[3443] | 1 | MODULE p4zmort |
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| 2 | !!====================================================================== |
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| 3 | !! *** MODULE p4zmort *** |
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| 4 | !! TOP : PISCES Compute the mortality terms for phytoplankton |
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| 5 | !!====================================================================== |
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| 6 | !! History : 1.0 ! 2002 (O. Aumont) Original code |
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| 7 | !! 2.0 ! 2007-12 (C. Ethe, G. Madec) F90 |
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| 8 | !!---------------------------------------------------------------------- |
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[9169] | 9 | !! p4z_mort : Compute the mortality terms for phytoplankton |
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| 10 | !! p4z_mort_init : Initialize the mortality params for phytoplankton |
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[3443] | 11 | !!---------------------------------------------------------------------- |
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[9169] | 12 | USE oce_trc ! shared variables between ocean and passive tracers |
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| 13 | USE trc ! passive tracers common variables |
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| 14 | USE sms_pisces ! PISCES Source Minus Sink variables |
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| 15 | USE p4zprod ! Primary productivity |
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[10227] | 16 | USE p4zlim ! Phytoplankton limitation terms |
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[9169] | 17 | USE prtctl_trc ! print control for debugging |
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[3443] | 18 | |
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| 19 | IMPLICIT NONE |
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| 20 | PRIVATE |
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| 21 | |
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[12537] | 22 | PUBLIC p4z_mort ! Called from p4zbio.F90 |
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| 23 | PUBLIC p4z_mort_init ! Called from trcini_pisces.F90 |
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[3443] | 24 | |
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[12537] | 25 | REAL(wp), PUBLIC :: wchln !: Quadratic mortality rate of nanophytoplankton |
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| 26 | REAL(wp), PUBLIC :: wchld !: Quadratic mortality rate of diatoms |
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| 27 | REAL(wp), PUBLIC :: wchldm !: Maximum quadratic mortality rate of diatoms |
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| 28 | REAL(wp), PUBLIC :: mpratn !: Linear mortality rate of nanophytoplankton |
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| 29 | REAL(wp), PUBLIC :: mpratd !: Linear mortality rate of diatoms |
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[3443] | 30 | |
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| 31 | !!---------------------------------------------------------------------- |
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[10067] | 32 | !! NEMO/TOP 4.0 , NEMO Consortium (2018) |
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[7753] | 33 | !! $Id$ |
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[10068] | 34 | !! Software governed by the CeCILL license (see ./LICENSE) |
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[3443] | 35 | !!---------------------------------------------------------------------- |
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| 36 | CONTAINS |
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| 37 | |
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| 38 | SUBROUTINE p4z_mort( kt ) |
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| 39 | !!--------------------------------------------------------------------- |
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| 40 | !! *** ROUTINE p4z_mort *** |
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| 41 | !! |
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[12537] | 42 | !! ** Purpose : Calls the different subroutine to compute |
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[3443] | 43 | !! the different phytoplankton mortality terms |
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| 44 | !! |
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| 45 | !! ** Method : - ??? |
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| 46 | !!--------------------------------------------------------------------- |
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| 47 | INTEGER, INTENT(in) :: kt ! ocean time step |
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| 48 | !!--------------------------------------------------------------------- |
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[9169] | 49 | ! |
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[13233] | 50 | CALL p4z_mort_nano ! nanophytoplankton |
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| 51 | CALL p4z_mort_diat ! diatoms |
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[9169] | 52 | ! |
