source: CONFIG/UNIFORM/v6/LMDZOR_v6/GENERAL/DRIVER/lmdz.driver @ 2336

Last change on this file since 2336 was 2336, checked in by jgipsl, 8 years ago

More homogenization between IPSLCM6 and LMDZOR_v6.

File size: 31.0 KB
Line 
1#!/bin/ksh
2#-----------------------------------------------------------------
3function LMDZ_sed_xml
4{
5# Usage : LMDZ_sed_xml xml_file output_file attribute value
6#         In file xml_file modify at the line containing id="output_file" the attribute "attribute=xxx" into "attribute=value"
7
8    IGCM_debug_PushStack "LMDZ_sed_xml"
9    # Test if the fichier exist
10    if [ ! -f ${1} ] ; then
11      echo "WARNING : ${1} file does not exist. Following will not be done : LMDZ_sed_xml : ${1} ${2} ${3} ${4}"
12      IGCM_debug_PopStack "LMDZ_sed_xml"
13      return
14    fi
15    sed -e "/id=\"${2}\"/s/\(${3}=\"\)[^\"]*\(\"\)/\1${4}\2/" ${1} > ${1}.tmp
16    RET=$?
17    echo "LMDZ_sed_xml : ${1} ${2} ${3} ${4}"
18    \mv ${1}.tmp ${1}
19    IGCM_debug_PopStack "LMDZ_sed_xml"
20    return $RET
21}
22
23function ATM_Initialize
24{
25    IGCM_debug_PushStack "ATM_Initialize"
26
27    RESOL_ATM=$( echo $RESOL | awk "-Fx" '{print $2}' | awk "-F-" '{print $1}')
28
29    [ -f ${SUBMIT_DIR}/../.resol ] && eval $(grep RESOL_ATM_3D ${SUBMIT_DIR}/../.resol) || RESOL_ATM_3D=96x95x39
30
31    RESOL_ATM_Z=$( echo ${RESOL_ATM_3D} | awk "-Fx" '{print $3}' )
32    RESOL_ATM_X=$( echo ${RESOL_ATM_3D} | awk "-Fx" '{print $1}' )
33    RESOL_ATM_Y=$( echo ${RESOL_ATM_3D} | awk "-Fx" '{print $2}' )
34    RESOL_ATM_XY="${RESOL_ATM_X}x${RESOL_ATM_Y}"
35
36    ##-- Calendar type for LMDZ and create_etat0_limit
37    case ${config_UserChoices_CalendarType} in
38        leap|gregorian)
39            CalendarTypeForLmdz=earth_366d
40            CalendarTypeForCreate=gregorian;;
41        noleap)
42            CalendarTypeForLmdz=earth_365d
43            CalendarTypeForCreate=${CalendarTypeForLmdz};;
44        360d)
45            CalendarTypeForLmdz=earth_360d
46            CalendarTypeForCreate=${CalendarTypeForLmdz};;
47        *)
48            CalendarTypeForLmdz=earth_360d
49            CalendarTypeForCreate=${CalendarTypeForLmdz}
50    esac
51
52    ##- LMDZ physics version
53    ##  Read LMDZ_Physics option in lmdz.card, if not present take default value AP (old physics)
54    if [ ! X${lmdz_UserChoices_LMDZ_Physics} = X ] ; then
55        LMDZ_Physics=${lmdz_UserChoices_LMDZ_Physics}
56    else
57        LMDZ_Physics=AP
58    fi
59    echo LMDZ physics version : ${LMDZ_Physics}
60
61    ##- Create_etat0_limit version
62    ##  Define variable CREATE only if it is set in lmdz.card section UserChoices.
63    ##  This variable is only used in lmdz.card to choose input files.
64    if [ ! X${lmdz_UserChoices_CREATE} = X ] ; then
65        IGCM_card_DefineVariableFromOption ${SUBMIT_DIR}/COMP/lmdz.card UserChoices CREATE
66        CREATE=${lmdz_UserChoices_CREATE}
67        echo create_etat0_limit version : ${CREATE}
68    fi
69
70
71    ## - LMDZ choice of config.def file
72    ##   ConfType must be set in lmdz.card
73    ConfType=${lmdz_UserChoices_ConfType}
74
75    ##- LMDZ output level, to be set in lmdz.card
76    if [ X${lmdz_UserChoices_OutLevel} = X ] ; then
77        # OutLevel is not set. Take default value low.
78        OutLevel=low
79    else
80        OutLevel=${lmdz_UserChoices_OutLevel}
81    fi
82
83    ##-- Output frequency purpose ....
84    ##--  Initialisation  ....
