| 1 | MODULE sedsol |
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| 2 | !!====================================================================== |
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| 3 | !! *** MODULE sedsol *** |
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| 4 | !! Sediment : dissolution and reaction in pore water related |
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| 5 | !! related to organic matter |
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| 6 | !! Diffusion of solutes in pore water |
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| 7 | !!===================================================================== |
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| 8 | !! * Modules used |
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| 9 | USE sed ! sediment global variable |
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| 10 | USE sedini |
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| 11 | USE sedfunc |
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| 12 | USE seddsr |
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| 13 | USE sedjac |
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| 14 | USE sedbtb |
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| 15 | USE sedco3 |
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| 16 | USE sedmat |
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| 17 | # if ! defined key_agrif |
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| 18 | USE trosk |
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| 19 | #endif |
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| 20 | USE lib_mpp ! distribued memory computing library |
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| 21 | USE lib_fortran |
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| 22 | |
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| 23 | IMPLICIT NONE |
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| 24 | PRIVATE |
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| 25 | |
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| 26 | PUBLIC sed_sol |
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| 27 | |
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| 28 | !! $Id: sedsol.F90 5215 2015-04-15 16:11:56Z nicolasmartin $ |
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| 29 | CONTAINS |
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| 30 | |
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| 31 | SUBROUTINE sed_sol( kt ) |
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| 32 | !!---------------------------------------------------------------------- |
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| 33 | !! *** ROUTINE sed_sol *** |
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| 34 | !! |
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| 35 | !! ** Purpose : computes pore water diffusion and reactions |
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| 36 | !! |
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| 37 | !! ** Methode : Computation of the redox and dissolution reactions |
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| 38 | !! in the sediment. |
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| 39 | !! The main redox reactions are solved in sed_dsr whereas |
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| 40 | !! the secondary reactions are solved in sed_dsr_redoxb. |
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| 41 | !! Inorganic dissolution is solved in sed_inorg |
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| 42 | !! A strand spliting approach is being used here (see |
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| 43 | !! sed_dsr_redoxb for more information). |
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| 44 | !! Diffusive fluxes are computed in sed_diff |
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| 45 | !! |
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| 46 | !! History : |
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| 47 | !! ! 98-08 (E. Maier-Reimer, Christoph Heinze ) Original code |
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| 48 | !! ! 04-10 (N. Emprin, M. Gehlen ) f90 |
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| 49 | !! ! 06-04 (C. Ethe) Re-organization |
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| 50 | !! ! 19-08 (O. Aumont) Debugging and improvement of the model. |
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| 51 | !! The original method is replaced by a |
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| 52 | !! Strand splitting method which deals |
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| 53 | !! well with stiff reactions. |
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| 54 | !!---------------------------------------------------------------------- |
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| 55 | !! Arguments |
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| 56 | INTEGER, INTENT(in) :: kt |
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| 57 | ! --- local variables |
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| 58 | INTEGER :: ji, jk, js, jw, jn, neq ! dummy looop indices |
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| 59 | REAL(wp), DIMENSION(jpoce,jpksed) :: preac |
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| 60 | # if ! defined key_agrif |
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| 61 | REAL(wp), DIMENSION( jpvode * jpksed ) :: zxin |
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| 62 | INTEGER :: JINDEX, ITOL, IJAC, MLJAC, IMAX |
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| 63 | INTEGER :: MUJAC,LE1, LJAC, LIWORK, LWORK |
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| 64 | INTEGER :: IDID, NMAXSTP, ROSM |
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| 65 | REAL(wp) :: X, XEND, H, STEPMIN |
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| 66 | REAL(wp), DIMENSION(1) :: RTOL, ATOL |
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| 67 | REAL(wp), POINTER :: WORK(:) |
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| 68 | INTEGER , POINTER :: IWORK(:) |
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| 69 | INTEGER, DIMENSION(3) :: ISTAT |
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| 70 | REAL(wp), DIMENSION(2) :: RSTAT |
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| 71 | #endif |
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| 72 | !! |
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| 73 | !!---------------------------------------------------------------------- |
