subroutine tracer (joff, js, je, is, ie) #if defined O_mom !======================================================================= ! compute tracers at "tau+1" for rows js through je in the MW. ! input: ! joff = offset relating "j" in the MW to latitude "jrow" ! js = starting row in the MW ! je = ending row in the MW ! is = starting longitude index in the MW ! ie = ending longitude index in the MW !======================================================================= implicit none character(120) :: fname, new_file_name integer istrt, iend, i, k, j, ip, kr, jq, n, jp, jrow, iou, js integer je, limit, joff, is, ie, kmx, m, kb, idiag, index integer it(10), iu(10), ib(10), ic(10), nfnpzd, mfnpzd, mxfnpzd integer id_time, id_xt, id_yt, id_zt, fe_jlo, fe_m, fe_k, fe_n parameter (fe_n = 14) logical inqvardef, exists real rctheta, declin, gl, impo, expo, npp, time real remi, excr, graz, morp, morpt, morz, temp, swr, dayfrac real graz_Det, graz_Z, avej, avej_D, gmax, no3P, po4P, po4_D real phin, dz, prca, dprca, nud, bct, tap, fo2, so2, ai, hi, hs real npp_D, graz_D, morp_D, no3flag, deni, nfix, felimit real t_i, t_j, dz_t2r, dz_tr, dz_wtr, dx_t2r, dx_tr, dy_t2r real dy_tr, adv_tx, adv_ty, adv_tz, adv_txiso, adv_tyiso real adv_tziso, diff_tx, diff_ty, diff_tz, zmax, cont, drho real drhom1, wt, ahbi_cstr, ahbi_csu_dyur, gamma, rrstd, fy, fyz real fe_dy, fe_conc, fe_x(fe_n), fe_y(fe_n), bctz, felimit_D real Paulmier_a, Paulmier_z, Paulmier_R0, hpipe, wpipe real kpipemin, t_in, s_in, dic_in, ta_in, co2_in, pHlo real pHhi, pH, co2star, dco2star, pCO2, dpco2,CO3 real Omega_c, Omega_a, pCO2_old, pCO2_new, sit_in, pt_in real atmpres, zero, kpmax # if defined O_cn_var_w_pco2 real cnvarfac # endif include "size.h" include "param.h" include "pconst.h" include "stdunits.h" include "accel.h" include "coord.h" include "cregin.h" include "csbc.h" include "emode.h" include "grdvar.h" include "hmixc.h" include "levind.h" include "mw.h" include "scalar.h" include "switch.h" include "timeavgs.h" include "tmngr.h" include "vmixc.h" # if defined O_save_convection || defined O_carbon_14 include "diaga.h" # endif # if defined O_ice # if defined O_ice_cpts include "cpts.h" # endif include "ice.h" # endif # if defined O_ocean_upwelling_pipes include "cembm.h" # endif # if defined O_npzd # if defined O_embm include "atm.h" # endif include "npzd.h" # if defined O_cn_var_w_pco2 ! This option will make the data available to calculate pCO2 include "cembm.h" # endif # endif # if defined O_carbon_fnpzd include "calendar.h" # endif parameter (istrt=2, iend=imt-1) real twodt(km) # if defined O_plume real work(imt,km,jsmw:jemw) # endif # if defined O_npzd real snpzd(ntnpzd), tnpzd(ntnpzd) # endif # if defined O_npzd || defined O_carbon_14 real src(imt,km,jsmw:jemw,nsrc) # endif # if defined O_carbon_fnpzd real tmpijk(imtm2,jmtm2,km), tmpi(imtm2), tmpj(jmtm2) real, allocatable :: fnpzd(:,:,:,:) save fnpzd, nfnpzd, mfnpzd, mxfnpzd # endif # if defined O_isopycmix include "isopyc.h" # endif include "fdift.h" # if defined O_carbon_fnpzd !----------------------------------------------------------------------- ! create file for writing npzd 3d fluxes of carbon and alkalinity !----------------------------------------------------------------------- if (.not. allocated (fnpzd)) then allocate ( fnpzd(imt,jmt,km,2) ) fnpzd(:,:,:,:) = 0. ! initialize time record counter mfnpzd = 0 ! initialize records written counter nfnpzd = 0 ! set the repeating time interval to one year mxfnpzd = nint(daylen*yrlen/dtts) fname = new_file_name ("O_fnpzd.nc") inquire (file=trim(fname), exist=exists) if (exists) then ! limit time interval to what exists call openfile (fname, iou) call getdimlen ('time', iou, nfnpzd) mxfnpzd = min(mxfnpzd, nfnpzd) # if defined O_carbon if (inqvardef('O_fnpzd1', iou)) nfnpzd = mxfnpzd # endif # if defined O_npzd_alk if (inqvardef('O_fnpzd2', iou)) nfnpzd = mxfnpzd # endif else ! define file if not there call openfile (fname, iou) call redef (iou) call defdim ('time', iou, 0, id_time) call defdim ('longitude', iou, imtm2, id_xt) call defdim ('latitude', iou, jmtm2, id_yt) call defdim ('depth', iou, km, id_zt) it(1) = id_time call defvar ('time', iou, 1, it, c0, c0, 'T', 'D' &, 'time', 'time', 'years since 0-1-1') call putatttext (iou, 'time', 'calendar', calendar) it(1) = id_xt call defvar ('longitude', iou, 1, it, c0, c0, 'X', 'D' &, 'longitude', 'longitude', 'degrees') it(1) = id_yt call defvar ('latitude', iou, 1, it, c0, c0, 'Y', 'D' &, 'latitude', 'latitude', 'degrees') it(1) = id_zt call defvar ('depth', iou, 1, it, c0, c0, 'Z', 'D' &, 'depth', 'depth', 'm') it(1) = id_xt it(2) = id_yt it(3) = id_zt it(4) = id_time # if defined O_carbon call defvar ('O_fnpzd1', iou, 4, it, c0, c0, ' ', 'D' &, ' ', ' ', ' ') # endif # if defined O_npzd_alk call defvar ('O_fnpzd2', iou, 4, it, c0, c0, ' ', 'D' &, ' ', ' ', ' ') # endif call enddef (iou) ib(:) = 1 ic(:) = imtm2 tmpi(1:imtm2) = xt(2:imtm1) call putvara ('longitude', iou, imtm2, ib, ic, xt, c1, c0) ib(:) = 1 ic(:) = jmtm2 tmpj(1:jmtm2) = yt(2:jmtm1) call putvara ('latitude', iou, jmtm2, ib, ic, yt, c1, c0) ib(:) = 1 ic(:) = km call putvara ('depth', iou, km, ib, ic, zt, c1, c0) endif endif # endif !----------------------------------------------------------------------- ! bail out if starting row exceeds ending row !----------------------------------------------------------------------- if (js .gt. je) return !----------------------------------------------------------------------- ! limit the longitude indices based on those from the argument list ! Note: this is currently bypassed. istrt and iend are set as ! parameters to optimize performance !----------------------------------------------------------------------- ! istrt = max(2,is) ! iend = min(imt-1,ie) !----------------------------------------------------------------------- ! build coefficients to minimize advection and diffusion computation !----------------------------------------------------------------------- #if defined O_fourth_order_tracer_advection || defined O_fct || defined O_quicker || defined O_pressure_gradient_average || defined O_biharmonic || defined O_isopycmix limit = min(je+1+joff,jmt) - joff do j=js,limit # else do j=js,je # endif jrow = j + joff do i=istrt-1,iend cstdxtr(i,j) = cstr(jrow)*dxtr(i) cstdxt2r(i,j) = cstr(jrow)*dxtr(i)*p5 cstdxur(i,j) = cstr(jrow)*dxur(i) # if defined O_consthmix && !defined O_bryan_lewis_horizontal && !defined O_biharmonic ah_cstdxur(i,j) = diff_cet*cstr(jrow)*dxur(i) # endif enddo enddo # if defined O_plume !----------------------------------------------------------------------- ! find depth of penetration for the llnl simple plume model !----------------------------------------------------------------------- ! set parameters zmax = 160.0e2 ! use constant depth penetration (if cont=0) ! cont = 0.0 ! use rho contrast for penetration (if cont>0) cont = 0.4e-3 ! 0.4 kg/m3 = 0.4e-3g/cm3 do j=js,je jrow = j + joff do i=is,ie subz(i,jrow) = zmax enddo if (cont .gt. c0) then call state_ref (t(1,1,1,1,tau), t(1,1,1,2,tau) &, work(1,1,jsmw), j, j, 1, imt, 1) do i=is,ie kmx = kmt(i,jrow) subz(i,jrow) = zw(1) do k=2,kmx drho = work(i,k,j) - work(i,1,j) drhom1 = work(i,k-1,j) - work(i,1,j) if (drho .ge. cont .and. drhom1 .lt. cont) & subz(i,jrow) = zt(k-1) + (zt(k) - zt(k-1)) & *(cont - drhom1)/(drho - drhom1) enddo if (drho .le. cont) subz(i,jrow) = zw(kmx) enddo endif !