source: CONFIG/UNIFORM/v6/LMDZOR_v6/GENERAL/DRIVER/lmdz.driver @ 2911

Last change on this file since 2911 was 2911, checked in by jgipsl, 5 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
Line 
1#!/bin/ksh
2#-----------------------------------------------------------------
3function ATM_Initialize
4{
5    IGCM_debug_PushStack "ATM_Initialize"
6
7    RESOL_ATM=$( echo $RESOL | awk "-Fx" '{print $2}' | awk "-F-" '{print $1}')
8
9    [ -f ${SUBMIT_DIR}/../.resol ] && eval $(grep RESOL_ATM_3D ${SUBMIT_DIR}/../.resol) || RESOL_ATM_3D=96x95x39
10
11    RESOL_ATM_Z=$( echo ${RESOL_ATM_3D} | awk "-Fx" '{print $3}' )
12    RESOL_ATM_X=$( 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${RESOL_ATM_Y}"
15
16    ##- LMDZ physics version
17    ##  Read LMDZ_Physics option in lmdz.card, if not present take default value AP (old physics)
18    if [ ! X${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 : ${LMDZ_Physics}
24
25    ##- Create_etat0_limit version
26    ##  Define variable CREATE only if it is set in lmdz.card section UserChoices.
27    ##  This variable is only used in lmdz.card to choose input files.
28    if [ ! X${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 : ${CREATE}
32    fi
33
34
35    ## - LMDZ choice of config.def file
36    ##   ConfType must be set in lmdz.card
37    ConfType=${lmdz_UserChoices_ConfType}
38
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
47    ##-- Output frequency purpose ....
48    ##--  Initialisation  ....
49    ok_mensuel=.FALSE.
50    ok_journe=.FALSE.
51    ok_hf=.FALSE.
52    ok_hf3h=.FALSE.
53    ok_hf3hm=.FALSE.
54    ok_stn=.FALSE.
55
56    case ${config_UserChoices_PeriodLength} in
57        1Y|1y|1M|1m) ok_mensuel=.TRUE. ;;
58        5D|5d|1D|1d) ok_journe=.TRUE. ;;
59    esac
60
61    for frequency in ${config_ATM_WriteFrequency} ; do
62        case ${frequency} in
63            1M|1m) ok_mensuel=.TRUE. ;;
64        esac
65        case ${frequency} in
66            5D|5d|1D|1d) ok_journe=.TRUE. ;;
67        esac
68        case ${frequency} in
69            HF|hf) ok_hf=.TRUE. ;;
70        esac
71        case ${frequency} in
72            HF3h|hf3h) ok_hf3h=.TRUE. ;;
73        esac
74        case ${frequency} in
75            HF3hm|hf3hm) ok_hf3hm=.TRUE. ;;
76        esac
77        case ${frequency} in
78            STN|stn) ok_stn=.TRUE. ;;
79        esac
80    done
81
82    ##  Read LMDZ_COSP_OK in lmdz.card
83    if [ X${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${lmdz_UserChoices_LMDZ_COSP_hf} = Xy ] ; then
99            LMDZ_COSP_hf=.TRUE.
100        else
101            LMDZ_COSP_hf=.FALSE.
102        fi
103    else
104        # LMDZ_COSP_OK=n : All cosp output are deactivated
105        LMDZ_COSP_monthly=.FALSE.
106        LMDZ_COSP_daily=.FALSE.
107        LMDZ_COSP_hf=.FALSE.
108    fi 
109
110    ##  Read LMDZ_NMC_monthly in lmdz.card
111    if [ X${lmdz_UserChoices_LMDZ_NMC_monthly} = Xy ] ; then
112        LMDZ_NMC_monthly=.TRUE.
113    else
114        LMDZ_NMC_monthly=.FALSE.
115    fi
116   
117    ## Read LMDZ_NMC_daily in lmdz.card
118    if [ X${lmdz_UserChoices_LMDZ_NMC_daily} = Xy ] ; then
119        LMDZ_NMC_daily=.TRUE.
120    else
121        LMDZ_NMC_daily=.FALSE.
122    fi
123   
124    ## Read LMDZ_NMC_hf in lmdz.card
125    if [ X${lmdz_UserChoices_LMDZ_NMC_hf} = Xy ] ; then
126        LMDZ_NMC_hf=.TRUE.
127    else
128        LMDZ_NMC_hf=.FALSE.
129    fi
130   
131
132    IGCM_debug_PopStack "ATM_Initialize"
133}
134
135#-----------------------------------------------------------------
136function ATM_Update
137{
138    IGCM_debug_PushStack "ATM_Update"
139
140    ##-- GHG forcing :
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
143
144    # Read value for solaire from file SOLARANDVOLCANOES.txt. If file not existing, take DEFAULT value from file.
