source: CONFIG/UNIFORM/v6/IPSLCM6CHT/GENERAL/DRIVER/lmdz.driver @ 2477

Last change on this file since 2477 was 2477, checked in by jgipsl, 10 years ago

Propagate previous commite rev 2476 to the other v6 configurations.
File size: 32.9 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    ##-- Calendar type for LMDZ and create_etat0_limit
17    case ${config_UserChoices_CalendarType} in
18        leap|gregorian)
19            CalendarTypeForLmdz=earth_366d
20            CalendarTypeForCreate=gregorian;;
21        noleap)
22            CalendarTypeForLmdz=earth_365d
23            CalendarTypeForCreate=${CalendarTypeForLmdz};;
24        360d)
25            CalendarTypeForLmdz=earth_360d
26            CalendarTypeForCreate=${CalendarTypeForLmdz};;
27        *)
28            CalendarTypeForLmdz=earth_360d
29            CalendarTypeForCreate=${CalendarTypeForLmdz}
30    esac
31
32    ##- LMDZ physics version
33    ##  Read LMDZ_Physics option in lmdz.card, if not present take default value AP (old physics)
34    if [ ! X${lmdz_UserChoices_LMDZ_Physics} = X ] ; then
35        LMDZ_Physics=${lmdz_UserChoices_LMDZ_Physics}
36    else
37        LMDZ_Physics=AP
38    fi
39    echo LMDZ physics version : ${LMDZ_Physics}
40
41    ##- Create_etat0_limit version
42    ##  Define variable CREATE only if it is set in lmdz.card section UserChoices.
43    ##  This variable is only used in lmdz.card to choose input files.
44    if [ ! X${lmdz_UserChoices_CREATE} = X ] ; then
45        IGCM_card_DefineVariableFromOption ${SUBMIT_DIR}/COMP/lmdz.card UserChoices CREATE
46        CREATE=${lmdz_UserChoices_CREATE}
47        echo create_etat0_limit version : ${CREATE}
48    fi
49
50
51    ## - LMDZ choice of config.def file
52    ##   ConfType must be set in lmdz.card
53    ConfType=${lmdz_UserChoices_ConfType}
54
55    ##- LMDZ output level, to be set in lmdz.card
56    if [ X${lmdz_UserChoices_OutLevel} = X ] ; then
57        # OutLevel is not set. Take default value low.
58        OutLevel=low
59    else
60        OutLevel=${lmdz_UserChoices_OutLevel}
61    fi
62
63    ##-- Output frequency purpose ....
64    ##--  Initialisation  ....
65    ok_mensuel=n
66    ok_journe=n
67    ok_hf=n
68    ok_hf3h=n
69    ok_hf3hm=n
70    ok_stn=n
71
72    case ${config_UserChoices_PeriodLength} in
73        1Y|1y|1M|1m) ok_mensuel=y ;;
74        5D|5d|1D|1d) ok_journe=y ;;
75    esac
76
77    for frequency in ${config_ATM_WriteFrequency} ; do
78        case ${frequency} in
79            1M|1m) ok_mensuel=y ;;
80        esac
81        case ${frequency} in
82            5D|5d|1D|1d) ok_journe=y ;;
83        esac
84        case ${frequency} in
85            HF|hf) ok_hf=y ;;
86        esac
87        case ${frequency} in
88            HF3h|hf3h) ok_hf3h=y ;;
89        esac
90        case ${frequency} in
91            HF3hm|hf3hm) ok_hf3hm=y ;;
92        esac
93        case ${frequency} in
94            STN|stn) ok_stn=y ;;
95        esac
96    done
97
98    ## Read LMDZ_NbPeriod_adjust option in lmdz.card
99    if [ X"${lmdz_UserChoices_LMDZ_NbPeriod_adjust}" = X"" ] ; then
100        # The variable is not in lmdz.card, set default value
101        LMDZ_NbPeriod_adjust=0
102    else       
103        LMDZ_NbPeriod_adjust=${lmdz_UserChoices_LMDZ_NbPeriod_adjust}
104    fi
105
106    if [ ${LMDZ_NbPeriod_adjust} -eq 0 ] ; then
107        LMDZ_Bands_file_name=${lmdz_UserChoices_LMDZ_Bands_file_name}
108    fi
109
110
111    ##  Read LMDZ_COSP_OK in lmdz.card
112    if [ ! X${lmdz_UserChoices_LMDZ_COSP_OK} = X ] ; then
113        LMDZ_COSP_OK=${lmdz_UserChoices_LMDZ_COSP_OK}
114    else
115        LMDZ_COSP_OK=n
116    fi
117    ##  Read LMDZ_COSP_monthly in lmdz.card
118    if [ ! X${lmdz_UserChoices_LMDZ_COSP_monthly} = X ] ; then
119        LMDZ_COSP_monthly=${lmdz_UserChoices_LMDZ_COSP_monthly}
120    else
121        LMDZ_COSP_monthly=n
122    fi
123    ##  Read LMDZ_COSP_daily in lmdz.card
124    if [ ! X${lmdz_UserChoices_LMDZ_COSP_daily} = X ] ; then
125        LMDZ_COSP_daily=${lmdz_UserChoices_LMDZ_COSP_daily}
126    else
127        LMDZ_COSP_daily=n
128    fi
129    ##  Read LMDZ_COSP_hf in lmdz.card
130    if [ ! X${lmdz_UserChoices_LMDZ_COSP_hf} = X ] ; then
131        LMDZ_COSP_hf=${lmdz_UserChoices_LMDZ_COSP_hf}
132    else
133        LMDZ_COSP_hf=n
134    fi
135
136    ##  Read LMDZ_NMC_monthly in lmdz.card
137    if [ ! X${lmdz_UserChoices_LMDZ_NMC_monthly} = X ] ; then
138        LMDZ_NMC_monthly=${lmdz_UserChoices_LMDZ_NMC_monthly}
139    else
140        LMDZ_NMC_monthly=n
141    fi
142
143    ## Read LMDZ_NMC_daily in lmdz.card
144    if [ ! X${lmdz_UserChoices_LMDZ_NMC_daily} = X ] ; then
145        LMDZ_NMC_daily=${lmdz_UserChoices_LMDZ_NMC_daily}
146    else
147        LMDZ_NMC_daily=n
148    fi
149   
150    ## Read LMDZ_NMC_hf in lmdz.card
151    if [ ! X${lmdz_UserChoices_LMDZ_NMC_hf} = X ] ; then
152        LMDZ_NMC_hf=${lmdz_UserChoices_LMDZ_NMC_hf}
153    else
154        LMDZ_NMC_hf=n
155    fi
156
157
158    IGCM_debug_PopStack "ATM_Initialize"
159}
160
161#-----------------------------------------------------------------
162function ATM_Update
163{
164    IGCM_debug_PushStack "ATM_Update"
165
166
167    case ${config_UserChoices_PeriodLength} in
168        *Y|*y) 
