source: tags/libIGCM_v2.0_beta3/AA_pack_debug @ 1456

Last change on this file since 1456 was 681, checked in by mafoipsl, 12 years ago

On curie : Computing job on -q standard ie thin nodes, post-processing jobs on -q large ie large nodes. Stop default echo of commands.
  • Property svn:keywords set to Revision Author Date
File size: 16.0 KB
Line 
1#-Q- cesium #!/bin/ksh
2#-Q- cesium ######################
3#-Q- cesium ## CESIUM   CEA ##
4#-Q- cesium ######################
5#-Q- cesium #MSUB -r PACKDEBUG    # 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 PACKDEBUG      # 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 set +x
21#-Q- platine #!/usr/bin/ksh
22#-Q- platine ###################
23#-Q- platine ## PLATINE   CEA ##
24#-Q- platine ###################
25#-Q- platine #BSUB -J PACKDEBUG            # Nom du job
26#-Q- platine #BSUB -N                        # message a la fin du job
27#-Q- platine #BSUB -n 1                      # reservation des processeurs pour le job
28#-Q- platine #BSUB -W 4:00                   # Limite temps
29#-Q- platine #BSUB -q post                   # Passage en queue post
30#-Q- platine #BSUB -L /bin/ksh
31#-Q- sx8brodie #!/bin/ksh
32#-Q- sx8brodie #######################
33#-Q- sx8brodie ## SX8BRODIE   IDRIS ##
34#-Q- sx8brodie #######################
35#-Q- sx8brodie # Temps Elapsed max. d'une requete hh:mm:ss
36#-Q- sx8brodie # @ wall_clock_limit = 10:00:00
37#-Q- sx8brodie # Nom du travail LoadLeveler
38#-Q- sx8brodie # @ job_name   = PACKDEBUG
39#-Q- sx8brodie # Fichier de sortie standard du travail
40#-Q- sx8brodie # @ output     = $(job_name).$(jobid)
41#-Q- sx8brodie # Fichier de sortie d'erreur du travail
42#-Q- sx8brodie # @ error      =  $(job_name).$(jobid)
43#-Q- sx8brodie # pour recevoir un mail en cas de depassement du temps Elapsed (ou autre pb.)
44#-Q- sx8brodie # @ notification = error
45#-Q- sx8brodie # @ environment  = $DEBUG_debug ; $MODIPSL ; $libIGCM ; $libIGCM_SX ; $SUBMIT_DIR ; $DateBegin ; $DateEnd ; $PeriodPack ; $StandAlone ; $MASTER
46#-Q- sx8brodie # @ queue
47#-Q- aix6 #!/bin/ksh
48#-Q- aix6 #######################
49#-Q- aix6 ##   VARGAS   IDRIS  ##
50#-Q- aix6 #######################
51#-Q- aix6 # Temps Elapsed max. d'une requete hh:mm:ss
52#-Q- aix6 # @ wall_clock_limit = 10:00:00
53#-Q- aix6 # Nom du travail LoadLeveler
54#-Q- aix6 # @ job_name   = PACKDEBUG
55#-Q- aix6 # Fichier de sortie standard du travail
56#-Q- aix6 # @ output     = $(job_name).$(jobid)
57#-Q- aix6 # Fichier de sortie d'erreur du travail
58#-Q- aix6 # @ error      =  $(job_name).$(jobid)
59#-Q- aix6 # pour recevoir un mail en cas de depassement du temps Elapsed (ou autre pb.)
60#-Q- aix6 # @ notification = error
61#-Q- aix6 # @ environment  = $DEBUG_debug ; $MODIPSL ; $libIGCM ; $libIGCM_SX ; $SUBMIT_DIR ; $DateBegin ; $DateEnd ; $PeriodPack ; $StandAlone ; $MASTER
62#-Q- aix6 # @ queue
63#-Q- ulam #!/bin/ksh
64#-Q- ulam #######################
65#-Q- ulam ##   VARGAS   IDRIS  ##
66#-Q- ulam #######################
67#-Q- ulam # Temps Elapsed max. d'une requete hh:mm:ss
68#-Q- ulam # @ wall_clock_limit = 10:00:00
69#-Q- ulam # Nom du travail LoadLeveler
70#-Q- ulam # @ job_name   = PACKDEBUG
71#-Q- ulam # Fichier de sortie standard du travail
72#-Q- ulam # @ output     = $(job_name).$(jobid)
73#-Q- ulam # Fichier de sortie d'erreur du travail
74#-Q- ulam # @ error      =  $(job_name).$(jobid)
75#-Q- ulam # pour recevoir un mail en cas de depassement du temps Elapsed (ou autre pb.)