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| 74 | |
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| 75 | IF( ln_timing ) CALL timing_start('sed_sol') |
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| 76 | ! |
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| 77 | IF( kt == nitsed000 ) THEN |
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| 78 | IF (lwp) THEN |
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| 79 | WRITE(numsed,*) ' sed_sol : Organic/inorganic degradation related reactions and diffusion' |
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| 80 | WRITE(numsed,*) ' ' |
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| 81 | ENDIF |
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| 82 | ! ! |
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| 83 | dens_mol_wgt(1:jpsol) = denssol / mol_wgt(1:jpsol) |
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| 84 | stepros(:) = dtsed |
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| 85 | ! |
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| 86 | ENDIF |
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| 87 | |
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| 88 | ! 1. Change of geometry |
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| 89 | ! Increase of dz3d(2) thickness : dz3d(2) = dz3d(2)+dzdep |
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| 90 | ! Warning : no change for dz(2) |
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| 91 | !--------------------------------------------------------- |
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| 92 | dz3d(1:jpoce,2) = dz3d(1:jpoce,2) + dzdep(1:jpoce) |
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| 93 | |
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| 94 | ! New values for volw3d(:,2) and vols3d(:,2) |
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| 95 | ! Warning : no change neither for volw(2) nor vols(2) |
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| 96 | !------------------------------------------------------ |
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| 97 | volw3d(1:jpoce,2) = dz3d(1:jpoce,2) * por(2) |
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| 98 | vols3d(1:jpoce,2) = dz3d(1:jpoce,2) * por1(2) |
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| 99 | |
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| 100 | ! 2. Change of previous solid fractions (due to volum changes) for k=2 |
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| 101 | !--------------------------------------------------------------------- |
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| 102 | DO js = 1, jpsol |
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| 103 | solcp(:,2,js) = solcp(:,2,js) * dz(2) / dz3d(:,2) |
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| 104 | END DO |
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| 105 | |
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| 106 | ! 3. New solid fractions (including solid rain fractions) for k=2 |
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| 107 | !------------------------------------------------------------------ |
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| 108 | DO js = 1, jpsol |
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| 109 | DO ji = 1, jpoce |
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| 110 | IF (raintg(ji) .ne. 0) THEN |
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| 111 | solcp(ji,2,js) = solcp(ji,2,js) + & |
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| 112 | & ( rainrg(ji,js) / raintg(ji) ) * ( dzdep(ji) / dz3d(ji,2) ) |
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| 113 | ! rainrm are temporary cancel |
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| 114 | rainrm(ji,js) = 0. |
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| 115 | ENDIF |
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| 116 | END DO |
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| 117 | ENDDO |
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| 118 | |
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| 119 | ! 4. Adjustment of bottom water concen.(pwcp(1)): |
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| 120 | ! We impose that pwcp(2) is constant. Including dzdep in dz3d(:,2) we assume |
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| 121 | ! that dzdep has got a porosity of por(2). So pore water volum of jk=2 increase. |
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| 122 | ! To keep pwcp(2) cste we must compensate this "increase" by a slight adjusment |
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| 123 | ! of bottom water concentration. |
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| 124 | ! This adjustment is compensate at the end of routine |
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| 125 | !------------------------------------------------------------- |
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| 126 | DO jw = 1, jpwat |
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| 127 | pwcp(:,1,jw) = pwcp(:,1,jw) - pwcp(:,2,jw) * dzdep(:) * por(2) / dzkbot(:) |
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| 128 | ENDDO |
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| 129 | |
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| 130 | ! -------------------------------------------------- |
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| 131 | ! Computation of the diffusivities |
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| 132 | ! -------------------------------------------------- |
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| 133 | DO js = 1, jpwat |
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| 134 | DO jk = 1, jpksed |
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| 135 | diff(:,jk,js) = ( diff1(js) + diff2(js) * temp(:) ) / ( 1.0 - 2.0 * log( por(jk) ) ) |
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| 136 | END DO |
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| 137 | END DO |
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| 138 | |
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| 139 | ! Impact of bioirrigation and adsorption on diffusion |
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| 140 | ! --------------------------------------------------- |
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| 141 | diff(:,:,jwsil) = diff(:,:,jwsil) * ( 1.0 + irrig(:,:) ) |
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| 142 | diff(:,:,jwoxy) = diff(:,:,jwoxy) * ( 1.0 + irrig(:,:) ) |
