| 1 | ! |
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| 2 | ! COMMONS FOR SEA ICE BIOGEOCHEMISTRY |
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| 3 | ! =================================== |
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| 4 | ! |
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| 5 | ! |
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| 6 | ! z_i_bio : vertical coordinate of the middle of bio-layers |
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| 7 | ! deltaz_i_bio : thickness of the bio-layers |
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| 8 | ! c_i_bio : concentration of tracers in the brines |
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| 9 | ! cbu_i_bio : bulk concentration of tracers in the ice |
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| 10 | ! cbub_i_bio : concentration of tracers in bubbles for bulk ice |
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| 11 | ! f_bub : Gas flux to the atmosphere due to gas bubbles |
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| 12 | ! t_i_bio : temperature in the ice, interpolated on the bio grid |
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| 13 | ! s_i_bio : salinity in the ice, interpolated on the bio grid |
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| 14 | ! e_i_bio : relative brine volume, interpolated on the bio grid |
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| 15 | ! c_w_bio : concentration of tracer in seawater |
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| 16 | |
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| 17 | REAL(8), DIMENSION(nlay_bio) :: |
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| 18 | & z_i_bio, |
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| 19 | & deltaz_i_bio, |
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| 20 | & t_i_bio, |
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| 21 | & s_i_bio, |
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| 22 | & e_i_bio, |
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| 23 | & diff_br_bio |
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| 24 | |
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| 25 | REAL(8), DIMENSION(0:nlay_bio) :: |
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| 26 | & zb_i_bio |
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| 27 | |
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| 28 | REAL(8), DIMENSION(ntra_bio_max) :: |
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| 29 | & cbu_i_nml, |
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| 30 | & c_w_bio, |
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| 31 | & ct_i_bio, |
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| 32 | & ch_bo_bio, |
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| 33 | & ch_si_bio, |
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| 34 | & c_s_bio, |
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| 35 | & f_su_tra, |
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| 36 | & f_bo_tra, |
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| 37 | & f_bogr, |
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| 38 | & f_sigr, |
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| 39 | & fcb, |
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| 40 | & fcbp, |
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| 41 | & fcsi, |
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| 42 | & fcbm, |
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| 43 | & fcsu, |
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| 44 | & fcb_max, |
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| 45 | & fgas, |
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| 46 | & gas_trvel, |
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| 47 | & f_bub, |
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| 48 | & dmol_gas, |
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| 49 | & mixr_gas |
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| 50 | |
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| 51 | INTEGER, DIMENSION(ntra_bio_max) :: |
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| 52 | & nn_init !: switch for init ( 0=from code, 1=conc. conserved, 2=stock conserved, 3=read profile ) |
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| 53 | |
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| 54 | INTEGER :: |
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| 55 | & jn_dsi, !: tracer number for dsi |
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| 56 | & jn_din, !: ... |
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| 57 | & jn_dip, !: ... |
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| 58 | & jn_aoc, !: ... |
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| 59 | & jn_eoc, !: ... |
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| 60 | & jn_dic, !: ... |
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| 61 | & jn_alk, !: ... |
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| 62 | & jn_ika, !: ... |
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| 63 | & jn_oxy, !: ... |
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| 64 | & jn_arg, !: ... |
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| 65 | & jn_pco, !: ... |
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| 66 | & jn_car, !: ... |
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| 67 | & jn_co2, !: ... |
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| 68 | & jn_cal, !: ... |
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| 69 | & jn_aon, !: ... |
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| 70 | & jn_eon, !: ... |
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| 71 | & jn_aop, !: ... |
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| 72 | & jn_eop |
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| 73 | |
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| 74 | REAL(8), DIMENSION(ntra_bio_max,nlay_bio) :: |
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| 75 | & c_i_bio, |
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| 76 | & cbu_i_bio, |