85    ok_mensuel=n
86    ok_journe=n
87    ok_hf=n
88    ok_hf3h=n
89    ok_hf3hm=n
90    ok_stn=n
91
92    case ${config_UserChoices_PeriodLength} in
93        1Y|1y|1M|1m) ok_mensuel=y ;;
94        5D|5d|1D|1d) ok_journe=y ;;
95    esac
96
97    for frequency in ${config_ATM_WriteFrequency} ; do
98        case ${frequency} in
99            1M|1m) ok_mensuel=y ;;
100        esac
101        case ${frequency} in
102            5D|5d|1D|1d) ok_journe=y ;;
103        esac
104        case ${frequency} in
105            HF|hf) ok_hf=y ;;
106        esac
107        case ${frequency} in
108            HF3h|hf3h) ok_hf3h=y ;;
109        esac
110        case ${frequency} in
111            HF3hm|hf3hm) ok_hf3hm=y ;;
112        esac
113        case ${frequency} in
114            STN|stn) ok_stn=y ;;
115        esac
116    done
117
118    ## Read LMDZ_NbPeriod_adjust option in lmdz.card
119    if [ X"${lmdz_UserChoices_LMDZ_NbPeriod_adjust}" = X"" ] ; then
120        # The variable is not in lmdz.card, set default value
121        LMDZ_NbPeriod_adjust=0
122    else       
123        LMDZ_NbPeriod_adjust=${lmdz_UserChoices_LMDZ_NbPeriod_adjust}
124    fi
125
126    if [ ${LMDZ_NbPeriod_adjust} -eq 0 ] ; then
127        LMDZ_Bands_file_name=${lmdz_UserChoices_LMDZ_Bands_file_name}
128    fi
129
130
131    ##  Read LMDZ_COSP_OK in lmdz.card
132    if [ ! X${lmdz_UserChoices_LMDZ_COSP_OK} = X ] ; then
133        LMDZ_COSP_OK=${lmdz_UserChoices_LMDZ_COSP_OK}
134    else
135        LMDZ_COSP_OK=n
136    fi
137    ##  Read LMDZ_COSP_monthly in lmdz.card
138    if [ ! X${lmdz_UserChoices_LMDZ_COSP_monthly} = X ] ; then
139        LMDZ_COSP_monthly=${lmdz_UserChoices_LMDZ_COSP_monthly}
140    else
141        LMDZ_COSP_monthly=n
142    fi
143    ##  Read LMDZ_COSP_daily in lmdz.card
144    if [ ! X${lmdz_UserChoices_LMDZ_COSP_daily} = X ] ; then
145        LMDZ_COSP_daily=${lmdz_UserChoices_LMDZ_COSP_daily}
146    else
147        LMDZ_COSP_daily=n
148    fi
149    ##  Read LMDZ_COSP_hf in lmdz.card
150    if [ ! X${lmdz_UserChoices_LMDZ_COSP_hf} = X ] ; then
151        LMDZ_COSP_hf=${lmdz_UserChoices_LMDZ_COSP_hf}
152    else
153        LMDZ_COSP_hf=n
154    fi
155
156    ##  Read LMDZ_NMC_monthly in lmdz.card
157    if [ ! X${lmdz_UserChoices_LMDZ_NMC_monthly} = X ] ; then
158        LMDZ_NMC_monthly=${lmdz_UserChoices_LMDZ_NMC_monthly}
159    else
160        LMDZ_NMC_monthly=n
161    fi
162
163    ## Read LMDZ_NMC_daily in lmdz.card
164    if [ ! X${lmdz_UserChoices_LMDZ_NMC_daily} = X ] ; then
165        LMDZ_NMC_daily=${lmdz_UserChoices_LMDZ_NMC_daily}
166    else
167        LMDZ_NMC_daily=n
168    fi
169   
170    ## Read LMDZ_NMC_hf in lmdz.card
171    if [ ! X${lmdz_UserChoices_LMDZ_NMC_hf} = X ] ; then
172        LMDZ_NMC_hf=${lmdz_UserChoices_LMDZ_NMC_hf}
173    else
174        LMDZ_NMC_hf=n
175    fi
176
177
178    IGCM_debug_PopStack "ATM_Initialize"
179}
180
181#-----------------------------------------------------------------
182function ATM_Update
183{
184    IGCM_debug_PushStack "ATM_Update"
185
186
187    case ${config_UserChoices_PeriodLength} in
188        *Y|*y) 
189               LMDZ_ecrit_ISCCP=30.
190               LMDZ_periodav=30.
191               if [ "${config_UserChoices_CalendarType}" != "360d" ] ; then
192                  echo Do not consider following warning if your running create_etat0_limit :
193                  echo WARNING !!! For lmdz : calendartype in config.card. PeriodLength=1Y allowed only for CalendarType=360d
194               fi
195               ;;
196        *)
197               LMDZ_ecrit_ISCCP=${PeriodLengthInDays}.
198               LMDZ_periodav=${PeriodLengthInDays}.
199               ;;
200    esac
201 
202    ##-- Remise ou non a zero de la date initiale de LMDZ pour le fichier run.def
203    if [ ${CumulPeriod} -eq 1 ] ; then
204        RAZ_DATE=1
205    else
206        RAZ_DATE=0
207    fi
208
209    ## Algorithme for special treatment for Bands_xxx file
210    ## For CumulPeriod=1 ;
211    ##        IF NbPeriod_Adjust = 0 ; set LMDZ_adjust=n
212    ##                                IF LMDZ_Bands_file_name was given in lmdz.card THEN Get Bands file directly from server. Store it later with _0 suffix.
213    ##                                IF no LMDZ_Bands_file_name was given, start without Bands file. Store it later with _0 suffix.
