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!**********************************************************************
! Copyright 1998,1999,2000,2001,2002,2005,2007,2008,2009,2010         *
! Andreas Stohl, Petra Seibert, A. Frank, Gerhard Wotawa,             *
! Caroline Forster, Sabine Eckhardt, John Burkhart, Harald Sodemann   *
!                                                                     *
! This file is part of FLEXPART.                                      *
!                                                                     *
! FLEXPART is free software: you can redistribute it and/or modify    *
! it under the terms of the GNU General Public License as published by*
! the Free Software Foundation, either version 3 of the License, or   *
! (at your option) any later version.                                 *
!                                                                     *
! FLEXPART is distributed in the hope that it will be useful,         *
! but WITHOUT ANY WARRANTY; without even the implied warranty of      *
! MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the       *
! GNU General Public License for more details.                        *
!                                                                     *
! You should have received a copy of the GNU General Public License   *
! along with FLEXPART.  If not, see <http://www.gnu.org/licenses/>.   *
!**********************************************************************

subroutine concoutput(itime,outnum,gridtotalunc,wetgridtotalunc, &
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     drygridtotalunc)
!                        i     i          o             o
!       o
!*****************************************************************************
!                                                                            *
!     Output of the concentration grid and the receptor concentrations.      *
!                                                                            *
!     Author: A. Stohl                                                       *
!                                                                            *
!     24 May 1995                                                            *
!                                                                            *
!     13 April 1999, Major update: if output size is smaller, dump output    *
!                    in sparse matrix format; additional output of           *
!                    uncertainty                                             *
!                                                                            *
!     05 April 2000, Major update: output of age classes; output for backward*
!                    runs is time spent in grid cell times total mass of     *
!                    species.                                                *
!                                                                            *
!     17 February 2002, Appropriate dimensions for backward and forward runs *
!                       are now specified in file par_mod                    *
!                                                                            *
!     June 2006, write grid in sparse matrix with a single write command     *
!                in order to save disk space                                 *
!                                                                            *
!     2008 new sparse matrix format                                          *
!                                                                            *
!*****************************************************************************
!                                                                            *
! Variables:                                                                 *
! outnum          number of samples                                          *
! ncells          number of cells with non-zero concentrations               *
! sparse          .true. if in sparse matrix format, else .false.            *
! tot_mu          1 for forward, initial mass mixing ration for backw. runs  *
!                                                                            *
!*****************************************************************************
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  use unc_mod
  use point_mod
  use outg_mod
  use par_mod
  use com_mod

  implicit none

  real(kind=dp) :: jul
  integer :: itime,i,ix,jy,kz,ks,kp,l,iix,jjy,kzz,nage,jjjjmmdd,ihmmss
  integer :: sp_count_i,sp_count_r
  real :: sp_fact
  real :: outnum,densityoutrecept(maxreceptor),xl,yl

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!real densityoutgrid(0:numxgrid-1,0:numygrid-1,numzgrid),
!    +grid(0:numxgrid-1,0:numygrid-1,numzgrid,maxspec,maxpointspec_act,
!    +    maxageclass)
!real wetgrid(0:numxgrid-1,0:numygrid-1,maxspec,maxpointspec_act,
!    +       maxageclass)
!real drygrid(0:numxgrid-1,0:numygrid-1,maxspec,
!    +       maxpointspec_act,maxageclass)
!real gridsigma(0:numxgrid-1,0:numygrid-1,numzgrid,maxspec,
!    +       maxpointspec_act,maxageclass),
!    +     drygridsigma(0:numxgrid-1,0:numygrid-1,maxspec,
!    +     maxpointspec_act,maxageclass),
!    +     wetgridsigma(0:numxgrid-1,0:numygrid-1,maxspec,
!    +     maxpointspec_act,maxageclass)
!real factor(0:numxgrid-1,0:numygrid-1,numzgrid)
!real sparse_dump_r(numxgrid*numygrid*numzgrid)
!integer sparse_dump_i(numxgrid*numygrid*numzgrid)

