source: CONFIG/UNIFORM/v5/LMDZOR_v5/GENERAL/DRIVER/lmdz.driver @ 1778

Last change on this file since 1778 was 1778, checked in by jgipsl, 10 years ago

Corrected some errors discoverd by changing machine.

File size: 20.2 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    sed -e "s/^${2}\ *=.*/${2}= ${3}/" ${1} > ${1}.tmp
10    RET=$?
11    echo "LMDZ_sed : ${1} ${2} ${3}"
12    \mv ${1}.tmp ${1}
13
14    IGCM_debug_PopStack "LMDZ_sed"
15    return $RET
16}
17function LMDZ_sed_default
18{
19# Usage : LMDZ_sed_default filedef var_name
20#         In file filedef modify the line  "var_name=xxx DEFAULT= myvalue"
21#         into "var_name=myvalue"
22    IGCM_debug_PushStack "LMDZ_sed_default"
23
24    DefValue=$( grep ${2} ${1}  | awk -F"DEFAULT.=*" '{print $2}')
25
26    LMDZ_sed  ${1} ${2} $DefValue
27    IGCM_debug_PopStack "LMDZ_sed_default"
28    return $RET
29}
30
31
32function ATM_Initialize
33{
34    IGCM_debug_PushStack "ATM_Initialize"
35
36    RESOL_ATM=$( echo $RESOL | awk "-Fx" '{print $2}' | awk "-F-" '{print $1}')
37
38    [ -f ${SUBMIT_DIR}/../.resol ] && eval $(grep RESOL_ATM_3D ${SUBMIT_DIR}/../.resol) || RESOL_ATM_3D=96x95x19
39
40    RESOL_ATM_Z=$( echo ${RESOL_ATM_3D} | awk "-Fx" '{print $3}' )
41
42    ##-- Calendar type for LMDZ
43    case ${config_UserChoices_CalendarType} in
44        leap|gregorian)
45            CalendarTypeForLmdz=earth_366d;;
46        noleap)
47            CalendarTypeForLmdz=earth_365d;;
48        360d)
49            CalendarTypeForLmdz=earth_360d;;
50        *)
51            CalendarTypeForLmdz=earth_360d
52    esac
53
54    ##- LMDZ physics version
55    ##  Read LMDZ_Physics option in lmdz.card, if not present take default value AP (old physics)
56    if [ ! X${lmdz_UserChoices_LMDZ_Physics} = X ] ; then
57        LMDZ_Physics=${lmdz_UserChoices_LMDZ_Physics}
58    else
59        LMDZ_Physics=AP
60    fi
61    echo LMDZ physics version : ${LMDZ_Physics}
62
63    ##- Create_etat0_limit version
64    IGCM_card_DefineVariableFromOption ${SUBMIT_DIR}/COMP/lmdz.card UserChoices CREATE
65    CREATE=${lmdz_UserChoices_CREATE}
66    echo create_etat0_limit version : ${CREATE}
67
68    ## - LMDZ choice of config.def file
69    ##   ConfType must be set in lmdz.card
70    ConfType=${lmdz_UserChoices_ConfType}
71
72    ##- LMDZ output level, to be set in lmdz.card
73    if [ X${lmdz_UserChoices_OutLevel} = X ] ; then
74        # OutLevel is not set. Take default value low.
75        OutLevel=low
76    else
77        OutLevel=${lmdz_UserChoices_OutLevel}
78    fi
79
80    ##-- Output frequency purpose ....
81    ##--  Initialisation  ....
