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source: CONFIG/UNIFORM/v6/IPSLCM6/GENERAL/DRIVER/lmdz.driver @ 2911

Last change on this file since 2911 was 2911, checked in by jgipsl, 8 years ago
pmagic can now be set in lmdz.card. The default value (always 0.0) is used for all cases when pmagic is not set in lmdz.card.
File size: 25.4 KB

Rev	Line
[396]	1	#!/bin/ksh
	2	#-----------------------------------------------------------------
	3	function ATM_Initialize
	4	{
	5	IGCM_debug_PushStack "ATM_Initialize"
	6
[671]	7	RESOL_ATM=$( echo $RESOL \| awk "-Fx" '{print $2}' \| awk "-F-" '{print $1}')
[396]	8
[2275]	9	[ -f ${SUBMIT_DIR}/../.resol ] && eval $(grep RESOL_ATM_3D ${SUBMIT_DIR}/../.resol) \|\| RESOL_ATM_3D=96x95x39
[396]	10
[659]	11	RESOL_ATM_Z=$( echo ${RESOL_ATM_3D} \| awk "-Fx" '{print $3}' )
[1802]	12	RESOL_ATM_X=$( echo ${RESOL_ATM_3D} \| awk "-Fx" '{print $1}' )
	13	RESOL_ATM_Y=$( echo ${RESOL_ATM_3D} \| awk "-Fx" '{print $2}' )
	14	RESOL_ATM_XY="${RESOL_ATM_X}x${RESOL_ATM_Y}"
[649]	15
[1541]	16	##- LMDZ physics version
	17	## Read LMDZ_Physics option in lmdz.card, if not present take default value AP (old physics)
	18	if [ ! X${lmdz_UserChoices_LMDZ_Physics} = X ] ; then
	19	LMDZ_Physics=${lmdz_UserChoices_LMDZ_Physics}
	20	else
	21	LMDZ_Physics=AP
	22	fi
	23	echo LMDZ physics version : ${LMDZ_Physics}
	24
[1643]	25	##- Create_etat0_limit version
[1782]	26	## Define variable CREATE only if it is set in lmdz.card section UserChoices.
	27	## This variable is only used in lmdz.card to choose input files.
	28	if [ ! X${lmdz_UserChoices_CREATE} = X ] ; then
	29	IGCM_card_DefineVariableFromOption ${SUBMIT_DIR}/COMP/lmdz.card UserChoices CREATE
	30	CREATE=${lmdz_UserChoices_CREATE}
	31	echo create_etat0_limit version : ${CREATE}
	32	fi
[1643]	33
[1782]	34
[1550]	35	## - LMDZ choice of config.def file
	36	## ConfType must be set in lmdz.card
	37	ConfType=${lmdz_UserChoices_ConfType}
[1541]	38
[1550]	39	##- LMDZ output level, to be set in lmdz.card
	40	if [ X${lmdz_UserChoices_OutLevel} = X ] ; then
	41	# OutLevel is not set. Take default value low.
	42	OutLevel=low
	43	else
	44	OutLevel=${lmdz_UserChoices_OutLevel}
	45	fi
	46
[1539]	47	##-- Output frequency purpose ....
[396]	48	##-- Initialisation ....
[2758]	49	ok_mensuel=.FALSE.
	50	ok_journe=.FALSE.
	51	ok_hf=.FALSE.
	52	ok_hf3h=.FALSE.
	53	ok_hf3hm=.FALSE.
	54	ok_stn=.FALSE.
[396]	55
	56	case ${config_UserChoices_PeriodLength} in
[2758]	57	1Y\|1y\|1M\|1m) ok_mensuel=.TRUE. ;;
	58	5D\|5d\|1D\|1d) ok_journe=.TRUE. ;;
[396]	59	esac
	60
	61	for frequency in ${config_ATM_WriteFrequency} ; do
	62	case ${frequency} in
[2758]	63	1M\|1m) ok_mensuel=.TRUE. ;;
[396]	64	esac
	65	case ${frequency} in
[2758]	66	5D\|5d\|1D\|1d) ok_journe=.TRUE. ;;
[1539]	67	esac
	68	case ${frequency} in
[2758]	69	HF\|hf) ok_hf=.TRUE. ;;
[396]	70	esac
[1539]	71	case ${frequency} in
[2758]	72	HF3h\|hf3h) ok_hf3h=.TRUE. ;;
[1539]	73	esac
	74	case ${frequency} in
[2758]	75	HF3hm\|hf3hm) ok_hf3hm=.TRUE. ;;
[1539]	76	esac
	77	case ${frequency} in
[2758]	78	STN\|stn) ok_stn=.TRUE. ;;