!real sparse_dump_u(numxgrid*numygrid*numzgrid)
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  real :: auxgrid(nclassunc),gridtotal,gridsigmatotal,gridtotalunc
  real :: wetgridtotal,wetgridsigmatotal,wetgridtotalunc
  real :: drygridtotal,drygridsigmatotal,drygridtotalunc
  real :: halfheight,dz,dz1,dz2,tot_mu(maxspec,maxpointspec_act)
  real,parameter :: smallnum = tiny(0.0) ! smallest number that can be handled
  real,parameter :: weightair=28.97
  logical :: sp_zer
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  logical,save :: init=.true.
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  character :: adate*8,atime*6
  character(len=3) :: anspec
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  integer :: mind
! mind        eso:added to ensure identical results between 2&3-fields versions
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  character(LEN=8),save :: file_stat='REPLACE'
  logical :: ldates_file
  integer :: ierr
  character(LEN=100) :: dates_char
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! Determine current calendar date, needed for the file name
!**********************************************************
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  jul=bdate+real(itime,kind=dp)/86400._dp
  call caldate(jul,jjjjmmdd,ihmmss)
  write(adate,'(i8.8)') jjjjmmdd
  write(atime,'(i6.6)') ihmmss
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! Overwrite existing dates file on first call, later append to it
! This fixes a bug where the dates file kept growing across multiple runs

! If 'dates' file exists, make a backup
  inquire(file=path(2)(1:length(2))//'dates', exist=ldates_file)
  if (ldates_file.and.init) then
    open(unit=unitdates, file=path(2)(1:length(2))//'dates',form='formatted', &
         &access='sequential', status='old', action='read', iostat=ierr)
    open(unit=unittmp, file=path(2)(1:length(2))//'dates.bak', access='sequential', &
         &status='replace', action='write', form='formatted', iostat=ierr)
    do while (.true.)
      read(unitdates, '(a)', iostat=ierr) dates_char
      if (ierr.ne.0) exit
      write(unit=unittmp, fmt='(a)', iostat=ierr, advance='yes') trim(dates_char)
!      if (ierr.ne.0) write(*,*) "Write error, ", ierr
    end do
    close(unit=unitdates)
    close(unit=unittmp)
  end if

  open(unitdates,file=path(2)(1:length(2))//'dates', ACCESS='APPEND', STATUS=file_stat)
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  write(unitdates,'(a)') adate//atime
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  close(unitdates)  
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  IF (init) THEN
    file_stat='OLD'
    init=.false.
  END IF


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! For forward simulations, output fields have dimension MAXSPEC,
! for backward simulations, output fields have dimension MAXPOINT.
! Thus, make loops either about nspec, or about numpoint
!*****************************************************************
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  if (ldirect.eq.1) then
    do ks=1,nspec
      do kp=1,maxpointspec_act
        tot_mu(ks,kp)=1
      end do
    end do
  else
    do ks=1,nspec
      do kp=1,maxpointspec_act
        tot_mu(ks,kp)=xmass(kp,ks)
      end do
    end do
  endif


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!*******************************************************************
! Compute air density: sufficiently accurate to take it
! from coarse grid at some time
! Determine center altitude of output layer, and interpolate density
! data to that altitude
!*******************************************************************
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  mind=memind(2)
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  do kz=1,numzgrid
    if (kz.eq.1) then
      halfheight=outheight(1)/2.
    else
      halfheight=(outheight(kz)+outheight(kz-1))/2.
    endif
    do kzz=2,nz
      if ((height(kzz-1).lt.halfheight).and. &
           (height(kzz).gt.halfheight)) goto 46
    end do
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46  kzz=max(min(kzz,nz),2)
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    dz1=halfheight-height(kzz-1)
    dz2=height(kzz)-halfheight
    dz=dz1+dz2
    do jy=0,numygrid-1
      do ix=0,numxgrid-1
        xl=outlon0+real(ix)*dxout
        yl=outlat0+real(jy)*dyout
        xl=(xl-xlon0)/dx
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        yl=(yl-ylat0)/dy !v9.1.1 
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        iix=max(min(nint(xl),nxmin1),0)
        jjy=max(min(nint(yl),nymin1),0)
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! densityoutgrid(ix,jy,kz)=(rho(iix,jjy,kzz,2)*dz1+ &
!      rho(iix,jjy,kzz-1,2)*dz2)/dz
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        densityoutgrid(ix,jy,kz)=(rho(iix,jjy,kzz,mind)*dz1+ &
             rho(iix,jjy,kzz-1,mind)*dz2)/dz
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      end do
    end do
  end do

