source: CONFIG/UNIFORM/v6/IPSLCM6.2/GENERAL/DRIVER/lmdz.driver @ 4633

Last change on this file since 4633 was 4633, checked in by acosce, 5 years ago

put flag_aerosol_strat in auto nonblocker mode

File size: 30.2 KB
Line 
1#!/bin/ksh
2#-----------------------------------------------------------------
3function ATM_Initialize
4{
5    IGCM_debug_PushStack "ATM_Initialize"
6
7    # Read the resolution from the variables ResolAtm set in config.card UserChoices section or from .resol file
8    if [ X$ResolAtm != X ] ; then
9        # ResolAtm is set in config.card
10        RESOL_ATM_3D=${ResolAtm}
11    elif [ -f ${SUBMIT_DIR}/../.resol ] ; then
12        # ResolAtm was not set in config.card, try to read .resol file
13        eval $(grep RESOL_ATM_3D ${SUBMIT_DIR}/../.resol) || RESOL_ATM_3D=96x95x39
14    else
15        IGCM_debug_Exit "ResolAtm is not set in config.card and the .resol file does not exist."
16        IGCM_debug_Verif_Exit
17    fi
18   
19    IGCM_debug_Print 1 "The atomsopheric resolution is ${RESOL_ATM_3D} " 
20
21    RESOL_ATM_Z=$( echo ${RESOL_ATM_3D} | awk "-Fx" '{print $3}' )
22    RESOL_ATM_X=$( echo ${RESOL_ATM_3D} | awk "-Fx" '{print $1}' )
23    RESOL_ATM_Y=$( echo ${RESOL_ATM_3D} | awk "-Fx" '{print $2}' )
24    RESOL_ATM_XY="${RESOL_ATM_X}x${RESOL_ATM_Y}"
25    RESOL_ATM=LMD${RESOL_ATM_X}${RESOL_ATM_Y}
26
27    ##- LMDZ physics version
28    ##  Read LMDZ_Physics option in lmdz.card, if not present take default value AP (old physics)
29    if [ ! X${lmdz_UserChoices_LMDZ_Physics} = X ] ; then
30        LMDZ_Physics=${lmdz_UserChoices_LMDZ_Physics}
31    else
32        LMDZ_Physics=AP
33    fi
34    echo LMDZ physics version : ${LMDZ_Physics}
35
36    ##- Create_etat0_limit version
37    ##  Define variable CREATE only if it is set in lmdz.card section UserChoices.
38    ##  This variable is only used in lmdz.card to choose input files.
39    if [ ! X${lmdz_UserChoices_CREATE} = X ] ; then
40        IGCM_card_DefineVariableFromOption ${SUBMIT_DIR}/COMP/lmdz.card UserChoices CREATE
41        CREATE=${lmdz_UserChoices_CREATE}
42        echo create_etat0_limit version : ${CREATE}
43    fi
44
45
46    ## - LMDZ choice of config.def file
47    ##   ConfType must be set in lmdz.card
48    ConfType=${lmdz_UserChoices_ConfType}
49
50    ##- LMDZ output level, to be set in lmdz.card
51    if [ X${lmdz_UserChoices_OutLevel} = X ] ; then
52        # OutLevel is not set. Take default value low.
53        OutLevel=low
54    else
55        OutLevel=${lmdz_UserChoices_OutLevel}
56    fi
57
58    ##-- Output frequency purpose ....
59    ##--  Initialisation  ....
60    ok_mensuel=.FALSE.
61    ok_journe=.FALSE.
62    ok_hf=.FALSE.
63    ok_hf3h=.FALSE.
64    ok_hf3hm=.FALSE.
65    ok_stn=.FALSE.
66
67
68    case ${config_UserChoices_PeriodLength} in
69        1Y|1y|1M|1m) ok_mensuel=.TRUE. ;;
70        5D|5d|1D|1d) ok_journe=.TRUE. ;;
71    esac
72
73    for frequency in ${config_ATM_WriteFrequency} ; do
74        case ${frequency} in
75            1M|1m) ok_mensuel=.TRUE. ;;
76        esac
77        case ${frequency} in
78            5D|5d|1D|1d) ok_journe=.TRUE. ;;
