source: CONFIG/UNIFORM/v5/LMDZREPR_v5/GENERAL/DRIVER/lmdz.driver @ 1998

Last change on this file since 1998 was 1998, checked in by sdipsl, 9 years ago

Correct syntax error so as to be portable (ada)

File size: 24.7 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${config_ListOfComponents_CHM} = Xreprobus ] ; then
384        echo "Activate coupling to REPROBUS, set type_trac=repr in run.def"
385        LMDZ_sed run.def type_trac repr
386        LMDZ_sed run.def config_inca none
387    else
388        echo "No coupling to chemistry model, set type_trac=lmdz in run.def"
389        LMDZ_sed run.def type_trac lmdz
390        LMDZ_sed run.def config_inca none
391    fi
392
393
394    # config.def : If running with Reprobus, desactivate ok_ade, ok_aie and read_climoz
395    if [ X${config_ListOfComponents_CHM} = Xreprobus ]  ; then
396        LMDZ_sed config.def ok_ade n
397        LMDZ_sed config.def ok_aie n
398        LMDZ_sed config.def aerosol_couple n
399        LMDZ_sed config.def read_climoz 0
400    elif [ X${config_ListOfComponents_CHM} = Xinca ]; then
401        case ${CHEM} in
402            AER)
403                LMDZ_sed config.def ok_ade y
404                LMDZ_sed config.def ok_aie n
405                LMDZ_sed config.def aerosol_couple y
406                LMDZ_sed config.def read_climoz 0
407                ;;
408            NMHC_AER)
409                LMDZ_sed config.def ok_ade y
410                LMDZ_sed config.def ok_aie n
411                LMDZ_sed config.def aerosol_couple y
412                LMDZ_sed config.def read_climoz 0
413                ;;
414            GES)
415                LMDZ_sed config.def ok_ade n
416                LMDZ_sed config.def ok_aie n
417                LMDZ_sed config.def aerosol_couple n
418                LMDZ_sed config.def read_climoz 0
419        esac
420
421    else
422        LMDZ_sed config.def ok_ade y
423        LMDZ_sed config.def ok_aie y
424        LMDZ_sed config.def aerosol_couple n
425        LMDZ_sed config.def read_climoz 2
426    fi
427
428    # guide.def : Activate nudging if ok_guide=y set in lmdz.card
429    if [ ! X${lmdz_UserChoices_ok_guide} = X ] ; then
430        LMDZ_sed guide.def ok_guide  ${lmdz_UserChoices_ok_guide}
431    else
432        LMDZ_sed guide.def ok_guide n
433    fi
434
435    ## Read ByPass_hgardfou_teta option in lmdz.card --> divide teta* by 2 if [ $ByPass_hgardfou_teta = 1 ]
436    ByPass_hgardfou_teta=${lmdz_UserChoices_ByPass_hgardfou_teta}
437    if [ X"${ByPass_hgardfou_teta}" = X"y" ] ; then
438        awk '{ if ($0 ~ /^teta.*=/) {split($0,a,"=") ; print a[1]"="a[2]/2"."} else print $0}' gcm.def > gcm.def.tmp
439        IGCM_sys_Mv gcm.def.tmp gcm.def
440        echo
441        IGCM_debug_Print 1 "ByPass_hgardfou_teta : ^teta*/2 in gcm.def"
442        echo
443        cat gcm.def
444        ByPass_hgardfou_teta=n
445        IGCM_card_WriteOption ${SUBMIT_DIR}/COMP/lmdz.card UserChoices ByPass_hgardfou_teta "${ByPass_hgardfou_teta}"
446    fi
447
448    ## Read ByPass_hgardfou_mats option in lmdz.card --> purmats=y 2 if [ $ByPass_hgardfou_mats = 1 ]
449    ByPass_hgardfou_mats=${lmdz_UserChoices_ByPass_hgardfou_mats}
450    if [ X"${ByPass_hgardfou_mats}" = X"y" ] ; then
451        sed -e "s/^purmats=.*/purmats=y/" gcm.def > gcm.def.tmp
452        IGCM_sys_Mv gcm.def.tmp gcm.def
453        echo
454        IGCM_debug_Print 1 "ByPass_hgardfou_mats : purmats=y in gcm.def"
455        echo
456        cat gcm.def
