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source: palm/trunk/SCRIPTS/mrun @ 2257

Last change on this file since 2257 was 2257, checked in by witha, 7 years ago
Bugfix in PALM-WTM, modifications for lceddy
Property svn:keywords set to `Id Rev`
File size: 169.6 KB

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1	#!/bin/bash
2
3	# mrun - script for running PALM jobs
4
5	#--------------------------------------------------------------------------------#
6	# This file is part of PALM.
7	#
8	# PALM is free software: you can redistribute it and/or modify it under the terms
9	# of the GNU General Public License as published by the Free Software Foundation,
10	# either version 3 of the License, or (at your option) any later version.
11	#
12	# PALM is distributed in the hope that it will be useful, but WITHOUT ANY
13	# WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR
14	# A PARTICULAR PURPOSE. See the GNU General Public License for more details.
15	#
16	# You should have received a copy of the GNU General Public License along with
17	# PALM. If not, see <http://www.gnu.org/licenses/>.
18	#
19	# Copyright 1997-2015 Leibniz Universitaet Hannover
20	#--------------------------------------------------------------------------------#
21	#
22	# Current revisions:
23	# ------------------
24	#
25	#
26	# Former revisions:
27	# -----------------
28	# $Id: mrun 2257 2017-06-07 14:07:05Z witha $
29	# adjustments for lceddy, removed lcflow-specific code
30	#
31	# 2186 2017-03-21 05:36:31Z raasch
32	#
33	# 2185 2017-03-21 05:09:29Z raasch
34	# adjustment for lykyo*-hosts (PJM_ENVIRONMENT defines BATCH)
35	#
36	# 2148 2017-02-09 16:56:42Z scharf
37	# changed allocation of resources for lcbullhh in srun command
38	#
39	# 2141 2017-02-06 10:19:32Z gronemeier
40	# made check for existing files language independent
41	#
42	# 1944 2016-06-15 06:29:00Z raasch
43	# adjustments for using HLRN ssh-keys
44	#
45	# 1940 2016-06-14 05:15:20Z raasch $
46	# adjustments for lckiaps
47	#
48	# 1866 2016-04-15 06:50:59Z raasch
49	# adjusted for lcocean
50	#
51	# 1841 2016-04-07 19:14:06Z raasch
52	# script now running under bash
53	#
54	# 1804 2016-04-05 16:30:18Z maronga
55	# test: implementing an execute mechanism where the execute command is given in the
56	# configuration file
57	# ROPTS removed from execution commands
58	# Warnings about missing optional files or user code changed to informative messages
59	# Removed parameter file check
60	#
61	# 1755 2016-02-22 13:53:39Z maronga
62	# Minor bugfix to last commit
63	#
64	# 1753 2016-02-22 13:49:49Z maronga
65	# Bugfix: use random job number when PBS job nummer retrieval fails on lccray*
66	#
67	# 1622 2015-07-20 06:21:36Z heinze
68	# bugfix for Mistral (lcbullhh)
69	#
70	# 1621 2015-07-17 11:39:33Z heinze
71	# adjustments for Mistral at DKRZ Hamburg (lcbullhh)
72	#
73	# 1609 2015-07-03 15:37:58Z maronga
74	# Modified the random number of the temporary working directory to match the
75	# queuing system number on HLRN-III (lccray*).
76	#
77	# 1604 2015-06-23 15:48:03Z suehring
78	# Enable coupled runs for lcmuk
79	#
80	# 1598 2015-05-29 06:45:40Z raasch
81	# bugfix for creating hostfile and total number of MPI tasks if run in openmp-mode on one node
82	#
83	# 1549 2015-01-30 14:26:16Z suehring
84	# Enable interactive debug sessions with allinea debugger
85	#
86	# 1547 2015-01-29 15:09:12Z witha
87	# adjustments for ForWind computing cluster (lcflow)
88	#
89	# 1491 2014-11-12 08:12:57Z heinze
90	# correct setting of batch_job allowed for ibm-machines
91	#
92	# 1468 2014-09-24 14:06:57Z maronga
93	# Typo removed (addres->address)
94	# Bugfix: returning files to IMUK via ssh did not work for lccrayh and lcycrayb
95	# Added support for restart runs (remote) for lcxe6
96	#
97	# 1442 2014-07-28 07:09:10Z raasch
98	# default queues for HLRN-III (lccrayb/lccrayh) defined
99	#
100	# 1422 2014-07-02 10:01:25Z kanani
101	# automatic restarts enabled for lccrayb,
102	# adjustment of path to compilervars.sh at IMUK (see automatic restarts)
103	#
104	# 1420 2014-06-10 06:24:14Z raasch
105	# -j1 option added to aprung command for lccrayf (CSC)
106	#
107	# 1402 2014-05-09 14:25:13Z raasch
108	# batch_job added to envpar-NAMELIST
109	#
110	# 1357 2014-04-11 15:02:03Z witha
111	# adjustments for lccrayh (automatic restarts on lccrayh outside of IMUK are now
112	# possible)
113	#
114	# 1320 2014-03-20 08:40:49Z raasch
115	# check namelist file set false by default
116	#
117	# 1304 2014-03-12 10:29:42Z raasch
118	# ulimit option changed from -Ss to -s
119	#
120	# bugfix: missing "fi" in r1289
121	#
122	# 1289 2014-03-04 07:12:34Z raasch
123	# comments translated to English
124	# necriam-, fimm-, ibmy-, and sgi-specific code removed
125	# export of variables for palm and interpret_config removed
126	#
127	# 1281 2014-02-01 07:55:49Z raasch
128	# rsync-copy restricted to Cray machines, since command is unavailable on some
129	# other systems
130	#
131	# 1279 2014-01-28 12:10:14Z raasch
132	# tasks_per_node must not be an integral divisor of numprocs any more. This was done
133	# in order to remove annoying restrictions concerning the number of processors which
134	# appear on machines with larger nodes (e.g. containing 24 cores). Now without this
135	# restriction, one of the nodes will be filled with less than the given number of
136	# tasks per node. A respective warning is given.
137	#
138	# 1274 2014-01-09 13:14:54Z heinze
139	# adjustments for lccrayh
140	#
141	# 1272 2014-01-08 10:19:32Z witha
142	# small adjustment for lcflow
143	#
144	# 1270 2013-12-16 11:05:01Z fricke
145	# call of combine_plot_fields adjusted for lccrayb/lccrayh
146	#
147	# 1255 2013-11-07 14:43:35Z raasch
148	# further adjustments for lccrayb remote access
149	#
150	# 1241 2013-10-30 11:36:58Z heinze
151	# Enable use of nudging input and input of large scale forcing from
152	# external files
153	#
154	# 1229 2013-09-20 06:55:19Z raasch
155	# further adjustments for lccrayb
156	#
157	# 1224 2013-09-16 07:27:23Z raasch
158	# first adjustments for lccrayb
159	#
160	# 1210 2013-08-14 10:58:20Z raasch
161	# fftw support added
162	#
163	# 1201 2013-07-10 16:17:59Z witha
164	# adjustments for Forwind cluster (lcflow)
165	#
166	# 1199 2013-07-05 14:52:22Z raasch
167	# adjustments for CSC Helsinki (lccrayf),
168	# executables for batch jobs can be created in advance, in order to avoid calling
169	# the compiler within the batch job (only works if batch jobs are submitted on
170	# local host)
171	#
172	# 1190 2013-06-25 09:39:21Z heinze
173	# enable use of automatic restarts for ibmh
174	# use of cluster/express queue enabled (ibmh)
175	#
176	# 1124 2013-04-09 15:46:52Z raasch
177	# variable "memory" is exported via typeset option -x, because otherwise an unknown
178	# side effect may lead to data loss while getopts is reading the script-option arguments
179	#
180	# 1122 2013-04-09 08:37:16Z heinze
181	# Bugfix: change type of variable last_char
182	#
183	# 1119 2013-04-05 15:11:19Z raasch
184	# Bugfix for setting -T option for subjob
185	#
186	# 1108 2013-03-05 07:03:32Z raasch
187	# bugfix for coupled runs on lckyut/lckyuh
188	#
189	# 1106 2013-03-04 05:31:38Z raasch
190	# --stdin argument for mpiexec on lckyuh
191	# -y and -Y settings output to header
192	#
193	# 1103 2013-02-20 02:15:53Z raasch
194	# default script runs again under ksh, because of unsolved problems with read
195	# from stdin: when bash script is called from a ksh, message "read error: 0:
196	# Resource temporarily unavailable" appears and script does not stop,
197	# further bash compatibility adjustments,
198	# shebang line replaced by /bin/bash when running jobs on lckyuh; no restarts
199	# on lckyuh, but mrun does not terminate and issues a warning instead
200	#
201	# 1101 2013-02-17 10:20:21Z raasch
202	# script now running under bash instead of ksh, which required small adjustments
203	# (output formatting with printf instead "typeset -L/-R", print replaced by echo,
204	# read from stdin),
205	# cross compilername on lckyuh compute nodes replaced by real compiler name
206	#
207	# 1099 2013-02-10 01:47:43Z raasch
208	# adjustments for Kyushu-University computing center (lckyuh - hayaka)
209	# and for Forwind cluster (lcflow)
210	# small further adjustments for lckyut
211	#
212	# 1094 2013-02-03 01:52:12Z raasch
213	# explicit ssh/scp port can be set in config file with environment variable
214	# scp_port. This port is handled to all ssh/scp/batch_scp calls.
215	# decalpha parts (yonsei) removed
216	#
217	# 2013-02-02 07:06:13Z raasch
218	# adjustments for Kyushu-University computing center (lckyut - tatara)
219	#
220	# 1083 2013-01-04 10:22:09Z maronga
221	# bugfix in parameter file check (read %cpp_options was missing)
222	#
223	# 1069 2012-11-28 16:18:43Z maronga
224	# bugfix: coupling mode was always set to mpi2, typos removed
225	#
226	# 1058 2012-11-21 07:00:35Z raasch
227	# Intel inspector (inspxe) is given the number of PEs instead of the number of
228	# nodes
229	#
230	# 1046 2012-11-09 14:38:45Z maronga
231	# code put under GPL (PALM 3.9)
232	#
233	# 21/03/94 - Siggi - first version finished
234	# 03/03/94 - Siggi - script development started
235	#
236	#--------------------------------------------------------------------------------#
237	# mrun - script for running PALM jobs
238	#--------------------------------------------------------------------------------#
239
240
241
242	# DECLARATION OF VARIABLES AND THEIR DEFUALT VALUES
243
244	set +o allexport # SUPPRESS EXPORT OF ALL VARIABLES, SINCE IN THE PAST THIS
245	# LES TO PROBLEMS IN ROUTINES CALLED BY MRUN
246	# (TOO MANY ARGUMENTS - PROBLEM)
247	set +o noclobber # EXISTING FILES ARE ALLOWED TO BE OVERWRITTEN
248
249	AddFilenames=""
250	additional_conditions=""
251	add_source_path=""
252	afname=""
253	archive_save=true
254	archive_system=none
255	check_namelist_files=false
256	combine_plot_fields=true
257	compiler_name=""
258	cond1=""
259	cond2=""
260	config_file=.mrun.config
261	coupled_dist=""
262	coupled_mode="mpi1"
263	cpp_opts=""
264	cpp_options=""
265	cpumax=0
266	cpurest=0
267	create_executable_for_batch=false
268	delete_temporary_catalog=true
269	do_batch=false
270	do_compile=true
271	do_remote=false
272	do_stagein=true
273	do_stageout=true
274	do_trace=false
275	email_notification="none"
276	exclude=""
277	executable=""
278	execute_command="none"
279	execution_error=false
280	fftw_inc=""
281	fftw_lib=""
282	fftw_support=false
283	fname=test
284	fromhost=""
285	global_revision=""
286	group_number=none
287	host=""
288	host_file=""
289	hp=""
290	ignore_archive_error=false
291	input_list=""
292	interpreted_config_file=""
293	job_catalog="~/job_queue"
294	job_on_file=""
295	keep_data_from_previous_run=false
296	link_local_input=false
297	link_local_output=false
298	localhost_realname=$(hostname)
299	local_dvrserver_running=.FALSE.
300	locat=normal
301	mainprog=""
302	makefile=""
303	max_par_io_str=""
304	mc=$0
305	while [[ $(echo $mc \| grep -c "/") != 0 ]]
306	do
307	mc=`echo $mc \| cut -f2- -d"/"`
308	done
309	module_calls=""
310	mrun_script_name=$mc
311	netcdf_inc=""
312	netcdf_lib=""
313	netcdf_support=false
314	node_usage=default
315	numprocs=""
316	numprocs_atmos=0
317	numprocs_ocean=0
318	OOPT=""
319	openmp=false
320	output_list=""
321	package_list=""
322	queue=none
323	read_from_config=""
324	restart_run=false
325	if [[ `hostname` = rte10 ]]
326	then
327	return_address=133.5.185.60
328	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
329	elif [[ `hostname` = climate0 ]]
330	then
331	return_address=165.132.26.68
332	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
333	elif [[ `hostname` = "schultzl-Latitude-E6540" ]]
334	then
335	return_address="schultzl-Latitude-E6540"
336	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
337	elif [[ `hostname` = urban00 ]]
338	then
339	return_address=147.46.30.151
340	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
341	else
342	return_address=$(nslookup `hostname` 2>&1 \| grep "Address:" \| tail -1 \| awk '{print $2}')
343	fi
344	return_password=""
345	return_username=$LOGNAME
346	remotecall=false
347	remote_username=""
348	run_coupled_model=false
349	run_mode=""
350	store_on_archive_system=false
351	dashes=" ----------------------------------------------------------------------------"
352	silent=false
353	source_list=""
354	source_path=SOURCE
355	tasks_per_node=""
356	threads_per_task=1
357	tmpcreate=false
358	tmp_data_catalog=""
359	transfer_problems=false
360	usern=$LOGNAME
361	use_openmp=false
362	version="MRUN 2.1 Rev$Rev: 2257 $"
363	working_directory=`pwd`
364	TOPT=""
365	XOPT=""
366	zeit=$( date \| cut -c 12-19 )
367
368	typeset -i iec=0 iic=0 iin=0 ioc=0 iout=0 stagein_anz=0 stageout_anz=0
369	typeset -x -i memory=0 # HAS TO BE EXPORTED HERE, OTHERWISE AN UNKNOWN SIDE
370	# SIDE EFFECT MAY CAUSE DATA LOSS WHEN GETOPTS IS READING THE
371	# SCRIPT-OPTION ARGUMENTS
372	typeset -i cputime i ii iia iii iio icycle inode ival jobges jobsek last_char_int maxcycle minuten nodes pes remaining_pes sekunden tp1
373
374	# ERROR HANDLING IN CASE OF EXIT
375	trap 'rm -rf $working_directory/tmp_mrun
376	if [[ $locat != normal && $locat != control_c ]]
377	then
378
379	# CARRY OUT ERROR-COMMANDS GIVEN IN THE CONFIGURATION FILE (EC:)
380	(( i = 0 ))
381	while (( i < iec ))
382	do
383	(( i = i + 1 ))
384	printf "\n *** Execution of ERROR-command:\n"
385	printf " >>> ${err_command[$i]}\n"
386	eval ${err_command[$i]}
387	done
388	if [[ -n $interpreted_config_file ]]
389	then
390	rm -rf $interpreted_config_file
391	fi
392	if [[ -n .mrun_environment ]]
393	then
394	rm -rf .mrun_environment
395	fi
396	if [[ $tmpcreate = true ]]
397	then
398	# printf "\n *** Contents of \"$TEMPDIR\":\n"
399	# ls -al; cd
400	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
401	fi
402	if [[ "$dvrserver_id" != "" ]]
403	then
404	echo "+++ killing dvrserver_id=$dvrserver_id"
405	kill $dvrserver_id
406	fi
407	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
408	then
409	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
410	fi
411	printf "\n\n+++ MRUN killed \n\n"
412	elif [[ $locat != control_c ]]
413	then
414	printf "\n\n --> all actions finished\n\n"
415	printf " Bye, bye $usern !!\n\n"
416	fi' exit
417
418
419	# ACTIONS IN CASE OF TERMINAL-BREAK (CONTROL-C):
420	trap 'rm -rf $working_directory/tmp_mrun
421	rm -rf $working_directory/tmp_check_namelist_files
422	[[ $tmpcreate = true ]] && (cd; rm -rf $TEMPDIR)
423	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
424	then
425	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
426	fi
427	if [[ "$dvrserver_id" != "" ]]
428	then
429	echo "+++ killing dvrserver_id=$dvrserver_id"
430	kill $dvrserver_id
431	fi
432	printf "\n+++ MRUN killed by \"^C\" \n\n"
433	locat=control_c
434	exit
435	' 2
436
437
438	# CHECK IF THE PATH FOR THE PALM BINARIES (SCRIPTS+UTILITY-PROGRAMS) HAS
439	# BEEN SET
440	if [[ "$PALM_BIN" = "" ]]
441	then
442	printf "\n +++ environment variable PALM_BIN has not been set"
443	printf "\n please set it to the directory where the PALM scripts are located"
444	locat=palm_bin; exit
445	fi
446	export PATH=$PALM_BIN:$PATH
447
448
449
450	# READ SHELLSCRIPT-OPTIONS AND REBUILD THE MRUN-COMMAND STRING (MC),
451	# WHICH WILL BE USED TO START RESTART-JOBS
452	while getopts :a:AbBc:Cd:D:Fg:G:h:H:i:IkK:m:M:n:o:O:p:P:q:r:R:s:St:T:u:U:vw:xX:yY:zZ option
453	do
454	case $option in
455	(a) afname=$OPTARG;;
456	(A) store_on_archive_system=true; mc="$mc -A";;
457	(b) do_batch=true; mc="$mc -b";;
458	(B) delete_temporary_catalog=false; mc="$mc -B";;
459	(c) config_file=$OPTARG; mc="$mc -c$OPTARG";;
460	(C) restart_run=true; mc="$mc -C";;
461	(d) fname=$OPTARG; mc="$mc -d$OPTARG";;
462	# (D) cpp_opts="$cpp_opts $OPTARG"; mc="$mc -D'$OPTARG'";;
463	(F) job_on_file="-D"; mc="$mc -F";;
464	(g) group_number=$OPTARG; mc="$mc -g$OPTARG";;
465	(G) global_revision=$OPTARG; mc="$mc -G'$OPTARG'";;
466	(h) host=$OPTARG; mc="$mc -h$OPTARG";;
467	(H) fromhost=$OPTARG; mc="$mc -H$OPTARG";;
468	(i) input_list=$OPTARG; mc="$mc -i'$OPTARG'";;
469	(I) ignore_archive_error=true; mc="$mc -I";;
470	(k) keep_data_from_previous_run=true; mc="$mc -k";;
471	(K) additional_conditions="$OPTARG"; mc="$mc -K'$OPTARG'";;
472	(m) memory=$OPTARG; mc="$mc -m$OPTARG";;
473	(M) makefile=$OPTARG; mc="$mc -M$OPTARG";;
474	(n) node_usage=$OPTARG; mc="$mc -n$OPTARG";;
475	(o) output_list=$OPTARG; mc="$mc -o'$OPTARG'";;
476	(O) use_openmp=true; threads_per_task=$OPTARG; mc="$mc -O$OPTARG";;
477	(p) package_list=$OPTARG; mc="$mc -p'$OPTARG'";;
478	(P) return_password=$OPTARG; mc="$mc -P$OPTARG";;
479	(q) queue=$OPTARG; mc="$mc -q$OPTARG";;
480	(r) run_mode=$OPTARG; mc="$mc -r'$OPTARG'";;
481	(R) remotecall=true;return_address=$OPTARG; mc="$mc -R$OPTARG";;
482	(s) source_list=$OPTARG; mc="$mc -s'$OPTARG'";;
483	(S) read_from_config=false; mc="$mc -S";;
484	(t) cpumax=$OPTARG; mc="$mc -t$OPTARG";;
485	(T) mrun_tasks_per_node=$OPTARG; mc="$mc -T$OPTARG";;
486	(u) remote_username=$OPTARG; mc="$mc -u$OPTARG";;
487	(U) return_username=$OPTARG; mc="$mc -U$OPTARG";;
488	(v) silent=true; mc="$mc -v";;
489	(w) max_par_io_str=$OPTARG; mc="$mc -w$OPTARG";;
490	(x) do_trace=true;set -x; mc="$mc -x";;
491	(X) numprocs=$OPTARG; mc="$mc -X$OPTARG";;
492	(y) ocean_file_appendix=true; mc="$mc -y";;
493	(Y) run_coupled_model=true; coupled_dist=$OPTARG; mc="$mc -Y'$OPTARG'";;
494	(z) check_namelist_files=false; mc="$mc -z";;
495	(Z) combine_plot_fields=false; mc="$mc -Z";;
496	(\?) printf "\n +++ unknown option $OPTARG \n"
497	printf "\n --> type \"$0 ?\" for available options \n"
498	locat=parameter;exit;;
499	esac
500	done
501
502
503	# SKIP GIVEN OPTIONS TO READ POSITIONAL PARAMETER, IF GIVEN
504	# CURRENTLY ONLY PARAMETER ? (TO OUTPUT A SHORT COMMAND INFO) IS ALLOWED
505	(( to_shift = $OPTIND - 1 ))
506	shift $to_shift
507
508	# PRINT SHORT DESCRIPTION OF MRUN OPTIONS
509	if [[ "$1" = "?" ]]
510	then
511	(printf "\n *** mrun can be called as follows:\n"
512	printf "\n $mrun_script_name -b -c.. -d.. -D.. -f.. -F -h.. -i.. -I -K.. -m.. -o.. -p.. -r.. -R -s.. -t.. -T.. -v -x -X.. -y -Y.. -Z <modus> \n"
513	printf "\n Description of available options:\n"
514	printf "\n Option Description Default-Value"
515	printf "\n -a base name of input files equiv. -d"
516	printf "\n -A archiving when using file-attribute fl"
517	printf "\n -b batch-job on local machine ---"
518	printf "\n -B do not delete temporary directory at end ---"
519	printf "\n -c configuration file .mrun.config"
520	printf "\n -d base name of files attached to program test"
521	printf "\n -D preprocessor(cpp)-directives \"\" "
522	printf "\n -F create remote job file only ---"
523	printf "\n -h execution host $localhost_realname"
524	printf "\n -i INPUT control list \"\" "
525	printf "\n -I archiving errors of previous batch-jobs"
526	printf "\n will be ignored"
527	printf "\n -k keep data from previous run"
528	printf "\n -K additional conditions for controling"
529	printf "\n usage of conditional code and"
530	printf "\n env-variables in configuration file \"\" "
531	printf "\n -m memory demand in MB (batch-jobs) 0 MB"
532	printf "\n -M Makefile name Makefile"
533	printf "\n -n node usage (shared/not_shared) depending on -h"
534	printf "\n -o OUTPUT control list \"\" "
535	printf "\n -O threads per openMP task ---"
536	printf "\n -p software package list \"\" "
537	printf "\n -q queue \"$queue\" "
538	printf "\n -r run control list (combines -i -o) \"\" "
539	printf "\n -s filenames of routines to be compiled \"\" "
540	printf "\n must end with .f, .f90, .F, or .c !"
