Added scripts for deglaciation-interactive (not finalized)

cmor/mpiesm/scripts/transient-deglaciation-interactive_r1i1p1f1-CR.cmor_ctl

+#! /bin/sh -e
+#SBATCH --account=bm0021
+#SBATCH --qos=esgf
+##SBATCH --time=48:00:00
+#SBATCH --time=02:00:00
+#SBATCH --partition=shared
+#SBATCH --mail-type=FAIL
+#SBATCH --output=%x_%j.log
+
+# Number of sub-simulations
+n_subsim=4
+#initial and final year of the experiment
+spinup=0
+iniyeararr=( $((4000+spinup)) 2000 2000 2000 )
+finyeararr=( 8999 8999 8999 8999 )
+iniyearoffset=0
+iniyear=$(( 1 + $iniyearoffset + $spinup ))
+finyear=$(( 26000 + $iniyearoffset - $spinup ))
+#offset compared to startyear
+inioffsetarr=( $(( -3999 + $iniyearoffset )) $(( 3001 + $iniyearoffset )) $(( 10001 + $iniyearoffset )) $(( 17001 + $iniyearoffset )) )
+# Time axis (26000-1 BP)
+##     exp time       total yrs   new exp time   offset
+#a - 26000-21001 BP - 5000 yrs -     1- 5000 -   - 3999
+#b - 21000-14001 BP - 7000 yrs -  5001-12000 -     3001
+#c - 14000- 7001 BP - 7000 yrs - 12001-19000 -    10001
+#d -  7000-    1 BP - 7000 yrs - 19001-26000 -    17001
+
+# Chunksize
+#  Note that there are prerequisites concerning the chunksize:
+#  - the defined decadal timeslizes may not overlap between two chunks!
+#  - decadal bounds have to be defined accordingly - "???01231" in this case 
+#  - usually this is the case by default due to decadal model output!
+chunksize=100
+
+# Create list
+for i in $(seq 0 $(( n_subsim - 1 )) )
+do
+  for yyyy in $(seq ${iniyeararr[$i]} ${finyeararr[$i]} )
+  do
+    paramarr+=( "$i $yyyy" )
+  done
+done
+
+rm -f cmor_ctl_list_interactive_synch_r1i1p1f1
+in=0
+for i in $(seq $((iniyear-iniyear)) $chunksize $((finyear-iniyear)))
+do
+  [[ $i -eq $((iniyear-iniyear)) ]] && continue
+  li=$(echo ${paramarr[$in]} | cut -d " " -f1)
+  ly=$(echo ${paramarr[$in]} | cut -d " " -f2)
+  ui=$(echo ${paramarr[$((i-1))]} | cut -d " " -f1)
+  uy=$(echo ${paramarr[$((i-1))]} | cut -d " " -f2)
+  in=$i
+  echo "$li $ui $ly $uy" >> cmor_ctl_list_interactive_synch_r1i1p1f1
+done
+[[ $i -ne $((finyear-iniyear)) ]] && {
+  li=$(echo ${paramarr[$in]} | cut -d " " -f1)
+  ly=$(echo ${paramarr[$in]} | cut -d " " -f2)
+  ui=$(echo ${paramarr[$((finyear-iniyear))]} | cut -d " " -f1)
+  uy=$(echo ${paramarr[$((finyear-iniyear))]} | cut -d " " -f2)
+  echo "$li $ui $ly $uy" >> cmor_ctl_list_interactive_synch_r1i1p1f1
+}
+
+make -k -j 19 -f  transient-deglaciation-interactive_r1i1p1f1-CR.cmor_ctl.mk "$@"
+

cmor/mpiesm/scripts/transient-deglaciation-interactive_r1i1p1f1-CR.cmor_ctl.mk

+EXP_ID = transient-deglaciation-interactive_r1i1p1f1-CR
+
+ACCOUNT = bm0021
+PARTITION = compute
+
+SUFFIX =
