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source: palm/trunk/SCRIPTS/mrun @ 2264

Last change on this file since 2264 was 2262, checked in by raasch, 7 years ago
bugfix for r2261
Property svn:keywords set to `Id Rev`
File size: 142.6 KB

Line
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 2262 2017-06-08 14:52:23Z raasch $
29	# bugfix for r2261
30	#
31	# 2261 2017-06-08 14:25:57Z raasch
32	# unified cycle numbers for output files are used,
33	# paths and filenames are allowed to contain arbitrary numbers of dots ".",
34	# creation of file OUTPUT_FILE_CONNECTIONS removed,
35	# archive feature completely removed from the script,
36	# nech related parts completely removed
37	#
38	# 2257 2017-06-07 14:07:05Z witha
39	# adjustments for lceddy, removed lcflow-specific code
40	#
41	# 2186 2017-03-21 05:36:31Z raasch
42	#
43	# 2185 2017-03-21 05:09:29Z raasch
44	# adjustment for lykyo*-hosts (PJM_ENVIRONMENT defines BATCH)
45	#
46	# 2148 2017-02-09 16:56:42Z scharf
47	# changed allocation of resources for lcbullhh in srun command
48	#
49	# 2141 2017-02-06 10:19:32Z gronemeier
50	# made check for existing files language independent
51	#
52	# 1944 2016-06-15 06:29:00Z raasch
53	# adjustments for using HLRN ssh-keys
54	#
55	# 1940 2016-06-14 05:15:20Z raasch $
56	# adjustments for lckiaps
57	#
58	# 1866 2016-04-15 06:50:59Z raasch
59	# adjusted for lcocean
60	#
61	# 1841 2016-04-07 19:14:06Z raasch
62	# script now running under bash
63	#
64	# 1804 2016-04-05 16:30:18Z maronga
65	# test: implementing an execute mechanism where the execute command is given in the
66	# configuration file
67	# ROPTS removed from execution commands
68	# Warnings about missing optional files or user code changed to informative messages
69	# Removed parameter file check
70	#
71	# 1755 2016-02-22 13:53:39Z maronga
72	# Minor bugfix to last commit
73	#
74	# 1753 2016-02-22 13:49:49Z maronga
75	# Bugfix: use random job number when PBS job nummer retrieval fails on lccray*
76	#
77	# 1622 2015-07-20 06:21:36Z heinze
78	# bugfix for Mistral (lcbullhh)
79	#
80	# 1621 2015-07-17 11:39:33Z heinze
81	# adjustments for Mistral at DKRZ Hamburg (lcbullhh)
82	#
83	# 1609 2015-07-03 15:37:58Z maronga
84	# Modified the random number of the temporary working directory to match the
85	# queuing system number on HLRN-III (lccray*).
86	#
87	# 1604 2015-06-23 15:48:03Z suehring
88	# Enable coupled runs for lcmuk
89	#
90	# 1598 2015-05-29 06:45:40Z raasch
91	# bugfix for creating hostfile and total number of MPI tasks if run in openmp-mode on one node
92	#
93	# 1549 2015-01-30 14:26:16Z suehring
94	# Enable interactive debug sessions with allinea debugger
95	#
96	# 1547 2015-01-29 15:09:12Z witha
97	# adjustments for ForWind computing cluster (lcflow)
98	#
99	# 1491 2014-11-12 08:12:57Z heinze
100	# correct setting of batch_job allowed for ibm-machines
101	#
102	# 1468 2014-09-24 14:06:57Z maronga
103	# Typo removed (addres->address)
104	# Bugfix: returning files to IMUK via ssh did not work for lccrayh and lcycrayb
105	# Added support for restart runs (remote) for lcxe6
106	#
107	# 1442 2014-07-28 07:09:10Z raasch
108	# default queues for HLRN-III (lccrayb/lccrayh) defined
109	#
110	# 1422 2014-07-02 10:01:25Z kanani
111	# automatic restarts enabled for lccrayb,
112	# adjustment of path to compilervars.sh at IMUK (see automatic restarts)
113	#
114	# 1420 2014-06-10 06:24:14Z raasch
115	# -j1 option added to aprung command for lccrayf (CSC)
116	#
117	# 1402 2014-05-09 14:25:13Z raasch
118	# batch_job added to envpar-NAMELIST
119	#
120	# 1357 2014-04-11 15:02:03Z witha
121	# adjustments for lccrayh (automatic restarts on lccrayh outside of IMUK are now
122	# possible)
123	#
124	# 1320 2014-03-20 08:40:49Z raasch
125	# check namelist file set false by default
126	#
127	# 1304 2014-03-12 10:29:42Z raasch
128	# ulimit option changed from -Ss to -s
129	#
130	# bugfix: missing "fi" in r1289
131	#
132	# 1289 2014-03-04 07:12:34Z raasch
133	# comments translated to English
134	# necriam-, fimm-, ibmy-, and sgi-specific code removed
135	# export of variables for palm and interpret_config removed
136	#
137	# 1281 2014-02-01 07:55:49Z raasch
138	# rsync-copy restricted to Cray machines, since command is unavailable on some
139	# other systems
140	#
141	# 1279 2014-01-28 12:10:14Z raasch
142	# tasks_per_node must not be an integral divisor of numprocs any more. This was done
143	# in order to remove annoying restrictions concerning the number of processors which
144	# appear on machines with larger nodes (e.g. containing 24 cores). Now without this
145	# restriction, one of the nodes will be filled with less than the given number of
146	# tasks per node. A respective warning is given.
147	#
148	# 1274 2014-01-09 13:14:54Z heinze
149	# adjustments for lccrayh
150	#
151	# 1272 2014-01-08 10:19:32Z witha
152	# small adjustment for lcflow
153	#
154	# 1270 2013-12-16 11:05:01Z fricke
155	# call of combine_plot_fields adjusted for lccrayb/lccrayh
156	#
157	# 1255 2013-11-07 14:43:35Z raasch
158	# further adjustments for lccrayb remote access
159	#
160	# 1241 2013-10-30 11:36:58Z heinze
161	# Enable use of nudging input and input of large scale forcing from
162	# external files
163	#
164	# 1229 2013-09-20 06:55:19Z raasch
165	# further adjustments for lccrayb
166	#
167	# 1224 2013-09-16 07:27:23Z raasch
168	# first adjustments for lccrayb
169	#
170	# 1210 2013-08-14 10:58:20Z raasch
171	# fftw support added
172	#
173	# 1201 2013-07-10 16:17:59Z witha
174	# adjustments for Forwind cluster (lcflow)
175	#
176	# 1199 2013-07-05 14:52:22Z raasch
177	# adjustments for CSC Helsinki (lccrayf),
178	# executables for batch jobs can be created in advance, in order to avoid calling
179	# the compiler within the batch job (only works if batch jobs are submitted on
180	# local host)
181	#
182	# 1190 2013-06-25 09:39:21Z heinze
183	# enable use of automatic restarts for ibmh
184	# use of cluster/express queue enabled (ibmh)
185	#
186	# 1124 2013-04-09 15:46:52Z raasch
187	# variable "memory" is exported via typeset option -x, because otherwise an unknown
188	# side effect may lead to data loss while getopts is reading the script-option arguments
189	#
190	# 1122 2013-04-09 08:37:16Z heinze
191	# Bugfix: change type of variable last_char
192	#
193	# 1119 2013-04-05 15:11:19Z raasch
194	# Bugfix for setting -T option for subjob
195	#
196	# 1108 2013-03-05 07:03:32Z raasch
197	# bugfix for coupled runs on lckyut/lckyuh
198	#
199	# 1106 2013-03-04 05:31:38Z raasch
200	# --stdin argument for mpiexec on lckyuh
201	# -y and -Y settings output to header
202	#
203	# 1103 2013-02-20 02:15:53Z raasch
204	# default script runs again under ksh, because of unsolved problems with read
205	# from stdin: when bash script is called from a ksh, message "read error: 0:
206	# Resource temporarily unavailable" appears and script does not stop,
207	# further bash compatibility adjustments,
208	# shebang line replaced by /bin/bash when running jobs on lckyuh; no restarts
209	# on lckyuh, but mrun does not terminate and issues a warning instead
210	#
211	# 1101 2013-02-17 10:20:21Z raasch
212	# script now running under bash instead of ksh, which required small adjustments
213	# (output formatting with printf instead "typeset -L/-R", print replaced by echo,
214	# read from stdin),
215	# cross compilername on lckyuh compute nodes replaced by real compiler name
216	#
217	# 1099 2013-02-10 01:47:43Z raasch
218	# adjustments for Kyushu-University computing center (lckyuh - hayaka)
219	# and for Forwind cluster (lcflow)
220	# small further adjustments for lckyut
221	#
222	# 1094 2013-02-03 01:52:12Z raasch
223	# explicit ssh/scp port can be set in config file with environment variable
224	# scp_port. This port is handled to all ssh/scp/batch_scp calls.
225	# decalpha parts (yonsei) removed
226	#
227	# 2013-02-02 07:06:13Z raasch
228	# adjustments for Kyushu-University computing center (lckyut - tatara)
229	#
230	# 1083 2013-01-04 10:22:09Z maronga
231	# bugfix in parameter file check (read %cpp_options was missing)
232	#
233	# 1069 2012-11-28 16:18:43Z maronga
234	# bugfix: coupling mode was always set to mpi2, typos removed
235	#
236	# 1058 2012-11-21 07:00:35Z raasch
237	# Intel inspector (inspxe) is given the number of PEs instead of the number of
238	# nodes
239	#
240	# 1046 2012-11-09 14:38:45Z maronga
241	# code put under GPL (PALM 3.9)
242	#
243	# 21/03/94 - Siggi - first version finished
244	# 03/03/94 - Siggi - script development started
245	#
246	#--------------------------------------------------------------------------------#
247	# mrun - script for running PALM jobs
248	#--------------------------------------------------------------------------------#
249
250
251
252	# DECLARATION OF VARIABLES AND THEIR DEFUALT VALUES
253
254	set +o allexport # SUPPRESS EXPORT OF ALL VARIABLES, SINCE IN THE PAST THIS
255	# LES TO PROBLEMS IN ROUTINES CALLED BY MRUN
256	# (TOO MANY ARGUMENTS - PROBLEM)
257	set +o noclobber # EXISTING FILES ARE ALLOWED TO BE OVERWRITTEN
258
259	AddFilenames=""
260	additional_conditions=""
261	add_source_path=""
262	afname=""
263	check_namelist_files=false
264	combine_plot_fields=true
265	compiler_name=""
266	cond1=""
267	cond2=""
268	config_file=.mrun.config
269	coupled_dist=""
270	coupled_mode="mpi1"
271	cpp_opts=""
272	cpp_options=""
273	cpumax=0
274	cpurest=0
275	create_executable_for_batch=false
276	delete_temporary_catalog=true
277	do_batch=false
278	do_compile=true
279	do_remote=false
280	do_stagein=true
281	do_stageout=true
282	do_trace=false
283	email_notification="none"
284	exclude=""
285	executable=""
286	execute_command="none"
287	execution_error=false
288	fftw_inc=""
289	fftw_lib=""
290	fftw_support=false
291	fname=test
292	fromhost=""
293	global_revision=""
294	group_number=none
295	host=""
296	host_file=""
297	hp=""
298	input_list=""
299	interpreted_config_file=""
300	job_catalog="~/job_queue"
301	job_on_file=""
302	keep_data_from_previous_run=false
303	link_local_input=false
304	link_local_output=false
305	localhost_realname=$(hostname)
306	local_dvrserver_running=.FALSE.
307	locat=normal
308	mainprog=""
309	makefile=""
310	max_par_io_str=""
311	mc=$0
312	while [[ $(echo $mc \| grep -c "/") != 0 ]]
313	do
314	mc=`echo $mc \| cut -f2- -d"/"`
315	done
316	module_calls=""
317	mrun_script_name=$mc
318	netcdf_inc=""
319	netcdf_lib=""
320	netcdf_support=false
321	node_usage=default
322	numprocs=""
323	numprocs_atmos=0
324	numprocs_ocean=0
325	OOPT=""
326	openmp=false
327	output_list=""
328	package_list=""
329	queue=none
330	read_from_config=""
331	restart_run=false
332	if [[ `hostname` = rte10 ]]
333	then
334	return_address=133.5.185.60
335	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
336	elif [[ `hostname` = climate0 ]]
337	then
338	return_address=165.132.26.68
339	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
340	elif [[ `hostname` = "schultzl-Latitude-E6540" ]]
341	then
342	return_address="schultzl-Latitude-E6540"
343	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
344	elif [[ `hostname` = urban00 ]]
345	then
346	return_address=147.46.30.151
347	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
348	else
349	return_address=$(nslookup `hostname` 2>&1 \| grep "Address:" \| tail -1 \| awk '{print $2}')
350	fi
351	return_password=""
352	return_username=$LOGNAME
353	remotecall=false
354	remote_username=""
355	run_coupled_model=false
356	run_mode=""
357	dashes=" ----------------------------------------------------------------------------"
358	silent=false
359	source_list=""
360	source_path=SOURCE
361	tasks_per_node=""
362	threads_per_task=1
363	tmpcreate=false
364	tmp_data_catalog=""
365	transfer_problems=false
366	usern=$LOGNAME
367	use_openmp=false
368	version="MRUN 2.1 Rev$Rev: 2262 $"
369	working_directory=`pwd`
370	TOPT=""
371	XOPT=""
372	zeit=$( date \| cut -c 12-19 )
373
374	typeset -i iec=0 iic=0 iin=0 ioc=0 iout=0 stagein_anz=0 stageout_anz=0
375	typeset -x -i memory=0 # HAS TO BE EXPORTED HERE, OTHERWISE AN UNKNOWN SIDE
376	# SIDE EFFECT MAY CAUSE DATA LOSS WHEN GETOPTS IS READING THE
377	# SCRIPT-OPTION ARGUMENTS
378	typeset -i cputime i ii iia iii iio icycle inode ival jobges jobsek last_char_int maxcycle minuten nodes pes remaining_pes run_number sekunden tp1
379
380	# ERROR HANDLING IN CASE OF EXIT
381	trap 'rm -rf $working_directory/tmp_mrun
382	if [[ $locat != normal && $locat != control_c ]]
383	then
384
385	# CARRY OUT ERROR-COMMANDS GIVEN IN THE CONFIGURATION FILE (EC:)
386	(( i = 0 ))
387	while (( i < iec ))
388	do
389	(( i = i + 1 ))
390	printf "\n *** Execution of ERROR-command:\n"
391	printf " >>> ${err_command[$i]}\n"
392	eval ${err_command[$i]}
393	done
394	if [[ -n $interpreted_config_file ]]
395	then
396	rm -rf $interpreted_config_file
397	fi
398	if [[ -n .mrun_environment ]]
399	then
400	rm -rf .mrun_environment
401	fi
402	if [[ $tmpcreate = true ]]
403	then
404	# printf "\n *** Contents of \"$TEMPDIR\":\n"
405	# ls -al; cd
406	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
407	fi
408	if [[ "$dvrserver_id" != "" ]]
409	then
410	echo "+++ killing dvrserver_id=$dvrserver_id"
411	kill $dvrserver_id
412	fi
413	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
414	then
415	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
416	fi
417	printf "\n\n+++ MRUN killed \n\n"
418	elif [[ $locat != control_c ]]
419	then
420	printf "\n\n --> all actions finished\n\n"
421	printf " Bye, bye $usern !!\n\n"
422	fi' exit
423
424
425	# ACTIONS IN CASE OF TERMINAL-BREAK (CONTROL-C):
426	trap 'rm -rf $working_directory/tmp_mrun
427	rm -rf $working_directory/tmp_check_namelist_files
428	[[ $tmpcreate = true ]] && (cd; rm -rf $TEMPDIR)
429	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
430	then
431	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
432	fi
433	if [[ "$dvrserver_id" != "" ]]
434	then
435	echo "+++ killing dvrserver_id=$dvrserver_id"
436	kill $dvrserver_id
437	fi
438	printf "\n+++ MRUN killed by \"^C\" \n\n"
439	locat=control_c
440	exit
441	' 2
442
443
444	# CHECK IF THE PATH FOR THE PALM BINARIES (SCRIPTS+UTILITY-PROGRAMS) HAS
445	# BEEN SET
446	if [[ "$PALM_BIN" = "" ]]
447	then
448	printf "\n +++ environment variable PALM_BIN has not been set"
449	printf "\n please set it to the directory where the PALM scripts are located"
450	locat=palm_bin; exit
451	fi
452	export PATH=$PALM_BIN:$PATH
453
454
455
456	# READ SHELLSCRIPT-OPTIONS AND REBUILD THE MRUN-COMMAND STRING (MC),
457	# WHICH WILL BE USED TO START RESTART-JOBS
458	while getopts :a:bBc:Cd:D:Fg:G:h:H:i:kK:m:M:n:o:O:p:P:q:r:R:s:St:T:u:U:vw:xX:yY:zZ option
459	do
460	case $option in
461	(a) afname=$OPTARG;;
462	(b) do_batch=true; mc="$mc -b";;
463	(B) delete_temporary_catalog=false; mc="$mc -B";;
464	(c) config_file=$OPTARG; mc="$mc -c$OPTARG";;
465	(C) restart_run=true; mc="$mc -C";;
466	(d) fname=$OPTARG; mc="$mc -d$OPTARG";;
467	(F) job_on_file="-D"; mc="$mc -F";;
468	(g) group_number=$OPTARG; mc="$mc -g$OPTARG";;
469	(G) global_revision=$OPTARG; mc="$mc -G'$OPTARG'";;
470	(h) host=$OPTARG; mc="$mc -h$OPTARG";;
471	(H) fromhost=$OPTARG; mc="$mc -H$OPTARG";;
472	(i) input_list=$OPTARG; mc="$mc -i'$OPTARG'";;
473	(k) keep_data_from_previous_run=true; mc="$mc -k";;
474	(K) additional_conditions="$OPTARG"; mc="$mc -K'$OPTARG'";;
475	(m) memory=$OPTARG; mc="$mc -m$OPTARG";;
476	(M) makefile=$OPTARG; mc="$mc -M$OPTARG";;
477	(n) node_usage=$OPTARG; mc="$mc -n$OPTARG";;
478	(o) output_list=$OPTARG; mc="$mc -o'$OPTARG'";;
479	(O) use_openmp=true; threads_per_task=$OPTARG; mc="$mc -O$OPTARG";;
480	(p) package_list=$OPTARG; mc="$mc -p'$OPTARG'";;
481	(P) return_password=$OPTARG; mc="$mc -P$OPTARG";;
482	(q) queue=$OPTARG; mc="$mc -q$OPTARG";;
483	(r) run_mode=$OPTARG; mc="$mc -r'$OPTARG'";;
484	(R) remotecall=true;return_address=$OPTARG; mc="$mc -R$OPTARG";;
485	(s) source_list=$OPTARG; mc="$mc -s'$OPTARG'";;
486	(S) read_from_config=false; mc="$mc -S";;
487	(t) cpumax=$OPTARG; mc="$mc -t$OPTARG";;
488	(T) mrun_tasks_per_node=$OPTARG; mc="$mc -T$OPTARG";;
489	(u) remote_username=$OPTARG; mc="$mc -u$OPTARG";;
490	(U) return_username=$OPTARG; mc="$mc -U$OPTARG";;
491	(v) silent=true; mc="$mc -v";;
492	(w) max_par_io_str=$OPTARG; mc="$mc -w$OPTARG";;
493	(x) do_trace=true;set -x; mc="$mc -x";;
494	(X) numprocs=$OPTARG; mc="$mc -X$OPTARG";;
495	(y) ocean_file_appendix=true; mc="$mc -y";;
496	(Y) run_coupled_model=true; coupled_dist=$OPTARG; mc="$mc -Y'$OPTARG'";;
497	(z) check_namelist_files=false; mc="$mc -z";;
498	(Z) combine_plot_fields=false; mc="$mc -Z";;
499	(\?) printf "\n +++ unknown option $OPTARG \n"
500	printf "\n --> type \"$0 ?\" for available options \n"
501	locat=parameter;exit;;
502	esac
503	done
504
505
506	# SKIP GIVEN OPTIONS TO READ POSITIONAL PARAMETER, IF GIVEN
507	# CURRENTLY ONLY PARAMETER ? (TO OUTPUT A SHORT COMMAND INFO) IS ALLOWED
508	(( to_shift = $OPTIND - 1 ))
509	shift $to_shift
510
511	# PRINT SHORT DESCRIPTION OF MRUN OPTIONS
512	if [[ "$1" = "?" ]]
513	then
514	(printf "\n *** mrun can be called as follows:\n"
515	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"
516	printf "\n Description of available options:\n"
517	printf "\n Option Description Default-Value"
518	printf "\n -a base name of input files equiv. -d"
519	printf "\n -b batch-job on local machine ---"
520	printf "\n -B do not delete temporary directory at end ---"
521	printf "\n -c configuration file .mrun.config"
522	printf "\n -d base name of files attached to program test"
523	printf "\n -D preprocessor(cpp)-directives \"\" "
524	printf "\n -F create remote job file only ---"
525	printf "\n -h execution host $localhost_realname"
526	printf "\n -i INPUT control list \"\" "
527	printf "\n -k keep data from previous run"
528	printf "\n -K additional conditions for controling"
529	printf "\n usage of conditional code and"
530	printf "\n env-variables in configuration file \"\" "
531	printf "\n -m memory demand in MB (batch-jobs) 0 MB"
532	printf "\n -M Makefile name Makefile"
533	printf "\n -n node usage (shared/not_shared) depending on -h"
534	printf "\n -o OUTPUT control list \"\" "
535	printf "\n -O threads per openMP task ---"
536	printf "\n -p software package list \"\" "
537	printf "\n -q queue \"$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 $localhost_realname <identifier>\""
609	printf "\n to the configuration file."
