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source: trunk/libIGCM/libIGCM_sys/libIGCM_sys_obelix.ksh @ 968

Last change on this file since 968 was 968, checked in by jgipsl, 11 years ago
Removed readonly option for SUBMIT_DIR. RunChecker? and create_ts can not work with this option -r.
Property svn:keywords set to `Revision Author Date`
File size: 71.2 KB

Rev	Line
[657]	1	#!/bin/ksh
[16]	2
	3	#**************************************************************
	4	# Author: Sebastien Denvil, Martial Mancip, Christian Laguerre
[373]	5	# Contact: Martial.Mancip__at__ipsl.jussieu.fr
	6	# $Revision:: $ Revision of last commit
	7	# $Author:: $ Author of last commit
	8	# $Date:: $ Date of last commit
[16]	9	# IPSL (2006)
	10	# This software is governed by the CeCILL licence see libIGCM/libIGCM_CeCILL.LIC
[657]	11	#
[16]	12	#**************************************************************
	13
	14	#=========================================================
	15	# The documentation of this file can be automatically generated
[657]	16	# if you use the prefix #D- for comments to be extracted.
[16]	17	# Extract with command: cat lib* \| grep "^#D-" \| cut -c "4-"
	18	#=========================================================
	19
	20	#D-#==================================================
	21	#D-LibIGCM_sys for obelix
	22	#D-#==================================================
	23	#D-
[657]	24	#D- This ksh library if a layer under some usefull
[16]	25	#D-environment variables and shell commands.
	26	#D-All those definitions depend on host particularities.
	27	#D-It manages a stack mechanism and test validity of operations.
	28	#D-All function described bellow must be prefixed by IGCM_sys.
	29
	30	#====================================================
	31	# libIGCM_sys PARAMETERS
	32	#====================================================
	33
[343]	34	#====================================================
[16]	35	# set DEBUG_sys to true to output calls of function
	36	typeset -r DEBUG_sys=${DEBUG_sys:=true}
	37
[343]	38	#====================================================
[16]	39	# Turn in dry run mode ? (sys_Put_Rest, sys_Put_Out, sys_Get)
	40	typeset -r DRYRUN=${DRYRUN:=0}
	41
	42	# YOU MUST COMPILE YOUR EXE FILES FOR DRYRUN MODE !
	43	# -------------------------------------------------------------------------------------
	44	# \| DRYRUN= \| Date computations, \| sys_Get \| Exe \| sys_Put_Out; sys_Put_Rest \|
[809]	45	# \| \| Cp/Exe/param/files \| \| \| \|
	46	# \| \| Chmod Qsub \| \| \| \|
[16]	47	# -------------------------------------------------------------------------------------
	48	# \| 0 \| yes \| yes \| yes \| yes \|
	49	# -------------------------------------------------------------------------------------
	50	# \| 1 \| yes \| yes \| yes \| no \|
	51	# -------------------------------------------------------------------------------------
	52	# \| 2 \| yes \| yes \| no \| no \|
	53	# -------------------------------------------------------------------------------------
	54	# \| 3 \| yes \| no \| no \| no \|
	55	# -------------------------------------------------------------------------------------
	56
	57	#=====================================================
	58	# Global Variables :
	59	#=====================================================
	60	# Language : "fr" or "en"
	61	typeset -r MYLANG="fr"
	62
	63	#=====================================================
[657]	64	# Host and user names
[217]	65	# $hostname ou hostname
[800]	66	typeset HOST=${HOST:=$( hostname )}
[16]	67	# $username ou whoami
[800]	68	typeset LOGIN=${LOGIN:=$( whoami )}
[657]	69	# $hostname of the MASTER job
[742]	70	typeset MASTER=${MASTER:=$( hostname )}
[16]	71
	72	#D-
	73	#D-#==================================================
	74	#D-Program used in libIGCM
	75	#D-#==================================================
	76
[742]	77	# Submit command
	78	typeset SUBMIT=${SUBMIT:=qsub}
[16]	79	# rsync with path
	80	typeset -r RSYNC=/usr/bin/rsync
	81	# RSYNC_opt args to rsync
[282]	82	typeset -r RSYNC_opt="-va"
[657]	83	# ie storage filesystem
	84	typeset -r STOREHOST=${MASTER}
[16]	85
	86	#====================================================
[305]	87	# Set environment tools (ferret, nco, cdo)
	88	#====================================================
[16]	89	. /home/users/brock/.atlas_env_asterix_ksh
	90
[343]	91	#====================================================
[421]	92	# Set lf95 environment
	93	#====================================================
	94	. /usr/local/install/lf6481/bash_laheyfort_setup
	95
	96	#====================================================
[16]	97	# Host specific DIRECTORIES
	98	#====================================================
	99
	100	#====================================================
[657]	101	#- MirrorlibIGCM for frontend
	102	typeset -r MirrorlibIGCM=${MirrorlibIGCM:=false}
	103
	104	#====================================================
	105	#- libIGCM_POST for frontend
	106	typeset -r libIGCM_POST=${libIGCM}
	107
	108	#====================================================
[16]	109	#- R_EXE (==> BIN_DIR = ${MODIPSL}/bin )
	110	typeset -r R_EXE="${MODIPSL}/bin"
	111
	112	#====================================================
	113	#- SUBMIT_DIR : submission dir
[256]	114	if [ X${PBS_O_WORKDIR} != X ] ; then
[968]	115	typeset SUBMIT_DIR=${SUBMIT_DIR:=${PBS_O_WORKDIR}}
[256]	116	else
[968]	117	typeset SUBMIT_DIR=${SUBMIT_DIR:=${PWD}}
[256]	118	fi
[657]	119
[16]	120	#====================================================
[725]	121	#- IN
	122	typeset -r R_IN=${R_IN:=/home/orchidee01/mmancip/IGCM}
	123
	124	#====================================================
[811]	125	#- ARCHIVE
[800]	126	typeset ARCHIVE=${ARCHIVE:=/home/scratch01/${LOGIN}}
[16]	127
[725]	128	#====================================================
	129	#- STORAGE (dedicated to small/medium files)
[800]	130	typeset STORAGE=${ARCHIVE}
[282]	131
	132	#====================================================
[717]	133	#- R_OUT
[800]	134	typeset R_OUT=${ARCHIVE}/IGCM_OUT
[16]	135
	136	#====================================================
[657]	137	#- R_FIG (hosting figures : monitoring and atlas, and/or small files)
[800]	138	typeset R_FIG=${STORAGE}/IGCM_OUT
[657]	139
	140	#====================================================
	141	#- R_BUF (ONLY FOR double copy an scratch)
[800]	142	typeset -r R_BUF=${STORAGE}/IGCM_OUT
[657]	143
	144	#====================================================
[16]	145	#- RUN_DIR_PATH : Temporary working directory (=> TMP)
[838]	146	if [ X${PBS_JOBID} != X ] ; then
	147	typeset -r RUN_DIR_PATH=${RUN_DIR_PATH:=/scratch/$PBS_O_LOGNAME.$PBS_JOBID}
	148	else
[839]	149	typeset -r RUN_DIR_PATH=${RUN_DIR_PATH:=/tmp/tmp$$}
[838]	150	fi
[16]	151
	152	#====================================================
	153	#- HOST_MPIRUN_COMMAND
	154	typeset -r HOST_MPIRUN_COMMAND=${HOST_MPIRUN_COMMAND:="time mpirun"}
	155
[61]	156	#====================================================
	157	#- Max number of arguments passed to nco operator or demigration command
	158	UNIX_MAX_LIMIT=360
	159
[657]	160	#====================================================
	161	#- Number of core per node (max number of OpenMP task)
	162	NUM_COREPERNODE=1
	163
	164	#====================================================
	165	#- Default number of MPI task for IPSL coupled model
	166	#- required for backward compatibility
	167	#-
	168	DEFAULT_NUM_PROC_OCE=1
	169	DEFAULT_NUM_PROC_CPL=1
	170	(( DEFAULT_NUM_PROC_ATM = BATCH_NUM_PROC_TOT - DEFAULT_NUM_PROC_OCE - DEFAULT_NUM_PROC_CPL ))
	171	DEFAULT_NUM_PROC_TOTAL=${BATCH_NUM_PROC_TOT}
	172
[16]	173	#D-#==================================================
[725]	174	#D-function IGCM_sys_ChangeArchive
	175	#D-* Purpose: Just a dummy call on this machine
	176	#D-* Examples:
	177	#D-
	178	function IGCM_sys_ChangeArchive {
	179	IGCM_debug_Print 1 " dummy function : IGCM_sys_ChangeArchive "
	180	}
	181
	182	#D-#==================================================
[16]	183	#D-function IGCM_sys_RshMaster
[800]	184	#D-* Purpose: Connection to frontend machine.
[16]	185	#D-* Examples:
	186	#D-
	187	function IGCM_sys_RshMaster {
[657]	188	IGCM_debug_PushStack "IGCM_sys_RshMaster" $@
[862]	189	/bin/ksh <<-EOF
[16]	190	export libIGCM=${libIGCM}
[98]	191	export DEBUG_debug=${DEBUG_debug}
[16]	192	. ${libIGCM}/libIGCM_debug/libIGCM_debug.ksh
	193	. ${libIGCM}/libIGCM_card/libIGCM_card.ksh
	194	${@}
	195	EOF
[657]	196	if [ $? -gt 0 ] ; then
	197	echo "IGCM_sys_RshMaster : erreur."
	198	IGCM_debug_Exit "IGCM_sys_RshMaster"
	199	fi
	200	IGCM_debug_PopStack "IGCM_sys_RshMaster"
[16]	201	}
	202
	203	#D-#==================================================
[37]	204	#D-function IGCM_sys_RshArchive
	205	#D-* Purpose: Archive rsh command
	206	#D-* Examples:
	207	#D-
	208	function IGCM_sys_RshArchive {
[657]	209	IGCM_debug_PushStack "IGCM_sys_RshArchive" $@
	210	/bin/ksh <<-EOF
[40]	211	${@}
	212	EOF
[811]	213	status=$?
	214	if [ ${status} -gt 0 ] ; then
	215	IGCM_debug_Print 2 "IGCM_sys_RshArchive : command failed error code ${status}"
[657]	216	IGCM_debug_Exit "IGCM_sys_RshArchive"
	217	fi
	218	IGCM_debug_PopStack "IGCM_sys_RshArchive"
[37]	219	}
	220
	221	#D-#==================================================
[16]	222	#D-function IGCM_sys_RshPost
[282]	223	#D-* Purpose: Post-process rsh command
[16]	224	#D-* Examples:
	225	#D-
	226	function IGCM_sys_RshPost {
[657]	227	IGCM_debug_PushStack "IGCM_sys_RshPost" $@
	228	if ( $DEBUG_sys ) ; then
	229	echo "IGCM_sys_RshPost :" $@
	230	fi
[800]	231
	232	# keep standard input (stdin) for the loop onto temporary file
	233	cat >tmp_IGCM_sys_RshPost_$$
	234
	235	# ============ FRONTEND START ============ #
	236
[862]	237	/bin/ksh <tmp_IGCM_sys_RshPost_$$
[657]	238	if [ $? -gt 0 ] ; then
	239	echo "IGCM_sys_RshPost : erreur."
	240	IGCM_debug_Exit "IGCM_sys_RshPost"
	241	fi
[800]	242	# delete temporary file
	243	\rm tmp_IGCM_sys_RshPost_$$
[657]	244	IGCM_debug_PopStack "IGCM_sys_RshPost"
[16]	245	}
	246
	247	#D-#==================================================
[153]	248	#D-function IGCM_sys_SendMail
	249	#D-* Purpose: Send mail when simulation is over
	250	#D-* Examples:
	251	#D-
	252	function IGCM_sys_SendMail {
[657]	253	IGCM_debug_PushStack "IGCM_sys_SendMail" $@
	254	if ( $DEBUG_sys ) ; then
	255	echo "IGCM_sys_SendMail :" $@
	256	fi
[153]	257
[922]	258	if [ X${1} = XAccounting ] ; then
	259	status=Accounting
	260	mailText=jobAccounting.mail
	261	elif ( ${ExitFlag} ) ; then
[657]	262	status=failed
[922]	263	mailText=jobEnd.mail
[657]	264	else
	265	status=completed
[922]	266	mailText=jobEnd.mail
[657]	267	fi
[717]	268
[922]	269	# Update selected mail template
	270	while read -r line; do
	271	eval echo $line >> mail.txt ;
	272	done < ${libIGCM}/libIGCM_sys/${mailText}
[153]	273
[657]	274	if [ ! -z ${config_UserChoices_MailName} ] ; then
[922]	275	mailx -s "${config_UserChoices_JobName} ${status}" ${config_UserChoices_MailName} < mail.txt
[657]	276	elif [ -f ~/.forward ] ; then
[922]	277	mailx -s "${config_UserChoices_JobName} ${status}" $( cat ~/.forward ) < mail.txt
[657]	278	fi
[153]	279
[811]	280	sleep 10
[922]	281	rm -f mail.txt
[811]	282
[657]	283	IGCM_debug_PopStack "IGCM_sys_SendMail"
[153]	284	}
	285
	286	#D-#==================================================
[16]	287	#D-function IGCM_sys_Mkdir
	288	#D-* Purpose: Master locale mkdir command
	289	#D-* Examples:
	290	#D-
	291	function IGCM_sys_Mkdir {
[657]	292	IGCM_debug_PushStack "IGCM_sys_Mkdir" $@
	293	if ( $DEBUG_sys ) ; then
	294	echo "IGCM_sys_Mkdir :" $@
	295	fi
	296	if [ ! -d ${1} ]; then
	297	\mkdir -p $1
	298	if [ $? -gt 0 ] ; then
	299	echo "IGCM_sys_Mkdir : erreur."
	300	IGCM_debug_Exit "IGCM_sys_Mkdir"
[16]	301	fi
[657]	302	fi
[717]	303	# vérification :
[657]	304	if [ ! -d ${1} ] ; then
	305	echo "IGCM_sys_Mkdir : erreur."
	306	IGCM_debug_Exit "IGCM_sys_Mkdir"
	307	fi
	308	IGCM_debug_PopStack "IGCM_sys_Mkdir"
[16]	309	}
	310
	311	#D-#==================================================
	312	#D-function IGCM_sys_MkdirArchive
	313	#D-* Purpose: Mkdir on Archive
	314	#D-* Examples:
	315	#D-
	316	function IGCM_sys_MkdirArchive {
[657]	317	IGCM_debug_PushStack "IGCM_sys_MkdirArchive" $@
	318	if ( $DEBUG_sys ) ; then
	319	echo "IGCM_sys_MkdirArchive :" $@
	320	fi
[717]	321	#- creation de repertoire sur le serveur fichier
[657]	322	if [ ! -d ${1} ]; then
[811]	323	mkdir -p $1
	324	status=$?
