source: CONFIG_DEVT/IPSLCM6.5_work_ENSEMBLES/libIGCM/AA_pack_debug @ 5899

Last change on this file since 5899 was 5899, checked in by aclsce, 3 years ago

Modified libIGCM and configuration to run XIOS ensembles.
File size: 12.5 KB
Line 
1#-Q- curie ######################
2#-Q- curie ## CURIE   TGCC/CEA ##
3#-Q- curie ######################
4#-Q- curie #MSUB -r PACKDEBUG      # Nom du job
5#-Q- curie #MSUB -o PACKDEBUG.out_%I
6#-Q- curie #MSUB -e PACKDEBUG.out_%I
7#-Q- curie #MSUB -n 1              # Reservation du processus
8#-Q- curie #MSUB -T 3600          # Limite de temps elapsed du job
9#-Q- curie #MSUB -q ::default_node::
10#-Q- curie #MSUB -c ::default_core::
11#-Q- curie #MSUB -Q normal
12#-Q- curie #MSUB -A ::default_project::
13#-Q- curie set +x
14#-Q- irene ######################
15#-Q- irene ## IRENE   TGCC/CEA ##
16#-Q- irene ######################
17#-Q- irene #MSUB -r PACKDEBUG     # Job name
18#-Q- irene #MSUB -o PACKDEBUG.out_%I
19#-Q- irene #MSUB -e PACKDEBUG.out_%I
20#-Q- irene #MSUB -n 1             # Number of cores
21#-Q- irene #MSUB -T 3600          # Maximum elapsed time
22#-Q- irene #MSUB -q ::default_node::
23#-Q- irene #MSUB -c ::default_core::
24#-Q- irene #MSUB -Q normal
25#-Q- irene #MSUB -A ::default_post_project::
26#-Q- irene #MSUB -m store,work,scratch
27#-Q- irene set +x
28#-Q- irene-amd ######################
29#-Q- irene-amd ## IRENE   TGCC/CEA ##
30#-Q- irene-amd ######################
31#-Q- irene-amd #MSUB -r PACKDEBUG     # Job name
32#-Q- irene-amd #MSUB -o PACKDEBUG.out_%I
33#-Q- irene-amd #MSUB -e PACKDEBUG.out_%I
34#-Q- irene-amd #MSUB -n 1              # Number of cores
35#-Q- irene-amd #MSUB -T 3600          # Maximum elapsed time
36#-Q- irene-amd #MSUB -q ::default_node::
37#-Q- irene-amd #MSUB -c ::default_core::
38#-Q- irene-amd #MSUB -Q normal
39#-Q- irene-amd #MSUB -A ::default_post_project::
40#-Q- irene-amd #MSUB -m store,work,scratch
41#-Q- irene-amd set +x
42#-Q- jeanzay #!/bin/ksh
43#-Q- jeanzay ######################
44#-Q- jeanzay ## JEANZAY    IDRIS ##
45#-Q- jeanzay ######################
46#-Q- jeanzay #SBATCH --job-name=PACKDEBUG         # Job Name
47#-Q- jeanzay #SBATCH --output=PACKDEBUG.out_%J    # standard output
48#-Q- jeanzay #SBATCH --error=PACKDEBUG.out_%J     # error output
49#-Q- jeanzay #SBATCH -N  1                        # Number of core
50#-Q- jeanzay #SBATCH --partition=prepost          # Post-processing partition
51#-Q- jeanzay #SBATCH --time=10:00:00              # Wall clock limit (seconds)
52#-Q- jeanzay #SBATCH --account ::default_project::@cpu
53#-Q- jeanzay set +x
54#-Q- ada #!/bin/ksh
55#-Q- ada #######################
56#-Q- ada ## ADA         IDRIS ##
57#-Q- ada #######################
58#-Q- ada # @ job_type = mpich
59#-Q- ada # @ requirements = (Feature == "prepost")
60#-Q- ada # Temps Elapsed max. d'une requete hh:mm:ss
61#-Q- ada # @ wall_clock_limit = 10:00:00
62#-Q- ada # Nom du travail LoadLeveler
63#-Q- ada # @ job_name   = PACKDEBUG
64#-Q- ada # Fichier de sortie standard du travail
65#-Q- ada # @ output     = $(job_name).$(jobid)
66#-Q- ada # Fichier de sortie d'erreur du travail
67#-Q- ada # @ error      =  $(job_name).$(jobid)
68#-Q- ada # pour recevoir un mail en cas de depassement du temps Elapsed (ou autre pb.)
