# HG changeset patch
# User Forrest Hoffman <forrest@climatemodeling.org>
# Date 1238090541 14400
# Node ID 4be95183fbcd4e3ca5e9e211fa1dc4d2f36d4ad6
# Parent  0c6405ab2ff4f69dd34fc64427ac869ee1ac0500
Modifications to scoring and graphics production for the final version of code for the C-LAMP paper in GCB.

diff -r 0c6405ab2ff4 -r 4be95183fbcd all/01.npp.ncl
--- a/all/01.npp.ncl	Mon Jan 26 22:08:20 2009 -0500
+++ b/all/01.npp.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -193,7 +193,8 @@
 ;(3) global data, interpolated into model grid
 
  dirg = diro + "npp/"
- filg = "Npp_"+model_grid+"_mean.nc"
+ ;filg = "Npp_"+model_grid+"_mean.nc"
+ filg = "npp_"+model_grid+"_mean_2000-2004.nc"
  fglobe   = addfile (dirg+filg,"r")
  
  nppglobe0 = fglobe->NPP
@@ -225,11 +226,11 @@
 ;
 ; rain81  : mm/year
 ; rainmod : mm/s
-; npp81   : g C/m^2/year
-; nppmod81: g C/m^2/s
-; nppglobe: g C/m^2/year
+; npp81   : gC/m^2/year
+; nppmod81: gC/m^2/s
+; nppglobe: gC/m^2/year
 ;
-; We want to convert these to "m/year" and "g C/m^2/year".
+; We want to convert these to "m/year" and "gC/m^2/year".
 
   nsec_per_year = 60*60*24*365                 
 
@@ -243,27 +244,27 @@
 
   nppmod  = nppmod * nsec_per_year
 
-  npp81@units      = "gC/m^2/yr"
-  nppmod81@units   = "gC/m^2/yr"
-  npp933@units     = "gC/m^2/yr"
-  nppmod933@units  = "gC/m^2/yr"
-  nppmod@units     = "gC/m^2/yr"
-  nppglobe@units   = "gC/m^2/yr"
-  rain81@units     = "m/yr"
-  rainmod81@units  = "m/yr"
-  rain933@units    = "m/yr"
-  rainmod933@units = "m/yr"
+  npp81@units      = "gC m~S~-2~N~ y~S~-1~N~"
+  nppmod81@units   = "gC m~S~-2~N~ y~S~-1~N~"
+  npp933@units     = "gC m~S~-2~N~ y~S~-1~N~"
+  nppmod933@units  = "gC m~S~-2~N~ y~S~-1~N~"
+  nppmod@units     = "gC m~S~-2~N~ y~S~-1~N~"
+  nppglobe@units   = "gC m~S~-2~N~ y~S~-1~N~"
+  rain81@units     = "m y~S~-1~N~"
+  rainmod81@units  = "m y~S~-1~N~"
+  rain933@units    = "m y~S~-1~N~"
+  rainmod933@units = "m y~S~-1~N~"
 
-  npp81@long_name      = "Obs. NPP (gC/m2/year)"
-  npp933@long_name     = "Obs. NPP (gC/m2/year)"
-  nppmod81@long_name   = "Model NPP (gC/m2/year)"
-  nppmod933@long_name  = "Model NPP (gC/m2/year)"
-  nppmod@long_name     = "Model NPP (gC/m2/year)"
-  nppglobe@long_name   = "NPP (gC/m2/year)"
-  rain81@long_name     = "PREC (m/year)"
-  rain933@long_name    = "PREC (m/year)"
-  rainmod81@long_name  = "PREC (m/year)"
-  rainmod933@long_name = "PREC (m/year)"
+  npp81@long_name      = "Obs. NPP (gC m~S~-2~N~ y~S~-1~N~)"
+  npp933@long_name     = "Obs. NPP (gC m~S~-2~N~ y~S~-1~N~)"
+  nppmod81@long_name   = "Model NPP (gC m~S~-2~N~ y~S~-1~N~)"
+  nppmod933@long_name  = "Model NPP (gC m~S~-2~N~ y~S~-1~N~)"
+  nppmod@long_name     = "Model NPP (gC m~S~-2~N~ y~S~-1~N~)"
+  nppglobe@long_name   = "NPP (gC m~S~-2~N~ y~S~-1~N~)"
+  rain81@long_name     = "PREC (m y~S~-1~N~)"
+  rain933@long_name    = "PREC (m y~S~-1~N~)"
+  rainmod81@long_name  = "PREC (m y~S~-1~N~)"
+  rainmod933@long_name = "PREC (m y~S~-1~N~)"
 
 ; change longitude from 0-360 to -180-180
   x81  = where(x81  .gt. 180., x81 -360., x81 )
@@ -289,8 +290,8 @@
        ,"   <th bgcolor=DDDDDD >Site ID</th>" \
        ,"   <th bgcolor=DDDDDD >Latitude</th>" \
        ,"   <th bgcolor=DDDDDD >Longitude</th>" \
-       ,"   <th bgcolor=DDDDDD >NPP(gC/m2/year)</th>" \
-       ,"   <th bgcolor=DDDDDD >PPT(m/year)</th>" \
+       ,"   <th bgcolor=DDDDDD >NPP (gC m<small><sup>-2</sup></small> y<small><sup>-1</sup></small>)</th>" \
+       ,"   <th bgcolor=DDDDDD >PPT (m y<small><sup>-1</sup></small>)</th>" \
        ,"</tr>" \
        /)
   table_footer = "</table>"
@@ -354,8 +355,8 @@
        ,"   <th bgcolor=DDDDDD >Site ID</th>" \
        ,"   <th bgcolor=DDDDDD >Latitude</th>" \
        ,"   <th bgcolor=DDDDDD >Longitude</th>" \
-       ,"   <th bgcolor=DDDDDD >NPP(gC/m2/year)</th>" \
-       ,"   <th bgcolor=DDDDDD >PPT(m/year)</th>" \
+       ,"   <th bgcolor=DDDDDD >NPP (gC m<small><sup>-2</sup></small> y<small><sup>-1</sup></small>)</th>" \
+       ,"   <th bgcolor=DDDDDD >PPT (m y<small><sup>-1</sup></small>)</th>" \
        ,"</tr>" \
        /)
   table_footer = "</table>"
@@ -425,8 +426,8 @@
        ,"   <th bgcolor=DDDDDD rowspan=2>Site ID</th>" \
        ,"   <th bgcolor=DDDDDD rowspan=2>Latitude</th>" \
        ,"   <th bgcolor=DDDDDD rowspan=2>Longitude</th>" \
-       ,"   <th bgcolor=DDDDDD colspan=2>NPP(gC/m2.year)</th>" \
-       ,"   <th bgcolor=DDDDDD colspan=2>RAIN(m/year)</th>" \
+       ,"   <th bgcolor=DDDDDD colspan=2>NPP (gC m<small><sup>-2</sup></small> y<small><sup>-1</sup></small>)</th>" \
+       ,"   <th bgcolor=DDDDDD colspan=2>RAIN (m y<small><sup>-1</sup></small>)</th>" \
        ,"</tr>" \
        ,"<tr>" \
        ,"   <th bgcolor=DDDDDD >observed</th>" \
@@ -506,8 +507,8 @@
        ,"   <th bgcolor=DDDDDD rowspan=2>Site ID</th>" \
        ,"   <th bgcolor=DDDDDD rowspan=2>Latitude</th>" \
        ,"   <th bgcolor=DDDDDD rowspan=2>Longitude</th>" \
-       ,"   <th bgcolor=DDDDDD colspan=2>NPP(gC/m2.year)</th>" \
-       ,"   <th bgcolor=DDDDDD colspan=2>RAIN(m/year)</th>" \
+       ,"   <th bgcolor=DDDDDD colspan=2>NPP (gC m<small><sup>-2</sup></small> y<small><sup>-1</sup></small>)</th>" \
+       ,"   <th bgcolor=DDDDDD colspan=2>RAIN (m y<small><sup>-1</sup></small>)</th>" \
        ,"</tr>" \
        ,"<tr>" \
        ,"   <th bgcolor=DDDDDD >observed</th>" \
@@ -569,7 +570,8 @@
 ;***************************************************************************
   
  plot_name = "scatter_model_vs_ob_81"
- title     = model_name +" vs Class A observations (81 sites)"
+ ;title     = model_name +" vs Class A observations (81 sites)"
+ title     = model_name +" (1975-2000) vs Class A observations (81 sites)"
 
  wks   = gsn_open_wks (plot_type,plot_name)    ; open workstation
  res                   = True                  ; plot mods desired
@@ -587,7 +589,7 @@
  ccr81 = esccr(nppmod81,npp81,0)
 ;print (ccr81)
 
- score_max = 2.5
+ score_max = 1.0
 
  bias = sum(abs(nppmod81-npp81)/(abs(nppmod81)+abs(npp81))) 
  M81s = (1. - (bias/dimsizes(y81)))*score_max
@@ -618,15 +620,16 @@
  delete (wks)
  delete (dum)
 
- system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
+ system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
         "rm "+plot_name+"."+plot_type)
+ ;system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new)
 
 ;***************************************************************************
 ;(A)-6 scatter plot, model vs ob 933
 ;***************************************************************************
   
  plot_name = "scatter_model_vs_ob_933"
- title     = model_name +" vs Class B Observations (933 sites)"
+ title     = model_name +" (1975-2000) vs Class B Observations (933 sites)"
 
  wks   = gsn_open_wks (plot_type,plot_name)    ; open workstation
  res                   = True                  ; plot mods desired
@@ -644,7 +647,7 @@
 
  ccr933 = esccr(nppmod933,npp933,0)
 
- score_max = 2.5
+ score_max = 1.0
 
  bias  = sum(abs(nppmod933-npp933)/(abs(nppmod933)+abs(npp933)))
  M933s = (1. - (bias/dimsizes(y933)))*score_max
@@ -675,8 +678,9 @@
  delete (wks)
  delete (dum)
 
- system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
+ system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
         "rm "+plot_name+"."+plot_type)
+ ;system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new)
 
 ;**************************************************************************
 ;(B) histogram 81
@@ -711,7 +715,7 @@
 
  ccr81h = esccr(uu,vv,0)
 
- score_max = 2.5
+ score_max = 2.0
 
  bias = sum(abs(vv-uu)/(abs(vv)+abs(uu)))
  M81h = (1.- (bias/dimsizes(uu)))*score_max
@@ -742,8 +746,8 @@
   resh@trYMinF        = min(mn_yvalues) - 10.
   resh@trYMaxF        = max(mx_yvalues) + 10.
 
-  resh@tiYAxisString  = "NPP (g C/m2/year)"
-  resh@tiXAxisString  = "Precipitation (m/year)"
+  resh@tiYAxisString  = "NPP (gC m~S~-2~N~ y~S~-1~N~)"
+  resh@tiXAxisString  = "Precipitation (m y~S~-1~N~)"
 
   max_bar = new((/2,nx/),graphic)
   min_bar = new((/2,nx/),graphic)
@@ -765,6 +769,9 @@
 
   xy = gsn_csm_xy(wks,xvalues(0,:),yvalues(0,:),resh)
 
+  ; Added by Forrest Hoffman to print out values on Wed Feb  4 14:36:00 EST 2009
+  print("Observations: " + xvalues(0,:) + " " + yvalues(0,:))
+
 ;-------------------------------
 ;Attach the vertical bar and the horizontal cap line 
 
@@ -809,15 +816,16 @@
   draw(xy)
   delete (wks)
 
- system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
+ system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
         "rm "+plot_name+"."+plot_type)
+ ;system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new)
 
 ;****************************************************************************
 ;(B)-2 histogram plot, model vs ob 81 site 
 ;****************************************************************************
 
   plot_name = "histogram_model_vs_ob_81"
-  title     = model_name+ " vs Class A Observations (81 sites)"
+  title     = model_name+ " (1975-2000) vs Class A Observations (81 sites)"
   resh@tiMainString  = title
 
   wks   = gsn_open_wks (plot_type,plot_name)    ; open workstation
@@ -847,6 +855,10 @@
   gsn_text_ndc(wks,correlation_text,0.56,0.85,tRes)
 
   xy = gsn_csm_xy(wks,xvalues,yvalues,resh)
+
+  ; Added by Forrest Hoffman to print out values on Wed Feb  4 14:36:00 EST 2009
+  print(model_name + ": " + xvalues(1,:) + " " + yvalues(1,:))
+  ;print("All: " + xvalues(:,:) + " " + yvalues(:,:))
 ;-------------------------------
 ;Attach the vertical bar and the horizontal cap line 
 
@@ -883,8 +895,9 @@
   draw(xy)
   delete(wks)
 
- system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
+ system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
         "rm "+plot_name+"."+plot_type)
+ ;system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new)
 
  delete (RAIN1_1D)
  delete (RAIN2_1D)
@@ -935,7 +948,7 @@
 
  ccr933h = esccr(uu,vv,0)
 
- score_max = 2.5
+ score_max = 2.0
 
  bias  = sum(abs(vv-uu)/(abs(vv)+abs(uu)))
  M933h = (1.- (bias/dimsizes(uu)))*score_max
@@ -967,8 +980,8 @@
   resh@trYMinF        = min(mn_yvalues) - 10.
   resh@trYMaxF        = max(mx_yvalues) + 10.
 
-  resh@tiYAxisString  = "NPP (g C/m2/year)"
-  resh@tiXAxisString  = "Precipitation (m/year)"
+  resh@tiYAxisString  = "NPP (gC m~S~-2~N~ y~S~-1~N~)"
+  resh@tiXAxisString  = "Precipitation (m y~S~-1~N~)"
 
   max_bar = new((/2,nx/),graphic)
   min_bar = new((/2,nx/),graphic)
@@ -990,6 +1003,9 @@
 
   xy = gsn_csm_xy(wks,xvalues(0,:),yvalues(0,:),resh)
 
+  ; Added by Forrest Hoffman to print out values on Wed Feb  4 14:36:00 EST 2009
+  print("Observations: " + xvalues(0,:) + " " + yvalues(0,:))
+
 ;-------------------------------
 ;Attach the vertical bar and the horizontal cap line 
 
@@ -1027,15 +1043,16 @@
   delete (xy)
   delete (wks)
 
- system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
+ system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
         "rm "+plot_name+"."+plot_type)
+ ;system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new)
 
 ;****************************************************************************
 ;(B)-4 histogram plot, model vs ob 933 site
 ;**************************************************************************** 
 
   plot_name = "histogram_model_vs_ob_933"
-  title     = model_name+ " vs Class B Observations (933 sites)"
+  title     = model_name+ " (1975-2000) vs Class B Observations (933 sites)"
   resh@tiMainString  = title
 
   wks   = gsn_open_wks (plot_type,plot_name)    ; open workstation
@@ -1065,6 +1082,9 @@
   gsn_text_ndc(wks,correlation_text,0.56,0.85,tRes)
 
   xy = gsn_csm_xy(wks,xvalues,yvalues,resh)
+
+  ; Added by Forrest Hoffman to print out values on Wed Feb  4 14:36:00 EST 2009
+  print("Observations: " + xvalues(1,:) + " " + yvalues(1,:))
 ;-------------------------------
 ;Attach the vertical bar and the horizontal cap line 
 
@@ -1102,8 +1122,30 @@
   delete(xy)
   delete(wks)
 
- system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
+ system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
         "rm "+plot_name+"."+plot_type)
+ ;system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new)
+
+;***************************************************************************
+; Read 2000-2004 dataset for MODIS comparison
+;***************************************************************************
+
+;------------------------------------------------------
+; read model data
+
+ fm   = addfile (dirm+film9,"r")
+  
+ nppmod0  = fm->NPP
+ xm       = fm->lon  
+ ym       = fm->lat
+
+ delete (fm)
+
+ nppmod   = nppmod0(0,:,:)
+ delete (nppmod0)
+ nppmod  = nppmod * nsec_per_year
+ nppmod@units     = "gC m~S~-2~N~ y~S~-1~N~"
+ nppmod@long_name     = "Model NPP (gC m~S~-2~N~ y~S~-1~N~)"
 
 ;***************************************************************************
 ;(C) global contour 
@@ -1132,7 +1174,7 @@
   nppglobe = where(ismissing(nppglobe).and.(ismissing(nppmod).or.(nppmod.lt.delta)),0.,nppglobe)
   
   plot_name = "global_ob"
-  title     = "Observed MODIS MOD 17"
+  title     = "MODIS MOD17A3 (2000-2004)"
   resg@tiMainString  = title
 
   wks = gsn_open_wks (plot_type,plot_name)   ; open workstation
@@ -1142,14 +1184,15 @@
    
   delete (wks)
 
- system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
+ system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
         "rm "+plot_name+"."+plot_type)
+ ;system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new)
 ;****************************************************************************
 ;(C)-2 global contour plot, model
 ;****************************************************************************
 
   plot_name = "global_model"
-  title     = "Model "+ model_name
+  title     = "Model "+ model_name + " (2000-2004)"
   resg@tiMainString  = title
 
   wks = gsn_open_wks (plot_type,plot_name)   ; open workstation
@@ -1159,8 +1202,9 @@
    
   delete (wks)
 
- system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
+ system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
         "rm "+plot_name+"."+plot_type)
+ ;system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new)
 
 ;****************************************************************************
 ;(C)-3 global contour plot, model vs ob
@@ -1190,7 +1234,7 @@
 
   ccrG = esccr(ug,vg,0)
 
-  score_max = 5.0
+  score_max = 2.0
 
   MG   = (ccrG*ccrG)* score_max
   M_npp_G = sprintf("%.2f", MG)
@@ -1215,14 +1259,14 @@
 ;--------------------------------------------------------------------  
 ;(a) ob
 
-  title     = "Observed MODIS MOD 17"
+  title     = "MODIS MOD17A3 (2000-2004)"
   resg@tiMainString  = title
 
   plot(0) = gsn_csm_contour_map_ce(wks,nppglobe,resg)       
 
 ;(b) model
 
-  title     = "Model "+ model_name
+  title     = "Model "+ model_name + " (2000-2004)"
   resg@tiMainString  = title
 
   plot(1) = gsn_csm_contour_map_ce(wks,nppmod,resg) 
@@ -1231,7 +1275,7 @@
 
   zz = nppmod
   zz = nppmod - nppglobe
-  title = "Model_"+model_name+" - Observed"
+  title = "Model "+model_name+" - MODIS MOD17A3"
 
   resg@cnMinLevelValF  = -500           ; Min level
   resg@cnMaxLevelValF  =  500.          ; Max level
@@ -1250,8 +1294,9 @@
   delete (wks)
   delete (plot)
 
- system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
+ system("convert -trim -density 150 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
         "rm "+plot_name+"."+plot_type)
+ ;system("convert -trim -density 150 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new)
 
 ;***************************************************************************
 ;(D)-1 zonal line plot, ob
@@ -1261,7 +1306,7 @@
   vv@long_name = nppglobe@long_name
 
   plot_name = "zonal_ob"
-  title     = "Observed MODIS MOD 17"
+  title     = "MODIS MOD17A3 (2000-2004)"
 
   resz = True
   resz@tiMainString  = title
@@ -1272,8 +1317,9 @@
    
   delete (wks)
 
- system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
+ system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
         "rm "+plot_name+"."+plot_type)
+ ;system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new)
 
 ;****************************************************************************
 ;(D)-2 zonal line plot, model vs ob
@@ -1288,7 +1334,7 @@
 ;-------------------------------------------
 ; compute correlation coef and M score
 
-  score_max = 5.0
+  score_max = 2.0
 
   ccrZ = esccr(s(1,:), s(0,:),0)
   MZ   = (ccrZ*ccrZ)* score_max
@@ -1303,7 +1349,7 @@
          "mv -f "+html_new+" "+html_name)
 ;-------------------------------------------
   plot_name = "zonal_model_vs_ob"
-  title     = "Zonal Average"
+  title     = "Zonal Average (2000-2004)"
   resz@tiMainString  = title
 
   wks = gsn_open_wks (plot_type,plot_name)   
@@ -1324,16 +1370,16 @@
   resz@pmLegendDisplayMode    = "Always"      ; turn on legend
   resz@pmLegendSide           = "Top"         ; Change location of 
 ; resz@pmLegendParallelPosF   = .45           ; move units right
-  resz@pmLegendParallelPosF   = .82           ; move units right
+  resz@pmLegendParallelPosF   = .75           ; move units right
   resz@pmLegendOrthogonalPosF = -0.4          ; move units down
 
   resz@pmLegendWidthF         = 0.10          ; Change width and
   resz@pmLegendHeightF        = 0.10          ; height of legend.
-  resz@lgLabelFontHeightF     = .02           ; change font height
+  resz@lgLabelFontHeightF     = .015          ; change font height
 ; resz@lgTitleOn              = True          ; turn on legend title
 ; resz@lgTitleString          = "Example"     ; create legend title
 ; resz@lgTitleFontHeightF     = .025          ; font of legend title
-  resz@xyExplicitLegendLabels = (/"Observed",model_name/) ; explicit labels
+  resz@xyExplicitLegendLabels = (/"MODIS MOD17A3",model_name/) ; explicit labels
 ;--------------------------------------------------------------------
   zRes  = True
   zRes@txFontHeightF = 0.025
@@ -1347,8 +1393,9 @@
                                            
   delete (wks)
 
- system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
+ system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
         "rm "+plot_name+"."+plot_type)
+ ;system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new)
 
 ;***************************************************************************
 ; add total score and write to file
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/02.lai.ncl
--- a/all/02.lai.ncl	Mon Jan 26 22:08:20 2009 -0500
+++ b/all/02.lai.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -94,8 +94,8 @@
 ;---------------------------------
 ; read lai data: observed
 
-  ;ob_name = "MODIS MOD 15A2 2000-2005"
-  ob_name = "MODIS MOD 15A2 2000-2004"
+  ;ob_name = "MODIS MOD15A2 (2000-2005)"
+  ob_name = "MODIS MOD15A2 (2000-2004)"
 
   dir_l = diro + "lai/"
   ;filo = "LAI_2000-2005_MONS_"+model_grid+".nc"
@@ -145,7 +145,7 @@
 
   delete (wks)
 
-  system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
+  system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
          "rm "+plot_name+"."+plot_type)
  
 ;************************************************
@@ -167,7 +167,7 @@
 
   delete (wks)
 
-  system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
+  system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
          "rm "+plot_name+"."+plot_type)
  
 ;*******************************************************************
@@ -258,6 +258,7 @@
   if (m .eq. 0) then
      data_ob  = dim_avg_Wrap(laiob (lat|:,lon|:,time|:))
      data_mod = dim_avg_Wrap(laimod(lat|:,lon|:,time|:))
+     score_max = 4.0
   end if
 
 ; (B) Max
@@ -283,6 +284,8 @@
         data_mod(j,i) = max(laimod(:,j,i))
      end do
      end do
+
+     score_max = 5.0
           
   end if
 
@@ -309,6 +312,8 @@
         data_mod(j,i) = maxind(laimod(:,j,i)) + 1
      end do
      end do
+
+     score_max = 6.0
         
   end if
 
@@ -373,7 +378,9 @@
 ; compute correlation coef and M score 
 ;=====================================
 
-  score_max = 5.0
+  ; FMH: Max scores are depend on which component is being analyzed, so this
+  ; is now set in each if statement above.
+  ;score_max = 5.0
 
   u       = yvalues(0,:)
   v       = yvalues(1,:)
@@ -489,15 +496,17 @@
   delete (wks)
   delete (plot)
 
-  system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
+  system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
          "rm "+plot_name+"."+plot_type)
+  ;system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new)
+  
 
 ;============================
 ; global contour : model
 ;============================
 
   plot_name = "global_"+component(m)+"_model"  
-  title     = "Model " + model_name
+  title     = "Model " + model_name + " (2000-2004)"
   resg@tiMainString  = title
 
   wks = gsn_open_wks (plot_type,plot_name)
@@ -508,8 +517,9 @@
   delete (wks)
   delete (plot)
 
-  system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
+  system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
          "rm "+plot_name+"."+plot_type)
+  ;system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new)
 
 ;================================
 ; global contour: model vs ob
@@ -544,7 +554,7 @@
 
 ; plot model
 
-  title     = "Model "+ model_name
+  title     = "Model "+ model_name + " (2000-2004)"
   resg@tiMainString  = title
 
   plot(1) = gsn_csm_contour_map_ce(wks,data_mod,resg) 
@@ -571,7 +581,7 @@
 
   zz = data_mod
   zz = data_mod - data_ob
-  title = "Model_"+model_name+" - Observed"
+  title = "Model_"+model_name+" - MODIS MOD15A2"
   resg@tiMainString    = title
 
   plot(2) = gsn_csm_contour_map_ce(wks,zz,resg) 
@@ -586,8 +596,9 @@
   delete (wks)
   delete (plot)
 
-  system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
+  system("convert -trim -density 150 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
          "rm "+plot_name+"."+plot_type)
+  ;system("convert -trim -density 150 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new)
 
   delete (data_ob)
   delete (data_mod)
@@ -833,7 +844,7 @@
      delete (wks)
      delete (plot)
 
-     system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
+     system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
             "rm "+plot_name+"."+plot_type)
   end do
 
@@ -857,7 +868,7 @@
      delete (wks)
      delete (plot)
 
-     system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
+     system("convert -trim -density 100 "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
             "rm "+plot_name+"."+plot_type)
 
   delete (plot_data)
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/03.co2.ncl
--- a/all/03.co2.ncl	Mon Jan 26 22:08:20 2009 -0500
+++ b/all/03.co2.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -186,7 +186,7 @@
 
   if (z .eq. 3) then 
      zone = "90S-EQ" 
-     score_max = 5.0
+     score_max = 0.0
      ind_z = ind(lat_ob .lt. 0. )
   end if
 
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/04.biomass.ncl
--- a/all/04.biomass.ncl	Mon Jan 26 22:08:20 2009 -0500
+++ b/all/04.biomass.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -44,7 +44,7 @@
 ;--------------------------------------------
 ; read model data
 
- fm   = addfile (dirm+film1,"r")
+ fm   = addfile (dirm+film11,"r")
 
  if (BGC .eq. "cn") then 
     data1  = fm->LIVESTEMC
@@ -83,7 +83,7 @@
 ;------------------------------------------------
 ; read ob data
 
- ob_name = "LC15_Amazon_Biomass"
+ ob_name = "LC15 Amazon Biomass"
 
  dir_b = diro + "biomass/"
  fil_b = "amazon_biomass_"+model_grid+".nc"
@@ -99,9 +99,9 @@
 ; Units for these variables are:
 ; dataob   : MgC/ha
 ; datamod0 : gC/m2
-; We want to convert these to KgC/m2
+; We want to convert these to kgC/m2
 ; ha = 100m*100m = 10,000 m2
-; MgC/ha*1000/10,000 = KgC/m2
+; MgC/ha*1000/10,000 = kgC/m2
 
   factor_aboveground = 0.5
   factor_unit_ob     = 0.1
@@ -110,8 +110,8 @@
   dataob   = dataob * factor_aboveground * factor_unit_ob
   datamod0 = datamod0 * factor_unit_mod 
 
-  dataob@units      = "KgC/m2"
-  datamod0@units    = "KgC/m2"
+  dataob@units      = "kg C m~S~-2~N~"
+  datamod0@units    = "kg C m~S~-2~N~"
 
   dataob@long_name      = "Amazon Biomass"
   datamod0@long_name    = "Amazon Biomass"
@@ -139,7 +139,7 @@
 ;********************************************************
 ; sum over amazom_mask area:
 
-; Peta g = 1.e15 g = 1.e12 Kg
+; Peta g = 1.e15 g = 1.e12 kg
   factor_unit = 1.e-12
 
 ; mask_amazon = where(mask_amazon .ge. 0.5, mask_amazon ,0.)
@@ -204,6 +204,7 @@
 
   system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
          "rm "+plot_name+"."+plot_type)
+  ;system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new)
 
 ;------------------------------------------------------------------------
 ; contour ob
@@ -225,6 +226,7 @@
 
   system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
          "rm "+plot_name+"."+plot_type)
+  ;system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new)
 
 ;------------------------------------------------------------------------
 ; contour model
@@ -234,7 +236,7 @@
   resg@cnLevelSpacingF      = 2.              ; interval
 
   plot_name = "global_model"
-  title     = "Model "+ model_name 
+  title     = "Model "+ model_name + " (2000)"
   resg@tiMainString  = title
 
   wks = gsn_open_wks (plot_type,plot_name)   ; open workstation
@@ -246,6 +248,7 @@
 
   system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
          "rm "+plot_name+"."+plot_type)
+  ;system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new)
 
 ;------------------------------------------------------------------------
 ; contour model vs ob
@@ -273,13 +276,17 @@
 
   ccrG = esccr(ug,vg,0)
 
-  score_max = 5.0
+  score_max = 10.0
 
 ; Miomass = (ccrG*ccrG)* score_max
 ; new eq
   bias = sum(abs(ug-vg)/(abs(ug)+abs(vg)))
+  print ("bias=" + bias + "dimsizes(ug)=" + dimsizes(ug))
+  print ("other bias=" + sum(abs(ug-vg)/(ug+vg)))
   Mbiomass  = (1. - (bias/dimsizes(ug)))*score_max
+  print ("Mbiomass=" + Mbiomass)
   M_biomass = sprintf("%.2f", Mbiomass)
+  print ("M_biomass=" + M_biomass)
 
   if (isvar("compare")) then
      system("sed -e '1,/M_biomass/s/M_biomass/"+M_biomass+"/' "+html_name2+" > "+html_new2+";"+ \ 
@@ -309,7 +316,7 @@
 
 ;(b) model
 
-  title     = "Model "+ model_name
+  title     = "Model "+ model_name + " (2000)"
   resg@tiMainString  = title
 
   plot(1) = gsn_csm_contour_map_ce(wks,datamod,resg) 
@@ -318,7 +325,7 @@
 
   zz = datamod
   zz = datamod - dataob
-  title = "Model_"+model_name+" - Observed"
+  title = "Model "+model_name+" (2000) - Observed"
 
   resg@cnMinLevelValF  = -10.          ; Min level
   resg@cnMaxLevelValF  =  10.          ; Max level
@@ -340,6 +347,7 @@
 
   system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
          "rm "+plot_name+"."+plot_type)
+  ;system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new)
 
   resg@gsnFrame             = True            ; draw plot 
   resg@gsnDraw              = True            ; advance frame
@@ -363,7 +371,7 @@
   gRes@txFontHeightF = 0.02
   gRes@txAngleF = 0
 
-  area_avg_text = "(average over mask area = "+sprintf("%.2f", avg_ob)+" Kg C/m2)"
+  area_avg_text = "(average over mask area = "+sprintf("%.2f", avg_ob)+" kg C m~S~-2~N~)"
 
   gsn_text_ndc(wks,area_avg_text,0.50,0.81,gRes)
 ;-----------------------------------------
@@ -377,6 +385,7 @@
 
   system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
          "rm "+plot_name+"."+plot_type)
+  ;system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new)
 
 ;------------------------------------------------------------------------
 ; contour model: masked
@@ -386,7 +395,7 @@
   resg@cnLevelSpacingF      = 2.              ; interval
 
   plot_name = "global_mask_model"
-  title     = "Model "+ model_name 
+  title     = "Model "+ model_name + " (2000)"
   resg@tiMainString  = title
 
   wks = gsn_open_wks (plot_type,plot_name)   ; open workstation
@@ -398,7 +407,7 @@
   gRes@txFontHeightF = 0.02
   gRes@txAngleF = 0
 
-  area_avg_text = "(average over mask area = "+sprintf("%.2f", avg_mod)+" Kg C/m2)"
+  area_avg_text = "(average over mask area = "+sprintf("%.2f", avg_mod)+" kg C m~S~-2~N~)"
 
   gsn_text_ndc(wks,area_avg_text,0.50,0.81,gRes)
 ;-----------------------------------------
@@ -412,6 +421,7 @@
 
   system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
          "rm "+plot_name+"."+plot_type)
+  ;system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new)
 
 ;------------------------------------------------------------------------
 ; contour model vs ob: masked 
@@ -434,7 +444,7 @@
   delete (ug)
   delete (vg)  
 
-  score_max = 5.
+  score_max = 0.
 
   uu = ndtooned(zm)
   vv = ndtooned(zo)
@@ -488,7 +498,7 @@
 
 ;(b) model
 
-  title     = "Model "+ model_name
+  title     = "Model "+ model_name + " (2000)"
   resg@tiMainString  = title
 
   plot(1) = gsn_csm_contour_map_ce(wks,zm,resg) 
@@ -497,7 +507,7 @@
 
   zz = zo
   zz = zm - zo
-  title = "Model_"+model_name+" - Observed"
+  title = "Model "+model_name+" (2000) - Observed"
 
   resg@cnMinLevelValF  = -10.          ; Min level
   resg@cnMaxLevelValF  =  10.          ; Max level
@@ -518,6 +528,7 @@
 
   system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new+";"+ \
          "rm "+plot_name+"."+plot_type)
+  ;system("convert "+plot_name+"."+plot_type+" "+plot_name+"."+plot_type_new)
 