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[3443] | 53 | END SUBROUTINE p4z_mort |
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| 54 | |
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| 55 | |
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[13233] | 56 | SUBROUTINE p4z_mort_nano |
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[3443] | 57 | !!--------------------------------------------------------------------- |
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[13233] | 58 | !! *** ROUTINE p4z_mort_nano *** |
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[3443] | 59 | !! |
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| 60 | !! ** Purpose : Compute the mortality terms for nanophytoplankton |
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| 61 | !! |
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[13233] | 62 | !! ** Method : Both quadratic and simili linear mortality terms |
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[3443] | 63 | !!--------------------------------------------------------------------- |
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[9169] | 64 | INTEGER :: ji, jj, jk |
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| 65 | REAL(wp) :: zsizerat, zcompaph |
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| 66 | REAL(wp) :: zfactfe, zfactch, zprcaca, zfracal |
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| 67 | REAL(wp) :: ztortp , zrespp , zmortp |
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| 68 | CHARACTER (len=25) :: charout |
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[3443] | 69 | !!--------------------------------------------------------------------- |
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| 70 | ! |
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[13233] | 71 | IF( ln_timing ) CALL timing_start('p4z_mort_nano') |
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[3443] | 72 | ! |
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[9169] | 73 | prodcal(:,:,:) = 0._wp ! calcite production variable set to zero |
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[3443] | 74 | DO jk = 1, jpkm1 |
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| 75 | DO jj = 1, jpj |
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| 76 | DO ji = 1, jpi |
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[5385] | 77 | zcompaph = MAX( ( trb(ji,jj,jk,jpphy) - 1e-8 ), 0.e0 ) |
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[4529] | 78 | ! When highly limited by macronutrients, very small cells |
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| 79 | ! dominate the community. As a consequence, aggregation |
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| 80 | ! due to turbulence is negligible. Mortality is also set |
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| 81 | ! to 0 |
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[5385] | 82 | zsizerat = MIN(1., MAX( 0., (quotan(ji,jj,jk) - 0.2) / 0.3) ) * trb(ji,jj,jk,jpphy) |
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[12537] | 83 | |
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| 84 | ! Quadratic mortality of nano due to aggregation during |
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| 85 | ! blooms (Doney et al. 1996) |
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| 86 | ! ----------------------------------------------------- |
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[12496] | 87 | zrespp = wchln * 1.e6 * xstep * xdiss(ji,jj,jk) * zcompaph * zsizerat |
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[3443] | 88 | |
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[12537] | 89 | ! Phytoplankton linear mortality |
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| 90 | ! A michaelis-menten like term is introduced to avoid |
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| 91 | ! extinction of nanophyto in highly limited areas |
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| 92 | ! ---------------------------------------------------- |
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[12496] | 93 | ztortp = mpratn * xstep * zcompaph / ( xkmort + trb(ji,jj,jk,jpphy) ) * zsizerat |
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[3443] | 94 | |
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| 95 | zmortp = zrespp + ztortp |
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| 96 | |
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[12537] | 97 | ! Update the arrays TRA which contains the biological sources and sinks |
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[5385] | 98 | zfactfe = trb(ji,jj,jk,jpnfe)/(trb(ji,jj,jk,jpphy)+rtrn) |
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| 99 | zfactch = trb(ji,jj,jk,jpnch)/(trb(ji,jj,jk,jpphy)+rtrn) |
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[3443] | 100 | tra(ji,jj,jk,jpphy) = tra(ji,jj,jk,jpphy) - zmortp |
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| 101 | tra(ji,jj,jk,jpnch) = tra(ji,jj,jk,jpnch) - zmortp * zfactch |
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| 102 | tra(ji,jj,jk,jpnfe) = tra(ji,jj,jk,jpnfe) - zmortp * zfactfe |
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[13233] | 103 | |
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[12537] | 104 | ! Production PIC particles due to mortality |
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[3443] | 105 | zprcaca = xfracal(ji,jj,jk) * zmortp |
