source: trunk/libIGCM/AA_pack_restart @ 706

Last change on this file since 706 was 704, checked in by jgipsl, 12 years ago

=> Added "#MSUB -Q normal" in headings for jobs at curie : When submitting a job in test queue (#MSUB -Q test) all sub jobs will also be subbmitted in test queue if nothingelse is specified.

=> Changed in AA_job : use /bin/ksh at curie due to specific usage in SPINUP configuration.

=> Correct directory in libIGCM_sys_obelix.
  • Property svn:keywords set to Revision Author Date
File size: 16.1 KB
Line 
1#-Q- cesium #!/bin/ksh
2#-Q- cesium ######################
3#-Q- cesium ## CESIUM   CEA ##
4#-Q- cesium ######################
5#-Q- cesium #MSUB -r PACKRESTART    # Nom du job
6#-Q- cesium #MSUB -N 1              # Reservation du noeud
7#-Q- cesium #MSUB -n 1              # Reservation du processus
8#-Q- cesium #MSUB -T 86400          # Limite de temps elapsed du job
9#-Q- cesium #MSUB -E "-j o"
10#-Q- cesium #MSUB -E "-S /bin/ksh"
11#-Q- curie ######################
12#-Q- curie ## CURIE   TGCC/CEA ##
13#-Q- curie ######################
14#-Q- curie #MSUB -r PACKRESTART    # Nom du job               
15#-Q- curie #MSUB -eo
16#-Q- curie #MSUB -n 1              # Reservation du processus
17#-Q- curie #MSUB -T 86400          # Limite de temps elapsed du job
18#-Q- curie #MSUB -E '--no-requeue'
19#-Q- curie #MSUB -q large
20#-Q- curie #MSUB -Q normal
21#-Q- curie set +x
22#-Q- platine #!/usr/bin/ksh
23#-Q- platine ###################
24#-Q- platine ## PLATINE   CEA ##
25#-Q- platine ###################
26#-Q- platine #BSUB -J PACKRESTART            # Nom du job
27#-Q- platine #BSUB -N                        # message a la fin du job
28#-Q- platine #BSUB -n 1                      # reservation des processeurs pour le job
29#-Q- platine #BSUB -W 4:00                   # Limite temps
30#-Q- platine #BSUB -q post                   # Passage en queue post
31#-Q- platine #BSUB -L /bin/ksh
32#-Q- sx8brodie #!/bin/ksh
33#-Q- sx8brodie #######################
34#-Q- sx8brodie ## SX8BRODIE   IDRIS ##
35#-Q- sx8brodie #######################
36#-Q- sx8brodie # Temps Elapsed max. d'une requete hh:mm:ss
37#-Q- sx8brodie # @ wall_clock_limit = 10:00:00
38#-Q- sx8brodie # Nom du travail LoadLeveler
39#-Q- sx8brodie # @ job_name   = PACKRESTART
40#-Q- sx8brodie # Fichier de sortie standard du travail
41#-Q- sx8brodie # @ output     = $(job_name).$(jobid)
42#-Q- sx8brodie # Fichier de sortie d'erreur du travail
43#-Q- sx8brodie # @ error      =  $(job_name).$(jobid)
44#-Q- sx8brodie # pour recevoir un mail en cas de depassement du temps Elapsed (ou autre pb.)
