;********************************************************

 ;using model biome vlass

 ;

 ; required command line input parameters:

 ;  ncl 'model_name="10cn" model_grid="T42" dirm="/.../ film="..."' 01.npp.ncl

 ;

 ; histogram normalized by rain and compute correleration

 ;**************************************************************

 load "$NCARG_ROOT/lib/ncarg/nclscripts/csm/gsn_code.ncl"

 load "$NCARG_ROOT/lib/ncarg/nclscripts/csm/gsn_csm.ncl"

 load "$NCARG_ROOT/lib/ncarg/nclscripts/csm/contributed.ncl"

 ;**************************************************************

 procedure set_line(lines:string,nline:integer,newlines:string) 

 begin

 ; add line to ascci/html file

   nnewlines = dimsizes(newlines)

   if(nline+nnewlines-1.ge.dimsizes(lines))

     print("set_line: bad index, not setting anything.") 

     return

   end if 

   lines(nline:nline+nnewlines-1) = newlines

 ;  print ("lines = " + lines(nline:nline+nnewlines-1))

   nline = nline + nnewlines

   return 

 end

 ;**************************************************************

 ; Main code.

 begin

   plot_type     = "ps"

   plot_type_new = "png"

 ;---------------------------------------------------

 ; model name and grid       

   model_grid = "T42"

   model_name  = "cn"

   model_name1 = "i01.06cn"

   model_name2 = "i01.10cn"

 ;---------------------------------------------------

 ; get biome data: model

   biome_name_mod = "Model PFT Class"

   dirm = "/fis/cgd/cseg/people/jeff/clamp_data/model/"

   film = "class_pft_"+model_grid+".nc"

   fm   = addfile(dirm+film,"r")

   classmod = fm->CLASS_PFT

   delete (fm)

 ; model data has 17 land-type classes

   nclass_mod = 17

 ;--------------------------------------------------

 ; get model data: landmask, landfrac and area

   dirm = "/fis/cgd/cseg/people/jeff/surface_data/" 

   film = "lnd_T42.nc"

   fm   = addfile (dirm+film,"r")

   landmask = fm->landmask

   landfrac = fm->landfrac

   area     = fm->area

   delete (fm)

 ; change area from km**2 to m**2

   area = area * 1.e6             

 ;----------------------------------------------------

 ; read data: time series, model

  dirm = "/fis/cgd/cseg/people/jeff/clamp_data/model/"

  film = model_name2 + "_Fire_C_1979-2004_monthly.nc"

  fm   = addfile (dirm+film,"r")

  data_mod = fm->COL_FIRE_CLOSS(18:25,:,:,:)

  delete (fm)

 ; Units for these variables are:

 ; g C/m^2/s

 ; change unit to g C/m^2/month

   nsec_per_month = 60*60*24*30

   data_mod = data_mod * nsec_per_month 

   data_mod@unit = "gC/m2/month"

 ;----------------------------------------------------

 ; read data: time series, observed

  dirm = "/fis/cgd/cseg/people/jeff/fire_data/ob/GFEDv2_C/"

  film = "Fire_C_1997-2006_monthly_"+ model_grid+".nc"

  fm   = addfile (dirm+film,"r")

  data_ob = fm->FIRE_C(0:7,:,:,:)

  delete (fm)

  ob_name = "GFEDv2"

 ; Units for these variables are:

 ; g C/m^2/month

 ;---------------------------------------------------

 ; take into account landfrac

  area     = area * landfrac

  data_mod = data_mod * conform(data_mod, landfrac, (/2,3/))

  data_ob  = data_ob  * conform(data_ob,  landfrac, (/2,3/))

  delete (landfrac)

 ;-------------------------------------------------------------

 ; html table1 data

 ; column (not including header column)

   col_head  = (/"Observed Fire_Flux (PgC/yr)" \

                ,"Model Fire_Flux (PgC/yr)" \

                ,"Correlation Coefficient" \

                ,"Ratio model/observed" \

                ,"M_score" \

                ,"Timeseries plot" \

                /)

   ncol = dimsizes(col_head)

 ; row (not including header row)                   

