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libIGCM_comp.ksh @ 1469

Last change on this file since 1469 was 1025, checked in by sdipsl, 10 years ago
merge trunk and tag to fix #195 and taking other minor things
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: 55.3 KB

Line
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=${file_out_}
817
818	file_in_Name=${run_Configuration_OldPrefix}_${file_in}
819
820	extension_in=$( 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_Update
948	{
949	IGCM_debug_PushStack "IGCM_comp_Update"
950
951	# Debug Print :
952	echo
953	IGCM_debug_Print 1 "IGCM_comp_Update"
954	echo
955
956	typeset ExeNameIn ExeNameOut
957	typeset comp compname comptagname
958	for comp in ${config_ListOfComponents[*]} ; do
959	# Define component
960	eval compname=\${config_ListOfComponents_${comp}[0]} > /dev/null 2>&1
961	eval comptagname=\${config_ListOfComponents_${comp}[1]} > /dev/null 2>&1
962
963	# Copy executable for this component
964	eval ExeNameIn=\${config_Executable_${comp}[0]}
965	eval ExeNameOut=\${config_Executable_${comp}[1]}
966
967	# If missing executable and DRYRUN is set to 0 or 1 then stop!
968	if [ ${DRYRUN} -le 1 ] && [ X${ExeNameIn} != X\"\" ] && [ ! -f ${R_EXE}/${ExeNameIn} ] ; then
969	IGCM_debug_Exit "IGCM_comp_Update missing executable ${ExeNameIn}"
970	fi
971
972	if [ ${Period} -eq 1 ] && [ -f ${R_EXE}/${ExeNameIn} ] ; then
973	eval IGCM_sys_Cp ${R_EXE}/${ExeNameIn} ${ExeNameOut}
974	if [ -f ${RUN_DIR}/${ExeNameOut} ] ; then
975	eval IGCM_sys_Chmod +rx ${RUN_DIR}/${ExeNameOut}
976	fi
977	elif [ -f ${R_EXE}/${ExeNameIn} ] && [ ! -f ${RUN_DIR}/${ExeNameOut} ] ; then
978	eval IGCM_sys_Cp ${R_EXE}/${ExeNameIn} ${ExeNameOut}
979	if [ -f ${RUN_DIR}/${ExeNameOut} ] ; then
980	eval IGCM_sys_Chmod +rx ${RUN_DIR}/${ExeNameOut}
981	fi
982	fi
983
984	# Debug Print
985	IGCM_debug_Print 1 "Update ${compname} Parameter Files."
986	# UPDATE component
987	${comp}_Update
988
989	done
990
991	IGCM_debug_PopStack "IGCM_comp_Update"
992	}
993
994	#=======================================================================
995	function IGCM_comp_Finalize
996	{
997	IGCM_debug_PushStack "IGCM_comp_Finalize"
998
999	# Debug Print :
1000	echo
1001	IGCM_debug_Print 1 "IGCM_comp_Finalize"
1002	echo
1003
1004	typeset ListTextName TextName0
1005	typeset comp compname comptagname card ListFilesName FileName0 NbFiles SaveOnArchive
1006	typeset i i_ file_in file_in_ file_out file_out_ file_outin file_outin_ generic_file_name nb_rebuild_file