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| 77 | & cbub_i_bio, |
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| 78 | & c_gtot_i, |
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| 79 | & pc_sat, |
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| 80 | & diag_divf_bio, |
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| 81 | & csat_gas, |
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| 82 | & sol_gas |
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| 83 | |
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| 84 | REAL(8), DIMENSION(ntra_bio_max,0:nlay_bio) :: |
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| 85 | & fdiff |
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| 86 | |
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| 87 | COMMON /bioarrays/ |
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| 88 | & z_i_bio, |
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| 89 | & zb_i_bio, |
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| 90 | & deltaz_i_bio, |
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| 91 | & t_i_bio, |
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| 92 | & s_i_bio, |
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| 93 | & e_i_bio, |
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| 94 | & diff_br_bio, |
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| 95 | & ct_i_bio, |
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| 96 | & cbu_i_nml, |
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| 97 | & c_w_bio, |
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| 98 | & ch_bo_bio, |
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| 99 | & ch_si_bio, |
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| 100 | & c_s_bio, |
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| 101 | & f_su_tra, |
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| 102 | & f_bo_tra, |
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| 103 | & f_bogr, |
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| 104 | & f_sigr, |
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| 105 | & fcb, |
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| 106 | & fcbp, |
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| 107 | & fcsi, |
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| 108 | & fcbm, |
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| 109 | & fcsu, |
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| 110 | & fcb_max, |
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| 111 | & fgas, |
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| 112 | & f_bub, |
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| 113 | & dmol_gas, |
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| 114 | & mixr_gas, |
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| 115 | & gas_trvel, |
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| 116 | & c_i_bio, |
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| 117 | & cbu_i_bio, |
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| 118 | & cbub_i_bio, |
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| 119 | & c_gtot_i, |
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| 120 | & pc_sat, |
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| 121 | & diag_divf_bio, |
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| 122 | & fdiff, |
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| 123 | & csat_gas, |
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| 124 | & sol_gas, |
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| 125 | & FDSI_AD, |
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| 126 | & FDIN_AD, |
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| 127 | & FDIP_AD |
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| 128 | |
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| 129 | |
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| 130 | COMMON /bioini/ |
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| 131 | & nn_init !: type of initialization for bgc tracers |
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| 132 | |
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| 133 | COMMON/biotrindex/ |
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| 134 | & jn_dsi, !: tracer number for dsi |
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| 135 | & jn_din, !: ... |
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| 136 | & jn_dip, !: ... |
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| 137 | & jn_aoc, !: ... |
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| 138 | & jn_eoc, !: ... |
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| 139 | & jn_dic, !: ... |
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| 140 | & jn_alk, !: ... |
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| 141 | & jn_ika, !: ... |
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| 142 | & jn_oxy, !: ... |
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| 143 | & jn_arg, !: ... |
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| 144 | & jn_pco, !: ... |
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| 145 | & jn_car, !: ... |
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| 146 | & jn_co2, !: ... |
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| 147 | & jn_cal, !: ... |
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| 148 | & jn_aon, !: ... |
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| 149 | & jn_eon, !: ... |
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| 150 | & jn_aop, !: |
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| 151 | & jn_eop |
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| 152 | |
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| 153 | COMMON /biophyparams/ |
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| 154 | & nn_bio_opt , !: type of biological formulation |
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| 155 | & astar_alg , !: specific absorption coeff (m-1 / (mg chla m-3)) |
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| 156 | & fdet_alg , !: fraction of detrital absorption compared to algal absorption |
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| 157 | & nn_phs , !: type of photosynthesis |