 ;***************************************************************************
 ; add total score and write to file
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/06.fluxnet.ncl
--- a/all/06.fluxnet.ncl	Mon Jan 26 22:08:20 2009 -0500
+++ b/all/06.fluxnet.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -530,7 +530,8 @@
 ;***************************************************************************
 ; add total score and write to file
 ;***************************************************************************
-  M_total = M_fluxnet_all
+  ;M_total = M_fluxnet_all
+  M_total = 0.00 ; we don't actually use these scores
 
   asciiwrite("M_save.fluxnet", M_total)
 
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/07.beta.ncl
--- a/all/07.beta.ncl	Mon Jan 26 22:08:20 2009 -0500
+++ b/all/07.beta.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -136,7 +136,7 @@
 ;---------------------------------------------------
 ;compute beta_4
 
- score_max = 3.
+ score_max = 10.
 
  beta_4 = new((/n_sta/),float)
 
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/10.fire.ncl
--- a/all/10.fire.ncl	Mon Jan 26 22:08:20 2009 -0500
+++ b/all/10.fire.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -74,7 +74,10 @@
 
  fm   = addfile (dirm+film7,"r")
 
+ ; FMH: This was Jeff's, but I got an error
  data_mod = fm->COL_FIRE_CLOSS(18:25,:,:,:)
+ ; FMH: So I'll try this
+ ;data_mod = fm->COL_FIRE_CLOSS(17:24,:,:,:)
 
  delete (fm)
 
@@ -192,7 +195,7 @@
 ;----------------------------------------------------
 ; compute M_global
 
-  score_max = 1.
+  score_max = 2.5
 
   Mscore1 = cc_space * cc_space * score_max
 
@@ -542,7 +545,7 @@
 ; unit change from TgC/month to PgC/month
   unit_factor = 1.e-3
 
-  score_max = 1.
+  score_max = 2.5
 
   tmp_ob    = new((/ntime/),float)
   tmp_mod   = new((/ntime/),float)
@@ -607,7 +610,7 @@
 ;------------------------------------------
 ; data for table : global
 
-  score_max = 1.
+  score_max = 2.5
 
   tmp_ob  = ndtooned(yvalues_g(:,0,:))
   tmp_mod = ndtooned(yvalues_g(:,1,:))
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/11.ameriflux.ncl
--- a/all/11.ameriflux.ncl	Mon Jan 26 22:08:20 2009 -0500
+++ b/all/11.ameriflux.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -557,7 +557,8 @@
 ; compute annual cycle correlation coef and M score
 ;************************************************************
 
- score_max = 1.
+ ;score_max = 1.
+ score_max = (/6., 0., 9., 9., 6., 0./)
 
  ccr     = new ((/nstation, nfield/),float)
  M_score = new ((/nstation, nfield/),float) 
@@ -566,7 +567,7 @@
  do m=0,nfield-1   
     ccr(n,m) = esccr(data_ob_ann(m,:,n),data_mod_ann(m,:,n),0)
     bias = sum(abs(data_mod_ann(m,:,n)-data_ob_ann(m,:,n))/(abs(data_mod_ann(m,:,n))+abs(data_ob_ann(m,:,n))))
-    M_score(n,m) = (1. -(bias/nmonth)) * score_max
+    M_score(n,m) = (1. -(bias/nmonth)) * score_max(m)
  end do
  end do
 
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/run_1-model.csh
--- a/all/run_1-model.csh	Mon Jan 26 22:08:20 2009 -0500
+++ b/all/run_1-model.csh	Thu Mar 26 14:02:21 2009 -0400
@@ -58,7 +58,10 @@
 else
    set TEMPLATE = template_1-model_noCO2
 endif
-cp -r $DIR_SCRIPTS/$TEMPLATE $MODEL
+#cp -r $DIR_SCRIPTS/$TEMPLATE $MODEL
+rm -rf $MODEL
+tar xvpf $DIR_SCRIPTS/$TEMPLATE.tar
+mv $TEMPLATE $MODEL
 
 # add quote, to be usesd in INPUT_TEXT
 set MODELQ = \"$MODEL\"
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/run_2-model.csh
--- a/all/run_2-model.csh	Mon Jan 26 22:08:20 2009 -0500
+++ b/all/run_2-model.csh	Thu Mar 26 14:02:21 2009 -0400
@@ -70,8 +70,14 @@
    set TEMPLATE1 = template_1-model_noCO2
    set TEMPLATE2 = template_2-model_noCO2
 endif
-cp -r $DIR_SCRIPTS/$TEMPLATE1 $MODEL1
-cp -r $DIR_SCRIPTS/$TEMPLATE2 $COMPARE
+#cp -r $DIR_SCRIPTS/$TEMPLATE1 $MODEL1
+#cp -r $DIR_SCRIPTS/$TEMPLATE2 $COMPARE
+rm -rf $MODEL1
+rm -rf $COMPARE
+tar xvpf $DIR_SCRIPTS/$TEMPLATE1.tar
+mv $TEMPLATE1 $MODEL1
+tar xvpf $DIR_SCRIPTS/$TEMPLATE2.tar
+mv $TEMPLATE2 $COMPARE
 
 # add quote, to be usesd in INPUT_TEXT
 set MODELQ = \"$MODEL1\"
@@ -147,7 +153,11 @@
 else
    set TEMPLATE1 = template_1-model_noCO2
 endif
-cp -r $DIR_SCRIPTS/$TEMPLATE1 $MODEL2
+#cp -r $DIR_SCRIPTS/$TEMPLATE1 $MODEL2
+rm -rf $MODEL2
+tar xvpf $DIR_SCRIPTS/$TEMPLATE1.tar
+mv $TEMPLATE1 $MODEL2
+
 