82    ok_mensuel=n
83    ok_journe=n
84    ok_hf=n
85    ok_hf3h=n
86    ok_hf3hm=n
87    ok_stn=n
88
89    case ${config_UserChoices_PeriodLength} in
90        1Y|1y|1M|1m) ok_mensuel=y ;;
91        5D|5d|1D|1d) ok_journe=y ;;
92    esac
93
94    for frequency in ${config_ATM_WriteFrequency} ; do
95        case ${frequency} in
96            1M|1m) ok_mensuel=y ;;
97        esac
98        case ${frequency} in
99            5D|5d|1D|1d) ok_journe=y ;;
100        esac
101        case ${frequency} in
102            HF|hf) ok_hf=y ;;
103        esac
104        case ${frequency} in
105            HF3h|hf3h) ok_hf3h=y ;;
106        esac
107        case ${frequency} in
108            HF3hm|hf3hm) ok_hf3hm=y ;;
109        esac
110        case ${frequency} in
111            STN|stn) ok_stn=y ;;
112        esac
113    done
114
115    ## Read LMDZ_NbPeriod_adjust option in lmdz.card
116    if [ X"${lmdz_UserChoices_LMDZ_NbPeriod_adjust}" = X"" ] ; then
117        # The variable is not in lmdz.card, set default value
118        LMDZ_NbPeriod_adjust=0
119    else       
120        LMDZ_NbPeriod_adjust=${lmdz_UserChoices_LMDZ_NbPeriod_adjust}
121    fi
122
123    if [ ${LMDZ_NbPeriod_adjust} -eq 0 ] ; then
124        LMDZ_Bands_file_name=${lmdz_UserChoices_LMDZ_Bands_file_name}
125    fi
126
127    ##  Read LMDZ_Freq_aero and LMDZ_Length_aero in lmdz.card
128    LMDZ_Freq_aero=${lmdz_UserChoices_LMDZ_Freq_aero}
129    LMDZ_Length_aero=${lmdz_UserChoices_LMDZ_Length_aero}
130
131    ##  Read LMDZ_COSP_monthly  LMDZ_COSP_daily and LMDZ_COSP_hf in lmdz.card
132    LMDZ_COSP_OK=${lmdz_UserChoices_LMDZ_COSP_OK}
133    LMDZ_COSP_monthly=${lmdz_UserChoices_LMDZ_COSP_monthly}
134    LMDZ_COSP_daily=${lmdz_UserChoices_LMDZ_COSP_daily}
135    LMDZ_COSP_hf=${lmdz_UserChoices_LMDZ_COSP_hf}
136
137    ##  Read LMDZ_NMC_monthly  LMDZ_NMC_daily and LMDZ_NMC_hf in lmdz.card
138    LMDZ_NMC_monthly=${lmdz_UserChoices_LMDZ_NMC_monthly}
139    LMDZ_NMC_daily=${lmdz_UserChoices_LMDZ_NMC_daily}
140    LMDZ_NMC_hf=${lmdz_UserChoices_LMDZ_NMC_hf}
141
142    IGCM_debug_PopStack "ATM_Initialize"
143}
144
145#-----------------------------------------------------------------
146function ATM_Update
147{
148    IGCM_debug_PushStack "ATM_Update"
149
150
151    case ${config_UserChoices_PeriodLength} in
152        *Y|*y) 
153               LMDZ_ecrit_ISCCP=30.
154               LMDZ_periodav=30.
155               if [ "${config_UserChoices_CalendarType}" != "360d" ] ; then
156                  echo Do not consider following warning if your running create_etat0_limit :
157                  echo WARNING !!! For lmdz : calendartype in config.card. PeriodLength=1Y allowed only for CalendarType=360d
158               fi
159               ;;
160        *)
