Z4_fzooc: |
---|
1389 | long_name: mesozooplankton predation of phytoplankton carbon |
---|
1390 | model: weighted_sum |
---|
1391 | parameters: |
---|
1392 | n: 3 |
---|
1393 | coupling: |
---|
1394 | term1: Z4/fprey5c |
---|
1395 | term2: Z4/fprey6c |
---|
1396 | term3: Z4/fprey7c |
---|
1397 | Z4_fzoon: |
---|
1398 | long_name: mesozooplankton predation of phytoplankton nitrogen |
---|
1399 | model: weighted_sum |
---|
1400 | parameters: |
---|
1401 | n: 3 |
---|
1402 | coupling: |
---|
1403 | term1: Z4/fprey5n |
---|
1404 | term2: Z4/fprey6n |
---|
1405 | term3: Z4/fprey7n |
---|
1406 | Z4_fzoop: |
---|
1407 | long_name: mesozooplankton predation of zooplankton phosphorus |
---|
1408 | model: weighted_sum |
---|
1409 | parameters: |
---|
1410 | n: 3 |
---|
1411 | coupling: |
---|
1412 | term1: Z4/fprey5p |
---|
1413 | term2: Z4/fprey6p |
---|
1414 | term3: Z4/fprey7p |
---|
1415 | Z5_fphytoc: |
---|
1416 | long_name: microzooplankton grazing of phytoplankton carbon |
---|
1417 | model: weighted_sum |
---|
1418 | parameters: |
---|
1419 | n: 4 |
---|
1420 | coupling: |
---|
1421 | term1: Z5/fprey2c |
---|
1422 | term2: Z5/fprey3c |
---|
1423 | term3: Z5/fprey4c |
---|
1424 | term4: Z5/fprey5c |
---|
1425 | Z5_fphyton: |
---|
1426 | long_name: microzooplankton grazing of phytoplankton nitrogen |
---|
1427 | model: weighted_sum |
---|
1428 | parameters: |
---|
1429 | n: 4 |
---|
1430 | coupling: |
---|
1431 | term1: Z5/fprey2n |
---|
1432 | term2: Z5/fprey3n |
---|
1433 | term3: Z5/fprey4n |
---|
1434 | term4: Z5/fprey5n |
---|
1435 | Z5_fphytop: |
---|
1436 | long_name: microzooplankton grazing of phytoplankton phosphorus |
---|
1437 | model: weighted_sum |
---|
1438 | parameters: |
---|
1439 | n: 4 |
---|
1440 | coupling: |
---|
1441 | term1: Z5/fprey2p |
---|
1442 | term2: Z5/fprey3p |
---|
1443 | term3: Z5/fprey4p |
---|
1444 | term4: Z5/fprey5p |
---|
1445 | Z5_fzooc: |
---|
1446 | long_name: microzooplankton predation of zooplankton carbon |
---|
1447 | model: weighted_sum |
---|
1448 | parameters: |
---|
1449 | n: 2 |
---|
1450 | coupling: |
---|
1451 | term1: Z5/fprey6c |
---|
1452 | term2: Z5/fprey7c |
---|
1453 | Z5_fzoon: |
---|
1454 | long_name: microzooplankton predation of zooplankton nitrogen |
---|
1455 | model: weighted_sum |
---|
1456 | parameters: |
---|
1457 | n: 2 |
---|
1458 | coupling: |
---|
1459 | term1: Z5/fprey6n |
---|
1460 | term2: Z5/fprey7n |
---|
1461 | Z5_fzoop: |
---|
1462 | long_name: microzooplankton predation of zooplankton phosphorus |
---|
1463 | model: weighted_sum |
---|
1464 | parameters: |
---|
1465 | n: 2 |
---|
1466 | coupling: |
---|
1467 | term1: Z5/fprey6p |
---|
1468 | term2: Z5/fprey7p |
---|
1469 | Z6_fphytoc: |
---|
1470 | long_name: heterotrophic flagellate grazing of phytoplankton carbon |
---|
1471 | model: weighted_sum |
---|
1472 | parameters: |
---|
1473 | n: 2 |
---|
1474 | coupling: |
---|
1475 | term1: Z6/fprey2c |
---|
1476 | term2: Z6/fprey3c |
---|
1477 | Z6_fphyton: |
---|
1478 | long_name: heterotrophic flagellate grazing of phytoplankton nitrogen |
---|
1479 | model: weighted_sum |
---|
1480 | parameters: |
---|
1481 | n: 2 |
---|
1482 | coupling: |
---|
1483 | term1: Z6/fprey2n |
---|
1484 | term2: Z6/fprey3n |
---|
1485 | Z6_fphytop: |
---|