 # add quote, to be usesd in INPUT_TEXT
 set MODELQ  = \"$MODEL2\"
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/run_2-model_36cn_37cn_cont.csh
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/all/run_2-model_36cn_37cn_cont.csh	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,247 @@
+#!/bin/csh -f
+#-------------------------------------------------------------------
+# note: user modifies ONLY the "user modification" section 
+#
+#       COMPARE: model1 vs model2
+#       MODELn : model name
+#       DIR_M  : directory of model data
+#       DIR_O  : directory of observed data
+#       DIR_S  : directory of model surface data
+#       DIR_SCRIPTS  : directory of run scripts
+#       FILE1  : time_mean  climatology from CLM diagnostic package
+#       FILE2  : 12-monthly climatology from CLM diagnostic package
+#       FILE3  : 12-monthly climatology from ATM diagnostic package
+#                leave it blank, if no ATM file:
+#                set FILE3 =
+#       FILE7 : timeseries file generated from .... 
+#       FILE8 : timeseries file generated from .... 
+#       GRID   : T31, T42, or 1.9
+#       BGC    : cn or casa 
+#       ENERGY : new or old (fields in model data)
+#-------------------------------------------------------------------
+
+#*******************************************************
+# user modification-(1)
+
+# directory name of model comparison
+#et COMPARE = b30.061n_vs_b30.061m
+set COMPARE = i01.36cn_vs_i01.37cn_cont
+
+#*******************************************************
+# user modification-(2)
+
+# model1 
+set MODEL1 = i01.36cn
+set DIR_M  = /lustre/wolf-ddn/scratch/hof/cases1/i01.36cn_out/
+set FILE1  = i01.36cn_out_ANN_climo.nc
+set FILE2  = i01.36cn_out_MONS_climo.nc
+set FILE3  = 
+set FILE4  = $FILE1
+set FILE5  = $FILE1
+set FILE6  = $FILE1
+set FILE7  = i01.36cn_Fire_C_2076-2100_monthly.nc
+set FILE8  = i01.36cn_ameriflux_2076-2100_monthly.nc
+set FILE9  = $FILE1
+set FILE10 = $FILE2
+set GRID   = 1.9
+set BGC    = cn
+set ENERGY = old
+
+# in the "CLAMP metric processing" section:
+#  only 00.initial.ncl and 99.final.ncl are required,
+#  user can comment out any one or more of the other ncl scripts,
+#  e.g. 
+#  #ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+
+# model surface data
+set DIR_S  = /lustre/wolf-ddn/scratch/hof/clamp_data/surface_model/
+
+# observed data
+set DIR_O  = /lustre/wolf-ddn/scratch/hof/clamp_data/observed/
+
+# directory for scripts, templates and ncl files
+set DIR_SCRIPTS = /lustre/wolf-ddn/scratch/hof/clamp/all/
+
+#********************************************************
+
+# create model1 and model1_vs_model2 directory by copying templates
+if ($FILE3 != "") then
+   set TEMPLATE1 = template_1-model
+   set TEMPLATE2 = template_2-model
+else
+   set TEMPLATE1 = template_1-model_noCO2
+   set TEMPLATE2 = template_2-model_noCO2
+endif
+#cp -r $DIR_SCRIPTS/$TEMPLATE1 $MODEL1
+#cp -r $DIR_SCRIPTS/$TEMPLATE2 $COMPARE
+rm -rf $MODEL1
+rm -rf $COMPARE
+tar xvpf $DIR_SCRIPTS/$TEMPLATE1.tar
+mv $TEMPLATE1 $MODEL1
+tar xvpf $DIR_SCRIPTS/$TEMPLATE2.tar
+mv $TEMPLATE2 $COMPARE
+
+# add quote, to be usesd in INPUT_TEXT
+set MODELQ = \"$MODEL1\"
+set DIRMQ  = \"$DIR_M\"
+set F1  = \"$FILE1\"
+set F2  = \"$FILE2\"
+set F3  = \"$FILE3\"
+set F4  = \"$FILE4\"
+set F5  = \"$FILE5\"
+set F6  = \"$FILE6\"
+set F7  = \"$FILE7\"
+set F8  = \"$FILE8\"
+set F9  = \"$FILE9\"
+set F10 = \"$FILE10\"
+set GRIDQ   = \"$GRID\"
+set BGCQ    = \"$BGC\"
+set ENERGYQ = \"$ENERGY\"
+set DIRSQ   = \"$DIR_S\"
+set DIROQ   = \"$DIR_O\"
+set DIRCQ   = \"$DIR_SCRIPTS\"
+
+set COMPAREQ = \"$COMPARE\"
+set MODELN   = \"model1\"
+
+set INPUT_TEXT = "model_name=$MODELQ model_grid=$GRIDQ dirm=$DIRMQ film1=$F1 film2=$F2 film3=$F3 film4=$F4 film5=$F5 film6=$F6 film7=$F7 film8=$F8 film9=$F9 film10=$F10 BGC=$BGCQ ENERGY=$ENERGYQ dirs=$DIRSQ diro=$DIROQ dirscript=$DIRCQ modeln=$MODELN compare=$COMPAREQ"
+ 
+echo "`date` - Running diagnostics for model ${MODELQ}"
+# CLAMP metric processing of model1
+echo "`date` - Running 00.initial.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/00.initial.ncl
+echo "`date` - Running 01.npp.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/01.npp.ncl
+echo "`date` - Running 01.lai.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/02.lai.ncl
+
+if ($FILE3 != "") then
+echo "`date` - Running 03.co2.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/03.co2.ncl
+endif
+
+echo "`date` - Running 04.biomass.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/04.biomass.ncl
+echo "`date` - Running 06.fluxnet.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/06.fluxnet.ncl
+echo "`date` - Running 07.beta.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/07.beta.ncl
+echo "`date` - Running 08.turnover.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/08.turnover.ncl
+
+if ($BGC != "casa") then
+echo "`date` - Running 09.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09.carbon_sink.ncl
+else
+echo "`date` - Running 09x.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09x.carbon_sink.ncl
+endif
+
+if ($BGC != "casa") then
+echo "`date` - Running 10.fire.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+endif
+
+echo "`date` - Running 11.ameriflux.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/11.ameriflux.ncl
+echo "`date` - Running 99.final.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/99.final.ncl
+
+#*******************************************************
+# user modification-(3)
+
+# model2
+set MODEL2 = i01.37cn_cont
+set DIR_M  = /lustre/wolf-ddn/scratch/hof/cases/i01.37cn_cont_out/
+set FILE1  = i01.37cn_cont_out_ANN_climo.nc
+set FILE2  = i01.37cn_cont_out_MONS_climo.nc
+set FILE3  = 
+set FILE4  = $FILE1
+set FILE5  = $FILE1
+set FILE6  = $FILE1
+set FILE7  = i01.37cn_cont_Fire_C_2976-3000_monthly.nc
+set FILE8  = i01.37cn_cont_ameriflux_2976-3000_monthly.nc
+set FILE9  = $FILE1
+set FILE10 = $FILE2
+set GRID   = 1.9
+set BGC    = cn
+set ENERGY = old
+#*******************************************************
+# create model2 directory by copying templates
+if ($FILE3 != "") then
+   set TEMPLATE1 = template_1-model
+else
+   set TEMPLATE1 = template_1-model_noCO2
+endif
+#cp -r $DIR_SCRIPTS/$TEMPLATE1 $MODEL2
+rm -rf $MODEL2
+tar xvpf $DIR_SCRIPTS/$TEMPLATE1.tar
+mv $TEMPLATE1 $MODEL2
+
+# add quote, to be usesd in INPUT_TEXT
+set MODELQ  = \"$MODEL2\"
+set DIRMQ   = \"$DIR_M\"
+set F1  = \"$FILE1\"
+set F2  = \"$FILE2\"
+set F3  = \"$FILE3\"
+set F4  = \"$FILE4\"
+set F5  = \"$FILE5\"
+set F6  = \"$FILE6\"
+set F7  = \"$FILE7\"
+set F8  = \"$FILE8\"
+set F9  = \"$FILE9\"
+set F10 = \"$FILE10\"
+set GRIDQ   = \"$GRID\"
+set BGCQ    = \"$BGC\"
+set ENERGYQ = \"$ENERGY\"
+
+set COMPAREQ = \"$COMPARE\"
+set MODELN   = \"model2\"
+
+set INPUT_TEXT = "model_name=$MODELQ model_grid=$GRIDQ dirm=$DIRMQ film1=$F1 film2=$F2 film3=$F3 film4=$F4 film5=$F5 film6=$F6 film7=$F7 film8=$F8 film9=$F9 film10=$F10 BGC=$BGCQ ENERGY=$ENERGYQ dirs=$DIRSQ diro=$DIROQ dirscript=$DIRCQ modeln=$MODELN compare=$COMPAREQ"
+ 
+echo "`date` - Running diagnostics for model ${MODELQ}"
+# CLAMP metric processing of model2
+echo "`date` - Running 00.inital.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/00.initial.ncl
+echo "`date` - Running 01.npp.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/01.npp.ncl
+echo "`date` - Running 02.lai.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/02.lai.ncl
+
+if ($FILE3 != "") then
+echo "`date` - Running 03.co2.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/03.co2.ncl
+endif
+
+echo "`date` - Running 04.biomass.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/04.biomass.ncl
+echo "`date` - Running 06.fluxnet.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/06.fluxnet.ncl
+echo "`date` - Running 07.beta.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/07.beta.ncl
+echo "`date` - Running 08.turnover.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/08.turnover.ncl
+
+if ($BGC != "casa") then
+echo "`date` - Running 09.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09.carbon_sink.ncl
+else
+echo "`date` - Running 09x.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09x.carbon_sink.ncl
+endif
+
+if ($BGC != "casa") then
+echo "`date` - Running 10.fire.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+endif
+
+echo "`date` - Running 11.ameriflux.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/11.ameriflux.ncl
+echo "`date` - Running 99.final.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/99.final.ncl
+
+# create a tar file from the final output
+echo "`date` - tarring up final output into all.tar"
+tar cf - $MODEL1 $MODEL2 $COMPARE > all.tar
+
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/run_2-model_36cn_38cn.csh
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/all/run_2-model_36cn_38cn.csh	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,247 @@
+#!/bin/csh -f
+#-------------------------------------------------------------------
+# note: user modifies ONLY the "user modification" section 
+#
+#       COMPARE: model1 vs model2
+#       MODELn : model name
+#       DIR_M  : directory of model data
+#       DIR_O  : directory of observed data
+#       DIR_S  : directory of model surface data
+#       DIR_SCRIPTS  : directory of run scripts
+#       FILE1  : time_mean  climatology from CLM diagnostic package
+#       FILE2  : 12-monthly climatology from CLM diagnostic package
+#       FILE3  : 12-monthly climatology from ATM diagnostic package
+#                leave it blank, if no ATM file:
+#                set FILE3 =
+#       FILE7 : timeseries file generated from .... 
+#       FILE8 : timeseries file generated from .... 
+#       GRID   : T31, T42, or 1.9
+#       BGC    : cn or casa 
+#       ENERGY : new or old (fields in model data)
+#-------------------------------------------------------------------
+
+#*******************************************************
+# user modification-(1)
+
+# directory name of model comparison
+#et COMPARE = b30.061n_vs_b30.061m
+set COMPARE = i01.36cn_vs_i01.38cn
+
+#*******************************************************
+# user modification-(2)
+
+# model1 
+set MODEL1 = i01.36cn
+set DIR_M  = /lustre/wolf-ddn/scratch/hof/cases1/i01.36cn_out/
+set FILE1  = i01.36cn_out_ANN_climo.nc
+set FILE2  = i01.36cn_out_MONS_climo.nc
+set FILE3  = 
+set FILE4  = $FILE1
+set FILE5  = $FILE1
+set FILE6  = $FILE1
+set FILE7  = i01.36cn_Fire_C_2076-2100_monthly.nc
+set FILE8  = i01.36cn_ameriflux_2076-2100_monthly.nc
+set FILE9  = $FILE1
+set FILE10 = $FILE2
+set GRID   = 1.9
+set BGC    = cn
+set ENERGY = old
+
+# in the "CLAMP metric processing" section:
+#  only 00.initial.ncl and 99.final.ncl are required,
+#  user can comment out any one or more of the other ncl scripts,
+#  e.g. 
+#  #ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+
+# model surface data
+set DIR_S  = /lustre/wolf-ddn/scratch/hof/clamp_data/surface_model/
+
+# observed data
+set DIR_O  = /lustre/wolf-ddn/scratch/hof/clamp_data/observed/
+
+# directory for scripts, templates and ncl files
+set DIR_SCRIPTS = /lustre/wolf-ddn/scratch/hof/clamp/all/
+
+#********************************************************
+
+# create model1 and model1_vs_model2 directory by copying templates
+if ($FILE3 != "") then
+   set TEMPLATE1 = template_1-model
+   set TEMPLATE2 = template_2-model
+else
+   set TEMPLATE1 = template_1-model_noCO2
+   set TEMPLATE2 = template_2-model_noCO2
+endif
+#cp -r $DIR_SCRIPTS/$TEMPLATE1 $MODEL1
+#cp -r $DIR_SCRIPTS/$TEMPLATE2 $COMPARE
+rm -rf $MODEL1
+rm -rf $COMPARE
+tar xvpf $DIR_SCRIPTS/$TEMPLATE1.tar
+mv $TEMPLATE1 $MODEL1
+tar xvpf $DIR_SCRIPTS/$TEMPLATE2.tar
+mv $TEMPLATE2 $COMPARE
+
+# add quote, to be usesd in INPUT_TEXT
+set MODELQ = \"$MODEL1\"
+set DIRMQ  = \"$DIR_M\"
+set F1  = \"$FILE1\"
+set F2  = \"$FILE2\"
+set F3  = \"$FILE3\"
+set F4  = \"$FILE4\"
+set F5  = \"$FILE5\"
+set F6  = \"$FILE6\"
+set F7  = \"$FILE7\"
+set F8  = \"$FILE8\"
+set F9  = \"$FILE9\"
+set F10 = \"$FILE10\"
+set GRIDQ   = \"$GRID\"
+set BGCQ    = \"$BGC\"
+set ENERGYQ = \"$ENERGY\"
+set DIRSQ   = \"$DIR_S\"
+set DIROQ   = \"$DIR_O\"
+set DIRCQ   = \"$DIR_SCRIPTS\"
+
+set COMPAREQ = \"$COMPARE\"
+set MODELN   = \"model1\"
+
+set INPUT_TEXT = "model_name=$MODELQ model_grid=$GRIDQ dirm=$DIRMQ film1=$F1 film2=$F2 film3=$F3 film4=$F4 film5=$F5 film6=$F6 film7=$F7 film8=$F8 film9=$F9 film10=$F10 BGC=$BGCQ ENERGY=$ENERGYQ dirs=$DIRSQ diro=$DIROQ dirscript=$DIRCQ modeln=$MODELN compare=$COMPAREQ"
+ 
+echo "`date` - Running diagnostics for model ${MODELQ}"
+# CLAMP metric processing of model1
+echo "`date` - Running 00.initial.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/00.initial.ncl
+echo "`date` - Running 01.npp.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/01.npp.ncl
+echo "`date` - Running 01.lai.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/02.lai.ncl
+
+if ($FILE3 != "") then
+echo "`date` - Running 03.co2.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/03.co2.ncl
+endif
+
+echo "`date` - Running 04.biomass.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/04.biomass.ncl
+echo "`date` - Running 06.fluxnet.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/06.fluxnet.ncl
+echo "`date` - Running 07.beta.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/07.beta.ncl
+echo "`date` - Running 08.turnover.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/08.turnover.ncl
+
+if ($BGC != "casa") then
+echo "`date` - Running 09.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09.carbon_sink.ncl
+else
+echo "`date` - Running 09x.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09x.carbon_sink.ncl
+endif
+
+if ($BGC != "casa") then
+echo "`date` - Running 10.fire.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+endif
+
+echo "`date` - Running 11.ameriflux.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/11.ameriflux.ncl
+echo "`date` - Running 99.final.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/99.final.ncl
+
+#*******************************************************
+# user modification-(3)
+
+# model2
+set MODEL2 = i01.38cn
+set DIR_M  = /lustre/wolf-ddn/scratch/hof/cases1/i01.38cn_out/
+set FILE1  = i01.38cn_out_ANN_climo.nc
+set FILE2  = i01.38cn_out_MONS_climo.nc
+set FILE3  = 
+set FILE4  = $FILE1
+set FILE5  = $FILE1
+set FILE6  = $FILE1
+set FILE7  = i01.38cn_Fire_C_2151-2175_monthly.nc
+set FILE8  = i01.38cn_ameriflux_2151-2175_monthly.nc
+set FILE9  = $FILE1
+set FILE10 = $FILE2
+set GRID   = 1.9
+set BGC    = cn
+set ENERGY = old
+#*******************************************************
+# create model2 directory by copying templates
+if ($FILE3 != "") then
+   set TEMPLATE1 = template_1-model
+else
+   set TEMPLATE1 = template_1-model_noCO2
+endif
+#cp -r $DIR_SCRIPTS/$TEMPLATE1 $MODEL2
+rm -rf $MODEL2
+tar xvpf $DIR_SCRIPTS/$TEMPLATE1.tar
+mv $TEMPLATE1 $MODEL2
+
+# add quote, to be usesd in INPUT_TEXT
+set MODELQ  = \"$MODEL2\"
+set DIRMQ   = \"$DIR_M\"
+set F1  = \"$FILE1\"
+set F2  = \"$FILE2\"
+set F3  = \"$FILE3\"
+set F4  = \"$FILE4\"
+set F5  = \"$FILE5\"
+set F6  = \"$FILE6\"
+set F7  = \"$FILE7\"
+set F8  = \"$FILE8\"
+set F9  = \"$FILE9\"
+set F10 = \"$FILE10\"
+set GRIDQ   = \"$GRID\"
+set BGCQ    = \"$BGC\"
+set ENERGYQ = \"$ENERGY\"
+
+set COMPAREQ = \"$COMPARE\"
+set MODELN   = \"model2\"
+
+set INPUT_TEXT = "model_name=$MODELQ model_grid=$GRIDQ dirm=$DIRMQ film1=$F1 film2=$F2 film3=$F3 film4=$F4 film5=$F5 film6=$F6 film7=$F7 film8=$F8 film9=$F9 film10=$F10 BGC=$BGCQ ENERGY=$ENERGYQ dirs=$DIRSQ diro=$DIROQ dirscript=$DIRCQ modeln=$MODELN compare=$COMPAREQ"
+ 
+echo "`date` - Running diagnostics for model ${MODELQ}"
+# CLAMP metric processing of model2
+echo "`date` - Running 00.inital.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/00.initial.ncl
+echo "`date` - Running 01.npp.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/01.npp.ncl
+echo "`date` - Running 02.lai.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/02.lai.ncl
+
+if ($FILE3 != "") then
+echo "`date` - Running 03.co2.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/03.co2.ncl
+endif
+
+echo "`date` - Running 04.biomass.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/04.biomass.ncl
+echo "`date` - Running 06.fluxnet.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/06.fluxnet.ncl
+echo "`date` - Running 07.beta.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/07.beta.ncl
+echo "`date` - Running 08.turnover.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/08.turnover.ncl
+
+if ($BGC != "casa") then
+echo "`date` - Running 09.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09.carbon_sink.ncl
+else
+echo "`date` - Running 09x.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09x.carbon_sink.ncl
+endif
+
+if ($BGC != "casa") then
+echo "`date` - Running 10.fire.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+endif
+
+echo "`date` - Running 11.ameriflux.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/11.ameriflux.ncl
+echo "`date` - Running 99.final.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/99.final.ncl
+
+# create a tar file from the final output
+echo "`date` - tarring up final output into all.tar"
+tar cf - $MODEL1 $MODEL2 $COMPARE > all.tar
+
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/run_2-model_37cn_cont_42cn.csh
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/all/run_2-model_37cn_cont_42cn.csh	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,247 @@
+#!/bin/csh -f
+#-------------------------------------------------------------------
+# note: user modifies ONLY the "user modification" section 
+#
+#       COMPARE: model1 vs model2
+#       MODELn : model name
+#       DIR_M  : directory of model data
+#       DIR_O  : directory of observed data
+#       DIR_S  : directory of model surface data
+#       DIR_SCRIPTS  : directory of run scripts
+#       FILE1  : time_mean  climatology from CLM diagnostic package
+#       FILE2  : 12-monthly climatology from CLM diagnostic package
+#       FILE3  : 12-monthly climatology from ATM diagnostic package
+#                leave it blank, if no ATM file:
+#                set FILE3 =
+#       FILE7 : timeseries file generated from .... 
+#       FILE8 : timeseries file generated from .... 
+#       GRID   : T31, T42, or 1.9
+#       BGC    : cn or casa 
+#       ENERGY : new or old (fields in model data)
+#-------------------------------------------------------------------
+
+#*******************************************************
+# user modification-(1)
+
+# directory name of model comparison
+#et COMPARE = b30.061n_vs_b30.061m
+set COMPARE = i01.37cn_cont_vs_i01.42cn
+
+#*******************************************************
+# user modification-(2)
+
+# model1 
+set MODEL1 = i01.37cn_cont
+set DIR_M  = /lustre/wolf-ddn/scratch/hof/cases/i01.37cn_cont_out/
+set FILE1  = i01.37cn_cont_out_ANN_climo.nc
+set FILE2  = i01.37cn_cont_out_MONS_climo.nc
+set FILE3  = 
+set FILE4  = $FILE1
+set FILE5  = $FILE1
+set FILE6  = $FILE1
+set FILE7  = i01.37cn_cont_Fire_C_2976-3000_monthly.nc
+set FILE8  = i01.37cn_cont_ameriflux_2976-3000_monthly.nc
+set FILE9  = $FILE1
+set FILE10 = $FILE2
+set GRID   = 1.9
+set BGC    = cn
+set ENERGY = old
+
+# in the "CLAMP metric processing" section:
+#  only 00.initial.ncl and 99.final.ncl are required,
+#  user can comment out any one or more of the other ncl scripts,
+#  e.g. 
+#  #ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+
+# model surface data
+set DIR_S  = /lustre/wolf-ddn/scratch/hof/clamp_data/surface_model/
+
+# observed data
+set DIR_O  = /lustre/wolf-ddn/scratch/hof/clamp_data/observed/
+
+# directory for scripts, templates and ncl files
+set DIR_SCRIPTS = /lustre/wolf-ddn/scratch/hof/clamp/all/
+
+#********************************************************
+
+# create model1 and model1_vs_model2 directory by copying templates
+if ($FILE3 != "") then
+   set TEMPLATE1 = template_1-model
+   set TEMPLATE2 = template_2-model
+else
+   set TEMPLATE1 = template_1-model_noCO2
+   set TEMPLATE2 = template_2-model_noCO2
+endif
+#cp -r $DIR_SCRIPTS/$TEMPLATE1 $MODEL1
+#cp -r $DIR_SCRIPTS/$TEMPLATE2 $COMPARE
+rm -rf $MODEL1
+rm -rf $COMPARE
+tar xvpf $DIR_SCRIPTS/$TEMPLATE1.tar
+mv $TEMPLATE1 $MODEL1
+tar xvpf $DIR_SCRIPTS/$TEMPLATE2.tar
+mv $TEMPLATE2 $COMPARE
+
+# add quote, to be usesd in INPUT_TEXT
+set MODELQ = \"$MODEL1\"
+set DIRMQ  = \"$DIR_M\"
+set F1  = \"$FILE1\"
+set F2  = \"$FILE2\"
+set F3  = \"$FILE3\"
+set F4  = \"$FILE4\"
+set F5  = \"$FILE5\"
+set F6  = \"$FILE6\"
+set F7  = \"$FILE7\"
+set F8  = \"$FILE8\"
+set F9  = \"$FILE9\"
+set F10 = \"$FILE10\"
+set GRIDQ   = \"$GRID\"
+set BGCQ    = \"$BGC\"
+set ENERGYQ = \"$ENERGY\"
+set DIRSQ   = \"$DIR_S\"
+set DIROQ   = \"$DIR_O\"
+set DIRCQ   = \"$DIR_SCRIPTS\"
+
+set COMPAREQ = \"$COMPARE\"
+set MODELN   = \"model1\"
+
+set INPUT_TEXT = "model_name=$MODELQ model_grid=$GRIDQ dirm=$DIRMQ film1=$F1 film2=$F2 film3=$F3 film4=$F4 film5=$F5 film6=$F6 film7=$F7 film8=$F8 film9=$F9 film10=$F10 BGC=$BGCQ ENERGY=$ENERGYQ dirs=$DIRSQ diro=$DIROQ dirscript=$DIRCQ modeln=$MODELN compare=$COMPAREQ"
+ 
+echo "`date` - Running diagnostics for model ${MODELQ}"
+# CLAMP metric processing of model1
+echo "`date` - Running 00.initial.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/00.initial.ncl
+echo "`date` - Running 01.npp.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/01.npp.ncl
+echo "`date` - Running 01.lai.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/02.lai.ncl
+
+if ($FILE3 != "") then
+echo "`date` - Running 03.co2.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/03.co2.ncl
+endif
+
+echo "`date` - Running 04.biomass.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/04.biomass.ncl
+echo "`date` - Running 06.fluxnet.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/06.fluxnet.ncl
+echo "`date` - Running 07.beta.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/07.beta.ncl
+echo "`date` - Running 08.turnover.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/08.turnover.ncl
+
+if ($BGC != "casa") then
+echo "`date` - Running 09.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09.carbon_sink.ncl
+else
+echo "`date` - Running 09x.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09x.carbon_sink.ncl
+endif
+
+if ($BGC != "casa") then
+echo "`date` - Running 10.fire.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+endif
+
+echo "`date` - Running 11.ameriflux.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/11.ameriflux.ncl
+echo "`date` - Running 99.final.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/99.final.ncl
+
+#*******************************************************
+# user modification-(3)
+
+# model2
+set MODEL2 = i01.42cn
+set DIR_M  = /lustre/wolf-ddn/scratch/hof/cases/i01.42cn_out/
+set FILE1  = i01.42cn_out_ANN_climo.nc
+set FILE2  = i01.42cn_out_MONS_climo.nc
+set FILE3  = 
+set FILE4  = $FILE1
+set FILE5  = $FILE1
+set FILE6  = $FILE1
+set FILE7  = i01.42cn_Fire_C_2976-3000_monthly.nc
+set FILE8  = i01.42cn_ameriflux_2976-3000_monthly.nc
+set FILE9  = $FILE1
+set FILE10 = $FILE2
+set GRID   = 1.9
+set BGC    = cn
+set ENERGY = old
+#*******************************************************
+# create model2 directory by copying templates
+if ($FILE3 != "") then
+   set TEMPLATE1 = template_1-model
+else
+   set TEMPLATE1 = template_1-model_noCO2
+endif
+#cp -r $DIR_SCRIPTS/$TEMPLATE1 $MODEL2
+rm -rf $MODEL2
+tar xvpf $DIR_SCRIPTS/$TEMPLATE1.tar
+mv $TEMPLATE1 $MODEL2
+
+# add quote, to be usesd in INPUT_TEXT
+set MODELQ  = \"$MODEL2\"
+set DIRMQ   = \"$DIR_M\"
+set F1  = \"$FILE1\"
+set F2  = \"$FILE2\"
+set F3  = \"$FILE3\"
+set F4  = \"$FILE4\"
+set F5  = \"$FILE5\"
+set F6  = \"$FILE6\"
+set F7  = \"$FILE7\"
+set F8  = \"$FILE8\"
+set F9  = \"$FILE9\"
+set F10 = \"$FILE10\"
+set GRIDQ   = \"$GRID\"
+set BGCQ    = \"$BGC\"
+set ENERGYQ = \"$ENERGY\"
+
+set COMPAREQ = \"$COMPARE\"
+set MODELN   = \"model2\"
+
+set INPUT_TEXT = "model_name=$MODELQ model_grid=$GRIDQ dirm=$DIRMQ film1=$F1 film2=$F2 film3=$F3 film4=$F4 film5=$F5 film6=$F6 film7=$F7 film8=$F8 film9=$F9 film10=$F10 BGC=$BGCQ ENERGY=$ENERGYQ dirs=$DIRSQ diro=$DIROQ dirscript=$DIRCQ modeln=$MODELN compare=$COMPAREQ"
+ 
+echo "`date` - Running diagnostics for model ${MODELQ}"
+# CLAMP metric processing of model2
+echo "`date` - Running 00.inital.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/00.initial.ncl
+echo "`date` - Running 01.npp.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/01.npp.ncl
+echo "`date` - Running 02.lai.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/02.lai.ncl
+
+if ($FILE3 != "") then
+echo "`date` - Running 03.co2.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/03.co2.ncl
+endif
+
+echo "`date` - Running 04.biomass.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/04.biomass.ncl
+echo "`date` - Running 06.fluxnet.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/06.fluxnet.ncl
+echo "`date` - Running 07.beta.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/07.beta.ncl
+echo "`date` - Running 08.turnover.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/08.turnover.ncl
+
+if ($BGC != "casa") then
+echo "`date` - Running 09.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09.carbon_sink.ncl
+else
+echo "`date` - Running 09x.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09x.carbon_sink.ncl
+endif
+
+if ($BGC != "casa") then
+echo "`date` - Running 10.fire.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+endif
+
+echo "`date` - Running 11.ameriflux.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/11.ameriflux.ncl
+echo "`date` - Running 99.final.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/99.final.ncl
+
+# create a tar file from the final output
+echo "`date` - tarring up final output into all.tar"
+tar cf - $MODEL1 $MODEL2 $COMPARE > all.tar
+
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/run_2-model_37cn_cont_43cn.csh
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/all/run_2-model_37cn_cont_43cn.csh	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,247 @@
+#!/bin/csh -f
+#-------------------------------------------------------------------
+# note: user modifies ONLY the "user modification" section 
+#
+#       COMPARE: model1 vs model2
+#       MODELn : model name
+#       DIR_M  : directory of model data
+#       DIR_O  : directory of observed data
+#       DIR_S  : directory of model surface data
+#       DIR_SCRIPTS  : directory of run scripts
+#       FILE1  : time_mean  climatology from CLM diagnostic package
+#       FILE2  : 12-monthly climatology from CLM diagnostic package
+#       FILE3  : 12-monthly climatology from ATM diagnostic package
+#                leave it blank, if no ATM file:
+#                set FILE3 =
+#       FILE7 : timeseries file generated from .... 
+#       FILE8 : timeseries file generated from .... 
+#       GRID   : T31, T42, or 1.9
+#       BGC    : cn or casa 
+#       ENERGY : new or old (fields in model data)
+#-------------------------------------------------------------------
+
+#*******************************************************
+# user modification-(1)
+
+# directory name of model comparison
+#et COMPARE = b30.061n_vs_b30.061m
+set COMPARE = i01.37cn_cont_vs_i01.43cn
+
+#*******************************************************
+# user modification-(2)
+
+# model1 
+set MODEL1 = i01.37cn_cont
+set DIR_M  = /lustre/wolf-ddn/scratch/hof/cases/i01.37cn_cont_out/
+set FILE1  = i01.37cn_cont_out_ANN_climo.nc
+set FILE2  = i01.37cn_cont_out_MONS_climo.nc
+set FILE3  = 
+set FILE4  = $FILE1
+set FILE5  = $FILE1
+set FILE6  = $FILE1
+set FILE7  = i01.37cn_cont_Fire_C_2976-3000_monthly.nc
+set FILE8  = i01.37cn_cont_ameriflux_2976-3000_monthly.nc
+set FILE9  = $FILE1
+set FILE10 = $FILE2
+set GRID   = 1.9
+set BGC    = cn
+set ENERGY = old
+
+# in the "CLAMP metric processing" section:
+#  only 00.initial.ncl and 99.final.ncl are required,
+#  user can comment out any one or more of the other ncl scripts,
+#  e.g. 
+#  #ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+
+# model surface data
+set DIR_S  = /lustre/wolf-ddn/scratch/hof/clamp_data/surface_model/
+
+# observed data
+set DIR_O  = /lustre/wolf-ddn/scratch/hof/clamp_data/observed/
+
+# directory for scripts, templates and ncl files
+set DIR_SCRIPTS = /lustre/wolf-ddn/scratch/hof/clamp/all/
+
+#********************************************************
+
+# create model1 and model1_vs_model2 directory by copying templates
+if ($FILE3 != "") then
+   set TEMPLATE1 = template_1-model
+   set TEMPLATE2 = template_2-model
+else
+   set TEMPLATE1 = template_1-model_noCO2
+   set TEMPLATE2 = template_2-model_noCO2
+endif
+#cp -r $DIR_SCRIPTS/$TEMPLATE1 $MODEL1
+#cp -r $DIR_SCRIPTS/$TEMPLATE2 $COMPARE
+rm -rf $MODEL1
+rm -rf $COMPARE
+tar xvpf $DIR_SCRIPTS/$TEMPLATE1.tar
+mv $TEMPLATE1 $MODEL1
+tar xvpf $DIR_SCRIPTS/$TEMPLATE2.tar
+mv $TEMPLATE2 $COMPARE
+
+# add quote, to be usesd in INPUT_TEXT
+set MODELQ = \"$MODEL1\"
+set DIRMQ  = \"$DIR_M\"
+set F1  = \"$FILE1\"
+set F2  = \"$FILE2\"
+set F3  = \"$FILE3\"
+set F4  = \"$FILE4\"
+set F5  = \"$FILE5\"
+set F6  = \"$FILE6\"
+set F7  = \"$FILE7\"
+set F8  = \"$FILE8\"
+set F9  = \"$FILE9\"
+set F10 = \"$FILE10\"
+set GRIDQ   = \"$GRID\"
+set BGCQ    = \"$BGC\"
+set ENERGYQ = \"$ENERGY\"
+set DIRSQ   = \"$DIR_S\"
+set DIROQ   = \"$DIR_O\"
+set DIRCQ   = \"$DIR_SCRIPTS\"
+
+set COMPAREQ = \"$COMPARE\"
+set MODELN   = \"model1\"
+
+set INPUT_TEXT = "model_name=$MODELQ model_grid=$GRIDQ dirm=$DIRMQ film1=$F1 film2=$F2 film3=$F3 film4=$F4 film5=$F5 film6=$F6 film7=$F7 film8=$F8 film9=$F9 film10=$F10 BGC=$BGCQ ENERGY=$ENERGYQ dirs=$DIRSQ diro=$DIROQ dirscript=$DIRCQ modeln=$MODELN compare=$COMPAREQ"
+ 
+echo "`date` - Running diagnostics for model ${MODELQ}"
+# CLAMP metric processing of model1
+echo "`date` - Running 00.initial.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/00.initial.ncl
+echo "`date` - Running 01.npp.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/01.npp.ncl
+echo "`date` - Running 01.lai.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/02.lai.ncl
+
+if ($FILE3 != "") then
+echo "`date` - Running 03.co2.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/03.co2.ncl
+endif
+
+echo "`date` - Running 04.biomass.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/04.biomass.ncl
+echo "`date` - Running 06.fluxnet.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/06.fluxnet.ncl
+echo "`date` - Running 07.beta.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/07.beta.ncl
+echo "`date` - Running 08.turnover.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/08.turnover.ncl
+
+if ($BGC != "casa") then
+echo "`date` - Running 09.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09.carbon_sink.ncl
+else
+echo "`date` - Running 09x.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09x.carbon_sink.ncl
+endif
+
+if ($BGC != "casa") then
+echo "`date` - Running 10.fire.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+endif
+
+echo "`date` - Running 11.ameriflux.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/11.ameriflux.ncl
+echo "`date` - Running 99.final.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/99.final.ncl
+
+#*******************************************************
+# user modification-(3)
+