[1539]	79	esac
[396]	80	done
	81
[1783]	82	## Read LMDZ_COSP_OK in lmdz.card
[2758]	83	if [ X${lmdz_UserChoices_LMDZ_COSP_OK} = Xy ] ; then
	84	## LMDZ_COSP_OK=y, now read all other COSP variables
	85	## Read LMDZ_COSP_monthly in lmdz.card
	86	if [ X${lmdz_UserChoices_LMDZ_COSP_monthly} = Xy ] ; then
	87	LMDZ_COSP_monthly=.TRUE.
	88	else
	89	LMDZ_COSP_monthly=.FALSE.
	90	fi
	91	## Read LMDZ_COSP_daily in lmdz.card
	92	if [ X${lmdz_UserChoices_LMDZ_COSP_daily} = Xy ] ; then
	93	LMDZ_COSP_daily=.TRUE.
	94	else
	95	LMDZ_COSP_daily=.FALSE.
	96	fi
	97	## Read LMDZ_COSP_hf in lmdz.card
	98	if [ X${lmdz_UserChoices_LMDZ_COSP_hf} = Xy ] ; then
	99	LMDZ_COSP_hf=.TRUE.
	100	else
	101	LMDZ_COSP_hf=.FALSE.
	102	fi
[1783]	103	else
[2758]	104	# LMDZ_COSP_OK=n : All cosp output are deactivated
	105	LMDZ_COSP_monthly=.FALSE.
	106	LMDZ_COSP_daily=.FALSE.
	107	LMDZ_COSP_hf=.FALSE.
	108	fi
[1000]	109
[1783]	110	## Read LMDZ_NMC_monthly in lmdz.card
[2758]	111	if [ X${lmdz_UserChoices_LMDZ_NMC_monthly} = Xy ] ; then
	112	LMDZ_NMC_monthly=.TRUE.
[1783]	113	else
[2758]	114	LMDZ_NMC_monthly=.FALSE.
[1783]	115	fi
[2758]	116
[1783]	117	## Read LMDZ_NMC_daily in lmdz.card
[2758]	118	if [ X${lmdz_UserChoices_LMDZ_NMC_daily} = Xy ] ; then
	119	LMDZ_NMC_daily=.TRUE.
[1783]	120	else
[2758]	121	LMDZ_NMC_daily=.FALSE.
[1783]	122	fi
	123
	124	## Read LMDZ_NMC_hf in lmdz.card
[2758]	125	if [ X${lmdz_UserChoices_LMDZ_NMC_hf} = Xy ] ; then
	126	LMDZ_NMC_hf=.TRUE.
[1783]	127	else
[2758]	128	LMDZ_NMC_hf=.FALSE.
[1783]	129	fi
[2758]	130
[1783]	131
[396]	132	IGCM_debug_PopStack "ATM_Initialize"
	133	}
	134
	135	#-----------------------------------------------------------------
	136	function ATM_Update
	137	{
	138	IGCM_debug_PushStack "ATM_Update"
	139
[1535]	140	##-- GHG forcing :
[2321]	141	## If forcing file exist in run directory, read values for the current year
	142	## and set in config.def. If not use the default value set in config.def
[2343]	143
	144	# Read value for solaire from file SOLARANDVOLCANOES.txt. If file not existing, take DEFAULT value from file.
[1535]	145	if [ -f SOLARANDVOLCANOES.txt ] ; then
[2343]	146	value=`grep Annee_${year} SOLARANDVOLCANOES.txt \| awk -F= '{print $2}'`
	147	if [ X"${value}" = X ] ; then
[2321]	148	# The grep returned empty variable, stop execution
	149	IGCM_debug_Exit "The file SOLARANDVOLCANOES.txt do not contain the current year."
	150	IGCM_debug_Verif_Exit
	151	fi
[1690]	152	else
[2343]	153	value=DEFAULT
[1535]	154	fi
[2343]	155	IGCM_comp_modifyDefFile nonblocker config.def solaire $value
[2321]	156
[2343]	157
	158	# Read value for co2_ppm from file CO2.txt. If file not existing, take DEFAULT value from file.
[1535]	159	if [ -f CO2.txt ] ; then
[2343]	160	value=`grep Annee_${year} CO2.txt \| awk -F= '{print $2}'`
	161	if [ X"${value}" = X ] ; then
[2321]	162	# The grep returned empty variable, stop execution
	163	IGCM_debug_Exit "The file CO2.txt do not contain the current year."
	164	IGCM_debug_Verif_Exit
	165	fi
[1690]	166	else
[2343]	167	value=DEFAULT
[1535]	168	fi
[2343]	169	IGCM_comp_modifyDefFile nonblocker config.def co2_ppm $value
[1690]	170
[2343]	171
	172	# Read value for CH4_ppb from file CH4.txt. If file not existing, take DEFAULT value from file.
[1535]	173	if [ -f CH4.txt ] ; then
[2343]	174	value=`grep Annee_${year} CH4.txt \| awk -F= '{print $2}'`
	175	if [ X"${value}" = X ] ; then
[2321]	176	# The grep returned empty variable, stop execution
	177	IGCM_debug_Exit "The file CH4.txt do not contain the current year."
	178	IGCM_debug_Verif_Exit
	179	fi
[2343]	180	else
	181	value=DEFAULT
[1535]	182	fi
[2343]	183	IGCM_comp_modifyDefFile nonblocker config.def CH4_ppb $value
[2321]	184
[2343]	185
	186	# Read value for N2O_ppb from file N2O.txt. If file not existing, take DEFAULT value from file.