169               LMDZ_ecrit_ISCCP=30.
170               LMDZ_periodav=30.
171               if [ "${config_UserChoices_CalendarType}" != "360d" ] ; then
172                  echo Do not consider following warning if your running create_etat0_limit :
173                  echo WARNING !!! For lmdz : calendartype in config.card. PeriodLength=1Y allowed only for CalendarType=360d
174               fi
175               ;;
176        *)
177               LMDZ_ecrit_ISCCP=${PeriodLengthInDays}.
178               LMDZ_periodav=${PeriodLengthInDays}.
179               ;;
180    esac
181 
182    ##-- Remise ou non a zero de la date initiale de LMDZ pour le fichier run.def
183    if [ ${CumulPeriod} -eq 1 ] ; then
184        RAZ_DATE=1
185    else
186        RAZ_DATE=0
187    fi
188
189    ## Algorithme for special treatment for Bands_xxx file
190    ## For CumulPeriod=1 ;
191    ##        IF NbPeriod_Adjust = 0 ; set LMDZ_adjust=n
192    ##                                IF LMDZ_Bands_file_name was given in lmdz.card THEN Get Bands file directly from server. Store it later with _0 suffix.
193    ##                                IF no LMDZ_Bands_file_name was given, start without Bands file. Store it later with _0 suffix.
194    ##        ELSE set LMDZ_adjust=y ; start without Bands file ; Store it later in PARAM/ directory in submit directory with suffix _1 ;
195    ##
196    ## For CumulPeriod=2 to LMDZ_NbPeriod_adjust ;
197    ##       Get Bands file from PARAM/ in submit directory (CumulPeriod-1) ; set LMDZ_adjust=y ; Store Bands file in PARAM/ ;
198    ##
199    ## For CumulPeriod > LMDZ_NbPeriod_adjust ; LMDZ_adjust=n ; Get Bands file from PARAM/ ; Do not store ;
200
201    if [ ${CumulPeriod} -eq 1 ] ; then
202        if [ ${LMDZ_NbPeriod_adjust} -eq 0 ] ; then
203            if [ ! X${LMDZ_Bands_file_name} = X ] ; then
204                IGCM_sys_Get ${LMDZ_Bands_file_name} Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat
205                IGCM_sys_Chmod u+w Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat
206                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"
207            fi
208        fi
209    fi
210
211    LMDZ_adjust=n
212    [ ${CumulPeriod} -le ${LMDZ_NbPeriod_adjust} ] && LMDZ_adjust=y
213
214    RefPeriod=${LMDZ_NbPeriod_adjust} #0 to use a Bands file from Restart
215    [ ${CumulPeriod} -le ${LMDZ_NbPeriod_adjust} ] && (( RefPeriod = ${CumulPeriod} - 1 )) 
216
217    # Get Bands file from PARAM directory if file exist
218    if ( [ ${CumulPeriod} -gt 1 ] && [ -f ${SUBMIT_DIR}/PARAM/${config_UserChoices_JobName}_Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat_${RefPeriod} ] ) ; then
219        IGCM_sys_Cp ${SUBMIT_DIR}/PARAM/${config_UserChoices_JobName}_Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat_${RefPeriod} Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat
220        IGCM_sys_Chmod u+w Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat
221    fi
222
223    ##-- GHG forcing :
224    ##   If forcing file exist in run directory, read values for the current year
225    ##   and set in config.def. If not use the default value set in config.def
226
227    # Read value for solaire from file SOLARANDVOLCANOES.txt. If file not existing, take DEFAULT value from file.
228    if [ -f SOLARANDVOLCANOES.txt ] ; then
229        value=`grep Annee_${year} SOLARANDVOLCANOES.txt | awk -F= '{print $2}'`
230        if [ X"${value}" = X ] ; then
231            # The grep returned empty variable, stop execution
232            IGCM_debug_Exit "The file SOLARANDVOLCANOES.txt do not contain the current year."
233            IGCM_debug_Verif_Exit
234        fi
235    else
236        value=DEFAULT
237    fi
238    IGCM_comp_modifyDefFile nonblocker config.def solaire $value
239
240
241    # Read value for co2_ppm from file CO2.txt. If file not existing, take DEFAULT value from file.