 ; using model biome class:  

   row_head  = (/"Not Vegetated" \

                ,"Needleleaf Evergreen Temperate Tree" \

                ,"Needleleaf Evergreen Boreal Tree" \

 ;              ,"Needleleaf Deciduous Boreal Tree" \

                ,"Broadleaf Evergreen Tropical Tree" \

                ,"Broadleaf Evergreen Temperate Tree" \

                ,"Broadleaf Deciduous Tropical Tree" \

                ,"Broadleaf Deciduous Temperate Tree" \

 ;              ,"Broadleaf Deciduous Boreal Tree" \

 ;              ,"Broadleaf Evergreen Shrub" \

                ,"Broadleaf Deciduous Temperate Shrub" \

                ,"Broadleaf Deciduous Boreal Shrub" \

                ,"C3 Arctic Grass" \

                ,"C3 Non-Arctic Grass" \

                ,"C4 Grass" \

                ,"Corn" \

 ;              ,"Wheat" \                      

                ,"All Biome" \                

                /)  

   nrow = dimsizes(row_head)                  

 ; arrays to be passed to table. 

   text = new ((/nrow, ncol/),string ) 

 ;*****************************************************************

 ; (A) get time-mean

 ;*****************************************************************

   x          = dim_avg_Wrap(data_mod(lat|:,lon|:,month|:,year|:))

   data_mod_m = dim_avg_Wrap(       x(lat|:,lon|:,month|:))

   delete (x)

   x          = dim_avg_Wrap( data_ob(lat|:,lon|:,month|:,year|:))

   data_ob_m  = dim_avg_Wrap(       x(lat|:,lon|:,month|:))

   delete (x)

 ;----------------------------------------------------

 ; compute correlation coef

   landmask_1d = ndtooned(landmask)

   data_mod_1d = ndtooned(data_mod_m)

   data_ob_1d  = ndtooned(data_ob_m)

   good = ind(landmask_1d .gt. 0.)

   cc = esccr(data_mod_1d(good),data_ob_1d(good),0)

   delete (landmask_1d)

   delete (data_mod_1d)

   delete (data_ob_1d)

   delete (good)

 ;----------------------------------------------------

 ; compute M_global

   score_max = 1.

   Mscore1 = cc * cc * score_max

   M_global = sprintf("%.2f", Mscore1)

 ;----------------------------------------------------

 ; global res

   resg                      = True             ; Use plot options

   resg@cnFillOn             = True             ; Turn on color fill

   resg@gsnSpreadColors      = True             ; use full colormap

   resg@cnLinesOn            = False            ; Turn off contourn lines

   resg@mpFillOn             = False            ; Turn off map fill

   resg@cnLevelSelectionMode = "ManualLevels"   ; Manual contour invtervals

 ;----------------------------------------------------

 ; global contour: model vs ob

   plot_name = "global_model_vs_ob"

   wks = gsn_open_wks (plot_type,plot_name)   

   gsn_define_colormap(wks,"gui_default")     

   plot=new(3,graphic)                        ; create graphic array

   resg@gsnFrame             = False          ; Do not draw plot 

   resg@gsnDraw              = False          ; Do not advance frame

 ;----------------------

 ; plot correlation coef

   gRes               = True

   gRes@txFontHeightF = 0.02

   gRes@txAngleF      = 90

   correlation_text = "(correlation coef = "+sprintf("%.2f", cc)+")"

   gsn_text_ndc(wks,correlation_text,0.20,0.50,gRes)

 ;-----------------------  

 ; plot ob

   data_ob_m = where(landmask .gt. 0., data_ob_m, data_ob_m@_FillValue)

   title     = ob_name

   resg@tiMainString  = title

   resg@cnMinLevelValF       = 1.             

   resg@cnMaxLevelValF       = 10.             

   resg@cnLevelSpacingF      = 1.

   plot(0) = gsn_csm_contour_map_ce(wks,data_ob_m,resg)       

 ;-----------------------

 ; plot model

   data_mod_m = where(landmask .gt. 0., data_mod_m, data_mod_m@_FillValue)

   title     = "Model "+ model_name

   resg@tiMainString  = title

   resg@cnMinLevelValF       = 1.             

   resg@cnMaxLevelValF       = 10.             

   resg@cnLevelSpacingF      = 1.

   plot(1) = gsn_csm_contour_map_ce(wks,data_mod_m,resg) 

 ;-----------------------

 ; plot model-ob

   resg@cnMinLevelValF  = -8.           

   resg@cnMaxLevelValF  =  2.            

   resg@cnLevelSpacingF =  1.