214    ##        ELSE set LMDZ_adjust=y ; start without Bands file ; Store it later in PARAM/ directory in submit directory with suffix _1 ;
215    ##
216    ## For CumulPeriod=2 to LMDZ_NbPeriod_adjust ;
217    ##       Get Bands file from PARAM/ in submit directory (CumulPeriod-1) ; set LMDZ_adjust=y ; Store Bands file in PARAM/ ;
218    ##
219    ## For CumulPeriod > LMDZ_NbPeriod_adjust ; LMDZ_adjust=n ; Get Bands file from PARAM/ ; Do not store ;
220
221    if [ ${CumulPeriod} -eq 1 ] ; then
222        if [ ${LMDZ_NbPeriod_adjust} -eq 0 ] ; then
223            if [ ! X${LMDZ_Bands_file_name} = X ] ; then
224                IGCM_sys_Get ${LMDZ_Bands_file_name} Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat
225                IGCM_sys_Chmod u+w Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat
226                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"
227            fi
228        fi
229    fi
230
231    LMDZ_adjust=n
232    [ ${CumulPeriod} -le ${LMDZ_NbPeriod_adjust} ] && LMDZ_adjust=y
233
234    RefPeriod=${LMDZ_NbPeriod_adjust} #0 to use a Bands file from Restart
235    [ ${CumulPeriod} -le ${LMDZ_NbPeriod_adjust} ] && (( RefPeriod = ${CumulPeriod} - 1 )) 
236
237    # Get Bands file from PARAM directory if file exist
238    if ( [ ${CumulPeriod} -gt 1 ] && [ -f ${SUBMIT_DIR}/PARAM/${config_UserChoices_JobName}_Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat_${RefPeriod} ] ) ; then
239        IGCM_sys_Cp ${SUBMIT_DIR}/PARAM/${config_UserChoices_JobName}_Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat_${RefPeriod} Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat
240        IGCM_sys_Chmod u+w Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat
241    fi
242
243    ##-- GHG forcing :
244    ##   If forcing file exist in run directory, read values for the current year
245    ##   and set in config.def. If not use the default value set in config.def
246
247    # Read value for solaire from file SOLARANDVOLCANOES.txt. If file not existing, take DEFAULT value from file.
248    if [ -f SOLARANDVOLCANOES.txt ] ; then
249        value=`grep Annee_${year} SOLARANDVOLCANOES.txt | awk -F= '{print $2}'`
250        if [ X"${value}" = X ] ; then
251            # The grep returned empty variable, stop execution
252            IGCM_debug_Exit "The file SOLARANDVOLCANOES.txt do not contain the current year."
253            IGCM_debug_Verif_Exit
254        fi
255    else
256        value=DEFAULT
257    fi
258    IGCM_comp_modifyDefFile nonblocker config.def solaire $value
259
260
261    # Read value for co2_ppm from file CO2.txt. If file not existing, take DEFAULT value from file.
262    if [ -f CO2.txt ] ; then
263        value=`grep Annee_${year} CO2.txt | awk -F= '{print $2}'`
264        if [ X"${value}" = X ] ; then
265            # The grep returned empty variable, stop execution
266            IGCM_debug_Exit "The file CO2.txt do not contain the current year."
267            IGCM_debug_Verif_Exit
268        fi
269    else
270        value=DEFAULT
271    fi
272    IGCM_comp_modifyDefFile nonblocker config.def co2_ppm $value
273
274
275    # Read value for CH4_ppb from file CH4.txt. If file not existing, take DEFAULT value from file.
276    if [ -f CH4.txt ] ; then
277        value=`grep Annee_${year} CH4.txt | awk -F= '{print $2}'`
278        if [ X"${value}" = X ] ; then
279            # The grep returned empty variable, stop execution
280            IGCM_debug_Exit "The file CH4.txt do not contain the current year."
281            IGCM_debug_Verif_Exit
282        fi
283    else
284        value=DEFAULT
285    fi
286    IGCM_comp_modifyDefFile nonblocker config.def CH4_ppb $value
287
288
289    # Read value for N2O_ppb from file N2O.txt. If file not existing, take DEFAULT value from file.
290    if [ -f N2O.txt ] ; then
291        value=`grep Annee_${year} N2O.txt | awk -F= '{print $2}'`
292        if [ X"${value}" = X ] ; then
293            # The grep returned empty variable, stop execution
294            IGCM_debug_Exit "The file N2O.txt do not contain the current year."
295            IGCM_debug_Verif_Exit
296        fi
297    else
298        value=DEFAULT
299    fi
300    IGCM_comp_modifyDefFile nonblocker config.def N2O_ppb $value
301
302    # Read value for CFC11_ppt from file CFC11.txt. If file not existing, take DEFAULT value from file.
303    if [ -f CFC11.txt ] ; then
304        value=`grep Annee_${year} CFC11.txt | awk -F= '{print $2}'`
305        if [ X"${value}" = X ] ; then
306            # The grep returned empty variable, stop execution
307            IGCM_debug_Exit "The file CFC11.txt do not contain the current year."
308            IGCM_debug_Verif_Exit
309        fi
310    else
311        value=DEFAULT
312    fi
313    IGCM_comp_modifyDefFile nonblocker config.def CFC11_ppt $value
314
315
316    # Read value for CFC12_ppt from file CFC12.txt. If file not existing, take DEFAULT value from file.
317    if [ -f CFC12.txt ] ; then
318        value=`grep Annee_${year} CFC12.txt | awk -F= '{print $2}'`
319        if [ X"${value}" = X ] ; then
320            # The grep returned empty variable, stop execution
321            IGCM_debug_Exit "The file CFC12.txt do not contain the current year."
322            IGCM_debug_Verif_Exit
323        fi
324    else
325        value=DEFAULT
326    fi
327    IGCM_comp_modifyDefFile nonblocker config.def CFC12_ppt $value
328
329
330    ## Coupling Time Step : Take value of FreqCoupling set in oasis.card or if it is not set, take default value 86400
331    LMDZ_t_coupl=${oasis_UserChoices_FreqCoupling:-86400}
332    IGCM_debug_Print 3 "LMDZ_t_coupl "   ${LMDZ_t_coupl}
333    IGCM_comp_modifyDefFile nonblocker config.def t_coupl   ${LMDZ_t_coupl} 
334
335    ##-- Add special treatement for CARBON CYCLE
336    if [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"control" ] || [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"historical" ] ; then
337        ATM_Carbon_Update
338    fi
339
340
341    ##-- Set LMDZ_COSP_daily1979=y in section UserChoices in lmdz.card to activate
342    ##   COSP daily output for years 1979 and later (mandatory for historical CMIP5 run).