242    if [ -f CO2.txt ] ; then
243        value=`grep Annee_${year} CO2.txt | awk -F= '{print $2}'`
244        if [ X"${value}" = X ] ; then
245            # The grep returned empty variable, stop execution
246            IGCM_debug_Exit "The file CO2.txt do not contain the current year."
247            IGCM_debug_Verif_Exit
248        fi
249    else
250        value=DEFAULT
251    fi
252    IGCM_comp_modifyDefFile nonblocker config.def co2_ppm $value
253
254
255    # Read value for CH4_ppb from file CH4.txt. If file not existing, take DEFAULT value from file.
256    if [ -f CH4.txt ] ; then
257        value=`grep Annee_${year} CH4.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 CH4.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 CH4_ppb $value
267
268
269    # Read value for N2O_ppb from file N2O.txt. If file not existing, take DEFAULT value from file.
270    if [ -f N2O.txt ] ; then
271        value=`grep Annee_${year} N2O.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 N2O.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 N2O_ppb $value
281
282    # Read value for CFC11_ppt from file CFC11.txt. If file not existing, take DEFAULT value from file.
283    if [ -f CFC11.txt ] ; then
284        value=`grep Annee_${year} CFC11.txt | awk -F= '{print $2}'`
285        if [ X"${value}" = X ] ; then
286            # The grep returned empty variable, stop execution
287            IGCM_debug_Exit "The file CFC11.txt do not contain the current year."
288            IGCM_debug_Verif_Exit
289        fi
290    else
291        value=DEFAULT
292    fi
293    IGCM_comp_modifyDefFile nonblocker config.def CFC11_ppt $value
294
295
296    # Read value for CFC12_ppt from file CFC12.txt. If file not existing, take DEFAULT value from file.
297    if [ -f CFC12.txt ] ; then
298        value=`grep Annee_${year} CFC12.txt | awk -F= '{print $2}'`
299        if [ X"${value}" = X ] ; then
300            # The grep returned empty variable, stop execution
301            IGCM_debug_Exit "The file CFC12.txt do not contain the current year."
302            IGCM_debug_Verif_Exit
303        fi
304    else
305        value=DEFAULT
306    fi
307    IGCM_comp_modifyDefFile nonblocker config.def CFC12_ppt $value
308
309
310    ## Coupling Time Step : Take value of FreqCoupling set in oasis.card or if it is not set, take default value 86400
311    LMDZ_t_coupl=${oasis_UserChoices_FreqCoupling:-86400}
312    IGCM_debug_Print 3 "LMDZ_t_coupl "   ${LMDZ_t_coupl}
313    IGCM_comp_modifyDefFile nonblocker config.def t_coupl   ${LMDZ_t_coupl} 
314
315    ##-- Add special treatement for CARBON CYCLE
316    if [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"control" ] || [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"historical" ] ; then
317        ATM_Carbon_Update
318    fi
319
320
321    ##-- Set LMDZ_COSP_daily1979=y in section UserChoices in lmdz.card to activate
322    ##   COSP daily output for years 1979 and later (mandatory for historical CMIP5 run).
323    if ([ X"${lmdz_UserChoices_LMDZ_COSP_daily1979}" = X"y" ] &&  [ ${year} -ge 1979 ]) ; then
324        LMDZ_COSP_daily=y
325    fi
326
327
328    ## output.def parameters
329    #  columns in phys_output_filekeys refer to the filenames given in phys_out_filenames in output.def : 
330    #                                            histmth       histday        histhf    histhf3h   histhf3hm   histstn
331    IGCM_comp_modifyDefFile nonblocker output.def phys_out_filekeys "${ok_mensuel} ${ok_journe}   ${ok_hf}  ${ok_hf3h} ${ok_hf3hm} ${ok_stn}"
332    IGCM_comp_modifyDefFile nonblocker output.def ecrit_ISCCP ${LMDZ_ecrit_ISCCP}
333    IGCM_comp_modifyDefFile nonblocker output.def ok_cosp     ${LMDZ_COSP_OK}
334    IGCM_comp_modifyDefFile nonblocker output.def ok_mensuelCOSP  ${LMDZ_COSP_monthly}
335    IGCM_comp_modifyDefFile nonblocker output.def ok_journeCOSP   ${LMDZ_COSP_daily}
336    IGCM_comp_modifyDefFile nonblocker output.def ok_hfCOSP   ${LMDZ_COSP_hf}
337    IGCM_comp_modifyDefFile nonblocker output.def ok_histNMC  "${LMDZ_NMC_monthly} ${LMDZ_NMC_daily} ${LMDZ_NMC_hf}"
338
339    # XIOS XML definition
340    # Default init : files are desactivated
341        IGCM_comp_modifyXmlFile force file_def_histmth_lmdz.xml histmth enabled .FALSE.
342        IGCM_comp_modifyXmlFile force file_def_histday_lmdz.xml histday enabled .FALSE.
343        IGCM_comp_modifyXmlFile force file_def_histhf_lmdz.xml histhf enabled .FALSE.
344#       IGCM_comp_modifyXmlFile force file_def_histhf3h_lmdz.xml histhf3h enabled .FALSE.
345#       IGCM_comp_modifyXmlFile force file_def_histhf3hm_lmdz.xml histhf3hm enabled .FALSE.