[1535]	187	if [ -f N2O.txt ] ; then
[2343]	188	value=`grep Annee_${year} N2O.txt \| awk -F= '{print $2}'`
	189	if [ X"${value}" = X ] ; then
[2321]	190	# The grep returned empty variable, stop execution
	191	IGCM_debug_Exit "The file N2O.txt do not contain the current year."
	192	IGCM_debug_Verif_Exit
	193	fi
[1690]	194	else
[2343]	195	value=DEFAULT
[1535]	196	fi
[2343]	197	IGCM_comp_modifyDefFile nonblocker config.def N2O_ppb $value
[2321]	198
[2343]	199	# Read value for CFC11_ppt from file CFC11.txt. If file not existing, take DEFAULT value from file.
[1535]	200	if [ -f CFC11.txt ] ; then
[2343]	201	value=`grep Annee_${year} CFC11.txt \| awk -F= '{print $2}'`
	202	if [ X"${value}" = X ] ; then
[2321]	203	# The grep returned empty variable, stop execution
	204	IGCM_debug_Exit "The file CFC11.txt do not contain the current year."
	205	IGCM_debug_Verif_Exit
	206	fi
[1690]	207	else
[2343]	208	value=DEFAULT
[1535]	209	fi
[2343]	210	IGCM_comp_modifyDefFile nonblocker config.def CFC11_ppt $value
[2321]	211
[2343]	212
	213	# Read value for CFC12_ppt from file CFC12.txt. If file not existing, take DEFAULT value from file.
[1535]	214	if [ -f CFC12.txt ] ; then
[2343]	215	value=`grep Annee_${year} CFC12.txt \| awk -F= '{print $2}'`
	216	if [ X"${value}" = X ] ; then
[2321]	217	# The grep returned empty variable, stop execution
	218	IGCM_debug_Exit "The file CFC12.txt do not contain the current year."
	219	IGCM_debug_Verif_Exit
	220	fi
[1690]	221	else
[2343]	222	value=DEFAULT
[1535]	223	fi
[2343]	224	IGCM_comp_modifyDefFile nonblocker config.def CFC12_ppt $value
[1535]	225
[2321]	226
[2343]	227	## Coupling Time Step : Take value of FreqCoupling set in oasis.card or if it is not set, take default value 86400
	228	LMDZ_t_coupl=${oasis_UserChoices_FreqCoupling:-86400}
[2275]	229	IGCM_debug_Print 3 "LMDZ_t_coupl " ${LMDZ_t_coupl}
[2343]	230	IGCM_comp_modifyDefFile nonblocker config.def t_coupl ${LMDZ_t_coupl}
[1780]	231
	232	##-- Add special treatement for CARBON CYCLE
[1546]	233	if [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"control" ] \|\| [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"historical" ] ; then
[1780]	234	ATM_Carbon_Update
	235	fi
[1537]	236
	237
[1538]	238	##-- Set LMDZ_COSP_daily1979=y in section UserChoices in lmdz.card to activate
	239	## COSP daily output for years 1979 and later (mandatory for historical CMIP5 run).
	240	if ([ X"${lmdz_UserChoices_LMDZ_COSP_daily1979}" = X"y" ] && [ ${year} -ge 1979 ]) ; then
[2758]	241	LMDZ_COSP_daily=.TRUE.
[1538]	242	fi
[1537]	243
[2758]	244	## Modifiy
	245	IGCM_comp_modifyXmlFile nonblocker file_def_histmth_lmdz.xml histmth enabled ${ok_mensuel}
	246
	247	IGCM_comp_modifyXmlFile nonblocker file_def_histday_lmdz.xml histday enabled ${ok_journe}
	248
	249	if [ X${OutLevel} = Xlow ] \|\| [ X${OutLevel} = Xmedium ] ; then
	250	IGCM_comp_modifyXmlFile nonblocker file_def_histday_lmdz.xml histday output_level 2
	251	else
	252	IGCM_comp_modifyXmlFile nonblocker file_def_histday_lmdz.xml histday output_level 5
[2582]	253	fi
[2758]	254
	255	IGCM_comp_modifyXmlFile nonblocker file_def_histhf_lmdz.xml histhf enabled ${ok_hf}
	256
	257	if [ X${OutLevel} = Xlow ] ; then
	258	IGCM_comp_modifyXmlFile nonblocker file_def_histhf_lmdz.xml histhf output_level 5
	259	elif [ X${OutLevel} = Xmedium ] ; then
	260	IGCM_comp_modifyXmlFile nonblocker file_def_histhf_lmdz.xml histhf output_level 6
	261	elif [ X${OutLevel} = Xhigh ] ; then
	262	IGCM_comp_modifyXmlFile nonblocker file_def_histhf_lmdz.xml histhf output_level 7
[2582]	263	fi
[2758]	264
	265	IGCM_comp_modifyXmlFile nonblocker file_def_histhf3h_lmdz.xml histhf3h enabled ${ok_hf3h}
	266	IGCM_comp_modifyXmlFile nonblocker file_def_histhf3hm_lmdz.xml histhf3hm enabled ${ok_hf3hm}
[2300]	267
[2758]	268	IGCM_comp_modifyXmlFile nonblocker file_def_histstn_lmdz.xml histstn enabled ${ok_stn}
	269
	270	IGCM_comp_modifyXmlFile nonblocker file_def_histmthNMC_lmdz.xml histmthNMC enabled ${LMDZ_NMC_monthly}