79        esac
80        case ${frequency} in
81            HF|hf) ok_hf=.TRUE. ;;
82        esac
83        case ${frequency} in
84            HF3h|hf3h) ok_hf3h=.TRUE. ;;
85        esac
86        case ${frequency} in
87            HF3hm|hf3hm) ok_hf3hm=.TRUE. ;;
88        esac
89        case ${frequency} in
90            STN|stn) ok_stn=.TRUE. ;;
91        esac
92    done
93
94
95##  Read LMDZ_COSP_OK in lmdz.card
96    if [ X${lmdz_UserChoices_LMDZ_COSP_OK} = Xy ] ; then
97        ##  LMDZ_COSP_OK=y, now read all other COSP variables
98        ##  Read LMDZ_COSP_monthly in lmdz.card
99        if [ X${lmdz_UserChoices_LMDZ_COSP_monthly} = Xy ] ; then
100            LMDZ_COSP_monthly=.TRUE.
101        else
102            LMDZ_COSP_monthly=.FALSE.
103        fi
104        ##  Read LMDZ_COSP_daily in lmdz.card
105        if [ X${lmdz_UserChoices_LMDZ_COSP_daily} = Xy ] ; then
106            LMDZ_COSP_daily=.TRUE.
107        else
108            LMDZ_COSP_daily=.FALSE.
109        fi
110        ##  Read LMDZ_COSP_hf in lmdz.card
111        if [ X${lmdz_UserChoices_LMDZ_COSP_hf} = Xy ] ; then
112            LMDZ_COSP_hf=.TRUE.
113        else
114            LMDZ_COSP_hf=.FALSE.
115        fi
116    else
117        # LMDZ_COSP_OK=n : All cosp output are deactivated
118        LMDZ_COSP_monthly=.FALSE.
119        LMDZ_COSP_daily=.FALSE.
120        LMDZ_COSP_hf=.FALSE.
121    fi 
122
123    ##  Read LMDZ_NMC_monthly in lmdz.card
124    if [ X${lmdz_UserChoices_LMDZ_NMC_monthly} = Xy ] ; then
125        LMDZ_NMC_monthly=.TRUE.
126    else
127        LMDZ_NMC_monthly=.FALSE.
128    fi
129   
130    ## Read LMDZ_NMC_daily in lmdz.card
131    if [ X${lmdz_UserChoices_LMDZ_NMC_daily} = Xy ] ; then
132        LMDZ_NMC_daily=.TRUE.
133    else
134        LMDZ_NMC_daily=.FALSE.
135    fi
136   
137    ## Read LMDZ_NMC_hf in lmdz.card
138    if [ X${lmdz_UserChoices_LMDZ_NMC_hf} = Xy ] ; then
139        LMDZ_NMC_hf=.TRUE.
140    else
141        LMDZ_NMC_hf=.FALSE.
142    fi
143
144    IGCM_debug_PopStack "ATM_Initialize"
145}
146
147#-----------------------------------------------------------------
148function ATM_Update
149{
150    IGCM_debug_PushStack "ATM_Update"
151
152    ##-- GHG forcing :
153    ##   If forcing file exist in run directory, read values for the current year
154    ##   and set in config.def. If not use the default value set in config.def
155
156    # Read value for solaire from file SOLARANDVOLCANOES.txt. If file not existing, take DEFAULT value from file.
157    IGCM_debug_Print 1 "Note that the solaire parameter is here below changed but it is only used by LMDZ for old physics(AP and NPv3.2)"
158    IGCM_debug_Print 1 "For newer physics with iflag_rrtm=1 and ok_suntime_rrtm=y, the solar constant is instead taken from solarforcing.nc file"
159    if [ -f SOLARANDVOLCANOES.txt ] ; then
160        value=`grep Annee_${year} SOLARANDVOLCANOES.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 SOLARANDVOLCANOES.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 solaire $value
170
171    # Read value for eccentricity from file Eccentricity.txt. If file not existing, take DEFAULT value from file.
172    if [ -f Eccentricity.txt ] ; then
173        value=`grep Annee_${year} Eccentricity.txt | awk -F= '{print $2}'`
174        if [ X"${value}" = X ] ; then
175            # The grep returned empty variable, stop execution
176            IGCM_debug_Exit "The file Eccentricity.txt do not contain the current year."
177            IGCM_debug_Verif_Exit
178        fi
179    else
180        value=DEFAULT
181    fi
182    IGCM_comp_modifyDefFile nonblocker config.def R_ecc $value
183
184    # Read value for obliquity from file Obliquity.txt. If file not existing, take DEFAULT value from file.
185    if [ -f Obliquity.txt ] ; then
186        value=`grep Annee_${year} Obliquity.txt | awk -F= '{print $2}'`
187        if [ X"${value}" = X ] ; then
188            # The grep returned empty variable, stop execution
189            IGCM_debug_Exit "The file Obliquity.txt do not contain the current year."
190            IGCM_debug_Verif_Exit
191        fi
192    else
193        value=DEFAULT
194    fi
195    IGCM_comp_modifyDefFile nonblocker config.def R_incl $value
196
197    # Read value for perihelie from file Perihelie.txt. If file not existing, take DEFAULT value from file.
198    if [ -f Perihelie.txt ] ; then
199        value=`grep Annee_${year} Perihelie.txt | awk -F= '{print $2}'`
200        if [ X"${value}" = X ] ; then
201            # The grep returned empty variable, stop execution
202            IGCM_debug_Exit "The file Perihelie.txt do not contain the current year."
203            IGCM_debug_Verif_Exit
204        fi
205    else
206        value=DEFAULT
207    fi
208    IGCM_comp_modifyDefFile nonblocker config.def R_peri $value
209
210    # Read value for co2_ppm from file CO2.txt. If file not existing, take DEFAULT value from file.
211    # Calculate co2_ppm_per as co2_ppm*4.
212    if [ -f CO2.txt ] ; then
213        value=`grep Annee_${year} CO2.txt | awk -F= '{print $2}'`
214        if [ X"${value}" = X ] ; then
215            # The grep returned empty variable, stop execution
216            IGCM_debug_Exit "The file CO2.txt do not contain the current year."
217            IGCM_debug_Verif_Exit
218        fi
219        value4=`grep Annee_${year} CO2.txt | awk -F= '{print $2 * 4}'`
220    else
221        value=DEFAULT
222        value4=DEFAULT
223    fi
224    IGCM_comp_modifyDefFile nonblocker config.def co2_ppm $value
225    IGCM_comp_modifyDefFile nonblocker config.def co2_ppm_per $value4
226
227
228    # Read value for CH4_ppb from file CH4.txt. If file not existing, take DEFAULT value from file.