76#-Q- ulam # @ notification = error
77#-Q- ulam # @ environment  = $DEBUG_debug ; $MODIPSL ; $libIGCM ; $libIGCM_SX ; $SUBMIT_DIR ; $DateBegin ; $DateEnd ; $PeriodPack ; $StandAlone ; $MASTER
78#-Q- ulam # @ queue
79#-Q- sx8mercure #!/bin/ksh
80#-Q- sx8mercure ######################
81#-Q- sx8mercure ## SX8MERCURE   CEA ##
82#-Q- sx8mercure ######################
83#-Q- sx8mercure #PBS -N PACKDEBUG          # Nom du job
84#-Q- sx8mercure #PBS -j o                    # regroupement des stdout et stderr
85#-Q- sx8mercure #PBS -S /usr/bin/ksh         # shell de soumission
86#-Q- sx8mercure #PBS -l memsz_job=1gb        # Limite memoire a 1 Go
87#-Q- sx8mercure #PBS -l cputim_job=24:00:00  # Limite temps a 1 heures
88#-Q- sx8mercure #PBS -q scalaire
89#-Q- sx8mercure #PBS -r n
90#-Q- sx9mercure #!/bin/ksh
91#-Q- sx9mercure ######################
92#-Q- sx9mercure ## SX9MERCURE  CCRT ##
93#-Q- sx9mercure ######################
94#-Q- sx9mercure #PBS -N PACKDEBUG          # Nom du job
95#-Q- sx9mercure #PBS -j o                    # regroupement des stdout et stderr
96#-Q- sx9mercure #PBS -S /usr/bin/ksh         # shell de soumission
97#-Q- sx9mercure #PBS -l memsz_job=1gb        # Limite memoire a 1 Go
98#-Q- sx9mercure #PBS -l elapstim_req=24:00:00  # Limite temps a 1 heures
99#-Q- sx9mercure #PBS -q scalaire
100#-Q- sx9mercure #PBS -r n
101#-Q- titane #!/bin/ksh
102#-Q- titane ######################
103#-Q- titane ## TITANE   CEA     ##
104#-Q- titane ######################
105#-Q- titane #MSUB -r PACKDEBUG    # Nom du job
106#-Q- titane #MSUB -eo
107#-Q- titane #MSUB -n 1              # Reservation du processus
108#-Q- titane #MSUB -T 86400          # Limite de temps elapsed du job
109#-Q- titane #MSUB -q mono
110#-Q- titane #MSUB -E '-rn'
111#-Q- lxiv8 ######################
112#-Q- lxiv8 ## OBELIX      LSCE ##
113#-Q- lxiv8 ######################
114#-Q- lxiv8 #PBS -N PACKDEBUG
115#-Q- lxiv8 #PBS -m a
116#-Q- lxiv8 #PBS -j oe
117#-Q- lxiv8 #PBS -q medium
118#-Q- lxiv8 #PBS -o PACKDEBUG.$$
119#-Q- lxiv8 #PBS -S /bin/ksh
120#-Q- default #!/bin/ksh
121#-Q- default ##################
122#-Q- default ## DEFAULT HOST ##
123#-Q- default ##################
124
125#**************************************************************
126# Author: Sebastien Denvil
127# Contact: Sebastien.Denvil__at__ipsl.jussieu.fr
128# $Revision::                                          $ Revision of last commit
129# $Author::                                            $ Author of last commit
130# $Date::                                              $ Date of last commit
131# IPSL (2006)
132#  This software is governed by the CeCILL licence see libIGCM/libIGCM_CeCILL.LIC
133#
134#**************************************************************
135
136#set -eu
137#set -vx
138
139date
140
141########################################################################
142
143#D- Flag to determine if this job in a standalone mode
144#D- Default : value from AA_job if any
145StandAlone=${StandAlone:=true}
146
147#D- Path to libIGCM
148#D- Default : value from AA_job if any
149# WARNING For StandAlone use : To run this script on some machine (ulam and cesium)
150# WARNING you must check MirrorlibIGCM variable in sys library.
151# WARNING If this variable is true, you must use libIGCM_POST path instead
152# WARNING of your running libIGCM directory.