343    if ([ X"${lmdz_UserChoices_LMDZ_COSP_daily1979}" = X"y" ] &&  [ ${year} -ge 1979 ]) ; then
344        LMDZ_COSP_daily=y
345    fi
346
347
348    ## output.def parameters
349    #  columns in phys_output_filekeys refer to the filenames given in phys_out_filenames in output.def : 
350    #                                            histmth       histday        histhf    histfh3h   histhf3hm   histstn
351    IGCM_comp_modifyDefFile nonblocker output.def phys_out_filekeys "${ok_mensuel} ${ok_journe}   ${ok_hf}  ${ok_hf3h} ${ok_hf3hm} ${ok_stn}"
352    IGCM_comp_modifyDefFile nonblocker output.def ecrit_ISCCP ${LMDZ_ecrit_ISCCP}
353    IGCM_comp_modifyDefFile nonblocker output.def ok_cosp     ${LMDZ_COSP_OK}
354    IGCM_comp_modifyDefFile nonblocker output.def ok_mensuelCOSP  ${LMDZ_COSP_monthly}
355    IGCM_comp_modifyDefFile nonblocker output.def ok_journeCOSP   ${LMDZ_COSP_daily}
356    IGCM_comp_modifyDefFile nonblocker output.def ok_hfCOSP   ${LMDZ_COSP_hf}
357    IGCM_comp_modifyDefFile nonblocker output.def ok_histNMC  "${LMDZ_NMC_monthly} ${LMDZ_NMC_daily} ${LMDZ_NMC_hf}"
358
359    # XIOS XML definition
360    # Default init : files are desactivated
361        LMDZ_sed_xml file_def_histmth_lmdz.xml histmth enabled .FALSE.
362        LMDZ_sed_xml file_def_histday_lmdz.xml histday enabled .FALSE.
363        LMDZ_sed_xml file_def_histhf_lmdz.xml histhf enabled .FALSE.
364        LMDZ_sed_xml file_def_histfh3h_lmdz.xml histfh3h enabled .FALSE.
365        LMDZ_sed_xml file_def_histhf3hm_lmdz.xml histfh3hm enabled .FALSE.
366        LMDZ_sed_xml file_def_histstn_lmdz.xml histstn enabled .FALSE.
367        LMDZ_sed_xml file_def_histmthNMC_lmdz.xml histmthNMC enabled .FALSE.
368        LMDZ_sed_xml file_def_histdayNMC_lmdz.xml histdayNMC enabled .FALSE.
369        LMDZ_sed_xml file_def_histhfNMC_lmdz.xml histhfNMC enabled .FALSE.
370        if [ X${lmdz_UserChoices_XIOS}  = Xy ] ; then
371    # Default output level : 5
372            LMDZ_sed_xml file_def_histmth_lmdz.xml histmth output_level 5
373            LMDZ_sed_xml file_def_histday_lmdz.xml histday output_level 5
374            LMDZ_sed_xml file_def_histhf_lmdz.xml histhf output_level 5
375            LMDZ_sed_xml file_def_histfh3h_lmdz.xml histfh3h output_level 5
376            LMDZ_sed_xml file_def_histhf3hm_lmdz.xml histfh3hm output_level 5
377            LMDZ_sed_xml file_def_histstn_lmdz.xml histstn output_level 5
378            LMDZ_sed_xml file_def_histmthNMC_lmdz.xml histmthNMC output_level 5
379            LMDZ_sed_xml file_def_histdayNMC_lmdz.xml histdayNMC output_level 5
380            LMDZ_sed_xml file_def_histhfNMC_lmdz.xml histhfNMC output_level 5
381     # Filling of XML files
382        if [ X${ok_mensuel} = Xy ] ; then
383            LMDZ_sed_xml file_def_histmth_lmdz.xml histmth enabled .TRUE.
384            LMDZ_sed_xml file_def_histmth_lmdz.xml histmth output_freq 1mo
385            LMDZ_sed_xml file_def_histmth_lmdz.xml histmth name histmth
386        fi
387        if [ X${ok_journe} = Xy ] ; then       
388            LMDZ_sed_xml file_def_histday_lmdz.xml histday enabled .TRUE.
389            LMDZ_sed_xml file_def_histday_lmdz.xml histday output_freq 1d
390            LMDZ_sed_xml file_def_histday_lmdz.xml histday name histday
391            if [ X${OutLevel} = Xlow ] || [ X${OutLevel} = Xmedium ] ; then
392                LMDZ_sed_xml file_def_histday_lmdz.xml histday output_level 2
393            fi
394        fi
395        if [ X${ok_hf} = Xy ] ; then
396            LMDZ_sed_xml file_def_histhf_lmdz.xml histhf enabled .TRUE.
397            LMDZ_sed_xml file_def_histhf_lmdz.xml histhf output_freq 6h
398            LMDZ_sed_xml file_def_histhf_lmdz.xml histhf name histhf
399            if [ X${OutLevel} = Xlow ] ; then
400                LMDZ_sed_xml file_def_histhf_lmdz.xml histhf output_level 2
401            fi
402        fi     
403        if [ X${ok_hf3h} = Xy ] ; then
404            LMDZ_sed_xml file_def_histhf3h_lmdz.xml histhf3h enabled .TRUE.
405            LMDZ_sed_xml file_def_histhf3h_lmdz.xml histhf3h output_freq 3h
406            LMDZ_sed_xml file_def_histhf3h_lmdz.xml histhf3h name histhf3h
407        fi     
408        if [ X${ok_hf3hm} = Xy ] ; then
409            LMDZ_sed_xml file_def_histhf3hm_lmdz.xml histhf3hm enabled .TRUE.
410            LMDZ_sed_xml file_def_histhf3hm_lmdz.xml histhf3hm output_freq 3h
411            LMDZ_sed_xml file_def_histhf3hm_lmdz.xml histhf3hm name histhf3hm
412        fi
413        if [ X${ok_stn} = Xy ] ; then
