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AA_job @ 1573

Last change on this file since 1573 was 1569, checked in by aclsce, 17 months ago

Added fonctionality to create RUN_DIR and Job_debug to be launched directly in the RUN_DIR directory.

Use of DRYRUN=4 in the main Job to activate this fonctionality
Tested on obelix, irene skl and jeanzay
Documentation : https://forge.ipsl.jussieu.fr/igcmg_doc/wiki/Doc/CheckDebug#UseofRUN_DIRdirectorytorunwithoutlibIGCMinfrastructure

Property licence set to
The following licence information concerns ONLY the libIGCM tools
==================================================================

Copyright © Centre National de la Recherche Scientifique CNRS
Commissariat à l'Énergie Atomique CEA

libIGCM : Library for Portable Models Computation of IGCM Group.

IGCM Group is the french IPSL Global Climate Model Group.

This library is a set of shell scripts and functions whose purpose is
the management of the initialization, the launch, the transfer of
output files, the post-processing and the monitoring of datas produce
by any numerical program on any plateforme.

This software is governed by the CeCILL license under French law and
abiding by the rules of distribution of free software. You can use,
modify and/ or redistribute the software under the terms of the CeCILL
license as circulated by CEA, CNRS and INRIA at the following URL
"http://www.cecill.info".

As a counterpart to the access to the source code and rights to copy,
modify and redistribute granted by the license, users are provided only
with a limited warranty and the software's author, the holder of the
economic rights, and the successive licensors have only limited
liability.

In this respect, the user's attention is drawn to the risks associated
with loading, using, modifying and/or developing or reproducing the
software by the user in light of its specific status of free software,
that may mean that it is complicated to manipulate, and that also
therefore means that it is reserved for developers and experienced
professionals having in-depth computer knowledge. Users are therefore
encouraged to load and test the software's suitability as regards their
requirements in conditions enabling the security of their systems and/or
data to be ensured and, more generally, to use and operate it in the
same conditions as regards security.

The fact that you are presently reading this means that you have had
knowledge of the CeCILL license and that you accept its terms.
Property svn:keywords set to Revision Author Date