541	printf "\n use \"..\" for more than one file and wildcards"
542	printf "\n -s LM compiles all locally modified files"
543	printf "\n -S config file interpreted by shellscript ---"
544	printf "\n -t allowed cpu-time in seconds (batch) 0"
545	printf "\n -T tasks per node depending on -h"
546	printf "\n -u username on remote machine \"\" "
547	printf "\n -v no prompt for confirmation ---"
548	printf "\n -w maximum parallel io streams as given by -X"
549	printf "\n -x tracing of mrun for debug purposes ---"
550	printf "\n -X # of processors (on parallel machines) 1"
551	printf "\n -y add appendix \"_O\" to all local output"
552	printf "\n files (ocean precursor runs followed by"
553	printf "\n coupled atmosphere-ocean runs) ---"
554	printf "\n -Y run coupled model, \"#1 #2\" with"
555	printf "\n #1 atmosphere and #2 ocean processors \"#/2 #/2\" depending on -X"
556	printf "\n -Z skip combine_plot_fields at the end of "
557	printf "\n the simulation ---"
558	printf "\n "
559	printf "\n Possible values of positional parameter <modus>:"
560	printf "\n \"?\" - this outline \n\n") \| more
561	exit
562	elif [[ "$1" != "" ]]
563	then
564	printf "\n +++ positional parameter $1 unknown \n"
565	locat=parameter; exit
566	fi
567
568
569
570	# SHORT STARTING MESSAGE
571	printf "\n*** $version "
572	printf "\n will be executed. Please wait ..."
573
574
575
576	# CHECK, IF CONFIGURATION FILE EXISTS
577	if [[ ! -f $config_file ]]
578	then
579	printf "\n\n +++ configuration file: "
580	printf "\n $config_file"
581	printf "\n does not exist"
582	locat=connect; exit
583	fi
584
585
586	# DETERMINE THE HOST-IDENTIFIER (localhost) FROM THE CONFIGURATION FILE
587	line=""
588	grep "%host_identifier" $config_file > tmp_mrun
589	while read line
590	do
591	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
592	then
593	HOSTNAME=`echo $line \| cut -d" " -s -f2`
594	host_identifier=`echo $line \| cut -d" " -s -f3`
595	if [[ $localhost_realname = $HOSTNAME ]]
596	then
597	localhost=$host_identifier
598	break
599	fi
600	fi
601	done < tmp_mrun
602
603	if [[ "$localhost" = "" ]]
604	then
605	printf "\n\n +++ no host identifier found in configuration file \"$config_file\""
606	printf "\n for local host \"$localhost_realname\"."
607	printf "\n Please add line"
608	printf "\n \"\%host_identifier $localhost_realname <identifier>\""
609	printf "\n to the configuration file."
610	locat=localhost; exit
611	fi
612
613
614	# SET HOST-SPECIFIC VARIABLES
615	case $localhost_realname in
616	(r1\|r2\|h01\|b01) archive_system=tivoli;;
617	(cs*) archive_system=ut;;
618	esac
619
620
621	# ??? THIS SHOULD BE DECRIBED IN THE MRUN DOCUMENTATION ???
622	# SET BASENAME OF THE INPUT-FILES TO THE GENERAL BASENAME (GIVEN BY OPTION -d),
623	# IF IT HAS NOT BEEN SET BY THE USER DIFFERENTLY (USING OPTION -a)
624	[[ "$afname" = "" ]] && afname=$fname
625
626
627	# ADD RUN-FILE ACTIVATION STRINGS (GIVEN BY OPTION -r) TO THE
628	# RESPECTIVE LISTS FOR ACTIVATING THE INPUT/OUTPUT FILE CONNECTION
629	# STATEMENTS IN THE CONFIGURATION FILE
630	if [[ "$run_mode" != "" ]]
631	then
632	input_list="$input_list $run_mode"
633	output_list="$output_list $run_mode"
634	fi
635
636
637	# ??? is this (and the respective option -H) really required ???
638	# STORE HOSTNAME, FROM WHICH THE JOB IS STARTED,
639	# BUT ONLY IF IT HASN'T BEEN ALREADY SET BY OPTION -H
640	# (MRUN IS AUTOMATICALLY SETTING THIS OPTION IN THE MRUN-CALLS WITHIN
641	# THOSE BATCH-JOBS, WHICH ARE CREATED BY MRUN ITSELF)
642	if [[ "$fromhost" = "" ]]
643	then
644	fromhost=$localhost
645	fi
646
647
648	# CHECK, IF EXECUTION SHALL TO BE DONE ON THE REMOTE-MACHINE.
649	# VALUE OF do_remote IS IMPORTANT FOR THE FILE CONNECTIONS.
650	# IN CASE OF EXECUTION ON A REMOTE-MACHINE, A BATCH-JOB HAS
651	# TO BE SUBMITTED (I.E. do_batch=true)
652	if [[ -n $host && "$host" != $localhost ]]
653	then
654	do_batch=true
655	do_remote=true
656	case $host in
657	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|nech\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lceddy\|lckyoto\|lcocean\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
658	(*) printf "\n"
659	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
660	printf "\n is not available"
661	locat=nqs; (( iec = 0 )); exit;;
662	esac
663	else
664	host=$localhost
665	fi
666
667
668	# EVALUATE ADDITIONAL CONDITIONS GIVEN BY OPTION -K
669	if [[ -n $additional_conditions ]]
670	then
671	cond1=`echo $additional_conditions \| cut -d" " -f1`
672	cond2=`echo $additional_conditions \| cut -d" " -s -f2`
673	dummy=`echo $additional_conditions \| cut -d" " -s -f3`
674	if [[ -n $dummy ]]
675	then
676	printf "\n +++ more than 2 additional conditions given for Option \"-K\""
677	locat=options; exit
678	fi
679	block=_$cond1
680	[[ -n $cond2 ]] && block=${block}_$cond2
681	fi
682
683
684	# EVALUATE MODEL COUPLING FEATURES (OPTION -Y) AND DETERMINE coupled_mode
685	if [[ $run_coupled_model = true ]]
686	then
687
688	numprocs_atmos=`echo $coupled_dist \| cut -d" " -s -f1`
689	numprocs_ocean=`echo $coupled_dist \| cut -d" " -s -f2`
690
691	if (( $numprocs_ocean + $numprocs_atmos != $numprocs ))
692	then
693
694	printf "\n +++ number of processors does not fit to specification by \"-Y\"."
695	printf "\n PEs (total) : $numprocs"
696	printf "\n PEs (atmosphere): $numprocs_atmos"
697	printf "\n PEs (ocean) : $numprocs_ocean"
698	locat=coupling; exit
699
700	fi
701
702
703	# GET coupled_mode FROM THE CONFIG FILE
704	line=""
705	grep "%cpp_options.-D__mpi2.$host" $config_file > tmp_mrun
706	while read line
707	do
708	echo line=\"$line\"
709	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" && $(echo $line \| cut -d" " -s -f4) = $cond1 && $(echo $line \| cut -d" " -s -f5) = $cond2 ]]
710	then
711	coupled_mode="mpi2"
712	fi
713	done < tmp_mrun
714
715	fi
716
717	# CHECK, IF FILE-ARCHIVING HAS FAILED IN PREVIOUS JOB (OF A JOB-CHAIN)
718	if [[ -f ~/job_queue/ARCHIVE_ERROR_$fname ]]
719	then
720	if [[ $ignore_archive_error = false ]]
721	then
722	printf "\n +++ data archiving of previous run failed"
723	printf "\n see directory \~/job_queue on remote machine"
724	locat=archive; exit
725	else
726	printf "\n +++ warning: data archiving in a previous run failed"
727	printf "\n MRUN continues, trying to get backup copy"
728	fi
729	fi
730
731
732	# SAVE VALUES OF MRUN-OPTIONS SICHERN IN ORDER TO OVERWRITE
733	# THOSE VALUES GIVEN IN THE CONFIGURATION-FILE
734	mrun_memory=$memory
735	mrun_group_number=$group_number
736	mrun_cpumax=$cpumax
737	mrun_numprocs=$numprocs
738
739
740	# READ AND EVALUATE THE CONFIGURATION-FILE FROM WITHIN THIS SHELLSCRIPT
741	# (OPTION -S). THE DEFAULT IS USING THE ROUTINE <<<<
742	if [[ "$read_from_config" = false ]]
743	then
744	[[ $silent = false ]] && printf "\n Reading the configuration file... "
745
746	# READ THE CONFIGURATION FILE LINE BY LINE
747	while read zeile
748	do
749	[[ $silent = false ]] && printf "."
750
751
752	# FIRST REPLACE ENVIRONMENT-VARIABLES BY THEIR RESPECTIVE VALUES
753	eval zeile=\"$zeile\"
754
755
756	# INTERPRET THE LINE
757	if [[ "$(echo $zeile)" = "" ]]
758	then
759	# EMPTY LINE, NO ACTION
760	continue
761
762	elif [[ "$(echo $zeile \| cut -c1)" = "#" ]]
763	then
764
765	# LINE IS A COMMENT LINE
766	true
767
768	elif [[ "$(echo $zeile \| cut -c1)" = "%" ]]
769	then
770
771	# LINE DEFINES AN ENVIRONMENT-VARIABLE
772	zeile=$(echo $zeile \| cut -c2-)
773	var=`echo $zeile \| cut -d" " -f1`
774	value=`echo $zeile \| cut -d" " -s -f2`
775	for_host=`echo $zeile \| cut -d" " -s -f3`
776	for_cond1=`echo $zeile \| cut -d" " -s -f4`
777	for_cond2=`echo $zeile \| cut -d" " -s -f5`
778
779	if [[ "$for_host" = "" \|\| ( "$for_host" = $host && "$for_cond1" = "$cond1" && "$for_cond2" = "$cond2" ) \|\| $(echo "$input_list$output_list"\|grep -c "$for_host") != 0 ]]
780	then
781
782	# REPLACE ":" BY " " IN COMPILER- CPP- OR LINKER-OPTIONS,
783	# "::" IS REPLACED BY ":".
784	value=`echo $value \| sed 's/::/%DUM%/g' \| sed 's/:/ /g' \| sed 's/%DUM%/:/g'`
785
786
787	# VALUE FROM THE CONFIGURATION-FILE IS ASSIGNED TO THE
788	# ENVIRONMENT-VARIABLE, BUT ONLY IF NO VALUE HAS BEEN ALREADY
789	# ASSIGNED WITHIN THIS SCRIPT (E.G. BY SCRIPT-OPTIONS).
790	# NON-ASSIGNED VARIABLES HAVE VALUE "" OR 0 (IN CASE OF INTEGER).
791	# HENCE THE GENERAL RULE IS: SCRIPT-OPTION OVERWRITES THE
792	# CONFIGURATION-FILE.
793	if [[ "$(eval echo \$$var)" = "" \|\| "$(eval echo \$$var)" = "0" ]]
794	then
795	eval $var=\$value
796
797	# TERMINAL OUTPUT OF ENVIRONMENT-VARIABLES, IF TRACEBACK IS SWITCHED on
798	if [[ $do_trace = true ]]
799	then
800	printf "\n*** ENVIRONMENT-VARIABLE $var = $value"
801	fi
802	fi
803
804	# IF AN ENVIRONMENT-VARIABLE DETERMINES THE HOST, THEN EVALUATE IT IMMEDIATELY:
805	# VALUE OF do-remote IS REQUIRED FOR THE FILE CONNECTIONS (COPY OF I/O FILES).
806	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MASCHINE, A BATCH-JOB
807	# MUST HAVE TO BE STARTED
808	if [[ $var = host ]]
809	then
810	if [[ -n $host && "$host" != $localhost ]]
811	then
812	do_batch=true
813	do_remote=true
814	case $host in
815	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lceddy\|lckyoto\|lcocean\|nech\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
816	(*) printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
817	printf "\n is not available"
818	locat=nqs; exit;;
819	esac
820	else
821	host=$localhost
822	fi
823	fi
824
825	# USER-DEFINED ENVIRONMENT VARIABLES MUST BE EXPORTED,
826	# BECAUSE THEY MAY BE REQUIRED IN OTHER SCRIPTS CALLED
827	# BY MRUN (E.G. subjob)
828	export $var
829	fi
830
831
832
833
834	elif [[ "$(echo $zeile \| cut -c1-3)" = "EC:" ]]
835	then
836
837	# LINE DEFINES ERROR-COMMAND
838	(( iec = iec + 1 ))
839	zeile=$(echo $zeile \| cut -c4-)
840	err_command[$iec]="$zeile"
841
842	elif [[ "$(echo $zeile \| cut -c1-3)" = "IC:" ]]
843	then
844
845	# LINE DEFINES INPUT-COMMAND
846	(( iic = iic + 1 ))
847	zeile=$(echo $zeile \| cut -c4-)
848	in_command[$iic]="$zeile"
849
850	elif [[ "$(echo $zeile \| cut -c1-3)" = "OC:" ]]
851	then
852
853	# LINE DEFINES OUTPUT-COMMAND
854	(( ioc = ioc + 1 ))
855	zeile=$(echo $zeile \| cut -c4-)
856	out_command[$ioc]="$zeile"
857
858	else
859
860	# LINE DEFINES FILE CONNECTION. READ THE FILE ATTRIBUTES.
861	# s2a: in/out - field
862	# s2b: loc - field (optional)
863	# s2c: tr/ar - field (optional)
864	s1=`echo $zeile \| cut -d" " -f1`
865	s2=`echo $zeile \| cut -d" " -s -f2`
866	s2a=$(echo $s2 \| cut -d":" -f1)
867	if [[ $(echo $s2 \| grep -c ":") = 0 ]]
868	then
869	s2b=""
870	s2c=""
871	else
872	s2b=`echo $s2 \| cut -d":" -f2 \| sed 's/:/ /g'`
873	s2c=`echo $s2 \| cut -d":" -s -f3 \| sed 's/:/ /g'`
874	fi
875	s3=`echo $zeile \| cut -d" " -f3`
876	s4=`echo $zeile \| cut -d" " -s -f4`
877	s5=`echo $zeile \| cut -d" " -s -f5`
878	s6=`echo $zeile \| cut -d" " -s -f6`
879
880
881	# STORE FILE CONNECTION, IF ACTIVATED BY ACTIVATION-STRING FROM
882	# INPUT- OR OUTPUT-LIST.
883	# VARIABLE S3 MAY CONTAIN A LIST OF ACTIVATION STRINGS (FIELD-SEPERATOR ":").
884	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MACHINE AND THE FILE IS ONLY
885	# LOCALLY REQUIRED ON THAT MACHINE (I.E. s2b = loc), THE FILE CONNECTION
886	# IS NOT CHECKED AND STORED.
887	IFSALT="$IFS"; IFS="$IFS:"
888	if [[ "$s2a" = in && ! ( $do_remote = true && ( "$s2b" = loc \|\| "$s2b" = locopt ) ) ]]
889	then
890	found=false
891	for actual in $input_list
892	do
893	for formal in $s3
894	do
895	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
896	done
897	done
898	if [[ $found = true ]]
899	then
900	(( iin = iin + 1 ))
901	localin[$iin]=$s1; transin[$iin]=$s2b; actionin[$iin]=$s2c;
902	typein[$iin]=$s3; pathin[$iin]=$s4; endin[$iin]=$s5;
903	extin[$iin]=$s6
904	fi
905	elif [[ "$s2a" = out && ! ( $do_remote = true && "$s2b" = loc ) ]]
906	then
907	found=false
908	for actual in $output_list
909	do
910	for formal in $s3
911	do
912	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
913	done
914	done
915	if [[ $found = true ]]
916	then
917	(( iout = iout + 1 ))
918	localout[$iout]=$s1; actionout[$iout]=$s2c; typeout[$iout]=$s3;
919	pathout[$iout]=$s4; endout[$iout]=$s5; extout[$iout]=$s6
920	fi
921	elif [[ "$s2a" != in && "$s2a" != out ]]
922	then
923	printf "\n +++ I/O-attribute in configuration file $config_file has the invalid"
924	printf "\n value \"$s2\". Only \"in\" and \"out\" are allowed!"
925	locat=connect; exit
926	fi
927	IFS="$IFSALT"
928	fi
929	done < $config_file
930
931	else
932
933	# EVALUATE THE CONFIGURATION-FILE BY FORTRAN-PROGRAM
934	[[ $silent = false ]] && printf "..."
935	interpreted_config_file=.icf.$RANDOM
936
937
938
939	# PROVIDE VALUES OF ENVIRONMENT-VARIABLE FOR interpret_config VIA NAMELIST-FILE
940	cat > .mrun_environment << %%END%%
941	&mrun_environment cond1 = '$cond1', cond2 = '$cond2',
942	config_file = '$config_file', do_remote = '$do_remote',
943	do_trace = '$do_trace', host = '$host',
944	input_list = '$input_list', icf = '$interpreted_config_file',
945	localhost = '$localhost', output_list = '$output_list' /
946
947	%%END%%
948
949	if [[ "$host" != $localhost ]]
950	then
951
952	# REMOTE JOB FROM LOCAL HOST: JUST TAKE THE FIRST EXECUTABLE FOUND
953	interpret_config_executable=`ls -1 ${PALM_BIN}/interpret_config*.x 2>/dev/null`
954	if [[ $? != 0 ]]
955	then
956	printf "\n\n +++ no interpret_config found"
957	printf "\n run \"mbuild -u -h ...\" to generate utilities for this host"
958	locat=interpret_config; exit
959	fi
960	interpret_config_executable=`echo $interpret_config_executable \| cut -d" " -f1`
961	$interpret_config_executable
962
963	else
964
965	# CHECK, IF THERE IS AN EXECUTABLE FOR THE BLOCK
966	if [[ ! -f ${PALM_BIN}/interpret_config${block}.x ]]
967	then
968	printf "\n\n +++ no interpret_config found for given block \"$cond1 $cond2\""
969	printf "\n run \"mbuild -u -h ...\" to generate utilities for this block"
970	locat=interpret_config; exit
971	else
972	interpret_config${block}.x
973	fi
974
975	fi
976	rm .mrun_environment
977
978
979	# EXECUTE SHELL-COMMANDS GENERATED BY interpret_config WITHIN THIS SHELL
980	chmod u+x $interpreted_config_file
981	export PATH=$PATH:.
982	. $interpreted_config_file
983	rm $interpreted_config_file
984
985	fi
986
987
988	# VALUES OF MRUN-OPTIONS OVERWRITE THOSE FROM THE CONFIGURATION-FILE
989	[[ $mrun_memory != 0 ]] && memory=$mrun_memory
990	[[ "$mrun_group_number" != "none" ]] && group_number=$mrun_group_number
991	[[ $mrun_cpumax != 0 ]] && cpumax=$mrun_cpumax
992	[[ "$mrun_numprocs" != "" ]] && numprocs=$mrun_numprocs
993	[[ "$max_par_io_str" != "" ]] && maximum_parallel_io_streams=$max_par_io_str
994	[[ "$mrun_tasks_per_node" != "" ]] && tasks_per_node=$mrun_tasks_per_node
995
996
997	# ON THE LOCAL MACHINE, DETERMINE (FROM THE CONFIGURATION-FILE) THE PATH
998	# FOR SOURCE-FILES TO BE COMPILED.
999	# IN A BATCH-JOB, SOURCES (ROUTINES TO BE COMPILED) ARE COMPLETE ALREADY.
1000	# BEFORE MRUN IS CALLED IN THE JOB, SOURCES_COMPLETE = true IS ASSIGNED (SEE FURTHER BELOW).
1001	if [[ "$SOURCES_COMPLETE" = "" ]]
1002	then
1003
1004	# FIRST CHECK, IF A GLOBAL SOURCE PATH (TO BE USED FOR ALL HOSTS)
1005	# HAS BEEN DEFINED
1006	source_path=""
1007	line=""
1008	grep "%source_path" $config_file > tmp_mrun
1009	while read line
1010	do
1011	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
1012	then
1013	if [[ "$(echo $line \| cut -d" " -f3)" = "" ]]
1014	then
1015	global_source_path=`echo $line \| cut -d" " -f2`
1016	fi
1017	fi
1018	done < tmp_mrun
1019
1020	line=""
1021	found=false
1022	grep " $localhost" $config_file \| grep "%source_path" > tmp_mrun
1023	while read line
1024	do
1025	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
1026	then
1027	if [[ $found = true ]]
1028	then
1029	printf "\n\n +++ more than one source path found in configuration file"
1030	printf "\n for local host \"$localhost\" "
1031	locat=source_path; exit
1032	fi
1033	source_path=`echo $line \| cut -d" " -f2`
1034	found=true
1035	fi
1036	done < tmp_mrun
1037	rm tmp_mrun
1038
1039	if [[ "$source_path" = "" ]]
1040	then
1041	if [[ "$global_source_path" != "" ]]
1042	then
1043	source_path=$global_source_path
1044	else
1045	printf "\n\n +++ no source path found in configuration file"
1046	printf "\n for local host \"$localhost\" "
1047	locat=source_path; exit
1048	fi
1049	fi
1050	eval source_path=$source_path
1051
1052	if [[ ! -d $source_path ]]
1053	then
1054	printf "\n\n +++ source path \"$source_path\" on local host"
1055	printf "\n \"$localhost\" does not exist"
1056	locat=source_path; exit
1057	fi
1058
1059	fi
1060
1061
1062	# GET THE GLOBAL REVISION-NUMBER OF THE SVN-REPOSITORY
1063	# (HANDED OVER TO RESTART-RUNS USING OPTION -G)
1064	if [[ "$global_revision" = "" && $host != "ibmkisti" ]]
1065	then
1066	global_revision=`svnversion $source_path 2>/dev/null`
1067	global_revision="Rev: $global_revision"
1068	fi
1069
1070
1071	# ??? das darf doch eigentlich garnicht passieren, weil optionen config-datei uebersteuern ???
1072	# CHECK AGAIN, IF EXECUTION SHALL BE DONE ON A REMOTE-HOST (BATCH-JOB).