----------------------------------------------------------------------- ! calculate "3d stf" multiplier for the llnl simple plume model !----------------------------------------------------------------------- do i=is,ie if (kmt(i,jrow) .gt. 0) then subz(i,jrow) = max(min(subz(i,jrow),zw(kmt(i,jrow))),zw(1)) work(i,1,j) = c1/subz(i,jrow) do k=2,km wt = min(max(c0,(subz(i,jrow) - zw(k-1))),dzt(k))*dztr(k) work(i,k,j) = wt*work(i,1,j) enddo else do k=1,km work(i,k,j) = c0 enddo endif enddo enddo # endif # if defined O_npzd !----------------------------------------------------------------------- ! calculation of biological interactions !----------------------------------------------------------------------- declin = sin((mod(relyr,1.) - 0.22)*2.*pi)*0.4 ! declination do k=1,km twodt(k) = c2dtts*dtxcel(k) nbio(k) = twodt(k)/dtnpzd dtbio(k) = twodt(k)/nbio(k) rdtts(k) = 1./twodt(k) rnbio(k) = 1./nbio(k) enddo tap = 2.*alpha*par do j=js,je jrow = j + joff do i=is,ie if (kmt(i,jrow) .gt. 0) then # if defined O_ice # if defined O_ice_cpts ai = 0. hi = 0. hs = 0. do n=1,ncat ai = ai + A(i,jrow,2,n) hi = hi + heff(i,jrow,2,n) hs = hs + hseff(i,jrow,2,n) enddo # else ai = aice(i,jrow,2) hi = hice(i,jrow,2) hs = hsno(i,jrow,2) # endif # else ai = 0. hi = 0. hs = 0. # endif ! calculate day fraction and incoming solar ! angle of incidence = lat - declin, refraction index = 1.33 rctheta = max(-1.5, min(1.5, tlat(i,jrow)/radian - declin)) rctheta = kw/sqrt(1. - (1. - cos(rctheta)**2.)/1.33**2.) dayfrac = min( 1., -tan(tlat(i,jrow)/radian)*tan(declin)) dayfrac = max(1e-12, acos(max(-1., dayfrac))/pi) # if defined O_embm swr = dnswr(i,jrow)*1e-3*(1. + ai*(exp(-ki*(hi + hs)) - 1.)) # else swr = 200. # endif expo = 0.0 impo = 0.0 phin = 0.0 ! integrated phytoplankton prca = 0.0 ! integrated production of calcite kmx = min(kmt(i,jrow), kpzd) do k=1,kmx !----------------------------------------------------------------------- ! limit tracers to positive values !----------------------------------------------------------------------- tnpzd(1) = max(t(i,k,j,ipo4,taum1), trcmin) tnpzd(2) = max(t(i,k,j,iphyt,taum1), trcmin) tnpzd(3) = max(t(i,k,j,izoop,taum1), trcmin) tnpzd(4) = max(t(i,k,j,idetr,taum1), trcmin) # if defined O_npzd_nitrogen tnpzd(5) = max(t(i,k,j,ino3,taum1), trcmin) tnpzd(6) = max(t(i,k,j,idiaz,taum1), trcmin) # endif swr = swr*exp(-kc*phin) ! phin has been removed from the following code to fix a bug # if defined O_npzd_nitrogen phin = (tnpzd(6) + tnpzd(2))*dzt(k) # else phin = tnpzd(2)*dzt(k) # endif gl = tap*swr*exp(ztt(k)*rctheta) impo = expo*dztr(k) bct = bbio**(cbio*t(i,k,j,itemp,taum1)) # if defined O_zoop_graz_upper_temp_limit # if defined O_no_marine_temp_sens ! This sets the maximum growth rate to a temperature weighted constant ! as in Taucher and Oschlies, 2012 GRL. The Zoo grazing weighted temp ! is 20 deg C, e.g., the upper temp limit bctz = (0.5*(tanh(t(i,k,j,io2,taum1)*1000. - 8.)+1)) & *3.59 # else if (t(i,k,j,itemp,taum1).gt.20) then bctz = (0.5*(tanh(t(i,k,j,io2,taum1)*1000. - 8.)+1)) & *bbio**(cbio*20) else bctz = (0.5*(tanh(t(i,k,j,io2,taum1)*1000. - 8.)+1)) & *bct end if # endif # else # if defined O_no_marine_temp_sens ! This sets the maximum growth rate to a temperature weighted constant ! as in Taucher and Oschlies, 2012 GRL. The Zoo grazing weighted temp ! is 21.37 deg C based on data from the No_iso_no_sed spin-up yr. 10,000 bctz = (0.5*(tanh(t(i,k,j,io2,taum1)*1000. - 8.)+1)) & *3.92 # else bctz = (0.5*(tanh(t(i,k,j,io2,taum1)*1000. - 8.)+1)) & *bct # endif # endif # if defined O_npzd_fe_limitation # if defined O_ocean_upwelling_pipes_with_fe if (kpipe_fe(i,j).gt.2) then felimit = 1 felimit_D = 1 else if (k.le.3) then ! create x (time) and y (data) arrays for fe interpolation ! first zero them out just in case fe_y(:) = 0 fe_x(:) = 0 ! write in values for days 0 and 365 for interp. bounds fe_y(1) = fe_dissolved(i,j,k,1) fe_x(1) = 0 fe_y(14) = fe_dissolved(i,j,k,12) fe_x(14) = 365 ! now create the rest of the array based on the BLING ! data which is from day 16 of each month do m=2,13 fe_y(m) = fe_dissolved(i,j,k,m-1) if (m.eq.2) then fe_x(2) = 16 else if (m.eq.3) then fe_x(3) = 47 else if (m.eq.4) then fe_x(4) = 75 else if (m.eq.5) then fe_x(5) = 106 else if (m.eq.6) then fe_x(6) = 136 else if (m.eq.7) then fe_x(7) = 167 else if (m.eq.8) then fe_x(8) = 197 else if (m.eq.9) then fe_x(9) = 228 else if (m.eq.10) then fe_x(10) = 259 else if (m.eq.11) then fe_x(11) = 289 else if (m.eq.12) then fe_x(12) = 320 else if (m.eq.13) then fe_x(13) = 350 endif enddo fe_jlo = 2 fe_m = 4 ! find fe data day index call hunt (fe_x,fe_n,dayoyr,fe_jlo) ! initialize the fe data array at the right day fe_k = min(max(fe_jlo-(fe_m-1)/2,1),fe_n+1-fe_m) ! interpolate the fe data, note this does not use the whole array call polint (fe_x(fe_k),fe_y(fe_k) &, fe_m,dayoyr,fe_conc,fe_dy) ! calculate the fe limitation term felimit = fe_conc/(kfe + fe_conc) felimit_D = fe_conc/(kfe_D + fe_conc) else felimit = 1 felimit_D = 1 end if # else if (k.le.3) then ! create x (time) and y (data) arrays for fe interpolation ! first zero them out just in case fe_y(:) = 0 fe_x(:) = 0 ! write in values for days 0 and 365 for interp. bounds fe_y(1) = fe_dissolved(i,j,k,1) fe_x(1) = 0 fe_y(14) = fe_dissolved(i,j,k,12) fe_x(14) = 365 ! now create the rest of the array based on the BLING ! data which is from day 16 of each month do m=2,13 fe_y(m) = fe_dissolved(i,j,k,m-1) if (m.eq.2) then fe_x(2) = 16 else if (m.eq.3) then fe_x(3) = 47 else if (m.eq.4) then fe_x(4) = 75 else if (m.eq.5) then fe_x(5) = 106 else if (m.eq.6) then fe_x(6) = 136 else if (m.eq.7) then fe_x(7) = 167 else if (m.eq.8) then fe_x(8) = 197 else if (m.eq.9) then fe_x(9) = 228 else if (m.eq.10) then fe_x(10) = 259 else if (m.eq.11) then fe_x(11) = 289 else if (m.eq.12) then fe_x(12) = 320 else if (m.eq.13) then fe_x(13) = 350 endif enddo fe_jlo = 2 fe_m = 4 ! find fe data day index call hunt (fe_x,fe_n,dayoyr,fe_jlo) ! initialize the fe data array at the right day fe_k = min(max(fe_jlo-(fe_m-1)/2,1),fe_n+1-fe_m) ! interpolate the fe data, note this does not use the whole array call polint (fe_x(fe_k),fe_y(fe_k) &, fe_m,dayoyr,fe_conc,fe_dy) ! calculate the fe limitation term felimit = fe_conc/(kfe + fe_conc) felimit_D = fe_conc/(kfe_D + fe_conc) else felimit = 1 felimit_D = 1 end if # endif # endif # if defined O_Fe_fertilization_Southern_Ocean if (tlat(i,j+joff) .lt. -40.) then felimit = 1 felimit_D = 1 end if # endif # if defined O_npzd_o2 ! decrease remineralisation rate in oxygen minimum zone nud = nud0*(0.65+0.35*tanh(t(i,k,j,io2,taum1)*1000.-6.)) # if defined O_no_remi_w_no_no3 if (t(i,k,j,ino3,taum1).lt.0) then nud = 0 endif # endif # else nud = nud0 # endif !----------------------------------------------------------------------- ! call the npzd model !