610	locat=localhost; exit
611	fi
612
613
614	# ??? THIS SHOULD BE DECRIBED IN THE MRUN DOCUMENTATION ???
615	# SET BASENAME OF THE INPUT-FILES TO THE GENERAL BASENAME (GIVEN BY OPTION -d),
616	# IF IT HAS NOT BEEN SET BY THE USER DIFFERENTLY (USING OPTION -a)
617	[[ "$afname" = "" ]] && afname=$fname
618
619
620	# ADD RUN-FILE ACTIVATION STRINGS (GIVEN BY OPTION -r) TO THE
621	# RESPECTIVE LISTS FOR ACTIVATING THE INPUT/OUTPUT FILE CONNECTION
622	# STATEMENTS IN THE CONFIGURATION FILE
623	if [[ "$run_mode" != "" ]]
624	then
625	input_list="$input_list $run_mode"
626	output_list="$output_list $run_mode"
627	fi
628
629
630	# ??? is this (and the respective option -H) really required ???
631	# STORE HOSTNAME, FROM WHICH THE JOB IS STARTED,
632	# BUT ONLY IF IT HASN'T BEEN ALREADY SET BY OPTION -H
633	# (MRUN IS AUTOMATICALLY SETTING THIS OPTION IN THE MRUN-CALLS WITHIN
634	# THOSE BATCH-JOBS, WHICH ARE CREATED BY MRUN ITSELF)
635	if [[ "$fromhost" = "" ]]
636	then
637	fromhost=$localhost
638	fi
639
640
641	# CHECK, IF EXECUTION SHALL TO BE DONE ON THE REMOTE-MACHINE.
642	# VALUE OF do_remote IS IMPORTANT FOR THE FILE CONNECTIONS.
643	# IN CASE OF EXECUTION ON A REMOTE-MACHINE, A BATCH-JOB HAS
644	# TO BE SUBMITTED (I.E. do_batch=true)
645	if [[ -n $host && "$host" != $localhost ]]
646	then
647	do_batch=true
648	do_remote=true
649	case $host in
650	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lceddy\|lckyoto\|lcocean\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
651	(*) printf "\n"
652	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
653	printf "\n is not available"
654	locat=nqs; (( iec = 0 )); exit;;
655	esac
656	else
657	host=$localhost
658	fi
659
660
661	# EVALUATE ADDITIONAL CONDITIONS GIVEN BY OPTION -K
662	if [[ -n $additional_conditions ]]
663	then
664	cond1=`echo $additional_conditions \| cut -d" " -f1`
665	cond2=`echo $additional_conditions \| cut -d" " -s -f2`
666	dummy=`echo $additional_conditions \| cut -d" " -s -f3`
667	if [[ -n $dummy ]]
668	then
669	printf "\n +++ more than 2 additional conditions given for Option \"-K\""
670	locat=options; exit
671	fi
672	block=_$cond1
673	[[ -n $cond2 ]] && block=${block}_$cond2
674	fi
675
676
677	# EVALUATE MODEL COUPLING FEATURES (OPTION -Y) AND DETERMINE coupled_mode
678	if [[ $run_coupled_model = true ]]
679	then
680
681	numprocs_atmos=`echo $coupled_dist \| cut -d" " -s -f1`
682	numprocs_ocean=`echo $coupled_dist \| cut -d" " -s -f2`
683
684	if (( $numprocs_ocean + $numprocs_atmos != $numprocs ))
685	then
686
687	printf "\n +++ number of processors does not fit to specification by \"-Y\"."
688	printf "\n PEs (total) : $numprocs"
689	printf "\n PEs (atmosphere): $numprocs_atmos"
690	printf "\n PEs (ocean) : $numprocs_ocean"
691	locat=coupling; exit
692
693	fi
694
695
696	# GET coupled_mode FROM THE CONFIG FILE
697	line=""
698	grep "%cpp_options.-D__mpi2.$host" $config_file > tmp_mrun
699	while read line
700	do
701	echo line=\"$line\"
702	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" && $(echo $line \| cut -d" " -s -f4) = $cond1 && $(echo $line \| cut -d" " -s -f5) = $cond2 ]]
703	then
704	coupled_mode="mpi2"
705	fi
706	done < tmp_mrun
707
708	fi
709
710	# SAVE VALUES OF MRUN-OPTIONS SICHERN IN ORDER TO OVERWRITE
711	# THOSE VALUES GIVEN IN THE CONFIGURATION-FILE
712	mrun_memory=$memory
713	mrun_group_number=$group_number
714	mrun_cpumax=$cpumax
715	mrun_numprocs=$numprocs
716
717
718	# READ AND EVALUATE THE CONFIGURATION-FILE FROM WITHIN THIS SHELLSCRIPT
719	# (OPTION -S). THE DEFAULT IS USING THE ROUTINE <<<<
720	if [[ "$read_from_config" = false ]]
721	then
722	[[ $silent = false ]] && printf "\n Reading the configuration file... "
723
724	# READ THE CONFIGURATION FILE LINE BY LINE
725	while read zeile
726	do
727	[[ $silent = false ]] && printf "."
728
729
730	# FIRST REPLACE ENVIRONMENT-VARIABLES BY THEIR RESPECTIVE VALUES
731	eval zeile=\"$zeile\"
732
733
734	# INTERPRET THE LINE
735	if [[ "$(echo $zeile)" = "" ]]
736	then
737	# EMPTY LINE, NO ACTION
738	continue
739
740	elif [[ "$(echo $zeile \| cut -c1)" = "#" ]]
741	then
742
743	# LINE IS A COMMENT LINE
744	true
745
746	elif [[ "$(echo $zeile \| cut -c1)" = "%" ]]
747	then
748
749	# LINE DEFINES AN ENVIRONMENT-VARIABLE
750	zeile=$(echo $zeile \| cut -c2-)
751	var=`echo $zeile \| cut -d" " -f1`
752	value=`echo $zeile \| cut -d" " -s -f2`
753	for_host=`echo $zeile \| cut -d" " -s -f3`
754	for_cond1=`echo $zeile \| cut -d" " -s -f4`
755	for_cond2=`echo $zeile \| cut -d" " -s -f5`
756
757	if [[ "$for_host" = "" \|\| ( "$for_host" = $host && "$for_cond1" = "$cond1" && "$for_cond2" = "$cond2" ) \|\| $(echo "$input_list$output_list"\|grep -c "$for_host") != 0 ]]
758	then
759
760	# REPLACE ":" BY " " IN COMPILER- CPP- OR LINKER-OPTIONS,
761	# "::" IS REPLACED BY ":".
762	value=`echo $value \| sed 's/::/%DUM%/g' \| sed 's/:/ /g' \| sed 's/%DUM%/:/g'`
763
764
765	# VALUE FROM THE CONFIGURATION-FILE IS ASSIGNED TO THE
766	# ENVIRONMENT-VARIABLE, BUT ONLY IF NO VALUE HAS BEEN ALREADY
767	# ASSIGNED WITHIN THIS SCRIPT (E.G. BY SCRIPT-OPTIONS).
768	# NON-ASSIGNED VARIABLES HAVE VALUE "" OR 0 (IN CASE OF INTEGER).
769	# HENCE THE GENERAL RULE IS: SCRIPT-OPTION OVERWRITES THE
770	# CONFIGURATION-FILE.
771	if [[ "$(eval echo \$$var)" = "" \|\| "$(eval echo \$$var)" = "0" ]]
772	then
773	eval $var=\$value
774
775	# TERMINAL OUTPUT OF ENVIRONMENT-VARIABLES, IF TRACEBACK IS SWITCHED on
776	if [[ $do_trace = true ]]
777	then
778	printf "\n*** ENVIRONMENT-VARIABLE $var = $value"
779	fi
780	fi
781
782	# IF AN ENVIRONMENT-VARIABLE DETERMINES THE HOST, THEN EVALUATE IT IMMEDIATELY:
783	# VALUE OF do-remote IS REQUIRED FOR THE FILE CONNECTIONS (COPY OF I/O FILES).
784	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MASCHINE, A BATCH-JOB
785	# MUST HAVE TO BE STARTED
786	if [[ $var = host ]]
787	then
788	if [[ -n $host && "$host" != $localhost ]]
789	then
790	do_batch=true
791	do_remote=true
792	case $host in
793	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lceddy\|lckyoto\|lcocean\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
794	(*) printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
795	printf "\n is not available"
796	locat=nqs; exit;;
797	esac
798	else
799	host=$localhost
800	fi
801	fi
802
803	# USER-DEFINED ENVIRONMENT VARIABLES MUST BE EXPORTED,
804	# BECAUSE THEY MAY BE REQUIRED IN OTHER SCRIPTS CALLED
805	# BY MRUN (E.G. subjob)
806	export $var
807	fi
808
809
810
811
812	elif [[ "$(echo $zeile \| cut -c1-3)" = "EC:" ]]
813	then
814
815	# LINE DEFINES ERROR-COMMAND
816	(( iec = iec + 1 ))
817	zeile=$(echo $zeile \| cut -c4-)
818	err_command[$iec]="$zeile"
819
820	elif [[ "$(echo $zeile \| cut -c1-3)" = "IC:" ]]
821	then
822
823	# LINE DEFINES INPUT-COMMAND
824	(( iic = iic + 1 ))
825	zeile=$(echo $zeile \| cut -c4-)
826	in_command[$iic]="$zeile"
827
828	elif [[ "$(echo $zeile \| cut -c1-3)" = "OC:" ]]
829	then
830
831	# LINE DEFINES OUTPUT-COMMAND
832	(( ioc = ioc + 1 ))
833	zeile=$(echo $zeile \| cut -c4-)
834	out_command[$ioc]="$zeile"
835
836	else
837
838	# LINE DEFINES FILE CONNECTION. READ THE FILE ATTRIBUTES.
839	# s2a: in/out - field
840	# s2b: loc - field (optional)
841	# s2c: tr/ar - field (optional)
842	s1=`echo $zeile \| cut -d" " -f1`
843	s2=`echo $zeile \| cut -d" " -s -f2`
844	s2a=$(echo $s2 \| cut -d":" -f1)
845	if [[ $(echo $s2 \| grep -c ":") = 0 ]]
846	then
847	s2b=""
848	s2c=""
849	else
850	s2b=`echo $s2 \| cut -d":" -f2 \| sed 's/:/ /g'`
851	s2c=`echo $s2 \| cut -d":" -s -f3 \| sed 's/:/ /g'`
852	fi
853	s3=`echo $zeile \| cut -d" " -f3`
854	s4=`echo $zeile \| cut -d" " -s -f4`
855	s5=`echo $zeile \| cut -d" " -s -f5`
856	s6=`echo $zeile \| cut -d" " -s -f6`
857
858
859	# STORE FILE CONNECTION, IF ACTIVATED BY ACTIVATION-STRING FROM
860	# INPUT- OR OUTPUT-LIST.
861	# VARIABLE S3 MAY CONTAIN A LIST OF ACTIVATION STRINGS (FIELD-SEPERATOR ":").
862	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MACHINE AND THE FILE IS ONLY
863	# LOCALLY REQUIRED ON THAT MACHINE (I.E. s2b = loc), THE FILE CONNECTION
864	# IS NOT CHECKED AND STORED.
865	IFSALT="$IFS"; IFS="$IFS:"
866	if [[ "$s2a" = in && ! ( $do_remote = true && ( "$s2b" = loc \|\| "$s2b" = locopt ) ) ]]
867	then
868	found=false
869	for actual in $input_list
870	do
871	for formal in $s3
872	do
873	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
874	done
875	done
876	if [[ $found = true ]]
877	then
878	(( iin = iin + 1 ))
879	localin[$iin]=$s1; transin[$iin]=$s2b; actionin[$iin]=$s2c;
880	typein[$iin]=$s3; pathin[$iin]=$s4; endin[$iin]=$s5;
881	extin[$iin]=$s6
882	fi
883	elif [[ "$s2a" = out && ! ( $do_remote = true && "$s2b" = loc ) ]]
884	then
885	found=false
886	for actual in $output_list
887	do
888	for formal in $s3
889	do
890	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
891	done
892	done
893	if [[ $found = true ]]
894	then
895	(( iout = iout + 1 ))
896	localout[$iout]=$s1; actionout[$iout]=$s2c; typeout[$iout]=$s3;
897	pathout[$iout]=$s4; endout[$iout]=$s5; extout[$iout]=$s6
898	fi
899	elif [[ "$s2a" != in && "$s2a" != out ]]
900	then
901	printf "\n +++ I/O-attribute in configuration file $config_file has the invalid"
902	printf "\n value \"$s2\". Only \"in\" and \"out\" are allowed!"
903	locat=connect; exit
904	fi
905	IFS="$IFSALT"
906	fi
907	done < $config_file
908
909	else
910
911	# EVALUATE THE CONFIGURATION-FILE BY FORTRAN-PROGRAM
912	[[ $silent = false ]] && printf "..."
913	interpreted_config_file=.icf.$RANDOM
914
915
916
917	# PROVIDE VALUES OF ENVIRONMENT-VARIABLE FOR interpret_config VIA NAMELIST-FILE
918	cat > .mrun_environment << EOF
919	&mrun_environment cond1 = '$cond1', cond2 = '$cond2',
920	config_file = '$config_file', do_remote = '$do_remote',
921	do_trace = '$do_trace', host = '$host',
922	input_list = '$input_list', icf = '$interpreted_config_file',
923	localhost = '$localhost', output_list = '$output_list' /
924
925	EOF
926
927	if [[ "$host" != $localhost ]]
928	then
929
930	# REMOTE JOB FROM LOCAL HOST: JUST TAKE THE FIRST EXECUTABLE FOUND
931	interpret_config_executable=`ls -1 ${PALM_BIN}/interpret_config*.x 2>/dev/null`
932	if [[ $? != 0 ]]
933	then
934	printf "\n\n +++ no interpret_config found"
935	printf "\n run \"mbuild -u -h ...\" to generate utilities for this host"
936	locat=interpret_config; exit
937	fi
938	interpret_config_executable=`echo $interpret_config_executable \| cut -d" " -f1`
939	$interpret_config_executable
940
941	else
942
943	# CHECK, IF THERE IS AN EXECUTABLE FOR THE BLOCK
944	if [[ ! -f ${PALM_BIN}/interpret_config${block}.x ]]
945	then
946	printf "\n\n +++ no interpret_config found for given block \"$cond1 $cond2\""
947	printf "\n run \"mbuild -u -h ...\" to generate utilities for this block"
948	locat=interpret_config; exit
949	else
950	interpret_config${block}.x
951	fi
952
953	fi
954	rm .mrun_environment
955
956
957	# EXECUTE SHELL-COMMANDS GENERATED BY interpret_config WITHIN THIS SHELL
958	chmod u+x $interpreted_config_file
959	export PATH=$PATH:.
960	. $interpreted_config_file
961	rm $interpreted_config_file
962
963	fi
964
965
966	# VALUES OF MRUN-OPTIONS OVERWRITE THOSE FROM THE CONFIGURATION-FILE
967	[[ $mrun_memory != 0 ]] && memory=$mrun_memory
968	[[ "$mrun_group_number" != "none" ]] && group_number=$mrun_group_number
969	[[ $mrun_cpumax != 0 ]] && cpumax=$mrun_cpumax
970	[[ "$mrun_numprocs" != "" ]] && numprocs=$mrun_numprocs
971	[[ "$max_par_io_str" != "" ]] && maximum_parallel_io_streams=$max_par_io_str
972	[[ "$mrun_tasks_per_node" != "" ]] && tasks_per_node=$mrun_tasks_per_node
973
974
975	# ON THE LOCAL MACHINE, DETERMINE (FROM THE CONFIGURATION-FILE) THE PATH
976	# FOR SOURCE-FILES TO BE COMPILED.
977	# IN A BATCH-JOB, SOURCES (ROUTINES TO BE COMPILED) ARE COMPLETE ALREADY.
978	# BEFORE MRUN IS CALLED IN THE JOB, SOURCES_COMPLETE = true IS ASSIGNED (SEE FURTHER BELOW).