1007	typeset -Z4 j4
1008	#BASH declare j4
1009	typeset list_file nlist_file
1010	typeset compactoutputs
1011
1012	compactoutputs=false
1013	if [ X${JobType} != XRUN ] ; then
1014	compactoutputs=true
1015	elif [ X${config_UserChoices_CompactText} != Xn ] ; then
1016	compactoutputs=true
1017	fi
1018
1019	for comp in ${config_ListOfComponents[*]} ; do
1020	# Define component
1021	eval compname=\${config_ListOfComponents_${comp}[0]} > /dev/null 2>&1
1022	eval comptagname=\${config_ListOfComponents_${comp}[1]} > /dev/null 2>&1
1023
1024	# Debug Print
1025	IGCM_debug_Print 1 "Finalize ${comp} : ${compname} component."
1026	# FINALIZE component
1027	${comp}_Finalize
1028
1029	card=${SUBMIT_DIR}/COMP/${compname}.card
1030
1031	# Save Output Text files of models
1032	#---------------------------------
1033	IGCM_debug_Print 2 "Save Output Text files for ${comp} : ${compname} component."
1034	IGCM_card_DefineArrayFromOption ${card} OutputText List
1035	ListTextName=${compname}_OutputText_List
1036
1037	eval TextName0=\${${ListTextName}[0]} > /dev/null 2>&1
1038	if [ X${TextName0} != X${NULL_STR} ] ; then
1039	eval NbFiles=\${#${ListTextName}[@]} > /dev/null 2>&1
1040
1041	(( i=0 ))
1042	until [ $i -eq $NbFiles ]; do
1043	eval file_in=\${${ListTextName}[$i]} > /dev/null 2>&1
1044	eval file_out=${PREFIX}_${file_in}
1045
1046	(( i=i+1 ))
1047
1048	unset list_file
1049	#set +A list_file -- $( ls ${file_in}* \| sort 2>/dev/null )
1050	# result for a a1 a10 a2 with file_in=a a a1 a2 a10
1051	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 )
1052	nlist_file=${#list_file[@]}
1053	if [ ${nlist_file} -gt 1 ] ; then
1054	if ( ${compactoutputs} ) ; then
1055	IGCM_debug_Print 2 "Parallelism of Text Output with ${nlist_file} files."
1056	IGCM_debug_Print 2 "Compact files in ${file_out} : " ${list_file[*]}
1057	echo ${list_file[*]} > ${file_out}
1058	echo "" >> ${file_out}
1059
1060	(( i_ = 0 ))
1061	for file in ${list_file[@]}
1062	do
1063	echo "_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ " >> ${file_out}
1064	echo "\| " ${i_} " " ${file} >> ${file_out}
1065	echo "- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - " >> ${file_out}
1066	cat ${file} \| sed "s/$.*$/${i_}\1/" >> ${file_out}
1067	echo "" >> ${file_out}
1068	eval FileToBeDeleted[${#FileToBeDeleted[@]}]="${file}" > /dev/null 2>&1
1069	(( i_ = i_ + 1 ))