----------------------------------------------------------------------- call npzd_src (tnpzd, nbio(k), dtbio(k), gl, bct, impo &, dzt(k), dayfrac, wd(k), rkwz(k), nud &, snpzd, expo, graz, morp, morz, graz_Det &, graz_Z # if defined O_save_npzd &, npp, morpt, remi, excr # if defined O_npzd_nitrogen &, npp_D, graz_D, morp_D, nfix # endif # if defined O_npzd_extra_diagnostics &, avej, avej_D, gmax, no3P, po4P, po4_D # endif # endif # if defined O_npzd_fe_limitation &, felimit, felimit_D # endif &, bctz & ) ! These are source/sink terms snpzd(1:4) = snpzd(1:4)*rdtts(k) # if defined O_npzd_nitrogen snpzd(5:6) = snpzd(5:6)*rdtts(k) # endif expo = expo*rnbio(k) # if defined O_save_npzd rexpo(i,k,j) = expo rgraz(i,k,j) = graz*rnbio(k) rgraz_Det(i,k,j) = graz_Det*rnbio(k) rgraz_Z(i,k,j) = graz_Z*rnbio(k) rmorp(i,k,j) = morp*rnbio(k) rmorz(i,k,j) = morz*rnbio(k) rnpp(i,k,j) = npp*rnbio(k) rmorpt(i,k,j) = morpt*rnbio(k) rremi(i,k,j) = remi*rnbio(k) rexcr(i,k,j) = excr*rnbio(k) # if defined O_npzd_nitrogen rnpp_D(i,k,j) = npp_D*rnbio(k) rgraz_D(i,k,j) = graz_D*rnbio(k) rmorp_D(i,k,j) = morp_D*rnbio(k) rnfix(i,k,j) = nfix*rnbio(k) # endif # if defined O_npzd_extra_diagnostics ravej(i,k,j) = avej*rnbio(k) ravej_D(i,k,j) = avej_D*rnbio(k) rgmax(i,k,j) = gmax*rnbio(k) rno3P(i,k,j) = no3P*rnbio(k) rpo4P(i,k,j) = po4P*rnbio(k) rpo4_D(i,k,j) = po4_D*rnbio(k) # endif # endif !----------------------------------------------------------------------- ! calculate detritus at the bottom and remineralize !----------------------------------------------------------------------- if (k .eq. kmt(i,jrow)) then # if defined O_sed if (addflxo .and. eots) & sbc(i,jrow,irorg) = sbc(i,jrow,irorg) & + expo*redctn*twodt(1)*dzt(k) # endif # if defined O_save_npzd rremi(i,k,j) = rremi(i,k,j) + expo # endif snpzd(1) = snpzd(1) + redptn*expo # if defined O_npzd_nitrogen snpzd(5) = snpzd(5) + expo # endif endif !----------------------------------------------------------------------- ! set source/sink terms !----------------------------------------------------------------------- src(i,k,j,ispo4) = snpzd(1) src(i,k,j,isphyt) = snpzd(2) src(i,k,j,iszoop) = snpzd(3) src(i,k,j,isdetr) = snpzd(4) # if defined O_npzd_nitrogen src(i,k,j,isno3) = snpzd(5) src(i,k,j,isdiaz) = snpzd(6) # endif # if defined O_cn_var_w_pco2 ! Calculate the change in the C:N ratio due to a change in pCO2 (atm) cnvarfac = 0.000481*co2ccn + 0.86630 ! production of calcite dprca = (morp+morz+(graz+graz_Z)*(1.-gamma1)) & *capr*redctn*cnvarfac*rnbio(k) prca = prca + dprca*dzt(k) # if defined O_carbon src(i,k,j,isdic) = (snpzd(1)*redctp*cnvarfac - dprca) # endif # else ! production of calcite dprca = (morp+morz+(graz+graz_Z)*(1.-gamma1)) & *capr*redctn*rnbio(k) prca = prca + dprca*dzt(k) # if defined O_carbon src(i,k,j,isdic) = (snpzd(1)*redctp - dprca) # endif # endif # if defined O_npzd_alk src(i,k,j,isalk) = (-snpzd(1)*redntp*1.e-3 - 2.*dprca) # endif # if defined O_time_averages && defined O_save_npzd !----------------------------------------------------------------------- ! accumulate time averages !----------------------------------------------------------------------- if (timavgperts .and. .not. euler2) then ta_rnpp(i,k,jrow) = ta_rnpp(i,k,jrow) + rnpp(i,k,j) ta_rgraz(i,k,jrow) = ta_rgraz(i,k,jrow) + rgraz(i,k,j) ta_rgraz_Z(i,k,jrow) = ta_rgraz_Z(i,k,jrow) & + rgraz_Z(i,k,j) ta_rgraz_Det(i,k,jrow) = ta_rgraz_Det(i,k,jrow) & + rgraz_Det(i,k,j) ta_rmorp(i,k,jrow) = ta_rmorp(i,k,jrow) + rmorp(i,k,j) ta_rmorpt(i,k,jrow)= ta_rmorpt(i,k,jrow) + rmorpt(i,k,j) ta_rmorz(i,k,jrow) = ta_rmorz(i,k,jrow) + rmorz(i,k,j) ta_rexcr(i,k,jrow) = ta_rexcr(i,k,jrow) + rexcr(i,k,j) # if defined O_npzd_nitrogen ta_rnpp_D(i,k,jrow) = ta_rnpp_D(i,k,jrow) & + rnpp_D(i,k,j) ta_rgraz_D(i,k,jrow) = ta_rgraz_D(i,k,jrow) & + rgraz_D(i,k,j) ta_rmorp_D(i,k,jrow) = ta_rmorp_D(i,k,jrow) & + rmorp_D(i,k,j) ta_rnfix(i,k,jrow) = ta_rnfix(i,k,jrow) + rnfix(i,k,j) # endif # if defined O_npzd_extra_diagnostics ta_ravej(i,k,jrow) = ta_ravej(i,k,jrow) & + ravej(i,k,j) ta_ravej_D(i,k,jrow) = ta_ravej_D(i,k,jrow) & + ravej_D(i,k,j) ta_rgmax(i,k,jrow) = ta_rgmax(i,k,jrow) & + rgmax(i,k,j) ta_rno3P(i,k,jrow) = ta_rno3P(i,k,jrow) & + rno3P(i,k,j) ta_rpo4P(i,k,jrow) = ta_rpo4P(i,k,jrow) & + rpo4P(i,k,j) ta_rpo4_D(i,k,jrow) = ta_rpo4_D(i,k,jrow) & + rpo4_D(i,k,j) # endif endif # endif ! calculate total export to get total import for next layer expo = expo*dzt(k) enddo # if defined O_npzd_o2 kmx = kmt(i,jrow) do k=1,kmx ! limit oxygen consumption below concentrations of ! 5umol/kg as recommended in OCMIP fo2 = 0.5*tanh(t(i,k,j,io2,taum1)*1000. - 5.) ! sink of oxygen ! O2 is needed to generate the equivalent of NO3 from N2 during N2 fixation ! 0.5 H2O + 0.5 N2+1.25O2 -> HNO3 ! note that so2 is -dO2/dt # if defined O_cn_var_w_pco2 so2 = src(i,k,j,ispo4)*redotp*cnvarfac & + rnfix(i,k,j)*1.25e-3 # else so2 = src(i,k,j,ispo4)*redotp & + rnfix(i,k,j)*1.25e-3 # endif src(i,k,j,iso2) = -so2*(0.5 + fo2) # if defined O_npzd_nitrogen ! add denitrification as source term for NO3 no3flag = 0.5+sign(0.5,t(i,k,j,ino3,taum1)-trcmin) ! 800 = 0.8*1000 = (elec/mol O2)/(elec/mol NO3)*(mmol/mol) deni = max(0., 800.*no3flag*so2*(0.5 - fo2)) src(i,k,j,isno3) = src(i,k,j,isno3) - deni ! Correct the ALK stoichiometry to account for N2 fixation ! New stoichiometric model parameters formulated as in Paulmier et al. 2009 BG Paulmier_a = 1.e3*redctn Paulmier_z = 4*1.e3*redotp - 4.*Paulmier_a - 8.*redntp Paulmier_R0 = Paulmier_a + 0.25*Paulmier_z src(i,k,j,isalk) = src(i,k,j,isalk) & + no3flag*src(i,k,j,ispo4)*(0.5-fo2) & *(4./5.*Paulmier_R0 + (3./5. +1.)*redntp) * 1.e-3 ! Now account for N2 fixation (ALK production is tied to PO4 change and ! thus in the case of N2 fixation was not correct without this fix). src(i,k,j,isalk) = src(i,k,j,isalk) & - rnfix(i,k,j)*1.e-3 # if defined O_save_npzd rdeni(i,k,jrow) = deni # endif # endif enddo # endif !----------------------------------------------------------------------- ! remineralize calcite !----------------------------------------------------------------------- kmx = kmt(i,jrow) do k=1,kmx-1 # if defined O_carbon src(i,k,j,isdic) = src(i,k,j,isdic) + prca*rcak(k) # endif # if defined O_npzd_alk src(i,k,j,isalk) = src(i,k,j,isalk) + 2.*prca*rcak(k) # endif enddo # if defined O_sed if (addflxo .and. eots) & sbc(i,jrow,ircal) = sbc(i,jrow,ircal) + (prca*rcab(kmx) & - prca*rcak(kmx))*twodt(1)*dzt(kmx) # endif # if defined O_carbon src(i,kmx,j,isdic) = src(i,kmx,j,isdic) + prca*rcab(kmx) # endif # if defined O_npzd_alk src(i,kmx,j,isalk) = src(i,kmx,j,isalk) + 2.*prca*rcab(kmx) # endif # if defined O_time_averages && defined O_save_npzd !----------------------------------------------------------------------- ! accumulate time averages for full depth variables !----------------------------------------------------------------------- if (timavgperts .and. .not. euler2) then kmx = kmt(i,jrow) expo = prca ta_rprocal(i,jrow) = ta_rprocal(i,jrow) + prca do k=1,kmx expo = expo*dztr(k) ta_rremi(i,k,jrow) = ta_rremi(i,k,jrow) + rremi(i,k,j) ta_rexpo(i,k,jrow) = ta_rexpo(i,k,jrow) + rexpo(i,k,j) expo = expo - prca*rcak(k) ta_rexpocal(i,k,jrow) = ta_rexpocal(i,k,jrow) + expo expo = expo*dzt(k) # if defined O_npzd_nitrogen && defined O_npzd_o2 ta_rdeni(i,k,jrow) = ta_rdeni(i,k,jrow) + rdeni(i,k,j) # endif enddo endif # endif endif enddo enddo # endif # if defined O_carbon_fnpzd !----------------------------------------------------------------------- ! option to write and read fixed biological fluxes for carbon and ! alkalinity. code assumes that restarts line up with the first ! record. the repeating time period and restarts should probably ! line up with the start of the year. !