source: CONFIG/UNIFORM/v6/IPSLCM6/GENERAL/DRIVER/lmdz.driver @ 2047

Last change on this file since 2047 was 2015, checked in by acosce, 9 years ago

Modify lmdz.card/lmdz.driver/config.def to fit with last LMDZ revision (1729)

  • move ok_ade, ok_aie, read_climoz from lmdz.driver to lmdz.card
  • add parameter ok_cdnc (cloud droplet number concentration) in lmdz.card to agree with rev1712 from LMDZ
  • add flag_aerosol in lmdz.card to agree with rev1667 from LMDZ

Anne

File size: 25.3 KB
Line 
1#!/bin/ksh
2#-----------------------------------------------------------------
3function LMDZ_sed
4{
5# Usage : LMDZ_sed filedef var_name myvalue
6#         In file filedef modify the line containing var_name=xxx into var_name=myvalue
7    IGCM_debug_PushStack "LMDZ_sed"
8   
9    # Test if the fichier exist
10    if [ ! -f ${1} ] ; then
11        echo "WARNING : ${1} file does not exist. Following will not be done : LMDZ_sed : ${1} ${2} ${3}"
12        return
13    fi
14
15    sed -e "s/^${2}\ *=.*/${2}= ${3}/" ${1} > ${1}.tmp
16    RET=$?
17    echo "LMDZ_sed : ${1} ${2} ${3}"
18    \mv ${1}.tmp ${1}
19
20    IGCM_debug_PopStack "LMDZ_sed"
21    return $RET
22}
23function LMDZ_sed_default
24{
25# Usage : LMDZ_sed_default filedef var_name
26#         In file filedef modify the line  "var_name=xxx DEFAULT= myvalue"
27#         into "var_name=myvalue"
28    IGCM_debug_PushStack "LMDZ_sed_default"
29
30    DefValue=$( grep ${2} ${1}  | awk -F"DEFAULT.=*" '{print $2}')
31
32    LMDZ_sed  ${1} ${2} $DefValue
33    IGCM_debug_PopStack "LMDZ_sed_default"
34    return $RET
35}
36
37
38function ATM_Initialize
39{
40    IGCM_debug_PushStack "ATM_Initialize"
41
42    RESOL_ATM=$( echo $RESOL | awk "-Fx" '{print $2}' | awk "-F-" '{print $1}')
43
44    [ -f ${SUBMIT_DIR}/../.resol ] && eval $(grep RESOL_ATM_3D ${SUBMIT_DIR}/../.resol) || RESOL_ATM_3D=96x95x19
45
46    RESOL_ATM_Z=$( echo ${RESOL_ATM_3D} | awk "-Fx" '{print $3}' )
47    RESOL_ATM_X=$( echo ${RESOL_ATM_3D} | awk "-Fx" '{print $1}' )
48    RESOL_ATM_Y=$( echo ${RESOL_ATM_3D} | awk "-Fx" '{print $2}' )
49    RESOL_ATM_XY="${RESOL_ATM_X}x${RESOL_ATM_Y}"
50
51    ##-- Calendar type for LMDZ and create_etat0_limit
52    case ${config_UserChoices_CalendarType} in
53        leap|gregorian)
54            CalendarTypeForLmdz=earth_366d
55            CalendarTypeForCreate=gregorian;;
56        noleap)
57            CalendarTypeForLmdz=earth_365d
58            CalendarTypeForCreate=${CalendarTypeForLmdz};;
59        360d)
60            CalendarTypeForLmdz=earth_360d
61            CalendarTypeForCreate=${CalendarTypeForLmdz};;
62        *)
63            CalendarTypeForLmdz=earth_360d
64            CalendarTypeForCreate=${CalendarTypeForLmdz}
65    esac
66
67    ##- LMDZ physics version
68    ##  Read LMDZ_Physics option in lmdz.card, if not present take default value AP (old physics)
69    if [ ! X${lmdz_UserChoices_LMDZ_Physics} = X ] ; then
70        LMDZ_Physics=${lmdz_UserChoices_LMDZ_Physics}
71    else
72        LMDZ_Physics=AP
73    fi
74    echo LMDZ physics version : ${LMDZ_Physics}
75
76    ##- Create_etat0_limit version
77    ##  Define variable CREATE only if it is set in lmdz.card section UserChoices.
78    ##  This variable is only used in lmdz.card to choose input files.