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  do i=1,numreceptor
    xl=xreceptor(i)
    yl=yreceptor(i)
    iix=max(min(nint(xl),nxmin1),0)
    jjy=max(min(nint(yl),nymin1),0)
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!densityoutrecept(i)=rho(iix,jjy,1,2)
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    densityoutrecept(i)=rho(iix,jjy,1,mind)
  end do
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! Output is different for forward and backward simulations
  do kz=1,numzgrid
    do jy=0,numygrid-1
      do ix=0,numxgrid-1
        if (ldirect.eq.1) then
          factor3d(ix,jy,kz)=1.e12/volume(ix,jy,kz)/outnum
        else
          factor3d(ix,jy,kz)=real(abs(loutaver))/outnum
        endif
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      end do
    end do
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  end do
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!*********************************************************************
! Determine the standard deviation of the mean concentration or mixing
! ratio (uncertainty of the output) and the dry and wet deposition
!*********************************************************************
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  gridtotal=0.
  gridsigmatotal=0.
  gridtotalunc=0.
  wetgridtotal=0.
  wetgridsigmatotal=0.
  wetgridtotalunc=0.
  drygridtotal=0.
  drygridsigmatotal=0.
  drygridtotalunc=0.

  do ks=1,nspec

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    write(anspec,'(i3.3)') ks
    if ((iout.eq.1).or.(iout.eq.3).or.(iout.eq.5)) then
      if (ldirect.eq.1) then
        open(unitoutgrid,file=path(2)(1:length(2))//'grid_conc_'//adate// &
             atime//'_'//anspec,form='unformatted')
      else
        open(unitoutgrid,file=path(2)(1:length(2))//'grid_time_'//adate// &
             atime//'_'//anspec,form='unformatted')
      endif
      write(unitoutgrid) itime
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    endif

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    if ((iout.eq.2).or.(iout.eq.3)) then      ! mixing ratio
      open(unitoutgridppt,file=path(2)(1:length(2))//'grid_pptv_'//adate// &
           atime//'_'//anspec,form='unformatted')
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      write(unitoutgridppt) itime
    endif
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    do kp=1,maxpointspec_act
      do nage=1,nageclass
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        do jy=0,numygrid-1
          do ix=0,numxgrid-1
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! WET DEPOSITION
            if ((WETDEP).and.(ldirect.gt.0)) then
              do l=1,nclassunc
                auxgrid(l)=wetgridunc(ix,jy,ks,kp,l,nage)
              end do
              call mean(auxgrid,wetgrid(ix,jy), &
                   wetgridsigma(ix,jy),nclassunc)
! Multiply by number of classes to get total concentration
              wetgrid(ix,jy)=wetgrid(ix,jy) &
                   *nclassunc
              wetgridtotal=wetgridtotal+wetgrid(ix,jy)
! Calculate standard deviation of the mean
              wetgridsigma(ix,jy)= &
                   wetgridsigma(ix,jy)* &
                   sqrt(real(nclassunc))
              wetgridsigmatotal=wetgridsigmatotal+ &
                   wetgridsigma(ix,jy)
            endif

! DRY DEPOSITION
            if ((DRYDEP).and.(ldirect.gt.0)) then
              do l=1,nclassunc
                auxgrid(l)=drygridunc(ix,jy,ks,kp,l,nage)
              end do
              call mean(auxgrid,drygrid(ix,jy), &
                   drygridsigma(ix,jy),nclassunc)
! Multiply by number of classes to get total concentration
              drygrid(ix,jy)=drygrid(ix,jy)* &
                   nclassunc
              drygridtotal=drygridtotal+drygrid(ix,jy)
! Calculate standard deviation of the mean
              drygridsigma(ix,jy)= &
                   drygridsigma(ix,jy)* &
                   sqrt(real(nclassunc))
125           drygridsigmatotal=drygridsigmatotal+ &
                   drygridsigma(ix,jy)
            endif

