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source: trunk/libIGCM/libIGCM_comp/libIGCM_comp.ksh @ 1074

Last change on this file since 1074 was 1074, checked in by jgipsl, 10 years ago
Added function IGCM_comp_modifyXmlFile
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: 62.4 KB

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1	#!/bin/ksh
2
3	#**************************************************************
4	# Author: Sebastien Denvil, Martial Mancip
5	# Contact: Sebastien.Denvil__at__ipsl.jussieu.fr Martial.Mancip__at__ipsl.jussieu.fr
6	# $Revision:: $ Revision of last commit
7	# $Author:: $ Author of last commit
8	# $Date:: $ Date of last commit
9	# IPSL (2006)
10	# This software is governed by the CeCILL licence see libIGCM/libIGCM_CeCILL.LIC
11	#
12	#**************************************************************
13
14	#========================================================================
15	function IGCM_comp_Initialize
16	{
17	IGCM_debug_PushStack "IGCM_comp_Initialize"
18
19	# Debug Print :
20	echo
21	IGCM_debug_Print 1 "IGCM_comp_Initialize"
22	echo
23
24	typeset comp compname comptagname CompatibilityTag auxprint card_UserChoices first_option option i j
25	for comp in ${config_ListOfComponents[*]} ; do
26
27	# Define component
28	IGCM_card_DefineArrayFromOption ${SUBMIT_DIR}/config.card ListOfComponents ${comp}
29	eval compname=\${config_ListOfComponents_${comp}[0]} > /dev/null 2>&1
30	eval comptagname=\${config_ListOfComponents_${comp}[1]} > /dev/null 2>&1
31
32	# Debug Print
33	IGCM_debug_Print 1 "Initialize ${comp} : ${compname} component."
34
35	# Read libIGCM compatibility version in ${compname}.card
36	card=${SUBMIT_DIR}/COMP/${compname}.card
37	IGCM_card_DefineVariableFromOption ${card} Compatibility libIGCM
38
39	eval CompatibilityTag=\${${compname}_Compatibility_libIGCM} > /dev/null 2>&1
40	if [ ! "${CompatibilityTag}" = "${libIGCM_CurrentTag}" ] ; then
41	IGCM_debug_Exit "${compname}.card is not compatible with libIGCM version ${libIGCM_CurrentTag} see libIGCM FAQ http://wiki.ipsl.jussieu.fr/wiki_ipsl/IGCMG/libIGCM/DocUtilisateur/FAQ ."
42	fi
43
44	# Manage component executable
45	IGCM_card_DefineArrayFromOption ${SUBMIT_DIR}/config.card Executable ${comp}
46
47	# Define all options in section [comp]
48	IGCM_debug_Print 3 " DefineArrayFromSection : ${comp}"
49	IGCM_card_DefineArrayFromSection ${SUBMIT_DIR}/config.card ${comp}
50	eval config_comp=\${config_${comp}[*]} > /dev/null 2>&1
51	for option in ${config_comp[*]} ; do
52	IGCM_card_DefineVariableFromOption ${SUBMIT_DIR}/config.card ${comp} ${option}
53	done
54	IGCM_debug_Print 3 " Found in section config_${comp} : ${config_comp[*]} "
55
56	# Debug Print :
57	eval auxprint=\${config_${comp}_WriteFrequency}
58	IGCM_debug_Print 1 "Write frequency for ${compname} : ${auxprint} "
59	#2> /dev/null
60
61	# Debug Print :
62	IGCM_debug_Print 2 "Initialize following component library"
63
64	# Source drivers in directory DRIVER if it exist
65	# else source them from directory COMP
66	if [ -d ${SUBMIT_DIR}/DRIVER ] ; then
67	IGCM_debug_Print 2 ${SUBMIT_DIR}/DRIVER/${compname}.driver
68	# Source component library
69	. ${SUBMIT_DIR}/DRIVER/${compname}.driver
70	else
71	IGCM_debug_Print 2 ${SUBMIT_DIR}/COMP/${compname}.driver
72	# Source component library
73	. ${SUBMIT_DIR}/COMP/${compname}.driver
74	fi
75	IGCM_debug_Print 3 "With tag : ${comptagname}"
76
77	# Debug Print
78	IGCM_debug_Print 3 "Initialize ${comp} output directory."
79
80	# Define ARCHIVED Dirs
81	eval R_OUT_${comp}=${R_SAVE}/${comp}
82	eval IGCM_sys_MkdirArchive \${R_OUT_${comp}}
83
84	eval R_OUT_${comp}_O=\${R_OUT_${comp}}/Output
85	eval IGCM_sys_MkdirArchive \${R_OUT_${comp}_O}
86
87	eval R_OUT_${comp}_R=\${R_OUT_${comp}}/Restart
88	[ ${config_Post_PackFrequency} = NONE ] && eval IGCM_sys_MkdirArchive \${R_OUT_${comp}_R}
89
90	eval R_OUT_${comp}_D=\${R_OUT_${comp}}/Debug
91	[ ${config_Post_PackFrequency} = NONE ] && eval IGCM_sys_MkdirArchive \${R_OUT_${comp}_D}
92
93	eval R_OUT_${comp}_O_I=\${R_OUT_${comp}_O}/INS
94	eval R_OUT_${comp}_O_H=\${R_OUT_${comp}_O}/HF
95	eval R_OUT_${comp}_O_D=\${R_OUT_${comp}_O}/DA
96	eval R_OUT_${comp}_O_M=\${R_OUT_${comp}_O}/MO
97	eval R_OUT_${comp}_O_Y=\${R_OUT_${comp}_O}/YE
98
99	# Define BUFFERED Dirs
100	if ( [ ! ${config_Post_PackFrequency} = NONE ] \|\| [ X${config_UserChoices_SpaceName} = XTEST ] ) ; then
101	eval R_BUF_${comp}=${R_BUFR}/${comp}
102	eval IGCM_sys_Mkdir \${R_BUF_${comp}}
103
104	eval R_BUF_${comp}_O=\${R_BUF_${comp}}/Output
105	eval IGCM_sys_Mkdir \${R_BUF_${comp}_O}
106
107	eval R_BUF_${comp}_R=\${R_BUF_${comp}}/Restart
108	eval IGCM_sys_Mkdir \${R_BUF_${comp}_R}
109
110	eval R_BUF_${comp}_D=\${R_BUF_${comp}}/Debug
111	eval IGCM_sys_Mkdir \${R_BUF_${comp}_D}
112
113	eval R_BUF_${comp}_O_I=\${R_BUF_${comp}_O}/INS
114	eval R_BUF_${comp}_O_H=\${R_BUF_${comp}_O}/HF
115	eval R_BUF_${comp}_O_D=\${R_BUF_${comp}_O}/DA
116	eval R_BUF_${comp}_O_M=\${R_BUF_${comp}_O}/MO
117	eval R_BUF_${comp}_O_Y=\${R_BUF_${comp}_O}/YE
118	fi
119
120	# Read UserChoices section of component card
121	IGCM_debug_Print 2 "DefineArrayFromSection : ${compname}_UserChoices ${card}"
122	IGCM_card_DefineArrayFromSection ${card} UserChoices
123	eval first_option=\${${compname}_UserChoices[0]} > /dev/null 2>&1
124
125	# If section is not empty we define corresponding variables
126	if [ X${first_option} != X"Error:" ] ; then
127	if [ X${card_UserChoices[0]} != X ] ; then
128	unset card_UserChoices
129	fi
130	eval set +A card_UserChoices -- \${${compname}_UserChoices[*]} > /dev/null 2>&1
131	IGCM_debug_Print 3 "${compname}_UserChoices_values:"
132	for option in ${card_UserChoices[*]} ; do
133	IGCM_card_DefineVariableFromOption ${card} UserChoices ${option}
134	eval IGCM_debug_Print 3 "${option}=\${${compname}_UserChoices_${option}}"
135	done
136	fi
137
138	# Read and Build Output File stuff
139	IGCM_debug_Print 2 "DefineArrayFromOption : ${compname}_OutputFiles ${card}"
140	IGCM_card_DefineArrayFromOption ${card} OutputFiles List
141	ListFilesName=${compname}_OutputFiles_List
142	eval FileName0=\${${ListFilesName}[0]} > /dev/null 2>&1
143	#
144	if [ X${FileName0} != X${NULL_STR} ] ; then
145	#
146	#IGCM_debug_Print 1 "Component : ${compname}"
147	#
148	# INITIALISATION
149	#
150	eval NbFiles=\${#${ListFilesName}[@]} > /dev/null 2>&1
151	#
152	i=2
153	#
154	until [ $i -ge $NbFiles ]; do
155	#
156	eval flag_post=\${${ListFilesName}[$i]} > /dev/null 2>&1
157	#
158	if [ X${flag_post} != XNONE ] ; then
159	#
160	# First of all
161	#
162	IGCM_card_DefineArrayFromSection ${card} ${flag_post}
163	#
164	# Seasonal case : If option Seasonal is not found (old cards) put SEASONAL ON by default
165	#
166	# variable option allready typeset above
167	for option in $( eval echo \${${compname}_${flag_post}[*]} ) ; do
168	if [ ${option} = Seasonal ] ; then
169	FoundSeasonal=true
170	IGCM_card_DefineVariableFromOption ${card} ${flag_post} Seasonal
171	fi
172	done
173	#
174	if [ ! X${FoundSeasonal} = Xtrue ] ; then
175	eval ${compname}_${flag_post}_Seasonal=ON
176	fi
177	#
178	if [ $( eval echo \${${compname}_${flag_post}_Seasonal} ) = ON ] ; then
179	Seasonal=true
180	fi
181
182	# Dimension = vide si vieille card.