File size: 26.3 KB

Rev	Line
[704]	1	#-Q- curie #!/bin/ksh
[619]	2	#-Q- curie ######################
	3	#-Q- curie ## CURIE TGCC/CEA ##
	4	#-Q- curie ######################
[1030]	5	#-Q- curie #MSUB -r ::Jobname:: # Job Name
	6	#-Q- curie #MSUB -o Script_Output_::Jobname::.000001 # standard output
	7	#-Q- curie #MSUB -e Script_Output_::Jobname::.000001 # error output
[619]	8	#-Q- curie #MSUB -eo
[1149]	9	#-Q- curie #MSUB -n ::JobNumProcTot:: # Number of MPI tasks (SPMD case) or cores (MPMD case)
[1238]	10	#-Q- curie #MSUB -c ::openMPthreads:: # Number of openMP threads. To specify only for SMPD
	11	#-Q- curie #MSUB -x # exclusive node. To specify only for MPMD together with the one below
	12	#-Q- curie #MSUB -E '--cpu_bind=none'
[1389]	13	#-Q- curie ##MSUB -E '--distribution cyclic'
[1030]	14	#-Q- curie #MSUB -T 86400 # Wall clock limit (seconds)
	15	#-Q- curie #MSUB -q standard # thin nodes
[1427]	16	#-Q- curie ##MSUB -U high
	17	#-Q- curie #MSUB -U medium
	18	#-Q- curie ##MSUB -U low
[837]	19	#-Q- curie #MSUB -A ::default_project::
[1454]	20	#-Q- curie #MSUB -E --no-requeue
[1108]	21	#-Q- curie # Below specific options that can be activated
	22	#-Q- curie ##MSUB -q ivybridge # Option for Airain
	23	#-Q- curie
[619]	24	#-Q- curie BATCH_NUM_PROC_TOT=$BRIDGE_MSUB_NPROC
[681]	25	#-Q- curie set +x
[1432]	26	#-Q- irene #!/bin/ksh
	27	#-Q- irene ######################
	28	#-Q- irene ## IRENE TGCC/CEA ##
	29	#-Q- irene ######################
	30	#-Q- irene #MSUB -r ::Jobname:: # Job Name
	31	#-Q- irene #MSUB -o Script_Output_::Jobname::.000001 # standard output
	32	#-Q- irene #MSUB -e Script_Output_::Jobname::.000001 # error output
	33	#-Q- irene #MSUB -eo
	34	#-Q- irene #MSUB -n ::JobNumProcTot:: # Number of MPI tasks (SPMD case) or cores (MPMD case)
	35	#-Q- irene #MSUB -c ::openMPthreads:: # Number of openMP threads. To specify only for SMPD
	36	#-Q- irene #MSUB -x # exclusive node. To specify only for MPMD together with the one below
	37	#-Q- irene #MSUB -E '--cpu_bind=none'
[1536]	38	#-Q- irene #MSUB -T ::WallTime:: # Wall clock limit (seconds)
[1437]	39	#-Q- irene #MSUB -A ::default_project::
[1432]	40	#-Q- irene #MSUB -q skylake
[1460]	41	#-Q- irene #MSUB -m store,work,scratch
[1432]	42	#-Q- irene
	43	#-Q- irene BATCH_NUM_PROC_TOT=$BRIDGE_MSUB_NPROC
	44	#-Q- irene set +x
[1519]	45	#-Q- irene-amd #!/bin/ksh
	46	#-Q- irene-amd ######################
	47	#-Q- irene-amd ## IRENE-AMD TGCC/CEA ##
	48	#-Q- irene-amd ######################
	49	#-Q- irene-amd #MSUB -r ::Jobname:: # Job Name
	50	#-Q- irene-amd #MSUB -o Script_Output_::Jobname::.000001 # standard output
	51	#-Q- irene-amd #MSUB -e Script_Output_::Jobname::.000001 # error output
	52	#-Q- irene-amd #MSUB -eo
	53	#-Q- irene-amd #MSUB -n ::JobNumProcTot:: # Number of MPI tasks (SPMD case) or cores (MPMD case)
	54	#-Q- irene-amd #MSUB -c ::openMPthreads:: # Number of openMP threads. To specify only for SMPD
	55	#-Q- irene-amd #MSUB -x # exclusive node. To specify only for MPMD together with the one below
[1536]	56	#-Q- irene-amd #MSUB -T ::WallTime:: # Wall clock limit (seconds)
[1519]	57	#-Q- irene-amd #MSUB -A ::default_project::
	58	#-Q- irene-amd #MSUB -q rome
	59	#-Q- irene-amd #MSUB -m store,work,scratch
	60	#-Q- irene-amd
	61	#-Q- irene-amd BATCH_NUM_PROC_TOT=$BRIDGE_MSUB_NPROC
	62	#-Q- irene-amd set +x
[1490]	63	#-Q- jeanzay #!/bin/ksh
	64	#-Q- jeanzay ######################
	65	#-Q- jeanzay ## JEANZAY IDRIS ##
	66	#-Q- jeanzay ######################
	67	#-Q- jeanzay #SBATCH --job-name=::Jobname:: # Job Name
	68	#-Q- jeanzay #SBATCH --output=Script_Output_::Jobname::.000001 # standard output
	69	#-Q- jeanzay #SBATCH --error=Script_Output_::Jobname::.000001 # error output
	70	#-Q- jeanzay #SBATCH --ntasks=::JobNumProcTot:: # Number of MPI tasks
	71	#-Q- jeanzay #SBATCH --cpus-per-task=::openMPthreads:: # Number of openMP threads.
[1509]	72	#-Q- jeanzay #SBATCH --hint=nomultithread # 1 processus MPI par par physical core (no hyperthreading)
[1536]	73	#-Q- jeanzay #SBATCH --time=::WallTime:: # Wall clock limit (minutes)
[1490]	74	#-Q- jeanzay #SBATCH --account ::default_project::@cpu
	75	#-Q- jeanzay
	76	#-Q- jeanzay ##BATCH_NUM_PROC_TOT=$BRIDGE_SBATCH_NPROC