	325
	326	if [ ${status} -gt 0 ] ; then
	327	IGCM_debug_Print 2 "IGCM_sys_MkdirArchive : mkdir failed error code ${status}"
[657]	328	IGCM_debug_Exit "IGCM_sys_MkdirArchive"
[16]	329	fi
[657]	330	fi
	331	IGCM_debug_PopStack "IGCM_sys_MkdirArchive"
[16]	332	}
	333
	334	#D-#==================================================
	335	#D-function IGCM_sys_MkdirWork
	336	#D-* Purpose: Mkdir on Work
	337	#D-* Examples:
	338	#D-
	339	function IGCM_sys_MkdirWork {
[657]	340	IGCM_debug_PushStack "IGCM_sys_MkdirWork" $@
	341	if ( $DEBUG_sys ) ; then
	342	echo "IGCM_sys_MkdirWork :" $@
	343	fi
[717]	344	#- creation de repertoire sur le serveur fichier
[657]	345	if [ ! -d ${1} ]; then
	346	\mkdir -p $1
	347	if [ $? -gt 0 ] ; then
	348	echo "IGCM_sys_MkdirWork : erreur."
	349	IGCM_debug_Exit "IGCM_sys_MkdirWork"
[16]	350	fi
[657]	351	fi
	352	IGCM_debug_PopStack "IGCM_sys_MkdirWork"
[16]	353	}
	354
	355	#D-#==================================================
	356	#D-function IGCM_sys_Cd
	357	#D-* Purpose: master cd command
	358	#D-* Examples:
	359	#D-
	360	function IGCM_sys_Cd {
[657]	361	IGCM_debug_PushStack "IGCM_sys_Cd" $@
	362	if ( $DEBUG_sys ) ; then
	363	echo "IGCM_sys_Cd :" $@
	364	fi
	365	\cd $1
	366	if [ $? -gt 0 ] ; then
	367	echo "IGCM_sys_Cd : erreur."
	368	IGCM_debug_Exit "IGCM_sys_Cd"
	369	fi
	370	IGCM_debug_PopStack "IGCM_sys_Cd"
[16]	371	}
	372
	373	#D-#==================================================
	374	#D-function IGCM_sys_Chmod
	375	#D-* Purpose: Chmod
	376	#D-* Examples:
	377	#D-
	378	function IGCM_sys_Chmod {
[657]	379	IGCM_debug_PushStack "IGCM_sys_Chmod" -- $@
	380	if ( $DEBUG_sys ) ; then
	381	echo "IGCM_sys_Chmod :" $@
	382	fi
[809]	383	\chmod $@
	384	if [ $? -gt 0 ] ; then
	385	echo "IGCM_sys_Chmod : erreur."
	386	IGCM_debug_Exit "IGCM_sys_Chmod"
[657]	387	fi
	388	IGCM_debug_PopStack "IGCM_sys_Chmod"
[16]	389	}
	390
	391	#D-#==================================================
	392	#D-function IGCM_sys_FileSize
	393	#D-* Purpose: Filesize
	394	#D-* Examples:
	395	#D-
	396	function IGCM_sys_FileSize {
[657]	397	IGCM_debug_PushStack "IGCM_sys_FileSize" $@
[16]	398
[657]	399	typeset sizeF
	400	set +A sizeF -- $( ls -la ${1} )
	401	if [ $? -gt 0 ] ; then
	402	IGCM_debug_Exit "IGCM_sys_FileSize"
	403	fi
	404	eval ${2}=${sizeF[4]}
[16]	405
[657]	406	IGCM_debug_PopStack "IGCM_sys_FileSize"
[16]	407	}
	408
	409	#D-#==================================================
	410	#D-function IGCM_sys_TestDir
	411	#D-* Purpose: Test Directory that must exists
	412	#D-* Examples:
	413	#D-
	414	function IGCM_sys_TestDir {
[657]	415	IGCM_debug_PushStack "IGCM_sys_TestDir" $@
	416	if ( $DEBUG_sys ) ; then
	417	echo "IGCM_sys_TestDir :" $@
	418	fi
	419	typeset ExistFlag
	420	ExistFlag=$( [ -d $1 ] && echo 0 \|\| echo 1 )
	421	IGCM_debug_PopStack "IGCM_sys_TestDir"
[67]	422
[657]	423	return ${ExistFlag}
[16]	424	}
	425
	426	#D-#==================================================
	427	#D-function IGCM_sys_TestDirArchive
	428	#D-* Purpose: Test Directory that must exists on Archive
	429	#D-* Examples:
	430	#D-
	431	function IGCM_sys_TestDirArchive {
[657]	432	IGCM_debug_PushStack "IGCM_sys_TestDirArchive" $@
	433	if ( $DEBUG_sys ) ; then
	434	echo "IGCM_sys_TestDirArchive :" $@
	435	fi
	436	typeset ExistFlag
	437	ExistFlag=$( [ -d $1 ] && echo 0 \|\| echo 1 )
	438	IGCM_debug_PopStack "IGCM_sys_TestDirArchive"
	439	return ${ExistFlag}
[16]	440	}
	441
	442	#D-#==================================================
[800]	443	#D-function IGCM_sys_IsFileArchived
	444	#D-* Purpose: Test file that must NOT EXISTS on Archive
	445	#D-* Examples:
	446	#D-
	447	function IGCM_sys_IsFileArchived {
	448	IGCM_debug_PushStack "IGCM_sys_IsFileArchived" $@
	449	if ( $DEBUG_sys ) ; then
	450	echo "IGCM_sys_IsFileArchived :" $@
	451	fi
	452	typeset IsArchivedFlag
	453	# Never archived for this system
	454	IsArchivedFlag=1
	455	IGCM_debug_PopStack "IGCM_sys_IsFileArchived"
	456
	457	return ${IsArchivedFlag}
	458	}
	459
	460	#D-#==================================================
[16]	461	#D-function IGCM_sys_TestFileArchive
	462	#D-* Purpose: Test file that must NOT EXISTS on Archive
	463	#D-* Examples:
	464	#D-
	465	function IGCM_sys_TestFileArchive {
[657]	466	IGCM_debug_PushStack "IGCM_sys_TestFileArchive" $@
	467	typeset ExistFlag
	468	ExistFlag=$( [ -f $1 ] && echo 0 \|\| echo 1 )
	469	IGCM_debug_PopStack "IGCM_sys_TestFileArchive"
[67]	470
[657]	471	return ${ExistFlag}
[67]	472	}
	473
	474	#D-#==================================================
[657]	475	#D-function IGCM_sys_TestFileBuffer
	476	#D-* Purpose: Test file that must NOT EXISTS on Buffer
	477	#D-* Examples:
	478	#D-
	479	function IGCM_sys_TestFileBuffer {
	480	IGCM_debug_PushStack "IGCM_sys_TestFileBuffer" $@
	481	typeset ExistFlag
	482	ExistFlag=$( [ -f $1 ] && echo 0 \|\| echo 1 )
	483	IGCM_debug_PopStack "IGCM_sys_TestFileBuffer"
	484
	485	return ${ExistFlag}
	486	}
	487
	488	#D-#==================================================
[67]	489	#D-function IGCM_sys_CountFileArchive
	490	#D-* Purpose: Count files on Archive filesystem
	491	#D-* Examples:
	492	#D-
	493	function IGCM_sys_CountFileArchive {
[657]	494	IGCM_debug_PushStack "IGCM_sys_CountFileArchive" $@
	495	ls ${@} 2>/dev/null \| wc -l
	496	if [ $? -gt 0 ] ; then
	497	echo "IGCM_sys_CountFileArchive : erreur."
	498	fi
	499	IGCM_debug_PopStack "IGCM_sys_CountFileArchive"
[16]	500	}
	501
	502	#D-#==================================================
[657]	503	#D-function IGCM_sys_CountFileBuffer
	504	#D-* Purpose: Count files on Scratch filesystem
	505	#D-* Examples:
	506	#D-
	507	function IGCM_sys_CountFileBuffer {
	508	IGCM_debug_PushStack "IGCM_sys_CountFileBuffer" $@
	509	ls ${@} 2>/dev/null \| wc -l
	510	if [ $? -gt 0 ] ; then
	511	echo "IGCM_sys_CountFileBuffer : erreur."
	512	fi
	513	IGCM_debug_PopStack "IGCM_sys_CountFileBuffer"
	514	}
	515
	516	#D-#==================================================
[16]	517	#D-function IGCM_sys_Tree
	518	#D-* Purpose: Tree directories with files on ${ARCHIVE}
	519	#D-* Examples: IGCM_sys_Tree ${R_IN} ${R_OUT}
	520	#D-
	521	function IGCM_sys_Tree {
[657]	522	IGCM_debug_PushStack "IGCM_sys_Tree" $@
	523	if ( $DEBUG_sys ) ; then
	524	echo "IGCM_sys_Tree :" $@
	525	fi
[16]	526
[657]	527	\tree -f $@
[16]	528
[657]	529	IGCM_debug_PopStack "IGCM_sys_Tree"
[16]	530	}
	531
	532	#D-#==================================================
	533	#D-function IGCM_sys_Tar
[657]	534	#D-* Purpose: master tar command
[16]	535	#D-* Examples:
	536	#D-
	537	function IGCM_sys_Tar {
[657]	538	IGCM_debug_PushStack "IGCM_sys_Tar" $@
	539	if ( $DEBUG_sys ) ; then
	540	echo "IGCM_sys_Tar :" $@
	541	fi
	542	\tar cf $@
	543	if [ $? -gt 0 ] ; then
	544	echo "IGCM_sys_Tar : erreur."
	545	IGCM_debug_Exit "IGCM_sys_Tar"
	546	fi
	547	IGCM_debug_PopStack "IGCM_sys_Tar"
[16]	548	}
	549
	550	#D-#==================================================
	551	#D-function IGCM_sys_UnTar
	552	#D-* Purpose: master un-tar command
	553	#D-* Examples:
	554	#D-
	555	function IGCM_sys_UnTar {
[657]	556	IGCM_debug_PushStack "IGCM_sys_UnTar" $@
	557	if ( $DEBUG_sys ) ; then
	558	echo "IGCM_sys_UnTar :" $@
	559	fi
	560	\tar xvf $1
	561	if [ $? -gt 0 ] ; then
	562	echo "IGCM_sys_UnTar : erreur."
	563	IGCM_debug_Exit "IGCM_sys_UnTar"
	564	fi
	565	IGCM_debug_PopStack "IGCM_sys_UnTar"
[16]	566	}
	567
	568	#D-#==================================================
	569	#D-function IGCM_sys_Qsub
	570	#D-* Purpose: Qsub new job
	571	#D-* Examples:
	572	#D-
	573	function IGCM_sys_Qsub {
[657]	574	IGCM_debug_PushStack "IGCM_sys_Qsub" $@
	575	if ( $DEBUG_sys ) ; then
	576	echo "IGCM_sys_Qsub :" $@
	577	fi
[923]	578	typeset options status
	579	options="-o ${SUBMIT_DIR}/${Script_Output}"
[949]	580	/usr/local/bin/qsub ${options} $1 > /tmp/out_command.$$ 2>&1
[811]	581	status=$?
[949]	582
	583	cat /tmp/out_command.$$
[811]	584	if [ ${status} -gt 0 ] ; then
	585	IGCM_debug_Print 2 "IGCM_sys_Qsub $1 : error code ${status}"
[657]	586	IGCM_debug_Exit "IGCM_sys_Qsub"
[949]	587	else
	588	JobID=$( gawk {'print $1'} /tmp/out_command.$$ )
[657]	589	fi
	590	IGCM_debug_PopStack "IGCM_sys_Qsub"
[16]	591	}
	592
	593	#D-#==================================================
	594	#D-function IGCM_sys_QsubPost
	595	#D-* Purpose: Qsub new job on scalaire
	596	#D-* Examples:
	597	#D-
	598	function IGCM_sys_QsubPost {
[657]	599	IGCM_debug_PushStack "IGCM_sys_QsubPost" $@
	600	if ( $DEBUG_sys ) ; then
	601	echo "IGCM_sys_QsubPost :" $@
	602	fi
[923]	603	typeset options status
	604	options="-o ${POST_DIR}/${Script_Post_Output}.out -v ${listVarEnv}"
[949]	605	/usr/local/bin/qsub ${options} ${libIGCM_POST}/$1.job > /tmp/out_command.$$ 2>&1
[811]	606	status=$?
[949]	607
	608	cat /tmp/out_command.$$
[811]	609	if [ ${status} -gt 0 ] ; then
[923]	610	IGCM_debug_Print 2 "IGCM_sys_QsubPost ${options} ${libIGCM_POST}/$1.job : error code ${status}"
[657]	611	IGCM_debug_Exit "IGCM_sys_QsubPost"
[949]	612	else
	613	JobID=$( gawk {'print $1'} /tmp/out_command.$$ )
[657]	614	fi
	615	IGCM_debug_PopStack "IGCM_sys_QsubPost"
[16]	616	}
	617
	618	#D-*************************
[657]	619	#D- File transfer functions
[16]	620	#D-*************************
	621	#D-
	622
	623	#D-#==================================================
	624	#D-function IGCM_sys_Rsync_out
	625	#D-* Purpose: treat return val of rsync
	626	#D-* Examples: IGCM_sys_Rsync_out out_RET_rsync
	627	#D- Error values and explanations can depend on your system version.
	628	function IGCM_sys_Rsync_out {
[717]	629	status=$1
	630	if [ ! $status ] ; then
[657]	631	echo "rsync error !"
	632	fi
[16]	633
[657]	634	if [ $MYLANG = "fr" ]; then
[717]	635	case $status in
[657]	636	0) return ;;
	637	1) echo "Erreur de rsync ; RERR_SYNTAX : "
	638	echo "Erreur de syntaxe ou d'utilisation."
	639	return;;
	640	2) echo "Erreur de rsync ; RERR_PROTOCOL : "
	641	echo "Incompatibilité de protocole."
	642	return;;
	643	3) echo "Erreur de rsync ; RERR_FILESELECT 3"
	644	echo "Erreurs lors de la sélection des fichiers d'entrée sortie et"
	645	echo "répertoires"
	646	return;;
	647	4) echo "Erreur de rsync ; RERR_UNSUPPORTED"
	648	echo "Action demandée non supportée : une tentative de manipulation de"
	649	echo "fichiers 64-bits sur une plate-forme qui ne les supporte pas a"
	650	echo "été faite ; ou une option qui est supportée par le client mais"
	651	echo "pas par le serveur a été spécifiée."