183	IGCM_card_DefineArrayFromOption ${card} ${flag_post} TimeSeriesVars
184	IGCM_card_DefineArrayFromOption ${card} ${flag_post} Patches
185	if [ X"$( eval echo \${${compname}_${flag_post}_TimeSeriesVars[*]} )" = X"Option not" ] ; then
186	# New TimeSeriesVar description, with 2D, 3D and associate ChunckJob.
187	ListDimension[0]=2D
188	ListDimension[1]=3D
189	TimeSeries=false
190	iLoop=${#ListDimension[*]}
191	j=0
192	until [ $j -ge ${iLoop} ]; do
193	Dimension=${ListDimension[${j}]}
194	IGCM_card_DefineArrayFromOption ${card} ${flag_post} TimeSeriesVars${Dimension}
195	IGCM_card_DefineVariableFromOption ${card} ${flag_post} ChunckJob${Dimension}
196	#
197	# Time series WITHOUT chunk
198	#
199	if [ ! $( eval echo \${${compname}_${flag_post}_TimeSeriesVars${Dimension}} ) = ${NULL_STR} ] ; then
200	if [ $( eval echo \${${compname}_${flag_post}_ChunckJob${Dimension}} ) = NONE ] ; then
201	IGCM_debug_Print 3 "${Dimension} time series activated for ${flag_post}"
202	eval TimeSeries${Dimension}=true
203	fi
204	fi
205	#
206	# Time series WITH chunk
207	#
208	if [ ! $( eval echo \${${compname}_${flag_post}_TimeSeriesVars${Dimension}} ) = ${NULL_STR} ] ; then
209	chunck_size=$( eval echo \${${compname}_${flag_post}_ChunckJob${Dimension}} )
210	if [ ! ${chunck_size} = NONE ] && [ ! ${chunck_size} = OFF ] ; then
211	IGCM_debug_Print 3 "${Dimension} time series activated with chunck for ${flag_post}"
212	eval TimeSeriesChunck${Dimension}=true
213	eval CHUNCK${Dimension}_COMP[\${#CHUNCK${Dimension}_COMP[*]}]=${comp}
214	eval CHUNCK${Dimension}_FLAG[\${#CHUNCK${Dimension}_FLAG[*]}]=${i}
215	eval CHUNCK${Dimension}_NAME[\${#CHUNCK${Dimension}_NAME[*]}]=${flag_post}
216	eval CHUNCK${Dimension}_SIZE[\${#CHUNCK${Dimension}_SIZE[*]}]=${chunck_size}
217	fi
218	fi
219	(( j=j+1 ))
220	done
221	else
222	ListDimension[0]=""
223	TimeSeries=true
224	TimeSeries2D=false
225	TimeSeries3D=false
226	TimeSeriesChunck2D=false
227	TimeSeriesChunck3D=false
228	fi
229	fi
230	(( i=i+3 ))
231	done
232	fi
233	# Debug Print
234	IGCM_debug_Print 3 "Initialize ${compname} with driver."
235	# INIT component
236	${comp}_Initialize
237	echo
238	done
239
240	IGCM_debug_PopStack "IGCM_comp_Initialize"
241	}
242
243	#=======================================================================
244	function IGCM_comp_PrepareDeletedFiles
245	{
246	IGCM_debug_PushStack "IGCM_comp_PrepareDeletedFiles" $@
247
248	if [ X${2} != X. ] ; then
249	eval FileToBeDeleted[${#FileToBeDeleted[@]}]=$( basename ${2} ) > /dev/null 2>&1
250	else
251	eval FileToBeDeleted[${#FileToBeDeleted[@]}]=$( basename ${1} ) > /dev/null 2>&1
252	fi
253
254	IGCM_debug_PopStack "IGCM_comp_PrepareDeletedFiles"
255	}
256
257	#=======================================================================
258	function IGCM_comp_GetInputInitialStateFiles
259	{
260	IGCM_debug_PushStack "IGCM_comp_GetInputInitialStateFiles"
261
262	# Debug Print :
263	echo
264	IGCM_debug_Print 1 "IGCM_comp_GetInputInitialStateFiles"
265	echo
266
267	# Only the first time step need InitialStateFiles
268	# otherwise it's BoundaryConditions
269	if ( ${FirstInitialize} ) ; then
270	typeset comp compname comptagname card ListFilesName FileName0 NbFiles i i_
271	typeset file_in_ file_in file_out_ file_out do_init
272	for comp in ${config_ListOfComponents[*]} ; do
273	# Initialize
274	do_init="y"
275	# Do we need to bring initial state file for this component
276	if [ "${config_Restarts_OverRule}" = "y" ] ; then
277	eval do_init="n"
278	else
279	# Read component Restarts parameters
280	IGCM_card_DefineVariableFromOption ${SUBMIT_DIR}/config.card ${comp} Restart
281	eval do_start=\${config_${comp}_Restart} > /dev/null 2>&1
282	if [ "${do_start}" = "y" ] ; then
283	do_init="n"
284	else
285	do_init="y"
286	fi
287	fi
288
289	if [ "${do_init}" = "y" ] ; then
290	# Define component
291	eval compname=\${config_ListOfComponents_${comp}[0]} > /dev/null 2>&1
292	eval comptagname=\${config_ListOfComponents_${comp}[1]} > /dev/null 2>&1
293
294	# Debug Print :
295	IGCM_debug_Print 3 "Initialisation files ${compname}"
296
297	card=${SUBMIT_DIR}/COMP/${compname}.card
298
299	IGCM_card_DefineArrayFromOption ${card} InitialStateFiles List
300	ListFilesName=${compname}_InitialStateFiles_List
301
302	eval FileName0=\${${ListFilesName}[0]} > /dev/null 2>&1
303	if [ X${FileName0} != X${NULL_STR} ] ; then
304	eval NbFiles=\${#${ListFilesName}[@]} > /dev/null 2>&1
305	(( i=0 ))
306	until [ $i -ge $NbFiles ]; do
307	eval file_in_=\${${ListFilesName}[$i]} > /dev/null 2>&1
308	eval file_in=${file_in_}
309	(( i_ = i+1 ))
310	eval file_out_=\${${ListFilesName}[$i_]} > /dev/null 2>&1
311	eval file_out=${file_out_}
312
313	IGCM_sys_IsFileArchived ${file_in}
314	if [ $? = 0 ] ; then
315	IGCM_sys_Get ${file_in} ${file_out}
316	#IGCM_comp_PrepareDeletedFiles ${file_in} ${file_out}
317	else
318	IGCM_sys_Cp ${file_in} ${file_out}
319	fi
320	(( i=i+2 ))
321	done
322	fi
323	fi
324	done
325	fi
326	IGCM_debug_PopStack "IGCM_comp_GetInputInitialStateFiles"
327	}
328
329	#=======================================================================
330	# Definition of Smooth modulo function
331	# usage :
332	# IGCM_SmoothModulo StringModulo value
333	#
334	# StringModulo : A string of min max and modulo like definition of Scilab vectors.
335	# [min]:[modulo:][max]
336	# where :
337	# [] value are optionnals;
338	# empty min equal 1
339	# empty max equal infinity
340	# modulo not given or empty equal 1
341	# empty string or just ':' equal always.