	77	#-Q- jeanzay set +x
[770]	78	#-Q- ada #!/bin/ksh
	79	#-Q- ada # ######################
[929]	80	#-Q- ada # ## ADA IDRIS ##
[770]	81	#-Q- ada # ######################
[1108]	82	#-Q- ada # Job name
[770]	83	#-Q- ada # @ job_name = ::Jobname::
[1108]	84	#-Q- ada # Standard output file name
[770]	85	#-Q- ada # @ output = Script_Output_::Jobname::.000001
[1108]	86	#-Q- ada # Error output file name
[770]	87	#-Q- ada # @ error = Script_Output_::Jobname::.000001
[1240]	88	#-Q- ada # Job type
	89	#-Q- ada # @ job_type = parallel
[1108]	90	#-Q- ada # Total number of tasks
[770]	91	#-Q- ada # @ total_tasks = ::JobNumProcTot::
[1240]	92	#-Q- ada # Specific option for OpenMP parallelization: Number of OpenMP threads per MPI task
	93	#-Q- ada # @ parallel_threads = ::openMPthreads::
[1247]	94	#-Q- ada # Memory : as_limit=3.5gb max per process per core. With 4 threads per process use max as_limit=14gb
	95	#-Q- ada # @ as_limit = 3.5gb
[1108]	96	#-Q- ada # Maximum CPU time per task hh:mm:ss
[770]	97	#-Q- ada # @ wall_clock_limit = 1:00:00
[1240]	98	#-Q- ada # @ environment = "BATCH_NUM_PROC_TOT=::JobNumProcTot::" ; wall_clock_limit=$(wall_clock_limit)
[1108]	99	#-Q- ada # End of the header options
[770]	100	#-Q- ada # @ queue
[1568]	101	#-Q- obelix ######################
	102	#-Q- obelix ## OBELIX LSCE ##
	103	#-Q- obelix ######################
	104	#-Q- obelix #PBS -N ::Jobname::
	105	#-Q- obelix #PBS -m a
	106	#-Q- obelix #PBS -j oe
	107	#-Q- obelix #PBS -q mediump
	108	#-Q- obelix #PBS -o Script_Output_::Jobname::.000001
	109	#-Q- obelix #PBS -S /bin/ksh
	110	#-Q- obelix #PBS -v BATCH_NUM_PROC_TOT=::JobNumProcTot::
	111	#-Q- obelix #PBS -l nodes=1:ppn=::JobNumProcTot::
[1558]	112	#-Q- mesoipsl #!/bin/ksh
	113	#-Q- mesoipsl ######################
	114	#-Q- mesoipsl ## MESO ESPRI IPSL ##
	115	#-Q- mesoipsl ######################
	116	#-Q- mesoipsl #SBATCH --job-name=::Jobname:: # Job Name
	117	#-Q- mesoipsl #SBATCH --output=Script_Output_::Jobname::.000001 # standard output
	118	#-Q- mesoipsl #SBATCH --error=Script_Output_::Jobname::.000001 # error output
	119	#-Q- mesoipsl #SBATCH --ntasks=::JobNumProcTot:: # Number of MPI tasks
	120	#-Q- mesoipsl #SBATCH --cpus-per-task=::openMPthreads:: # Number of openMP threads.
	121	#-Q- mesoipsl #SBATCH --hint=nomultithread # 1 processus MPI par par physical core (no hyperthreading)
	122	#-Q- mesoipsl #SBATCH --time=30 # Wall clock limit (minutes)
	123	#-Q- mesoipsl set +x
[1184]	124	#-Q- ifort_CICLAD ######################
	125	#-Q- ifort_CICLAD ## CICLAD IPSL ##
	126	#-Q- ifort_CICLAD ######################
	127	#-Q- ifort_CICLAD #PBS -N ::Jobname::
	128	#-Q- ifort_CICLAD #PBS -m a
	129	#-Q- ifort_CICLAD #PBS -j oe
[1314]	130	#-Q- ifort_CICLAD ###PBS -q h12 # Queue for 12 hours at ciclad only
[1184]	131	#-Q- ifort_CICLAD #PBS -o Script_Output_::Jobname::.000001
	132	#-Q- ifort_CICLAD #PBS -S /bin/ksh
	133	#-Q- ifort_CICLAD #PBS -v BATCH_NUM_PROC_TOT=::JobNumProcTot::
	134	#-Q- ifort_CICLAD #PBS -l nodes=1:ppn=::JobNumProcTot::
[1291]	135	#-Q- ifort_CICLAD #PBS -l mem=6gb
[1292]	136	#-Q- ifort_CICLAD #PBS -l vmem=30gb
[2]	137	#-Q- default #!/bin/ksh
	138	#-Q- default ##################
	139	#-Q- default ## DEFAULT HOST ##
	140	#-Q- default ##################
[815]	141	#-Q- default #For MPI use, uncomment next line :
[2]	142	#-Q- default #BATCH_NUM_PROC_TOT=::JobNumProcTot::
	143
[373]	144	#**************************************************************
	145	# Author: Sebastien Denvil
	146	# Contact: Sebastien.Denvil__at__ipsl.jussieu.fr
	147	# $Revision:: $ Revision of last commit
	148	# $Author:: $ Author of last commit
	149	# $Date:: $ Date of last commit
[2]	150	# IPSL (2006)
	151	# This software is governed by the CeCILL licence see libIGCM/libIGCM_CeCILL.LIC
[373]	152	#
	153	#**************************************************************
[2]	154
	155	#set -eu
	156	#set -vx
	157
	158	date
	159	echo
	160	echo "#######################################"
	161	echo "# ANOTHER GREAT SIMULATION #"
	162	echo "#######################################"
	163	echo
	164
	165	#D--------------------------------------------------------------------==
	166	#D-
	167	#D- Job to launch IGCM models