346        IGCM_comp_modifyXmlFile force file_def_histstn_lmdz.xml histstn enabled .FALSE.
347        IGCM_comp_modifyXmlFile force file_def_histmthNMC_lmdz.xml histmthNMC enabled .FALSE.
348        IGCM_comp_modifyXmlFile force file_def_histdayNMC_lmdz.xml histdayNMC enabled .FALSE.
349        IGCM_comp_modifyXmlFile force file_def_histhfNMC_lmdz.xml histhfNMC enabled .FALSE.
350        if [ X${lmdz_UserChoices_XIOS}  = Xy ] ; then
351    # Default output level : 5
352            IGCM_comp_modifyXmlFile force file_def_histmth_lmdz.xml histmth output_level 5
353            IGCM_comp_modifyXmlFile force file_def_histday_lmdz.xml histday output_level 5
354            IGCM_comp_modifyXmlFile force file_def_histhf_lmdz.xml histhf output_level 5
355#           IGCM_comp_modifyXmlFile force file_def_histhf3h_lmdz.xml histhf3h output_level 5
356#           IGCM_comp_modifyXmlFile force file_def_histhf3hm_lmdz.xml histhf3hm output_level 5
357            IGCM_comp_modifyXmlFile force file_def_histstn_lmdz.xml histstn output_level 5
358            IGCM_comp_modifyXmlFile force file_def_histmthNMC_lmdz.xml histmthNMC output_level 5
359            IGCM_comp_modifyXmlFile force file_def_histdayNMC_lmdz.xml histdayNMC output_level 5
360            IGCM_comp_modifyXmlFile force file_def_histhfNMC_lmdz.xml histhfNMC output_level 5
361     # Filling of XML files
362        if [ X${ok_mensuel} = Xy ] ; then
363            IGCM_comp_modifyXmlFile force file_def_histmth_lmdz.xml histmth enabled .TRUE.
364            IGCM_comp_modifyXmlFile force file_def_histmth_lmdz.xml histmth output_freq 1mo
365            IGCM_comp_modifyXmlFile force file_def_histmth_lmdz.xml histmth name histmth
366        fi
367        if [ X${ok_journe} = Xy ] ; then       
368            IGCM_comp_modifyXmlFile force file_def_histday_lmdz.xml histday enabled .TRUE.
369            IGCM_comp_modifyXmlFile force file_def_histday_lmdz.xml histday output_freq 1d
370            IGCM_comp_modifyXmlFile force file_def_histday_lmdz.xml histday name histday
371            if [ X${OutLevel} = Xlow ] || [ X${OutLevel} = Xmedium ] ; then
372                IGCM_comp_modifyXmlFile force file_def_histday_lmdz.xml histday output_level 2
373            fi
374        fi
375        if [ X${ok_hf} = Xy ] ; then
376            IGCM_comp_modifyXmlFile force file_def_histhf_lmdz.xml histhf enabled .TRUE.
377            IGCM_comp_modifyXmlFile force file_def_histhf_lmdz.xml histhf output_freq 6h
378            IGCM_comp_modifyXmlFile force file_def_histhf_lmdz.xml histhf name histhf
379            if [ X${OutLevel} = Xlow ] ; then
380                IGCM_comp_modifyXmlFile force file_def_histhf_lmdz.xml histhf output_level 2
381            fi
382        fi     
383#       if [ X${ok_hf3h} = Xy ] ; then
384#           IGCM_comp_modifyXmlFile force file_def_histhf3h_lmdz.xml histhf3h enabled .TRUE.
385#           IGCM_comp_modifyXmlFile force file_def_histhf3h_lmdz.xml histhf3h output_freq 3h
386#           IGCM_comp_modifyXmlFile force file_def_histhf3h_lmdz.xml histhf3h name histhf3h
387#       fi     
388#       if [ X${ok_hf3hm} = Xy ] ; then
389#           IGCM_comp_modifyXmlFile force file_def_histhf3hm_lmdz.xml histhf3hm enabled .TRUE.
390#           IGCM_comp_modifyXmlFile force file_def_histhf3hm_lmdz.xml histhf3hm output_freq 3h
391#           IGCM_comp_modifyXmlFile force file_def_histhf3hm_lmdz.xml histhf3hm name histhf3hm
