Refactoring tracers butzin second try

config/namelist.config

@@ -59,6 +59,7 @@ use_cavity_partial_cell=.false.
 use_floatice = .false.
 use_sw_pene=.true.
 flag_debug=.false.
+use_transit=.false.
 /
 
 &machine

config/namelist.transit

@@ -0,0 +1,17 @@
+! The namelist file for transient tracers
+
+&transit_param
+anthro_transit=.false.
+paleo_transit=.false.
+length_transit=1                ! 166 for anthro_transit=.true.
+ti_start_transit=1              ! 1 for D14C, 80 for CFC-12
+ifile_transit='/work/ollie/mbutzin/fesom2/input/trace_gases/Table_CO2_isoC_CFC12_SF6.txt'
+r14c_a  = 1.0000  ! atm. 14C/C ratio, global mean
+r39ar_a = 1.0000	! atm. 39Ar/Ar ratio, global mean
+xarg_a  = 9.34e-3	! atm. Argon concn. (mole fraction), global mean
+xco2_a  = 284.32e-6	! atm. CO2 concn. (mole fraction), global mean
+dic_0   = 2.00          ! mixed layer DIC concn. (mol / m**3), global mean
+arg_0   = 0.01          ! mixed layer Argon concn. (mol / m**3), global mean
+decay14 = 3.8561e-12    ! decay constant of 14C (1 / s), 1 a = 365.0 d
+decay39 = 8.1708e-11    ! decay constant of 39Ar (1 / s), 1 a = 365.0 d
+/

src/gen_model_setup.F90

@@ -9,7 +9,8 @@ subroutine setup_model(partit)
   use diagnostics, only: ldiag_solver,lcurt_stress_surf,lcurt_stress_surf, ldiag_Ri, ldiag_TurbFlux, ldiag_trflx, &
                          ldiag_dMOC, ldiag_DVD, diag_list
   use g_clock,     only: timenew, daynew, yearnew
-  use g_ic3d 
+  use g_ic3d
+  use mod_transit
   implicit none
   type(t_partit), intent(inout), target :: partit
   character(len=MAX_PATH)               :: nmlfile
@@ -80,6 +81,21 @@ subroutine setup_model(partit)
   read (fileunit, NML=diag_list)
   close (fileunit)
 
+  if (use_transit) then
+! Transient tracer input, input file names have to be specified in
+! namelist.config, nml=run_config
+    if(partit%mype==0) print *, "Transient tracers are ON. Tracer input file: ", ifile_transit
+    open (20,file=ifile_transit)
+    if (anthro_transit .or. paleo_transit) then
+      call read_transit_input
+    else
+!     Spinup / equilibrium runs with constant tracer input,
+!     read parameter values from namelist.oce
+      read (20,nml=transit_param)
+    end if
+    close (20)
+  end if
+
   if(partit%mype==0) write(*,*) 'Namelist files are read in'
 
   !_____________________________________________________________________________

src/gen_modules_clock.F90

@@ -71,6 +71,7 @@ subroutine clock_init(partit)
     USE MOD_PARTIT
     USE MOD_PARSUP
     use g_config
+    use mod_transit, only: ti_transit, ti_start_transit
     implicit none
     type(t_partit), intent(in), target    :: partit
     integer                               :: i, daystart, yearstart
@@ -95,6 +96,9 @@ subroutine clock_init(partit)
     else
        r_restart=.true.
     end if
+!   For simulations with transient tracer input data
+    if (use_transit) ti_transit = yearnew - yearstart + ti_start_transit
+
 
     ! year as character string 
     write(cyearold,'(i4)') yearold

src/gen_modules_config.F90

@@ -145,9 +145,11 @@ module g_config
   character(100)                :: which_toy="soufflet" 
   logical                       :: flag_debug=.false.    ! prints name of actual subroutine he is in 
   logical                       :: flag_warn_cflz=.true. ! switches off cflz warning
+  logical                       :: use_transit=.false.    ! switches off transient tracers
   namelist /run_config/ use_ice,use_floatice, use_sw_pene, use_cavity, & 
                         use_cavity_partial_cell, cavity_partial_cell_thresh, &
-                        use_cavity_fw2press, toy_ocean, which_toy, flag_debug, flag_warn_cflz, lwiso !---wiso-code: add lwiso
+                        use_cavity_fw2press, toy_ocean, which_toy, flag_debug, flag_warn_cflz, lwiso, &
+                        use_transit
 