79    if [ ! X${lmdz_UserChoices_CREATE} = X ] ; then
80        IGCM_card_DefineVariableFromOption ${SUBMIT_DIR}/COMP/lmdz.card UserChoices CREATE
81        CREATE=${lmdz_UserChoices_CREATE}
82        echo create_etat0_limit version : ${CREATE}
83    fi
84
85
86    ## - LMDZ choice of config.def file
87    ##   ConfType must be set in lmdz.card
88    ConfType=${lmdz_UserChoices_ConfType}
89
90    ##- LMDZ output level, to be set in lmdz.card
91    if [ X${lmdz_UserChoices_OutLevel} = X ] ; then
92        # OutLevel is not set. Take default value low.
93        OutLevel=low
94    else
95        OutLevel=${lmdz_UserChoices_OutLevel}
96    fi
97
98    ##-- Output frequency purpose ....
99    ##--  Initialisation  ....
100    ok_mensuel=n
101    ok_journe=n
102    ok_hf=n
103    ok_hf3h=n
104    ok_hf3hm=n
105    ok_stn=n
106
107    case ${config_UserChoices_PeriodLength} in
108        1Y|1y|1M|1m) ok_mensuel=y ;;
109        5D|5d|1D|1d) ok_journe=y ;;
110    esac
111
112    for frequency in ${config_ATM_WriteFrequency} ; do
113        case ${frequency} in
114            1M|1m) ok_mensuel=y ;;
115        esac
116        case ${frequency} in
117            5D|5d|1D|1d) ok_journe=y ;;
118        esac
119        case ${frequency} in
120            HF|hf) ok_hf=y ;;
121        esac
122        case ${frequency} in
123            HF3h|hf3h) ok_hf3h=y ;;
124        esac
125        case ${frequency} in
126            HF3hm|hf3hm) ok_hf3hm=y ;;
127        esac
128        case ${frequency} in
129            STN|stn) ok_stn=y ;;
130        esac
131    done
132
133    ## Read LMDZ_NbPeriod_adjust option in lmdz.card
134    if [ X"${lmdz_UserChoices_LMDZ_NbPeriod_adjust}" = X"" ] ; then
135        # The variable is not in lmdz.card, set default value
136        LMDZ_NbPeriod_adjust=0
137    else       
138        LMDZ_NbPeriod_adjust=${lmdz_UserChoices_LMDZ_NbPeriod_adjust}
139    fi
140
141    if [ ${LMDZ_NbPeriod_adjust} -eq 0 ] ; then
142        LMDZ_Bands_file_name=${lmdz_UserChoices_LMDZ_Bands_file_name}
143    fi
144
145
146    ##  Read LMDZ_COSP_OK in lmdz.card
147    if [ ! X${lmdz_UserChoices_LMDZ_COSP_OK} = X ] ; then
148        LMDZ_COSP_OK=${lmdz_UserChoices_LMDZ_COSP_OK}
149    else
150        LMDZ_COSP_OK=n
151    fi
152    ##  Read LMDZ_COSP_monthly in lmdz.card
153    if [ ! X${lmdz_UserChoices_LMDZ_COSP_monthly} = X ] ; then
154        LMDZ_COSP_monthly=${lmdz_UserChoices_LMDZ_COSP_monthly}
155    else
156        LMDZ_COSP_monthly=n
157    fi
158    ##  Read LMDZ_COSP_daily in lmdz.card
159    if [ ! X${lmdz_UserChoices_LMDZ_COSP_daily} = X ] ; then
160        LMDZ_COSP_daily=${lmdz_UserChoices_LMDZ_COSP_daily}
161    else
162        LMDZ_COSP_daily=n
163    fi
164    ##  Read LMDZ_COSP_hf in lmdz.card
165    if [ ! X${lmdz_UserChoices_LMDZ_COSP_hf} = X ] ; then
166        LMDZ_COSP_hf=${lmdz_UserChoices_LMDZ_COSP_hf}
167    else
168        LMDZ_COSP_hf=n
169    fi
170
171    ##  Read LMDZ_NMC_monthly in lmdz.card
172    if [ ! X${lmdz_UserChoices_LMDZ_NMC_monthly} = X ] ; then
173        LMDZ_NMC_monthly=${lmdz_UserChoices_LMDZ_NMC_monthly}
174    else
175        LMDZ_NMC_monthly=n
176    fi
177
178    ## Read LMDZ_NMC_daily in lmdz.card
179    if [ ! X${lmdz_UserChoices_LMDZ_NMC_daily} = X ] ; then
180        LMDZ_NMC_daily=${lmdz_UserChoices_LMDZ_NMC_daily}
181    else
182        LMDZ_NMC_daily=n
183    fi
184   
185    ## Read LMDZ_NMC_hf in lmdz.card
186    if [ ! X${lmdz_UserChoices_LMDZ_NMC_hf} = X ] ; then
187        LMDZ_NMC_hf=${lmdz_UserChoices_LMDZ_NMC_hf}
188    else
189        LMDZ_NMC_hf=n
190    fi
191
192
193    IGCM_debug_PopStack "ATM_Initialize"
194}
195
196#-----------------------------------------------------------------
197function ATM_Update
198{
199    IGCM_debug_PushStack "ATM_Update"
200
201
202    case ${config_UserChoices_PeriodLength} in
203        *Y|*y) 