414            LMDZ_sed_xml file_def_histstn_lmdz.xml histstn enabled .TRUE.
415            LMDZ_sed_xml file_def_histstn_lmdz.xml histstn output_freq 1800s
416            LMDZ_sed_xml file_def_histstn_lmdz.xml histstn name histstn
417        fi
418        if [ X${LMDZ_NMC_monthly} = Xy ] ; then
419            LMDZ_sed_xml file_def_histmthNMC_lmdz.xml histmthNMC enabled .TRUE.
420            LMDZ_sed_xml file_def_histmthNMC_lmdz.xml histmthNMC output_freq 1mo
421            LMDZ_sed_xml file_def_histmthNMC_lmdz.xml histmthNMC name histmthNMC
422        fi
423        if [ X${LMDZ_NMC_daily} = Xy ] ; then
424            LMDZ_sed_xml file_def_histdayNMC_lmdz.xml histdayNMC enabled .TRUE.
425            LMDZ_sed_xml file_def_histdayNMC_lmdz.xml histdayNMC output_freq 1d
426            LMDZ_sed_xml file_def_histdayNMC_lmdz.xml histdayNMC name histdayNMC
427        fi
428        if [ X${LMDZ_NMC_hf} = Xy ] ; then
429            LMDZ_sed_xml file_def_histhfNMC_lmdz.xml histhfNMC enabled .TRUE.
430            LMDZ_sed_xml file_def_histhfNMC_lmdz.xml histhfNMC output_freq 6h
431            LMDZ_sed_xml file_def_histhfNMC_lmdz.xml histhfNMC name histhfNMC
432        fi
433    fi
434
435    ## gcm.def parameters :
436    # Modification of variable iphysiq depending on the physics
437    if [ X${LMDZ_Physics} = X"AP" ] ; then
438        value=10
439    else
440        value=DEFAULT
441    fi
442    IGCM_comp_modifyDefFile nonblocker gcm.def iphysiq $value
443
444
445    ## run.def parameters
446    IGCM_comp_modifyDefFile blocker run.def dayref   ${InitDay}
447    IGCM_comp_modifyDefFile blocker run.def nday     ${PeriodLengthInDays}
448    IGCM_comp_modifyDefFile blocker run.def raz_date ${RAZ_DATE}
449    IGCM_comp_modifyDefFile blocker run.def periodav ${LMDZ_periodav}
450    IGCM_comp_modifyDefFile nonblocker run.def adjust   ${LMDZ_adjust}
451
452    # Set anneeref different for gcm and ce0l
453    # Variable calend is different for a run with create_etat0_limit and the gcm
454    # Test if executable create_etat0_limit is present and lmdz.x is not present
455    if [ -f create_etat0_limit* ] || [ -f ce0l* ] && [ ! -f lmdz.x ] ; then
456        # for case ce0l : always take current year
457        IGCM_comp_modifyDefFile blocker run.def anneeref ${year}
458        IGCM_comp_modifyDefFile blocker run.def calend   ${CalendarTypeForCreate}
459    else
460        # for case gcm : take first year of simulation
461        IGCM_comp_modifyDefFile blocker run.def anneeref ${InitYear}
462        IGCM_comp_modifyDefFile blocker run.def calend   ${CalendarTypeForLmdz}
463    fi
464
465    # Activate creation of file grilles_gcm.nc only at first period
466    if [ ${CumulPeriod} -eq 1 ] ; then
467        IGCM_comp_modifyDefFile nonblocker run.def grilles_gcm_netcdf y
468    else
469        IGCM_comp_modifyDefFile nonblocker run.def grilles_gcm_netcdf n
470    fi
471
472    ## Determine from the variable ListOfComponents in config.card coupling to external models
473    ## and set corresponding parameters in run.def
474    echo ListOfComponents now running : ${config_ListOfComponents[*]}
475
476    if [ X${config_ListOfComponents_SRF} = Xorchidee ] ; then
477        echo "Activate ORCHIDEE, set VEGET=y in run.def"
478        IGCM_comp_modifyDefFile blocker run.def VEGET y
479    else
480        echo "No ORCHIDEE, set VEGET=n in run.def"
481        IGCM_comp_modifyDefFile blocker run.def VEGET n
482    fi
483
484    if [ X${config_ListOfComponents_CPL} = Xoasis ] ; then
485        echo "Activate coupling to ocean, set type_ocean=couple in run.def"
486        IGCM_comp_modifyDefFile blocker run.def type_ocean couple
487    else
488        echo "LMDZ is running in forced mode without ocean model, set type_ocean=force in run.def"
489        IGCM_comp_modifyDefFile blocker run.def type_ocean force
490    fi
491
492    if [ X${config_ListOfComponents_CHM} = Xinca ] ; then
493        echo "Activate coupling to INCA, set type_trac=inca in run.def"
494        IGCM_comp_modifyDefFile blocker run.def type_trac inca
495    elif [ X${config_ListOfComponents_CHM} = Xreprobus ] ; then
496        echo "Activate coupling to REPROBUS, set type_trac=repr in run.def"
497        IGCM_comp_modifyDefFile blocker run.def type_trac repr
498        IGCM_comp_modifyDefFile blocker run.def config_inca none
499    else
500        echo "No coupling to chemistry model, set type_trac=lmdz in run.def"
501        IGCM_comp_modifyDefFile blocker run.def type_trac lmdz
502        IGCM_comp_modifyDefFile blocker run.def config_inca none