392#       fi
393        if [ X${ok_stn} = Xy ] ; then
394            IGCM_comp_modifyXmlFile force file_def_histstn_lmdz.xml histstn enabled .TRUE.
395            IGCM_comp_modifyXmlFile force file_def_histstn_lmdz.xml histstn output_freq 1800s
396            IGCM_comp_modifyXmlFile force file_def_histstn_lmdz.xml histstn name histstn
397        fi
398        if [ X${LMDZ_NMC_monthly} = Xy ] ; then
399            IGCM_comp_modifyXmlFile force file_def_histmthNMC_lmdz.xml histmthNMC enabled .TRUE.
400            IGCM_comp_modifyXmlFile force file_def_histmthNMC_lmdz.xml histmthNMC output_freq 1mo
401            IGCM_comp_modifyXmlFile force file_def_histmthNMC_lmdz.xml histmthNMC name histmthNMC
402        fi
403        if [ X${LMDZ_NMC_daily} = Xy ] ; then
404            IGCM_comp_modifyXmlFile force file_def_histdayNMC_lmdz.xml histdayNMC enabled .TRUE.
405            IGCM_comp_modifyXmlFile force file_def_histdayNMC_lmdz.xml histdayNMC output_freq 1d
406            IGCM_comp_modifyXmlFile force file_def_histdayNMC_lmdz.xml histdayNMC name histdayNMC
407        fi
408        if [ X${LMDZ_NMC_hf} = Xy ] ; then
409            IGCM_comp_modifyXmlFile force file_def_histhfNMC_lmdz.xml histhfNMC enabled .TRUE.
410            IGCM_comp_modifyXmlFile force file_def_histhfNMC_lmdz.xml histhfNMC output_freq 6h
411            IGCM_comp_modifyXmlFile force file_def_histhfNMC_lmdz.xml histhfNMC name histhfNMC
412        fi
413    fi
414
415    ## gcm.def parameters :
416    # Modification of variable iphysiq depending on the physics
417    if [ X${LMDZ_Physics} = X"AP" ] ; then
418        if [ ${RESOL_ATM_3D} = 96x95x39 ]; then
419            value=10
420        elif [ ${RESOL_ATM_3D} = 144x142x39 ]; then
421            value=15
422        else
423            IGCM_debug_Print 1 "LMDZ_Physics=${LMDZ_Physics} has not been tested for the current resolution RESOL_ATM_3D=${RESOL_ATM_3D}. "
424            IGCM_debug_Print 1 "iphysiq must be defined for the current combination of resolution and phyiscs package"
425            IGCM_debug_Exit "You need to add a special case in lmdz.driver to handle the above combination."
426        fi
427    elif [ X${LMDZ_Physics} = X"NPv3.1" ] ; then
428        if  [ ${RESOL_ATM_3D} = 96x95x39 ] ; then
429            value=5
430        elif [ ${RESOL_ATM_3D} = 144x142x39 ] ; then
431            value=5
432        else
433            IGCM_debug_Print 1 "LMDZ_Physics=${LMDZ_Physics} has not been tested for the current resolution RESOL_ATM_3D=${RESOL_ATM_3D}. "
434            IGCM_debug_Print 1 "iphysiq must be defined for the current combination of resolution and phyiscs package"
435            IGCM_debug_Exit "You need to add a special case in lmdz.driver to handle the above combination."
436        fi
437    elif [ X${LMDZ_Physics} = X"NPv3.2" ] ; then
438        if [ ${RESOL_ATM_3D} = 96x95x39 ] ; then
439            value=5
440        elif [ ${RESOL_ATM_3D} = 144x142x39 ] ; then
441            value=5
442        elif [ ${RESOL_ATM_3D} = 128x118x39 ] ; then
443            value=15
444        else
445            IGCM_debug_Print 1 "LMDZ_Physics=${LMDZ_Physics} has not been tested for the current resolution RESOL_ATM_3D=${RESOL_ATM_3D}. "
446            IGCM_debug_Print 1 "iphysiq must be defined for the current combination of resolution and phyiscs package"
447            IGCM_debug_Exit "You need to add a special case in lmdz.driver to handle the above combination."
448        fi
449    else
450        # Take default value set in gcm.def
451        value=DEFAULT
452    fi
453    IGCM_comp_modifyDefFile nonblocker gcm.def iphysiq $value
454   
455
456    ## run.def parameters
457    IGCM_comp_modifyDefFile blocker run.def dayref   ${InitDay}
458    IGCM_comp_modifyDefFile blocker run.def nday     ${PeriodLengthInDays}
459    IGCM_comp_modifyDefFile blocker run.def raz_date ${RAZ_DATE}
460    IGCM_comp_modifyDefFile blocker run.def periodav ${LMDZ_periodav}
461    IGCM_comp_modifyDefFile nonblocker run.def adjust   ${LMDZ_adjust}
462
463    # Set anneeref different for gcm and ce0l
464    # Variable calend is different for a run with create_etat0_limit and the gcm
465    # Test if executable create_etat0_limit is present and lmdz.x is not present
466    if [ -f create_etat0_limit* ] || [ -f ce0l* ] && [ ! -f lmdz.x ] ; then
467        # for case ce0l : always take current year
468        IGCM_comp_modifyDefFile blocker run.def anneeref ${year}
469        IGCM_comp_modifyDefFile blocker run.def calend   ${CalendarTypeForCreate}
470    else
471        # for case gcm : take first year of simulation
472        IGCM_comp_modifyDefFile blocker run.def anneeref ${InitYear}
473        IGCM_comp_modifyDefFile blocker run.def calend   ${CalendarTypeForLmdz}
474    fi
475
476    # Activate creation of file grilles_gcm.nc only at first period
477    if [ ${CumulPeriod} -eq 1 ] ; then
478        IGCM_comp_modifyDefFile nonblocker run.def grilles_gcm_netcdf y
479    else
480        IGCM_comp_modifyDefFile nonblocker run.def grilles_gcm_netcdf n
481    fi
482
483    ## Determine from the variable ListOfComponents in config.card coupling to external models
484    ## and set corresponding parameters in run.def
485    echo ListOfComponents now running : ${config_ListOfComponents[*]}
486
487    if [ X${config_ListOfComponents_SRF} = Xorchidee ] ; then
488        echo "Activate ORCHIDEE, set VEGET=y in run.def"
489        IGCM_comp_modifyDefFile blocker run.def VEGET y
490    else
491        echo "No ORCHIDEE, set VEGET=n in run.def"
492        IGCM_comp_modifyDefFile blocker run.def VEGET n
493    fi
494
495    if [ X${config_ListOfComponents_CPL} = Xoasis ] ; then
496        echo "Activate coupling to ocean, set type_ocean=couple in run.def"
