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source: palm/trunk/SCRIPTS/mrun @ 2287

Last change on this file since 2287 was 2286, checked in by raasch, 7 years ago
test output for cycle number removed
Property svn:keywords set to `Id Rev`
File size: 142.4 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 2286 2017-06-15 13:31:57Z suehring $
29	# test output for cycle number removed
30	#
31	# 2268 2017-06-09 10:34:09Z raasch
32	# bugfix for calculating cycle numbers for output files in r2261
33	#
34	# 2262 2017-06-08 14:52:23Z raasch
35	# bugfix for r2261
36	#
37	# 2261 2017-06-08 14:25:57Z raasch
38	# unified cycle numbers for output files are used,
39	# paths and filenames are allowed to contain arbitrary numbers of dots ".",
40	# creation of file OUTPUT_FILE_CONNECTIONS removed,
41	# archive feature completely removed from the script,
42	# nech related parts completely removed
43	#
44	# 2257 2017-06-07 14:07:05Z witha
45	# adjustments for lceddy, removed lcflow-specific code
46	#
47	# 2186 2017-03-21 05:36:31Z raasch
48	#
49	# 2185 2017-03-21 05:09:29Z raasch
50	# adjustment for lykyo*-hosts (PJM_ENVIRONMENT defines BATCH)
51	#
52	# 2148 2017-02-09 16:56:42Z scharf
53	# changed allocation of resources for lcbullhh in srun command
54	#
55	# 2141 2017-02-06 10:19:32Z gronemeier
56	# made check for existing files language independent
57	#
58	# 1944 2016-06-15 06:29:00Z raasch
59	# adjustments for using HLRN ssh-keys
60	#
61	# 1940 2016-06-14 05:15:20Z raasch $
62	# adjustments for lckiaps
63	#
64	# 1866 2016-04-15 06:50:59Z raasch
65	# adjusted for lcocean
66	#
67	# 1841 2016-04-07 19:14:06Z raasch
68	# script now running under bash
69	#
70	# 1804 2016-04-05 16:30:18Z maronga
71	# test: implementing an execute mechanism where the execute command is given in the
72	# configuration file
73	# ROPTS removed from execution commands
74	# Warnings about missing optional files or user code changed to informative messages
75	# Removed parameter file check
76	#
77	# 1755 2016-02-22 13:53:39Z maronga
78	# Minor bugfix to last commit
79	#
80	# 1753 2016-02-22 13:49:49Z maronga
81	# Bugfix: use random job number when PBS job nummer retrieval fails on lccray*
82	#
83	# 1622 2015-07-20 06:21:36Z heinze
84	# bugfix for Mistral (lcbullhh)
85	#
86	# 1621 2015-07-17 11:39:33Z heinze
87	# adjustments for Mistral at DKRZ Hamburg (lcbullhh)
88	#
89	# 1609 2015-07-03 15:37:58Z maronga
90	# Modified the random number of the temporary working directory to match the
91	# queuing system number on HLRN-III (lccray*).