979	if [[ "$SOURCES_COMPLETE" = "" ]]
980	then
981
982	# FIRST CHECK, IF A GLOBAL SOURCE PATH (TO BE USED FOR ALL HOSTS)
983	# HAS BEEN DEFINED
984	source_path=""
985	line=""
986	grep "%source_path" $config_file > tmp_mrun
987	while read line
988	do
989	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
990	then
991	if [[ "$(echo $line \| cut -d" " -f3)" = "" ]]
992	then
993	global_source_path=`echo $line \| cut -d" " -f2`
994	fi
995	fi
996	done < tmp_mrun
997
998	line=""
999	found=false
1000	grep " $localhost" $config_file \| grep "%source_path" > tmp_mrun
1001	while read line
1002	do
1003	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
1004	then
1005	if [[ $found = true ]]
1006	then
1007	printf "\n\n +++ more than one source path found in configuration file"
1008	printf "\n for local host \"$localhost\" "
1009	locat=source_path; exit
1010	fi
1011	source_path=`echo $line \| cut -d" " -f2`
1012	found=true
1013	fi
1014	done < tmp_mrun
1015	rm tmp_mrun
1016
1017	if [[ "$source_path" = "" ]]
1018	then
1019	if [[ "$global_source_path" != "" ]]
1020	then
1021	source_path=$global_source_path
1022	else
1023	printf "\n\n +++ no source path found in configuration file"
1024	printf "\n for local host \"$localhost\" "
1025	locat=source_path; exit
1026	fi
1027	fi
1028	eval source_path=$source_path
1029
1030	if [[ ! -d $source_path ]]
1031	then
1032	printf "\n\n +++ source path \"$source_path\" on local host"
1033	printf "\n \"$localhost\" does not exist"
1034	locat=source_path; exit
1035	fi
1036
1037	fi
1038
1039
1040	# GET THE GLOBAL REVISION-NUMBER OF THE SVN-REPOSITORY
1041	# (HANDED OVER TO RESTART-RUNS USING OPTION -G)
1042	if [[ "$global_revision" = "" && $host != "ibmkisti" ]]
1043	then
1044	global_revision=`svnversion $source_path 2>/dev/null`
1045	global_revision="Rev: $global_revision"
1046	fi
1047
1048
1049	# ??? das darf doch eigentlich garnicht passieren, weil optionen config-datei uebersteuern ???
1050	# CHECK AGAIN, IF EXECUTION SHALL BE DONE ON A REMOTE-HOST (BATCH-JOB).
1051	# (HOST MAY HAVE CHANGED DUE TO SETTINGS IN THE CONFIGURATION-FILE)
1052	if [[ -n $host && "$host" != $localhost ]]
1053	then
1054	do_batch=true
1055	do_remote=true
1056	case $host in
1057	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lceddy\|lckyoto\|lcocean\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
1058	(*) printf "\n"
1059	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
1060	printf "\n is not available"
1061	locat=nqs; (( iec = 0 )); exit;;
1062	esac
1063	else
1064	host=$localhost
1065	fi
1066
1067
1068
1069	# IN CASE OF PARALLEL EXECUTION, CHECK SOME SPECIFICATIONS CONCERNING PROCESSOR NUMBERS
1070	if [[ "$cond1" = parallel \|\| "$cond2" = parallel ]]
1071	then
1072
1073	# CHECK, IF NUMBER OF CORES TO BE USED HAS BEEN GIVEN
1074	if [[ ! -n $numprocs ]]
1075	then
1076	printf "\n"
1077	printf "\n +++ option \"-K parallel\" requires additional specification"
1078	printf "\n of the number of processors to be used by"
1079	printf "\n mrun-option \"-X\" or by environment-variable"
1080	printf "\n \"numprocs\" in the configuration file"
1081	locat=numprocs; (( iec = 0 )); exit
1082	fi
1083
1084	# CHECK, IF THE NUMBER OF CORES PER NODE HAS BEEN GIVEN UND IF IT IS AN
1085	# INTEGRAL DIVISOR OF THE TOTAL NUMBER OF CORES GIVEN BY OPTION -X
1086	if [[ "$tasks_per_node" = "" && $host != lcxt5m ]]
1087	then
1088	printf "\n"
1089	printf "\n +++ option \"-T\" (tasks per node) is missing"
1090	printf "\n set -T option or define tasks_per_node in the config file"
1091	locat=tasks_per_node; (( iec = 0 )); exit
1092	fi
1093
1094	if (( numprocs < tasks_per_node ))
1095	then
1096	printf "\n"
1097	printf "\n +++ tasks per node (-T) cannot exceed total number of processors (-X)"
1098	printf "\n given values: -T $tasks_per_node -X $numprocs"
1099	locat=tasks_per_node; (( iec = 0 )); exit
1100	fi
1101
1102	if [[ $host != lcxt5m ]]
1103	then
1104	(( nodes = numprocs / ( tasks_per_node * threads_per_task ) ))
1105	(( ival = $tasks_per_node ))
1106	(( pes = numprocs ))
1107	(( ii = pes / ival ))
1108	(( remaining_pes = pes - ii * ival ))
1109	if (( remaining_pes > 0 ))
1110	then
1111	printf "\n"
1112	printf "\n +++ WARNING: tasks per node (option \"-T\") is not an integral"
1113	printf "\n divisor of the total number of processors (option \"-X\")"
1114	printf "\n values of this mrun-call: \"-T $tasks_per_node\" \"-X $numprocs\""
1115	printf "\n One of the nodes is filled with $remaining_pes instead of $tasks_per_node tasks"
1116	(( nodes = nodes + 1 ))
1117	fi
1118	fi
1119
1120
1121	# SETTINGS FOR SUBJOB-COMMAND
1122	OOPT="-O $threads_per_task"
1123
1124	# SET THE TOTAL NUMBER OF NODES, REQUIRED FOR THE SUBJOB-COMMAND (SEE FURTHER BELOW)
1125	if [[ "$tasks_per_node" != "" ]]
1126	then
1127	TOPT="-T $tasks_per_node"
1128	fi
1129
1130	# CHECK node_usage FOR ALLOWED VALUES AND SET DEFAULT VALUE, IF NECESSARY
1131	if [[ $node_usage = default ]]
1132	then
1133	if [[ $host = ibms ]]
1134	then
1135	node_usage=shared
1136	else
1137	node_usage=not_shared
1138	fi
1139	fi
1140
1141	if [[ $node_usage != shared && $node_usage != not_shared && $node_usage != singlejob && "$(echo $node_usage \| cut -c1-3)" != "sla" ]]
1142	then
1143	printf "\n"
1144	printf "\n +++ node usage (option \"-n\") is only allowed to be set"
1145	printf "\n \"shared\" or \"not_shared\""
1146	locat=tasks_per_node; (( iec = 0 )); exit
1147	fi
1148
1149	fi
1150
1151	# CHECK IF HOSTFILE EXISTS
1152	if [[ -n $hostfile ]]
1153	then
1154	if [[ ! -f $hostfile ]]
1155	then
1156	printf "\n"
1157	printf "\n +++ hostfile \"$hostfile\" does not exist"
1158	locat=hostfile; exit
1159	fi
1160	fi
1161
1162
1163	# SET DEFAULT VALUE FOR THE MAXIMUM NUMBER OF PARALLEL IO STREAMS
1164	if [[ "$maximum_parallel_io_streams" = "" ]]
1165	then
1166	maximum_parallel_io_streams=$numprocs
1167	fi
1168
1169
1170	# SET PORT NUMBER OPTION FOR CALLS OF SSH/SCP, subjob AND batch_scp SCRIPTS
1171	if [[ "$scp_port" != "" ]]
1172	then
1173	PORTOPT="-P $scp_port"
1174	SSH_PORTOPT="-p $scp_port"
1175	fi
1176
1177
1178	# DETERMINE THE SSH-OPTION IN CASE THAT AN SSH-KEY IS EXPLICITLY GIVEN IN THE
1179	# CONFIG-FILE
1180	if [[ "$ssh_key" != "" ]]
1181	then
1182	ssh_key="-i $HOME/.ssh/$ssh_key"
1183	fi
1184
1185
1186	# SET DEFAULT-QUEUE, IF NOT GIVEN
1187	if [[ $queue = none ]]
1188	then
1189	case $host in
1190	(ibmh) queue=cluster;;
1191	(ibmkisti) queue=class.32plus;;
1192	(lcbullhh) queue=compute;;
1193	(lccrayb) queue=mpp1q;;
1194	(lccrayh) queue=mpp1q;;
1195	(lckiaps) queue=normal;;
1196	(lckyoto) queue=ph;;
1197	(lckyuh) queue=fx-single;;
1198	(lckyut) queue=cx-single;;
1199	(lctit) queue=S;;
1200	(unics) queue=unics;;
1201	esac
1202	fi
1203
1204
1205	# GENERATE FULL FILENAMES OF INPUT-FILES, INCLUDING THEIR PATH
1206	# CHECK, IF INPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST)
1207	(( i = 0 ))
1208	while (( i < iin ))
1209	do
1210	(( i = i + 1 ))
1211	(( maxcycle = 0 ))
1212
1213	# GENERATE PATH AND FULL FILE NAME (then-BRANCH: FIXED FULL NAME IS GIVEN, I.E. THE
1214	# FILE IDENTIFIER IS NOT PART OF THE FILENAME))
1215	if [[ "${actionin[$i]}" = di ]]
1216	then
1217	remotepathin[$i]=${pathin[$i]}/${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
1218	# HOST ONLY
1219	eval filename=${pathin[$i]}/${endin[$i]}
1220	else
1221	remotepathin[$i]=${pathin[$i]}/${afname}${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
1222	# HOST ONLY
1223	eval filename=${pathin[$i]}/${afname}${endin[$i]}
1224	fi
1225	eval pathname=${pathin[$i]}
1226
1227	# CHECK IF FILE EXISTS
1228	if ! ls $filename* 1>/dev/null 2>&1
1229	then
1230
1231	# FILES WITH ATTRIBUTE locopt ARE OPTIONAL. NO ABORT, IF THEY DO NOT EXIST.
1232	if [[ "${transin[$i]}" != "locopt" ]]
1233	then
1234	printf "\n\n +++ INPUT-file: "
1235	if [[ "${extin[$i]}" = "" \|\| "${extin[$i]}" = " " ]]
1236	then
1237	printf "\n $filename"
1238	else
1239	printf "\n $filename.${extin[$i]}"
1240	fi
1241	printf "\n does not exist\n"
1242	locat=input; exit
1243	else
1244	transin[$i]="unavailable"
1245	fi
1246	else
1247
1248	# DETERMINE THE FILE'S CYCLE NUMBER
1249	ls -1 -d $filename > filelist 2>/dev/null
1250	ls -1 -d $filename.* >> filelist 2>/dev/null
1251	while read zeile
1252	do
1253	# filename without path (i.e. after the last "/")
1254	basefilename=$(basename ${zeile})
1255
1256	# check if there is an extension
1257	extension=${basefilename##*.}
1258	if [[ "$extension" = "$extin[$i]" ]]
1259	then
1260	basefilename=${basefilename&.*}
1261	fi
1262
1263	# check for an existing cycle number
1264	cycle=${basefilename##*.}
1265	if [[ $cycle =~ ^-?[0-9]+$ ]]
1266	then
1267	(( icycle = $cycle ))
1268	else
1269	(( icycle = 0 ))
1270	fi
1271
1272	if (( icycle > maxcycle ))
1273	then
1274	(( maxcycle = icycle ))
1275	fi
1276
1277	# cycle=$(echo $zeile \| cut -f2 -d".")
1278	# if [[ "$cycle" = "$zeile" ]]
1279	# then
1280	# (( icycle = 0 ))
1281	# elif [[ "$cycle" = "${extin[$i]}" ]]
1282	# then
1283	# (( icycle = 0 ))
1284	# else
1285	# (( icycle = $cycle ))
1286	# fi
1287	# if (( icycle > maxcycle ))
1288	# then
1289	# (( maxcycle = icycle ))
1290	# fi
1291	done <filelist
1292	rm filelist
1293
1294	# APPEND CYCLE NUMBER TO FILENAME
1295	if (( maxcycle > 0 ))
1296	then
1297	if [[ "${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	# IS LATER USED FOR TRANSFERRING FILES WIHIN THE JOB (SEE END OF FILE)
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	echo "### filename = $filename"
1377	else
1378	printf "\n\n +++ OUTPUT-file:"
1379	printf "\n $filename"
1380	printf "\n cannot be created, because directory does not exist"
1381	printf "\n and cannot be created either"
1382	printf "\n"
1383	locat=output ; exit
1384	fi 2>/dev/null
1385	else
1386	printf "\n\n +++ OUTPUT-file:"
1387	printf "\n $filename"
1388	printf "\n cannot be created, although directory exists"
1389	printf "\n"
1390	locat=output ; exit
1391	fi
1392	fi 2>/dev/null
1393	else
1394
1395	# DETERMINE THE CYCLE NUMBER
1396	ls -1 -d $filename > filelist 2>/dev/null
1397	ls -1 -d $filename.* >> filelist 2>/dev/null
1398	while read zeile
1399	do
1400
1401	# filename without path (i.e. after the last "/")
1402	basefilename=$(basename ${zeile})
1403
1404	# check if there is an extension
1405	extension=${basefilename##*.}
1406	if [[ "$extension" = "$extin[$i]" ]]
1407	then
1408	basefilename=${basefilename&.*}
1409	fi
1410
1411	# check for an existing cycle number
1412	cycle=${basefilename##*.}
1413	if [[ $cycle =~ ^-?[0-9]+$ ]]
1414	then
1415	(( icycle = $cycle + 1 ))
1416	else
1417	(( icycle = 1 ))
1418	fi
1419
1420	if (( icycle > maxcycle ))
1421	then
1422	(( maxcycle = icycle ))
1423	fi
1424
1425	# cycle=$(echo $zeile \| cut -f2 -d".")
1426	# if [[ "$cycle" = "$zeile" \|\| "$cycle" = ${extout[$i]} ]]
1427	# then
1428	# (( icycle = 1 ))
1429	# else
1430	# (( icycle = $cycle + 1 ))
1431	# fi
1432	# if (( icycle > maxcycle ))
1433	# then
1434	# (( maxcycle = icycle ))
1435	# fi
1436	done <filelist
1437	rm filelist
1438	fi
1439
1440	# APPEND CYCLE NUMBER TO FILENAME AND CHECK, IF FILE CAN BE CREATED
1441	# IN CASE OF FILE-APPEND, FILE MUST BE APPENDED TO THE ONE WITH HIGHEST CYCLE NUMBER
1442	if [[ "${actionout[$i]}" != a ]]
1443	then
1444	if (( maxcycle > 0 ))
1445	then
1446	filename_tmp=${filename}.$maxcycle
1447	if cat /dev/null > $filename_tmp
1448	then
1449	rm $filename_tmp
1450	else
1451	printf "\n +++ OUTPUT-file:"
1452	printf "\n $filename_tmp"
1453	printf "\n cannot be created"
1454	locat=output ; exit
1455	fi
1456	fi
1457	else
1458	(( maxcycle = maxcycle - 1 ))
1459	fi
1460
1461	(( cycnum[$i] = maxcycle ))
1462	pathout[$i]=$filename
1463
1464	fi
1465	done
1466
1467
1468	# THE DVR-PACKAGE REQUIRES ITS OWN LIBRARY
1469	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
1470	then
1471	if [[ "$dvr_inc" = "" ]]
1472	then
1473	printf "\n\n +++ no value for \"dvr_inc\" given in configuration file"
1474	printf "\n This is required for the dvrp_graphics package.\n"
1475	locat=dvr; exit
1476	fi
1477	if [[ "$dvr_lib" = "" ]]
1478	then
1479	printf "\n\n +++ no value for \"dvr_lib\" given in configuration file"
1480	printf "\n This is required for the dvrp_graphics package.\n"
1481	locat=dvr; exit
1482	fi
1483	fi
1484
1485
1486	# CHECK, WETHER A MAIN PROGRAM OR AN EXECUTABLE HAVE BEEN DECLARED.
1487	# EXECUTABLES DO NOT NEED TO BE COMPILED.
1488	if [[ "$mainprog" = "" && "$executable" = "" ]]
1489	then
1490	printf "\n +++ neither main program nor executable defined"
1491	locat=source; exit
1492	elif [[ "$mainprog" != "" && "$executable" != "" ]]
1493	then
1494	printf "\n +++ main program as well as executable defined"
1495	locat=source; exit
1496	elif [[ "$mainprog" = "" && "$executable" != "" ]]
1497	then
1498	do_compile=false
1499	fi
1500
1501
1502	# CREATE SOURCE-DIRECTORY TO COLLECT ROUTINES TO BE COMPILED.
1503	# LATER THE MRUN-SCRIPT AND CONFIGURATION-FILE WILL ALSO BE COPIED TO THIS DIRECTORY.
1504	if [[ $restart_run != true && "$SOURCES_COMPLETE" = "" ]]
1505	then
1506	rm -rf SOURCES_FOR_RUN_$fname
1507	mkdir SOURCES_FOR_RUN_$fname
1508	fi
1509
1510
1511	# COLLECT ALL ROUTINES TO BE COMPILED
1512	# THIS IS NOT REQUIRED WITHIN BATCH-JOBS, BECAUSE ROUTINES HAVE ALREADY BEEN COLLECTED
1513	# BY THE MRUN-CALL WHICH CREATED THE BATCH-JOB.
1514	if [[ $do_compile = true && "$SOURCES_COMPLETE" = "" ]]
1515	then
1516
1517	[[ "$source_list" = LM ]] && source_list=LOCALLY_MODIFIED
1518
1519	if [[ "$source_list" = LOCALLY_MODIFIED ]]
1520	then
1521
1522	# DETERMINE MODIFIED FILES OF THE SVN WORKING COPY
1523	source_list=""
1524	cd $source_path
1525
1526
1527	# CHECK, IF DIRECTORY IS UNDER SVN CONTROL
1528	if [[ ! -d .svn ]]
1529	then
1530	printf "\n\n +++ source directory"
1531	printf "\n \"$source_path\" "
1532	printf "\n is not under control of \"subversion\"."
1533	printf "\n Please do not use mrun-option \"-s LOCALLY_MODIFIED\"\n"
1534	fi
1535
1536
1537	# LIST ALL MODIFIED SOURCE CODE FILES
1538	Filenames=""
1539	svn status > tmp_mrun
1540	while read line
1541	do
1542	firstc=`echo $line \| cut -c1`
1543	if [[ $firstc = M \|\| $firstc = "?" ]]
1544	then
1545	Name=`echo "$line" \| cut -c8-`
1546	extension=`echo $Name \| cut -d. -f2`
1547	if [[ "$extension" = f90 \|\| "$extension" = F90 \|\| "$extension" = f \|\| "$extension" = F \|\| "$extension" = c ]]
1548	then
1549	Filenames="$Filenames "$Name
1550	fi
1551	fi
1552	done < tmp_mrun
1553
1554
1555	# COPY FILES TO SOURCES_FOR_RUN_...
1556	for dateiname in $Filenames
1557	do
1558	cp $dateiname $working_directory/SOURCES_FOR_RUN_$fname
1559	source_list=$source_list"$dateiname "
1560	done
1561
1562	cd - > /dev/null
1563
1564
1565	# COPY FILES GIVEN BY OPTION -s TO DIRECTORY SOURCES_FOR_RUN_...