204               LMDZ_ecrit_ISCCP=30.
205               LMDZ_periodav=30.
206               if [ "${config_UserChoices_CalendarType}" != "360d" ] ; then
207                  echo Do not consider following warning if your running create_etat0_limit :
208                  echo WARNING !!! For lmdz : calendartype in config.card. PeriodLength=1Y allowed only for CalendarType=360d
209               fi
210               ;;
211        *)
212               LMDZ_ecrit_ISCCP=${PeriodLengthInDays}.
213               LMDZ_periodav=${PeriodLengthInDays}.
214               ;;
215    esac
216 
217    ##-- Remise ou non a zero de la date initiale de LMDZ pour le fichier run.def
218    if [ ${CumulPeriod} -eq 1 ] ; then
219        RAZ_DATE=1
220    else
221        RAZ_DATE=0
222    fi
223
224    ## Algorithme for special treatment for Bands_xxx file
225    ## For CumulPeriod=1 ;
226    ##        IF NbPeriod_Adjust = 0 ; set LMDZ_adjust=n
227    ##                                IF LMDZ_Bands_file_name was given in lmdz.card THEN Get Bands file directly from server. Store it later with _0 suffix.
228    ##                                IF no LMDZ_Bands_file_name was given, start without Bands file. Store it later with _0 suffix.
229    ##        ELSE set LMDZ_adjust=y ; start without Bands file ; Store it later in PARAM/ directory in submit directory with suffix _1 ;
230    ##
231    ## For CumulPeriod=2 to LMDZ_NbPeriod_adjust ;
232    ##       Get Bands file from PARAM/ in submit directory (CumulPeriod-1) ; set LMDZ_adjust=y ; Store Bands file in PARAM/ ;
233    ##
234    ## For CumulPeriod > LMDZ_NbPeriod_adjust ; LMDZ_adjust=n ; Get Bands file from PARAM/ ; Do not store ;
235
236    if [ ${CumulPeriod} -eq 1 ] ; then
237        if [ ${LMDZ_NbPeriod_adjust} -eq 0 ] ; then
238            if [ ! X${LMDZ_Bands_file_name} = X ] ; then
239                IGCM_sys_Get ${LMDZ_Bands_file_name} Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat
240                IGCM_sys_Chmod u+w Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat
241                IGCM_debug_Print 1 "Bands file forced to ${LMDZ_Bands_file_name} and stored in ${config_UserChoices_JobName}_Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat_0"
242            fi
243        fi
244    fi
245
246    LMDZ_adjust=n
247    [ ${CumulPeriod} -le ${LMDZ_NbPeriod_adjust} ] && LMDZ_adjust=y
248
249    RefPeriod=${LMDZ_NbPeriod_adjust} #0 to use a Bands file from Restart
250    [ ${CumulPeriod} -le ${LMDZ_NbPeriod_adjust} ] && (( RefPeriod = ${CumulPeriod} - 1 )) 
251
252    # Get Bands file from PARAM directory if file exist
253    if ( [ ${CumulPeriod} -gt 1 ] && [ -f ${SUBMIT_DIR}/PARAM/${config_UserChoices_JobName}_Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat_${RefPeriod} ] ) ; then
254        IGCM_sys_Cp ${SUBMIT_DIR}/PARAM/${config_UserChoices_JobName}_Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat_${RefPeriod} Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat
255        IGCM_sys_Chmod u+w Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat
256    fi
257
258    ##-- GHG forcing :
259    ##   If forcing file exist in run directory, read values for the current year and modify config.def
260    if [ -f SOLARANDVOLCANOES.txt ] ; then
261        IPCC_SOLAR=`grep Annee_${year} SOLARANDVOLCANOES.txt | awk -F= '{print $2}'`
262        LMDZ_sed config.def solaire     ${IPCC_SOLAR}
263    else
264        LMDZ_sed_default config.def solaire
265    fi
266    if [ -f CO2.txt ] ; then
267        IPCC_CO2=`grep Annee_${year} CO2.txt | awk -F= '{print $2}'`
268        LMDZ_sed config.def co2_ppm     ${IPCC_CO2}
269    else
270        LMDZ_sed_default config.def co2_ppm
271    fi
272
273
274    if [ -f CH4.txt ] ; then
275        IPCC_CH4=`grep Annee_${year} CH4.txt | awk -F= '{print $2}'`
276        LMDZ_sed config.def CH4_ppb     ${IPCC_CH4}
277    else
278        LMDZ_sed_default config.def CH4_ppb
279    fi