229    if [ -f CH4.txt ] ; then
230        value=`grep Annee_${year} CH4.txt | awk -F= '{print $2}'`
231        if [ X"${value}" = X ] ; then
232            # The grep returned empty variable, stop execution
233            IGCM_debug_Exit "The file CH4.txt do not contain the current year."
234            IGCM_debug_Verif_Exit
235        fi
236    else
237        value=DEFAULT
238    fi
239    IGCM_comp_modifyDefFile nonblocker config.def CH4_ppb $value
240
241
242    # Read value for N2O_ppb from file N2O.txt. If file not existing, take DEFAULT value from file.
243    if [ -f N2O.txt ] ; then
244        value=`grep Annee_${year} N2O.txt | awk -F= '{print $2}'`
245        if [ X"${value}" = X ] ; then
246            # The grep returned empty variable, stop execution
247            IGCM_debug_Exit "The file N2O.txt do not contain the current year."
248            IGCM_debug_Verif_Exit
249        fi
250    else
251        value=DEFAULT
252    fi
253    IGCM_comp_modifyDefFile nonblocker config.def N2O_ppb $value
254
255    # Read value for CFC11_ppt from file CFC11.txt. If file not existing, take DEFAULT value from file.
256    if [ -f CFC11.txt ] ; then
257        value=`grep Annee_${year} CFC11.txt | awk -F= '{print $2}'`
258        if [ X"${value}" = X ] ; then
259            # The grep returned empty variable, stop execution
260            IGCM_debug_Exit "The file CFC11.txt do not contain the current year."
261            IGCM_debug_Verif_Exit
262        fi
263    else
264        value=DEFAULT
265    fi
266    IGCM_comp_modifyDefFile nonblocker config.def CFC11_ppt $value
267
268
269    # Read value for CFC12_ppt from file CFC12.txt. If file not existing, take DEFAULT value from file.
270    if [ -f CFC12.txt ] ; then
271        value=`grep Annee_${year} CFC12.txt | awk -F= '{print $2}'`
272        if [ X"${value}" = X ] ; then
273            # The grep returned empty variable, stop execution
274            IGCM_debug_Exit "The file CFC12.txt do not contain the current year."
275            IGCM_debug_Verif_Exit
276        fi
277    else
278        value=DEFAULT
279    fi
280    IGCM_comp_modifyDefFile nonblocker config.def CFC12_ppt $value
281
282
283    ## Coupling Time Step : Take value of FreqCoupling set in oasis.card or if it is not set, take default value 86400
284    LMDZ_t_coupl=${oasis_UserChoices_FreqCoupling:-86400}
285    IGCM_debug_Print 3 "LMDZ_t_coupl "   ${LMDZ_t_coupl}
286    IGCM_comp_modifyDefFile nonblocker config.def t_coupl   ${LMDZ_t_coupl} 
287
288    ##-- Add special treatement for CARBON CYCLE
289    if [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"control" ] || [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"historical" ] ; then
290        ATM_Carbon_Update
291    fi
292
293
294    ##-- Set LMDZ_COSP_daily1979=y in section UserChoices in lmdz.card to activate
295    ##   COSP daily output for years 1979 and later (mandatory for historical CMIP5 run).
296    if ([ X"${lmdz_UserChoices_LMDZ_COSP_daily1979}" = X"y" ] &&  [ ${year} -ge 1979 ]) ; then
297        LMDZ_COSP_daily=.TRUE.
298    fi
299
300    ## Modifiy
301    IGCM_comp_modifyXmlFile nonblocker file_def_histmth_lmdz.xml histmth enabled ${ok_mensuel}
302   
303    IGCM_comp_modifyXmlFile nonblocker file_def_histday_lmdz.xml histday enabled ${ok_journe}
304   
305    if [ X${OutLevel} = Xlow ] || [ X${OutLevel} = Xmedium ] ; then
306        IGCM_comp_modifyXmlFile nonblocker file_def_histday_lmdz.xml histday output_level 2
307    else
308        IGCM_comp_modifyXmlFile nonblocker file_def_histday_lmdz.xml histday output_level 5
309    fi
310   
311    IGCM_comp_modifyXmlFile nonblocker file_def_histhf_lmdz.xml histhf enabled ${ok_hf}
312   
313    if [ X${OutLevel} = Xlow ] ; then
314        IGCM_comp_modifyXmlFile nonblocker file_def_histhf_lmdz.xml histhf output_level 5
315    elif [ X${OutLevel} = Xmedium ] ; then
316        IGCM_comp_modifyXmlFile nonblocker file_def_histhf_lmdz.xml histhf output_level 6
317    elif [ X${OutLevel} = Xhigh ] ; then
318        IGCM_comp_modifyXmlFile nonblocker file_def_histhf_lmdz.xml histhf output_level 7
319    fi
320       
321    IGCM_comp_modifyXmlFile nonblocker file_def_histhf3h_lmdz.xml histhf3h enabled ${ok_hf3h}
322    IGCM_comp_modifyXmlFile nonblocker file_def_histhf3hm_lmdz.xml histhf3hm enabled ${ok_hf3hm}
323
324    IGCM_comp_modifyXmlFile nonblocker file_def_histstn_lmdz.xml histstn enabled ${ok_stn}
325
326    IGCM_comp_modifyXmlFile nonblocker file_def_histmthNMC_lmdz.xml histmthNMC enabled ${LMDZ_NMC_monthly}
327    IGCM_comp_modifyXmlFile nonblocker file_def_histdayNMC_lmdz.xml histdayNMC enabled ${LMDZ_NMC_daily}
328    IGCM_comp_modifyXmlFile nonblocker file_def_histhfNMC_lmdz.xml histhfNMC enabled ${LMDZ_NMC_hf}
329   
330    IGCM_comp_modifyXmlFile nonblocker file_def_histmthCOSP_lmdz.xml histmthCOSP enabled ${LMDZ_COSP_monthly}
331    IGCM_comp_modifyXmlFile nonblocker file_def_histdayCOSP_lmdz.xml histdayCOSP enabled ${LMDZ_COSP_daily}
332    IGCM_comp_modifyXmlFile nonblocker file_def_histhfCOSP_lmdz.xml histhfCOSP enabled ${LMDZ_COSP_hf}
333
334    # Activate the histstrataer output file only for configuration with interactive stratospheric aersols