92	#
93	# 1604 2015-06-23 15:48:03Z suehring
94	# Enable coupled runs for lcmuk
95	#
96	# 1598 2015-05-29 06:45:40Z raasch
97	# bugfix for creating hostfile and total number of MPI tasks if run in openmp-mode on one node
98	#
99	# 1549 2015-01-30 14:26:16Z suehring
100	# Enable interactive debug sessions with allinea debugger
101	#
102	# 1547 2015-01-29 15:09:12Z witha
103	# adjustments for ForWind computing cluster (lcflow)
104	#
105	# 1491 2014-11-12 08:12:57Z heinze
106	# correct setting of batch_job allowed for ibm-machines
107	#
108	# 1468 2014-09-24 14:06:57Z maronga
109	# Typo removed (addres->address)
110	# Bugfix: returning files to IMUK via ssh did not work for lccrayh and lcycrayb
111	# Added support for restart runs (remote) for lcxe6
112	#
113	# 1442 2014-07-28 07:09:10Z raasch
114	# default queues for HLRN-III (lccrayb/lccrayh) defined
115	#
116	# 1422 2014-07-02 10:01:25Z kanani
117	# automatic restarts enabled for lccrayb,
118	# adjustment of path to compilervars.sh at IMUK (see automatic restarts)
119	#
120	# 1420 2014-06-10 06:24:14Z raasch
121	# -j1 option added to aprung command for lccrayf (CSC)
122	#
123	# 1402 2014-05-09 14:25:13Z raasch
124	# batch_job added to envpar-NAMELIST
125	#
126	# 1357 2014-04-11 15:02:03Z witha
127	# adjustments for lccrayh (automatic restarts on lccrayh outside of IMUK are now
128	# possible)
129	#
130	# 1320 2014-03-20 08:40:49Z raasch
131	# check namelist file set false by default
132	#
133	# 1304 2014-03-12 10:29:42Z raasch
134	# ulimit option changed from -Ss to -s
135	#
136	# bugfix: missing "fi" in r1289
137	#
138	# 1289 2014-03-04 07:12:34Z raasch
139	# comments translated to English
140	# necriam-, fimm-, ibmy-, and sgi-specific code removed
141	# export of variables for palm and interpret_config removed
142	#
143	# 1281 2014-02-01 07:55:49Z raasch
144	# rsync-copy restricted to Cray machines, since command is unavailable on some
145	# other systems
146	#
147	# 1279 2014-01-28 12:10:14Z raasch
148	# tasks_per_node must not be an integral divisor of numprocs any more. This was done
149	# in order to remove annoying restrictions concerning the number of processors which
150	# appear on machines with larger nodes (e.g. containing 24 cores). Now without this
151	# restriction, one of the nodes will be filled with less than the given number of
152	# tasks per node. A respective warning is given.
153	#
154	# 1274 2014-01-09 13:14:54Z heinze
155	# adjustments for lccrayh
156	#
157	# 1272 2014-01-08 10:19:32Z witha
158	# small adjustment for lcflow
159	#
160	# 1270 2013-12-16 11:05:01Z fricke
161	# call of combine_plot_fields adjusted for lccrayb/lccrayh
162	#
163	# 1255 2013-11-07 14:43:35Z raasch
164	# further adjustments for lccrayb remote access
165	#
166	# 1241 2013-10-30 11:36:58Z heinze
167	# Enable use of nudging input and input of large scale forcing from
168	# external files
169	#
170	# 1229 2013-09-20 06:55:19Z raasch
171	# further adjustments for lccrayb
172	#
173	# 1224 2013-09-16 07:27:23Z raasch
174	# first adjustments for lccrayb
175	#
176	# 1210 2013-08-14 10:58:20Z raasch
177	# fftw support added
178	#
179	# 1201 2013-07-10 16:17:59Z witha
180	# adjustments for Forwind cluster (lcflow)
181	#
182	# 1199 2013-07-05 14:52:22Z raasch
183	# adjustments for CSC Helsinki (lccrayf),
184	# executables for batch jobs can be created in advance, in order to avoid calling
185	# the compiler within the batch job (only works if batch jobs are submitted on
186	# local host)
187	#
188	# 1190 2013-06-25 09:39:21Z heinze
189	# enable use of automatic restarts for ibmh
190	# use of cluster/express queue enabled (ibmh)
191	#
192	# 1124 2013-04-09 15:46:52Z raasch
193	# variable "memory" is exported via typeset option -x, because otherwise an unknown
194	# side effect may lead to data loss while getopts is reading the script-option arguments
195	#
196	# 1122 2013-04-09 08:37:16Z heinze
