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trcupd.F90
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trcupd.F90
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#if defined(ROW_LAND)
#define SEA_P .true.
#define SEA_U .true.
#define SEA_V .true.
#elif defined(ROW_ALLSEA)
#define SEA_P allip(j).or.ip(i,j).ne.0
#define SEA_U alliu(j).or.iu(i,j).ne.0
#define SEA_V alliv(j).or.iv(i,j).ne.0
#else
#define SEA_P ip(i,j).ne.0
#define SEA_U iu(i,j).ne.0
#define SEA_V iv(i,j).ne.0
#endif
subroutine initrc(mnth)
use mod_xc ! HYCOM communication interface
use mod_cb_arrays ! HYCOM saved arrays
use mod_pipe ! HYCOM debugging interface
implicit none
!
integer mnth
!
! --- --------------------------
! --- initializatize all tracers
! --- --------------------------
!
logical lpipe_initrc
parameter (lpipe_initrc=.false.)
!
character ptxt*12,cformat*99
integer i,ibio,nbio,j,k,ktr
real bio_n,bio_p,zk
real pwij(kk+1),trwij(kk,ntracr), &
prij(kk+1),trcij(kk,ntracr)
real chl,swfrac(kdm+1)
!
if (ntracr.eq.0) then
return ! no tracer
endif
!
! --- expand trcflg to allow for number of biology fields.
!
nbio = 0
ibio = 0
do ktr= 1,ntracr+1
if (ktr.ne.ntracr+1 .and. &
trcflg(min(ktr,ntracr)).eq.9) then
if (ibio.eq.0) then !start biology
ibio = ktr
endif
elseif (ibio.ne.0) then !end biology
nbio = ktr-ibio
if (nbio.eq.3) then
! --- Franks NPZ.
trcflg(ibio) = 903
trcflg(ibio+1) = -903
trcflg(ibio+2) = -903
ibio = 0
elseif (nbio.eq.3) then
! --- Two Franks NPZ.
trcflg(ibio) = 903
trcflg(ibio+1) = -903
trcflg(ibio+2) = -903
trcflg(ibio+3) = 903
trcflg(ibio+4) = -903
trcflg(ibio+5) = -903
ibio = 0
elseif (nbio.eq.4) then
! --- Lima/Idrisi NPZD.
trcflg(ibio) = 904
trcflg(ibio+1) = -904
trcflg(ibio+2) = -904
trcflg(ibio+3) = -904
ibio = 0
elseif (nbio.eq.7) then
! --- Lima/Idrisi NPZD and Franks NPZ.
trcflg(ibio) = 904
trcflg(ibio+1) = -904
trcflg(ibio+2) = -904
trcflg(ibio+3) = -904
trcflg(ibio+4) = 903
trcflg(ibio+5) = -903
trcflg(ibio+6) = -903
ibio = 0
elseif (nbio.eq.8) then
! --- Two Lima/Idrisi NPZD.
trcflg(ibio) = 904
trcflg(ibio+1) = -904
trcflg(ibio+2) = -904
trcflg(ibio+3) = -904
trcflg(ibio+4) = 904
trcflg(ibio+5) = -904
trcflg(ibio+6) = -904
trcflg(ibio+7) = -904
ibio = 0
elseif (nbio.eq.9) then
! --- Chai 9-component.
! trcflg(ibio) = 909
! trcflg(ibio+1) = -909
! trcflg(ibio+2) = -909
! trcflg(ibio+3) = -909
! trcflg(ibio+4) = -909
! trcflg(ibio+5) = -909
! trcflg(ibio+6) = -909
! trcflg(ibio+7) = -909
! trcflg(ibio+8) = -909
! ibio = 0
! --- not yet implemented
if (mnproc.eq.1) then
write(lp,'(/ 3a /)') &
'error - trcflg=9 (standard biology) configured', &
' with 9 consecutive tracers, but Chai scheme is', &
' not yet implemented'
call flush(lp)
endif !1st tile
call xcstop('(trcini)')
stop '(trcini)'
else
! --- unknown standard biology.
if (mnproc.eq.1) then
write(lp,'(/ 2a,i3 /)') &
'error - trcflg=9 (standard biology) expects', &
' 3/4/6/7/8 consecutive tracers but have',nbio
! & ' 3/4/6/7/8/9 consecutive tracers but have',nbio
call flush(lp)
endif !1st tile
call xcstop('(trcini)')
stop '(trcini)'
endif
endif
enddo
!
if (mnproc.eq.1) then
write(lp,*)
do k= 1,ntracr
write(lp,'(a,i3,i6)') 'initrc: k,trcflg =',k,trcflg(k)
enddo
write(lp,*)
endif !1st tile
!
if (nbio.gt.0) then
!
! --- input bio-tracer parameters.
! --- note that multiple sets of bio-tracers are allowed,
! --- each is read from tracer.input in tracer order.