----------------------------------------------------------------------- do j=js,je jrow = j + joff ! adjust counters and read fluxes, if first row of slab if (jrow .eq. 2) then mfnpzd = mfnpzd + 1 if (mfnpzd .gt. mxfnpzd) mfnpzd = 1 if (nfnpzd .le. mxfnpzd) nfnpzd = nfnpzd + 1 ! read fluxes, if enough records written if (nfnpzd .gt. mxfnpzd) then fname = new_file_name ("O_fnpzd.nc") inquire (file=trim(fname), exist=exists) if (exists) then ib(:) = 1 ic(:) = 1 ic(1) = imtm2 ic(2) = jmtm2 ic(3) = km ib(4) = mfnpzd print*, "Reading fnpzd from: ", trim(fname), & " record:", mfnpzd call openfile (fname, iou) # if defined O_carbon call getvara ('O_fnpzd1', iou, imtm2*jmtm2*km, ib, ic &, tmpijk, c1, c0) fnpzd(2:imtm1,2:jmtm1,1:km,1)=tmpijk(1:imtm2,1:jmtm2,1:km) # endif # if defined O_npzd_alk call getvara ('O_fnpzd2', iou, imtm2*jmtm2*km, ib, ic &, tmpijk, c1, c0) fnpzd(2:imtm1,2:jmtm1,1:km,2)=tmpijk(1:imtm2,1:jmtm2,1:km) # endif endif endif endif if (nfnpzd .le. mxfnpzd) then ! store fluxes, if enough records written do i=is,ie do k=1,km # if defined O_carbon fnpzd(i,jrow,k,1) = src(i,k,j,isdic) # endif # if defined O_npzd_alk fnpzd(i,jrow,k,2) = src(i,k,j,isalk) # endif enddo enddo ! write fluxes, if last row of slab if (jrow .eq. jmt-1) then fname = new_file_name ("O_fnpzd.nc") call openfile (fname, iou) print*, "Writing fnpzd to: ", trim(fname), & " record:", mfnpzd ib(:) = 1 ic(:) = 1 ic(1) = imtm2 ic(2) = jmtm2 ic(3) = km ib(4) = mfnpzd time = relyr call putvars ('time', iou, mfnpzd, time, c1, c0) # if defined O_carbon tmpijk(1:imtm2,1:jmtm2,1:km) = fnpzd(2:imtm1,2:jmtm1,1:km,1) call putvara ('O_fnpzd1', iou, imtm2*jmtm2*km, ib, ic &, tmpijk, c1, c0) # endif # if defined O_npzd_alk tmpijk(1:imtm2,1:jmtm2,1:km) = fnpzd(2:imtm1,2:jmtm1,1:km,2) call putvara ('O_fnpzd2', iou, imtm2*jmtm2*km, ib, ic &, tmpijk, c1, c0) # endif endif else ! set fluxes to source terms do i=is,ie do k=1,km # if defined O_carbon src(i,k,j,isdic) = fnpzd(i,jrow,k,1) # endif # if defined O_npzd_alk src(i,k,j,isalk) = fnpzd(i,jrow,k,2) # endif enddo enddo endif enddo # endif # if defined O_carbon && defined O_carbon_14 !----------------------------------------------------------------------- ! set source for c14 !----------------------------------------------------------------------- do j=js,je jrow = j + joff do i=is,ie if (kmt(i,jrow) .gt. 0) then do k=1,kmt(i,jrow) # if defined O_npzd src(i,k,j,isc14) = src(i,k,j,isdic)*rstd & - 3.836e-12*t(i,k,j,ic14,taum1) # else src(i,k,j,isc14) = - 3.836e-12*t(i,k,j,ic14,taum1) # endif enddo endif enddo enddo # endif # if defined O_sed && !defined O_sed_uncoupled !----------------------------------------------------------------------- ! set source terms from sediment model !----------------------------------------------------------------------- do j=js,je jrow = j + joff do i=is,ie if (kmt(i,jrow) .gt. 0) then k = kmt(i,jrow) # if defined O_carbon && defined O_npzd src(i,k,j,isdic) = src(i,k,j,isdic) + sbc(i,j,ibdicfx) # if defined O_global_sums if (addflxo .and. eots) dtoic = dtoic - sbc(i,j,ibdicfx) & *c2dtts*dtxcel(k)*dxt(i)*dyt(jrow)*cst(jrow)*dzt(k) # endif # endif # if defined O_npzd_alk src(i,k,j,isalk) = src(i,k,j,isalk) + sbc(i,j,ibalkfx) # endif endif enddo enddo # endif !----------------------------------------------------------------------- ! solve for one tracer at a time ! n = 1 => temperature ! n = 2 => salinity ! n > 2 => other tracers (if applicable) !----------------------------------------------------------------------- do n=1,nt !----------------------------------------------------------------------- ! calculate advective tracer flux !----------------------------------------------------------------------- call adv_flux (joff, js, je, is, ie, n) !----------------------------------------------------------------------- ! calculate diffusive flux across eastern and northern faces ! of "T" cells due to various parameterizations for diffusion. !----------------------------------------------------------------------- # if defined O_consthmix # if !defined O_biharmonic || defined O_bryan_lewis_horizontal ! diffusive flux on eastern face of "T" cells do j=js,je do k=1,km do i=istrt-1,iend diff_fe(i,k,j) = # if defined O_bryan_lewis_horizontal & diff_cet(k)*cstdxur(i,j)* # else & ah_cstdxur(i,j)* # endif & (t(i+1,k,j,n,taum1) - t(i,k,j,n,taum1)) enddo enddo enddo # if defined O_isopycmix ! diffusive flux on northern face of "T" cells ! (background for isopycnal mixing) do j=js-1,je jrow = j + joff do k=1,km do i=istrt,iend diff_fn(i,k,j) = # if defined O_bryan_lewis_horizontal & diff_cnt(k)* # else & diff_cnt* # endif & csu_dyur(jrow)*(t(i,k,j+1,n,taum1) - t(i,k,j,n,taum1)) enddo enddo enddo # else ! diffusive flux on northern face of "T" cells is not calculated. ! instead, it is incorporated into DIFF_Ty for performance issues. # endif # else !----------------------------------------------------------------------- ! diffusive flux across eastern face of "T" cell ! diffusive flux across northern face of "T" cell !----------------------------------------------------------------------- m = 2 + n do j=js,je jrow = j + joff ahbi_cstr = diff_cet*cstr(jrow) do k=1,km do i=istrt-1,iend diff_fe(i,k,j) = ahbi_cstr*dxur(i)* & (del2(i+1,k,j,m)-del2(i,k,j,m)) enddo enddo enddo do j=js-1,je jrow = j + joff ahbi_csu_dyur = diff_cnt*csu(jrow)*dyur(jrow) do k=1,km do i=istrt,iend diff_fn(i,k,j) = ahbi_csu_dyur* & (del2(i,k,j+1,m) - del2(i,k,j,m)) enddo enddo enddo # endif # else # if defined O_smagnlmix ! diffusive flux on eastern and northern faces of "T" cells do j=js,je do k=1,km do i=istrt-1,iend diff_fe(i,k,j) = diff_cet(i,k,j)*cstdxur(i,j)* & (t(i+1,k,j,n,taum1) - t(i,k,j,n,taum1)) enddo enddo enddo do j=js-1,je jrow = j + joff do k=1,km do i=istrt,iend diff_fn(i,k,j) = diff_cnt(i,k,j)*csu_dyur(jrow)* & (t(i,k,j+1,n,taum1) - t(i,k,j,n,taum1)) enddo enddo enddo # endif # endif !----------------------------------------------------------------------- ! calculate diffusive flux across bottom face of "T" cells !----------------------------------------------------------------------- do j=js,je do k=1,km-1 do i=istrt,iend diff_fb(i,k,j) = diff_cbt(i,k,j)*dzwr(k)* & (t(i,k,j,n,taum1) - t(i,k+1,j,n,taum1)) enddo enddo enddo # if defined O_isopycmix !----------------------------------------------------------------------- ! compute isopycnal diffusive flux through east, north, ! and bottom faces of T cells. !----------------------------------------------------------------------- call isoflux (joff, js, je, is, ie, n) # endif !----------------------------------------------------------------------- ! set surface and bottom vert b.c. on "T" cells for diffusion ! and advection. for isopycnal diffusion, set adiabatic boundary ! conditions. ! note: the b.c. at adv_fb(i,k=bottom,j) is set by the above code. ! However, it is not set when k=km so it is set below. ! adv_fb(i,km,j) is always zero (to within roundoff). !----------------------------------------------------------------------- do j=js,je jrow = j + joff do i=istrt,iend kb = kmt(i,jrow) # if defined O_replacst diff_fb(i,0,j) = c0 # else diff_fb(i,0,j) = stf(i,j,n) # endif diff_fb(i,kb,j) = btf(i,j,n) adv_fb(i,0,j) = adv_vbt(i,0,j)*(t(i,1,j,n,tau) + & t(i,1,j,n,tau)) adv_fb(i,km,j) = adv_vbt(i,km,j)*t(i,km,j,n,tau) enddo enddo # if defined O_source_term || defined O_npzd || defined O_carbon_14 !----------------------------------------------------------------------- ! set source term for "T" cells !