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| 143 | diff(:,:,jwdic) = diff(:,:,jwdic) * ( 1.0 + irrig(:,:) ) |
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| 144 | diff(:,:,jwno3) = diff(:,:,jwno3) * ( 1.0 + irrig(:,:) ) |
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| 145 | diff(:,:,jwpo4) = diff(:,:,jwpo4) * ( 1.0 + irrig(:,:) ) |
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| 146 | diff(:,:,jwalk) = diff(:,:,jwalk) * ( 1.0 + irrig(:,:) ) |
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| 147 | diff(:,:,jwh2s) = diff(:,:,jwh2s) * ( 1.0 + irrig(:,:) ) |
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| 148 | diff(:,:,jwso4) = diff(:,:,jwso4) * ( 1.0 + irrig(:,:) ) |
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| 149 | diff(:,:,jwlgw) = diff(:,:,jwlgw) * ( 1.0 + irrig(:,:) ) |
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| 150 | DO jk = 1, jpksed |
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| 151 | diff(:,jk,jwfe2) = diff(:,jk,jwfe2) * ( 1.0 + 0.1 * irrig(:,jk) ) * radsfe2(jk) |
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| 152 | diff(:,jk,jwnh4) = diff(:,jk,jwnh4) * ( 1.0 + irrig(:,jk) ) * radsnh4(jk) |
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| 153 | END DO |
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| 154 | |
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| 155 | ! Conversion of volume units |
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| 156 | !---------------------------- |
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| 157 | DO js = 1, jpsol |
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| 158 | DO jk = 1, jpksed |
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| 159 | volc(:,jk,js) = ( vols3d(:,jk) * dens_mol_wgt(js) ) / & |
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| 160 | & ( volw3d(:,jk) * 1.e-3 ) |
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| 161 | ENDDO |
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| 162 | ENDDO |
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| 163 | |
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| 164 | ! Apply bioturbation and compute the impact of the slow SMS on species |
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| 165 | CALL sed_btb( kt ) |
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| 166 | ! Recompute pH after bioturbation and slow chemistry |
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| 167 | CALL sed_co3( kt ) |
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| 168 | # if ! defined key_agrif |
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| 169 | ! The following part deals with the stiff ODEs |
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| 170 | ! This is the expensive part of the code and should be carefully |
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| 171 | ! chosen. We use the DVODE solver after many trials to find a cheap |
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| 172 | ! way to solve the ODEs. This is not necessarily the most efficient |
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| 173 | ! but this is the one that was not too much of a pain to code and that |
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| 174 | ! was the most precise and quick. |
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| 175 | ! The ones I tried : operator splitting (Strang), hybrid spectral methods |
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| 176 | ! Brent, Powell's hybrid method, ... |
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| 177 | ! --------------------------------------------------------------------- |
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| 178 | ROSM = 2 |
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| 179 | NEQ = jpvode * jpksed |
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| 180 | XEND = dtsed |
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| 181 | RTOL = 0.005 |
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| 182 | ATOL = 0.005 |
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| 183 | ITOL = 0 |
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| 184 | IJAC = 1 |
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| 185 | MLJAC = jpvode |
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| 186 | MUJAC = jpvode |
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| 187 | LE1 = 2*MLJAC+MUJAC+1 |
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| 188 | LJAC = MLJAC+MUJAC+1 |
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| 189 | LIWORK = NEQ + 2 |
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| 190 | LWORK = NEQ*(LJAC+LE1+8) + 5 |
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| 191 | ALLOCATE(WORK(LWORK), IWORK(LIWORK) ) |
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| 192 | NMAXSTP = 0 |
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| 193 | STEPMIN = dtsed |
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| 194 | |
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| 195 | DO ji = 1, jpoce |
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| 196 | X = 0.0 |
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| 197 | H = stepros(ji) |
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| 198 | WORK = 0. |
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| 199 | IWORK = 0 |
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| 200 | IWORK(2) = 6 |
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| 201 | |
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| 202 | ! Put all the species in one local array (nb of tracers * vertical |
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| 203 | ! dimension |
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| 204 | jindex = ji |
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| 205 | DO jn = 1, NEQ |
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| 206 | jk = jarr(jn,1) |
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| 207 | js = jarr(jn,2) |
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| 208 | IF (js <= jpwat) THEN |
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| 209 | zxin(jn) = pwcp(ji,jk,js) * 1E6 |
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| 210 | ELSE |
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| 211 | zxin(jn) = solcp(ji,jk,js-jpwat) * 1E6 |
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| 212 | ENDIF |
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| 213 | END DO |
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| 214 | |
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| 215 | ! Set options for VODE : banded matrix. SParse option is much more |