280    if [ -f N2O.txt ] ; then
281        IPCC_N2O=`grep Annee_${year} N2O.txt | awk -F= '{print $2}'`
282        LMDZ_sed config.def N2O_ppb     ${IPCC_N2O}
283    else
284        LMDZ_sed_default config.def N2O_ppb
285    fi
286    if [ -f CFC11.txt ] ; then
287        IPCC_CFC11=`grep Annee_${year} CFC11.txt | awk -F= '{print $2}'`
288        LMDZ_sed config.def CFC11_ppt   ${IPCC_CFC11}
289    else
290        LMDZ_sed_default config.def CFC11_ppt
291    fi
292    if [ -f CFC12.txt ] ; then
293        IPCC_CFC12=`grep Annee_${year} CFC12.txt | awk -F= '{print $2}'`
294        LMDZ_sed config.def CFC12_ppt   ${IPCC_CFC12}
295    else
296        LMDZ_sed_default config.def CFC12_ppt
297    fi
298
299
300    ##-- Add special treatement for CARBON CYCLE
301    if [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"control" ] || [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"historical" ] ; then
302        ATM_Carbon_Update
303    fi
304
305
306    ##-- Set LMDZ_COSP_daily1979=y in section UserChoices in lmdz.card to activate
307    ##   COSP daily output for years 1979 and later (mandatory for historical CMIP5 run).
308    if ([ X"${lmdz_UserChoices_LMDZ_COSP_daily1979}" = X"y" ] &&  [ ${year} -ge 1979 ]) ; then
309        LMDZ_COSP_daily=y
310    fi
311
312
313    ## output.def parameters
314    #  columns in phys_output_filekeys refer to the filenames given in phys_out_filenames in output.def : 
315    #                                            histmth       histday        histhf    histfh3h   histhf3hm   histstn
316    LMDZ_sed output.def phys_out_filekeys       "${ok_mensuel} ${ok_journe}   ${ok_hf}  ${ok_hf3h} ${ok_hf3hm} ${ok_stn}"
317    LMDZ_sed output.def ecrit_ISCCP ${LMDZ_ecrit_ISCCP}
318    LMDZ_sed output.def ok_cosp     ${LMDZ_COSP_OK}
319    LMDZ_sed output.def ok_mensuelCOSP  ${LMDZ_COSP_monthly}
320    LMDZ_sed output.def ok_journeCOSP   ${LMDZ_COSP_daily}
321    LMDZ_sed output.def ok_hfCOSP   ${LMDZ_COSP_hf}
322    LMDZ_sed output.def ok_histNMC  "${LMDZ_NMC_monthly} ${LMDZ_NMC_daily} ${LMDZ_NMC_hf}"
323
324    ## gcm.def parameters :
325    # Modification only for new physics
326    if [ X${LMDZ_Physics} = X"NPv3.1" ] ; then
327        LMDZ_sed gcm.def iphysiq     5
328    else
329        LMDZ_sed_default gcm.def iphysiq
330    fi
331
332
333    ## run.def parameters
334    LMDZ_sed run.def dayref   ${InitDay}
335    LMDZ_sed run.def nday     ${PeriodLengthInDays}
336    LMDZ_sed run.def raz_date ${RAZ_DATE}
337    LMDZ_sed run.def periodav ${LMDZ_periodav}
338    LMDZ_sed run.def adjust   ${LMDZ_adjust}
339
340    # Set anneeref different for gcm and ce0l
341    # Variable calend is different for a run with create_etat0_limit and the gcm
342    # Test if executable create_etat0_limit is present and lmdz.x is not present
343    if [ -f create_etat0_limit* ] || [ -f ce0l* ] && [ ! -f lmdz.x ] ; then
344        # for case ce0l : always take current year
345        LMDZ_sed run.def anneeref ${year}
346        LMDZ_sed run.def calend   ${CalendarTypeForCreate}
347    else
348        # for case gcm : take first year of simulation
349        LMDZ_sed run.def anneeref ${InitYear}
350        LMDZ_sed run.def calend   ${CalendarTypeForLmdz}
351    fi
352
353    # Activate creation of file grilles_gcm.nc only at first period
354    if [ ${CumulPeriod} -eq 1 ] ; then
355        LMDZ_sed run.def grilles_gcm_netcdf y
356    else
357        LMDZ_sed run.def grilles_gcm_netcdf n
358    fi
359
360    ## Determine from the variable ListOfComponents in config.card coupling to external models
361    ## and set corresponding parameters in run.def
362    echo ListOfComponents now running : ${config_ListOfComponents[*]}
363
364    if [ X${config_ListOfComponents_SRF} = Xorchidee ] ; then
365        echo "Activate ORCHIDEE, set VEGET=y in run.def"
366        LMDZ_sed run.def VEGET y
367    else
368        echo "No ORCHIDEE, set VEGET=n in run.def"
369        LMDZ_sed run.def VEGET n