	652	return;;
	653	10) echo "Erreur de rsync ; RERR_SOCKETIO"
	654	echo "Erreur dans le socket d'entrée sortie"
	655	return;;
	656	11) echo "Erreur de rsync ; RERR_FILEIO"
	657	echo "Erreur d'entrée sortie fichier"
	658	return;;
	659	12) echo "Erreur de rsync ; RERR_STREAMIO"
	660	echo "Erreur dans flux de donnée du protocole rsync"
	661	return;;
	662	13) echo "Erreur de rsync ; RERR_MESSAGEIO"
	663	echo "Erreur avec les diagnostics du programme"
	664	return;;
	665	14) echo "Erreur de rsync ; RERR_IPC"
	666	echo "Erreur dans le code IPC"
	667	return;;
	668	20) echo "Erreur de rsync ; RERR_SIGNAL"
	669	echo "SIGUSR1 ou SIGINT reçu"
	670	return;;
	671	21) echo "Erreur de rsync ; RERR_WAITCHILD"
	672	echo "Une erreur retournée par waitpid()"
	673	return;;
	674	22) echo "Erreur de rsync ; RERR_MALLOC"
	675	echo "Erreur lors de l'allocation des tampons de mémoire de coeur"
	676	return;;
	677	23) echo ""
	678	echo "Erreur fichier inexistant"
	679	return;;
	680	30) echo "Erreur de rsync ; RERR_TIMEOUT"
	681	echo "Temps d'attente écoulé dans l'envoi/réception de données"
	682	return;;
[717]	683	*) echo "Erreur de rsync : code de retour de rsync inconnu :" $status
[657]	684	return;;
	685	esac
	686	elif [ $MYLANG = "en" ] ; then
[717]	687	case $status in
[657]	688	0) return;;
	689	1) echo "rsync error : Syntax or usage error "
	690	return;;
	691	2) echo "rsync error : Protocol incompatibility "
	692	return;;
	693	3) echo "rsync error : Errors selecting input/output files, dirs"
	694	return;;
	695	4) echo "rsync error : Requested action not supported: an attempt"
	696	echo "was made to manipulate 64-bit files on a platform that cannot support"
	697	echo "them; or an option was specified that is supported by the client and"
	698	echo "not by the server."
	699	return;;
	700	5) echo "rsync error : Error starting client-server protocol"
	701	return;;
	702	10) echo "rsync error : Error in socket I/O "
	703	return;;
	704	11) echo "rsync error : Error in file I/O "
	705	return;;
	706	12) echo "rsync error : Error in rsync protocol data stream "
	707	return;;
	708	13) echo "rsync error : Errors with program diagnostics "
	709	return;;
	710	14) echo "rsync error : Error in IPC code "
	711	return;;
	712	20) echo "rsync error : Received SIGUSR1 or SIGINT "
	713	return;;
	714	21) echo "rsync error : Some error returned by waitpid() "
	715	return;;
	716	22) echo "rsync error : Error allocating core memory buffers "
	717	return;;
	718	23) echo "rsync error : Partial transfer due to error"
	719	return;;
	720	24) echo "rsync error : Partial transfer due to vanished source files"
	721	return;;
	722	30) echo "rsync error : Timeout in data send/receive "
	723	return;;
[717]	724	*) echo "rsync error : return code of rsync unknown :" $status
[657]	725	return;;
	726	esac
	727	else
	728	echo "unknown language $MYLANG."
	729	return
	730	fi
[16]	731	}
[657]	732
[16]	733	#D-#==================================================
[811]	734	#D-function IGCM_sys_Miror_libIGCM
	735	#D-* Purpose: Mirror libIGCM PATH and lib to frontend
	736	#D-* Examples:
	737	#D-
	738	function IGCM_sys_Mirror_libIGCM {
	739	IGCM_debug_PushStack "IGCM_sys_Mirror_libIGCM"
	740	if ( $DEBUG_sys ) ; then
	741	echo "IGCM_sys_Mirror_libIGCM"
	742	fi
	743
	744	typeset status
	745
	746	mkdir -p ${HOME}/MIRROR/${PATHlibIGCM}
	747
[938]	748	echo ${RSYNC} ${RSYNC_opt} ${libIGCM} ${HOME}/MIRROR/${PATHlibIGCM} > /tmp/out_command.$$ 2>&1
	749	${RSYNC} ${RSYNC_opt} ${libIGCM} ${HOME}/MIRROR/${PATHlibIGCM} >> /tmp/out_command.$$ 2>&1
[811]	750	status=$?
	751
	752	if [ ${status} -gt 0 ] ; then
	753	echo "IGCM_sys_Mirror_libIGCM Warning : no libIGCM on frontend."
[938]	754	cat /tmp/out_command.$$
[811]	755	fi
	756	IGCM_debug_PopStack "IGCM_sys_Mirror_libIGCM"
	757	}
	758
	759	#D-#==================================================
[16]	760	#D-function IGCM_sys_Cp
	761	#D-* Purpose: generic cp
	762	#D-* Examples:
	763	#D-
	764	function IGCM_sys_Cp {
[657]	765	IGCM_debug_PushStack "IGCM_sys_Cp" $@
	766	if ( $DEBUG_sys ) ; then
	767	echo "IGCM_sys_Cp :" $@
	768	fi
[16]	769
[717]	770	typeset status
[16]	771
[938]	772	echo cp $@ > /tmp/out_command.$$ 2>&1
	773	\cp $@ >> /tmp/out_command.$$ 2>&1
[717]	774	status=$?
[657]	775
[717]	776	if [ ${status} -gt 0 ] ; then
	777	echo "IGCM_sys_Cp : error code ${status}"
[938]	778	cat /tmp/out_command.$$
[657]	779	IGCM_debug_Exit "IGCM_sys_Cp"
	780	else
[938]	781	\rm /tmp/out_command.$$
[657]	782	fi
	783	IGCM_debug_PopStack "IGCM_sys_Cp"
[16]	784	}
	785
	786	#D-#==================================================
	787	#D-function IGCM_sys_Rm
	788	#D-* Purpose: generic rm
	789	#D-* Examples:
	790	#D-
	791	function IGCM_sys_Rm {
[657]	792	IGCM_debug_PushStack "IGCM_sys_Rm" -- $@
	793	if ( $DEBUG_sys ) ; then
	794	echo "IGCM_sys_Rm :" $@
	795	fi
[16]	796
[717]	797	typeset status
[16]	798
[938]	799	echo rm $@ > /tmp/out_command.$$ 2>&1
	800	\rm $@ >> /tmp/out_command.$$ 2>&1
[717]	801	status=$?
[657]	802
[717]	803	if [ ${status} -gt 0 ] ; then
	804	echo "IGCM_sys_Rm : error code ${status}"
[938]	805	cat /tmp/out_command.$$
[657]	806	IGCM_debug_Exit "IGCM_sys_Rm"
	807	else
[938]	808	\rm /tmp/out_command.$$
[657]	809	fi
	810	IGCM_debug_PopStack "IGCM_sys_Rm"
[16]	811	}
	812
	813	#D-#==================================================
[203]	814	#D-function IGCM_sys_RmRunDir
	815	#D-* Purpose: rm tmpdir (dummy function most of the time batch
	816	#D- scheduler will do the job)
	817	#D-* Examples:
	818	#D-
	819	function IGCM_sys_RmRunDir {
[657]	820	IGCM_debug_PushStack "IGCM_sys_RmRunDir" -- $@
	821	if ( $DEBUG_sys ) ; then
	822	echo "IGCM_sys_RmRunDir :" $@
[964]	823	echo "Dummy call, let the scheduler do that."
[657]	824	fi
	825	IGCM_debug_PopStack "IGCM_sys_RmRunDir"
[203]	826	}
	827
	828	#D-#==================================================
[16]	829	#D-function IGCM_sys_Mv
	830	#D-* Purpose: generic move
	831	#D-* Examples:
	832	#D-
	833	function IGCM_sys_Mv {
[657]	834	IGCM_debug_PushStack "IGCM_sys_Mv" $@
	835	if ( $DEBUG_sys ) ; then
	836	echo "IGCM_sys_Mv :" $@
	837	fi
[16]	838
[657]	839	if [ $DRYRUN = 0 ]; then
[16]	840
[717]	841	typeset status
[657]	842
[938]	843	echo mv $@ > /tmp/out_command.$$ 2>&1
	844	\mv $@ >> /tmp/out_command.$$ 2>&1
[717]	845	status=$?
[657]	846
[717]	847	if [ ${status} -gt 0 ] ; then
	848	echo "IGCM_sys_Mv : error code ${status}"
[938]	849	cat /tmp/out_command.$$
[657]	850	IGCM_debug_Exit "IGCM_sys_Mv"
[173]	851	else
[938]	852	\rm /tmp/out_command.$$
[16]	853	fi
[657]	854	fi
	855	IGCM_debug_PopStack "IGCM_sys_Mv"
[16]	856	}
	857
	858	#D-#==================================================
	859	#D-function IGCM_sys_Put_Dir
	860	#D-* Purpose: Copy a complete directory on $(ARCHIVE)
	861	#D-* Examples:
	862	#D-
	863	function IGCM_sys_Put_Dir {
[657]	864	IGCM_debug_PushStack "IGCM_sys_Put_Dir" $@
	865	if ( $DEBUG_sys ) ; then
	866	echo "IGCM_sys_Put_Dir :" $@
	867	fi
	868	if [ $DRYRUN = 0 ]; then
	869	if [ ! -d ${1} ] ; then
	870	echo "WARNING : IGCM_sys_Put_Dir ${1} DOES NOT EXIST ."
	871	IGCM_debug_PopStack "IGCM_sys_Put_Dir"
	872	return
[16]	873	fi
	874
[717]	875	typeset status
[16]	876
[717]	877	# Only if we use rsync
	878	#IGCM_sys_TestDirArchive $( dirname $2 )
	879	#
	880	#USUAL WAY
[938]	881	\cp -r $1 $2 > /tmp/out_command.$$ 2>&1
[717]	882	status=$?
[16]	883
[717]	884	if [ ${status} -gt 0 ] ; then
[811]	885	IGCM_debug_Print 2 "IGCM_sys_Put_Dir : cp failed error code ${status}"
[938]	886	cat /tmp/out_command.$$
[657]	887	IGCM_debug_Exit "IGCM_sys_Put_Dir"
[16]	888	else
[938]	889	\rm /tmp/out_command.$$
[16]	890	fi
[657]	891	fi
	892	IGCM_debug_PopStack "IGCM_sys_Put_Dir"
[16]	893	}
	894
	895	#D-#==================================================
	896	#D-function IGCM_sys_Get_Dir
[717]	897	#D-* Purpose: Copy a complete directory from ${ARCHIVE}
[16]	898	#D-* Examples:
	899	#D-
	900	function IGCM_sys_Get_Dir {
[657]	901	IGCM_debug_PushStack "IGCM_sys_Get_Dir" $@
	902	if ( $DEBUG_sys ) ; then
	903	echo "IGCM_sys_Get_Dir :" $@
	904	fi
	905	if [ $DRYRUN = 0 ]; then
	906	if [ ! -d ${1} ] ; then
	907	echo "WARNING : IGCM_sys_Get_Dir ${1} DOES NOT EXIST ."
	908	IGCM_debug_PopStack "IGCM_sys_Get_Dir"
	909	return
[16]	910	fi
	911
[717]	912	typeset status
[16]	913
[719]	914	#USUAL WAY
[938]	915	\cp -ur $1 $2 > /tmp/out_command.$$ 2>&1
[717]	916	status=$?
[16]	917
[717]	918	if [ ${status} -gt 0 ] ; then
[811]	919	IGCM_debug_Print 2 "IGCM_sys_Get_Dir : cp failed error code ${status}"
[938]	920	cat /tmp/out_command.$$
[657]	921	IGCM_debug_Exit "IGCM_sys_Get_Dir"
[16]	922	else
[938]	923	\rm /tmp/out_command.$$
[16]	924	fi
[657]	925	fi
	926	IGCM_debug_PopStack "IGCM_sys_Get_Dir"
[16]	927	}
	928
	929	#D-#==================================================
	930	#D-function IGCM_sys_Get_Master
	931	#D-* Purpose: Copy a complete directory from MASTER filesystem
	932	#D-* Examples:
	933	#D-
	934	function IGCM_sys_Get_Master {
[657]	935	IGCM_debug_PushStack "IGCM_sys_Get_Master" $@
	936	if ( $DEBUG_sys ) ; then
	937	echo "IGCM_sys_Get_Master :" $@
	938	fi
	939	if [ $DRYRUN = 0 ]; then
	940	if ( [ ! -d ${1} ] && [ ! -f ${1} ] ) ; then
	941	echo "WARNING : IGCM_sys_Get_Master ${1} DOES NOT EXIST ."
	942	IGCM_debug_PopStack "IGCM_sys_Get_Master"
	943	return
[16]	944	fi
	945
[811]	946	typeset NB_ESSAI DELAI status i
	947	# number of tentative
	948	NB_ESSAI=3
	949	# time delay between tentative
	950	DELAI=2
[16]	951
[811]	952	i=0
	953	while [ $i -lt $NB_ESSAI ] ; do
[938]	954	\cp -urL $1 $2 > /tmp/out_command.$$ 2>&1
[811]	955	status=$?
	956	if [ ${status} -gt 0 ]; then
	957	IGCM_debug_Print 2 "IGCM_sys_Get_Master : cp failed error code ${status} ${i}/${NB_ESSAI}"
	958	IGCM_debug_Print 2 "IGCM_sys_Get_Master : sleep ${DELAI} seconds and try again."
	959	sleep $DELAI
	960	else
	961	break
	962	fi
	963	(( i = i + 1 ))
	964	done
[16]	965
[717]	966	if [ ${status} -gt 0 ] ; then
[657]	967	echo "IGCM_sys_Get_Master : error."
[938]	968	cat /tmp/out_command.$$
[657]	969	IGCM_debug_Exit "IGCM_sys_Get_Master"
[16]	970	else
[938]	971	\rm /tmp/out_command.$$
[16]	972	fi
[657]	973	fi
	974	IGCM_debug_PopStack "IGCM_sys_Get_Master"
[16]	975	}
	976
[811]	977	#====================================================
	978	#- Call IGCM_sys_Mirror_libIGCM now !