	271	IGCM_comp_modifyXmlFile nonblocker file_def_histdayNMC_lmdz.xml histdayNMC enabled ${LMDZ_NMC_daily}
	272	IGCM_comp_modifyXmlFile nonblocker file_def_histhfNMC_lmdz.xml histhfNMC enabled ${LMDZ_NMC_hf}
	273
	274	IGCM_comp_modifyXmlFile nonblocker file_def_histmthCOSP_lmdz.xml histmthCOSP enabled ${LMDZ_COSP_monthly}
	275	IGCM_comp_modifyXmlFile nonblocker file_def_histdayCOSP_lmdz.xml histdayCOSP enabled ${LMDZ_COSP_daily}
	276	IGCM_comp_modifyXmlFile nonblocker file_def_histhfCOSP_lmdz.xml histhfCOSP enabled ${LMDZ_COSP_hf}
	277
	278
[1544]	279	## gcm.def parameters :
[2343]	280	# Modification of variable iphysiq depending on the physics
[2270]	281	if [ X${LMDZ_Physics} = X"AP" ] ; then
[2470]	282	if [ ${RESOL_ATM_3D} = 96x95x39 ]; then
	283	value=10
	284	elif [ ${RESOL_ATM_3D} = 144x142x39 ]; then
	285	value=15
	286	else
	287	IGCM_debug_Print 1 "LMDZ_Physics=${LMDZ_Physics} has not been tested for the current resolution RESOL_ATM_3D=${RESOL_ATM_3D}. "
	288	IGCM_debug_Print 1 "iphysiq must be defined for the current combination of resolution and phyiscs package"
	289	IGCM_debug_Exit "You need to add a special case in lmdz.driver to handle the above combination."
	290	fi
	291	elif [ X${LMDZ_Physics} = X"NPv3.1" ] ; then
	292	if [ ${RESOL_ATM_3D} = 96x95x39 ] ; then
	293	value=5
	294	elif [ ${RESOL_ATM_3D} = 144x142x39 ] ; then
	295	value=5
	296	else
	297	IGCM_debug_Print 1 "LMDZ_Physics=${LMDZ_Physics} has not been tested for the current resolution RESOL_ATM_3D=${RESOL_ATM_3D}. "
	298	IGCM_debug_Print 1 "iphysiq must be defined for the current combination of resolution and phyiscs package"
	299	IGCM_debug_Exit "You need to add a special case in lmdz.driver to handle the above combination."
	300	fi
	301	elif [ X${LMDZ_Physics} = X"NPv3.2" ] ; then
	302	if [ ${RESOL_ATM_3D} = 96x95x39 ] ; then
	303	value=5
	304	elif [ ${RESOL_ATM_3D} = 144x142x39 ] ; then
	305	value=5
	306	elif [ ${RESOL_ATM_3D} = 128x118x39 ] ; then
	307	value=15
	308	else
	309	IGCM_debug_Print 1 "LMDZ_Physics=${LMDZ_Physics} has not been tested for the current resolution RESOL_ATM_3D=${RESOL_ATM_3D}. "
	310	IGCM_debug_Print 1 "iphysiq must be defined for the current combination of resolution and phyiscs package"
	311	IGCM_debug_Exit "You need to add a special case in lmdz.driver to handle the above combination."
	312	fi
[1690]	313	else
[2470]	314	# Take default value set in gcm.def
[2343]	315	value=DEFAULT
[1544]	316	fi
[2343]	317	IGCM_comp_modifyDefFile nonblocker gcm.def iphysiq $value
[2470]	318
[396]	319
[911]	320	## run.def parameters
[2758]	321
	322
	323	##-- Remise ou non a zero de la date initiale de LMDZ pour le fichier run.def
	324	if [ ${CumulPeriod} -eq 1 ] ; then
	325	IGCM_comp_modifyDefFile blocker run.def raz_date 1
	326	else
	327	IGCM_comp_modifyDefFile blocker run.def raz_date 0
	328	fi
	329
	330	##-- Calendar type for LMDZ and create_etat0_limit
	331	case ${config_UserChoices_CalendarType} in
	332	leap\|gregorian)
	333	IGCM_comp_modifyDefFile blocker run.def calend gregorian ;;
	334	noleap)
	335	IGCM_comp_modifyDefFile blocker run.def calend earth_365d ;;
	336	360d)
	337	IGCM_comp_modifyDefFile blocker run.def calend earth_360d ;;
	338	*)
	339	IGCM_comp_modifyDefFile blocker run.def calend earth_360d ;;
	340	esac
	341
[2582]	342	IGCM_comp_modifyDefFile blocker run.def dayref ${InitDay}
	343	IGCM_comp_modifyDefFile blocker run.def nday ${PeriodLengthInDays}
[396]	344
[1804]	345	# Set anneeref different for gcm and ce0l
	346	# Test if executable create_etat0_limit is present and lmdz.x is not present
	347	if [ -f create_etat0_limit* ] \|\| [ -f ce0l* ] && [ ! -f lmdz.x ] ; then
	348	# for case ce0l : always take current year
[2343]	349	IGCM_comp_modifyDefFile blocker run.def anneeref ${year}
[2480]	350
	351	# Temporary, set use_filtre_fft=n because we now use dyn3d for ce0l version where fft is not implemented.