+ARCHIVE_SUFFIX =
+
+TARGET_STEP=cmor
+NUMCHUNKS=$(shell cat cmor_ctl_list_interactive_synch_r1i1p1f1 | wc -l )
+
+AGGR_TIME = 00:10:00
+DIAGS_TIME = 00:30:00
+CMOR_TIME = 02:30:00
+
+CMOR_FLAGS =
+
+SBATCHFLAGS=-W
+
+MESSAGE = $$(date +%Y-%m-%dT%H:%M:%S): CMIP6 diagnostics and CMOR rewriting ($(SUFFIX:_%=%))
+
+.PHONY: all
+.PRECIOUS: targets/$(EXP_ID).aggr$(SUFFIX).% targets/$(EXP_ID).diags$(SUFFIX).% targets/$(EXP_ID).cmor$(SUFFIX).%
+
+
+
+all:
+	@echo "$(MESSAGE) started"
+	mkdir -vp targets
+	$(MAKE) $(MFLAGS) -f $(MAKEFILE_LIST) $(addprefix targets/$(EXP_ID).$(TARGET_STEP)$(SUFFIX).,$(shell seq 1 $(NUMCHUNKS)))
+	@echo "$(MESSAGE) finished"
+
+targets/$(EXP_ID).aggr$(SUFFIX).%:
+	sbatch $(SBATCHFLAGS) --time=$(AGGR_TIME) --job-name=$(EXP_ID)_runpp_aggr$(SUFFIX) --output=%x_%j.log --comment=$* $(EXP_ID).runpp -s '$(SUFFIX)' -S '$(ARCHIVE_SUFFIX)' -A $(shell sed -n '$(*)'p < cmor_ctl_list_interactive_synch_r1i1p1f1)
+	@touch $@
+
+targets/$(EXP_ID).diags$(SUFFIX).%: targets/$(EXP_ID).aggr$(SUFFIX).%
+	sbatch $(SBATCHFLAGS) --time=$(DIAGS_TIME) --job-name=$(EXP_ID)_runpp_diag$(SUFFIX) --output=%x_%j.log --comment=$* $(EXP_ID).runpp -s '$(SUFFIX)' -S '$(ARCHIVE_SUFFIX)' -d $(shell sed -n '$(*)'p < cmor_ctl_list_interactive_synch_r1i1p1f1)
+	@touch $@
+
+targets/$(EXP_ID).cmor$(SUFFIX).%: targets/$(EXP_ID).diags$(SUFFIX).%
+	sbatch $(SBATCHFLAGS) --time=$(CMOR_TIME) --job-name=$(EXP_ID)_runpp_cmor$(SUFFIX) --output=%x_%j.log --comment=$* $(EXP_ID).runpp -s '$(SUFFIX)' -S '$(ARCHIVE_SUFFIX)' -c $(CMOR_FLAGS) $(shell sed -n '$(*)'p < cmor_ctl_list_interactive_synch_r1i1p1f1)
+	@touch $@
+

cmor/mpiesm/scripts/transient-deglaciation-interactive_r1i1p1f1-CR_cdocmorinfo

+#
+# experiment info:
+#
+_CONTROLLED_VOCABULARY_FILE=PalMod2_CV.json
+_FORMULA_VAR_FILE=PalMod2_formula_terms.json
+_AXIS_ENTRY_FILE=PalMod2_coordinate.json
+CONVENTIONS="CF-1.7 PalMod-2.0"
+TITLE="MPI-ESM1-2 output prepared for PalMod2"
+_history_template="%s ; CMOR rewrote data to be consistent with <activity_id>, <Conventions> and CF standards."
+
+EXPERIMENT_ID=transient-deglaciation-interactive
+EXPERIMENT="synchronously coupled transient deglaciation with interactive ice sheets and solid earth"
+#Specify VARIANT_LABEL explicitly or realization_index, physics_index, initialization_index and forcing_index:
+VARIANT_LABEL=r1i1p4f1
+REALIZATION_INDEX=1
+INITIALIZATION_INDEX=1
+PHYSICS_INDEX=4
+FORCING_INDEX=1
+VARIANT_INFO="Note, forcing includes volcanoes. The data are from a synchronously coupled model simulation of the last deglaciation with the MPI-ESM1.2-CR-mPISM-VILMA setup, hence, including interactive ice sheets and solid earth components."