! CONCENTRATION OR MIXING RATIO
            do kz=1,numzgrid
              do l=1,nclassunc
                auxgrid(l)=gridunc(ix,jy,kz,ks,kp,l,nage)
              end do
              call mean(auxgrid,grid(ix,jy,kz), &
                   gridsigma(ix,jy,kz),nclassunc)
! Multiply by number of classes to get total concentration
              grid(ix,jy,kz)= &
                   grid(ix,jy,kz)*nclassunc
              gridtotal=gridtotal+grid(ix,jy,kz)
! Calculate standard deviation of the mean
              gridsigma(ix,jy,kz)= &
                   gridsigma(ix,jy,kz)* &
                   sqrt(real(nclassunc))
              gridsigmatotal=gridsigmatotal+ &
                   gridsigma(ix,jy,kz)
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            end do
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          end do
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        end do




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!*******************************************************************
! Generate output: may be in concentration (ng/m3) or in mixing
! ratio (ppt) or both
! Output the position and the values alternated multiplied by
! 1 or -1, first line is number of values, number of positions
! For backward simulations, the unit is seconds, stored in grid_time
!*******************************************************************
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! Concentration output
!*********************
        if ((iout.eq.1).or.(iout.eq.3).or.(iout.eq.5)) then
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! Wet deposition
          sp_count_i=0
          sp_count_r=0
          sp_fact=-1.
          sp_zer=.true.
          if ((ldirect.eq.1).and.(WETDEP)) then
            do jy=0,numygrid-1
              do ix=0,numxgrid-1
!oncentraion greater zero
                if (wetgrid(ix,jy).gt.smallnum) then
                  if (sp_zer.eqv..true.) then ! first non zero value
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                    sp_count_i=sp_count_i+1
                    sparse_dump_i(sp_count_i)=ix+jy*numxgrid
                    sp_zer=.false.
                    sp_fact=sp_fact*(-1.)
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                  endif
                  sp_count_r=sp_count_r+1
                  sparse_dump_r(sp_count_r)= &
                       sp_fact*1.e12*wetgrid(ix,jy)/area(ix,jy)
!                sparse_dump_u(sp_count_r)=
!+                1.e12*wetgridsigma(ix,jy,ks,kp,nage)/area(ix,jy)
                else ! concentration is zero
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                  sp_zer=.true.
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                endif
              end do
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            end do
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          else
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            sp_count_i=0
            sp_count_r=0
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          endif
          write(unitoutgrid) sp_count_i
          write(unitoutgrid) (sparse_dump_i(i),i=1,sp_count_i)
          write(unitoutgrid) sp_count_r
          write(unitoutgrid) (sparse_dump_r(i),i=1,sp_count_r)
!       write(unitoutgrid) sp_count_u
!       write(unitoutgrid) (sparse_dump_u(i),i=1,sp_count_r)