145    if [ -f SOLARANDVOLCANOES.txt ] ; then
146        value=`grep Annee_${year} SOLARANDVOLCANOES.txt | awk -F= '{print $2}'`
147        if [ X"${value}" = X ] ; then
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
152    else
153        value=DEFAULT
154    fi
155    IGCM_comp_modifyDefFile nonblocker config.def solaire $value
156
157
158    # Read value for co2_ppm from file CO2.txt. If file not existing, take DEFAULT value from file.
159    if [ -f CO2.txt ] ; then
160        value=`grep Annee_${year} CO2.txt | awk -F= '{print $2}'`
161        if [ X"${value}" = X ] ; then
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
166    else
167        value=DEFAULT
168    fi
169    IGCM_comp_modifyDefFile nonblocker config.def co2_ppm $value
170
171
172    # Read value for CH4_ppb from file CH4.txt. If file not existing, take DEFAULT value from file.
173    if [ -f CH4.txt ] ; then
174        value=`grep Annee_${year} CH4.txt | awk -F= '{print $2}'`
175        if [ X"${value}" = X ] ; then
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
180    else
181        value=DEFAULT
182    fi
183    IGCM_comp_modifyDefFile nonblocker config.def CH4_ppb $value
184
185
186    # Read value for N2O_ppb from file N2O.txt. If file not existing, take DEFAULT value from file.
187    if [ -f N2O.txt ] ; then
188        value=`grep Annee_${year} N2O.txt | awk -F= '{print $2}'`
189        if [ X"${value}" = X ] ; then
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
194    else
195        value=DEFAULT
196    fi
197    IGCM_comp_modifyDefFile nonblocker config.def N2O_ppb $value
198
199    # Read value for CFC11_ppt from file CFC11.txt. If file not existing, take DEFAULT value from file.
200    if [ -f CFC11.txt ] ; then
201        value=`grep Annee_${year} CFC11.txt | awk -F= '{print $2}'`
202        if [ X"${value}" = X ] ; then
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
207    else
208        value=DEFAULT
209    fi
210    IGCM_comp_modifyDefFile nonblocker config.def CFC11_ppt $value
211
212
213    # Read value for CFC12_ppt from file CFC12.txt. If file not existing, take DEFAULT value from file.
214    if [ -f CFC12.txt ] ; then
215        value=`grep Annee_${year} CFC12.txt | awk -F= '{print $2}'`
216        if [ X"${value}" = X ] ; then
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
221    else
222        value=DEFAULT
223    fi
224    IGCM_comp_modifyDefFile nonblocker config.def CFC12_ppt $value
225
226
227    ## Coupling Time Step : Take value of FreqCoupling set in oasis.card or if it is not set, take default value 86400
228    LMDZ_t_coupl=${oasis_UserChoices_FreqCoupling:-86400}
229    IGCM_debug_Print 3 "LMDZ_t_coupl "   ${LMDZ_t_coupl}
230    IGCM_comp_modifyDefFile nonblocker config.def t_coupl   ${LMDZ_t_coupl} 
231
232    ##-- Add special treatement for CARBON CYCLE
233    if [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"control" ] || [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"historical" ] ; then
234        ATM_Carbon_Update
235    fi
236
237
238    ##-- Set LMDZ_COSP_daily1979=y in section UserChoices in lmdz.card to activate
239    ##   COSP daily output for years 1979 and later (mandatory for historical CMIP5 run).