342	#
343	# value : the value to test with the definition
344	#
345	# return : true(1)/false(0)
346	function IGCM_SmoothModulo
347	{
348	IGCM_debug_PushStack "IGCM_SmoothModulo"
349	typeset defVector ModValue
350
351	eval set +A defVector -- $( echo "${1}" \| \
352	gawk -F ':' '{print ($1 == "" ? 1 : $1) " " (NF==3 ? ($2 == "" ? 1 : $2) : 1) " " (NF==3 ? ($3 == "" ? -1 : $3) : ($2 == "" ? -1 : $2))}' )
353
354	# Save Smooth Min and Max. Needed to call IGCM_sys_Get when appropriate
355	arr[1]=${defVector[0]}
356	arr[2]=${defVector[2]}
357
358	# Test limits :
359	# ${defVector[0]} <= ${2} <= ${defVector[2]}
360	# or ${defVector[2]} == -1
361	if ( [ ${2} -ge ${defVector[0]} ] && ( [ ${2} -le ${defVector[2]} ] \|\| [ ${defVector[2]} -lt 0 ] ) ) ; then
362	# Test modulo
363	ModValue=$( expr \( ${2} - ${defVector[0]} \) % ${defVector[1]} )
364	if [ ${ModValue} -eq 0 ] ; then
365	arr[3]=true
366	echo ${arr[@]}
367	IGCM_debug_PopStack "IGCM_SmoothModulo"
368	return 1
369	else
370	arr[3]=false
371	echo ${arr[@]}
372	IGCM_debug_PopStack "IGCM_SmoothModulo"
373	return 0
374	fi
375	else
376	arr[3]=false
377	echo ${arr[@]}
378	IGCM_debug_PopStack "IGCM_SmoothModulo"
379	return 0
380	fi
381	}
382
383	#=======================================================================
384	function IGCM_comp_GetInputSmoothFiles
385	{
386	IGCM_debug_PushStack "IGCM_comp_GetInputSmoothFiles"
387
388	# Debug Print :
389	echo
390	IGCM_debug_Print 1 "IGCM_comp_GetInputSmoothFiles"
391	echo
392
393	typeset comp compname comptagname card ListFilesName FileName0 NbFiles j i i_ i__
394	typeset file_in_ file_in file_out_ file_out ret SmoothDef aux val
395
396	for comp in ${config_ListOfComponents[*]} ; do
397	# Define component
398	eval compname=\${config_ListOfComponents_${comp}[0]} > /dev/null 2>&1
399	eval comptagname=\${config_ListOfComponents_${comp}[1]} > /dev/null 2>&1
400
401	# Debug Print :
402	IGCM_debug_Print 3 "Smooth files ${compname}"
403
404	card=${SUBMIT_DIR}/COMP/${compname}.card
405
406	IGCM_card_DefineArrayFromOption ${card} SmoothFiles List
407	ListFilesName=${compname}_SmoothFiles_List
408	eval FileName0=\${${ListFilesName}[0]} > /dev/null 2>&1
409
410	if ( [ X${FileName0} != X${NULL_STR} ] && [ X${FileName0} != X"Section" ] ) ; then
411	eval NbFiles=\${#${ListFilesName}[@]} > /dev/null 2>&1
412
413	(( i=0 ))
414	until [ $i -ge $NbFiles ]; do
415	eval file_in_=\${${ListFilesName}[$i]} > /dev/null 2>&1
416	eval file_in=${file_in_}
417	(( i_ = i+1 ))
418	eval file_out_=\${${ListFilesName}[$i_]} > /dev/null 2>&1
419	eval file_out=${file_out_}
420
421	# define CumulPeriod definition for this file
422	(( i__ = i+2 ))
423	eval SmoothDef=\${${ListFilesName}[$i__]}
424	IGCM_debug_Print 3 " ${file_in} ${SmoothDef}"
425	aux=$( IGCM_SmoothModulo ${SmoothDef} ${CumulPeriod} )
426	j=1
427	for val in ${aux} ; do
428	[ ${j} -eq 1 ] && SmoothMin=${val}
429	[ ${j} -eq 2 ] && SmoothMax=${val}
430	[ ${j} -eq 3 ] && ret=${val}
431	(( j=j+1 ))
432	done
433	[ ${SmoothMax} -eq -1 ] && SmoothMax=${CumulPeriod}
434	if ( [ X${ret} = Xtrue ] \|\| ( [ ${Period} -eq 1 ] && [ ${CumulPeriod} -ge ${SmoothMin} ] && [ ${CumulPeriod} -le ${SmoothMax} ] ) ) ; then
435
436	IGCM_sys_IsFileArchived ${file_in}
437	if [ $? = 0 ] ; then
438	IGCM_sys_Get ${file_in} ${file_out}
439	#IGCM_comp_PrepareDeletedFiles ${file_in} ${file_out}
440	else
441	IGCM_sys_Cp ${file_in} ${file_out}
442	fi
443	fi
444	(( i=i+3 ))
445	done
446	fi
447	done
448
449	IGCM_debug_PopStack "IGCM_comp_GetInputSmoothFiles"
450	}
451
452	#=======================================================================
453	function IGCM_comp_GetInputBoundaryFiles
454	{
455	IGCM_debug_PushStack "IGCM_comp_GetInputBoundaryFiles"
456
457	# Debug Print :
458	echo
459	IGCM_debug_Print 1 "IGCM_comp_GetInputBoundaryFiles"
460	echo
461
462	typeset comp compname comptagname card ListFilesName FileName0 NbFiles i i_
463	typeset file_in_ file_in file_out_ file_out
464
465	if [ ${Period} = 1 ]; then
466	ListFixBoundary=" "
467	fi
468
469	for comp in ${config_ListOfComponents[*]} ; do
470
471	# Define component
472	eval compname=\${config_ListOfComponents_${comp}[0]} > /dev/null 2>&1
473	eval comptagname=\${config_ListOfComponents_${comp}[1]} > /dev/null 2>&1
474
475	# Debug Print :
476	IGCM_debug_Print 3 "Boundary files ${compname}"
477
478	card=${SUBMIT_DIR}/COMP/${compname}.card
479
480	IGCM_card_DefineArrayFromOption ${card} BoundaryFiles List
481	ListFilesName=${compname}_BoundaryFiles_List
482	eval FileName0=\${${ListFilesName}[0]} > /dev/null 2>&1
483
484	if [ X${FileName0} != X${NULL_STR} ] ; then
485	eval NbFiles=\${#${ListFilesName}[@]} > /dev/null 2>&1
486
487	(( i=0 ))
488	until [ $i -ge $NbFiles ]; do
489	eval file_in_=\${${ListFilesName}[$i]} > /dev/null 2>&1
490	eval file_in=${file_in_}
491	(( i_ = i+1 ))
492	eval file_out_=\${${ListFilesName}[$i_]} > /dev/null 2>&1
493	eval file_out=${file_out_}
494
495	IGCM_sys_IsFileArchived ${file_in}
496	if [ $? = 0 ] ; then
497	IGCM_sys_Get ${file_in} ${file_out}
498	IGCM_comp_PrepareDeletedFiles ${file_in} ${file_out}
499	else
500	IGCM_sys_Cp ${file_in} ${file_out}
501	fi
502
503	(( i=i+2 ))
504	done
505	fi
506
507	# Get non deleted files
508	if [ ${Period} = 1 ]; then
509
510	IGCM_card_DefineArrayFromOption ${card} BoundaryFiles ListNonDel
511	ListFilesName=${compname}_BoundaryFiles_ListNonDel
512	eval FileName0=\${${ListFilesName}[0]} > /dev/null 2>&1
513
514	if [ X${FileName0} != X${NULL_STR} ] ; then
515	eval NbFiles=\${#${ListFilesName}[@]} > /dev/null 2>&1
516
517	(( i=0 ))
518	until [ $i -ge $NbFiles ]; do
519	eval file_in_=\${${ListFilesName}[$i]} > /dev/null 2>&1
520	eval file_in=${file_in_}
521	(( i_ = i+1 ))
522	eval file_out_=\${${ListFilesName}[$i_]} > /dev/null 2>&1
523	eval file_out=${file_out_}
524
525	IGCM_sys_IsFileArchived ${file_in}
526	if [ $? = 0 ] ; then
527	IGCM_sys_Get ${file_in} ${file_out}
528	#IGCM_comp_PrepareDeletedFiles ${file_in} ${file_out}
529	else
530	IGCM_sys_Cp ${file_in} ${file_out}
531	fi
532
533	if [ X${file_out} != X. ] ; then
534	ListFixBoundary=${ListFixBoundary}" "${file_out}
535	else
536	ListFixBoundary=${ListFixBoundary}" "$( basename ${file_in} )
537	fi
538
539	(( i=i+2 ))
540	done
541	fi
542	fi
543	done
544
545	IGCM_debug_PopStack "IGCM_comp_GetInputBoundaryFiles"
546	}
547
548	#=======================================================================
549	function IGCM_comp_DelFixeBoundaryFiles
550	{
551	IGCM_debug_PushStack "IGCM_comp_DelFixeBoundaryFiles"
552
553	# Debug Print :
554	echo
555	IGCM_debug_Print 1 "IGCM_comp_DelFixeBoundaryFiles"
556	echo
557
558	ls -l ${ListFixBoundary}
559	rm -f ${ListFixBoundary}
560
561	IGCM_debug_PopStack "IGCM_comp_DelFixeBoundaryFiles"
562	}
563
564	#=======================================================================
565	function IGCM_comp_GetInputParametersFiles
566	{
567	IGCM_debug_PushStack "IGCM_comp_GetInputParametersFiles"
568
569	# Debug Print :
570	echo
571	IGCM_debug_Print 1 "IGCM_comp_GetInputParametersFiles"
572	echo
573
574	typeset comp compname comptagname card ListFilesName FileName0 NbFiles i i_ file_in file_out
575	for comp in ${config_ListOfComponents[*]} ; do
576	# Define component
577	eval compname=\${config_ListOfComponents_${comp}[0]} > /dev/null 2>&1
578	eval comptagname=\${config_ListOfComponents_${comp}[1]} > /dev/null 2>&1
579
580	# Debug Print :
581	IGCM_debug_Print 3 "Parameters ${compname}"
582
583	card=${SUBMIT_DIR}/COMP/${compname}.card
584
585	IGCM_card_DefineArrayFromOption ${card} ParametersFiles List
586	ListFilesName=${compname}_ParametersFiles_List
587	eval FileName0=\${${ListFilesName}[0]} > /dev/null 2>&1
588
589	if [ X${FileName0} != X${NULL_STR} ] ; then
590	eval NbFiles=\${#${ListFilesName}[@]} > /dev/null 2>&1
591
592	(( i=0 ))
593	until [ $i -ge $NbFiles ]; do
594	eval file_in_=\${${ListFilesName}[$i]} > /dev/null 2>&1
595	eval file_in=${file_in_}
596	(( i_ = i+1 ))
597	eval file_out_=\${${ListFilesName}[$i_]} > /dev/null 2>&1
598	eval file_out=${file_out_}
599
600	IGCM_sys_Cp ${file_in} ${file_out}
601	IGCM_comp_PrepareDeletedFiles ${file_in} ${file_out}
602
603	(( i=i+2 ))
604	done
605	fi
606	done
607
608	IGCM_debug_PopStack "IGCM_comp_GetInputParametersFiles"
609	}
610
611	#=======================================================================
612	function IGCM_comp_GetInputRestartFiles
613	{
614	IGCM_debug_PushStack "IGCM_comp_GetInputRestartFiles"
615
616	# Debug Print :
617	echo
618	IGCM_debug_Print 1 "IGCM_comp_GetInputRestartFiles"
619	echo
620
621	typeset Date_tmp Date_r Path_r do_start CompOldName Path_OUT Path_BUF
622	typeset Buffered Archived Tared PotentialTarFile IsMatching TarFileFound
623	typeset comp compname comptagname card ListFilesName FileName0 NbFiles i i_
624	typeset file_in file_out file_in_ file_out_ file_in_Name
625	typeset -Z4 j4
626	#BASH declare j4
627
628	IsMatching=""
629
630	for comp in ${config_ListOfComponents[*]} ; do
631	# Define component
632	eval compname=\${config_ListOfComponents_${comp}[0]} > /dev/null 2>&1
633	eval comptagname=\${config_ListOfComponents_${comp}[1]} > /dev/null 2>&1
634	#
635	card=${SUBMIT_DIR}/COMP/${compname}.card
636	#
637	IGCM_card_DefineArrayFromOption ${card} RestartFiles List
638	ListFilesName=${compname}_RestartFiles_List
639	eval FileName0=\${${ListFilesName}[0]} > /dev/null 2>&1
640
641	# Debug Print :
642	IGCM_debug_Print 3 "restart ${compname}"
643
644	if ( ${FirstInitialize} ) ; then
645
646	if [ "${config_Restarts_OverRule}" = "y" ] ; then
647	eval config_${comp}_Restart="y"
648	eval config_${comp}_RestartDate=${config_Restarts_RestartDate}
649	eval config_${comp}_RestartJobName=${config_Restarts_RestartJobName}
650	eval config_${comp}_RestartPath=${config_Restarts_RestartPath}
651	eval do_start=\${config_${comp}_Restart} > /dev/null 2>&1
652	eval CompOldName=${comp}
653	else
654	# Read component Restarts parameters
655	IGCM_card_DefineVariableFromOption ${SUBMIT_DIR}/config.card ${comp} Restart
656	eval do_start=\${config_${comp}_Restart} > /dev/null 2>&1
657
658	if [ "${do_start}" = "y" ] ; then
659	IGCM_card_DefineVariableFromOption ${SUBMIT_DIR}/config.card ${comp} RestartDate
660	IGCM_card_DefineVariableFromOption ${SUBMIT_DIR}/config.card ${comp} RestartJobName
661	IGCM_card_DefineVariableFromOption ${SUBMIT_DIR}/config.card ${comp} RestartPath
662	else
663	eval config_${comp}_RestartDate=-1
664	eval config_${comp}_RestartJobName=${NULL_STR}
665	eval config_${comp}_RestartPath=${NULL_STR}
666	fi
667
668	eval CompOldName=\${config_${comp}_OldName}
669	if [ X${CompOldName} = X ] ; then
670	eval CompOldName=${comp}
671	fi
672
673	# Reinitialize IsMatching to allow searching for a different tar file for each component.