	979	if ( $MirrorlibIGCM ) ; then
	980	IGCM_sys_Mirror_libIGCM
	981	fi
	982
[16]	983	#D-#==================================================
	984	#D-function IGCM_sys_Put_Rest
[717]	985	#D-* Purpose: Put computied restarts on ${ARCHIVE}.
[282]	986	#D- File and target directory must exist.
[16]	987	#D-* Examples:
	988	#D-
	989	function IGCM_sys_Put_Rest {
[657]	990	IGCM_debug_PushStack "IGCM_sys_Put_Rest" $@
	991	if ( $DEBUG_sys ) ; then
	992	echo "IGCM_sys_Put_Rest :" $@
	993	fi
	994	if [ $DRYRUN = 0 ]; then
	995	if [ ! -f ${1} ] ; then
	996	echo "ERROR : IGCM_sys_Put_Rest ${1} DOES NOT EXIST ."
	997	IGCM_debug_Exit "IGCM_sys_Put_Rest"
[16]	998	fi
[717]	999
	1000	typeset status
	1001	#
[657]	1002	if [ X${JobType} = XRUN ] ; then
	1003	IGCM_sys_Chmod 444 ${1}
	1004	fi
[717]	1005	#
[811]	1006	# Only if we use rsync
	1007	#IGCM_sys_MkdirArchive $( dirname $2 )
	1008	#
	1009	#USUAL WAY
[938]	1010	\cp $1 $2 > /tmp/out_command.$$ 2>&1
[717]	1011	status=$?
[16]	1012
[717]	1013	# #RSYNC WITH NETWORK SSH CALL
[938]	1014	# echo ${RSYNC} ${RSYNC_opt} -e ssh ${RUN_DIR}/$1 ${STOREHOST}:${2} > /tmp/out_command.$$ 2>&1
	1015	# ${RSYNC} ${RSYNC_opt} -e ssh ${RUN_DIR}/$1 ${STOREHOST}:${2} >> /tmp/out_command.$$ 2>&1
[16]	1016
[717]	1017	# #RSYNC WITH NFS USE
[938]	1018	# echo ${RSYNC} ${RSYNC_opt} ${RUN_DIR}/$1 ${2} > /tmp/out_command.$$ 2>&1
	1019	# ${RSYNC} ${RSYNC_opt} ${RUN_DIR}/$1 ${2} >> /tmp/out_command.$$ 2>&1
[16]	1020
[717]	1021	# status=$?
	1022	# IGCM_sys_Rsync_out $status
	1023
[938]	1024	# ${libIGCM}/libIGCM_sys/IGCM_analyse_rsync_out.awk /tmp/out_command.$$
[717]	1025	# (( status=status+$? ))
	1026
	1027	if [ ${status} -gt 0 ] ; then
	1028	echo "IGCM_sys_Put_Rest : cp failed error code ${status}"
[938]	1029	cat /tmp/out_command.$$
[657]	1030	IGCM_debug_Exit "IGCM_sys_Put_Rest"
	1031	else
[938]	1032	\rm /tmp/out_command.$$
[657]	1033	fi
	1034	fi
	1035	IGCM_debug_PopStack "IGCM_sys_Put_Rest"
	1036	}
[16]	1037
[657]	1038	#D-#==================================================
	1039	#D-function IGCM_sys_PutBuffer_Rest
	1040	#D-* Purpose: Put computied restarts on ${SCRATCHDIR}.
	1041	#D- File and target directory must exist.
	1042	#D-* Examples:
	1043	#D-
	1044	function IGCM_sys_PutBuffer_Rest {
	1045	IGCM_debug_PushStack "IGCM_sys_PutBuffer_Rest" $@
	1046	if ( $DEBUG_sys ) ; then
	1047	echo "IGCM_sys_PutBuffer_Rest :" $@
	1048	fi
	1049	if [ $DRYRUN = 0 ]; then
	1050	if [ ! -f ${1} ] ; then
	1051	echo "ERROR : IGCM_sys_PutBuffer_Rest ${1} DOES NOT EXIST ."
	1052	IGCM_debug_Exit "IGCM_sys_PutBuffer_Rest"
	1053	fi
[16]	1054
[717]	1055	typeset status
[657]	1056	#
	1057	if [ X${JobType} = XRUN ] ; then
	1058	IGCM_sys_Chmod 444 ${1}
	1059	fi
	1060
	1061	#
	1062	# USUAL WAY
[938]	1063	\cp $1 $2 > /tmp/out_command.$$ 2>&1
[717]	1064	status=$?
[657]	1065
[717]	1066	if [ ${status} -gt 0 ] ; then
	1067	echo "IGCM_sys_PutBuffer_Rest : error code ${status}"
[811]	1068	[ -f ${2} ] && ls -l ${2}
	1069	[ -f ${2}/${1} ] && ls -l ${2}/${1}
[938]	1070	cat /tmp/out_command.$$
[657]	1071	IGCM_debug_Exit "IGCM_sys_PutBuffer_Rest"
[16]	1072	else
[938]	1073	\rm /tmp/out_command.$$
[16]	1074	fi
[657]	1075	fi
	1076	IGCM_debug_PopStack "IGCM_sys_PutBuffer_Rest"
[16]	1077	}
	1078
	1079	#D-#==================================================
[801]	1080	#D-function IGCM_sys_PrepareTaredRestart
	1081	#D-* Purpose: Prepare tared restart to be access by computing job. Identity here.
	1082	#D-* Examples:
	1083	#D-
	1084	function IGCM_sys_PrepareTaredRestart {
	1085	IGCM_debug_PushStack "IGCM_sys_PrepareTaredRestart" $@
[918]	1086
[801]	1087	IGCM_debug_PopStack "IGCM_sys_PrepareTaredRestart"
	1088	}
	1089
	1090	#D-#==================================================
[16]	1091	#D-function IGCM_sys_Put_Out
[717]	1092	#D-* Purpose: Copy a file on ${ARCHIVE} after having chmod it in readonly
[16]	1093	#D-* Examples:
	1094	#D-
	1095	function IGCM_sys_Put_Out {
[657]	1096	IGCM_debug_PushStack "IGCM_sys_Put_Out" $@
	1097	if ( $DEBUG_sys ) ; then
	1098	echo "IGCM_sys_Put_Out :" $@
	1099	fi
[811]	1100
	1101	typeset status
	1102
[657]	1103	if [ $DRYRUN = 0 ]; then
[811]	1104	if [ ! -f ${1} ] ; then
[657]	1105	echo "WARNING : IGCM_sys_Put_Out ${1} DOES NOT EXIST ."
	1106	IGCM_debug_PopStack "IGCM_sys_Put_Out"
	1107	return 1
[16]	1108	fi
[719]	1109	#
[811]	1110	IGCM_sys_MkdirArchive $( dirname $2 )
	1111	#
[657]	1112	if [ X${JobType} = XRUN ] ; then
	1113	if [ X${3} = X ] ; then
	1114	IGCM_sys_Chmod 444 ${1}
	1115	fi
	1116	fi
[717]	1117	#
[16]	1118
[938]	1119	echo ${RSYNC} ${RSYNC_opt} $1 $2 > /tmp/out_command.$$ 2>&1
	1120	${RSYNC} ${RSYNC_opt} $1 $2 >> /tmp/out_command.$$ 2>&1
[717]	1121	status=$?
	1122	IGCM_sys_Rsync_out $status
[16]	1123
[938]	1124	${libIGCM}/libIGCM_sys/IGCM_analyse_rsync_out.awk /tmp/out_command.$$
[717]	1125	(( status=status+$? ))
[16]	1126
[717]	1127	if [ ${status} -gt 0 ] ; then
[811]	1128	IGCM_debug_Print 2 "IGCM_sys_Put_Out : rsync failed error code ${status}"
[938]	1129	cat /tmp/out_command.$$
[657]	1130	IGCM_debug_Exit "IGCM_sys_Put_Out"
[16]	1131	else
[938]	1132	\rm /tmp/out_command.$$
[16]	1133	fi
[657]	1134	fi
	1135	IGCM_debug_PopStack "IGCM_sys_Put_Out"
	1136	return 0
[16]	1137	}
	1138
	1139	#D-#==================================================
[657]	1140	#D-function IGCM_sys_PutBuffer_Out
	1141	#D-* Purpose: Copy a file on ${SCRATCHDIR} after having chmod it in readonly
	1142	#D-* Examples:
	1143	#D-
	1144	function IGCM_sys_PutBuffer_Out {
	1145	IGCM_debug_PushStack "IGCM_sys_PutBuffer_Out" $@
	1146	if ( $DEBUG_sys ) ; then
	1147	echo "IGCM_sys_PutBuffer_Out :" $@
	1148	fi
[719]	1149
[811]	1150	typeset NB_ESSAI DELAI status i exist skip
[719]	1151
[811]	1152	# number of tentative
	1153	NB_ESSAI=3
	1154	# time delay between tentative
	1155	DELAI=2
	1156
[657]	1157	if [ $DRYRUN = 0 ]; then
	1158	if [ ! -f ${1} ] ; then
	1159	echo "WARNING : IGCM_sys_PutBuffer_Out ${1} DOES NOT EXIST ."
	1160	IGCM_debug_PopStack "IGCM_sys_PutBuffer_Out"
	1161	return 1
	1162	fi
	1163	#
	1164	IGCM_sys_Mkdir $( dirname $2 )
	1165	#
	1166
[811]	1167	exist=false
	1168	skip=false
	1169	if [ -f $2 ] ; then
	1170	IGCM_debug_Print 1 "$2 already exist"
	1171	exist=true
	1172	if [ "X$( diff $1 $2 )" = X ] ; then
	1173	IGCM_debug_Print 2 "$1 and $2 are the same file, we skip the copy"
	1174	status=0
	1175	skip=true
	1176	else
	1177	IGCM_debug_Print 2 "$1 and $2 are not the same file, we force the copy"
	1178	skip=false
[657]	1179	fi
	1180	fi
	1181	#
[811]	1182	if ( [ X${exist} = Xtrue ] && [ X${skip} = Xfalse ] ) ; then
	1183	IGCM_sys_Chmod u+w $2
	1184	fi
[657]	1185
[811]	1186	if [ X${skip} = Xfalse ] ; then
	1187	i=0
	1188	while [ $i -lt $NB_ESSAI ] ; do
	1189	# USUAL WAY
[938]	1190	\cp $1 $2 > /tmp/out_command.$$ 2>&1
[811]	1191	status=$?
	1192	if [ ${status} -gt 0 ]; then
	1193	IGCM_debug_Print 2 "IGCM_sys_PutBuffer_Out : cp failed error code ${status} ${i}/${NB_ESSAI}"
	1194	IGCM_debug_Print 2 "IGCM_sys_PutBuffer_Out : sleep ${DELAI} seconds and try again."
	1195	[ -f ${2} ] && ls -l ${2}
	1196	[ -f ${2}/${1} ] && ls -l ${2}/${1}
	1197	sleep $DELAI
	1198	else
	1199	break
	1200	fi
	1201	(( i = i + 1 ))
	1202	done
	1203	fi
	1204
[717]	1205	if [ ${status} -gt 0 ] ; then
[657]	1206	echo "IGCM_sys_PutBuffer_Out : error."
[811]	1207	[ -f ${2} ] && ls -l ${2}
	1208	[ -f ${2}/${1} ] && ls -l ${2}/${1}
[938]	1209	cat /tmp/out_command.$$
[657]	1210	IGCM_debug_Exit "IGCM_sys_PutBuffer_Out"
	1211	else
[811]	1212
	1213	if [ X${JobType} = XRUN ] ; then
	1214	if [ X${3} = X ] ; then
	1215	[ -f ${2} ] && IGCM_sys_Chmod 444 ${2}
	1216	[ -f ${2}/${1} ] && IGCM_sys_Chmod 444 ${2}/${1}
	1217	fi
	1218	fi
	1219
[938]	1220	\rm /tmp/out_command.$$
[657]	1221	fi
	1222	fi
	1223	IGCM_debug_PopStack "IGCM_sys_PutBuffer_Out"
	1224	return 0
	1225	}
	1226
	1227	#D-#==================================================
[16]	1228	#D-function IGCM_sys_Get
	1229	#D-* Purpose: Get a file from ${ARCHIVE}
	1230	#D-* Examples: IGCM_sys_Get myfile /destpath/myfile_with_PREFIX
	1231	#D- IGCM_sys_Get /l Array_contain_myfiles /destpath/
	1232	function IGCM_sys_Get {
[657]	1233	IGCM_debug_PushStack "IGCM_sys_Get" $@
[16]	1234
[811]	1235	typeset DEST status dm_liste
[16]	1236
[657]	1237	if ( $DEBUG_sys ) ; then
	1238	echo "IGCM_sys_Get :" $@
	1239	fi
	1240	if [ $DRYRUN -le 2 ]; then
	1241	if [ X${1} = X'/l' ] ; then
	1242	eval set +A dm_liste \${${2}}
	1243	else
	1244	dm_liste=${1}
[16]	1245	fi
[657]	1246	eval DEST=\${${#}}
[16]	1247
[717]	1248	# test if the (first) file is present in the old computation :
[657]	1249	IGCM_sys_TestFileArchive ${dm_liste[0]}
[717]	1250	status=$?
	1251	if [ ${status} -gt 0 ] ; then
[657]	1252	echo "IGCM_sys_Get, ERROR : regular file ${dm_liste[0]} DOES NOT EXIST ."
	1253	IGCM_debug_Exit "IGCM_sys_Get"
[811]	1254	return
[657]	1255	fi
[16]	1256
[811]	1257	#USUAL WAY
[938]	1258	\cp ${dm_liste[*]} ${DEST} > /tmp/out_command.$$ 2>&1
[811]	1259	status=$?