240    if ([ X"${lmdz_UserChoices_LMDZ_COSP_daily1979}" = X"y" ] &&  [ ${year} -ge 1979 ]) ; then
241        LMDZ_COSP_daily=.TRUE.
242    fi
243
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
253    fi
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
263    fi
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}
267
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 ${LMDZ_COSP_hf}
277       
278
279    ## gcm.def parameters :
280    # Modification of variable iphysiq depending on the physics
281    if [ X${LMDZ_Physics} = X"AP" ] ; then
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
313    else
314        # Take default value set in gcm.def
315        value=DEFAULT
316    fi
317    IGCM_comp_modifyDefFile nonblocker gcm.def iphysiq $value
318   
319
320    ## run.def parameters
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
342    IGCM_comp_modifyDefFile blocker run.def dayref    ${InitDay}
343    IGCM_comp_modifyDefFile blocker run.def nday      ${PeriodLengthInDays}
344
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
349        IGCM_comp_modifyDefFile blocker run.def anneeref ${year}
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
354    else
355        # for case gcm : take first year of simulation
356        IGCM_comp_modifyDefFile blocker run.def anneeref ${InitYear}
357    fi
358
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"
365        IGCM_comp_modifyDefFile blocker run.def VEGET y
366    else
367        echo "No ORCHIDEE, set VEGET=n in run.def"
368        IGCM_comp_modifyDefFile blocker run.def VEGET n
369    fi
370
371    if [ X${config_ListOfComponents_CPL} = Xoasis ] ; then
372        echo "Activate coupling to ocean, set type_ocean=couple in run.def"
373        IGCM_comp_modifyDefFile blocker run.def type_ocean couple
374    else
375        echo "LMDZ is running in forced mode without ocean model, set type_ocean=force in run.def"
376        IGCM_comp_modifyDefFile blocker run.def type_ocean force
377    fi
378
379    if [ X${config_ListOfComponents_CHM} = Xinca ] ; then
380        echo "Activate coupling to INCA, set type_trac=inca in run.def"
381        IGCM_comp_modifyDefFile blocker run.def type_trac inca
382    elif [ X${config_ListOfComponents_CHM} = Xreprobus ] ; then
383        echo "Activate coupling to REPROBUS, set type_trac=repr in run.def"
384        IGCM_comp_modifyDefFile blocker run.def type_trac repr
385        IGCM_comp_modifyDefFile blocker run.def config_inca none
386    else
387        echo "No coupling to chemistry model, set type_trac=lmdz in run.def"
388        IGCM_comp_modifyDefFile blocker run.def type_trac lmdz
389        IGCM_comp_modifyDefFile blocker run.def config_inca none
390    fi
391
392
393    # config.def : Activate direct radiative effect if ok_ade=y
394    if [ ! X${lmdz_UserChoices_ok_ade} = X ]; then
395        IGCM_comp_modifyDefFile nonblocker config.def ok_ade ${lmdz_UserChoices_ok_ade}
396    else
397        IGCM_comp_modifyDefFile nonblocker config.def ok_ade n
398    fi 
399
400    # config.def : Activate indirect radiative effect if ok_aie=y
401    if [ ! X${lmdz_UserChoices_ok_aie} = X ]; then
402        IGCM_comp_modifyDefFile nonblocker config.def ok_aie ${lmdz_UserChoices_ok_aie}
403    else
404        IGCM_comp_modifyDefFile nonblocker config.def ok_aie n
405    fi 
406
407    # config.def : Activate online aerosol coupled model if aerosol_couple=y
408    if [ ! X${lmdz_UserChoices_aerosol_couple} = X ]; then
409        IGCM_comp_modifyDefFile nonblocker config.def aerosol_couple ${lmdz_UserChoices_aerosol_couple}
410    else
411        IGCM_comp_modifyDefFile nonblocker config.def aerosol_couple n
412    fi 
413
414    # config.def : Activate reading of ozone in climatology if read_climoz=2
415    if [ ! X${lmdz_UserChoices_read_climoz} = X ]; then
416        IGCM_comp_modifyDefFile nonblocker config.def read_climoz ${lmdz_UserChoices_read_climoz}
417    else
418        IGCM_comp_modifyDefFile nonblocker config.def read_climoz 0     
419    fi 
420
421    # config.def : Choose aerosol use in radiative effect