335    # done by setting the key word LMDZ_strataero=y in lmdz.card
336    if [ X${lmdz_UserChoices_LMDZ_strataero} = Xy ] ; then
337        IGCM_comp_modifyXmlFile nonblocker file_def_histstrataer_lmdz.xml histstrataer enabled .TRUE.
338    else
339        IGCM_comp_modifyXmlFile nonblocker file_def_histstrataer_lmdz.xml histstrataer enabled .FALSE.
340    fi
341
342
343    ## run.def parameters
344
345
346    ##-- Remise ou non a zero de la date initiale de LMDZ pour le fichier run.def
347    if [ ${CumulPeriod} -eq 1 ] ; then
348        IGCM_comp_modifyDefFile blocker run.def raz_date  1
349    else
350        IGCM_comp_modifyDefFile blocker run.def raz_date  0
351    fi
352
353    ##-- Calendar type for LMDZ and create_etat0_limit
354    case ${config_UserChoices_CalendarType} in
355        leap|gregorian)
356            IGCM_comp_modifyDefFile blocker run.def calend  gregorian ;;
357        noleap)
358            IGCM_comp_modifyDefFile blocker run.def calend  earth_365d ;;
359        360d)
360            IGCM_comp_modifyDefFile blocker run.def calend  earth_360d ;;
361        *)
362            IGCM_comp_modifyDefFile blocker run.def calend  earth_360d ;;
363    esac
364
365    IGCM_comp_modifyDefFile blocker run.def dayref    ${InitDay}
366    IGCM_comp_modifyDefFile blocker run.def nday      ${PeriodLengthInDays}
367
368    # Set anneeref different for gcm and ce0l
369    # Test if executable create_etat0_limit is present and lmdz.x is not present
370    if [ -f create_etat0_limit* ] || [ -f ce0l* ] && [ ! -f lmdz.x ] ; then
371        # for case ce0l : always take current year
372        IGCM_comp_modifyDefFile blocker run.def anneeref ${year}
373
374        # Temporary, set use_filtre_fft=n because we now use dyn3d for ce0l version where fft is not implemented.
375        # In more recent versions of LMDZ, this will not be needed.
376        IGCM_comp_modifyDefFile force   run.def use_filtre_fft n
377    else
378        # for case gcm : take first year of simulation
379        IGCM_comp_modifyDefFile blocker run.def anneeref ${InitYear}
380    fi
381
382    ## Determine from the variable ListOfComponents in config.card coupling to external models
383    ## and set corresponding parameters in run.def
384    echo ListOfComponents now running : ${config_ListOfComponents[*]}
385
386    if [ X${config_ListOfComponents_SRF} = Xorchidee ] ; then
387        echo "Activate ORCHIDEE, set VEGET=y in run.def"
388        IGCM_comp_modifyDefFile blocker run.def VEGET y
389    else
390        echo "No ORCHIDEE, set VEGET=n in run.def"
391        IGCM_comp_modifyDefFile blocker run.def VEGET n
392    fi
393
394    if [ X${config_ListOfComponents_CPL} = Xoasis ] ; then
395        echo "Activate coupling to ocean, set type_ocean=couple in run.def"
396        IGCM_comp_modifyDefFile blocker run.def type_ocean couple
397    else
398        echo "LMDZ is running in forced mode without ocean model, set type_ocean=force in run.def"
399        IGCM_comp_modifyDefFile nonblocker run.def type_ocean force
400    fi
401
402    if [ X${config_ListOfComponents_CHM} = Xinca ] ; then
403        echo "Activate coupling to INCA, set type_trac=inca in run.def"
404        IGCM_comp_modifyDefFile blocker run.def type_trac inca
405    elif [ X${config_ListOfComponents_CHM} = Xreprobus ] ; then
406        echo "Activate coupling to REPROBUS, set type_trac=repr in run.def"
407        IGCM_comp_modifyDefFile blocker run.def type_trac repr
408        IGCM_comp_modifyDefFile blocker run.def config_inca none
409    elif [ X${config_UserChoices_ConfigType} = XESMCO2 ] ; then
410        echo "ESM config, set type_trac=co2i in run.def"
411        IGCM_comp_modifyDefFile blocker run.def type_trac co2i
412        IGCM_comp_modifyDefFile blocker run.def config_inca none
413    else
414        echo "No coupling to chemistry model, set type_trac=lmdz in run.def"
415        IGCM_comp_modifyDefFile blocker run.def type_trac lmdz
416        IGCM_comp_modifyDefFile blocker run.def config_inca none