161               LMDZ_ecrit_ISCCP=${PeriodLengthInDays}.
162               LMDZ_periodav=${PeriodLengthInDays}.
163               ;;
164    esac
165 
166    ##-- Remise ou non a zero de la date initiale de LMDZ pour le fichier run.def
167    if [ ${CumulPeriod} -eq 1 ] ; then
168        RAZ_DATE=1
169    else
170        RAZ_DATE=0
171    fi
172
173    ## algo : For CumulPeriod=1 ;
174    ##        IF NbPeriod_Adjust = 0, Get Bands file directly from server, store it with _0 suffix
175    ##        ELSE LMDZ_adjust=y ; save Bands file on file server ;
176    ##        For CumulPeriod=2 to LMDZ_NbPeriod_adjust ; Get Bands file from server (CumulPeriod-1) ; LMDZ_adjust=y ; save Bands file on file server ;
177    ##        For CumulPeriod > LMDZ_NbPeriod_adjust ; LMDZ_adjust=n ; Get Bands file from server (CumulPeriod=LMDZ_NbPeriod_adjust 0 to force it) ; Use Bands ;
178
179    if [ ${CumulPeriod} -eq 1 ] ; then
180        if [ ${LMDZ_NbPeriod_adjust} -eq 0 ] ; then
181            if [ ! X${LMDZ_Bands_file_name} = X ] ; then
182                IGCM_sys_Get ${LMDZ_Bands_file_name} Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat
183                IGCM_sys_Put_Out Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat ${R_OUT_ATM_D}/${config_UserChoices_JobName}_Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat_0
184                IGCM_sys_Chmod u+w Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat
185                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"
186            fi
187        fi
188    fi
189
190    LMDZ_adjust=n
191    [ ${CumulPeriod} -le ${LMDZ_NbPeriod_adjust} ] && LMDZ_adjust=y
192
193    RefPeriod=${LMDZ_NbPeriod_adjust} #0 to use a Bands file from Restart
194    [ ${CumulPeriod} -le ${LMDZ_NbPeriod_adjust} ] && (( RefPeriod = ${CumulPeriod} - 1 )) 
195
196    [ ${CumulPeriod} -gt 1 ] && ( IGCM_sys_Get ${R_OUT_ATM_D}/${config_UserChoices_JobName}_Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat_${RefPeriod} Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat ; IGCM_sys_Chmod u+w Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat )
197
198    ##-- GHG forcing :
199    ##   If forcing file exist in run directory, read values for the current year and modify config.def
200    if [ -f SOLARANDVOLCANOES.txt ] ; then
201        IPCC_SOLAR=`grep Annee_${year} SOLARANDVOLCANOES.txt | awk -F= '{print $2}'`
202        LMDZ_sed config.def solaire     ${IPCC_SOLAR}
203    else
204        LMDZ_sed_default config.def solaire
205    fi
206    if [ -f CO2.txt ] ; then
207        IPCC_CO2=`grep Annee_${year} CO2.txt | awk -F= '{print $2}'`
208        LMDZ_sed config.def co2_ppm     ${IPCC_CO2}
209    else
210        LMDZ_sed_default config.def co2_ppm
211    fi
212
213
214    if [ -f CH4.txt ] ; then
215        IPCC_CH4=`grep Annee_${year} CH4.txt | awk -F= '{print $2}'`
216        LMDZ_sed config.def CH4_ppb     ${IPCC_CH4}
217    else
218        LMDZ_sed_default config.def CH4_ppb
219    fi
220    if [ -f N2O.txt ] ; then
221        IPCC_N2O=`grep Annee_${year} N2O.txt | awk -F= '{print $2}'`
222        LMDZ_sed config.def N2O_ppb     ${IPCC_N2O}
223    else
224        LMDZ_sed_default config.def N2O_ppb
225    fi
226    if [ -f CFC11.txt ] ; then
227        IPCC_CFC11=`grep Annee_${year} CFC11.txt | awk -F= '{print $2}'`
228        LMDZ_sed config.def CFC11_ppt   ${IPCC_CFC11}
229    else
230        LMDZ_sed_default config.def CFC11_ppt
231    fi
232    if [ -f CFC12.txt ] ; then
233        IPCC_CFC12=`grep Annee_${year} CFC12.txt | awk -F= '{print $2}'`
234        LMDZ_sed config.def CFC12_ppt   ${IPCC_CFC12}
235    else
236        LMDZ_sed_default config.def CFC12_ppt
237    fi
238
239    # Add special treatement for CARBON CYCLE
240    if [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"control" ] || [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"historical" ] ; then
241
242        typeset InitPeriodCo2 InitDateBeginCo2 InitDateEndCo2
243        typeset CO2SBG CO2MBG CO2LU CO2_ppm CO2_ppm_prec fCO2_ff
244        typeset PathCO2log
245        typeset PreviousLinelog LastPeriodDateBegin LastPeriodDateEnd LastDatesPeriod LastPREFIX
246
247        if ( ${FirstInitialize} && [ X"${config_ATM_Restart}" = X"n" ] ) ; then
248        ##--Initialization of fluxes to an undefined value at the first run