[16]	1260
[811]	1261	if [ ${status} -gt 0 ] ; then
	1262	IGCM_debug_Print 2 "IGCM_sys_Get : cp failed error code ${status}"
[938]	1263	cat /tmp/out_command.$$
[657]	1264	IGCM_debug_Exit "IGCM_sys_Get"
[16]	1265	else
[938]	1266	\rm /tmp/out_command.$$
[16]	1267	fi
[657]	1268	fi
	1269	IGCM_debug_PopStack "IGCM_sys_Get"
[16]	1270	}
	1271
	1272	#D-#==================================================
[657]	1273	#D-function IGCM_sys_GetBuffer
	1274	#D-* Purpose: Get a file from ${SCRATCHDIR}
	1275	#D-* Examples: IGCM_sys_GetBuffer myfile /destpath/myfile_with_PREFIX
	1276	#D- IGCM_sys_GetBuffer /l Array_contain_myfiles /destpath/
	1277	function IGCM_sys_GetBuffer {
	1278	IGCM_debug_PushStack "IGCM_sys_GetBuffer" $@
	1279
[811]	1280	typeset DEST buf_liste target file_work
	1281	typeset NB_ESSAI DELAI status i
[657]	1282
	1283	if ( $DEBUG_sys ) ; then
	1284	echo "IGCM_sys_GetBuffer :" $@
	1285	fi
[811]	1286
	1287	# number of tentative
	1288	NB_ESSAI=3
	1289	# time delay between tentative
	1290	DELAI=2
	1291
[657]	1292	if [ $DRYRUN -le 2 ]; then
	1293	if [ X${1} = X'/l' ] ; then
	1294	eval set +A buf_liste \${${2}}
	1295	else
	1296	eval set +A buf_liste ${1}
	1297	fi
	1298	eval DEST=\${${#}}
	1299
	1300	#USUAL WAY
	1301	if [ X${1} = X'/l' ] ; then
	1302	for target in ${buf_liste[*]} ; do
	1303	local_file=$( basename ${target} )
[811]	1304	i=0
	1305	while [ $i -lt $NB_ESSAI ] ; do
[938]	1306	\cp ${target} ${DEST}/${local_file} >> /tmp/out_command.$$ 2>&1
[811]	1307	status=$?
	1308	if [ ${status} -gt 0 ]; then
	1309	IGCM_debug_Print 2 "IGCM_sys_GetBuffer : cp failed error code ${status} ${i}/${NB_ESSAI}"
	1310	IGCM_debug_Print 2 "IGCM_sys_GetBuffer : sleep ${DELAI} seconds and try again."
	1311	sleep $DELAI
	1312	else
	1313	break
	1314	fi
	1315	(( i = i + 1 ))
	1316	done
	1317	if [ ${status} -gt 0 ] ; then
	1318	echo "IGCM_sys_Get : error"
[938]	1319	cat /tmp/out_command.$$
	1320	\rm /tmp/out_command.$$
[811]	1321	IGCM_debug_Exit "IGCM_sys_GetBuffer"
	1322	else
[938]	1323	\rm /tmp/out_command.$$
[811]	1324	fi
[657]	1325	done
	1326	else
[811]	1327	i=0
	1328	while [ $i -lt $NB_ESSAI ] ; do
[938]	1329	\cp ${buf_liste} ${DEST} >> /tmp/out_command.$$ 2>&1
[811]	1330	status=$?
	1331	if [ ${status} -gt 0 ]; then
	1332	IGCM_debug_Print 2 "IGCM_sys_GetBuffer : cp failed error code ${status} ${i}/${NB_ESSAI}"
	1333	IGCM_debug_Print 2 "IGCM_sys_GetBuffer : sleep ${DELAI} seconds and try again."
	1334	sleep $DELAI
	1335	else
	1336	break
	1337	fi
	1338	(( i = i + 1 ))
	1339	done
	1340	if [ ${status} -gt 0 ] ; then
	1341	echo "IGCM_sys_Get : error"
[938]	1342	cat /tmp/out_command.$$
	1343	\rm /tmp/out_command.$$
[811]	1344	IGCM_debug_Exit "IGCM_sys_GetBuffer"
	1345	else
[938]	1346	\rm /tmp/out_command.$$
[811]	1347	fi
[657]	1348	fi
	1349	fi
	1350	IGCM_debug_PopStack "IGCM_sys_GetBuffer"
	1351	}
	1352
	1353	#D-#==================================================
	1354	#D-function IGCM_sys_GetDate_FichWork
	1355	#D-* Purpose: donne la date filesys d'un fichier sur le filesystem WORK
	1356	#D-* Examples:
	1357	#D-
	1358	function IGCM_sys_GetDate_FichWork {
	1359	IGCM_debug_PushStack "IGCM_sys_FichWork" $@
	1360	if ( $DEBUG_sys ) ; then
	1361	echo "IGCM_sys_GetDate_FichWork :" $@
	1362	fi
	1363	typeset dateF
	1364	set +A dateF -- $( ls -l --full-time --time-style='+%Y%m%d%H%M%S' ${1} )
	1365	eval ${2}=${dateF[5]}
	1366
[800]	1367	# donne la date filesys d'un fichier sur la machine work
[657]	1368	IGCM_debug_PopStack "IGCM_sys_FichWork"
	1369	}
	1370
	1371	#D-#==================================================
	1372	#D-function IGCM_sys_GetDate_FichArchive
	1373	#D-* Purpose: donne la date filesys d'un fichier sur le filesystem ARCHIVE
	1374	#D-* Examples:
	1375	#D-
	1376	function IGCM_sys_GetDate_FichArchive {
	1377	IGCM_debug_PushStack "IGCM_sys_FichArchive" $@
	1378	if ( $DEBUG_sys ) ; then
	1379	echo "IGCM_sys_GetDate_FichArchive :" $@
	1380	fi
	1381	typeset dateF
	1382	set +A dateF -- $( ls -l --full-time --time-style='+%Y%m%d%H%M%S' ${1} )
	1383	eval ${2}=${dateF[5]}
	1384
	1385	IGCM_debug_PopStack "IGCM_sys_FichArchive"
	1386	}
	1387
	1388	#D-#==================================================
[343]	1389	#D-function IGCM_sys_Dods_Rm
[717]	1390	#D-* Purpose: DO NOTHING ! Put ${ARCHIVE} files on DODS internet protocole.
[343]	1391	#D-* Examples:
	1392	#D-
	1393	function IGCM_sys_Dods_Rm {
[657]	1394	if ( $DEBUG_sys ) ; then
	1395	echo "IGCM_sys_Dods_Rm :" $@
	1396	fi
	1397	return 0
[343]	1398	}
	1399
	1400	#D-#==================================================
	1401	#D-function IGCM_sys_Dods_Cp
[717]	1402	#D-* Purpose: Copy $(ARCHIVE) files on DODS internet protocole.
[343]	1403	#D-* Examples:
	1404	#D-
	1405	function IGCM_sys_Dods_Cp {
[657]	1406	if ( $DEBUG_sys ) ; then
	1407	echo "IGCM_sys_Dods_Cp :" $@
	1408	fi
	1409	return 0
[343]	1410	}
	1411
	1412	#D-#==================================================
[16]	1413	#D-function IGCM_sys_Put_Dods
[811]	1414	#D-* Purpose: Put ${ARCHIVE} files on DODS internet protocole. Dummy function here
[16]	1415	#D-* Examples:
	1416	#D-
	1417	function IGCM_sys_Put_Dods {
[657]	1418	IGCM_debug_PushStack "IGCM_sys_Put_Dods" $@
	1419	if ( $DEBUG_sys ) ; then
	1420	echo "IGCM_sys_Put_Dods :" $@
	1421	fi
	1422	IGCM_debug_PopStack "IGCM_sys_Put_Dods"
[16]	1423	}
	1424
[657]	1425	##############################################################
	1426	# REBUILD OPERATOR
[536]	1427
[811]	1428	#D-#==================================================
	1429	#D-function IGCM_sys_rebuild
	1430	#D-* Purpose: rebuild parallel files
	1431	#D-* Examples:
	1432	#D-
[657]	1433	function IGCM_sys_rebuild {
	1434	IGCM_debug_PushStack "IGCM_sys_rebuild" -- $@
	1435	if ( $DEBUG_sys ) ; then
	1436	echo "IGCM_sys_rebuild :" $@
	1437	fi
[717]	1438
[811]	1439	typeset NB_ESSAI DELAI status i firstArg
	1440	# number of tentative
	1441	NB_ESSAI=3
	1442	# time delay between tentative
	1443	DELAI=2
[717]	1444
[811]	1445	i=0
	1446	while [ $i -lt $NB_ESSAI ] ; do
[938]	1447	/home/users/igcmg/rebuild/bin/rebuild -f -o $@ > /tmp/out_command.$$ 2>&1
[811]	1448	status=$?
	1449	if [ ${status} -gt 0 ] ; then
	1450	IGCM_debug_Print 2 "IGCM_sys_rebuild : error code ${status}"
[938]	1451	cat /tmp/out_command.$$
	1452	\rm /tmp/out_command.$$
[811]	1453	IGCM_debug_Print 2 "IGCM_sys_rebuild : ${i}/${NB_ESSAI} sleep ${DELAI} seconds and try again."
	1454	firstArg=${1}
	1455	\rm ${firstArg}
	1456	sleep $DELAI
	1457	else
[938]	1458	\rm /tmp/out_command.$$
[811]	1459	break
	1460	fi
	1461	(( i = i + 1 ))
	1462	done
	1463
[717]	1464	if [ ${status} -gt 0 ] ; then
[811]	1465	echo "IGCM_sys_rebuild : rebuild error code is ${status}"
[657]	1466	IGCM_debug_Exit "rebuild"
	1467	fi
	1468
	1469	IGCM_debug_PopStack "IGCM_sys_rebuild"
[16]	1470	}
	1471
[811]	1472	#D-#==================================================
	1473	#D-function IGCM_sys_rebuild_station
[922]	1474	#D-* Purpose: rebuild parallel files describing station
[811]	1475	#D-* Examples:
	1476	#D-
[697]	1477	function IGCM_sys_rebuild_station {
	1478	IGCM_debug_PushStack "IGCM_sys_rebuild_station" -- $@
	1479	typeset i list_opt file_in file_out prefix_invert list_invert
	1480	if ( $DEBUG_sys ) ; then
	1481	echo "IGCM_sys_rebuild_station :" $@
	1482	fi
	1483	list_opt=$@
	1484
[800]	1485	# Invert Axis : t,x -> x,t
[697]	1486	# t,pres,x -> x,t,pres
	1487	# So that we can concatenate along x
	1488	i=0
	1489	for file_in in ${list_opt} ; do
	1490	(( i = i + 1))
	1491	[ ${i} = 1 ] && file_out=${file_in} && continue
	1492	prefix_invert=$( basename ${file_in} .nc )
	1493	IGCM_sys_ncpdq -a x,time_counter -a x,time_counter,presnivs ${file_in} ${prefix_invert}_xt.nc
	1494	list_invert[${#list_invert[*]}]=${prefix_invert}_xt.nc
	1495	done
	1496
	1497	# Concatenate
	1498	IGCM_sys_ncrcat ${list_invert[*]} histstn_xt.nc
	1499
	1500	# Re-ivert file
	1501	IGCM_sys_ncpdq -a time_counter,x -a time_counter,presnivs,x histstn_xt.nc ${file_out}
	1502
[922]	1503	# Station re-ordering is too expansive to be run within libIGCM
[697]	1504	# This is due to (ncpdq - nrcat - ncpdq) I/O sequence.
	1505	# This re-ordering must be done "in memory" by the cmorization process
	1506	# Anyway this is the best sequence using (ncpdq - nrcat - ncpdq)
	1507	# BEGIN reordering
	1508
	1509	# Only LMDZ text output contains the exact ordering of the station.