370    fi
371
372    if [ X${config_ListOfComponents_CPL} = Xoasis ] ; then
373        echo "Activate coupling to ocean, set type_ocean=couple in run.def"
374        LMDZ_sed run.def type_ocean couple
375    else
376        echo "LMDZ is running in forced mode without ocean model, set type_ocean=force in run.def"
377        LMDZ_sed run.def type_ocean force
378    fi
379
380    if [ X${config_ListOfComponents_CHM} = Xinca ] ; then
381        echo "Activate coupling to INCA, set type_trac=inca in run.def"
382        LMDZ_sed run.def type_trac inca
383    elif [ X${config_ListOfComponents_CHM} = Xreprobus ] ; then
384        echo "Activate coupling to REPROBUS, set type_trac=repr in run.def"
385        LMDZ_sed run.def type_trac repr
386        LMDZ_sed run.def config_inca none
387    else
388        echo "No coupling to chemistry model, set type_trac=lmdz in run.def"
389        LMDZ_sed run.def type_trac lmdz
390        LMDZ_sed run.def config_inca none
391    fi
392
393
394    # config.def : Activate direct radiative effect if ok_ade=y
395    if [ ! X${lmdz_UserChoices_ok_ade} = X ]; then
396        LMDZ_sed config.def ok_ade ${lmdz_UserChoices_ok_ade}
397    else
398        LMDZ_sed config.def ok_ade n
399    fi 
400
401    # config.def : Activate indirect radiative effect if ok_aie=y
402    if [ ! X${lmdz_UserChoices_ok_aie} = X ]; then
403        LMDZ_sed config.def ok_aie ${lmdz_UserChoices_ok_aie}
404    else
405        LMDZ_sed config.def ok_aie n
406    fi 
407
408    # config.def : Activate online aerosol coupled model if aerosol_couple=y
409    if [ ! X${lmdz_UserChoices_aerosol_couple} = X ]; then
410        LMDZ_sed config.def aerosol_couple ${lmdz_UserChoices_aerosol_couple}
411    else
412        LMDZ_sed config.def aerosol_couple n
413    fi 
414
415    # config.def : Activate reading of ozone in climatology if read_climoz=2
416    if [ ! X${lmdz_UserChoices_read_climoz} = X ]; then
417        LMDZ_sed config.def read_climoz ${lmdz_UserChoices_read_climoz}
418    else
419        LMDZ_sed config.def read_climoz 0       
420    fi 
421
422    # config.def : Choose aerosol use in radiative effect
423    #  type of coupled aerosol =1 (default) =2 => bc  only =3 => pom only =4 => seasalt only
424    # =5 => dust only =6 => all aerosol   
425    if [ ! X${lmdz_UserChoices_flag_aerosol} = X ]; then
426        LMDZ_sed config.def flag_aerosol ${lmdz_UserChoices_flag_aerosol}
427    else
428        LMDZ_sed config.def flag_aerosol 0
429    fi 
430
431    # config.def : Activate calcul of Cloud droplet number concentration if ok_cdnc=y
432    if [ ! X${lmdz_UserChoices_ok_cdnc} = X ]; then
433        LMDZ_sed config.def ok_cdnc ${lmdz_UserChoices_ok_cdnc}
434    else
435        LMDZ_sed config.def ok_cdnc n   
436    fi 
437
438    # guide.def : Activate nudging if ok_guide=y set in lmdz.card
439    if [ ! X${lmdz_UserChoices_ok_guide} = X ] ; then
440        LMDZ_sed guide.def ok_guide  ${lmdz_UserChoices_ok_guide}
441    else
442        LMDZ_sed guide.def ok_guide n
443    fi
444
445    ## Read ByPass_hgardfou_teta option in lmdz.card --> divide teta* by 2 if [ $ByPass_hgardfou_teta = 1 ]
446    ByPass_hgardfou_teta=${lmdz_UserChoices_ByPass_hgardfou_teta}
447    if [ X"${ByPass_hgardfou_teta}" = X"y" ] ; then
448        awk '{ if ($0 ~ /^teta.*=/) {split($0,a,"=") ; print a[1]"="a[2]/2"."} else print $0}' gcm.def > gcm.def.tmp
449        IGCM_sys_Mv gcm.def.tmp gcm.def
450        echo
451        IGCM_debug_Print 1 "ByPass_hgardfou_teta : ^teta*/2 in gcm.def"
452        echo
453        cat gcm.def
454        ByPass_hgardfou_teta=n
455        IGCM_card_WriteOption ${SUBMIT_DIR}/COMP/lmdz.card UserChoices ByPass_hgardfou_teta "${ByPass_hgardfou_teta}"
456    fi
457
458    ## Read ByPass_hgardfou_mats option in lmdz.card --> purmats=y 2 if [ $ByPass_hgardfou_mats = 1 ]
459    ByPass_hgardfou_mats=${lmdz_UserChoices_ByPass_hgardfou_mats}
460    if [ X"${ByPass_hgardfou_mats}" = X"y" ] ; then