1073	# (HOST MAY HAVE CHANGED DUE TO SETTINGS IN THE CONFIGURATION-FILE)
1074	if [[ -n $host && "$host" != $localhost ]]
1075	then
1076	do_batch=true
1077	do_remote=true
1078	case $host in
1079	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lceddy\|lckyoto\|lcocean\|nech\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
1080	(*) printf "\n"
1081	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
1082	printf "\n is not available"
1083	locat=nqs; (( iec = 0 )); exit;;
1084	esac
1085	else
1086	host=$localhost
1087	fi
1088
1089
1090
1091	# IN CASE OF PARALLEL EXECUTION, CHECK SOME SPECIFICATIONS CONCERNING PROCESSOR NUMBERS
1092	if [[ "$cond1" = parallel \|\| "$cond2" = parallel ]]
1093	then
1094
1095	# CHECK, IF NUMBER OF CORES TO BE USED HAS BEEN GIVEN
1096	if [[ ! -n $numprocs ]]
1097	then
1098	printf "\n"
1099	printf "\n +++ option \"-K parallel\" requires additional specification"
1100	printf "\n of the number of processors to be used by"
1101	printf "\n mrun-option \"-X\" or by environment-variable"
1102	printf "\n \"numprocs\" in the configuration file"
1103	locat=numprocs; (( iec = 0 )); exit
1104	fi
1105
1106	# CHECK, IF THE NUMBER OF CORES PER NODE HAS BEEN GIVEN UND IF IT IS AN
1107	# INTEGRAL DIVISOR OF THE TOTAL NUMBER OF CORES GIVEN BY OPTION -X
1108	if [[ "$tasks_per_node" = "" && $host != lcxt5m ]]
1109	then
1110	printf "\n"
1111	printf "\n +++ option \"-T\" (tasks per node) is missing"
1112	printf "\n set -T option or define tasks_per_node in the config file"
1113	locat=tasks_per_node; (( iec = 0 )); exit
1114	fi
1115
1116	if (( numprocs < tasks_per_node ))
1117	then
1118	printf "\n"
1119	printf "\n +++ tasks per node (-T) cannot exceed total number of processors (-X)"
1120	printf "\n given values: -T $tasks_per_node -X $numprocs"
1121	locat=tasks_per_node; (( iec = 0 )); exit
1122	fi
1123
1124	if [[ $host != lcxt5m ]]
1125	then
1126	(( nodes = numprocs / ( tasks_per_node * threads_per_task ) ))
1127	(( ival = $tasks_per_node ))
1128	(( pes = numprocs ))
1129	(( ii = pes / ival ))
1130	(( remaining_pes = pes - ii * ival ))
1131	if (( remaining_pes > 0 ))
1132	then
1133	printf "\n"
1134	printf "\n +++ WARNING: tasks per node (option \"-T\") is not an integral"
1135	printf "\n divisor of the total number of processors (option \"-X\")"
1136	printf "\n values of this mrun-call: \"-T $tasks_per_node\" \"-X $numprocs\""
1137	printf "\n One of the nodes is filled with $remaining_pes instead of $tasks_per_node tasks"
1138	(( nodes = nodes + 1 ))
1139	fi
1140	fi
1141
1142
1143	# SETTINGS FOR SUBJOB-COMMAND
1144	OOPT="-O $threads_per_task"
1145
1146	# SET THE TOTAL NUMBER OF NODES, REQUIRED FOR THE SUBJOB-COMMAND (SEE FURTHER BELOW)
1147	if [[ "$tasks_per_node" != "" ]]
1148	then
1149	TOPT="-T $tasks_per_node"
1150	fi
1151
1152	# CHECK node_usage FOR ALLOWED VALUES AND SET DEFAULT VALUE, IF NECESSARY
1153	if [[ $node_usage = default ]]
1154	then
1155	if [[ $host = ibms ]]
1156	then
1157	node_usage=shared
1158	else
1159	node_usage=not_shared
1160	fi
1161	fi
1162
1163	if [[ $node_usage != shared && $node_usage != not_shared && $node_usage != singlejob && "$(echo $node_usage \| cut -c1-3)" != "sla" ]]
1164	then
1165	printf "\n"
1166	printf "\n +++ node usage (option \"-n\") is only allowed to be set"
1167	printf "\n \"shared\" or \"not_shared\""
1168	locat=tasks_per_node; (( iec = 0 )); exit
1169	fi
1170
1171	fi
1172
1173	# CHECK IF HOSTFILE EXISTS
1174	if [[ -n $hostfile ]]
1175	then
1176	if [[ ! -f $hostfile ]]
1177	then
1178	printf "\n"
1179	printf "\n +++ hostfile \"$hostfile\" does not exist"
1180	locat=hostfile; exit
1181	fi
1182	fi
1183
1184
1185	# SET DEFAULT VALUE FOR THE MAXIMUM NUMBER OF PARALLEL IO STREAMS
1186	if [[ "$maximum_parallel_io_streams" = "" ]]
1187	then
1188	maximum_parallel_io_streams=$numprocs
1189	fi
1190
1191
1192	# SET PORT NUMBER OPTION FOR CALLS OF SSH/SCP, subjob AND batch_scp SCRIPTS
1193	if [[ "$scp_port" != "" ]]
1194	then
1195	PORTOPT="-P $scp_port"
1196	SSH_PORTOPT="-p $scp_port"
1197	fi
1198
1199
1200	# DETERMINE THE SSH-OPTION IN CASE THAT AN SSH-KEY IS EXPLICITLY GIVEN IN THE
1201	# CONFIG-FILE
1202	if [[ "$ssh_key" != "" ]]
1203	then
1204	ssh_key="-i $HOME/.ssh/$ssh_key"
1205	fi
1206
1207
1208	# SET DEFAULT-QUEUE, IF NOT GIVEN
1209	if [[ $queue = none ]]
1210	then
1211	case $host in
1212	(ibmh) queue=cluster;;
1213	(ibmkisti) queue=class.32plus;;
1214	(lcbullhh) queue=compute;;
1215	(lccrayb) queue=mpp1q;;
1216	(lccrayh) queue=mpp1q;;
1217	(lckiaps) queue=normal;;
1218	(lckyoto) queue=ph;;
1219	(lckyuh) queue=fx-single;;
1220	(lckyut) queue=cx-single;;
1221	(lctit) queue=S;;
1222	(nech) queue=none;;
1223	(unics) queue=unics;;
1224	esac
1225	fi
1226
1227
1228	# GENERATE FULL FILENAMES OF INPUT-FILES, INCLUDING THEIR PATH
1229	# CHECK, IF INPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST)
1230	(( i = 0 ))
1231	while (( i < iin ))
1232	do
1233	(( i = i + 1 ))
1234	(( maxcycle = 0 ))
1235
1236	# GENERATE PATH AND FULL FILE NAME (then-BRANCH: FIXED FULL NAME IS GIVEN, I.E. THE
1237	# FILE IDENTIFIER IS NOT PART OF THE FILENAME))
1238	if [[ "${actionin[$i]}" = di ]]
1239	then
1240	remotepathin[$i]=${pathin[$i]}/${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
1241	# HOST ONLY
1242	eval filename=${pathin[$i]}/${endin[$i]}
1243	else
1244	remotepathin[$i]=${pathin[$i]}/${afname}${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
1245	# HOST ONLY
1246	eval filename=${pathin[$i]}/${afname}${endin[$i]}
1247	fi
1248	eval pathname=${pathin[$i]}
1249
1250	# CHECK IF FILE EXISTS
1251	if ! ls $filename* 1>/dev/null 2>&1
1252	then
1253
1254	# FILES WITH ATTRIBUTE locopt ARE OPTIONAL. NO ABORT, IF THEY DO NOT EXIST.
1255	if [[ "${transin[$i]}" != "locopt" ]]
1256	then
1257	printf "\n\n +++ INPUT-file: "
1258	if [[ "${extin[$i]}" = "" ]]
1259	then
1260	printf "\n $filename"
1261	else
1262	printf "\n $filename.${extin[$i]}"
1263	fi
1264	printf "\n does not exist\n"
1265	locat=input; exit
1266	else
1267	transin[$i]="unavailable"
1268	fi
1269	else
1270
1271	# DETERMINE THE FILE'S CYCLE NUMBER
1272	ls -1 -d $filename > filelist 2>/dev/null
1273	ls -1 -d $filename.* >> filelist 2>/dev/null
1274	while read zeile
1275	do
1276	cycle=$(echo $zeile \| cut -f2 -d".")
1277	if [[ "$cycle" = "$zeile" ]]
1278	then
1279	(( icycle = 0 ))
1280	elif [[ "$cycle" = "${extin[$i]}" ]]
1281	then
1282	(( icycle = 0 ))
1283	else
1284	(( icycle = $cycle ))
1285	fi
1286	if (( icycle > maxcycle ))
1287	then
1288	(( maxcycle = icycle ))
1289	file_to_be_used=$zeile
1290	fi
1291	done <filelist
1292	rm filelist
1293
1294	# APPEND CYCLE NUMBER TO FILENAME
1295	if (( maxcycle > 0 ))
1296	then
1297	if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]]
1298	then
1299	filename=${filename}.$maxcycle.${extin[$i]}
1300	else
1301	filename=${filename}.$maxcycle
1302	fi
1303	else
1304	if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]]
1305	then
1306	filename=${filename}.${extin[$i]}
1307	fi
1308	fi
1309
1310	# STORE FILENAME WITHOUT PATH BUT WITH CYCLE NUMBER,
1311	# BECAUSE IT MIGHT BE REQUIRED LATER TO RESTORE THE FILE FROM AN ARCHIVE-SYSTEM
1312	absnamein[$i]=$filename
1313	if (( maxcycle > 0 ))
1314	then
1315	if [[ "${actionin[$i]}" = di ]]
1316	then
1317	frelin[$i]=${endin[$i]}.$maxcycle
1318	else
1319	frelin[$i]=${afname}${endin[$i]}.$maxcycle
1320	fi
1321	else
1322	if [[ "${actionin[$i]}" = di ]]
1323	then
1324	frelin[$i]=${endin[$i]}
1325	else
1326	frelin[$i]=${afname}${endin[$i]}
1327	fi
1328	fi
1329
1330	fi
1331	done
1332
1333	# GENERATE FULL FILENAMES OF OUTPUT-FILES (WITHOUT $ OR ~),
1334	# CHECK, IF OUTPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST),
1335	# OR, IN CASE THAT FILE DOES NOT EXIST, CHECK, IF IT CAN BE CREATED
1336	# THESE ACTIONS ARE NOT CARRIED OUT, IF FILES SHALL BE TRASFERRED FROM THE REMOTE TO
1337	# THE LOCAL HOST (BECAUSE THEIR IS NO DIRECT ACCESS TO THE LOCAL DIRECTORIES FROM THE
1338	# REMOTE HOST)
1339	(( i = 0 ))
1340	while (( i < iout ))
1341	do
1342	(( i = i + 1 ))
1343	if [[ ! ( $fromhost != $localhost && ( "${actionout[$i]}" = tr \|\| "${actionout[$i]}" = tra \|\| "${actionout[$i]}" = trpe ) ) ]]
1344	then
1345	if [[ "${actionout[$i]}" = tr ]]
1346	then
1347	actionout[$i]=""
1348	elif [[ "${actionout[$i]}" = trpe ]]
1349	then
1350	actionout[$i]=pe
1351	elif [[ "${actionout[$i]}" = tra ]]
1352	then
1353	actionout[$i]=a
1354	fi
1355	(( maxcycle = 0 ))
1356	eval filename=${pathout[$i]}/${fname}${endout[$i]}
1357	eval catalogname=${pathout[$i]}
1358	if ! ls $filename* 1>/dev/null 2>&1
1359	then
1360
1361	# IF OUTPUT-FILE DOES NOT EXIST CHECK, IF IT CAN BE CREATED
1362	if cat /dev/null > $filename
1363	then
1364	rm $filename
1365	else
1366
1367	# CHECK, IF THE DIRECTORY WHERE FILE SHALL BE COPIED TO EXISTS
1368	# IF IT DOES NOT EXIST, TRY TO CREATE IT
1369	if [[ ! -d $catalogname ]]
1370	then
1371	if mkdir -p $catalogname
1372	then
1373	printf "\n\n *** directory:"
1374	printf "\n $catalogname"
1375	printf "\n was created\n"
1376	else
1377	printf "\n\n +++ OUTPUT-file:"
1378	printf "\n $filename"
1379	printf "\n cannot be created, because directory does not exist"
1380	printf "\n and cannot be created either"
1381	printf "\n"
1382	locat=output ; exit
1383	fi 2>/dev/null
1384	else
1385	printf "\n\n +++ OUTPUT-file:"
1386	printf "\n $filename"
1387	printf "\n cannot be created, although directory exists"
1388	printf "\n"
1389	locat=output ; exit
1390	fi
1391	fi 2>/dev/null
1392	else
1393
1394	# DETERMINE THE CYCLE NUMBER
1395	ls -1 -d $filename > filelist 2>/dev/null
1396	ls -1 -d $filename.* >> filelist 2>/dev/null
1397	while read zeile
1398	do
1399	cycle=$(echo $zeile \| cut -f2 -d".")
1400	if [[ "$cycle" = "$zeile" \|\| "$cycle" = ${extout[$i]} ]]
1401	then
1402	(( icycle = 1 ))
1403	else
1404	(( icycle = $cycle + 1 ))
1405	fi
1406	if (( icycle > maxcycle ))
1407	then
1408	(( maxcycle = icycle ))
1409	fi
1410	done <filelist
1411	rm filelist
1412	fi
1413
1414	# APPEND CYCLE NUMBER TO FILENAME AND CHECK, IF FILE CAN BE CREATED
1415	# IN CASE OF FILE-APPEND, FILE MUST BE APPENDED TO THE ONE WITH HIGHEST CYCLE NUMBER
1416	if [[ "${actionout[$i]}" != a ]]
1417	then
1418	if (( maxcycle > 0 ))
1419	then
1420	filename=${filename}.$maxcycle
1421	if cat /dev/null > $filename
1422	then
1423	rm $filename
1424	else
1425	printf "\n +++ OUTPUT-file:"
1426	printf "\n $filename"
1427	printf "\n cannot be created"
1428	locat=output ; exit
1429	fi
1430	fi
1431	else
1432	(( maxcycle = maxcycle - 1 ))
1433	if (( maxcycle > 0 ))
1434	then
1435	filename=${filename}.$maxcycle
1436	fi
1437	fi
1438
1439	# STORE FILENAME WITHOUT PATH BUT WITH CYCLE NUMBER,
1440	# BECAUSE IT MIGHT BE REQUIRED LATER TO STORE THE FILE ON AN ARCHIVE-SYSTEM
1441	# OR TO PUT THIS FILENAME ON FILE OUTPUT_FILE_CONNECTIONS
1442	pathout[$i]=$filename
1443	if (( maxcycle > 0 ))
1444	then
1445	frelout[$i]=${fname}${endout[$i]}.$maxcycle
1446	else
1447	frelout[$i]=${fname}${endout[$i]}
1448	fi
1449
1450	fi
1451	done
1452
1453
1454	# THE DVR-PACKAGE REQUIRES ITS OWN LIBRARY
1455	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
1456	then
1457	if [[ "$dvr_inc" = "" ]]
1458	then
1459	printf "\n\n +++ no value for \"dvr_inc\" given in configuration file"
1460	printf "\n This is required for the dvrp_graphics package.\n"
1461	locat=dvr; exit
1462	fi
1463	if [[ "$dvr_lib" = "" ]]
1464	then
1465	printf "\n\n +++ no value for \"dvr_lib\" given in configuration file"
1466	printf "\n This is required for the dvrp_graphics package.\n"
1467	locat=dvr; exit
1468	fi
1469	fi
1470
1471
1472	# CHECK, WETHER A MAIN PROGRAM OR AN EXECUTABLE HAVE BEEN DECLARED.
1473	# EXECUTABLES DO NOT NEED TO BE COMPILED.
1474	if [[ "$mainprog" = "" && "$executable" = "" ]]
1475	then
1476	printf "\n +++ neither main program nor executable defined"
1477	locat=source; exit
1478	elif [[ "$mainprog" != "" && "$executable" != "" ]]
1479	then
1480	printf "\n +++ main program as well as executable defined"
1481	locat=source; exit
1482	elif [[ "$mainprog" = "" && "$executable" != "" ]]
1483	then
1484	do_compile=false
1485	fi
1486
1487
1488	# CREATE SOURCE-DIRECTORY TO COLLECT ROUTINES TO BE COMPILED.
1489	# LATER THE MRUN-SCRIPT AND CONFIGURATION-FILE WILL ALSO BE COPIED TO THIS DIRECTORY.
1490	if [[ $restart_run != true && "$SOURCES_COMPLETE" = "" ]]
1491	then
1492	rm -rf SOURCES_FOR_RUN_$fname
1493	mkdir SOURCES_FOR_RUN_$fname
1494	fi
1495
1496
1497	# COLLECT ALL ROUTINES TO BE COMPILED
1498	# THIS IS NOT REQUIRED WITHIN BATCH-JOBS, BECAUSE ROUTINES HAVE ALREADY BEEN COLLECTED
1499	# BY THE MRUN-CALL WHICH CREATED THE BATCH-JOB.
1500	if [[ $do_compile = true && "$SOURCES_COMPLETE" = "" ]]
1501	then
1502
1503	[[ "$source_list" = LM ]] && source_list=LOCALLY_MODIFIED
1504
1505	if [[ "$source_list" = LOCALLY_MODIFIED ]]
1506	then
1507
1508	# DETERMINE MODIFIED FILES OF THE SVN WORKING COPY
1509	source_list=""
1510	cd $source_path
1511
1512
1513	# CHECK, IF DIRECTORY IS UNDER SVN CONTROL
1514	if [[ ! -d .svn ]]
1515	then
1516	printf "\n\n +++ source directory"
1517	printf "\n \"$source_path\" "
1518	printf "\n is not under control of \"subversion\"."
1519	printf "\n Please do not use mrun-option \"-s LOCALLY_MODIFIED\"\n"
1520	fi
1521
1522
1523	# LIST ALL MODIFIED SOURCE CODE FILES
1524	Filenames=""
1525	svn status > tmp_mrun
1526	while read line
1527	do
1528	firstc=`echo $line \| cut -c1`
1529	if [[ $firstc = M \|\| $firstc = "?" ]]
1530	then
1531	Name=`echo "$line" \| cut -c8-`
1532	extension=`echo $Name \| cut -d. -f2`
1533	if [[ "$extension" = f90 \|\| "$extension" = F90 \|\| "$extension" = f \|\| "$extension" = F \|\| "$extension" = c ]]
1534	then
1535	Filenames="$Filenames "$Name
1536	fi
1537	fi
1538	done < tmp_mrun
1539
1540
1541	# COPY FILES TO SOURCES_FOR_RUN_...
1542	for dateiname in $Filenames
1543	do
1544	cp $dateiname $working_directory/SOURCES_FOR_RUN_$fname
1545	source_list=$source_list"$dateiname "
1546	done
1547
1548	cd - > /dev/null
1549
1550
1551	# COPY FILES GIVEN BY OPTION -s TO DIRECTORY SOURCES_FOR_RUN_...
1552	# AUTOMATIC RESTART RUNS JUST ACCESS THE DIRECTORY CREATED BY THE INITIAL RUN
1553	elif [[ "$source_list" != "" && $restart_run != true ]]
1554	then
1555
1556	cd $source_path
1557
1558	for filename in $source_list
1559	do
1560
1561	# SOURCE CODE FILE IS NOT ALLOWED TO INCLUDE PATH
1562	if [[ $(echo $filename \| grep -c "/") != 0 ]]
1563	then
1564	printf "\n +++ source code file: $filename"
1565	printf "\n must not contain (\"/\") "
1566	locat=source; exit
1567	fi
1568
1569	if [[ ! -f $filename ]]
1570	then
1571	printf "\n +++ source code file: $filename"
1572	printf "\n does not exist"
1573	locat=source; exit
1574	else
1575	cp $filename $working_directory/SOURCES_FOR_RUN_$fname
1576	fi
1577
1578	done
1579
1580	cd - > /dev/null
1581
1582	fi
1583
1584
1585	# CHECK, IF A MAIN PROGRAM EXISTS AND IF IT IS PART OF THE LIST OF FILES
1586	# TO BE COMPILED. IF NOT, ADD IT TO THE LIST.
1587	if [[ $restart_run != true ]]
1588	then
1589
1590	if [[ ! -f "$source_path/$mainprog" ]]
1591	then
1592	printf "\n\n +++ main program: $mainprog"
1593	printf "\n does not exist in source directory"
1594	printf "\n \"$source_path\"\n"
1595	locat=source; exit
1596	else
1597	if [[ $(echo $source_list \| grep -c $mainprog) = 0 ]]
1598	then
1599	cp $source_path/$mainprog SOURCES_FOR_RUN_$fname
1600	source_list=${mainprog}" $source_list"
1601	fi
1602	fi
1603	fi
1604
1605
1606	# CHECK, IF MAKEFILE EXISTS AND COPY IT TO THE SOURCES_FOR_RUN... DIRECTORY
1607	# NOT REQUIRED FOR RESTART RUNS, SOURCES_FOR_RUN... HAS BEEN CREATED BY THE INITIAL RUN
1608	if [[ "$restart_run" != true ]]
1609	then
1610	[[ "$makefile" = "" ]] && makefile=$source_path/Makefile
1611	if [[ ! -f $makefile ]]
1612	then
1613	printf "\n +++ file \"$makefile\" does not exist"
1614	locat=make; exit
1615	else
1616	cp $makefile SOURCES_FOR_RUN_$fname/Makefile
1617	fi
1618	fi
1619
1620
1621	# COPY FILES FROM OPTIONAL SOURCE PATH GIVEN IN THE CONFIGURATION FILE
1622	if [[ $restart_run != true && "$add_source_path" != "" ]]
1623	then
1624
1625	# DOES THE DIRECTORY EXIST?
1626	if [[ ! -d $add_source_path ]]
1627	then
1628	printf "\n\n *** INFORMATIVE: additional source code directory"
1629	printf "\n \"$add_source_path\" "
1630	printf "\n does not exist or is not a directory."
1631	printf "\n No source code will be used from this directory!\n"
1632	add_source_path=""
1633	if [[ $silent == false ]]
1634	then
1635	sleep 3
1636	fi
1637	else
1638
1639	cd $add_source_path
1640	found=false
1641
1642	Names=$(ls -1 *.f90 2>&1)
1643	[[ $(echo $Names \| grep -c '*.f90') = 0 ]] && AddFilenames="$Names"
1644	Names=$(ls -1 *.F90 2>&1)
1645	[[ $(echo $Names \| grep -c '*.F90') = 0 ]] && AddFilenames="$AddFilenames $Names"
1646	Names=$(ls -1 *.F 2>&1)
1647	[[ $(echo $Names \| grep -c '*.F') = 0 ]] && AddFilenames="$AddFilenames $Names"
1648	Names=$(ls -1 *.f 2>&1)
1649	[[ $(echo $Names \| grep -c '*.f') = 0 ]] && AddFilenames="$AddFilenames $Names"
1650	Names=$(ls -1 *.c 2>&1)
1651	[[ $(echo $Names \| grep -c '*.c') = 0 ]] && AddFilenames="$AddFilenames $Names"
1652
1653	cd - > /dev/null
1654	cd SOURCES_FOR_RUN_$fname
1655
1656	# COPY MAKEFILE IF EXISTING
1657	if [[ -f $add_source_path/Makefile ]]
1658	then
1659	printf "\n\n *** user Makefile from directory"
1660	printf "\n \"$add_source_path\" is used \n"
1661	if [[ $silent == false ]]
1662	then
1663	sleep 1
1664	fi
1665	cp $add_source_path/Makefile .
1666	fi
1667
1668	for dateiname in $AddFilenames
1669	do
1670	if [[ -f $dateiname ]]
1671	then
1672	printf "\n +++ source code file \"$dateiname\" found in additional"
1673	printf "\n source code directory \"$add_source_path\" "
1674	printf "\n but was also given with option \"-s\" which means that it should be taken"
1675	printf "\n from directory \"$source_path\"."
1676	locat=source; exit
1677	fi
1678
1679	cp $add_source_path/$dateiname .