	168	#D-
	169	#D--------------------------------------------------------------------==
	170	#D-
	171
	172	MODIPSL=::modipsl::
	173	libIGCM=${MODIPSL}/libIGCM
	174
	175	#D--------------------------------------------------------------------==
[815]	176	#D- -1. PLACE FOR USER MODIFICATION
	177	#D- - Job Verbosity
	178	#D- - PeriodNb
	179	#D- - Experience type : DEB(ug), DEV(elopment), RUN
[2]	180	#D--------------------------------------------------------------------==
	181
[1356]	182	#D- Task type DO NOT CHANGE (computing, post-processing or checking)
[815]	183	TaskType=computing
[1301]	184
[2]	185	#D- Increased verbosity (1, 2, 3)
	186	Verbosity=3
[1301]	187
[1282]	188	#D- postProcessingStopLevel (0,1,2,3)
[1301]	189	#D- 3 stop the main job if any post-processing went wrong (atlas, monitoring, metrics, create_ts, create_se, rebuild or pack_*)
	190	#D- 2 stop only if create_ts, create_se or pack_* failed (dont stop if atlas, monitoring or metrics failed)
	191	#D- 1 stop only if pack_* failed (dont stop if atlas, monitoring, metrics, create_ts or create_se failed)
	192	#D- 0 never stop the main job for post-processing that went wrong
	193	postProcessingStopLevel=1
	194
[475]	195	#D- Experience type : DEB(ug), DEV(elopment), RUN (default)
[1282]	196	#D- DEB : set -vx mode + output files are NOT read only
	197	#D- DEV : output files are NOT read only
	198	#D- RUN : output files ARE read only
[475]	199	JobType=RUN
[1301]	200
[2]	201	#D- Number of execution in one job
[185]	202	PeriodNb=1
[2]	203
	204	#D-
[815]	205	#D- --------------------------------------------------------------------------------------------------#
	206	#D- ! OPTIONNAL FEATURES /!\ USE WITH CARE ! #
	207	#D- --------------------------------------------------------------------------------------------------#
[2]	208
[475]	209
[1096]	210	#D- Low level debug : to perform lib test checks, stack construction and IO functions instrumentation
[2]	211	#D- Default=true
[815]	212	#D-
[1095]	213	DEBUG_debug=true
[2]	214
[988]	215	#D- Messaging : all activities and call stacks will be sent to ipsl servers
	216	#D- If true will imply DEBUG_debug=true
	217	#D- Default=false
	218	#D-
[1555]	219	BigBrother=false
[988]	220
[2]	221	#D- Set DEBUG_sys to false to disable output calls of function
[988]	222	#D- true when JobType=DEB # means DEB(ug)
[815]	223	#D-
[2]	224	#DEBUG_sys=false
	225
	226	#D- Define running directory
	227	#D- Default=${TMPDIR} ie temporary batch directory
[815]	228	#D-
[154]	229	#RUN_DIR_PATH=/workdir/or/scratchdir/of/this/machine
[2]	230
	231	#D- Define submit directory
[92]	232	#D- Default= where you launch qsub (variable from scheduler)
[815]	233	#D-
[92]	234	#SUBMIT_DIR=$( pwd )
[2]	235
[1490]	236	#D- Define input file root directory R_IN
[1373]	237	#D- IPSL: /prodigfs/ipslfs/igcmg/IGCM
	238	#D- TGCC: /ccc/work/cont003/igcmg/igcmg/IGCM
[1490]	239	#D- IDRIS: /gpfswork/rech/psl/commun/IGCM
[1373]	240	#D- OBELIX: /home/orchideeshare/igcmg/IGCM
[1490]	241	#D- Other default: /home_local/${LOGIN}/IGCM
[1373]	242
	243	#D- Change below to override the default
[475]	244	#R_IN=/u/rech/por/rpor111/DATA
	245
[1569]	246	#D- Turn in dry run mode ? (0,1,2,3,4)
[2]	247	#D- Default=0
[815]	248	#D-
[1569]	249	DRYRUN=0
[815]	250	#D-# YOU HAVE TO COMPILE YOUR EXE FILES to USE DRYRUN MODE !
	251	#D-# -------------------------------------------------------------------------------------
	252	#D-# \| DRYRUN= \| Date computations, \| sys_Get \| Exe \| sys_Put_Out; sys_Put_Rest \|
	253	#D-# \| \| Cp/Exe/param/files \| \| \| \|
	254	#D-# \| \| Chmod Qsub \| \| \| \|
	255	#D-# -------------------------------------------------------------------------------------
	256	#D-# \| 0 \| yes \| yes \| yes \| yes \|
	257	#D-# -------------------------------------------------------------------------------------
	258	#D-# \| 1 \| yes \| yes \| yes \| no \|
	259	#D-# -------------------------------------------------------------------------------------
	260	#D-# \| 2 \| yes \| yes \| no \| no \|
	261	#D-# -------------------------------------------------------------------------------------
	262	#D-# \| 3 \| yes \| no \| no \| no \|