457        ByPass_hgardfou_mats=n
458        IGCM_card_WriteOption ${SUBMIT_DIR}/COMP/lmdz.card UserChoices ByPass_hgardfou_mats "${ByPass_hgardfou_mats}"
459    fi
460
461    if ( ${FirstInitialize} ) ; then
462        if [ -f start.nc ] && [ -f startphy.nc ] ; then
463            # The restart files already exist. They have been copied from a previous run or from a CREATE job
464            echo "Restart files for LMDZ have been copied from a previous run"
465        elif [ -f create_etat0_limit* ] || [ -f ce0l* ] && [ ! -f lmdz.x ] ; then
466            # Do nothing because it is the program for creating restart files that is running and not LMDZ
467            echo "create_etat0_limit.e will create initial start files"
468        else
469            # Restart files have to be created
470            echo "Run create_etat0_limit.e to create restart files start.nc and startphy.nc for LMDZ"
471            if [ ${DRYRUN} -le 2 ] ; then
472                ##-- suppression of ozone file construction --
473                cp config.def config.def.save
474                LMDZ_sed config.def read_climoz 0
475                IGCM_sys_Cp ${R_EXE}/create_etat0_limit.e ${RUN_DIR}/.
476                if [ ${DRYRUN} -le 1 ] ; then
477                    ${HOST_MPIRUN_COMMAND} -np 1 ./create_etat0_limit.e
478                    IGCM_sys_Put_Out start.nc    ${R_OUT_ATM_R}/${config_UserChoices_JobName}_${PeriodDateBegin}_start.nc
479                    IGCM_sys_Put_Out startphy.nc ${R_OUT_ATM_R}/${config_UserChoices_JobName}_${PeriodDateBegin}_startphy.nc
480                fi
481                IGCM_sys_Mv config.def.save config.def
482            else
483                echo "EXECUTION of ${HOST_MPIRUN_COMMAND} -np 1 ./create_etat0_limit.e simulated"
484                echo "EXECUTION of ${HOST_MPIRUN_COMMAND} -np 1 ./create_etat0_limit.e simulated for DRYRUN = " $DRYRUN >> stack
485            fi
486        fi
487    fi
488
489    IGCM_debug_PopStack "ATM_Update"
490}
491
492#-----------------------------------
493function ATM_Finalize
494{
495    IGCM_debug_PushStack "ATM_Finalize"
496
497    # If the file exist, copy Bands_ file to PARAM/ in submit directory. This file will be used for the simulation.
498    # Copy also the same file into ATM/Restart at ARCHIVE directory for backup.
499    if [ -f Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat ] ; then
500      if [ ${CumulPeriod} -le ${LMDZ_NbPeriod_adjust} ] ; then
501        IGCM_sys_Cp Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat ${SUBMIT_DIR}/PARAM/${config_UserChoices_JobName}_Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat_${CumulPeriod}
502        IGCM_sys_Put_Out Bands_${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}
503      elif [ ${CumulPeriod} -eq 1 ] && [ ${LMDZ_NbPeriod_adjust} -eq 0 ] ; then
504        # Special case : first period and no adjust => Save bands file with suffix _0
505        IGCM_sys_Cp Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat ${SUBMIT_DIR}/PARAM/${config_UserChoices_JobName}_Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat_0
506        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
507      fi
508    fi
509
510    # Add special treatement for CARBON CYCLE
511    if [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"control" ] || [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"historical" ] ; then
512        ATM_Carbon_Finalize
513    fi
514
515    echo FINALIZE ATM !