	352	# In more recent versions of LMDZ, this will not be needed.
	353	IGCM_comp_modifyDefFile force run.def use_filtre_fft n
[1804]	354	else
	355	# for case gcm : take first year of simulation
[2343]	356	IGCM_comp_modifyDefFile blocker run.def anneeref ${InitYear}
[1804]	357	fi
[1643]	358
[1650]	359	## Determine from the variable ListOfComponents in config.card coupling to external models
	360	## and set corresponding parameters in run.def
	361	echo ListOfComponents now running : ${config_ListOfComponents[*]}
	362
	363	if [ X${config_ListOfComponents_SRF} = Xorchidee ] ; then
	364	echo "Activate ORCHIDEE, set VEGET=y in run.def"
[2343]	365	IGCM_comp_modifyDefFile blocker run.def VEGET y
[1650]	366	else
	367	echo "No ORCHIDEE, set VEGET=n in run.def"
[2343]	368	IGCM_comp_modifyDefFile blocker run.def VEGET n
[1650]	369	fi
	370
	371	if [ X${config_ListOfComponents_CPL} = Xoasis ] ; then
	372	echo "Activate coupling to ocean, set type_ocean=couple in run.def"
[2343]	373	IGCM_comp_modifyDefFile blocker run.def type_ocean couple
[1650]	374	else
	375	echo "LMDZ is running in forced mode without ocean model, set type_ocean=force in run.def"
[2343]	376	IGCM_comp_modifyDefFile blocker run.def type_ocean force
[1650]	377	fi
	378
	379	if [ X${config_ListOfComponents_CHM} = Xinca ] ; then
	380	echo "Activate coupling to INCA, set type_trac=inca in run.def"
[2343]	381	IGCM_comp_modifyDefFile blocker run.def type_trac inca
[1650]	382	elif [ X${config_ListOfComponents_CHM} = Xreprobus ] ; then
	383	echo "Activate coupling to REPROBUS, set type_trac=repr in run.def"
[2343]	384	IGCM_comp_modifyDefFile blocker run.def type_trac repr
	385	IGCM_comp_modifyDefFile blocker run.def config_inca none
[1650]	386	else
	387	echo "No coupling to chemistry model, set type_trac=lmdz in run.def"
[2343]	388	IGCM_comp_modifyDefFile blocker run.def type_trac lmdz
	389	IGCM_comp_modifyDefFile blocker run.def config_inca none
[1650]	390	fi
	391
	392
[2015]	393	# config.def : Activate direct radiative effect if ok_ade=y
	394	if [ ! X${lmdz_UserChoices_ok_ade} = X ]; then
[2343]	395	IGCM_comp_modifyDefFile nonblocker config.def ok_ade ${lmdz_UserChoices_ok_ade}
[2015]	396	else
[2343]	397	IGCM_comp_modifyDefFile nonblocker config.def ok_ade n
[2015]	398	fi
	399
	400	# config.def : Activate indirect radiative effect if ok_aie=y
	401	if [ ! X${lmdz_UserChoices_ok_aie} = X ]; then
[2343]	402	IGCM_comp_modifyDefFile nonblocker config.def ok_aie ${lmdz_UserChoices_ok_aie}
[2015]	403	else
[2343]	404	IGCM_comp_modifyDefFile nonblocker config.def ok_aie n
[2015]	405	fi
[1816]	406
[2015]	407	# config.def : Activate online aerosol coupled model if aerosol_couple=y
	408	if [ ! X${lmdz_UserChoices_aerosol_couple} = X ]; then
[2343]	409	IGCM_comp_modifyDefFile nonblocker config.def aerosol_couple ${lmdz_UserChoices_aerosol_couple}
[1686]	410	else
[2343]	411	IGCM_comp_modifyDefFile nonblocker config.def aerosol_couple n
[2015]	412	fi
[1686]	413
[2015]	414	# config.def : Activate reading of ozone in climatology if read_climoz=2
	415	if [ ! X${lmdz_UserChoices_read_climoz} = X ]; then
[2343]	416	IGCM_comp_modifyDefFile nonblocker config.def read_climoz ${lmdz_UserChoices_read_climoz}
[2015]	417	else
[2343]	418	IGCM_comp_modifyDefFile nonblocker config.def read_climoz 0
[2015]	419	fi
	420
	421	# config.def : Choose aerosol use in radiative effect
	422	# type of coupled aerosol =1 (default) =2 => bc only =3 => pom only =4 => seasalt only
	423	# =5 => dust only =6 => all aerosol
	424	if [ ! X${lmdz_UserChoices_flag_aerosol} = X ]; then
[2343]	425	IGCM_comp_modifyDefFile nonblocker config.def flag_aerosol ${lmdz_UserChoices_flag_aerosol}
[2015]	426	else
[2343]	427	IGCM_comp_modifyDefFile nonblocker config.def flag_aerosol 0
[2015]	428	fi
	429
	430	# config.def : Activate calcul of Cloud droplet number concentration if ok_cdnc=y