422    #  type of coupled aerosol =1 (default) =2 => bc  only =3 => pom only =4 => seasalt only
423    # =5 => dust only =6 => all aerosol   
424    if [ ! X${lmdz_UserChoices_flag_aerosol} = X ]; then
425        IGCM_comp_modifyDefFile nonblocker config.def flag_aerosol ${lmdz_UserChoices_flag_aerosol}
426    else
427        IGCM_comp_modifyDefFile nonblocker config.def flag_aerosol 0
428    fi 
429
430    # config.def : Activate calcul of Cloud droplet number concentration if ok_cdnc=y
431    if [ ! X${lmdz_UserChoices_ok_cdnc} = X ]; then
432        IGCM_comp_modifyDefFile nonblocker config.def ok_cdnc ${lmdz_UserChoices_ok_cdnc}
433    else
434        IGCM_comp_modifyDefFile nonblocker config.def ok_cdnc n
435    fi 
436
437    # config.def : Activate COSP
438    if [ ! X${lmdz_UserChoices_LMDZ_COSP_OK} = X ]; then
439        IGCM_comp_modifyDefFile nonblocker config.def ok_cosp ${lmdz_UserChoices_LMDZ_COSP_OK}
440    else
441        IGCM_comp_modifyDefFile nonblocker config.def ok_cosp n
442    fi 
443
444    # config.def : Modify parameter pmagic if it is set in lmdz.card
445    if [ ! X${lmdz_UserChoices_pmagic} = X ]; then
446        IGCM_comp_modifyDefFile nonblocker config.def pmagic ${lmdz_UserChoices_pmagic}
447    else
448        # Take default value set in config.def
449        IGCM_comp_modifyDefFile nonblocker config.def pmagic DEFAULT
450    fi 
451
452    # guide.def : Activate nudging if ok_guide=y set in lmdz.card
453    if [ ! X${lmdz_UserChoices_ok_guide} = X ] ; then
454        IGCM_comp_modifyDefFile nonblocker guide.def ok_guide  ${lmdz_UserChoices_ok_guide}
455    else
456        IGCM_comp_modifyDefFile nonblocker guide.def ok_guide n
457    fi
458
459    ## Read ByPass_hgardfou_teta option in lmdz.card --> divide teta* by 2 if [ $ByPass_hgardfou_teta = 1 ]
460    ByPass_hgardfou_teta=${lmdz_UserChoices_ByPass_hgardfou_teta}
461    if [ X"${ByPass_hgardfou_teta}" = X"y" ] ; then
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
469        IGCM_card_WriteOption ${SUBMIT_DIR}/COMP/lmdz.card UserChoices ByPass_hgardfou_teta "${ByPass_hgardfou_teta}"
470    fi
471
472    ## Read ByPass_hgardfou_mats option in lmdz.card --> purmats=y 2 if [ $ByPass_hgardfou_mats = 1 ]
473    ByPass_hgardfou_mats=${lmdz_UserChoices_ByPass_hgardfou_mats}
474    if [ X"${ByPass_hgardfou_mats}" = X"y" ] ; then
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
482        IGCM_card_WriteOption ${SUBMIT_DIR}/COMP/lmdz.card UserChoices ByPass_hgardfou_mats "${ByPass_hgardfou_mats}"
483    fi
484
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
492
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 ${file}.tmp
503        done
504        rm add.tmp
505    fi
506           
507    IGCM_debug_PopStack "ATM_Update"
508}
509
510#-----------------------------------
511function ATM_Finalize
512{
513    IGCM_debug_PushStack "ATM_Finalize"
514
515    # Add special treatement for CARBON CYCLE
516    if [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"control" ] || [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"historical" ] ; then
517        ATM_Carbon_Finalize
518    fi
519
520    echo FINALIZE ATM !
521
522    IGCM_debug_PopStack "ATM_Finalize"
523}
524
525
526
527function ATM_Carbon_Update
528{
529    # This fuction will be called only if CARBON_CYCLE is set to control or historical in lmdz.card
530
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 ${SUBMIT_DIR}/co2.log
555       
556        # Save CO2 values in ExeCpuLog variable contents 5 fields
557        echo "${InitPeriodCo2} ${InitDateBeginCo2} ${InitDateEndCo2} ${CO2_ppm} ${CO2_ppm_prec} ${fCO2_ff} ${CO2MBG} ${CO2SBG} ${CO2LU}" |   \
558            gawk '{printf("  %11d | %15s | %15s | %22.15g | %20.15g | %11.8g | %11.8g | %12.8g | %12.8g \n", \
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       
602    fi
603   
604    if [ ${lmdz_UserChoices_CARBON_CYCLE} = historical ] ; then
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}
608    fi
609    IGCM_debug_PopStack "ATM_Carbon_Update"
610}
611
612
613function 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"
660}
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