+# model2
+set MODEL2 = i01.43cn
+set DIR_M  = /lustre/wolf-ddn/scratch/hof/cases1/i01.43cn_out/
+set FILE1  = i01.43cn_out_ANN_climo.nc
+set FILE2  = i01.43cn_out_MONS_climo.nc
+set FILE3  = 
+set FILE4  = $FILE1
+set FILE5  = $FILE1
+set FILE6  = $FILE1
+set FILE7  = i01.43cn_Fire_C_2876-2900_monthly.nc
+set FILE8  = i01.43cn_ameriflux_2876-2900_monthly.nc
+set FILE9  = $FILE1
+set FILE10 = $FILE2
+set GRID   = 1.9
+set BGC    = cn
+set ENERGY = old
+#*******************************************************
+# create model2 directory by copying templates
+if ($FILE3 != "") then
+   set TEMPLATE1 = template_1-model
+else
+   set TEMPLATE1 = template_1-model_noCO2
+endif
+#cp -r $DIR_SCRIPTS/$TEMPLATE1 $MODEL2
+rm -rf $MODEL2
+tar xvpf $DIR_SCRIPTS/$TEMPLATE1.tar
+mv $TEMPLATE1 $MODEL2
+
+# add quote, to be usesd in INPUT_TEXT
+set MODELQ  = \"$MODEL2\"
+set DIRMQ   = \"$DIR_M\"
+set F1  = \"$FILE1\"
+set F2  = \"$FILE2\"
+set F3  = \"$FILE3\"
+set F4  = \"$FILE4\"
+set F5  = \"$FILE5\"
+set F6  = \"$FILE6\"
+set F7  = \"$FILE7\"
+set F8  = \"$FILE8\"
+set F9  = \"$FILE9\"
+set F10 = \"$FILE10\"
+set GRIDQ   = \"$GRID\"
+set BGCQ    = \"$BGC\"
+set ENERGYQ = \"$ENERGY\"
+
+set COMPAREQ = \"$COMPARE\"
+set MODELN   = \"model2\"
+
+set INPUT_TEXT = "model_name=$MODELQ model_grid=$GRIDQ dirm=$DIRMQ film1=$F1 film2=$F2 film3=$F3 film4=$F4 film5=$F5 film6=$F6 film7=$F7 film8=$F8 film9=$F9 film10=$F10 BGC=$BGCQ ENERGY=$ENERGYQ dirs=$DIRSQ diro=$DIROQ dirscript=$DIRCQ modeln=$MODELN compare=$COMPAREQ"
+ 
+echo "`date` - Running diagnostics for model ${MODELQ}"
+# CLAMP metric processing of model2
+echo "`date` - Running 00.inital.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/00.initial.ncl
+echo "`date` - Running 01.npp.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/01.npp.ncl
+echo "`date` - Running 02.lai.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/02.lai.ncl
+
+if ($FILE3 != "") then
+echo "`date` - Running 03.co2.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/03.co2.ncl
+endif
+
+echo "`date` - Running 04.biomass.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/04.biomass.ncl
+echo "`date` - Running 06.fluxnet.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/06.fluxnet.ncl
+echo "`date` - Running 07.beta.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/07.beta.ncl
+echo "`date` - Running 08.turnover.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/08.turnover.ncl
+
+if ($BGC != "casa") then
+echo "`date` - Running 09.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09.carbon_sink.ncl
+else
+echo "`date` - Running 09x.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09x.carbon_sink.ncl
+endif
+
+if ($BGC != "casa") then
+echo "`date` - Running 10.fire.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+endif
+
+echo "`date` - Running 11.ameriflux.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/11.ameriflux.ncl
+echo "`date` - Running 99.final.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/99.final.ncl
+
+# create a tar file from the final output
+echo "`date` - tarring up final output into all.tar"
+tar cf - $MODEL1 $MODEL2 $COMPARE > all.tar
+
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/run_2-model_38cn_39cn.csh
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/all/run_2-model_38cn_39cn.csh	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,247 @@
+#!/bin/csh -f
+#-------------------------------------------------------------------
+# note: user modifies ONLY the "user modification" section 
+#
+#       COMPARE: model1 vs model2
+#       MODELn : model name
+#       DIR_M  : directory of model data
+#       DIR_O  : directory of observed data
+#       DIR_S  : directory of model surface data
+#       DIR_SCRIPTS  : directory of run scripts
+#       FILE1  : time_mean  climatology from CLM diagnostic package
+#       FILE2  : 12-monthly climatology from CLM diagnostic package
+#       FILE3  : 12-monthly climatology from ATM diagnostic package
+#                leave it blank, if no ATM file:
+#                set FILE3 =
+#       FILE7 : timeseries file generated from .... 
+#       FILE8 : timeseries file generated from .... 
+#       GRID   : T31, T42, or 1.9
+#       BGC    : cn or casa 
+#       ENERGY : new or old (fields in model data)
+#-------------------------------------------------------------------
+
+#*******************************************************
+# user modification-(1)
+
+# directory name of model comparison
+#et COMPARE = b30.061n_vs_b30.061m
+set COMPARE = i01.38cn_vs_i01.39cn
+
+#*******************************************************
+# user modification-(2)
+
+# model1 
+set MODEL1 = i01.38cn
+set DIR_M  = /lustre/wolf-ddn/scratch/hof/cases1/i01.38cn_out/
+set FILE1  = i01.38cn_out_ANN_climo.nc
+set FILE2  = i01.38cn_out_MONS_climo.nc
+set FILE3  = 
+set FILE4  = $FILE1
+set FILE5  = $FILE1
+set FILE6  = $FILE1
+set FILE7  = i01.38cn_Fire_C_2151-2175_monthly.nc
+set FILE8  = i01.38cn_ameriflux_2151-2175_monthly.nc
+set FILE9  = $FILE1
+set FILE10 = $FILE2
+set GRID   = 1.9
+set BGC    = cn
+set ENERGY = old
+
+# in the "CLAMP metric processing" section:
+#  only 00.initial.ncl and 99.final.ncl are required,
+#  user can comment out any one or more of the other ncl scripts,
+#  e.g. 
+#  #ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+
+# model surface data
+set DIR_S  = /lustre/wolf-ddn/scratch/hof/clamp_data/surface_model/
+
+# observed data
+set DIR_O  = /lustre/wolf-ddn/scratch/hof/clamp_data/observed/
+
+# directory for scripts, templates and ncl files
+set DIR_SCRIPTS = /lustre/wolf-ddn/scratch/hof/clamp/all/
+
+#********************************************************
+
+# create model1 and model1_vs_model2 directory by copying templates
+if ($FILE3 != "") then
+   set TEMPLATE1 = template_1-model
+   set TEMPLATE2 = template_2-model
+else
+   set TEMPLATE1 = template_1-model_noCO2
+   set TEMPLATE2 = template_2-model_noCO2
+endif
+#cp -r $DIR_SCRIPTS/$TEMPLATE1 $MODEL1
+#cp -r $DIR_SCRIPTS/$TEMPLATE2 $COMPARE
+rm -rf $MODEL1
+rm -rf $COMPARE
+tar xvpf $DIR_SCRIPTS/$TEMPLATE1.tar
+mv $TEMPLATE1 $MODEL1
+tar xvpf $DIR_SCRIPTS/$TEMPLATE2.tar
+mv $TEMPLATE2 $COMPARE
+
+# add quote, to be usesd in INPUT_TEXT
+set MODELQ = \"$MODEL1\"
+set DIRMQ  = \"$DIR_M\"
+set F1  = \"$FILE1\"
+set F2  = \"$FILE2\"
+set F3  = \"$FILE3\"
+set F4  = \"$FILE4\"
+set F5  = \"$FILE5\"
+set F6  = \"$FILE6\"
+set F7  = \"$FILE7\"
+set F8  = \"$FILE8\"
+set F9  = \"$FILE9\"
+set F10 = \"$FILE10\"
+set GRIDQ   = \"$GRID\"
+set BGCQ    = \"$BGC\"
+set ENERGYQ = \"$ENERGY\"
+set DIRSQ   = \"$DIR_S\"
+set DIROQ   = \"$DIR_O\"
+set DIRCQ   = \"$DIR_SCRIPTS\"
+
+set COMPAREQ = \"$COMPARE\"
+set MODELN   = \"model1\"
+
+set INPUT_TEXT = "model_name=$MODELQ model_grid=$GRIDQ dirm=$DIRMQ film1=$F1 film2=$F2 film3=$F3 film4=$F4 film5=$F5 film6=$F6 film7=$F7 film8=$F8 film9=$F9 film10=$F10 BGC=$BGCQ ENERGY=$ENERGYQ dirs=$DIRSQ diro=$DIROQ dirscript=$DIRCQ modeln=$MODELN compare=$COMPAREQ"
+ 
+echo "`date` - Running diagnostics for model ${MODELQ}"
+# CLAMP metric processing of model1
+echo "`date` - Running 00.initial.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/00.initial.ncl
+echo "`date` - Running 01.npp.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/01.npp.ncl
+echo "`date` - Running 01.lai.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/02.lai.ncl
+
+if ($FILE3 != "") then
+echo "`date` - Running 03.co2.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/03.co2.ncl
+endif
+
+echo "`date` - Running 04.biomass.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/04.biomass.ncl
+echo "`date` - Running 06.fluxnet.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/06.fluxnet.ncl
+echo "`date` - Running 07.beta.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/07.beta.ncl
+echo "`date` - Running 08.turnover.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/08.turnover.ncl
+
+if ($BGC != "casa") then
+echo "`date` - Running 09.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09.carbon_sink.ncl
+else
+echo "`date` - Running 09x.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09x.carbon_sink.ncl
+endif
+
+if ($BGC != "casa") then
+echo "`date` - Running 10.fire.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+endif
+
+echo "`date` - Running 11.ameriflux.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/11.ameriflux.ncl
+echo "`date` - Running 99.final.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/99.final.ncl
+
+#*******************************************************
+# user modification-(3)
+
+# model2
+set MODEL2 = i01.39cn
+set DIR_M  = /lustre/wolf-ddn/scratch/hof/cases1/i01.39cn_out/
+set FILE1  = i01.39cn_out_ANN_climo.nc
+set FILE2  = i01.39cn_out_MONS_climo.nc
+set FILE3  = 
+set FILE4  = $FILE1
+set FILE5  = $FILE1
+set FILE6  = $FILE1
+set FILE7  = i01.39cn_Fire_C_2101-2125_monthly.nc
+set FILE8  = i01.39cn_ameriflux_2101-2125_monthly.nc
+set FILE9  = $FILE1
+set FILE10 = $FILE2
+set GRID   = 1.9
+set BGC    = cn
+set ENERGY = old
+#*******************************************************
+# create model2 directory by copying templates
+if ($FILE3 != "") then
+   set TEMPLATE1 = template_1-model
+else
+   set TEMPLATE1 = template_1-model_noCO2
+endif
+#cp -r $DIR_SCRIPTS/$TEMPLATE1 $MODEL2
+rm -rf $MODEL2
+tar xvpf $DIR_SCRIPTS/$TEMPLATE1.tar
+mv $TEMPLATE1 $MODEL2
+
+# add quote, to be usesd in INPUT_TEXT
+set MODELQ  = \"$MODEL2\"
+set DIRMQ   = \"$DIR_M\"
+set F1  = \"$FILE1\"
+set F2  = \"$FILE2\"
+set F3  = \"$FILE3\"
+set F4  = \"$FILE4\"
+set F5  = \"$FILE5\"
+set F6  = \"$FILE6\"
+set F7  = \"$FILE7\"
+set F8  = \"$FILE8\"
+set F9  = \"$FILE9\"
+set F10 = \"$FILE10\"
+set GRIDQ   = \"$GRID\"
+set BGCQ    = \"$BGC\"
+set ENERGYQ = \"$ENERGY\"
+
+set COMPAREQ = \"$COMPARE\"
+set MODELN   = \"model2\"
+
+set INPUT_TEXT = "model_name=$MODELQ model_grid=$GRIDQ dirm=$DIRMQ film1=$F1 film2=$F2 film3=$F3 film4=$F4 film5=$F5 film6=$F6 film7=$F7 film8=$F8 film9=$F9 film10=$F10 BGC=$BGCQ ENERGY=$ENERGYQ dirs=$DIRSQ diro=$DIROQ dirscript=$DIRCQ modeln=$MODELN compare=$COMPAREQ"
+ 
+echo "`date` - Running diagnostics for model ${MODELQ}"
+# CLAMP metric processing of model2
+echo "`date` - Running 00.inital.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/00.initial.ncl
+echo "`date` - Running 01.npp.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/01.npp.ncl
+echo "`date` - Running 02.lai.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/02.lai.ncl
+
+if ($FILE3 != "") then
+echo "`date` - Running 03.co2.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/03.co2.ncl
+endif
+
+echo "`date` - Running 04.biomass.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/04.biomass.ncl
+echo "`date` - Running 06.fluxnet.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/06.fluxnet.ncl
+echo "`date` - Running 07.beta.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/07.beta.ncl
+echo "`date` - Running 08.turnover.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/08.turnover.ncl
+
+if ($BGC != "casa") then
+echo "`date` - Running 09.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09.carbon_sink.ncl
+else
+echo "`date` - Running 09x.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09x.carbon_sink.ncl
+endif
+
+if ($BGC != "casa") then
+echo "`date` - Running 10.fire.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+endif
+
+echo "`date` - Running 11.ameriflux.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/11.ameriflux.ncl
+echo "`date` - Running 99.final.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/99.final.ncl
+
+# create a tar file from the final output
+echo "`date` - tarring up final output into all.tar"
+tar cf - $MODEL1 $MODEL2 $COMPARE > all.tar
+
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/run_2-model_38cn_41cn.csh
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/all/run_2-model_38cn_41cn.csh	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,247 @@
+#!/bin/csh -f
+#-------------------------------------------------------------------
+# note: user modifies ONLY the "user modification" section 
+#
+#       COMPARE: model1 vs model2
+#       MODELn : model name
+#       DIR_M  : directory of model data
+#       DIR_O  : directory of observed data
+#       DIR_S  : directory of model surface data
+#       DIR_SCRIPTS  : directory of run scripts
+#       FILE1  : time_mean  climatology from CLM diagnostic package
+#       FILE2  : 12-monthly climatology from CLM diagnostic package
+#       FILE3  : 12-monthly climatology from ATM diagnostic package
+#                leave it blank, if no ATM file:
+#                set FILE3 =
+#       FILE7 : timeseries file generated from .... 
+#       FILE8 : timeseries file generated from .... 
+#       GRID   : T31, T42, or 1.9
+#       BGC    : cn or casa 
+#       ENERGY : new or old (fields in model data)
+#-------------------------------------------------------------------
+
+#*******************************************************
+# user modification-(1)
+
+# directory name of model comparison
+#et COMPARE = b30.061n_vs_b30.061m
+set COMPARE = i01.38cn_vs_i01.41cn
+
+#*******************************************************
+# user modification-(2)
+
+# model1 
+set MODEL1 = i01.38cn
+set DIR_M  = /lustre/wolf-ddn/scratch/hof/cases1/i01.38cn_out/
+set FILE1  = i01.38cn_out_ANN_climo.nc
+set FILE2  = i01.38cn_out_MONS_climo.nc
+set FILE3  = 
+set FILE4  = $FILE1
+set FILE5  = $FILE1
+set FILE6  = $FILE1
+set FILE7  = i01.38cn_Fire_C_2151-2175_monthly.nc
+set FILE8  = i01.38cn_ameriflux_2151-2175_monthly.nc
+set FILE9  = $FILE1
+set FILE10 = $FILE2
+set GRID   = 1.9
+set BGC    = cn
+set ENERGY = old
+
+# in the "CLAMP metric processing" section:
+#  only 00.initial.ncl and 99.final.ncl are required,
+#  user can comment out any one or more of the other ncl scripts,
+#  e.g. 
+#  #ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+
+# model surface data
+set DIR_S  = /lustre/wolf-ddn/scratch/hof/clamp_data/surface_model/
+
+# observed data
+set DIR_O  = /lustre/wolf-ddn/scratch/hof/clamp_data/observed/
+
+# directory for scripts, templates and ncl files
+set DIR_SCRIPTS = /lustre/wolf-ddn/scratch/hof/clamp/all/
+
+#********************************************************
+
+# create model1 and model1_vs_model2 directory by copying templates
+if ($FILE3 != "") then
+   set TEMPLATE1 = template_1-model
+   set TEMPLATE2 = template_2-model
+else
+   set TEMPLATE1 = template_1-model_noCO2
+   set TEMPLATE2 = template_2-model_noCO2
+endif
+#cp -r $DIR_SCRIPTS/$TEMPLATE1 $MODEL1
+#cp -r $DIR_SCRIPTS/$TEMPLATE2 $COMPARE
+rm -rf $MODEL1
+rm -rf $COMPARE
+tar xvpf $DIR_SCRIPTS/$TEMPLATE1.tar
+mv $TEMPLATE1 $MODEL1
+tar xvpf $DIR_SCRIPTS/$TEMPLATE2.tar
+mv $TEMPLATE2 $COMPARE
+
+# add quote, to be usesd in INPUT_TEXT
+set MODELQ = \"$MODEL1\"
+set DIRMQ  = \"$DIR_M\"
+set F1  = \"$FILE1\"
+set F2  = \"$FILE2\"
+set F3  = \"$FILE3\"
+set F4  = \"$FILE4\"
+set F5  = \"$FILE5\"
+set F6  = \"$FILE6\"
+set F7  = \"$FILE7\"
+set F8  = \"$FILE8\"
+set F9  = \"$FILE9\"
+set F10 = \"$FILE10\"
+set GRIDQ   = \"$GRID\"
+set BGCQ    = \"$BGC\"
+set ENERGYQ = \"$ENERGY\"
+set DIRSQ   = \"$DIR_S\"
+set DIROQ   = \"$DIR_O\"
+set DIRCQ   = \"$DIR_SCRIPTS\"
+
+set COMPAREQ = \"$COMPARE\"
+set MODELN   = \"model1\"
+
+set INPUT_TEXT = "model_name=$MODELQ model_grid=$GRIDQ dirm=$DIRMQ film1=$F1 film2=$F2 film3=$F3 film4=$F4 film5=$F5 film6=$F6 film7=$F7 film8=$F8 film9=$F9 film10=$F10 BGC=$BGCQ ENERGY=$ENERGYQ dirs=$DIRSQ diro=$DIROQ dirscript=$DIRCQ modeln=$MODELN compare=$COMPAREQ"
+ 
+echo "`date` - Running diagnostics for model ${MODELQ}"
+# CLAMP metric processing of model1
+echo "`date` - Running 00.initial.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/00.initial.ncl
+echo "`date` - Running 01.npp.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/01.npp.ncl
+echo "`date` - Running 01.lai.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/02.lai.ncl
+
+if ($FILE3 != "") then
+echo "`date` - Running 03.co2.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/03.co2.ncl
+endif
+
+echo "`date` - Running 04.biomass.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/04.biomass.ncl
+echo "`date` - Running 06.fluxnet.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/06.fluxnet.ncl
+echo "`date` - Running 07.beta.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/07.beta.ncl
+echo "`date` - Running 08.turnover.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/08.turnover.ncl
+
+if ($BGC != "casa") then
+echo "`date` - Running 09.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09.carbon_sink.ncl
+else
+echo "`date` - Running 09x.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09x.carbon_sink.ncl
+endif
+
+if ($BGC != "casa") then
+echo "`date` - Running 10.fire.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+endif
+
+echo "`date` - Running 11.ameriflux.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/11.ameriflux.ncl
+echo "`date` - Running 99.final.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/99.final.ncl
+
+#*******************************************************
+# user modification-(3)
+
+# model2
+set MODEL2 = i01.41cn
+set DIR_M  = /lustre/wolf-ddn/scratch/hof/cases1/i01.41cn_out/
+set FILE1  = i01.41cn_out_ANN_climo.nc
+set FILE2  = i01.41cn_out_MONS_climo.nc
+set FILE3  = 
+set FILE4  = $FILE1
+set FILE5  = $FILE1
+set FILE6  = $FILE1
+set FILE7  = i01.41cn_Fire_C_2076-2100_monthly.nc
+set FILE8  = i01.41cn_ameriflux_2076-2100_monthly.nc
+set FILE9  = $FILE1
+set FILE10 = $FILE2
+set GRID   = 1.9
+set BGC    = cn
+set ENERGY = old
+#*******************************************************
+# create model2 directory by copying templates
+if ($FILE3 != "") then
+   set TEMPLATE1 = template_1-model
+else
+   set TEMPLATE1 = template_1-model_noCO2
+endif
+#cp -r $DIR_SCRIPTS/$TEMPLATE1 $MODEL2
+rm -rf $MODEL2
+tar xvpf $DIR_SCRIPTS/$TEMPLATE1.tar
+mv $TEMPLATE1 $MODEL2
+
+# add quote, to be usesd in INPUT_TEXT
+set MODELQ  = \"$MODEL2\"
+set DIRMQ   = \"$DIR_M\"
+set F1  = \"$FILE1\"
+set F2  = \"$FILE2\"
+set F3  = \"$FILE3\"
+set F4  = \"$FILE4\"
+set F5  = \"$FILE5\"
+set F6  = \"$FILE6\"
+set F7  = \"$FILE7\"
+set F8  = \"$FILE8\"
+set F9  = \"$FILE9\"
+set F10 = \"$FILE10\"
+set GRIDQ   = \"$GRID\"
+set BGCQ    = \"$BGC\"
+set ENERGYQ = \"$ENERGY\"
+
+set COMPAREQ = \"$COMPARE\"
+set MODELN   = \"model2\"
+
+set INPUT_TEXT = "model_name=$MODELQ model_grid=$GRIDQ dirm=$DIRMQ film1=$F1 film2=$F2 film3=$F3 film4=$F4 film5=$F5 film6=$F6 film7=$F7 film8=$F8 film9=$F9 film10=$F10 BGC=$BGCQ ENERGY=$ENERGYQ dirs=$DIRSQ diro=$DIROQ dirscript=$DIRCQ modeln=$MODELN compare=$COMPAREQ"
+ 
+echo "`date` - Running diagnostics for model ${MODELQ}"
+# CLAMP metric processing of model2
+echo "`date` - Running 00.inital.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/00.initial.ncl
+echo "`date` - Running 01.npp.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/01.npp.ncl
+echo "`date` - Running 02.lai.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/02.lai.ncl
+
+if ($FILE3 != "") then
+echo "`date` - Running 03.co2.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/03.co2.ncl
+endif
+
+echo "`date` - Running 04.biomass.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/04.biomass.ncl
+echo "`date` - Running 06.fluxnet.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/06.fluxnet.ncl
+echo "`date` - Running 07.beta.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/07.beta.ncl
+echo "`date` - Running 08.turnover.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/08.turnover.ncl
+
+if ($BGC != "casa") then
+echo "`date` - Running 09.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09.carbon_sink.ncl
+else
+echo "`date` - Running 09x.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09x.carbon_sink.ncl
+endif
+
+if ($BGC != "casa") then
+echo "`date` - Running 10.fire.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+endif
+
+echo "`date` - Running 11.ameriflux.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/11.ameriflux.ncl
+echo "`date` - Running 99.final.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/99.final.ncl
+
+# create a tar file from the final output
+echo "`date` - tarring up final output into all.tar"
+tar cf - $MODEL1 $MODEL2 $COMPARE > all.tar
+
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/run_2-model_39cn_40cn.csh
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/all/run_2-model_39cn_40cn.csh	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,247 @@
+#!/bin/csh -f
+#-------------------------------------------------------------------
+# note: user modifies ONLY the "user modification" section 
+#
+#       COMPARE: model1 vs model2
+#       MODELn : model name
+#       DIR_M  : directory of model data
+#       DIR_O  : directory of observed data
+#       DIR_S  : directory of model surface data
+#       DIR_SCRIPTS  : directory of run scripts
+#       FILE1  : time_mean  climatology from CLM diagnostic package
+#       FILE2  : 12-monthly climatology from CLM diagnostic package
+#       FILE3  : 12-monthly climatology from ATM diagnostic package
+#                leave it blank, if no ATM file:
+#                set FILE3 =
+#       FILE7 : timeseries file generated from .... 
+#       FILE8 : timeseries file generated from .... 
+#       GRID   : T31, T42, or 1.9
+#       BGC    : cn or casa 
+#       ENERGY : new or old (fields in model data)
+#-------------------------------------------------------------------
+
+#*******************************************************
+# user modification-(1)
+
+# directory name of model comparison
+#et COMPARE = b30.061n_vs_b30.061m
+set COMPARE = i01.39cn_vs_i01.40cn
+
+#*******************************************************
+# user modification-(2)
+
+# model1 
+set MODEL1 = i01.39cn
+set DIR_M  = /lustre/wolf-ddn/scratch/hof/cases1/i01.39cn_out/
+set FILE1  = i01.39cn_out_ANN_climo.nc
+set FILE2  = i01.39cn_out_MONS_climo.nc
+set FILE3  = 
+set FILE4  = $FILE1
+set FILE5  = $FILE1
+set FILE6  = $FILE1
+set FILE7  = i01.39cn_Fire_C_2101-2125_monthly.nc
+set FILE8  = i01.39cn_ameriflux_2101-2125_monthly.nc
+set FILE9  = $FILE1
+set FILE10 = $FILE2
+set GRID   = 1.9
+set BGC    = cn
+set ENERGY = old
+
+# in the "CLAMP metric processing" section:
+#  only 00.initial.ncl and 99.final.ncl are required,
+#  user can comment out any one or more of the other ncl scripts,
+#  e.g. 
+#  #ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+
+# model surface data
+set DIR_S  = /lustre/wolf-ddn/scratch/hof/clamp_data/surface_model/
+
+# observed data
+set DIR_O  = /lustre/wolf-ddn/scratch/hof/clamp_data/observed/
+
+# directory for scripts, templates and ncl files
+set DIR_SCRIPTS = /lustre/wolf-ddn/scratch/hof/clamp/all/
+
+#********************************************************
+
+# create model1 and model1_vs_model2 directory by copying templates
+if ($FILE3 != "") then
+   set TEMPLATE1 = template_1-model
+   set TEMPLATE2 = template_2-model
+else
+   set TEMPLATE1 = template_1-model_noCO2
+   set TEMPLATE2 = template_2-model_noCO2
+endif
+#cp -r $DIR_SCRIPTS/$TEMPLATE1 $MODEL1
+#cp -r $DIR_SCRIPTS/$TEMPLATE2 $COMPARE
+rm -rf $MODEL1
+rm -rf $COMPARE
+tar xvpf $DIR_SCRIPTS/$TEMPLATE1.tar
+mv $TEMPLATE1 $MODEL1
+tar xvpf $DIR_SCRIPTS/$TEMPLATE2.tar
+mv $TEMPLATE2 $COMPARE
+
+# add quote, to be usesd in INPUT_TEXT
+set MODELQ = \"$MODEL1\"
+set DIRMQ  = \"$DIR_M\"
+set F1  = \"$FILE1\"
+set F2  = \"$FILE2\"
+set F3  = \"$FILE3\"
+set F4  = \"$FILE4\"
+set F5  = \"$FILE5\"
+set F6  = \"$FILE6\"
+set F7  = \"$FILE7\"
+set F8  = \"$FILE8\"
+set F9  = \"$FILE9\"
+set F10 = \"$FILE10\"
+set GRIDQ   = \"$GRID\"
+set BGCQ    = \"$BGC\"
+set ENERGYQ = \"$ENERGY\"
+set DIRSQ   = \"$DIR_S\"
+set DIROQ   = \"$DIR_O\"
+set DIRCQ   = \"$DIR_SCRIPTS\"
+
+set COMPAREQ = \"$COMPARE\"
+set MODELN   = \"model1\"
+
+set INPUT_TEXT = "model_name=$MODELQ model_grid=$GRIDQ dirm=$DIRMQ film1=$F1 film2=$F2 film3=$F3 film4=$F4 film5=$F5 film6=$F6 film7=$F7 film8=$F8 film9=$F9 film10=$F10 BGC=$BGCQ ENERGY=$ENERGYQ dirs=$DIRSQ diro=$DIROQ dirscript=$DIRCQ modeln=$MODELN compare=$COMPAREQ"
+ 
+echo "`date` - Running diagnostics for model ${MODELQ}"
+# CLAMP metric processing of model1
+echo "`date` - Running 00.initial.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/00.initial.ncl
+echo "`date` - Running 01.npp.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/01.npp.ncl
+echo "`date` - Running 01.lai.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/02.lai.ncl
+
+if ($FILE3 != "") then
+echo "`date` - Running 03.co2.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/03.co2.ncl
+endif
+
+echo "`date` - Running 04.biomass.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/04.biomass.ncl
+echo "`date` - Running 06.fluxnet.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/06.fluxnet.ncl
+echo "`date` - Running 07.beta.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/07.beta.ncl
+echo "`date` - Running 08.turnover.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/08.turnover.ncl
+
+if ($BGC != "casa") then
+echo "`date` - Running 09.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09.carbon_sink.ncl
+else
+echo "`date` - Running 09x.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09x.carbon_sink.ncl
+endif
+
+if ($BGC != "casa") then
+echo "`date` - Running 10.fire.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+endif
+
+echo "`date` - Running 11.ameriflux.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/11.ameriflux.ncl
+echo "`date` - Running 99.final.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/99.final.ncl
+
+#*******************************************************
+# user modification-(3)
+
+# model2
+set MODEL2 = i01.40cn
+set DIR_M  = /lustre/wolf-ddn/scratch/hof/cases1/i01.40cn_out/
+set FILE1  = i01.40cn_out_ANN_climo.nc
+set FILE2  = i01.40cn_out_MONS_climo.nc
+set FILE3  = 
+set FILE4  = $FILE1
+set FILE5  = $FILE1
+set FILE6  = $FILE1
+set FILE7  = i01.40cn_Fire_C_2076-2100_monthly.nc
+set FILE8  = i01.40cn_ameriflux_2076-2100_monthly.nc
+set FILE9  = $FILE1
+set FILE10 = $FILE2
+set GRID   = 1.9
+set BGC    = cn
+set ENERGY = old
+#*******************************************************
+# create model2 directory by copying templates
+if ($FILE3 != "") then
+   set TEMPLATE1 = template_1-model
+else
+   set TEMPLATE1 = template_1-model_noCO2
+endif
+#cp -r $DIR_SCRIPTS/$TEMPLATE1 $MODEL2
+rm -rf $MODEL2
+tar xvpf $DIR_SCRIPTS/$TEMPLATE1.tar
+mv $TEMPLATE1 $MODEL2
+
+# add quote, to be usesd in INPUT_TEXT
+set MODELQ  = \"$MODEL2\"
+set DIRMQ   = \"$DIR_M\"
+set F1  = \"$FILE1\"
+set F2  = \"$FILE2\"
+set F3  = \"$FILE3\"
+set F4  = \"$FILE4\"
+set F5  = \"$FILE5\"
+set F6  = \"$FILE6\"
+set F7  = \"$FILE7\"
+set F8  = \"$FILE8\"
+set F9  = \"$FILE9\"
+set F10 = \"$FILE10\"
+set GRIDQ   = \"$GRID\"
+set BGCQ    = \"$BGC\"
+set ENERGYQ = \"$ENERGY\"
+
+set COMPAREQ = \"$COMPARE\"
+set MODELN   = \"model2\"
+
+set INPUT_TEXT = "model_name=$MODELQ model_grid=$GRIDQ dirm=$DIRMQ film1=$F1 film2=$F2 film3=$F3 film4=$F4 film5=$F5 film6=$F6 film7=$F7 film8=$F8 film9=$F9 film10=$F10 BGC=$BGCQ ENERGY=$ENERGYQ dirs=$DIRSQ diro=$DIROQ dirscript=$DIRCQ modeln=$MODELN compare=$COMPAREQ"
+ 
+echo "`date` - Running diagnostics for model ${MODELQ}"
+# CLAMP metric processing of model2
+echo "`date` - Running 00.inital.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/00.initial.ncl
+echo "`date` - Running 01.npp.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/01.npp.ncl
+echo "`date` - Running 02.lai.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/02.lai.ncl
+
+if ($FILE3 != "") then
+echo "`date` - Running 03.co2.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/03.co2.ncl
+endif
+
+echo "`date` - Running 04.biomass.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/04.biomass.ncl
+echo "`date` - Running 06.fluxnet.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/06.fluxnet.ncl
+echo "`date` - Running 07.beta.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/07.beta.ncl
+echo "`date` - Running 08.turnover.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/08.turnover.ncl
+
+if ($BGC != "casa") then
+echo "`date` - Running 09.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09.carbon_sink.ncl
+else
+echo "`date` - Running 09x.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09x.carbon_sink.ncl
+endif
+
+if ($BGC != "casa") then
+echo "`date` - Running 10.fire.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+endif
+
+echo "`date` - Running 11.ameriflux.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/11.ameriflux.ncl
+echo "`date` - Running 99.final.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/99.final.ncl
+
+# create a tar file from the final output
+echo "`date` - tarring up final output into all.tar"
+tar cf - $MODEL1 $MODEL2 $COMPARE > all.tar
+
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/run_2-model_42cn_43cn.csh
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/all/run_2-model_42cn_43cn.csh	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,247 @@
+#!/bin/csh -f
+#-------------------------------------------------------------------
+# note: user modifies ONLY the "user modification" section 
+#
+#       COMPARE: model1 vs model2
+#       MODELn : model name
+#       DIR_M  : directory of model data
+#       DIR_O  : directory of observed data
+#       DIR_S  : directory of model surface data
+#       DIR_SCRIPTS  : directory of run scripts
+#       FILE1  : time_mean  climatology from CLM diagnostic package
+#       FILE2  : 12-monthly climatology from CLM diagnostic package
+#       FILE3  : 12-monthly climatology from ATM diagnostic package
+#                leave it blank, if no ATM file:
+#                set FILE3 =
+#       FILE7 : timeseries file generated from .... 
+#       FILE8 : timeseries file generated from .... 
+#       GRID   : T31, T42, or 1.9
+#       BGC    : cn or casa 
+#       ENERGY : new or old (fields in model data)
+#-------------------------------------------------------------------
+
+#*******************************************************
+# user modification-(1)
+
+# directory name of model comparison
+#et COMPARE = b30.061n_vs_b30.061m
+set COMPARE = i01.42cn_vs_i01.43cn
+
+#*******************************************************
+# user modification-(2)
+
+# model1 
+set MODEL1 = i01.42cn
+set DIR_M  = /lustre/wolf-ddn/scratch/hof/cases/i01.42cn_out/
+set FILE1  = i01.42cn_out_ANN_climo.nc
+set FILE2  = i01.42cn_out_MONS_climo.nc
+set FILE3  = 
+set FILE4  = $FILE1
+set FILE5  = $FILE1
+set FILE6  = $FILE1
+set FILE7  = i01.42cn_Fire_C_2976-3000_monthly.nc
+set FILE8  = i01.42cn_ameriflux_2976-3000_monthly.nc
+set FILE9  = $FILE1
+set FILE10 = $FILE2
+set GRID   = 1.9
+set BGC    = cn
+set ENERGY = old
+
+# in the "CLAMP metric processing" section:
+#  only 00.initial.ncl and 99.final.ncl are required,
+#  user can comment out any one or more of the other ncl scripts,
+#  e.g. 
+#  #ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+
+# model surface data
+set DIR_S  = /lustre/wolf-ddn/scratch/hof/clamp_data/surface_model/
+
+# observed data
+set DIR_O  = /lustre/wolf-ddn/scratch/hof/clamp_data/observed/
+
+# directory for scripts, templates and ncl files
+set DIR_SCRIPTS = /lustre/wolf-ddn/scratch/hof/clamp/all/
+