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| 106 | prodcal(ji,jj,jk) = prodcal(ji,jj,jk) + zprcaca ! prodcal=prodcal(nanophy)+prodcal(microzoo)+prodcal(mesozoo) |
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[13233] | 107 | |
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| 108 | ! POC associated with the shell is supposed to be routed to |
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| 109 | ! big particles because of the ballasting effect |
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[3443] | 110 | zfracal = 0.5 * xfracal(ji,jj,jk) |
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| 111 | tra(ji,jj,jk,jpdic) = tra(ji,jj,jk,jpdic) - zprcaca |
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| 112 | tra(ji,jj,jk,jptal) = tra(ji,jj,jk,jptal) - 2. * zprcaca |
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| 113 | tra(ji,jj,jk,jpcal) = tra(ji,jj,jk,jpcal) + zprcaca |
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| 114 | tra(ji,jj,jk,jpgoc) = tra(ji,jj,jk,jpgoc) + zfracal * zmortp |
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| 115 | tra(ji,jj,jk,jppoc) = tra(ji,jj,jk,jppoc) + ( 1. - zfracal ) * zmortp |
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[7646] | 116 | prodpoc(ji,jj,jk) = prodpoc(ji,jj,jk) + ( 1. - zfracal ) * zmortp |
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| 117 | prodgoc(ji,jj,jk) = prodgoc(ji,jj,jk) + zfracal * zmortp |
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[13233] | 118 | |
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| 119 | ! Update the arrays TRA which contains the biological sources and sinks |
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[3443] | 120 | tra(ji,jj,jk,jpsfe) = tra(ji,jj,jk,jpsfe) + ( 1. - zfracal ) * zmortp * zfactfe |
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| 121 | tra(ji,jj,jk,jpbfe) = tra(ji,jj,jk,jpbfe) + zfracal * zmortp * zfactfe |
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| 122 | END DO |
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| 123 | END DO |
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| 124 | END DO |
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| 125 | ! |
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| 126 | IF(ln_ctl) THEN ! print mean trends (used for debugging) |
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| 127 | WRITE(charout, FMT="('nano')") |
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| 128 | CALL prt_ctl_trc_info(charout) |
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| 129 | CALL prt_ctl_trc(tab4d=tra, mask=tmask, clinfo=ctrcnm) |
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| 130 | ENDIF |
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| 131 | ! |
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[13233] | 132 | IF( ln_timing ) CALL timing_stop('p4z_mort_nano') |
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[3443] | 133 | ! |
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[13233] | 134 | END SUBROUTINE p4z_mort_nano |
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[3443] | 135 | |
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[9124] | 136 | |
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[13233] | 137 | SUBROUTINE p4z_mort_diat |
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[3443] | 138 | !!--------------------------------------------------------------------- |
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[13233] | 139 | !! *** ROUTINE p4z_mort_diat *** |
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[3443] | 140 | !! |
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| 141 | !! ** Purpose : Compute the mortality terms for diatoms |
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| 142 | !! |
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[13233] | 143 | !! ** Method : - Both quadratic and simili linear mortality terms |
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[3443] | 144 | !!--------------------------------------------------------------------- |
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[9169] | 145 | INTEGER :: ji, jj, jk |
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| 146 | REAL(wp) :: zfactfe,zfactsi,zfactch, zcompadi |
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| 147 | REAL(wp) :: zrespp2, ztortp2, zmortp2 |
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| 148 | REAL(wp) :: zlim2, zlim1 |
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| 149 | CHARACTER (len=25) :: charout |
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[3443] | 150 | !!--------------------------------------------------------------------- |
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| 151 | ! |
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[13233] | 152 | IF( ln_timing ) CALL timing_start('p4z_mort_diat') |
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[3443] | 153 | ! |
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[12537] | 154 | ! Aggregation term for diatoms is increased in case of nutrient |
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| 155 | ! stress as observed in reality. The stressed cells become more |
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| 156 | ! sticky and coagulate to sink quickly out of the euphotic zone |
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[13233] | 157 | ! This is due to the production of EPS by stressed cells |