249            UndefinedValueCo2=-9999
250            InitPeriodCo2=0
251            InitDateBeginCo2=${UndefinedValueCo2}
252            InitYearCo2=$(( ${year} - 1 )) 
253            InitDateEndCo2=${InitYearCo2}1231
254            fCO2_ff=${UndefinedValueCo2} 
255            CO2SBG=${UndefinedValueCo2}
256            CO2LU=${UndefinedValueCo2}
257            CO2MBG=${UndefinedValueCo2}
258            CO2_ppm_prec=${UndefinedValueCo2}
259        # Get the initial value of atmosp. pco2
260            CO2_ppm=${lmdz_UserChoices_co2_init}
261           
262            IGCM_sys_Cp ${SUBMIT_DIR}/co2.log.init ${SUBMIT_DIR}/co2.log
263            IGCM_sys_Chmod u+w ${SUBMIT_DIR}/co2.log
264           
265        # Save CO2 values in ExeCpuLog variable contents 5 fields
266            echo "${InitPeriodCo2} ${InitDateBeginCo2} ${InitDateEndCo2} ${CO2_ppm} ${CO2_ppm_prec} ${fCO2_ff} ${CO2MBG} ${CO2SBG} ${CO2LU}" |   \
267                gawk '{printf("  %11d | %15s | %15s | %22.15g | %20.15g | %11.8g | %11.8g | %12.8g | %12.8g \n", \
268                              $1,$2,$3,$4,$5,$6,$7,$8,$9)}' >> ${SUBMIT_DIR}/co2.log
269           
270        # Get the path where the log file co2.log is
271            PathCO2log=${SUBMIT_DIR} 
272        # Get Previous line in co2.log
273            PreviousLinelog=$( tail -1 ${PathCO2log}/co2.log )
274           
275        else
276           
277        # NEW parameter in config.card (even for Overule all restarts, you must modify the line after this comment ):
278        # !! NEW for Carbone cycle !! Path where to find old co2.log file for restart CO2.
279        #SubmitRestartPath=
280            if ( ${FirstInitialize} && [ X"${config_ATM_Restart}" = X"y" ] ) ; then
281                IGCM_card_DefineVariableFromOption ${SUBMIT_DIR}/config.card ATM SubmitRestartPath
282                PathCO2log=${config_ATM_SubmitRestartPath}
283                Date_r=$( IGCM_date_ConvertFormatToGregorian ${config_ATM_RestartDate} )
284                PreviousLinelog=$( grep ${Date_r} ${PathCO2log}/co2.log )
285               
286                IGCM_sys_Cp ${SUBMIT_DIR}/co2.log.init ${SUBMIT_DIR}/co2.log
287                IGCM_sys_Chmod u+w ${SUBMIT_DIR}/co2.log
288               
289            # Save Last Line of control in new co2.log file
290                InitPeriodCo2=0   
291                InitDateBeginCo2=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $2}' )
292                InitDateEndCo2=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $3}' )
293                fCO2_ff=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $6}' )
294                CO2SBG=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $8}' )
295                CO2LU=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $9}' )
296                CO2MBG=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $7}' )
297                CO2_ppm_prec=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $5}' )
298                CO2_ppm=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $4}' )
299               
300                echo "${InitPeriodCo2} ${InitDateBeginCo2} ${InitDateEndCo2} ${CO2_ppm} ${CO2_ppm_prec} ${fCO2_ff} ${CO2MBG} ${CO2SBG} ${CO2LU}" |   \
301                    gawk '{printf("  %11d | %15s | %15s | %22.15g | %20.15g | %11.8g | %11.8g | %12.8g | %12.8g \n", \
302                              $1,$2,$3,$4,$5,$6,$7,$8,$9)}' >> ${SUBMIT_DIR}/co2.log
303            else
304           # Get restart line in co2.log
305                PathCO2log=${SUBMIT_DIR}
306                PreviousLinelog=$( tail -1 ${PathCO2log}/co2.log )
307           # Get the value of atmosp. pco2 in co2.log
308                CO2_ppm=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $4}' )
309            fi
310           
311        fi
312
313        if [ ${lmdz_UserChoices_CARBON_CYCLE} = historical ] ; then
314            # Modify co2_ppm in config.def only for historical run
315            # If not historical run, keep co2_ppm value set earlier by LMDZ_sed
316            LMDZ_sed config.def co2_ppm     ${CO2_ppm}
317        fi
318    fi
319    # end CARBON_CYCLE
320
321    ##-- Set LMDZ_COSP_daily1979=y in section UserChoices in lmdz.card to activate
322    ##   COSP daily output for years 1979 and later (mandatory for historical CMIP5 run).