516
517    IGCM_debug_PopStack "ATM_Finalize"
518}
519
520
521
522function ATM_Carbon_Update
523{
524    # This fuction will be called only if CARBON_CYCLE is set to control or historical in lmdz.card
525
526    IGCM_debug_PushStack "ATM_Carbon_Update"
527
528    typeset InitPeriodCo2 InitDateBeginCo2 InitDateEndCo2
529    typeset CO2SBG CO2MBG CO2LU CO2_ppm CO2_ppm_prec fCO2_ff
530    typeset PathCO2log
531    typeset PreviousLinelog LastPeriodDateBegin LastPeriodDateEnd LastDatesPeriod LastPREFIX
532   
533    if ( ${FirstInitialize} && [ X"${config_ATM_Restart}" = X"n" ] ) ; then
534        ##--Initialization of fluxes to an undefined value at the first run
535        UndefinedValueCo2=-9999
536        InitPeriodCo2=0
537        InitDateBeginCo2=${UndefinedValueCo2}
538        InitYearCo2=$(( ${year} - 1 )) 
539        InitDateEndCo2=${InitYearCo2}1231
540        fCO2_ff=${UndefinedValueCo2} 
541        CO2SBG=${UndefinedValueCo2}
542        CO2LU=${UndefinedValueCo2}
543        CO2MBG=${UndefinedValueCo2}
544        CO2_ppm_prec=${UndefinedValueCo2}
545        # Get the initial value of atmosp. pco2
546        CO2_ppm=${lmdz_UserChoices_co2_init}
547       
548        IGCM_sys_Cp ${SUBMIT_DIR}/co2.log.init ${SUBMIT_DIR}/co2.log
549        IGCM_sys_Chmod u+w ${SUBMIT_DIR}/co2.log
550       
551        # Save CO2 values in ExeCpuLog variable contents 5 fields
552        echo "${InitPeriodCo2} ${InitDateBeginCo2} ${InitDateEndCo2} ${CO2_ppm} ${CO2_ppm_prec} ${fCO2_ff} ${CO2MBG} ${CO2SBG} ${CO2LU}" |   \
553            gawk '{printf("  %11d | %15s | %15s | %22.15g | %20.15g | %11.8g | %11.8g | %12.8g | %12.8g \n", \
554                              $1,$2,$3,$4,$5,$6,$7,$8,$9)}' >> ${SUBMIT_DIR}/co2.log
555       
556        # Get the path where the log file co2.log is
557        PathCO2log=${SUBMIT_DIR} 
558        # Get Previous line in co2.log
559        PreviousLinelog=$( tail -1 ${PathCO2log}/co2.log )
560       
561    else
562       
563        # NEW parameter in config.card (even for Overule all restarts, you must modify the line after this comment ):
564        # !! NEW for Carbone cycle !! Path where to find old co2.log file for restart CO2.
565        #SubmitRestartPath=
566        if ( ${FirstInitialize} && [ X"${config_ATM_Restart}" = X"y" ] ) ; then
567            IGCM_card_DefineVariableFromOption ${SUBMIT_DIR}/config.card ATM SubmitRestartPath
568            PathCO2log=${config_ATM_SubmitRestartPath}
569            Date_r=$( IGCM_date_ConvertFormatToGregorian ${config_ATM_RestartDate} )
570            PreviousLinelog=$( grep ${Date_r} ${PathCO2log}/co2.log )
571           
572            IGCM_sys_Cp ${SUBMIT_DIR}/co2.log.init ${SUBMIT_DIR}/co2.log
573            IGCM_sys_Chmod u+w ${SUBMIT_DIR}/co2.log
574           
575            # Save Last Line of control in new co2.log file
576            InitPeriodCo2=0   
577            InitDateBeginCo2=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $2}' )
578            InitDateEndCo2=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $3}' )
579            fCO2_ff=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $6}' )
580            CO2SBG=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $8}' )
581            CO2LU=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $9}' )
582            CO2MBG=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $7}' )
583            CO2_ppm_prec=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $5}' )