	431	if [ ! X${lmdz_UserChoices_ok_cdnc} = X ]; then
[2343]	432	IGCM_comp_modifyDefFile nonblocker config.def ok_cdnc ${lmdz_UserChoices_ok_cdnc}
[2015]	433	else
[2343]	434	IGCM_comp_modifyDefFile nonblocker config.def ok_cdnc n
[2015]	435	fi
	436
[2876]	437	# config.def : Activate COSP
	438	if [ ! X${lmdz_UserChoices_LMDZ_COSP_OK} = X ]; then
	439	IGCM_comp_modifyDefFile nonblocker config.def ok_cosp ${lmdz_UserChoices_LMDZ_COSP_OK}
	440	else
	441	IGCM_comp_modifyDefFile nonblocker config.def ok_cosp n
	442	fi
	443
[2911]	444	# config.def : Modify parameter pmagic if it is set in lmdz.card
	445	if [ ! X${lmdz_UserChoices_pmagic} = X ]; then
	446	IGCM_comp_modifyDefFile nonblocker config.def pmagic ${lmdz_UserChoices_pmagic}
	447	else
	448	# Take default value set in config.def
	449	IGCM_comp_modifyDefFile nonblocker config.def pmagic DEFAULT
	450	fi
[2876]	451
[1690]	452	# guide.def : Activate nudging if ok_guide=y set in lmdz.card
[1643]	453	if [ ! X${lmdz_UserChoices_ok_guide} = X ] ; then
[2343]	454	IGCM_comp_modifyDefFile nonblocker guide.def ok_guide ${lmdz_UserChoices_ok_guide}
[1690]	455	else
[2343]	456	IGCM_comp_modifyDefFile nonblocker guide.def ok_guide n
[1643]	457	fi
	458
[902]	459	## Read ByPass_hgardfou_teta option in lmdz.card --> divide teta* by 2 if [ $ByPass_hgardfou_teta = 1 ]
[1172]	460	ByPass_hgardfou_teta=${lmdz_UserChoices_ByPass_hgardfou_teta}
[1688]	461	if [ X"${ByPass_hgardfou_teta}" = X"y" ] ; then
[396]	462	awk '{ if ($0 ~ /^teta.*=/) {split($0,a,"=") ; print a[1]"="a[2]/2"."} else print $0}' gcm.def > gcm.def.tmp
	463	IGCM_sys_Mv gcm.def.tmp gcm.def
	464	echo
	465	IGCM_debug_Print 1 "ByPass_hgardfou_teta : ^teta*/2 in gcm.def"
	466	echo
	467	cat gcm.def
	468	ByPass_hgardfou_teta=n
[902]	469	IGCM_card_WriteOption ${SUBMIT_DIR}/COMP/lmdz.card UserChoices ByPass_hgardfou_teta "${ByPass_hgardfou_teta}"
[396]	470	fi
	471
[902]	472	## Read ByPass_hgardfou_mats option in lmdz.card --> purmats=y 2 if [ $ByPass_hgardfou_mats = 1 ]
[1172]	473	ByPass_hgardfou_mats=${lmdz_UserChoices_ByPass_hgardfou_mats}
[1688]	474	if [ X"${ByPass_hgardfou_mats}" = X"y" ] ; then
[396]	475	sed -e "s/^purmats=.*/purmats=y/" gcm.def > gcm.def.tmp
	476	IGCM_sys_Mv gcm.def.tmp gcm.def
	477	echo
	478	IGCM_debug_Print 1 "ByPass_hgardfou_mats : purmats=y in gcm.def"
	479	echo
	480	cat gcm.def
	481	ByPass_hgardfou_mats=n
[902]	482	IGCM_card_WriteOption ${SUBMIT_DIR}/COMP/lmdz.card UserChoices ByPass_hgardfou_mats "${ByPass_hgardfou_mats}"
[396]	483	fi
	484
[2904]	485	# Add include of LMDZ context in iodef.xml
	486	# In iodef.xml add on next line after "COMPONENT CONTEXT"
	487	# <context id="LMDZ" src="./context_lmdz.xml"/>
	488	echo '<context id="LMDZ" src="./context_lmdz.xml"/>' > add.tmp
	489	cp iodef.xml iodef.xml.tmp
	490	sed -e "/COMPONENT CONTEXT/r add.tmp" iodef.xml.tmp > iodef.xml
	491	rm iodef.xml.tmp add.tmp
[2477]	492
[2904]	493	#Long Name as global attribute (if LongName is not empty)
	494	if [ ! "X${config_UserChoices_LongName}" = "X" ] ; then
	495	listfile=$(ls file_def*lmdz.xml)
	496	echo "<variable id=\"LongName\" type=\"string\">${config_UserChoices_LongName}</variable>" > add.tmp
	497	for file in ${listfile}
	498	do
	499	cp ${file} ${file}.tmp
	500	sed -e "/<file id/r add.tmp" \
	501	${file}.tmp > ${file}
	502	rm ${file}.tmp
	503	done
	504	rm add.tmp
[2300]	505	fi
[2904]	506
[396]	507	IGCM_debug_PopStack "ATM_Update"
	508	}
	509
	510	#-----------------------------------
	511	function ATM_Finalize
	512	{
	513	IGCM_debug_PushStack "ATM_Finalize"
	514
[1537]	515	# Add special treatement for CARBON CYCLE
[1546]	516	if [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"control" ] \|\| [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"historical" ] ; then
[1780]	517	ATM_Carbon_Finalize
	518	fi
[1537]	519
[1780]	520	echo FINALIZE ATM !