1070	done
1071	if [ X${Pack} = Xtrue ] ; then
1072	eval IGCM_sys_PutBuffer_Out ${file_out} \${R_BUF_${comp}_D}/${file_out}
1073	else
1074	eval IGCM_sys_Put_Out ${file_out} \${R_OUT_${comp}_D}/${file_out}
1075	fi
1076	eval FileToBeDeleted[${#FileToBeDeleted[@]}]="${file_out}" > /dev/null 2>&1
1077
1078	if ( ${ExecutionFail} ) ; then
1079	IGCM_sys_Cp ${file_out} ${SUBMIT_DIR}/Debug
1080	fi
1081	else
1082	for file in ${list_file[@]}
1083	do
1084	if [ X${Pack} = Xtrue ] ; then
1085	eval IGCM_sys_PutBuffer_Out ${file} \${R_BUF_${comp}_D}/${PREFIX}_${file}
1086	else
1087	eval IGCM_sys_Put_Out ${file} \${R_OUT_${comp}_D}/${PREFIX}_${file}
1088	fi
1089	eval FileToBeDeleted[${#FileToBeDeleted[@]}]="${file}" > /dev/null 2>&1
1090
1091	if ( ${ExecutionFail} ) ; then
1092	IGCM_sys_Cp ${file} ${SUBMIT_DIR}/Debug/${PREFIX}_${file}
1093	fi
1094	done
1095	fi
1096	else
1097	if ( [ -f ${file_in}_0000 ] \|\| [ -f ${file_in}0 ] ) ; then
1098	eval IGCM_sys_Mv ${file_in}* ${file_in}
1099	fi
1100	if [ X${Pack} = Xtrue ] ; then
1101	eval IGCM_sys_PutBuffer_Out ${file_in} \${R_BUF_${comp}_D}/${file_out}
1102	else
1103	eval IGCM_sys_Put_Out ${file_in} \${R_OUT_${comp}_D}/${file_out}
1104	fi
1105	eval FileToBeDeleted[${#FileToBeDeleted[@]}]="${file_in}" > /dev/null 2>&1
1106
1107	if ( ${ExecutionFail} ) ; then
1108	IGCM_sys_Cp ${file_in} ${SUBMIT_DIR}/Debug/${file_out}
1109	fi
1110	fi
1111	done
1112	fi
1113
1114	# Save Restarts files
1115	#--------------------
1116	IGCM_debug_Print 2 "Save Restart files for ${comp} : ${compname} component."
1117	IGCM_card_DefineArrayFromOption ${card} RestartFiles List
1118	ListFilesName=${compname}_RestartFiles_List
1119	eval FileName0=\${${ListFilesName}[0]} > /dev/null 2>&1
1120
1121	if ( [ X${FileName0} != X${NULL_STR} ] && [ X${FileName0} != XNONE ] ) ; then
1122	eval NbFiles=\${#${ListFilesName}[@]} > /dev/null 2>&1
1123
1124	(( i=0 ))
1125	until [ $i -ge $NbFiles ]; do
1126	eval file_in_=\${${ListFilesName}[$i]} > /dev/null 2>&1
1127	eval file_in=${file_in_}
1128
1129	(( i_ = i+1 ))
1130	eval file_out_=\${${ListFilesName}[$i_]} > /dev/null 2>&1
1131	eval file_out=${file_out_}
1132
1133	(( i_ = i+2 ))
1134	eval file_outin_=\${${ListFilesName}[$i_]} > /dev/null 2>&1
1135	eval file_outin=${file_outin_}
1136
1137	generic_restart_file_name_in=$( basename ${file_in} .nc )
1138	generic_restart_file_name_out=$( basename ${config_UserChoices_JobName}_${PeriodDateEnd}_${file_out} .nc )
1139	generic_restart_file_name_outin=$( basename ${file_outin} .nc )
1140
1141	nb_restart_file=$( ls ${generic_restart_file_name_in}_????.nc 2>/dev/null \| wc -l )
1142	if [ ${nb_restart_file} -gt 1 ] ; then
1143	j=0 # BASH LINE NOT NEEDED
1144	# BASH for j4 in in $( eval echo {0000..$(( nb_restart_file - 1 ))} ) ; do
1145	until [ $j -ge ${nb_restart_file} ]; do # BASH LINE NOT NEEDED
1146	j4=${j} # BASH LINE NOT NEEDED
1147	if [ X${Pack} = Xtrue ] ; then
1148	eval IGCM_sys_PutBuffer_Rest ${generic_restart_file_name_in}_${j4}.nc \${R_BUF_${comp}_R}/${generic_restart_file_name_out}_${j4}.nc
1149	else
1150	eval IGCM_sys_Put_Rest ${generic_restart_file_name_in}_${j4}.nc \${R_OUT_${comp}_R}/${generic_restart_file_name_out}_${j4}.nc
1151	fi
1152	if [ ! ${file_in} = ${file_outin} ] ; then
1153	if ( ${ExitFlag} ) ; then
1154	echo "IGCM_sys_Mv ${generic_restart_file_name_in}_${j4}.nc ${generic_restart_file_name_outin}_${j4}.nc not executed."
1155	else
1156	IGCM_sys_Mv ${generic_restart_file_name_in}_${j4}.nc ${generic_restart_file_name_outin}_${j4}.nc
1157	fi
1158	fi
1159	(( j=j+1 )) # BASH LINE NOT NEEDED
1160	done
1161	else
1162	if [ X${Pack} = Xtrue ] ; then
1163	eval IGCM_sys_PutBuffer_Rest ${file_in} \${R_BUF_${comp}_R}/${config_UserChoices_JobName}_${PeriodDateEnd}_${file_out}
1164	else
1165	eval IGCM_sys_Put_Rest ${file_in} \${R_OUT_${comp}_R}/${config_UserChoices_JobName}_${PeriodDateEnd}_${file_out}
1166	fi
1167	if [ ! ${file_in} = ${file_outin} ] ; then
1168	if ( ${ExitFlag} ) ; then
1169	echo "IGCM_sys_Mv ${file_in} ${file_outin} not executed."
1170	else
1171	IGCM_sys_Mv ${file_in} ${file_outin}
1172	fi
1173	fi
1174	fi
1175
1176	(( i=i+3 ))