323    if ([ X"${lmdz_UserChoices_LMDZ_COSP_daily1979}" = X"y" ] &&  [ ${year} -ge 1979 ]) ; then
324        LMDZ_COSP_daily=y
325    fi
326
327
328    ## output.def parameters
329    #  columns in phys_output_filekeys refer to the filenames given in phys_out_filenames in output.def : 
330    #                                            histmth       histday        histhf    histfh3h   histhf3hm   histstn
331    LMDZ_sed output.def phys_out_filekeys       "${ok_mensuel} ${ok_journe}   ${ok_hf}  ${ok_hf3h} ${ok_hf3hm} ${ok_stn}"
332    LMDZ_sed output.def ecrit_ISCCP ${LMDZ_ecrit_ISCCP}
333    LMDZ_sed output.def ok_cosp     ${LMDZ_COSP_OK}
334    LMDZ_sed output.def ok_mensuelCOSP  ${LMDZ_COSP_monthly}
335    LMDZ_sed output.def ok_journeCOSP   ${LMDZ_COSP_daily}
336    LMDZ_sed output.def ok_hfCOSP   ${LMDZ_COSP_hf}
337    LMDZ_sed output.def ok_histNMC  "${LMDZ_NMC_monthly}, ${LMDZ_NMC_daily}, ${LMDZ_NMC_hf}"
338
339    ## gcm.def parameters :
340    # Modification only for new physics
341    if [ X${LMDZ_Physics} = X"NPv3.1" ] ; then
342        LMDZ_sed gcm.def iphysiq     5
343    else
344        LMDZ_sed_default gcm.def iphysiq
345    fi
346
347
348    ## run.def parameters
349    LMDZ_sed run.def dayref   ${InitDay}
350    LMDZ_sed run.def anneeref ${InitYear}
351    LMDZ_sed run.def calend   ${CalendarTypeForLmdz}
352    LMDZ_sed run.def nday     ${PeriodLengthInDays}
353    LMDZ_sed run.def raz_date ${RAZ_DATE}
354    LMDZ_sed run.def periodav ${LMDZ_periodav}
355    LMDZ_sed run.def adjust   ${LMDZ_adjust}
356
357
358    ## Determine from the variable ListOfComponents in config.card coupling to external models
359    ## and set corresponding parameters in run.def
360    echo ListOfComponents now running : ${config_ListOfComponents[*]}
361
362    if [ X${config_ListOfComponents_SRF} = Xorchidee ] ; then
363        echo "Activate ORCHIDEE, set VEGET=y in run.def"
364        LMDZ_sed run.def VEGET y
365    else
366        echo "No ORCHIDEE, set VEGET=n in run.def"
367        LMDZ_sed run.def VEGET n
368    fi
369
370    if [ X${config_ListOfComponents_CPL} = Xoasis ] ; then
371        echo "Activate coupling to ocean, set type_ocean=couple in run.def"
372        LMDZ_sed run.def type_ocean couple
373    else
374        echo "LMDZ is running in forced mode without ocean model, set type_ocean=force in run.def"
375        LMDZ_sed run.def type_ocean force
376    fi
377
378    if [ X${config_ListOfComponents_CHM} = Xinca ] ; then
379        echo "Activate coupling to INCA, set type_trac=inca in run.def"
380        LMDZ_sed run.def type_trac inca
381    elif [ X${config_ListOfComponents_CHM} = Xreprobus ] ; then
382        echo "Activate coupling to REPROBUS, set type_trac=repr in run.def"
383        LMDZ_sed run.def type_trac repr
384    else
385        echo "No coupling to chemistry model, set type_trac=lmdz in run.def"