[1537]	521
[1780]	522	IGCM_debug_PopStack "ATM_Finalize"
	523	}
[1537]	524
	525
	526
[1780]	527	function ATM_Carbon_Update
	528	{
	529	# This fuction will be called only if CARBON_CYCLE is set to control or historical in lmdz.card
[1537]	530
[1780]	531	IGCM_debug_PushStack "ATM_Carbon_Update"
	532
	533	typeset InitPeriodCo2 InitDateBeginCo2 InitDateEndCo2
	534	typeset CO2SBG CO2MBG CO2LU CO2_ppm CO2_ppm_prec fCO2_ff
	535	typeset PathCO2log
	536	typeset PreviousLinelog LastPeriodDateBegin LastPeriodDateEnd LastDatesPeriod LastPREFIX
	537
	538	if ( ${FirstInitialize} && [ X"${config_ATM_Restart}" = X"n" ] ) ; then
	539	##--Initialization of fluxes to an undefined value at the first run
	540	UndefinedValueCo2=-9999
	541	InitPeriodCo2=0
	542	InitDateBeginCo2=${UndefinedValueCo2}
	543	InitYearCo2=$(( ${year} - 1 ))
	544	InitDateEndCo2=${InitYearCo2}1231
	545	fCO2_ff=${UndefinedValueCo2}
	546	CO2SBG=${UndefinedValueCo2}
	547	CO2LU=${UndefinedValueCo2}
	548	CO2MBG=${UndefinedValueCo2}
	549	CO2_ppm_prec=${UndefinedValueCo2}
	550	# Get the initial value of atmosp. pco2
	551	CO2_ppm=${lmdz_UserChoices_co2_init}
	552
	553	IGCM_sys_Cp ${SUBMIT_DIR}/co2.log.init ${SUBMIT_DIR}/co2.log
	554	IGCM_sys_Chmod u+w ${SUBMIT_DIR}/co2.log
	555
[1537]	556	# Save CO2 values in ExeCpuLog variable contents 5 fields
[1780]	557	echo "${InitPeriodCo2} ${InitDateBeginCo2} ${InitDateEndCo2} ${CO2_ppm} ${CO2_ppm_prec} ${fCO2_ff} ${CO2MBG} ${CO2SBG} ${CO2LU}" \| \
[1537]	558	gawk '{printf(" %11d \| %15s \| %15s \| %22.15g \| %20.15g \| %11.8g \| %11.8g \| %12.8g \| %12.8g \n", \
[1780]	559	$1,$2,$3,$4,$5,$6,$7,$8,$9)}' >> ${SUBMIT_DIR}/co2.log
	560
	561	# Get the path where the log file co2.log is
	562	PathCO2log=${SUBMIT_DIR}
	563	# Get Previous line in co2.log
	564	PreviousLinelog=$( tail -1 ${PathCO2log}/co2.log )
	565
	566	else
	567
	568	# NEW parameter in config.card (even for Overule all restarts, you must modify the line after this comment ):
	569	# !! NEW for Carbone cycle !! Path where to find old co2.log file for restart CO2.
	570	#SubmitRestartPath=
	571	if ( ${FirstInitialize} && [ X"${config_ATM_Restart}" = X"y" ] ) ; then
	572	IGCM_card_DefineVariableFromOption ${SUBMIT_DIR}/config.card ATM SubmitRestartPath
	573	PathCO2log=${config_ATM_SubmitRestartPath}
	574	Date_r=$( IGCM_date_ConvertFormatToGregorian ${config_ATM_RestartDate} )
	575	PreviousLinelog=$( grep ${Date_r} ${PathCO2log}/co2.log )
	576
	577	IGCM_sys_Cp ${SUBMIT_DIR}/co2.log.init ${SUBMIT_DIR}/co2.log
	578	IGCM_sys_Chmod u+w ${SUBMIT_DIR}/co2.log
	579
	580	# Save Last Line of control in new co2.log file
	581	InitPeriodCo2=0
	582	InitDateBeginCo2=$( echo "${PreviousLinelog[*]}" \| gawk -F '\|' '{gsub(" ",""); print $2}' )
	583	InitDateEndCo2=$( echo "${PreviousLinelog[*]}" \| gawk -F '\|' '{gsub(" ",""); print $3}' )
	584	fCO2_ff=$( echo "${PreviousLinelog[*]}" \| gawk -F '\|' '{gsub(" ",""); print $6}' )
	585	CO2SBG=$( echo "${PreviousLinelog[*]}" \| gawk -F '\|' '{gsub(" ",""); print $8}' )
	586	CO2LU=$( echo "${PreviousLinelog[*]}" \| gawk -F '\|' '{gsub(" ",""); print $9}' )
	587	CO2MBG=$( echo "${PreviousLinelog[*]}" \| gawk -F '\|' '{gsub(" ",""); print $7}' )
	588	CO2_ppm_prec=$( echo "${PreviousLinelog[*]}" \| gawk -F '\|' '{gsub(" ",""); print $5}' )