1486 | long_name: heterotrophic flagellate grazing of phytoplankton phosphorus |
---|
1487 | model: weighted_sum |
---|
1488 | parameters: |
---|
1489 | n: 2 |
---|
1490 | coupling: |
---|
1491 | term1: Z6/fprey2p |
---|
1492 | term2: Z6/fprey3p |
---|
1493 | total_microzooplankton_loss_to_POC: |
---|
1494 | long_name: total microzooplankton loss to particulate organic carbon |
---|
1495 | model: weighted_sum |
---|
1496 | parameters: |
---|
1497 | n: 2 |
---|
1498 | coupling: |
---|
1499 | term1: Z5/fZIRPc |
---|
1500 | term2: Z6/fZIRPc |
---|
1501 | total_microzooplankton_loss_to_PON: |
---|
1502 | long_name: total microzooplankton loss to particulate organic nitrogen |
---|
1503 | model: weighted_sum |
---|
1504 | parameters: |
---|
1505 | n: 2 |
---|
1506 | coupling: |
---|
1507 | term1: Z5/fZIRPn |
---|
1508 | term2: Z6/fZIRPn |
---|
1509 | total_microzooplankton_loss_to_POP: |
---|
1510 | long_name: total microzooplankton loss to particulate organic phosphorus |
---|
1511 | model: weighted_sum |
---|
1512 | parameters: |
---|
1513 | n: 2 |
---|
1514 | coupling: |
---|
1515 | term1: Z5/fZIRPp |
---|
1516 | term2: Z6/fZIRPp |
---|
1517 | total_microzooplankton_loss_to_DOC: |
---|
1518 | long_name: total microzooplankton loss to dissolved organic carbon |
---|
1519 | model: weighted_sum |
---|
1520 | parameters: |
---|
1521 | n: 2 |
---|
1522 | coupling: |
---|
1523 | term1: Z5/fZIRDc |
---|
1524 | term2: Z6/fZIRDc |
---|
1525 | total_microzooplankton_loss_to_DON: |
---|
1526 | long_name: total microzooplankton loss to dissolved organic nitrogen |
---|
1527 | model: weighted_sum |
---|
1528 | parameters: |
---|
1529 | n: 2 |
---|
1530 | coupling: |
---|
1531 | term1: Z5/fZIRDn |
---|
1532 | term2: Z6/fZIRDn |
---|
1533 | total_microzooplankton_loss_to_DOP: |
---|
1534 | long_name: total microzooplankton loss to dissolved organic phosphorus |
---|
1535 | model: weighted_sum |
---|
1536 | parameters: |
---|
1537 | n: 2 |
---|
1538 | coupling: |
---|
1539 | term1: Z5/fZIRDp |
---|
1540 | term2: Z6/fZIRDp |
---|
1541 | total_microzooplankton_respiration: |
---|
1542 | long_name: total microzooplankton respiration |
---|
1543 | model: weighted_sum |
---|
1544 | parameters: |
---|
1545 | n: 2 |
---|
1546 | coupling: |
---|
1547 | term1: Z5/fZIO3c |
---|
1548 | term2: Z6/fZIO3c |
---|
1549 | total_microzooplankton_loss_to_DIN: |
---|
1550 | long_name: total microzooplankton loss to dissolved inorganic nitrogen |
---|
1551 | model: weighted_sum |
---|
1552 | parameters: |
---|
1553 | n: 2 |
---|
1554 | coupling: |
---|
1555 | term1: Z5/fZINIn |
---|
1556 | term2: Z6/fZINIn |
---|
1557 | total_microzooplankton_loss_to_DIP: |
---|
1558 | long_name: total microzooplankton loss to dissolved inorganic phosphorus |
---|
1559 | model: weighted_sum |
---|
1560 | parameters: |
---|
1561 | n: 2 |
---|
1562 | coupling: |
---|
1563 | term1: Z5/fZINIp |
---|
1564 | term2: Z6/fZINIp |
---|
1565 | gross_calcification_rate: |
---|
1566 | long_name: gross calcification rate |
---|
1567 | model: weighted_sum |
---|
1568 | parameters: |
---|
1569 | n: 4 |
---|
1570 | coupling: |
---|
1571 | term1: P2/calcification |
---|
1572 | term2: Z4/calcification |
---|
1573 | term3: Z5/calcification |
---|
1574 | term4: Z6/calcification |
---|
1575 | ben_PON: |