45#-Q- sx8brodie # @ notification = error
46#-Q- sx8brodie # @ environment  = $DEBUG_debug ; $MODIPSL ; $libIGCM ; $libIGCM_SX ; $SUBMIT_DIR ; $DateBegin ; $DateEnd ; $PeriodPack ; $StandAlone ; $MASTER
47#-Q- sx8brodie # @ queue
48#-Q- aix6 #!/bin/ksh
49#-Q- aix6 #######################
50#-Q- aix6 ##   VARGAS   IDRIS  ##
51#-Q- aix6 #######################
52#-Q- aix6 # Temps Elapsed max. d'une requete hh:mm:ss
53#-Q- aix6 # @ wall_clock_limit = 10:00:00
54#-Q- aix6 # Nom du travail LoadLeveler
55#-Q- aix6 # @ job_name   = PACKRESTART
56#-Q- aix6 # Fichier de sortie standard du travail
57#-Q- aix6 # @ output     = $(job_name).$(jobid)
58#-Q- aix6 # Fichier de sortie d'erreur du travail
59#-Q- aix6 # @ error      =  $(job_name).$(jobid)
60#-Q- aix6 # pour recevoir un mail en cas de depassement du temps Elapsed (ou autre pb.)
61#-Q- aix6 # @ notification = error
62#-Q- aix6 # @ environment  = $DEBUG_debug ; $MODIPSL ; $libIGCM ; $libIGCM_SX ; $SUBMIT_DIR ; $DateBegin ; $DateEnd ; $PeriodPack ; $StandAlone ; $MASTER
63#-Q- aix6 # @ queue
64#-Q- ulam #!/bin/ksh
65#-Q- ulam #######################
66#-Q- ulam ##   VARGAS   IDRIS  ##
67#-Q- ulam #######################
68#-Q- ulam # Temps Elapsed max. d'une requete hh:mm:ss
69#-Q- ulam # @ wall_clock_limit = 10:00:00
70#-Q- ulam # Nom du travail LoadLeveler
71#-Q- ulam # @ job_name   = PACKRESTART
72#-Q- ulam # Fichier de sortie standard du travail
73#-Q- ulam # @ output     = $(job_name).$(jobid)
74#-Q- ulam # Fichier de sortie d'erreur du travail
75#-Q- ulam # @ error      =  $(job_name).$(jobid)
76#-Q- ulam # pour recevoir un mail en cas de depassement du temps Elapsed (ou autre pb.)
77#-Q- ulam # @ notification = error
78#-Q- ulam # @ environment  = $DEBUG_debug ; $MODIPSL ; $libIGCM ; $libIGCM_SX ; $SUBMIT_DIR ; $DateBegin ; $DateEnd ; $PeriodPack ; $StandAlone ; $MASTER
79#-Q- ulam # @ queue
80#-Q- sx8mercure #!/bin/ksh
81#-Q- sx8mercure ######################
82#-Q- sx8mercure ## SX8MERCURE   CEA ##
83#-Q- sx8mercure ######################
84#-Q- sx8mercure #PBS -N PACKRESTART          # Nom du job
85#-Q- sx8mercure #PBS -j o                    # regroupement des stdout et stderr
86#-Q- sx8mercure #PBS -S /usr/bin/ksh         # shell de soumission
87#-Q- sx8mercure #PBS -l memsz_job=1gb        # Limite memoire a 1 Go
88#-Q- sx8mercure #PBS -l cputim_job=24:00:00  # Limite temps a 1 heures
89#-Q- sx8mercure #PBS -q scalaire
90#-Q- sx8mercure #PBS -r n
91#-Q- sx9mercure #!/bin/ksh
92#-Q- sx9mercure ######################
93#-Q- sx9mercure ## SX9MERCURE  CCRT ##
94#-Q- sx9mercure ######################
95#-Q- sx9mercure #PBS -N PACKRESTART          # Nom du job
96#-Q- sx9mercure #PBS -j o                    # regroupement des stdout et stderr
97#-Q- sx9mercure #PBS -S /usr/bin/ksh         # shell de soumission
98#-Q- sx9mercure #PBS -l memsz_job=1gb        # Limite memoire a 1 Go
99#-Q- sx9mercure #PBS -l elapstim_req=24:00:00  # Limite temps a 1 heures
100#-Q- sx9mercure #PBS -q scalaire
101#-Q- sx9mercure #PBS -r n
102#-Q- titane #!/bin/ksh
103#-Q- titane ######################
104#-Q- titane ## TITANE   CEA     ##
105#-Q- titane ######################
106#-Q- titane #MSUB -r PACKRESTART    # Nom du job
107#-Q- titane #MSUB -eo
108#-Q- titane #MSUB -n 1              # Reservation du processus