417    fi
418
419
420    # run.def : Activate the call to phytrac
421    if [ ! X${lmdz_UserChoices_iflag_phytrac} = X ]; then
422        IGCM_comp_modifyDefFile nonblocker run.def iflag_phytrac ${lmdz_UserChoices_iflag_phytrac}
423    elif [ X${config_UserChoices_ConfigType} = XESMCO2 ] ; then
424        IGCM_comp_modifyDefFile blocker run.def iflag_phytrac 1 
425    else
426        IGCM_comp_modifyDefFile nonblocker run.def iflag_phytrac DEFAULT
427    fi 
428
429    # run.def : Activate the new calving
430    if [ ! X${lmdz_UserChoices_cpl_old_calving} = X ]; then
431        IGCM_comp_modifyDefFile nonblocker run.def cpl_old_calving ${lmdz_UserChoices_cpl_old_calving}
432    else
433        IGCM_comp_modifyDefFile nonblocker run.def cpl_old_calving y
434    fi 
435
436    # physiq.def : Activate the call to phytrac
437    if [ ! X${lmdz_UserChoices_ok_bug_cv_trac} = X ]; then
438        IGCM_comp_modifyDefFile nonblocker physiq.def ok_bug_cv_trac  ${lmdz_UserChoices_ok_bug_cv_trac}
439    else
440        IGCM_comp_modifyDefFile nonblocker physiq.def ok_bug_cv_trac  n
441    fi 
442
443    # config.def : Activate aerosol strato
444    if [ ! X${lmdz_UserChoices_flag_aerosol_strat} = X ]; then
445        IGCM_comp_modifyDefFile nonblocker config.def flag_aerosol_strat ${lmdz_UserChoices_flag_aerosol_strat}
446    else
447        IGCM_comp_modifyDefFile nonblocker config.def flag_aerosol_strat DEFAULT
448    fi 
449
450    # config.def : Activate direct radiative effect if ok_ade=y
451    if [ ! X${lmdz_UserChoices_ok_ade} = X ]; then
452        IGCM_comp_modifyDefFile nonblocker config.def ok_ade ${lmdz_UserChoices_ok_ade}
453    else
454        IGCM_comp_modifyDefFile nonblocker config.def ok_ade n
455    fi 
456
457    # config.def : Activate indirect radiative effect if ok_aie=y
458    if [ ! X${lmdz_UserChoices_ok_aie} = X ]; then
459        IGCM_comp_modifyDefFile nonblocker config.def ok_aie ${lmdz_UserChoices_ok_aie}
460    else
461        IGCM_comp_modifyDefFile nonblocker config.def ok_aie n
462    fi 
463
464    # config.def : Activate online aerosol coupled model if aerosol_couple=y
465    if [ ! X${lmdz_UserChoices_aerosol_couple} = X ]; then
466        IGCM_comp_modifyDefFile nonblocker config.def aerosol_couple ${lmdz_UserChoices_aerosol_couple}
467    else
468        IGCM_comp_modifyDefFile nonblocker config.def aerosol_couple n
469    fi 
470
471    # config.def : Activate online Ozone chemistry coupled model if chemistry_couple=y
472    if [ ! X${lmdz_UserChoices_chemistry_couple} = X ]; then
473        IGCM_comp_modifyDefFile nonblocker config.def chemistry_couple ${lmdz_UserChoices_chemistry_couple}
474    else
475        IGCM_comp_modifyDefFile nonblocker config.def chemistry_couple n
476    fi 
477
478    # config.def : Activate reading of ozone in climatology if read_climoz=2
479    if [ ! X${lmdz_UserChoices_read_climoz} = X ]; then
480        IGCM_comp_modifyDefFile nonblocker config.def read_climoz ${lmdz_UserChoices_read_climoz}
481    else
482        IGCM_comp_modifyDefFile nonblocker config.def read_climoz 0     
483    fi 
484
485    # config.def : Choose aerosol use in radiative effect
486    #  type of coupled aerosol =1 (default) =2 => bc  only =3 => pom only =4 => seasalt only
487    # =5 => dust only =6 => all aerosol   
488    if [ ! X${lmdz_UserChoices_flag_aerosol} = X ]; then
489        IGCM_comp_modifyDefFile nonblocker config.def flag_aerosol ${lmdz_UserChoices_flag_aerosol}
490    else
491        IGCM_comp_modifyDefFile nonblocker config.def flag_aerosol 0
492    fi 
493
494    # config.def : Activate calcul of Cloud droplet number concentration if ok_cdnc=y
495    if [ ! X${lmdz_UserChoices_ok_cdnc} = X ]; then
496        IGCM_comp_modifyDefFile nonblocker config.def ok_cdnc ${lmdz_UserChoices_ok_cdnc}
497    else
498        IGCM_comp_modifyDefFile nonblocker config.def ok_cdnc n
499    fi 
500
501    # config.def : Activate COSP
502    if [ ! X${lmdz_UserChoices_LMDZ_COSP_OK} = X ]; then