!
open(unit=uoff+99,file=trim(flnminp)//'tracer.input')
do ktr= 1,ntracr
if (trcflg(ktr).eq.903) then
! --- NPZ
call trcupd_903(1,2, -ktr)
elseif (trcflg(ktr).eq.904) then
! --- NPZD
call trcupd_904(1,2, -ktr)
! elseif (trcflg(ktr).eq.909) then
! --- Chai 9-component.
! call trcupd_909(1,2, -ktr)
endif
enddo
close(unit=uoff+99)
endif
!
if (trcrin) then
return ! tracer from restart
endif
!
if (iniflg.eq.2) then ! use climatology
call rdrlax(mnth,1)
!$OMP PARALLEL DO PRIVATE(j,i,k,ktr,pwij,trwij,prij,trcij) &
!$OMP SCHEDULE(STATIC,jblk)
do j=1,jj
do i=1,ii
if (SEA_P) then
prij(1)=0.0
do k=1,kk
prij(k+1)=prij(k)+dp(i,j,k,1)
pwij(k) =pwall(i,j,k,1)
do ktr= 1,ntracr
trwij(k,ktr)=trwall(i,j,k,1,ktr)
enddo !ktr
enddo !k
pwij(kk+1)=prij(kk+1)
! call plctrc(trwij,pwij,kk,ntracr,
! & trcij,prij,kk )
call plmtrc(trwij,pwij,kk,ntracr, &
trcij,prij,kk )
do k=1,kk
do ktr= 1,ntracr
tracer(i,j,k,1,ktr)=trcij(k,ktr)
tracer(i,j,k,2,ktr)=trcij(k,ktr)
enddo !ktr
enddo !k
endif !ip
enddo !i
enddo !j
!$OMP END PARALLEL DO
else ! analytic inititalization
!$OMP PARALLEL DO PRIVATE(j,i,k,ktr,prij,chl,swfrac,zk,bio_n,bio_p) &
!$OMP SCHEDULE(STATIC,jblk)
do j=1,jj
do i=1,ii
if (SEA_P) then
prij(1)=0.0
do k=1,kk
prij(k+1)=prij(k)+dp(i,j,k,1)
enddo !k
do ktr= 1,ntracr
if (trcflg(ktr).eq.1) then !need the euphotic zone
if (jerlv0.le.0) then
chl = akpar(i,j,lk0)*wk0+akpar(i,j,lk1)*wk1 &
+akpar(i,j,lk2)*wk2+akpar(i,j,lk3)*wk3
endif
call swfrac_ij(chl,prij,kk+1,qonem, & !oneta might not be available
jerlov(i,j),swfrac)
exit !only calculate swfrac once
endif !trcflg==1
enddo !ktr
do k=1,kk
do ktr= 1,ntracr
if (trcflg(ktr).eq.0) then !100% in the mixed layer
if (prij(k).le.dpmixl(i,j,1)) then
tracer(i,j,k,1,ktr)=10.0
tracer(i,j,k,2,ktr)=10.0
else
tracer(i,j,k,1,ktr)=0.0
tracer(i,j,k,2,ktr)=0.0
endif
elseif (trcflg(ktr).eq.1) then !20 below euphotic zone
if (swfrac(k).gt.0.01) then
tracer(i,j,k,1,ktr)=0.0
tracer(i,j,k,2,ktr)=0.0
else
tracer(i,j,k,1,ktr)=20.0 ! mg/m^3
tracer(i,j,k,2,ktr)=20.0 ! mg/m^3
endif
elseif (trcflg(ktr).eq.2) then !temperature
tracer(i,j,k,1,ktr)=temp(i,j,k,1)
tracer(i,j,k,2,ktr)=temp(i,j,k,1)
elseif (trcflg(ktr).eq.3) then !fully passive
tracer(i,j,k,1,ktr)=0.0 !should never get here
tracer(i,j,k,2,ktr)=0.0 !should never get here
elseif (trcflg(ktr).eq.904 .or. &
trcflg(ktr).eq.903 ) then !NPZD or NPZ
zk = 0.5*(prij(k+1)+prij(k))*qonem
if (zk.le.300.0) then
! 0.1 at 300m, 1.0 at 100m, 2.025 at 0m
bio_p = 0.1 + (300.0-zk)**2 * (0.9/200.0**2)
elseif (zk.le.900.0) then
! 0.1 at 300m, 0.0 at 900m
bio_p = (900.0-zk) * 0.1/600.0
else
bio_p = 0.0
endif
if (temp(i,j,k,1).lt. 6.0) then
bio_n = 37.0
elseif (temp(i,j,k,1).gt.27.0) then
bio_n = 0.0
else
! bio_n = (27.0-temp(i,j,k,1)) * 37.0/21.0
bio_n = 39.3116-1.335*temp(i,j,k,1)
endif
tracer(i,j,k,1,ktr )=bio_n !N
tracer(i,j,k,2,ktr )=bio_n
tracer(i,j,k,1,ktr+1)=bio_p !P
tracer(i,j,k,2,ktr+1)=bio_p
tracer(i,j,k,1,ktr+2)=bio_p !Z=P
tracer(i,j,k,2,ktr+2)=bio_p
if (trcflg(ktr).eq.904) then
tracer(i,j,k,1,ktr+3)=bio_p + 1.0 !D=P+1
tracer(i,j,k,2,ktr+3)=bio_p + 1.0
endif
endif !trcflg
enddo !ktr
enddo !k
endif !ip
enddo !i
enddo !j
!$OMP END PARALLEL DO
endif !iniflg.eq.2:else
!