+ACTIVITY_ID=PalMod2
+#MIP_ERA=PalMod2                   #ONLY CMIP6  
+PROJECT_ID=PalMod2
+REQUIRED_TIME_UNITS="days since 1-1-1 00:00:00"
+#FURTHER_INFO_URL="https://furtherinfo.es-doc.org/<mip_era>.<institution_id>.<source_id>.<experiment_id>.<sub_experiment_id>.<variant_label>
+#Branch Info: If needed use the following 2 attributes to define the branch time
+#  in Parent_Time_Units and Required_Time_Units (=child)
+#  else use BRANCH_DATES to give the dates in YYYYMMDD,YYYYMMDD format
+#BRANCH_TIME_IN_PARENT=
+#BRANCH_TIME_IN_CHILD=
+#BRANCH_DATES=19000101,18500101 
+#BRANCH_METHOD="standard"
+#PARENT_MIP_ERA=none              #ONLY CMIP6
+#PARENT_ACTIVITY_ID=none
+#PARENT_EXPERIMENT=none
+#cmip6-spinup-HR
+#PARENT_EXPERIMENT_ID=none
+#PARENT_SOURCE_ID=none
+#PARENT_TIME_UNITS="days since 1850-1-1 00:00:00"
+#PARENT_VARIANT_LABEL=none
+SUB_EXPERIMENT_ID=none
+SUB_EXPERIMENT=none
+#
+#model info:
+#
+SOURCE_ID=MPI-ESM1-2-CR
+#MODEL_ID=MPI-ESM1-2-CR
+REFERENCES="Kapsch, M.-L., Mikolajewicz, U., Ziemen, F., & Schannwell, C. (2022). Ocean response in transient simulations of the last deglaciation dominated by underlying ice-sheet reconstruction and method of meltwater distribution. Geophysical Research Letters, 49, e2021GL096767. https://doi.org/10.1029/2021GL096767\nMPI-ESM: Mauritsen, T. et al. (2019), Developments in the MPI‐M Earth System Model version 1.2 (MPI‐ESM1.2) and Its Response to Increasing CO2, J. Adv. Model. Earth Syst.,11, 998-1038, doi:10.1029/2018MS001400,\nMueller, W.A. et al. (2018): A high‐resolution version of the Max Planck Institute Earth System Model MPI‐ESM1.2‐HR. J. Adv. Model. EarthSyst.,10,1383–1413, doi:10.1029/2017MS001217"
+SOURCE="MPI-ESM1.2-CR (2017): \naerosol: none, prescribed Kinne (2010)\natmos: ECHAM6.3 (spectral T31; 96 x 48 longitude/latitude; 31 levels; top level 10 hPa)\natmosChem: none\nland: JSBACH3.20\nlandIce: none/prescribed\nocean: MPIOM1.63 (bipolar GR3.0, approximately 300km; 122 x 101 longitude/latitude; 40 levels; top grid cell 0-15 m)\nocnBgchem: none\nseaIce: unnamed (thermodynamic (Semtner zero-layer) dynamic (Hibler 79) sea ice model)\nsolidLand: none/prescribed"
+SOURCE_TYPE="AOGCM ISM SLM"
+#CALENDAR=proleptic_gregorian
+#MAPPING_TABLE_DIR=cmip6_mapping_tables
+#MAPPING_TABLE=MPIESM1_CMIP6.txt
+#GRID_FILE_DIR=__GRID_FILE_DIR
+#GRID_FILE=__GRID_FILE
+GRID=gn
+GRID_LABEL=gn
+#NOMINAL_RESOLUTION read from external file
+#For MPIOM/HAMOCC CR / GR30
+#NOMINAL_RESOLUTION="500 km"
+#For ECHAM6/JSBACH CR / T31
+#NOMINAL_RESOLUTION="500 km"
+CHAR_AXIS_TYPELICE="ice sheet","ice shelf","ocean","ice-free land"
+CHAR_AXIS_VEGTYPE=bare_land,glacier,tropical_evergreen_trees,tropical_deciduous_trees,extra-tropical_evergreen_trees,extra-tropical_deciduous_trees,raingreen_shrubs,deciduous_shrubs,C3_grass,C4_grass,C3_pasture,C4_pasture,C3_crops,C4_crops