1566	# AUTOMATIC RESTART RUNS JUST ACCESS THE DIRECTORY CREATED BY THE INITIAL RUN
1567	elif [[ "$source_list" != "" && $restart_run != true ]]
1568	then
1569
1570	cd $source_path
1571
1572	for filename in $source_list
1573	do
1574
1575	# SOURCE CODE FILE IS NOT ALLOWED TO INCLUDE PATH
1576	if [[ $(echo $filename \| grep -c "/") != 0 ]]
1577	then
1578	printf "\n +++ source code file: $filename"
1579	printf "\n must not contain (\"/\") "
1580	locat=source; exit
1581	fi
1582
1583	if [[ ! -f $filename ]]
1584	then
1585	printf "\n +++ source code file: $filename"
1586	printf "\n does not exist"
1587	locat=source; exit
1588	else
1589	cp $filename $working_directory/SOURCES_FOR_RUN_$fname
1590	fi
1591
1592	done
1593
1594	cd - > /dev/null
1595
1596	fi
1597
1598
1599	# CHECK, IF A MAIN PROGRAM EXISTS AND IF IT IS PART OF THE LIST OF FILES
1600	# TO BE COMPILED. IF NOT, ADD IT TO THE LIST.
1601	if [[ $restart_run != true ]]
1602	then
1603
1604	if [[ ! -f "$source_path/$mainprog" ]]
1605	then
1606	printf "\n\n +++ main program: $mainprog"
1607	printf "\n does not exist in source directory"
1608	printf "\n \"$source_path\"\n"
1609	locat=source; exit
1610	else
1611	if [[ $(echo $source_list \| grep -c $mainprog) = 0 ]]
1612	then
1613	cp $source_path/$mainprog SOURCES_FOR_RUN_$fname
1614	source_list=${mainprog}" $source_list"
1615	fi
1616	fi
1617	fi
1618
1619
1620	# CHECK, IF MAKEFILE EXISTS AND COPY IT TO THE SOURCES_FOR_RUN... DIRECTORY
1621	# NOT REQUIRED FOR RESTART RUNS, SOURCES_FOR_RUN... HAS BEEN CREATED BY THE INITIAL RUN
1622	if [[ "$restart_run" != true ]]
1623	then
1624	[[ "$makefile" = "" ]] && makefile=$source_path/Makefile
1625	if [[ ! -f $makefile ]]
1626	then
1627	printf "\n +++ file \"$makefile\" does not exist"
1628	locat=make; exit
1629	else
1630	cp $makefile SOURCES_FOR_RUN_$fname/Makefile
1631	fi
1632	fi
1633
1634
1635	# COPY FILES FROM OPTIONAL SOURCE PATH GIVEN IN THE CONFIGURATION FILE
1636	if [[ $restart_run != true && "$add_source_path" != "" ]]
1637	then
1638
1639	# DOES THE DIRECTORY EXIST?
1640	if [[ ! -d $add_source_path ]]
1641	then
1642	printf "\n\n *** INFORMATIVE: additional source code directory"
1643	printf "\n \"$add_source_path\" "
1644	printf "\n does not exist or is not a directory."
1645	printf "\n No source code will be used from this directory!\n"
1646	add_source_path=""
1647	if [[ $silent == false ]]
1648	then
1649	sleep 3
1650	fi
1651	else
1652
1653	cd $add_source_path
1654	found=false
1655
1656	Names=$(ls -1 *.f90 2>&1)
1657	[[ $(echo $Names \| grep -c '*.f90') = 0 ]] && AddFilenames="$Names"
1658	Names=$(ls -1 *.F90 2>&1)
1659	[[ $(echo $Names \| grep -c '*.F90') = 0 ]] && AddFilenames="$AddFilenames $Names"
1660	Names=$(ls -1 *.F 2>&1)
1661	[[ $(echo $Names \| grep -c '*.F') = 0 ]] && AddFilenames="$AddFilenames $Names"
1662	Names=$(ls -1 *.f 2>&1)
1663	[[ $(echo $Names \| grep -c '*.f') = 0 ]] && AddFilenames="$AddFilenames $Names"
1664	Names=$(ls -1 *.c 2>&1)
1665	[[ $(echo $Names \| grep -c '*.c') = 0 ]] && AddFilenames="$AddFilenames $Names"
1666
1667	cd - > /dev/null
1668	cd SOURCES_FOR_RUN_$fname
1669
1670	# COPY MAKEFILE IF EXISTING
1671	if [[ -f $add_source_path/Makefile ]]
1672	then
1673	printf "\n\n *** user Makefile from directory"
1674	printf "\n \"$add_source_path\" is used \n"
1675	if [[ $silent == false ]]
1676	then
1677	sleep 1
1678	fi
1679	cp $add_source_path/Makefile .
1680	fi
1681
1682	for dateiname in $AddFilenames
1683	do
1684	if [[ -f $dateiname ]]
1685	then
1686	printf "\n +++ source code file \"$dateiname\" found in additional"
1687	printf "\n source code directory \"$add_source_path\" "
1688	printf "\n but was also given with option \"-s\" which means that it should be taken"
1689	printf "\n from directory \"$source_path\"."
1690	locat=source; exit
1691	fi
1692
1693	cp $add_source_path/$dateiname .
1694	source_list="$source_list $dateiname"
1695
1696	# CHECK IF FILE IS CONTAINED IN MAKEFILE
1697	if [[ $(grep -c $dateiname Makefile) = 0 ]]
1698	then
1699	printf "\n\n +++ user file \"$dateiname\" "
1700	printf "\n is not listed in Makefile \n"
1701	locat=source; exit
1702	else
1703
1704	if [[ $found = false ]]
1705	then
1706	found=true
1707	printf "\n\n *** following user file(s) added to the"
1708	printf " files to be translated:\n "
1709	fi
1710	printf "$dateiname "
1711	if [[ $silent == false ]]
1712	then
1713	sleep 0.5
1714	fi
1715
1716	fi
1717	done
1718	[[ $found = true ]] && printf "\n"
1719	cd - > /dev/null
1720	fi
1721	fi
1722
1723
1724	# ADD ALL ROUTINES BELONGING TO SOFTWARE PACKAGES (GIVEN BY OPTION -p)
1725	# TO THE LIST OF FILES TO BE COMPILED
1726	if [[ $restart_run != true && -n $package_list ]]
1727	then
1728
1729	cd $source_path
1730
1731	for package in $package_list
1732	do
1733
1734	[[ $package = "dvrp_graphics+1PE" ]] && package=dvrp_graphics
1735
1736	# DETERMINE FILES BELONGING TO THE PACKAGE
1737	# ERROR MESSAGE ARE REDIRECTED TO /dev/null, BECAUSE WILDCARD (*) ALSO GIVES
1738	# THE NAME OF THE DIRECTORY
1739	package_source_list=`grep "defined( __$package " * 2>/dev/null \| cut -f1 -d:`
1740
1741
1742	# ADD THESE FILES TO THE LIST OF FILES TO BE COMPILED,
1743	# IF THEY ARE NOT ALREADY PART OF THE LIST
1744	for source_list_name in $package_source_list
1745	do
1746	if [[ $(echo $source_list \| grep -c $source_list_name) = 0 ]]
1747	then
1748
1749	# ONLY TAKE FILES WITH VALID SUFFIX
1750	ending=`echo $source_list_name \| cut -f2 -d.`
1751	if [[ "$ending" = f90 \|\| "$ending" = F90 \|\| "$ending" = f \|\| "$ending" = F \|\| "$ending" = c ]]
1752	then
1753	cp $source_list_name $working_directory/SOURCES_FOR_RUN_$fname
1754	source_list="$source_list $source_list_name"
1755	fi
1756	fi
1757	done
1758	done
1759
1760	cd - > /dev/null
1761	fi
1762
1763	fi # do_compile=true
1764
1765
1766	# IF SOURCE CODE IS TO BE COMPILED, DO SOME MORE CHECKS
1767	# AND SET PRE-PROCESSOR DIRECTIVES
1768	if [[ $do_compile = true \|\| $create_executable_for_batch = true ]]
1769	then
1770
1771	# SET PREPROCESSOR-DIRECTIVES TO SELECT OPERATING SYSTEM SPECIFIC CODE
1772	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1773	then
1774	cpp_options="${cpp_options},-D__ibm=__ibm"
1775	elif [[ $(echo $localhost \| cut -c1-3) = nec ]]
1776	then
1777	cpp_options="$cpp_options -D__nec"
1778	elif [[ $(echo $localhost \| cut -c1-2) = lc ]]
1779	then
1780	cpp_options="$cpp_options -D__lc"
1781	else
1782	cpp_options="$cpp_options -D__$localhost"
1783	fi
1784
1785	# SET DIRECTIVES GIVEN BY OPTION -K (E.G. parallel)
1786	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1787	then
1788	[[ -n $cond1 ]] && cpp_options="${cpp_options},-D__$cond1=__$cond1"
1789	[[ -n $cond2 ]] && cpp_options="${cpp_options},-D__$cond2=__$cond2"
1790	else
1791	[[ -n $cond1 ]] && cpp_options="$cpp_options -D__$cond1"
1792	[[ -n $cond2 ]] && cpp_options="$cpp_options -D__$cond2"
1793	fi
1794
1795	# SET DIRECTIVES FOR ACTIVATING SOFTWARE-PACKAGES (OPTION -p)
1796	if [[ -n $package_list ]]
1797	then
1798	for package in $package_list
1799	do
1800	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1801	then
1802	if [[ $package != "dvrp_graphics+1PE" ]]
1803	then
1804	cpp_options="${cpp_options},-D__$package=__$package"
1805	else
1806	cpp_options="${cpp_options},-D__dvrp_graphics=__dvrp_graphics"
1807	export use_seperate_pe_for_dvrp_output=true
1808	fi
1809	else
1810	if [[ $package != "dvrp_graphics+1PE" ]]
1811	then
1812	cpp_options="$cpp_options -D__$package"
1813	else
1814	cpp_options="$cpp_options -D__dvrp_graphics"
1815	export use_seperate_pe_for_dvrp_output=true
1816	fi
1817	fi
1818	done
1819	fi
1820
1821	# SET DIRECTIVES GIVEN BY OPTION -D
1822	if [[ -n $cpp_opts ]]
1823	then
1824	for popts in $cpp_opts
1825	do
1826	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1827	then
1828	cpp_options="${cpp_options},-D__$popts=__$popts"
1829	else
1830	cpp_options="$cpp_options -D__$popts"
1831	fi
1832	done
1833	fi
1834
1835	else
1836
1837
1838	# FOR LOCAL RUNS CHECK AGAIN, IF EXECUTABLE EXISTS
1839	if [[ $do_remote = false ]]
1840	then
1841	if [[ ! -f $executable ]]
1842	then
1843	printf "\n +++ executable file: $executable"
1844	printf "\n does not exist"
1845	locat=executable; exit
1846	fi
1847	fi
1848	fi
1849
1850
1851	# DETERMINE THE JOB MODE
1852	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1853	then
1854	if [[ "$LOADLBATCH" = yes ]]
1855	then
1856	batch_job=.TRUE.
1857	jobmo=BATCH
1858	else
1859	batch_job=.FALSE.
1860	jobmo=INTERACTIVE
1861	fi
1862	else
1863	if [[ "$ENVIRONMENT" = BATCH \|\| "$PJM_ENVIRONMENT" = BATCH ]]
1864	then
1865	batch_job=.TRUE.
1866	jobmo=BATCH
1867	else
1868	batch_job=.FALSE.
1869	jobmo=INTERACTIVE
1870	fi
1871	fi
1872
1873	# NO INTERACTIVE RUNS ALLOWED ON LCTIT
1874	if [[ $host = lctit && $jobmo = INTERACTIVE && $do_batch = false ]]
1875	then
1876	printf "\n +++ no interactive runs allowed on host \"$host\" "
1877	printf "\n please submit batch job using mrun option \"-b\" \n"
1878	locat=normal; exit
1879	fi
1880
1881
1882	# CHECK, IF USER DEFINED A COMPILER
1883	if [[ "$compiler_name" = "" ]]
1884	then
1885
1886	printf "\n +++ no compiler specified for \"$host $cond1 $cond2\""
1887	locat=compiler_name; exit
1888
1889	fi
1890
1891
1892	# DETERMINE THE NAME OF MRUN'S TEMPORARY WORKING DIRECTORY
1893
1894	# ON HLRN-III, USE THE QUEUING NAME. OTHERWISE USE USERNAME AND RANDOM NUMBER
1895	if [[ $do_batch = false && $(echo $host \| cut -c1-6) = lccray ]]
1896	then
1897	kennung=$(checkjob $PBS_JOBID \| grep Reservation \| cut -d" " -s -f2 \| cut -d"." -s -f2 \| sed "s/['\"]//g")
1898	if [[ "$kennung" = "" ]]
1899	then
1900	kennung=$RANDOM
1901	fi
1902	else
1903	kennung=$RANDOM
1904	fi
1905
1906	if [[ "$tmp_user_catalog" = "" ]]
1907	then
1908	if [[ $localhost = ibmh ]]
1909	then
1910	tmp_user_catalog=$SCRATCH
1911	else
1912	tmp_user_catalog=/tmp
1913	fi
1914	fi
1915	TEMPDIR=$tmp_user_catalog/${usern}.$kennung
1916
1917
1918	# DETERMINE THE NAME OF THE DIRECTORY WHICH IS USED TO TEMPORARILY STORE DATA FOR RESTART RUNS
1919	if [[ "$tmp_data_catalog" = "" ]]
1920	then
1921	tmp_data_catalog=/tmp/mrun_restart_data
1922	fi
1923
1924
1925	# IN CASE OF LOCAL RUNS REPLACE ENVIRONMENT VARIABLES BY THEIR VALUES
1926	if [[ $do_remote = false && $do_compile = true \|\| $create_executable_for_batch = true ]]
1927	then
1928	eval fopts=\"$fopts\"
1929	eval lopts=\"$lopts\"
1930	fi
1931
1932
1933	# DETERMINE COMPILE- AND LINK-OPTIONS
1934	fopts="$fopts $netcdf_inc $fftw_inc $dvr_inc"
1935	lopts="$lopts $netcdf_lib $fftw_lib $dvr_lib"
1936	XOPT="-X $numprocs"
1937
1938
1939	# CHECK THE CPU-LIMIT. IT MUST BE GIVEN FOR BATCH-JOBS AND IS COMMUNICATED TO THE
1940	# EXECUTABLE VIA NAMELIST-PARAMETER cputime
1941	done=false
1942	while [[ $done = false ]]
1943	do
1944	cputime=$cpumax
1945	if (( $cputime == 0 ))
1946	then
1947	if [[ $do_batch = true ]]
1948	then
1949	printf "\n +++ cpu-time is undefined"
1950	printf "\n >>> Please type CPU-time in seconds as INTEGER:"
1951	printf "\n >>> "
1952	read cputime 1>/dev/null 2>&1
1953	else
1954	cputime=10000000 # NO CPU LIMIT FOR INTERACTIVE RUNS
1955	fi
1956	else
1957	done=true
1958	fi
1959	cpumax=$cputime
1960	done
1961
1962	(( minuten = cputime / 60 ))
1963	(( sekunden = cputime - minuten * 60 ))
1964
1965
1966	# CHECK THE MEMORY DEMAND
1967	if [[ $do_batch = true ]]
1968	then
1969	done=false
1970	while [[ $done = false ]]
1971	do
1972	if (( memory == 0 ))
1973	then
1974	printf "\n +++ memory demand is undefined"
1975	printf "\n >>> Please type memory in MByte per process as INTEGER:"
1976	printf "\n >>> "
1977	read memory 1>/dev/null 2>&1
1978	else
1979	done=true
1980	fi
1981	done
1982	fi
1983
1984
1985	# IN CASE OF REMOTE-JOBS CHECK, IF A USERNAME FOR THE REMOTE HOST IS GIVEN
1986	if [[ $do_remote = true && -z $remote_username ]]
1987	then
1988	while [[ -z $remote_username ]]
1989	do
1990	printf "\n +++ username on remote host \"$host\" is undefined"
1991	printf "\n >>> Please type username:"
1992	printf "\n >>> "
1993	read remote_username
1994	done
1995	mc="$mc -u$remote_username"
1996	fi
1997
1998	# CHECK FOR INITIAL COMMANDS AFTER LOGIN
1999	if [[ "$login_init_cmd" != "" ]]
2000	then
2001	export init_cmds="${login_init_cmd};"
2002	fi
2003
2004
2005	# SET THE MODULE-LOAD COMMAD AND EXPORT IT FOR subjob
2006	if [[ "$modules" != "" ]]
2007	then
2008	if [[ $host = lctit ]]
2009	then
2010	export module_calls=". $modules"
2011	else
2012	export module_calls="module load ${modules};"
2013	fi
2014	fi
2015
2016	# OUTPUT OF THE MRUN-HEADER
2017	calltime=$(date)
2018	printf "\n"
2019	printf "#------------------------------------------------------------------------# \n"
2020	printf "\| %-35s%35s \| \n" "$version" "$calltime"
2021	printf "\| \| \n"
2022	spalte1="called on:"; spalte2=$localhost_realname
2023	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2024	if [[ $do_remote = true ]]
2025	then
2026	spalte1="execution on:"; spalte2="$host (username: $remote_username)"
2027	else
2028	spalte1="execution on:"; spalte2="$host ($localhost_realname)"
2029	fi
2030	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2031	if [[ -n $numprocs ]]
2032	then
2033	if [[ $run_coupled_model = false ]]
2034	then
2035	spalte1="number of PEs:"; spalte2=$numprocs
2036	else
2037	spalte1="number of PEs:"; spalte2="$numprocs (atmosphere: $numprocs_atmos, ocean: $numprocs_ocean)"
2038	fi
2039	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2040	fi
2041	if [[ -n $tasks_per_node ]]
2042	then
2043	spalte1="tasks per node:"; spalte2="$tasks_per_node (number of nodes: $nodes)"
2044	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2045	if (( remaining_pes > 0 ))
2046	then
2047	spalte1=" "; spalte2="one of the nodes only filled with $remaining_pes tasks"
2048	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2049	fi
2050	fi
2051	if [[ $maximum_parallel_io_streams != $numprocs ]]
2052	then
2053	spalte1="max par io streams:"; spalte2="$maximum_parallel_io_streams"
2054	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2055	fi
2056	if [[ $use_openmp = true ]]
2057	then
2058	spalte1="threads per task:"; spalte2="$threads_per_task"
2059	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2060	fi
2061	printf "\| \| \n"
2062	if [[ $do_compile = true ]]
2063	then
2064	if [[ "$mopts" != "" ]]
2065	then
2066	spalte1="make options:"; spalte2=$(echo "$mopts" \| cut -c-45)
2067	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2068	zeile=$(echo "$mopts" \| cut -c46-)
2069	while [[ "$zeile" != "" ]]
2070	do
2071	spalte1=""
2072	spalte2=$(echo "$zeile" \| cut -c-45)
2073	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2074	zeile=$(echo "$zeile" \| cut -c46-)
2075	done
2076	fi
2077
2078	spalte1="cpp directives:"; spalte2=$(echo "$cpp_options" \| cut -c-45)
2079	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2080	zeile=$(echo "$cpp_options" \| cut -c46-)
2081	while [[ "$zeile" != "" ]]
2082	do
2083	spalte1=""
2084	spalte2=$(echo "$zeile" \| cut -c-45)
2085	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2086	zeile=$(echo "$zeile" \| cut -c46-)
2087	done
2088