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| 158 | & nn_lys , !: type of lysis |
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| 159 | & nn_rem , !: type of remineralization |
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| 160 | & pp_presc , !: prescribed primary production |
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| 161 | & h_skel , !: thickness of the biological layer ('SL' & 'BAL' only) |
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| 162 | & e_thr_bal , !: thickness of the biological layer ('SL' & 'BAL' only) |
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| 163 | & h_bio , !: thickness of the biological layer ('SL' & 'BAL' only) |
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| 164 | & brines_ar !: brines aspect ratio (for gas exchange) |
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| 165 | |
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| 166 | REAL(8), DIMENSION(ntra_bio_max) :: |
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| 167 | & mt_i_bio_init, mt_i_bio_final, |
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| 168 | & mt_w_bio_init, mt_w_bio_final, |
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| 169 | & mt_i_bio |
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| 170 | |
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| 171 | REAL(8), DIMENSION(ntra_bio_max) :: |
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| 172 | & mt_i_gas_init, mt_i_gas_final, |
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| 173 | & mt_i_gas |
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| 174 | |
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| 175 | REAL(8), DIMENSION(ntra_bio_max) :: |
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| 176 | & mt_i_carb_init, mt_i_carb_final, |
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| 177 | & mt_i_carb |
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| 178 | |
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| 179 | REAL(8), DIMENSION(ntra_bio_max,nlay_bio) :: |
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| 180 | & m_i_bio_init, m_i_bio_final |
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| 181 | |
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| 182 | |
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| 183 | COMMON/bioconserv/ |
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| 184 | & mt_i_bio_init, mt_i_bio_final, |
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| 185 | & mt_w_bio_init, mt_w_bio_final, |
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| 186 | & mt_i_bio, |
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| 187 | & mt_i_gas_init, mt_i_gas_final, |
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| 188 | & mt_i_gas, |
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| 189 | & mt_i_carb_init, mt_i_carb_final, |
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| 190 | & mt_i_carb, |
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| 191 | & m_i_bio_init, m_i_bio_final |
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| 192 | |
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| 193 | LOGICAL :: |
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| 194 | & flag_diff(ntra_bio_max) , !: flag which describes diffusability of a tracer |
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| 195 | & flag_active(ntra_bio_max) , !: describe whether a tracer is assumed active or not |
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| 196 | & flag_adsorb(ntra_bio_max) , !: adsorbed or not ? |
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| 197 | & ln_trbo , !: activate tracer basal entrapment |
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| 198 | & ln_trsi , !: activate tracer surface entrapment |
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| 199 | & ln_trdiff , !: activate tracer diffusion |
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| 200 | & ln_trremp , !: activate tracer remapping |
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| 201 | & ln_lim_dsi , !: activate DSi limitation |
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| 202 | & ln_lim_no3 , !: activate NO3 limitation |
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| 203 | & ln_lim_po4 , !: activate PO4 limitation |
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| 204 | & ln_lim_lig , !: activate light limitation |
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| 205 | & ln_lim_tem , !: activate temperature inhibition |
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| 206 | & ln_lim_sal , !: activate brine salinity inhibition |
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| 207 | & ln_lys , !: activate lysis |
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| 208 | & ln_rem , !: activate remineralization |
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| 209 | & ln_syn , !: activate diatom synthesis |
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| 210 | & ln_bubform , !: activate gas buble formation |
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| 211 | & ln_bubrise , !: activate gas buble ascent |
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| 212 | & ln_gasflux , !: activate gas flux to atm |
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| 213 | & ln_carbon , !: activate carbon cycle |
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| 214 | & ln_ikaite , !: activate CaCO3 |
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| 215 | & ln_decoupNC , !: activate N cycle disconnected from C cycle |
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| 216 | & ln_decoupPC |
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| 217 | |
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| 218 | INTEGER(4) :: |
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| 219 | & nn_bio_opt , !: type of biological model (0=NP, 1=NPD Redfield) |
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| 220 | & nn_diff(ntra_bio_max) , !: switch for diffusion (0=no diffus, 1=diffus, 2=reset brine cc to zero) |