   !_____________________________________________________________________________
   ! *** others ***

src/io_meandata.F90

@@ -130,6 +130,7 @@ subroutine ini_mean_io(ice, dynamics, tracers, partit, mesh)
     use g_config,        only: use_cavity
     use g_forcing_param, only: use_virt_salt, use_landice_water, use_age_tracer !---fwf-code, age-code
     use g_config, only : lwiso !---wiso-code
+    use mod_transit, only : index_transit 
     implicit none
     integer                   :: i, j
     integer, save             :: nm_io_unit  = 103       ! unit to open namelist file, skip 100-102 for cray
@@ -469,11 +470,16 @@ subroutine ini_mean_io(ice, dynamics, tracers, partit, mesh)
     end if
 !---wiso-code-end
 
-CASE ('otracers  ')
-    do j=3, tracers%num_tracers
-    write (id_string, "(I3.3)") tracers%data(j)%ID
-    call def_stream((/nl-1, nod2D/),  (/nl-1, myDim_nod2D/),  'tra_'//id_string, 'pasive tracer ID='//id_string, 'n/a', tracers%data(j)%values(:,:), io_list(i)%freq, io_list(i)%unit, io_list(i)%precision, partit, mesh)
-    end do
+! Transient tracers
+CASE('SF6        ')
+    if (use_transit)  call def_stream((/nl-1, nod2D/),  (/nl-1, myDim_nod2D/),  'sf6', 'sulfur hexafluoride', 'mol / m**3', tracers%data(index_transit(1))%values(:,:),  io_list(i)%freq, io_list(i)%unit, io_list(i)%precision, partit, mesh)
+CASE('CFC-12     ')
+    if (use_transit)  call def_stream((/nl-1, nod2D/),  (/nl-1, myDim_nod2D/),  'cfc12', 'chlorofluorocarbon CFC-12', 'mol / m**3', tracers%data(index_transit(2))%values(:,:),  io_list(i)%freq, io_list(i)%unit, io_list(i)%precision, partit, mesh)
+CASE('R14C       ')
+    if (use_transit)  call def_stream((/nl-1, nod2D/),  (/nl-1, myDim_nod2D/),  'r14c', '14C / C ratio of DIC', 'none', tracers%data(index_transit(3))%values(:,:),  io_list(i)%freq, io_list(i)%unit, io_list(i)%precision, partit, mesh)
+CASE('R39Ar       ')
+    if (use_transit)  call def_stream((/nl-1, nod2D/),  (/nl-1, myDim_nod2D/),  'r39ar', '39Ar / Ar ratio', 'none', tracers%data(index_transit(4))%values(:,:),  io_list(i)%freq, io_list(i)%unit, io_list(i)%precision, partit, mesh)
+! Transient tracers end
 CASE ('slope_x   ')
     call def_stream((/nl-1,  nod2D/), (/nl-1, myDim_nod2D/),  'slope_x',   'neutral slope X',    'none', slope_tapered(1,:,:), io_list(i)%freq, io_list(i)%unit, io_list(i)%precision, partit, mesh)
 CASE ('slope_y   ')

src/io_restart.F90

@@ -107,7 +107,24 @@ subroutine ini_ocean_io(year, dynamics, tracers, partit, mesh)
          trname='salt'
          longname='salinity'
          units='psu'
+       CASE(6)
+         trname='sf6'
+         longname='sulfur hexafluoride'
+         units='mol / m**3'
+       CASE(12)
+         trname='cfc12'
+         longname='chlorofluorocarbon CFC-12'
+         units='mol / m**3'
+       CASE(14)
+         trname='r14c'
+         longname='14C / C ratio of DIC'
+         units='none'
+       CASE(39)
+         trname='r39ar'
+         longname='39Ar / Ar ratio'
+         units='none'
        CASE DEFAULT
+!        other passive tracers
          write(trname,'(A3,i1)') 'tra_', j
          write(longname,'(A15,i1)') 'passive tracer ', j
          units='none'