497        IGCM_comp_modifyDefFile blocker run.def type_ocean couple
498    else
499        echo "LMDZ is running in forced mode without ocean model, set type_ocean=force in run.def"
500        IGCM_comp_modifyDefFile blocker run.def type_ocean force
501    fi
502
503    if [ X${config_ListOfComponents_CHM} = Xinca ] ; then
504        echo "Activate coupling to INCA, set type_trac=inca in run.def"
505        IGCM_comp_modifyDefFile blocker run.def type_trac inca
506    elif [ X${config_ListOfComponents_CHM} = Xreprobus ] ; then
507        echo "Activate coupling to REPROBUS, set type_trac=repr in run.def"
508        IGCM_comp_modifyDefFile blocker run.def type_trac repr
509        IGCM_comp_modifyDefFile blocker run.def config_inca none
510    else
511        echo "No coupling to chemistry model, set type_trac=lmdz in run.def"
512        IGCM_comp_modifyDefFile blocker run.def type_trac lmdz
513        IGCM_comp_modifyDefFile blocker run.def config_inca none
514    fi
515
516
517    # config.def : Activate direct radiative effect if ok_ade=y
518    if [ ! X${lmdz_UserChoices_ok_ade} = X ]; then
519        IGCM_comp_modifyDefFile nonblocker config.def ok_ade ${lmdz_UserChoices_ok_ade}
520    else
521        IGCM_comp_modifyDefFile nonblocker config.def ok_ade n
522    fi 
523
524    # config.def : Activate indirect radiative effect if ok_aie=y
525    if [ ! X${lmdz_UserChoices_ok_aie} = X ]; then
526        IGCM_comp_modifyDefFile nonblocker config.def ok_aie ${lmdz_UserChoices_ok_aie}
527    else
528        IGCM_comp_modifyDefFile nonblocker config.def ok_aie n
529    fi 
530
531    # config.def : Activate online aerosol coupled model if aerosol_couple=y
532    if [ ! X${lmdz_UserChoices_aerosol_couple} = X ]; then
533        IGCM_comp_modifyDefFile nonblocker config.def aerosol_couple ${lmdz_UserChoices_aerosol_couple}
534    else
535        IGCM_comp_modifyDefFile nonblocker config.def aerosol_couple n
536    fi 
537
538    # config.def : Activate reading of ozone in climatology if read_climoz=2
539    if [ ! X${lmdz_UserChoices_read_climoz} = X ]; then
540        IGCM_comp_modifyDefFile nonblocker config.def read_climoz ${lmdz_UserChoices_read_climoz}
541    else
542        IGCM_comp_modifyDefFile nonblocker config.def read_climoz 0     
543    fi 
544
545    # config.def : Choose aerosol use in radiative effect
546    #  type of coupled aerosol =1 (default) =2 => bc  only =3 => pom only =4 => seasalt only
547    # =5 => dust only =6 => all aerosol   
548    if [ ! X${lmdz_UserChoices_flag_aerosol} = X ]; then
549        IGCM_comp_modifyDefFile nonblocker config.def flag_aerosol ${lmdz_UserChoices_flag_aerosol}
550    else
551        IGCM_comp_modifyDefFile nonblocker config.def flag_aerosol 0
552    fi 
553
554    # config.def : Activate calcul of Cloud droplet number concentration if ok_cdnc=y
555    if [ ! X${lmdz_UserChoices_ok_cdnc} = X ]; then
556        IGCM_comp_modifyDefFile nonblocker config.def ok_cdnc ${lmdz_UserChoices_ok_cdnc}
557    else
558        IGCM_comp_modifyDefFile nonblocker config.def ok_cdnc n
559    fi 
560
561    # guide.def : Activate nudging if ok_guide=y set in lmdz.card
562    if [ ! X${lmdz_UserChoices_ok_guide} = X ] ; then
563        IGCM_comp_modifyDefFile nonblocker guide.def ok_guide  ${lmdz_UserChoices_ok_guide}
564    else
565        IGCM_comp_modifyDefFile nonblocker guide.def ok_guide n
566    fi
567
568    ## Read ByPass_hgardfou_teta option in lmdz.card --> divide teta* by 2 if [ $ByPass_hgardfou_teta = 1 ]
569    ByPass_hgardfou_teta=${lmdz_UserChoices_ByPass_hgardfou_teta}
570    if [ X"${ByPass_hgardfou_teta}" = X"y" ] ; then
571        awk '{ if ($0 ~ /^teta.*=/) {split($0,a,"=") ; print a[1]"="a[2]/2"."} else print $0}' gcm.def > gcm.def.tmp
572        IGCM_sys_Mv gcm.def.tmp gcm.def
573        echo
574        IGCM_debug_Print 1 "ByPass_hgardfou_teta : ^teta*/2 in gcm.def"
575        echo
576        cat gcm.def
577        ByPass_hgardfou_teta=n
578        IGCM_card_WriteOption ${SUBMIT_DIR}/COMP/lmdz.card UserChoices ByPass_hgardfou_teta "${ByPass_hgardfou_teta}"
579    fi
580
581    ## Read ByPass_hgardfou_mats option in lmdz.card --> purmats=y 2 if [ $ByPass_hgardfou_mats = 1 ]
582    ByPass_hgardfou_mats=${lmdz_UserChoices_ByPass_hgardfou_mats}
583    if [ X"${ByPass_hgardfou_mats}" = X"y" ] ; then
584        sed -e "s/^purmats=.*/purmats=y/" gcm.def > gcm.def.tmp
585        IGCM_sys_Mv gcm.def.tmp gcm.def
586        echo
587        IGCM_debug_Print 1 "ByPass_hgardfou_mats : purmats=y in gcm.def"
588        echo
589        cat gcm.def
590        ByPass_hgardfou_mats=n
591        IGCM_card_WriteOption ${SUBMIT_DIR}/COMP/lmdz.card UserChoices ByPass_hgardfou_mats "${ByPass_hgardfou_mats}"
592    fi
593
594    if [ X${lmdz_UserChoices_XIOS}  = Xy ] ; then
595    # Add include of LMDZ context in iodef.xml
596    # In iodef.xml add on next line after "COMPONENT CONTEXT"
597    #  <context id="LMDZ" src="./context_lmdz.xml"/>
598        echo '<context id="LMDZ" src="./context_lmdz.xml"/>' > add.tmp
599        cp iodef.xml iodef.xml.tmp
600        sed -e "/COMPONENT CONTEXT/r add.tmp" \
601            iodef.xml.tmp > iodef.xml
602        rm iodef.xml.tmp add.tmp
603
604        # Set ok_all_xml=y in run.def
605        IGCM_comp_modifyDefFile nonblocker run.def ok_all_xml y
606    else
607        # Deactivate ok_all_xml in run.def
608        IGCM_comp_modifyDefFile nonblocker run.def ok_all_xml n
609    fi
610   
611    IGCM_debug_PopStack "ATM_Update"
612}
613
614#-----------------------------------
615function ATM_Finalize
616{
617    IGCM_debug_PushStack "ATM_Finalize"
618
619    # If the file exist, copy Bands_ file to PARAM/ in submit directory. This file will be used for the simulation.