584            CO2_ppm=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $4}' )
585           
586            echo "${InitPeriodCo2} ${InitDateBeginCo2} ${InitDateEndCo2} ${CO2_ppm} ${CO2_ppm_prec} ${fCO2_ff} ${CO2MBG} ${CO2SBG} ${CO2LU}" |   \
587                gawk '{printf("  %11d | %15s | %15s | %22.15g | %20.15g | %11.8g | %11.8g | %12.8g | %12.8g \n", \
588                              $1,$2,$3,$4,$5,$6,$7,$8,$9)}' >> ${SUBMIT_DIR}/co2.log
589        else
590           # Get restart line in co2.log
591            PathCO2log=${SUBMIT_DIR}
592            PreviousLinelog=$( tail -1 ${PathCO2log}/co2.log )
593           # Get the value of atmosp. pco2 in co2.log
594            CO2_ppm=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $4}' )
595        fi
596       
597    fi
598   
599    if [ ${lmdz_UserChoices_CARBON_CYCLE} = historical ] ; then
600            # Modify co2_ppm in config.def only for historical run
601            # If not historical run, keep co2_ppm value set earlier by LMDZ_sed
602        LMDZ_sed config.def co2_ppm     ${CO2_ppm}
603    fi
604    IGCM_debug_PopStack "ATM_Carbon_Update"
605}
606
607
608function ATM_Carbon_Finalize
609{
610    # This fuction will be called only if CARBON_CYCLE is set to control or historical in lmdz.card
611
612    IGCM_debug_PushStack "ATM_Carbon_Finalize"
613
614    typeset CO2SBG_3V CO2SBG CO2MBG CO2SRF CO2LU CO2_ppm CO2_ppm_prec fCO2_ff
615   
616        # Fossil fuel emission
617    if [ ${lmdz_UserChoices_CARBON_CYCLE} = control ] ; then
618            # For Control, no fossil fuel emission :
619        fCO2_ff=0
620        echo "Fossil Fuel for control run  :" ${fCO2_ff}
621    else
622            # For historical, get the fossile fuel file :
623        fCO2_ff=$( gawk "{if (match(\$0,\"${year}\ *${month}\")) {print \$3}}" ${SUBMIT_DIR}/PARAM/CMIP5_gridcar_CO2_emissions_fossil_fuel_Andres_1751-2007_monthly_SC.txt )
624        echo "Fossil Fuel for historical run  :" ${fCO2_ff}
625    fi
626   
627        # Get the value of ocean carbon flux
628    CO2MBG=$( ${SUBMIT_DIR}/COMP/lmdz_analyse_pisces_out.awk ocean.output )
629    CO2MBG=$( echo ${CO2MBG} | sed -e "s/ *//" )
630    echo "Ocean carbon flux  :" ${CO2MBG}
631   
632        # Get the value of land fluxes
633    set +A CO2SBG_3V -- $( ${SUBMIT_DIR}/COMP/lmdz_analyse_stomate_out.awk out_orchidee_0000 )
634    CO2SRF=$( echo ${CO2SBG_3V[0]} | sed -e "s/ *//" )
635    CO2LU=$( echo ${CO2SBG_3V[1]} | sed -e "s/ *//" )
636    CO2SBG=$( echo ${CO2SBG_3V[2]} | sed -e "s/ *//" )
637    echo "Land carbon flux (NEP)         :" ${CO2SRF}
638    echo "LU flux          (FLUC)        :" ${CO2LU}
639    echo "Total Land carbon flux (NBP)   :" ${CO2SBG}
640   
641        # Previous CO2
642    CO2_ppm_prec=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $4}' )
643    echo "Previous CO2  :" ${CO2_ppm_prec}
644   
645        # Formula
646    CO2_ppm=$( echo "${CO2_ppm_prec} + (${fCO2_ff} + ${CO2MBG} + ${CO2SBG}) / 2.12" | bc -l )
647    echo "New CO2  :" ${CO2_ppm}
648   
649        # Save CO2 values in ExeCpuLog variable contents 5 fields
650    echo "${CumulPeriod} ${PeriodDateBegin} ${PeriodDateEnd} ${CO2_ppm} ${CO2_ppm_prec} ${fCO2_ff} ${CO2MBG} ${CO2SBG} ${CO2LU}" |   \
651        gawk '{printf("  %11d | %15s | %15s | %22.15g | %20.15g | %11.8g | %11.8g | %12.8g | %12.8g \n", \
652                           $1,$2,$3,$4,$5,$6,$7,$8,$9)}' >> ${SUBMIT_DIR}/co2.log
653   
654    IGCM_debug_PopStack "ATM_Carbon_Finalize"
655}
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