109#-Q- titane #MSUB -T 86400          # Limite de temps elapsed du job
110#-Q- titane #MSUB -q mono
111#-Q- titane #MSUB -E '-rn'
112#-Q- lxiv8 ######################
113#-Q- lxiv8 ## OBELIX      LSCE ##
114#-Q- lxiv8 ######################
115#-Q- lxiv8 #PBS -N PACKRESTART
116#-Q- lxiv8 #PBS -m a
117#-Q- lxiv8 #PBS -j oe
118#-Q- lxiv8 #PBS -q medium
119#-Q- lxiv8 #PBS -o PACKRESTART.$$
120#-Q- lxiv8 #PBS -S /bin/ksh
121#-Q- default #!/bin/ksh
122#-Q- default ##################
123#-Q- default ## DEFAULT HOST ##
124#-Q- default ##################
125
126#**************************************************************
127# Author: Sebastien Denvil
128# Contact: Sebastien.Denvil__at__ipsl.jussieu.fr
129# $Revision::                                          $ Revision of last commit
130# $Author::                                            $ Author of last commit
131# $Date::                                              $ Date of last commit
132# IPSL (2006)
133#  This software is governed by the CeCILL licence see libIGCM/libIGCM_CeCILL.LIC
134#
135#**************************************************************
136
137#set -eu
138#set -vx
139
140date
141
142########################################################################
143
144#D- Flag to determine if this job in a standalone mode
145#D- Default : value from AA_job if any
146StandAlone=${StandAlone:=true}
147
148#D- Path to libIGCM
149#D- Default : value from AA_job if any
150# WARNING For StandAlone use : To run this script on some machine (ulam and cesium)
151# WARNING you must check MirrorlibIGCM variable in sys library.
152# WARNING If this variable is true, you must use libIGCM_POST path instead
153# WARNING of your running libIGCM directory.
154libIGCM=${libIGCM:=::modipsl::/libIGCM}
155
156#-D- $hostname of the MASTER job when SUBMIT_DIR is not visible on postprocessing computer.
157MASTER=${MASTER:=mercure|titane|brodie|vargas}
158
159#D- Flag to determine begin date for restart pack
160#D- Default : value from AA_job if any
161DateBegin=${DateBegin:=20000101}
162
163#D- Flag to determine end date for restart pack
164#D- Default : value from AA_job if any
165DateEnd=${DateEnd:=20691231}
166
167#D- Flag to determine pack period
168#D- Default : value from AA_job if any
169PeriodPack=${PeriodPack:=10Y}
170
171#D- Uncomment to run interactively
172#D- For testing purpose, will be remove
173#SUBMIT_DIR=${PWD}
174#RUN_DIR_PATH=${SCRATCHDIR}/Pack_Test
175
176#D- Increased verbosity (1, 2, 3)
177#D- Default : value from AA_job if any
178Verbosity=${Verbosity:=3}
179
180#D- Low level debug : to bypass lib test checks and stack construction
181#D- Default : value from AA_job if any
182DEBUG_debug=${DEBUG_debug:=false}
183
184#D- Keep following comments for now. Will be remove.
185
186#on veut archiver les fichiers restart
187#Dans le cadre du demenagement ils seront renommes
188#ATM/Restart/****.nc
189#OCE/Restart/****.nc
190#...
191#sous la forme
192#RESTART/ATM_****.nc
193#RESTART/OCE_****.nc
194#Attention de bien conserver les dates d'origines
195#
196#Dans le cadre de la production nouvelle chaine
197#ils auront directement le bon nom
198#
199#On veut egalement que l'archive soit par periode de temps
200# cette periode est definie par la taille du pack donc connue
201# en entree du script (1M, 1Y, 5Y, 10Y etc...)