503    fi
504
505
506    # config.def : Activate direct radiative effect if ok_ade=y
507    if [ ! X${lmdz_UserChoices_ok_ade} = X ]; then
508        IGCM_comp_modifyDefFile nonblocker config.def ok_ade ${lmdz_UserChoices_ok_ade}
509    else
510        IGCM_comp_modifyDefFile nonblocker config.def ok_ade n
511    fi 
512
513    # config.def : Activate indirect radiative effect if ok_aie=y
514    if [ ! X${lmdz_UserChoices_ok_aie} = X ]; then
515        IGCM_comp_modifyDefFile nonblocker config.def ok_aie ${lmdz_UserChoices_ok_aie}
516    else
517        IGCM_comp_modifyDefFile nonblocker config.def ok_aie n
518    fi 
519
520    # config.def : Activate online aerosol coupled model if aerosol_couple=y
521    if [ ! X${lmdz_UserChoices_aerosol_couple} = X ]; then
522        IGCM_comp_modifyDefFile nonblocker config.def aerosol_couple ${lmdz_UserChoices_aerosol_couple}
523    else
524        IGCM_comp_modifyDefFile nonblocker config.def aerosol_couple n
525    fi 
526
527    # config.def : Activate reading of ozone in climatology if read_climoz=2
528    if [ ! X${lmdz_UserChoices_read_climoz} = X ]; then
529        IGCM_comp_modifyDefFile nonblocker config.def read_climoz ${lmdz_UserChoices_read_climoz}
530    else
531        IGCM_comp_modifyDefFile nonblocker config.def read_climoz 0     
532    fi 
533
534    # config.def : Choose aerosol use in radiative effect
535    #  type of coupled aerosol =1 (default) =2 => bc  only =3 => pom only =4 => seasalt only
536    # =5 => dust only =6 => all aerosol   
537    if [ ! X${lmdz_UserChoices_flag_aerosol} = X ]; then
538        IGCM_comp_modifyDefFile nonblocker config.def flag_aerosol ${lmdz_UserChoices_flag_aerosol}
539    else
540        IGCM_comp_modifyDefFile nonblocker config.def flag_aerosol 0
541    fi 
542
543    # config.def : Activate calcul of Cloud droplet number concentration if ok_cdnc=y
544    if [ ! X${lmdz_UserChoices_ok_cdnc} = X ]; then
545        IGCM_comp_modifyDefFile nonblocker config.def ok_cdnc ${lmdz_UserChoices_ok_cdnc}
546    else
547        IGCM_comp_modifyDefFile nonblocker config.def ok_cdnc n
548    fi 
549
550    # guide.def : Activate nudging if ok_guide=y set in lmdz.card
551    if [ ! X${lmdz_UserChoices_ok_guide} = X ] ; then
552        IGCM_comp_modifyDefFile nonblocker guide.def ok_guide  ${lmdz_UserChoices_ok_guide}
553    else
554        IGCM_comp_modifyDefFile nonblocker guide.def ok_guide n
555    fi
556
557    ## Read ByPass_hgardfou_teta option in lmdz.card --> divide teta* by 2 if [ $ByPass_hgardfou_teta = 1 ]
558    ByPass_hgardfou_teta=${lmdz_UserChoices_ByPass_hgardfou_teta}
559    if [ X"${ByPass_hgardfou_teta}" = X"y" ] ; then
560        awk '{ if ($0 ~ /^teta.*=/) {split($0,a,"=") ; print a[1]"="a[2]/2"."} else print $0}' gcm.def > gcm.def.tmp
561        IGCM_sys_Mv gcm.def.tmp gcm.def
562        echo
563        IGCM_debug_Print 1 "ByPass_hgardfou_teta : ^teta*/2 in gcm.def"
564        echo
565        cat gcm.def
566        ByPass_hgardfou_teta=n
567        IGCM_card_WriteOption ${SUBMIT_DIR}/COMP/lmdz.card UserChoices ByPass_hgardfou_teta "${ByPass_hgardfou_teta}"
568    fi
569
570    ## Read ByPass_hgardfou_mats option in lmdz.card --> purmats=y 2 if [ $ByPass_hgardfou_mats = 1 ]
571    ByPass_hgardfou_mats=${lmdz_UserChoices_ByPass_hgardfou_mats}
572    if [ X"${ByPass_hgardfou_mats}" = X"y" ] ; then
573        sed -e "s/^purmats=.*/purmats=y/" gcm.def > gcm.def.tmp
574        IGCM_sys_Mv gcm.def.tmp gcm.def
575        echo
576        IGCM_debug_Print 1 "ByPass_hgardfou_mats : purmats=y in gcm.def"
577        echo
578        cat gcm.def
579        ByPass_hgardfou_mats=n
580        IGCM_card_WriteOption ${SUBMIT_DIR}/COMP/lmdz.card UserChoices ByPass_hgardfou_mats "${ByPass_hgardfou_mats}"
581    fi
582
583    if [ X${lmdz_UserChoices_XIOS}  = Xy ] ; then
584    # Add include of LMDZ context in iodef.xml
585    # In iodef.xml add on next line after "COMPONENT CONTEXT"
586    #  <context id="LMDZ" src="./context_lmdz.xml"/>
587        echo '<context id="LMDZ" src="./context_lmdz.xml"/>' > add.tmp
588        cp iodef.xml iodef.xml.tmp
589        sed -e "/COMPONENT CONTEXT/r add.tmp" \
590            iodef.xml.tmp > iodef.xml
591        rm iodef.xml.tmp add.tmp
592    fi
593   
594    IGCM_debug_PopStack "ATM_Update"
595}
596
597#-----------------------------------
598function ATM_Finalize
599{
600    IGCM_debug_PushStack "ATM_Finalize"
601
602    # If the file exist, copy Bands_ file to PARAM/ in submit directory. This file will be used for the simulation.