+#********************************************************
+
+# create model1 and model1_vs_model2 directory by copying templates
+if ($FILE3 != "") then
+   set TEMPLATE1 = template_1-model
+   set TEMPLATE2 = template_2-model
+else
+   set TEMPLATE1 = template_1-model_noCO2
+   set TEMPLATE2 = template_2-model_noCO2
+endif
+#cp -r $DIR_SCRIPTS/$TEMPLATE1 $MODEL1
+#cp -r $DIR_SCRIPTS/$TEMPLATE2 $COMPARE
+rm -rf $MODEL1
+rm -rf $COMPARE
+tar xvpf $DIR_SCRIPTS/$TEMPLATE1.tar
+mv $TEMPLATE1 $MODEL1
+tar xvpf $DIR_SCRIPTS/$TEMPLATE2.tar
+mv $TEMPLATE2 $COMPARE
+
+# add quote, to be usesd in INPUT_TEXT
+set MODELQ = \"$MODEL1\"
+set DIRMQ  = \"$DIR_M\"
+set F1  = \"$FILE1\"
+set F2  = \"$FILE2\"
+set F3  = \"$FILE3\"
+set F4  = \"$FILE4\"
+set F5  = \"$FILE5\"
+set F6  = \"$FILE6\"
+set F7  = \"$FILE7\"
+set F8  = \"$FILE8\"
+set F9  = \"$FILE9\"
+set F10 = \"$FILE10\"
+set GRIDQ   = \"$GRID\"
+set BGCQ    = \"$BGC\"
+set ENERGYQ = \"$ENERGY\"
+set DIRSQ   = \"$DIR_S\"
+set DIROQ   = \"$DIR_O\"
+set DIRCQ   = \"$DIR_SCRIPTS\"
+
+set COMPAREQ = \"$COMPARE\"
+set MODELN   = \"model1\"
+
+set INPUT_TEXT = "model_name=$MODELQ model_grid=$GRIDQ dirm=$DIRMQ film1=$F1 film2=$F2 film3=$F3 film4=$F4 film5=$F5 film6=$F6 film7=$F7 film8=$F8 film9=$F9 film10=$F10 BGC=$BGCQ ENERGY=$ENERGYQ dirs=$DIRSQ diro=$DIROQ dirscript=$DIRCQ modeln=$MODELN compare=$COMPAREQ"
+ 
+echo "`date` - Running diagnostics for model ${MODELQ}"
+# CLAMP metric processing of model1
+echo "`date` - Running 00.initial.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/00.initial.ncl
+echo "`date` - Running 01.npp.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/01.npp.ncl
+echo "`date` - Running 01.lai.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/02.lai.ncl
+
+if ($FILE3 != "") then
+echo "`date` - Running 03.co2.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/03.co2.ncl
+endif
+
+echo "`date` - Running 04.biomass.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/04.biomass.ncl
+echo "`date` - Running 06.fluxnet.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/06.fluxnet.ncl
+echo "`date` - Running 07.beta.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/07.beta.ncl
+echo "`date` - Running 08.turnover.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/08.turnover.ncl
+
+if ($BGC != "casa") then
+echo "`date` - Running 09.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09.carbon_sink.ncl
+else
+echo "`date` - Running 09x.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09x.carbon_sink.ncl
+endif
+
+if ($BGC != "casa") then
+echo "`date` - Running 10.fire.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+endif
+
+echo "`date` - Running 11.ameriflux.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/11.ameriflux.ncl
+echo "`date` - Running 99.final.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/99.final.ncl
+
+#*******************************************************
+# user modification-(3)
+
+# model2
+set MODEL2 = i01.43cn
+set DIR_M  = /lustre/wolf-ddn/scratch/hof/cases1/i01.43cn_out/
+set FILE1  = i01.43cn_out_ANN_climo.nc
+set FILE2  = i01.43cn_out_MONS_climo.nc
+set FILE3  = 
+set FILE4  = $FILE1
+set FILE5  = $FILE1
+set FILE6  = $FILE1
+set FILE7  = i01.43cn_Fire_C_2876-2900_monthly.nc
+set FILE8  = i01.43cn_ameriflux_2876-2900_monthly.nc
+set FILE9  = $FILE1
+set FILE10 = $FILE2
+set GRID   = 1.9
+set BGC    = cn
+set ENERGY = old
+#*******************************************************
+# create model2 directory by copying templates
+if ($FILE3 != "") then
+   set TEMPLATE1 = template_1-model
+else
+   set TEMPLATE1 = template_1-model_noCO2
+endif
+#cp -r $DIR_SCRIPTS/$TEMPLATE1 $MODEL2
+rm -rf $MODEL2
+tar xvpf $DIR_SCRIPTS/$TEMPLATE1.tar
+mv $TEMPLATE1 $MODEL2
+
+# add quote, to be usesd in INPUT_TEXT
+set MODELQ  = \"$MODEL2\"
+set DIRMQ   = \"$DIR_M\"
+set F1  = \"$FILE1\"
+set F2  = \"$FILE2\"
+set F3  = \"$FILE3\"
+set F4  = \"$FILE4\"
+set F5  = \"$FILE5\"
+set F6  = \"$FILE6\"
+set F7  = \"$FILE7\"
+set F8  = \"$FILE8\"
+set F9  = \"$FILE9\"
+set F10 = \"$FILE10\"
+set GRIDQ   = \"$GRID\"
+set BGCQ    = \"$BGC\"
+set ENERGYQ = \"$ENERGY\"
+
+set COMPAREQ = \"$COMPARE\"
+set MODELN   = \"model2\"
+
+set INPUT_TEXT = "model_name=$MODELQ model_grid=$GRIDQ dirm=$DIRMQ film1=$F1 film2=$F2 film3=$F3 film4=$F4 film5=$F5 film6=$F6 film7=$F7 film8=$F8 film9=$F9 film10=$F10 BGC=$BGCQ ENERGY=$ENERGYQ dirs=$DIRSQ diro=$DIROQ dirscript=$DIRCQ modeln=$MODELN compare=$COMPAREQ"
+ 
+echo "`date` - Running diagnostics for model ${MODELQ}"
+# CLAMP metric processing of model2
+echo "`date` - Running 00.inital.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/00.initial.ncl
+echo "`date` - Running 01.npp.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/01.npp.ncl
+echo "`date` - Running 02.lai.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/02.lai.ncl
+
+if ($FILE3 != "") then
+echo "`date` - Running 03.co2.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/03.co2.ncl
+endif
+
+echo "`date` - Running 04.biomass.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/04.biomass.ncl
+echo "`date` - Running 06.fluxnet.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/06.fluxnet.ncl
+echo "`date` - Running 07.beta.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/07.beta.ncl
+echo "`date` - Running 08.turnover.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/08.turnover.ncl
+
+if ($BGC != "casa") then
+echo "`date` - Running 09.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09.carbon_sink.ncl
+else
+echo "`date` - Running 09x.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09x.carbon_sink.ncl
+endif
+
+if ($BGC != "casa") then
+echo "`date` - Running 10.fire.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+endif
+
+echo "`date` - Running 11.ameriflux.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/11.ameriflux.ncl
+echo "`date` - Running 99.final.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/99.final.ncl
+
+# create a tar file from the final output
+echo "`date` - tarring up final output into all.tar"
+tar cf - $MODEL1 $MODEL2 $COMPARE > all.tar
+
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/run_2-model_FMH.csh
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/all/run_2-model_FMH.csh	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,254 @@
+#!/bin/csh -f
+#-------------------------------------------------------------------
+# note: user modifies ONLY the "user modification" section 
+#
+#       COMPARE: model1 vs model2
+#       MODELn : model name
+#       DIR_M  : directory of model data
+#       DIR_O  : directory of observed data
+#       DIR_S  : directory of model surface data
+#       DIR_SCRIPTS  : directory of run scripts
+#       FILE1  : time_mean  climatology from CLM diagnostic package
+#       FILE2  : 12-monthly climatology from CLM diagnostic package
+#       FILE3  : 12-monthly climatology from ATM diagnostic package
+#                leave it blank, if no ATM file:
+#                set FILE3 =
+#       FILE7 : timeseries file generated from .... 
+#       FILE8 : timeseries file generated from .... 
+#       GRID   : T31, T42, or 1.9
+#       BGC    : cn or casa 
+#       ENERGY : new or old (fields in model data)
+#-------------------------------------------------------------------
+
+#*******************************************************
+# user modification-(1)
+
+# directory name of model comparison
+#et COMPARE = b30.061n_vs_b30.061m
+set COMPARE = CN_vs_CASA 
+
+#*******************************************************
+# user modification-(2)
+
+# model1 
+set MODEL1 = CASA
+set DIR_M  = /lustre/wolf-ddn/scratch/hof/clamp_data/model/
+#set FILE1  = i01.10casa_1948-2004_ANN_climo.nc
+set FILE1  = i01.10casa_1975-2000_ANN_climo.nc
+set FILE2  = i01.10casa_1948-2004_MONS_climo.nc
+set FILE3  = f02.03casa_1876-1900_MONS_climo_atm.nc
+set FILE4  = i01.06casa_1980-2004_ANN_climo.nc
+set FILE5  = i01.10casa_1990-2004_ANN_climo.nc
+set FILE6  = i01.07casa_1990-2004_ANN_climo.nc
+set FILE7  = i01.10casa_Fire_C_1979-2004_monthly.nc
+set FILE8  = i01.10casa_ameriflux_1990-2004_monthly.nc
+set FILE9  = i01.10casa_2000-2004_ANN_climo.nc
+set FILE10 = i01.10casa_2000-2004_MONS_climo.nc
+set FILE11 = i01.10casa_2000_ANN_climo.nc
+set GRID   = T42
+set BGC    = casa
+set ENERGY = new
+
+# in the "CLAMP metric processing" section:
+#  only 00.initial.ncl and 99.final.ncl are required,
+#  user can comment out any one or more of the other ncl scripts,
+#  e.g. 
+#  #ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+
+# model surface data
+set DIR_S  = /lustre/wolf-ddn/scratch/hof/clamp_data/surface_model/
+
+# observed data
+set DIR_O  = /lustre/wolf-ddn/scratch/hof/clamp_data/observed/
+
+# directory for scripts, templates and ncl files
+set DIR_SCRIPTS = /lustre/wolf-ddn/scratch/hof/clamp/all/
+
+#********************************************************
+
+# create model1 and model1_vs_model2 directory by copying templates
+if ($FILE3 != "") then
+   set TEMPLATE1 = template_1-model
+   set TEMPLATE2 = template_2-model
+else
+   set TEMPLATE1 = template_1-model_noCO2
+   set TEMPLATE2 = template_2-model_noCO2
+endif
+#cp -r $DIR_SCRIPTS/$TEMPLATE1 $MODEL1
+#cp -r $DIR_SCRIPTS/$TEMPLATE2 $COMPARE
+rm -rf $MODEL1
+rm -rf $COMPARE
+tar xvpf $DIR_SCRIPTS/$TEMPLATE1.tar
+mv $TEMPLATE1 $MODEL1
+tar xvpf $DIR_SCRIPTS/$TEMPLATE2.tar
+mv $TEMPLATE2 $COMPARE
+
+# add quote, to be usesd in INPUT_TEXT
+set MODELQ = \"$MODEL1\"
+set DIRMQ  = \"$DIR_M\"
+set F1  = \"$FILE1\"
+set F2  = \"$FILE2\"
+set F3  = \"$FILE3\"
+set F4  = \"$FILE4\"
+set F5  = \"$FILE5\"
+set F6  = \"$FILE6\"
+set F7  = \"$FILE7\"
+set F8  = \"$FILE8\"
+set F9  = \"$FILE9\"
+set F10 = \"$FILE10\"
+set F11 = \"$FILE11\"
+set GRIDQ   = \"$GRID\"
+set BGCQ    = \"$BGC\"
+set ENERGYQ = \"$ENERGY\"
+set DIRSQ   = \"$DIR_S\"
+set DIROQ   = \"$DIR_O\"
+set DIRCQ   = \"$DIR_SCRIPTS\"
+
+set COMPAREQ = \"$COMPARE\"
+set MODELN   = \"model1\"
+
+set INPUT_TEXT = "model_name=$MODELQ model_grid=$GRIDQ dirm=$DIRMQ film1=$F1 film2=$F2 film3=$F3 film4=$F4 film5=$F5 film6=$F6 film7=$F7 film8=$F8 film9=$F9 film10=$F10 film11=$F11 BGC=$BGCQ ENERGY=$ENERGYQ dirs=$DIRSQ diro=$DIROQ dirscript=$DIRCQ modeln=$MODELN compare=$COMPAREQ"
+ 
+echo "`date` - Running diagnostics for model ${MODELQ}"
+# CLAMP metric processing of model1
+echo "`date` - Running 00.initial.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/00.initial.ncl
+echo "`date` - Running 01.npp.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/01.npp.ncl
+echo "`date` - Running 01.lai.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/02.lai.ncl
+
+if ($FILE3 != "") then
+echo "`date` - Running 03.co2.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/03.co2.ncl
+endif
+
+echo "`date` - Running 04.biomass.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/04.biomass.ncl
+echo "`date` - Running 06.fluxnet.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/06.fluxnet.ncl
+echo "`date` - Running 07.beta.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/07.beta.ncl
+echo "`date` - Running 08.turnover.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/08.turnover.ncl
+
+if ($BGC != "casa") then
+echo "`date` - Running 09.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09.carbon_sink.ncl
+else
+echo "`date` - Running 09x.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09x.carbon_sink.ncl
+endif
+
+if ($BGC != "casa") then
+echo "`date` - Running 10.fire.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+endif
+
+echo "`date` - Running 11.ameriflux.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/11.ameriflux.ncl
+echo "`date` - Running 99.final.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/99.final.ncl
+
+#*******************************************************
+# user modification-(3)
+
+# model2
+set MODEL2 = CN
+set DIR_M  = /lustre/wolf-ddn/scratch/hof/clamp_data/model/
+#set FILE1  = i01.10cn_1948-2004_ANN_climo.nc
+set FILE1  = i01.10cn_1975-2000_ANN_climo.nc
+set FILE2  = i01.10cn_1948-2004_MONS_climo.nc
+set FILE3  = f02.03cn_1901-1925_MONS_climo_atm.nc
+set FILE4  = i01.06cn_1980-2004_ANN_climo.nc
+set FILE5  = i01.10cn_1990-2004_ANN_climo.nc
+set FILE6  = i01.07cn_1990-2004_ANN_climo.nc
+set FILE7  = i01.10cn_Fire_C_1979-2004_monthly.nc
+set FILE8  = i01.10cn_ameriflux_1990-2004_monthly.nc
+set FILE9  = i01.10cn_2000-2004_ANN_climo.nc
+set FILE10 = i01.10cn_2000-2004_MONS_climo.nc
+set FILE11 = i01.10cn_2000_ANN_climo.nc
+set GRID   = T42
+set BGC    = cn
+set ENERGY = new
+
+#*******************************************************
+# create model2 directory by copying templates
+if ($FILE3 != "") then
+   set TEMPLATE1 = template_1-model
+else
+   set TEMPLATE1 = template_1-model_noCO2
+endif
+#cp -r $DIR_SCRIPTS/$TEMPLATE1 $MODEL2
+rm -rf $MODEL2
+tar xvpf $DIR_SCRIPTS/$TEMPLATE1.tar
+mv $TEMPLATE1 $MODEL2
+
+# add quote, to be usesd in INPUT_TEXT
+set MODELQ  = \"$MODEL2\"
+set DIRMQ   = \"$DIR_M\"
+set F1  = \"$FILE1\"
+set F2  = \"$FILE2\"
+set F3  = \"$FILE3\"
+set F4  = \"$FILE4\"
+set F5  = \"$FILE5\"
+set F6  = \"$FILE6\"
+set F7  = \"$FILE7\"
+set F8  = \"$FILE8\"
+set F9  = \"$FILE9\"
+set F10 = \"$FILE10\"
+set F11 = \"$FILE11\"
+set GRIDQ   = \"$GRID\"
+set BGCQ    = \"$BGC\"
+set ENERGYQ = \"$ENERGY\"
+
+set COMPAREQ = \"$COMPARE\"
+set MODELN   = \"model2\"
+
+set INPUT_TEXT = "model_name=$MODELQ model_grid=$GRIDQ dirm=$DIRMQ film1=$F1 film2=$F2 film3=$F3 film4=$F4 film5=$F5 film6=$F6 film7=$F7 film8=$F8 film9=$F9 film10=$F10 film11=$F11 BGC=$BGCQ ENERGY=$ENERGYQ dirs=$DIRSQ diro=$DIROQ dirscript=$DIRCQ modeln=$MODELN compare=$COMPAREQ"
+ 
+echo "`date` - Running diagnostics for model ${MODELQ}"
+# CLAMP metric processing of model2
+echo "`date` - Running 00.inital.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/00.initial.ncl
+echo "`date` - Running 01.npp.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/01.npp.ncl
+echo "`date` - Running 02.lai.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/02.lai.ncl
+
+if ($FILE3 != "") then
+echo "`date` - Running 03.co2.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/03.co2.ncl
+endif
+
+echo "`date` - Running 04.biomass.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/04.biomass.ncl
+echo "`date` - Running 06.fluxnet.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/06.fluxnet.ncl
+echo "`date` - Running 07.beta.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/07.beta.ncl
+echo "`date` - Running 08.turnover.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/08.turnover.ncl
+
+if ($BGC != "casa") then
+echo "`date` - Running 09.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09.carbon_sink.ncl
+else
+echo "`date` - Running 09x.carbon_sink.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/09x.carbon_sink.ncl
+endif
+
+if ($BGC != "casa") then
+echo "`date` - Running 10.fire.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/10.fire.ncl
+endif
+
+echo "`date` - Running 11.ameriflux.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/11.ameriflux.ncl
+echo "`date` - Running 99.final.ncl"
+ncl $INPUT_TEXT $DIR_SCRIPTS/99.final.ncl
+
+# create a tar file from the final output
+echo "`date` - tarring up final output into all.tar"
+tar cf - $MODEL1 $MODEL2 $COMPARE > all.tar
+
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/run_clamp_diag_LENS.csh
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/all/run_clamp_diag_LENS.csh	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,31 @@
+#!/bin/csh -f
+#PBS -A cli017bgc
+#PBS -N clamp_diag
+##PBS -q batch
+#PBS -l nodes=1:ppn=1
+#PBS -l walltime=02:00:00
+#PBS -j oe
+#PBS -S /bin/csh -V
+#PBS -m abe
+#PBS -M forrest@climatemodeling.org
+##PBS -M forrest@climatemodeling.org,8656843670@messaging.sprintpcs.com
+##PBS -M forrest@climatemodeling.org,fmhoffman@ipipi.com
+
+cd /tmp/work/hof/clamp/all/
+
+if ($?tcsh) then
+	set modules_shell="tcsh"
+else
+	set modules_shell="csh"
+endif
+
+source /usr/Modules/init/${modules_shell}
+
+unset modules_shell
+
+module load nco
+module load ncl
+
+#time ./lnd_template4.6_ORNL_27cn29.csh
+#time ./lnd_template4.6_ORNL_27cn31.csh >& lnd_template4.6_ORNL_27cn31.log
+time ./run_2-model_FMH.csh >& run_2-model_FMH.log
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/template_1-model.tar
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diff -r 0c6405ab2ff4 -r 4be95183fbcd all/template_1-model/index.html
--- a/all/template_1-model/index.html	Mon Jan 26 22:08:20 2009 -0500
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,16 +0,0 @@
-<html>
-<head>
-<title> Score Sheet for CLAMP </title>
-<meta name="description" content="score CLAMP">
-<meta name="keywords"    content="score BGC CLAMP CN CASA">
-<meta name="Authors"     content="Jeff Lee">
-</head>
-
-<!----------------------------------------------------------------------------->
-<h2> &nbsp; &nbsp; <a href=http://www.climatemodeling.org/c-lamp/metrics4.pdf>CLAMP Score Sheet for Biogeochemical Model Evaluation</h2>
-<!----------------------------------------------------------------------------->
-
-<!--#include virtual="table.html"-->
-
-<!----------------------------------------------------------------------------->
-</html>
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/template_1-model/table.html
--- a/all/template_1-model/table.html	Mon Jan 26 22:08:20 2009 -0500
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,407 +0,0 @@
-
-<!----------------------------------------------------------------------------->
-<table border=1 cellspacing=0 cellpadding=3 width=100%>
-<tr>
-   <th bgcolor=DDDDDD width=8% rowspan=2> Metric     </th>
-   <th bgcolor=DDDDDD rowspan=2> Metric <br> components</th>
-   <th bgcolor=DDDDDD rowspan=2> Observations & <br> comparison protocol</th>
-   <th bgcolor=DDDDDD rowspan=2> Model<br> model_name  </th>
-   <th bgcolor=DDDDDD colspan=2> Score (points) </th>
-</tr>
-<tr>
-   <th width=6% bgcolor=DDDDDD> Full </th>
-   <th width=6% bgcolor=DDDDDD> model_name </th>
-</tr>
- 
-<tr>
-   <th rowspan=6>NPP</th>
-
-   <th rowspan=2>EMDI NPP <br> observations</th>
- 
-   <th>         
-   <a href=./npp/table_site81_ob.html>
-   Class_A_table</a> 
-   </th>
- 
-   <th>         
-   <a href=./npp/table_site81_model_vs_ob.html>
-   table</a> <br>
-   <a href=./npp/scatter_model_vs_ob_81.png>
-   scatter_plot</a>
-   </th>
- 
-   <th>2.5</th>
-   <th>M_npp_S81</th>
-</tr>
- 
-<tr>
-   <th>
-   <a href=./npp/table_site933_ob.html>
-   Class_B_table</a>     
-   </th>
-    
-   <th>
-   <a href=./npp/table_site933_model_vs_ob.html>
-   table</a> <br>       
-   <a href=./npp/scatter_model_vs_ob_933.png>
-   scatter_plot</a>
-   </th>
-
-   <th>2.5</th> 
-   <th>M_npp_S933</th>
-</tr>
- 
-<tr>
-   <th rowspan=2>EMDI NPP<br>normalized by PPT</th>
- 
-   <th>        
-   <a href=./npp/histogram_ob_81.png>
-   Class_A_histogram</a>
-   </th>
- 
-   <th>
-   <a href=./npp/histogram_model_vs_ob_81.png>
-   Class_A_histogram</a>
-   </th>
- 
-   <th>2.5</th>
-   <th>M_npp_H81</th>
-</tr>
- 
-<tr>
-   <th>
-   <a href=./npp/histogram_ob_933.png>
-   Class_B_histogram</a>
-   </th>
- 
-   <th>
-   <a href=./npp/histogram_model_vs_ob_933.png>
-   Class_B_histogram</a>
-   </th>
-
-   <th>2.5</th>
-   <th>M_npp_H933</th>
-</tr>
- 
-<tr>
-   <th>Correlation with MODIS obs.</th>
- 
-   <th>
-   <a href=./npp/global_ob.png>
-   global_map</a>
-   </th>
- 
-   <th>
-   <a href=./npp/global_model.png>
-   model_map</a> <br>
-   <a href=./npp/global_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_npp_G</th>
-</tr>
- 
-<tr>
-   <th>Correlation with MODIS-zonal mean</th>
- 
-   <th>
-   <a href=./npp/zonal_ob.png>
-   zonal_mean_obs</a>
-   </th>
- 
-   <th>
-   <a href=./npp/zonal_model_vs_ob.png>
-   zonal_mean <br>model_vs_obs_plot</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_npp_Z</th>
-</tr>
- 
-<tr>
-   <th rowspan=3>LAI</th>
- 
-   <th>MODIS Mean</th>
- 
-   <th>        
-   <a href=./lai/global_class_ob.png>
-   land_class_obs</a> <br>
-   <a href=./lai/global_class_model.png>
-   land_class_model</a> <br>       
-   <a href=./lai/global_Mean_ob.png>
-   global_map</a>
-   </th>
- 
-   <th>
-   <a href=./lai/table_model_vs_ob.html>
-   model_vs_obs_table</a> <br>
-   <a href=./lai/global_Mean_model.png>
-   global_map</a> <br>
-   <a href=./lai/global_Mean_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_lai_Mean</th>
-</tr>
- 
-<tr>
-   <th>MODIS Maximum</th>
- 
-   <th>        
-   <a href=./lai/global_Max_ob.png>
-   global_map</a>
-   </th>
- 
-   <th>       
-   <a href=./lai/global_Max_model.png>
-   global_map</a> <br>
-   <a href=./lai/global_Max_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_lai_Max</th>
-</tr>
-<tr>
-   <th>MODIS Phase</th>
- 
-   <th>        
-   <a href=./lai/global_Phase_ob.png>
-   global_map</a>
-   </th>
- 
-   <th>       
-   <a href=./lai/global_Phase_model.png>
-   global_map</a> <br>
-   <a href=./lai/global_Phase_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_lai_Phase</th>
-</tr>
-
-<tr>
-   <th>CO2 <br> Seasonal <br> Cycle</th>
-   <th>Comparison with NOAA observations <br> phase and amplitude</th>
-
-   <th>--</th>
-
-   <th>
-   <a href=./co2/score+line_vs_ob.html>
-   model_vs_obs</a>
-   </th>
-
-   <th >20</th>
-   <th >M_co2</th>
-</tr>
- 
-<tr>
-   <th rowspan=2>Carbon<br> Stocks</th>
-
-   <th>Aboveground live biomass <br> in South America</th>
- 
-   <th>        
-   <a href=./biomass/global_ob.png>
-   obs_amazon</a>
-   </th>
- 
-   <th>        
-   <a href=./biomass/global_model.png>
-   model_amazon</a> <br>
-   <a href=./biomass/global_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
-
-   <th>5</th> 
-   <th>M_biomass</th>
-</tr>
- 
-<tr>
-
-   <th>Aboveground live <br> biomass <br> within Amazon Basin <br>(sum within Legal Amazon)</th>
-
-   <th>
-   <a href=./biomass/mask_ob.png>        
-   mask</a> <br>
-   <a href=./biomass/global_mask_ob.png>
-   obs_masked</a> <br>
-   Sum_biomass_ob (Pg C)
-   </th>
-
-   <th>
-   <a href=./biomass/global_mask_model.png>
-   model_masked</a> <br>
-   <a href=./biomass/global_mask_vs_ob.png>
-   model_vs_obs</a> <br>       
-   Sum_biomass_mod (Pg C)
-   </th>
-
-   <th>5</th>
-   <th>M_biomask</th>
-</tr>
- 
-<tr>
-   <th rowspan=4>Energy and<br>C Fluxes<br>from Fluxnet</th>
- 
-   <th>NEE</th>
-
-   <th rowspan=4>     
-   <a href=./fluxnet/line_ob.html> 
-    line_plot</a>
-   </th>
-
-   <th rowspan=4>     
-   <a href=./fluxnet/score+line_vs_ob.html> 
-    model_vs_obs</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_fluxnet_nee</th>
-</tr>
- 
-<tr>
-   <th>Net radiation</th>
-   <th>5</th>
-   <th>M_fluxnet_rad</th>
-</tr>
- 
-<tr>
-   <th>Latent heat</th>
-   <th>5</th>
-   <th>M_fluxnet_lh</th>
-</tr>
-  
-<tr>
-   <th>Sensible heat</th>
-   <th>5</th>
-   <th>M_fluxnet_sh</th>
-</tr>
-
-<tr>
-   <th rowspan=6>Energy and<br>C Fluxes<br>from Ameriflux</th>
- 
-   <th>NEE</th>
-
-   <th rowspan=6>     
-   <a href=./ameriflux/line_ob.html> 
-    line_plot</a>
-   </th>
-
-   <th rowspan=6>
-  <a href=./ameriflux/score+line_vs_ob.html> 
-    model_vs_obs</a> <br>
-   <a href=./ameriflux/tseries_vs_ob.html> 
-    timeseries_plot</a>
-   </th>
- 
-   <th>1</th>
-   <th>M_ameriflux_nee</th>
-</tr>
- 
-<tr>
-   <th>Shortwave Incoming</th>
-   <th>1</th>
-   <th>M_ameriflux_rad</th>
-</tr>
- 
-<tr>
-   <th>Latent heat</th>
-   <th>1</th>
-   <th>M_ameriflux_lh</th>
-</tr>
-  
-<tr>
-   <th>Sensible heat</th>
-   <th>1</th>
-   <th>M_ameriflux_sh</th>
-</tr>
-
-<tr>
-   <th>GPP</th>
-   <th>1</th>
-   <th>M_ameriflux_gpp</th>
-</tr>
-  
-<tr>
-   <th>ER</th>
-   <th>1</th>
-   <th>M_ameriflux_er</th>
-</tr>
- 
-<tr>
-   <th rowspan=4>Transient Dynamics</th>
-   <th>Beta factor for NPP Stimulation from elevated CO2</th>
-   <th>--</th>
-   <th>     
-   <a href=./beta/table_station.html> 
-    FACE_Site_comparison</a> <br>
-   <a href=./beta/table_biome.html> 
-    biome_table</a>
-   </th>
-   <th>3</th>
-   <th>M_beta</th>
-</tr>
- 
-<tr>
-   <th>Turnover times and pool sizes</th>
-   <th>--</th>
-   <th>     
-   <a href=./turnover/table_Leaf.html> 
-    Leaf</a> <br>
-   <a href=./turnover/table_Wood.html> 
-    Wood</a> <br>
-   <a href=./turnover/table_Fine_Root.html>
-    Fine_Root</a> <br>
-   <a href=./turnover/table_Litter.html> 
-    Litter</a> <br>
-   <a href=./turnover/table_Coarse_Woody_Debris.html> 
-    Coarse_Woody_Debris</a> <br>
-   <a href=./turnover/table_Soil.html> 
-    Soil</a>
-   </th>
-   <th>3</th>
-   <th>--</th>
-</tr>
- 
-<tr>
-   <th>Carbon Sinks<br>(1990-2004)</th>
-   <th>--</th>
-
-   <th>     
-   <a href=./carbon_sink/table_per_m2.html> 
-    biome_mean</a> <br>
-   <a href=./carbon_sink/table_per_biome.html> 
-    biome_total</a>
-   </th>
-
-   <th>2</th>
-   <th>--</th>
-</tr>
- 
-<tr>
-   <th>Fire Variability</th>
-   <th>--</th>
-
-   <th>     
-   <a href=./fire/global_model_vs_ob.png> 
-    global_spatial_comparison</a> <br>
-   <a href=./fire/table_fire.html> 
-    temporal_dynamics_(1997-2004)</a>
-   </th>
-
-   <th>2</th>
-   <th>M_fire</th>
-</tr>
-
-<tr>
-   <th bgcolor=DDDDDD> Total </th>
-   <th colspan=3>  </th>
-   <th bgcolor=DDDDDD>100</th>
-   <th bgcolor=DDDDDD>M_total</th>
-</tr>
- 
-</table>
-<!----------------------------------------------------------------------------->
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/template_1-model/tablerows.html
--- a/all/template_1-model/tablerows.html	Mon Jan 26 22:08:20 2009 -0500
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,13 +0,0 @@
-<!----------------------------------------------------------------------------->
-<tr>
-<td align=center rowspan=4 > NPP</td>
-<td >Site observationn1</td>
-</tr>
-<tr>
-<td test3</td>
-</tr>
-<tr>
-<td >Site observationn2</td>
-<td >Site observationn3</td>
-<td >Site observationn4</td>
-<!----------------------------------------------------------------------------->
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/template_1-model_noCO2.tar
Binary file all/template_1-model_noCO2.tar has changed
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/template_1-model_noCO2/index.html
--- a/all/template_1-model_noCO2/index.html	Mon Jan 26 22:08:20 2009 -0500
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,16 +0,0 @@
-<html>
-<head>
-<title> Score Sheet for CLAMP </title>
-<meta name="description" content="score CLAMP">
-<meta name="keywords"    content="score BGC CLAMP CN CASA">
-<meta name="Authors"     content="Jeff Lee">
-</head>
-
-<!----------------------------------------------------------------------------->
-<h2> &nbsp; &nbsp; <a href=http://www.climatemodeling.org/c-lamp/metrics4.pdf>CLAMP Score Sheet for Biogeochemical Model Evaluation</h2>
-<!----------------------------------------------------------------------------->
-
-<!--#include virtual="table.html"-->
-
-<!----------------------------------------------------------------------------->
-</html>
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/template_1-model_noCO2/table.html
--- a/all/template_1-model_noCO2/table.html	Mon Jan 26 22:08:20 2009 -0500
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,404 +0,0 @@
-
-<!----------------------------------------------------------------------------->
-<table border=1 cellspacing=0 cellpadding=3 width=100%>
-<tr>
-   <th bgcolor=DDDDDD width=8% rowspan=2> Metric     </th>
-   <th bgcolor=DDDDDD rowspan=2> Metric <br> components</th>
-   <th bgcolor=DDDDDD rowspan=2> Observations & <br> comparison protocol</th>
-   <th bgcolor=DDDDDD rowspan=2> Model<br> model_name  </th>
-   <th bgcolor=DDDDDD colspan=2> Score (points) </th>
-</tr>
-<tr>
-   <th width=6% bgcolor=DDDDDD> Full </th>
-   <th width=6% bgcolor=DDDDDD> model_name </th>
-</tr>
- 
-<tr>
-   <th rowspan=6>NPP</th>
-
-   <th rowspan=2>EMDI NPP <br> observations</th>
- 
-   <th>         
-   <a href=./npp/table_site81_ob.html>
-   Class_A_table</a> 
-   </th>
- 
-   <th>         
-   <a href=./npp/table_site81_model_vs_ob.html>
-   table</a> <br>
-   <a href=./npp/scatter_model_vs_ob_81.png>
-   scatter_plot</a>
-   </th>
- 
-   <th>2.5</th>
-   <th>M_npp_S81</th>
-</tr>
- 
-<tr>
-   <th>
-   <a href=./npp/table_site933_ob.html>
-   Class_B_table</a>     
-   </th>
-    
-   <th>
-   <a href=./npp/table_site933_model_vs_ob.html>
-   table</a> <br>       
-   <a href=./npp/scatter_model_vs_ob_933.png>
-   scatter_plot</a>
-   </th>
-
-   <th>2.5</th> 
-   <th>M_npp_S933</th>
-</tr>
- 
-<tr>
-   <th rowspan=2>EMDI NPP<br>normalized by PPT</th>
- 
-   <th>        
-   <a href=./npp/histogram_ob_81.png>
-   Class_A_histogram</a>
-   </th>
- 
-   <th>
-   <a href=./npp/histogram_model_vs_ob_81.png>
-   Class_A_histogram</a>
-   </th>
- 
-   <th>2.5</th>
-   <th>M_npp_H81</th>
-</tr>
- 
-<tr>
-   <th>
-   <a href=./npp/histogram_ob_933.png>
-   Class_B_histogram</a>
-   </th>
- 
-   <th>
-   <a href=./npp/histogram_model_vs_ob_933.png>
-   Class_B_histogram</a>
-   </th>
-
-   <th>2.5</th>
-   <th>M_npp_H933</th>
-</tr>
- 
-<tr>
-   <th>Correlation with MODIS obs.</th>
- 
-   <th>
-   <a href=./npp/global_ob.png>
-   global_map</a>
-   </th>
- 
-   <th>
-   <a href=./npp/global_model.png>
-   model_map</a> <br>
-   <a href=./npp/global_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_npp_G</th>
-</tr>
- 
-<tr>
-   <th>Correlation with MODIS-zonal mean</th>
- 
-   <th>
-   <a href=./npp/zonal_ob.png>
-   zonal_mean_obs</a>
-   </th>
- 
-   <th>
-   <a href=./npp/zonal_model_vs_ob.png>
-   zonal_mean <br>model_vs_obs_plot</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_npp_Z</th>
-</tr>
- 
-<tr>
-   <th rowspan=3>LAI</th>
- 
-   <th>MODIS Mean</th>
- 
-   <th>        
-   <a href=./lai/global_class_ob.png>
-   land_class_obs</a> <br>
-   <a href=./lai/global_class_model.png>
-   land_class_model</a> <br>       
-   <a href=./lai/global_Mean_ob.png>
-   global_map</a>
-   </th>
- 
-   <th>
-   <a href=./lai/table_model_vs_ob.html>
-   model_vs_obs_table</a> <br>
-   <a href=./lai/global_Mean_model.png>
-   global_map</a> <br>
-   <a href=./lai/global_Mean_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_lai_Mean</th>
-</tr>
- 
-<tr>
-   <th>MODIS Maximum</th>
- 
-   <th>        
-   <a href=./lai/global_Max_ob.png>
-   global_map</a>
-   </th>
- 
-   <th>       
-   <a href=./lai/global_Max_model.png>
-   global_map</a> <br>
-   <a href=./lai/global_Max_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_lai_Max</th>
-</tr>
-<tr>
-   <th>MODIS Phase</th>
- 
-   <th>        
-   <a href=./lai/global_Phase_ob.png>
-   global_map</a>
-   </th>
- 
-   <th>       
-   <a href=./lai/global_Phase_model.png>
-   global_map</a> <br>
-   <a href=./lai/global_Phase_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_lai_Phase</th>
-</tr>
-
-<tr>
-   <th>CO2 <br> Seasonal <br> Cycle</th>
-   <th>Comparison with NOAA observations <br> phase and amplitude</th>
-
-   <th>--</th>
-
-   <th>--</th>
-
-   <th>20</th>
-   <th>--</th>
-</tr>
- 
-<tr>
-   <th rowspan=2>Carbon<br> Stocks</th>
-
-   <th>Aboveground live biomass <br> in South America</th>
- 
-   <th>        
-   <a href=./biomass/global_ob.png>
-   obs_amazon</a>
-   </th>
- 
-   <th>        
-   <a href=./biomass/global_model.png>
-   model_amazon</a> <br>
-   <a href=./biomass/global_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
-
-   <th>5</th> 
-   <th>M_biomass</th>
-</tr>
- 
-<tr>
-