   zz = data_ob_m

   zz = data_mod_m - data_ob_m

   title = "Model_"+model_name+" - Observed"

   resg@tiMainString    = title

   plot(2) = gsn_csm_contour_map_ce(wks,zz,resg) 

 ; plot panel

   pres                            = True        ; panel plot mods desired

   pres@gsnMaximize                = True        ; fill the page

   gsn_panel(wks,plot,(/3,1/),pres)              ; create panel plot

   system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \

         "rm "+plot_name+"."+plot_type)

   clear (wks)

   delete (plot)

   delete (data_ob_m)

   delete (data_mod_m)

   delete (zz)

   resg@gsnFrame             = True          ; Do advance frame 

   resg@gsnDraw              = True          ; Do draw plot

 ;*******************************************************************

 ; (B) Time series : per biome

 ;*******************************************************************

  data_n = 2

  dsizes = dimsizes(data_mod)

  nyear  = dsizes(0)

  nmonth = dsizes(1)

  ntime  = nyear * nmonth

  year_start = 1997

  year_end   = 2004

 ;-------------------------------------------

 ; Calculate "nice" bins for binning the data

 ; using model biome class

   nclass = nclass_mod

   range  = fspan(0,nclass,nclass+1)

 ; Use this range information to grab all the values in a

 ; particular range, and then take an average.

   nx = dimsizes(range) - 1

 ;-------------------------------------------

 ; put data into bins

 ; using observed biome class

 ; base  = ndtooned(classob)

 ; using model biome class

   base  = ndtooned(classmod)

 ; output

   area_bin = new((/nx/),float)

   yvalues  = new((/ntime,data_n,nx/),float)

 ; Loop through each range, using base.

   do i=0,nx-1

      if (i.ne.(nx-1)) then

         idx = ind((base.ge.range(i)).and.(base.lt.range(i+1)))

      else

         idx = ind(base.ge.range(i))

      end if

 ;---------------------

 ;    for area

      data = ndtooned(area)  

      if (.not.any(ismissing(idx))) then 

         area_bin(i) = sum(data(idx))

      else

         area_bin(i) = area_bin@_FillValue

      end if

 ;#############################################################

 ; using model biome class:

 ;     set the following 4 classes to _FillValue:

 ;     (3)Needleleaf Deciduous Boreal Tree,

 ;     (8)Broadleaf Deciduous Boreal Tree,

 ;     (9)Broadleaf Evergreen Shrub,

 ;     (16)Wheat

      if (i.eq.3 .or. i.eq.8 .or. i.eq.9 .or. i.eq.16) then

         area_bin(i) = area_bin@_FillValue

      end if

 ;#############################################################  

   delete (data)

 ;---------------------

 ; for data_mod and data_ob

   do n = 0,data_n-1

      t = -1

      do m = 0,nyear-1

      do k = 0,nmonth-1

         t = t + 1 

         if (n.eq.0) then

            data = ndtooned(data_ob(m,k,:,:))

         end if

         if (n.eq.1) then

            data = ndtooned(data_mod(m,k,:,:))

         end if

 ;       Calculate average

         if (.not.any(ismissing(idx))) then 

            yvalues(t,n,i) = avg(data(idx))

         else

            yvalues(t,n,i) = yvalues@_FillValue

         end if

 ;#############################################################

 ; using model biome class:

 ;     set the following 4 classes to _FillValue:

 ;     (3)Needleleaf Deciduous Boreal Tree,

 ;     (8)Broadleaf Deciduous Boreal Tree,

 ;     (9)Broadleaf Evergreen Shrub,

 ;     (16)Wheat

         if (i.eq.3 .or. i.eq.8 .or. i.eq.9 .or. i.eq.16) then

            yvalues(t,n,i) = yvalues@_FillValue

         end if

 ;#############################################################  

      end do

      end do

      delete(data)

   end do 

     delete(idx)

   end do

   delete (base)

   delete (data_mod)

   delete (data_ob)

 ;----------------------------------------------------------------

 ; get area_good

   good = ind(.not.ismissing(area_bin))

   area_g = area_bin(good)  

   n_biome = dimsizes(good)

 ;----------------------------------------------------------------

 ; data for tseries plot

   yvalues_g = new((/ntime,data_n,n_biome/),float)

   yvalues_g@units = "TgC/month"