503        IGCM_comp_modifyDefFile nonblocker config.def ok_cosp ${lmdz_UserChoices_LMDZ_COSP_OK}
504    else
505        IGCM_comp_modifyDefFile nonblocker config.def ok_cosp n
506    fi 
507
508    # config.def : Modify parameter pmagic if it is set in lmdz.card
509    if [ ! X${lmdz_UserChoices_pmagic} = X ]; then
510        IGCM_comp_modifyDefFile nonblocker config.def pmagic ${lmdz_UserChoices_pmagic}
511    else
512        # Take default value set in config.def
513        IGCM_comp_modifyDefFile nonblocker config.def pmagic DEFAULT
514    fi
515
516    if [ X${config_UserChoices_ConfigType} = XESMCO2 ] ; then
517        # Set carbon cycle parameters according to parmeters in lmdz.card
518        IGCM_comp_modifyDefFile blocker config.def level_coupling_esm 2
519        IGCM_comp_modifyDefFile blocker config.def carbon_cycle_cpl ${lmdz_UserChoices_carbon_cycle_cpl} 
520        IGCM_comp_modifyDefFile blocker config.def carbon_cycle_tr ${lmdz_UserChoices_carbon_cycle_tr}
521        IGCM_comp_modifyDefFile blocker config.def carbon_cycle_rad ${lmdz_UserChoices_carbon_cycle_rad}
522    else
523        # Take default value set in config.def
524        IGCM_comp_modifyDefFile nonblocker config.def level_coupling_esm DEFAULT
525        IGCM_comp_modifyDefFile nonblocker config.def carbon_cycle_cpl DEFAULT
526        IGCM_comp_modifyDefFile nonblocker config.def carbon_cycle_tr DEFAULT
527        IGCM_comp_modifyDefFile nonblocker config.def carbon_cycle_rad DEFAULT
528    fi
529
530    # physiq.def : Modify parameter tau_gl if it is set in lmdz.card
531    if [ ! X${lmdz_UserChoices_tau_gl} = X ]; then
532        IGCM_comp_modifyDefFile nonblocker physiq.def tau_gl ${lmdz_UserChoices_tau_gl}
533    else
534        # Take default value set in physiq.def
535        IGCM_comp_modifyDefFile nonblocker physiq.def tau_gl DEFAULT
536    fi
537   
538
539    # guide.def : Activate nudging if ok_guide=y set in lmdz.card
540    if [ ! X${lmdz_UserChoices_ok_guide} = X ] ; then
541        IGCM_comp_modifyDefFile nonblocker guide.def ok_guide  ${lmdz_UserChoices_ok_guide}
542    else
543        IGCM_comp_modifyDefFile nonblocker guide.def ok_guide n
544    fi
545
546
547    ## Read ByPass_hgardfou_teta option in lmdz.card --> divide teta* by 2 if [ $ByPass_hgardfou_teta = 1 ]
548    ByPass_hgardfou_teta=${lmdz_UserChoices_ByPass_hgardfou_teta}
549    if [ X"${ByPass_hgardfou_teta}" = X"y" ] ; then
550        awk '{ if ($0 ~ /^teta.*=/) {split($0,a,"=") ; print a[1]"="a[2]/2"."} else print $0}' gcm.def > gcm.def.tmp
551        IGCM_sys_Mv gcm.def.tmp gcm.def
552        echo
553        IGCM_debug_Print 1 "ByPass_hgardfou_teta : ^teta*/2 in gcm.def"
554        echo
555        cat gcm.def
556        ByPass_hgardfou_teta=n
557        IGCM_card_WriteOption ${SUBMIT_DIR}/COMP/lmdz.card UserChoices ByPass_hgardfou_teta "${ByPass_hgardfou_teta}"
558    fi
559
560    ## Read ByPass_hgardfou_mats option in lmdz.card --> purmats=y 2 if [ $ByPass_hgardfou_mats = 1 ]
561    ByPass_hgardfou_mats=${lmdz_UserChoices_ByPass_hgardfou_mats}
562    if [ X"${ByPass_hgardfou_mats}" = X"y" ] ; then
563        sed -e "s/^purmats=.*/purmats=y/" gcm.def > gcm.def.tmp
564        IGCM_sys_Mv gcm.def.tmp gcm.def
565        echo
566        IGCM_debug_Print 1 "ByPass_hgardfou_mats : purmats=y in gcm.def"
567        echo
568        cat gcm.def
569        ByPass_hgardfou_mats=n
570        IGCM_card_WriteOption ${SUBMIT_DIR}/COMP/lmdz.card UserChoices ByPass_hgardfou_mats "${ByPass_hgardfou_mats}"
571    fi
572
573    # Add include of LMDZ context in iodef.xml
574    # In iodef.xml add on the next line after "COMPONENT CONTEXT"
575    echo '<context id="LMDZ" src="./context_lmdz.xml"/>' > add.tmp
576    # Add inclusion of file context_input_lmdz.xml if this file exists
577    if [ -f context_input_lmdz.xml ] ; then
578        echo '<context id="LMDZ" src="./context_input_lmdz.xml"/>' >> add.tmp
579    fi
580    # Include xml files for output configuration if running with workflow CMIP6