386        LMDZ_sed run.def type_trac lmdz
387    fi
388
389
390    # config.def : If running with Reprobus, desactivate ok_ade, ok_aie and read_climoz
391    if [ X${config_ListOfComponents_CHM} = Xreprobus ] || [ X${config_ListOfComponents_CHM} = Xinca ] ; then
392        LMDZ_sed config.def ok_ade n
393        LMDZ_sed config.def ok_aie n
394        LMDZ_sed config.def read_climoz 0
395    else
396        LMDZ_sed config.def ok_ade y
397        LMDZ_sed config.def ok_aie y
398        LMDZ_sed config.def read_climoz 2
399    fi
400
401    # guide.def : Activate nudging if ok_guide=y set in lmdz.card
402    if [ ! X${lmdz_UserChoices_ok_guide} = X ] ; then
403        LMDZ_sed guide.def ok_guide  ${lmdz_UserChoices_ok_guide}
404    else
405        LMDZ_sed guide.def ok_guide n
406    fi
407
408    ## Read ByPass_hgardfou_teta option in lmdz.card --> divide teta* by 2 if [ $ByPass_hgardfou_teta = 1 ]
409    ByPass_hgardfou_teta=${lmdz_UserChoices_ByPass_hgardfou_teta}
410    if [ X"${ByPass_hgardfou_teta}" = X"y" ] ; then
411        awk '{ if ($0 ~ /^teta.*=/) {split($0,a,"=") ; print a[1]"="a[2]/2"."} else print $0}' gcm.def > gcm.def.tmp
412        IGCM_sys_Mv gcm.def.tmp gcm.def
413        echo
414        IGCM_debug_Print 1 "ByPass_hgardfou_teta : ^teta*/2 in gcm.def"
415        echo
416        cat gcm.def
417        ByPass_hgardfou_teta=n
418        IGCM_card_WriteOption ${SUBMIT_DIR}/COMP/lmdz.card UserChoices ByPass_hgardfou_teta "${ByPass_hgardfou_teta}"
419    fi
420
421    ## Read ByPass_hgardfou_mats option in lmdz.card --> purmats=y 2 if [ $ByPass_hgardfou_mats = 1 ]
422    ByPass_hgardfou_mats=${lmdz_UserChoices_ByPass_hgardfou_mats}
423    if [ X"${ByPass_hgardfou_mats}" = X"y" ] ; then
424        sed -e "s/^purmats=.*/purmats=y/" gcm.def > gcm.def.tmp
425        IGCM_sys_Mv gcm.def.tmp gcm.def
426        echo
427        IGCM_debug_Print 1 "ByPass_hgardfou_mats : purmats=y in gcm.def"
428        echo
429        cat gcm.def
430        ByPass_hgardfou_mats=n
431        IGCM_card_WriteOption ${SUBMIT_DIR}/COMP/lmdz.card UserChoices ByPass_hgardfou_mats "${ByPass_hgardfou_mats}"
432    fi
433
434    if ( ${FirstInitialize} ) ; then
435        if [ -f start.nc ] && [ -f startphy.nc ] ; then
436            # The restart files already exist. They have been copied from a previous run or from a CREATE job
437            echo "Restart files for LMDZ have been copied from a previous run"
438        elif [ -f create_etat0_limit* ] || [ -f ce0l* ] && [ ! -f lmdz.x ] ; then
439            # Do nothing because it is the program for creating restart files that is running and not LMDZ
440            echo "create_etat0_limit.e will create initial start files"
441        else
442            # Restart files have to be created
443            echo "Run create_etat0_limit.e to create restart files start.nc and startphy.nc for LMDZ"
