Changeset 6073 for trunk/TOOLS

Timestamp:

2019-06-27T17:11:27+02:00 (5 years ago)

Author:

josefine.ghattas

Message:

Added script to create soil moisture nudging files from daily output.

Location:

trunk/TOOLS/NUDGING_FILE

Files:

• Job_moistc_yearly_files.sh (copied) (copied from trunk/TOOLS/NUDGING_FILE/Job_moistc_histr1.sh) (3 diffs)
• README (added)

trunk/TOOLS/NUDGING_FILE/Job_moistc_yearly_files.sh

@@ -1 @@
-#MSUB -r moistcr1
-#MSUB -o moistc.out_%I
-#MSUB -e moistc.out_%I
+#MSUB -r moistc_land-hist
+#MSUB -o moistc_land-hist.out_%I
+#MSUB -e moistc_land-hist.out_%I
 #MSUB -n 1
 #MSUB -T 36000
@@ -13 +13 @@
 
 # Script to create nudging file for soil moisture. 
-# This creates a climatology of the soil moisture over 1980-2014 with daily frequency.
-#
-# 1. Daily output for the years 1980-2014 from the simulation CM61-LR-hist-03.1910 are used.
-# 2. The variable moistc is first splitted into moistc_1, moistc_2, moistc_3 to remove the axes on soiltiles.
-# 3. For years with 366 days, the 31 of decembre is removed to enable making the median over all years.
-# 4. The median is calculated over the whole period 1980-2014 to obtain one year climatologie file with daily frequency.
-# 5. The last day is duplicated to have 366 days in the file. 
+# This extracts moistc variable from sechiba_out_2.nc output files from a previsous simulation.
+# The moistc variable is separated into 3 variables depending on the soiltiles moistc_1, 
+# moistc_2 and moistc_3.
 #
 # $HeadURL$
@@ -26 +22 @@
 #######################################################################################################################
 date
-JobName=CM61-LR-hist-03.1910
+JobName=CM61-LR-land-hist-02
 mkdir run_moistc_${JobName}
 cd run_moistc_${JobName}
 
 echo Start
-# 1. historical r1: CM61-LR-hist-03.1910
-simulpath=/ccc/store/cont003/gencmip6/p86caub/IGCM_OUT/IPSLCM6/PROD/historical/CM61-LR-hist-03.1910/SRF/Output/DA
-allpack=" 19800101_19891231 19900101_19991231 20000101_20091231 20100101_20141231 "
+# 1. Path to simulation land-hist
+#    Note: the files are daily output frequency even if the folder and file name contain HF
+simulpath=/ccc/store/cont003/gencmip6/p529vui/IGCM_OUT//PROD/land-hist/CM61-LR-land-hist-02/SRF/Output/HF
 
 # 2. Extract moistc
-echo Extract variable moistc from pack files
+echo Extract variable moistc from yearly files
 # float moistc(time_counter, soiltyp, solay, lat, lon)
+year=1850
+lastyear=2014
+while [ ${year} -le ${lastyear} ] ; do
+  pack=${year}0101_${year}1231
+  echo Treat file ${simulpath}/${JobName}_${pack}_HF_sechiba_out_2.nc
 
-for pack in ${allpack} ; do
-  echo Treat file ${simulpath}/${JobName}_${pack}_DA_sechiba_out_2.nc
-  ncks -v moistc ${simulpath}/${JobName}_${pack}_DA_sechiba_out_2.nc moistc_${pack}_DA_sechiba_out_2.nc
+  # Extract the variable moistc 
+  ncks -v moistc ${simulpath}/${JobName}_${pack}_HF_sechiba_out_2.nc moistc_${year}_sechiba_out_2.nc
+
+  # Separate into variables per soiltile
+  ncks -d soiltyp,0,0 moistc_${year}_sechiba_out_2.nc moistc1_${year}_sechiba_out_2.nc
+  ncks -d soiltyp,1,1 moistc_${year}_sechiba_out_2.nc moistc2_${year}_sechiba_out_2.nc
+  ncks -d soiltyp,2,2 moistc_${year}_sechiba_out_2.nc moistc3_${year}_sechiba_out_2.nc
+
+  ncrename -v moistc,moistc_1 moistc1_${year}_sechiba_out_2.nc
+  ncrename -v moistc,moistc_2 moistc2_${year}_sechiba_out_2.nc
+  ncrename -v moistc,moistc_3 moistc3_${year}_sechiba_out_2.nc
+
+  # Remove dimension soiltyp (which is now 1) by averaging over the dimension. Put all variables in the same file.
+  for soiltyp in 1 2 3 ; do
+    ncwa -A -a soiltyp  moistc${soiltyp}_${year}_sechiba_out_2.nc moistc_allsoil_${year}_sechiba_out_2.nc 
+  done
+  ncatted -a long_name,moistc_1,m,c,"Soil Moisture profile for soil tile 1" moistc_daily_${year}.nc 
+  ncatted -a long_name,moistc_2,m,c,"Soil Moisture profile for soil tile 2" moistc_daily_${year}.nc 
+  ncatted -a long_name,moistc_3,m,c,"Soil Moisture profile for soil tile 3" moistc_daily_${year}.nc 
 done
 