-   <th>Aboveground live <br> biomass <br> within Amazon Basin <br>(sum within Legal Amazon)</th>
-
-   <th>
-   <a href=./biomass/mask_ob.png>        
-   mask</a> <br>
-   <a href=./biomass/global_mask_ob.png>
-   obs_masked</a> <br>
-   Sum_biomass_ob (Pg C)
-   </th>
-
-   <th>
-   <a href=./biomass/global_mask_model.png>
-   model_masked</a> <br>
-   <a href=./biomass/global_mask_vs_ob.png>
-   model_vs_obs</a> <br>       
-   Sum_biomass_mod (Pg C)
-   </th>
-
-   <th>5</th>
-   <th>M_biomask</th>
-</tr>
- 
-<tr>
-   <th rowspan=4>Energy and<br>C Fluxes<br>from Fluxnet</th>
- 
-   <th>NEE</th>
-
-   <th rowspan=4>     
-   <a href=./fluxnet/line_ob.html> 
-    line_plot</a>
-   </th>
-
-   <th rowspan=4>     
-   <a href=./fluxnet/score+line_vs_ob.html> 
-    model_vs_obs</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_fluxnet_nee</th>
-</tr>
- 
-<tr>
-   <th>Net radiation</th>
-   <th>5</th>
-   <th>M_fluxnet_rad</th>
-</tr>
- 
-<tr>
-   <th>Latent heat</th>
-   <th>5</th>
-   <th>M_fluxnet_lh</th>
-</tr>
-  
-<tr>
-   <th>Sensible heat</th>
-   <th>5</th>
-   <th>M_fluxnet_sh</th>
-</tr>
-
-<tr>
-   <th rowspan=6>Energy and<br>C Fluxes<br>from Ameriflux</th>
- 
-   <th>NEE</th>
-
-   <th rowspan=6>     
-   <a href=./ameriflux/line_ob.html> 
-    line_plot</a>
-   </th>
-
-   <th rowspan=6>
-  <a href=./ameriflux/score+line_vs_ob.html> 
-    model_vs_obs</a> <br>
-   <a href=./ameriflux/tseries_vs_ob.html> 
-    timeseries_plot</a>
-   </th>
- 
-   <th>1</th>
-   <th>M_ameriflux_nee</th>
-</tr>
- 
-<tr>
-   <th>Shortwave Incoming</th>
-   <th>1</th>
-   <th>M_ameriflux_rad</th>
-</tr>
- 
-<tr>
-   <th>Latent heat</th>
-   <th>1</th>
-   <th>M_ameriflux_lh</th>
-</tr>
-  
-<tr>
-   <th>Sensible heat</th>
-   <th>1</th>
-   <th>M_ameriflux_sh</th>
-</tr>
-
-<tr>
-   <th>GPP</th>
-   <th>1</th>
-   <th>M_ameriflux_gpp</th>
-</tr>
-  
-<tr>
-   <th>ER</th>
-   <th>1</th>
-   <th>M_ameriflux_er</th>
-</tr>
- 
-<tr>
-   <th rowspan=4>Transient Dynamics</th>
-   <th>Beta factor for NPP Stimulation from elevated CO2</th>
-   <th>--</th>
-   <th>     
-   <a href=./beta/table_station.html> 
-    FACE_Site_comparison</a> <br>
-   <a href=./beta/table_biome.html> 
-    biome_table</a>
-   </th>
-   <th>3</th>
-   <th>M_beta</th>
-</tr>
- 
-<tr>
-   <th>Turnover times and pool sizes</th>
-   <th>--</th>
-   <th>     
-   <a href=./turnover/table_Leaf.html> 
-    Leaf</a> <br>
-   <a href=./turnover/table_Wood.html> 
-    Wood</a> <br>
-   <a href=./turnover/table_Fine_Root.html>
-    Fine_Root</a> <br>
-   <a href=./turnover/table_Litter.html> 
-    Litter</a> <br>
-   <a href=./turnover/table_Coarse_Woody_Debris.html> 
-    Coarse_Woody_Debris</a> <br>
-   <a href=./turnover/table_Soil.html> 
-    Soil</a>
-   </th>
-   <th>3</th>
-   <th>--</th>
-</tr>
- 
-<tr>
-   <th>Carbon Sinks<br>(1990-2004)</th>
-   <th>--</th>
-
-   <th>     
-   <a href=./carbon_sink/table_per_m2.html> 
-    biome_mean</a> <br>
-   <a href=./carbon_sink/table_per_biome.html> 
-    biome_total</a>
-   </th>
-
-   <th>2</th>
-   <th>--</th>
-</tr>
- 
-<tr>
-   <th>Fire Variability</th>
-   <th>--</th>
-
-   <th>     
-   <a href=./fire/global_model_vs_ob.png> 
-    global_spatial_comparison</a> <br>
-   <a href=./fire/table_fire.html> 
-    temporal_dynamics_(1997-2004)</a>
-   </th>
-
-   <th>2</th>
-   <th>M_fire</th>
-</tr>
-
-<tr>
-   <th bgcolor=DDDDDD> Total </th>
-   <th colspan=3>  </th>
-   <th bgcolor=DDDDDD>100</th>
-   <th bgcolor=DDDDDD>M_total</th>
-</tr>
- 
-</table>
-<!----------------------------------------------------------------------------->
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/template_1-model_noCO2/tablerows.html
--- a/all/template_1-model_noCO2/tablerows.html	Mon Jan 26 22:08:20 2009 -0500
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,13 +0,0 @@
-<!----------------------------------------------------------------------------->
-<tr>
-<td align=center rowspan=4 > NPP</td>
-<td >Site observationn1</td>
-</tr>
-<tr>
-<td test3</td>
-</tr>
-<tr>
-<td >Site observationn2</td>
-<td >Site observationn3</td>
-<td >Site observationn4</td>
-<!----------------------------------------------------------------------------->
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/template_2-model.1fire.tar
Binary file all/template_2-model.1fire.tar has changed
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/template_2-model.2fire.tar
Binary file all/template_2-model.2fire.tar has changed
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/template_2-model.tar
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/all/template_2-model.tar	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,1 @@
+template_2-model.1fire.tar
\ No newline at end of file
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/template_2-model/index.html
--- a/all/template_2-model/index.html	Mon Jan 26 22:08:20 2009 -0500
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,16 +0,0 @@
-<html>
-<head>
-<title> Score Sheet for CLAMP </title>
-<meta name="description" content="score CLAMP">
-<meta name="keywords"    content="score BGC CLAMP CN CASA">
-<meta name="Authors"     content="Jeff Lee">
-</head>
-
-<!----------------------------------------------------------------------------->
-<h2> &nbsp; &nbsp; <a href=http://www.climatemodeling.org/c-lamp/metrics4.pdf>CLAMP Score Sheet for Biogeochemical Model Evaluation</h2>
-<!----------------------------------------------------------------------------->
-
-<!--#include virtual="table.html"-->
-
-<!----------------------------------------------------------------------------->
-</html>
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/template_2-model/table.html
--- a/all/template_2-model/table.html	Mon Jan 26 22:08:20 2009 -0500
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,559 +0,0 @@
-
-<!----------------------------------------------------------------------------->
-<table border=1 cellspacing=0 cellpadding=3 width=100%>
-<tr>
-   <th bgcolor=DDDDDD width=8% rowspan=2> Metric     </th>
-   <th bgcolor=DDDDDD rowspan=2> Metric <br> components</th>
-   <th bgcolor=DDDDDD rowspan=2> Observations & <br> comparison protocol</th>
-   <th bgcolor=DDDDDD rowspan=2> Model<br> model1 </th>
-   <th bgcolor=DDDDDD rowspan=2> Model<br> model2 </th>
-   <th bgcolor=DDDDDD colspan=3> Score (points) </th>
-</tr>
-<tr>
-   <th width=6% bgcolor=DDDDDD> Full </th>
-   <th width=6% bgcolor=DDDDDD> model1 </th>
-   <th width=6% bgcolor=DDDDDD> model2 </th>
-</tr>
- 
-<tr>
-   <th rowspan=6>NPP</th>
-
-   <th rowspan=2>EMDI NPP <br> observations</th>
- 
-   <th>         
-   <a href=../model1/npp/table_site81_ob.html>
-   Class_A_table</a> 
-   </th>
- 
-   <th>         
-   <a href=../model1/npp/table_site81_model_vs_ob.html>
-   table</a> <br>
-   <a href=../model1/npp/scatter_model_vs_ob_81.png>
-   scatter_plot</a>
-   </th>
- 
-   <th>         
-   <a href=../model2/npp/table_site81_model_vs_ob.html>
-   table</a> <br>
-   <a href=../model2/npp/scatter_model_vs_ob_81.png>
-   scatter_plot</a>
-   </th>
- 
-   <th>2.5</th>
-   <th>M_npp_S81</th>
-   <th>M_npp_S81</th>
-</tr>
- 
-<tr>
-   <th>
-   <a href=../model1/npp/table_site933_ob.html>
-   Class_B_table</a>     
-   </th>
-    
-   <th>
-   <a href=../model1/npp/table_site933_model_vs_ob.html>
-   table</a> <br>       
-   <a href=../model1/npp/scatter_model_vs_ob_933.png>
-   scatter_plot</a>
-   </th>
- 
-   <th>
-   <a href=../model2/npp/table_site933_model_vs_ob.html>
-   table</a> <br>       
-   <a href=../model2/npp/scatter_model_vs_ob_933.png>
-   scatter_plot</a>
-   </th>
-
-   <th>2.5</th> 
-   <th>M_npp_S933</th>
-   <th>M_npp_S933</th>
-</tr>
- 
-<tr>
-   <th rowspan=2>EMDI NPP <br> normalized by PPT</th>
- 
-   <th>        
-   <a href=../model1/npp/histogram_ob_81.png>
-   Class_A_histogram</a>
-   </th>
- 
-   <th>
-   <a href=../model1/npp/histogram_model_vs_ob_81.png>
-   Class_A_histogram</a>
-   </th>
- 
-   <th>
-   <a href=../model2/npp/histogram_model_vs_ob_81.png>
-   Class_A_histogram</a>
-   </th>
- 
-   <th>2.5</th>
-   <th>M_npp_H81</th>
-   <th>M_npp_H81</th>
-</tr>
- 
-<tr>
-   <th>
-   <a href=../model1/npp/histogram_ob_933.png>
-   Class_B_histogram</a>
-   </th>
- 
-   <th>
-   <a href=../model1/npp/histogram_model_vs_ob_933.png>
-   Class_B_histogram</a>
-   </th>
- 
-   <th>
-   <a href=../model2/npp/histogram_model_vs_ob_933.png>
-   Class_B_histogram</a>
-   </th>
-
-   <th>2.5</th> 
-   <th>M_npp_H933</th>
-   <th>M_npp_H933</th>
-</tr>
- 
-<tr>
-   <th>Correlation with MODIS obs.</th>
- 
-   <th>
-   <a href=../model1/npp/global_ob.png>
-   global_map</a>
-   </th>
- 
-   <th>
-   <a href=../model1/npp/global_model.png>
-   model_map</a> <br>
-   <a href=../model1/npp/global_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>
-   <a href=../model2/npp/global_model.png>
-   model_map</a> <br>
-   <a href=../model2/npp/global_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_npp_G</th>
-   <th>M_npp_G</th>
-</tr>
- 
-<tr>
-   <th>Correlation with MODIS-zonal mean</th>
- 
-   <th>
-   <a href=../model1/npp/zonal_ob.png>
-   zonal_mean_obs</a>
-   </th>
- 
-   <th>
-   <a href=../model1/npp/zonal_model_vs_ob.png>
-   zonal_mean <br> model_vs_obs_plot</a>
-   </th>
- 
-   <th>
-   <a href=../model2/npp/zonal_model_vs_ob.png>
-   zonal_mean <br> model_vs_obs_plot</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_npp_Z</th>
-   <th>M_npp_Z</th>
-</tr>
- 
-<tr>
-   <th rowspan=3>LAI</th>
- 
-   <th>MODIS Mean</th>
- 
-   <th>        
-   <a href=../model1/lai/global_class_ob.png>
-   land_class_obs</a> <br>
-   <a href=../model1/lai/global_class_model.png>
-   land_class_model</a> <br>
-   <a href=../model1/lai/global_Mean_ob.png>
-   global_map</a>
-   </th>
- 
-   <th>       
-   <a href=../model1/lai/table_model_vs_ob.html>
-   model_vs_obs_table</a> <br>
-   <a href=../model1/lai/global_Mean_model.png>
-   global_map</a> <br>
-   <a href=../model1/lai/global_Mean_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>       
-   <a href=../model2/lai/table_model_vs_ob.html>
-   model_vs_obs_table</a> <br>
-   <a href=../model2/lai/global_Mean_model.png>
-   global_map</a> <br>
-   <a href=../model2/lai/global_Mean_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_lai_Mean</th>
-   <th>M_lai_Mean</th>
-</tr>
- 
-<tr>
-   <th>MODIS Maximum</th>
- 
-   <th>        
-   <a href=../model1/lai/global_Max_ob.png>
-   global_map</a>
-   </th>
- 
-   <th>       
-   <a href=../model1/lai/global_Max_model.png>
-   global_map</a> <br>
-   <a href=../model1/lai/global_Max_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>       
-   <a href=../model2/lai/global_Max_model.png>
-   global_map</a> <br>
-   <a href=../model2/lai/global_Max_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_lai_Max</th>
-   <th>M_lai_Max</th>
-</tr>
-<tr>
-   <th>MODIS Phase</th>
- 
-   <th>        
-   <a href=../model1/lai/global_Phase_ob.png>
-   global_map</a>
-   </th>
- 
-   <th>       
-   <a href=../model1/lai/global_Phase_model.png>
-   global_map</a> <br>
-   <a href=../model1/lai/global_Phase_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>       
-   <a href=../model2/lai/global_Phase_model.png>
-   global_map</a> <br>
-   <a href=../model2/lai/global_Phase_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_lai_Phase</th>
-   <th>M_lai_Phase</th>
-</tr>
- 
-<tr>
-   <th>CO2<br> Seasonal<br> Cycle</th>
-   <th>Comparison with NOAA observations <br> phase and amplitude</th>
-   <th>--</th>
-
-   <th>
-   <a href=../model1/co2/score+line_vs_ob.html>
-   model_vs_obs</a>
-   </th>
-
-   <th>
-   <a href=../model2/co2/score+line_vs_ob.html>
-   model_vs_obs</a>
-   </th>
-
-   <th>20</th>
-   <th>M_co2</th>
-   <th>M_co2</th>
-</tr>
- 
-<tr>
-   <th rowspan=2>Carbon<br> Stocks</th>
-
-   <th>Aboveground live biomass <br> in South America</th>
- 
-   <th>        
-   <a href=../model1/biomass/global_ob.png>
-   obs_amazon</a>
-   </th>
- 
-   <th>        
-   <a href=../model1/biomass/global_model.png>
-   model_amazon</a> <br>
-   <a href=../model1/biomass/global_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>        
-   <a href=../model2/biomass/global_model.png>
-   amazon_map</a> <br>
-   <a href=../model2/biomass/global_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_biomass</th>
-   <th>M_biomass</th>
-</tr>
- 
-<tr>
-   <th>Aboveground live <br> biomass <br> within Amazon Basin <br>(sum within Legal Amazon)</th>
-   <th>        
-   <a href=../model1/biomass/mask_ob.png>
-   mask</a> <br>
-   <a href=../model1/biomass/global_mask_ob.png>
-   obs_masked</a> <br>
-   Sum_biomass_ob (Pg C)
-   </th>
-
-   <th>
-   <a href=../model1/biomass/global_mask_model.png>
-   model_masked</a> <br>
-   <a href=../model1/biomass/global_mask_vs_ob.png>
-   model_vs_obs</a> <br>             
-   Sum_biomass_mod (Pg C)
-   </th>
-
-   <th>
-   <a href=../model2/biomass/global_mask_model.png>
-   model_masked</a> <br>
-   <a href=../model2/biomass/global_mask_vs_ob.png>
-   model_vs_obs</a> <br>                  
-   Sum_biomass_mod (Pg C)
-   </th>
-
-   <th>5</th>
-   <th>M_biomask</th>
-   <th>M_biomask</th>
-</tr>
- 
-<tr>
-   <th rowspan=4>Energy and<br>C Fluxes<br>from Fluxnet</th>
- 
-   <th>NEE</th>
-
-   <th rowspan=4>     
-   <a href=../model1/fluxnet/line_ob.html> 
-    line_plot</a>
-   </th>
-
-   <th rowspan=4>     
-   <a href=../model1/fluxnet/score+line_vs_ob.html> 
-    model_vs_obs</a>
-   </th>
-
-   <th rowspan=4>     
-   <a href=../model2/fluxnet/score+line_vs_ob.html> 
-    model_vs_obs</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_fluxnet_nee</th>
-   <th>M_fluxnet_nee</th>
-</tr>
- 
-<tr>
-   <th>Net radiation</th>
-   <th>5</th>
-   <th>M_fluxnet_rad</th>
-   <th>M_fluxnet_rad</th>
-</tr>
- 
-<tr>
-   <th>Latent heat</th>
-   <th>5</th>
-   <th>M_fluxnet_lh</th>
-   <th>M_fluxnet_lh</th>
-</tr>
-  
-<tr>
-   <th>Sensible heat</th>
-   <th>5</th>
-   <th>M_fluxnet_sh</th>
-   <th>M_fluxnet_sh</th>
-</tr>
-
-<tr>
-   <th rowspan=6>Energy and<br>C Fluxes<br>from Ameriflux</th>
- 
-   <th>NEE</th>
-
-   <th rowspan=6>     
-   <a href=../model1/ameriflux/line_ob.html> 
-    line_plot</a>
-   </th>
-
-   <th rowspan=6>
-  <a href=../model1/ameriflux/score+line_vs_ob.html> 
-    model_vs_obs</a> <br>
-   <a href=../model1/ameriflux/tseries_vs_ob.html> 
-    timeseries_plot</a>
-   </th>
-
-   <th rowspan=6>
-  <a href=../model2/ameriflux/score+line_vs_ob.html> 
-    model_vs_obs</a> <br>
-   <a href=../model2/ameriflux/tseries_vs_ob.html> 
-    timeseries_plot</a>
-   </th>
- 
-   <th>1</th>
-   <th>M_ameriflux_nee</th>
-   <th>M_ameriflux_nee</th>
-</tr>
- 
-<tr>
-   <th>Shortwave Incoming</th>
-   <th>1</th>
-   <th>M_ameriflux_rad</th>
-   <th>M_ameriflux_rad</th>
-</tr>
- 
-<tr>
-   <th>Latent heat</th>
-   <th>1</th>
-   <th>M_ameriflux_lh</th>
-   <th>M_ameriflux_lh</th>
-</tr>
-  
-<tr>
-   <th>Sensible heat</th>
-   <th>1</th>
-   <th>M_ameriflux_sh</th>
-   <th>M_ameriflux_sh</th>
-</tr>
-
-<tr>
-   <th>GPP</th>
-   <th>1</th>
-   <th>M_ameriflux_gpp</th>
-   <th>M_ameriflux_gpp</th>
-</tr>
-  
-<tr>
-   <th>ER</th>
-   <th>1</th>
-   <th>M_ameriflux_er</th>
-   <th>M_ameriflux_er</th>
-</tr>
-   
-<tr>
-   <th rowspan=4>Transient Dynamics</th>
-   <th>Beta factor for NPP Stimulation from elevated CO2</th>
-   <th>--</th>
-
-   <th>     
-   <a href=../model1/beta/table_station.html> 
-    FACE_Site_comparison</a> <br>
-   <a href=../model1/beta/table_biome.html> 
-    biome_table</a>
-   </th>
-
-   <th>     
-   <a href=../model2/beta/table_station.html> 
-    FACE_Site_comparison</a> <br>
-   <a href=../model2/beta/table_biome.html> 
-    biome_table</a>
-   </th>
-
-   <th>3</th>
-   <th>M_beta</th>
-   <th>M_beta</th>
-</tr>
- 
-<tr>
-   <th>Turnover times and pool sizes</th>
-   <th>--</th>
-
-   <th>     
-   <a href=../model1/turnover/table_Leaf.html> 
-    Leaf</a> <br>
-   <a href=../model1/turnover/table_Wood.html> 
-    Wood</a> <br>
-   <a href=../model1/turnover/table_Fine_Root.html>
-    Fine_Root</a> <br>
-   <a href=../model1/turnover/table_Litter.html> 
-    Litter</a> <br>
-   <a href=../model1/turnover/table_Coarse_Woody_Debris.html> 
-    Coarse_Woody_Debris</a> <br>
-   <a href=../model1/turnover/table_Soil.html> 
-    Soil</a>
-   </th>
-
-   <th>     
-   <a href=../model2/turnover/table_Leaf.html> 
-    Leaf</a> <br>
-   <a href=../model2/turnover/table_Wood.html> 
-    Wood</a> <br>
-   <a href=../model2/turnover/table_Fine_Root.html>
-    Fine_Root</a> <br>
-   <a href=../model2/turnover/table_Litter.html> 
-    Litter</a> <br>
-   <a href=../model2/turnover/table_Coarse_Woody_Debris.html> 
-    Coarse_Woody_Debris</a> <br>
-   <a href=../model2/turnover/table_Soil.html> 
-    Soil</a>
-   </th>
-
-   <th>3</th>
-   <th>--</th>
-   <th>--</th>
-</tr>
- 
-<tr>
-   <th>Carbon Sinks<br>(1990-2004)</th>
-   <th>--</th>
-
-   <th>     
-   <a href=../model1/carbon_sink/table_per_m2.html> 
-    biome_mean</a> <br>
-   <a href=../model1/carbon_sink/table_per_biome.html> 
-    biome_total</a>
-   </th>
-
-   <th>     
-   <a href=../model2/carbon_sink/table_per_m2.html> 
-    biome_mean</a> <br>
-   <a href=../model2/carbon_sink/table_per_biome.html> 
-    biome_total</a>
-   </th>
-
-   <th>2</th>
-   <th>--</th>
-   <th>--</th>
-</tr>
- 
-<tr>
-   <th>Fire Variability</th>
-   <th>--</th>
-
-   <th>     
-   <a href=../model1/fire/global_model_vs_ob.png> 
-    global_spatial_comparison</a> <br>
-   <a href=../model1/fire/table_fire.html> 
-    temporal_dynamics_(1997-2004)</a>
-   </th>
-   
-   <th>--</th>
-
-   <th>2</th>
-   <th>M_fire</th>
-   <th>--</th>
-</tr>
-
-<tr>
-   <th bgcolor=DDDDDD> Total </th>
-   <th colspan=4>  </th>
-   <th bgcolor=DDDDDD>100</th>
-   <th bgcolor=DDDDDD>M_total</th>
-   <th bgcolor=DDDDDD>M_total</th>
-</tr>
- 
-</table>
-<!----------------------------------------------------------------------------->
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/template_2-model/tablerows.html
--- a/all/template_2-model/tablerows.html	Mon Jan 26 22:08:20 2009 -0500
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,13 +0,0 @@
-<!----------------------------------------------------------------------------->
-<tr>
-<td align=center rowspan=4 > NPP</td>
-<td >Site observationn1</td>
-</tr>
-<tr>
-<td test3</td>
-</tr>
-<tr>
-<td >Site observationn2</td>
-<td >Site observationn3</td>
-<td >Site observationn4</td>
-<!----------------------------------------------------------------------------->
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/template_2-model_noCO2.tar
Binary file all/template_2-model_noCO2.tar has changed
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/template_2-model_noCO2/index.html
--- a/all/template_2-model_noCO2/index.html	Mon Jan 26 22:08:20 2009 -0500
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,16 +0,0 @@
-<html>
-<head>
-<title> Score Sheet for CLAMP </title>
-<meta name="description" content="score CLAMP">
-<meta name="keywords"    content="score BGC CLAMP CN CASA">
-<meta name="Authors"     content="Jeff Lee">
-</head>
-
-<!----------------------------------------------------------------------------->
-<h2> &nbsp; &nbsp; <a href=http://www.climatemodeling.org/c-lamp/metrics4.pdf>CLAMP Score Sheet for Biogeochemical Model Evaluation</h2>
-<!----------------------------------------------------------------------------->
-
-<!--#include virtual="table.html"-->
-
-<!----------------------------------------------------------------------------->
-</html>
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/template_2-model_noCO2/table.html
--- a/all/template_2-model_noCO2/table.html	Mon Jan 26 22:08:20 2009 -0500
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,552 +0,0 @@
-
-<!----------------------------------------------------------------------------->
-<table border=1 cellspacing=0 cellpadding=3 width=100%>
-<tr>
-   <th bgcolor=DDDDDD width=8% rowspan=2> Metric     </th>
-   <th bgcolor=DDDDDD rowspan=2> Metric <br> components</th>
-   <th bgcolor=DDDDDD rowspan=2> Observations & <br> comparison protocol</th>
-   <th bgcolor=DDDDDD rowspan=2> Model<br> model1 </th>
-   <th bgcolor=DDDDDD rowspan=2> Model<br> model2 </th>
-   <th bgcolor=DDDDDD colspan=3> Score (points) </th>
-</tr>
-<tr>
-   <th width=6% bgcolor=DDDDDD> Full </th>
-   <th width=6% bgcolor=DDDDDD> model1 </th>
-   <th width=6% bgcolor=DDDDDD> model2 </th>
-</tr>
- 
-<tr>
-   <th rowspan=6>NPP</th>
-
-   <th rowspan=2>EMDI NPP <br> observations</th>
- 
-   <th>         
-   <a href=../model1/npp/table_site81_ob.html>
-   Class_A_table</a> 
-   </th>
- 
-   <th>         
-   <a href=../model1/npp/table_site81_model_vs_ob.html>
-   table</a> <br>
-   <a href=../model1/npp/scatter_model_vs_ob_81.png>
-   scatter_plot</a>
-   </th>
- 
-   <th>         
-   <a href=../model2/npp/table_site81_model_vs_ob.html>
-   table</a> <br>
-   <a href=../model2/npp/scatter_model_vs_ob_81.png>
-   scatter_plot</a>
-   </th>
- 
-   <th>2.5</th>
-   <th>M_npp_S81</th>
-   <th>M_npp_S81</th>
-</tr>
- 
-<tr>
-   <th>
-   <a href=../model1/npp/table_site933_ob.html>
-   Class_B_table</a>     
-   </th>
-    
-   <th>
-   <a href=../model1/npp/table_site933_model_vs_ob.html>
-   table</a> <br>       
-   <a href=../model1/npp/scatter_model_vs_ob_933.png>
-   scatter_plot</a>
-   </th>
- 
-   <th>
-   <a href=../model2/npp/table_site933_model_vs_ob.html>
-   table</a> <br>       
-   <a href=../model2/npp/scatter_model_vs_ob_933.png>
-   scatter_plot</a>
-   </th>
-
-   <th>2.5</th> 
-   <th>M_npp_S933</th>
-   <th>M_npp_S933</th>
-</tr>
- 
-<tr>
-   <th rowspan=2>EMDI NPP <br> normalized by PPT</th>
- 
-   <th>        
-   <a href=../model1/npp/histogram_ob_81.png>
-   Class_A_histogram</a>
-   </th>
- 
-   <th>
-   <a href=../model1/npp/histogram_model_vs_ob_81.png>
-   Class_A_histogram</a>
-   </th>
- 
-   <th>
-   <a href=../model2/npp/histogram_model_vs_ob_81.png>
-   Class_A_histogram</a>
-   </th>
- 
-   <th>2.5</th>
-   <th>M_npp_H81</th>
-   <th>M_npp_H81</th>
-</tr>
- 
-<tr>
-   <th>
-   <a href=../model1/npp/histogram_ob_933.png>
-   Class_B_histogram</a>
-   </th>
- 
-   <th>
-   <a href=../model1/npp/histogram_model_vs_ob_933.png>
-   Class_B_histogram</a>
-   </th>
- 
-   <th>
-   <a href=../model2/npp/histogram_model_vs_ob_933.png>
-   Class_B_histogram</a>
-   </th>
-
-   <th>2.5</th> 
-   <th>M_npp_H933</th>
-   <th>M_npp_H933</th>
-</tr>
- 
-<tr>
-   <th>Correlation with MODIS obs.</th>
- 
-   <th>
-   <a href=../model1/npp/global_ob.png>
-   global_map</a>
-   </th>
- 
-   <th>
-   <a href=../model1/npp/global_model.png>
-   model_map</a> <br>
-   <a href=../model1/npp/global_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>
-   <a href=../model2/npp/global_model.png>
-   model_map</a> <br>
-   <a href=../model2/npp/global_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_npp_G</th>
-   <th>M_npp_G</th>
-</tr>
- 
-<tr>
-   <th>Correlation with MODIS-zonal mean</th>
- 
-   <th>
-   <a href=../model1/npp/zonal_ob.png>
-   zonal_mean_obs</a>
-   </th>
- 
-   <th>
-   <a href=../model1/npp/zonal_model_vs_ob.png>
-   zonal_mean <br> model_vs_obs_plot</a>
-   </th>
- 
-   <th>
-   <a href=../model2/npp/zonal_model_vs_ob.png>
-   zonal_mean <br> model_vs_obs_plot</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_npp_Z</th>
-   <th>M_npp_Z</th>
-</tr>
- 
-<tr>
-   <th rowspan=3>LAI</th>
- 
-   <th>MODIS Mean</th>
- 
-   <th>        
-   <a href=../model1/lai/global_class_ob.png>
-   land_class_obs</a> <br>
-   <a href=../model1/lai/global_class_model.png>
-   land_class_model</a> <br>
-   <a href=../model1/lai/global_Mean_ob.png>
-   global_map</a>
-   </th>
- 
-   <th>       
-   <a href=../model1/lai/table_model_vs_ob.html>
-   model_vs_obs_table</a> <br>
-   <a href=../model1/lai/global_Mean_model.png>
-   global_map</a> <br>
-   <a href=../model1/lai/global_Mean_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>       
-   <a href=../model2/lai/table_model_vs_ob.html>
-   model_vs_obs_table</a> <br>
-   <a href=../model2/lai/global_Mean_model.png>
-   global_map</a> <br>
-   <a href=../model2/lai/global_Mean_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_lai_Mean</th>
-   <th>M_lai_Mean</th>
-</tr>
- 
-<tr>
-   <th>MODIS Maximum</th>
- 
-   <th>        
-   <a href=../model1/lai/global_Max_ob.png>
-   global_map</a>
-   </th>
- 
-   <th>       
-   <a href=../model1/lai/global_Max_model.png>
-   global_map</a> <br>
-   <a href=../model1/lai/global_Max_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>       
-   <a href=../model2/lai/global_Max_model.png>
-   global_map</a> <br>
-   <a href=../model2/lai/global_Max_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_lai_Max</th>
-   <th>M_lai_Max</th>
-</tr>
-<tr>
-   <th>MODIS Phase</th>
- 
-   <th>        
-   <a href=../model1/lai/global_Phase_ob.png>
-   global_map</a>
-   </th>
- 
-   <th>       
-   <a href=../model1/lai/global_Phase_model.png>
-   global_map</a> <br>
-   <a href=../model1/lai/global_Phase_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>       
-   <a href=../model2/lai/global_Phase_model.png>
-   global_map</a> <br>
-   <a href=../model2/lai/global_Phase_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_lai_Phase</th>
-   <th>M_lai_Phase</th>
-</tr>
- 
-<tr>
-   <th>CO2<br> Seasonal<br> Cycle</th>
-   <th>Comparison with NOAA observations <br> phase and amplitude</th>
-   <th>--</th>
-
-   <th>--</th>
-   <th>--</th>
-
-   <th>20</th>
-   <th>--</th>
-   <th>--</th>
-</tr>
- 
-<tr>
-   <th rowspan=2>Carbon<br> Stocks</th>
-
-   <th>Aboveground live biomass <br> in South America</th>
- 
-   <th>        
-   <a href=../model1/biomass/global_ob.png>
-   obs_amazon</a>
-   </th>
- 
-   <th>        
-   <a href=../model1/biomass/global_model.png>
-   model_amazon</a> <br>
-   <a href=../model1/biomass/global_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>        
-   <a href=../model2/biomass/global_model.png>
-   amazon_map</a> <br>
-   <a href=../model2/biomass/global_model_vs_ob.png>
-   model_vs_obs</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_biomass</th>
-   <th>M_biomass</th>
-</tr>
- 
-<tr>
-   <th>Aboveground live <br> biomass <br> within Amazon Basin <br>(sum within Legal Amazon)</th>
-   <th>        
-   <a href=../model1/biomass/mask_ob.png>
-   mask</a> <br>
-   <a href=../model1/biomass/global_mask_ob.png>
-   obs_masked</a> <br>
-   Sum_biomass_ob (Pg C)
-   </th>
-
-   <th>
-   <a href=../model1/biomass/global_mask_model.png>
-   model_masked</a> <br>
-   <a href=../model1/biomass/global_mask_vs_ob.png>
-   model_vs_obs</a> <br>             
-   Sum_biomass_mod (Pg C)
-   </th>
-
-   <th>
-   <a href=../model2/biomass/global_mask_model.png>
-   model_masked</a> <br>
-   <a href=../model2/biomass/global_mask_vs_ob.png>
-   model_vs_obs</a> <br>                  
-   Sum_biomass_mod (Pg C)
-   </th>
-
-   <th>5</th>
-   <th>M_biomask</th>
-   <th>M_biomask</th>
-</tr>
- 
-<tr>
-   <th rowspan=4>Energy and<br>C Fluxes<br>from Fluxnet</th>
- 
-   <th>NEE</th>
-
-   <th rowspan=4>     
-   <a href=../model1/fluxnet/line_ob.html> 
-    line_plot</a>
-   </th>
-
-   <th rowspan=4>     
-   <a href=../model1/fluxnet/score+line_vs_ob.html> 
-    model_vs_obs</a>
-   </th>
-
-   <th rowspan=4>     
-   <a href=../model2/fluxnet/score+line_vs_ob.html> 
-    model_vs_obs</a>
-   </th>
- 
-   <th>5</th>
-   <th>M_fluxnet_nee</th>
-   <th>M_fluxnet_nee</th>
-</tr>
- 
-<tr>
-   <th>Net radiation</th>
-   <th>5</th>
-   <th>M_fluxnet_rad</th>
-   <th>M_fluxnet_rad</th>
-</tr>
- 
-<tr>
-   <th>Latent heat</th>
-   <th>5</th>
-   <th>M_fluxnet_lh</th>
-   <th>M_fluxnet_lh</th>
-</tr>
-  
-<tr>
-   <th>Sensible heat</th>
-   <th>5</th>
-   <th>M_fluxnet_sh</th>
-   <th>M_fluxnet_sh</th>
-</tr>
-
-<tr>
-   <th rowspan=6>Energy and<br>C Fluxes<br>from Ameriflux</th>
- 
-   <th>NEE</th>
-
-   <th rowspan=6>     
-   <a href=../model1/ameriflux/line_ob.html> 
-    line_plot</a>
-   </th>
-
-   <th rowspan=6>
-  <a href=../model1/ameriflux/score+line_vs_ob.html> 
-    model_vs_obs</a> <br>
-   <a href=../model1/ameriflux/tseries_vs_ob.html> 
-    timeseries_plot</a>
-   </th>
-
-   <th rowspan=6>
-  <a href=../model2/ameriflux/score+line_vs_ob.html> 
-    model_vs_obs</a> <br>
-   <a href=../model2/ameriflux/tseries_vs_ob.html> 
-    timeseries_plot</a>
-   </th>
- 
-   <th>1</th>
-   <th>M_ameriflux_nee</th>
-   <th>M_ameriflux_nee</th>
-</tr>
- 
-<tr>
-   <th>Shortwave Incoming</th>
-   <th>1</th>
-   <th>M_ameriflux_rad</th>
-   <th>M_ameriflux_rad</th>
-</tr>
- 
-<tr>
-   <th>Latent heat</th>
-   <th>1</th>
-   <th>M_ameriflux_lh</th>
-   <th>M_ameriflux_lh</th>
-</tr>
-  
-<tr>
-   <th>Sensible heat</th>
-   <th>1</th>
-   <th>M_ameriflux_sh</th>
-   <th>M_ameriflux_sh</th>
-</tr>
-
-<tr>
-   <th>GPP</th>
-   <th>1</th>
-   <th>M_ameriflux_gpp</th>
-   <th>M_ameriflux_gpp</th>
-</tr>
-  
-<tr>
-   <th>ER</th>
-   <th>1</th>
-   <th>M_ameriflux_er</th>
-   <th>M_ameriflux_er</th>
-</tr>
-   
-<tr>
-   <th rowspan=4>Transient Dynamics</th>
-   <th>Beta factor for NPP Stimulation from elevated CO2</th>
-   <th>--</th>
-
-   <th>     
-   <a href=../model1/beta/table_station.html> 
-    FACE_Site_comparison</a> <br>
-   <a href=../model1/beta/table_biome.html> 
-    biome_table</a>
-   </th>
-
-   <th>     
-   <a href=../model2/beta/table_station.html> 
-    FACE_Site_comparison</a> <br>
-   <a href=../model2/beta/table_biome.html> 
-    biome_table</a>
-   </th>
-
-   <th>3</th>
-   <th>M_beta</th>
-   <th>M_beta</th>
-</tr>
- 
-<tr>
-   <th>Turnover times and pool sizes</th>
-   <th>--</th>
-
-   <th>     
-   <a href=../model1/turnover/table_Leaf.html> 
-    Leaf</a> <br>
-   <a href=../model1/turnover/table_Wood.html> 
-    Wood</a> <br>
-   <a href=../model1/turnover/table_Fine_Root.html>
-    Fine_Root</a> <br>
-   <a href=../model1/turnover/table_Litter.html> 
-    Litter</a> <br>
-   <a href=../model1/turnover/table_Coarse_Woody_Debris.html> 
-    Coarse_Woody_Debris</a> <br>
-   <a href=../model1/turnover/table_Soil.html> 
-    Soil</a>
-   </th>
-
-   <th>     
-   <a href=../model2/turnover/table_Leaf.html> 
-    Leaf</a> <br>
-   <a href=../model2/turnover/table_Wood.html> 
-    Wood</a> <br>
-   <a href=../model2/turnover/table_Fine_Root.html>
-    Fine_Root</a> <br>
-   <a href=../model2/turnover/table_Litter.html> 
-    Litter</a> <br>
-   <a href=../model2/turnover/table_Coarse_Woody_Debris.html> 
-    Coarse_Woody_Debris</a> <br>
-   <a href=../model2/turnover/table_Soil.html> 
-    Soil</a>
-   </th>
-
-   <th>3</th>
-   <th>--</th>
-   <th>--</th>
-</tr>
- 
-<tr>
-   <th>Carbon Sinks<br>(1990-2004)</th>
-   <th>--</th>
-
-   <th>     
-   <a href=../model1/carbon_sink/table_per_m2.html> 
-    biome_mean</a> <br>
-   <a href=../model1/carbon_sink/table_per_biome.html> 
-    biome_total</a>
-   </th>
-
-   <th>     
-   <a href=../model2/carbon_sink/table_per_m2.html> 
-    biome_mean</a> <br>
-   <a href=../model2/carbon_sink/table_per_biome.html> 
-    biome_total</a>
-   </th>
-
-   <th>2</th>
-   <th>--</th>
-   <th>--</th>
-</tr>
- 
-<tr>
-   <th>Fire Variability</th>
-   <th>--</th>
-
-   <th>     
-   <a href=../model1/fire/global_model_vs_ob.png> 
-    global_spatial_comparison</a> <br>
-   <a href=../model1/fire/table_fire.html> 
-    temporal_dynamics_(1997-2004)</a>
-   </th>
-   