+CHAR_AXIS_SOILPOOLS=acid-soluble_below_ground_leaf_litter,acid-soluble_below_ground_woody_litter,water-soluble_below_ground_leaf_litter,water-soluble_below_ground_woody_litter,ethanol-soluble_below_ground_leaf_litter,ethanol-soluble_below_ground_woody_litter,non-soluble_below_ground_leaf_litter,non-soluble_below_ground_woody_litter,humus_from_leaf_litter,humus_from_woody_litter
+CHAR_AXIS_LANDUSE=primary_and_secondary_land,crops,pastures,urban
+CHAR_AXIS_BASIN=global_ocean,atlantic_arctic_ocean,indian_pacific_ocean
+CHAR_AXIS_OLINE=barents_opening,bering_strait,canadian_archipelago,denmark_strait,drake_passage,english_channel,pacific_equatorial_undercurrent,faroe_scotland_channel,florida_bahamas_strait,fram_strait,iceland_faroe_channel,indonesian_throughflow,mozambique_channel,taiwan_luzon_straits,windward_passage
+CHAR_AXIS_SILINE=barents_opening,bering_strait,canadian_archipelago,fram_strait
+#spectband for the 3 aeropt variables
+CHAR_AXIS_SPECTBAND_aeroptbnd=1818182
+CHAR_AXIS_SPECTBAND_aeroptbnd_BOUNDS=2262443,1600000
+CHAR_AXIS_SPECTBAND_aeroptbnd_UNITS="m-1"
+CHAR_AXIS_SPECTBAND_aerssabnd=1818182
+CHAR_AXIS_SPECTBAND_aerssabnd_BOUNDS=2262443,1600000
+CHAR_AXIS_SPECTBAND_aerssabnd_UNITS="m-1"
+CHAR_AXIS_SPECTBAND_aerasymbnd=1818182
+CHAR_AXIS_SPECTBAND_aerasymbnd_BOUNDS=2262443,1600000
+CHAR_AXIS_SPECTBAND_aerasymbnd_UNITS="m-1"
+# 2d-spectband for the albedos
+CHAR_AXIS_SPECTBAND_albdirbnd=3225689,766690
+CHAR_AXIS_SPECTBAND_albdirbnd_BOUNDS=5000000,1451379,1451379,82001
+CHAR_AXIS_SPECTBAND_albdirbnd_UNITS="m-1"
+CHAR_AXIS_SPECTBAND_albdiffbnd=3225689,766690
+CHAR_AXIS_SPECTBAND_albdiffbnd_BOUNDS=5000000,1451379,1451379,82001
+CHAR_AXIS_SPECTBAND_albdiffbnd_UNITS="m-1"
+CHAR_AXIS_SPECTBAND_solbnd=1818182
+CHAR_AXIS_SPECTBAND_solbnd_BOUNDS=2262443,1600000
+CHAR_AXIS_SPECTBAND_solbnd_UNITS="m-1"
+#T_AXIS="cmip" causes the time axis to be rewritten according to the requested time stamps
+T_AXIS="cmip"
+#OUTPUT_MODE="r"
+OUTPUT_MODE="a"
+MAX_SIZE=0
+SAVE_CHUNK="n"
+#For files without time axis, if one is requested:
+#firsttimeval=1 (1850-01-02 00:00:00 wenn days since 1850-01-01 00:00:00)
+FIRSTTIMEVAL=1
+#
+# institution and contact info:
+#
+# none of these can be set in the command line
+#
+DEFLATE_LEVEL=1
+CONTACT=palmod2-mpi-esm@dkrz.de
+#
+# MPI-M
+#
+INSTITUTION_ID=MPI-M
+INSTITUTION="Max Planck Institute for Meteorology, Hamburg 20146, Germany"
+LICENSE="PalMod2 model data produced by MPI-M is licensed under a Creative Commons Attribution ShareAlike 4.0 International License (https://creativecommons.org/licenses). The data producers and data providers make no warranty, either express or implied, including, but not limited to, warranties of merchantability and fitness for a particular purpose. All liabilities arising from the supply of the information (including any liability arising in negligence) are excluded to the fullest extent permitted by law."
+#MIP_TABLE_DIR="/pool/data/CMIP6/cmip6-cmor-tables/Tables/"
+MIP_TABLE_DIR="/work/bm0021/PalMod2/cmor_tables/"