202#
203# $1= PATH/config_card d'une simulation avec
204# TagName/JobName/ExperimentName/SpaceName/DateBegin/DateEnd
205# $2=PeriodPack en M/m ou Y/y
206
207########################################################################
208
209. ${libIGCM}/libIGCM_debug/libIGCM_debug.ksh
210( ${DEBUG_debug} ) && IGCM_debug_Check
211. ${libIGCM}/libIGCM_card/libIGCM_card.ksh
212( ${DEBUG_debug} ) && IGCM_card_Check
213. ${libIGCM}/libIGCM_date/libIGCM_date.ksh
214( ${DEBUG_debug} ) && IGCM_date_Check
215#-------
216. ${libIGCM}/libIGCM_sys/libIGCM_sys.ksh
217. ${libIGCM}/libIGCM_post/libIGCM_post.ksh
218
219########################################################################
220
221#set -vx
222
223RUN_DIR=${RUN_DIR_PATH}
224IGCM_sys_MkdirWork ${RUN_DIR}
225IGCM_sys_Cd ${RUN_DIR}
226
227# ------------------------------------------------------------------
228# Test if all was right before proceeding further
229# ------------------------------------------------------------------
230IGCM_debug_Verif_Exit_Post
231
232if [ ${StandAlone} = true ] ; then
233    CARD_DIR=${SUBMIT_DIR}
234else
235    CARD_DIR=${RUN_DIR_PATH}
236    IGCM_sys_Get_Master ${SUBMIT_DIR}/config.card ${RUN_DIR_PATH}
237    IGCM_sys_Get_Master ${SUBMIT_DIR}/run.card    ${RUN_DIR_PATH}
238    IGCM_sys_Get_Master ${SUBMIT_DIR}/COMP        ${RUN_DIR_PATH}
239    IGCM_sys_Get_Master ${SUBMIT_DIR}/POST        ${RUN_DIR_PATH}
240fi
241
242#====================================================
243# First of all
244#
245# Read config.card
246
247IGCM_card_DefineArrayFromSection     ${CARD_DIR}/config.card UserChoices
248typeset option
249for option in ${config_UserChoices[*]} ; do
250  IGCM_card_DefineVariableFromOption ${CARD_DIR}/config.card UserChoices ${option}
251done
252#
253IGCM_card_DefineArrayFromSection     ${CARD_DIR}/config.card Ensemble
254typeset option
255for option in ${config_Ensemble[*]} ; do
256  IGCM_card_DefineVariableFromOption ${CARD_DIR}/config.card Ensemble ${option}
257done
258#
259echo
260IGCM_debug_Print 1 "DefineArrayFromOption  : config_UserChoices"
261IGCM_debug_PrintVariables 3 config_UserChoices_JobName
262IGCM_debug_PrintVariables 3 config_UserChoices_LongName
263IGCM_debug_PrintVariables 3 config_UserChoices_TagName
264IGCM_debug_PrintVariables 3 config_UserChoices_SpaceName
265IGCM_debug_PrintVariables 3 config_UserChoices_ExperimentName
266IGCM_debug_PrintVariables 3 config_UserChoices_CalendarType
267IGCM_debug_PrintVariables 3 config_UserChoices_DateBegin
268IGCM_debug_PrintVariables 3 config_UserChoices_DateEnd
269IGCM_debug_PrintVariables 3 config_UserChoices_PeriodLength
270IGCM_debug_PrintVariables 3 config_Ensemble_EnsembleName
271IGCM_debug_PrintVariables 3 config_Ensemble_EnsembleDate
272echo
273
274#====================================================
275# Prepare environment
276#R_SAVE        : Job output storage directory
277#R_BUFR        : Job output buffered directory
278#STORE_RESTART : Where we store tar files