	263	#D-# -------------------------------------------------------------------------------------
[1569]	264	#D-# \| 4 \| yes \| yes \| creation of RUN_DIR and Job_debug \|
	265	#D-# -------------------------------------------------------------------------------------
[475]	266	#D-
	267	# --------------------------------------------------------------------------------------------------#
[815]	268	#D- ! END OF OPTIONNAL FEATURES /!\ DO NOT MODIFY ANYTHING BELOW UNLESS YOU KNOW WHAT YOU ARE DOING #
[475]	269	# --------------------------------------------------------------------------------------------------#
[2]	270
	271	#D-
	272	#D--------------------------------------------------------------------==
[1051]	273	#D- 0.0 SYSTEM ENVIRONMENT
	274	#D- - Define variables for Number of processors
	275	#D- - Define MPI variables
	276	#D- - Define batch scheduler variables
	277	#D- - Source IGCM Library
	278	#D- - Get RESOLution in .resol file (temporary)
[2]	279	#D--------------------------------------------------------------------==
	280
[815]	281	#---------------------------------------------------------------------==
[2]	282
	283	. ${libIGCM}/libIGCM_debug/libIGCM_debug.ksh
	284	. ${libIGCM}/libIGCM_card/libIGCM_card.ksh
	285	. ${libIGCM}/libIGCM_date/libIGCM_date.ksh
	286	#-------
	287	. ${libIGCM}/libIGCM_sys/libIGCM_sys.ksh
	288	. ${libIGCM}/libIGCM_config/libIGCM_config.ksh
	289	. ${libIGCM}/libIGCM_comp/libIGCM_comp.ksh
	290	. ${libIGCM}/libIGCM_post/libIGCM_post.ksh
[832]	291	#-------
	292	( ${DEBUG_debug} ) && IGCM_debug_Check
	293	( ${DEBUG_debug} ) && IGCM_card_Check
	294	( ${DEBUG_debug} ) && IGCM_date_Check
[2]	295
[815]	296	#--------------------------------------------------------------------==
[2]	297
	298	#-- Resolution FLAG for oasis input
[511]	299	#RESOL="ORCA2xLMD9671"
[138]	300	[ -f ${SUBMIT_DIR}/../.resol ] && RESOL=$(head -1 ${SUBMIT_DIR}/../.resol)
[511]	301	#-- Chemistrie FLAG to ease chemistries configurations management
	302	#CHEM="AER"
[815]	303	[ -f ${SUBMIT_DIR}/../.chimie ] && eval $(grep CHEM ${SUBMIT_DIR}/../.chimie)
[2]	304
	305	#D-
	306	#D--------------------------------------------------------------------==
[1051]	307	#D- 0.1 COMMON ENVIRONMENT
	308	#D- - Read libIGCM compatibility version in config.card
	309	#D- - Read UserChoices section
	310	#D- - Read Ensemble section
	311	#D- - Read Post section
	312	#D- - Define all netcdf output directories
	313	#D--------------------------------------------------------------------==
	314	IGCM_config_CommonConfiguration ${SUBMIT_DIR}/config.card
	315
[1053]	316	if [ ! -r ${SUBMIT_DIR}/run.card ] ; then
	317	#================================================#
	318	# The file run.card doesn't exist #
	319	#================================================#
	320	FirstInitialize=true
	321	#copy initial run.card
	322	IGCM_sys_Cp ${SUBMIT_DIR}/run.card.init ${SUBMIT_DIR}/run.card
	323	IGCM_debug_Print 2 "run.card copied from run.card.init"
	324	else
	325	FirstInitialize=false
	326	IGCM_debug_Print 2 "run.card exists"
	327	fi
	328
[1051]	329	# ------------------------------------------------------------------
	330	# Activate BigBrother so as to supervise this simulation
	331	# ------------------------------------------------------------------
[1189]	332	IGCM_debug_BigBro_Initialize
[1051]	333
	334	#D-
	335	#D--------------------------------------------------------------------==
[815]	336	#D- 1. INITIALIZE CONFIGURATION
	337	#D- - Simulation configuration
	338	#D- - Simulation parameters
	339	#D- - Execution parameter
	340	#D- - Define input files directory
	341	#D- - Read or initialize CumulPeriod
	342	#D- - run.card
[1051]	343	#D--------------------------------------------------------------------==
[2]	344	IGCM_config_Initialize
	345
	346	# --------------------------------------------------------------------==
[815]	347	# Define, create and cd RUN_DIR
[2]	348	# --------------------------------------------------------------------==
[804]	349	RUN_DIR=${RUN_DIR_PATH}/${config_UserChoices_JobName}.${$}
[2]	350	IGCM_sys_MkdirWork ${RUN_DIR}
	351	IGCM_sys_Cd ${RUN_DIR}
	352
[436]	353	# ------------------------------------------------------------------
	354	# Test if all was right before proceeding further