674	IsMatching=""
675	TarFileFound=""
676	fi
677
678	if [ "${do_start}" = "y" ] ; then
679
680	# Restore Restarts files
681	#-----------------------
682	if ( [ X${FileName0} != X${NULL_STR} ] && [ X${FileName0} != XNONE ] ) ; then
683	eval NbFiles=\${#${ListFilesName}[@]} > /dev/null 2>&1
684
685	(( i=1 ))
686	until [ $i -gt $NbFiles ]; do
687	eval file_in_=\${${ListFilesName}[$i]} > /dev/null 2>&1
688	eval file_in=${file_in_}
689	(( i_ = i+1 ))
690	eval file_out_=\${${ListFilesName}[$i_]} > /dev/null 2>&1
691	eval file_out=${file_out_}
692
693	eval Date_tmp=\${config_${comp}_RestartDate}
694	Date_r=$( IGCM_date_ConvertFormatToGregorian ${Date_tmp} )
695	# will be re-use
696	eval RestartPath=\${config_${comp}_RestartPath}
697	eval RestartJobName=\${config_${comp}_RestartJobName}
698	#
699	Path_r=${RestartPath}/${RestartJobName}/${CompOldName}/Restart
700	file_in_Name=${RestartJobName}_${Date_r}_${file_in}
701
702	extension_in=$( echo ${file_in_Name##*.} )
703	extension_out=$( echo ${file_out##*.} )
704
705	generic_restart_file_name_in=$( basename ${file_in_Name} .${extension_in} )
706	generic_restart_file_name_out=$( basename ${file_out} .${extension_out} )
707
708	Path_OUT=${Path_r}/${generic_restart_file_name_in}
709
710	if [ $( IGCM_sys_TestFileBuffer ${Path_OUT}*.${extension_in} ; echo $? ) = 0 ] ; then
711	IGCM_debug_Print 3 "Buffered restart ${Path_OUT}*.${extension_in} "
712	Buffered=true
713	Archived=false
714	Tared=false
715	nb_restart_file=$(IGCM_sys_CountFileBuffer ${Path_OUT}_????.${extension_in})
716	elif [ $( IGCM_sys_TestFileArchive ${Path_OUT}*.${extension_in} ; echo $? ) = 0 ] ; then
717	IGCM_debug_Print 3 "Archived restart ${Path_OUT}*.${extension_in}"
718	Buffered=false
719	Archived=true
720	Tared=false
721	nb_restart_file=$(IGCM_sys_CountFileArchive ${Path_OUT}_????.${extension_in})
722	else
723	IGCM_debug_Print 3 "No restart file in the buffer nor in the archive directory"
724	IGCM_debug_Print 3 "${Path_OUT}*.${extension_in} do not exist"
725	IGCM_debug_Print 3 "Restart files will now be searched for in : ${RestartPath}/${RestartJobName}/RESTART"
726	Buffered=false
727	Archived=false
728	Tared=true
729	# Look after the tar file we want if we did not found it already
730	if [ X${IsMatching} = X ] ; then
731	IGCM_sys_TestDirArchive ${RestartPath}/${RestartJobName}/RESTART
732	if [ $? ] ; then
733	for PotentialTarFile in $( IGCM_sys_RshArchive "find ${RestartPath}/${RestartJobName}/RESTART -name "${RestartJobName}_restart.tar" -print" ) ; do
734	IsMatching=$( echo ${PotentialTarFile##*/} \| \
735	sed "s:_restart::" \| \
736	sed "s:^${RestartJobName}_::" \| \
737	sed "s:\.tar$::" \| \
738	gawk -F_ -v restartdate=${Date_r} \
739	'{if (($1 <= restartdate) && ($2 >= restartdate)) {print $1"_"$2}}' )
740	if [ ! X${IsMatching} = X ] ; then
741	TarFileFound=${PotentialTarFile}
742	break
743	fi
744	done
745	fi
746	# Stop here if nothing has been found
747	if [ X${TarFileFound} = X ] ; then
748	IGCM_debug_Print 3 "Restart files were not found!"
749	IGCM_debug_Print 3 "Restart files have been searched for in buffer and archive directory."
750	IGCM_debug_Print 3 "They have been searched for in packed and unpacked format."
751	IGCM_debug_Exit "Please double check restart settings in config.card"
752	IGCM_debug_Verif_Exit
753	fi
754	fi
755	IGCM_sys_PrepareTaredRestart ${TarFileFound}
756	TarFileLocation=$( basename ${TarFileFound} )
757	IGCM_debug_Print 1 "tar xvf ${TarFileLocation} ${comp}_${generic_restart_file_name_in}*.${extension_in}"
758	tar xvf ${TarFileLocation} ${comp}_${generic_restart_file_name_in}*.${extension_in}
759	nb_restart_file=$( IGCM_sys_CountFileBuffer ${comp}_${generic_restart_file_name_in}_????.${extension_in} )
760	fi
761
762	if [ ${nb_restart_file} -gt 1 ] ; then
763	j=0 # BASH LINE NOT NEEDED
764	# BASH for j4 in in $( eval echo {0000..$(( nb_restart_file - 1 ))} ) ; do
765	until [ $j -ge ${nb_restart_file} ]; do # BASH LINE NOT NEEDED
766	j4=${j} # BASH LINE NOT NEEDED
767	if [ X${Buffered} = Xtrue ] ; then
768	IGCM_sys_GetBuffer ${Path_OUT}_${j4}.${extension_in} ${generic_restart_file_name_out}_${j4}.${extension_out}
769	elif [ X${Archived} = Xtrue ] ; then
770	IGCM_sys_Get ${Path_OUT}_${j4}.${extension_in} ${generic_restart_file_name_out}_${j4}.${extension_out}
771	elif [ X${Tared} = Xtrue ] ; then
772	IGCM_sys_Mv ${comp}_${generic_restart_file_name_in}_${j4}.${extension_in} ${generic_restart_file_name_out}_${j4}.${extension_out}
773	fi
774	(( j=j+1 )) #BASH LINE NOT NEEDED
775	done
776
777	if [ X${NUM_PROC_OCE} != X ] ; then
778	if [ ${NUM_PROC_OCE} -ne ${nb_restart_file} ] ; then
779	IGCM_sys_rebuild ${generic_restart_file_name_out}.${extension_out} ${generic_restart_file_name_out}_????.${extension_out}
780	IGCM_sys_Rm ${generic_restart_file_name_out}_????.${extension_out}
781	fi
782	fi
783	else
784	if [ X${Buffered} = Xtrue ] ; then
785	IGCM_sys_GetBuffer ${Path_r}/${file_in_Name} ${file_out}
786	elif [ X${Archived} = Xtrue ] ; then
787	IGCM_sys_Get ${Path_r}/${file_in_Name} ${file_out}
788	elif [ X${Tared} = Xtrue ] ; then
789	IGCM_sys_Mv ${comp}_${file_in_Name} ${file_out}
790	fi
791	fi
792	(( i=i+3 ))