2089	spalte1="compiler options:"; spalte2=$(echo "$fopts" \| cut -c-45)
2090	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2091	zeile=$(echo "$fopts" \| cut -c46-)
2092	while [[ "$zeile" != "" ]]
2093	do
2094	spalte1=""
2095	spalte2=$(echo "$zeile" \| cut -c-45)
2096	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2097	zeile=$(echo "$zeile" \| cut -c46-)
2098	done
2099
2100	spalte1="linker options:"; spalte2=$(echo "$lopts" \| cut -c-45)
2101	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2102	zeile=$(echo "$lopts" \| cut -c46-)
2103	while [[ "$zeile" != "" ]]
2104	do
2105	spalte1=""
2106	spalte2=$(echo "$zeile" \| cut -c-45)
2107	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2108	zeile=$(echo "$zeile" \| cut -c46-)
2109	done
2110
2111	spalte1="modules to be load:"; spalte2=$(echo "$modules" \| cut -c-45)
2112	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2113	zeile=$(echo "$modules" \| cut -c46-)
2114	while [[ "$zeile" != "" ]]
2115	do
2116	spalte1=""
2117	spalte2=$(echo "$zeile" \| cut -c-45)
2118	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2119	zeile=$(echo "$zeile" \| cut -c46-)
2120	done
2121
2122	spalte1="main program:"; spalte2=$mainprog
2123	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2124	else
2125	spalte1=executable:; spalte2=$executable
2126	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2127	fi
2128	printf "\| \| \n"
2129	spalte1="base name of files:"; spalte2=$fname
2130	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2131	if [[ $fname != $afname ]]
2132	then
2133	spalte1="base name of input files:"; spalte2=$afname
2134	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2135	fi
2136	spalte1="INPUT control list:"; spalte2=$(echo $input_list)
2137	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2138	spalte1="OUTPUT control list:"; spalte2=$(echo $output_list)
2139	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2140
2141	if [[ "$ocean_file_appendix" = true ]]
2142	then
2143	printf "\| %-35s%-35s \| \n" "suffix \"_O\" is added to local files" " "
2144	fi
2145
2146	if [[ $do_batch = true \|\| "$LOADLBATCH" = yes ]]
2147	then
2148	spalte1="memory demand / PE":; spalte2="$memory MB"
2149	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2150	spalte1=CPU-time:; spalte2="$minuten:$sekunden"
2151	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2152	fi
2153
2154	if [[ $do_compile = true ]]
2155	then
2156	printf "\| \| \n"
2157	printf "\| Files to be compiled: \| \n"
2158	zeile=$source_list
2159	while [[ "$zeile" != "" ]]
2160	do
2161	linestart=$(echo $zeile \| cut -c-70)
2162	printf "\| %-70s \| \n" "$linestart"
2163	zeile=$(echo "$zeile" \| cut -c71-)
2164	done
2165	fi
2166	printf "#------------------------------------------------------------------------#"
2167
2168
2169
2170	# OUTPUT OF FILE CONNECTIONS IN CASE OF TRACEBACK
2171	if [[ $do_trace = true ]]
2172	then
2173	(( i = 0 ))
2174	while (( i < iin ))
2175	do
2176	(( i = i + 1 ))
2177	if (( i == 1 ))
2178	then
2179	printf "\n\n >>> INPUT-file assignments:\n"
2180	fi
2181	printf "\n ${localin[$i]} : ${absnamein[$i]}"
2182	done
2183	(( i = 0 ))
2184	while (( i < iout ))
2185	do
2186	(( i = i + 1 ))
2187	if (( i == 1 ))
2188	then
2189	printf "\n\n >>> OUTPUT-file assignments:\n"
2190	fi
2191	printf "\n ${localout[$i]} : ${pathout[$i]}"
2192	done
2193	(( i = 0 ))
2194	while (( i < iic ))
2195	do
2196	(( i = i + 1 ))
2197	if (( i == 1 ))
2198	then
2199	printf "\n\n >>> INPUT-commands:\n"
2200	fi
2201	printf "\n ${in_command[$i]}"
2202	done
2203	(( i = 0 ))
2204	while (( i < ioc ))
2205	do
2206	(( i = i + 1 ))
2207	if (( i == 1 ))
2208	then
2209	printf "\n\n >>> OUTPUT-commands:\n"
2210	fi
2211	printf "\n ${out_command[$i]}"
2212	done
2213	fi
2214
2215	# QUERY FOR CONTINUE (ON LOCAL MACHINES ONLY)
2216	if [[ $remotecall = false && $silent = false && $jobmo != BATCH ]]
2217	then
2218	antwort=dummy
2219	printf "\n\n"
2220	printf " >>> everything o.k. (y/n) ? "
2221	while read antwort
2222	do
2223	if [[ "$antwort" != y && "$antwort" != Y && "$antwort" != n && "$antwort" != N ]]
2224	then
2225	printf " >>> everything o.k. (y/n) ? "
2226	else
2227	break
2228	fi
2229	done
2230	if [[ $antwort = n \|\| $antwort = N ]]
2231	then
2232	locat=user_abort; (( iec = 0 )); exit
2233	fi
2234	if [[ $do_batch = true ]]
2235	then
2236	printf " >>> batch-job will be created and submitted"
2237	else
2238	printf " >>> MRUN will now continue to execute on this machine"
2239	fi
2240	fi
2241
2242
2243	# DETERMINE PATH FOR MAKE DEPOSITORY
2244	if [[ $do_batch = false \|\| $create_executable_for_batch = true ]]
2245	then
2246
2247	line=""
2248	grep "%depository_path" $config_file > tmp_mrun
2249	while read line
2250	do
2251	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
2252	then
2253	if [[ "$(echo $line \| cut -d" " -s -f3)" = "" ]]
2254	then
2255	global_depository_path=`echo $line \| cut -d" " -s -f2`
2256	fi
2257	fi
2258	done < tmp_mrun
2259
2260	line=""
2261	grep " $localhost" $config_file \| grep "%depository_path" > tmp_mrun
2262	while read line
2263	do
2264	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
2265	then
2266	if [[ "$(echo $line \| cut -d" " -s -f4)" = "$cond1" && "$(echo $line \| cut -d" " -s -f5)" = "$cond2" ]]
2267	then
2268	local_depository_path=`echo $line \| cut -d" " -s -f2`
2269	fi
2270	fi
2271	done < tmp_mrun
2272
2273	if [[ "$local_depository_path" = "" ]]
2274	then
2275	if [[ "$global_depository_path" != "" ]]
2276	then
2277	local_depository_path=$global_depository_path
2278	else
2279	printf "\n\n +++ no depository path found in configuration file"
2280	printf "\n for local host \"$localhost\" "
2281	printf "\n please set \"\%depository_path\" in configuration file\n"
2282	locat=config_file; exit
2283	fi
2284	fi
2285	eval local_depository_path=$local_depository_path
2286	[[ "$cond1" != "" ]] && local_depository_path=${local_depository_path}_$cond1
2287	[[ "$cond2" != "" ]] && local_depository_path=${local_depository_path}_$cond2
2288
2289
2290	basename=`echo $mainprog \| cut -f1 -d"."`
2291	eval make_depository=${local_depository_path}/${basename}_current_version.tar
2292	if [[ ! -f $make_depository ]]
2293	then
2294	printf "\n"
2295	printf "\n *** WARNING: make depository \"$make_depository\" not found"
2296	printf "\n \"make\" will fail, if the Makefile or other source files are missing\n"
2297	fi
2298
2299	fi
2300
2301
2302	# NOW PERFORM THOSE ACTIONS REQUIRED TO EXECUTE THE PROGRAM (PALM) ON THIS MACHINE
2303	# (COMPILING/LINKING, EXECUTING, COPYING I/O FILES)
2304	if [[ $do_batch = false ]]
2305	then
2306
2307
2308	# CREATE THE TEMPORARY WORKING DIRECTORY
2309	mkdir -p $TEMPDIR
2310	chmod go+rx $TEMPDIR
2311	tmpcreate=true
2312
2313
2314	# COPY EITHER THE COMPLETE SOURCE CODE FILES TO BE COMPILED OR THE EXECUTABLE
2315	# INTO THE TEMPORARY WORKING DIRECTORY
2316	if [[ $do_compile = true ]]
2317	then
2318
2319	TEMPDIR_COMPILE=$TEMPDIR
2320
2321	cp $make_depository $TEMPDIR_COMPILE
2322	cd $TEMPDIR_COMPILE
2323	tar -xf $make_depository > /dev/null 2>&1
2324	cd - > /dev/null
2325
2326	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
2327	# FILES ON CRAY XC30 SYSTEMS (HLRN III), rsync IS USED INSTEAD
2328	if [[ $(echo $host \| cut -c1-6) = lccray ]]
2329	then
2330	rsync -av -t SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
2331	else
2332	cp SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
2333	fi
2334
2335	else
2336
2337	cp $executable ${TEMPDIR}/a.out
2338
2339	fi
2340
2341
2342	# CHANGE TO THE TEMPORARY WORKING DIRECTORY
2343	cd $TEMPDIR
2344	printf "\n *** changed to temporary directory: $TEMPDIR"
2345
2346
2347	# IF REQUIRED, START WITH COMPILING
2348	if [[ $do_compile = true ]]
2349	then
2350
2351
2352	if [[ -f a.out ]]
2353	then
2354
2355	# EXECUTABLE WAS CREATED DURING INTERACTIVE CALL OF MRUN
2356	printf "\n\n\n *** executable a.out found"
2357	printf "\n no compilation required \n"
2358
2359	else
2360
2361	# COMPILING WITH MAKE (ON NEC COMPILER IS CALLED ON HOST CROSS)
2362	printf "\n\n\n *** compilation starts \n$dashes\n"
2363	printf " *** compilation with make using following options:\n"
2364	printf " make depository: $make_depository"
2365	if [[ "$mopts" != "" ]]
2366	then
2367	printf " make options: $mopts\n"
2368	fi
2369	printf " compilername: $compiler_name\n"
2370	printf " compiler options: $fopts\n"
2371	printf " preprocessor directives: $cpp_options \n"
2372	printf " linker options: $lopts \n"
2373	if [[ "$modules" != "" ]]
2374	then
2375	printf " modules to be load: $modules \n"
2376	fi
2377	printf " source code files: $source_list \n"
2378
2379	if [[ $localhost = ibmh ]]
2380	then
2381	printf " compiler is called via ssh on \"plogin1\" \n"
2382	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\" "
2383	[[ ! -f a.out ]] && compile_error=true
2384	continue # STATUS=1, IF a.out EXISTS
2385	elif [[ $localhost = lcocean ]]
2386	then
2387	printf " compiler is called via ssh on \"ocean\" \n"
2388	echo $PWD
2389	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\" "
2390	[[ ! -f a.out ]] && compile_error=true
2391	continue # STATUS=1, IF a.out EXISTS
2392	elif [[ $localhost = lcbullhh \|\| $localhost = lccrayb \|\| $localhost = lccrayf \|\| $localhost = lccrayh ]]
2393	then
2394	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2395	elif [[ $localhost = lceddy ]]
2396	then
2397	which mpifc
2398	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2399	else
2400	[[ "$init_cmds" != "" ]] && eval $init_cmds
2401	[[ "$module_calls" != "" ]] && eval $module_calls
2402	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2403	fi
2404
2405	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
2406	then
2407	printf "\n +++ error occured while compiling or linking"
2408	locat=compile
2409
2410	exit
2411	else
2412	printf "$dashes\n *** compilation finished \n"
2413	fi
2414
2415	fi
2416
2417	fi
2418
2419
2420	# PROVIDE THE INPUT FILES
2421	# LOOP OVER ALL ACTIVATED FILES (LISTED IN THE CONFIGURATION FILE)
2422	(( i = 0 ))
2423	while (( i < iin ))
2424	do
2425	(( i = i + 1 ))
2426	if (( i == 1 ))
2427	then
2428	printf "\n\n *** providing INPUT-files:\n$dashes"
2429	fi
2430
2431
2432	# SKIP OPTIONAL FILES, IF THEY DO NOT EXIST
2433	if [[ "${transin[$i]}" = unavailable ]]
2434	then
2435	if [[ "${extin[$i]}" = "" \|\| "${extin[$i]}" = " " ]]
2436	then
2437	printf "\n *** INFORMATIVE: input file \"${pathin[$i]}/${afname}${endin[$i]}\" "
2438	printf "\n is not available!"
2439	else
2440	printf "\n *** INFORMATIVE: input file \"${pathin[$i]}/${afname}${endin[$i]}.${extin[$i]}\" "
2441	printf "\n is not available!"
2442	fi
2443	continue
2444	fi
2445
2446	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
2447	files_for_pes=false; datentyp=file
2448	if [[ "${actionin[$i]}" = pe && -n $numprocs ]]
2449	then
2450	files_for_pes=true; datentyp=files
2451	actionin[$i]=""
2452	elif [[ "${actionin[$i]}" = pe && ! -n $numprocs ]]
2453	then
2454	actionin[$i]=""
2455	elif [[ "${actionin[$i]}" = lnpe && -n $numprocs ]]
2456	then
2457	files_for_pes=true; datentyp=files
2458	actionin[$i]="ln"
2459	elif [[ "${actionin[$i]}" = lnpe && ! -n $numprocs ]]
2460	then
2461	actionin[$i]="ln"
2462	fi
2463
2464	if [[ $files_for_pes = true ]]
2465	then
2466	printf "\n >>> INPUT: ${absnamein[$i]}/.... to ${localin[$i]}"
2467	else
2468	printf "\n >>> INPUT: ${absnamein[$i]} to ${localin[$i]}"
2469	fi
2470
2471	# INPUT-FILES TO BE LINKED
2472	if [[ "${actionin[$i]}" = ln ]]
2473	then
2474
2475	printf "\n $datentyp will be linked"
2476	if [[ $files_for_pes = false ]]
2477	then
2478	if [[ -f "${absnamein[$i]}" ]]
2479	then
2480	ln ${absnamein[$i]} ${localin[$i]}
2481	got_tmp[$i]=true
2482	fi
2483	else
2484	if [[ -d "${absnamein[$i]}" ]]
2485	then
2486	mkdir ${localin[$i]}
2487	cd ${absnamein[$i]}
2488	for file in $(ls *)
2489	do
2490	ln $file $TEMPDIR/${localin[$i]}
2491	done >\|/dev/null 2>&1
2492	cd $TEMPDIR
2493	fi
2494
2495	# IF "ln -f" HAS FAILED DO A NORMAL COPY "cp -r"
2496	if [[ ! -f "${localin[$i]}/_000000" ]]
2497	then
2498	printf "\n --- WARNING: ln failed, using cp instead (might be time consuming...)"
2499	cp -r ${absnamein[$i]}/* ${localin[$i]}
2500	fi
2501
2502	got_tmp[$i]=true
2503	fi
2504	fi
2505
2506	# FILE IS STORED IN THE RESPECTIVE DIRECTORY GIVEN IN THE CONFIGURATION FILE
2507	if [[ "${actionin[$i]}" = "" \|\| "${actionin[$i]}" = "di" \|\| "${actionin[$i]}" = "npe" ]]
2508	then
2509
2510	if [[ "${actionin[$i]}" = "npe" && -n $numprocs ]]
2511	then
2512
2513	# FILE COPIES ARE PROVIDED FOR ALL CORES
2514	# EACH FILE GETS A UNIQUE FILENAME WITH A FOUR DIGIT NUMBER
2515	printf "\n file will be provided for $numprocs processors"
2516	mkdir ${localin[$i]}
2517	ival=$numprocs
2518	(( ii = 0 ))
2519	while (( ii <= ival-1 ))
2520	do
2521	if (( ii < 10 ))
2522	then
2523	cp ${absnamein[$i]} ${localin[$i]}/_000$ii
2524	elif (( ii < 100 ))
2525	then
2526	cp ${absnamein[$i]} ${localin[$i]}/_00$ii
2527	elif (( ii < 1000 ))
2528	then
2529	cp ${absnamein[$i]} ${localin[$i]}/_0$ii
2530	else
2531	cp ${absnamein[$i]} ${localin[$i]}/_$ii
2532	fi
2533	(( ii = ii + 1 ))
2534	done
2535
2536	else
2537
2538	if [[ $files_for_pes = true ]]
2539	then
2540
2541	# PROVIDE FILES FOR EACH CORE
2542	# FIRST CREATE THE LOCAL DIRECTORY, THEN COPY FILES
2543	# FROM THE PERMANENT DIRECTORY BY LINKING THEM TO THE LOCAL ONE
2544	printf "\n providing $numprocs files for the respective processors"
2545	mkdir ${localin[$i]}
2546	if [[ $link_local_input = true ]]
2547	then
2548	printf " files will be linked\n"
2549	cd ${absnamein[$i]}
2550	for file in $(ls *)
2551	do
2552	ln -f $file ${localin[$i]}
2553	done
2554	cd $TEMPDIR
2555	fi
2556
2557	# IF "ln -f" FAILED OR IF "$link_local_input = false" DO A NORMAL "cp -r"
2558	if [[ ! -f "${localin[$i]}/_000000" ]]
2559	then
2560	if [[ $link_local_input = true ]]
2561	then
2562	printf "\n --- WARNING: ln failed, using cp instead (might be time consuming...)"
2563	fi
2564	cp -r ${absnamein[$i]}/* ${localin[$i]}
2565	fi
2566
2567	else
2568
2569	# PROVIDE FILE FOR RUNS ON A SINGLE CORE
2570	if [[ $link_local_input = true ]]
2571	then
2572	printf " file will be linked\n"
2573	ln -f ${absnamein[$i]} ${localin[$i]}
2574	fi
2575	# If "ln -f" fails of if "$link_local_input = false" do a normal "cp"
2576	if [[ ! -f "${localin[$i]}" ]]
2577	then
2578	if [[ $link_local_input = true ]]
2579	then
2580	printf "\n --- WARNING: ln failed, using cp instead (might be time consuming...)"
2581	fi
2582	cp ${absnamein[$i]} ${localin[$i]}
2583	fi
2584	fi
2585	fi
2586	fi
2587
2588	done
2589	if (( i != 0 ))
2590	then
2591	printf "\n$dashes\n *** all INPUT-files provided \n"
2592	fi
2593
2594
2595	# EXECUTE INPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
2596	(( i = 0 ))
2597	while (( i < iic ))
2598	do
2599	(( i = i + 1 ))
2600	if (( i == 1 ))
2601	then
2602	printf "\n\n *** execution of INPUT-commands:\n$dashes"
2603	fi
2604	printf "\n >>> ${in_command[$i]}"
2605	eval ${in_command[$i]}
2606	if (( i == iic ))
2607	then
2608	printf "\n$dashes\n"
2609	fi
2610	done
2611
2612
2613	# SET THE REMAINING CPU-TIME
2614	cpurest=${cpumax}.