69#-Q- ada # @ notification = error
70#-Q- ada # @ environment  = $DEBUG_debug ; $BigBrother ; $postProcessingStopLevel ; $MODIPSL ; $libIGCM ; $libIGCM_SX ; $POST_DIR ; $Script_Post_Output ; $SUBMIT_DIR ; $DateBegin ; $DateEnd ; $PeriodPack ; $StandAlone ; $MASTER ; wall_clock_limit=$(wall_clock_limit)
71#-Q- ada # @ queue
72#-Q- lxiv8 ######################
73#-Q- lxiv8 ## OBELIX      LSCE ##
74#-Q- lxiv8 ######################
75#-Q- lxiv8 #PBS -N PACKDEBUG
76#-Q- lxiv8 #PBS -m a
77#-Q- lxiv8 #PBS -j oe
78#-Q- lxiv8 #PBS -q medium
79#-Q- lxiv8 #PBS -o PACKDEBUG.$$
80#-Q- lxiv8 #PBS -S /bin/ksh
81#-Q- ifort_CICLAD ######################
82#-Q- ifort_CICLAD ##   CICLAD    IPSL ##
83#-Q- ifort_CICLAD ######################
84#-Q- ifort_CICLAD #PBS -N PACKDEBUG
85#-Q- ifort_CICLAD #PBS -m a
86#-Q- ifort_CICLAD #PBS -j oe
87#-Q- ifort_CICLAD #PBS -q std
88#-Q- ifort_CICLAD #PBS -S /bin/ksh
89#-Q- default #!/bin/ksh
90#-Q- default ##################
91#-Q- default ## DEFAULT HOST ##
92#-Q- default ##################
93
94#**************************************************************
95# Author: Sebastien Denvil
96# Contact: Sebastien.Denvil__at__ipsl.jussieu.fr
97# $Revision:: 1525                                     $ Revision of last commit
98# $Author:: cetlod                                     $ Author of last commit
99# $Date:: 2020-04-27 10:39:22 +0200 (Mon, 27 Apr 2020) $ Date of last commit
100# IPSL (2006)
101#  This software is governed by the CeCILL licence see libIGCM/libIGCM_CeCILL.LIC
102#
103#**************************************************************
104
105#set -eu
106#set -vx
107
108date
109
110#D- Task type DO NOT CHANGE (computing, post-processing or checking)
111TaskType=post-processing
112
113########################################################################
114
115#D- Flag to determine if this job in a standalone mode
116#D- Default : value from AA_job if any
117StandAlone=${StandAlone:=true}
118
119#D- Path to libIGCM
120#D- Default : value from AA_job if any
121# WARNING For StandAlone use : To run this script on some machine (ulam and cesium)
122# WARNING you must check MirrorlibIGCM variable in sys library.
123# WARNING If this variable is true, you must use libIGCM_POST path instead
124# WARNING of your running libIGCM directory.
125libIGCM=${libIGCM:=::modipsl::/libIGCM}
126
127#-D- $hostname of the MASTER job when SUBMIT_DIR is not visible on postprocessing computer.
128MASTER=${MASTER:=ada|curie}
129
130#D- Flag to determine begin date for restart pack
131#D- Default : value from AA_job if any
132DateBegin=${DateBegin:=20000101}
133
134#D- Flag to determine end date for restart pack
135#D- Default : value from AA_job if any
136DateEnd=${DateEnd:=20691231}
137
138#D- Flag to determine pack period
139#D- Default : value from AA_job if any
140PeriodPack=${PeriodPack:=10Y}
141
142#D- Uncomment to run interactively
143#D- For testing purpose, will be remove
144#SUBMIT_DIR=${PWD}
145#RUN_DIR_PATH=${SCRATCHDIR}/Pack_Test
146
147#D- Increased verbosity (1, 2, 3)
148#D- Default : value from AA_job if any
149Verbosity=${Verbosity:=3}
150
151#D- Low level debug : to bypass lib test checks and stack construction
152#D- Default : value from AA_job if any
153DEBUG_debug=${DEBUG_debug:=false}
154
155#D- Keep following comments for now. Will be remove.
156
157#on veut archiver les fichiers restart
158#Dans le cadre du demenagement ils seront renommes
159#ATM/Restart/****.nc
160#OCE/Restart/****.nc
161#...