	355	# ------------------------------------------------------------------
[432]	356	IGCM_debug_Verif_Exit
	357
[2]	358	#D-
[815]	359	#D---------------------------------------------------------------------==
	360	#D- 2. INITIALIZE ALL COMPONENT OF THE CONFIGURATION
	361	#D- - Define component executable
	362	#D- - Define Write Frequency by component "1M" "1D" ...
	363	#D- - Source ${comp}.driver
	364	#D- - Define Storage Places by component
	365	#D- - ${comp}_Initialize :
	366	#D- - Patterns to sed
	367	#D- - Variables from namelist
	368	#D---------------------------------------------------------------------==
[2]	369	IGCM_comp_Initialize
	370
[815]	371	#D-
	372	#D---------------------------------------------------------------------==
	373	#D- 3. PERFORM GENERAL VERIFICATION
	374	#D- - Verify compatibility of period length, write frequencies, ...
	375	#D- - Verify compatibility of rebuild choices and post-process choices
	376	#D- - Will stop here if something is wrong
	377	#D---------------------------------------------------------------------==
[380]	378	IGCM_config_Check
[2]	379
[380]	380	# ------------------------------------------------------------------
[815]	381	# Test if all was right before entering the period loop
[380]	382	# ------------------------------------------------------------------
	383	IGCM_debug_Verif_Exit
	384
[815]	385	#D-
	386	#D---------------------------------------------------------------------==
	387	#D- 4. ENTER THE DEEP EXECUTION LOOP
	388	#D- ! FASTEN YOUR SEAT BELTS PLEASE. !
	389	#D- ! WE WILL CROSS TURBULENCES. !
	390	#D---------------------------------------------------------------------==
[2]	391
	392	Period=1
	393
[120]	394	PeriodContinue=false
	395	if [ ${Period} -le ${PeriodNb} ]; then
[815]	396	PeriodContinue=true
[120]	397	fi
	398	while ( ${PeriodContinue} ) ; do
	399
[785]	400	echo
	401	echo "Starting iteration ${Period} / ${PeriodNb}"
[2]	402
[785]	403	#D-
	404	# ------------------------------------------------------------------
[815]	405	#D- 4.1 COMPUTE AND DEFINE DATE INFORMATION.
	406	#D- - ${PeriodDateBegin}
	407	#D- - ${PeriodDateEnd}
	408	#D- - ${CumulPeriod}
	409	#D- - ${DatesPeriod}=${PeriodDateBegin}_${PeriodDateEnd}
	410	#D- - ${PeriodLength} => JOURS=31 , 28, 29, 30 ; MOIS=0 ; ANS=0
	411	#D- - update run.card value
[785]	412	# ------------------------------------------------------------------
	413	IGCM_config_PeriodStart
[2]	414
[785]	415	#D-
	416	# ------------------------------------------------------------------
[815]	417	#D- 4.2 BEGIN COMPUTATION ONLY IF NEEDED
[785]	418	# ------------------------------------------------------------------
	419	if [ ${SimulationLengthInDays} -gt ${ExperienceLengthInDays} ] ; then
[1351]	420	IGCM_debug_Print 1 "break because '\${SimulationLengthInDays} -gt \${ExperienceLengthInDays}' : ${SimulationLengthInDays} -gt ${ExperienceLengthInDays}"
[785]	421	break ;
	422	fi
[2]	423
[785]	424	#D-
	425	# ------------------------------------------------------------------
[815]	426	#D- 4.3 CALL OPTIONNAL FUNCTION WITHIN DRIVER
	427	#D- - to set special variables used in lists (Param, Init or Bc).
[785]	428	# ------------------------------------------------------------------
	429	IGCM_comp_PeriodStart
[2]	430
[785]	431	#D-
	432	# ------------------------------------------------------------------
[815]	433	#D- 4.4 GET PARAMETERS TEXT FILES UPDATED BY JOB
	434	#D- - (.def, namelist ...)
	435	#D- - READ AND USE BY GCM AT EACH EXECUTION.
[785]	436	# ------------------------------------------------------------------
	437	IGCM_comp_GetInputParametersFiles
[262]	438
[785]	439	#D-
	440	# ------------------------------------------------------------------
[815]	441	#D- 4.5 GET INITIAL STATE
	442	#D- - (Etat0, carteveg,relief...)
	443	#D- - NECESSARY ONLY IF CumulPeriod= (=> NUMERO) == 1
	444	#D- - AND ???_Restart=NO
	445	#D- - READ AND USE BY GCM FOR ONLY ONE EXECUTION.
[785]	446	# ------------------------------------------------------------------
	447	IGCM_comp_GetInputInitialStateFiles
[2]	448
[785]	449	#D-
	450	# ------------------------------------------------------------------
[815]	451	#D- 4.6 GET BOUNDARIES CONDITIONS