2615
2616
2617	# START DVR STREAMING SERVER
2618	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
2619	then
2620	if [[ "$dvr_server" != "" ]]
2621	then
2622
2623	printf "\n\n *** preparing the dvr streaming server configuration file"
2624
2625	# CHECK, IF A DVR SERVER IS ALREADY RUNNING
2626	running_dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config \| grep -v grep) \| cut -d" " -f2`
2627	if [[ "$running_dvrserver_id" != "" ]]
2628	then
2629
2630	printf "\n\n +++ WARNING: A dvr server with id=$running_dvrserver_id is already running!"
2631	printf "\n This server is used instead starting a new one!"
2632	printf "\n If required, script \"process_dvr_output\" has to be run manually."
2633
2634	else
2635
2636	# COPY CONFIGURATION FILE FOR STREAMING SERVER FROM REPOSITORY TO HERE
2637	if [[ -f ${PALM_BIN}/.dvrserver.config ]]
2638	then
2639	cp ${PALM_BIN}/.dvrserver.config .
2640
2641	# ENTERING THE BASEDIR, UID AND GID INTO THIS FILE
2642	user_id=`id -u`
2643	group_id=`id -g`
2644
2645	# "&" IS REQUIRED AS A SEPERATOR, BECAUSE TEMPDIR CONTAINS "/"
2646	sed "s&<replace by dvr data directory>&${TEMPDIR}&g" .dvrserver.config > .dvrserver.1
2647	sed "s/<replace by user id>/$user_id/g" .dvrserver.1 > .dvrserver.2
2648	sed "s/<replace by group id>/$group_id/g" .dvrserver.2 > .dvrserver.3
2649	mv .dvrserver.3 .dvrserver.config
2650	rm .dvrserver.1 .dvrserver.2
2651
2652	# START DVR SERVER IN BACKGROUND, GET HIS ID AND PRINT ON TERMINAL
2653	$dvr_server .dvrserver.config >> DVR_LOGFILE 2>&1 &
2654	dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config) \| cut -d" " -f2`
2655	printf "\n *** streaming server with id=$dvrserver_id is started in background"
2656	local_dvrserver_running=.TRUE.
2657	else
2658	printf "\n +++ missing file \".dvrserver.config\" in directory:"
2659	printf "\n \"$PALM_BIN\" "
2660	locat=dvr
2661	exit
2662	fi
2663
2664	fi
2665
2666	else
2667	printf "\n\n --- INFORMATIVE: no dvr streaming server will be started"
2668	fi
2669	fi
2670
2671
2672	# CREATE THE NAMELIST-FILE WITH VALUES OF ENVIRONMENT-VARIABLES REQUIRED BY PALM
2673	# (FILE ENVPAR WILL BE READ BY PALM)
2674	cat > ENVPAR << EOF
2675	&envpar run_identifier = '$fname', host = '$localhost',
2676	write_binary = '$write_binary', tasks_per_node = $tasks_per_node,
2677	maximum_parallel_io_streams = $maximum_parallel_io_streams,
2678	maximum_cpu_time_allowed = ${cpumax}.,
2679	revision = '$global_revision',
2680	local_dvrserver_running = $local_dvrserver_running,
2681	batch_job = $batch_job /
2682
2683	EOF
2684
2685
2686	# STARTING THE EXECUTABLE
2687	printf "\n\n *** execution starts in directory\n \"`pwd`\"\n$dashes\n"
2688	PATH=$PATH:$TEMPDIR
2689
2690
2691	if [[ $execute_command != "none" ]]
2692	then
2693
2694	printf "\n +++ branch still not realized"
2695	locat=execution
2696	exit
2697
2698	else
2699
2700	# MPI DEBUG OPTION (ARGUMENT CHECKING, SLOWS DOWN EXECUTION DUE TO INCREASED LATENCY)
2701	if [[ "$mpi_debug" = true ]]
2702	then
2703	export MPI_CHECK_ARGS=1
2704	printf "\n +++ MPI_CHECK_ARGS=$MPI_CHECK_ARGS"
2705	fi
2706
2707	if [[ "$totalview" = true ]]
2708	then
2709	printf "\n *** totalview debugger will be used"
2710	tv_opt="-tv"
2711	else
2712	tv_opt=""
2713	fi
2714
2715	if [[ "$cond1" = debug \|\| "$cond2" = debug ]]
2716	then
2717
2718	#Interactive ALLINEA DEBUG seesion
2719	if [[ "$ENVIRONMENT" != BATCH ]]
2720	then
2721	if [[ $host = lccrayb \|\| $host = lccrayh ]]
2722	then
2723	if [[ "$allinea" = true ]]
2724	then
2725	echo "--- aprun -n $ii -N $tasks_per_node a.out < runfile_atmos"
2726
2727	ddt aprun -n $ii -N $tasks_per_node a.out
2728	wait
2729	fi
2730	fi
2731	fi
2732
2733	if [[ $localhost = ibmh ]]
2734	then
2735
2736	# SETUP THE IBM MPI ENVIRONMENT
2737	export MP_SHARED_MEMORY=yes
2738	export AIXTHREADS_SCOPE=S
2739	export OMP_NUM_THREADS=$threads_per_task
2740	export AUTHSTATE=files
2741	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
2742
2743	# FOLLOWING OPTIONS ARE MANDATORY FOR TOTALVIEW
2744	export MP_ADAPTER_USE=shared
2745	export MP_CPU_USE=multiple
2746	export MP_TIMEOUT=1200
2747
2748	unset MP_TASK_AFFINITY
2749
2750	if [[ "$LOADLBATCH" = yes ]]
2751	then
2752	totalview poe a.out
2753	else
2754	echo totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1
2755	export TVDSVRLAUNCHCMD=ssh
2756	totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1
2757	fi
2758
2759	fi # END DEBUG MODE
2760
2761	else
2762
2763	# NORMAL EXECUTION
2764	if [[ -n $numprocs ]]
2765	then
2766
2767	# RUNNING THE PROGRAM ON PARALLEL MACHINES
2768	if [[ $(echo $host \| cut -c1-3) = ibm ]]
2769	then
2770
2771	# SETUP THE IBM MPI ENVIRONMENT
2772	if [[ $host != ibmh && $host != ibmkisti ]]
2773	then
2774	export MP_SHARED_MEMORY=yes
2775	export AIXTHREAD_SCOPE=S
2776	export OMP_NUM_THREADS=$threads_per_task
2777	export XLSMPOPTS="spins=0:yields=0:stack=20000000"
2778	export AUTHSTATE=files
2779	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
2780	# export MP_PRINTENV=yes
2781
2782	# TUNING-VARIABLES TO IMPROVE COMMUNICATION SPEED
2783	# DO NOT SHOW SIGNIFICANT EFFECTS (SEP 04, FEDERATION-SWITCH)
2784	export MP_WAIT_MODE=poll
2785	[[ $node_usage = not_shared ]] && export MP_SINGLE_THREAD=yes
2786	fi
2787
2788	if [[ $host = ibmkisti ]]
2789	then
2790	export LANG=en_US
2791	export MP_SHARED_MEMORY=yes
2792	if [[ $threads_per_task = 1 ]]
2793	then
2794	export MP_SINGLE_THREAD=yes
2795	export MEMORY_AFFINITY=MCM
2796	else
2797	export OMP_NUM_THREADS=$threads_per_task
2798	fi
2799	fi
2800
2801	if [[ "$LOADLBATCH" = yes ]]
2802	then
2803	printf "\n--- Control: OMP_NUM_THREADS = \"$OMP_NUM_THREADS\" \n"
2804	if [[ "$cond1" = hpmcount \|\| "$cond2" = hpmcount ]]
2805	then
2806	/opt/optibm/HPM_2_4_1/bin/hpmcount a.out
2807	else
2808	if [[ $run_coupled_model = false ]]
2809	then
2810	if [[ "$ocean_file_appendix" = true ]]
2811	then
2812	echo "precursor_ocean" > runfile_atmos
2813	else
2814	echo "precursor_atmos" > runfile_atmos
2815	fi
2816	else
2817	(( iia = $numprocs_atmos / $threads_per_task ))
2818	(( iio = $numprocs_ocean / $threads_per_task ))
2819	printf "\n coupled run ($iia atmosphere, $iio ocean)"
2820	printf "\n using $coupled_mode coupling"
2821	printf "\n\n"
2822	echo "coupled_run $iia $iio" > runfile_atmos
2823	fi
2824	poe ./a.out < runfile_atmos
2825	fi
2826	else
2827	if [[ $localhost = ibmh \|\| $localhost = ibms ]]
2828	then
2829	poe a.out -procs $numprocs -nodes 1 -rmpool 0
2830	elif [[ $localhost = ibmkisti \|\| $localhost = ibmku ]]
2831	then
2832	if [[ -f $hostfile ]]
2833	then
2834	cp $hostfile hostfile
2835	else
2836	(( ii = 1 ))
2837	while (( ii <= $numprocs ))
2838	do
2839	echo $localhost_realname >> hostfile
2840	(( ii = ii + 1 ))
2841	done
2842	fi
2843	export MP_HOSTFILE=hostfile
2844	if [[ $run_coupled_model = false ]]
2845	then
2846	if [[ "$ocean_file_appendix" = true ]]
2847	then
2848	echo "precursor_ocean" > runfile_atmos
2849	else
2850	echo "precursor_atmos" > runfile_atmos
2851	fi
2852	else
2853	(( iia = $numprocs_atmos / $threads_per_task ))
2854	(( iio = $numprocs_ocean / $threads_per_task ))
2855	printf "\n coupled run ($iia atmosphere, $iio ocean)"
2856	printf "\n using $coupled_mode coupling"
2857	printf "\n\n"
2858	echo "coupled_run $iia $iio" > runfile_atmos
2859	fi
2860
2861	poe ./a.out -procs $numprocs < runfile_atmos
2862
2863	else
2864	if [[ "$host_file" = "" ]]
2865	then
2866	printf "\n +++ no hostfile given in configuration file"
2867	locat=config_file
2868	exit
2869	else
2870	eval host_file=$host_file
2871	fi
2872	export MP_HOSTFILE=$host_file
2873	poe a.out -procs $numprocs -tasks_per_node $numprocs
2874	fi
2875	fi
2876
2877	elif [[ $(echo $host \| cut -c1-2) = lc && $host != lckyoto && $host != lctit ]]
2878	then
2879
2880	# COPY HOSTFILE FROM SOURCE DIRECTORY OR CREATE IT, IF IT
2881	# DOES NOT EXIST
2882	if [[ $host != lcbullhh && $host != lccrayb && $host != lccrayf && $host != lccrayh && $host != lckyuh && $host != lckyut && $host != lcocean && $host != lceddy ]]
2883	then
2884	if [[ -f $hostfile ]]
2885	then
2886	cp $hostfile hostfile
2887	(( ii = $numprocs / $threads_per_task ))
2888	[[ $ii = 0 ]] && (( ii = 1 ))
2889	else
2890	(( ii = 1 ))
2891	while (( ii <= $numprocs / $threads_per_task ))
2892	do
2893	echo $localhost_realname >> hostfile
2894	(( ii = ii + 1 ))
2895	done
2896	if (( $numprocs / $threads_per_task == 0 ))
2897	then
2898	echo $localhost_realname >> hostfile
2899	fi
2900	fi
2901	eval zeile=\"`head -n $ii hostfile`\"
2902	printf "\n *** running on: $zeile"
2903	fi
2904
2905	(( ii = $numprocs / $threads_per_task ))
2906	[[ $ii = 0 ]] && (( ii = 1 ))
2907	export OMP_NUM_THREADS=$threads_per_task
2908
2909	if [[ $threads_per_task != 1 ]]
2910	then
2911	# INCREASE STACK SIZE TO UNLIMITED, BECAUSE OTHERWISE LARGE RUNS
2912	# MAY ABORT
2913	ulimit -s unlimited
2914	printf "\n threads per task: $threads_per_task stacksize: unlimited"
2915	fi
2916	if [[ $run_coupled_model = false ]]
2917	then
2918	if [[ "$ocean_file_appendix" = true ]]
2919	then
2920	echo "precursor_ocean" > runfile_atmos
2921	else
2922	echo "precursor_atmos" > runfile_atmos
2923	fi
2924	printf "\n\n"
2925
2926	if [[ $host = lccrayb \|\| $host = lccrayh ]]
2927	then
2928	echo "--- aprun -n $ii -N $tasks_per_node a.out < runfile_atmos"
2929	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
2930	elif [[ $host = lcbullhh ]]
2931	then
2932	export OMPI_MCA_pml=cm
2933	export OMPI_MCA_mtl=mxm
2934	export OMPI_MCA_coll=^ghc
2935	export OMPI_MCA_mtl_mxm_np=0
2936	export MXM_RDMA_PORTS=mlx5_0:1
2937	export MXM_LOG_LEVEL=ERROR
2938	export OMP_NUM_THREADS=$threads_per_task
2939	export KMP_AFFINITY=verbose,granularity=core,compact,1
2940	export KMP_STACKSIZE=64m
2941
2942	srun -n $ii --ntasks-per-node=$tasks_per_node ./a.out < runfile_atmos
2943
2944	elif [[ $host = lccrayf ]]
2945	then
2946	aprun -j1 -n $ii -N $tasks_per_node -m ${memory}M a.out < runfile_atmos
2947	elif [[ $host = lcxe6 \|\| $host = lcxt5m ]]
2948	then
2949	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
2950	elif [[ $host = lceddy ]]
2951	then
2952	echo $ii
2953	echo $tasks_per_node
2954	echo $nodes
2955	mpirun -n $ii a.out < runfile_atmos
2956	elif [[ $host = lcocean ]]
2957	then
2958	mpirun a.out $ROPTS < runfile_atmos
2959	elif [[ $host = lcsb ]]
2960	then
2961	mpirun_rsh -hostfile $PBS_NODEFILE -np `cat $PBS_NODEFILE \| wc -l` a.out < runfile_atmos
2962
2963	elif [[ $host = lckiaps ]]
2964	then
2965	mpirun -np $ii -machinefile $PBS_NODEFILE ./a.out < runfile_atmos
2966	elif [[ $host = lckyu* ]]
2967	then
2968	mpiexec -n $ii --stdin runfile_atmos ./a.out
2969	else
2970	mpiexec -machinefile hostfile -n $ii a.out < runfile_atmos
2971	fi
2972
2973	else
2974
2975	# CURRENTLY THERE IS NO FULL MPI-2 SUPPORT ON ICE AND XT4
2976	(( iia = $numprocs_atmos / $threads_per_task ))
2977	(( iio = $numprocs_ocean / $threads_per_task ))
2978	printf "\n coupled run ($iia atmosphere, $iio ocean)"
2979	printf "\n using $coupled_mode coupling"
2980	printf "\n\n"
2981
2982	if [[ $coupled_mode = "mpi2" ]]
2983	then
2984	echo "atmosphere_to_ocean $iia $iio" > runfile_atmos
2985	echo "ocean_to_atmosphere $iia $iio" > runfile_ocean
2986
2987	if [[ $host = lccrayf \|\| $host = lcxe6 \|\| $host = lcxt5m ]]
2988	then
2989
2990	aprun -n $iia -N $tasks_per_node a.out < runfile_atmos &
2991	aprun -n $iio -N $tasks_per_node a.out < runfile_ocean &
2992
2993	else
2994	# WORKAROUND BECAUSE mpiexec WITH -env option IS NOT AVAILABLE ON SOME SYSTEMS
2995	mpiexec -machinefile hostfile -n $iia a.out < runfile_atmos &
2996	mpiexec -machinefile hostfile -n $iio a.out < runfile_ocean &
2997	# mpiexec -machinefile hostfile -n $iia -env coupling_mode atmosphere_to_ocean a.out &
2998	# mpiexec -machinefile hostfile -n $iio -env coupling_mode ocean_to_atmosphere a.out &
2999	fi
3000	wait
3001
3002	else
3003
3004	echo "coupled_run $iia $iio" > runfile_atmos
3005
3006	if [[ $host = lccrayf \|\| $host = lcxe6 \|\| $host = lcxt5m ]]
3007	then
3008
3009	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
3010
3011	elif [[ $host = lck \|\| $host = lckordi ]]
3012	then
3013
3014	mpiexec -n $ii ./a.out < runfile_atmos &
3015
3016	elif [[ $host = lckyu* ]]
3017	then
3018
3019	mpiexec -n $ii --stdin runfile_atmos ./a.out
3020
3021	elif [[ $host = lcmuk ]]
3022	then
3023
3024	mpiexec -machinefile hostfile -n $ii a.out < runfile_atmos
3025
3026	fi
3027	wait
3028	fi
3029
3030	fi
3031
3032	elif [[ $host = lckyoto ]]
3033	then
3034	set -xv
3035	export P4_RSHCOMMAND=plesh
3036	echo " P4_RSHCOMMAND = $P4_RSHCOMMAND"
3037	if [[ "$ENVIRONMENT" = BATCH ]]
3038	then
3039	if [[ "$cond2" = fujitsu ]]
3040	then
3041	mpiexec -n $numprocs ./a.out # for fujitsu-compiler
3042	elif [[ "cond2" = pgi ]]
3043	then
3044	mpirun -np $numprocs -machinefile ${QSUB_NODEINF} ./a.out
3045	else
3046	mpirun_rsh -np $numprocs -hostfile ${QSUB_NODEINF} MV2_USE_SRQ=0 ./a.out \|\| /bin/true
3047	fi
3048	else
3049	if [[ "$cond2" = "" ]]
3050	then
3051	mpiruni_rsh -np $numprocs ./a.out # for intel
3052	else
3053	mpirun -np $numprocs ./a.out
3054	fi
3055	fi
3056	set +xv
3057
3058	elif [[ $host = lctit ]]
3059	then
3060	export OMP_NUM_THREADS=$threads_per_task
3061	echo "OMP_NUM_THREADS=$OMP_NUM_THREADS"
3062	if [[ "$threads_per_task" != 1 ]]
3063	then
3064	export MV2_ENABLE_AFFINITY=0
3065	fi
3066	echo "----- PBS_NODEFILE content:"
3067	cat $PBS_NODEFILE
3068	echo "-----"
3069	(( ii = $numprocs / $threads_per_task ))
3070	echo "mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out"
3071	mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out
3072
3073	else
3074	mpprun -n $numprocs a.out
3075	fi
3076	else
3077	a.out
3078	fi
3079
3080	fi # end normal (non-debug) execution
3081
3082	fi # end explicit execute_command or host-specific execute actions
3083
3084	if [[ $? != 0 ]]
3085	then
3086
3087	# ABORT IN CASE OF RUNTIME ERRORS
3088	printf "\n +++ runtime error occured"
3089	locat=execution
3090	exit
3091
3092	else
3093
3094	printf "\n$dashes\n *** execution finished \n"
3095
3096	# STOP THE DVR STREAMING SERVER AND PROCESS THE DVR OUTPUT IN ORDER
3097	# TO CREAT DVRS- AND HTML-FILES CONTAINING ALL STREAMS
3098	if [[ "$dvrserver_id" != "" ]]
3099	then
3100	kill $dvrserver_id
3101	printf "\n *** dvr server with id=$dvrserver_id has been stopped"
3102
3103	# IF THERE IS A DIRECTORY, DATA HAVE BEEN OUTPUT BY THE
3104	# STREAMING SERVER. OTHERWISE, USER HAS CHOSEN dvrp_output=local
3105	if [[ -d DATA_DVR ]]
3106	then
3107
3108	# ADD THE CURRENT DVR CONFIGURATION FILE TO THE DVR OUTPUT
3109	# DIRECTORY
3110	cp .dvrserver.config DATA_DVR
3111
3112	# PROCESS THE DVR OUTPUT (OPTION -s FOR GENERATING
3113	# SEQUENCE MODE DATA TOO)
3114	process_dvr_output -d DATA_DVR -f $fname -s
3115
3116	else
3117
3118	# PROCESS THE LOCAL OUTPUT
3119	process_dvr_output -l -d DATA_DVR -f $fname
3120
3121	fi
3122
3123	elif [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
3124	then
3125
3126	# PROCESS DVR OUTPUT GENERATD IN LOCAL MODE (dvrp_output=local)
3127	process_dvr_output -l -d DATA_DVR -f $fname
3128
3129	fi
3130	fi
3131
3132
3133
3134	# CALL OF combine_plot_fields IN ORDER TO MERGE SINGLE FILES WRITTEN
3135	# BY EACH CORE INTO ONE FILE
3136	if [[ ! -f ${PALM_BIN}/combine_plot_fields${block}.x ]]
3137	then
3138	printf "\n\n\n +++ WARNING: no combine_plot_fields found for given block \"$cond1 $cond2\""
3139	printf "\n 2d- and/or 3d-data may be incomplete!"