if (lpipe .and. lpipe_initrc) then
do ktr= 1,ntracr
do k= 1,kk
write (ptxt,'(a4,i2.2,a3,i3)') 'trc.',ktr,' k=',k
call pipe_compare_sym1(tracer(1-nbdy,1-nbdy,k,1,ktr), &
ip,ptxt)
enddo !k
enddo !ktr
endif !lpipe.and.lpipe_initrc
!
if (itest.gt.0 .and. jtest.gt.0) then
prij(1)=0.0
do k=1,kk
prij(k+1)=prij(k)+dp(itest,jtest,k,1)
enddo !k
write(cformat,'(a,i2,a,i2,a)') &
'(i9,2i5,a,',ntracr, &
'a / (23x,i3,2f8.2,', ntracr,'f8.4))'
write (lp,cformat) &
nstep,i0+itest,j0+jtest, &
' istate: thkns dpth', &
(' tracer',ktr=1,ntracr), &
(k, &
dp(itest,jtest,k,1)*qonem, &
(prij(k+1)+prij(k))*0.5*qonem, &
(tracer(itest,jtest,k,1,ktr),ktr=1,ntracr), &
k=1,kk)
write(lp,'(23x,a,8x,f8.2)') 'bot',depths(itest,jtest)
endif !test tile
call xcsync(flush_lp)
!
return
end
subroutine trcupd(m,n)
use mod_xc ! HYCOM communication interface
use mod_cb_arrays ! HYCOM saved arrays
implicit none
!
integer m,n
!
! --- -----------------------------------------------------------
! --- tracer-specific operations (side-wall relaxation in thermf)
! --- -----------------------------------------------------------
!
integer i,j,k,ktr
real chl,pij(kdm+1),swfrac(kdm+1),q
!
do ktr= 1,ntracr
if (trcflg(ktr).eq.0) then
if (trcrlx) then
! --- tracer always trwall, when non-zero, at surface
!$OMP PARALLEL DO PRIVATE(j,k,i,q) &
!$OMP SCHEDULE(STATIC,jblk)
do j=1,jj
do i=1,ii
if (SEA_P) then
! --- constant in time trwall remains exactly constant
q = trwall(i,j,1,lc0,ktr) &
+(trwall(i,j,1,lc1,ktr)-trwall(i,j,1,lc0,ktr))*wc1 &
+(trwall(i,j,1,lc2,ktr)-trwall(i,j,1,lc0,ktr))*wc2 &
+(trwall(i,j,1,lc3,ktr)-trwall(i,j,1,lc0,ktr))*wc3
if (q.gt.0.0) then
tracer(i,j,1,n,ktr) = q
endif
endif !ip
enddo !i
enddo !j
!$OMP END PARALLEL DO
elseif (.not. trcrlx) then
! --- tracer always 10.0 at surface
!$OMP PARALLEL DO PRIVATE(j,k,i) &
!$OMP SCHEDULE(STATIC,jblk)
do j=1,jj
do i=1,ii
if (SEA_P) then
tracer(i,j,1,n,ktr) = 10.0
endif !ip
enddo !i
enddo !j
!$OMP END PARALLEL DO
endif !trcrlx:else
elseif (trcflg(ktr).eq.1) then
! --- psudo-silicate, half-life of 30 days in euphotic zone
q = 1.0-delt1/(30.0*86400.0)
!$OMP PARALLEL DO PRIVATE(j,k,i,chl,pij,swfrac) &
!$OMP SCHEDULE(STATIC,jblk)
do j=1,jj
do i=1,ii
if (SEA_P) then
pij(1)=0.0
do k=1,kk
pij(k+1) = pij(k)+dp(i,j,k,n)
enddo !k
if (jerlv0.le.0) then
chl = akpar(i,j,lk0)*wk0+akpar(i,j,lk1)*wk1 &
+akpar(i,j,lk2)*wk2+akpar(i,j,lk3)*wk3
endif
call swfrac_ij(chl,pij,kk+1,qonem*oneta(i,j,n), &
jerlov(i,j),swfrac)
do k=1,kk
if (0.5*(swfrac(k)+swfrac(k+1)).gt.0.01) then
tracer(i,j,k,n,ktr) = q*tracer(i,j,k,n,ktr)
else
exit !too deep
endif
enddo !k
endif !ip
enddo !i
enddo !j
!$OMP END PARALLEL DO
elseif (trcflg(ktr).eq.2) then
! --- temperature-like (do nothing, heat flux forcing in mixed layer)
elseif (trcflg(ktr).eq.3) then
! --- fully passive (do nothing)
elseif (trcflg(ktr).eq.903) then
! --- NPZ
call trcupd_903(m,n, ktr)
elseif (trcflg(ktr).eq.904) then
! --- NPZD
call trcupd_904(m,n, ktr)
! elseif (trcflg(ktr).eq.909) then
! --- Chai 9-component.