-   <th>--</th>
-
-   <th>2</th>
-   <th>M_fire</th>
-   <th>--</th>
-</tr>
-
-<tr>
-   <th bgcolor=DDDDDD> Total </th>
-   <th colspan=4>  </th>
-   <th bgcolor=DDDDDD>100</th>
-   <th bgcolor=DDDDDD>M_total</th>
-   <th bgcolor=DDDDDD>M_total</th>
-</tr>
- 
-</table>
-<!----------------------------------------------------------------------------->
diff -r 0c6405ab2ff4 -r 4be95183fbcd all/template_2-model_noCO2/tablerows.html
--- a/all/template_2-model_noCO2/tablerows.html	Mon Jan 26 22:08:20 2009 -0500
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,13 +0,0 @@
-<!----------------------------------------------------------------------------->
-<tr>
-<td align=center rowspan=4 > NPP</td>
-<td >Site observationn1</td>
-</tr>
-<tr>
-<td test3</td>
-</tr>
-<tr>
-<td >Site observationn2</td>
-<td >Site observationn3</td>
-<td >Site observationn4</td>
-<!----------------------------------------------------------------------------->
diff -r 0c6405ab2ff4 -r 4be95183fbcd time_series/10.write_ameriflux_cn_FMH36cn.ncl
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/time_series/10.write_ameriflux_cn_FMH36cn.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,208 @@
+;************************************************
+;    Read ascii, Write nc
+;    output: lat: N->S     lon: -180W->180E                         
+;************************************************
+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"  
+;************************************************
+begin
+
+; output
+
+  model_name = "i01.36cn"
+  
+  ;diro  = "/ptmp/jeff/"
+  diro  = "/lustre/wolf-ddn/scratch/hof/cases1/i01.36cn_out/"
+  filo  = model_name + "_ameriflux_2076-2100_monthly.nc"
+  c = addfile(diro+filo,"c")
+  filedimdef(c,"year",-1,True) 
+
+; input data
+
+  nlat = 96
+  nlon = 144
+
+  year_start = 2076
+  year_end   = 2100
+
+  nyear  = year_end - year_start + 1
+  nmonth = 12
+  
+  data1  = new((/nyear,nmonth,nlat,nlon/),float)
+  data2  = new((/nyear,nmonth,nlat,nlon/),float)
+  data3  = new((/nyear,nmonth,nlat,nlon/),float)
+  ;data4  = new((/nyear,nmonth,nlat,nlon/),float)
+  ;data5  = new((/nyear,nmonth,nlat,nlon/),float)
+  data6  = new((/nyear,nmonth,nlat,nlon/),float)
+  data7  = new((/nyear,nmonth,nlat,nlon/),float)
+  data8  = new((/nyear,nmonth,nlat,nlon/),float)
+  data9  = new((/nyear,nmonth,nlat,nlon/),float)
+  data10 = new((/nyear,nmonth,nlat,nlon/),float)
+  date   = new((/nyear,nmonth/),integer)
+
+;  name dimensions and assign coordinate variables
+
+  data1!0    ="year"
+  data1!1    ="month"
+  data1!2    = "lat"
+  data1!3    = "lon"
+
+  data2!0    ="year"
+  data2!1    ="month"
+  data2!2    = "lat"
+  data2!3    = "lon"
+
+  data3!0    ="year"
+  data3!1    ="month"
+  data3!2    = "lat"
+  data3!3    = "lon"
+
+  ;data4!0    ="year"
+  ;data4!1    ="month"
+  ;data4!2    = "lat"
+  ;data4!3    = "lon"
+
+  ;data5!0    ="year"
+  ;data5!1    ="month"
+  ;data5!2    = "lat"
+  ;data5!3    = "lon"
+
+  data6!0    ="year"
+  data6!1    ="month"
+  data6!2    = "lat"
+  data6!3    = "lon"
+
+  data7!0    ="year"
+  data7!1    ="month"
+  data7!2    = "lat"
+  data7!3    = "lon"
+
+  data8!0    ="year"
+  data8!1    ="month"
+  data8!2    = "lat"
+  data8!3    = "lon"
+
+  data9!0    ="year"
+  data9!1    ="month"
+  data9!2    = "lat"
+  data9!3    = "lon"
+
+  data10!0    ="year"
+  data10!1    ="month"
+  data10!2    = "lat"
+  data10!3    = "lon"
+
+  date!0    ="year"
+  date!1    ="month"
+  date@long_name  = "date: yyyymm"
+
+; input dir
+  diri  = "/lustre/wolf-ddn/scratch/hof/cases1/"+model_name+"/"
+
+  do m = 0,nyear-1
+     year = year_start + m
+  do n = 0,nmonth-1
+     nn = n+1
+     date(m,n) = year*100 +nn 
+     
+;    input file
+     if (nn .ge. 10) then
+        fili = model_name+".clm2.h0."+year+"-"+nn+".nc"
+     else
+        fili = model_name+".clm2.h0."+year+"-0"+nn+".nc"
+     end if
+
+     print (fili)
+
+     g = addfile (diri+fili,"r")
+
+     b = g->NEE
+     data1(m,n,:,:) = (/b(0,:,:)/)
+     data1@long_name  = b@long_name
+     data1@units      = b@units
+     data1@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->GPP
+     data2(m,n,:,:) = (/b(0,:,:)/)
+     data2@long_name  = b@long_name
+     data2@units      = b@units
+     data2@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->ER
+     data3(m,n,:,:) = (/b(0,:,:)/)
+     data3@long_name  = b@long_name
+     data3@units      = b@units
+     data3@_FillValue = b@_FillValue
+     delete (b)
+
+     ;b = g->NETRAD
+     ;data4(m,n,:,:) = (/b(0,:,:)/)
+     ;data4@long_name  = b@long_name
+     ;data4@units      = b@units
+     ;data4@_FillValue = b@_FillValue
+     ;delete (b)
+
+     ;b = g->LATENT
+     ;data5(m,n,:,:) = (/b(0,:,:)/)
+     ;data5@long_name  = b@long_name
+     ;data5@units      = b@units
+     ;data5@_FillValue = b@_FillValue
+     ;delete (b)
+
+     b = g->FSH
+     data6(m,n,:,:) = (/b(0,:,:)/)
+     data6@long_name  = b@long_name
+     data6@units      = b@units
+     data6@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FSDS
+     data7(m,n,:,:) = (/b(0,:,:)/)
+     data7@long_name  = b@long_name
+     data7@units      = b@units
+     data7@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FCEV
+     data8(m,n,:,:) = (/b(0,:,:)/)
+     data8@long_name  = b@long_name
+     data8@units      = b@units
+     data8@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FCTR
+     data9(m,n,:,:) = (/b(0,:,:)/)
+     data9@long_name  = b@long_name
+     data9@units      = b@units
+     data9@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FGEV
+     data10(m,n,:,:) = (/b(0,:,:)/)
+     data10@long_name  = b@long_name
+     data10@units      = b@units
+     data10@_FillValue = b@_FillValue
+     delete (b)
+
+  end do
+  end do
+         
+  c->NEE = data1
+  c->GPP = data2
+  c->ER  = data3
+  ;c->NETRAD = data4
+  ;c->LATENT = data5
+  c->FSH    = data6
+  c->FSDS   = data7
+  c->FCEV   = data8
+  c->FCTR   = data9
+  c->FGEV   = data10
+  c->date   = date
+  c->area   = g->area
+
+  print (date)
+
+end
diff -r 0c6405ab2ff4 -r 4be95183fbcd time_series/10.write_ameriflux_cn_FMH37cn_cont.ncl
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/time_series/10.write_ameriflux_cn_FMH37cn_cont.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,208 @@
+;************************************************
+;    Read ascii, Write nc
+;    output: lat: N->S     lon: -180W->180E                         
+;************************************************
+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"  
+;************************************************
+begin
+
+; output
+
+  model_name = "i01.37cn_cont"
+  
+  ;diro  = "/ptmp/jeff/"
+  diro  = "/lustre/wolf-ddn/scratch/hof/cases/i01.37cn_cont_out/"
+  filo  = model_name + "_ameriflux_2976-3000_monthly.nc"
+  c = addfile(diro+filo,"c")
+  filedimdef(c,"year",-1,True) 
+
+; input data
+
+  nlat = 96
+  nlon = 144
+
+  year_start = 2976
+  year_end   = 3000
+
+  nyear  = year_end - year_start + 1
+  nmonth = 12
+  
+  data1  = new((/nyear,nmonth,nlat,nlon/),float)
+  data2  = new((/nyear,nmonth,nlat,nlon/),float)
+  data3  = new((/nyear,nmonth,nlat,nlon/),float)
+  ;data4  = new((/nyear,nmonth,nlat,nlon/),float)
+  ;data5  = new((/nyear,nmonth,nlat,nlon/),float)
+  data6  = new((/nyear,nmonth,nlat,nlon/),float)
+  data7  = new((/nyear,nmonth,nlat,nlon/),float)
+  data8  = new((/nyear,nmonth,nlat,nlon/),float)
+  data9  = new((/nyear,nmonth,nlat,nlon/),float)
+  data10 = new((/nyear,nmonth,nlat,nlon/),float)
+  date   = new((/nyear,nmonth/),integer)
+
+;  name dimensions and assign coordinate variables
+
+  data1!0    ="year"
+  data1!1    ="month"
+  data1!2    = "lat"
+  data1!3    = "lon"
+
+  data2!0    ="year"
+  data2!1    ="month"
+  data2!2    = "lat"
+  data2!3    = "lon"
+
+  data3!0    ="year"
+  data3!1    ="month"
+  data3!2    = "lat"
+  data3!3    = "lon"
+
+  ;data4!0    ="year"
+  ;data4!1    ="month"
+  ;data4!2    = "lat"
+  ;data4!3    = "lon"
+
+  ;data5!0    ="year"
+  ;data5!1    ="month"
+  ;data5!2    = "lat"
+  ;data5!3    = "lon"
+
+  data6!0    ="year"
+  data6!1    ="month"
+  data6!2    = "lat"
+  data6!3    = "lon"
+
+  data7!0    ="year"
+  data7!1    ="month"
+  data7!2    = "lat"
+  data7!3    = "lon"
+
+  data8!0    ="year"
+  data8!1    ="month"
+  data8!2    = "lat"
+  data8!3    = "lon"
+
+  data9!0    ="year"
+  data9!1    ="month"
+  data9!2    = "lat"
+  data9!3    = "lon"
+
+  data10!0    ="year"
+  data10!1    ="month"
+  data10!2    = "lat"
+  data10!3    = "lon"
+
+  date!0    ="year"
+  date!1    ="month"
+  date@long_name  = "date: yyyymm"
+
+; input dir
+  diri  = "/lustre/wolf-ddn/scratch/hof/cases/"+model_name+"/"
+
+  do m = 0,nyear-1
+     year = year_start + m
+  do n = 0,nmonth-1
+     nn = n+1
+     date(m,n) = year*100 +nn 
+     
+;    input file
+     if (nn .ge. 10) then
+        fili = model_name+".clm2.h0."+year+"-"+nn+".nc"
+     else
+        fili = model_name+".clm2.h0."+year+"-0"+nn+".nc"
+     end if
+
+     print (fili)
+
+     g = addfile (diri+fili,"r")
+
+     b = g->NEE
+     data1(m,n,:,:) = (/b(0,:,:)/)
+     data1@long_name  = b@long_name
+     data1@units      = b@units
+     data1@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->GPP
+     data2(m,n,:,:) = (/b(0,:,:)/)
+     data2@long_name  = b@long_name
+     data2@units      = b@units
+     data2@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->ER
+     data3(m,n,:,:) = (/b(0,:,:)/)
+     data3@long_name  = b@long_name
+     data3@units      = b@units
+     data3@_FillValue = b@_FillValue
+     delete (b)
+
+     ;b = g->NETRAD
+     ;data4(m,n,:,:) = (/b(0,:,:)/)
+     ;data4@long_name  = b@long_name
+     ;data4@units      = b@units
+     ;data4@_FillValue = b@_FillValue
+     ;delete (b)
+
+     ;b = g->LATENT
+     ;data5(m,n,:,:) = (/b(0,:,:)/)
+     ;data5@long_name  = b@long_name
+     ;data5@units      = b@units
+     ;data5@_FillValue = b@_FillValue
+     ;delete (b)
+
+     b = g->FSH
+     data6(m,n,:,:) = (/b(0,:,:)/)
+     data6@long_name  = b@long_name
+     data6@units      = b@units
+     data6@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FSDS
+     data7(m,n,:,:) = (/b(0,:,:)/)
+     data7@long_name  = b@long_name
+     data7@units      = b@units
+     data7@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FCEV
+     data8(m,n,:,:) = (/b(0,:,:)/)
+     data8@long_name  = b@long_name
+     data8@units      = b@units
+     data8@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FCTR
+     data9(m,n,:,:) = (/b(0,:,:)/)
+     data9@long_name  = b@long_name
+     data9@units      = b@units
+     data9@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FGEV
+     data10(m,n,:,:) = (/b(0,:,:)/)
+     data10@long_name  = b@long_name
+     data10@units      = b@units
+     data10@_FillValue = b@_FillValue
+     delete (b)
+
+  end do
+  end do
+         
+  c->NEE = data1
+  c->GPP = data2
+  c->ER  = data3
+  ;c->NETRAD = data4
+  ;c->LATENT = data5
+  c->FSH    = data6
+  c->FSDS   = data7
+  c->FCEV   = data8
+  c->FCTR   = data9
+  c->FGEV   = data10
+  c->date   = date
+  c->area   = g->area
+
+  print (date)
+
+end
diff -r 0c6405ab2ff4 -r 4be95183fbcd time_series/10.write_ameriflux_cn_FMH38cn.ncl
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/time_series/10.write_ameriflux_cn_FMH38cn.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,208 @@
+;************************************************
+;    Read ascii, Write nc
+;    output: lat: N->S     lon: -180W->180E                         
+;************************************************
+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"  
+;************************************************
+begin
+
+; output
+
+  model_name = "i01.38cn"
+  
+  ;diro  = "/ptmp/jeff/"
+  diro  = "/lustre/wolf-ddn/scratch/hof/cases1/i01.38cn_out/"
+  filo  = model_name + "_ameriflux_2151-2175_monthly.nc"
+  c = addfile(diro+filo,"c")
+  filedimdef(c,"year",-1,True) 
+
+; input data
+
+  nlat = 96
+  nlon = 144
+
+  year_start = 2151
+  year_end   = 2175
+
+  nyear  = year_end - year_start + 1
+  nmonth = 12
+  
+  data1  = new((/nyear,nmonth,nlat,nlon/),float)
+  data2  = new((/nyear,nmonth,nlat,nlon/),float)
+  data3  = new((/nyear,nmonth,nlat,nlon/),float)
+  ;data4  = new((/nyear,nmonth,nlat,nlon/),float)
+  ;data5  = new((/nyear,nmonth,nlat,nlon/),float)
+  data6  = new((/nyear,nmonth,nlat,nlon/),float)
+  data7  = new((/nyear,nmonth,nlat,nlon/),float)
+  data8  = new((/nyear,nmonth,nlat,nlon/),float)
+  data9  = new((/nyear,nmonth,nlat,nlon/),float)
+  data10 = new((/nyear,nmonth,nlat,nlon/),float)
+  date   = new((/nyear,nmonth/),integer)
+
+;  name dimensions and assign coordinate variables
+
+  data1!0    ="year"
+  data1!1    ="month"
+  data1!2    = "lat"
+  data1!3    = "lon"
+
+  data2!0    ="year"
+  data2!1    ="month"
+  data2!2    = "lat"
+  data2!3    = "lon"
+
+  data3!0    ="year"
+  data3!1    ="month"
+  data3!2    = "lat"
+  data3!3    = "lon"
+
+  ;data4!0    ="year"
+  ;data4!1    ="month"
+  ;data4!2    = "lat"
+  ;data4!3    = "lon"
+
+  ;data5!0    ="year"
+  ;data5!1    ="month"
+  ;data5!2    = "lat"
+  ;data5!3    = "lon"
+
+  data6!0    ="year"
+  data6!1    ="month"
+  data6!2    = "lat"
+  data6!3    = "lon"
+
+  data7!0    ="year"
+  data7!1    ="month"
+  data7!2    = "lat"
+  data7!3    = "lon"
+
+  data8!0    ="year"
+  data8!1    ="month"
+  data8!2    = "lat"
+  data8!3    = "lon"
+
+  data9!0    ="year"
+  data9!1    ="month"
+  data9!2    = "lat"
+  data9!3    = "lon"
+
+  data10!0    ="year"
+  data10!1    ="month"
+  data10!2    = "lat"
+  data10!3    = "lon"
+
+  date!0    ="year"
+  date!1    ="month"
+  date@long_name  = "date: yyyymm"
+
+; input dir
+  diri  = "/lustre/wolf-ddn/scratch/hof/cases1/"+model_name+"/"
+
+  do m = 0,nyear-1
+     year = year_start + m
+  do n = 0,nmonth-1
+     nn = n+1
+     date(m,n) = year*100 +nn 
+     
+;    input file
+     if (nn .ge. 10) then
+        fili = model_name+".clm2.h0."+year+"-"+nn+".nc"
+     else
+        fili = model_name+".clm2.h0."+year+"-0"+nn+".nc"
+     end if
+
+     print (fili)
+
+     g = addfile (diri+fili,"r")
+
+     b = g->NEE
+     data1(m,n,:,:) = (/b(0,:,:)/)
+     data1@long_name  = b@long_name
+     data1@units      = b@units
+     data1@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->GPP
+     data2(m,n,:,:) = (/b(0,:,:)/)
+     data2@long_name  = b@long_name
+     data2@units      = b@units
+     data2@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->ER
+     data3(m,n,:,:) = (/b(0,:,:)/)
+     data3@long_name  = b@long_name
+     data3@units      = b@units
+     data3@_FillValue = b@_FillValue
+     delete (b)
+
+     ;b = g->NETRAD
+     ;data4(m,n,:,:) = (/b(0,:,:)/)
+     ;data4@long_name  = b@long_name
+     ;data4@units      = b@units
+     ;data4@_FillValue = b@_FillValue
+     ;delete (b)
+
+     ;b = g->LATENT
+     ;data5(m,n,:,:) = (/b(0,:,:)/)
+     ;data5@long_name  = b@long_name
+     ;data5@units      = b@units
+     ;data5@_FillValue = b@_FillValue
+     ;delete (b)
+
+     b = g->FSH
+     data6(m,n,:,:) = (/b(0,:,:)/)
+     data6@long_name  = b@long_name
+     data6@units      = b@units
+     data6@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FSDS
+     data7(m,n,:,:) = (/b(0,:,:)/)
+     data7@long_name  = b@long_name
+     data7@units      = b@units
+     data7@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FCEV
+     data8(m,n,:,:) = (/b(0,:,:)/)
+     data8@long_name  = b@long_name
+     data8@units      = b@units
+     data8@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FCTR
+     data9(m,n,:,:) = (/b(0,:,:)/)
+     data9@long_name  = b@long_name
+     data9@units      = b@units
+     data9@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FGEV
+     data10(m,n,:,:) = (/b(0,:,:)/)
+     data10@long_name  = b@long_name
+     data10@units      = b@units
+     data10@_FillValue = b@_FillValue
+     delete (b)
+
+  end do
+  end do
+         
+  c->NEE = data1
+  c->GPP = data2
+  c->ER  = data3
+  ;c->NETRAD = data4
+  ;c->LATENT = data5
+  c->FSH    = data6
+  c->FSDS   = data7
+  c->FCEV   = data8
+  c->FCTR   = data9
+  c->FGEV   = data10
+  c->date   = date
+  c->area   = g->area
+
+  print (date)
+
+end
diff -r 0c6405ab2ff4 -r 4be95183fbcd time_series/10.write_ameriflux_cn_FMH39cn.ncl
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/time_series/10.write_ameriflux_cn_FMH39cn.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,208 @@
+;************************************************
+;    Read ascii, Write nc
+;    output: lat: N->S     lon: -180W->180E                         
+;************************************************
+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"  
+;************************************************
+begin
+
+; output
+
+  model_name = "i01.39cn"
+  
+  ;diro  = "/ptmp/jeff/"
+  diro  = "/lustre/wolf-ddn/scratch/hof/cases1/i01.39cn_out/"
+  filo  = model_name + "_ameriflux_2101-2125_monthly.nc"
+  c = addfile(diro+filo,"c")
+  filedimdef(c,"year",-1,True) 
+
+; input data
+
+  nlat = 96
+  nlon = 144
+
+  year_start = 2101
+  year_end   = 2125
+
+  nyear  = year_end - year_start + 1
+  nmonth = 12
+  
+  data1  = new((/nyear,nmonth,nlat,nlon/),float)
+  data2  = new((/nyear,nmonth,nlat,nlon/),float)
+  data3  = new((/nyear,nmonth,nlat,nlon/),float)
+  ;data4  = new((/nyear,nmonth,nlat,nlon/),float)
+  ;data5  = new((/nyear,nmonth,nlat,nlon/),float)
+  data6  = new((/nyear,nmonth,nlat,nlon/),float)
+  data7  = new((/nyear,nmonth,nlat,nlon/),float)
+  data8  = new((/nyear,nmonth,nlat,nlon/),float)
+  data9  = new((/nyear,nmonth,nlat,nlon/),float)
+  data10 = new((/nyear,nmonth,nlat,nlon/),float)
+  date   = new((/nyear,nmonth/),integer)
+
+;  name dimensions and assign coordinate variables
+
+  data1!0    ="year"
+  data1!1    ="month"
+  data1!2    = "lat"
+  data1!3    = "lon"
+
+  data2!0    ="year"
+  data2!1    ="month"
+  data2!2    = "lat"
+  data2!3    = "lon"
+
+  data3!0    ="year"
+  data3!1    ="month"
+  data3!2    = "lat"
+  data3!3    = "lon"
+
+  ;data4!0    ="year"
+  ;data4!1    ="month"
+  ;data4!2    = "lat"
+  ;data4!3    = "lon"
+
+  ;data5!0    ="year"
+  ;data5!1    ="month"
+  ;data5!2    = "lat"
+  ;data5!3    = "lon"
+
+  data6!0    ="year"
+  data6!1    ="month"
+  data6!2    = "lat"
+  data6!3    = "lon"
+
+  data7!0    ="year"
+  data7!1    ="month"
+  data7!2    = "lat"
+  data7!3    = "lon"
+
+  data8!0    ="year"
+  data8!1    ="month"
+  data8!2    = "lat"
+  data8!3    = "lon"
+
+  data9!0    ="year"
+  data9!1    ="month"
+  data9!2    = "lat"
+  data9!3    = "lon"
+
+  data10!0    ="year"
+  data10!1    ="month"
+  data10!2    = "lat"
+  data10!3    = "lon"
+
+  date!0    ="year"
+  date!1    ="month"
+  date@long_name  = "date: yyyymm"
+
+; input dir
+  diri  = "/lustre/wolf-ddn/scratch/hof/cases1/"+model_name+"/"
+
+  do m = 0,nyear-1
+     year = year_start + m
+  do n = 0,nmonth-1
+     nn = n+1
+     date(m,n) = year*100 +nn 
+     
+;    input file
+     if (nn .ge. 10) then
+        fili = model_name+".clm2.h0."+year+"-"+nn+".nc"
+     else
+        fili = model_name+".clm2.h0."+year+"-0"+nn+".nc"
+     end if
+
+     print (fili)
+
+     g = addfile (diri+fili,"r")
+
+     b = g->NEE
+     data1(m,n,:,:) = (/b(0,:,:)/)
+     data1@long_name  = b@long_name
+     data1@units      = b@units
+     data1@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->GPP
+     data2(m,n,:,:) = (/b(0,:,:)/)
+     data2@long_name  = b@long_name
+     data2@units      = b@units
+     data2@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->ER
+     data3(m,n,:,:) = (/b(0,:,:)/)
+     data3@long_name  = b@long_name
+     data3@units      = b@units
+     data3@_FillValue = b@_FillValue
+     delete (b)
+
+     ;b = g->NETRAD
+     ;data4(m,n,:,:) = (/b(0,:,:)/)
+     ;data4@long_name  = b@long_name
+     ;data4@units      = b@units
+     ;data4@_FillValue = b@_FillValue
+     ;delete (b)
+
+     ;b = g->LATENT
+     ;data5(m,n,:,:) = (/b(0,:,:)/)
+     ;data5@long_name  = b@long_name
+     ;data5@units      = b@units
+     ;data5@_FillValue = b@_FillValue
+     ;delete (b)
+
+     b = g->FSH
+     data6(m,n,:,:) = (/b(0,:,:)/)
+     data6@long_name  = b@long_name
+     data6@units      = b@units
+     data6@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FSDS
+     data7(m,n,:,:) = (/b(0,:,:)/)
+     data7@long_name  = b@long_name
+     data7@units      = b@units
+     data7@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FCEV
+     data8(m,n,:,:) = (/b(0,:,:)/)
+     data8@long_name  = b@long_name
+     data8@units      = b@units
+     data8@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FCTR
+     data9(m,n,:,:) = (/b(0,:,:)/)
+     data9@long_name  = b@long_name
+     data9@units      = b@units
+     data9@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FGEV
+     data10(m,n,:,:) = (/b(0,:,:)/)
+     data10@long_name  = b@long_name
+     data10@units      = b@units
+     data10@_FillValue = b@_FillValue
+     delete (b)
+
+  end do
+  end do
+         
+  c->NEE = data1
+  c->GPP = data2
+  c->ER  = data3
+  ;c->NETRAD = data4
+  ;c->LATENT = data5
+  c->FSH    = data6
+  c->FSDS   = data7
+  c->FCEV   = data8
+  c->FCTR   = data9
+  c->FGEV   = data10
+  c->date   = date
+  c->area   = g->area
+
+  print (date)
+
+end
diff -r 0c6405ab2ff4 -r 4be95183fbcd time_series/10.write_ameriflux_cn_FMH40cn.ncl
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/time_series/10.write_ameriflux_cn_FMH40cn.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,208 @@
+;************************************************
+;    Read ascii, Write nc
+;    output: lat: N->S     lon: -180W->180E                         
+;************************************************
+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"  
+;************************************************
+begin
+
+; output
+
+  model_name = "i01.40cn"
+  
+  ;diro  = "/ptmp/jeff/"
+  diro  = "/lustre/wolf-ddn/scratch/hof/cases1/i01.40cn_out/"
+  filo  = model_name + "_ameriflux_2076-2100_monthly.nc"
+  c = addfile(diro+filo,"c")
+  filedimdef(c,"year",-1,True) 
+
+; input data
+
+  nlat = 96
+  nlon = 144
+
+  year_start = 2076
+  year_end   = 2100
+
+  nyear  = year_end - year_start + 1
+  nmonth = 12
+  
+  data1  = new((/nyear,nmonth,nlat,nlon/),float)
+  data2  = new((/nyear,nmonth,nlat,nlon/),float)
+  data3  = new((/nyear,nmonth,nlat,nlon/),float)
+  ;data4  = new((/nyear,nmonth,nlat,nlon/),float)
+  ;data5  = new((/nyear,nmonth,nlat,nlon/),float)
+  data6  = new((/nyear,nmonth,nlat,nlon/),float)
+  data7  = new((/nyear,nmonth,nlat,nlon/),float)
+  data8  = new((/nyear,nmonth,nlat,nlon/),float)
+  data9  = new((/nyear,nmonth,nlat,nlon/),float)
+  data10 = new((/nyear,nmonth,nlat,nlon/),float)
+  date   = new((/nyear,nmonth/),integer)
+
+;  name dimensions and assign coordinate variables
+
+  data1!0    ="year"
+  data1!1    ="month"
+  data1!2    = "lat"
+  data1!3    = "lon"
+
+  data2!0    ="year"
+  data2!1    ="month"
+  data2!2    = "lat"
+  data2!3    = "lon"
+
+  data3!0    ="year"
+  data3!1    ="month"
+  data3!2    = "lat"
+  data3!3    = "lon"
+
+  ;data4!0    ="year"
+  ;data4!1    ="month"
+  ;data4!2    = "lat"
+  ;data4!3    = "lon"
+
+  ;data5!0    ="year"
+  ;data5!1    ="month"
+  ;data5!2    = "lat"
+  ;data5!3    = "lon"
+
+  data6!0    ="year"
+  data6!1    ="month"
+  data6!2    = "lat"
+  data6!3    = "lon"
+
+  data7!0    ="year"
+  data7!1    ="month"
+  data7!2    = "lat"
+  data7!3    = "lon"
+
+  data8!0    ="year"
+  data8!1    ="month"
+  data8!2    = "lat"
+  data8!3    = "lon"
+
+  data9!0    ="year"
+  data9!1    ="month"
+  data9!2    = "lat"
+  data9!3    = "lon"
+
+  data10!0    ="year"
+  data10!1    ="month"
+  data10!2    = "lat"
+  data10!3    = "lon"
+
+  date!0    ="year"
+  date!1    ="month"
+  date@long_name  = "date: yyyymm"
+
+; input dir
+  diri  = "/lustre/wolf-ddn/scratch/hof/cases1/"+model_name+"/"
+
+  do m = 0,nyear-1
+     year = year_start + m
+  do n = 0,nmonth-1
+     nn = n+1
+     date(m,n) = year*100 +nn 
+     
+;    input file
+     if (nn .ge. 10) then
+        fili = model_name+".clm2.h0."+year+"-"+nn+".nc"
+     else
+        fili = model_name+".clm2.h0."+year+"-0"+nn+".nc"
+     end if
+
+     print (fili)
+
+     g = addfile (diri+fili,"r")
+
+     b = g->NEE
+     data1(m,n,:,:) = (/b(0,:,:)/)
+     data1@long_name  = b@long_name
+     data1@units      = b@units
+     data1@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->GPP
+     data2(m,n,:,:) = (/b(0,:,:)/)
+     data2@long_name  = b@long_name
+     data2@units      = b@units
+     data2@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->ER
+     data3(m,n,:,:) = (/b(0,:,:)/)
+     data3@long_name  = b@long_name
+     data3@units      = b@units
+     data3@_FillValue = b@_FillValue
+     delete (b)
+
+     ;b = g->NETRAD
+     ;data4(m,n,:,:) = (/b(0,:,:)/)
+     ;data4@long_name  = b@long_name
+     ;data4@units      = b@units
+     ;data4@_FillValue = b@_FillValue
+     ;delete (b)
+
+     ;b = g->LATENT
+     ;data5(m,n,:,:) = (/b(0,:,:)/)
+     ;data5@long_name  = b@long_name
+     ;data5@units      = b@units
+     ;data5@_FillValue = b@_FillValue
+     ;delete (b)
+
+     b = g->FSH
+     data6(m,n,:,:) = (/b(0,:,:)/)
+     data6@long_name  = b@long_name
+     data6@units      = b@units
+     data6@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FSDS
+     data7(m,n,:,:) = (/b(0,:,:)/)
+     data7@long_name  = b@long_name
+     data7@units      = b@units
+     data7@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FCEV
+     data8(m,n,:,:) = (/b(0,:,:)/)
+     data8@long_name  = b@long_name
+     data8@units      = b@units
+     data8@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FCTR
+     data9(m,n,:,:) = (/b(0,:,:)/)
+     data9@long_name  = b@long_name
+     data9@units      = b@units
+     data9@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FGEV
+     data10(m,n,:,:) = (/b(0,:,:)/)
+     data10@long_name  = b@long_name
+     data10@units      = b@units
+     data10@_FillValue = b@_FillValue
+     delete (b)
+
+  end do
+  end do
+         
+  c->NEE = data1
+  c->GPP = data2
+  c->ER  = data3
+  ;c->NETRAD = data4
+  ;c->LATENT = data5
+  c->FSH    = data6
+  c->FSDS   = data7
+  c->FCEV   = data8
+  c->FCTR   = data9
+  c->FGEV   = data10
+  c->date   = date
+  c->area   = g->area
+
+  print (date)
+
+end
diff -r 0c6405ab2ff4 -r 4be95183fbcd time_series/10.write_ameriflux_cn_FMH41cn.ncl
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/time_series/10.write_ameriflux_cn_FMH41cn.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,208 @@
+;************************************************
+;    Read ascii, Write nc
+;    output: lat: N->S     lon: -180W->180E                         
+;************************************************
+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"  
+;************************************************
+begin
+
+; output
+
+  model_name = "i01.41cn"
+  
+  ;diro  = "/ptmp/jeff/"
+  diro  = "/lustre/wolf-ddn/scratch/hof/cases1/i01.41cn_out/"
+  filo  = model_name + "_ameriflux_2076-2100_monthly.nc"
+  c = addfile(diro+filo,"c")
+  filedimdef(c,"year",-1,True) 
+
+; input data
+
+  nlat = 96
+  nlon = 144
+
+  year_start = 2076
+  year_end   = 2100
+
+  nyear  = year_end - year_start + 1
+  nmonth = 12
+  
+  data1  = new((/nyear,nmonth,nlat,nlon/),float)
+  data2  = new((/nyear,nmonth,nlat,nlon/),float)
+  data3  = new((/nyear,nmonth,nlat,nlon/),float)
+  ;data4  = new((/nyear,nmonth,nlat,nlon/),float)
+  ;data5  = new((/nyear,nmonth,nlat,nlon/),float)
+  data6  = new((/nyear,nmonth,nlat,nlon/),float)
+  data7  = new((/nyear,nmonth,nlat,nlon/),float)
+  data8  = new((/nyear,nmonth,nlat,nlon/),float)
+  data9  = new((/nyear,nmonth,nlat,nlon/),float)
+  data10 = new((/nyear,nmonth,nlat,nlon/),float)
+  date   = new((/nyear,nmonth/),integer)
+
+;  name dimensions and assign coordinate variables
+
+  data1!0    ="year"
+  data1!1    ="month"
+  data1!2    = "lat"
+  data1!3    = "lon"
+
+  data2!0    ="year"
+  data2!1    ="month"
+  data2!2    = "lat"
+  data2!3    = "lon"
+
+  data3!0    ="year"
+  data3!1    ="month"
+  data3!2    = "lat"
+  data3!3    = "lon"
+
+  ;data4!0    ="year"
+  ;data4!1    ="month"
+  ;data4!2    = "lat"
+  ;data4!3    = "lon"
+
+  ;data5!0    ="year"
+  ;data5!1    ="month"
+  ;data5!2    = "lat"
+  ;data5!3    = "lon"
+
+  data6!0    ="year"
+  data6!1    ="month"
+  data6!2    = "lat"
+  data6!3    = "lon"
+
+  data7!0    ="year"
+  data7!1    ="month"
+  data7!2    = "lat"
+  data7!3    = "lon"
+
+  data8!0    ="year"
+  data8!1    ="month"
+  data8!2    = "lat"
+  data8!3    = "lon"
+
+  data9!0    ="year"
+  data9!1    ="month"
+  data9!2    = "lat"
+  data9!3    = "lon"
+
+  data10!0    ="year"
+  data10!1    ="month"
+  data10!2    = "lat"
+  data10!3    = "lon"
+
+  date!0    ="year"
+  date!1    ="month"
+  date@long_name  = "date: yyyymm"
+
+; input dir
+  diri  = "/lustre/wolf-ddn/scratch/hof/cases1/"+model_name+"/"
+
+  do m = 0,nyear-1
+     year = year_start + m
+  do n = 0,nmonth-1
+     nn = n+1
+     date(m,n) = year*100 +nn 
+     
+;    input file
+     if (nn .ge. 10) then
+        fili = model_name+".clm2.h0."+year+"-"+nn+".nc"
+     else
+        fili = model_name+".clm2.h0."+year+"-0"+nn+".nc"
+     end if
+
+     print (fili)
+
+     g = addfile (diri+fili,"r")
+
+     b = g->NEE
+     data1(m,n,:,:) = (/b(0,:,:)/)
+     data1@long_name  = b@long_name
+     data1@units      = b@units
+     data1@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->GPP
+     data2(m,n,:,:) = (/b(0,:,:)/)
+     data2@long_name  = b@long_name
+     data2@units      = b@units
+     data2@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->ER
+     data3(m,n,:,:) = (/b(0,:,:)/)
+     data3@long_name  = b@long_name
+     data3@units      = b@units
+     data3@_FillValue = b@_FillValue
+     delete (b)
+
+     ;b = g->NETRAD
+     ;data4(m,n,:,:) = (/b(0,:,:)/)
+     ;data4@long_name  = b@long_name
+     ;data4@units      = b@units
+     ;data4@_FillValue = b@_FillValue
+     ;delete (b)
+
+     ;b = g->LATENT
+     ;data5(m,n,:,:) = (/b(0,:,:)/)
+     ;data5@long_name  = b@long_name
+     ;data5@units      = b@units
+     ;data5@_FillValue = b@_FillValue
+     ;delete (b)
+
+     b = g->FSH
+     data6(m,n,:,:) = (/b(0,:,:)/)
+     data6@long_name  = b@long_name
+     data6@units      = b@units
+     data6@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FSDS
+     data7(m,n,:,:) = (/b(0,:,:)/)
+     data7@long_name  = b@long_name
+     data7@units      = b@units
+     data7@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FCEV
+     data8(m,n,:,:) = (/b(0,:,:)/)
+     data8@long_name  = b@long_name
+     data8@units      = b@units
+     data8@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FCTR
+     data9(m,n,:,:) = (/b(0,:,:)/)
+     data9@long_name  = b@long_name
+     data9@units      = b@units
+     data9@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FGEV
+     data10(m,n,:,:) = (/b(0,:,:)/)
+     data10@long_name  = b@long_name
+     data10@units      = b@units
+     data10@_FillValue = b@_FillValue
+     delete (b)
+
+  end do
+  end do
+         
+  c->NEE = data1
+  c->GPP = data2
+  c->ER  = data3
+  ;c->NETRAD = data4
+  ;c->LATENT = data5
+  c->FSH    = data6