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[12537] | 158 | ! ------------------------------------------------------------- |
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[3443] | 159 | |
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| 160 | DO jk = 1, jpkm1 |
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| 161 | DO jj = 1, jpj |
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| 162 | DO ji = 1, jpi |
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| 163 | |
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[5385] | 164 | zcompadi = MAX( ( trb(ji,jj,jk,jpdia) - 1e-9), 0. ) |
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[3443] | 165 | |
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[12537] | 166 | ! Aggregation term for diatoms is increased in case of nutrient |
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| 167 | ! stress as observed in reality. The stressed cells become more |
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| 168 | ! sticky and coagulate to sink quickly out of the euphotic zone |
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| 169 | ! ------------------------------------------------------------ |
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[3446] | 170 | zlim2 = xlimdia(ji,jj,jk) * xlimdia(ji,jj,jk) |
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| 171 | zlim1 = 0.25 * ( 1. - zlim2 ) / ( 0.25 + zlim2 ) |
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[7646] | 172 | zrespp2 = 1.e6 * xstep * ( wchld + wchldm * zlim1 ) * xdiss(ji,jj,jk) * zcompadi * trb(ji,jj,jk,jpdia) |
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[3443] | 173 | |
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[12537] | 174 | ! Phytoplankton linear mortality |
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| 175 | ! A michaelis-menten like term is introduced to avoid |
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| 176 | ! extinction of diatoms in highly limited areas |
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| 177 | ! --------------------------------------------------- |
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[12496] | 178 | ztortp2 = mpratd * xstep * trb(ji,jj,jk,jpdia) / ( xkmort + trb(ji,jj,jk,jpdia) ) * zcompadi |
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[3443] | 179 | |
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| 180 | zmortp2 = zrespp2 + ztortp2 |
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| 181 | |
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[12537] | 182 | ! Update the arrays tra which contains the biological sources and sinks |
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[3443] | 183 | ! --------------------------------------------------------------------- |
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[5385] | 184 | zfactch = trb(ji,jj,jk,jpdch) / ( trb(ji,jj,jk,jpdia) + rtrn ) |
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| 185 | zfactfe = trb(ji,jj,jk,jpdfe) / ( trb(ji,jj,jk,jpdia) + rtrn ) |
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| 186 | zfactsi = trb(ji,jj,jk,jpdsi) / ( trb(ji,jj,jk,jpdia) + rtrn ) |
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[3443] | 187 | tra(ji,jj,jk,jpdia) = tra(ji,jj,jk,jpdia) - zmortp2 |
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| 188 | tra(ji,jj,jk,jpdch) = tra(ji,jj,jk,jpdch) - zmortp2 * zfactch |
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| 189 | tra(ji,jj,jk,jpdfe) = tra(ji,jj,jk,jpdfe) - zmortp2 * zfactfe |
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| 190 | tra(ji,jj,jk,jpdsi) = tra(ji,jj,jk,jpdsi) - zmortp2 * zfactsi |
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| 191 | tra(ji,jj,jk,jpgsi) = tra(ji,jj,jk,jpgsi) + zmortp2 * zfactsi |
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[13233] | 192 | |
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| 193 | ! Half of the linear mortality term is routed to big particles |
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| 194 | ! becaue of the ballasting effect |
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[3443] | 195 | tra(ji,jj,jk,jpgoc) = tra(ji,jj,jk,jpgoc) + zrespp2 + 0.5 * ztortp2 |
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| 196 | tra(ji,jj,jk,jppoc) = tra(ji,jj,jk,jppoc) + 0.5 * ztortp2 |
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[7646] | 197 | prodpoc(ji,jj,jk) = prodpoc(ji,jj,jk) + 0.5 * ztortp2 |
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| 198 | prodgoc(ji,jj,jk) = prodgoc(ji,jj,jk) + zrespp2 + 0.5 * ztortp2 |
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[3443] | 199 | tra(ji,jj,jk,jpsfe) = tra(ji,jj,jk,jpsfe) + 0.5 * ztortp2 * zfactfe |
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| 200 | tra(ji,jj,jk,jpbfe) = tra(ji,jj,jk,jpbfe) + ( zrespp2 + 0.5 * ztortp2 ) * zfactfe |
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| 201 | END DO |
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| 202 | END DO |
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| 203 | END DO |
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| 204 | ! |
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[9169] | 205 | IF(ln_ctl) THEN ! print mean trends (used for debugging) |
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[3443] | 206 | WRITE(charout, FMT="('diat')") |
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| 207 | CALL prt_ctl_trc_info(charout) |