153libIGCM=${libIGCM:=::modipsl::/libIGCM}
154
155#-D- $hostname of the MASTER job when SUBMIT_DIR is not visible on postprocessing computer.
156MASTER=${MASTER:=mercure|titane|brodie|vargas}
157
158#D- Flag to determine begin date for restart pack
159#D- Default : value from AA_job if any
160DateBegin=${DateBegin:=20000101}
161
162#D- Flag to determine end date for restart pack
163#D- Default : value from AA_job if any
164DateEnd=${DateEnd:=20691231}
165
166#D- Flag to determine pack period
167#D- Default : value from AA_job if any
168PeriodPack=${PeriodPack:=10Y}
169
170#D- Uncomment to run interactively
171#D- For testing purpose, will be remove
172#SUBMIT_DIR=${PWD}
173#RUN_DIR_PATH=${SCRATCHDIR}/Pack_Test
174
175#D- Increased verbosity (1, 2, 3)
176#D- Default : value from AA_job if any
177Verbosity=${Verbosity:=3}
178
179#D- Low level debug : to bypass lib test checks and stack construction
180#D- Default : value from AA_job if any
181DEBUG_debug=${DEBUG_debug:=false}
182
183#D- Keep following comments for now. Will be remove.
184
185#on veut archiver les fichiers restart
186#Dans le cadre du demenagement ils seront renommes
187#ATM/Restart/****.nc
188#OCE/Restart/****.nc
189#...
190#sous la forme
191#RESTART/ATM_****.nc
192#RESTART/OCE_****.nc
193#Attention de bien conserver les dates d'origines
194#
195#Dans le cadre de la production nouvelle chaine
196#ils auront directement le bon nom
197#
198#On veut egalement que l'archive soit par periode de temps
199# cette periode est definie par la taille du pack donc connue
200# en entree du script (1M, 1Y, 5Y, 10Y etc...)
201#
202# $1= PATH/config_card d'une simulation avec
203# TagName/JobName/ExperimentName/SpaceName/DateBegin/DateEnd
204# $2=PeriodPack en M/m ou Y/y
205
206########################################################################
207
208. ${libIGCM}/libIGCM_debug/libIGCM_debug.ksh
209( ${DEBUG_debug} ) && IGCM_debug_Check
210. ${libIGCM}/libIGCM_card/libIGCM_card.ksh
211( ${DEBUG_debug} ) && IGCM_card_Check
212. ${libIGCM}/libIGCM_date/libIGCM_date.ksh
213( ${DEBUG_debug} ) && IGCM_date_Check
214#-------
215. ${libIGCM}/libIGCM_sys/libIGCM_sys.ksh
216. ${libIGCM}/libIGCM_post/libIGCM_post.ksh
217
218########################################################################
219
220#set -vx
221
222RUN_DIR=${RUN_DIR_PATH}
223IGCM_sys_MkdirWork ${RUN_DIR}
224IGCM_sys_Cd ${RUN_DIR}
225
226# ------------------------------------------------------------------
227# Test if all was right before proceeding further
228# ------------------------------------------------------------------
229IGCM_debug_Verif_Exit_Post
230
231if [ ${StandAlone} = true ] ; then
232    CARD_DIR=${SUBMIT_DIR}
233else
234    CARD_DIR=${RUN_DIR_PATH}
235    IGCM_sys_Get_Master ${SUBMIT_DIR}/config.card ${RUN_DIR_PATH}
236    IGCM_sys_Get_Master ${SUBMIT_DIR}/run.card    ${RUN_DIR_PATH}
237    IGCM_sys_Get_Master ${SUBMIT_DIR}/COMP        ${RUN_DIR_PATH}
238    IGCM_sys_Get_Master ${SUBMIT_DIR}/POST        ${RUN_DIR_PATH}
239fi
240
241#====================================================
242# First of all
243#
244# Read config.card
245
246IGCM_card_DefineArrayFromSection     ${CARD_DIR}/config.card UserChoices
247typeset option
248for option in ${config_UserChoices[*]} ; do
249  IGCM_card_DefineVariableFromOption ${CARD_DIR}/config.card UserChoices ${option}
250done
251#
252IGCM_card_DefineArrayFromSection     ${CARD_DIR}/config.card Ensemble
253typeset option
254for option in ${config_Ensemble[*]} ; do
255  IGCM_card_DefineVariableFromOption ${CARD_DIR}/config.card Ensemble ${option}
256done
257#
258echo
259IGCM_debug_Print 1 "DefineArrayFromOption  : config_UserChoices"
260IGCM_debug_PrintVariables 3 config_UserChoices_JobName
261IGCM_debug_PrintVariables 3 config_UserChoices_LongName