1680	source_list="$source_list $dateiname"
1681
1682	# CHECK IF FILE IS CONTAINED IN MAKEFILE
1683	if [[ $(grep -c $dateiname Makefile) = 0 ]]
1684	then
1685	printf "\n\n +++ user file \"$dateiname\" "
1686	printf "\n is not listed in Makefile \n"
1687	locat=source; exit
1688	else
1689
1690	if [[ $found = false ]]
1691	then
1692	found=true
1693	printf "\n\n *** following user file(s) added to the"
1694	printf " files to be translated:\n "
1695	fi
1696	printf "$dateiname "
1697	if [[ $silent == false ]]
1698	then
1699	sleep 0.5
1700	fi
1701
1702	fi
1703	done
1704	[[ $found = true ]] && printf "\n"
1705	cd - > /dev/null
1706	fi
1707	fi
1708
1709
1710	# ADD ALL ROUTINES BELONGING TO SOFTWARE PACKAGES (GIVEN BY OPTION -p)
1711	# TO THE LIST OF FILES TO BE COMPILED
1712	if [[ $restart_run != true && -n $package_list ]]
1713	then
1714
1715	cd $source_path
1716
1717	for package in $package_list
1718	do
1719
1720	[[ $package = "dvrp_graphics+1PE" ]] && package=dvrp_graphics
1721
1722	# DETERMINE FILES BELONGING TO THE PACKAGE
1723	# ERROR MESSAGE ARE REDIRECTED TO /dev/null, BECAUSE WILDCARD (*) ALSO GIVES
1724	# THE NAME OF THE DIRECTORY
1725	package_source_list=`grep "defined( __$package " * 2>/dev/null \| cut -f1 -d:`
1726
1727
1728	# ADD THESE FILES TO THE LIST OF FILES TO BE COMPILED,
1729	# IF THEY ARE NOT ALREADY PART OF THE LIST
1730	for source_list_name in $package_source_list
1731	do
1732	if [[ $(echo $source_list \| grep -c $source_list_name) = 0 ]]
1733	then
1734
1735	# ONLY TAKE FILES WITH VALID SUFFIX
1736	ending=`echo $source_list_name \| cut -f2 -d.`
1737	if [[ "$ending" = f90 \|\| "$ending" = F90 \|\| "$ending" = f \|\| "$ending" = F \|\| "$ending" = c ]]
1738	then
1739	cp $source_list_name $working_directory/SOURCES_FOR_RUN_$fname
1740	source_list="$source_list $source_list_name"
1741	fi
1742	fi
1743	done
1744	done
1745
1746	cd - > /dev/null
1747	fi
1748
1749	fi # do_compile=true
1750
1751
1752	# IF SOURCE CODE IS TO BE COMPILED, DO SOME MORE CHECKS
1753	# AND SET PRE-PROCESSOR DIRECTIVES
1754	if [[ $do_compile = true \|\| $create_executable_for_batch = true ]]
1755	then
1756
1757	# SET PREPROCESSOR-DIRECTIVES TO SELECT OPERATING SYSTEM SPECIFIC CODE
1758	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1759	then
1760	cpp_options="${cpp_options},-D__ibm=__ibm"
1761	elif [[ $(echo $localhost \| cut -c1-3) = nec ]]
1762	then
1763	cpp_options="$cpp_options -D__nec"
1764	elif [[ $(echo $localhost \| cut -c1-2) = lc ]]
1765	then
1766	cpp_options="$cpp_options -D__lc"
1767	else
1768	cpp_options="$cpp_options -D__$localhost"
1769	fi
1770
1771	# SET DIRECTIVES GIVEN BY OPTION -K (E.G. parallel)
1772	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1773	then
1774	[[ -n $cond1 ]] && cpp_options="${cpp_options},-D__$cond1=__$cond1"
1775	[[ -n $cond2 ]] && cpp_options="${cpp_options},-D__$cond2=__$cond2"
1776	else
1777	[[ -n $cond1 ]] && cpp_options="$cpp_options -D__$cond1"
1778	[[ -n $cond2 ]] && cpp_options="$cpp_options -D__$cond2"
1779	fi
1780
1781	# SET DIRECTIVES FOR ACTIVATING SOFTWARE-PACKAGES (OPTION -p)
1782	if [[ -n $package_list ]]
1783	then
1784	for package in $package_list
1785	do
1786	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1787	then
1788	if [[ $package != "dvrp_graphics+1PE" ]]
1789	then
1790	cpp_options="${cpp_options},-D__$package=__$package"
1791	else
1792	cpp_options="${cpp_options},-D__dvrp_graphics=__dvrp_graphics"
1793	export use_seperate_pe_for_dvrp_output=true
1794	fi
1795	else
1796	if [[ $package != "dvrp_graphics+1PE" ]]
1797	then
1798	cpp_options="$cpp_options -D__$package"
1799	else
1800	cpp_options="$cpp_options -D__dvrp_graphics"
1801	export use_seperate_pe_for_dvrp_output=true
1802	fi
1803	fi
1804	done
1805	fi
1806
1807	# SET DIRECTIVES GIVEN BY OPTION -D
1808	if [[ -n $cpp_opts ]]
1809	then
1810	for popts in $cpp_opts
1811	do
1812	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1813	then
1814	cpp_options="${cpp_options},-D__$popts=__$popts"
1815	else
1816	cpp_options="$cpp_options -D__$popts"
1817	fi
1818	done
1819	fi
1820
1821	else
1822
1823
1824	# FOR LOCAL RUNS CHECK AGAIN, IF EXECUTABLE EXISTS
1825	if [[ $do_remote = false ]]
1826	then
1827	if [[ ! -f $executable ]]
1828	then
1829	printf "\n +++ executable file: $executable"
1830	printf "\n does not exist"
1831	locat=executable; exit
1832	fi
1833	fi
1834	fi
1835
1836
1837	# DETERMINE THE JOB MODE
1838	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1839	then
1840	if [[ "$LOADLBATCH" = yes ]]
1841	then
1842	batch_job=.TRUE.
1843	jobmo=BATCH
1844	else
1845	batch_job=.FALSE.
1846	jobmo=INTERACTIVE
1847	fi
1848	else
1849	if [[ "$ENVIRONMENT" = BATCH \|\| "$PJM_ENVIRONMENT" = BATCH ]]
1850	then
1851	batch_job=.TRUE.
1852	jobmo=BATCH
1853	else
1854	batch_job=.FALSE.
1855	jobmo=INTERACTIVE
1856	fi
1857	fi
1858
1859	# NO INTERACTIVE RUNS ALLOWED ON LCTIT
1860	if [[ $host = lctit && $jobmo = INTERACTIVE && $do_batch = false ]]
1861	then
1862	printf "\n +++ no interactive runs allowed on host \"$host\" "
1863	printf "\n please submit batch job using mrun option \"-b\" \n"
1864	locat=normal; exit
1865	fi
1866
1867
1868	# CHECK, IF USER DEFINED A COMPILER
1869	if [[ "$compiler_name" = "" ]]
1870	then
1871
1872	printf "\n +++ no compiler specified for \"$host $cond1 $cond2\""
1873	locat=compiler_name; exit
1874
1875	fi
1876
1877
1878	# DETERMINE THE NAME OF MRUN'S TEMPORARY WORKING DIRECTORY
1879
1880	# ON HLRN-III, USE THE QUEUING NAME. OTHERWISE USE USERNAME AND RANDOM NUMBER
1881	if [[ $do_batch = false && $(echo $host \| cut -c1-6) = lccray ]]
1882	then
1883	kennung=$(checkjob $PBS_JOBID \| grep Reservation \| cut -d" " -s -f2 \| cut -d"." -s -f2 \| sed "s/['\"]//g")
1884	if [[ "$kennung" = "" ]]
1885	then
1886	kennung=$RANDOM
1887	fi
1888	else
1889	kennung=$RANDOM
1890	fi
1891
1892	if [[ "$tmp_user_catalog" = "" ]]
1893	then
1894	if [[ $localhost = ibmh ]]
1895	then
1896	tmp_user_catalog=$SCRATCH
1897	elif [[ $localhost = nech ]]
1898	then
1899	tmp_user_catalog=$WRKSHR
1900	else
1901	tmp_user_catalog=/tmp
1902	fi
1903	fi
1904	TEMPDIR=$tmp_user_catalog/${usern}.$kennung
1905
1906
1907	# DETERMINE THE NAME OF THE DIRECTORY WHICH IS USED TO TEMPORARILY STORE DATA FOR RESTART RUNS
1908	if [[ "$tmp_data_catalog" = "" ]]
1909	then
1910	if [[ $localhost = nech ]]
1911	then
1912	tmp_data_catalog=$WRKSHR/mrun_restart_data
1913	else
1914	tmp_data_catalog=/tmp/mrun_restart_data
1915	fi
1916	fi
1917
1918
1919	# IN CASE OF LOCAL RUNS REPLACE ENVIRONMENT VARIABLES BY THEIR VALUES
1920	if [[ $do_remote = false && $do_compile = true \|\| $create_executable_for_batch = true ]]
1921	then
1922	eval fopts=\"$fopts\"
1923	eval lopts=\"$lopts\"
1924	fi
1925
1926
1927	# DETERMINE COMPILE- AND LINK-OPTIONS
1928	fopts="$fopts $netcdf_inc $fftw_inc $dvr_inc"
1929	lopts="$lopts $netcdf_lib $fftw_lib $dvr_lib"
1930	XOPT="-X $numprocs"
1931
1932
1933	# CHECK THE CPU-LIMIT. IT MUST BE GIVEN FOR BATCH-JOBS AND IS COMMUNICATED TO THE
1934	# EXECUTABLE VIA NAMELIST-PARAMETER cputime
1935	done=false
1936	while [[ $done = false ]]
1937	do
1938	cputime=$cpumax
1939	if (( $cputime == 0 ))
1940	then
1941	if [[ $do_batch = true ]]
1942	then
1943	printf "\n +++ cpu-time is undefined"
1944	printf "\n >>> Please type CPU-time in seconds as INTEGER:"
1945	printf "\n >>> "
1946	read cputime 1>/dev/null 2>&1
1947	else
1948	cputime=10000000 # NO CPU LIMIT FOR INTERACTIVE RUNS
1949	fi
1950	else
1951	done=true
1952	fi
1953	cpumax=$cputime
1954	done
1955
1956	(( minuten = cputime / 60 ))
1957	(( sekunden = cputime - minuten * 60 ))
1958
1959
1960	# CHECK THE MEMORY DEMAND
1961	if [[ $do_batch = true ]]
1962	then
1963	done=false
1964	while [[ $done = false ]]
1965	do
1966	if (( memory == 0 ))
1967	then
1968	printf "\n +++ memory demand is undefined"
1969	printf "\n >>> Please type memory in MByte per process as INTEGER:"
1970	printf "\n >>> "
1971	read memory 1>/dev/null 2>&1
1972	else
1973	done=true
1974	fi
1975	done
1976	fi
1977
1978
1979	# IN CASE OF REMOTE-JOBS CHECK, IF A USERNAME FOR THE REMOTE HOST IS GIVEN
1980	if [[ $do_remote = true && -z $remote_username ]]
1981	then
1982	while [[ -z $remote_username ]]
1983	do
1984	printf "\n +++ username on remote host \"$host\" is undefined"
1985	printf "\n >>> Please type username:"
1986	printf "\n >>> "
1987	read remote_username
1988	done
1989	mc="$mc -u$remote_username"
1990	fi
1991
1992	# CHECK FOR INITIAL COMMANDS AFTER LOGIN
1993	if [[ "$login_init_cmd" != "" ]]
1994	then
1995	export init_cmds="${login_init_cmd};"
1996	fi
1997
1998
1999	# SET THE MODULE-LOAD COMMAD AND EXPORT IT FOR subjob
2000	if [[ "$modules" != "" ]]
2001	then
2002	if [[ $host = lctit ]]
2003	then
2004	export module_calls=". $modules"
2005	else
2006	export module_calls="module load ${modules};"
2007	fi
2008	fi
2009
2010	# OUTPUT OF THE MRUN-HEADER
2011	calltime=$(date)
2012	printf "\n"
2013	printf "#------------------------------------------------------------------------# \n"
2014	printf "\| %-35s%35s \| \n" "$version" "$calltime"
2015	printf "\| \| \n"
2016	spalte1="called on:"; spalte2=$localhost_realname
2017	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2018	if [[ $do_remote = true ]]
2019	then
2020	spalte1="execution on:"; spalte2="$host (username: $remote_username)"
2021	else
2022	spalte1="execution on:"; spalte2="$host ($localhost_realname)"
2023	fi
2024	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2025	if [[ -n $numprocs ]]
2026	then
2027	if [[ $run_coupled_model = false ]]
2028	then
2029	spalte1="number of PEs:"; spalte2=$numprocs
2030	else
2031	spalte1="number of PEs:"; spalte2="$numprocs (atmosphere: $numprocs_atmos, ocean: $numprocs_ocean)"
2032	fi
2033	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2034	fi
2035	if [[ -n $tasks_per_node ]]
2036	then
2037	spalte1="tasks per node:"; spalte2="$tasks_per_node (number of nodes: $nodes)"
2038	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2039	if (( remaining_pes > 0 ))
2040	then
2041	spalte1=" "; spalte2="one of the nodes only filled with $remaining_pes tasks"
2042	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2043	fi
2044	fi
2045	if [[ $maximum_parallel_io_streams != $numprocs ]]
2046	then
2047	spalte1="max par io streams:"; spalte2="$maximum_parallel_io_streams"
2048	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2049	fi
2050	if [[ $use_openmp = true ]]
2051	then
2052	spalte1="threads per task:"; spalte2="$threads_per_task"
2053	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2054	fi
2055	printf "\| \| \n"
2056	if [[ $do_compile = true ]]
2057	then
2058	if [[ "$mopts" != "" ]]
2059	then
2060	spalte1="make options:"; spalte2=$(echo "$mopts" \| cut -c-45)
2061	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2062	zeile=$(echo "$mopts" \| cut -c46-)
2063	while [[ "$zeile" != "" ]]
2064	do
2065	spalte1=""
2066	spalte2=$(echo "$zeile" \| cut -c-45)
2067	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2068	zeile=$(echo "$zeile" \| cut -c46-)
2069	done
2070	fi
2071
2072	spalte1="cpp directives:"; spalte2=$(echo "$cpp_options" \| cut -c-45)
2073	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2074	zeile=$(echo "$cpp_options" \| cut -c46-)
2075	while [[ "$zeile" != "" ]]
2076	do
2077	spalte1=""
2078	spalte2=$(echo "$zeile" \| cut -c-45)
2079	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2080	zeile=$(echo "$zeile" \| cut -c46-)
2081	done
2082
2083	spalte1="compiler options:"; spalte2=$(echo "$fopts" \| cut -c-45)
2084	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2085	zeile=$(echo "$fopts" \| cut -c46-)
2086	while [[ "$zeile" != "" ]]
2087	do
2088	spalte1=""
2089	spalte2=$(echo "$zeile" \| cut -c-45)
2090	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2091	zeile=$(echo "$zeile" \| cut -c46-)
2092	done
2093
2094	spalte1="linker options:"; spalte2=$(echo "$lopts" \| cut -c-45)
2095	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2096	zeile=$(echo "$lopts" \| cut -c46-)
2097	while [[ "$zeile" != "" ]]
2098	do
2099	spalte1=""
2100	spalte2=$(echo "$zeile" \| cut -c-45)
2101	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2102	zeile=$(echo "$zeile" \| cut -c46-)
2103	done
2104
2105	spalte1="modules to be load:"; spalte2=$(echo "$modules" \| cut -c-45)
2106	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2107	zeile=$(echo "$modules" \| cut -c46-)
2108	while [[ "$zeile" != "" ]]
2109	do
2110	spalte1=""
2111	spalte2=$(echo "$zeile" \| cut -c-45)
2112	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2113	zeile=$(echo "$zeile" \| cut -c46-)
2114	done
2115
2116	spalte1="main program:"; spalte2=$mainprog
2117	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2118	else
2119	spalte1=executable:; spalte2=$executable
2120	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2121	fi
2122	printf "\| \| \n"
2123	spalte1="base name of files:"; spalte2=$fname
2124	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2125	if [[ $fname != $afname ]]
2126	then
2127	spalte1="base name of input files:"; spalte2=$afname
2128	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2129	fi
2130	spalte1="INPUT control list:"; spalte2=$(echo $input_list)
2131	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2132	spalte1="OUTPUT control list:"; spalte2=$(echo $output_list)
2133	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2134
2135	if [[ "$ocean_file_appendix" = true ]]
2136	then
2137	printf "\| %-35s%-35s \| \n" "suffix \"_O\" is added to local files" " "
2138	fi
2139
2140	if [[ $do_batch = true \|\| "$LOADLBATCH" = yes ]]
2141	then
2142	spalte1="memory demand / PE":; spalte2="$memory MB"
2143	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2144	spalte1=CPU-time:; spalte2="$minuten:$sekunden"
2145	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2146	fi
2147
2148	if [[ $do_compile = true ]]
2149	then
2150	printf "\| \| \n"
2151	printf "\| Files to be compiled: \| \n"
2152	zeile=$source_list
2153	while [[ "$zeile" != "" ]]
2154	do
2155	linestart=$(echo $zeile \| cut -c-70)
2156	printf "\| %-70s \| \n" "$linestart"
2157	zeile=$(echo "$zeile" \| cut -c71-)
2158	done
2159	fi
2160	printf "#------------------------------------------------------------------------#"
2161
2162
2163
2164	# OUTPUT OF FILE CONNECTIONS IN CASE OF TRACEBACK
2165	if [[ $do_trace = true ]]
2166	then
2167	(( i = 0 ))
2168	while (( i < iin ))
2169	do
2170	(( i = i + 1 ))
2171	if (( i == 1 ))
2172	then
2173	printf "\n\n >>> INPUT-file assignments:\n"
2174	fi
2175	printf "\n ${localin[$i]} : ${absnamein[$i]}"
2176	done
2177	(( i = 0 ))
2178	while (( i < iout ))
2179	do
2180	(( i = i + 1 ))
2181	if (( i == 1 ))
2182	then
2183	printf "\n\n >>> OUTPUT-file assignments:\n"
2184	fi
2185	printf "\n ${localout[$i]} : ${pathout[$i]}"
2186	done
2187	(( i = 0 ))
2188	while (( i < iic ))
2189	do
2190	(( i = i + 1 ))
2191	if (( i == 1 ))
2192	then
2193	printf "\n\n >>> INPUT-commands:\n"
2194	fi
2195	printf "\n ${in_command[$i]}"
2196	done
2197	(( i = 0 ))
2198	while (( i < ioc ))
2199	do
2200	(( i = i + 1 ))
2201	if (( i == 1 ))
2202	then
2203	printf "\n\n >>> OUTPUT-commands:\n"
2204	fi
2205	printf "\n ${out_command[$i]}"
2206	done
2207	fi
2208
2209	# QUERY FOR CONTINUE (ON LOCAL MACHINES ONLY)
2210	if [[ $remotecall = false && $silent = false && $jobmo != BATCH ]]
2211	then
2212	antwort=dummy
2213	printf "\n\n"
2214	printf " >>> everything o.k. (y/n) ? "
2215	while read antwort
2216	do
2217	if [[ "$antwort" != y && "$antwort" != Y && "$antwort" != n && "$antwort" != N ]]
2218	then
2219	printf " >>> everything o.k. (y/n) ? "
2220	else
2221	break
2222	fi
2223	done
2224	if [[ $antwort = n \|\| $antwort = N ]]
2225	then
2226	locat=user_abort; (( iec = 0 )); exit
2227	fi
2228	if [[ $do_batch = true ]]
2229	then
2230	printf " >>> batch-job will be created and submitted"
2231	else
2232	printf " >>> MRUN will now continue to execute on this machine"
2233	fi
2234	fi
2235
2236
2237	# DETERMINE PATH FOR MAKE DEPOSITORY
2238	if [[ $do_batch = false \|\| $create_executable_for_batch = true ]]
2239	then
2240
2241	line=""
2242	grep "%depository_path" $config_file > tmp_mrun
2243	while read line
2244	do
2245	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
2246	then
2247	if [[ "$(echo $line \| cut -d" " -s -f3)" = "" ]]
2248	then
2249	global_depository_path=`echo $line \| cut -d" " -s -f2`
2250	fi
2251	fi
2252	done < tmp_mrun
2253
2254	line=""
2255	grep " $localhost" $config_file \| grep "%depository_path" > tmp_mrun
2256	while read line
2257	do
2258	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
2259	then
2260	if [[ "$(echo $line \| cut -d" " -s -f4)" = "$cond1" && "$(echo $line \| cut -d" " -s -f5)" = "$cond2" ]]
2261	then
2262	local_depository_path=`echo $line \| cut -d" " -s -f2`
2263	fi
2264	fi
2265	done < tmp_mrun
2266
2267	if [[ "$local_depository_path" = "" ]]
2268	then
2269	if [[ "$global_depository_path" != "" ]]
2270	then
2271	local_depository_path=$global_depository_path
2272	else
2273	printf "\n\n +++ no depository path found in configuration file"
2274	printf "\n for local host \"$localhost\" "
2275	printf "\n please set \"\%depository_path\" in configuration file\n"
2276	locat=config_file; exit
2277	fi
2278	fi
2279	eval local_depository_path=$local_depository_path
2280	[[ "$cond1" != "" ]] && local_depository_path=${local_depository_path}_$cond1
2281	[[ "$cond2" != "" ]] && local_depository_path=${local_depository_path}_$cond2
2282
2283
2284	basename=`echo $mainprog \| cut -f1 -d"."`
2285	eval make_depository=${local_depository_path}/${basename}_current_version.tar
2286	if [[ ! -f $make_depository ]]
2287	then
2288	printf "\n"
2289	printf "\n *** WARNING: make depository \"$make_depository\" not found"
2290	printf "\n \"make\" will fail, if the Makefile or other source files are missing\n"
2291	fi
2292
2293	fi
2294
2295
2296	# NOW PERFORM THOSE ACTIONS REQUIRED TO EXECUTE THE PROGRAM (PALM) ON THIS MACHINE
2297	# (COMPILING/LINKING, EXECUTING, COPYING I/O FILES)
2298	if [[ $do_batch = false ]]
2299	then
2300
2301
2302	# CREATE THE TEMPORARY WORKING DIRECTORY
2303	mkdir -p $TEMPDIR
2304	chmod go+rx $TEMPDIR
2305	tmpcreate=true
2306
2307
2308	# COPY EITHER THE COMPLETE SOURCE CODE FILES TO BE COMPILED OR THE EXECUTABLE
2309	# INTO THE TEMPORARY WORKING DIRECTORY
2310	if [[ $do_compile = true ]]
2311	then
2312
2313	# ON NEC, COMPILATION IS DONE ON HOST CROSS VIA CROSS COMPILING
2314	# CREATE A TEMPORARY DIRECTORY ON THAT MACHINE (HOME MOUNTED VIA NFS)
2315	if [[ $localhost = nech ]]
2316	then
2317	TEMPDIR_COMPILE=$HOME/work/${usern}.$kennung
2318	if mkdir -p $TEMPDIR_COMPILE
2319	then
2320	printf "\n *** \"$TEMPDIR_COMPILE\" "
2321	printf "\n is generated as temporary directory for cross compiling\n"
2322	else
2323	printf "\n +++ creating directory \"$TEMPDIR_COMPILE\" "
2324	printf "\n needed for cross compilation failed"
2325	locat=compile
2326	exit
2327	fi
2328	else
2329	TEMPDIR_COMPILE=$TEMPDIR
2330	fi
2331
2332	cp $make_depository $TEMPDIR_COMPILE
2333	cd $TEMPDIR_COMPILE
2334	tar -xf $make_depository > /dev/null 2>&1
2335	cd - > /dev/null
2336
2337	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
2338	# FILES ON CRAY XC30 SYSTEMS (HLRN III), rsync IS USED INSTEAD
2339	if [[ $(echo $host \| cut -c1-6) = lccray ]]
2340	then
2341	rsync -av -t SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
2342	else
2343	cp SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
2344	fi
2345
2346	else
2347
2348	cp $executable ${TEMPDIR}/a.out
2349
2350	fi
2351
2352
2353	# CHANGE TO THE TEMPORARY WORKING DIRECTORY
2354	cd $TEMPDIR
2355	printf "\n *** changed to temporary directory: $TEMPDIR"
2356
2357
2358	# THE FOLLOWING IS REQUIRED FPR AVS-OUTPUT WITH PALM ??? REMOVE ???