---|
1576 | long_name: benthic particulate organic nitrogen |
---|
1577 | model: horizontal_weighted_sum |
---|
1578 | parameters: |
---|
1579 | n: 2 |
---|
1580 | coupling: |
---|
1581 | term1: Q6/n |
---|
1582 | term2: Q7/n |
---|
1583 | ben_POP: |
---|
1584 | long_name: benthic particulate organic phosphate |
---|
1585 | model: horizontal_weighted_sum |
---|
1586 | parameters: |
---|
1587 | n: 2 |
---|
1588 | coupling: |
---|
1589 | term1: Q6/p |
---|
1590 | term2: Q7/p |
---|
1591 | benthic_denitrification_ammonification: |
---|
1592 | long_name: benthic denitrification and ammonification |
---|
1593 | model: horizontal_weighted_sum |
---|
1594 | parameters: |
---|
1595 | n: 2 |
---|
1596 | coupling: |
---|
1597 | term1: ben_nit/jM3G4n |
---|
1598 | term2: ben_nit/jM3M4n |
---|
1599 | Y3_fphytoc: |
---|
1600 | long_name: benthic suspension feeder grazing of phytoplankton carbon |
---|
1601 | model: horizontal_weighted_sum |
---|
1602 | parameters: |
---|
1603 | n: 3 |
---|
1604 | coupling: |
---|
1605 | term1: Y3/fprey1c |
---|
1606 | term2: Y3/fprey2c |
---|
1607 | term3: Y3/fprey3c |
---|
1608 | Y3_fphyton: |
---|
1609 | long_name: benthic suspension feeder grazing of phytoplankton nitrogen |
---|
1610 | model: horizontal_weighted_sum |
---|
1611 | parameters: |
---|
1612 | n: 3 |
---|
1613 | coupling: |
---|
1614 | term1: Y3/fprey1n |
---|
1615 | term2: Y3/fprey2n |
---|
1616 | term3: Y3/fprey3n |
---|
1617 | Y3_fphytop: |
---|
1618 | long_name: benthic suspension feeder grazing of phytoplankton phosphorus |
---|
1619 | model: horizontal_weighted_sum |
---|
1620 | parameters: |
---|
1621 | n: 3 |
---|
1622 | coupling: |
---|
1623 | term1: Y3/fprey1p |
---|
1624 | term2: Y3/fprey2p |
---|
1625 | term3: Y3/fprey3p |
---|
1626 | Ymacro_fYG3c: |
---|
1627 | long_name: benthic macrofauna respiration |
---|
1628 | model: horizontal_weighted_sum |
---|
1629 | parameters: |
---|
1630 | n: 2 |
---|
1631 | coupling: |
---|
1632 | term1: Y2/fYG3c |
---|
1633 | term2: Y3/fYG3c |
---|
1634 | Ymacro_fYQPc: |
---|
1635 | long_name: benthic macrofauna loass to particulate organic carbon |
---|
1636 | model: horizontal_weighted_sum |
---|
1637 | parameters: |
---|
1638 | n: 2 |
---|
1639 | coupling: |
---|
1640 | term1: Y2/fYQPc |
---|
1641 | term2: Y3/fYQPc |
---|
1642 | Ymacro_fYQPn: |
---|
1643 | long_name: benthic macrofauna loass to particulate organic nitrogen |
---|
1644 | model: horizontal_weighted_sum |
---|
1645 | parameters: |
---|
1646 | n: 2 |
---|
1647 | coupling: |
---|
1648 | term1: Y2/fYQPn |
---|
1649 | term2: Y3/fYQPn |
---|
1650 | Ymacro_fYQPp: |
---|
1651 | long_name: benthic macrofauna loass to particulate organic phosphorus |
---|
1652 | model: horizontal_weighted_sum |
---|
1653 | parameters: |
---|
1654 | n: 2 |
---|
1655 | coupling: |
---|
1656 | term1: Y2/fYQPp |
---|
1657 | term2: Y3/fYQPp |
---|
1658 | Ymacro_fYKIn: |
---|
1659 | long_name: benthic macrofauna loass to dissolved inorganic nitrogen |
---|
1660 | model: horizontal_weighted_sum |
---|
1661 | parameters: |
---|
1662 | n: 2 |
---|
1663 | coupling: |
---|
1664 | term1: Y2/fYKIn |
---|
1665 | term2: Y3/fYKIn |
---|
1666 | Ymacro_fYK1p: |
---|
1667 | long_name: benthic macrofauna loass to dissolved inorganic phosphorus |
---|