! Dry deposition
          sp_count_i=0
          sp_count_r=0
          sp_fact=-1.
          sp_zer=.true.
          if ((ldirect.eq.1).and.(DRYDEP)) then
            do jy=0,numygrid-1
              do ix=0,numxgrid-1
                if (drygrid(ix,jy).gt.smallnum) then
                  if (sp_zer.eqv..true.) then ! first non zero value
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                    sp_count_i=sp_count_i+1
                    sparse_dump_i(sp_count_i)=ix+jy*numxgrid
                    sp_zer=.false.
                    sp_fact=sp_fact*(-1.)
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                  endif
                  sp_count_r=sp_count_r+1
                  sparse_dump_r(sp_count_r)= &
                       sp_fact* &
                       1.e12*drygrid(ix,jy)/area(ix,jy)
!                sparse_dump_u(sp_count_r)=
!+                1.e12*drygridsigma(ix,jy,ks,kp,nage)/area(ix,jy)
                else ! concentration is zero
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                  sp_zer=.true.
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                endif
              end do
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            end do
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          else
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            sp_count_i=0
            sp_count_r=0
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          endif
          write(unitoutgrid) sp_count_i
          write(unitoutgrid) (sparse_dump_i(i),i=1,sp_count_i)
          write(unitoutgrid) sp_count_r
          write(unitoutgrid) (sparse_dump_r(i),i=1,sp_count_r)
!       write(*,*) sp_count_u
!       write(unitoutgrid) (sparse_dump_u(i),i=1,sp_count_r)
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! Concentrations
          sp_count_i=0
          sp_count_r=0
          sp_fact=-1.
          sp_zer=.true.
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          do kz=1,numzgrid
            do jy=0,numygrid-1
              do ix=0,numxgrid-1
                if (grid(ix,jy,kz).gt.smallnum) then
                  if (sp_zer.eqv..true.) then ! first non zero value
                    sp_count_i=sp_count_i+1
                    sparse_dump_i(sp_count_i)= &
                         ix+jy*numxgrid+kz*numxgrid*numygrid
                    sp_zer=.false.
                    sp_fact=sp_fact*(-1.)
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                  endif
                  sp_count_r=sp_count_r+1
                  sparse_dump_r(sp_count_r)= &
                       sp_fact* &
                       grid(ix,jy,kz)* &
                       factor3d(ix,jy,kz)/tot_mu(ks,kp)
!                 if ((factor(ix,jy,kz)/tot_mu(ks,kp)).eq.0)
!    +              write (*,*) factor(ix,jy,kz),tot_mu(ks,kp),ks,kp
!                sparse_dump_u(sp_count_r)=
!+               ,gridsigma(ix,jy,kz,ks,kp,nage)*
!+               factor(ix,jy,kz)/tot_mu(ks,kp)
                else ! concentration is zero
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                  sp_zer=.true.
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                endif
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              end do
            end do
          end do
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          write(unitoutgrid) sp_count_i
          write(unitoutgrid) (sparse_dump_i(i),i=1,sp_count_i)
          write(unitoutgrid) sp_count_r
          write(unitoutgrid) (sparse_dump_r(i),i=1,sp_count_r)
!       write(unitoutgrid) sp_count_u
!       write(unitoutgrid) (sparse_dump_u(i),i=1,sp_count_r)
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        endif !  concentration output
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! Mixing ratio output
!********************
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        if ((iout.eq.2).or.(iout.eq.3)) then      ! mixing ratio
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! Wet deposition
          sp_count_i=0
          sp_count_r=0
          sp_fact=-1.
          sp_zer=.true.
          if ((ldirect.eq.1).and.(WETDEP)) then
            do jy=0,numygrid-1
              do ix=0,numxgrid-1
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                if (wetgrid(ix,jy).gt.smallnum) then
                  if (sp_zer.eqv..true.) then ! first non zero value
                    sp_count_i=sp_count_i+1
                    sparse_dump_i(sp_count_i)= &
                         ix+jy*numxgrid
                    sp_zer=.false.
                    sp_fact=sp_fact*(-1.)
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                  endif
                  sp_count_r=sp_count_r+1
                  sparse_dump_r(sp_count_r)= &
                       sp_fact* &
                       1.e12*wetgrid(ix,jy)/area(ix,jy)
!                sparse_dump_u(sp_count_r)=
!    +            ,1.e12*wetgridsigma(ix,jy,ks,kp,nage)/area(ix,jy)
                else ! concentration is zero
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                  sp_zer=.true.
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                endif
              end do
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            end do
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          else
            sp_count_i=0
            sp_count_r=0
          endif
          write(unitoutgridppt) sp_count_i
          write(unitoutgridppt) (sparse_dump_i(i),i=1,sp_count_i)
          write(unitoutgridppt) sp_count_r
          write(unitoutgridppt) (sparse_dump_r(i),i=1,sp_count_r)
!       write(unitoutgridppt) sp_count_u
!       write(unitoutgridppt) (sparse_dump_u(i),i=1,sp_count_r)