2359	# WRITE INFORMATIONS ABOUT THE OUTPUT-FILE CONNECTIONS TO A TEMPORARY FILE
2360	# THIS FILE CAN LATER BE READ FROM USER-DEFINED CODE TO DETERMINE THE
2361	# RELATION BETWEEN THE LOCAL TEMPORARY AND PERMANENT FILE NAMES
2362	(( i = 0 ))
2363	while (( i < iout ))
2364	do
2365	(( i = i + 1 ))
2366	if [[ "${actionout[$i]}" = tr \|\| "${actionout[$i]}" = tra \|\| "${actionout[$i]}" = trpe ]]
2367	then
2368	printf "${localout[$i]} ${actionout[$i]}\n${pathout[$i]}\n${localhost}_${fname}${endout[$i]}\n" >> OUTPUT_FILE_CONNECTIONS
2369	else
2370	printf "${localout[$i]} ${actionout[$i]}\n${pathout[$i]}\n${frelout[$i]}\n" >> OUTPUT_FILE_CONNECTIONS
2371	fi
2372	done
2373
2374
2375	# IF REQUIRED, START WITH COMPILING
2376	if [[ $do_compile = true ]]
2377	then
2378
2379
2380	if [[ -f a.out ]]
2381	then
2382
2383	# EXECUTABLE WAS CREATED DURING INTERACTIVE CALL OF MRUN
2384	printf "\n\n\n *** executable a.out found"
2385	printf "\n no compilation required \n"
2386
2387	else
2388
2389	# COMPILING WITH MAKE (ON NEC COMPILER IS CALLED ON HOST CROSS)
2390	printf "\n\n\n *** compilation starts \n$dashes\n"
2391	printf " *** compilation with make using following options:\n"
2392	printf " make depository: $make_depository"
2393	if [[ "$mopts" != "" ]]
2394	then
2395	printf " make options: $mopts\n"
2396	fi
2397	printf " compilername: $compiler_name\n"
2398	printf " compiler options: $fopts\n"
2399	printf " preprocessor directives: $cpp_options \n"
2400	printf " linker options: $lopts \n"
2401	if [[ "$modules" != "" ]]
2402	then
2403	printf " modules to be load: $modules \n"
2404	fi
2405	printf " source code files: $source_list \n"
2406
2407	if [[ $localhost = nech ]]
2408	then
2409	ssh $SSH_PORTOPT 136.172.44.192 -l $usern "$init_cmds $module_calls cd \$HOME/work/${usern}.$kennung; sxmake $mopts -f Makefile PROG=a.out F90=$compiler_name COPT=\"$cpp_options\" F90FLAGS=\"$fopts\" LDFLAGS=\"$lopts\" "
2410	cp $TEMPDIR_COMPILE/a.out .
2411	[[ $? != 0 ]] && compile_error=true
2412	rm -rf $TEMPDIR_COMPILE
2413	elif [[ $localhost = ibmh ]]
2414	then
2415	printf " compiler is called via ssh on \"plogin1\" \n"
2416	ssh $SSH_PORTOPT plogin1 -l $usern "$init_cmds export PATH=/sw/ibm/xlf/13.1.0.8/usr/bin:$PATH; $module_calls cd $TEMPDIR; make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT=\"$cpp_options\" F90FLAGS=\"$fopts\" LDFLAGS=\"$lopts\" "
2417	[[ ! -f a.out ]] && compile_error=true
2418	continue # STATUS=1, IF a.out EXISTS
2419	elif [[ $localhost = lcocean ]]
2420	then
2421	printf " compiler is called via ssh on \"ocean\" \n"
2422	echo $PWD
2423	ssh $SSH_PORTOPT ocean -l $usern "$init_cmds $module_calls cd $TEMPDIR; make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT=\"$cpp_options\" F90FLAGS=\"$fopts\" LDFLAGS=\"$lopts\" "
2424	[[ ! -f a.out ]] && compile_error=true
2425	continue # STATUS=1, IF a.out EXISTS
2426	elif [[ $localhost = lcbullhh \|\| $localhost = lccrayb \|\| $localhost = lccrayf \|\| $localhost = lccrayh ]]
2427	then
2428	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2429	elif [[ $localhost = lceddy ]]
2430	then
2431	which mpifc
2432	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2433	else
2434	[[ "$init_cmds" != "" ]] && eval $init_cmds
2435	[[ "$module_calls" != "" ]] && eval $module_calls
2436	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2437	fi
2438
2439	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
2440	then
2441	printf "\n +++ error occured while compiling or linking"
2442	locat=compile
2443
2444	exit
2445	else
2446	printf "$dashes\n *** compilation finished \n"
2447	fi
2448
2449	fi
2450
2451	fi
2452
2453
2454	# PROVIDE THE INPUT FILES
2455	# LOOP OVER ALL ACTIVATED FILES (LISTED IN THE CONFIGURATION FILE)
2456	(( i = 0 ))
2457	while (( i < iin ))
2458	do
2459	(( i = i + 1 ))
2460	if (( i == 1 ))
2461	then
2462	printf "\n\n *** providing INPUT-files:\n$dashes"
2463	fi
2464
2465
2466	# SKIP OPTIONAL FILES, IF THEY DO NOT EXIST
2467	if [[ "${transin[$i]}" = unavailable ]]
2468	then
2469	if [[ "${extin[$i]}" = "" \|\| "${extin[$i]}" = " " ]]
2470	then
2471	printf "\n *** INFORMATIVE: input file \"${pathin[$i]}/${afname}${endin[$i]}\" "
2472	printf "\n is not available!"
2473	else
2474	printf "\n *** INFORMATIVE: input file \"${pathin[$i]}/${afname}${endin[$i]}.${extin[$i]}\" "
2475	printf "\n is not available!"
2476	fi
2477	continue
2478	fi
2479
2480	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
2481	files_for_pes=false; datentyp=file
2482	if [[ "${actionin[$i]}" = pe && -n $numprocs ]]
2483	then
2484	files_for_pes=true; datentyp=directory
2485	actionin[$i]=""
2486	elif [[ "${actionin[$i]}" = pe && ! -n $numprocs ]]
2487	then
2488	actionin[$i]=""
2489	elif [[ "${actionin[$i]}" = arpe && -n $numprocs ]]
2490	then
2491	files_for_pes=true; datentyp=directory
2492	actionin[$i]="ar"
2493	elif [[ "${actionin[$i]}" = arpe && ! -n $numprocs ]]
2494	then
2495	actionin[$i]="ar"
2496	elif [[ "${actionin[$i]}" = flpe && -n $numprocs ]]
2497	then
2498	files_for_pes=true; datentyp=directory
2499	actionin[$i]="fl"
2500	elif [[ "${actionin[$i]}" = flpe && ! -n $numprocs ]]
2501	then
2502	actionin[$i]="fl"
2503	fi
2504
2505	if [[ $files_for_pes = true ]]
2506	then
2507	printf "\n >>> INPUT: ${absnamein[$i]}/.... to ${localin[$i]}"
2508	else
2509	printf "\n >>> INPUT: ${absnamein[$i]} to ${localin[$i]}"
2510	fi
2511
2512	# INPUT-FILE FOR A RESTART RUN.
2513	# CHECK, IF THIS FILE STILL EXISTS ON THE TEMPORARY DATA DIRECTORY.
2514	# IF NOT, TRY TO GET IT FROM THE ARCHIVE SYSTEM
2515	if [[ "${actionin[$i]}" = fl ]]
2516	then
2517	printf "\n $datentyp will be fetched from temporary directory \"${tmp_data_catalog}\" !"
2518	if [[ $files_for_pes = false ]]
2519	then
2520	if [[ -f "$tmp_data_catalog/${frelin[$i]}" ]]
2521	then
2522	ln $tmp_data_catalog/${frelin[$i]} ${localin[$i]}
2523	got_tmp[$i]=true
2524	elif [[ -f "$WORK/${frelin[$i]}" && $ignore_archive_error = true ]]
2525	then
2526	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" !"
2527	printf "\n *** trying to use backup copy in \"$WORK\" "
2528	cp $WORK/${frelin[$i]} ${localin[$i]}
2529	else
2530	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" "
2531	printf "\n or \"$tmp_data_catalog\" does not exist!"
2532	printf "\n *** trying to get copy from archive"
2533	actionin[$i]=ar
2534	fi
2535	else
2536	if [[ -d "$tmp_data_catalog/${frelin[$i]}" ]]
2537	then
2538	mkdir ${localin[$i]}
2539	cd $tmp_data_catalog/${frelin[$i]}
2540	for file in $(ls *)
2541	do
2542	ln $file $TEMPDIR/${localin[$i]}
2543	done
2544	cd $TEMPDIR
2545	got_tmp[$i]=true
2546	elif [[ -d "$WORK/${frelin[$i]}" && $ignore_archive_error = true ]]
2547	then
2548	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" !"
2549	printf "\n *** trying to use backup copy in \"$WORK\" "
2550	cp -r $WORK/${frelin[$i]} ${localin[$i]}
2551	else
2552	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" "
2553	printf "\n or \"$tmp_data_catalog\" does not exist!"
2554	printf "\n *** trying to get copy from archive"
2555	actionin[$i]=ar
2556	fi
2557	fi
2558	fi
2559
2560
2561	# FILE IS STORED ON THE ARCHIVE SYSTEM
2562	if [[ "${actionin[$i]}" = ar ]]
2563	then
2564
2565	if [[ $files_for_pes = false ]]
2566	then
2567	printf "\n file will be restored from archive-system ($archive_system)!"
2568	else
2569	printf "\n directory will be restored from archive-system ($archive_system)!"
2570	fi
2571
2572	file_restored=false
2573
2574	if [[ $archive_system = asterix ]]
2575	then
2576	do_stagein=true
2577	(( stagein_anz = 0 ))
2578	while [[ $do_stagein = true ]]
2579	do
2580	if [[ $files_for_pes = false ]]
2581	then
2582	stagein -O ${frelin[$i]} > STAGEIN_OUTPUT
2583	else
2584	stagein -t -O ${frelin[$i]} > STAGEIN_OUTPUT
2585	fi
2586	cat STAGEIN_OUTPUT
2587	if [[ $(grep -c "st.msg:i24" STAGEIN_OUTPUT) != 0 ]]
2588	then
2589	file_restored=true
2590	do_stagein=false
2591	else
2592	(( stagein_anz = stagein_anz + 1 ))
2593	if (( stagein_anz == 10 ))
2594	then
2595	printf "\n +++ stagein stoped after 10 tries"
2596	locat=stage
2597	exit
2598	fi
2599	printf "\n +++ restoring from archive failed, trying again:"
2600	sleep 900
2601	fi
2602	done
2603	elif [[ $archive_system = DMF ]]
2604	then
2605	if [[ $files_for_pes = false ]]
2606	then
2607	printf "\n +++ restoring of single files impossible with $archive_system !\n"
2608	locat=DMF
2609	exit
2610	else
2611	find $ARCHIVE/${frelin[$i]} -type m -print \| dmget
2612	cp -r $ARCHIVE/${frelin[$i]} $PWD
2613	file_restored=true
2614	fi
2615	elif [[ $archive_system = tivoli ]]
2616	then
2617	if [[ $files_for_pes = false ]]
2618	then
2619	ssh $SSH_PORTOPT $usern@bicedata.hlrn.de "cp $PERM/${frelin[$i]} $PWD"
2620	else
2621	(( inode = 0 ))
2622	while (( inode < nodes ))
2623	do
2624	ssh $SSH_PORTOPT $usern@bicedata.hlrn.de "cd $PWD; tar xf $PERM/${frelin[$i]}/${frelin[$i]}.node_$inode.tar"
2625	(( inode = inode + 1 ))
2626	done
2627	fi
2628	file_restored=true
2629	elif [[ $archive_system = ut ]]
2630	then
2631	if [[ $files_for_pes = false ]]
2632	then
2633	cp $UT/${frelin[$i]} .
2634	else
2635	(( inode = 0 ))
2636	while (( inode < nodes ))
2637	do
2638	tar xf $UT/${frelin[$i]}/${frelin[$i]}.node_$inode.tar
2639	(( inode = inode + 1 ))
2640	done
2641	fi
2642	file_restored=true
2643	else
2644	printf "\n +++ archive_system=\"$archive_system\" restore impossible!"
2645	locat=rearchive
2646	exit
2647	fi
2648
2649	if [[ $file_restored = true ]]
2650	then
2651
2652	# PUT FILE ON THE TEMPORARY DATA DIRECTORY TOO.
2653	# THIS WILL MAKE FILE ACCESS EASIER FOR LATER RUNS
2654	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog; chmod g+rx $tmp_data_catalog
2655	if [[ $files_for_pes = false ]]
2656	then
2657	ln -f ${frelin[$i]} $tmp_data_catalog/${frelin[$i]}
2658	else
2659	mkdir $tmp_data_catalog/${frelin[$i]}
2660	ln -f ${frelin[$i]}/* $tmp_data_catalog/${frelin[$i]}
2661	fi
2662	got_tmp[$i]=true
2663
2664	# PROVIDE THE FILE UNDER ITS LOCAL NAME
2665	mv ${frelin[$i]} ${localin[$i]}
2666
2667	fi
2668	fi
2669
2670
2671	# FILE IS STORED IN THE RESPECTIVE DIRECTORY GIVEN IN THE CONFIGURATION FILE
2672	if [[ "${actionin[$i]}" = "" \|\| "${actionin[$i]}" = "di" \|\| "${actionin[$i]}" = "npe" ]]
2673	then
2674
2675	if [[ "${actionin[$i]}" = "npe" && -n $numprocs ]]
2676	then
2677
2678	# FILE COPIES ARE PROVIDED FOR ALL CORES
2679	# EACH FILE GETS A UNIQUE FILENAME WITH A FOUR DIGIT NUMBER
2680	printf "\n file will be provided for $numprocs processors"
2681	mkdir ${localin[$i]}
2682	ival=$numprocs
2683	(( ii = 0 ))
2684	while (( ii <= ival-1 ))
2685	do
2686	if (( ii < 10 ))
2687	then
2688	cp ${absnamein[$i]} ${localin[$i]}/_000$ii
2689	elif (( ii < 100 ))
2690	then
2691	cp ${absnamein[$i]} ${localin[$i]}/_00$ii
2692	elif (( ii < 1000 ))
2693	then
2694	cp ${absnamein[$i]} ${localin[$i]}/_0$ii
2695	else
2696	cp ${absnamein[$i]} ${localin[$i]}/_$ii
2697	fi
2698	(( ii = ii + 1 ))
2699	done
2700
2701	else
2702
2703	if [[ $files_for_pes = true ]]
2704	then
2705
2706	# PROVIDE FILES FOR EACH CORE
2707	# FIRST CREATE THE LOCAL DIRECTORY, THEN COPY FILES
2708	# FROM THE PERMANENT DIRECTORY BY LINKING THEM TO THE LOCAL ONE
2709	printf "\n providing $numprocs files for the respective processors"
2710	mkdir ${localin[$i]}
2711	if [[ $link_local_input = true ]]
2712	then
2713	printf " using ln -f\n"
2714	cd ${absnamein[$i]}
2715	for file in $(ls *)
2716	do
2717	ln -f $file ${localin[$i]}
2718	done
2719	cd $TEMPDIR
2720	fi
2721
2722	# IF "ln -f" FAILED OR IF "$link_local_input = false" DO A NORMAL "cp -r"
2723	if [[ ! -f "${localin[$i]}/_0000" ]]
2724	then
2725	if [[ $link_local_input = true ]]
2726	then
2727	printf " ln failed for .../_0000, using cp...\n"
2728	fi
2729	cp -r ${absnamein[$i]}/* ${localin[$i]}
2730	fi
2731
2732	else
2733
2734	# PROVIDE FILE FOR RUNS ON A SINGLE CORE
2735	if [[ $link_local_input = true ]]
2736	then
2737	printf " using ln -f\n"
2738	ln -f ${absnamein[$i]} ${localin[$i]}
2739	fi
2740	# If "ln -f" fails of if "$link_local_input = false" do a normal "cp"
2741	if [[ ! -f "${localin[$i]}" ]]
2742	then
2743	if [[ $link_local_input = true ]]
2744	then
2745	printf " ln failed, using cp...\n"
2746	fi
2747	cp ${absnamein[$i]} ${localin[$i]}
2748	fi
2749	fi
2750	fi
2751	fi
2752
2753	done
2754	if (( i != 0 ))
2755	then
2756	printf "\n$dashes\n *** all INPUT-files provided \n"
2757	fi
2758
2759
2760	# EXECUTE INPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
2761	(( i = 0 ))
2762	while (( i < iic ))
2763	do
2764	(( i = i + 1 ))
2765	if (( i == 1 ))
2766	then
2767	printf "\n\n *** execution of INPUT-commands:\n$dashes"
2768	fi
2769	printf "\n >>> ${in_command[$i]}"
2770	eval ${in_command[$i]}
2771	if (( i == iic ))
2772	then
2773	printf "\n$dashes\n"
2774	fi
2775	done
2776
2777
2778	# SET THE REMAINING CPU-TIME
2779	cpurest=${cpumax}.
2780
2781
2782	# START DVR STREAMING SERVER
2783	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
2784	then
2785	if [[ "$dvr_server" != "" ]]
2786	then
2787
2788	printf "\n\n *** preparing the dvr streaming server configuration file"
2789
2790	# CHECK, IF A DVR SERVER IS ALREADY RUNNING
2791	running_dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config \| grep -v grep) \| cut -d" " -f2`
2792	if [[ "$running_dvrserver_id" != "" ]]
2793	then
2794
2795	printf "\n\n +++ WARNING: A dvr server with id=$running_dvrserver_id is already running!"
2796	printf "\n This server is used instead starting a new one!"
2797	printf "\n If required, script \"process_dvr_output\" has to be run manually."
2798
2799	else
2800
2801	# COPY CONFIGURATION FILE FOR STREAMING SERVER FROM REPOSITORY TO HERE
2802	if [[ -f ${PALM_BIN}/.dvrserver.config ]]
2803	then
2804	cp ${PALM_BIN}/.dvrserver.config .
2805
2806	# ENTERING THE BASEDIR, UID AND GID INTO THIS FILE
2807	user_id=`id -u`
2808	group_id=`id -g`
2809
2810	# "&" IS REQUIRED AS A SEPERATOR, BECAUSE TEMPDIR CONTAINS "/"
2811	sed "s&<replace by dvr data directory>&${TEMPDIR}&g" .dvrserver.config > .dvrserver.1
2812	sed "s/<replace by user id>/$user_id/g" .dvrserver.1 > .dvrserver.2
2813	sed "s/<replace by group id>/$group_id/g" .dvrserver.2 > .dvrserver.3
2814	mv .dvrserver.3 .dvrserver.config
2815	rm .dvrserver.1 .dvrserver.2
2816
2817	# START DVR SERVER IN BACKGROUND, GET HIS ID AND PRINT ON TERMINAL
2818	$dvr_server .dvrserver.config >> DVR_LOGFILE 2>&1 &
2819	dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config) \| cut -d" " -f2`
2820	printf "\n *** streaming server with id=$dvrserver_id is started in background"
2821	local_dvrserver_running=.TRUE.