	1510	# We isolate this in the code below:
	1511	# 0 38 -157.5000000000000 70.98591549295774
	1512	# 0 54 27.49999999999999 67.18309859154928
	1513	# 0 56 -62.50000000000001 82.39436619718309
	1514	# 0 79 12.49999999999999 78.59154929577466
	1515	# 0 116 -165.0000000000000 76.05633802816901
	1516	# 0 117 130.0000000000000 70.98591549295774
	1517	# 0 118 110.0000000000000 87.46478873239437
	1518	# 1 40 4.999999999999995 51.97183098591550
	1519	# typeset iStation iProc list_opt file_in file_out prefix_invert
	1520	# typeset -Z4 j4
	1521	# typeset -Z3 j3
	1522
	1523	# unset list_opt
	1524	# set +A list_opt $@
	1525
	1526	# Filename after rebuild
	1527	# file_out=${list_opt[0]}
	1528	# Prefix of output files
	1529	# prefix_invert=$( basename ${file_out} .nc )
	1530	# Number of procs
	1531	# num_proc=$( grep -i mpi_size ${PREFIX}_${Exe_Output} \| wc -l )
	1532
	1533	# iProc=0
	1534	# while [ ${iProc} -lt ${num_proc} ] ; do
	1535	# Array containing Station as a number
	1536	# unset proc_stn
[912]	1537	# set +A proc_stn $( grep "iophy_mpi rank ip lon lat $iProc" ${PREFIX}_${Exe_Output} \| sed -e "s/iophy_mpi rank ip lon lat //g" \| gawk ' {print $2}' )
[697]	1538	# Number of stations produced by processor proc
	1539	# stationLast=${#proc_stn[*]}
	1540	# Proc number on 4 digits
	1541	# j4=${iProc}
	1542	# Init
	1543	# iStation=0
	1544	# while [ ${iStation} -lt ${stationLast} ] ; do
	1545	# Station number on 3 digits
	1546	# j3=${proc_stn[${iStation}]}
	1547	# Extract station
[800]	1548	# Invert Axis : t,x -> x,t
[697]	1549	# t,pres,x -> x,t,pres
	1550	# So that we can concatenate along x
	1551	# IGCM_sys_ncpdq -a x,time_counter -a x,time_counter,presnivs -d x,$iStation,$iStation ${prefix_invert}_${j4}.nc ${prefix_invert}_stn_${j3}.nc
	1552	# (( iStation = iStation + 1 ))
	1553	# done
	1554	# (( iProc = iProc + 1 ))
	1555	# done
	1556
	1557	# Concatenate all station along x
	1558	# IGCM_sys_ncrcat ${prefix_invert}_stn_???.nc ${prefix_invert}_xt.nc
	1559
	1560	# Re-invert file
	1561	# IGCM_sys_ncpdq -a time_counter,x -a time_counter,presnivs,x ${prefix_invert}_xt.nc ${file_out}
	1562
	1563	# END reordering
	1564
	1565	IGCM_debug_PopStack "IGCM_sys_rebuild_station"
	1566	}
	1567
[657]	1568	############################################################
	1569	# Activate Running Environnment Variables
[536]	1570
[811]	1571	#D-#==================================================
	1572	#D-function IGCM_sys_desactiv_variables
	1573	#D-* Purpose: set environement variables prior to execution
	1574	#D-* Examples:
	1575	#D-
[657]	1576	function IGCM_sys_activ_variables {
	1577	IGCM_debug_PushStack "IGCM_sys_activ_variables"
	1578	if ( $DEBUG_sys ) ; then
	1579	echo "IGCM_sys_activ_variables"
	1580	fi
[811]	1581
	1582	# --------------------------------------------------------------------
	1583	#D- MPI specifications
	1584	# --------------------------------------------------------------------
	1585
	1586	# --------------------------------------------------------------------
	1587	#D- Other specifications
	1588	# --------------------------------------------------------------------
	1589
[657]	1590	IGCM_debug_PopStack "IGCM_sys_activ_variables"
[16]	1591	}
	1592
[657]	1593	############################################################
	1594	# Desactivate Running Environnment Variables
[16]	1595
[811]	1596	#D-#==================================================
	1597	#D-function IGCM_sys_desactiv_variables
	1598	#D-* Purpose: unset environement variables after execution
	1599	#D-* Examples:
	1600	#D-
[657]	1601	function IGCM_sys_desactiv_variables {
	1602	IGCM_debug_PushStack "IGCM_sys_desactiv_variables"
	1603	if ( $DEBUG_sys ) ; then
	1604	echo "IGCM_sys_desactiv_variables"
	1605	fi
[811]	1606	# --------------------------------------------------------------------
	1607	#D- MPI specifications
	1608	# --------------------------------------------------------------------
	1609
	1610	# --------------------------------------------------------------------
	1611	#D- Other specifications
	1612	# --------------------------------------------------------------------
	1613
[657]	1614	IGCM_debug_PopStack "IGCM_sys_desactiv_variables"
	1615	}
	1616
	1617	############################################################
[800]	1618	# Build MPI/OMP scripts run file (dummy function)
[657]	1619
[811]	1620	#D-#==================================================
	1621	#D-function IGCM_sys_build_run_file
	1622	#D-* Purpose: build run file (deprecated)
	1623	#D-* Examples:
	1624	#D-
[657]	1625	function IGCM_sys_build_run_file {
	1626
[664]	1627	IGCM_debug_Print 3 " dummy function : IGCM_sys_build_run_file "
[657]	1628
	1629	}
	1630
	1631	############################################################
	1632	# Build MPI/OMP scripts
[811]	1633
	1634	#D-#==================================================
	1635	#D-function IGCM_sys_build_execution_scripts
	1636	#D-* Purpose: build execution scripts to be launch by ${HOST_MPIRUN_COMMAND}
	1637	#D-* Examples:
	1638	#D-
[657]	1639	function IGCM_sys_build_execution_scripts
	1640	{
	1641	IGCM_debug_PushStack "IGCM_sys_build_execution_scripts" $@
	1642	if ( $DEBUG_sys ) ; then
	1643	echo "IGCM_sys_build_execution_scripts " $@
	1644	fi
	1645	typeset nodes listnodes init_node start_num init_exec comp ExeNameIn ExeNameOut
	1646	typeset node_num_current node_current comp_proc_mpi_loc comp_proc_omp_loc
	1647	typeset num_corempi nombre_restant_node nombre_restant_comp
	1648
	1649	if [ ! -f ${SUBMIT_DIR}/Job_${config_UserChoices_JobName} ] ; then
[811]	1650	IGCM_debug_Exit "IGCM_sys_obelix build_execution_scripts : Job_${config_UserChoices_JobName} don't exist in SUBMIT_DIR : ${SUBMIT_DIR} "
[657]	1651	fi
	1652
	1653	if ( ${OK_PARA_MPMD} ) ; then
	1654
	1655	if [ -f run_file ] ; then
	1656	IGCM_sys_Rm -f run_file
[16]	1657	fi
[657]	1658	touch run_file
	1659
	1660	if ( ${OK_PARA_OMP} ) ; then
	1661
	1662	# Hosts treatment
	1663
	1664	${HOST_MPIRUN_COMMAND} hostname \| sort \| uniq > hosts.tmp
	1665
	1666	i=0
	1667	rm -f hosts
	1668	IGCM_debug_Print 1 "sys Obelix, Hosts avaible :"
	1669	for nodes in `cat hosts.tmp` ; do
	1670	host[$i]=$nodes
	1671	echo "${host[$i]} slots=1 max_slots=1" >> hosts
	1672	IGCM_debug_Print 1 ${host[$i]}
	1673	i=$((i+1))
	1674	done
	1675	rm -f hosts.tmp
	1676
	1677	listnodes=${host[*]}
	1678
	1679	EXECUTION="${HOST_MPIRUN_COMMAND} -hostfile hosts"
	1680
	1681	# Initialisation
	1682
	1683	init_node=y
	1684	node_num_current=0
	1685	start_num=0
	1686	init_exec=n
	1687
	1688	# Test : if oasis is there, we put it at the first position
	1689
	1690	for comp in ${config_ListOfComponents[*]} ; do
	1691
	1692	if [ "X${comp}" = "XCPL" ] ; then
	1693
	1694	eval ExeNameIn=\${config_Executable_${comp}[0]}
	1695	eval ExeNameOut=\${config_Executable_${comp}[1]}
	1696
	1697	echo "#!/bin/ksh" > script_${ExeNameOut}.ksh
	1698	echo "" >> script_${ExeNameOut}.ksh
	1699	#echo "export KMP_STACKSIZE=3g" >> script_${ExeNameOut}.ksh
	1700	#echo "export KMP_LIBRARY=turnaround" >> script_${ExeNameOut}.ksh
	1701	#echo "export MKL_SERIAL=YES" >> script_${ExeNameOut}.ksh
	1702	echo "./${ExeNameOut} > out_${ExeNameOut}.out 2>out_${ExeNameOut}.err" >> script_${ExeNameOut}.ksh
	1703	IGCM_sys_Chmod u+x script_${ExeNameOut}.ksh
	1704
	1705	init_node=n
	1706
	1707	(( nombre_restant_node = NUM_COREPERNODE - 1 ))
	1708	node_num_current=0
	1709	node_current=${host[${node_num_current}]}
	1710
	1711	EXECUTION="${EXECUTION} -H ${node_current} -np 1 ./script_${ExeNameOut}.ksh"
	1712
	1713	init_exec=y
	1714	start_num=1
	1715
	1716	fi
	1717
	1718	done
	1719
	1720	# Then loop on the components (except for oasis)
	1721
	1722	for comp in ${config_ListOfComponents[*]} ; do
	1723
	1724	eval ExeNameIn=\${config_Executable_${comp}[0]}
	1725	eval ExeNameOut=\${config_Executable_${comp}[1]}
	1726
	1727	# Only if we really have an executable for the component :
	1728	if ( [ "X${ExeNameOut}" != X\"\" ] && [ "X${comp}" != "XCPL" ] ) ; then
	1729
	1730	eval comp_proc_mpi_loc=\${${comp}_PROC_MPI}
	1731	eval comp_proc_omp_loc=\${${comp}_PROC_OMP}
	1732
	1733	echo "#!/bin/ksh" > script_${ExeNameOut}.ksh
	1734	# echo "set -vx" >> script_${ExeNameOut}.ksh
	1735	echo "" >> script_${ExeNameOut}.ksh
	1736	#echo "export KMP_STACKSIZE=3g" >> script_${ExeNameOut}.ksh
	1737	#echo "export KMP_LIBRARY=turnaround" >> script_${ExeNameOut}.ksh
	1738	#echo "export MKL_SERIAL=YES" >> script_${ExeNameOut}.ksh
	1739	echo "OMP_NUM_THREADS=${comp_proc_omp_loc}" >> script_${ExeNameOut}.ksh
	1740	echo "(( MYMPIRANK = OMPI_COMM_WORLD_RANK - ${start_num})) " >> script_${ExeNameOut}.ksh
	1741	echo "./${ExeNameOut} > out_${ExeNameOut}.out.\${MYMPIRANK} 2>out_${ExeNameOut}.err.\${MYMPIRANK}" >> script_${ExeNameOut}.ksh
	1742	IGCM_sys_Chmod u+x script_${ExeNameOut}.ksh
	1743
	1744	node_num=0
	1745
	1746	# We define the number of MPI process to be assigned for the component
	1747
	1748	nombre_restant_comp=${comp_proc_mpi_loc}
	1749
	1750	# Loop on the allocated nodes
	1751
	1752	for node in ${listnodes} ; do
	1753
	1754	# We go to the current node
	1755	if [ ${node_num} = ${node_num_current} ] ; then
	1756
	1757	node_current=${host[${node_num_current}]}
	1758
	1759	# If first time on the node : initialisation
	1760
	1761	if [ ${init_node} = y ] ; then
	1762	nombre_restant_node=${NUM_COREPERNODE}
	1763	fi
	1764
	1765	# Test on the number of OMP threads
	1766
	1767	if [ ${comp_proc_omp_loc} -gt ${nombre_restant_node} ] ; then
	1768	(( node_num = node_num + 1 ))
	1769	node_num_current=${node_num}
	1770	init_node=y
	1771	continue
	1772	fi
	1773
	1774	# Number of MPI process to assign
	1775
	1776	(( num_corempi = nombre_restant_node / comp_proc_omp_loc ))
	1777
	1778	if [ ${num_corempi} -gt ${nombre_restant_comp} ] ; then
	1779	num_corempi=${nombre_restant_comp}
	1780	fi
	1781
	1782	(( nombre_restant_node = nombre_restant_node - num_corempi * comp_proc_omp_loc ))
	1783	(( nombre_restant_comp = nombre_restant_comp - num_corempi ))
	1784
	1785	if [ ${init_exec} = y ] ; then
	1786	EXECUTION="${EXECUTION} : -H ${node_current} -np ${num_corempi} ./script_${ExeNameOut}.ksh"
	1787	else
	1788	EXECUTION="${EXECUTION} -H ${node_current} -np ${num_corempi} ./script_${ExeNameOut}.ksh"
	1789	init_exec=y
	1790	fi
	1791
	1792	(( start_num = num_corempi + start_num ))
	1793
	1794	else
	1795
	1796	(( node_num = node_num + 1 ))
	1797	continue
	1798	fi
	1799
	1800	# Test on the number of core/process remaining on the node/component
	1801
	1802	if [ ${nombre_restant_node} = 0 ] ; then
	1803	(( node_num = node_num + 1 ))
	1804	node_num_current=${node_num}
	1805	init_node=y
	1806
	1807	if [ ${nombre_restant_comp} = 0 ] ; then
	1808	break 1
	1809	fi
	1810	else
	1811
	1812	node_num_current=${node_num}
	1813	init_node=n
	1814
	1815	if [ ${nombre_restant_comp} = 0 ] ; then
	1816	break 1
	1817	fi
	1818	fi
	1819	done
	1820	fi
	1821	done
	1822
	1823	else
	1824
[664]	1825	# Then first loop on the components for the coupler ie oasis
[657]	1826
[664]	1827	## the coupler ie oasis must be the first one
	1828	for comp in ${config_ListOfComponents[*]} ; do
[657]	1829
[664]	1830	eval ExeNameOut=\${config_Executable_${comp}[1]}
[657]	1831
	1832	# for CPL component only
[664]	1833	if [ "X${comp}" = "XCPL" ] ; then
	1834	eval comp_proc_mpi_loc=\${${comp}_PROC_MPI}
	1835	echo "-np ${comp_proc_mpi_loc} ./${ExeNameOut} " >> run_file
	1836	fi
	1837	done
[657]	1838
[811]	1839	# Then second loop on the components
[657]	1840
[664]	1841	for comp in ${config_ListOfComponents[*]} ; do
[657]	1842
[664]	1843	eval ExeNameOut=\${config_Executable_${comp}[1]}
[657]	1844
[664]	1845	# Only if we really have an executable for the component and not the coupler ie oasis:
	1846	if ( [ "X${ExeNameOut}" != X\"\" ] && [ "X${comp}" != "XCPL" ] ) ; then
	1847	eval comp_proc_mpi_loc=\${${comp}_PROC_MPI}
	1848	echo "-np ${comp_proc_mpi_loc} ./${ExeNameOut}" >> run_file
	1849	fi
	1850	done
	1851	IGCM_sys_Chmod u+x run_file
[657]	1852
[664]	1853	EXECUTION="${HOST_MPIRUN_COMMAND} --app ./run_file"
[657]	1854
[16]	1855	fi
	1856
[657]	1857	else # Only one executable. launch it.
	1858
[664]	1859	for comp in ${config_ListOfComponents[*]} ; do
[657]	1860
[664]	1861	# Only if we really have an executable for the component :
	1862	eval ExeNameOut=\${config_Executable_${comp}[1]}
	1863	if ( [ "X${ExeNameOut}" != X\"\" ] && [ "X${ExeNameOut}" != "Xinca.dat" ] ) ; then
[657]	1864
[664]	1865	echo "#!/bin/ksh" > script_${ExeNameOut}.ksh
	1866	echo "" >> script_${ExeNameOut}.ksh
	1867	if ( ${OK_PARA_OMP} ) ; then
	1868	eval comp_proc_omp_loc=\${${comp}_PROC_OMP}
	1869	echo "OMP_NUM_THREADS=${comp_proc_omp_loc}" >> script_${ExeNameOut}.ksh
	1870	fi
	1871	if ( ${OK_PARA_MPI} ) ; then
	1872	# Default : mpirun used if nb_proc gt 1
	1873	# pour sortie out/err par process
	1874	# echo "./${ExeNameOut} > out_${ExeNameOut}.out.\${OMPI_COMM_WORLD_RANK} 2>out_${ExeNameOut}.err.\${OMPI_COMM_WORLD_RANK}" >> script_${ExeNameOut}.ksh
	1875	echo "./${ExeNameOut}" >> script_${ExeNameOut}.ksh
	1876	IGCM_sys_Chmod u+x script_${ExeNameOut}.ksh
	1877	EXECUTION="${HOST_MPIRUN_COMMAND} ./script_${ExeNameOut}.ksh"
	1878	else
	1879	# Default : mpirun is NOT used if nb_proc eq 1
	1880	# pour sortie out/err par process
	1881	# echo "./${ExeNameOut} > out_${ExeNameOut}.out 2>out_${ExeNameOut}.err" >> script_${ExeNameOut}.ksh
	1882	echo "./${ExeNameOut}" >> script_${ExeNameOut}.ksh
	1883	IGCM_sys_Chmod u+x script_${ExeNameOut}.ksh
	1884	EXECUTION="time ./script_${ExeNameOut}.ksh"
	1885	fi
	1886	fi
	1887	done
[657]	1888
	1889	fi
	1890
[811]	1891	IGCM_debug_Print 1 "sys Obelix : execution command is"
	1892	IGCM_debug_Print 1 "$EXECUTION"
[657]	1893
	1894	IGCM_debug_PopStack "IGCM_sys_build_execution_scripts"
[16]	1895	}
	1896
[933]	1897	#D-#==================================================
	1898	#D-function IGCM_sys_check_path
	1899	#D-* Purpose: check that RUN_DIR_PATH that will be removed on some machine
	1900	#D-* do not point to an important use directory. Stop immediately in that case.