262IGCM_debug_PrintVariables 3 config_UserChoices_TagName
263IGCM_debug_PrintVariables 3 config_UserChoices_SpaceName
264IGCM_debug_PrintVariables 3 config_UserChoices_ExperimentName
265IGCM_debug_PrintVariables 3 config_UserChoices_CalendarType
266IGCM_debug_PrintVariables 3 config_UserChoices_DateBegin
267IGCM_debug_PrintVariables 3 config_UserChoices_DateEnd
268IGCM_debug_PrintVariables 3 config_UserChoices_PeriodLength
269IGCM_debug_PrintVariables 3 config_Ensemble_EnsembleName
270IGCM_debug_PrintVariables 3 config_Ensemble_EnsembleDate
271echo
272
273#====================================================
274# Prepare environment
275#R_SAVE      : Job output storage directory
276#R_BUFR      : Job output buffered directory
277#STORE_DEBUG : Where we store tar files
278
279if ( [ ! X${config_UserChoices_SpaceName} = X ] && [ ! X${config_UserChoices_ExperimentName} = X ] ) ; then
280  FreeName=$( echo ${config_UserChoices_JobName} | sed 's/.*_//' )
281  if ( [ ! X${config_Ensemble_EnsembleName} = X ] && [ ! X${config_Ensemble_EnsembleDate} = X ] ) ; then
282    R_SAVE=${R_OUT}/${config_UserChoices_TagName}/${config_UserChoices_SpaceName}/${config_UserChoices_ExperimentName}/${config_Ensemble_EnsembleName}/${config_Ensemble_EnsembleDate}/${FreeName}
283    R_BUFR=${R_BUF}/${config_UserChoices_TagName}/${config_UserChoices_SpaceName}/${config_UserChoices_ExperimentName}/${config_Ensemble_EnsembleName}/${config_Ensemble_EnsembleDate}/${FreeName}
284  else
285    R_SAVE=${R_OUT}/${config_UserChoices_TagName}/${config_UserChoices_SpaceName}/${config_UserChoices_ExperimentName}/${FreeName}
286    R_BUFR=${R_BUF}/${config_UserChoices_TagName}/${config_UserChoices_SpaceName}/${config_UserChoices_ExperimentName}/${FreeName}
287  fi
288else
289  if ( [ ! X${config_Ensemble_EnsembleName} = X ] && [ ! X${config_Ensemble_EnsembleDate} = X ] ) ; then
290    R_SAVE=${R_OUT}/${config_UserChoices_TagName}/${config_Ensemble_EnsembleName}/${config_Ensemble_EnsembleDate}/${config_UserChoices_JobName}
291    R_BUFR=${R_BUF}/${config_UserChoices_TagName}/${config_Ensemble_EnsembleName}/${config_Ensemble_EnsembleDate}/${config_UserChoices_JobName}
292  else
293    R_SAVE=${R_OUT}/${config_UserChoices_TagName}/${config_UserChoices_JobName}
294    R_BUFR=${R_BUF}/${config_UserChoices_TagName}/${config_UserChoices_JobName}
295  fi
296fi
297IGCM_sys_TestDirArchive ${R_SAVE}
298[ $? != 0 ] && IGCM_debug_Exit "IGCM_sys_TestDirArchive"
299
300#STORE_DEBUG=/ccc/store/cont003/dsm/p86denv/.../DEBUG
301STORE_DEBUG=${R_SAVE}/DEBUG
302IGCM_sys_MkdirArchive ${STORE_DEBUG}
303
304#cd ${STORE_DEBUG}
305#rm -f *
306
307# Switch to script variables meaning (try to be compatible with ipsl_pack TGCC moving procedure)
308JobName=${config_UserChoices_JobName}
309echo $JobName $DateBegin $DateEnd
310
311# Clear txt file lists
312rm -f ${RUN_DIR}/liste_debug_files.txt
313rm -f ${RUN_DIR}/liste_out_files.txt
314rm -f ${RUN_DIR}/new_liste_debug_files.txt
315rm -f ${RUN_DIR}/liste_pack_*.txt
316
317# Create sorted debug list to work with
318find ${R_BUFR}/*/Debug -type f | sort >> ${RUN_DIR}/liste_debug_files.txt
319
320# Rename debug files we will work with using symlinks. use ???_ prefix ie NF-2
321#gawk -F/ '{dest_name=$(NF-2)("_") $(NF); system("cp --preserve " $0 " "dest_name)}' ${RUN_DIR}/liste_debug_files.txt
322gawk -F/ '{dest_name=$(NF-2)("_") $(NF); system("ln -s " $0 " "dest_name)}' ${RUN_DIR}/liste_debug_files.txt
323
324# Add out_ : output of execution files
325find ${R_BUFR}/Out -type f -name '*out_*' | sort >> ${RUN_DIR}/liste_out_files.txt
326
327# Rename out files we will work with using symlinks. use Out_ prefix ie NF-1
328gawk -F/ '{dest_name=$(NF-1)("_") $(NF); system("ln -s " $0 " "dest_name)}' ${RUN_DIR}/liste_out_files.txt
329
330# List renamed debug files. Exclude Job_xxx files.