162#sous la forme
163#RESTART/ATM_****.nc
164#RESTART/OCE_****.nc
165#Attention de bien conserver les dates d'origines
166#
167#Dans le cadre de la production nouvelle chaine
168#ils auront directement le bon nom
169#
170#On veut egalement que l'archive soit par periode de temps
171# cette periode est definie par la taille du pack donc connue
172# en entree du script (1M, 1Y, 5Y, 10Y etc...)
173#
174# $1= PATH/config_card d'une simulation avec
175# TagName/JobName/ExperimentName/SpaceName/DateBegin/DateEnd
176# $2=PeriodPack en M/m ou Y/y
177
178########################################################################
179
180. ${libIGCM}/libIGCM_debug/libIGCM_debug.ksh
181. ${libIGCM}/libIGCM_card/libIGCM_card.ksh
182. ${libIGCM}/libIGCM_date/libIGCM_date.ksh
183#-------
184. ${libIGCM}/libIGCM_sys/libIGCM_sys.ksh
185. ${libIGCM}/libIGCM_config/libIGCM_config.ksh
186. ${libIGCM}/libIGCM_post/libIGCM_post.ksh
187#-------
188RUN_DIR=${RUN_DIR_PATH}
189IGCM_sys_MkdirWork ${RUN_DIR}
190IGCM_sys_Cd ${RUN_DIR}
191#-------
192( ${DEBUG_debug} ) && IGCM_debug_Check
193( ${DEBUG_debug} ) && IGCM_card_Check
194( ${DEBUG_debug} ) && IGCM_date_Check
195
196########################################################################
197
198#set -vx
199
200# ------------------------------------------------------------------
201# Test if all was right before proceeding further
202# ------------------------------------------------------------------
203IGCM_debug_Verif_Exit
204
205if [ ${StandAlone} = true ] ; then
206    CARD_DIR=${SUBMIT_DIR}
207else
208    CARD_DIR=${RUN_DIR_PATH}
209    IGCM_sys_Get_Master ${SUBMIT_DIR}/config.card ${RUN_DIR_PATH}
210    IGCM_sys_Get_Master ${SUBMIT_DIR}/run.card    ${RUN_DIR_PATH}
211    IGCM_sys_Get_Master ${SUBMIT_DIR}/COMP        ${RUN_DIR_PATH}
212    IGCM_sys_Get_Master ${SUBMIT_DIR}/POST        ${RUN_DIR_PATH}
213fi
214
215#==================================
216# First of all
217#
218# Read libIGCM compatibility version in config.card
219# Read UserChoices section
220# Read Ensemble section
221# Read Post section
222# Define all netcdf output directories
223#==================================
224IGCM_config_CommonConfiguration ${CARD_DIR}/config.card
225
226# ------------------------------------------------------------------
227# Activate BigBrother so as to supervise this job
228# ------------------------------------------------------------------
229IGCM_debug_BigBro_Initialize
230
231#==================================
232# Test and set up directories
233#==================================
234IGCM_sys_TestDirArchive ${R_SAVE}
235[ $? != 0 ] && IGCM_debug_Exit "IGCM_sys_TestDirArchive"
236
237STORE_DEBUG=${R_SAVE}/DEBUG
238IGCM_sys_MkdirArchive ${STORE_DEBUG}
239
240# Switch to script variables meaning (try to be compatible with ipsl_pack TGCC moving procedure)
241JobName=${config_UserChoices_JobName}
242echo $JobName $DateBegin $DateEnd
243
244# Clear txt file lists
245rm -f ${RUN_DIR}/liste_debug_files.txt
246rm -f ${RUN_DIR}/liste_out_files.txt
247rm -f ${RUN_DIR}/new_liste_debug_files.txt
248rm -f ${RUN_DIR}/liste_pack_*.txt
249
250# Create sorted debug list to work with
251find ${R_BUFR}/*/Debug -type f | sort >> ${RUN_DIR}/liste_debug_files.txt
252
253# Rename debug files we will work with using symlinks. use ???_ prefix ie NF-2
254#gawk -F/ '{dest_name=$(NF-2)("_") $(NF); system("cp --preserve " $0 " "dest_name)}' ${RUN_DIR}/liste_debug_files.txt
255gawk -F/ '{dest_name=$(NF-2)("_") $(NF); system("ln -s " $0 " "dest_name)}' ${RUN_DIR}/liste_debug_files.txt
256
257# Add out_ : output of execution files
258find ${R_BUFR}/Out -type f -name '*out_*' | sort >> ${RUN_DIR}/liste_out_files.txt
259
260# Rename out files we will work with using symlinks. use Out_ prefix ie NF-1
261gawk -F/ '{dest_name=$(NF-1)("_") $(NF); system("ln -s " $0 " "dest_name)}' ${RUN_DIR}/liste_out_files.txt
262
263# List renamed debug files. Exclude Job_xxx files.