----------------------------------------------------------------------- source(:,:,:) = c0 # if defined O_npzd || defined O_carbon_14 if (itrc(n) .ne. 0) then do j=js,je do k=1,km do i=istrt,iend source(i,k,j) = src(i,k,j,itrc(n)) enddo enddo enddo endif # endif # if defined O_ocean_upwelling_pipes ! This is the pipe option in the 2.8 CE do j=js,je do i=istrt,iend hpipe = 0. wpipe = -1./86400 kpipemin=2 # if defined O_pipes_at_kmax kpipe(i,j) = 8 # else kpipe(i,j) = 1 # endif # if defined O_pipes_everywhere ! if (kmt(i,j).ge.kpipemin.and.t(i,1,j,ipo4,tau).lt.1000) # else if (kmt(i,j).ge.kpipemin.and.t(i,1,j,ipo4,tau).lt.0.4) & then t_in = t(i,1,j,1,tau) !degree Celsius s_in = 1000.*t(i,1,j,2,tau) + 35. !psu dic_in = t(i,1,j,idic,tau) !mol/m^3 ta_in = t(i,1,j,ialk,tau) !eq/m^3 # if defined O_carbon_co2_2d co2_in = at(i,j,2,ico2) # else co2_in = co2ccn # endif pHlo = 6. pHhi = 10. sit_in = 7.6875e-03 !mol/m^3 pt_in = 0.5125e-3 !mol/m^3 atmpres = 1.0 !atm zero = 0. call co2calc_SWS (t_in, s_in, dic_in, ta_in, co2_in, pt_in &, sit_in, atmpres, zero, pHlo, pHhi, pH &, co2star, dco2star, pCO2, dpco2, CO3 &, Omega_c, Omega_a) pCO2_old = pCO2 kpmax=min(8,kmt(i,j)) # if defined O_pipes_at_kmax kpipe(i,j) = 8 # else kpipe(i,j) = 1 # endif do k=2,kpmax t_in = t(i,1,j,1,tau) s_in = 1000.*t(i,k,j,2,tau) + 35. dic_in = t(i,k,j,idic,tau) & - (t(i,k,j,ipo4,tau)-t(i,1,j,ipo4,tau))*16.*6.7/1000. ta_in = t(i,k,j,ialk,tau) call co2calc_SWS (t_in, s_in, dic_in, ta_in, co2_in, pt_in &, sit_in, atmpres, zero, pHlo, pHhi, pH &, co2star, dco2star, pCO2, dpco2, CO3 &, Omega_c, Omega_a) pCO2_new = pCO2 if (pCO2_new.lt.pCO2_old) then pCO2_old = pCO2_new # endif # if defined O_pipes_at_kmax if(kmt(i,j).gt.8)then kpipe(i,j) = 8 else kpipe(i,j) = max(2,kmt(i,j)) endif # else # if defined O_pipes_everywhere kpmax=min(8,kmt(i,j)) do k=2,kpmax # endif if(kmt(i,j).ge.k.and.kmt(i,j).ge.kpipemin)then kpipe(i,j) = k endif # endif # if defined O_ocean_upwelling_pipes_with_fe kpipe_fe(i,j)=kpipe(i,j) # endif # if defined O_pipes_everywhere # else endif # endif enddo if (kpipe(i,j).ge.2) then # if defined O_pipes_no_heat_exchange if(n.gt.1) then # endif source(i,1,j) = source(i,1,j) & -wpipe*(t(i,kpipe(i,j),j,n,taum1) & -t(i,1,j,n,taum1))/dzt(1) do k=2,kpipe(i,j) source(i,k,j) = source(i,k,j) & -wpipe*(t(i,k-1,j,n,taum1) & -t(i,k,j,n,taum1))/dzt(k) enddo # if defined O_pipes_no_heat_exchange endif # endif # if defined O_pipes_everywhere # else endif # endif endif enddo enddo # endif # if defined O_shortwave !----------------------------------------------------------------------- ! incorporate short wave penetration into source !----------------------------------------------------------------------- if (n .eq. 1) then call swflux0 (joff, js, je, istrt, iend, source) endif # endif # endif !----------------------------------------------------------------------- ! solve for "tau+1" tracer using statement functions to represent ! each component of the calculation !----------------------------------------------------------------------- ! 1st: solve using all components which are treated explicitly do j=js,je jrow = j + joff do k=1,km twodt(k) = c2dtts*dtxcel(k) do i=istrt,iend t(i,k,j,n,taup1) = t(i,k,j,n,taum1) + twodt(k)*( & DIFF_Tx(i,k,j) + DIFF_Ty(i,k,j,jrow,n) + DIFF_Tz(i,k,j) & - ADV_Tx(i,k,j) - ADV_Ty(i,k,j,jrow,n) - ADV_Tz(i,k,j) # if defined O_isopycmix && defined O_gent_mcwilliams && !defined O_fct && !defined O_quicker & - ADV_Txiso(i,k,j,n) - ADV_Tyiso(i,k,j,jrow,n) & - ADV_Tziso(i,k,j) # endif # if defined O_source_term || defined O_npzd || defined O_carbon_14 & + source(i,k,j) # endif # if defined O_plume & + work(i,k,j)*subflux(i,jrow,n) # endif & )*tmask(i,k,j) enddo enddo enddo # if defined O_implicitvmix || defined O_isopycmix || defined O_redi_diffusion ! 2nd: add in portion of vertical diffusion handled implicitly call ivdift (joff, js, je, istrt, iend, n, twodt) # endif do j=js,je call setbcx (t(1,1,j,n,taup1), imt, km) enddo !----------------------------------------------------------------------- ! construct diagnostics associated with tracer "n" !----------------------------------------------------------------------- call diagt1 (joff, js, je, istrt, iend, n, twodt) !----------------------------------------------------------------------- ! end of tracer component "n" loop !----------------------------------------------------------------------- enddo # if defined O_replacst gamma = zw(1)/twodt(1) do j=js,je jrow = j + joff do i=istrt,iend stf(i,j,1) = gamma*(sbc(i,jrow,isst) - t(i,1,j,1,taup1)) stf(i,j,2) = gamma*(sbc(i,jrow,isss) - t(i,1,j,2,taup1)) t(i,1,j,1,taup1) = sbc(i,jrow,isst) t(i,1,j,2,taup1) = sbc(i,jrow,isss) enddo enddo # endif # if defined O_convect_brine !----------------------------------------------------------------------- ! explicit convection: adjust column if gravitationally unstable ! convect brine rejected under all ice categories !----------------------------------------------------------------------- call convect_brine (joff, js, je, is, ie) # else # if !defined O_implicitvmix || defined O_isopycmix !----------------------------------------------------------------------- ! explicit convection: adjust column if gravitationally unstable !----------------------------------------------------------------------- # if defined O_fullconvect call convct2 (t(1,1,1,1,taup1), joff, js, je, is, ie, kmt) do j=js,je do n=1,nt call setbcx (t(1,1,j,n,taup1), imt, km) enddo enddo # else call convct (t(1,1,1,1,taup1), ncon, joff, js, je, istrt, iend &, kmt) # endif # endif # endif # if defined O_save_convection if (timavgperts .and. eots) then if (joff .eq. 0) nta_conv = nta_conv + 1 do j=js,je jrow = j + joff do i=istrt,iend ta_totalk(i,jrow) = ta_totalk(i,jrow) + totalk(i,j) ta_vdepth(i,jrow) = ta_vdepth(i,jrow) + vdepth(i,j) ta_pe(i,jrow) = ta_pe(i,jrow) + pe(i,j) enddo enddo endif # endif !----------------------------------------------------------------------- ! construct diagnostics after convection !----------------------------------------------------------------------- idiag = 10 call diagt2 (joff, js, je, istrt, iend, idiag) # if defined O_fourfil || defined O_firfil !----------------------------------------------------------------------- ! filter tracers at high latitudes !----------------------------------------------------------------------- if (istrt .eq. 2 .and. iend .eq. imt-1) then call filt (joff, js, je) else write (stdout,'(a)') & 'Error: filtering requires is=2 and ie=imt-1 in tracer' stop '=>tracer' endif # endif do n=1,nt do j=js,je call setbcx (t(1,1,j,n,taup1), imt, km) enddo enddo !----------------------------------------------------------------------- ! construct diagnostics after filtering (for total dT/dt) !----------------------------------------------------------------------- idiag = 1 call diagt2 (joff, js, je, istrt, iend, idiag) # if !defined O_replacst !----------------------------------------------------------------------- ! if needed, construct the Atmos S.B.C.(surface boundary conditions) ! averaged over this segment ! eg: SST and possibly SSS !