	1901	#D-* Examples:
	1902	#D-
	1903	function IGCM_sys_check_path {
	1904	IGCM_debug_PushStack "IGCM_sys_check_path"
	1905	if ( $DEBUG_sys ) ; then
	1906	echo "IGCM_sys_check_path"
	1907	fi
[811]	1908
[933]	1909	if ( [ X${RUN_DIR_PATH} = X${HOME} ] \|\| [ X${RUN_DIR_PATH} = X${ARCHIVE} ] ) ; then
	1910	IGCM_debug_Print 1 "Variable RUN_DIR_PATH is pointing to an important directory : ${RUN_DIR_PATH}"
	1911	IGCM_debug_Print 1 "Please check the RUN_DIR_PATH definition in your Job : Job_${config_UserChoices_JobName}"
[936]	1912	IGCM_debug_Exit "This will stop the job"
[933]	1913	fi
	1914	IGCM_debug_PopStack "IGCM_sys_check_path"
	1915	}
	1916
[811]	1917	#D-#==================================================
	1918	#D-function IGCM_sys_check_quota. Dummy call here
	1919	#D-* Purpose: check user quota. Stop the simulation if quota above 90%
	1920	#D-* Examples:
	1921	#D-
[657]	1922	function IGCM_sys_check_quota {
	1923	IGCM_debug_PushStack "IGCM_sys_check_quota"
	1924	if ( $DEBUG_sys ) ; then
	1925	echo "IGCM_sys_check_quota"
	1926	fi
	1927	IGCM_debug_PopStack "IGCM_sys_check_quota"
	1928	}
	1929
[811]	1930	#D-#==================================================
	1931	#D-function IGCM_sys_CountJobInQueue
	1932	#D-* Purpose: Check if job_name is currently
	1933	#D- running or in queue
	1934	#D-* Examples: IGCM_sys_CountJobInQueue ${JobName} NbRun
	1935	#D-
	1936	function IGCM_sys_CountJobInQueue {
	1937	IGCM_debug_PushStack "IGCM_sys_CountJobInQueue"
	1938	if ( $DEBUG_sys ) ; then
	1939	echo "IGCM_sys_CountJobInQueue"
	1940	fi
	1941	IGCM_debug_PopStack "IGCM_sys_CountJobInQueue"
	1942	}
	1943
[16]	1944	##############################################################
	1945	# NCO OPERATOR
	1946
[811]	1947	#D-#==================================================
	1948	#D-function IGCM_sys_ncap2
	1949	#D-* Purpose: encapsulate ncap2 call so as to manage error code and retry
	1950	#D-* Examples:
	1951	#D-
[377]	1952	function IGCM_sys_ncap2 {
[657]	1953	IGCM_debug_PushStack "IGCM_sys_ncap2" -- $@
	1954	if ( $DEBUG_sys ) ; then
	1955	echo "IGCM_sys_ncap2 :" $@
	1956	fi
[714]	1957
	1958	typeset NB_ESSAI DELAI status i
	1959	# number of tentative
	1960	NB_ESSAI=3
	1961	# time delay between tentative
	1962	DELAI=2
	1963
	1964	i=0
	1965	while [ $i -lt $NB_ESSAI ] ; do
[938]	1966	ncap2 "$@" > /tmp/out_command.$$ 2>&1
[714]	1967	status=$?
	1968	if [ ${status} -gt 0 ] ; then
	1969	IGCM_debug_Print 2 "IGCM_sys_ncap2 : error code ${status}"
[938]	1970	cat /tmp/out_command.$$
	1971	\rm /tmp/out_command.$$
[714]	1972	IGCM_debug_Print 2 "IGCM_sys_ncap2 : ${i}/${NB_ESSAI} sleep ${DELAI} seconds and try again."
[800]	1973	sleep $DELAI
[714]	1974	else
[938]	1975	\rm /tmp/out_command.$$
[714]	1976	break
	1977	fi
	1978	(( i = i + 1 ))
	1979	done
	1980
	1981	if [ ${status} -gt 0 ] ; then
[811]	1982	echo "IGCM_sys_ncap2 : ncap2 error"
	1983	IGCM_debug_Exit "ncap2"
[657]	1984	fi
[16]	1985
[657]	1986	IGCM_debug_PopStack "IGCM_sys_ncap2"
[16]	1987	}
	1988
[811]	1989	#D-#==================================================
	1990	#D-function IGCM_sys_ncatted
	1991	#D-* Purpose: encapsulate ncatted call so as to manage error code and retry
	1992	#D-* Examples:
	1993	#D-
[375]	1994	function IGCM_sys_ncatted {
[657]	1995	IGCM_debug_PushStack "IGCM_sys_ncatted" -- $@
	1996	if ( $DEBUG_sys ) ; then
	1997	echo "IGCM_sys_ncatted :" $@
	1998	fi
[714]	1999
	2000	typeset NB_ESSAI DELAI status i
	2001	# number of tentative
	2002	NB_ESSAI=3
	2003	# time delay between tentative
	2004	DELAI=2
	2005
	2006	i=0
	2007	while [ $i -lt $NB_ESSAI ] ; do
[938]	2008	ncatted "$@" > /tmp/out_command.$$ 2>&1
[714]	2009	status=$?
	2010	if [ ${status} -gt 0 ] ; then
	2011	IGCM_debug_Print 2 "IGCM_sys_ncatted : error code ${status}"
[938]	2012	cat /tmp/out_command.$$
	2013	\rm /tmp/out_command.$$
[714]	2014	IGCM_debug_Print 2 "IGCM_sys_ncatted : ${i}/${NB_ESSAI} sleep ${DELAI} seconds and try again."
[800]	2015	sleep $DELAI
[714]	2016	else
[938]	2017	\rm /tmp/out_command.$$
[714]	2018	break
	2019	fi
	2020	(( i = i + 1 ))
	2021	done
	2022
	2023	if [ ${status} -gt 0 ] ; then
[811]	2024	echo "IGCM_sys_ncatted : ncatted error"
	2025	IGCM_debug_Exit "ncatted"
[657]	2026	fi
[16]	2027
[657]	2028	IGCM_debug_PopStack "IGCM_sys_ncatted"
[375]	2029	}
[16]	2030
[811]	2031	#D-#==================================================
	2032	#D-function IGCM_sys_ncbo
	2033	#D-* Purpose: encapsulate ncbo call so as to manage error code and retry
	2034	#D-* Examples:
	2035	#D-
[16]	2036	function IGCM_sys_ncbo {
[657]	2037	IGCM_debug_PushStack "IGCM_sys_ncbo" -- $@
	2038	if ( $DEBUG_sys ) ; then
	2039	echo "IGCM_sys_ncbo :" $@
	2040	fi
[714]	2041
	2042	typeset NB_ESSAI DELAI status i
	2043	# number of tentative
	2044	NB_ESSAI=3
	2045	# time delay between tentative
	2046	DELAI=2
	2047
	2048	i=0
	2049	while [ $i -lt $NB_ESSAI ] ; do
[938]	2050	ncbo $@ > /tmp/out_command.$$ 2>&1
[714]	2051	status=$?
	2052	if [ ${status} -gt 0 ] ; then
	2053	IGCM_debug_Print 2 "IGCM_sys_ncbo : error code ${status}"
[938]	2054	cat /tmp/out_command.$$
	2055	\rm /tmp/out_command.$$
[714]	2056	IGCM_debug_Print 2 "IGCM_sys_ncbo : ${i}/${NB_ESSAI} sleep ${DELAI} seconds and try again."
[800]	2057	sleep $DELAI
[714]	2058	else
[938]	2059	\rm /tmp/out_command.$$
[714]	2060	break
	2061	fi
	2062	(( i = i + 1 ))
	2063	done
	2064
	2065	if [ ${status} -gt 0 ] ; then
[811]	2066	echo "IGCM_sys_ncbo : ncbo error"
	2067	IGCM_debug_Exit "ncbo"
[657]	2068	fi
[16]	2069
[657]	2070	IGCM_debug_PopStack "IGCM_sys_ncbo"
[16]	2071	}
	2072
[811]	2073	#D-#==================================================
	2074	#D-function IGCM_sys_ncdif
	2075	#D-* Purpose: encapsulate ncdiff call so as to manage error code and retry
	2076	#D-* Examples:
	2077	#D-
[16]	2078	function IGCM_sys_ncdiff {
[657]	2079	IGCM_debug_PushStack "IGCM_sys_ncdiff" -- $@
	2080	if ( $DEBUG_sys ) ; then
	2081	echo "IGCM_sys_ncdiff :" $@
	2082	fi
[714]	2083
	2084	typeset NB_ESSAI DELAI status i
	2085	# number of tentative
	2086	NB_ESSAI=3
	2087	# time delay between tentative
	2088	DELAI=2
	2089
	2090	i=0
	2091	while [ $i -lt $NB_ESSAI ] ; do
[938]	2092	ncdiff $@ > /tmp/out_command.$$ 2>&1
[714]	2093	status=$?
	2094	if [ ${status} -gt 0 ] ; then
	2095	IGCM_debug_Print 2 "IGCM_sys_ncdiff : error code ${status}"
[938]	2096	cat /tmp/out_command.$$
	2097	\rm /tmp/out_command.$$
[714]	2098	IGCM_debug_Print 2 "IGCM_sys_ncdiff : ${i}/${NB_ESSAI} sleep ${DELAI} seconds and try again."
[800]	2099	sleep $DELAI
[714]	2100	else
[938]	2101	\rm /tmp/out_command.$$
[714]	2102	break
	2103	fi
	2104	(( i = i + 1 ))
	2105	done
	2106
	2107	if [ ${status} -gt 0 ] ; then
[811]	2108	echo "IGCM_sys_ncdiff : ncdiff error"
	2109	IGCM_debug_Exit "ncdiff"
[657]	2110	fi
[16]	2111
[657]	2112	IGCM_debug_PopStack "IGCM_sys_ncdiff"
[16]	2113	}
	2114
[811]	2115	#D-#==================================================
	2116	#D-function IGCM_sys_ncea
	2117	#D-* Purpose: encapsulate ncea call so as to manage error code and retry
	2118	#D-* Examples:
	2119	#D-
[16]	2120	function IGCM_sys_ncea {
[657]	2121	IGCM_debug_PushStack "IGCM_sys_ncea" -- $@
	2122	if ( $DEBUG_sys ) ; then
	2123	echo "IGCM_sys_ncea :" $@
	2124	fi
[714]	2125
	2126	typeset NB_ESSAI DELAI status i
	2127	# number of tentative
	2128	NB_ESSAI=3
	2129	# time delay between tentative
	2130	DELAI=2
	2131
	2132	i=0
	2133	while [ $i -lt $NB_ESSAI ] ; do
[938]	2134	ncea $@ > /tmp/out_command.$$ 2>&1
[714]	2135	status=$?
	2136	if [ ${status} -gt 0 ] ; then
	2137	IGCM_debug_Print 2 "IGCM_sys_ncea : error code ${status}"
[938]	2138	cat /tmp/out_command.$$
	2139	\rm /tmp/out_command.$$
[714]	2140	IGCM_debug_Print 2 "IGCM_sys_ncea : ${i}/${NB_ESSAI} sleep ${DELAI} seconds and try again."
[800]	2141	sleep $DELAI
[714]	2142	else
[938]	2143	\rm /tmp/out_command.$$
[714]	2144	break
	2145	fi
	2146	(( i = i + 1 ))
	2147	done
	2148
	2149	if [ ${status} -gt 0 ] ; then
[811]	2150	echo "IGCM_sys_ncea : ncea error"
	2151	IGCM_debug_Exit "ncea"
[657]	2152	fi
[16]	2153
[657]	2154	IGCM_debug_PopStack "IGCM_sys_ncea"
[16]	2155	}
	2156
[811]	2157	#D-#==================================================
	2158	#D-function IGCM_sys_ncecat
	2159	#D-* Purpose: encapsulate ncecat call so as to manage error code and retry
	2160	#D-* Examples:
	2161	#D-
[16]	2162	function IGCM_sys_ncecat {
[657]	2163	IGCM_debug_PushStack "IGCM_sys_ncecat" -- $@
	2164	if ( $DEBUG_sys ) ; then
	2165	echo "IGCM_sys_ncecat :" $@
	2166	fi
[714]	2167
	2168	typeset NB_ESSAI DELAI status i
	2169	# number of tentative
	2170	NB_ESSAI=3
	2171	# time delay between tentative
	2172	DELAI=2
	2173
	2174	i=0
	2175	while [ $i -lt $NB_ESSAI ] ; do
[938]	2176	ncecat $@ > /tmp/out_command.$$ 2>&1
[714]	2177	status=$?
	2178	if [ ${status} -gt 0 ] ; then
	2179	IGCM_debug_Print 2 "IGCM_sys_ncecat : error code ${status}"
[938]	2180	cat /tmp/out_command.$$
	2181	\rm /tmp/out_command.$$
[714]	2182	IGCM_debug_Print 2 "IGCM_sys_ncecat : ${i}/${NB_ESSAI} sleep ${DELAI} seconds and try again."
[800]	2183	sleep $DELAI
[714]	2184	else
[938]	2185	\rm /tmp/out_command.$$
[714]	2186	break
	2187	fi
	2188	(( i = i + 1 ))
	2189	done
	2190
	2191	if [ ${status} -gt 0 ] ; then
[811]	2192	echo "IGCM_sys_ncecat : ncecat error"
	2193	IGCM_debug_Exit "ncecat"
[657]	2194	fi
[16]	2195
[657]	2196	IGCM_debug_PopStack "IGCM_sys_ncecat"
[16]	2197	}
	2198
[811]	2199	#D-#==================================================
	2200	#D-function IGCM_sys_ncflint
	2201	#D-* Purpose: encapsulate ncflint call so as to manage error code and retry
	2202	#D-* Examples:
	2203	#D-
[16]	2204	function IGCM_sys_ncflint {
[657]	2205	IGCM_debug_PushStack "IGCM_sys_ncflint" -- $@
	2206	if ( $DEBUG_sys ) ; then
	2207	echo "IGCM_sys_ncflint :" $@
	2208	fi
[714]	2209
	2210	typeset NB_ESSAI DELAI status i
	2211	# number of tentative
	2212	NB_ESSAI=3
	2213	# time delay between tentative
	2214	DELAI=2
	2215
	2216	i=0
	2217	while [ $i -lt $NB_ESSAI ] ; do
[938]	2218	ncflint $@ > /tmp/out_command.$$ 2>&1
[714]	2219	status=$?