461        sed -e "s/^purmats=.*/purmats=y/" gcm.def > gcm.def.tmp
462        IGCM_sys_Mv gcm.def.tmp gcm.def
463        echo
464        IGCM_debug_Print 1 "ByPass_hgardfou_mats : purmats=y in gcm.def"
465        echo
466        cat gcm.def
467        ByPass_hgardfou_mats=n
468        IGCM_card_WriteOption ${SUBMIT_DIR}/COMP/lmdz.card UserChoices ByPass_hgardfou_mats "${ByPass_hgardfou_mats}"
469    fi
470
471    if ( ${FirstInitialize} ) ; then
472        if [ -f start.nc ] && [ -f startphy.nc ] ; then
473            # The restart files already exist. They have been copied from a previous run or from a CREATE job
474            echo "Restart files for LMDZ have been copied from a previous run"
475        elif [ -f create_etat0_limit* ] || [ -f ce0l* ] && [ ! -f lmdz.x ] ; then
476            # Do nothing because it is the program for creating restart files that is running and not LMDZ
477            echo "create_etat0_limit.e will create initial start files"
478        else
479            # Restart files have to be created
480            echo "Run create_etat0_limit.e to create restart files start.nc and startphy.nc for LMDZ"
481            if [ ${DRYRUN} -le 2 ] ; then
482                ##-- suppression of ozone file construction --
483                cp config.def config.def.save
484                LMDZ_sed config.def read_climoz 0
485                IGCM_sys_Cp ${R_EXE}/create_etat0_limit.e ${RUN_DIR}/.
486                if [ ${DRYRUN} -le 1 ] ; then
487                    ${HOST_MPIRUN_COMMAND} -np 1 ./create_etat0_limit.e
488                    IGCM_sys_Put_Out start.nc    ${R_OUT_ATM_R}/${config_UserChoices_JobName}_${PeriodDateBegin}_start.nc
489                    IGCM_sys_Put_Out startphy.nc ${R_OUT_ATM_R}/${config_UserChoices_JobName}_${PeriodDateBegin}_startphy.nc
490                fi
491                IGCM_sys_Mv config.def.save config.def
492            else
493                echo "EXECUTION of ${HOST_MPIRUN_COMMAND} -np 1 ./create_etat0_limit.e simulated"
494                echo "EXECUTION of ${HOST_MPIRUN_COMMAND} -np 1 ./create_etat0_limit.e simulated for DRYRUN = " $DRYRUN >> stack
495            fi
496        fi
497    fi
498
499    IGCM_debug_PopStack "ATM_Update"
500}
501
502#-----------------------------------
503function ATM_Finalize
504{
505    IGCM_debug_PushStack "ATM_Finalize"
506
507    # If the file exist, copy Bands_ file to PARAM/ in submit directory. This file will be used for the simulation.
508    # Copy also the same file into ATM/Restart at ARCHIVE directory for backup.
509    if [ -f Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat ] ; then
510      if [ ${CumulPeriod} -le ${LMDZ_NbPeriod_adjust} ] ; then
511        IGCM_sys_Cp Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat ${SUBMIT_DIR}/PARAM/${config_UserChoices_JobName}_Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat_${CumulPeriod}
512        IGCM_sys_Put_Out Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat ${R_OUT_ATM_R}/${config_UserChoices_JobName}_Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat_${CumulPeriod}
513      elif [ ${CumulPeriod} -eq 1 ] && [ ${LMDZ_NbPeriod_adjust} -eq 0 ] ; then
514        # Special case : first period and no adjust => Save bands file with suffix _0
515        IGCM_sys_Cp Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat ${SUBMIT_DIR}/PARAM/${config_UserChoices_JobName}_Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat_0
516        IGCM_sys_Put_Out Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat ${R_OUT_ATM_R}/${config_UserChoices_JobName}_Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat_0
517      fi
518    fi
519
520    # Add special treatement for CARBON CYCLE
521    if [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"control" ] || [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"historical" ] ; then
522        ATM_Carbon_Finalize
523    fi
524
525    echo FINALIZE ATM !