2822	else
2823	printf "\n +++ missing file \".dvrserver.config\" in directory:"
2824	printf "\n \"$PALM_BIN\" "
2825	locat=dvr
2826	exit
2827	fi
2828
2829	fi
2830
2831	else
2832	printf "\n\n --- INFORMATIVE: no dvr streaming server will be started"
2833	fi
2834	fi
2835
2836
2837	# CREATE THE NAMELIST-FILE WITH VALUES OF ENVIRONMENT-VARIABLES REQUIRED BY PALM
2838	# (FILE ENVPAR WILL BE READ BY PALM)
2839	cat > ENVPAR << %%END%%
2840	&envpar run_identifier = '$fname', host = '$localhost',
2841	write_binary = '$write_binary', tasks_per_node = $tasks_per_node,
2842	maximum_parallel_io_streams = $maximum_parallel_io_streams,
2843	maximum_cpu_time_allowed = ${cpumax}.,
2844	revision = '$global_revision',
2845	local_dvrserver_running = $local_dvrserver_running,
2846	batch_job = $batch_job /
2847
2848	%%END%%
2849
2850
2851	# STARTING THE EXECUTABLE
2852	printf "\n\n *** execution starts in directory\n \"`pwd`\"\n$dashes\n"
2853	PATH=$PATH:$TEMPDIR
2854
2855
2856	if [[ $execute_command != "none" ]]
2857	then
2858
2859	printf "\n +++ branch still not realized"
2860	locat=execution
2861	exit
2862
2863	else
2864
2865	# MPI DEBUG OPTION (ARGUMENT CHECKING, SLOWS DOWN EXECUTION DUE TO INCREASED LATENCY)
2866	if [[ "$mpi_debug" = true ]]
2867	then
2868	export MPI_CHECK_ARGS=1
2869	printf "\n +++ MPI_CHECK_ARGS=$MPI_CHECK_ARGS"
2870	fi
2871
2872	if [[ "$totalview" = true ]]
2873	then
2874	printf "\n *** totalview debugger will be used"
2875	tv_opt="-tv"
2876	else
2877	tv_opt=""
2878	fi
2879
2880	if [[ "$cond1" = debug \|\| "$cond2" = debug ]]
2881	then
2882
2883	#Interactive ALLINEA DEBUG seesion
2884	if [[ "$ENVIRONMENT" != BATCH ]]
2885	then
2886	if [[ $host = lccrayb \|\| $host = lccrayh ]]
2887	then
2888	if [[ "$allinea" = true ]]
2889	then
2890	echo "--- aprun -n $ii -N $tasks_per_node a.out < runfile_atmos"
2891
2892	ddt aprun -n $ii -N $tasks_per_node a.out
2893	wait
2894	fi
2895	fi
2896	fi
2897
2898	if [[ $localhost = ibmh ]]
2899	then
2900
2901	# SETUP THE IBM MPI ENVIRONMENT
2902	export MP_SHARED_MEMORY=yes
2903	export AIXTHREADS_SCOPE=S
2904	export OMP_NUM_THREADS=$threads_per_task
2905	export AUTHSTATE=files
2906	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
2907
2908	# FOLLOWING OPTIONS ARE MANDATORY FOR TOTALVIEW
2909	export MP_ADAPTER_USE=shared
2910	export MP_CPU_USE=multiple
2911	export MP_TIMEOUT=1200
2912
2913	unset MP_TASK_AFFINITY
2914
2915	if [[ "$LOADLBATCH" = yes ]]
2916	then
2917	totalview poe a.out
2918	else
2919	echo totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1
2920	export TVDSVRLAUNCHCMD=ssh
2921	totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1
2922	fi
2923
2924	fi # END DEBUG MODE
2925
2926	else
2927
2928	# NORMAL EXECUTION
2929	if [[ -n $numprocs ]]
2930	then
2931
2932	# RUNNING THE PROGRAM ON PARALLEL MACHINES
2933	if [[ $(echo $host \| cut -c1-3) = ibm ]]
2934	then
2935
2936	# SETUP THE IBM MPI ENVIRONMENT
2937	if [[ $host != ibmh && $host != ibmkisti ]]
2938	then
2939	export MP_SHARED_MEMORY=yes
2940	export AIXTHREAD_SCOPE=S
2941	export OMP_NUM_THREADS=$threads_per_task
2942	export XLSMPOPTS="spins=0:yields=0:stack=20000000"
2943	export AUTHSTATE=files
2944	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
2945	# export MP_PRINTENV=yes
2946
2947	# TUNING-VARIABLES TO IMPROVE COMMUNICATION SPEED
2948	# DO NOT SHOW SIGNIFICANT EFFECTS (SEP 04, FEDERATION-SWITCH)
2949	export MP_WAIT_MODE=poll
2950	[[ $node_usage = not_shared ]] && export MP_SINGLE_THREAD=yes
2951	fi
2952
2953	if [[ $host = ibmkisti ]]
2954	then
2955	export LANG=en_US
2956	export MP_SHARED_MEMORY=yes
2957	if [[ $threads_per_task = 1 ]]
2958	then
2959	export MP_SINGLE_THREAD=yes
2960	export MEMORY_AFFINITY=MCM
2961	else
2962	export OMP_NUM_THREADS=$threads_per_task
2963	fi
2964	fi
2965
2966	if [[ "$LOADLBATCH" = yes ]]
2967	then
2968	printf "\n--- Control: OMP_NUM_THREADS = \"$OMP_NUM_THREADS\" \n"
2969	if [[ "$cond1" = hpmcount \|\| "$cond2" = hpmcount ]]
2970	then
2971	/opt/optibm/HPM_2_4_1/bin/hpmcount a.out
2972	else
2973	if [[ $run_coupled_model = false ]]
2974	then
2975	if [[ "$ocean_file_appendix" = true ]]
2976	then
2977	echo "precursor_ocean" > runfile_atmos
2978	else
2979	echo "precursor_atmos" > runfile_atmos
2980	fi
2981	else
2982	(( iia = $numprocs_atmos / $threads_per_task ))
2983	(( iio = $numprocs_ocean / $threads_per_task ))
2984	printf "\n coupled run ($iia atmosphere, $iio ocean)"
2985	printf "\n using $coupled_mode coupling"
2986	printf "\n\n"
2987	echo "coupled_run $iia $iio" > runfile_atmos
2988	fi
2989	poe ./a.out < runfile_atmos
2990	fi
2991	else
2992	if [[ $localhost = ibmh \|\| $localhost = ibms ]]
2993	then
2994	poe a.out -procs $numprocs -nodes 1 -rmpool 0
2995	elif [[ $localhost = ibmkisti \|\| $localhost = ibmku ]]
2996	then
2997	if [[ -f $hostfile ]]
2998	then
2999	cp $hostfile hostfile
3000	else
3001	(( ii = 1 ))
3002	while (( ii <= $numprocs ))
3003	do
3004	echo $localhost_realname >> hostfile
3005	(( ii = ii + 1 ))
3006	done
3007	fi
3008	export MP_HOSTFILE=hostfile
3009	if [[ $run_coupled_model = false ]]
3010	then
3011	if [[ "$ocean_file_appendix" = true ]]
3012	then
3013	echo "precursor_ocean" > runfile_atmos
3014	else
3015	echo "precursor_atmos" > runfile_atmos
3016	fi
3017	else
3018	(( iia = $numprocs_atmos / $threads_per_task ))
3019	(( iio = $numprocs_ocean / $threads_per_task ))
3020	printf "\n coupled run ($iia atmosphere, $iio ocean)"
3021	printf "\n using $coupled_mode coupling"
3022	printf "\n\n"
3023	echo "coupled_run $iia $iio" > runfile_atmos
3024	fi
3025
3026	poe ./a.out -procs $numprocs < runfile_atmos
3027
3028	else
3029	if [[ "$host_file" = "" ]]
3030	then
3031	printf "\n +++ no hostfile given in configuration file"
3032	locat=config_file
3033	exit
3034	else
3035	eval host_file=$host_file
3036	fi
3037	export MP_HOSTFILE=$host_file
3038	poe a.out -procs $numprocs -tasks_per_node $numprocs
3039	fi
3040	fi
3041
3042	elif [[ $host = nech ]] # running on NEC machines
3043	then
3044
3045	(( ii = nodes ))
3046	if [[ $ii = 1 ]]
3047	then
3048	export F_ERRCNT=0 # acceptable number of errors before program is stopped
3049	export MPIPROGINF=YES
3050	# export F_TRACE=YES\|FMT1\|FMT2 # output of ftrace informations to job protocol
3051	echo "*** execution on single node with mpirun"
3052	mpirun -np $numprocs ./a.out
3053	else
3054	(( i = 0 ))
3055	while (( i < ii ))
3056	do
3057	echo "-h $i -p $tasks_per_node -e ./mpi_exec_shell" >> multinode_config
3058	(( i = i + 1 ))
3059	done
3060
3061	echo "#!/bin/sh" > mpi_exec_shell
3062	echo " " >> mpi_exec_shell
3063	echo "set -u" >> mpi_exec_shell
3064	echo "F_ERRCNT=0" >> mpi_exec_shell
3065	echo "MPIPROGINV=YES" >> mpi_exec_shell
3066	echo "OMP_NUM_THREADS=$threads_per_task" >> mpi_exec_shell
3067	echo "cpurest=$cpurest" >> mpi_exec_shell
3068	echo "fname=$fname" >> mpi_exec_shell
3069	echo "localhost=$localhost" >> mpi_exec_shell
3070	echo "return_address=$return_address" >> mpi_exec_shell
3071	echo "return_username=$return_username" >> mpi_exec_shell
3072	echo "tasks_per_node=$tasks_per_node" >> mpi_exec_shell
3073	echo "write_binary=$write_binary" >> mpi_exec_shell
3074	echo "use_seperate_pe_for_dvrp_output=$use_seperate_pe_for_dvrp_output" >> mpi_exec_shell
3075	echo " " >> mpi_exec_shell
3076	echo "export F_ERRCNT" >> mpi_exec_shell
3077	echo "export MPIPROGINV" >> mpi_exec_shell
3078	echo "export OMP_NUM_THREADS" >> mpi_exec_shell
3079	echo "export cpurest" >> mpi_exec_shell
3080	echo "export fname" >> mpi_exec_shell
3081	echo "export localhost" >> mpi_exec_shell
3082	echo "export return_address" >> mpi_exec_shell
3083	echo "export return_username" >> mpi_exec_shell
3084	echo "export tasks_per_node" >> mpi_exec_shell
3085	echo "export write_binary" >> mpi_exec_shell
3086	echo "export use_seperate_pe_for_dvrp_output" >> mpi_exec_shell
3087	echo " " >> mpi_exec_shell
3088	echo "exec ./a.out" >> mpi_exec_shell
3089
3090	chmod u+x mpi_exec_shell
3091	export MPIPROGINF=YES
3092	mpirun -f multinode_config &
3093	wait
3094
3095	fi
3096
3097	elif [[ $(echo $host \| cut -c1-2) = lc && $host != lckyoto && $host != lctit ]]
3098	then
3099
3100	# COPY HOSTFILE FROM SOURCE DIRECTORY OR CREATE IT, IF IT
3101	# DOES NOT EXIST
3102	if [[ $host != lcbullhh && $host != lccrayb && $host != lccrayf && $host != lccrayh && $host != lckyuh && $host != lckyut && $host != lcocean && $host != lceddy ]]
3103	then
3104	if [[ -f $hostfile ]]
3105	then
3106	cp $hostfile hostfile
3107	(( ii = $numprocs / $threads_per_task ))
3108	[[ $ii = 0 ]] && (( ii = 1 ))
3109	else
3110	(( ii = 1 ))
3111	while (( ii <= $numprocs / $threads_per_task ))
3112	do
3113	echo $localhost_realname >> hostfile
3114	(( ii = ii + 1 ))
3115	done
3116	if (( $numprocs / $threads_per_task == 0 ))
3117	then
3118	echo $localhost_realname >> hostfile
3119	fi
3120	fi
3121	eval zeile=\"`head -n $ii hostfile`\"
3122	printf "\n *** running on: $zeile"
3123	fi
3124
3125	(( ii = $numprocs / $threads_per_task ))
3126	[[ $ii = 0 ]] && (( ii = 1 ))
3127	export OMP_NUM_THREADS=$threads_per_task
3128
3129	if [[ $threads_per_task != 1 ]]
3130	then
3131	# INCREASE STACK SIZE TO UNLIMITED, BECAUSE OTHERWISE LARGE RUNS
3132	# MAY ABORT
3133	ulimit -s unlimited
3134	printf "\n threads per task: $threads_per_task stacksize: unlimited"
3135	fi
3136	if [[ $run_coupled_model = false ]]
3137	then
3138	if [[ "$ocean_file_appendix" = true ]]
3139	then
3140	echo "precursor_ocean" > runfile_atmos
3141	else
3142	echo "precursor_atmos" > runfile_atmos
3143	fi
3144	printf "\n\n"
3145
3146	if [[ $host = lccrayb \|\| $host = lccrayh ]]
3147	then
3148	echo "--- aprun -n $ii -N $tasks_per_node a.out < runfile_atmos"
3149	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
3150	elif [[ $host = lcbullhh ]]
3151	then
3152	export OMPI_MCA_pml=cm
3153	export OMPI_MCA_mtl=mxm
3154	export OMPI_MCA_coll=^ghc
3155	export OMPI_MCA_mtl_mxm_np=0
3156	export MXM_RDMA_PORTS=mlx5_0:1
3157	export MXM_LOG_LEVEL=ERROR
3158	export OMP_NUM_THREADS=$threads_per_task
3159	export KMP_AFFINITY=verbose,granularity=core,compact,1
3160	export KMP_STACKSIZE=64m
3161
3162	srun -n $ii --ntasks-per-node=$tasks_per_node ./a.out < runfile_atmos
3163
3164	elif [[ $host = lccrayf ]]
3165	then
3166	aprun -j1 -n $ii -N $tasks_per_node -m ${memory}M a.out < runfile_atmos
3167	elif [[ $host = lcxe6 \|\| $host = lcxt5m ]]
3168	then
3169	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
3170	elif [[ $host = lceddy ]]
3171	then
3172	echo $ii
3173	echo $tasks_per_node
3174	echo $nodes
3175	mpirun -n $ii a.out < runfile_atmos
3176	elif [[ $host = lcocean ]]
3177	then
3178	mpirun a.out $ROPTS < runfile_atmos
3179	elif [[ $host = lcsb ]]
3180	then
3181	mpirun_rsh -hostfile $PBS_NODEFILE -np `cat $PBS_NODEFILE \| wc -l` a.out < runfile_atmos
3182
3183	elif [[ $host = lckiaps ]]
3184	then
3185	mpirun -np $ii -machinefile $PBS_NODEFILE ./a.out < runfile_atmos
3186	elif [[ $host = lckyu* ]]
3187	then
3188	mpiexec -n $ii --stdin runfile_atmos ./a.out
3189	else
3190	mpiexec -machinefile hostfile -n $ii a.out < runfile_atmos
3191	fi
3192
3193	else
3194
3195	# CURRENTLY THERE IS NO FULL MPI-2 SUPPORT ON ICE AND XT4
3196	(( iia = $numprocs_atmos / $threads_per_task ))
3197	(( iio = $numprocs_ocean / $threads_per_task ))
3198	printf "\n coupled run ($iia atmosphere, $iio ocean)"
3199	printf "\n using $coupled_mode coupling"
3200	printf "\n\n"
3201
3202	if [[ $coupled_mode = "mpi2" ]]
3203	then
3204	echo "atmosphere_to_ocean $iia $iio" > runfile_atmos
3205	echo "ocean_to_atmosphere $iia $iio" > runfile_ocean
3206
3207	if [[ $host = lccrayf \|\| $host = lcxe6 \|\| $host = lcxt5m ]]
3208	then
3209
3210	aprun -n $iia -N $tasks_per_node a.out < runfile_atmos &
3211	aprun -n $iio -N $tasks_per_node a.out < runfile_ocean &
3212
3213	else
3214	# WORKAROUND BECAUSE mpiexec WITH -env option IS NOT AVAILABLE ON SOME SYSTEMS
3215	mpiexec -machinefile hostfile -n $iia a.out < runfile_atmos &
3216	mpiexec -machinefile hostfile -n $iio a.out < runfile_ocean &
3217	# mpiexec -machinefile hostfile -n $iia -env coupling_mode atmosphere_to_ocean a.out &
3218	# mpiexec -machinefile hostfile -n $iio -env coupling_mode ocean_to_atmosphere a.out &
3219	fi
3220	wait
3221
3222	else
3223
3224	echo "coupled_run $iia $iio" > runfile_atmos
3225
3226	if [[ $host = lccrayf \|\| $host = lcxe6 \|\| $host = lcxt5m ]]
3227	then
3228
3229	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
3230
3231	elif [[ $host = lck \|\| $host = lckordi ]]
3232	then
3233
3234	mpiexec -n $ii ./a.out < runfile_atmos &
3235
3236	elif [[ $host = lckyu* ]]
3237	then
3238
3239	mpiexec -n $ii --stdin runfile_atmos ./a.out
3240
3241	elif [[ $host = lcmuk ]]
3242	then
3243
3244	mpiexec -machinefile hostfile -n $ii a.out < runfile_atmos
3245
3246	fi
3247	wait
3248	fi
3249
3250	fi
3251
3252	elif [[ $host = lckyoto ]]
3253	then
3254	set -xv
3255	export P4_RSHCOMMAND=plesh
3256	echo " P4_RSHCOMMAND = $P4_RSHCOMMAND"
3257	if [[ "$ENVIRONMENT" = BATCH ]]
3258	then
3259	if [[ "$cond2" = fujitsu ]]
3260	then
3261	mpiexec -n $numprocs ./a.out # for fujitsu-compiler
3262	elif [[ "cond2" = pgi ]]
3263	then
3264	mpirun -np $numprocs -machinefile ${QSUB_NODEINF} ./a.out
3265	else
3266	mpirun_rsh -np $numprocs -hostfile ${QSUB_NODEINF} MV2_USE_SRQ=0 ./a.out \|\| /bin/true
3267	fi
3268	else
3269	if [[ "$cond2" = "" ]]
3270	then
3271	mpiruni_rsh -np $numprocs ./a.out # for intel
3272	else
3273	mpirun -np $numprocs ./a.out
3274	fi
3275	fi
3276	set +xv
3277
3278	elif [[ $host = lctit ]]
3279	then
3280	export OMP_NUM_THREADS=$threads_per_task
3281	echo "OMP_NUM_THREADS=$OMP_NUM_THREADS"
3282	if [[ "$threads_per_task" != 1 ]]
3283	then
3284	export MV2_ENABLE_AFFINITY=0
3285	fi
3286	echo "----- PBS_NODEFILE content:"
3287	cat $PBS_NODEFILE
3288	echo "-----"
3289	(( ii = $numprocs / $threads_per_task ))
3290	echo "mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out"
3291	mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out
3292
3293	else
3294	mpprun -n $numprocs a.out
3295	fi
3296	else
3297	a.out
3298	fi
3299
3300	fi # end normal (non-debug) execution
3301
3302	fi # end explicit execute_command or host-specific execute actions
3303
3304	if [[ $? != 0 ]]
3305	then
3306
3307	# ABORT IN CASE OF RUNTIME ERRORS
3308	printf "\n +++ runtime error occured"
3309	locat=execution
3310	exit
3311
3312	else
3313
3314	printf "\n$dashes\n *** execution finished \n"
3315
3316	# STOP THE DVR STREAMING SERVER AND PROCESS THE DVR OUTPUT IN ORDER
3317	# TO CREAT DVRS- AND HTML-FILES CONTAINING ALL STREAMS
3318	if [[ "$dvrserver_id" != "" ]]
3319	then
3320	kill $dvrserver_id
3321	printf "\n *** dvr server with id=$dvrserver_id has been stopped"
3322
3323	# IF THERE IS A DIRECTORY, DATA HAVE BEEN OUTPUT BY THE
3324	# STREAMING SERVER. OTHERWISE, USER HAS CHOSEN dvrp_output=local
3325	if [[ -d DATA_DVR ]]
3326	then
3327
3328	# ADD THE CURRENT DVR CONFIGURATION FILE TO THE DVR OUTPUT
3329	# DIRECTORY
3330	cp .dvrserver.config DATA_DVR
3331
3332	# PROCESS THE DVR OUTPUT (OPTION -s FOR GENERATING
3333	# SEQUENCE MODE DATA TOO)
3334	process_dvr_output -d DATA_DVR -f $fname -s
3335
3336	else
3337
3338	# PROCESS THE LOCAL OUTPUT
3339	process_dvr_output -l -d DATA_DVR -f $fname
3340
3341	fi
3342
3343	elif [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
3344	then
3345
3346	# PROCESS DVR OUTPUT GENERATD IN LOCAL MODE (dvrp_output=local)
3347	process_dvr_output -l -d DATA_DVR -f $fname
3348
3349	fi
3350	fi
3351
3352
3353
3354	# CALL OF combine_plot_fields IN ORDER TO MERGE SINGLE FILES WRITTEN
3355	# BY EACH CORE INTO ONE FILE
3356	if [[ ! -f ${PALM_BIN}/combine_plot_fields${block}.x ]]
3357	then
3358	printf "\n\n\n +++ WARNING: no combine_plot_fields found for given block \"$cond1 $cond2\""
3359	printf "\n 2d- and/or 3d-data may be incomplete!"
3360	printf "\n Run \"mbuild -u -h $localhost\" to generate utilities for this block.\n"
3361	elif [[ "$combine_plot_fields" == true ]]
3362	then
3363	if [[ $localhost = lccrayh \|\| $localhost = lccrayb ]]
3364	then
3365	printf "\n\n\n *** post-processing: now executing \"aprun -n 1 -N 1 combine_plot_fields${block}.x\" ..."
3366	aprun -n 1 -N 1 combine_plot_fields${block}.x
3367	else
3368	printf "\n\n\n *** post-processing: now executing \"combine_plot_fields${block}.x\" ..."
3369	combine_plot_fields${block}.x
3370	fi
3371	else
3372
3373	# TEMPORARY SOLUTION TO SKIP combine_plot_fields. THIS IS REQUIRED IN CASE OF HUGE AMOUNT OF
3374	# DATA OUTPUT. TO DO: EXTEND THIS BRANCH BY CREATING A BATCH JOB for combine_plot_fields.
3375	# ??? koennen wir das streichen ???
3376	printf "\n\n\n *** post-processing: skipping combine_plot_fields (-Z option set) ..."
3377	fi
3378
3379
3380
3381	# EXECUTE OUTPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
3382	(( i = 0 ))
3383	while (( i < ioc ))
3384	do
3385	(( i = i + 1 ))
3386	if (( i == 1 ))
3387	then
3388	printf "\n\n *** execution of OUTPUT-commands:\n$dashes"
3389	fi
3390	printf "\n >>> ${out_command[$i]}"
3391	eval ${out_command[$i]}
3392	if (( i == ioc ))
3393	then
3394	printf "\n$dashes\n"
3395	fi
3396	done
3397
3398
3399	# IN TRACE-MODE PRINT CONTENTS OF THE CURRENT (TEMPORARY) WORKING DIRECTORY
3400	if [[ $do_trace = true ]]
3401	then
3402	printf "\n\n"
3403	ls -al
3404	fi
3405
3406
3407
3408	# COPY LOCAL OUTPUT-FILES TO THEIR PERMANENT DESTINATIONS
3409	(( i = 0 ))
3410	while (( i < iout ))
3411	do
3412	(( i = i + 1 ))
3413	if (( i == 1 ))
3414	then
3415	printf "\n\n *** saving OUTPUT-files:\n$dashes"
3416	fi
3417
3418	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
3419	files_for_pes=false; filetyp=file
3420	if [[ "${actionout[$i]}" = pe && -n $numprocs ]]
3421	then
3422	files_for_pes=true; filetyp=directory
3423	actionout[$i]=""
3424	elif [[ "${actionout[$i]}" = pe && ! -n $numprocs ]]
3425	then
3426	actionout[$i]=""
3427	elif [[ "${actionout[$i]}" = arpe && -n $numprocs ]]
3428	then
3429	files_for_pes=true; filetyp=directory
3430	actionout[$i]="ar"
3431	elif [[ "${actionout[$i]}" = arpe && ! -n $numprocs ]]
3432	then
3433	actionout[$i]="ar"
3434	elif [[ "${actionout[$i]}" = flpe && -n $numprocs ]]
3435	then
3436	files_for_pes=true; filetyp=directory
3437	actionout[$i]="fl"
3438	elif [[ "${actionout[$i]}" = flpe && ! -n $numprocs ]]
3439	then
3440	actionout[$i]="fl"
3441	elif [[ "${actionout[$i]}" = trpe && -n $numprocs ]]
3442	then
3443	files_for_pes=true; filetyp=directory
3444	actionout[$i]="tr"
3445	elif [[ "${actionout[$i]}" = trpe && ! -n $numprocs ]]
3446	then
3447	actionout[$i]="tr"
3448	fi
3449
3450	if [[ ! -f ${localout[$i]} && $files_for_pes = false ]]
3451	then
3452	printf "\n +++ temporary OUTPUT-file ${localout[$i]} does not exist\n"
3453	elif [[ ! -d ${localout[$i]} && $files_for_pes = true ]]
3454	then
3455	printf "\n +++ temporary OUTPUT-file ${localout[$i]}/.... does not exist\n"
3456	else
3457
3458
3459	# COPY VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
3460	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
3461	if [[ "${actionout[$i]}" = tr ]]
3462	then
3463	if [[ $localhost != $fromhost ]]
3464	then
3465	if [[ $files_for_pes = false ]]
3466	then
3467	cps=""
3468	cst=""
3469	else
3470	cps=-c
3471	cst="/"
3472	fi
3473	if [[ $localhost = nech ]]
3474	then
3475
3476	# TRANSFER IN SEPERATE JOB
3477	# FIRST COPY FILE TO TEMPORY DATA DIRECTORY
3478	[[ ! -d $tmp_data_catalog/TRANSFER ]] && mkdir -p $tmp_data_catalog/TRANSFER
3479	file_to_transfer=${fname}_${localout[$i]}_to_transfer_$kennung
3480	if [[ $files_for_pes = false ]]
3481	then
3482	ln -f ${localout[$i]} $tmp_data_catalog/TRANSFER/$file_to_transfer
3483	else
3484	mkdir $tmp_data_catalog/TRANSFER/$file_to_transfer
3485	ln ${localout[$i]}/* $tmp_data_catalog/TRANSFER/$file_to_transfer
3486	fi
3487
3488	echo "set -x" > transfer_${localout[$i]}
3489	echo "cd $tmp_data_catalog/TRANSFER" >> transfer_${localout[$i]}
3490
3491	printf "\n >>> OUTPUT: ${localout[$i]}$cst by SCP in seperate job to"
3492	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}$cst"
3493	printf "\n or higher cycle\n"
3494	echo "batch_scp $PORTOPT $cps -b -m -u $return_username $return_address $file_to_transfer \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}" >> transfer_${localout[$i]}
3495
3496	echo "[[ \$? = 0 ]] && rm $file_to_transfer" >> transfer_${localout[$i]}
3497
3498	if [[ $localhost = nech ]]
3499	then
3500	subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 900 $PORTOPT transfer_${localout[$i]}
3501	else
3502	if [[ "$LOGNAME" = b323013 ]]
3503	then
3504	subjob -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3505	else
3506	subjob -d -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3507	fi
3508	fi
3509
3510	else
3511
3512	# TRANSFER WITHIN THIS JOB
3513	transfer_failed=false
3514	printf "\n >>> OUTPUT: ${localout[$i]}$cst by SCP to"
3515	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}$cst\n"
3516	if [[ $localhost = lccrayb ]]
3517	then
3518	ssh $usern@blogin1 ". \\$HOME/.profile; cd $TEMPDIR; batch_scp $PORTOPT $cps -b -m -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
3519	elif [[ $localhost = lccrayh ]]
3520	then
3521	ssh $usern@hlogin1 ". \\$HOME/.profile; cd $TEMPDIR; batch_scp $PORTOPT $cps -b -m -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
3522	elif [[ $localhost = lcbullhh ]]
3523	then
3524	ssh $usern@mlogin101 ". \\$HOME/.profile; cd $TEMPDIR; batch_scp $PORTOPT $cps -b -m -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
3525	elif [[ $localhost = lcxe6 ]]
3526	then
3527	ssh $usern@hexagon ". \\$HOME/.profile; cd $TEMPDIR; batch_scp $PORTOPT $cps -b -m -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
3528	else
3529	batch_scp $PORTOPT $cps -b -m -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
3530	fi
3531	[[ $? != 0 ]] && transfer_failed=true
3532
3533	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
3534	if [[ $transfer_failed = true ]]
3535	then
3536	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
3537	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
3538
3539	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
3540	eval local_catalog=${pathout[$i]}
3541	if [[ ! -d $local_catalog ]]
3542	then
3543	printf " *** local directory does not exist. Trying to create:\n"
3544	printf " $local_catalog \n"
3545	mkdir -p $local_catalog
3546	fi
3547	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
3548	transfer_problems=true
3549	fi
3550	fi
3551	else
3552
3553	# UNSET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE COPIED ON THIS MACHINE
3554	actionout[$i]=""
3555	fi
3556	fi
3557
3558
3559	# APPEND VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
3560	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
3561	if [[ "${actionout[$i]}" = tra ]]
3562	then
3563	if [[ $localhost != $fromhost ]]
3564	then
3565	if [[ $localhost = ibmh \|\| $localhost = nech ]]
3566	then
3567
3568	# TRANSFER IN SEPERATE JOB
3569	# FIRST COPY FILE TO TEMPORY DATA DIRECTORY
3570	[[ ! -d $tmp_data_catalog/TRANSFER ]] && mkdir -p $tmp_data_catalog/TRANSFER
3571	file_to_transfer=${fname}_${localout[$i]}_to_transfer_$kennung
3572	ln -f ${localout[$i]} $tmp_data_catalog/TRANSFER/$file_to_transfer
3573
3574	echo "set -x" > transfer_${localout[$i]}
3575	echo "cd $tmp_data_catalog/TRANSFER" >> transfer_${localout[$i]}
3576
3577	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP in seperate job to"
3578	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}"
3579	printf "\n or higher cycle\n"
3580	echo "batch_scp $PORTOPT -A -b -m -u $return_username $return_address $file_to_transfer \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}" >> transfer_${localout[$i]}
3581
3582	echo "[[ \$? = 0 ]] && rm $file_to_transfer" >> transfer_${localout[$i]}
3583
3584	if [[ $localhost = nech ]]
3585	then
3586	subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 900 $PORTOPT transfer_${localout[$i]}
3587	else
3588	if [[ $LOGNAME = b323013 ]]
3589	then
3590	subjob -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3591	else
3592	subjob -d -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3593	fi
3594	fi
3595
3596	else
3597
3598	# TRANSFER WITHIN THIS JOB
3599	transfer_failed=false
3600	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP to"
3601	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}\n"
3602	if [[ $localhost = lccrayb ]]
3603	then
3604	ssh $usern@blogin1 ". \\$HOME/.profile; cd $TEMPDIR; batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
3605	elif [[ $localhost = lccrayh ]]
3606	then
3607	ssh $usern@hlogin1 ". \\$HOME/.profile; cd $TEMPDIR; batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
3608	elif [[ $localhost = lcxe6 ]]
3609	then
3610	ssh $usern@hexagon ". \\$HOME/.profile; cd $TEMPDIR; batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
3611	else
3612	batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
3613	fi
3614	[[ $? != 0 ]] && transfer_failed=true
3615
3616	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
3617	if [[ $transfer_failed = true ]]
3618	then
3619	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
3620	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
3621
3622	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
3623	eval local_catalog=${pathout[$i]}
3624	if [[ ! -d $local_catalog ]]
3625	then
3626	printf " *** local directory does not exist. Trying to create:\n"
3627	printf " $local_catalog \n"
3628	mkdir -p $local_catalog
3629	fi
3630
3631	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
3632	transfer_problems=true
3633	fi
3634	fi
3635	else
3636
3637	# RESET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE APPENDED ON THIS MACHINE
3638	actionout[$i]=a
3639	fi
3640	fi
3641
3642
3643	# OUTPUT-FILE FOR A RESTART-RUN.