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| 221 | & nn_remp(ntra_bio_max) , !: switch for remapping (0=no remap , 1=diffus. remap, 2=squeeze remap.) |
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| 222 | & nn_phs , !: switch for photosynthesis (1=Ek, 2=chl-C, 3=chl-C+T/S, 4=variable chl-C) |
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| 223 | & nn_lys , !: type of loss term (1=prescribed, 2=T-dependent) |
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| 224 | & nn_rem , !: type of remineralization (1=prescribed, 2=T-dependent) |
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| 225 | & nn_lim_sal , !: switch for the type of brine salinity inhibition |
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| 226 | & ntra_bio , !: maximum number of tracers |
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| 227 | & layer_00 , !: index of the first layer |
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| 228 | & nn_carbonate !: type of carbonate constants (1=Roy, 2=mehrbach) |
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| 229 | |
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| 230 | REAL(8) :: |
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| 231 | & bub_form_rate , |
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| 232 | & bub_diss_rate , |
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| 233 | & h_bl_gas , |
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| 234 | & e_thr_bubrise , |
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| 235 | & e_thr_gasflux , |
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| 236 | & sursat_gas , |
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| 237 | & caco3_time |
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| 238 | |
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| 239 | COMMON /bioswi/ |
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| 240 | & flag_diff , |
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| 241 | & flag_active , |
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| 242 | & flag_adsorb , |
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| 243 | & ln_trbo , |
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| 244 | & ln_trsi , |
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| 245 | & ln_trdiff , |
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| 246 | & ln_trremp , |
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| 247 | & ln_lim_dsi , |
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| 248 | & ln_lim_no3 , |
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| 249 | & ln_lim_po4 , |
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| 250 | & ln_lim_lig , |
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| 251 | & ln_lim_tem , |
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| 252 | & ln_lim_sal , |
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| 253 | & ln_lys , |
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| 254 | & ln_rem , |
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| 255 | & ln_syn , |
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| 256 | & nn_diff , |
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| 257 | & nn_remp , |
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| 258 | & nn_lim_sal , |
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| 259 | & ntra_bio , |
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| 260 | & layer_00 , |
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| 261 | & nn_carbonate , |
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| 262 | & i_gasflux , |
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| 263 | & ln_bubform , |
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| 264 | & ln_bubrise , |
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| 265 | & ln_gasflux , |
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| 266 | & ln_carbon , |
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| 267 | & ln_ikaite , |
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| 268 | & bub_form_rate , |
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| 269 | & bub_diss_rate , |
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| 270 | & h_bl_gas , |
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| 271 | & e_thr_bubrise , |
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| 272 | & e_thr_gasflux , |
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| 273 | & sursat_gas , |
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| 274 | & caco3_time , |
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| 275 | & ln_decoupNC , |
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| 276 | & ln_decoupPC |
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| 277 | |
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| 278 | !----------------------- |
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| 279 | ! Brine characteristics |
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| 280 | !----------------------- |
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| 281 | REAL(8), DIMENSION(nlay_bio) :: ! Brine characteristics |
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| 282 | & tc_bio , ! Celsius temperature on the bio-grid |
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| 283 | & sbr_bio , ! brine salinity on the bio-grid |
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| 284 | & rhobr_bio ! brine density on the bio-grid |
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| 285 | |
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| 286 | COMMON/biobrine/ |
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| 287 | & tc_bio , |
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| 288 | & sbr_bio , |
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| 289 | & rhobr_bio |
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| 290 | |
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| 291 | !--------------------- |
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| 292 | ! Carbonate chemistry |
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| 293 | !--------------------- |
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| 294 | REAL(8), DIMENSION(nlay_bio) :: ! Carbonate chemistry diagnostics |