	2220	if [ ${status} -gt 0 ] ; then
	2221	IGCM_debug_Print 2 "IGCM_sys_ncflint : error code ${status}"
[938]	2222	cat /tmp/out_command.$$
	2223	\rm /tmp/out_command.$$
[714]	2224	IGCM_debug_Print 2 "IGCM_sys_ncflint : ${i}/${NB_ESSAI} sleep ${DELAI} seconds and try again."
[800]	2225	sleep $DELAI
[714]	2226	else
[938]	2227	\rm /tmp/out_command.$$
[714]	2228	break
	2229	fi
	2230	(( i = i + 1 ))
	2231	done
	2232
	2233	if [ ${status} -gt 0 ] ; then
[811]	2234	echo "IGCM_sys_ncflint : ncflint error"
	2235	IGCM_debug_Exit "ncflint"
[657]	2236	fi
[16]	2237
[657]	2238	IGCM_debug_PopStack "IGCM_sys_ncflint"
[16]	2239	}
	2240
[811]	2241	#D-#==================================================
	2242	#D-function IGCM_sys_ncks
	2243	#D-* Purpose: encapsulate ncks call so as to manage error code and retry
	2244	#D-* Examples:
	2245	#D-
[16]	2246	function IGCM_sys_ncks {
[657]	2247	IGCM_debug_PushStack "IGCM_sys_ncks" -- $@
	2248	if ( $DEBUG_sys ) ; then
	2249	echo "IGCM_sys_ncks :" $@
	2250	fi
[714]	2251
	2252	typeset NB_ESSAI DELAI status i
	2253	# number of tentative
	2254	NB_ESSAI=3
	2255	# time delay between tentative
	2256	DELAI=2
	2257
	2258	i=0
	2259	while [ $i -lt $NB_ESSAI ] ; do
[938]	2260	ncks $@ > /tmp/out_command.$$ 2>&1
[714]	2261	status=$?
	2262	if [ ${status} -gt 0 ] ; then
	2263	IGCM_debug_Print 2 "IGCM_sys_ncks : error code ${status}"
[938]	2264	cat /tmp/out_command.$$
	2265	\rm /tmp/out_command.$$
[714]	2266	IGCM_debug_Print 2 "IGCM_sys_ncks : ${i}/${NB_ESSAI} sleep ${DELAI} seconds and try again."
[800]	2267	sleep $DELAI
[714]	2268	else
[938]	2269	\rm /tmp/out_command.$$
[714]	2270	break
	2271	fi
	2272	(( i = i + 1 ))
	2273	done
	2274
	2275	if [ ${status} -gt 0 ] ; then
[811]	2276	echo "IGCM_sys_ncks : ncks error"
	2277	IGCM_debug_Exit "ncks"
[657]	2278	fi
[16]	2279
[657]	2280	IGCM_debug_PopStack "IGCM_sys_ncks"
[16]	2281	}
	2282
[811]	2283	#D-#==================================================
	2284	#D-function IGCM_sys_ncpdq
	2285	#D-* Purpose: encapsulate ncpdq call so as to manage error code and retry
	2286	#D-* Examples:
	2287	#D-
[16]	2288	function IGCM_sys_ncpdq {
[657]	2289	IGCM_debug_PushStack "IGCM_sys_ncpdq" -- $@
	2290	if ( $DEBUG_sys ) ; then
	2291	echo "IGCM_sys_ncpdq :" $@
	2292	fi
[714]	2293
	2294	typeset NB_ESSAI DELAI status i
	2295	# number of tentative
	2296	NB_ESSAI=3
	2297	# time delay between tentative
	2298	DELAI=2
	2299
	2300	i=0
	2301	while [ $i -lt $NB_ESSAI ] ; do
[938]	2302	ncpdq $@ > /tmp/out_command.$$ 2>&1
[714]	2303	status=$?
	2304	if [ ${status} -gt 0 ] ; then
	2305	IGCM_debug_Print 2 "IGCM_sys_ncpdq : error code ${status}"
[938]	2306	cat /tmp/out_command.$$
	2307	\rm /tmp/out_command.$$
[714]	2308	IGCM_debug_Print 2 "IGCM_sys_ncpdq : ${i}/${NB_ESSAI} sleep ${DELAI} seconds and try again."
[800]	2309	sleep $DELAI
[714]	2310	else
[938]	2311	\rm /tmp/out_command.$$
[714]	2312	break
	2313	fi
	2314	(( i = i + 1 ))
	2315	done
	2316
	2317	if [ ${status} -gt 0 ] ; then
[811]	2318	echo "IGCM_sys_ncpdq : ncpdq error"
	2319	IGCM_debug_Exit "ncpdq"
[657]	2320	fi
[16]	2321
[657]	2322	IGCM_debug_PopStack "IGCM_sys_ncpdq"
[16]	2323	}
	2324
[811]	2325	#D-#==================================================
	2326	#D-function IGCM_sys_ncra
	2327	#D-* Purpose: encapsulate ncra call so as to manage error code and retry
	2328	#D-* Examples:
	2329	#D-
[16]	2330	function IGCM_sys_ncra {
[657]	2331	IGCM_debug_PushStack "IGCM_sys_ncra" -- $@
	2332	if ( $DEBUG_sys ) ; then
	2333	echo "IGCM_sys_ncra :" $@
	2334	fi
[714]	2335
	2336	typeset NB_ESSAI DELAI status i
	2337	# number of tentative
	2338	NB_ESSAI=3
	2339	# time delay between tentative
	2340	DELAI=2
	2341
	2342	i=0
	2343	while [ $i -lt $NB_ESSAI ] ; do
[938]	2344	ncra $@ > /tmp/out_command.$$ 2>&1
[714]	2345	status=$?
	2346	if [ ${status} -gt 0 ] ; then
	2347	IGCM_debug_Print 2 "IGCM_sys_ncra : error code ${status}"
[938]	2348	cat /tmp/out_command.$$
	2349	\rm /tmp/out_command.$$
[714]	2350	IGCM_debug_Print 2 "IGCM_sys_ncra : ${i}/${NB_ESSAI} sleep ${DELAI} seconds and try again."
[800]	2351	sleep $DELAI
[714]	2352	else
[938]	2353	\rm /tmp/out_command.$$
[714]	2354	break
	2355	fi
	2356	(( i = i + 1 ))
	2357	done
	2358
	2359	if [ ${status} -gt 0 ] ; then
[811]	2360	echo "IGCM_sys_ncra : ncra error"
	2361	IGCM_debug_Exit "ncra"
[657]	2362	fi
[16]	2363
[657]	2364	IGCM_debug_PopStack "IGCM_sys_ncra"
[16]	2365	}
	2366
[811]	2367	#D-#==================================================
	2368	#D-function IGCM_sys_ncrcat
	2369	#D-* Purpose: encapsulate ncrcat call so as to manage error code and retry
	2370	#D-* Examples:
	2371	#D-
[16]	2372	function IGCM_sys_ncrcat {
[657]	2373	IGCM_debug_PushStack "IGCM_sys_ncrcat" -- $@
	2374	if ( $DEBUG_sys ) ; then
	2375	echo "IGCM_sys_ncrcat :" $@
	2376	fi
[714]	2377
[811]	2378	typeset NB_ESSAI DELAI status i lastArg
[714]	2379	# number of tentative
	2380	NB_ESSAI=3
	2381	# time delay between tentative
	2382	DELAI=2
	2383
	2384	i=0
	2385	while [ $i -lt $NB_ESSAI ] ; do
[938]	2386	ncrcat $@ > /tmp/out_command.$$ 2>&1
[714]	2387	status=$?
	2388	if [ ${status} -gt 0 ] ; then
	2389	IGCM_debug_Print 2 "IGCM_sys_ncrcat : error code ${status}"
[938]	2390	cat /tmp/out_command.$$
	2391	\rm /tmp/out_command.$$
[714]	2392	IGCM_debug_Print 2 "IGCM_sys_ncrcat : ${i}/${NB_ESSAI} sleep ${DELAI} seconds and try again."
[800]	2393	sleep $DELAI
[938]	2394	elif [ ! "X$( grep "WARNING Intra-file non-monotonicity" /tmp/out_command.$$ )" = "X" ] ; then
[811]	2395	IGCM_debug_Print 2 "IGCM_sys_ncrcat : WARNING Intra-file non-monotonicity"
[938]	2396	cat /tmp/out_command.$$
[811]	2397	# remove files having corrupted time axis
	2398	eval lastArg=\${$#}
	2399	IGCM_debug_Print 2 "IGCM_sys_ncrcat : Delete ${lastArg}"
	2400	\rm ${lastArg}
[938]	2401	\rm /tmp/out_command.$$
[811]	2402	IGCM_debug_Print 2 "IGCM_sys_ncrcat : ${i}/${NB_ESSAI} sleep ${DELAI} seconds and try again."
	2403	sleep $DELAI
[714]	2404	else
[938]	2405	\rm /tmp/out_command.$$
[714]	2406	break
	2407	fi
	2408	(( i = i + 1 ))
	2409	done
	2410
	2411	if [ ${status} -gt 0 ] ; then
[811]	2412	echo "IGCM_sys_ncrcat : ncrcat error"
	2413	#IGCM_debug_Exit "ncrcat"
[657]	2414	fi
[16]	2415
[657]	2416	IGCM_debug_PopStack "IGCM_sys_ncrcat"
[16]	2417	}
	2418
[811]	2419	#D-#==================================================
	2420	#D-function IGCM_sys_ncrename
	2421	#D-* Purpose: encapsulate ncrename call so as to manage error code and retry
	2422	#D-* Examples:
	2423	#D-
[16]	2424	function IGCM_sys_ncrename {
[657]	2425	IGCM_debug_PushStack "IGCM_sys_ncrename" -- $@
	2426	if ( $DEBUG_sys ) ; then
	2427	echo "IGCM_sys_ncrename :" $@
	2428	fi
[714]	2429
	2430	typeset NB_ESSAI DELAI status i
	2431	# number of tentative
	2432	NB_ESSAI=3
	2433	# time delay between tentative
	2434	DELAI=2
	2435
	2436	i=0
	2437	while [ $i -lt $NB_ESSAI ] ; do
[938]	2438	ncrename $@ > /tmp/out_command.$$ 2>&1
[714]	2439	status=$?
	2440	if [ ${status} -gt 0 ] ; then
	2441	IGCM_debug_Print 2 "IGCM_sys_ncrename : error code ${status}"
[938]	2442	cat /tmp/out_command.$$
	2443	\rm /tmp/out_command.$$
[714]	2444	IGCM_debug_Print 2 "IGCM_sys_ncrename : ${i}/${NB_ESSAI} sleep ${DELAI} seconds and try again."
[800]	2445	sleep $DELAI
[714]	2446	else
[938]	2447	\rm /tmp/out_command.$$
[714]	2448	break
	2449	fi
	2450	(( i = i + 1 ))
	2451	done
	2452
	2453	if [ ${status} -gt 0 ] ; then
[811]	2454	echo "IGCM_sys_ncrename : ncrename error"
	2455	IGCM_debug_Exit "ncrename"
[657]	2456	fi
[16]	2457
[657]	2458	IGCM_debug_PopStack "IGCM_sys_ncrename"
[16]	2459	}
	2460
[811]	2461	#D-#==================================================
	2462	#D-function IGCM_sys_ncwa
	2463	#D-* Purpose: encapsulate ncwa call so as to manage error code and retry
	2464	#D-* Examples:
	2465	#D-
[16]	2466	function IGCM_sys_ncwa {
[657]	2467	IGCM_debug_PushStack "IGCM_sys_ncwa" -- $@
	2468	if ( $DEBUG_sys ) ; then
	2469	echo "IGCM_sys_ncwa :" $@
	2470	fi
[714]	2471
	2472	typeset NB_ESSAI DELAI status i
	2473	# number of tentative
	2474	NB_ESSAI=3
	2475	# time delay between tentative
	2476	DELAI=2
	2477
	2478	i=0
	2479	while [ $i -lt $NB_ESSAI ] ; do
[938]	2480	ncwa $@ > /tmp/out_command.$$ 2>&1
[714]	2481	status=$?
	2482	if [ ${status} -gt 0 ] ; then
	2483	IGCM_debug_Print 2 "IGCM_sys_ncwa : error code ${status}"
[938]	2484	cat /tmp/out_command.$$
	2485	\rm /tmp/out_command.$$
[714]	2486	IGCM_debug_Print 2 "IGCM_sys_ncwa : ${i}/${NB_ESSAI} sleep ${DELAI} seconds and try again."
[800]	2487	sleep $DELAI
[714]	2488	else
[938]	2489	\rm /tmp/out_command.$$
[714]	2490	break
	2491	fi
	2492	(( i = i + 1 ))
	2493	done
	2494
	2495	if [ ${status} -gt 0 ] ; then
[811]	2496	echo "IGCM_sys_ncwa : ncwa error"
	2497	IGCM_debug_Exit "ncwa"
[657]	2498	fi
[16]	2499
[657]	2500	IGCM_debug_PopStack "IGCM_sys_ncwa"
[16]	2501	}
	2502
[284]	2503	##############################################################
	2504	# CDO OPERATOR
	2505
[811]	2506	#D-#==================================================
	2507	#D-function IGCM_sys_cdo
	2508	#D-* Purpose: encapsulate cdo call so as to manage error code and retry
	2509	#D-* Examples:
	2510	#D-
[284]	2511	function IGCM_sys_cdo {
[657]	2512	IGCM_debug_PushStack "IGCM_sys_cdo" -- $@
[714]	2513	if ( $DEBUG_sys ) ; then
	2514	echo "IGCM_sys_cdo :" $@
	2515	fi
[284]	2516
[714]	2517	typeset status
	2518
[938]	2519	\cdo $@ > /tmp/out_command.$$ 2>&1
[714]	2520	status=$?
	2521	if [ ${status} -gt 0 ] ; then
	2522	echo "IGCM_sys_cdo : error code ${status}"
[938]	2523	cat /tmp/out_command.$$
	2524	\rm /tmp/out_command.$$
[284]	2525	IGCM_debug_PopStack "IGCM_sys_cdo"
[657]	2526	return 1
	2527	else
	2528	IGCM_debug_PopStack "IGCM_sys_cdo"
	2529	return 0
	2530	fi
[284]	2531
[657]	2532	IGCM_debug_PopStack "IGCM_sys_cdo"
[16]	2533	}

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