----------------------------------------------------------------------- call asbct (joff, js, je, istrt, iend, isst, itemp) call asbct (joff, js, je, istrt, iend, isss, isalt) # endif # if defined O_carbon call asbct (joff, js, je, istrt, iend, issdic, idic) # if defined O_carbon_14 call asbct (joff, js, je, istrt, iend, issc14, ic14) # endif # endif # if defined O_npzd_alk call asbct (joff, js, je, istrt, iend, issalk, ialk) # endif # if defined O_npzd_o2 call asbct (joff, js, je, istrt, iend, isso2, io2) # endif # if defined O_npzd call asbct (joff, js, je, istrt, iend, isspo4, ipo4) # if !defined O_npzd_no_vflux call asbct (joff, js, je, istrt, iend, issphyt, iphyt) call asbct (joff, js, je, istrt, iend, isszoop, izoop) call asbct (joff, js, je, istrt, iend, issdetr, idetr) # endif # if defined O_npzd_nitrogen call asbct (joff, js, je, istrt, iend, issno3, ino3) # if !defined O_npzd_no_vflux call asbct (joff, js, je, istrt, iend, issdiaz, idiaz) # endif # endif # endif # if defined O_cfcs_data || defined O_cfcs_data_transient call asbct (joff, js, je, istrt, iend, isscfc11, icfc11) call asbct (joff, js, je, istrt, iend, isscfc12, icfc12) # endif # if defined O_sed !----------------------------------------------------------------------- ! accumulate bottom tracer values for the sediment model !----------------------------------------------------------------------- if (addflxo .and. eots) then if (joff .eq. 0) atsed = atsed + twodt(1) do j=js,je jrow = j + joff do i=is,ie if (kmt(i,jrow) .gt. 0) then k = kmt(i,jrow) sbc(i,jrow,ibtemp) = sbc(i,jrow,ibtemp) & + t(i,k,j,itemp,taup1)*twodt(1) sbc(i,jrow,ibsalt) = sbc(i,jrow,ibsalt) & + t(i,k,j,isalt,taup1)*twodt(1) # if defined O_carbon sbc(i,jrow,ibdic) = sbc(i,jrow,ibdic) & + t(i,k,j,idic,taup1)*twodt(1) # endif # if defined O_npzd_alk sbc(i,jrow,ibalk) = sbc(i,jrow,ibalk) & + t(i,k,j,ialk,taup1)*twodt(1) # endif # if defined O_npzd_o2 sbc(i,jrow,ibo2) = sbc(i,jrow,ibo2) & + t(i,k,j,io2,taup1)*twodt(1) # endif endif enddo enddo endif # endif # if defined O_carbon && defined O_carbon_14 !----------------------------------------------------------------------- ! calculate diagnostic delta carbon 14 !----------------------------------------------------------------------- if (tsiperts .or. timavgperts) then rrstd = 1000./rstd do j=js,je jrow = j + joff do k=1,km do i=istrt,iend dc14(i,k,j) = (rrstd*t(i,k,j,ic14,taup1) & /(t(i,k,j,idic,taup1) + epsln) - 1000.) & *tmask(i,k,j) enddo enddo enddo endif if (tsiperts .and. eots) then if (js+joff .eq. 2) dc14bar = 0. do j=js,je jrow = j + joff fy = cst(jrow)*dyt(jrow) do k=1,km fyz = fy*dzt(k) do i=istrt,iend dc14bar = dc14bar + dc14(i,k,j)*dxt(i)*fyz*tmask(i,k,j) enddo enddo enddo endif if (timavgperts .and. .not. euler2) then do j=js,je jrow = j + joff do k=1,km do i=istrt,iend ta_dc14(i,k,jrow) = ta_dc14(i,k,jrow) + dc14(i,k,j) enddo enddo enddo endif # endif !----------------------------------------------------------------------- ! calculate diagnostic pipe depth for the O_ocean_upwelling_pipes CE option !----------------------------------------------------------------------- # if defined O_ocean_upwelling_pipes if (timavgperts .and. .not. euler2) then do j=js,je jrow = j + joff do i=istrt,iend ta_kpipe(i,jrow) = ta_kpipe(i,jrow) + zt(kpipe(i,j)) enddo enddo endif # endif return end subroutine diagt1 (joff, js, je, is, ie, n, twodt) !----------------------------------------------------------------------- ! construct diagnostics associated with tracer component "n" ! input: ! joff = offset relating "j" in the MW to latitude "jrow" ! js = starting row in the MW ! je = ending row in the MW ! is = starting longitude index in the MW ! ie = ending longitude index in the MW ! n = (1,2) = (u,v) velocity component ! twodt = (2*dtts,dtts) on (leapfrog,mixing) time steps !----------------------------------------------------------------------- implicit none integer i, k, j, ip, kr, jq, n, jp, jrow, js, je, joff, is, ie integer mask, m real t_i, t_j, dz_t2r, dz_tr, dz_wtr, dx_t2r, dx_tr, dy_t2r real dy_tr, adv_tx, adv_ty, adv_tz, adv_txiso, adv_tyiso real adv_tziso, diff_tx, diff_ty, diff_tz, dtdx, dtdy, dtdz real r2dt, cosdyt, fx, darea, boxar, rtwodt, sumdx, delx real sumdxr, dxdy, dxdydz include "size.h" include "param.h" include "pconst.h" include "stdunits.h" include "accel.h" include "coord.h" include "cregin.h" include "csbc.h" # if defined O_tracer_averages include "ctavg.h" # endif include "diag.h" include "diaga.h" include "emode.h" include "grdvar.h" include "hmixc.h" include "levind.h" include "mw.h" include "scalar.h" include "switch.h" include "vmixc.h" # if defined O_meridional_tracer_budget include "ctmb.h" real stor(imt,km), div(imt,km), sorc(imt,km), dif(imt,km) real t1(imt), t2(imt), t3(imt), t4(imt) # endif # if defined O_time_step_monitor real temp1(imt,km), temp2(imt,km), temp3(imt,km) # endif real twodt(km) # if defined O_isopycmix include "isopyc.h" # endif include "fdift.h" # if defined O_save_mixing_coeff !----------------------------------------------------------------------- ! diagnostic: estimate mixing coefficients on east, north, and ! bottom face of T cells from the flux !----------------------------------------------------------------------- if (cmixts .and. n .eq. 1 .and. eots) then do j=js,je jrow = j + joff do k=1,km do i=2,imt-1 dtdx = (t(i+1,k,j,1,taum1)-t(i,k,j,1,taum1)) & *tmask(i+1,k,j)*tmask(i,k,j) & *cstr(jrow)*dxur(i) + epsln ce(i,k,j,2) = diff_fe(i,k,j)/dtdx # if !defined O_consthmix || defined O_biharmonic || defined O_isopycmix dtdy = (t(i,k,j+1,1,taum1)-t(i,k,j,1,taum1)) & *tmask(i,k,j+1)*tmask(i,k,j) & *dyur(jrow) + epsln cn(i,k,j,2) = csur(jrow)*diff_fn(i,k,j)/dtdy # else cn(i,k,j,2) = csur(jrow)*ah # endif enddo enddo enddo do j=js,je jrow = j + joff do k=1,km-1 do i=2,imt-1 dtdz = (t(i,k,j,1,taum1)-t(i,k+1,j,1,taum1)) & *tmask(i,k,j)*tmask(i,k+1,j) & *dzwr(k) + epsln cb(i,k,j,2) = diff_fb(i,k,j)/dtdz # if defined O_isopycmix & + diff_fbiso(i,k,j)/dtdz # endif enddo enddo do i=2,imt-1 cb(i,km,j,2) = 0.0 enddo enddo do j=js,je call setbcx (ce(1,1,j,2), imt, km) call setbcx (cn(1,1,j,2), imt, km) call setbcx (cb(1,1,j,2), imt, km) enddo endif # endif # if defined O_save_convection_full !----------------------------------------------------------------------- ! diagnostic: initialize temperature before convection !----------------------------------------------------------------------- if (exconvts .and. n .eq. 1 .and. eots) then do j=js,je do k=1,km do i=1,imt excnv0(i,k,j) = t(i,k,j,1,taup1) enddo enddo enddo endif # endif # if defined O_time_step_monitor !----------------------------------------------------------------------- ! diagnostic: integrate |d(tracer)/dt| and tracer variance on "tau" ! globally !----------------------------------------------------------------------- if (tsiperts .and. eots) then do j=js,je jrow = j + joff r2dt = c1/c2dtts cosdyt = cst(jrow)*dyt(jrow) do k=1,km fx = r2dt/dtxcel(k) do i=is,ie darea = dzt(k)*dxt(i)*cosdyt*tmask(i,k,j) temp3(i,k) = t(i,k,j,n,tau)*darea temp1(i,k) = t(i,k,j,n,tau)**2*darea temp2(i,k) = abs(t(i,k,j,n,taup1)-t(i,k,j,n,taum1))* & darea*fx enddo do i=is,ie tbar(k,n,jrow) = tbar(k,n,jrow) + temp3(i,k) travar(k,n,jrow) = travar(k,n,jrow) + temp1(i,k) dtabs(k,n,jrow) = dtabs(k,n,jrow) + temp2(i,k) enddo enddo enddo endif # endif # if defined O_tracer_averages !----------------------------------------------------------------------- ! diagnostic: accumulate tracers for averages under horizontal ! regions (use units of meters, rather than cm) !