793	done
794	else
795	if [ X${FileName0} != XNONE ] ; then
796	IGCM_debug_Exit "IGCM_comp_GetInputRestartFiles : No file in list for ${compname}."
797	else
798	IGCM_debug_Print 1 "IGCM_comp_GetInputRestartFiles : NONE specified in Restart List ${compname}."
799	fi
800	fi
801	fi
802	elif ( [ ${Period} -eq 1 ] && [ ${DRYRUN} -eq 0 ] ) ; then
803	# if not FirstInitialize and first loop of this job
804
805	# Restore Restarts files
806	#-----------------------
807	if ( [ X${FileName0} != X${NULL_STR} ] && [ X${FileName0} != XNONE ] ) ; then
808	eval NbFiles=\${#${ListFilesName}[@]} > /dev/null 2>&1
809
810	(( i=1 ))
811	until [ $i -gt $NbFiles ]; do
812	eval file_in_=\${${ListFilesName}[$i]} > /dev/null 2>&1
813	eval file_in=${file_in_}
814	(( i_ = i+1 ))
815	eval file_out_=\${${ListFilesName}[$i_]} > /dev/null 2>&1
816	eval file_out=${file_out_}
817
818	file_in_Name=${config_UserChoices_JobName}_${LastPeriodDateEnd}_${file_in}
819
820	extension_in=$( echo ${file_in_Name##*.} )
821	extension_out=$( echo ${file_out##*.} )
822
823	generic_restart_file_name_in=$( basename ${file_in_Name} .${extension_in} )
824	generic_restart_file_name_out=$( basename ${file_out} .${extension_out} )
825
826	eval Path_BUF=\${R_BUF_${comp}_R}/${generic_restart_file_name_in}
827	eval Path_OUT=\${R_OUT_${comp}_R}/${generic_restart_file_name_in}
828
829	if [ $( IGCM_sys_TestFileBuffer ${Path_BUF}*.${extension_in} ; echo $? ) = 0 ] ; then
830	IGCM_debug_Print 3 "Buffered restart ${Path_BUF}*.${extension_in}"
831	Buffered=true
832	Archived=false
833	Tared=false
834	nb_restart_file=$(IGCM_sys_CountFileBuffer ${Path_BUF}_????.${extension_in})
835	elif [ $( IGCM_sys_TestFileArchive ${Path_OUT}*.${extension_in} ; echo $? ) = 0 ] ; then
836	IGCM_debug_Print 3 "Archived restart ${Path_OUT}*.${extension_in}"
837	Buffered=false
838	Archived=true
839	Tared=false
840	nb_restart_file=$(IGCM_sys_CountFileArchive ${Path_OUT}_????.${extension_in})
841	else
842	IGCM_debug_Print 3 "No restart file in the buffer nor in the archive directory"
843	IGCM_debug_Print 3 "Restart files will now be searched for in : ${R_SAVE}/RESTART"
844	Buffered=false
845	Archived=false
846	Tared=true
847	# Look after the tar file we want if we did not found it already
848	if [ X${IsMatching} = X ] ; then
849	for PotentialTarFile in $( IGCM_sys_RshArchive "find ${R_SAVE}/RESTART -name "${config_UserChoices_JobName}_*_restart.tar" -print" ) ; do
850	IsMatching=$( echo ${PotentialTarFile##*/} \| sed "s:^${config_UserChoices_JobName}_::" \| sed "s:\.restart\.tar$::" \| gawk -F_ -v restartdate=${LastPeriodDateEnd} '{if (($1 < restartdate) && ($2 >= restartdate)) {print $1"_"$2}}' )
851	if [ ! X${IsMatching} = X ] ; then
852	TarFileFound=${PotentialTarFile}
853	break
854	fi
855	done
856	fi
857	# Stop here if nothing has been found
858	if [ X${TarFileFound} = X ] ; then
859	IGCM_debug_Print 3 "Restart files were not found!"
860	IGCM_debug_Print 3 "Restart files have been searched for in buffer and archive directory."
861	IGCM_debug_Print 3 "They have been searched for in packed and unpacked format."
862	IGCM_debug_Exit "Please double check restart settings in config.card"
863	IGCM_debug_Verif_Exit
864	fi
865	IGCM_sys_PrepareTaredRestart ${TarFileFound}
866	TarFileLocation=$( basename ${TarFileFound} )
867	IGCM_debug_Print 1 "tar xvf ${TarFileLocation} ${comp}_${generic_restart_file_name_in}*.${extension_in}"
868	tar xvf ${TarFileLocation} ${comp}_${generic_restart_file_name_in}*.${extension_in}
869	nb_restart_file=$( IGCM_sys_CountFileBuffer ${comp}_${generic_restart_file_name_in}_????.${extension_in} )
870	fi
871
872	if [ ${nb_restart_file} -gt 1 ] ; then
873	j=0 # BASH LINE NOT NEEDED
874	#BASH for j4 in in $( eval echo {0000..$(( nb_restart_file - 1 ))} ) ; do
875	until [ $j -ge ${nb_restart_file} ]; do # BASH LINE NOT NEEDED
876	j4=${j} # BASH LINE NOT NEEDED
877	if [ X${Buffered} = Xtrue ] ; then
878	IGCM_sys_GetBuffer ${Path_BUF}_${j4}.${extension_in} ${generic_restart_file_name_out}_${j4}.${extension_out}
879	elif [ X${Archived} = Xtrue ] ; then
880	IGCM_sys_Get ${Path_OUT}_${j4}.${extension_in} ${generic_restart_file_name_out}_${j4}.${extension_out}
881	elif [ X${Tared} = Xtrue ] ; then
882	IGCM_sys_Mv ${comp}_${generic_restart_file_name_in}_${j4}.${extension_in} ${generic_restart_file_name_out}_${j4}.${extension_out}
883	fi
884	(( j=j+1 )) # BASH LINE NOT NEEDED
885	done
886	else
887	if [ X${Buffered} = Xtrue ] ; then
888	eval IGCM_sys_GetBuffer \${R_BUF_${comp}_R}/${file_in_Name} ${file_out}
889	elif [ X${Archived} = Xtrue ] ; then
890	eval IGCM_sys_Get \${R_OUT_${comp}_R}/${file_in_Name} ${file_out}
891	elif [ X${Tared} = Xtrue ] ; then
892	IGCM_sys_Mv ${comp}_${file_in_Name} ${file_out}
893	fi
894	fi
895	(( i=i+3 ))
896	done
897	else
898	if [ X${FileName0} != XNONE ] ; then
899	IGCM_debug_Exit "IGCM_comp_GetInputRestartFiles : No file in list for ${compname}."
900	else
901	IGCM_debug_Print 1 "IGCM_comp_GetInputRestartFiles : NONE specified in Restart List ${compname}."
902	fi
903	fi
904	fi
905	done
906
907	NbFiles=$( ls * 2> /dev/null \| wc -l )
908	if [ ${NbFiles} -gt 0 ] ; then
909	IGCM_sys_Chmod u+rw *
910	fi
911
912	IGCM_debug_PopStack "IGCM_comp_GetInputRestartFiles"
913	}
914
915	#=======================================================================
916	function IGCM_comp_PeriodStart
917	{
918	IGCM_debug_PushStack "IGCM_comp_PeriodStart"
919
920	# Debug Print :
921	echo
922	IGCM_debug_Print 1 "IGCM_comp_PeriodStart"
923	echo
924
925	typeset ExeNameIn ExeNameOut
926	typeset comp compname comptagname
927	for comp in ${config_ListOfComponents[*]} ; do
928	# Define component
929	eval compname=\${config_ListOfComponents_${comp}[0]} > /dev/null 2>&1
930	eval comptagname=\${config_ListOfComponents_${comp}[1]} > /dev/null 2>&1
931
932	# Copy executable for this component
933	eval ExeNameIn=\${config_Executable_${comp}[0]}
934	eval ExeNameOut=\${config_Executable_${comp}[1]}
935
936	# Debug Print
937	IGCM_debug_Print 3 "PeriodStart ${compname} Driver Function (if any)."
938	# UPDATE component
939	${comp}_PeriodStart 2> /dev/null
940
941	done
942
943	IGCM_debug_PopStack "IGCM_comp_PeriodStart"
944	}
945
946	#=======================================================================
947	function IGCM_comp_modifyDefFile
948	{
949	#
950	# syntax: IGCM_comp_modifyDefFile type filein key [value]
951	#
952	# For example : IGCM_comp_modifyDefFile blocker run.def day_step 1200
953	#
954	# This function is used to modify a parameter file for a specific variable.
955	# The file must be a ".def" file, i.e. with IOIPSL parameter file syntax.
956	# This function can be used in the comp.driver files for the components.
957	#
958	# Arguments:
959	# - type : first argument must be blocker or nonblocker.
960	# For "blocker" case, the variable must be attributed the keyworld AUTO
961	# otherwise this function will exit.
962	# For "nonblocker" case, the user can remove or modify the variable. For
963	# this case, as long as AUTO is not set, no modification will be done.
964	# - filein : the file in run directory of .def type in which the variable should be set
965	# - key : the variable to modify
966	# - value : the value to set the key equal to, optional. If value is not set or if
967	# value=DEFAULT, then a default value must be given in filein using syntax :
968	# key= AUTO : DEFAULT=def_value
969	#
970	IGCM_debug_PushStack "IGCM_comp_modifyDefFile"
971
972	# Set local variables and test the arguments
973	if [ $# = 4 ] ; then
974	# Normal case with 4 arguments
975	type=$1 ; filein=$2 ; key=$3 ; value=$4
976	elif [ $# = 3 ] ; then
977	# Normal case with 3 arguments
978	type=$1 ; filein=$2 ; key=$3; value="DEFAULT"
979	else
980	IGCM_debug_Exit "IGCM_comp_modifyDefFile: Bad number of arguments."
981	return
982	fi
983	IGCM_debug_Print 1 "Entering IGCM_comp_modifyDefFile with arguments: $type $filein $key $value"
984
985	# Test if first argument is correct
986	if [ $type != blocker ] && [ $type != nonblocker ] ; then
987	IGCM_debug_Exit "IGCM_comp_modifyDefFile: Error in first argument must be blocker or nonblocker"
988	return
989	fi
990
991	# Test if the file exist
992	if [ ! -f ${filein} ] ; then
993	IGCM_debug_Exit "IGCM_comp_modifyDefFile: $filein does not exist."
994	return
995	fi
996
997	# Define list of files to test using all files with suffix .def
998	filelist=$( ls *def )
999
1000	# Count number of occurances for the key in all files
1001	nb_occ=$( grep -w $key $filelist \|grep -v "#" \|wc -l )
1002
1003	# Test if key is set several times
1004	if [ $nb_occ -gt 1 ] ; then
1005	IGCM_debug_Exit "IGCM_comp_modifyDefFile : Error in $filein: Variable=$key is set ${nb_occ} times"
1006	return
1007	fi
1008
1009	# Treatement according to different cases
1010	if [ $nb_occ -eq 0 ] && [ $type = blocker ] ; then
1011	# Stop if the key is never set and the function is blocker
1012	IGCM_debug_Exit "IGCM_comp_modifyDefFile : Error in $filein: Variable=$key has been removed but this function is blocker. "
1013	IGCM_debug_Print 1 "IGCM_comp_modifyDefFile: restore $filein for variable $key."
1014	elif [ $nb_occ -eq 0 ] && [ $type = nonblocker ] ; then
1015	# The key is not set but it is a nonblocker call so nothing is done.