! call trcupd_909(m,n, ktr)
endif
enddo !ktr
return
end subroutine trcupd
subroutine trcupd_903(m,n, ibio)
use mod_xc ! HYCOM communication interface
use mod_cb_arrays ! HYCOM saved arrays
implicit none
!
integer m,n,ibio
!
! --- -------------------------------------------------
! --- tracer-specific operations for Franks NPZ biology
! --- -------------------------------------------------
!
real, save, dimension(mxtrcr) :: &
bup, & ! maximum growth rate of phytoplankton (1/d).
bgz, & ! maximum grazing rate of zooplankton (1/d).
bdp, & ! senescence (death) rate of phytoplankton (1/d).
bdz, & ! death rate of zooplankton (1/d).
buk, & ! = half-saturation coefficient for phytoplankton (mg/m^3)
asim, & ! assimilation efficiency of zooplankton.
glam ! Ivlev parameter for grazing efficiency of zooplankton.
!
integer i,j,k
real bm_n,bm_p,bm_z,bn_n,bn_p,bn_z,bu_n,bu_p,bu_z, &
uptake,grazin,pdeath,zdeath, &
chl,par,pij(kdm+1),swfrac(kdm+1)
!
if (ibio.lt.0) then !initialize only
!
! --- read from tracer_NN.input:
! --- 'biotyp' = type (90X=std.bio,X=3,4,9) must be 903
! --- 'bup ' = maximum growth rate of phytoplankton (1/d).
! --- 'bgz ' = maximum grazing rate of zooplankton (1/d).
! --- 'bdp ' = senescence (death) rate of phytoplankton (1/d).
! --- 'bdz ' = death rate of zooplankton (1/d).
! --- 'buk ' = half-saturation coefficient for phytoplankton (mg/m^3)
! --- 'asim ' = assimilation efficiency of zooplankton.
! --- 'glam ' = Ivlev parameter for grazing efficiency of zooplankton.
!
i = -ibio
if (mnproc.eq.1) then
write(lp,'(/ a,i3,a,i3,a)') &
'Franks NPZ parameters for tracers',i,' to',i+2,':'
endif !1st tile
!
call blkini(k, 'biotyp')
if (k.ne.903) then
if (mnproc.eq.1) then
write(lp,'(/ a /)') &
'error - biotyp must be 903'
call flush(lp)
endif !1st tile
call xcstop('(trcini)')
stop '(trcini)'
endif !biotyp.ne.903
!
call blkinr(bup( i), 'bup ','(a6," =",f10.4," 1/d")')
call blkinr(bgz( i), 'bgz ','(a6," =",f10.4," 1/d")')
call blkinr(bdp( i), 'bdp ','(a6," =",f10.4," 1/d")')
call blkinr(bdz( i), 'bdz ','(a6," =",f10.4," 1/d")')
call blkinr(buk( i), 'buk ','(a6," =",f10.4," mg/m^3")')
call blkinr(asim( i), 'asim ','(a6," =",f10.4," ")')
call blkinr(glam( i), 'glam ','(a6," =",f10.4," ")')
!
if (mnproc.eq.1) then
write(lp,*)
endif !1st tile
return
endif !ibio.lt.0
!
! --- leapfrog time step.
!
!$OMP PARALLEL DO PRIVATE(j,i,k,chl,pij,par,swfrac, &
!$OMP bm_n,bm_p,bm_z,bn_n,bn_p,bn_z, &
!$OMP bu_n,bu_p,bu_z, &
!$OMP uptake,grazin,pdeath,zdeath) &
!$OMP SCHEDULE(STATIC,jblk)
do j=1,jj
do i=1,ii
if (SEA_P) then
pij(1)=0.0
do k=1,kk
pij(k+1) = pij(k)+dp(i,j,k,n)
enddo !k
if (jerlv0.le.0) then
chl = akpar(i,j,lk0)*wk0+akpar(i,j,lk1)*wk1 &
+akpar(i,j,lk2)*wk2+akpar(i,j,lk3)*wk3
endif
call swfrac_ij(chl,pij,kk+1,qonem*oneta(i,j,n), &
jerlov(i,j),swfrac)
do k=1,kk
par = 0.5*(swfrac(k)+swfrac(k+1))
!
bm_n = tracer(i,j,k,m,ibio)
bm_p = tracer(i,j,k,m,ibio+1)
bm_z = tracer(i,j,k,m,ibio+2)
bn_n = tracer(i,j,k,n,ibio)
bn_p = tracer(i,j,k,n,ibio+1)
bn_z = tracer(i,j,k,n,ibio+2)
!
uptake = bup(ibio)*bm_p*bm_n*par/(buk(ibio)+bm_n)
grazin = bgz(ibio)*bm_z*(1.0-exp(-glam(ibio)*bm_p))
pdeath = bdp(ibio)*bm_p
zdeath = bdz(ibio)*bm_z
! limit negative terms to 10% of total per single time step
grazin = min(grazin,bn_p*0.2*86400.0/delt1)
uptake = min(uptake,bn_n*0.2*86400.0/delt1)
!
bu_p = -grazin +uptake-pdeath
bu_z = asim(ibio) *grazin-zdeath
bu_n = (1.0-asim(ibio))*grazin+zdeath-uptake+pdeath
!
tracer(i,j,k,n,ibio) = bn_n + delt1/86400.0 * bu_n
tracer(i,j,k,n,ibio+1) = bn_p + delt1/86400.0 * bu_p
tracer(i,j,k,n,ibio+2) = bn_z + delt1/86400.0 * bu_z
!