603    # Copy also the same file into ATM/Restart at ARCHIVE directory for backup.
604    if [ -f Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat ] ; then
605      if [ ${CumulPeriod} -le ${LMDZ_NbPeriod_adjust} ] ; then
606        IGCM_sys_Cp Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat ${SUBMIT_DIR}/PARAM/${config_UserChoices_JobName}_Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat_${CumulPeriod}
607        IGCM_sys_Put_Out Bands_${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}
608      elif [ ${CumulPeriod} -eq 1 ] && [ ${LMDZ_NbPeriod_adjust} -eq 0 ] ; then
609        # Special case : first period and no adjust => Save bands file with suffix _0
610        IGCM_sys_Cp Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat ${SUBMIT_DIR}/PARAM/${config_UserChoices_JobName}_Bands_${RESOL_ATM_3D}_${NUM_PROC_ATM}prc.dat_0
611        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
612      fi
613    fi
614
615    # Add special treatement for CARBON CYCLE
616    if [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"control" ] || [ X"${lmdz_UserChoices_CARBON_CYCLE}" = X"historical" ] ; then
617        ATM_Carbon_Finalize
618    fi
619
620    echo FINALIZE ATM !
621
622    IGCM_debug_PopStack "ATM_Finalize"
623}
624
625
626
627function ATM_Carbon_Update
628{
629    # This fuction will be called only if CARBON_CYCLE is set to control or historical in lmdz.card
630
631    IGCM_debug_PushStack "ATM_Carbon_Update"
632
633    typeset InitPeriodCo2 InitDateBeginCo2 InitDateEndCo2
634    typeset CO2SBG CO2MBG CO2LU CO2_ppm CO2_ppm_prec fCO2_ff
635    typeset PathCO2log
636    typeset PreviousLinelog LastPeriodDateBegin LastPeriodDateEnd LastDatesPeriod LastPREFIX
637   
638    if ( ${FirstInitialize} && [ X"${config_ATM_Restart}" = X"n" ] ) ; then
639        ##--Initialization of fluxes to an undefined value at the first run
640        UndefinedValueCo2=-9999
641        InitPeriodCo2=0
642        InitDateBeginCo2=${UndefinedValueCo2}
643        InitYearCo2=$(( ${year} - 1 )) 
644        InitDateEndCo2=${InitYearCo2}1231
645        fCO2_ff=${UndefinedValueCo2} 
646        CO2SBG=${UndefinedValueCo2}
647        CO2LU=${UndefinedValueCo2}
648        CO2MBG=${UndefinedValueCo2}
649        CO2_ppm_prec=${UndefinedValueCo2}
650        # Get the initial value of atmosp. pco2
651        CO2_ppm=${lmdz_UserChoices_co2_init}
652       
653        IGCM_sys_Cp ${SUBMIT_DIR}/co2.log.init ${SUBMIT_DIR}/co2.log
654        IGCM_sys_Chmod u+w ${SUBMIT_DIR}/co2.log
655       
656        # Save CO2 values in ExeCpuLog variable contents 5 fields
657        echo "${InitPeriodCo2} ${InitDateBeginCo2} ${InitDateEndCo2} ${CO2_ppm} ${CO2_ppm_prec} ${fCO2_ff} ${CO2MBG} ${CO2SBG} ${CO2LU}" |   \
658            gawk '{printf("  %11d | %15s | %15s | %22.15g | %20.15g | %11.8g | %11.8g | %12.8g | %12.8g \n", \
659                              $1,$2,$3,$4,$5,$6,$7,$8,$9)}' >> ${SUBMIT_DIR}/co2.log
660       
661        # Get the path where the log file co2.log is
662        PathCO2log=${SUBMIT_DIR} 
663        # Get Previous line in co2.log
664        PreviousLinelog=$( tail -1 ${PathCO2log}/co2.log )
665       
666    else
667       
668        # NEW parameter in config.card (even for Overule all restarts, you must modify the line after this comment ):
669        # !! NEW for Carbone cycle !! Path where to find old co2.log file for restart CO2.