3140	printf "\n Run \"mbuild -u -h $localhost\" to generate utilities for this block.\n"
3141	elif [[ "$combine_plot_fields" == true ]]
3142	then
3143	if [[ $localhost = lccrayh \|\| $localhost = lccrayb ]]
3144	then
3145	printf "\n\n\n *** post-processing: now executing \"aprun -n 1 -N 1 combine_plot_fields${block}.x\" ..."
3146	aprun -n 1 -N 1 combine_plot_fields${block}.x
3147	else
3148	printf "\n\n\n *** post-processing: now executing \"combine_plot_fields${block}.x\" ..."
3149	combine_plot_fields${block}.x
3150	fi
3151	else
3152
3153	# TEMPORARY SOLUTION TO SKIP combine_plot_fields. THIS IS REQUIRED IN CASE OF HUGE AMOUNT OF
3154	# DATA OUTPUT. TO DO: EXTEND THIS BRANCH BY CREATING A BATCH JOB for combine_plot_fields.
3155	# ??? koennen wir das streichen ???
3156	printf "\n\n\n *** post-processing: skipping combine_plot_fields (-Z option set) ..."
3157	fi
3158
3159
3160
3161	# EXECUTE OUTPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
3162	(( i = 0 ))
3163	while (( i < ioc ))
3164	do
3165	(( i = i + 1 ))
3166	if (( i == 1 ))
3167	then
3168	printf "\n\n *** execution of OUTPUT-commands:\n$dashes"
3169	fi
3170	printf "\n >>> ${out_command[$i]}"
3171	eval ${out_command[$i]}
3172	if (( i == ioc ))
3173	then
3174	printf "\n$dashes\n"
3175	fi
3176	done
3177
3178
3179	# IN TRACE-MODE PRINT CONTENTS OF THE CURRENT (TEMPORARY) WORKING DIRECTORY
3180	if [[ $do_trace = true ]]
3181	then
3182	printf "\n\n"
3183	ls -al
3184	fi
3185
3186
3187	# COPY LOCAL OUTPUT-FILES TO THEIR PERMANENT DESTINATIONS
3188	(( i = 0 ))
3189	while (( i < iout ))
3190	do
3191	(( i = i + 1 ))
3192	if (( i == 1 ))
3193	then
3194	printf "\n\n *** saving OUTPUT-files:"
3195
3196	# GET RUN NUMBER ASSIGNED BY PALM
3197	if [[ -f RUN_NUMBER ]]
3198	then
3199	read run_number < RUN_NUMBER
3200	printf "\n *** PALM generated run_number = "$run_number" will be used as unified cycle number for all output files"
3201	usecycle_option="-U $run_number"
3202	else
3203	run_number=0
3204	usecycle_option=""
3205	fi
3206	printf "\n$dashes"
3207	fi
3208
3209	# ADD CYCLE NUMBER TO FILENAME
3210	if [[ ! ( $fromhost != $localhost && ( "${actionout[$i]}" = tr \|\| "${actionout[$i]}" = tra \|\| "${actionout[$i]}" = trpe ) ) ]]
3211	then
3212
3213	# IN APPEND MODE, FILES KEEP THEIR CURRENT CYCLE NUMBER
3214	if [[ "${actionout[$i]}" != "a" ]]
3215	then
3216	# SET RUN NUMBER AS CYCLE NUMBER, IF THERE IS NOT A CONFLICT
3217	# WITH AN EXISTING CYCLE NUMBER
3218	if (( run_number >= cycnum[$i] ))
3219	then
3220	(( cycnum[$i] = run_number ))
3221	else
3222	if (( run_number > 0 ))
3223	then
3224	printf "\n --- INFORMATIVE: The following file cannot get a unified cycle number"
3225	fi
3226	fi
3227	fi
3228	if (( cycnum[$i] > 0 ))
3229	then
3230	pathout[$i]=${pathout[$i]}.${cycnum[$i]}
3231	fi
3232	fi
3233
3234	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
3235	files_for_pes=false; filetyp=file
3236	link_local_output=false
3237	if [[ "${actionout[$i]}" = pe && -n $numprocs ]]
3238	then
3239	files_for_pes=true; filetyp=directory
3240	actionout[$i]=""
3241	elif [[ "${actionout[$i]}" = pe && ! -n $numprocs ]]
3242	then
3243	actionout[$i]=""
3244	elif [[ "${actionout[$i]}" = lnpe && -n $numprocs ]]
3245	then
3246	files_for_pes=true; filetyp=directory
3247	link_local_output=true
3248	actionout[$i]=""
3249	elif [[ "${actionout[$i]}" = lnpe && ! -n $numprocs ]]
3250	then
3251	link_local_output
3252	actionout[$i]=""
3253	elif [[ "${actionout[$i]}" = trpe && -n $numprocs ]]
3254	then
3255	files_for_pes=true; filetyp=directory
3256	actionout[$i]="tr"
3257	elif [[ "${actionout[$i]}" = trpe && ! -n $numprocs ]]
3258	then
3259	actionout[$i]="tr"
3260	fi
3261
3262	if [[ ! -f ${localout[$i]} && $files_for_pes = false ]]
3263	then
3264	printf "\n +++ temporary OUTPUT-file ${localout[$i]} does not exist\n"
3265	elif [[ ! -d ${localout[$i]} && $files_for_pes = true ]]
3266	then
3267	printf "\n +++ temporary OUTPUT-file ${localout[$i]}/.... does not exist\n"
3268	else
3269
3270
3271	# COPY VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
3272	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
3273	if [[ "${actionout[$i]}" = tr ]]
3274	then
3275	if [[ $localhost != $fromhost ]]
3276	then
3277	if [[ $files_for_pes = false ]]
3278	then
3279	cps=""
3280	cst=""
3281	else
3282	cps=-c
3283	cst="/"
3284	fi
3285
3286	transfer_failed=false
3287	printf "\n >>> OUTPUT: ${localout[$i]}$cst by SCP to"
3288	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}$cst\n"
3289	if [[ $localhost = lccrayb ]]
3290	then
3291	ssh $usern@blogin1 ". \\$HOME/.bashrc; cd $TEMPDIR; batch_scp $PORTOPT $cps -b -m $usecycle_option -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
3292	elif [[ $localhost = lccrayh ]]
3293	then
3294	ssh $usern@hlogin1 ". \\$HOME/.bashrc; cd $TEMPDIR; batch_scp $PORTOPT $cps -b -m $usecycle_option -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
3295	elif [[ $localhost = lcbullhh ]]
3296	then
3297	ssh $usern@mlogin101 ". \\$HOME/.bashrc; cd $TEMPDIR; batch_scp $PORTOPT $cps -b -m $usecycle_option -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
3298	elif [[ $localhost = lcxe6 ]]
3299	then
3300	ssh $usern@hexagon ". \\$HOME/.bashrc; cd $TEMPDIR; batch_scp $PORTOPT $cps -b -m $usecycle_option -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
3301	else
3302	batch_scp $PORTOPT $cps -b -m $usecycle_option -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
3303	fi
3304	[[ $? != 0 ]] && transfer_failed=true
3305
3306	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
3307	if [[ $transfer_failed = true ]]
3308	then
3309	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
3310	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
3311
3312	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
3313	eval local_catalog=${pathout[$i]}
3314	if [[ ! -d $local_catalog ]]
3315	then
3316	printf " *** local directory does not exist. Trying to create:\n"
3317	printf " $local_catalog \n"
3318	mkdir -p $local_catalog
3319	fi
3320	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
3321	transfer_problems=true
3322	fi
3323
3324	else
3325
3326	# UNSET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE COPIED ON THIS MACHINE
3327	actionout[$i]=""
3328	fi
3329	fi
3330
3331
3332	# APPEND VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
3333	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
3334	if [[ "${actionout[$i]}" = tra ]]
3335	then
3336	if [[ $localhost != $fromhost ]]
3337	then
3338	if [[ $localhost = ibmh ]]
3339	then
3340
3341	# TRANSFER IN SEPERATE JOB
3342	# FIRST COPY FILE TO TEMPORY DATA DIRECTORY
3343	[[ ! -d $tmp_data_catalog/TRANSFER ]] && mkdir -p $tmp_data_catalog/TRANSFER
3344	file_to_transfer=${fname}_${localout[$i]}_to_transfer_$kennung
3345	ln -f ${localout[$i]} $tmp_data_catalog/TRANSFER/$file_to_transfer
3346
3347	echo "set -x" > transfer_${localout[$i]}
3348	echo "cd $tmp_data_catalog/TRANSFER" >> transfer_${localout[$i]}
3349
3350	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP in seperate job to"
3351	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}"
3352	printf "\n or higher cycle\n"
3353	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]}
3354
3355	echo "[[ \$? = 0 ]] && rm $file_to_transfer" >> transfer_${localout[$i]}
3356
3357	if [[ $LOGNAME = b323013 ]]
3358	then
3359	subjob -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3360	else
3361	subjob -d -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3362	fi
3363
3364	else
3365
3366	# TRANSFER WITHIN THIS JOB
3367	transfer_failed=false
3368	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP to"
3369	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}\n"
3370	if [[ $localhost = lccrayb ]]
3371	then
3372	ssh $usern@blogin1 ". \\$HOME/.bashrc; cd $TEMPDIR; batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
3373	elif [[ $localhost = lccrayh ]]
3374	then
3375	ssh $usern@hlogin1 ". \\$HOME/.bashrc; cd $TEMPDIR; batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
3376	elif [[ $localhost = lcxe6 ]]
3377	then
3378	ssh $usern@hexagon ". \\$HOME/.bashrc; cd $TEMPDIR; batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
3379	else
3380	batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
3381	fi
3382	[[ $? != 0 ]] && transfer_failed=true
3383
3384	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
3385	if [[ $transfer_failed = true ]]
3386	then
3387	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
3388	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
3389
3390	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
3391	eval local_catalog=${pathout[$i]}
3392	if [[ ! -d $local_catalog ]]
3393	then
3394	printf " *** local directory does not exist. Trying to create:\n"
3395	printf " $local_catalog \n"
3396	mkdir -p $local_catalog
3397	fi
3398
3399	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
3400	transfer_problems=true
3401	fi
3402	fi
3403	else
3404
3405	# RESET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE APPENDED ON THIS MACHINE
3406	actionout[$i]=a
3407	fi
3408	fi
3409
3410
3411	# APPEND ON THIS MACHINE
3412	if [[ "${actionout[$i]}" = "a" ]]
3413	then
3414	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
3415	then
3416	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}.${extout[$i]}\n"
3417	cat ${localout[$i]} >> ${pathout[$i]}.${extout[$i]}
3418	else
3419	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}\n"
3420	cat ${localout[$i]} >> ${pathout[$i]}
3421	fi
3422	fi
3423
3424	# COPY ON THIS MACHINE
3425	# COPY HAS TO BE USED, BECAUSE MOVE DOES NOT WORK IF FILE-ORIGIN AND TARGET ARE
3426	# ON DIFFERENT FILE-SYSTEMS
3427	if [[ "${actionout[$i]}" = "" && $files_for_pes = false ]]
3428	then
3429
3430	# COPY IN CASE OF RUNS ON SINGLE CORES
3431	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
3432	then
3433	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}.${extout[$i]}\n"
3434	if [[ $link_local_output = true ]]
3435	then
3436	printf " file will be linked\n"
3437	ln -f ${localout[$i]} ${pathout[$i]}.${extout[$i]}
3438	fi
3439	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
3440	if [[ ! -f "${pathout[$i]}.${extout[$i]}" ]]
3441	then
3442	if [[ $link_local_output = true ]]
3443	then
3444	printf " --- WARNING: ln failed, using cp instead (might be time consuming...)\n"
3445	fi
3446	cp ${localout[$i]} ${pathout[$i]}.${extout[$i]}
3447	else
3448	printf "+++ no copy because file ${pathout[$i]}.${extout[$i]} exists\n"
3449	fi
3450	else
3451	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}\n"
3452	if [[ $link_local_output = true ]]
3453	then
3454	printf " file will be linked\n"
3455	ln -f ${localout[$i]} ${pathout[$i]}
3456	fi
3457	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
3458	if [[ ! -f "${pathout[$i]}" ]]
3459	then
3460	if [[ $link_local_output = true ]]
3461	then
3462	printf " --- WARNING: ln failed, using cp instead (might be time consuming...)\n"
3463	fi
3464	cp ${localout[$i]} ${pathout[$i]}
3465	else
3466	printf "+++ no copy because file ${pathout[$i]} exists\n"
3467	fi
3468	fi
3469
3470	elif [[ "${actionout[$i]}" = "" && $files_for_pes = true ]]
3471	then
3472
3473	# FILES FROM THE DIFFERENT CORES ARE MOVED WITH ln-COMMAND TO THE PERMANENT DIRECTORY
3474	# AS A FIRST STEP, THE PERMANENT DIRECTORY IS CREATED
3475	printf "\n >>> OUTPUT: ${localout[$i]}/_.... to ${pathout[$i]}\n"
3476	if [[ $link_local_output = true ]]
3477	then
3478	printf " files will be linked\n"
3479	mkdir ${pathout[$i]}
3480	cd ${localout[$i]}
3481	for file in $(ls *)
3482	do
3483	ln -f $file ${pathout[$i]}
3484	done >\|/dev/null 2>&1
3485	cd $TEMPDIR
3486	fi
3487
3488	# IF "ln -f" HAS FAILED OR IF "$link_local_output = false" DO A NORMAL COPY "cp -r"
3489	if [[ ! -f "${pathout[$i]}/_000000" ]]
3490	then
3491	if [[ $link_local_output = true ]]
3492	then
3493	printf " --- WARNING: ln failed, using cp instead (might be time consuming...)\n"
3494	fi
3495	cp -r ${localout[$i]}/* ${pathout[$i]}
3496	fi
3497
3498	fi
3499	fi
3500	done
3501	if (( i != 0 ))
3502	then
3503	if [[ $transfer_problems = true ]]
3504	then
3505	printf "\n$dashes\n *** OUTPUT-files saved"
3506	printf "\n +++ WARNING: some data transfers failed! \n"
3507	else
3508	printf "\n$dashes\n *** all OUTPUT-files saved \n"
3509	fi
3510	fi
3511
3512
3513	# IF REQUIRED, START A RESTART-JOB
3514	# FILE CONTINUE_RUN MUST HAVE BEEN CREATED BY THE EXECUTABLE (PALM)
3515	if [[ -f CONTINUE_RUN ]]
3516	then
3517
3518	# ADD RESTART-OPTIONS TO THE MRUN-CALL (IF THEY ARE NOT USED ALREADY):
3519	# -C TELLS MRUN THAT IT IS A RESTART-RUN
3520	# -v SILENT MODE WITHOUT INTERACTIVE QUERIES
3521	# -n BATCH-MODE (IMPORTANT ONLY IN CASE OF BATCH JOBS ON THE LOCAL MACHINE)
3522	[[ $(echo $mc \| grep -c "\-C") = 0 ]] && mc="$mc -C"
3523	[[ $(echo $mc \| grep -c "\-v") = 0 ]] && mc="$mc -v"
3524	[[ $(echo $mc \| grep -c "\-b") = 0 ]] && mc="$mc -b"
3525	if [[ $(echo $mc \| grep -c "#") != 0 ]]
3526	then
3527	mc=`echo $mc \| sed 's/#/f/g'`
3528	fi
3529
3530
3531	# START THE RESTART-JOB
3532	printf "\n\n *** initiating restart-run on \"$return_address\" using command:\n"
3533	echo " $mc"
3534	printf "\n$dashes\n"
3535	if [[ $localhost != $fromhost ]]
3536	then
3537
3538	if [[ $localhost = lcbullhh \|\| $localhost = lccrayb \|\| $localhost = lccrayh \|\| $localhost = ibmh \|\| $localhost = ibmkisti \|\| $localhost = ibmku \|\| $localhost = ibms \|\| $localhost = lceddy \|\| $localhost = lckyu* \|\| $localhost = lcxe6 ]]
3539	then
3540	echo "*** ssh will be used to initiate restart-runs!"