1016	IGCM_debug_Print 1 "IGCM_comp_modifyDefFile: $key is not set in $filein. This is a nonblocker call so nothing is done."
1017	IGCM_debug_Print 1 "IGCM_comp_modifyDefFile: Default value for $key from the model will be used."
1018	elif [ $( grep $key $filein \| grep -v "\#" \|wc -l ) = 0 ] ; then
1019	# Variable key is not set in filein, stop.
1020	IGCM_debug_Exit "IGCM_comp_modifyDefFile : Variable $key is not set in correct file. It should be set in $filein."
1021	else
1022	# Read the value of key from filein
1023	if [ X"$( grep $key $filein \| grep -v "\#" \| grep AUTO )" = "X" ] ; then
1024	# The key variable is not set to AUTO
1025	if [ $type = blocker ] ; then
1026	# Stop because this is a blocker call
1027	IGCM_debug_Exit "IGCM_comp_modifyDefFile : The variable $key cannot be modified. It should be set to AUTO."
1028	else
1029	# Do nothing. Suppose that the user did set the variable correct
1030	IGCM_debug_Print 1 "IGCM_comp_modifyDefFile: $key is set by the user. Nothing done."
1031	fi
1032	else
1033	# The variable key is set to AUTO.
1034
1035	# For option DEFAULT, read default value from file.
1036	if [ X"$value" = XDEFAULT ] \|\| [ X"$value" = X ] ; then
1037	# Case to set DEFAULT value
1038	# Read default value from filein
1039	value=$( grep $key $filein \| grep -v "\#" \| awk -F"DEFAULT *=" '{print $2}')
1040
1041	if [ X"$value" = X ] ; then
1042	IGCM_debug_Exit "IGCM_comp_modifyDefFile : The variable $key needs a DEFAULT value in $filein."
1043	IGCM_debug_Print 1 "IGCM_comp_modifyDefFile: The syntax in $filein should be:"
1044	IGCM_debug_Print 1 "IGCM_comp_modifyDefFile: $key=_AUTO_:DEFAULT=def_value"
1045	return
1046	fi
1047	fi
1048
1049	# Now change key in filein
1050	sed -e "s/^${key}\ =./${key}= ${value}/" $filein > $filein.tmp
1051	IGCM_debug_Print 1 "IGCM_comp_modifyDefFile: In $filein set $key=$value"
1052	\mv $filein.tmp $filein
1053	fi
1054	fi
1055	}
1056
1057	#=======================================================================
1058	function IGCM_comp_modifyXmlFile
1059	{
1060	#
1061	# syntax: IGCM_comp_modifyXmlFile type filein keyid keyattrib value
1062	#
1063	# For example : IGCM_comp_modifyXmlFile force file_def_orchidee.xml sechiba2 enabled .TRUE.
1064	# or IGCM_comp_modifyXmlFile blocker iodef.xml using_server NONE false
1065	#
1066	# This function is used to modify the value for a specific attribute and variable id.
1067	# The file must be a of xml syntax.
1068	# This function can be used in the comp.driver files for the components.
1069	#
1070	# Arguments:
1071	# - type : first argument must be blocker, nonblocker or force.
1072	# For "blocker" case, the variable must be attributed the keyworld AUTO
1073	# otherwise this function will exit.
1074	# For "nonblocker" case, the user can remove or modify the variable. For
1075	# this case, as long as AUTO is not set, no modification will be done.
1076	# For "force" case, the variable will be modified even if it is not set to AUTO
1077	# - filein : the file in run directory of .xml type in which the variable should be set
1078	# - keyid : the variable to modify
1079	# - keyattrib : the attribute name to modify. If NONE, then the variable itself will be modified
1080	# - value : the value to set in the filein
1081	#
1082	IGCM_debug_PushStack "IGCM_comp_modifyXmlFile"
1083
1084	# Set local variables and test the arguments
1085	if [ $# = 5 ] ; then
1086	# Normal case with 4 arguments
1087	type=$1 ; filein=$2 ; keyid=$3 ; keyattrib=$4 ; value=$5
1088	else
1089	IGCM_debug_Exit "IGCM_comp_modifyXmlFile: Bad number of arguments."
1090	return
1091	fi
1092	IGCM_debug_Print 2 "Entering IGCM_comp_modifyXmlFile with arguments: type=$type file=$filein, id=$keyid attribute=$keyattrib, value=$value"
1093
1094	# Test if first argument is correct
1095	if [ $type != blocker ] && [ $type != nonblocker ] && [ $type != force ] ; then
1096	IGCM_debug_Exit "IGCM_comp_modifyXmlFile: Error in first argument must be blocker, nonblocker or force"
1097	return
1098	fi
1099
1100	# Test if the file exist
1101	if [ ! -f ${filein} ] ; then
1102	IGCM_debug_Exit "IGCM_comp_modifyXmlFile: $filein does not exist."
1103	return
1104	fi
1105
1106	# Test if keyid is set in filein, otherwise exit
1107	if [ $( grep -w $keyid $filein \| wc -l ) = 0 ] ; then
1108	# Variable key is not set in filein, stop.
1109	IGCM_debug_Exit "IGCM_comp_modifyXmlFile : $keyid is not set in the file. Bad syntax of $filein file."
1110	return
1111	fi
1112
1113	# Check if AUTO is set on the same line as keyid and keyattrib
1114	if [ $( grep -w $keyid $filein \| grep AUTO \| wc -l ) = 1 ] ; then
1115	# Modifification will be done
1116	modify=yes
1117	else
1118	if [ $type = blocker ] ; then
1119	# Exit, the variable must be set to AUTO
1120	IGCM_debug_Exit "IGCM_comp_modifyXmlFile : blocker function. The $keyattrib for $keyid must be set to AUTO in $filein."
1121	return
1122	elif [ $type = nonblocker ] ; then
1123	# Nothing will be done
1124	IGCM_debug_Print 1 "Nonblocker nothing is done for ${filein}, id=${keyid} and attribute ${keyattrib}"
1125	modify=no
1126	elif [ $type = force ] ; then
1127	# Force modification
1128	IGCM_debug_Print 1 "IGCM_comp_modifyXmlFile : Attribute=$keyattrib for id=$keyid was not set to AUTO. Modification will be forced."
1129	modify=yes
1130	fi
1131	fi
1132
1133	# Do the modifcation now
1134	if [ $modify = yes ] ; then
1135	if [ $keyattrib = NONE ] ; then
1136	# Case to modify the variable itself
1137	IGCM_debug_Print 1 "Now modify ${filein} for id=${keyid} by setting the variable=${value}"
1138	sed -e "s/\(<[^\"]\"${keyid}\".>\)\([^<]\)\(<[^>]\)/\1${value}\3/" $filein > $filein.tmp
1139	else
1140	# Case to modify the attribute value
1141	IGCM_debug_Print 1 "Now modify ${filein} for id=${keyid} by setting attribute to ${keyattrib}=${value}"
1142	sed -e "/id=\"${keyid}\"/s/\(${keyattrib}=\"\)[^\"]*\(\"\)/\1${value}\2/" $filein > $filein.tmp
1143	fi
1144	\mv $filein.tmp $filein
1145	fi
1146	IGCM_debug_PopStack "IGCM_comp_modifyXmlFile"
1147	}
1148
1149	#=======================================================================
1150	function IGCM_comp_Update
1151	{
1152	IGCM_debug_PushStack "IGCM_comp_Update"
1153
1154	# Debug Print :
1155	echo
1156	IGCM_debug_Print 1 "IGCM_comp_Update"
1157	echo
1158
1159	typeset ExeNameIn ExeNameOut
1160	typeset comp compname comptagname
1161	for comp in ${config_ListOfComponents[*]} ; do
1162	# Define component
1163	eval compname=\${config_ListOfComponents_${comp}[0]} > /dev/null 2>&1
1164	eval comptagname=\${config_ListOfComponents_${comp}[1]} > /dev/null 2>&1
1165
1166	# Copy executable for this component
1167	eval ExeNameIn=\${config_Executable_${comp}[0]}
1168	eval ExeNameOut=\${config_Executable_${comp}[1]}
1169
1170	# If missing executable and DRYRUN is set to 0 or 1 then stop!