581    if [ X"$( echo ${config_UserChoices_ExpType} | grep CMIP6 )" != "X" ] ; then
582        echo '<context id="LMDZ" src="./ping_lmdz.xml"/>' >> add.tmp
583        echo '<context id="LMDZ" src="./dr2xml_lmdz.xml"/>' >> add.tmp
584    fi
585    cp iodef.xml iodef.xml.tmp
586    sed -e "/COMPONENT CONTEXT/r add.tmp" iodef.xml.tmp > iodef.xml
587    rm iodef.xml.tmp add.tmp
588
589    #Long Name as global attribute (if LongName is not empty)
590    if [ ! "X${config_UserChoices_LongName}" = "X" ] ; then
591        listfile=$(ls file_def*lmdz.xml)
592        echo "<variable id=\"LongName\" type=\"string\">${config_UserChoices_LongName}</variable>" > add.tmp
593        for file in ${listfile}
594        do
595            cp ${file} ${file}.tmp
596            sed -e "/<file id/r add.tmp" \
597                ${file}.tmp > ${file}
598            rm ${file}.tmp
599        done
600        rm add.tmp
601    fi
602
603    #Compression level (if CompressionLevel is not empty)
604    if [ ! "X${config_UserChoices_CompressionLevel}" = "X" ] ; then
605    echo "NetCDF output files compression level is " ${config_UserChoices_CompressionLevel}
606    listfile=$(ls file_def*lmdz.xml)
607    for file in ${listfile}
608    do
609        sed -i -e "s/\(compression_level=\"\)[^\"]*\(\"\)/\1${config_UserChoices_CompressionLevel}\2/" ${file}
610    done
611    fi
612
613           
614    IGCM_debug_PopStack "ATM_Update"
615}
616
617#-----------------------------------
618function ATM_Finalize
619{
620    IGCM_debug_PushStack "ATM_Finalize"
621
622    # Add special treatement for CARBON CYCLE
623    if [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"control" ] || [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"historical" ] ; then
624        ATM_Carbon_Finalize
625    fi
626
627    echo FINALIZE ATM !
628
629    IGCM_debug_PopStack "ATM_Finalize"
630}
631
632
633
634function ATM_Carbon_Update
635{
636    # This fuction will be called only if CARBON_CYCLE is set to control or historical in lmdz.card
637
638    IGCM_debug_PushStack "ATM_Carbon_Update"
639
640    typeset InitPeriodCo2 InitDateBeginCo2 InitDateEndCo2
641    typeset CO2SBG CO2MBG CO2LU CO2_ppm CO2_ppm_prec fCO2_ff
642    typeset PathCO2log
643    typeset PreviousLinelog LastPeriodDateBegin LastPeriodDateEnd LastDatesPeriod LastPREFIX
644   
645    if ( ${FirstInitialize} && [ X"${config_ATM_Restart}" = X"n" ] ) ; then
646        ##--Initialization of fluxes to an undefined value at the first run
647        UndefinedValueCo2=-9999
648        InitPeriodCo2=0
649        InitDateBeginCo2=${UndefinedValueCo2}
650        InitYearCo2=$(( ${year} - 1 )) 
651        InitDateEndCo2=${InitYearCo2}1231
652        fCO2_ff=${UndefinedValueCo2} 
653        CO2SBG=${UndefinedValueCo2}
654        CO2LU=${UndefinedValueCo2}
655        CO2MBG=${UndefinedValueCo2}
656        CO2_ppm_prec=${UndefinedValueCo2}
657        # Get the initial value of atmosp. pco2
658        CO2_ppm=${lmdz_UserChoices_co2_init}
659       
660        IGCM_sys_Cp ${SUBMIT_DIR}/co2.log.init ${SUBMIT_DIR}/co2.log
661        IGCM_sys_Chmod u+w ${SUBMIT_DIR}/co2.log
662       
663        # Save CO2 values in ExeCpuLog variable contents 5 fields
664        echo "${InitPeriodCo2} ${InitDateBeginCo2} ${InitDateEndCo2} ${CO2_ppm} ${CO2_ppm_prec} ${fCO2_ff} ${CO2MBG} ${CO2SBG} ${CO2LU}" |   \
665            gawk '{printf("  %11d | %15s | %15s | %22.15g | %20.15g | %11.8g | %11.8g | %12.8g | %12.8g \n", \
666                              $1,$2,$3,$4,$5,$6,$7,$8,$9)}' >> ${SUBMIT_DIR}/co2.log
667       
668        # Get the path where the log file co2.log is
669        PathCO2log=${SUBMIT_DIR} 
670        # Get Previous line in co2.log
671        PreviousLinelog=$( tail -1 ${PathCO2log}/co2.log )
672       
673    else
674       
675        # NEW parameter in config.card (even for Overule all restarts, you must modify the line after this comment ):
676        # !! NEW for Carbone cycle !! Path where to find old co2.log file for restart CO2.