3541	echo " return_address=\"$return_address\" "
3542	echo " return_username=\"$return_username\" "
3543	if [[ $(echo $return_address \| grep -c "130.75.105") = 1 ]]
3544	then
3545	if [[ $localhost = ibmh ]]
3546	then
3547	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\" "
3548	elif [[ $localhost = lcbullhh ]]
3549	then
3550	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\" "
3551	elif [[ $localhost = lccrayb ]]
3552	then
3553	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\" "
3554	elif [[ $localhost = lccrayh ]]
3555	then
3556	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\" "
3557	elif [[ $localhost = lcxe6 ]]
3558	then
3559	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\" "
3560	else
3561	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 "
3562	fi
3563	else
3564	if [[ $localhost = ibmkisti ]]
3565	then
3566	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\" "
3567	elif [[ $localhost = lceddy ]]
3568	then
3569	/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 "
3570	elif [[ $localhost = lcocean ]]
3571	then
3572	/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 "
3573	elif [[ $localhost = lccrayb ]]
3574	then
3575	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\" "
3576	elif [[ $localhost = lccrayh ]]
3577	then
3578	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\" "
3579	else
3580	ssh $SSH_PORTOPT $return_address -l $return_username "PATH=\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc "
3581	fi
3582	fi
3583	else
3584	printf "\n +++ no restart mechanism available for host \"$localhost\" "
3585	locat=restart; exit
3586	fi
3587
3588	# WAIT TO ALLOW THE RESTART-JOB TO BE QUEUED, BEFORE THE CURRENT JOB IS FINISHED
3589	if [[ $queue = special1q ]]
3590	then
3591	sleep 120
3592	else
3593	sleep 30
3594	fi
3595
3596	else
3597
3598	# JOBS RUNNING (AND STARTED) ON THE LOCAL MACHINE CAN DIRECTLY CALL MRUN (WITHOUT
3599	# USING SSH)
3600	cd $LOCAL_PWD
3601	if [[ $localhost = lckyuh ]]
3602	then
3603	printf "\n +++ WARNING: no restart mechanism available for host \"$localhost\" "
3604	printf "\n please restart job manually using command:\n"
3605	printf "\n \"$mc\" "
3606	else
3607	eval $mc # THE ' MUST BE EVALUATED
3608	fi
3609	cd - > /dev/null
3610	fi
3611	if [[ $localhost = lckyuh ]]
3612	then
3613	printf "\n$dashes\n *** restart-run to be initiated manually\n"
3614	else
3615	printf "\n$dashes\n *** restart-run initiated \n"
3616	fi
3617
3618
3619	# DELETE INPUT-(RESTART)FILES, WHICH HAVE BEEN FETCHED FROM THE TEMPORARY DATA
3620	# DIRECTORY, BACAUSE THEY ARE NOT REQUIRED BY THE RESTART-JOB.
3621	# THIS IS DONE IN ORDER TO AVOID EXCEEDING DISC QUOTAS OR DISC SPACE (RESTART-FILES
3622	# MAY BE VERY HUGE)
3623	(( i = 0 ))
3624	while (( i < iin ))
3625	do
3626	(( i = i + 1 ))
3627	if [[ "${got_tmp[$i]}" = true && $keep_data_from_previous_run = false ]]
3628	then
3629	rm -r ${absnamein[$i]}
3630	fi
3631	done
3632
3633	fi
3634
3635
3636
3637	# SEND EMAIL NOTIFICATION ABOUT THE FINISHED RUN
3638	if [[ "$email_notification" != "none" ]]
3639	then
3640
3641	if [[ $localhost != $fromhost ]]
3642	then
3643	if [[ -f CONTINUE_RUN ]]
3644	then
3645	echo "PALM restart run necessary" > email_text
3646	echo "description header of actual run:" >> email_text
3647	cat CONTINUE_RUN >> email_text
3648	echo "mrun-command to restart:" >> email_text
3649	echo "$mc" >> email_text
3650	else
3651	echo "PALM run with base filename \"$fname\" on host \"$localhost\" finished" > email_text
3652	fi
3653	mail $email_notification < email_text
3654	printf "\n *** email notification sent to \"$email_notification\" "
3655	fi
3656	fi
3657
3658
3659
3660	# ALL ACTIONS FINISHED, TEMPORARY WORKING-DIRECTORY CAN BE DELETED
3661	cd $HOME
3662	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
3663
3664	else
3665
3666	# PREPARING ACTIONS,
3667	# IF A BATCH-JOB IS TO BE GENERATED AND STARTED ON A REMOTE-MACHINE GERECHNET
3668
3669	# BUILD THE MRUN-COMMAND TO BE CALLED IN THE BATCH-JOB ON THE REMOTE-MACHINE
3670	mrun_com="$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 $remote_username"
3671	[[ "$cpp_opts" != "" ]] && mrun_com=${mrun_com}" -D \"$cpp_opts\""
3672	[[ "$global_revision" != "" ]] && mrun_com=${mrun_com}" -G \"$global_revision\""
3673	[[ $group_number != none ]] && mrun_com=${mrun_com}" -g $group_number"
3674	[[ $do_compile = true ]] && mrun_com=${mrun_com}" -s \"$source_list\""
3675	[[ "$input_list" != "" ]] && mrun_com=${mrun_com}" -i \"$input_list\""
3676	[[ $keep_data_from_previous_run = true ]] && mrun_com=${mrun_com}" -k"
3677	[[ "$additional_conditions" != "" ]] && mrun_com=${mrun_com}" -K \"$additional_conditions\""
3678	[[ "$output_list" != "" ]] && mrun_com=${mrun_com}" -o \"$output_list\""
3679	[[ "$read_from_config" = false ]] && mrun_com=${mrun_com}" -S"
3680	[[ $do_trace = true ]] && mrun_com=${mrun_com}" -x"
3681	[[ "$numprocs" != "" ]] && mrun_com=${mrun_com}" -X $numprocs"
3682	if [[ $use_openmp = true ]]
3683	then
3684	mrun_com=${mrun_com}" -O $threads_per_task"
3685	fi
3686	[[ "$tasks_per_node" != "" ]] && mrun_com=${mrun_com}" -T $tasks_per_node"
3687	[[ $package_list != "" ]] && mrun_com=${mrun_com}" -p \"$package_list\""
3688	[[ $return_password != "" ]] && mrun_com=${mrun_com}" -P $return_password"
3689	[[ $delete_temporary_catalog = false ]] && mrun_com=${mrun_com}" -B"
3690	[[ $node_usage != default && "$(echo $node_usage \| cut -c1-3)" != "sla" && $node_usage != novice ]] && mrun_com=${mrun_com}" -n $node_usage"
3691	[[ "$ocean_file_appendix" = true ]] && mrun_com=${mrun_com}" -y"
3692	[[ $run_coupled_model = true ]] && mrun_com=${mrun_com}" -Y \"$coupled_dist\""
3693	[[ "$check_namelist_files" = false ]] && mrun_com=${mrun_com}" -z"
3694	[[ "$combine_plot_fields" = false ]] && mrun_com=${mrun_com}" -Z"
3695	[[ "$max_par_io_str" != "" ]] && mrun_com=${mrun_com}" -w $max_par_io_str"
3696	if [[ $do_remote = true ]]
3697	then
3698	printf "\n>>>> MRUN-command on execution host:\n>>>> $mrun_com \n"
3699	fi
3700
3701
3702	# CREATE EXECUTABLE FOR BATCH JOB
3703	if [[ $create_executable_for_batch = true && $restart_run != true ]]
3704	then
3705
3706	printf "\n *** creating the executable for batch job\n"
3707
3708	# METHOD ONLY WORKS FOR BATCH JOBS ON LOCAL HOSTS
3709	if [[ $host != $localhost ]]
3710	then
3711	printf "\n +++ creation of executables is only allowed for batch jobs on local hosts."
3712	printf "\n Please set create_executable_for_batch = false in the config-file.\n"
3713	locat=create_executable; exit
3714	fi
3715
3716	mkdir $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
3717	cd $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
3718
3719	cp $make_depository .
3720	tar -xf $make_depository > /dev/null 2>&1
3721	cp ../* . > /dev/null 2>&1
3722
3723	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
3724
3725	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
3726	then
3727	printf "\n +++ error occured while compiling or linking"
3728	locat=compile
3729	exit
3730	fi
3731
3732	mv a.out ..
3733	cd - > /dev/null 2>&1
3734	rm -rf $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
3735
3736	printf " *** executable created in \"$working_directory/SOURCES_FOR_RUN_${fname}\"\n "
3737
3738	fi
3739
3740
3741	# BUILD THE JOB-SCRIPTS ON FILE jobfile
3742	jobfile=jobfile.$RANDOM
3743
3744
3745	# CREATE TEMPORARY DIRECTORY AND SWITCH TO IT
3746	echo "mkdir $TEMPDIR" >> $jobfile
3747	echo "cd $TEMPDIR" >> $jobfile
3748
3749
3750	# ACTIVATE ERROR-TRACEBACK
3751	if [[ $do_trace = true ]]
3752	then
3753	echo "set -x" >> $jobfile
3754	else
3755	echo "set +vx" >> $jobfile
3756	fi
3757
3758
3759	# INITIALIZE THE ENVIRONMENT AND LOAD MODULES
3760	if [[ "$init_cmds" != "" ]]
3761	then
3762	echo "$init_cmds" >> $jobfile
3763	fi
3764	if [[ "$module_calls" != "" ]]
3765	then
3766	echo "$module_calls" >> $jobfile
3767	fi
3768
3769
3770	# PROVIDE SOURCE-CODE FILES, MRUN-SCRIPT AND CONFIGURATION-FILE FOR THE JOB
3771	# then-CLAUSE: FILES ARE COLLECTED IN THE SOURCES_FOR_RUN_... DIRECTORY ON THE LOCAL HOST,
3772	# WHICH IS THEN FETCHED FROM THE BATCH-JOB BY USING cp/scp
3773	# THE SOURCE-CODE FILES ALREADY EXIST IN THIS DIRECTORY
3774	# else-CLAUSE: FILE-CONTENTS ARE PUT INTO THE JOB-FILE AS HERE-DOCUMENTS
3775	# THIS MAY CREATE A QUITE LARGE JOB-FILE, WHICH CAN CAUSE PROBLEMS WITH SOME
3776	# QUEUEING-SYSTEMS
3777	if [[ $host = ibmkisti \|\| $host = lcbullhh \|\| $host = lccrayb \|\| $host = lccrayf \|\| $host = lccrayh \|\| $host = lcocean ]]
3778	then
3779
3780	# COPY CONFIGURATION-FILE AND MRUN-SCRIPT INTO THE SOURCES_FOR_RUN... DIRECTORY
3781	if [[ $restart_run != true ]]
3782	then
3783	cp $config_file $working_directory/SOURCES_FOR_RUN_$fname
3784	cp ${PALM_BIN}/$mrun_script_name $working_directory/SOURCES_FOR_RUN_$fname
3785	fi
3786
3787	# COPY THE SOURCES_FOR_RUN... DIRECTORY FROM THE LOCAL HOST TO THE JOB VIA scp
3788	# (then-CLAUSE: JOBS ON THE LOCAL HOST CAN JUST USE cp)
3789	echo "set -x" >> $jobfile
3790	if [[ $host = $localhost ]]
3791	then
3792	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
3793	# FILES ON CRAY XC30 SYSTEMS (CSC HELSINKI), rsync IS USED INSTEAD
3794	if [[ $(echo $host \| cut -c1-6) = lccray ]]
3795	then
3796	echo "rsync -av -t $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
3797	else
3798	echo "cp -r $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
3799	fi
3800
3801	else
3802	if [[ $host = ibmkisti ]]
3803	then
3804	# ON KISTI'S IBM FIREWALL IS ONLY OPENED ON INTERACTIVE NODE
3805	echo "localdir=\`pwd\`" >> $jobfile
3806	echo "ssh $SSH_PORTOPT $remote_username@gaiad \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
3807	elif [[ $host = lcbullhh ]]
3808	then
3809	echo "localdir=\`pwd\`" >> $jobfile
3810	echo "ssh $SSH_PORTOPT $remote_username@mlogin101 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
3811
3812	elif [[ $host = lccrayb ]]
3813	then
3814	echo "localdir=\`pwd\`" >> $jobfile
3815	echo "ssh $SSH_PORTOPT $remote_username@blogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
3816	elif [[ $host = lccrayh ]]
3817	then
3818	echo "localdir=\`pwd\`" >> $jobfile
3819	echo "ssh $SSH_PORTOPT $remote_username@hlogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
3820
3821	else
3822	echo "scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
3823	fi
3824	fi
3825	echo "export SOURCES_COMPLETE=true" >> $jobfile
3826
3827	# MOVE MRUN-SCRIPT AND CONFIGURATION-FILE FROM THE SOURCES_FOR_RUN... DIRECTORY TO THE
3828	# WORKING DIRECTORY OF THE JOB
3829	echo "mv SOURCES_FOR_RUN_$fname/$config_file . " >> $jobfile
3830	echo "mv SOURCES_FOR_RUN_$fname/$mrun_script_name . " >> $jobfile
3831	echo "chmod u+rwx $mrun_script_name" >> $jobfile
3832	echo "execute_mrun=true" >> $jobfile
3833	echo " " >> $jobfile
3834
3835	else
3836
3837	# PROVIDE SOURCE-CODE FILES AND MAKEFILE AS HERE DOCUMENT
3838	if [[ $do_compile = true ]]
3839	then
3840
3841	source_catalog=SOURCES_FOR_RUN_$fname
3842
3843	# CREATE SOURCES_FOR_RUN... DIRECTORY TO STORE THE SOURCE CODE FILES AND THE MAKEFILE
3844	echo "mkdir SOURCES_FOR_RUN_$fname" >> $jobfile
3845	echo "export SOURCES_COMPLETE=true" >> $jobfile
3846	echo "cd SOURCES_FOR_RUN_$fname" >> $jobfile
3847
3848	for filename in $source_list
3849	do
3850	# BACKSLASH IS USED FOR MASKING
3851	echo "cat > $filename << \"%END%\"" >> $jobfile
3852	cat $source_catalog/$filename >> $jobfile
3853	echo " " >> $jobfile
3854	echo "%END%" >> $jobfile
3855	echo " " >> $jobfile
3856	done
3857
3858	# BACKSLASH IS USED FOR MASKING
3859	echo "cat > Makefile << \"%END%\"" >> $jobfile
3860	cat $source_catalog/Makefile >> $jobfile
3861	echo " " >> $jobfile
3862	echo "%END%" >> $jobfile
3863	echo " " >> $jobfile
3864
3865	echo "cd - > /dev/null" >> $jobfile
3866
3867	fi
3868
3869
3870	# PROVIDE THE CONFIGURATION-FILE AS HERE-DOCUMENT
3871	# BACKSLASH IS USED FOR MASKING
3872	# LINES WITH #$ IN THE CONFIGURATION-FILE, COMING FROM THE SVN KEYWORD SUBSTITUTION,
3873	# ARE REMOVED FROM THE FILE IN ORDER TO AVOID PROBLEMS WITH THE SGE BATCH SYSTEM
3874	echo "cat > $config_file << \"%END%\"" >> $jobfile
3875	if [[ $host = lckyuh ]]
3876	then
3877	# NO CROSS-COMPILER ON COMPUTE NODE
3878	sed 's/frtpx/frt/g' $config_file >> $jobfile
3879	else
3880	sed 's/#$.*//g' $config_file >> $jobfile
3881	fi
3882	echo "%END%" >> $jobfile
3883	echo " " >> $jobfile
3884
3885
3886	# PROVIDE THE MRUN-SCRIPTS AS HERE-DOCUMENT
3887	# BACKSLASH IS USED FOR MASKING
3888	echo "cat > $mrun_script_name <<\"%END%\"" >> $jobfile
3889	if [[ $host = lckyuh ]]
3890	then
3891	sed 's/\/bin\/ksh/\/bin\/bash/g' ${PALM_BIN}/$mrun_script_name >> $jobfile
3892	else
3893	cat ${PALM_BIN}/$mrun_script_name >> $jobfile
3894	fi
3895	echo "%END%" >> $jobfile
3896	echo "chmod u+x $mrun_script_name" >> $jobfile
3897	echo "execute_mrun=true" >> $jobfile
3898	echo " " >> $jobfile
3899
3900	fi
3901
3902
3903	# GET REQUIRED INPUT-FILES BY SCP OR BY SENDING THEM WITH THE JOB AS HERE-DOCUMENT
3904	# PUT THESE FILES INTO THE USER'S RESPECTIVE PERMANENT DIRECTORIES ON THE REMOTE-HOST
3905	# IF THE DIRECTORIES DO NOT EXIST, TRY TO CREATE THEM
3906	if [[ $do_remote = true ]]
3907	then
3908	(( i = 0 ))
3909	while (( i < iin ))
3910	do
3911	(( i = i + 1 ))
3912	echo "[[ ! -d ${pathin[$i]} ]] && mkdir -p ${pathin[$i]}" >> $jobfile
3913	if [[ "${transin[$i]}" = job ]]
3914	then
3915	echo "cat > ${remotepathin[$i]} <<\"%END%\"" >> $jobfile
3916	eval cat ${pathin[$i]}/${frelin[$i]} >> $jobfile
3917	echo " " >> $jobfile
3918	echo "%END%" >> $jobfile
3919	else
3920	echo "batch_scp $PORTOPT -b -o -g -s -u $return_username $return_address ${remotepathin[$i]} \"${pathin[$i]}\" ${frelin[$i]}" >> $jobfile
3921	fi
3922
3923	# CHECK, IF FILE COULD BE CREATED
3924	echo "if [[ \$? = 1 ]]" >> $jobfile
3925	echo "then" >> $jobfile
3926	echo " echo \" \" " >> $jobfile
3927	echo " echo \"+++ file ${remotepathin[$i]} could not be created\" " >> $jobfile
3928	echo " echo \" please check, if directory exists on $host!\" " >> $jobfile
3929	echo " echo \"+++ MRUN will not be continued\" " >> $jobfile
3930	echo " execute_mrun=false" >> $jobfile
3931	echo "fi" >> $jobfile
3932	done
3933	fi
3934
3935	# PROVIDE NAME OF THE CURRENT WORKING-DIRECTORY ON THE LOCAL MACHINE (FROM WHERE THE JOB IS
3936	# STARTED) BY SETTING AN ENVIRONMENT-VARIABLE. THIS INFORMATION IS USED IN THE JOB BY MRUN
3937	# IN CASE THAT RESTART-RUNS HAVE TO BE GENERATED
3938	echo "LOCAL_PWD=$working_directory" >> $jobfile
3939	echo "export LOCAL_PWD" >> $jobfile
3940
3941	# PROVIDE THE PATH OF THE LOCAL MRUN-SCRIPT FOR THE SAME REASON
3942	echo "LOCAL_MRUN_PATH=$PALM_BIN" >> $jobfile
3943	echo "export LOCAL_MRUN_PATH" >> $jobfile
3944
3945	# lceddy ALSO REQUIRES TO PROVIDE PATH FOR THE PALM-SCRIPTS
3946	if [[ $host = lceddy \|\| $localhost = lceddy ]]
3947	then
3948	echo "export PALM_BIN=$PALM_BIN" \| sed -e 's:'$HOME':$HOME:' >> $jobfile
3949	echo "export PATH=\$PATH:\$PALM_BIN" >> $jobfile
3950	fi
3951
3952	# CALL MRUN WITHIN THE JOB (SETTING QUEUE IS A WORKAROUND FOR ibmkisti)
3953	# AS FINAL ACTION, REMOVE THE TEMPORARY DIRECTORY CREATED AT THE BEGINNING OF THE JOB
3954	echo "set -x" >> $jobfile
3955	echo "queue=$queue" >> $jobfile
3956	echo "[[ \$execute_mrun = true ]] && ./$mrun_com" >> $jobfile
3957	echo 'ls -al; echo `pwd`' >> $jobfile
3958	echo "cd \$HOME" >> $jobfile
3959	echo "rm -rf $TEMPDIR" >> $jobfile
3960
3961
3962
3963
3964	# START THE JOB USING SUBJOB-COMMAND
3965	if [[ $silent = false ]]
3966	then
3967	printf "\n "
3968	else
3969	printf "\n\n"
3970	fi
3971
3972	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
3973	rm -rf $jobfile
3974
3975
3976	fi # END OF REMOTE-PART

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