+  c->FSDS   = data7
+  c->FCEV   = data8
+  c->FCTR   = data9
+  c->FGEV   = data10
+  c->date   = date
+  c->area   = g->area
+
+  print (date)
+
+end
diff -r 0c6405ab2ff4 -r 4be95183fbcd time_series/10.write_ameriflux_cn_FMH42cn.ncl
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/time_series/10.write_ameriflux_cn_FMH42cn.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,208 @@
+;************************************************
+;    Read ascii, Write nc
+;    output: lat: N->S     lon: -180W->180E                         
+;************************************************
+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"  
+;************************************************
+begin
+
+; output
+
+  model_name = "i01.42cn"
+  
+  ;diro  = "/ptmp/jeff/"
+  diro  = "/lustre/wolf-ddn/scratch/hof/cases/i01.42cn_out/"
+  filo  = model_name + "_ameriflux_2976-3000_monthly.nc"
+  c = addfile(diro+filo,"c")
+  filedimdef(c,"year",-1,True) 
+
+; input data
+
+  nlat = 96
+  nlon = 144
+
+  year_start = 2976
+  year_end   = 3000
+
+  nyear  = year_end - year_start + 1
+  nmonth = 12
+  
+  data1  = new((/nyear,nmonth,nlat,nlon/),float)
+  data2  = new((/nyear,nmonth,nlat,nlon/),float)
+  data3  = new((/nyear,nmonth,nlat,nlon/),float)
+  ;data4  = new((/nyear,nmonth,nlat,nlon/),float)
+  ;data5  = new((/nyear,nmonth,nlat,nlon/),float)
+  data6  = new((/nyear,nmonth,nlat,nlon/),float)
+  data7  = new((/nyear,nmonth,nlat,nlon/),float)
+  data8  = new((/nyear,nmonth,nlat,nlon/),float)
+  data9  = new((/nyear,nmonth,nlat,nlon/),float)
+  data10 = new((/nyear,nmonth,nlat,nlon/),float)
+  date   = new((/nyear,nmonth/),integer)
+
+;  name dimensions and assign coordinate variables
+
+  data1!0    ="year"
+  data1!1    ="month"
+  data1!2    = "lat"
+  data1!3    = "lon"
+
+  data2!0    ="year"
+  data2!1    ="month"
+  data2!2    = "lat"
+  data2!3    = "lon"
+
+  data3!0    ="year"
+  data3!1    ="month"
+  data3!2    = "lat"
+  data3!3    = "lon"
+
+  ;data4!0    ="year"
+  ;data4!1    ="month"
+  ;data4!2    = "lat"
+  ;data4!3    = "lon"
+
+  ;data5!0    ="year"
+  ;data5!1    ="month"
+  ;data5!2    = "lat"
+  ;data5!3    = "lon"
+
+  data6!0    ="year"
+  data6!1    ="month"
+  data6!2    = "lat"
+  data6!3    = "lon"
+
+  data7!0    ="year"
+  data7!1    ="month"
+  data7!2    = "lat"
+  data7!3    = "lon"
+
+  data8!0    ="year"
+  data8!1    ="month"
+  data8!2    = "lat"
+  data8!3    = "lon"
+
+  data9!0    ="year"
+  data9!1    ="month"
+  data9!2    = "lat"
+  data9!3    = "lon"
+
+  data10!0    ="year"
+  data10!1    ="month"
+  data10!2    = "lat"
+  data10!3    = "lon"
+
+  date!0    ="year"
+  date!1    ="month"
+  date@long_name  = "date: yyyymm"
+
+; input dir
+  diri  = "/lustre/wolf-ddn/scratch/hof/cases/"+model_name+"/"
+
+  do m = 0,nyear-1
+     year = year_start + m
+  do n = 0,nmonth-1
+     nn = n+1
+     date(m,n) = year*100 +nn 
+     
+;    input file
+     if (nn .ge. 10) then
+        fili = model_name+".clm2.h0."+year+"-"+nn+".nc"
+     else
+        fili = model_name+".clm2.h0."+year+"-0"+nn+".nc"
+     end if
+
+     print (fili)
+
+     g = addfile (diri+fili,"r")
+
+     b = g->NEE
+     data1(m,n,:,:) = (/b(0,:,:)/)
+     data1@long_name  = b@long_name
+     data1@units      = b@units
+     data1@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->GPP
+     data2(m,n,:,:) = (/b(0,:,:)/)
+     data2@long_name  = b@long_name
+     data2@units      = b@units
+     data2@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->ER
+     data3(m,n,:,:) = (/b(0,:,:)/)
+     data3@long_name  = b@long_name
+     data3@units      = b@units
+     data3@_FillValue = b@_FillValue
+     delete (b)
+
+     ;b = g->NETRAD
+     ;data4(m,n,:,:) = (/b(0,:,:)/)
+     ;data4@long_name  = b@long_name
+     ;data4@units      = b@units
+     ;data4@_FillValue = b@_FillValue
+     ;delete (b)
+
+     ;b = g->LATENT
+     ;data5(m,n,:,:) = (/b(0,:,:)/)
+     ;data5@long_name  = b@long_name
+     ;data5@units      = b@units
+     ;data5@_FillValue = b@_FillValue
+     ;delete (b)
+
+     b = g->FSH
+     data6(m,n,:,:) = (/b(0,:,:)/)
+     data6@long_name  = b@long_name
+     data6@units      = b@units
+     data6@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FSDS
+     data7(m,n,:,:) = (/b(0,:,:)/)
+     data7@long_name  = b@long_name
+     data7@units      = b@units
+     data7@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FCEV
+     data8(m,n,:,:) = (/b(0,:,:)/)
+     data8@long_name  = b@long_name
+     data8@units      = b@units
+     data8@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FCTR
+     data9(m,n,:,:) = (/b(0,:,:)/)
+     data9@long_name  = b@long_name
+     data9@units      = b@units
+     data9@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FGEV
+     data10(m,n,:,:) = (/b(0,:,:)/)
+     data10@long_name  = b@long_name
+     data10@units      = b@units
+     data10@_FillValue = b@_FillValue
+     delete (b)
+
+  end do
+  end do
+         
+  c->NEE = data1
+  c->GPP = data2
+  c->ER  = data3
+  ;c->NETRAD = data4
+  ;c->LATENT = data5
+  c->FSH    = data6
+  c->FSDS   = data7
+  c->FCEV   = data8
+  c->FCTR   = data9
+  c->FGEV   = data10
+  c->date   = date
+  c->area   = g->area
+
+  print (date)
+
+end
diff -r 0c6405ab2ff4 -r 4be95183fbcd time_series/10.write_ameriflux_cn_FMH43cn.ncl
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/time_series/10.write_ameriflux_cn_FMH43cn.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,208 @@
+;************************************************
+;    Read ascii, Write nc
+;    output: lat: N->S     lon: -180W->180E                         
+;************************************************
+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"  
+;************************************************
+begin
+
+; output
+
+  model_name = "i01.43cn"
+  
+  ;diro  = "/ptmp/jeff/"
+  diro  = "/lustre/wolf-ddn/scratch/hof/cases1/i01.43cn_out/"
+  filo  = model_name + "_ameriflux_2876-2900_monthly.nc"
+  c = addfile(diro+filo,"c")
+  filedimdef(c,"year",-1,True) 
+
+; input data
+
+  nlat = 96
+  nlon = 144
+
+  year_start = 2876
+  year_end   = 2900
+
+  nyear  = year_end - year_start + 1
+  nmonth = 12
+  
+  data1  = new((/nyear,nmonth,nlat,nlon/),float)
+  data2  = new((/nyear,nmonth,nlat,nlon/),float)
+  data3  = new((/nyear,nmonth,nlat,nlon/),float)
+  ;data4  = new((/nyear,nmonth,nlat,nlon/),float)
+  ;data5  = new((/nyear,nmonth,nlat,nlon/),float)
+  data6  = new((/nyear,nmonth,nlat,nlon/),float)
+  data7  = new((/nyear,nmonth,nlat,nlon/),float)
+  data8  = new((/nyear,nmonth,nlat,nlon/),float)
+  data9  = new((/nyear,nmonth,nlat,nlon/),float)
+  data10 = new((/nyear,nmonth,nlat,nlon/),float)
+  date   = new((/nyear,nmonth/),integer)
+
+;  name dimensions and assign coordinate variables
+
+  data1!0    ="year"
+  data1!1    ="month"
+  data1!2    = "lat"
+  data1!3    = "lon"
+
+  data2!0    ="year"
+  data2!1    ="month"
+  data2!2    = "lat"
+  data2!3    = "lon"
+
+  data3!0    ="year"
+  data3!1    ="month"
+  data3!2    = "lat"
+  data3!3    = "lon"
+
+  ;data4!0    ="year"
+  ;data4!1    ="month"
+  ;data4!2    = "lat"
+  ;data4!3    = "lon"
+
+  ;data5!0    ="year"
+  ;data5!1    ="month"
+  ;data5!2    = "lat"
+  ;data5!3    = "lon"
+
+  data6!0    ="year"
+  data6!1    ="month"
+  data6!2    = "lat"
+  data6!3    = "lon"
+
+  data7!0    ="year"
+  data7!1    ="month"
+  data7!2    = "lat"
+  data7!3    = "lon"
+
+  data8!0    ="year"
+  data8!1    ="month"
+  data8!2    = "lat"
+  data8!3    = "lon"
+
+  data9!0    ="year"
+  data9!1    ="month"
+  data9!2    = "lat"
+  data9!3    = "lon"
+
+  data10!0    ="year"
+  data10!1    ="month"
+  data10!2    = "lat"
+  data10!3    = "lon"
+
+  date!0    ="year"
+  date!1    ="month"
+  date@long_name  = "date: yyyymm"
+
+; input dir
+  diri  = "/lustre/wolf-ddn/scratch/hof/cases1/"+model_name+"/"
+
+  do m = 0,nyear-1
+     year = year_start + m
+  do n = 0,nmonth-1
+     nn = n+1
+     date(m,n) = year*100 +nn 
+     
+;    input file
+     if (nn .ge. 10) then
+        fili = model_name+".clm2.h0."+year+"-"+nn+".nc"
+     else
+        fili = model_name+".clm2.h0."+year+"-0"+nn+".nc"
+     end if
+
+     print (fili)
+
+     g = addfile (diri+fili,"r")
+
+     b = g->NEE
+     data1(m,n,:,:) = (/b(0,:,:)/)
+     data1@long_name  = b@long_name
+     data1@units      = b@units
+     data1@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->GPP
+     data2(m,n,:,:) = (/b(0,:,:)/)
+     data2@long_name  = b@long_name
+     data2@units      = b@units
+     data2@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->ER
+     data3(m,n,:,:) = (/b(0,:,:)/)
+     data3@long_name  = b@long_name
+     data3@units      = b@units
+     data3@_FillValue = b@_FillValue
+     delete (b)
+
+     ;b = g->NETRAD
+     ;data4(m,n,:,:) = (/b(0,:,:)/)
+     ;data4@long_name  = b@long_name
+     ;data4@units      = b@units
+     ;data4@_FillValue = b@_FillValue
+     ;delete (b)
+
+     ;b = g->LATENT
+     ;data5(m,n,:,:) = (/b(0,:,:)/)
+     ;data5@long_name  = b@long_name
+     ;data5@units      = b@units
+     ;data5@_FillValue = b@_FillValue
+     ;delete (b)
+
+     b = g->FSH
+     data6(m,n,:,:) = (/b(0,:,:)/)
+     data6@long_name  = b@long_name
+     data6@units      = b@units
+     data6@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FSDS
+     data7(m,n,:,:) = (/b(0,:,:)/)
+     data7@long_name  = b@long_name
+     data7@units      = b@units
+     data7@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FCEV
+     data8(m,n,:,:) = (/b(0,:,:)/)
+     data8@long_name  = b@long_name
+     data8@units      = b@units
+     data8@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FCTR
+     data9(m,n,:,:) = (/b(0,:,:)/)
+     data9@long_name  = b@long_name
+     data9@units      = b@units
+     data9@_FillValue = b@_FillValue
+     delete (b)
+
+     b = g->FGEV
+     data10(m,n,:,:) = (/b(0,:,:)/)
+     data10@long_name  = b@long_name
+     data10@units      = b@units
+     data10@_FillValue = b@_FillValue
+     delete (b)
+
+  end do
+  end do
+         
+  c->NEE = data1
+  c->GPP = data2
+  c->ER  = data3
+  ;c->NETRAD = data4
+  ;c->LATENT = data5
+  c->FSH    = data6
+  c->FSDS   = data7
+  c->FCEV   = data8
+  c->FCTR   = data9
+  c->FGEV   = data10
+  c->date   = date
+  c->area   = g->area
+
+  print (date)
+
+end
diff -r 0c6405ab2ff4 -r 4be95183fbcd time_series/20.write_fire_cn_FMH36cn.ncl
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/time_series/20.write_fire_cn_FMH36cn.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,104 @@
+;************************************************
+;    output: lat: N->S     lon: -180W->180E                         
+;************************************************
+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"  
+;************************************************
+begin
+
+; output
+
+  model_name = "i01.36cn"
+  
+  diro  = "/lustre/wolf-ddn/scratch/hof/cases1/i01.36cn_out/"
+  filo  = model_name + "_Fire_C_2076-2100_monthly.nc"
+  c = addfile(diro+filo,"c")
+  filedimdef(c,"year",-1,True) 
+
+; input data
+
+  nlat = 96
+  nlon = 144
+
+  year_start = 2076
+  year_end   = 2100
+
+  nyear  = year_end - year_start + 1
+  nmonth = 12
+  
+  data1  = new((/nyear,nmonth,nlat,nlon/),float)
+  data2  = new((/nyear,nmonth,nlat,nlon/),float)
+  data3  = new((/nyear,nmonth,nlat,nlon/),float)
+  date   = new((/nyear,nmonth/),integer)
+
+; input dir
+  diri  = "/lustre/wolf-ddn/scratch/hof/cases1/"+model_name+"/"
+
+  do m = 0,nyear-1
+     year = year_start + m
+  do n = 0,nmonth-1
+     nn = n+1
+     date(m,n) = year*100 +nn 
+     
+;    input file
+     if (nn .ge. 10) then
+        fili = model_name+".clm2.h0."+year+"-"+nn+".nc"
+     else
+        fili = model_name+".clm2.h0."+year+"-0"+nn+".nc"
+     end if
+
+;    print (fili)
+
+     g  = addfile (diri+fili,"r")
+
+     b1 = g->COL_FIRE_CLOSS
+     data1(m,n,:,:) = (/b1(0,:,:)/)
+
+     b2 = g->NPP
+     data2(m,n,:,:) = (/b2(0,:,:)/)
+
+     b3 = g->NEE
+     data3(m,n,:,:) = (/b3(0,:,:)/)        
+  end do
+  end do
+
+;  name dimensions and assign coordinate variables
+
+  data1!0    ="year"
+  data1!1    ="month"
+  data1!2    = "lat"
+  data1!3    = "lon"
+  data1@long_name  = b1@long_name
+  data1@units      = b1@units
+  data1@_FillValue = b1@_FillValue
+
+  data2!0    ="year"
+  data2!1    ="month"
+  data2!2    = "lat"
+  data2!3    = "lon"
+  data2@long_name  = b2@long_name
+  data2@units      = b2@units
+  data2@_FillValue = b2@_FillValue
+
+  data3!0    ="year"
+  data3!1    ="month"
+  data3!2    = "lat"
+  data3!3    = "lon"
+  data3@long_name  = b3@long_name
+  data3@units      = b3@units
+  data3@_FillValue = b3@_FillValue
+
+  date!0    ="year"
+  date!1    ="month"
+  date@long_name  = "date: yyyymm"
+         
+  c->COL_FIRE_CLOSS = data1
+  c->NPP            = data2
+  c->NEE            = data3
+  c->date           = date
+  c->area           = g->area
+
+  print (date)
+
+end
diff -r 0c6405ab2ff4 -r 4be95183fbcd time_series/20.write_fire_cn_FMH37cn_cont.ncl
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/time_series/20.write_fire_cn_FMH37cn_cont.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,104 @@
+;************************************************
+;    output: lat: N->S     lon: -180W->180E                         
+;************************************************
+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"  
+;************************************************
+begin
+
+; output
+
+  model_name = "i01.37cn_cont"
+  
+  diro  = "/lustre/wolf-ddn/scratch/hof/cases/i01.37cn_cont_out/"
+  filo  = model_name + "_Fire_C_2976-3000_monthly.nc"
+  c = addfile(diro+filo,"c")
+  filedimdef(c,"year",-1,True) 
+
+; input data
+
+  nlat = 96
+  nlon = 144
+
+  year_start = 2976
+  year_end   = 3000
+
+  nyear  = year_end - year_start + 1
+  nmonth = 12
+  
+  data1  = new((/nyear,nmonth,nlat,nlon/),float)
+  data2  = new((/nyear,nmonth,nlat,nlon/),float)
+  data3  = new((/nyear,nmonth,nlat,nlon/),float)
+  date   = new((/nyear,nmonth/),integer)
+
+; input dir
+  diri  = "/lustre/wolf-ddn/scratch/hof/cases/"+model_name+"/"
+
+  do m = 0,nyear-1
+     year = year_start + m
+  do n = 0,nmonth-1
+     nn = n+1
+     date(m,n) = year*100 +nn 
+     
+;    input file
+     if (nn .ge. 10) then
+        fili = model_name+".clm2.h0."+year+"-"+nn+".nc"
+     else
+        fili = model_name+".clm2.h0."+year+"-0"+nn+".nc"
+     end if
+
+;    print (fili)
+
+     g  = addfile (diri+fili,"r")
+
+     b1 = g->COL_FIRE_CLOSS
+     data1(m,n,:,:) = (/b1(0,:,:)/)
+
+     b2 = g->NPP
+     data2(m,n,:,:) = (/b2(0,:,:)/)
+
+     b3 = g->NEE
+     data3(m,n,:,:) = (/b3(0,:,:)/)        
+  end do
+  end do
+
+;  name dimensions and assign coordinate variables
+
+  data1!0    ="year"
+  data1!1    ="month"
+  data1!2    = "lat"
+  data1!3    = "lon"
+  data1@long_name  = b1@long_name
+  data1@units      = b1@units
+  data1@_FillValue = b1@_FillValue
+
+  data2!0    ="year"
+  data2!1    ="month"
+  data2!2    = "lat"
+  data2!3    = "lon"
+  data2@long_name  = b2@long_name
+  data2@units      = b2@units
+  data2@_FillValue = b2@_FillValue
+
+  data3!0    ="year"
+  data3!1    ="month"
+  data3!2    = "lat"
+  data3!3    = "lon"
+  data3@long_name  = b3@long_name
+  data3@units      = b3@units
+  data3@_FillValue = b3@_FillValue
+
+  date!0    ="year"
+  date!1    ="month"
+  date@long_name  = "date: yyyymm"
+         
+  c->COL_FIRE_CLOSS = data1
+  c->NPP            = data2
+  c->NEE            = data3
+  c->date           = date
+  c->area           = g->area
+
+  print (date)
+
+end
diff -r 0c6405ab2ff4 -r 4be95183fbcd time_series/20.write_fire_cn_FMH38cn.ncl
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/time_series/20.write_fire_cn_FMH38cn.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,104 @@
+;************************************************
+;    output: lat: N->S     lon: -180W->180E                         
+;************************************************
+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"  
+;************************************************
+begin
+
+; output
+
+  model_name = "i01.38cn"
+  
+  diro  = "/lustre/wolf-ddn/scratch/hof/cases1/i01.38cn_out/"
+  filo  = model_name + "_Fire_C_2151-2175_monthly.nc"
+  c = addfile(diro+filo,"c")
+  filedimdef(c,"year",-1,True) 
+
+; input data
+
+  nlat = 96
+  nlon = 144
+
+  year_start = 2151
+  year_end   = 2175
+
+  nyear  = year_end - year_start + 1
+  nmonth = 12
+  
+  data1  = new((/nyear,nmonth,nlat,nlon/),float)
+  data2  = new((/nyear,nmonth,nlat,nlon/),float)
+  data3  = new((/nyear,nmonth,nlat,nlon/),float)
+  date   = new((/nyear,nmonth/),integer)
+
+; input dir
+  diri  = "/lustre/wolf-ddn/scratch/hof/cases1/"+model_name+"/"
+
+  do m = 0,nyear-1
+     year = year_start + m
+  do n = 0,nmonth-1
+     nn = n+1
+     date(m,n) = year*100 +nn 
+     
+;    input file
+     if (nn .ge. 10) then
+        fili = model_name+".clm2.h0."+year+"-"+nn+".nc"
+     else
+        fili = model_name+".clm2.h0."+year+"-0"+nn+".nc"
+     end if
+
+;    print (fili)
+
+     g  = addfile (diri+fili,"r")
+
+     b1 = g->COL_FIRE_CLOSS
+     data1(m,n,:,:) = (/b1(0,:,:)/)
+
+     b2 = g->NPP
+     data2(m,n,:,:) = (/b2(0,:,:)/)
+
+     b3 = g->NEE
+     data3(m,n,:,:) = (/b3(0,:,:)/)        
+  end do
+  end do
+
+;  name dimensions and assign coordinate variables
+
+  data1!0    ="year"
+  data1!1    ="month"
+  data1!2    = "lat"
+  data1!3    = "lon"
+  data1@long_name  = b1@long_name
+  data1@units      = b1@units
+  data1@_FillValue = b1@_FillValue
+
+  data2!0    ="year"
+  data2!1    ="month"
+  data2!2    = "lat"
+  data2!3    = "lon"
+  data2@long_name  = b2@long_name
+  data2@units      = b2@units
+  data2@_FillValue = b2@_FillValue
+
+  data3!0    ="year"
+  data3!1    ="month"
+  data3!2    = "lat"
+  data3!3    = "lon"
+  data3@long_name  = b3@long_name
+  data3@units      = b3@units
+  data3@_FillValue = b3@_FillValue
+
+  date!0    ="year"
+  date!1    ="month"
+  date@long_name  = "date: yyyymm"
+         
+  c->COL_FIRE_CLOSS = data1
+  c->NPP            = data2
+  c->NEE            = data3
+  c->date           = date
+  c->area           = g->area
+
+  print (date)
+
+end
diff -r 0c6405ab2ff4 -r 4be95183fbcd time_series/20.write_fire_cn_FMH39cn.ncl
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/time_series/20.write_fire_cn_FMH39cn.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,104 @@
+;************************************************
+;    output: lat: N->S     lon: -180W->180E                         
+;************************************************
+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"  
+;************************************************
+begin
+
+; output
+
+  model_name = "i01.39cn"
+  
+  diro  = "/lustre/wolf-ddn/scratch/hof/cases1/i01.39cn_out/"
+  filo  = model_name + "_Fire_C_2101-2125_monthly.nc"
+  c = addfile(diro+filo,"c")
+  filedimdef(c,"year",-1,True) 
+
+; input data
+
+  nlat = 96
+  nlon = 144
+
+  year_start = 2101
+  year_end   = 2125
+
+  nyear  = year_end - year_start + 1
+  nmonth = 12
+  
+  data1  = new((/nyear,nmonth,nlat,nlon/),float)
+  data2  = new((/nyear,nmonth,nlat,nlon/),float)
+  data3  = new((/nyear,nmonth,nlat,nlon/),float)
+  date   = new((/nyear,nmonth/),integer)
+
+; input dir
+  diri  = "/lustre/wolf-ddn/scratch/hof/cases1/"+model_name+"/"
+
+  do m = 0,nyear-1
+     year = year_start + m
+  do n = 0,nmonth-1
+     nn = n+1
+     date(m,n) = year*100 +nn 
+     
+;    input file
+     if (nn .ge. 10) then
+        fili = model_name+".clm2.h0."+year+"-"+nn+".nc"
+     else
+        fili = model_name+".clm2.h0."+year+"-0"+nn+".nc"
+     end if
+
+;    print (fili)
+
+     g  = addfile (diri+fili,"r")
+
+     b1 = g->COL_FIRE_CLOSS
+     data1(m,n,:,:) = (/b1(0,:,:)/)
+
+     b2 = g->NPP
+     data2(m,n,:,:) = (/b2(0,:,:)/)
+
+     b3 = g->NEE
+     data3(m,n,:,:) = (/b3(0,:,:)/)        
+  end do
+  end do
+
+;  name dimensions and assign coordinate variables
+
+  data1!0    ="year"
+  data1!1    ="month"
+  data1!2    = "lat"
+  data1!3    = "lon"
+  data1@long_name  = b1@long_name
+  data1@units      = b1@units
+  data1@_FillValue = b1@_FillValue
+
+  data2!0    ="year"
+  data2!1    ="month"
+  data2!2    = "lat"
+  data2!3    = "lon"
+  data2@long_name  = b2@long_name
+  data2@units      = b2@units
+  data2@_FillValue = b2@_FillValue
+
+  data3!0    ="year"
+  data3!1    ="month"
+  data3!2    = "lat"
+  data3!3    = "lon"
+  data3@long_name  = b3@long_name
+  data3@units      = b3@units
+  data3@_FillValue = b3@_FillValue
+
+  date!0    ="year"
+  date!1    ="month"
+  date@long_name  = "date: yyyymm"
+         
+  c->COL_FIRE_CLOSS = data1
+  c->NPP            = data2
+  c->NEE            = data3
+  c->date           = date
+  c->area           = g->area
+
+  print (date)
+
+end
diff -r 0c6405ab2ff4 -r 4be95183fbcd time_series/20.write_fire_cn_FMH40cn.ncl
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/time_series/20.write_fire_cn_FMH40cn.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,104 @@
+;************************************************
+;    output: lat: N->S     lon: -180W->180E                         
+;************************************************
+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"  
+;************************************************
+begin
+
+; output
+
+  model_name = "i01.40cn"
+  
+  diro  = "/lustre/wolf-ddn/scratch/hof/cases1/i01.40cn_out/"
+  filo  = model_name + "_Fire_C_2076-2100_monthly.nc"
+  c = addfile(diro+filo,"c")
+  filedimdef(c,"year",-1,True) 
+
+; input data
+
+  nlat = 96
+  nlon = 144
+
+  year_start = 2076
+  year_end   = 2100
+
+  nyear  = year_end - year_start + 1
+  nmonth = 12
+  
+  data1  = new((/nyear,nmonth,nlat,nlon/),float)
+  data2  = new((/nyear,nmonth,nlat,nlon/),float)
+  data3  = new((/nyear,nmonth,nlat,nlon/),float)
+  date   = new((/nyear,nmonth/),integer)
+
+; input dir
+  diri  = "/lustre/wolf-ddn/scratch/hof/cases1/"+model_name+"/"
+
+  do m = 0,nyear-1
+     year = year_start + m
+  do n = 0,nmonth-1
+     nn = n+1
+     date(m,n) = year*100 +nn 
+     
+;    input file
+     if (nn .ge. 10) then
+        fili = model_name+".clm2.h0."+year+"-"+nn+".nc"
+     else
+        fili = model_name+".clm2.h0."+year+"-0"+nn+".nc"
+     end if
+
+;    print (fili)
+
+     g  = addfile (diri+fili,"r")
+
+     b1 = g->COL_FIRE_CLOSS
+     data1(m,n,:,:) = (/b1(0,:,:)/)
+
+     b2 = g->NPP
+     data2(m,n,:,:) = (/b2(0,:,:)/)
+
+     b3 = g->NEE
+     data3(m,n,:,:) = (/b3(0,:,:)/)        
+  end do
+  end do
+
+;  name dimensions and assign coordinate variables
+
+  data1!0    ="year"
+  data1!1    ="month"
+  data1!2    = "lat"
+  data1!3    = "lon"
+  data1@long_name  = b1@long_name
+  data1@units      = b1@units
+  data1@_FillValue = b1@_FillValue
+
+  data2!0    ="year"
+  data2!1    ="month"
+  data2!2    = "lat"
+  data2!3    = "lon"
+  data2@long_name  = b2@long_name
+  data2@units      = b2@units
+  data2@_FillValue = b2@_FillValue
+
+  data3!0    ="year"
+  data3!1    ="month"
+  data3!2    = "lat"
+  data3!3    = "lon"
+  data3@long_name  = b3@long_name
+  data3@units      = b3@units
+  data3@_FillValue = b3@_FillValue
+
+  date!0    ="year"
+  date!1    ="month"
+  date@long_name  = "date: yyyymm"
+         
+  c->COL_FIRE_CLOSS = data1
+  c->NPP            = data2
+  c->NEE            = data3
+  c->date           = date
+  c->area           = g->area
+
+  print (date)
+
+end
diff -r 0c6405ab2ff4 -r 4be95183fbcd time_series/20.write_fire_cn_FMH41cn.ncl
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/time_series/20.write_fire_cn_FMH41cn.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,104 @@
+;************************************************
+;    output: lat: N->S     lon: -180W->180E                         
+;************************************************
+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"  
+;************************************************
+begin
+
+; output
+
+  model_name = "i01.41cn"
+  
+  diro  = "/lustre/wolf-ddn/scratch/hof/cases1/i01.41cn_out/"
+  filo  = model_name + "_Fire_C_2076-2100_monthly.nc"
+  c = addfile(diro+filo,"c")
+  filedimdef(c,"year",-1,True) 
+
+; input data
+
+  nlat = 96
+  nlon = 144
+
+  year_start = 2076
+  year_end   = 2100
+
+  nyear  = year_end - year_start + 1
+  nmonth = 12
+  
+  data1  = new((/nyear,nmonth,nlat,nlon/),float)
+  data2  = new((/nyear,nmonth,nlat,nlon/),float)
+  data3  = new((/nyear,nmonth,nlat,nlon/),float)
+  date   = new((/nyear,nmonth/),integer)
+
+; input dir
+  diri  = "/lustre/wolf-ddn/scratch/hof/cases1/"+model_name+"/"
+
+  do m = 0,nyear-1
+     year = year_start + m
+  do n = 0,nmonth-1
+     nn = n+1
+     date(m,n) = year*100 +nn 
+     
+;    input file
+     if (nn .ge. 10) then
+        fili = model_name+".clm2.h0."+year+"-"+nn+".nc"
+     else
+        fili = model_name+".clm2.h0."+year+"-0"+nn+".nc"
+     end if
+
+;    print (fili)
+
+     g  = addfile (diri+fili,"r")
+
+     b1 = g->COL_FIRE_CLOSS
+     data1(m,n,:,:) = (/b1(0,:,:)/)
+
+     b2 = g->NPP
+     data2(m,n,:,:) = (/b2(0,:,:)/)
+
+     b3 = g->NEE
+     data3(m,n,:,:) = (/b3(0,:,:)/)        
+  end do
+  end do
+
+;  name dimensions and assign coordinate variables
+
+  data1!0    ="year"
+  data1!1    ="month"
+  data1!2    = "lat"
+  data1!3    = "lon"
+  data1@long_name  = b1@long_name
+  data1@units      = b1@units
+  data1@_FillValue = b1@_FillValue
+
+  data2!0    ="year"
+  data2!1    ="month"
+  data2!2    = "lat"
+  data2!3    = "lon"
+  data2@long_name  = b2@long_name
+  data2@units      = b2@units
+  data2@_FillValue = b2@_FillValue
+
+  data3!0    ="year"
+  data3!1    ="month"
+  data3!2    = "lat"
+  data3!3    = "lon"
+  data3@long_name  = b3@long_name
+  data3@units      = b3@units
+  data3@_FillValue = b3@_FillValue
+
+  date!0    ="year"
+  date!1    ="month"
+  date@long_name  = "date: yyyymm"
+         
+  c->COL_FIRE_CLOSS = data1
+  c->NPP            = data2
+  c->NEE            = data3
+  c->date           = date
+  c->area           = g->area
+
+  print (date)
+
+end
diff -r 0c6405ab2ff4 -r 4be95183fbcd time_series/20.write_fire_cn_FMH42cn.ncl
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/time_series/20.write_fire_cn_FMH42cn.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,104 @@
+;************************************************
+;    output: lat: N->S     lon: -180W->180E                         
+;************************************************
+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"  
+;************************************************
+begin
+
+; output
+
+  model_name = "i01.42cn"
+  
+  diro  = "/lustre/wolf-ddn/scratch/hof/cases/i01.42cn_out/"
+  filo  = model_name + "_Fire_C_2976-3000_monthly.nc"
+  c = addfile(diro+filo,"c")
+  filedimdef(c,"year",-1,True) 
+
+; input data
+
+  nlat = 96
+  nlon = 144
+
+  year_start = 2976
+  year_end   = 3000
+
+  nyear  = year_end - year_start + 1
+  nmonth = 12
+  
+  data1  = new((/nyear,nmonth,nlat,nlon/),float)
+  data2  = new((/nyear,nmonth,nlat,nlon/),float)
+  data3  = new((/nyear,nmonth,nlat,nlon/),float)
+  date   = new((/nyear,nmonth/),integer)
+
+; input dir
+  diri  = "/lustre/wolf-ddn/scratch/hof/cases/"+model_name+"/"
+
+  do m = 0,nyear-1
+     year = year_start + m
+  do n = 0,nmonth-1
+     nn = n+1
+     date(m,n) = year*100 +nn 
+     
+;    input file
+     if (nn .ge. 10) then
+        fili = model_name+".clm2.h0."+year+"-"+nn+".nc"
+     else
+        fili = model_name+".clm2.h0."+year+"-0"+nn+".nc"
+     end if
+
+;    print (fili)
+
+     g  = addfile (diri+fili,"r")
+
+     b1 = g->COL_FIRE_CLOSS
+     data1(m,n,:,:) = (/b1(0,:,:)/)
+
+     b2 = g->NPP
+     data2(m,n,:,:) = (/b2(0,:,:)/)
+
+     b3 = g->NEE
+     data3(m,n,:,:) = (/b3(0,:,:)/)        
+  end do
+  end do
+
+;  name dimensions and assign coordinate variables
+
+  data1!0    ="year"
+  data1!1    ="month"
+  data1!2    = "lat"
+  data1!3    = "lon"
+  data1@long_name  = b1@long_name
+  data1@units      = b1@units
+  data1@_FillValue = b1@_FillValue
+
+  data2!0    ="year"
+  data2!1    ="month"
+  data2!2    = "lat"
+  data2!3    = "lon"
+  data2@long_name  = b2@long_name
+  data2@units      = b2@units
+  data2@_FillValue = b2@_FillValue
+
+  data3!0    ="year"
+  data3!1    ="month"
+  data3!2    = "lat"
+  data3!3    = "lon"
+  data3@long_name  = b3@long_name
+  data3@units      = b3@units
+  data3@_FillValue = b3@_FillValue
+
+  date!0    ="year"
+  date!1    ="month"
+  date@long_name  = "date: yyyymm"
+         
+  c->COL_FIRE_CLOSS = data1
+  c->NPP            = data2
+  c->NEE            = data3
+  c->date           = date
+  c->area           = g->area
+
+  print (date)
+
+end
diff -r 0c6405ab2ff4 -r 4be95183fbcd time_series/20.write_fire_cn_FMH43cn.ncl
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/time_series/20.write_fire_cn_FMH43cn.ncl	Thu Mar 26 14:02:21 2009 -0400
@@ -0,0 +1,104 @@
+;************************************************
+;    output: lat: N->S     lon: -180W->180E                         
+;************************************************
+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"  
+;************************************************
+begin
+
+; output
+
+  model_name = "i01.43cn"
+  
+  diro  = "/lustre/wolf-ddn/scratch/hof/cases1/i01.43cn_out/"
+  filo  = model_name + "_Fire_C_2876-2900_monthly.nc"
+  c = addfile(diro+filo,"c")
+  filedimdef(c,"year",-1,True) 
+
+; input data
+
+  nlat = 96
+  nlon = 144
+
+  year_start = 2876
+  year_end   = 2900
+
+  nyear  = year_end - year_start + 1
+  nmonth = 12
+  
+  data1  = new((/nyear,nmonth,nlat,nlon/),float)
+  data2  = new((/nyear,nmonth,nlat,nlon/),float)
+  data3  = new((/nyear,nmonth,nlat,nlon/),float)
+  date   = new((/nyear,nmonth/),integer)
+
+; input dir
+  diri  = "/lustre/wolf-ddn/scratch/hof/cases1/"+model_name+"/"
+
+  do m = 0,nyear-1
+     year = year_start + m
+  do n = 0,nmonth-1
+     nn = n+1
+     date(m,n) = year*100 +nn 
+     
+;    input file
+     if (nn .ge. 10) then
+        fili = model_name+".clm2.h0."+year+"-"+nn+".nc"
+     else
+        fili = model_name+".clm2.h0."+year+"-0"+nn+".nc"
+     end if
+
+;    print (fili)
+
+     g  = addfile (diri+fili,"r")
+
+     b1 = g->COL_FIRE_CLOSS
+     data1(m,n,:,:) = (/b1(0,:,:)/)
+
+     b2 = g->NPP
+     data2(m,n,:,:) = (/b2(0,:,:)/)
+
+     b3 = g->NEE
+     data3(m,n,:,:) = (/b3(0,:,:)/)        
+  end do
+  end do
+
+;  name dimensions and assign coordinate variables
+
+  data1!0    ="year"
+  data1!1    ="month"
+  data1!2    = "lat"
+  data1!3    = "lon"
+  data1@long_name  = b1@long_name
+  data1@units      = b1@units
+  data1@_FillValue = b1@_FillValue
+
+  data2!0    ="year"
+  data2!1    ="month"
+  data2!2    = "lat"
+  data2!3    = "lon"
+  data2@long_name  = b2@long_name
+  data2@units      = b2@units
+  data2@_FillValue = b2@_FillValue
+
+  data3!0    ="year"
+  data3!1    ="month"
+  data3!2    = "lat"
+  data3!3    = "lon"
+  data3@long_name  = b3@long_name
+  data3@units      = b3@units
+  data3@_FillValue = b3@_FillValue
+
+  date!0    ="year"
+  date!1    ="month"
+  date@long_name  = "date: yyyymm"
+         
+  c->COL_FIRE_CLOSS = data1
+  c->NPP            = data2
+  c->NEE            = data3
+  c->date           = date
+  c->area           = g->area
+
+  print (date)
+
+end