	589	CO2_ppm=$( echo "${PreviousLinelog[*]}" \| gawk -F '\|' '{gsub(" ",""); print $4}' )
	590
	591	echo "${InitPeriodCo2} ${InitDateBeginCo2} ${InitDateEndCo2} ${CO2_ppm} ${CO2_ppm_prec} ${fCO2_ff} ${CO2MBG} ${CO2SBG} ${CO2LU}" \| \
	592	gawk '{printf(" %11d \| %15s \| %15s \| %22.15g \| %20.15g \| %11.8g \| %11.8g \| %12.8g \| %12.8g \n", \
	593	$1,$2,$3,$4,$5,$6,$7,$8,$9)}' >> ${SUBMIT_DIR}/co2.log
	594	else
	595	# Get restart line in co2.log
	596	PathCO2log=${SUBMIT_DIR}
	597	PreviousLinelog=$( tail -1 ${PathCO2log}/co2.log )
	598	# Get the value of atmosp. pco2 in co2.log
	599	CO2_ppm=$( echo "${PreviousLinelog[*]}" \| gawk -F '\|' '{gsub(" ",""); print $4}' )
	600	fi
	601
[1537]	602	fi
[1780]	603
	604	if [ ${lmdz_UserChoices_CARBON_CYCLE} = historical ] ; then
[2841]	605	# Modify co2_ppm in config.def only for historical run
	606	# If not historical run, keep co2_ppm value set earlier by IGCM_comp_modifyDefFile
	607	IGCM_comp_modifyDefFile force config.def co2_ppm ${CO2_ppm}
[1780]	608	fi
	609	IGCM_debug_PopStack "ATM_Carbon_Update"
	610	}
[1537]	611
[396]	612
[1780]	613	function ATM_Carbon_Finalize
	614	{
	615	# This fuction will be called only if CARBON_CYCLE is set to control or historical in lmdz.card
	616
	617	IGCM_debug_PushStack "ATM_Carbon_Finalize"
	618
	619	typeset CO2SBG_3V CO2SBG CO2MBG CO2SRF CO2LU CO2_ppm CO2_ppm_prec fCO2_ff
	620
	621	# Fossil fuel emission
	622	if [ ${lmdz_UserChoices_CARBON_CYCLE} = control ] ; then
	623	# For Control, no fossil fuel emission :
	624	fCO2_ff=0
	625	echo "Fossil Fuel for control run :" ${fCO2_ff}
	626	else
	627	# For historical, get the fossile fuel file :
	628	fCO2_ff=$( gawk "{if (match(\$0,\"${year}\ *${month}\")) {print \$3}}" ${SUBMIT_DIR}/PARAM/CMIP5_gridcar_CO2_emissions_fossil_fuel_Andres_1751-2007_monthly_SC.txt )
	629	echo "Fossil Fuel for historical run :" ${fCO2_ff}
	630	fi
	631
	632	# Get the value of ocean carbon flux
	633	CO2MBG=$( ${SUBMIT_DIR}/COMP/lmdz_analyse_pisces_out.awk ocean.output )
	634	CO2MBG=$( echo ${CO2MBG} \| sed -e "s/ *//" )
	635	echo "Ocean carbon flux :" ${CO2MBG}
	636
	637	# Get the value of land fluxes
	638	set +A CO2SBG_3V -- $( ${SUBMIT_DIR}/COMP/lmdz_analyse_stomate_out.awk out_orchidee_0000 )
	639	CO2SRF=$( echo ${CO2SBG_3V[0]} \| sed -e "s/ *//" )
	640	CO2LU=$( echo ${CO2SBG_3V[1]} \| sed -e "s/ *//" )
	641	CO2SBG=$( echo ${CO2SBG_3V[2]} \| sed -e "s/ *//" )
	642	echo "Land carbon flux (NEP) :" ${CO2SRF}
	643	echo "LU flux (FLUC) :" ${CO2LU}
	644	echo "Total Land carbon flux (NBP) :" ${CO2SBG}
	645
	646	# Previous CO2
	647	CO2_ppm_prec=$( echo "${PreviousLinelog[*]}" \| gawk -F '\|' '{gsub(" ",""); print $4}' )
	648	echo "Previous CO2 :" ${CO2_ppm_prec}
	649
	650	# Formula
	651	CO2_ppm=$( echo "${CO2_ppm_prec} + (${fCO2_ff} + ${CO2MBG} + ${CO2SBG}) / 2.12" \| bc -l )
	652	echo "New CO2 :" ${CO2_ppm}
	653
	654	# Save CO2 values in ExeCpuLog variable contents 5 fields
	655	echo "${CumulPeriod} ${PeriodDateBegin} ${PeriodDateEnd} ${CO2_ppm} ${CO2_ppm_prec} ${fCO2_ff} ${CO2MBG} ${CO2SBG} ${CO2LU}" \| \
	656	gawk '{printf(" %11d \| %15s \| %15s \| %22.15g \| %20.15g \| %11.8g \| %11.8g \| %12.8g \| %12.8g \n", \
	657	$1,$2,$3,$4,$5,$6,$7,$8,$9)}' >> ${SUBMIT_DIR}/co2.log
	658
	659	IGCM_debug_PopStack "ATM_Carbon_Finalize"
[396]	660	}

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