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| 216 | ! expensive except if one computes the sparse Jacobian explicitly |
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| 217 | ! To speed up the computation, one way is to reduce ATOL and RTOL |
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| 218 | ! which may be a good option at the beginning of the simulations |
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| 219 | ! during the spin up |
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| 220 | ! ---------------------------------------------------------------- |
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| 221 | CALL ROSK(ROSM, NEQ,JINDEX,X,zxin,XEND,H, & |
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| 222 | RTOL,ATOL,ITOL, sed_jac,IJAC,MLJAC,MUJAC, & |
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| 223 | WORK,LWORK,IWORK,LIWORK,IDID,ISTAT,RSTAT) |
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| 224 | |
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| 225 | DO jn = 1, NEQ |
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| 226 | jk = jarr(jn,1) |
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| 227 | js = jarr(jn,2) |
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| 228 | IF (js <= jpwat) THEN |
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| 229 | pwcp(ji,jk,js) = zxin(jn) * 1E-6 |
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| 230 | ELSE |
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| 231 | solcp(ji,jk,js-jpwat) = zxin(jn) * 1E-6 |
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| 232 | ENDIF |
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| 233 | END DO |
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| 234 | NMAXSTP = MAX(NMAXSTP,ISTAT(3)) |
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| 235 | STEPMIN = MIN(STEPMIN, RSTAT(1) ) |
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| 236 | stepros(ji) = RSTAT(1) |
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| 237 | END DO |
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| 238 | |
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| 239 | DEALLOCATE(WORK, IWORK) |
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| 240 | #endif |
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| 241 | |
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| 242 | preac(:,:) = 0. |
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| 243 | CALL sed_mat_dsri( jwalk, preac, pwcpa(:,:,jwalk), dtsed ) |
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| 244 | CALL sed_mat_dsri( jwpo4, preac, pwcpa(:,:,jwpo4), dtsed ) |
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| 245 | |
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| 246 | !---------------------------------- |
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| 247 | ! Back to initial geometry |
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| 248 | !----------------------------- |
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| 249 | |
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| 250 | !--------------------------------------------------------------------- |
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| 251 | ! 1/ Compensation for ajustement of the bottom water concentrations |
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| 252 | ! (see note n� 1 about *por(2)) |
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| 253 | !-------------------------------------------------------------------- |
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| 254 | DO jw = 1, jpwat |
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| 255 | pwcp(:,1,jw) = pwcp(:,1,jw) + pwcp(:,2,jw) * dzdep(:) * por(2) / dzkbot(:) |
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| 256 | ENDDO |
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| 257 | |
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| 258 | !----------------------------------------------------------------------- |
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| 259 | ! 2/ Det of new rainrg taking account of the new weight fraction |
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| 260 | ! obtained |
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| 261 | ! in dz3d(2) after diffusion/reaction (react/diffu are also in |
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| 262 | ! dzdep!) |
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| 263 | ! This new rain (rgntg rm) will be used in advection/burial routine |
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| 264 | !------------------------------------------------------------------------ |
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| 265 | DO js = 1, jpsol |
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| 266 | rainrg(:,js) = raintg(:) * solcp(:,2,js) |
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| 267 | rainrm(:,js) = rainrg(:,js) / mol_wgt(js) |
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| 268 | ENDDO |
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| 269 | |
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| 270 | ! New raintg |
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| 271 | raintg(:) = 0. |
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| 272 | DO js = 1, jpsol |
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| 273 | raintg(:) = raintg(:) + rainrg(:,js) |
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| 274 | ENDDO |
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| 275 | |
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| 276 | !-------------------------------- |
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| 277 | ! 3/ back to initial geometry |
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| 278 | !-------------------------------- |
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| 279 | dz3d (:,2) = dz(2) |
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| 280 | volw3d(:,2) = dz3d(:,2) * por(2) |
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| 281 | vols3d(:,2) = dz3d(:,2) * por1(2) |
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| 282 | |
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| 283 | IF( ln_timing ) CALL timing_stop('sed_sol') |
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| 284 | ! |
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| 285 | END SUBROUTINE sed_sol |
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| 286 | |
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| 287 | END MODULE sedsol |
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