526
527    IGCM_debug_PopStack "ATM_Finalize"
528}
529
530
531
532function ATM_Carbon_Update
533{
534    # This fuction will be called only if CARBON_CYCLE is set to control or historical in lmdz.card
535
536    IGCM_debug_PushStack "ATM_Carbon_Update"
537
538    typeset InitPeriodCo2 InitDateBeginCo2 InitDateEndCo2
539    typeset CO2SBG CO2MBG CO2LU CO2_ppm CO2_ppm_prec fCO2_ff
540    typeset PathCO2log
541    typeset PreviousLinelog LastPeriodDateBegin LastPeriodDateEnd LastDatesPeriod LastPREFIX
542   
543    if ( ${FirstInitialize} && [ X"${config_ATM_Restart}" = X"n" ] ) ; then
544        ##--Initialization of fluxes to an undefined value at the first run
545        UndefinedValueCo2=-9999
546        InitPeriodCo2=0
547        InitDateBeginCo2=${UndefinedValueCo2}
548        InitYearCo2=$(( ${year} - 1 )) 
549        InitDateEndCo2=${InitYearCo2}1231
550        fCO2_ff=${UndefinedValueCo2} 
551        CO2SBG=${UndefinedValueCo2}
552        CO2LU=${UndefinedValueCo2}
553        CO2MBG=${UndefinedValueCo2}
554        CO2_ppm_prec=${UndefinedValueCo2}
555        # Get the initial value of atmosp. pco2
556        CO2_ppm=${lmdz_UserChoices_co2_init}
557       
558        IGCM_sys_Cp ${SUBMIT_DIR}/co2.log.init ${SUBMIT_DIR}/co2.log
559        IGCM_sys_Chmod u+w ${SUBMIT_DIR}/co2.log
560       
561        # Save CO2 values in ExeCpuLog variable contents 5 fields
562        echo "${InitPeriodCo2} ${InitDateBeginCo2} ${InitDateEndCo2} ${CO2_ppm} ${CO2_ppm_prec} ${fCO2_ff} ${CO2MBG} ${CO2SBG} ${CO2LU}" |   \
563            gawk '{printf("  %11d | %15s | %15s | %22.15g | %20.15g | %11.8g | %11.8g | %12.8g | %12.8g \n", \
564                              $1,$2,$3,$4,$5,$6,$7,$8,$9)}' >> ${SUBMIT_DIR}/co2.log
565       
566        # Get the path where the log file co2.log is
567        PathCO2log=${SUBMIT_DIR} 
568        # Get Previous line in co2.log
569        PreviousLinelog=$( tail -1 ${PathCO2log}/co2.log )
570       
571    else
572       
573        # NEW parameter in config.card (even for Overule all restarts, you must modify the line after this comment ):
574        # !! NEW for Carbone cycle !! Path where to find old co2.log file for restart CO2.