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| 295 | & CO2aq , ! aqueous CO2, bulk concentration |
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| 296 | & CO32m , ! carbonate (CO32-), bulk concentration |
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| 297 | & hCO3m , ! bicarbonate (HCO3-), bulk concentration |
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| 298 | & pH , ! pH, brine |
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| 299 | & pCO2 ! pCO2, brine |
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| 300 | |
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| 301 | COMMON/biocarbchem/ |
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| 302 | & CO2aq , ! aqueous CO2, bulk concentration |
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| 303 | & CO32m , ! carbonate (CO32-), bulk concentration |
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| 304 | & hCO3m , ! bicarbonate (HCO3-), bulk concentration |
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| 305 | & pH , ! pH, brine |
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| 306 | & pCO2 ! pCO2, brine |
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| 307 | |
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| 308 | CHARACTER(len=64) :: |
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| 309 | & biotr_i_nam(ntra_bio_max) , !: |
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| 310 | & biotr_i_typ(ntra_bio_max) !: |
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| 311 | |
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| 312 | CHARACTER(len=64) :: |
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| 313 | & biotr_i_uni(ntra_bio_max) |
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| 314 | |
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| 315 | CHARACTER(len=2) :: |
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| 316 | & c_grid |
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| 317 | |
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| 318 | CHARACTER(len=3) :: |
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| 319 | & c_read_name(ntra_bio_max), |
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| 320 | & c_nc_name(ntra_bio_max) |
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| 321 | |
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| 322 | COMMON /biochar/ |
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| 323 | & biotr_i_nam, |
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| 324 | & biotr_i_typ, |
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| 325 | & biotr_i_uni, |
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| 326 | & c_grid, |
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| 327 | & c_read_name, |
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| 328 | & c_nc_name |
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| 329 | |
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| 330 | COMMON /biomass/ |
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| 331 | & chla_i_bio(nlay_bio) !: chlorophyll a concentration |
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| 332 | |
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| 333 | REAL(8) :: |
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| 334 | & ika_rate(nlay_bio) , !: CaCO3 precipitation / dissolution rate (mmol/m3/s) |
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| 335 | & ika_omega(nlay_bio) , !: CACO3 saturation state (-) |
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| 336 | & syn_bio(nlay_bio) , !: synthesis |
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| 337 | & lys_bio(nlay_bio) , !: lysis |
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| 338 | & exu_bio(nlay_bio) , !: exudation |
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| 339 | & rsp_bio(nlay_bio) , !: respiration |
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| 340 | & rem_bio(nlay_bio) , !: remineralization |
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| 341 | & lim_lig(nlay_bio) , !: light limitation |
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| 342 | & lim_dsi(nlay_bio) , !: DSi limitation |
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| 343 | & lim_no3(nlay_bio) , !: NO3 limitation |
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| 344 | & lim_po4(nlay_bio) , !: PO4 limitation |
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| 345 | & lim_tem(nlay_bio) , !: temperature limitation |
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| 346 | & lim_sal(nlay_bio) , !: salt limitation |
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| 347 | & chlC_bio(nlay_bio) , !: interactive chl-a / C ratio |
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| 348 | & syn_N(nlay_bio) , !: |
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| 349 | & lys_N(nlay_bio) , !: |
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| 350 | & rsp_N(nlay_bio) , !: |
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| 351 | & rem_N(nlay_bio) , !: |
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| 352 | & syn_P(nlay_bio) , !: |
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| 353 | & lys_P(nlay_bio) , !: |
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| 354 | & rsp_P(nlay_bio) , !: |
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| 355 | & rem_P(nlay_bio) , !: |
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| 356 | & N_C_alg(nlay_bio) , !: N/C ratio in algae (if ln_decoupNC = TRUE) |
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| 357 | & N_C_det(nlay_bio) , !: N/C ratio in detritic matter (if ln_decoupNC = TRUE) |
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| 358 | & lim_din_stock(nlay_bio) , !: limitation en stock DIN |
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| 359 | & lim_dip_stock(nlay_bio) , !: |
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| 360 | & lim_dsi_stock(nlay_bio) , !: |
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| 361 | & P_C_alg(nlay_bio) , !: P/C ratio in algae (if ln_decoupPC = TRUE) |
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| 362 | & P_C_det(nlay_bio) , !: P/C ratio in algae (if ln_decoupPC = TRUE) |