! --- fields must be non-negative
! --- note: only round-off should make a field negative
!
if (tracer(i,j,k,n,ibio+1).lt.0.0) then !PtoN
tracer(i,j,k,n,ibio) = tracer(i,j,k,n,ibio) - &
tracer(i,j,k,n,ibio+1)
tracer(i,j,k,n,ibio+1) = 0.0
endif
if (tracer(i,j,k,n,ibio+2).lt.0.0) then !ZtoN
tracer(i,j,k,n,ibio) = tracer(i,j,k,n,ibio) - &
tracer(i,j,k,n,ibio+2)
tracer(i,j,k,n,ibio+2) = 0.0
endif
if (tracer(i,j,k,n,ibio) .lt.0.0) then !NtoPZ (do last)
tracer(i,j,k,n,ibio+1) = tracer(i,j,k,n,ibio+1) - &
tracer(i,j,k,n,ibio)*0.5
tracer(i,j,k,n,ibio+2) = tracer(i,j,k,n,ibio+2) - &
tracer(i,j,k,n,ibio)*0.5
tracer(i,j,k,n,ibio) = 0.0
endif
enddo !k
endif !ip
enddo !i
enddo !j
!$OMP END PARALLEL DO
return
end subroutine trcupd_903
subroutine trcupd_904(m,n, ibio)
use mod_xc ! HYCOM communication interface
use mod_cb_arrays ! HYCOM saved arrays
implicit none
!
integer m,n,ibio
!
! --- -------------------------------------------------------
! --- tracer-specific operations for Lima/Idrisi NPZD biology
! --- -------------------------------------------------------
!
real, save, dimension(mxtrcr) :: &
pp, & ! zoopl: preference term for phytoplankton
pz, & ! zoopl: preference term for zooplankton
pd, & ! zoopl: preference term for detritus
aa, & ! zoopl: assimilation efficiency
am, & ! zoopl: metabolic efficiency
fkz, & ! zoopl: half-saturation coefficient (mg/m^3)
gmax, & ! zoopl: maximum growth rate (1/day)
zmor ! zoopl: mortality (1/day)
!
real, save, dimension(mxtrcr) :: &
! ik, & ! phyto: light absorption efficiency scalar (einst/m^2/h)
fkp, & ! phyto: half-saturation coefficient (mg/m^3)
pmax, & ! phyto: maximum growth rate (1/day)
psen ! phyto: senescence (1/day)
!
real, save, dimension(mxtrcr) :: &
remn ! detri: remineralization (1/day)
!
integer, save, dimension(mxtrcr) :: &
spcflg ! tmpfn: species type (0=none,1=cold-water,2=warm-water)
!
real, parameter :: & ! temperature function for cold-water species
! thornton and lessem (1978)
theta1 = 16.0, & ! dependence on lower optimum temperature curve
theta2 = 9.0, & ! dependence on higher optimum temperature curve
theta3 = 11.0, & ! maximum temperature (upper tolerance level)
q10l = 2.0, & ! the metabolic q10 for temperature response
xk1 = 0.5, & ! scalar constant
xk2 = 0.98, & ! scalar constant
xk3 = 0.01, & ! scalar constant
xk4 = 0.01 ! scalar constant
!
real, parameter :: & ! temperature function for warm-water species
tmax = 27.0, & ! Tfunc: maximum tolerated temperature
topt = 25.0, & ! Tfunc: optimum temperature
q10w = 2.0 ! Tfunc: the metabolic q10 for temperature response
!
integer i,j,k
real bm_n,bm_p,bm_z,bm_d,bn_n,bn_p,bn_z,bn_d, &
bu_n,bu_p,bu_z,bu_d, &
gamma1,gamma2,xnum,xkatheta,ynum,xkbtheta, &
tijk,tfn,vw,xw,yw,zw, &
pgrw,zgrw,pref,prf2,qprf,ztgx,dofz,pofz,zofz, &
chl,par,pij(kdm+1),swfrac(kdm+1)
!
if (ibio.lt.0) then !initialize only
!
! --- read from tracer.input:
! --- 'biotyp' = type (90X=std.bio,X=3,4,9) must be 904
!