-echo Separate into variables per soiltile
-for pack in ${allpack} ; do
-  ncks -d soiltyp,0,0 moistc_${pack}_DA_sechiba_out_2.nc moistc1_${pack}_DA_sechiba_out_2.nc
-  ncks -d soiltyp,1,1 moistc_${pack}_DA_sechiba_out_2.nc moistc2_${pack}_DA_sechiba_out_2.nc
-  ncks -d soiltyp,2,2 moistc_${pack}_DA_sechiba_out_2.nc moistc3_${pack}_DA_sechiba_out_2.nc
-
-  ncrename -v moistc,moistc_1 moistc1_${pack}_DA_sechiba_out_2.nc
-  ncrename -v moistc,moistc_2 moistc2_${pack}_DA_sechiba_out_2.nc
-  ncrename -v moistc,moistc_3 moistc3_${pack}_DA_sechiba_out_2.nc
-done
-
-echo Remove dimension soiltyp (which is now 1) by averaging over the dimension. Put all variables in the same file.
-for pack in ${allpack} ; do
-  for soiltyp in 1 2 3 ; do
-    ncwa -A -a soiltyp  moistc${soiltyp}_${pack}_DA_sechiba_out_2.nc moistc_allsoil_${pack}_DA_sechiba_out_2.nc 
-  done
-  ncatted -a long_name,moistc_1,m,c,"Soil Moisture profile for soil tile 1" moistc_allsoil_${pack}_DA_sechiba_out_2.nc 
-  ncatted -a long_name,moistc_2,m,c,"Soil Moisture profile for soil tile 2" moistc_allsoil_${pack}_DA_sechiba_out_2.nc 
-  ncatted -a long_name,moistc_3,m,c,"Soil Moisture profile for soil tile 3" moistc_allsoil_${pack}_DA_sechiba_out_2.nc 
-done
-
-echo Separate per year
-for pack in ${allpack} ; do
-  cdo splityear moistc_allsoil_${pack}_DA_sechiba_out_2.nc moistc_
-done
-
-# 3. Remove one time step in leap years
-echo Remove last time step 31 of december from leap years
-allleap=" 1980 1984 1988 1992 1996 2000 2004 2008 2012 "
-for year in $allleap ; do
-  mv moistc_${year}.nc moistc_${year}.leap.nc 
-  ncks -d time_counter,0,364 moistc_${year}.leap.nc moistc_${year}.365.nc 
-  cp moistc_${year}.365.nc moistc_${year}.nc 
-done
-
-# 4. Calculate the median
-echo Calculate median
-cdo enspctl,50 moistc_????.nc moistc_clim_1980_2014.nc
-
-# 5. Duplicate last day to make a file with 366days
-echo Duplicate last day to make a file with 366days
-# Extract last day
-cdo seltimestep,365 moistc_clim_1980_2014.nc moistc_clim_365.nc
-# Switch time axis one day ahead
-ncatted -O -a units,time_counter,m,c,"seconds since 1850-01-02 00:00:00"  moistc_clim_365.nc 
-# Merge with clim file
-ncrcat moistc_clim_1980_2014.nc moistc_clim_365.nc moistc_clim_1980_2014_366d.nc 
 
 echo End