444            if [ ${DRYRUN} -le 2 ] ; then
445                ##-- suppression of ozone file construction --
446                cp config.def config.def.save
447                LMDZ_sed config.def read_climoz 0
448                IGCM_sys_Cp ${R_EXE}/create_etat0_limit.e ${RUN_DIR}/.
449                if [ ${DRYRUN} -le 1 ] ; then
450                    ${HOST_MPIRUN_COMMAND} -np 1 ./create_etat0_limit.e
451                    IGCM_sys_Put_Out start.nc    ${R_OUT_ATM_R}/${config_UserChoices_JobName}_${PeriodDateBegin}_start.nc
452                    IGCM_sys_Put_Out startphy.nc ${R_OUT_ATM_R}/${config_UserChoices_JobName}_${PeriodDateBegin}_startphy.nc
453                fi
454                IGCM_sys_Mv config.def.save config.def
455            else
456                echo "EXECUTION of ${HOST_MPIRUN_COMMAND} -np 1 ./create_etat0_limit.e simulated"
457                echo "EXECUTION of ${HOST_MPIRUN_COMMAND} -np 1 ./create_etat0_limit.e simulated for DRYRUN = " $DRYRUN >> stack
458            fi
459        fi
460    fi
461
462    IGCM_debug_PopStack "ATM_Update"
463}
464
465#-----------------------------------
466function ATM_Finalize
467{
468    IGCM_debug_PushStack "ATM_Finalize"
469
470    [ ${CumulPeriod} -le ${LMDZ_NbPeriod_adjust} ] && IGCM_sys_Put_Out Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat ${R_OUT_ATM_D}/${config_UserChoices_JobName}_Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat_${CumulPeriod}
471
472
473    # Add special treatement for CARBON CYCLE
474    if [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"control" ] || [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"historical" ] ; then
475        typeset CO2SBG_3V CO2SBG CO2MBG CO2SRF CO2LU CO2_ppm CO2_ppm_prec fCO2_ff
476
477        # Fossil fuel emission
478        if [ ${lmdz_UserChoices_CARBON_CYCLE} = control ] ; then
479            # For Control, no fossil fuel emission :
480            fCO2_ff=0
481            echo "Fossil Fuel for control run  :" ${fCO2_ff}
482        else
483            # For historical, get the fossile fuel file :
484            fCO2_ff=$( gawk "{if (match(\$0,\"${year}\ *${month}\")) {print \$3}}" ${SUBMIT_DIR}/PARAM/CMIP5_gridcar_CO2_emissions_fossil_fuel_Andres_1751-2007_monthly_SC.txt )
485            echo "Fossil Fuel for historical run  :" ${fCO2_ff}
486        fi
487
488        # Get the value of ocean carbon flux
489        CO2MBG=$( ${SUBMIT_DIR}/COMP/lmdz_analyse_pisces_out.awk ocean.output )
490        CO2MBG=$( echo ${CO2MBG} | sed -e "s/ *//" )
491        echo "Ocean carbon flux  :" ${CO2MBG}
492
493        # Get the value of land fluxes
494        set +A CO2SBG_3V -- $( ${SUBMIT_DIR}/COMP/lmdz_analyse_stomate_out.awk out_orchidee_0000 )
495        CO2SRF=$( echo ${CO2SBG_3V[0]} | sed -e "s/ *//" )
496        CO2LU=$( echo ${CO2SBG_3V[1]} | sed -e "s/ *//" )
497        CO2SBG=$( echo ${CO2SBG_3V[2]} | sed -e "s/ *//" )
498        echo "Land carbon flux (NEP)         :" ${CO2SRF}
499        echo "LU flux          (FLUC)        :" ${CO2LU}
500        echo "Total Land carbon flux (NBP)   :" ${CO2SBG}
501
502        # Previous CO2
503        CO2_ppm_prec=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $4}' )
504        echo "Previous CO2  :" ${CO2_ppm_prec}
505
506        # Formula
507        CO2_ppm=$( echo "${CO2_ppm_prec} + (${fCO2_ff} + ${CO2MBG} + ${CO2SBG}) / 2.12" | bc -l )
508        echo "New CO2  :" ${CO2_ppm}
509
510        # Save CO2 values in ExeCpuLog variable contents 5 fields
511        echo "${CumulPeriod} ${PeriodDateBegin} ${PeriodDateEnd} ${CO2_ppm} ${CO2_ppm_prec} ${fCO2_ff} ${CO2MBG} ${CO2SBG} ${CO2LU}" |   \
512            gawk '{printf("  %11d | %15s | %15s | %22.15g | %20.15g | %11.8g | %11.8g | %12.8g | %12.8g \n", \
513                           $1,$2,$3,$4,$5,$6,$7,$8,$9)}' >> ${SUBMIT_DIR}/co2.log
514
515    fi
516
517    echo FINALIZE ATM !
518
519    IGCM_debug_PopStack "ATM_Finalize"
520}
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