! Dry deposition
          sp_count_i=0
          sp_count_r=0
          sp_fact=-1.
          sp_zer=.true.
          if ((ldirect.eq.1).and.(DRYDEP)) then
            do jy=0,numygrid-1
              do ix=0,numxgrid-1
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                if (drygrid(ix,jy).gt.smallnum) then
                  if (sp_zer.eqv..true.) then ! first non zero value
                    sp_count_i=sp_count_i+1
                    sparse_dump_i(sp_count_i)= &
                         ix+jy*numxgrid
                    sp_zer=.false.
                    sp_fact=sp_fact*(-1)
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                  endif
                  sp_count_r=sp_count_r+1
                  sparse_dump_r(sp_count_r)= &
                       sp_fact* &
                       1.e12*drygrid(ix,jy)/area(ix,jy)
!                sparse_dump_u(sp_count_r)=
!    +            ,1.e12*drygridsigma(ix,jy,ks,kp,nage)/area(ix,jy)
                else ! concentration is zero
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                  sp_zer=.true.
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                endif
              end do
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            end do
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          else
            sp_count_i=0
            sp_count_r=0
          endif
          write(unitoutgridppt) sp_count_i
          write(unitoutgridppt) (sparse_dump_i(i),i=1,sp_count_i)
          write(unitoutgridppt) sp_count_r
          write(unitoutgridppt) (sparse_dump_r(i),i=1,sp_count_r)
!       write(unitoutgridppt) sp_count_u
!       write(unitoutgridppt) (sparse_dump_u(i),i=1,sp_count_r)


! Mixing ratios
          sp_count_i=0
          sp_count_r=0
          sp_fact=-1.
          sp_zer=.true.
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          do kz=1,numzgrid
            do jy=0,numygrid-1
              do ix=0,numxgrid-1
                if (grid(ix,jy,kz).gt.smallnum) then
                  if (sp_zer.eqv..true.) then ! first non zero value
                    sp_count_i=sp_count_i+1
                    sparse_dump_i(sp_count_i)= &
                         ix+jy*numxgrid+kz*numxgrid*numygrid
                    sp_zer=.false.
                    sp_fact=sp_fact*(-1.)
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                  endif
                  sp_count_r=sp_count_r+1
                  sparse_dump_r(sp_count_r)= &
                       sp_fact* &
                       1.e12*grid(ix,jy,kz) &
                       /volume(ix,jy,kz)/outnum* &
                       weightair/weightmolar(ks)/densityoutgrid(ix,jy,kz)
!                sparse_dump_u(sp_count_r)=
!+              ,1.e12*gridsigma(ix,jy,kz,ks,kp,nage)/volume(ix,jy,kz)/
!+              outnum*weightair/weightmolar(ks)/
!+              densityoutgrid(ix,jy,kz)
                else ! concentration is zero
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                  sp_zer=.true.
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                endif
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              end do
            end do
          end do
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          write(unitoutgridppt) sp_count_i
          write(unitoutgridppt) (sparse_dump_i(i),i=1,sp_count_i)
          write(unitoutgridppt) sp_count_r
          write(unitoutgridppt) (sparse_dump_r(i),i=1,sp_count_r)
!       write(unitoutgridppt) sp_count_u
!       write(unitoutgridppt) (sparse_dump_u(i),i=1,sp_count_r)
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        endif ! output for ppt
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      end do
    end do
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    close(unitoutgridppt)
    close(unitoutgrid)

  end do

  if (gridtotal.gt.0.) gridtotalunc=gridsigmatotal/gridtotal
  if (wetgridtotal.gt.0.) wetgridtotalunc=wetgridsigmatotal/ &
       wetgridtotal
  if (drygridtotal.gt.0.) drygridtotalunc=drygridsigmatotal/ &
       drygridtotal

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! Dump of receptor concentrations
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  if (numreceptor.gt.0 .and. (iout.eq.2 .or. iout.eq.3)  ) then
    write(unitoutreceptppt) itime
    do ks=1,nspec
      write(unitoutreceptppt) (1.e12*creceptor(i,ks)/outnum* &
           weightair/weightmolar(ks)/densityoutrecept(i),i=1,numreceptor)
    end do
  endif
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! Dump of receptor concentrations
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  if (numreceptor.gt.0) then
    write(unitoutrecept) itime
    do ks=1,nspec
      write(unitoutrecept) (1.e12*creceptor(i,ks)/outnum, &
           i=1,numreceptor)
    end do
  endif
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! Reinitialization of grid
!*************************
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  do ks=1,nspec
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    do kp=1,maxpointspec_act
      do i=1,numreceptor
        creceptor(i,ks)=0.
      end do
      do jy=0,numygrid-1
        do ix=0,numxgrid-1
          do l=1,nclassunc
            do nage=1,nageclass
              do kz=1,numzgrid
                gridunc(ix,jy,kz,ks,kp,l,nage)=0.
              end do
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            end do
          end do
        end do
      end do
    end do
  end do


end subroutine concoutput