 ; change unit to Tg C/month

 ; change unit from g to Tg (Tera gram)

   factor_unit = 1.e-12

   yvalues_g = yvalues(:,:,good) * conform(yvalues_g,area_g,2) * factor_unit

   delete (good)

 ;-------------------------------------------------------------------

 ; general settings for line plot

   res                   = True               

   res@xyDashPatterns    = (/0,0/)          ; make lines solid

   res@xyLineThicknesses = (/2.0,2.0/)      ; make lines thicker

   res@xyLineColors      = (/"blue","red"/) ; line color

   res@trXMinF   = year_start

   res@trXMaxF   = year_end + 1

   res@vpHeightF = 0.4                 ; change aspect ratio of plot

 ; res@vpWidthF  = 0.8

   res@vpWidthF  = 0.75   

   res@tiMainFontHeightF = 0.025       ; size of title 

   res@tmXBFormat  = "f"               ; not to add trailing zeros

 ; res@gsnMaximize = True

 ;----------------------------------------------

 ; Add a boxed legend using the simple method

   res@pmLegendDisplayMode    = "Always"

 ; res@pmLegendWidthF         = 0.1

   res@pmLegendWidthF         = 0.08

   res@pmLegendHeightF        = 0.06

   res@pmLegendOrthogonalPosF = -1.17

 ; res@pmLegendOrthogonalPosF = -1.00  ;(downward)

 ; res@pmLegendOrthogonalPosF = -0.30  ;(downward)

 ; res@pmLegendParallelPosF   =  0.18

   res@pmLegendParallelPosF   =  0.23  ;(rightward)

   res@pmLegendParallelPosF   =  0.73  ;(rightward)

   res@pmLegendParallelPosF   =  0.83  ;(rightward)

 ; res@lgPerimOn             = False

   res@lgLabelFontHeightF     = 0.015

   res@xyExplicitLegendLabels = (/"observed",model_name/)

 ;*******************************************************************

 ; (A) time series plot: monthly ( 2 lines per plot)

 ;*******************************************************************

 ; x-axis in time series plot

   timeI = new((/ntime/),integer)

   timeF = new((/ntime/),float)

   timeI = ispan(1,ntime,1)

   timeF = year_start + (timeI-1)/12.

   timeF@long_name = "year" 

   plot_data = new((/2,ntime/),float)

   plot_data@long_name = "TgC/month"

 ;----------------------------------------------

 ; time series plot : per biome

   do m = 0, n_biome-1

      plot_name = "monthly_biome_"+ m

      wks = gsn_open_wks (plot_type,plot_name)   

      title = "Fire : "+ row_head(m)

      res@tiMainString = title

      plot_data(0,:) = yvalues_g(:,0,m)

      plot_data(1,:) = yvalues_g(:,1,m)

      plot = gsn_csm_xy(wks,timeF,plot_data,res)

      system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \

             "rm "+plot_name+"."+plot_type)

      clear (wks)  

      delete (plot)

   end do

 ;------------------------------------------

 ; data for table : per biome

 ; unit change from TgC/month to PgC/month

   unit_factor = 1.e-3

   score_max = 1.

   tmp_ob    = new((/ntime/),float)

   tmp_mod   = new((/ntime/),float)

   total_ob  = new((/n_biome/),float)

   total_mod = new((/n_biome/),float)

   Mscore2   = new((/n_biome/),float)

   do m = 0, n_biome-1

      tmp_ob  = yvalues_g(:,0,m) 

      tmp_mod = yvalues_g(:,1,m) 

      total_ob(m)  = avg(month_to_annual(tmp_ob, 0)) * unit_factor 

      total_mod(m) = avg(month_to_annual(tmp_mod,0)) * unit_factor

      cc = esccr(tmp_mod,tmp_ob,0)

      ratio = total_mod(m)/total_ob(m)

      good = ind(tmp_ob .ne. 0. .and. tmp_mod .ne. 0.)

      bias = sum( abs( tmp_mod(good)-tmp_ob(good) )/( abs(tmp_mod(good))+abs(tmp_ob(good)) ) )

      Mscore2(m) = (1.- (bias/dimsizes(good)))*score_max

      delete (good)

      text(m,0) = sprintf("%.2f",total_ob(m))

      text(m,1) = sprintf("%.2f",total_mod(m))

      text(m,2) = sprintf("%.2f",cc)

      text(m,3) = sprintf("%.2f",ratio)

      text(m,4) = sprintf("%.2f",Mscore2(m))

      text(m,5) = "<a href=./monthly_biome_"+m+".png>model_vs_ob</a>" 

   end do

   delete (tmp_ob)

   delete (tmp_mod)