1177	done
1178	else
1179	if [ X${FileName0} != XNONE ] ; then
1180	IGCM_debug_Exit "IGCM_comp_Finalize : No file in restart list for ${compname}."
1181	else
1182	IGCM_debug_Print 1 "IGCM_comp_Finalize : NONE specified in Restart List ${compname}."
1183	fi
1184	fi
1185
1186	# Save Output files
1187	#------------------
1188	IGCM_debug_Print 2 "Save Output files for ${comp} : ${compname} component."
1189	IGCM_card_DefineArrayFromOption ${card} OutputFiles List
1190	ListFilesName=${compname}_OutputFiles_List
1191	eval FileName0=\${${ListFilesName}[0]} > /dev/null 2>&1
1192
1193	if [ X${FileName0} != X${NULL_STR} ] ; then
1194	eval NbFiles=\${#${ListFilesName}[@]} > /dev/null 2>&1
1195
1196	(( i=0 ))
1197	until [ $i -ge $NbFiles ]; do
1198	SaveOnArchive=true
1199	eval file_in_=\${${ListFilesName}[$i]} > /dev/null 2>&1
1200	eval file_in=${file_in_}
1201	(( i_ = i+1 ))
1202	eval file_out_=\${${ListFilesName}[$i_]} > /dev/null 2>&1
1203	eval file_out=${file_out_}
1204	#
1205	# Override file_out path remplacing R_SAVE by R_BUFR
1206	#
1207	if [ X${Pack} = Xtrue ] ; then
1208	file_out=$( echo $file_out \| sed "s:^$R_SAVE:$R_BUFR:" )
1209	fi
1210	#
1211	# Not necessarily the best option. /!\ Potential side effects /!\
1212	#
1213	(( i_ = i+2 ))
1214	eval flag_post=\${${ListFilesName}[$i_]} > /dev/null 2>&1
1215	#
1216	generic_file_name=$( basename ${file_in} .nc )
1217	nb_rebuild_file=$( ls \| grep "^${generic_file_name}_[0-9]*.nc" \| wc -l )
1218	#
1219	if ( [ ${nb_rebuild_file} -eq 1 ] && [ -f ${generic_file_name}_0000.nc ] ) ; then
1220	IGCM_debug_Print 2 "Parallelism with 1 file. Rebuilding ${file_in} not needed"
1221	IGCM_sys_Mv ${generic_file_name}_0000.nc ${file_in}
1222	elif [ ${nb_rebuild_file} -gt 1 ] ; then
1223	IGCM_debug_Print 2 "Parallelism detected and rebuilding ${file_in} is needed"
1224	if [ X${AsynchronousRebuild} = Xfalse ] ; then
1225	IGCM_debug_Print 2 "Rebuilding ${file_in} online"
1226	IGCM_sys_rebuild ${file_in} ${generic_file_name}_[0-9]*.nc
1227	else
1228	IGCM_debug_Print 2 "Preparing offline rebuild for ${file_in}"
1229	[ ! -d ${RUN_DIR}/REBUILD_${PeriodDateBegin} ] && IGCM_sys_Mkdir ${RUN_DIR}/REBUILD_${PeriodDateBegin}
1230	IGCM_sys_Mv ${generic_file_name}_[0-9]*.nc ${RUN_DIR}/REBUILD_${PeriodDateBegin}
1231
1232	# Prepare headers for the shell dedicated to offline rebuild
1233	if [ ! -f ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh ] ; then
1234	if [ $DRYRUN -le 1 ]; then
1235	echo "#!/bin/ksh " > ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1236	echo "function IGCM_FlushRebuild " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1237	echo "{ " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1238	echo "IGCM_debug_PushStack \"IGCM_FlushRebuild\" " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1239	echo "echo " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1240	echo "IGCM_debug_Print 1 \"IGCM_FlushRebuild\" " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1241	echo "echo " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1242	echo "export R_SAVE=${R_SAVE} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1243	echo "export R_BUFR=${R_BUFR} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1244	echo "export R_OUT_KSH=${R_OUT_KSH} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1245	echo "export R_BUF_KSH=${R_BUF_KSH} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1246	echo "export config_UserChoices_JobName=${config_UserChoices_JobName} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1247	echo "export config_UserChoices_SpaceName=${config_UserChoices_SpaceName} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1248	fi
1249	fi
1250	# Prepare the shell dedicated to offline rebuild
1251	if [ $DRYRUN -le 1 ]; then
1252	if [ ${file_in} = histstn.nc ] ; then
1253	echo "IGCM_sys_rebuild_station ${file_in} ${generic_file_name}_*.nc" >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1254	else
1255	echo "IGCM_sys_rebuild ${file_in} ${generic_file_name}_[0-9]*.nc" >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1256	fi
1257	echo "IGCM_debug_Verif_Exit_Post" >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1258	fi
1259	#
1260	# Load Patch we need to apply and apply
1261	if [ $DRYRUN -le 1 ]; then