279
280if ( [ ! X${config_UserChoices_SpaceName} = X ] && [ ! X${config_UserChoices_ExperimentName} = X ] ) ; then
281  FreeName=$( echo ${config_UserChoices_JobName} | sed 's/.*_//' )
282  if ( [ ! X${config_Ensemble_EnsembleName} = X ] && [ ! X${config_Ensemble_EnsembleDate} = X ] ) ; then
283    R_SAVE=${R_OUT}/${config_UserChoices_TagName}/${config_UserChoices_SpaceName}/${config_UserChoices_ExperimentName}/${config_Ensemble_EnsembleName}/${config_Ensemble_EnsembleDate}/${FreeName}
284    R_BUFR=${R_BUF}/${config_UserChoices_TagName}/${config_UserChoices_SpaceName}/${config_UserChoices_ExperimentName}/${config_Ensemble_EnsembleName}/${config_Ensemble_EnsembleDate}/${FreeName}
285  else
286    R_SAVE=${R_OUT}/${config_UserChoices_TagName}/${config_UserChoices_SpaceName}/${config_UserChoices_ExperimentName}/${FreeName}
287    R_BUFR=${R_BUF}/${config_UserChoices_TagName}/${config_UserChoices_SpaceName}/${config_UserChoices_ExperimentName}/${FreeName}
288  fi
289else
290  if ( [ ! X${config_Ensemble_EnsembleName} = X ] && [ ! X${config_Ensemble_EnsembleDate} = X ] ) ; then
291    R_SAVE=${R_OUT}/${config_UserChoices_TagName}/${config_Ensemble_EnsembleName}/${config_Ensemble_EnsembleDate}/${config_UserChoices_JobName}
292    R_BUFR=${R_BUF}/${config_UserChoices_TagName}/${config_Ensemble_EnsembleName}/${config_Ensemble_EnsembleDate}/${config_UserChoices_JobName}
293  else
294    R_SAVE=${R_OUT}/${config_UserChoices_TagName}/${config_UserChoices_JobName}
295    R_BUFR=${R_BUF}/${config_UserChoices_TagName}/${config_UserChoices_JobName}
296  fi
297fi
298IGCM_sys_TestDirArchive ${R_SAVE}
299[ $? != 0 ] && IGCM_debug_Exit "IGCM_sys_TestDirArchive"
300
301#STORE_RESTART=/ccc/store/cont003/dsm/p86denv/.../RESTART
302STORE_RESTART=${R_SAVE}/RESTART
303IGCM_sys_MkdirArchive ${STORE_RESTART}
304
305#cd ${STORE_RESTART}
306#rm -f *
307
308# Switch to script variables meaning (try to be compatible with ipsl_pack TGCC moving procedure)
309JobName=${config_UserChoices_JobName}
310echo $JobName $R_BUFR $DateBegin $DateEnd
311
312# Clear txt file lists
313rm -f ${RUN_DIR}/liste_restart_files.txt
314rm -f ${RUN_DIR}/new_liste_restart_files.txt
315rm -f ${RUN_DIR}/liste_pack_*.txt
316
317# Create sorted restart list to work with
318find ${R_BUFR}/*/Restart -name "*.*" | sort >> ${RUN_DIR}/liste_restart_files.txt
319
320# Rename restart files we will work with using symlinks
321#gawk -F/ '{dest_name=$(NF-2)("_") $(NF); system("cp --preserve " $0 " "dest_name)}' ${RUN_DIR}/liste_restart_files.txt
322gawk -F/ '{dest_name=$(NF-2)("_") $(NF); system("ln -s " $0 " "dest_name)}' ${RUN_DIR}/liste_restart_files.txt
323
324# List renamed restart files
325find ${RUN_DIR} -maxdepth 1 -mindepth 1 -name "???_*${JobName}*" -ls | sort -k 11 > ${RUN_DIR}/new_liste_restart_files.txt
326
327# ------------------------------------------------------------------
328# Test if all was right before proceeding further
329# ------------------------------------------------------------------