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| 363 | & N_P_alg(nlay_bio) , !: N/P ratio in algae (if ln_decoupPC = TRUE) |
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| 364 | & N_P_det(nlay_bio) !: N/P ratio in algae (if ln_decoupPC = TRUE) |
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| 365 | |
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| 366 | COMMON /biosources/ |
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| 367 | & ika_rate , !: |
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| 368 | & ika_omega , !: |
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| 369 | & syn_bio , !: |
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| 370 | & lys_bio , !: |
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| 371 | & exu_bio , !: |
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| 372 | & rsp_bio , !: |
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| 373 | & rem_bio , !: |
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| 374 | & lim_lig , !: |
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| 375 | & lim_dsi , !: |
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| 376 | & lim_no3 , !: |
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| 377 | & lim_po4 , !: |
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| 378 | & lim_tem , !: |
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| 379 | & lim_sal , !: |
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| 380 | & chlC_bio , !: |
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| 381 | & syn_N , !: |
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| 382 | & lys_N , !: |
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| 383 | & rsp_N , !: |
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| 384 | & rem_N , !: |
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| 385 | & syn_P , !: |
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| 386 | & lys_P , !: |
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| 387 | & rsp_P , !: |
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| 388 | & rem_P , !: |
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| 389 | & N_C_alg , !: |
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| 390 | & N_C_det , !: |
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| 391 | & lim_din_stock , !: |
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| 392 | & lim_dip_stock , !: |
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| 393 | & lim_dsi_stock , !: |
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| 394 | & P_C_alg , !: |
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| 395 | & P_C_det , !: |
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| 396 | & N_P_alg , !: |
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| 397 | & N_P_det !: |
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| 398 | |
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| 399 | |
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| 400 | COMMON /biorad/ |
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| 401 | & par_bio(nlay_bio) !: Photosynthetically available radiation |
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| 402 | !: (flux micromol quanta m-2 s-1) |
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| 403 | !--------------------------------------- |
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| 404 | ! Constants and parameters of the model |
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| 405 | !--------------------------------------- |
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| 406 | REAL(8) :: |
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| 407 | & mumax_bio , !: maximum specific growth (s-1) |
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| 408 | & klys_bio , !: autolysis rate (s-1) |
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| 409 | & ek_bio , !: light adaptation micrmol quanta m-2 s-1 |
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| 410 | & alpha_bio , !: photosynthetic efficiency (gC/gchla/s-1/(muE/m2/s)) |
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| 411 | & khs_si_bio , !: half sat for Si uptake (mmol m-3) |
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| 412 | & khs_n_bio , !: half sat for N uptake (mmol m-3) |
|---|
| 413 | & khs_p_bio , !: half sat for P uptake (mmol m-3) |
|---|
| 414 | & frem_bio , !: fraction of Si loss that is remineralized (-) |
|---|
| 415 | & krem_bio , !: carbon remineralization time constant (s-1) |
|---|
| 416 | & krsp_bio , !: carbon respiration time constant |
|---|
| 417 | & rg_bio , !: temperature coefficient for diatom synthesis (deg C-1) |
|---|
| 418 | & rg_bac , !: temperature coefficient for bacterial processes (deg C-1) |
|---|
| 419 | & lim_sal_wid , !: width of the limitation function (case 4) |
|---|
| 420 | & lim_sal_smax , !: salinity at which limitation function is 1 (case 4) |
|---|
| 421 | & chla_c , !: Chlorophyll-to-carbon ratio |
|---|
| 422 | & Estar , !: PAR level of minimum Chl/C |
|---|
| 423 | & si_c , !: Si cell quota in diatoms |
|---|
| 424 | & no3_c , !: N cell quota in diatoms |
|---|
| 425 | & po4_c , !: N cell quota in diatoms |
|---|
| 426 | & oxy_c , !: Oxygen cell quota in diatoms |
|---|
| 427 | & c_molar , !: carbon molar mass |
|---|
| 428 | & ksyn_N , !: intensity of N flux compared with C flux |
|---|
| 429 | & klys_N , !: same |
|---|
| 430 | & krsp_N , !: same |
|---|
| 431 | & krem_N , !: same |
|---|
| 432 | & ksyn_P , !: intensity of N flux compared with C flux |
|---|
| 433 | & klys_P , !: same |
|---|
| 434 | & krsp_P , !: same |
|---|
| 435 | & krem_P !: same |
|---|
| 436 | |
|---|
| 437 | COMMON /bioparams/ |
|---|
| 438 | & mumax_bio, klys_bio, ek_bio, alpha_bio, |
|---|
| 439 | & khs_si_bio, khs_n_bio, khs_p_bio, frem_bio, |
|---|
| 440 | & krem_bio, krsp_bio, |
|---|
| 441 | & rg_bio, rg_bac, chla_c, Estar, si_c, no3_c, po4_c, oxy_c, |
|---|
| 442 | & lim_sal_wid, lim_sal_smax, c_molar, ksyn_N, klys_N, |
|---|
| 443 | & krsp_N, krem_N, ksyn_P, klys_P, krsp_P, |
|---|
| 444 | & krem_P |
|---|
| 445 | |
|---|
| 446 | |
|---|
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