670        #SubmitRestartPath=
671        if ( ${FirstInitialize} && [ X"${config_ATM_Restart}" = X"y" ] ) ; then
672            IGCM_card_DefineVariableFromOption ${SUBMIT_DIR}/config.card ATM SubmitRestartPath
673            PathCO2log=${config_ATM_SubmitRestartPath}
674            Date_r=$( IGCM_date_ConvertFormatToGregorian ${config_ATM_RestartDate} )
675            PreviousLinelog=$( grep ${Date_r} ${PathCO2log}/co2.log )
676           
677            IGCM_sys_Cp ${SUBMIT_DIR}/co2.log.init ${SUBMIT_DIR}/co2.log
678            IGCM_sys_Chmod u+w ${SUBMIT_DIR}/co2.log
679           
680            # Save Last Line of control in new co2.log file
681            InitPeriodCo2=0   
682            InitDateBeginCo2=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $2}' )
683            InitDateEndCo2=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $3}' )
684            fCO2_ff=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $6}' )
685            CO2SBG=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $8}' )
686            CO2LU=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $9}' )
687            CO2MBG=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $7}' )
688            CO2_ppm_prec=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $5}' )
689            CO2_ppm=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $4}' )
690           
691            echo "${InitPeriodCo2} ${InitDateBeginCo2} ${InitDateEndCo2} ${CO2_ppm} ${CO2_ppm_prec} ${fCO2_ff} ${CO2MBG} ${CO2SBG} ${CO2LU}" |   \
692                gawk '{printf("  %11d | %15s | %15s | %22.15g | %20.15g | %11.8g | %11.8g | %12.8g | %12.8g \n", \
693                              $1,$2,$3,$4,$5,$6,$7,$8,$9)}' >> ${SUBMIT_DIR}/co2.log
694        else
695           # Get restart line in co2.log
696            PathCO2log=${SUBMIT_DIR}
697            PreviousLinelog=$( tail -1 ${PathCO2log}/co2.log )
698           # Get the value of atmosp. pco2 in co2.log
699            CO2_ppm=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $4}' )
700        fi
701       
702    fi
703   
704    if [ ${lmdz_UserChoices_CARBON_CYCLE} = historical ] ; then
705            # Modify co2_ppm in config.def only for historical run
706            # If not historical run, keep co2_ppm value set earlier by IGCM_comp_modifyDefFile
707        IGCM_comp_modifyDefFile nonblocker config.def co2_ppm     ${CO2_ppm}
708    fi
709    IGCM_debug_PopStack "ATM_Carbon_Update"
710}
711
712
713function ATM_Carbon_Finalize
714{
715    # This fuction will be called only if CARBON_CYCLE is set to control or historical in lmdz.card
716
717    IGCM_debug_PushStack "ATM_Carbon_Finalize"
718
719    typeset CO2SBG_3V CO2SBG CO2MBG CO2SRF CO2LU CO2_ppm CO2_ppm_prec fCO2_ff
720   
721        # Fossil fuel emission
722    if [ ${lmdz_UserChoices_CARBON_CYCLE} = control ] ; then
723            # For Control, no fossil fuel emission :
724        fCO2_ff=0
725        echo "Fossil Fuel for control run  :" ${fCO2_ff}
726    else
727            # For historical, get the fossile fuel file :
728        fCO2_ff=$( gawk "{if (match(\$0,\"${year}\ *${month}\")) {print \$3}}" ${SUBMIT_DIR}/PARAM/CMIP5_gridcar_CO2_emissions_fossil_fuel_Andres_1751-2007_monthly_SC.txt )
729        echo "Fossil Fuel for historical run  :" ${fCO2_ff}
730    fi
731   
732        # Get the value of ocean carbon flux
733    CO2MBG=$( ${SUBMIT_DIR}/COMP/lmdz_analyse_pisces_out.awk ocean.output )
734    CO2MBG=$( echo ${CO2MBG} | sed -e "s/ *//" )
735    echo "Ocean carbon flux  :" ${CO2MBG}
736   
737        # Get the value of land fluxes
738    set +A CO2SBG_3V -- $( ${SUBMIT_DIR}/COMP/lmdz_analyse_stomate_out.awk out_orchidee_0000 )
739    CO2SRF=$( echo ${CO2SBG_3V[0]} | sed -e "s/ *//" )
740    CO2LU=$( echo ${CO2SBG_3V[1]} | sed -e "s/ *//" )
741    CO2SBG=$( echo ${CO2SBG_3V[2]} | sed -e "s/ *//" )
742    echo "Land carbon flux (NEP)         :" ${CO2SRF}
743    echo "LU flux          (FLUC)        :" ${CO2LU}
744    echo "Total Land carbon flux (NBP)   :" ${CO2SBG}
745   
746        # Previous CO2
747    CO2_ppm_prec=$( echo "${PreviousLinelog[*]}" | gawk -F '|' '{gsub(" ",""); print $4}' )
748    echo "Previous CO2  :" ${CO2_ppm_prec}
749   
750        # Formula
751    CO2_ppm=$( echo "${CO2_ppm_prec} + (${fCO2_ff} + ${CO2MBG} + ${CO2SBG}) / 2.12" | bc -l )
752    echo "New CO2  :" ${CO2_ppm}
753   
754        # Save CO2 values in ExeCpuLog variable contents 5 fields
755    echo "${CumulPeriod} ${PeriodDateBegin} ${PeriodDateEnd} ${CO2_ppm} ${CO2_ppm_prec} ${fCO2_ff} ${CO2MBG} ${CO2SBG} ${CO2LU}" |   \
756        gawk '{printf("  %11d | %15s | %15s | %22.15g | %20.15g | %11.8g | %11.8g | %12.8g | %12.8g \n", \
757                           $1,$2,$3,$4,$5,$6,$7,$8,$9)}' >> ${SUBMIT_DIR}/co2.log
758   
759    IGCM_debug_PopStack "ATM_Carbon_Finalize"
760}
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