! --- 'pp ' = zoopl: preference term for phytoplankton
! --- 'pz ' = zoopl: preference term for zooplankton
! --- 'pd ' = zoopl: preference term for detritus
! --- 'aa ' = zoopl: assimilation efficiency
! --- 'am ' = zoopl: metabolic efficiency
! --- 'fkz ' = zoopl: half-saturation coefficient (mg/m^3)
! --- 'gmax ' = zoopl: maximum growth rate (1/day)
! --- 'zmor ' = zoopl: mortality (1/day)
!
! --- 'ik ' = phyto: light absorption efficiency scalar (einst/m^2/h)
! --- 'fkp ' = phyto: half-saturation coefficient (mg/m^3)
! --- 'pmax ' = phyto: maximum growth rate (1/day)
! --- 'psen ' = phyto: senescence (1/day)
!
! --- 'remn ' = detri: remineralization (1/day)
!
! --- 'spcflg' = tmpfn: species type (0=none,1=cold-water,2=warm-water)
!
i = -ibio
if (mnproc.eq.1) then
write(lp,'(/ a,i3,a,i3,a)') &
'Lima/Idrisi NPZD parameters for tracers',i,' to',i+3,':'
endif !1st tile
!
call blkini(k, 'biotyp')
if (k.ne.904) then
if (mnproc.eq.1) then
write(lp,'(/ a /)') &
'error - biotyp must be 904'
call flush(lp)
endif !1st tile
call xcstop('(trcini)')
stop '(trcini)'
endif !biotyp.ne.904
!
call blkinr(pp( i), 'pp ','(a6," =",f10.4," ")')
call blkinr(pz( i), 'pz ','(a6," =",f10.4," ")')
call blkinr(pd( i), 'pd ','(a6," =",f10.4," ")')
call blkinr(aa( i), 'aa ','(a6," =",f10.4," ")')
call blkinr(am( i), 'am ','(a6," =",f10.4," ")')
call blkinr(fkz( i), 'fkz ','(a6," =",f10.4," mg/m^3")')
call blkinr(gmax( i), 'gmax ','(a6," =",f10.4," 1/day")')
call blkinr(zmor( i), 'zmor ','(a6," =",f10.4," 1/day")')
!
call blkinr(fkp( i), 'fkp ','(a6," =",f10.4," mg/m^3")')
call blkinr(pmax( i), 'pmax ','(a6," =",f10.4," 1/day")')
call blkinr(psen( i), 'psen ','(a6," =",f10.4," 1/day")')
!
call blkinr(remn( i), 'remn ','(a6," =",f10.4," 1/day")')
!
call blkini(spcflg(i),'spcflg')
!
if (mnproc.eq.1) then
write(lp,*)
endif !1st tile
return
endif !ibio.lt.0
!
! --- leapfrog time step.
!
!$OMP PARALLEL DO PRIVATE(j,i,k,chl,pij,par,swfrac, &
!$OMP bm_n,bm_p,bm_z,bm_d,bn_n,bn_p,bn_z,bn_d, &
!$OMP bu_n,bu_p,bu_z,bu_d, &
!$OMP gamma1,gamma2,xnum,xkatheta,ynum,xkbtheta, &
!$OMP tijk,tfn,vw,xw,yw,zw, &
!$OMP pgrw,zgrw,pref,prf2,qprf,ztgx,dofz,pofz,zofz) &
!$OMP SCHEDULE(STATIC,jblk)
do j=1,jj
do i=1,ii
if (SEA_P) then
pij(1)=0.0
do k=1,kk
pij(k+1) = pij(k)+dp(i,j,k,n)
enddo !k
if (jerlv0.le.0) then
chl = akpar(i,j,lk0)*wk0+akpar(i,j,lk1)*wk1 &
+akpar(i,j,lk2)*wk2+akpar(i,j,lk3)*wk3
endif
call swfrac_ij(chl,pij,kk+1,qonem*oneta(i,j,n), &
jerlov(i,j),swfrac)
do k=1,kk
par = 0.5*(swfrac(k)+swfrac(k+1))
!
bm_n = tracer(i,j,k,m,ibio)
bm_p = tracer(i,j,k,m,ibio+1)
bm_z = tracer(i,j,k,m,ibio+2)
bm_d = tracer(i,j,k,m,ibio+3)
bn_n = tracer(i,j,k,n,ibio)
bn_p = tracer(i,j,k,n,ibio+1)
bn_z = tracer(i,j,k,n,ibio+2)
bn_d = tracer(i,j,k,n,ibio+3)
!