----------------------------------------------------------------------- if (tavgts .and. eots) then do j=js,je jrow = j + joff do i=is,ie mask = mskhr(i,jrow) if (mask .ne. 0) then boxar = cst(jrow)*dxt(i)*dyt(jrow)*tmask(i,1,j)*0.0001 sumbf(mask,n) = sumbf(mask,n) + stf(i,j,n)*boxar do k=1,km sumbk(mask,k,n) = sumbk(mask,k,n) + t(i,k,j,n,tau) & *boxar*dzt(k)*tmask(i,k,j)*0.01 enddo endif enddo enddo endif # endif # if defined O_tracer_yz !---------------------------------------------------------------------- ! diagnostic: integrate tracer equations in longitude !---------------------------------------------------------------------- if (tyzts .and. eots) then do j=js,je jrow = j + joff do k=1,km rtwodt = c1/twodt(k) sumdx = c0 do m=1,5 tyz(jrow,k,n,m) = c0 enddo do i=is,ie delx = dxt(i)*tmask(i,k,j) sumdx = sumdx + delx tyz(jrow,k,n,1) = tyz(jrow,k,n,1)+ delx*t(i,k,j,n,tau) tyz(jrow,k,n,2) = tyz(jrow,k,n,2) + rtwodt*delx* & (t(i,k,j,n,taup1) - t(i,k,j,n,taum1)) tyz(jrow,k,n,3) = tyz(jrow,k,n,3) & - delx*(ADV_Ty(i,k,j,jrow,n) + ADV_Tz(i,k,j)) tyz(jrow,k,n,4) = tyz(jrow,k,n,4) & + delx*(DIFF_Ty(i,k,j,jrow,n) + DIFF_Tz(i,k,j)) # if defined O_source_term || defined O_npzd || defined O_carbon_14 tyz(jrow,k,n,5) = tyz(jrow,k,n,5) + delx*source(i,k,j) # endif enddo sumdxr = c1/(sumdx + epsln) do m=1,5 tyz(jrow,k,n,m) = tyz(jrow,k,n,m)*sumdxr enddo enddo enddo if (js+joff .eq. 2) then do m=1,5 do k=1,km tyz(1,k,n,m) = c0 tyz(jmt,k,n,m) = c0 enddo enddo endif endif # endif # if defined O_meridional_tracer_budget !---------------------------------------------------------------------- ! diagnostic: integrate equations in depth, lon, and time for ! each basin and jrow. basin # 0 is used to catch ! values in land areas !---------------------------------------------------------------------- if (tmbperts .and. eots) then do j=js,je jrow = j + joff if (jrow .eq. 2 .and. n .eq. 1) numtmb = numtmb + 1 cosdyt = cst(jrow)*dyt(jrow) do k=1,km do i=is,ie stor(i,k) = 0.0 div(i,k) = 0.0 sorc(i,k) = 0.0 dif(i,k) = 0.0 enddo enddo do k=1,km rtwodt = c1/twodt(k) do i=is,ie dxdy = cosdyt*dxt(i)*tmask(i,k,j) dxdydz = dxdy*dzt(k) stor(i,k) = stor(i,k) + rtwodt*dxdydz* & (t(i,k,j,n,taup1) - t(i,k,j,n,taum1)) div(i,k) = div(i,k) - dxdydz*ADV_Ty(i,k,j,jrow,n) # if defined O_source_term || defined O_npzd || defined O_carbon_14 sorc(i,k) = sorc(i,k) + dxdydz*source(i,k,j) # endif dif(i,k) = dif(i,k) + dxdydz*DIFF_Ty(i,k,j,jrow,n) enddo enddo ! the accumulation is done this way for issues of speed do i=is,ie t1(i) = stor(i,1) t2(i) = div(i,1) t3(i) = sorc(i,1) t4(i) = dif(i,1) enddo do k=2,km do i=is,ie t1(i) = t1(i) + stor(i,k) t2(i) = t2(i) + div(i,k) t3(i) = t3(i) + sorc(i,k) t4(i) = t4(i) + dif(i,k) enddo enddo do i=is,ie m = msktmb(i,jrow) tstor(jrow,n,m) = tstor(jrow,n,m) + t1(i) tdiv(jrow,n,m) = tdiv(jrow,n,m) + t2(i) tsorc(jrow,n,m) = tsorc(jrow,n,m) + t3(i) tdif(jrow,n,m) = tdif(jrow,n,m) + t4(i) enddo k = 1 do i=is,ie m = msktmb(i,jrow) dxdy = cosdyt*dxt(i)*tmask(i,k,j) tflux(jrow,n,m) = tflux(jrow,n,m) + dxdy*stf(i,j,n) enddo if (n .eq. 1) then do k=1,km do i=is,ie m = msktmb(i,jrow) dxdy = cosdyt*dxt(i)*tmask(i,k,j) dxdydz = dxdy*dzt(k) smdvol(jrow,m) = smdvol(jrow,m) + dxdydz enddo enddo endif enddo endif # endif # if defined O_gyre_components !----------------------------------------------------------------------- ! diagnostic: compute the northward transport components of ! each tracer !----------------------------------------------------------------------- if (gyrets .and. eots) call gyre (joff, js, je, is, ie, n) # endif # if defined O_term_balances !----------------------------------------------------------------------- ! diagnostic: integrate r.h.s. terms in the tracer equations ! over specified regional volumes. !----------------------------------------------------------------------- if (trmbts .and. eots) call ttb1 (joff, js, je, is, ie, n) # endif # if defined O_xbts !----------------------------------------------------------------------- ! diagnostic: accumulate r.h.s. terms in the tracer equations !----------------------------------------------------------------------- if (xbtperts .and. eots) call txbt1 (joff, js, je, n) # endif # if defined O_mom_tbt !----------------------------------------------------------------------- ! diagnostic: accumulate r.h.s. terms in the tracer equations !----------------------------------------------------------------------- if (tbtperts .and. eots) call tbt1 (joff, js, je, n) # endif return end subroutine diagt2 (joff, js, je, is, ie, idiag) !----------------------------------------------------------------------- ! construct d(tracer)/dt diagnostics ! input: ! joff = offset relating "j" in the MW to latitude "jrow" ! js = starting row in the MW ! je = ending row in the MW ! is = starting longitude index in the MW ! ie = ending longitude index in the MW ! idiag = 1 => total tracer change ! idiag = 10 => change of tracer due to filtering(also convection) !----------------------------------------------------------------------- implicit none integer idiag, j, js, je, k, i, joff, iocv, jrow, is, ie real rdt, reltim, period include "size.h" include "param.h" include "pconst.h" include "stdunits.h" include "coord.h" include "diaga.h" include "iounit.h" include "mw.h" include "scalar.h" include "switch.h" include "tmngr.h" include "timeavgs.h" # if defined O_save_convection_full !----------------------------------------------------------------------- ! diagnostic: save tracer time change due to explicit convection ! idiag = 10 signifies diagnostics immediately after convection !----------------------------------------------------------------------- if (exconvts .and. idiag .eq. 10 .and. eots) then rdt = c1/c2dtts ! excnv1 = epsln over land cells and d(convect)/dt over ocean do j=js,je do k=1,km do i=1,imt excnv1(i,k,j) = tmask(i,k,j)* & (t(i,k,j,1,taup1)-excnv0(i,k,j))*rdt & + (c1-tmask(i,k,j))*epsln enddo enddo enddo reltim = relyr if (joff + js .eq. 2) then write (stdout,*) ' =>Writing explicit convection at ts=',itt & , ' ',stamp call getunit (iocv, 'cvct.dta' &, 'unformatted sequential append ieee') period = 0.0 iotext = 'read(iocv) reltim, period, imt, jmt, km, flag' write (iocv) stamp, iotext, expnam write (iocv) reltim, period, imt, jmt, km, epsln iotext = 'read(iocv) (xt(i),i=1,imt)' write (iocv) stamp, iotext, expnam call wrufio (iocv, xt, imt) iotext = 'read(iocv) (yt(j),j=1,jmt)' write (iocv) stamp, iotext, expnam call wrufio (iocv, yt, jmt) iotext = 'read(iocv) (zt(k),k=1,km)' write (iocv) stamp, iotext, expnam call wrufio (iocv, zt, km) call relunit (iocv) endif call getunit (iocv, 'cvct.dta' &, 'unformatted sequential append ieee') do j=js,je jrow = j+joff write(iotext,'(a10,i4)') ' for jrow=',jrow iotext(15:) = ': read (iocv) (convect(i,k),i=1,imt),k=1,km)' write (iocv) stamp, iotext, expnam call wrufio (iocv, excnv1(1,1,j), imt*km) enddo call relunit(iocv) endif # endif # if defined O_term_balances !----------------------------------------------------------------------- ! diagnostic: integrate d/dt(tracer) over specified regional volumes ! after convection and filtering !----------------------------------------------------------------------- if (trmbts .and. eots) call ttb2 (joff, js, je, is, ie, idiag) # endif # if defined O_xbts !----------------------------------------------------------------------- ! diagnostic: accumulate d/dt(tracer) after convection ! and filtering !----------------------------------------------------------------------- if (xbtperts .and. eots) call txbt2 (joff, js, je, idiag) # endif # if defined O_mom_tbt !