	452	#D- - (SST, WIND[X,Y,Z], LAI ...)
	453	#D- - READ AND USE BY GCM AT EACH EXECUTION.
[785]	454	# ------------------------------------------------------------------
	455	IGCM_comp_GetInputBoundaryFiles
[2]	456
[785]	457	#D-
	458	# ------------------------------------------------------------------
[815]	459	#D- 4.7 GET SmoothFiles CONDITIONS
	460	#D- - (SST, WIND[X,Y,Z], LAI ...)
	461	#D- - READ AND USE BY GCM AT EACH EXECUTION
	462	#D- - Do not change at each ${Period}
[785]	463	# ------------------------------------------------------------------
[815]	464	IGCM_comp_GetInputSmoothFiles
[2]	465
[785]	466	#D-
	467	# ------------------------------------------------------------------
[815]	468	#D- 4.8 GET RESTART FILES
	469	#D- - (restartphy.nc, orca_restart.nc ...)
	470	#D- - READ AND USE BY GCM AT EACH EXECUTION.
[785]	471	#D-
[815]	472	#D- - IF A COMPONENT DO NOT RESTART FROM PREVIOULSY COMPUTED RESTART
	473	#D- - ONLY IF CumulPeriod= (=> NUMERO) == 1
	474	#D- - MUST EXECUTE CREATE ETAT0_LIMIT (TYPICALLY LMDZ AND ./create_etat0_limit.e)
[785]	475	#D-
[815]	476	#D- - IF CumulPeriod == 1
	477	#D- - AND A COMPONENT RESTART FROM PREVIOULSY COMPUTED RESTART
	478	#D- - MUST BRING THIS RESTART IN ${RUN_DIR_PATH}
[785]	479	#D-
[815]	480	#D- - ELSE BRING RESTART FROM ${JobName} IN ${RUN_DIR_PATH}
[785]	481	# ------------------------------------------------------------------
	482	IGCM_comp_GetInputRestartFiles
[2]	483
[785]	484	# ------------------------------------------------------------------
[1409]	485	#D- 4.9 GET BINARY FILES
	486	#D- - USED BY AT EACH EXECUTION.
	487	#D- - CHECK BINARIES HAS BEEN COMPILED WITH THE SAME COMPILER
	488	#D- - RELOAD THE APPROPRIATE ENVIRONMENT THE FIRST TIME IF NEEDED
	489	# ------------------------------------------------------------------
	490	IGCM_comp_GetInputBinaryFiles
	491
	492	# ------------------------------------------------------------------
[815]	493	# Test if all was right before Update
[785]	494	# ------------------------------------------------------------------
	495	IGCM_debug_Verif_Exit
[2]	496
[815]	497	#D-
[785]	498	# ------------------------------------------------------------------
[1409]	499	#D- 4.10 ACTIVATE RUNNING ENVIRONNEMENT VARIABLES
	500	#D- - including module load associated to compiler & tools
	501	#D- - .env_intel17.0.2_curie
	502	#D- - .env_netcdf4.3.3.1_curie
[785]	503	# ------------------------------------------------------------------
	504	IGCM_sys_activ_variables
[2]	505
[785]	506	#D-
	507	# ------------------------------------------------------------------
[1409]	508	#D- 4.11 UPDATE ParametersFiles
[815]	509	#D- - (.def, namelist ...)
	510	#D- - with current value of (ORCA_NIT00, ORCA_LRSTAR, RAZ_DATE, ...)
[785]	511	# ------------------------------------------------------------------
	512	IGCM_comp_Update
	513
	514	# ------------------------------------------------------------------
[815]	515	# Test if all was right before execution
[785]	516	# ------------------------------------------------------------------
	517	IGCM_debug_Verif_Exit
	518
[1492]	519	#-Q- jeanzay # Workaround at Jean-Zay
	520	#-Q- jeanzay source $I_MPI_ROOT/intel64/bin/mpivars.sh release_mt
	521
[785]	522	#D-
[815]	523	#D---------------------------------------------------------------------==
	524	#D- 5. EXECUTION
	525	#D---------------------------------------------------------------------==
[785]	526
	527	echo
	528	echo "#######################################"
	529	echo "# DIR BEFORE RUN EXECUTION #"
	530	echo "#######################################"
	531	echo
	532	ls -lrt
	533
	534	echo "========================================================================"
[1569]	535	if [ ${DRYRUN_DEBUG} = 4 ] ; then
	536	IGCM_sys_create_run_dir
[785]	537	else
[1569]	538	if [ ${DRYRUN} -le 1 ] ; then
	539	REAL_DATE_INIT=$( date )
	540	echo > ${Exe_Output}
	541	echo "#######################################" >> ${Exe_Output}
	542	echo "EXECUTION of : ${EXECUTION}"
	543	echo "EXECUTION of : ${EXECUTION}" >> ${Exe_Output}
	544	echo >> ${Exe_Output}
	545	typeset RET
	546	RUN_DATE_BEGIN=$( date '+%Y-%m-%dT%H:%M:%S' )
	547	${EXECUTION} >> ${Exe_Output} 2>&1
	548	RET=$?