1171	if [ ${DRYRUN} -le 1 ] && [ X${ExeNameIn} != X\"\" ] && [ ! -f ${R_EXE}/${ExeNameIn} ] ; then
1172	IGCM_debug_Exit "IGCM_comp_Update missing executable ${ExeNameIn}"
1173	fi
1174
1175	if [ ${Period} -eq 1 ] && [ -f ${R_EXE}/${ExeNameIn} ] ; then
1176	eval IGCM_sys_Cp ${R_EXE}/${ExeNameIn} ${ExeNameOut}
1177	if [ -f ${RUN_DIR}/${ExeNameOut} ] ; then
1178	eval IGCM_sys_Chmod +rx ${RUN_DIR}/${ExeNameOut}
1179	fi
1180	elif [ -f ${R_EXE}/${ExeNameIn} ] && [ ! -f ${RUN_DIR}/${ExeNameOut} ] ; then
1181	eval IGCM_sys_Cp ${R_EXE}/${ExeNameIn} ${ExeNameOut}
1182	if [ -f ${RUN_DIR}/${ExeNameOut} ] ; then
1183	eval IGCM_sys_Chmod +rx ${RUN_DIR}/${ExeNameOut}
1184	fi
1185	fi
1186
1187	# Debug Print
1188	IGCM_debug_Print 1 "Update ${compname} Parameter Files."
1189	# UPDATE component
1190	${comp}_Update
1191
1192	done
1193
1194	IGCM_debug_PopStack "IGCM_comp_Update"
1195	}
1196
1197	#=======================================================================
1198	function IGCM_comp_Finalize
1199	{
1200	IGCM_debug_PushStack "IGCM_comp_Finalize"
1201
1202	# Debug Print :
1203	echo
1204	IGCM_debug_Print 1 "IGCM_comp_Finalize"
1205	echo
1206
1207	typeset ListTextName TextName0
1208	typeset comp compname comptagname card ListFilesName FileName0 NbFiles SaveOnArchive
1209	typeset i i_ file_in file_in_ file_out file_out_ file_outin file_outin_ generic_file_name nb_rebuild_file
1210	typeset -Z4 j4
1211	#BASH declare j4
1212	typeset list_file nlist_file
1213	typeset compactoutputs
1214
1215	compactoutputs=false
1216	if [ X${JobType} != XRUN ] ; then
1217	compactoutputs=true
1218	elif [ X${config_UserChoices_CompactText} != Xn ] ; then
1219	compactoutputs=true
1220	fi
1221
1222	# Prepare headers for the shell dedicated to offline rebuild
1223	if [ X${AsynchronousRebuild} = Xtrue ] ; then
1224	[ ! -d ${RUN_DIR}/REBUILD_${PeriodDateBegin} ] && IGCM_sys_Mkdir ${RUN_DIR}/REBUILD_${PeriodDateBegin}
1225	if [ ${DRYRUN} -le 1 ] ; then
1226	echo "#!/bin/ksh " > ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1227	echo "function IGCM_FlushRebuild " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1228	echo "{ " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1229	echo "IGCM_debug_PushStack \"IGCM_FlushRebuild\" " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1230	echo "echo " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1231	echo "IGCM_debug_Print 1 \"IGCM_FlushRebuild\" " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1232	echo "echo " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1233	echo "export R_SAVE=${R_SAVE} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1234	echo "export R_BUFR=${R_BUFR} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1235	echo "export R_OUT_KSH=${R_OUT_KSH} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1236	echo "export R_BUF_KSH=${R_BUF_KSH} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1237	echo "export config_UserChoices_JobName=${config_UserChoices_JobName} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1238	echo "export config_UserChoices_SpaceName=${config_UserChoices_SpaceName} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1239	fi
1240	fi
1241
1242	for comp in ${config_ListOfComponents[*]} ; do
1243	# Define component
1244	eval compname=\${config_ListOfComponents_${comp}[0]} > /dev/null 2>&1
1245	eval comptagname=\${config_ListOfComponents_${comp}[1]} > /dev/null 2>&1
1246
1247	# Debug Print
1248	IGCM_debug_Print 1 "Finalize ${comp} : ${compname} component."
1249	# FINALIZE component
1250	${comp}_Finalize
1251
1252	card=${SUBMIT_DIR}/COMP/${compname}.card
1253
1254	# Save Output Text files of models
1255	#---------------------------------
1256	IGCM_debug_Print 2 "Save Output Text files for ${comp} : ${compname} component."
1257	IGCM_card_DefineArrayFromOption ${card} OutputText List
1258	ListTextName=${compname}_OutputText_List
1259
1260	eval TextName0=\${${ListTextName}[0]} > /dev/null 2>&1
1261	if [ X${TextName0} != X${NULL_STR} ] ; then
1262	eval NbFiles=\${#${ListTextName}[@]} > /dev/null 2>&1
1263
1264	(( i=0 ))
1265	until [ $i -eq $NbFiles ]; do
1266	eval file_in=\${${ListTextName}[$i]} > /dev/null 2>&1
1267	eval file_out=${PREFIX}_${file_in}
1268
1269	(( i=i+1 ))
1270
1271	unset list_file
1272	#set +A list_file -- $( ls ${file_in}* \| sort 2>/dev/null )
1273	# result for a a1 a10 a2 with file_in=a a a1 a2 a10
1274	set +A list_file -- $( [ -f ${file_in} ] && ls ${file_in} ; for i in $(ls ${file_in}* 2>/dev/null \| sed "s/${file_in}//" \| sort -n) ; do ls ${file_in}$i ; done )
1275	nlist_file=${#list_file[@]}
1276	if [ ${nlist_file} -gt 1 ] ; then
1277	if ( ${compactoutputs} ) ; then
1278	IGCM_debug_Print 2 "Parallelism of Text Output with ${nlist_file} files."
1279	IGCM_debug_Print 2 "Compact files in ${file_out} : " ${list_file[*]}
1280	echo ${list_file[*]} > ${file_out}
1281	echo "" >> ${file_out}
1282
1283	(( i_ = 0 ))
1284	for file in ${list_file[@]}
1285	do
1286	echo "_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ " >> ${file_out}
1287	echo "\| " ${i_} " " ${file} >> ${file_out}
1288	echo "- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - " >> ${file_out}
1289	cat ${file} \| sed "s/\(.*\)/${i_}\1/" >> ${file_out}
1290	echo "" >> ${file_out}
1291	eval FileToBeDeleted[${#FileToBeDeleted[@]}]="${file}" > /dev/null 2>&1
1292	(( i_ = i_ + 1 ))
1293	done
1294	if [ X${Pack} = Xtrue ] ; then
1295	eval IGCM_sys_PutBuffer_Out ${file_out} \${R_BUF_${comp}_D}/${file_out}
1296	else
1297	eval IGCM_sys_Put_Out ${file_out} \${R_OUT_${comp}_D}/${file_out}
1298	fi
1299	eval FileToBeDeleted[${#FileToBeDeleted[@]}]="${file_out}" > /dev/null 2>&1
1300
1301	if ( ${ExecutionFail} ) ; then
1302	IGCM_sys_Cp ${file_out} ${SUBMIT_DIR}/Debug
1303	fi
1304	else
1305	for file in ${list_file[@]}
1306	do
1307	if [ X${Pack} = Xtrue ] ; then
1308	eval IGCM_sys_PutBuffer_Out ${file} \${R_BUF_${comp}_D}/${PREFIX}_${file}
1309	else
1310	eval IGCM_sys_Put_Out ${file} \${R_OUT_${comp}_D}/${PREFIX}_${file}
1311	fi
1312	eval FileToBeDeleted[${#FileToBeDeleted[@]}]="${file}" > /dev/null 2>&1
1313
1314	if ( ${ExecutionFail} ) ; then
1315	IGCM_sys_Cp ${file} ${SUBMIT_DIR}/Debug/${PREFIX}_${file}
1316	fi
1317	done
1318	fi
1319	else
1320	if ( [ -f ${file_in}_0000 ] \|\| [ -f ${file_in}0 ] ) ; then
1321	eval IGCM_sys_Mv ${file_in}* ${file_in}
1322	fi
1323	if [ X${Pack} = Xtrue ] ; then
1324	eval IGCM_sys_PutBuffer_Out ${file_in} \${R_BUF_${comp}_D}/${file_out}
1325	else
1326	eval IGCM_sys_Put_Out ${file_in} \${R_OUT_${comp}_D}/${file_out}
1327	fi
1328	eval FileToBeDeleted[${#FileToBeDeleted[@]}]="${file_in}" > /dev/null 2>&1
1329
1330	if ( ${ExecutionFail} ) ; then
1331	IGCM_sys_Cp ${file_in} ${SUBMIT_DIR}/Debug/${file_out}
1332	fi
1333	fi
1334	done
1335	fi
1336
1337	# Save Restarts files
1338	#--------------------
1339	IGCM_debug_Print 2 "Save Restart files for ${comp} : ${compname} component."
1340	IGCM_card_DefineArrayFromOption ${card} RestartFiles List
1341	ListFilesName=${compname}_RestartFiles_List
1342	eval FileName0=\${${ListFilesName}[0]} > /dev/null 2>&1
1343
1344	if ( [ X${FileName0} != X${NULL_STR} ] && [ X${FileName0} != XNONE ] ) ; then
1345	eval NbFiles=\${#${ListFilesName}[@]} > /dev/null 2>&1
1346
1347	(( i=0 ))
1348	until [ $i -ge $NbFiles ]; do
1349	eval file_in_=\${${ListFilesName}[$i]} > /dev/null 2>&1
1350	eval file_in=${file_in_}
1351
1352	(( i_ = i+1 ))
1353	eval file_out_=\${${ListFilesName}[$i_]} > /dev/null 2>&1
1354	eval file_out=${file_out_}
1355
1356	(( i_ = i+2 ))
1357	eval file_outin_=\${${ListFilesName}[$i_]} > /dev/null 2>&1
1358	eval file_outin=${file_outin_}
1359
1360	generic_restart_file_name_in=$( basename ${file_in} .nc )
1361	generic_restart_file_name_out=$( basename ${config_UserChoices_JobName}_${PeriodDateEnd}_${file_out} .nc )
1362	generic_restart_file_name_outin=$( basename ${file_outin} .nc )
1363
1364	nb_restart_file=$( ls ${generic_restart_file_name_in}_????.nc 2>/dev/null \| wc -l )
1365	if [ ${nb_restart_file} -gt 1 ] ; then
1366	j=0 # BASH LINE NOT NEEDED
1367	# BASH for j4 in in $( eval echo {0000..$(( nb_restart_file - 1 ))} ) ; do
1368	until [ $j -ge ${nb_restart_file} ]; do # BASH LINE NOT NEEDED
1369	j4=${j} # BASH LINE NOT NEEDED
1370	if [ X${Pack} = Xtrue ] ; then
1371	eval IGCM_sys_PutBuffer_Rest ${generic_restart_file_name_in}_${j4}.nc \${R_BUF_${comp}_R}/${generic_restart_file_name_out}_${j4}.nc
1372	else
1373	eval IGCM_sys_Put_Rest ${generic_restart_file_name_in}_${j4}.nc \${R_OUT_${comp}_R}/${generic_restart_file_name_out}_${j4}.nc
1374	fi
1375	if [ ! ${file_in} = ${file_outin} ] ; then
1376	if ( ${ExitFlag} ) ; then
1377	echo "IGCM_sys_Mv ${generic_restart_file_name_in}_${j4}.nc ${generic_restart_file_name_outin}_${j4}.nc not executed."