1668 | model: horizontal_weighted_sum |
---|
1669 | parameters: |
---|
1670 | n: 2 |
---|
1671 | coupling: |
---|
1672 | term1: Y2/fYK1p |
---|
1673 | term2: Y3/fYK1p |
---|
1674 | Q6_remins: |
---|
1675 | long_name: benthic remineralisation of silicate |
---|
1676 | model: horizontal_weighted_sum |
---|
1677 | parameters: |
---|
1678 | n: 1 |
---|
1679 | weight1: 0.007 |
---|
1680 | coupling: |
---|
1681 | term1: Q6/s |
---|
1682 | net_PelBen_POC: |
---|
1683 | long_name: flux of particulate organic carbon from pelagic to benthos |
---|
1684 | model: horizontal_weighted_sum |
---|
1685 | parameters: |
---|
1686 | n: 17 |
---|
1687 | weight17: -1. |
---|
1688 | coupling: |
---|
1689 | term1: R4/dep1c |
---|
1690 | term2: R4/dep2c |
---|
1691 | term3: R6/dep1c |
---|
1692 | term4: R6/dep2c |
---|
1693 | term5: R8/dep1c |
---|
1694 | term6: R8/dep2c |
---|
1695 | term7: P1/dep1c |
---|
1696 | term8: P1/dep2c |
---|
1697 | term9: P1/dep3c |
---|
1698 | term10: P4/dep1c |
---|
1699 | term11: P4/dep2c |
---|
1700 | term12: P4/dep3c |
---|
1701 | term13: Y3/fprey1c |
---|
1702 | term14: Y3/fprey2c |
---|
1703 | term15: Y3/fprey3c |
---|
1704 | term16: Y3/fprey4c |
---|
1705 | term17: Q6/resuspension_flux_c |
---|
1706 | net_PelBen_PON: |
---|
1707 | long_name: flux of particulate organic nitrogen from pelagic to benthos |
---|
1708 | model: horizontal_weighted_sum |
---|
1709 | parameters: |
---|
1710 | n: 17 |
---|
1711 | weight17: -1. |
---|
1712 | coupling: |
---|
1713 | term1: R4/dep1n |
---|
1714 | term2: R4/dep2n |
---|
1715 | term3: R6/dep1n |
---|
1716 | term4: R6/dep2n |
---|
1717 | term5: R8/dep1n |
---|
1718 | term6: R8/dep2n |
---|
1719 | term7: P1/dep1n |
---|
1720 | term8: P1/dep2n |
---|
1721 | term9: P1/dep3n |
---|
1722 | term10: P4/dep1n |
---|
1723 | term11: P4/dep2n |
---|
1724 | term12: P4/dep3n |
---|
1725 | term13: Y3/fprey1n |
---|
1726 | term14: Y3/fprey2n |
---|
1727 | term15: Y3/fprey3n |
---|
1728 | term16: Y3/fprey4n |
---|
1729 | term17: Q6/resuspension_flux_n |
---|
1730 | net_PelBen_POP: |
---|
1731 | long_name: flux of particulate organic phosphorus from pelagic to benthos |
---|
1732 | model: horizontal_weighted_sum |
---|
1733 | parameters: |
---|
1734 | n: 17 |
---|
1735 | weight17: -1. |
---|
1736 | coupling: |
---|
1737 | term1: R4/dep1p |
---|
1738 | term2: R4/dep2p |
---|
1739 | term3: R6/dep1p |
---|
1740 | term4: R6/dep2p |
---|
1741 | term5: R8/dep1p |
---|
1742 | term6: R8/dep2p |
---|
1743 | term7: P1/dep1p |
---|
1744 | term8: P1/dep2p |
---|
1745 | term9: P1/dep3p |
---|
1746 | term10: P4/dep1p |
---|
1747 | term11: P4/dep2p |
---|
1748 | term12: P4/dep3p |
---|
1749 | term13: Y3/fprey1p |
---|
1750 | term14: Y3/fprey2p |
---|
1751 | term15: Y3/fprey3p |
---|
1752 | term16: Y3/fprey4p |
---|
1753 | term17: Q6/resuspension_flux_p |
---|
1754 | net_PelBen_POSi: |
---|
1755 | long_name: flux of particulate organic silicate from pelagic to benthos |
---|
1756 | model: horizontal_weighted_sum |
---|
1757 | parameters: |
---|
1758 | n: 6 |
---|
1759 | weight6: -1. |
---|
1760 | coupling: |
---|
1761 | term1: R6/dep1s |
---|
1762 | term2: R8/dep1s |
---|
1763 | term3: P1/dep1s |
---|
1764 | term4: Y3/fprey1s |
---|
1765 | term5: Y3/fprey4s |
---|
1766 | term6: Q6/resuspension_flux_s |
---|