if (spcflg(ibio).eq.1) then
! --- cold-water species temperature dependance
tijk = temp(i,j,k,n)
gamma1 = 1.0/(theta2-q10l) * &
log((xk2*(1.0-xk1))/(xk1*(1.0-xk2)))
gamma2 = 1.0/(theta1-theta3) * &
log((xk2*(1.0-xk3))/(xk4*(1.0-xk2)))
xnum = exp(gamma1*(tijk-q10l))
xkatheta = (xk1*xnum)/(1.0+xk1*(xnum-1.0))
ynum = exp(gamma2*(theta1-tijk))
xkbtheta = (xk4*ynum)/(1.0+xk3*(ynum-1.0))
tfn = xkatheta*xkbtheta
elseif (spcflg(ibio).eq.2) then
! --- warm-water species temperature dependance
tijk = temp(i,j,k,n)
if (tijk.le.tmax) then
vw = (tmax-tijk)/(tmax-topt)
yw = log(q10w)*(tmax-topt+2.0)
zw = log(q10w)*(tmax-topt)
xw = (zw**2 * (1.0+sqrt(1.0+40.0/yw))**2)/400.0
tfn = vw**xw * exp(xw*(1.0-vw))
else
tfn=0.0
endif
else
! --- no temperature dependance
tfn=1.0
endif !spcflg
!
pref = pp(ibio)*bm_p + &
pd(ibio)*bm_d + &
pz(ibio)*bm_z
prf2 = pp(ibio)*bm_p**2 + &
pd(ibio)*bm_d**2 + &
pz(ibio)*bm_z**2
qprf = 1.0/(fkz(ibio)*pref + prf2 + epsil) !epsil prevents 1/0
ztgx = bm_z*tfn*gmax(ibio)
!
pgrw = bm_p*tfn*pmax(ibio)*bm_n*par/(fkp(ibio)+bm_n)
zgrw = ztgx*(prf2 *qprf)*aa(ibio)*am(ibio)
pofz = ztgx*(pp(ibio)*bm_p**2*qprf)
zofz = ztgx*(pz(ibio)*bm_z**2*qprf)
dofz = ztgx*(pd(ibio)*bm_d**2*qprf)
!
! limit negative terms to 10% of total per single time step
pgrw = min(pgrw,bn_n*0.2*86400.0/delt1)
zgrw = min(zgrw,bn_n*0.2*86400.0/delt1)
pofz = min(pofz,bn_p*0.2*86400.0/delt1)
zofz = min(zofz,bn_z*0.2*86400.0/delt1)
dofz = min(dofz,bn_d*0.2*86400.0/delt1)
!
bu_p = pgrw &
- pofz &
- bm_p*psen(ibio)
bu_z = zgrw &
- zofz &
- bm_z*zmor(ibio)
bu_d = bm_p*psen(ibio) &
+ bm_z*zmor(ibio) &
+ (pofz+zofz+dofz)*(1.0-aa(ibio)) &
- dofz &
- bm_d*remn(ibio)
bu_n = bm_d*remn(ibio) &
+ (pofz+zofz+dofz)* aa(ibio) &
- zgrw &
- pgrw
!
tracer(i,j,k,n,ibio) = bn_n + delt1/86400.0 * bu_n
tracer(i,j,k,n,ibio+1) = bn_p + delt1/86400.0 * bu_p
tracer(i,j,k,n,ibio+2) = bn_z + delt1/86400.0 * bu_z
tracer(i,j,k,n,ibio+3) = bn_d + delt1/86400.0 * bu_d
!
! --- fields must be non-negative
! --- note: only round-off should make a field negative
!
if (tracer(i,j,k,n,ibio+1).lt.0.0) then !PtoN
tracer(i,j,k,n,ibio) = tracer(i,j,k,n,ibio) - &
tracer(i,j,k,n,ibio+1)
tracer(i,j,k,n,ibio+1) = 0.0
endif
if (tracer(i,j,k,n,ibio+2).lt.0.0) then !ZtoN
tracer(i,j,k,n,ibio) = tracer(i,j,k,n,ibio) - &
tracer(i,j,k,n,ibio+2)
tracer(i,j,k,n,ibio+2) = 0.0
endif
if (tracer(i,j,k,n,ibio+3).lt.0.0) then !DtoN
tracer(i,j,k,n,ibio) = tracer(i,j,k,n,ibio) - &
tracer(i,j,k,n,ibio+3)
tracer(i,j,k,n,ibio+3) = 0.0
endif
if (tracer(i,j,k,n,ibio) .lt.0.0) then !NtoD (do last)
tracer(i,j,k,n,ibio+3) = tracer(i,j,k,n,ibio+3) - &
tracer(i,j,k,n,ibio)
tracer(i,j,k,n,ibio) = 0.0
endif
enddo
endif !ip
enddo !i
enddo !j
!$OMP END PARALLEL DO
return
end subroutine trcupd_904
subroutine pcmtrc(si,pi,ki,ks, so,po,ko)
implicit none
!
integer ki,ks,ko
real si(ki,ks),pi(ki+1), &
so(ko,ks),po(ko+1)
!
!**********
!*
! 1) remap from one set of vertical cells to another.
! method: piecewise constant across each input cell
! the output is the average of the interpolation
! profile across each output cell.
!
! 2) input arguments:
! si - scalar fields in pi-layer space
! pi - layer interface depths (non-negative m)
! pi( 1) is the surface
! pi(ki+1) is the bathymetry
! ki - 1st dimension of si (number of input layers)
! ks - 2nd dimension of si,so (number of fields)
! po - target interface depths (non-negative m)
! po(k+1) >= po(k)
! ko - 1st dimension of so (number of output layers)
!