1378	else
1379	IGCM_sys_Mv ${generic_restart_file_name_in}_${j4}.nc ${generic_restart_file_name_outin}_${j4}.nc
1380	fi
1381	fi
1382	(( j=j+1 )) # BASH LINE NOT NEEDED
1383	done
1384	else
1385	if [ X${Pack} = Xtrue ] ; then
1386	eval IGCM_sys_PutBuffer_Rest ${file_in} \${R_BUF_${comp}_R}/${config_UserChoices_JobName}_${PeriodDateEnd}_${file_out}
1387	else
1388	eval IGCM_sys_Put_Rest ${file_in} \${R_OUT_${comp}_R}/${config_UserChoices_JobName}_${PeriodDateEnd}_${file_out}
1389	fi
1390	if [ ! ${file_in} = ${file_outin} ] ; then
1391	if ( ${ExitFlag} ) ; then
1392	echo "IGCM_sys_Mv ${file_in} ${file_outin} not executed."
1393	else
1394	IGCM_sys_Mv ${file_in} ${file_outin}
1395	fi
1396	fi
1397	fi
1398
1399	(( i=i+3 ))
1400	done
1401	else
1402	if [ X${FileName0} != XNONE ] ; then
1403	IGCM_debug_Exit "IGCM_comp_Finalize : No file in restart list for ${compname}."
1404	else
1405	IGCM_debug_Print 1 "IGCM_comp_Finalize : NONE specified in Restart List ${compname}."
1406	fi
1407	fi
1408
1409	# Save Output files
1410	#------------------
1411	IGCM_debug_Print 2 "Save Output files for ${comp} : ${compname} component."
1412	IGCM_card_DefineArrayFromOption ${card} OutputFiles List
1413	ListFilesName=${compname}_OutputFiles_List
1414	eval FileName0=\${${ListFilesName}[0]} > /dev/null 2>&1
1415
1416	if [ X${FileName0} != X${NULL_STR} ] ; then
1417	eval NbFiles=\${#${ListFilesName}[@]} > /dev/null 2>&1
1418
1419	(( i=0 ))
1420	until [ $i -ge $NbFiles ]; do
1421	SaveOnArchive=true
1422	eval file_in_=\${${ListFilesName}[$i]} > /dev/null 2>&1
1423	eval file_in=${file_in_}
1424	(( i_ = i+1 ))
1425	eval file_out_=\${${ListFilesName}[$i_]} > /dev/null 2>&1
1426	eval file_out=${file_out_}
1427	#
1428	# Override file_out path remplacing R_SAVE by R_BUFR
1429	#
1430	if [ X${Pack} = Xtrue ] ; then
1431	file_out=$( echo $file_out \| sed "s:^$R_SAVE:$R_BUFR:" )
1432	fi
1433	#
1434	# Not necessarily the best option. /!\ Potential side effects /!\
1435	#
1436	(( i_ = i+2 ))
1437	eval flag_post=\${${ListFilesName}[$i_]} > /dev/null 2>&1
1438	#
1439	generic_file_name=$( basename ${file_in} .nc )
1440	nb_rebuild_file=$( ls \| grep "^${generic_file_name}_[0-9]*.nc" \| wc -l )
1441	#
1442	if ( [ ${nb_rebuild_file} -eq 1 ] && [ -f ${generic_file_name}_0000.nc ] ) ; then
1443	IGCM_debug_Print 2 "Parallelism with 1 file. Rebuilding ${file_in} not needed"
1444	IGCM_sys_Mv ${generic_file_name}_0000.nc ${file_in}
1445	elif [ ${nb_rebuild_file} -gt 1 ] ; then
1446	IGCM_debug_Print 2 "Parallelism detected and rebuilding ${file_in} is needed"
1447	if [ X${AsynchronousRebuild} = Xfalse ] ; then
1448	IGCM_debug_Print 2 "Rebuilding ${file_in} online"
1449	IGCM_sys_rebuild ${file_in} ${generic_file_name}_[0-9]*.nc
1450	else
1451	IGCM_debug_Print 2 "Preparing offline rebuild for ${file_in}"
1452	IGCM_sys_Mv ${generic_file_name}_[0-9]*.nc ${RUN_DIR}/REBUILD_${PeriodDateBegin}
1453
1454	# Prepare the shell dedicated to offline rebuild
1455	if [ $DRYRUN -le 1 ]; then
1456	if [ ${file_in} = histstn.nc ] ; then
1457	echo "IGCM_sys_rebuild_station ${file_in} ${generic_file_name}_*.nc" >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1458	else
1459	echo "IGCM_sys_rebuild ${file_in} ${generic_file_name}_[0-9]*.nc" >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1460	fi
1461	echo "IGCM_debug_Verif_Exit_Post" >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1462	fi
1463	#
1464	# Load Patch we need to apply and apply
1465	if [ $DRYRUN -le 1 ]; then
1466	if [ X$( eval echo \${${compname}_${flag_post}_Patches[0]} ) != X${NULL_STR} ]; then
1467	for Patch in $( eval echo \${${compname}_${flag_post}_Patches[*]} ); do
1468	echo ". ${libIGCM_POST}/libIGCM_post/IGCM_${Patch}.ksh" >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1469	echo "IGCM_${Patch} ${file_in} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1470	echo "IGCM_debug_Verif_Exit_Post " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1471	done
1472	fi
1473	fi
1474	#
1475	if [ $DRYRUN -le 1 ]; then
1476	if [ X${Pack} = Xtrue ] ; then
1477	echo "IGCM_sys_PutBuffer_Out ${file_in} ${file_out} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1478	else
1479	echo "IGCM_sys_Put_Out ${file_in} ${file_out} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1480	fi
1481	echo "IGCM_debug_Verif_Exit_Post " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1482	echo "IGCM_sys_Rm ${generic_file_name}_[0-9]*.nc " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1483	fi
1484	SaveOnArchive=false
1485	fi
1486	fi
1487	#
1488	if [ ${SaveOnArchive} = true ] ; then
1489	#
1490	# Rebuild has been done online or it was not needed
1491	#
1492	# If we need to apply a patch we use TMP DIRECTORY before ARCHIVING if asynchronous rebuild is on
1493	#
1494	thereisapatch=$( eval echo \${${compname}_${flag_post}_Patches[0]} )
1495	if ( [ ! X${thereisapatch} = X${NULL_STR} ] && [ X${AsynchronousRebuild} = Xtrue ] && [ -f ${file_in} ] ) ; then
1496	IGCM_sys_Mv ${file_in} ${RUN_DIR}/REBUILD_${PeriodDateBegin}
1497	eval FileToBeDeleted[${#FileToBeDeleted[@]}]=REBUILD_${PeriodDateBegin}/${file_in} > /dev/null 2>&1
1498	#
1499	if [ $DRYRUN -le 1 ]; then
1500	for Patch in $( eval echo \${${compname}_${flag_post}_Patches[*]} ); do
1501	echo ". ${libIGCM_POST}/libIGCM_post/IGCM_${Patch}.ksh" >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1502	echo "IGCM_${Patch} ${file_in} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1503	echo "IGCM_debug_Verif_Exit_Post " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1504	done
1505	#
1506	if [ X${Pack} = Xtrue ] ; then
1507	echo "IGCM_sys_PutBuffer_Out ${file_in} ${file_out} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1508	else
1509	echo "IGCM_sys_Put_Out ${file_in} ${file_out} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1510	fi
1511	echo "IGCM_debug_Verif_Exit_Post " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1512	#
1513	fi
1514	else
1515	#
1516	# No Patch, No Asynchronous rebuild, online rebuild has been done or was not needed
1517	#
1518	if [ X${Pack} = Xtrue ] ; then
1519	IGCM_sys_PutBuffer_Out ${file_in} ${file_out}
1520	else
1521	IGCM_sys_Put_Out ${file_in} ${file_out}
1522	fi
1523	eval FileToBeDeleted[${#FileToBeDeleted[@]}]="${file_in}" > /dev/null 2>&1
1524	if [ ${nb_rebuild_file} -gt 1 ] ; then
1525	for DelFile in $( ls \| grep "${generic_file_name}[_0-9]*.nc" ) ; do
1526	eval FileToBeDeleted[${#FileToBeDeleted[@]}]=${DelFile} > /dev/null 2>&1
1527	done
1528	fi
1529	fi
1530	fi
1531	(( i=i+3 ))
1532	done
1533	fi
1534	echo
1535	done
1536	IGCM_debug_PopStack "IGCM_comp_Finalize"
1537	}

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