----------------------------------------------------------------------- ! diagnostic: accumulate d/dt(tracer) after convection ! and filtering !----------------------------------------------------------------------- if (tbtperts .and. eots) call tbt2 (joff, js, je, idiag) # endif return end subroutine asbct (joff, js, je, is, ie, isbc, itr) !----------------------------------------------------------------------- ! construct the Atmos S.B.C. (surface boundary conditions) ! input: ! joff = offset relating "j" in the MW to latitude "jrow" ! js = starting row in the MW ! je = ending row in the MW ! is = starting longitude index in the MW ! ie = ending longitude index in the MW ! isbc = index for sbc ! itr = index for tracer !----------------------------------------------------------------------- implicit none integer isbc, itr, j, js, je, jrow, joff, i, is, ie real rts include "size.h" include "param.h" include "pconst.h" include "stdunits.h" include "csbc.h" include "levind.h" include "mw.h" include "scalar.h" include "switch.h" ! initialize the Atmos S.B.C. at the start of each ocean segment ! (do not alter values in land) if (isbc .le. 0 .or. itr .le. 0) return if (eots .and. osegs) then do j=js,je jrow = j + joff do i=is,ie if (kmt(i,jrow) .ne. 0) sbc(i,jrow,isbc) = c0 enddo enddo endif ! accumulate surface tracers for the Atmos S.B.C. every time step if (eots) then do j=js,je jrow = j + joff do i=is,ie sbc(i,jrow,isbc) = sbc(i,jrow,isbc)+t(i,1,j,itr,taup1) enddo enddo endif ! average the surface tracers for the Atmos S.B.C. at the end of ! each ocean segment. (do not alter values in land) if (eots .and. osege) then rts = c1/ntspos do j=js,je jrow = j + joff do i=is,ie if (kmt(i,jrow) .ne. 0) & sbc(i,jrow,isbc) = rts*sbc(i,jrow,isbc) enddo enddo endif return end subroutine ivdift (joff, js, je, is, ie, n, twodt) # if defined O_implicitvmix || defined O_isopycmix || defined O_redi_diffusion !----------------------------------------------------------------------- ! solve vertical diffusion of tracers implicitly ! input: ! joff = offset relating "j" in the MW to latitude "jrow" ! js = starting row in the MW ! je = ending row in the MW ! is = starting longitude index in the MW ! ie = ending longitude index in the MW ! n = tracer component ! twodt = (2*dtts, dtts) on (leapfrog, mixing) time steps !----------------------------------------------------------------------- implicit none integer j, js, je, k, i, is, ie, n, joff real rc2dt include "size.h" include "param.h" include "pconst.h" include "stdunits.h" include "levind.h" include "mw.h" include "switch.h" include "vmixc.h" real twodt(km) ! store terms to compute implicit vertical mixing on ! diagnostic time steps # if defined O_xbts || defined O_mom_tbt if (eots) then do j=js,je do k=1,km do i=is,ie zzi(i,k,j) = t(i,k,j,n,taup1) enddo enddo enddo endif # else # if defined O_term_balances if (trmbts .and. eots) then do j=js,je do k=1,km do i=is,ie zzi(i,k,j) = t(i,k,j,n,taup1) enddo enddo enddo endif # endif # endif call invtri (t(1,1,1,n,taup1), stf(1,1,n), btf(1,1,n) &, diff_cbt(1,1,jsmw), twodt, kmt, tmask(1,1,1), is, ie &, joff, js, je) ! compute residual implicit vertical mixing # if defined O_xbts || defined O_mom_tbt if (eots) then do j=js,je do k=1,km rc2dt = c1/twodt(k) do i=is,ie zzi(i,k,j) = rc2dt*(t(i,k,j,n,taup1) - zzi(i,k,j)) enddo enddo enddo endif # else # if defined O_term_balances if (trmbts .and. eots) then do j=js,je do k=1,km rc2dt = c1/twodt(k) do i=is,ie zzi(i,k,j) = rc2dt*(t(i,k,j,n,taup1) - zzi(i,k,j)) enddo enddo enddo endif # endif # endif # endif return end subroutine swflux0 (joff, js, je, is, ie, source) # if defined O_mom && defined O_shortwave !======================================================================= ! incorporate short wave penetration via the "source" ! term. note that the divergence of shortwave for the first ! level "divpen(1)" is compensating for the effect of having ! the shortwave component already included in the total ! surface tracer flux "stf(i,j,1)" ! incorporating the penetrative shortwave radiative flux into ! the vertical diffusive flux term directly is not correct when ! vertical diffusion is solved implicitly. ! input: ! joff = offset relating "j" in the MW to latitude "jrow" ! js = starting row in the MW ! je = ending row in the MW ! is = starting longitude index in the MW ! ie = ending longitude index in the MW ! output: ! source = source term penetrative short wave !======================================================================= implicit none integer j, js, je, jrow, joff, k, i, is, ie include "size.h" include "param.h" include "pconst.h" include "stdunits.h" include "csbc.h" include "cshort.h" real source(imt,km,jsmw:jemw) if (iswr .ne. 0) then do j=js,je jrow = j + joff do k=1,km do i=is,ie source(i,k,j) = source(i,k,j) & + sbc(i,jrow,ipsw)*divpen(k) enddo enddo enddo endif # endif #endif return end ! # if defined O_npzd_fe_limitation subroutine polint (xa,ya,n,x,y,dy) ! implicit none ! integer n,i,m,ns, nmax parameter (nmax = 10) ! largest anticipated value of n real dy,x,y,xa(n),ya(n) real den,dif,dift,ho,hp,w,c(nmax),d(nmax) ! ! Given arrays xa and ya, each of length n, and a given value x, this routine ! returns a value y, and an error estimate dy. If P(x) is the polynomial of ! degree N-1 such that P(xai) = yai, i=1,....,n then the returned value y=P(x) ! ! ns=1 dif=abs(x-xa(1)) ! do i=1,n dift = abs(x-xa(i)) IF (dift.lt.dif) THEN ns = i dif = dift END IF ! c(i) = ya(i) d(i) = ya(i) ! enddo ! y = ya (ns) ! this is the initial approximation to y ns = ns-1 ! do m=1,n-1 do i=1,n-m ho = xa(i) - x hp = xa (i+m) -x w = c(i+1) - d(i) den = ho - hp IF (den.eq.0.) PAUSE 'failure in polint' den = w/den d(i) = hp*den c(i) = ho*den enddo IF (2*ns.lt.n-m) THEN dy = c(ns+1) ELSE dy = d(ns) ns = ns - 1 END IF y = y + dy enddo return end ! subroutine hunt (xa,n,x,jlo) ! integer jlo,n,inc,jhi,jm real x, xa(n) logical ascnd ! ! Given an array xa(1:n), and given a value x, returns a value jlo ! such that x is between xa(jlo) and xa(jlo +1). xa(1:n) must be ! monotonic, either increasing or decreasing. jlo=0 or jlo=n is ! returned to indicate that x is out of range. jlo on input is taken ! as the initial guess for jlo on output ! ascnd = xa(n).ge.xa(1) ! True if ascending order of table, false otherwise IF (jlo.le.0.or.jlo.gt.n) THEN ! Input guess not useful. Go to bisection jlo = 0 jhi = n+1 goto 3 END IF inc = 1 ! Set the hunting increment IF (x.ge.xa(jlo).eqv.ascnd) THEN ! Hunting up: 1 jhi = jlo + inc IF (jhi.gt.n) THEN ! Done hunting, since off end of table jhi = n + 1 ELSE IF (x.ge.xa(jhi).eqv.ascnd) THEN ! Not done hunting jlo = jhi inc = inc + inc ! so double the increment goto 1 ! and try again END IF ! Done hunting, value bracketed. ELSE ! Hunt down: jhi = jlo 2 jlo = jhi-inc IF (jlo.lt.1) THEN !Done hunting, since off end of table jlo = 0 ELSE IF (x.lt.xa(jlo).eqv.ascnd) THEN ! Not done hunting jhi = jlo inc = inc + inc ! so double the increment goto 2 ! and try again END IF ! Done hunting, value bracketed END IF ! Hunt is done, so begin the final bisection phase: ! 3 IF (jhi-jlo.eq.1) THEN IF (x.eq.xa(n)) jlo = n-1 IF (x.eq.xa(1)) jlo = 1 RETURN END IF jm = (jhi + jlo)/2 IF (x.ge.xa(jm).eqv.ascnd) THEN jlo = jm ELSE jhi = jm END IF ! GOTO 3 ! end #endif