1262	if [ X$( eval echo \${${compname}_${flag_post}_Patches[0]} ) != X${NULL_STR} ]; then
1263	for Patch in $( eval echo \${${compname}_${flag_post}_Patches[*]} ); do
1264	echo ". ${libIGCM_POST}/libIGCM_post/IGCM_${Patch}.ksh" >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1265	echo "IGCM_${Patch} ${file_in} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1266	echo "IGCM_debug_Verif_Exit_Post " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1267	done
1268	fi
1269	fi
1270	#
1271	if [ $DRYRUN -le 1 ]; then
1272	if [ X${Pack} = Xtrue ] ; then
1273	echo "IGCM_sys_PutBuffer_Out ${file_in} ${file_out} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1274	else
1275	echo "IGCM_sys_Put_Out ${file_in} ${file_out} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1276	fi
1277	echo "IGCM_debug_Verif_Exit_Post " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1278	echo "IGCM_sys_Rm ${generic_file_name}_[0-9]*.nc " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1279	fi
1280	SaveOnArchive=false
1281	fi
1282	fi
1283	#
1284	if [ ${SaveOnArchive} = true ] ; then
1285	#
1286	# Rebuild has been done online or it was not needed
1287	#
1288	# If we need to apply a patch we use TMP DIRECTORY before ARCHIVING if asynchronous rebuild is on
1289	#
1290	thereisapatch=$( eval echo \${${compname}_${flag_post}_Patches[0]} )
1291	if ( [ ! X${thereisapatch} = X${NULL_STR} ] && [ X${AsynchronousRebuild} = Xtrue ] && [ -f ${file_in} ] ) ; then
1292	[ ! -d ${RUN_DIR}/REBUILD_${PeriodDateBegin} ] && IGCM_sys_Mkdir ${RUN_DIR}/REBUILD_${PeriodDateBegin}
1293	IGCM_sys_Mv ${file_in} ${RUN_DIR}/REBUILD_${PeriodDateBegin}
1294	eval FileToBeDeleted[${#FileToBeDeleted[@]}]=REBUILD_${PeriodDateBegin}/${file_in} > /dev/null 2>&1
1295	#
1296	if [ $DRYRUN -le 1 ]; then
1297	if [ ! -f ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh ] ; then
1298	echo "#!/bin/ksh " > ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1299	echo "function IGCM_FlushRebuild " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1300	echo "{ " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1301	echo "IGCM_debug_PushStack \"IGCM_FlushRebuild\" " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1302	echo "echo " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1303	echo "IGCM_debug_Print 1 \"IGCM_FlushRebuild\" " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1304	echo "echo " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1305	echo "export R_SAVE=${R_SAVE} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1306	echo "export config_UserChoices_JobName=${config_UserChoices_JobName} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1307	fi
1308	#
1309	for Patch in $( eval echo \${${compname}_${flag_post}_Patches[*]} ); do
1310	echo ". ${libIGCM_POST}/libIGCM_post/IGCM_${Patch}.ksh" >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1311	echo "IGCM_${Patch} ${file_in} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1312	echo "IGCM_debug_Verif_Exit_Post " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1313	done
1314	#
1315	if [ X${Pack} = Xtrue ] ; then
1316	echo "IGCM_sys_PutBuffer_Out ${file_in} ${file_out} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1317	else
1318	echo "IGCM_sys_Put_Out ${file_in} ${file_out} " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1319	fi
1320	echo "IGCM_debug_Verif_Exit_Post " >> ${RUN_DIR}/REBUILD_${PeriodDateBegin}/rebuild.ksh
1321	#
1322	fi
1323	else
1324	#
1325	# No Patch, No Asynchronous rebuild, online rebuild has been done or was not needed
1326	#
1327	if [ X${Pack} = Xtrue ] ; then
1328	IGCM_sys_PutBuffer_Out ${file_in} ${file_out}
1329	else
1330	IGCM_sys_Put_Out ${file_in} ${file_out}
1331	fi
1332	eval FileToBeDeleted[${#FileToBeDeleted[@]}]="${file_in}" > /dev/null 2>&1
1333	if [ ${nb_rebuild_file} -gt 1 ] ; then
1334	for DelFile in $( ls \| grep "${generic_file_name}[_0-9]*.nc" ) ; do
1335	eval FileToBeDeleted[${#FileToBeDeleted[@]}]=${DelFile} > /dev/null 2>&1
1336	done
1337	fi
1338	fi
1339	fi
1340	(( i=i+3 ))
1341	done
1342	fi
1343	echo
1344	done
1345	IGCM_debug_PopStack "IGCM_comp_Finalize"
1346	}

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source: tags/libIGCM_v2.3/libIGCM_comp/libIGCM_comp.ksh @ 1469

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