MODULE p4zmort !!====================================================================== !! *** MODULE p4zmort *** !! TOP : PISCES Compute the mortality terms for phytoplankton !!====================================================================== !! History : 1.0 ! 2002 (O. Aumont) Original code !! 2.0 ! 2007-12 (C. Ethe, G. Madec) F90 !!---------------------------------------------------------------------- #if defined key_pisces !!---------------------------------------------------------------------- !! 'key_pisces' PISCES bio-model !!---------------------------------------------------------------------- !! p4z_mort : Compute the mortality terms for phytoplankton !! p4z_mort_init : Initialize the mortality params for phytoplankton !!---------------------------------------------------------------------- USE oce_trc ! shared variables between ocean and passive tracers USE trc ! passive tracers common variables USE sms_pisces ! PISCES Source Minus Sink variables USE p4zsink ! vertical flux of particulate matter due to sinking USE p4zprod ! Primary productivity USE prtctl_trc ! print control for debugging IMPLICIT NONE PRIVATE PUBLIC p4z_mort PUBLIC p4z_mort_init !! * Shared module variables REAL(wp), PUBLIC :: wchl !: REAL(wp), PUBLIC :: wchld !: REAL(wp), PUBLIC :: wchldm !: REAL(wp), PUBLIC :: mprat !: REAL(wp), PUBLIC :: mprat2 !: !!* Substitution # include "top_substitute.h90" !!---------------------------------------------------------------------- !! NEMO/TOP 3.3 , NEMO Consortium (2010) !! $Id$ !! Software governed by the CeCILL licence (NEMOGCM/NEMO_CeCILL.txt) !!---------------------------------------------------------------------- CONTAINS SUBROUTINE p4z_mort( kt ) !!--------------------------------------------------------------------- !! *** ROUTINE p4z_mort *** !! !! ** Purpose : Calls the different subroutine to initialize and compute !! the different phytoplankton mortality terms !! !! ** Method : - ??? !!--------------------------------------------------------------------- INTEGER, INTENT(in) :: kt ! ocean time step !!--------------------------------------------------------------------- CALL p4z_nano ! nanophytoplankton CALL p4z_diat ! diatoms END SUBROUTINE p4z_mort SUBROUTINE p4z_nano !!--------------------------------------------------------------------- !! *** ROUTINE p4z_nano *** !! !! ** Purpose : Compute the mortality terms for nanophytoplankton !! !! ** Method : - ??? !!--------------------------------------------------------------------- INTEGER :: ji, jj, jk REAL(wp) :: zsizerat, zcompaph REAL(wp) :: zfactfe, zfactch, zprcaca, zfracal REAL(wp) :: ztortp , zrespp , zmortp , zstep CHARACTER (len=25) :: charout !!--------------------------------------------------------------------- ! IF( nn_timing == 1 ) CALL timing_start('p4z_nano') ! prodcal(:,:,:) = 0. !: calcite production variable set to zero DO jk = 1, jpkm1 DO jj = 1, jpj DO ji = 1, jpi zcompaph = MAX( ( trb(ji,jj,jk,jpphy) - 1e-8 ), 0.e0 ) zstep = xstep # if defined key_degrad zstep = zstep * facvol(ji,jj,jk) # endif ! When highly limited by macronutrients, very small cells ! dominate the community. As a consequence, aggregation ! due to turbulence is negligible. Mortality is also set ! to 0 zsizerat = MIN(1., MAX( 0., (quotan(ji,jj,jk) - 0.2) / 0.3) ) * trb(ji,jj,jk,jpphy) ! Squared mortality of Phyto similar to a sedimentation term during ! blooms (Doney et al. 1996) zrespp = wchl * 1.e6 * zstep * xdiss(ji,jj,jk) * zcompaph * zsizerat ! Phytoplankton mortality. This mortality loss is slightly ! increased when nutrients are limiting phytoplankton growth ! as observed for instance in case of iron limitation. ztortp = mprat * xstep * zcompaph / ( xkmort + trb(ji,jj,jk,jpphy) ) * zsizerat zmortp = zrespp + ztortp ! Update the arrays TRA which contains the biological sources and sinks zfactfe = trb(ji,jj,jk,jpnfe)/(trb(ji,jj,jk,jpphy)+rtrn) zfactch = trb(ji,jj,jk,jpnch)/(trb(ji,jj,jk,jpphy)+rtrn) tra(ji,jj,jk,jpphy) = tra(ji,jj,jk,jpphy) - zmortp tra(ji,jj,jk,jpnch) = tra(ji,jj,jk,jpnch) - zmortp * zfactch tra(ji,jj,jk,jpnfe) = tra(ji,jj,jk,jpnfe) - zmortp * zfactfe zprcaca = xfracal(ji,jj,jk) * zmortp ! prodcal(ji,jj,jk) = prodcal(ji,jj,jk) + zprcaca ! prodcal=prodcal(nanophy)+prodcal(microzoo)+prodcal(mesozoo) ! zfracal = 0.5 * xfracal(ji,jj,jk) tra(ji,jj,jk,jpdic) = tra(ji,jj,jk,jpdic) - zprcaca tra(ji,jj,jk,jptal) = tra(ji,jj,jk,jptal) - 2. * zprcaca tra(ji,jj,jk,jpcal) = tra(ji,jj,jk,jpcal) + zprcaca #if defined key_kriest tra(ji,jj,jk,jppoc) = tra(ji,jj,jk,jppoc) + zmortp tra(ji,jj,jk,jpnum) = tra(ji,jj,jk,jpnum) + ztortp * xkr_dnano + zrespp * xkr_ddiat tra(ji,jj,jk,jpsfe) = tra(ji,jj,jk,jpsfe) + zmortp * zfactfe #else tra(ji,jj,jk,jpgoc) = tra(ji,jj,jk,jpgoc) + zfracal * zmortp tra(ji,jj,jk,jppoc) = tra(ji,jj,jk,jppoc) + ( 1. - zfracal ) * zmortp tra(ji,jj,jk,jpsfe) = tra(ji,jj,jk,jpsfe) + ( 1. - zfracal ) * zmortp * zfactfe tra(ji,jj,jk,jpbfe) = tra(ji,jj,jk,jpbfe) + zfracal * zmortp * zfactfe #endif END DO END DO END DO ! IF(ln_ctl) THEN ! print mean trends (used for debugging) WRITE(charout, FMT="('nano')") CALL prt_ctl_trc_info(charout) CALL prt_ctl_trc(tab4d=tra, mask=tmask, clinfo=ctrcnm) ENDIF ! IF( nn_timing == 1 ) CALL timing_stop('p4z_nano') ! END SUBROUTINE p4z_nano SUBROUTINE p4z_diat !!--------------------------------------------------------------------- !! *** ROUTINE p4z_diat *** !! !! ** Purpose : Compute the mortality terms for diatoms !! !! ** Method : - ??? !!--------------------------------------------------------------------- INTEGER :: ji, jj, jk REAL(wp) :: zfactfe,zfactsi,zfactch, zcompadi REAL(wp) :: zrespp2, ztortp2, zmortp2, zstep REAL(wp) :: zlim2, zlim1 CHARACTER (len=25) :: charout !!--------------------------------------------------------------------- ! IF( nn_timing == 1 ) CALL timing_start('p4z_diat') ! ! Aggregation term for diatoms is increased in case of nutrient ! stress as observed in reality. The stressed cells become more ! sticky and coagulate to sink quickly out of the euphotic zone ! ------------------------------------------------------------ DO jk = 1, jpkm1 DO jj = 1, jpj DO ji = 1, jpi zcompadi = MAX( ( trb(ji,jj,jk,jpdia) - 1e-9), 0. ) ! Aggregation term for diatoms is increased in case of nutrient ! stress as observed in reality. The stressed cells become more ! sticky and coagulate to sink quickly out of the euphotic zone ! ------------------------------------------------------------ zstep = xstep # if defined key_degrad zstep = zstep * facvol(ji,jj,jk) # endif ! Phytoplankton respiration ! ------------------------ zlim2 = xlimdia(ji,jj,jk) * xlimdia(ji,jj,jk) zlim1 = 0.25 * ( 1. - zlim2 ) / ( 0.25 + zlim2 ) zrespp2 = 1.e6 * zstep * ( wchld + wchldm * zlim1 ) * xdiss(ji,jj,jk) * zcompadi * trb(ji,jj,jk,jpdia) ! Phytoplankton mortality. ! ------------------------ ztortp2 = mprat2 * zstep * trb(ji,jj,jk,jpdia) / ( xkmort + trb(ji,jj,jk,jpdia) ) * zcompadi zmortp2 = zrespp2 + ztortp2 ! Update the arrays tra which contains the biological sources and sinks ! --------------------------------------------------------------------- zfactch = trb(ji,jj,jk,jpdch) / ( trb(ji,jj,jk,jpdia) + rtrn ) zfactfe = trb(ji,jj,jk,jpdfe) / ( trb(ji,jj,jk,jpdia) + rtrn ) zfactsi = trb(ji,jj,jk,jpdsi) / ( trb(ji,jj,jk,jpdia) + rtrn ) tra(ji,jj,jk,jpdia) = tra(ji,jj,jk,jpdia) - zmortp2 tra(ji,jj,jk,jpdch) = tra(ji,jj,jk,jpdch) - zmortp2 * zfactch tra(ji,jj,jk,jpdfe) = tra(ji,jj,jk,jpdfe) - zmortp2 * zfactfe tra(ji,jj,jk,jpdsi) = tra(ji,jj,jk,jpdsi) - zmortp2 * zfactsi tra(ji,jj,jk,jpgsi) = tra(ji,jj,jk,jpgsi) + zmortp2 * zfactsi #if defined key_kriest tra(ji,jj,jk,jppoc) = tra(ji,jj,jk,jppoc) + zmortp2 tra(ji,jj,jk,jpnum) = tra(ji,jj,jk,jpnum) + ztortp2 * xkr_ddiat + zrespp2 * xkr_daggr tra(ji,jj,jk,jpsfe) = tra(ji,jj,jk,jpsfe) + zmortp2 * zfactfe #else tra(ji,jj,jk,jpgoc) = tra(ji,jj,jk,jpgoc) + zrespp2 + 0.5 * ztortp2 tra(ji,jj,jk,jppoc) = tra(ji,jj,jk,jppoc) + 0.5 * ztortp2 tra(ji,jj,jk,jpsfe) = tra(ji,jj,jk,jpsfe) + 0.5 * ztortp2 * zfactfe tra(ji,jj,jk,jpbfe) = tra(ji,jj,jk,jpbfe) + ( zrespp2 + 0.5 * ztortp2 ) * zfactfe #endif END DO END DO END DO ! IF(ln_ctl) THEN ! print mean trends (used for debugging) WRITE(charout, FMT="('diat')") CALL prt_ctl_trc_info(charout) CALL prt_ctl_trc(tab4d=tra, mask=tmask, clinfo=ctrcnm) ENDIF ! IF( nn_timing == 1 ) CALL timing_stop('p4z_diat') ! END SUBROUTINE p4z_diat SUBROUTINE p4z_mort_init !!---------------------------------------------------------------------- !! *** ROUTINE p4z_mort_init *** !! !! ** Purpose : Initialization of phytoplankton parameters !! !! ** Method : Read the nampismort namelist and check the parameters !! called at the first timestep !! !! ** input : Namelist nampismort !! !!---------------------------------------------------------------------- NAMELIST/nampismort/ wchl, wchld, wchldm, mprat, mprat2 INTEGER :: ios ! Local integer output status for namelist read REWIND( numnatp_ref ) ! Namelist nampismort in reference namelist : Pisces phytoplankton READ ( numnatp_ref, nampismort, IOSTAT = ios, ERR = 901) 901 IF( ios /= 0 ) CALL ctl_nam ( ios , 'nampismort in reference namelist', lwp ) REWIND( numnatp_cfg ) ! Namelist nampismort in configuration namelist : Pisces phytoplankton READ ( numnatp_cfg, nampismort, IOSTAT = ios, ERR = 902 ) 902 IF( ios /= 0 ) CALL ctl_nam ( ios , 'nampismort in configuration namelist', lwp ) IF(lwm) WRITE ( numonp, nampismort ) IF(lwp) THEN ! control print WRITE(numout,*) ' ' WRITE(numout,*) ' Namelist parameters for phytoplankton mortality, nampismort' WRITE(numout,*) ' ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~' WRITE(numout,*) ' quadratic mortality of phytoplankton wchl =', wchl WRITE(numout,*) ' maximum quadratic mortality of diatoms wchld =', wchld WRITE(numout,*) ' maximum quadratic mortality of diatoms wchldm =', wchldm WRITE(numout,*) ' phytoplankton mortality rate mprat =', mprat WRITE(numout,*) ' Diatoms mortality rate mprat2 =', mprat2 ENDIF END SUBROUTINE p4z_mort_init #else !!====================================================================== !! Dummy module : No PISCES bio-model !!====================================================================== CONTAINS SUBROUTINE p4z_mort ! Empty routine END SUBROUTINE p4z_mort #endif !!====================================================================== END MODULE p4zmort