 ;--------------------------------------------

 ; time series plot: all biome

      plot_name = "monthly_global"

      wks = gsn_open_wks (plot_type,plot_name)   

      title = "Fire : "+ row_head(n_biome)

      res@tiMainString = title

      do k = 0,ntime-1

         plot_data(0,k) = sum(yvalues_g(k,0,:))

         plot_data(1,k) = sum(yvalues_g(k,1,:))

      end do

      plot = gsn_csm_xy(wks,timeF,plot_data,res)

      system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \

             "rm "+plot_name+"."+plot_type)

      clear (wks)  

      delete (plot)

 ;------------------------------------------

 ; data for table : global

   tmp_ob  = ndtooned(yvalues_g(:,0,:))

   tmp_mod = ndtooned(yvalues_g(:,1,:))

   cc = esccr(tmp_mod,tmp_ob,0)

   ratio = sum(total_mod)/sum(total_ob) 

   text(nrow-1,0) = sprintf("%.2f",sum(total_ob))

   text(nrow-1,1) = sprintf("%.2f",sum(total_mod))

   text(nrow-1,2) = sprintf("%.2f",cc)

   text(nrow-1,3) = sprintf("%.2f",ratio)

   text(nrow-1,4) = sprintf("%.2f",avg(Mscore2))

   text(nrow-1,5) = "<a href=./monthly_global.png>model_vs_ob</a>"

 ;**************************************************

 ; create html table

 ;**************************************************

   header_text = "<H1>Fire Emission (1997-2004):  Model "+model_name+"</H1>" 

   header = (/"<HTML>" \

             ,"<HEAD>" \

             ,"<TITLE>CLAMP metrics</TITLE>" \

             ,"</HEAD>" \

             ,header_text \

             /) 

   footer = "</HTML>"

   table_header = (/ \

         "<table border=1 cellspacing=0 cellpadding=3 width=60%>" \

        ,"<tr>" \

        ,"   <th bgcolor=DDDDDD >Biome Type</th>" \

        ,"   <th bgcolor=DDDDDD >"+col_head(0)+"</th>" \

        ,"   <th bgcolor=DDDDDD >"+col_head(1)+"</th>" \

        ,"   <th bgcolor=DDDDDD >"+col_head(2)+"</th>" \

        ,"   <th bgcolor=DDDDDD >"+col_head(3)+"</th>" \

        ,"   <th bgcolor=DDDDDD >"+col_head(4)+"</th>" \

        ,"   <th bgcolor=DDDDDD >"+col_head(5)+"</th>" \

        ,"</tr>" \

        /)

   table_footer = "</table>"

   row_header = "<tr>"

   row_footer = "</tr>"

   lines = new(50000,string)

   nline = 0

   set_line(lines,nline,header)

   set_line(lines,nline,table_header)

 ;-----------------------------------------------

 ;row of table

   do n = 0,nrow-1

      set_line(lines,nline,row_header)

      txt0  = row_head(n)

      txt1  = text(n,0)

      txt2  = text(n,1)

      txt3  = text(n,2)

      txt4  = text(n,3)

      txt5  = text(n,4)

      txt6  = text(n,5)

      set_line(lines,nline,"<th>"+txt0+"</th>")

      set_line(lines,nline,"<th>"+txt1+"</th>")

      set_line(lines,nline,"<th>"+txt2+"</th>")

      set_line(lines,nline,"<th>"+txt3+"</th>")

      set_line(lines,nline,"<th>"+txt4+"</th>")

      set_line(lines,nline,"<th>"+txt5+"</th>")

      set_line(lines,nline,"<th>"+txt6+"</th>")

      set_line(lines,nline,row_footer)

   end do

 ;-----------------------------------------------

   set_line(lines,nline,table_footer)

   set_line(lines,nline,footer) 

 ; Now write to an HTML file.

   output_html = "table_fire.html"

   idx = ind(.not.ismissing(lines))

   if(.not.any(ismissing(idx))) then

     asciiwrite(output_html,lines(idx))

   else

    print ("error?")

   end if

   delete (idx)

 end