3644	# FILE IS MOVED TO THE TEMPORARY DATA DIRECTORY USING link COMMAND.
3645	# OPTION -f IS USED TO OVERWRITE EXISTING FILES.
3646	# AS LAST ACTION, ARCHIVING IS INITIATED.
3647	if [[ "${actionout[$i]}" = fl ]]
3648	then
3649	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog
3650	chmod g+rx $tmp_data_catalog
3651	if [[ $files_for_pes = false ]]
3652	then
3653	printf "\n >>> OUTPUT: ${localout[$i]} to"
3654	printf "\n $tmp_data_catalog/${frelout[$i]} (temporary data catalog)\n"
3655	ln -f ${localout[$i]} $tmp_data_catalog/${frelout[$i]}
3656	else
3657	printf "\n >>> OUTPUT: ${localout[$i]}/.... to"
3658	printf "\n $tmp_data_catalog/${frelout[$i]} (temporary data catalog)\n"
3659	mkdir $tmp_data_catalog/${frelout[$i]}
3660	cd ${localout[$i]}
3661	for file in $(ls *)
3662	do
3663	ln -f $file $tmp_data_catalog/${frelout[$i]}
3664	done
3665	cd $TEMPDIR
3666	fi
3667
3668
3669	# CREATE AND SUBMIT ARCHIVING-JOB
3670	if [[ $store_on_archive_system = true ]]
3671	then
3672
3673	if [[ $archive_system = asterix ]]
3674	then
3675	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
3676	if [[ $files_for_pes = false ]]
3677	then
3678	echo "stageout ${frelout[$i]} > STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
3679	else
3680	echo "stageout -t ${frelout[$i]} > STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
3681	fi
3682	echo "cat STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
3683	echo "if [[ \$(grep -c \"st.msg:150\" STAGE_OUTPUT${i}_$kennung) != 0 ]]" >> archive_${frelout[$i]}
3684	echo "then" >> archive_${frelout[$i]}
3685	echo " do_stageout=false" >> archive_${frelout[$i]}
3686	echo "else" >> archive_${frelout[$i]}
3687	echo " echo \" +++ $filetyp ${frelout[$i]} could not be stored on archive-system\" " >> archive_${frelout[$i]}
3688	echo " cat /dev/null > ~/job_queue/ARCHIVE_ERROR_$fname" >> archive_${frelout[$i]}
3689	echo " cat STAGE_OUTPUT${i}_$kennung > ~/job_queue/archive_${frelout[$i]}_error" >> archive_${frelout[$i]}
3690	echo " echo \" *** $filetyp ${frelout[$i]} will be copied to \$WORK as backup\" " >> archive_${frelout[$i]}
3691	if [[ $files_for_pes = false ]]
3692	then
3693	echo " cp ${frelout[$i]} \$WORK" >> archive_${frelout[$i]}
3694	else
3695	echo " cp -r ${frelout[$i]} \$WORK/${frelout[$i]}" >> archive_${frelout[$i]}
3696	fi
3697	echo " echo \" *** $filetyp ${frelout[$i]} saved\" " >> archive_${frelout[$i]}
3698	echo "fi" >> archive_${frelout[$i]}
3699	echo "rm STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
3700	elif [[ $archive_system = DMF ]]
3701	then
3702	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
3703	if [[ $files_for_pes = false ]]
3704	then
3705	printf "\n +++ archiving of single files impossible with $archive_system !\n"
3706	locat=DMF
3707	exit
3708	else
3709	# ??? nicht benÃ¶tigte Archiv-Systeme entfernen ???
3710	# FUER RECHNER IN JUELICH. DORT KOENNTEN AUCH
3711	# EINZELNE DATEIEN GESICHERT WERDEN (SPAETER KORR.)
3712	echo "rm -rf \$ARCHIVE/${frelout[$i]}" >> archive_${frelout[$i]}
3713	echo "cp -r ${frelout[$i]} \$ARCHIVE" >> archive_${frelout[$i]}
3714	fi
3715	elif [[ $archive_system = tivoli ]]
3716	then
3717	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
3718	if [[ $files_for_pes = false ]]
3719	then
3720	# REMOVE EXISTING OLD FILES FROM THE ARCHIVE
3721	echo "set -x" >> archive_${frelout[$i]}
3722	echo "rm -rf \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
3723	echo "cp ${frelout[$i]} \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
3724	else
3725
3726	echo "set -x" >> archive_${frelout[$i]}
3727	echo "rm -rf \$PERM/${frelout[$i]}/*" >> archive_${frelout[$i]}
3728	echo "[[ ! -d \$PERM/${frelout[$i]} ]] && mkdir $PERM/${frelout[$i]}" >> archive_${frelout[$i]}
3729	cd $tmp_data_catalog
3730	all_files=`ls -1 ${frelout[$i]}/*`
3731	cd - > /dev/null
3732	(( inode = 0 ))
3733	(( tp1 = tasks_per_node + 1 ))
3734	while (( inode < nodes ))
3735	do
3736	files=`echo $all_files \| cut -d" " -f1-$tasks_per_node`
3737	all_files=`echo $all_files \| cut -d" " -f$tp1-`
3738	echo "tar cvf \$PERM/${frelout[$i]}/${frelout[$i]}.node_$inode.tar $files" >> archive_${frelout[$i]}
3739	(( inode = inode + 1 ))
3740	done
3741	fi
3742	elif [[ $archive_system = ut ]]
3743	then
3744	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
3745	if [[ $files_for_pes = false ]]
3746	then
3747	# REMOVE EXISTING OLD FILES FROM THE ARCHIVE
3748	echo "set -x" >> archive_${frelout[$i]}
3749	echo "rm -rf \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
3750	echo "cp ${frelout[$i]} \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
3751	else
3752
3753	echo "set -x" >> archive_${frelout[$i]}
3754	echo "rm -rf \$UT/${frelout[$i]}/*" >> archive_${frelout[$i]}
3755	echo "[[ ! -d \$UT/${frelout[$i]} ]] && mkdir $UT/${frelout[$i]}" >> archive_${frelout[$i]}
3756	cd $tmp_data_catalog
3757	all_files=`ls -1 ${frelout[$i]}/*`
3758	cd - > /dev/null
3759	(( inode = 0 ))
3760	(( tp1 = tasks_per_node + 1 ))
3761	while (( inode < nodes ))
3762	do
3763	files=`echo $all_files \| cut -d" " -f1-$tasks_per_node`
3764	all_files=`echo $all_files \| cut -d" " -f$tp1-`
3765	echo "tar cvf \$UT/${frelout[$i]}/${frelout[$i]}.node_$inode.tar $files" >> archive_${frelout[$i]}
3766	(( inode = inode + 1 ))
3767	done
3768	fi
3769	elif [[ $archive_system = none ]]
3770	then
3771	printf " +++ archiving on $localhost not available!\n"
3772	fi
3773
3774	if [[ $archive_system != none ]]
3775	then
3776	if [[ $localhost = nech ]]
3777	then
3778	subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 7200 $PORTOPT archive_${frelout[$i]}
3779	fi
3780	printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n"
3781	fi
3782	else
3783	printf " +++ caution: option -A is switched off. No archiving on $archive_system!\n"
3784	fi
3785
3786
3787	# CREATE AN EMPTY DIRECTORY IN THE USERS PERMANENT DIRECTORY,
3788	# IN ORDER TO NOTE THE RESPECTIVE CYCLE NUMBER ON THE ARCHIVE SYSTEM
3789	# RESTART-JOBS ARE USING THESE EMPTY-DIRECTORIES TO GET THE CURRENT HIGHEST
3790	# CYCLE NUMBER ON THE ARCHIVE SYSTEM (IN CASE THAT INFORMATIONS ARE DIFFICULT TO
3791	# TO ACCESS FROM THE ARCHIVE-SYSTEM DIRECTLY))
3792	if [[ $files_for_pes = false ]]
3793	then
3794	cat /dev/null > ${pathout[$i]}
3795	else
3796	mkdir -p ${pathout[$i]}
3797	fi
3798
3799	fi
3800
3801
3802	# COPY FROM THIS HOST TO THE ARCHIVE-SYSTEM
3803	# IF ANY ARCHIVING FAILS, AN ERROR-FLAG-FILE IS SET
3804	# THIS FILE REMAINS TO BE SET, EVEN IF ARCHIVING OF FURTHER FILES IS SUCCESSFULL
3805	if [[ "${actionout[$i]}" = ar ]]
3806	then
3807	if [[ $files_for_pes = false ]]
3808	then
3809	printf "\n >>> OUTPUT: ${localout[$i]} to"
3810	printf "\n ${pathout[$i]}"
3811	printf "\n File will be copied to archive-system ($archive_system) !\n"
3812	else
3813	printf "\n >>> OUTPUT: ${localout[$i]}/_.... to"
3814	printf "\n ${pathout[$i]}"
3815	printf "\n Directory will be copied to archive-system ($archive_system) !\n"
3816	fi
3817	mv ${localout[$i]} ${frelout[$i]}
3818
3819	file_saved=false
3820
3821	if [[ $archive_system = asterix ]]
3822	then
3823	do_stageout=true
3824	(( stageout_anz = 0 ))
3825	while [[ $do_stageout = true ]]
3826	do
3827	if [[ $files_for_pes = false ]]
3828	then
3829	stageout ${frelout[$i]} > STAGE_OUTPUT
3830	else
3831	stageout -t ${frelout[$i]} > STAGE_OUTPUT
3832	fi
3833	cat STAGE_OUTPUT
3834	if [[ $(grep -c "st.msg:150" STAGE_OUTPUT) != 0 ]]
3835	then
3836	file_saved=true
3837	do_stageout=false
3838	else
3839	if [[ $files_for_pes = false ]]
3840	then
3841	printf "\n +++ file ${frelout[$i]} could not be saved on archive-system"
3842	else
3843	printf "\n +++ directory ${frelout[$i]} could not be saved on archive-system"
3844	fi
3845	(( stageout_anz = stageout_anz + 1 ))
3846	if (( stageout_anz == 10 ))
3847	then
3848	printf "\n +++ stoped after 10 unsuccessful tries!"
3849	archive_save=false
3850	do_stageout=false
3851	else
3852	printf "\n *** new try to store on archive after 15 min:"
3853	sleep 900
3854	fi
3855	fi
3856	done
3857	elif [[ $archive_system = DMF ]]
3858	then
3859	if [[ $files_for_pes = false ]]
3860	then
3861	printf "\n +++ archiving of single files impossible on $archive_system!\n"
3862	locat=DMF
3863	exit
3864	else
3865	rm -rf $ARCHIVE/${frelout[$i]}
3866	cp -r ${frelout[$i]} $ARCHIVE
3867	fi
3868	file_saved=true
3869	elif [[ $archive_system = tivoli ]]
3870	then
3871	# ARCHIVING ONLY POSSIBLE VIA BATCH-JOB
3872	# IN THE MEANTIME, FILE IS STORED IN THE TEMPORARY DATA DIRECTORY,
3873	# BECAUSE MRUN'S CURRENT TEMPORARY WORKING DIRECTORY MAY ALREADY BE DELETED
3874	# WHEN THE ARCHIVE-JOB IS EXECUTED
3875	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog
3876	chmod g+rx $tmp_data_catalog
3877	if [[ $files_for_pes = false ]]
3878	then
3879	ln -f ${frelout[$i]} $tmp_data_catalog/${frelout[$i]}
3880	else
3881	mkdir $tmp_data_catalog/${frelout[$i]}
3882	ln -f ${frelout[$i]}/* $tmp_data_catalog/${frelout[$i]}
3883	fi
3884
3885	# GENERATE AND SUBMIT BATCH-JOB
3886	# FILE HAS TO BE DELETED FROM THE TEMPORARY DATA DIRECTORY
3887	# DELETE OLD EXISTING FILES FROM THE ARCHIVE
3888	echo "cd $tmp_data_catalog" > archive_${frelout[$i]}
3889	if [[ $files_for_pes = false ]]
3890	then
3891	echo "rm -rf \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
3892	echo "cp ${frelout[$i]} \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
3893	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
3894	else
3895	echo "rm -rf \$PERM/${frelout[$i]}.tar" >> archive_${frelout[$i]}
3896	echo "tar cvf \$PERM/${frelout[$i]}.tar ${frelout[$i]}" >> archive_${frelout[$i]}
3897	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
3898	fi
3899
3900	subjob -v -d -q cdata -X 0 -m 1000 -t 43200 -c $job_catalog $PORTOPT archive_${frelout[$i]}
3901	printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n"
3902	file_saved=true
3903
3904	elif [[ $archive_system = ut ]]
3905	then
3906	# ARCHIVING ONLY POSSIBLE VIA BATCH-JOB
3907	# IN THE MEANTIME, FILE IS STORED IN THE TEMPORARY DATA DIRECTORY,
3908	# BECAUSE MRUN'S CURRENT TEMPORARY WORKING DIRECTORY MAY ALREADY BE DELETED
3909	# WHEN THE ARCHIVE-JOB IS EXECUTED
3910	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog
3911	chmod g+rx $tmp_data_catalog
3912	if [[ $files_for_pes = false ]]
3913	then
3914	ln -f ${frelout[$i]} $tmp_data_catalog/${frelout[$i]}
3915	else
3916	mkdir $tmp_data_catalog/${frelout[$i]}
3917	ln -f ${frelout[$i]}/* $tmp_data_catalog/${frelout[$i]}
3918	fi
3919
3920	# GENERATE AND SUBMIT BATCH-JOB
3921	# FILE HAS TO BE DELETED FROM THE TEMPORARY DATA DIRECTORY
3922	# DELETE OLD EXISTING FILES FROM THE ARCHIVE
3923	echo "cd $tmp_data_catalog" > archive_${frelout[$i]}
3924	if [[ $files_for_pes = false ]]
3925	then
3926	echo "rm -rf \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
3927	echo "cp ${frelout[$i]} \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
3928	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
3929	else
3930	echo "rm -rf \$UT/${frelout[$i]}.tar" >> archive_${frelout[$i]}
3931	echo "tar cvf \$UT/${frelout[$i]}.tar ${frelout[$i]}" >> archive_${frelout[$i]}
3932	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
3933	fi
3934
3935	subjob -v -c /pf/b/$usern/job_queue -d -q pp -X 0 -m 1000 -t 7200 $PORTOPT archive_${frelout[$i]}
3936	printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n"
3937	file_saved=true
3938
3939	else
3940	printf "\n +++ archive_system=\"$archive_system\" archiving impossible!"
3941	archive_save=false
3942	fi
3943
3944	# CREATE EMPTY FLAG-FILE OR -DIRECTORY
3945	# IN ORDER TO NOTE THE RESPECTIVE CYCLE NUMBER ON THE ARCHIVE SYSTEM
3946	# RESTART-JOBS ARE USING THESE EMPTY-DIRECTORIES TO GET THE CURRENT HIGHEST
3947	# CYCLE NUMBER ON THE ARCHIVE SYSTEM (IN CASE THAT INFORMATIONS ARE DIFFICULT TO
3948	# TO ACCESS FROM THE ARCHIVE-SYSTEM DIRECTLY))
3949	if [[ $file_saved = true ]]
3950	then
3951	if [[ $files_for_pes = false ]]
3952	then
3953	cat /dev/null > ${pathout[$i]}
3954	else
3955	mkdir -p ${pathout[$i]}
3956	fi
3957	fi
3958
3959	fi
3960
3961	# APPEND ON THIS MACHINE
3962	if [[ "${actionout[$i]}" = "a" ]]
3963	then
3964	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
3965	then
3966	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}.${extout[$i]}\n"
3967	cat ${localout[$i]} >> ${pathout[$i]}.${extout[$i]}
3968	else
3969	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}\n"
3970	cat ${localout[$i]} >> ${pathout[$i]}
3971	fi
3972	fi
3973
3974	# COPY ON THIS MACHINE
3975	# COPY HAS TO BE USED, BECAUSE MOVE DOES NOT WORK IF FILE-ORIGIN AND TARGET ARE
3976	# ON DIFFERENT FILE-SYSTEMS
3977	if [[ "${actionout[$i]}" = "" && $files_for_pes = false ]]
3978	then
3979
3980	# COPY IN CASE OF RUNS ON SINGLE CORES
3981	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
3982	then
3983	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}.${extout[$i]}\n"
3984	if [[ $link_local_output = true ]]
3985	then
3986	printf " using ln -f\n"
3987	ln -f ${localout[$i]} ${pathout[$i]}.${extout[$i]}
3988	fi
3989	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
3990	if [[ ! -f "${pathout[$i]}.${extout[$i]}" ]]
3991	then
3992	if [[ $link_local_output = true ]]
3993	then
3994	printf " ln failed, using cp...\n"
3995	fi
3996	cp ${localout[$i]} ${pathout[$i]}.${extout[$i]}
3997	fi
3998	else
3999	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}\n"
4000	if [[ $link_local_output = true ]]
4001	then
4002	printf " using ln -f\n"
4003	ln -f ${localout[$i]} ${pathout[$i]}
4004	fi
4005	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
4006	if [[ ! -f "${pathout[$i]}" ]]
4007	then
4008	if [[ $link_local_output = true ]]
4009	then
4010	printf " ln failed, using cp...\n"
4011	fi
4012	cp ${localout[$i]} ${pathout[$i]}
4013	fi
4014	fi
4015
4016	elif [[ "${actionout[$i]}" = "" && $files_for_pes = true ]]
4017	then
4018
4019	# FILES FROM THE DIFFERENT CORES ARE MOVED WITH ln-COMMAND TO THE PERMANENT DIRECTORY
4020	# AS A FIRST STEP, THE PERMANENT DIRECTORY IS CREATED
4021	printf "\n >>> OUTPUT: ${localout[$i]}/_.... to ${pathout[$i]}\n"
4022	if [[ $link_local_output = true ]]
4023	then
4024	printf " using ln -f\n"
4025	mkdir ${pathout[$i]}
4026	cd ${localout[$i]}
4027	for file in $(ls *)
4028	do
4029	ln -f $file ${pathout[$i]}
4030	done
4031	cd $TEMPDIR
4032	fi
4033
4034	# IF "ln -f" HAS FAILED OR IF "$link_local_output = false" DO A NORMAL COPY "cp -r"
4035	if [[ ! -f "${pathout[$i]}/_0000" ]]
4036	then
4037	if [[ $link_local_output = true ]]
4038	then
4039	printf " ln failed for .../_0000, using cp...\n"
4040	fi
4041	cp -r ${localout[$i]} ${pathout[$i]}
4042	fi
4043
4044	fi
4045	fi
4046	done
4047	if (( i != 0 ))
4048	then
4049	if [[ $transfer_problems = true ]]
4050	then
4051	printf "\n$dashes\n *** OUTPUT-files saved"
4052	printf "\n +++ WARNING: some data transfers failed! \n"
4053	else
4054	printf "\n$dashes\n *** all OUTPUT-files saved \n"
4055	fi
4056	fi
4057
4058
4059	# IF REQUIRED, START A RESTART-JOB
4060	# FILE CONTINUE_RUN MUST HAVE BEEN CREATED BY THE EXECUTABLE (PALM)
4061	if [[ -f CONTINUE_RUN ]]
4062	then
4063
4064	if [[ $archive_save = true ]]
4065	then
4066
4067	# ADD RESTART-OPTIONS TO THE MRUN-CALL (IF THEY ARE NOT USED ALREADY):
4068	# -C TELLS MRUN THAT IT IS A RESTART-RUN
4069	# -v SILENT MODE WITHOUT INTERACTIVE QUERIES
4070	# -n BATCH-MODE (IMPORTANT ONLY IN CASE OF BATCH JOBS ON THE LOCAL MACHINE)
4071	[[ $(echo $mc \| grep -c "\-C") = 0 ]] && mc="$mc -C"
4072	[[ $(echo $mc \| grep -c "\-v") = 0 ]] && mc="$mc -v"
4073	[[ $(echo $mc \| grep -c "\-b") = 0 ]] && mc="$mc -b"
4074	if [[ $(echo $mc \| grep -c "#") != 0 ]]
4075	then
4076	mc=`echo $mc \| sed 's/#/f/g'`
4077	fi
4078
4079
4080	# START THE RESTART-JOB
4081	printf "\n\n *** initiating restart-run on \"$return_address\" using command:\n"
4082	echo " $mc"
4083	printf "\n$dashes\n"
4084	if [[ $localhost != $fromhost ]]
4085	then
4086
4087	if [[ $localhost = lcbullhh \|\| $localhost = lccrayb \|\| $localhost = lccrayh \|\| $localhost = nech \|\| $localhost = ibmh \|\| $localhost = ibmkisti \|\| $localhost = ibmku \|\| $localhost = ibms \|\| $localhost = lceddy \|\| $localhost = lckyu* \|\| $localhost = lcxe6 ]]
4088	then
4089	echo "*** ssh will be used to initiate restart-runs!"