331find ${RUN_DIR} -maxdepth 1 -mindepth 1 -name "???_*${JobName}*" -ls | sort -k 11 > ${RUN_DIR}/new_liste_debug_files.txt
332
333# ------------------------------------------------------------------
334# Test if all was right before proceeding further
335# ------------------------------------------------------------------
336IGCM_debug_Verif_Exit_Post
337
338# Init loop
339date_begin_pack=${DateBegin}
340date_end_simulation=${DateEnd}
341number_pack=1
342
343IGCM_debug_PrintVariables 3 date_begin_pack
344IGCM_debug_PrintVariables 3 date_end_simulation
345
346while [ ${date_begin_pack} -le ${date_end_simulation} ] ; do
347
348  IGCM_debug_PrintVariables 3 number_pack
349
350  DaysTemp=$( IGCM_date_DaysInCurrentPeriod ${date_begin_pack} ${PeriodPack} )
351  date_end_pack=$( IGCM_date_AddDaysToGregorianDate ${date_begin_pack} $(( ${DaysTemp} - 1 )) )
352
353  for file in $( gawk '{print $11}' ${RUN_DIR}/new_liste_debug_files.txt ); do
354    extract_date_file=$( echo ${file}  | sed -e "s/.*${JobName}_[0-9]*_//" )
355    date_file=$( echo ${extract_date_file} | sed 's/\([0-9]\{8\}\)_.*$/\1/g' )
356#   echo pack n°${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        echo $( readlink ${file} ) >> ${RUN_DIR}/liste_remove_pack_${date_begin_pack}_${date_end_pack}.txt
360#    Will not work. Need to find a better ordering.
361#    elif [ ${date_file} -ge ${date_end_pack} ] ; then
362#      break
363    fi
364  done
365
366  # Create tar files
367  IGCM_debug_Print 1 "Tar ongoing"
368  tar -cvf ${JobName}_${date_begin_pack}_${date_end_pack}_debug.tar --dereference --files-from ${RUN_DIR}/liste_pack_${date_begin_pack}_${date_end_pack}.txt
369  # Save it
370  IGCM_sys_Put_Out ${JobName}_${date_begin_pack}_${date_end_pack}_debug.tar ${STORE_DEBUG}
371  # Clean it
372  IGCM_sys_Rm ${JobName}_${date_begin_pack}_${date_end_pack}_debug.tar
373  # Clean links
374  cat ${RUN_DIR}/liste_pack_${date_begin_pack}_${date_end_pack}.txt | xargs rm
375  # Clean files links pointed to
376  cat ${RUN_DIR}/liste_remove_pack_${date_begin_pack}_${date_end_pack}.txt | xargs rm
377  # Save the list of files that has been pack (tar)
378  #mv ${RUN_DIR}/liste_pack_${date_begin_pack}_${date_end_pack}.txt ${STORE_DEBUG}
379  IGCM_debug_Print 1 "Tar and cleaning done"
380
381  (( number_pack = number_pack + 1 ))
382
383  # Add 1 day to date_end_pack to have the new date_begin_pack
384  date_begin_pack=$( IGCM_date_AddDaysToGregorianDate ${date_end_pack} 1 )
385
386done
387
388# Clean RUN_DIR_PATH (necessary for cesium and titane only)
389IGCM_sys_RmRunDir -Rf ${RUN_DIR_PATH}
390
391date
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