330IGCM_debug_Verif_Exit_Post
331
332# Init loop
333date_begin_pack=${DateBegin}
334date_end_simulation=${DateEnd}
335number_pack=1
336
337IGCM_debug_PrintVariables 3 date_begin_pack
338IGCM_debug_PrintVariables 3 date_end_simulation
339
340# last restart of the previous period : to be deleted
341typeset date_end_previous
342date_end_previous=$( IGCM_date_AddDaysToGregorianDate ${date_begin_pack} -1 )
343
344while [ ${date_begin_pack} -le ${date_end_simulation} ] ; do
345
346  IGCM_debug_PrintVariables 3 number_pack
347
348  DaysTemp=$( IGCM_date_DaysInCurrentPeriod ${date_begin_pack} ${PeriodPack} )
349  date_end_pack=$( IGCM_date_AddDaysToGregorianDate ${date_begin_pack} $(( ${DaysTemp} - 1 )) )
350
351  for file in $( gawk '{print $11}' ${RUN_DIR}/new_liste_restart_files.txt ); do
352    extract_date_file=$( echo ${file}  | sed -e "s/.*${JobName}_//" )
353    date_file=$( echo ${extract_date_file} | sed 's/\([0-9]\{8\}\)_.*$/\1/g' )
354    # warning demenagement. delete last restart of the previous pack
355    [  ${date_file} -eq ${date_end_previous} ] && echo $( readlink ${file} ) >> ${RUN_DIR}/liste_remove_pack_${date_begin_pack}_${date_end_pack}.txt
356    # echo pack number ${number_pack}  ${date_file} ${date_begin_pack} ${date_end_pack}
357    if [ ${date_file} -le ${date_end_pack} ] && [ ${date_file} -ge ${date_begin_pack} ] ; then
358      echo $( basename ${file} ) >> ${RUN_DIR}/liste_pack_${date_begin_pack}_${date_end_pack}.txt
359      # warning demenagement. do not delete last restart of this pack
360      [ ${date_file} -eq ${date_end_pack} ] || echo $( readlink ${file} ) >> ${RUN_DIR}/liste_remove_pack_${date_begin_pack}_${date_end_pack}.txt
361    fi
362  done
363
364  # Create tar files
365  IGCM_debug_Print 1 "Tar ongoing"
366  tar -cvf ${JobName}_${date_begin_pack}_${date_end_pack}_restart.tar --dereference --files-from ${RUN_DIR}/liste_pack_${date_begin_pack}_${date_end_pack}.txt
367  # Save it
368  IGCM_sys_Put_Out ${JobName}_${date_begin_pack}_${date_end_pack}_restart.tar ${STORE_RESTART}
369  # Clean it
370  IGCM_sys_Rm ${JobName}_${date_begin_pack}_${date_end_pack}_restart.tar
371  # Clean links
372  cat ${RUN_DIR}/liste_pack_${date_begin_pack}_${date_end_pack}.txt | xargs rm
373  # Clean files links pointed to
374  cat ${RUN_DIR}/liste_remove_pack_${date_begin_pack}_${date_end_pack}.txt | xargs rm
375  # Save the list of files that has been pack (tar)
376  #mv ${RUN_DIR}/liste_pack_${date_begin_pack}_${date_end_pack}.txt ${STORE_RESTART}
377  IGCM_debug_Print 1 "Tar and cleaning done"
378
379  (( number_pack = number_pack + 1 ))
380
381  # Add 1 day to date_end_pack to have the new date_begin_pack
382  date_begin_pack=$( IGCM_date_AddDaysToGregorianDate ${date_end_pack} 1 )
383
384done
385
386# Clean RUN_DIR_PATH (necessary for cesium and titane only)
387IGCM_sys_RmRunDir -Rf ${RUN_DIR_PATH}
388
389date
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