677        #SubmitRestartPath=
678        if ( ${FirstInitialize} && [ X"${config_ATM_Restart}" = X"y" ] ) ; then
679            IGCM_card_DefineVariableFromOption ${SUBMIT_DIR}/config.card ATM SubmitRestartPath
680            PathCO2log=${config_ATM_SubmitRestartPath}
681            Date_r=$( IGCM_date_ConvertFormatToGregorian ${config_ATM_RestartDate} )
682            PreviousLinelog=$( grep ${Date_r} ${PathCO2log}/co2.log )
683           
684            IGCM_sys_Cp ${SUBMIT_DIR}/co2.log.init ${SUBMIT_DIR}/co2.log
685            IGCM_sys_Chmod u+w ${SUBMIT_DIR}/co2.log
686           
687            # Save Last Line of control in new co2.log file
688            InitPeriodCo2=0   
689            InitDateBeginCo2=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $2}' )
690            InitDateEndCo2=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $3}' )
691            fCO2_ff=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $6}' )
692            CO2SBG=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $8}' )
693            CO2LU=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $9}' )
694            CO2MBG=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $7}' )
695            CO2_ppm_prec=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $5}' )
696            CO2_ppm=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $4}' )
697           
698            echo "${InitPeriodCo2} ${InitDateBeginCo2} ${InitDateEndCo2} ${CO2_ppm} ${CO2_ppm_prec} ${fCO2_ff} ${CO2MBG} ${CO2SBG} ${CO2LU}" |   \
699                gawk '{printf("  %11d | %15s | %15s | %22.15g | %20.15g | %11.8g | %11.8g | %12.8g | %12.8g \n", \
700                              $1,$2,$3,$4,$5,$6,$7,$8,$9)}' >> ${SUBMIT_DIR}/co2.log
701        else
702           # Get restart line in co2.log
703            PathCO2log=${SUBMIT_DIR}
704            PreviousLinelog=$( tail -1 ${PathCO2log}/co2.log )
705           # Get the value of atmosp. pco2 in co2.log
706            CO2_ppm=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $4}' )
707        fi
708       
709    fi
710   
711    if [ ${lmdz_UserChoices_CARBON_CYCLE} = historical ] ; then
712        # Modify co2_ppm in config.def only for historical run
713        # If not historical run, keep co2_ppm value set earlier by IGCM_comp_modifyDefFile
714        IGCM_comp_modifyDefFile force config.def co2_ppm     ${CO2_ppm}
715    fi
716    IGCM_debug_PopStack "ATM_Carbon_Update"
717}
718
719
720function ATM_Carbon_Finalize
721{
722    # This fuction will be called only if CARBON_CYCLE is set to control or historical in lmdz.card
723
724    IGCM_debug_PushStack "ATM_Carbon_Finalize"
725
726    typeset CO2SBG_3V CO2SBG CO2MBG CO2SRF CO2LU CO2_ppm CO2_ppm_prec fCO2_ff
727   
728        # Fossil fuel emission
729    if [ ${lmdz_UserChoices_CARBON_CYCLE} = control ] ; then
730            # For Control, no fossil fuel emission :
731        fCO2_ff=0
732        echo "Fossil Fuel for control run  :" ${fCO2_ff}
733    else
734            # For historical, get the fossile fuel file :
735        fCO2_ff=$( gawk "{if (match(\$0,\"${year}\ *${month}\")) {print \$3}}" ${SUBMIT_DIR}/PARAM/CMIP5_gridcar_CO2_emissions_fossil_fuel_Andres_1751-2007_monthly_SC.txt )
736        echo "Fossil Fuel for historical run  :" ${fCO2_ff}
737    fi
738   
739        # Get the value of ocean carbon flux
740    CO2MBG=$( ${SUBMIT_DIR}/COMP/lmdz_analyse_pisces_out.awk ocean.output )
741    CO2MBG=$( echo ${CO2MBG} | sed -e "s/ *//" )
742    echo "Ocean carbon flux  :" ${CO2MBG}
743   
744        # Get the value of land fluxes
745    set +A CO2SBG_3V -- $( ${SUBMIT_DIR}/COMP/lmdz_analyse_stomate_out.awk out_orchidee_0000 )
746    CO2SRF=$( echo ${CO2SBG_3V[0]} | sed -e "s/ *//" )
747    CO2LU=$( echo ${CO2SBG_3V[1]} | sed -e "s/ *//" )
748    CO2SBG=$( echo ${CO2SBG_3V[2]} | sed -e "s/ *//" )
749    echo "Land carbon flux (NEP)         :" ${CO2SRF}
750    echo "LU flux          (FLUC)        :" ${CO2LU}
751    echo "Total Land carbon flux (NBP)   :" ${CO2SBG}
752   
753        # Previous CO2
754    CO2_ppm_prec=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $4}' )
755    echo "Previous CO2  :" ${CO2_ppm_prec}
756   
757        # Formula
758    CO2_ppm=$( echo "${CO2_ppm_prec} + (${fCO2_ff} + ${CO2MBG} + ${CO2SBG}) / 2.12" | bc -l )
759    echo "New CO2  :" ${CO2_ppm}
760   
761        # Save CO2 values in ExeCpuLog variable contents 5 fields
762    echo "${CumulPeriod} ${PeriodDateBegin} ${PeriodDateEnd} ${CO2_ppm} ${CO2_ppm_prec} ${fCO2_ff} ${CO2MBG} ${CO2SBG} ${CO2LU}" |   \
763        gawk '{printf("  %11d | %15s | %15s | %22.15g | %20.15g | %11.8g | %11.8g | %12.8g | %12.8g \n", \
764                           $1,$2,$3,$4,$5,$6,$7,$8,$9)}' >> ${SUBMIT_DIR}/co2.log
765   
766    IGCM_debug_PopStack "ATM_Carbon_Finalize"
767}
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