4090	echo " return_address=\"$return_address\" "
4091	echo " return_username=\"$return_username\" "
4092	if [[ $(echo $return_address \| grep -c "130.75.105") = 1 ]]
4093	then
4094	if [[ $localhost = ibmh ]]
4095	then
4096	ssh $SSH_PORTOPT $usern@136.172.40.15 "ssh $SSH_PORTOPT $return_address -l $return_username \". \\\$HOME/.profile; module load intel-compiler hdf5 netcdf; PATH=\\\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc\" "
4097	elif [[ $localhost = lcbullhh ]]
4098	then
4099	ssh $SSH_PORTOPT $usern@mlogin101 "ssh $SSH_PORTOPT $return_address -l $return_username \". \\\$HOME/.profile; module load intel-compiler hdf5 netcdf; PATH=\\\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc\" "
4100	elif [[ $localhost = lccrayb ]]
4101	then
4102	ssh $usern@blogin1 "ssh $SSH_PORTOPT $return_address -l $return_username \". \\\$HOME/.profile; module load intel-compiler hdf5 netcdf; PATH=\\\$PATH:$LOCAL_MRUN_PATH; export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc\" "
4103	elif [[ $localhost = lccrayh ]]
4104	then
4105	ssh $usern@hlogin1 "ssh $SSH_PORTOPT $return_address -l $return_username \". \\\$HOME/.profile; module load intel-compiler hdf5 netcdf; PATH=\\\$PATH:$LOCAL_MRUN_PATH; export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc\" "
4106	elif [[ $localhost = lcxe6 ]]
4107	then
4108	ssh $usern@hexagon "ssh $SSH_PORTOPT $return_address -l $return_username \". \\\$HOME/.profile; module load intel-compiler hdf5 netcdf; PATH=\\\$PATH:$LOCAL_MRUN_PATH; export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc\" "
4109	else
4110	ssh $SSH_PORTOPT $return_address -l $return_username ". \\\$HOME/.profile; module load intel-compiler hdf5 netcdf; PATH=\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc "
4111	fi
4112	else
4113	if [[ $localhost = ibmkisti ]]
4114	then
4115	ssh $SSH_PORTOPT $usern@gaiad "ssh $SSH_PORTOPT $return_address -l $return_username \"PATH=\\\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc\" "
4116	elif [[ $localhost = lceddy ]]
4117	then
4118	/usr/bin/ssh $SSH_PORTOPT $return_address -l $return_username "PATH=\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc "
4119	elif [[ $localhost = lcocean ]]
4120	then
4121	/usr/bin/ssh $SSH_PORTOPT $return_address -l $return_username "PATH=\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc "
4122	elif [[ $localhost = lccrayb ]]
4123	then
4124	ssh $usern@blogin1 "ssh $SSH_PORTOPT $return_address -l $return_username \"PATH=\\\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc\" "
4125	elif [[ $localhost = lccrayh ]]
4126	then
4127	ssh $usern@hlogin1 "ssh $SSH_PORTOPT $return_address -l $return_username \"PATH=\\\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc\" "
4128	else
4129	ssh $SSH_PORTOPT $return_address -l $return_username "PATH=\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc "
4130	fi
4131	fi
4132	else
4133	printf "\n +++ no restart mechanism available for host \"$localhost\" "
4134	locat=restart; exit
4135	fi
4136
4137	# WAIT TO ALLOW THE RESTART-JOB TO BE QUEUED, BEFORE THE CURRENT JOB IS FINISHED
4138	if [[ $queue = special1q ]]
4139	then
4140	sleep 120
4141	else
4142	sleep 30
4143	fi
4144
4145	else
4146
4147	# JOBS RUNNING (AND STARTED) ON THE LOCAL MACHINE CAN DIRECTLY CALL MRUN (WITHOUT
4148	# USING SSH)
4149	cd $LOCAL_PWD
4150	if [[ $localhost = lckyuh ]]
4151	then
4152	printf "\n +++ WARNING: no restart mechanism available for host \"$localhost\" "
4153	printf "\n please restart job manually using command:\n"
4154	printf "\n \"$mc\" "
4155	else
4156	eval $mc # THE ' MUST BE EVALUATED
4157	fi
4158	cd - > /dev/null
4159	fi
4160	if [[ $localhost = lckyuh ]]
4161	then
4162	printf "\n$dashes\n *** restart-run to be initiated manually\n"
4163	else
4164	printf "\n$dashes\n *** restart-run initiated \n"
4165	fi
4166
4167
4168	# DELETE INPUT-(RESTART)FILES, WHICH HAVE BEEN FETCHED FROM THE TEMPORARY DATA
4169	# DIRECTORY, BACAUSE THEY ARE NOT REQUIRED BY THE RESTART-JOB.
4170	# THIS IS DONE IN ORDER TO AVOID EXCEEDING DISC QUOTAS OR DISC SPACE (RESTART-FILES
4171	# MAY BE VERY HUGE)
4172	(( i = 0 ))
4173	while (( i < iin ))
4174	do
4175	(( i = i + 1 ))
4176	if [[ "${got_tmp[$i]}" = true && $keep_data_from_previous_run = false ]]
4177	then
4178	rm -r $tmp_data_catalog/${frelin[$i]}
4179	fi
4180	done
4181
4182	else
4183
4184	printf "\n +++ no restart-run possible, since errors occured"
4185	printf "\n during the archive process"
4186	fi
4187
4188	fi
4189
4190
4191
4192	# SEND EMAIL NOTIFICATION ABOUT THE FINISHED RUN
4193	if [[ "$email_notification" != "none" ]]
4194	then
4195
4196	if [[ $localhost != $fromhost ]]
4197	then
4198	if [[ -f CONTINUE_RUN ]]
4199	then
4200	echo "PALM restart run necessary" > email_text
4201	echo "description header of actual run:" >> email_text
4202	cat CONTINUE_RUN >> email_text
4203	echo "mrun-command to restart:" >> email_text
4204	echo "$mc" >> email_text
4205	else
4206	echo "PALM run with base filename \"$fname\" on host \"$localhost\" finished" > email_text
4207	fi
4208	mail $email_notification < email_text
4209	printf "\n *** email notification sent to \"$email_notification\" "
4210	fi
4211	fi
4212
4213
4214
4215	# ALL ACTIONS FINISHED, TEMPORARY WORKING-DIRECTORY CAN BE DELETED
4216	cd $HOME
4217	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
4218
4219	else
4220
4221	# PREPARING ACTIONS,
4222	# IF A BATCH-JOB IS TO BE GENERATED AND STARTED ON A REMOTE-MACHINE GERECHNET
4223
4224	# BUILD THE MRUN-COMMAND TO BE CALLED IN THE BATCH-JOB ON THE REMOTE-MACHINE
4225	mrun_com="$mrun_script_name -a $afname -c $config_file -d $fname -h $host -H $fromhost -m $memory -t $cpumax -q $queue -R $return_address -U $return_username -u $remote_username"
4226	[[ "$cpp_opts" != "" ]] && mrun_com=${mrun_com}" -D \"$cpp_opts\""
4227	[[ "$global_revision" != "" ]] && mrun_com=${mrun_com}" -G \"$global_revision\""
4228	[[ $group_number != none ]] && mrun_com=${mrun_com}" -g $group_number"
4229	[[ $do_compile = true ]] && mrun_com=${mrun_com}" -s \"$source_list\""
4230	[[ "$input_list" != "" ]] && mrun_com=${mrun_com}" -i \"$input_list\""
4231	[[ $ignore_archive_error = true ]] && mrun_com=${mrun_com}" -I"
4232	[[ $keep_data_from_previous_run = true ]] && mrun_com=${mrun_com}" -k"
4233	[[ "$additional_conditions" != "" ]] && mrun_com=${mrun_com}" -K \"$additional_conditions\""
4234	[[ "$output_list" != "" ]] && mrun_com=${mrun_com}" -o \"$output_list\""
4235	[[ "$read_from_config" = false ]] && mrun_com=${mrun_com}" -S"
4236	[[ $do_trace = true ]] && mrun_com=${mrun_com}" -x"
4237	[[ "$numprocs" != "" ]] && mrun_com=${mrun_com}" -X $numprocs"
4238	if [[ $use_openmp = true ]]
4239	then
4240	mrun_com=${mrun_com}" -O $threads_per_task"
4241	fi
4242	[[ "$tasks_per_node" != "" ]] && mrun_com=${mrun_com}" -T $tasks_per_node"
4243	[[ $store_on_archive_system = true ]] && mrun_com=${mrun_com}" -A"
4244	[[ $package_list != "" ]] && mrun_com=${mrun_com}" -p \"$package_list\""
4245	[[ $return_password != "" ]] && mrun_com=${mrun_com}" -P $return_password"
4246	[[ $delete_temporary_catalog = false ]] && mrun_com=${mrun_com}" -B"
4247	[[ $node_usage != default && "$(echo $node_usage \| cut -c1-3)" != "sla" && $node_usage != novice ]] && mrun_com=${mrun_com}" -n $node_usage"
4248	[[ "$ocean_file_appendix" = true ]] && mrun_com=${mrun_com}" -y"
4249	[[ $run_coupled_model = true ]] && mrun_com=${mrun_com}" -Y \"$coupled_dist\""
4250	[[ "$check_namelist_files" = false ]] && mrun_com=${mrun_com}" -z"
4251	[[ "$combine_plot_fields" = false ]] && mrun_com=${mrun_com}" -Z"
4252	[[ "$max_par_io_str" != "" ]] && mrun_com=${mrun_com}" -w $max_par_io_str"
4253	if [[ $do_remote = true ]]
4254	then
4255	printf "\n>>>> MRUN-command on execution host:\n>>>> $mrun_com \n"
4256	fi
4257
4258
4259	# CREATE EXECUTABLE FOR BATCH JOB
4260	if [[ $create_executable_for_batch = true && $restart_run != true ]]
4261	then
4262
4263	printf "\n *** creating the executable for batch job\n"
4264
4265	# METHOD ONLY WORKS FOR BATCH JOBS ON LOCAL HOSTS
4266	if [[ $host != $localhost ]]
4267	then
4268	printf "\n +++ creation of executables is only allowed for batch jobs on local hosts."
4269	printf "\n Please set create_executable_for_batch = false in the config-file.\n"
4270	locat=create_executable; exit
4271	fi
4272
4273	mkdir $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
4274	cd $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
4275
4276	cp $make_depository .
4277	tar -xf $make_depository > /dev/null 2>&1
4278	cp ../* . > /dev/null 2>&1
4279
4280	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
4281
4282	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
4283	then
4284	printf "\n +++ error occured while compiling or linking"
4285	locat=compile
4286	exit
4287	fi
4288
4289	mv a.out ..
4290	cd - > /dev/null 2>&1
4291	rm -rf $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
4292
4293	printf " *** executable created in \"$working_directory/SOURCES_FOR_RUN_${fname}\"\n "
4294
4295	fi
4296
4297
4298	# BUILD THE JOB-SCRIPTS ON FILE jobfile
4299	jobfile=jobfile.$RANDOM
4300
4301
4302	# CREATE TEMPORARY DIRECTORY AND SWITCH TO IT
4303	echo "mkdir $TEMPDIR" >> $jobfile
4304	echo "cd $TEMPDIR" >> $jobfile
4305
4306
4307	# ACTIVATE ERROR-TRACEBACK
4308	if [[ $do_trace = true ]]
4309	then
4310	echo "set -x" >> $jobfile
4311	else
4312	echo "set +vx" >> $jobfile
4313	fi
4314
4315
4316	# INITIALIZE THE ENVIRONMENT AND LOAD MODULES
4317	if [[ "$init_cmds" != "" ]]
4318	then
4319	echo "$init_cmds" >> $jobfile
4320	fi
4321	if [[ "$module_calls" != "" ]]
4322	then
4323	echo "$module_calls" >> $jobfile
4324	fi
4325
4326
4327	# PROVIDE SOURCE-CODE FILES, MRUN-SCRIPT AND CONFIGURATION-FILE FOR THE JOB
4328	# then-CLAUSE: FILES ARE COLLECTED IN THE SOURCES_FOR_RUN_... DIRECTORY ON THE LOCAL HOST,
4329	# WHICH IS THEN FETCHED FROM THE BATCH-JOB BY USING cp/scp
4330	# THE SOURCE-CODE FILES ALREADY EXIST IN THIS DIRECTORY
4331	# else-CLAUSE: FILE-CONTENTS ARE PUT INTO THE JOB-FILE AS HERE-DOCUMENTS
4332	# THIS MAY CREATE A QUITE LARGE JOB-FILE, WHICH CAN CAUSE PROBLEMS WITH SOME
4333	# QUEUEING-SYSTEMS
4334	if [[ $host = ibmkisti \|\| $host = lcbullhh \|\| $host = lccrayb \|\| $host = lccrayf \|\| $host = lccrayh \|\| $host = lcocean ]]
4335	then
4336
4337	# COPY CONFIGURATION-FILE AND MRUN-SCRIPT INTO THE SOURCES_FOR_RUN... DIRECTORY
4338	if [[ $restart_run != true ]]
4339	then
4340	cp $config_file $working_directory/SOURCES_FOR_RUN_$fname
4341	cp ${PALM_BIN}/$mrun_script_name $working_directory/SOURCES_FOR_RUN_$fname
4342	fi
4343
4344	# COPY THE SOURCES_FOR_RUN... DIRECTORY FROM THE LOCAL HOST TO THE JOB VIA scp
4345	# (then-CLAUSE: JOBS ON THE LOCAL HOST CAN JUST USE cp)
4346	echo "set -x" >> $jobfile
4347	if [[ $host = $localhost ]]
4348	then
4349	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
4350	# FILES ON CRAY XC30 SYSTEMS (CSC HELSINKI), rsync IS USED INSTEAD
4351	if [[ $(echo $host \| cut -c1-6) = lccray ]]
4352	then
4353	echo "rsync -av -t $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
4354	else
4355	echo "cp -r $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
4356	fi
4357
4358	else
4359	if [[ $host = ibmkisti ]]
4360	then
4361	# ON KISTI'S IBM FIREWALL IS ONLY OPENED ON INTERACTIVE NODE
4362	echo "localdir=\`pwd\`" >> $jobfile
4363	echo "ssh $SSH_PORTOPT $remote_username@gaiad \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
4364	elif [[ $host = lcbullhh ]]
4365	then
4366	echo "localdir=\`pwd\`" >> $jobfile
4367	echo "ssh $SSH_PORTOPT $remote_username@mlogin101 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
4368
4369	elif [[ $host = lccrayb ]]
4370	then
4371	echo "localdir=\`pwd\`" >> $jobfile
4372	echo "ssh $SSH_PORTOPT $remote_username@blogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
4373	elif [[ $host = lccrayh ]]
4374	then
4375	echo "localdir=\`pwd\`" >> $jobfile
4376	echo "ssh $SSH_PORTOPT $remote_username@hlogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
4377
4378	else
4379	echo "scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
4380	fi
4381	fi
4382	echo "export SOURCES_COMPLETE=true" >> $jobfile
4383
4384	# MOVE MRUN-SCRIPT AND CONFIGURATION-FILE FROM THE SOURCES_FOR_RUN... DIRECTORY TO THE
4385	# WORKING DIRECTORY OF THE JOB
4386	echo "mv SOURCES_FOR_RUN_$fname/$config_file . " >> $jobfile
4387	echo "mv SOURCES_FOR_RUN_$fname/$mrun_script_name . " >> $jobfile
4388	echo "chmod u+rwx $mrun_script_name" >> $jobfile
4389	echo "execute_mrun=true" >> $jobfile
4390	echo " " >> $jobfile
4391
4392	else
4393
4394	# PROVIDE SOURCE-CODE FILES AND MAKEFILE AS HERE DOCUMENT
4395	if [[ $do_compile = true ]]
4396	then
4397
4398	source_catalog=SOURCES_FOR_RUN_$fname
4399
4400	# CREATE SOURCES_FOR_RUN... DIRECTORY TO STORE THE SOURCE CODE FILES AND THE MAKEFILE
4401	echo "mkdir SOURCES_FOR_RUN_$fname" >> $jobfile
4402	echo "export SOURCES_COMPLETE=true" >> $jobfile
4403	echo "cd SOURCES_FOR_RUN_$fname" >> $jobfile
4404
4405	for filename in $source_list
4406	do
4407	# BACKSLASH IS USED FOR MASKING
4408	echo "cat > $filename << \"%END%\"" >> $jobfile
4409	cat $source_catalog/$filename >> $jobfile
4410	echo " " >> $jobfile
4411	echo "%END%" >> $jobfile
4412	echo " " >> $jobfile
4413	done
4414
4415	# BACKSLASH IS USED FOR MASKING
4416	echo "cat > Makefile << \"%END%\"" >> $jobfile
4417	cat $source_catalog/Makefile >> $jobfile
4418	echo " " >> $jobfile
4419	echo "%END%" >> $jobfile
4420	echo " " >> $jobfile
4421
4422	echo "cd - > /dev/null" >> $jobfile
4423
4424	fi
4425
4426
4427	# PROVIDE THE CONFIGURATION-FILE AS HERE-DOCUMENT
4428	# BACKSLASH IS USED FOR MASKING
4429	# LINES WITH #$ IN THE CONFIGURATION-FILE, COMING FROM THE SVN KEYWORD SUBSTITUTION,
4430	# ARE REMOVED FROM THE FILE IN ORDER TO AVOID PROBLEMS WITH THE SGE BATCH SYSTEM
4431	echo "cat > $config_file << \"%END%\"" >> $jobfile
4432	if [[ $host = lckyuh ]]
4433	then
4434	# NO CROSS-COMPILER ON COMPUTE NODE
4435	sed 's/frtpx/frt/g' $config_file >> $jobfile
4436	else
4437	sed 's/#$.*//g' $config_file >> $jobfile
4438	fi
4439	echo "%END%" >> $jobfile
4440	echo " " >> $jobfile
4441
4442
4443	# PROVIDE THE MRUN-SCRIPTS AS HERE-DOCUMENT
4444	# BACKSLASH IS USED FOR MASKING
4445	echo "cat > $mrun_script_name <<\"%END%\"" >> $jobfile
4446	if [[ $host = lckyuh ]]
4447	then
4448	sed 's/\/bin\/ksh/\/bin\/bash/g' ${PALM_BIN}/$mrun_script_name >> $jobfile
4449	else
4450	cat ${PALM_BIN}/$mrun_script_name >> $jobfile
4451	fi
4452	echo "%END%" >> $jobfile
4453	echo "chmod u+x $mrun_script_name" >> $jobfile
4454	echo "execute_mrun=true" >> $jobfile
4455	echo " " >> $jobfile
4456
4457	fi
4458
4459
4460	# GET REQUIRED INPUT-FILES BY SCP OR BY SENDING THEM WITH THE JOB AS HERE-DOCUMENT
4461	# PUT THESE FILES INTO THE USER'S RESPECTIVE PERMANENT DIRECTORIES ON THE REMOTE-HOST
4462	# IF THE DIRECTORIES DO NOT EXIST, TRY TO CREATE THEM
4463	if [[ $do_remote = true ]]
4464	then
4465	(( i = 0 ))
4466	while (( i < iin ))
4467	do
4468	(( i = i + 1 ))
4469	echo "[[ ! -d ${pathin[$i]} ]] && mkdir -p ${pathin[$i]}" >> $jobfile
4470	if [[ "${transin[$i]}" = job ]]
4471	then
4472	echo "cat > ${remotepathin[$i]} <<\"%END%\"" >> $jobfile
4473	eval cat ${pathin[$i]}/${frelin[$i]} >> $jobfile
4474	echo " " >> $jobfile
4475	echo "%END%" >> $jobfile
4476	else
4477	echo "batch_scp $PORTOPT -b -o -g -s -u $return_username $return_address ${remotepathin[$i]} \"${pathin[$i]}\" ${frelin[$i]}" >> $jobfile
4478	fi
4479
4480	# CHECK, IF FILE COULD BE CREATED
4481	echo "if [[ \$? = 1 ]]" >> $jobfile
4482	echo "then" >> $jobfile
4483	echo " echo \" \" " >> $jobfile
4484	echo " echo \"+++ file ${remotepathin[$i]} could not be created\" " >> $jobfile
4485	echo " echo \" please check, if directory exists on $host!\" " >> $jobfile
4486	echo " echo \"+++ MRUN will not be continued\" " >> $jobfile
4487	echo " execute_mrun=false" >> $jobfile
4488	echo "fi" >> $jobfile
4489	done
4490	fi
4491
4492	# PROVIDE NAME OF THE CURRENT WORKING-DIRECTORY ON THE LOCAL MACHINE (FROM WHERE THE JOB IS
4493	# STARTED) BY SETTING AN ENVIRONMENT-VARIABLE. THIS INFORMATION IS USED IN THE JOB BY MRUN
4494	# IN CASE THAT RESTART-RUNS HAVE TO BE GENERATED
4495	echo "LOCAL_PWD=$working_directory" >> $jobfile
4496	echo "export LOCAL_PWD" >> $jobfile
4497
4498	# PROVIDE THE PATH OF THE LOCAL MRUN-SCRIPT FOR THE SAME REASON
4499	echo "LOCAL_MRUN_PATH=$PALM_BIN" >> $jobfile
4500	echo "export LOCAL_MRUN_PATH" >> $jobfile
4501
4502	# lceddy ALSO REQUIRES TO PROVIDE PATH FOR THE PALM-SCRIPTS
4503	if [[ $host = lceddy \|\| $localhost = lceddy ]]
4504	then
4505	echo "export PALM_BIN=$PALM_BIN" \| sed -e 's:'$HOME':$HOME:' >> $jobfile
4506	echo "export PATH=\$PATH:\$PALM_BIN" >> $jobfile
4507	fi
4508
4509	# CALL MRUN WITHIN THE JOB (SETTING QUEUE IS A WORKAROUND FOR ibmkisti)
4510	# AS FINAL ACTION, REMOVE THE TEMPORARY DIRECTORY CREATED AT THE BEGINNING OF THE JOB
4511	echo "set -x" >> $jobfile
4512	echo "queue=$queue" >> $jobfile
4513	echo "[[ \$execute_mrun = true ]] && ./$mrun_com" >> $jobfile
4514	echo 'ls -al; echo `pwd`' >> $jobfile
4515	echo "cd \$HOME" >> $jobfile
4516	echo "rm -rf $TEMPDIR" >> $jobfile
4517
4518
4519
4520
4521	# START THE JOB USING SUBJOB-COMMAND
4522	if [[ $silent = false ]]
4523	then
4524	printf "\n "
4525	else
4526	printf "\n\n"
4527	fi
4528
4529	subjob $job_on_file -h $host -u $remote_username -g $group_number -q $queue -m $memory -N $node_usage -t $cpumax $XOPT $TOPT $OOPT -n $fname -v -c $job_catalog -e $email_notification $PORTOPT $jobfile
4530	rm -rf $jobfile
4531
4532
4533	fi # END OF REMOTE-PART

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