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| 208 | CALL prt_ctl_trc(tab4d=tra, mask=tmask, clinfo=ctrcnm) |
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| 209 | ENDIF |
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| 210 | ! |
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[13233] | 211 | IF( ln_timing ) CALL timing_stop('p4z_mort_diat') |
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[3443] | 212 | ! |
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[13233] | 213 | END SUBROUTINE p4z_mort_diat |
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[3443] | 214 | |
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[9124] | 215 | |
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[3443] | 216 | SUBROUTINE p4z_mort_init |
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| 217 | !!---------------------------------------------------------------------- |
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| 218 | !! *** ROUTINE p4z_mort_init *** |
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| 219 | !! |
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| 220 | !! ** Purpose : Initialization of phytoplankton parameters |
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| 221 | !! |
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[12537] | 222 | !! ** Method : Read the namp4zmort namelist and check the parameters |
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[9169] | 223 | !! called at the first timestep |
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[3443] | 224 | !! |
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[12537] | 225 | !! ** input : Namelist namp4zmort |
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[3443] | 226 | !! |
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| 227 | !!---------------------------------------------------------------------- |
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[9124] | 228 | INTEGER :: ios ! Local integer |
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| 229 | ! |
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[12496] | 230 | NAMELIST/namp4zmort/ wchln, wchld, wchldm, mpratn, mpratd |
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[9124] | 231 | !!---------------------------------------------------------------------- |
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| 232 | ! |
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[9169] | 233 | IF(lwp) THEN |
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| 234 | WRITE(numout,*) |
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| 235 | WRITE(numout,*) 'p4z_mort_init : Initialization of phytoplankton mortality parameters' |
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| 236 | WRITE(numout,*) '~~~~~~~~~~~~~' |
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| 237 | ENDIF |
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| 238 | ! |
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[12537] | 239 | REWIND( numnatp_ref ) ! Namelist namp4zmort in reference namelist : Pisces phytoplankton |
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[7646] | 240 | READ ( numnatp_ref, namp4zmort, IOSTAT = ios, ERR = 901) |
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[11536] | 241 | 901 IF( ios /= 0 ) CALL ctl_nam ( ios , 'namp4zmort in reference namelist' ) |
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[12537] | 242 | REWIND( numnatp_cfg ) ! Namelist namp4zmort in configuration namelist : Pisces phytoplankton |
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[7646] | 243 | READ ( numnatp_cfg, namp4zmort, IOSTAT = ios, ERR = 902 ) |
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[11536] | 244 | 902 IF( ios > 0 ) CALL ctl_nam ( ios , 'namp4zmort in configuration namelist' ) |
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[9169] | 245 | IF(lwm) WRITE( numonp, namp4zmort ) |
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[9124] | 246 | ! |
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[3443] | 247 | IF(lwp) THEN ! control print |
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[9169] | 248 | WRITE(numout,*) ' Namelist : namp4zmort' |
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[12496] | 249 | WRITE(numout,*) ' quadratic mortality of phytoplankton wchln =', wchln |
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[9169] | 250 | WRITE(numout,*) ' maximum quadratic mortality of diatoms wchld =', wchld |
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| 251 | WRITE(numout,*) ' maximum quadratic mortality of diatoms wchldm =', wchldm |
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[12496] | 252 | WRITE(numout,*) ' phytoplankton mortality rate mpratn =', mpratn |
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| 253 | WRITE(numout,*) ' Diatoms mortality rate mpratd =', mpratd |
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[3443] | 254 | ENDIF |
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[9124] | 255 | ! |
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[3443] | 256 | END SUBROUTINE p4z_mort_init |
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| 257 | |
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| 258 | !!====================================================================== |
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[5656] | 259 | END MODULE p4zmort |
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