620    # Copy also the same file into ATM/Restart at ARCHIVE directory for backup.
621    if [ -f Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat ] ; then
622      if [ ${CumulPeriod} -le ${LMDZ_NbPeriod_adjust} ] ; then
623        IGCM_sys_Cp Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat ${SUBMIT_DIR}/PARAM/${config_UserChoices_JobName}_Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat_${CumulPeriod}
624        IGCM_sys_Put_Out Bands_${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}
625      elif [ ${CumulPeriod} -eq 1 ] && [ ${LMDZ_NbPeriod_adjust} -eq 0 ] ; then
626        # Special case : first period and no adjust => Save bands file with suffix _0
627        IGCM_sys_Cp Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat ${SUBMIT_DIR}/PARAM/${config_UserChoices_JobName}_Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat_0
628        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
629      fi
630    fi
631
632    # Add special treatement for CARBON CYCLE
633    if [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"control" ] || [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"historical" ] ; then
634        ATM_Carbon_Finalize
635    fi
636
637    echo FINALIZE ATM !
638
639    IGCM_debug_PopStack "ATM_Finalize"
640}
641
642
643
644function ATM_Carbon_Update
645{
646    # This fuction will be called only if CARBON_CYCLE is set to control or historical in lmdz.card
647
648    IGCM_debug_PushStack "ATM_Carbon_Update"
649
650    typeset InitPeriodCo2 InitDateBeginCo2 InitDateEndCo2
651    typeset CO2SBG CO2MBG CO2LU CO2_ppm CO2_ppm_prec fCO2_ff
652    typeset PathCO2log
653    typeset PreviousLinelog LastPeriodDateBegin LastPeriodDateEnd LastDatesPeriod LastPREFIX
654   
655    if ( ${FirstInitialize} && [ X"${config_ATM_Restart}" = X"n" ] ) ; then
656        ##--Initialization of fluxes to an undefined value at the first run
657        UndefinedValueCo2=-9999
658        InitPeriodCo2=0
659        InitDateBeginCo2=${UndefinedValueCo2}
660        InitYearCo2=$(( ${year} - 1 )) 
661        InitDateEndCo2=${InitYearCo2}1231
662        fCO2_ff=${UndefinedValueCo2} 
663        CO2SBG=${UndefinedValueCo2}
664        CO2LU=${UndefinedValueCo2}
665        CO2MBG=${UndefinedValueCo2}
666        CO2_ppm_prec=${UndefinedValueCo2}
667        # Get the initial value of atmosp. pco2
668        CO2_ppm=${lmdz_UserChoices_co2_init}
669       
670        IGCM_sys_Cp ${SUBMIT_DIR}/co2.log.init ${SUBMIT_DIR}/co2.log
671        IGCM_sys_Chmod u+w ${SUBMIT_DIR}/co2.log
672       
673        # Save CO2 values in ExeCpuLog variable contents 5 fields
674        echo "${InitPeriodCo2} ${InitDateBeginCo2} ${InitDateEndCo2} ${CO2_ppm} ${CO2_ppm_prec} ${fCO2_ff} ${CO2MBG} ${CO2SBG} ${CO2LU}" |   \
675            gawk '{printf("  %11d | %15s | %15s | %22.15g | %20.15g | %11.8g | %11.8g | %12.8g | %12.8g \n", \
676                              $1,$2,$3,$4,$5,$6,$7,$8,$9)}' >> ${SUBMIT_DIR}/co2.log
677       
678        # Get the path where the log file co2.log is
679        PathCO2log=${SUBMIT_DIR} 
680        # Get Previous line in co2.log
681        PreviousLinelog=$( tail -1 ${PathCO2log}/co2.log )
682       
683    else
684       
685        # NEW parameter in config.card (even for Overule all restarts, you must modify the line after this comment ):
686        # !! NEW for Carbone cycle !! Path where to find old co2.log file for restart CO2.