575        #SubmitRestartPath=
576        if ( ${FirstInitialize} && [ X"${config_ATM_Restart}" = X"y" ] ) ; then
577            IGCM_card_DefineVariableFromOption ${SUBMIT_DIR}/config.card ATM SubmitRestartPath
578            PathCO2log=${config_ATM_SubmitRestartPath}
579            Date_r=$( IGCM_date_ConvertFormatToGregorian ${config_ATM_RestartDate} )
580            PreviousLinelog=$( grep ${Date_r} ${PathCO2log}/co2.log )
581           
582            IGCM_sys_Cp ${SUBMIT_DIR}/co2.log.init ${SUBMIT_DIR}/co2.log
583            IGCM_sys_Chmod u+w ${SUBMIT_DIR}/co2.log
584           
585            # Save Last Line of control in new co2.log file
586            InitPeriodCo2=0   
587            InitDateBeginCo2=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $2}' )
588            InitDateEndCo2=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $3}' )
589            fCO2_ff=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $6}' )
590            CO2SBG=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $8}' )
591            CO2LU=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $9}' )
592            CO2MBG=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $7}' )
593            CO2_ppm_prec=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $5}' )
594            CO2_ppm=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $4}' )
595           
596            echo "${InitPeriodCo2} ${InitDateBeginCo2} ${InitDateEndCo2} ${CO2_ppm} ${CO2_ppm_prec} ${fCO2_ff} ${CO2MBG} ${CO2SBG} ${CO2LU}" |   \
597                gawk '{printf("  %11d | %15s | %15s | %22.15g | %20.15g | %11.8g | %11.8g | %12.8g | %12.8g \n", \
598                              $1,$2,$3,$4,$5,$6,$7,$8,$9)}' >> ${SUBMIT_DIR}/co2.log
599        else
600           # Get restart line in co2.log
601            PathCO2log=${SUBMIT_DIR}
602            PreviousLinelog=$( tail -1 ${PathCO2log}/co2.log )
603           # Get the value of atmosp. pco2 in co2.log
604            CO2_ppm=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $4}' )
605        fi
606       
607    fi
608   
609    if [ ${lmdz_UserChoices_CARBON_CYCLE} = historical ] ; then
610            # Modify co2_ppm in config.def only for historical run
611            # If not historical run, keep co2_ppm value set earlier by LMDZ_sed
612        LMDZ_sed config.def co2_ppm     ${CO2_ppm}
613    fi
614    IGCM_debug_PopStack "ATM_Carbon_Update"
615}
616
617
618function ATM_Carbon_Finalize
619{
620    # This fuction will be called only if CARBON_CYCLE is set to control or historical in lmdz.card
621
622    IGCM_debug_PushStack "ATM_Carbon_Finalize"
623
624    typeset CO2SBG_3V CO2SBG CO2MBG CO2SRF CO2LU CO2_ppm CO2_ppm_prec fCO2_ff
625   
626        # Fossil fuel emission
627    if [ ${lmdz_UserChoices_CARBON_CYCLE} = control ] ; then
628            # For Control, no fossil fuel emission :
629        fCO2_ff=0
630        echo "Fossil Fuel for control run  :" ${fCO2_ff}
631    else
632            # For historical, get the fossile fuel file :
633        fCO2_ff=$( gawk "{if (match(\$0,\"${year}\ *${month}\")) {print \$3}}" ${SUBMIT_DIR}/PARAM/CMIP5_gridcar_CO2_emissions_fossil_fuel_Andres_1751-2007_monthly_SC.txt )
634        echo "Fossil Fuel for historical run  :" ${fCO2_ff}
635    fi
636   
637        # Get the value of ocean carbon flux
638    CO2MBG=$( ${SUBMIT_DIR}/COMP/lmdz_analyse_pisces_out.awk ocean.output )
639    CO2MBG=$( echo ${CO2MBG} | sed -e "s/ *//" )
640    echo "Ocean carbon flux  :" ${CO2MBG}
641   
642        # Get the value of land fluxes
643    set +A CO2SBG_3V -- $( ${SUBMIT_DIR}/COMP/lmdz_analyse_stomate_out.awk out_orchidee_0000 )
644    CO2SRF=$( echo ${CO2SBG_3V[0]} | sed -e "s/ *//" )
645    CO2LU=$( echo ${CO2SBG_3V[1]} | sed -e "s/ *//" )
646    CO2SBG=$( echo ${CO2SBG_3V[2]} | sed -e "s/ *//" )
647    echo "Land carbon flux (NEP)         :" ${CO2SRF}
648    echo "LU flux          (FLUC)        :" ${CO2LU}
649    echo "Total Land carbon flux (NBP)   :" ${CO2SBG}
650   
651        # Previous CO2
652    CO2_ppm_prec=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $4}' )
653    echo "Previous CO2  :" ${CO2_ppm_prec}
654   
655        # Formula
656    CO2_ppm=$( echo "${CO2_ppm_prec} + (${fCO2_ff} + ${CO2MBG} + ${CO2SBG}) / 2.12" | bc -l )
657    echo "New CO2  :" ${CO2_ppm}
658   
659        # Save CO2 values in ExeCpuLog variable contents 5 fields
660    echo "${CumulPeriod} ${PeriodDateBegin} ${PeriodDateEnd} ${CO2_ppm} ${CO2_ppm_prec} ${fCO2_ff} ${CO2MBG} ${CO2SBG} ${CO2LU}" |   \
661        gawk '{printf("  %11d | %15s | %15s | %22.15g | %20.15g | %11.8g | %11.8g | %12.8g | %12.8g \n", \
662                           $1,$2,$3,$4,$5,$6,$7,$8,$9)}' >> ${SUBMIT_DIR}/co2.log
663   
664    IGCM_debug_PopStack "ATM_Carbon_Finalize"
665}
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