264find ${RUN_DIR} -maxdepth 1 -mindepth 1 -name "???_*${JobName}*" -ls | sort -k 11 > ${RUN_DIR}/new_liste_debug_files.txt
265
266# ------------------------------------------------------------------
267# Test if all was right before proceeding further
268# ------------------------------------------------------------------
269IGCM_debug_Verif_Exit
270
271# Init loop
272date_begin_pack=${DateBegin}
273date_end_simulation=${DateEnd}
274number_pack=1
275
276IGCM_debug_PrintVariables 3 date_begin_pack
277IGCM_debug_PrintVariables 3 date_end_simulation
278
279while [ ${date_begin_pack} -le ${date_end_simulation} ] ; do
280
281  IGCM_debug_PrintVariables 3 number_pack
282
283  DaysTemp=$( IGCM_date_DaysInCurrentPeriod ${date_begin_pack} ${PeriodPack} )
284  date_end_pack=$( IGCM_date_AddDaysToGregorianDate ${date_begin_pack} $(( ${DaysTemp} - 1 )) )
285
286  for file in $( gawk '{print $11}' ${RUN_DIR}/new_liste_debug_files.txt ); do
287    extract_date_file=$( echo ${file}  | sed -e "s/.*${JobName}_[0-9]*_//" )
288    date_file=$( echo ${extract_date_file} | sed 's/\([0-9]\{8\}\)_.*$/\1/g' )
289#   echo pack n°${number_pack}  ${date_file} ${date_begin_pack} ${date_end_pack}
290    if [ ${date_file} -le ${date_end_pack} ] && [ ${date_file} -ge ${date_begin_pack} ] ; then
291        echo $( basename ${file} ) >> ${RUN_DIR}/liste_pack_${date_begin_pack}_${date_end_pack}.txt
292        echo $( readlink ${file} ) >> ${RUN_DIR}/liste_remove_pack_${date_begin_pack}_${date_end_pack}.txt
293    fi
294  done
295
296  # Create tar files
297  IGCM_debug_Print 1 "Tar ongoing"
298  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
299  # Test return code of tar
300  [ $? != 0 ] && IGCM_debug_Exit "tar failed"
301  # Save it
302  IGCM_sys_Put_Out ${JobName}_${date_begin_pack}_${date_end_pack}_debug.tar ${STORE_DEBUG}
303  # Clean it
304  IGCM_sys_Rm ${JobName}_${date_begin_pack}_${date_end_pack}_debug.tar
305  # ------------------------------------------------------------------
306  # Test if all was right before proceeding cleaning
307  # ------------------------------------------------------------------
308  IGCM_debug_Verif_Exit
309  # Clean links
310  cat ${RUN_DIR}/liste_pack_${date_begin_pack}_${date_end_pack}.txt | xargs rm
311  # Clean files links pointed to
312  cat ${RUN_DIR}/liste_remove_pack_${date_begin_pack}_${date_end_pack}.txt | xargs rm
313  # Save the list of files that has been pack (tar)
314  #mv ${RUN_DIR}/liste_pack_${date_begin_pack}_${date_end_pack}.txt ${STORE_DEBUG}
315  IGCM_debug_Print 1 "Tar and cleaning done"
316
317  (( number_pack = number_pack + 1 ))
318
319  # Add 1 day to date_end_pack to have the new date_begin_pack
320  date_begin_pack=$( IGCM_date_AddDaysToGregorianDate ${date_end_pack} 1 )
321
322done
323
324# Clean RUN_DIR_PATH (necessary for cesium and titane only)
325IGCM_sys_RmRunDir -Rf ${RUN_DIR_PATH}
326
327# ------------------------------------------------------------------
328# Finalize BigBrother to inform that the jobs end
329# ------------------------------------------------------------------
330IGCM_debug_BigBro_Finalize
331
332date
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