	549	RUN_DATE_END=$( date '+%Y-%m-%dT%H:%M:%S' )
	550	if [ ${RET} -gt 0 ] ; then
	551	echo "Return code of executable :" ${RET}
	552	IGCM_debug_Exit "EXECUTABLE"
	553	IGCM_sys_Mkdir ${SUBMIT_DIR}/Debug
	554	IGCM_sys_Cp ${Exe_Output} ${SUBMIT_DIR}/Debug/${PREFIX}_${Exe_Output}_error
	555	ExecutionFail=true
	556	fi
	557	echo >> ${Exe_Output}
	558	echo "#######################################" >> ${Exe_Output}
	559	echo "libIGCM RunDateBegin=${RUN_DATE_BEGIN}" >> ${Exe_Output}
	560	echo "libIGCM RunDateEnd=${RUN_DATE_END}" >> ${Exe_Output}
	561	echo >> ${Exe_Output}
	562	else
	563	echo "EXECUTION of : ${EXECUTION} simulated for DRYRUN = " $DRYRUN
	564	echo "EXECUTION of : ${EXECUTION} simulated for DRYRUN = " $DRYRUN > ${Exe_Output}
	565	if ( $DEBUG_debug ) ; then
	566	echo "FOR EXECUTION DRYRUN mode = " $DRYRUN >> stack
	567	fi
	568	fi
[785]	569	fi
	570	echo "========================================================================"
[2]	571
[785]	572	echo
	573	echo "#######################################"
	574	echo "# DIR AFTER RUN EXECUTION #"
	575	echo "#######################################"
	576	echo
	577	ls -lrt
[2]	578
[785]	579	#D-
[815]	580	#D---------------------------------------------------------------------==
	581	#D- 6. POST EXECUTION OPERATIONS
	582	#D---------------------------------------------------------------------==
	583
	584	#D-
[785]	585	# ------------------------------------------------------------------
[815]	586	#D- 6.1. DESACTIVATE RUNNING ENVIRONNEMENT VARIABLES
[785]	587	# ------------------------------------------------------------------
	588	IGCM_sys_desactiv_variables
[2]	589
[785]	590	#D-
	591	# ------------------------------------------------------------------
[815]	592	#D- 6.2. SAVE OUTPUTS
	593	#D- - On archive/storage machine
	594	#D- - netcdf outputs, restarts and text files of models
[785]	595	# ------------------------------------------------------------------
	596	IGCM_comp_Finalize
[2]	597
[785]	598	# ------------------------------------------------------------------
[815]	599	# Test if all was right after Finalize
[785]	600	# ------------------------------------------------------------------
	601	IGCM_debug_Verif_Exit
[2]	602
[785]	603	#D-
	604	# ------------------------------------------------------------------
[815]	605	#D- 6.3. CONFIGURE POST-PROCESSING
	606	#D- - asynchronous post-treatment (Level 0) when necessary (rebuild/pack)
	607	#D- - classic post-treatment (Level 1) when necessary (TimeSeries/Seasonal)
[785]	608	# ------------------------------------------------------------------
	609	IGCM_post_Configure
[2]	610
[785]	611	#D-
	612	# ------------------------------------------------------------------
[815]	613	#D- 6.4. SUBMIT POST-PROCESSING
	614	#D- - remote rebuild or/and post-treatment process if necessary
[785]	615	# ------------------------------------------------------------------
	616	IGCM_post_Submit
[380]	617
[785]	618	#D-
	619	# ------------------------------------------------------------------
[815]	620	#D- 6.5. FINALYZE CURRENT LOOP AND PREPARE NEXT ONE
	621	#D- - Manage executable size to save only different binary
	622	#D- - Write in run.card user, system and elapse time
	623	#D- - Check that everything went well ! No ? then we stop.
	624	#D- - Determine next computed period
[785]	625	# ------------------------------------------------------------------
	626	IGCM_config_PeriodEnd
[2]	627
[785]	628	echo "Ending iteration ${Period}"
	629	(( Period = Period + 1 ))
[2]	630
[785]	631	# End loop if date end is reached
	632	if [ ${SimulationLengthInDays} -ge ${ExperienceLengthInDays} ] ; then
	633	break ;
	634	fi
[2]	635
[785]	636	PeriodContinue=false
	637	if [ ${Period} -le ${PeriodNb} ]; then
	638	PeriodContinue=true
	639	fi
	640	done
[2]	641
	642	#D-
[815]	643	#D---------------------------------------------------------------------==
	644	#D- 7. SUBMIT NEXT JOB OR SEND MAIL IF SIMULATION IS OVER.
	645	#D---------------------------------------------------------------------==
[2]	646	IGCM_config_Finalize
	647
	648	date

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source: trunk/libIGCM/AA_job @ 1573

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