687        #SubmitRestartPath=
688        if ( ${FirstInitialize} && [ X"${config_ATM_Restart}" = X"y" ] ) ; then
689            IGCM_card_DefineVariableFromOption ${SUBMIT_DIR}/config.card ATM SubmitRestartPath
690            PathCO2log=${config_ATM_SubmitRestartPath}
691            Date_r=$( IGCM_date_ConvertFormatToGregorian ${config_ATM_RestartDate} )
692            PreviousLinelog=$( grep ${Date_r} ${PathCO2log}/co2.log )
693           
694            IGCM_sys_Cp ${SUBMIT_DIR}/co2.log.init ${SUBMIT_DIR}/co2.log
695            IGCM_sys_Chmod u+w ${SUBMIT_DIR}/co2.log
696           
697            # Save Last Line of control in new co2.log file
698            InitPeriodCo2=0   
699            InitDateBeginCo2=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $2}' )
700            InitDateEndCo2=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $3}' )
701            fCO2_ff=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $6}' )
702            CO2SBG=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $8}' )
703            CO2LU=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $9}' )
704            CO2MBG=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $7}' )
705            CO2_ppm_prec=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $5}' )
706            CO2_ppm=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $4}' )
707           
708            echo "${InitPeriodCo2} ${InitDateBeginCo2} ${InitDateEndCo2} ${CO2_ppm} ${CO2_ppm_prec} ${fCO2_ff} ${CO2MBG} ${CO2SBG} ${CO2LU}" |   \
709                gawk '{printf("  %11d | %15s | %15s | %22.15g | %20.15g | %11.8g | %11.8g | %12.8g | %12.8g \n", \
710                              $1,$2,$3,$4,$5,$6,$7,$8,$9)}' >> ${SUBMIT_DIR}/co2.log
711        else
712           # Get restart line in co2.log
713            PathCO2log=${SUBMIT_DIR}
714            PreviousLinelog=$( tail -1 ${PathCO2log}/co2.log )
715           # Get the value of atmosp. pco2 in co2.log
716            CO2_ppm=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $4}' )
717        fi
718       
719    fi
720   
721    if [ ${lmdz_UserChoices_CARBON_CYCLE} = historical ] ; then
722            # Modify co2_ppm in config.def only for historical run
723            # If not historical run, keep co2_ppm value set earlier by IGCM_comp_modifyDefFile
724        IGCM_comp_modifyDefFile nonblocker config.def co2_ppm     ${CO2_ppm}
725    fi
726    IGCM_debug_PopStack "ATM_Carbon_Update"
727}
728
729
730function ATM_Carbon_Finalize
731{
732    # This fuction will be called only if CARBON_CYCLE is set to control or historical in lmdz.card
733
734    IGCM_debug_PushStack "ATM_Carbon_Finalize"
735
736    typeset CO2SBG_3V CO2SBG CO2MBG CO2SRF CO2LU CO2_ppm CO2_ppm_prec fCO2_ff
737   
738        # Fossil fuel emission
739    if [ ${lmdz_UserChoices_CARBON_CYCLE} = control ] ; then
740            # For Control, no fossil fuel emission :
741        fCO2_ff=0
742        echo "Fossil Fuel for control run  :" ${fCO2_ff}
743    else
744            # For historical, get the fossile fuel file :
745        fCO2_ff=$( gawk "{if (match(\$0,\"${year}\ *${month}\")) {print \$3}}" ${SUBMIT_DIR}/PARAM/CMIP5_gridcar_CO2_emissions_fossil_fuel_Andres_1751-2007_monthly_SC.txt )
746        echo "Fossil Fuel for historical run  :" ${fCO2_ff}
747    fi
748   
749        # Get the value of ocean carbon flux
750    CO2MBG=$( ${SUBMIT_DIR}/COMP/lmdz_analyse_pisces_out.awk ocean.output )
751    CO2MBG=$( echo ${CO2MBG} | sed -e "s/ *//" )
752    echo "Ocean carbon flux  :" ${CO2MBG}
753   
754        # Get the value of land fluxes
755    set +A CO2SBG_3V -- $( ${SUBMIT_DIR}/COMP/lmdz_analyse_stomate_out.awk out_orchidee_0000 )
756    CO2SRF=$( echo ${CO2SBG_3V[0]} | sed -e "s/ *//" )
757    CO2LU=$( echo ${CO2SBG_3V[1]} | sed -e "s/ *//" )
758    CO2SBG=$( echo ${CO2SBG_3V[2]} | sed -e "s/ *//" )
759    echo "Land carbon flux (NEP)         :" ${CO2SRF}
760    echo "LU flux          (FLUC)        :" ${CO2LU}
761    echo "Total Land carbon flux (NBP)   :" ${CO2SBG}
762   
763        # Previous CO2
764    CO2_ppm_prec=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $4}' )
765    echo "Previous CO2  :" ${CO2_ppm_prec}
766   
767        # Formula
768    CO2_ppm=$( echo "${CO2_ppm_prec} + (${fCO2_ff} + ${CO2MBG} + ${CO2SBG}) / 2.12" | bc -l )
769    echo "New CO2  :" ${CO2_ppm}
770   
771        # Save CO2 values in ExeCpuLog variable contents 5 fields
772    echo "${CumulPeriod} ${PeriodDateBegin} ${PeriodDateEnd} ${CO2_ppm} ${CO2_ppm_prec} ${fCO2_ff} ${CO2MBG} ${CO2SBG} ${CO2LU}" |   \
773        gawk '{printf("  %11d | %15s | %15s | %22.15g | %20.15g | %11.8g | %11.8g | %12.8g | %12.8g \n", \
774                           $1,$2,$3,$4,$5,$6,$7,$8,$9)}' >> ${SUBMIT_DIR}/co2.log
775   
776    IGCM_debug_PopStack "ATM_Carbon_Finalize"
777}
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