! 3) output arguments:
! so - scalar fields in po-layer space
!
! 4) except at data voids, must have:
! pi( 1) == zero (surface)
! pi( l+1) >= pi(l)
! pi(ki+1) == bathymetry
! 0 <= po(k) <= po(k+1)
! output layers completely below the bathymetry inherit values
! from the layer above.
!
! 5) Alan J. Wallcraft, Naval Research Laboratory, Sep. 2002 (Aug. 2005).
!*
!**********
!
real thin
parameter (thin=1.e-6) ! minimum layer thickness (no division by 0.0)
!
integer i,k,l,lf
real q,zb,zt,sok(ks)
!
lf=1
zb=po(1)
do k= 1,ko
zt = zb
zb = po(k+1)
! WRITE(6,*) 'k,zt,zb = ',k,zt,zb
if (zb-zt.lt.thin .or. zt.ge.pi(ki+1)) then
!
! --- thin or bottomed layer, values taken from layer above
!
do i= 1,ks
so(k,i) = so(k-1,i)
enddo !i
else
!
! form layer averages.
!
if (pi(lf).gt.zt) then
WRITE(6,*) 'bad lf = ',lf
stop
endif
do i= 1,ks
sok(i) = 0.0
enddo !i
do l= lf,ki
if (pi(l).gt.zb) then
! WRITE(6,*) 'l,lf= ',l,lf,l-1
lf = l-1
exit
elseif (pi(l).ge.zt .and. pi(l+1).le.zb) then
!
! the input layer is completely inside the output layer
!
q = max(pi(l+1)-pi(l),thin)/(zb-zt)
do i= 1,ks
sok(i) = sok(i) + q*si(l,i)
enddo !i
! WRITE(6,*) 'L,q = ',l,q
else
!
! the input layer is partially inside the output layer
!
q = max(min(pi(l+1),zb)-max(pi(l),zt),thin)/(zb-zt)
do i= 1,ks
sok(i) = sok(i) + q*si(l,i)
enddo !i
! WRITE(6,*) 'l,q = ',l,q
endif
enddo !l
do i= 1,ks
so(k,i) = sok(i)
enddo !i
endif
enddo !k
return
end subroutine pcmtrc
subroutine plmtrc(si,pi,ki,ks, so,po,ko)
implicit none
!
integer ki,ks,ko
real si(ki,ks),pi(ki+1), &
so(ko,ks),po(ko+1),flag
!
!**********
!*
! 1) remap from one set of vertical cells to another.
! method: piecewise linear across each input cell
! the output is the average of the interpolation
! profile across each output cell.
!
! 2) input arguments:
! si - scalar fields in pi-layer space
! pi - layer interface depths (non-negative m)
! pi( 1) is the surface
! pi(ki+1) is the bathymetry
! ki - 1st dimension of si (number of input layers)
! ks - 2nd dimension of si,so (number of fields)
! po - target interface depths (non-negative m)
! po(k+1) >= po(k)
! ko - 1st dimension of so (number of output layers)
! flag - data void (land) marker
!
! 3) output arguments:
! so - scalar fields in po-layer space
!
! 4) except at data voids, must have:
! pi( 1) == zero (surface)
! pi( l+1) >= pi(l)
! pi(ki+1) == bathymetry
! 0 <= po(k) <= po(k+1)
! output layers completely below the bathymetry inherit values
! from the layer above.
!
! 5) Tim Campbell, Mississippi State University, October 2002.
! Alan J. Wallcraft, Naval Research Laboratory, Aug. 2005.
!*
!**********
!
real,parameter :: thin=1.e-6 !minimum layer thickness
!
integer i,k,l,lf
real q,qc,zb,zc,zt,sok(ks)
real sis(ki,ks),pit(ki+1)
real si_min(ks),si_max(ks)
!
! --- inforce minval(si(:,i)) <= minval(so(:,i)) and
! --- maxval(si(:,i)) >= maxval(so(:,i)) for i=1:ks
! --- in particular this inforces non-negativity, e.g. of tracers
! --- only required due to finite precision
!
do i= 1,ks
si_min(i) = minval(si(:,i))
si_max(i) = maxval(si(:,i))
enddo !i
!
! --- compute PLM slopes for input layers
do k=1,ki
pit(k)=max(pi(k+1)-pi(k),thin)
enddo
call plmtrcx(pit,si,sis,ki,ks)
! --- compute output layer averages
lf=1
zb=po(1)
do k= 1,ko
zt = zb
zb = po(k+1)
! WRITE(6,*) 'k,zt,zb = ',k,zt,zb
if (zb-zt.lt.thin .or. zt.ge.pi(ki+1)) then
!
! --- thin or bottomed layer, values taken from layer above
!
do i= 1,ks
so(k,i) = so(k-1,i)
enddo !i
else
!
! form layer averages.
!
if (pi(lf).gt.zt) then
WRITE(6,*) 'bad lf = ',lf
stop
endif
do i= 1,ks
sok(i) = 0.0
enddo !i
do l= lf,ki