197	# Bugfix: change type of variable last_char
198	#
199	# 1119 2013-04-05 15:11:19Z raasch
200	# Bugfix for setting -T option for subjob
201	#
202	# 1108 2013-03-05 07:03:32Z raasch
203	# bugfix for coupled runs on lckyut/lckyuh
204	#
205	# 1106 2013-03-04 05:31:38Z raasch
206	# --stdin argument for mpiexec on lckyuh
207	# -y and -Y settings output to header
208	#
209	# 1103 2013-02-20 02:15:53Z raasch
210	# default script runs again under ksh, because of unsolved problems with read
211	# from stdin: when bash script is called from a ksh, message "read error: 0:
212	# Resource temporarily unavailable" appears and script does not stop,
213	# further bash compatibility adjustments,
214	# shebang line replaced by /bin/bash when running jobs on lckyuh; no restarts
215	# on lckyuh, but mrun does not terminate and issues a warning instead
216	#
217	# 1101 2013-02-17 10:20:21Z raasch
218	# script now running under bash instead of ksh, which required small adjustments
219	# (output formatting with printf instead "typeset -L/-R", print replaced by echo,
220	# read from stdin),
221	# cross compilername on lckyuh compute nodes replaced by real compiler name
222	#
223	# 1099 2013-02-10 01:47:43Z raasch
224	# adjustments for Kyushu-University computing center (lckyuh - hayaka)
225	# and for Forwind cluster (lcflow)
226	# small further adjustments for lckyut
227	#
228	# 1094 2013-02-03 01:52:12Z raasch
229	# explicit ssh/scp port can be set in config file with environment variable
230	# scp_port. This port is handled to all ssh/scp/batch_scp calls.
231	# decalpha parts (yonsei) removed
232	#
233	# 2013-02-02 07:06:13Z raasch
234	# adjustments for Kyushu-University computing center (lckyut - tatara)
235	#
236	# 1083 2013-01-04 10:22:09Z maronga
237	# bugfix in parameter file check (read %cpp_options was missing)
238	#
239	# 1069 2012-11-28 16:18:43Z maronga
240	# bugfix: coupling mode was always set to mpi2, typos removed
241	#
242	# 1058 2012-11-21 07:00:35Z raasch
243	# Intel inspector (inspxe) is given the number of PEs instead of the number of
244	# nodes
245	#
246	# 1046 2012-11-09 14:38:45Z maronga
247	# code put under GPL (PALM 3.9)
248	#
249	# 21/03/94 - Siggi - first version finished
250	# 03/03/94 - Siggi - script development started
251	#
252	#--------------------------------------------------------------------------------#
253	# mrun - script for running PALM jobs
254	#--------------------------------------------------------------------------------#
255
256
257
258	# DECLARATION OF VARIABLES AND THEIR DEFUALT VALUES
259
260	set +o allexport # SUPPRESS EXPORT OF ALL VARIABLES, SINCE IN THE PAST THIS
261	# LES TO PROBLEMS IN ROUTINES CALLED BY MRUN
262	# (TOO MANY ARGUMENTS - PROBLEM)
263	set +o noclobber # EXISTING FILES ARE ALLOWED TO BE OVERWRITTEN
264
265	AddFilenames=""
266	additional_conditions=""
267	add_source_path=""
268	afname=""
269	check_namelist_files=false
270	combine_plot_fields=true
271	compiler_name=""
272	cond1=""
273	cond2=""
274	config_file=.mrun.config
275	coupled_dist=""
276	coupled_mode="mpi1"
277	cpp_opts=""
278	cpp_options=""
279	cpumax=0
280	cpurest=0
281	create_executable_for_batch=false
282	delete_temporary_catalog=true
283	do_batch=false
284	do_compile=true
285	do_remote=false
286	do_stagein=true
287	do_stageout=true
288	do_trace=false
289	email_notification="none"
290	exclude=""
291	executable=""
292	execute_command="none"
293	execution_error=false
294	fftw_inc=""
295	fftw_lib=""
296	fftw_support=false
297	fname=test
298	fromhost=""
299	global_revision=""
300	group_number=none
301	host=""
302	host_file=""
303	hp=""
304	input_list=""
305	interpreted_config_file=""
306	job_catalog="~/job_queue"
307	job_on_file=""
308	keep_data_from_previous_run=false
309	link_local_input=false
310	link_local_output=false
311	localhost_realname=$(hostname)
312	local_dvrserver_running=.FALSE.
313	locat=normal
314	mainprog=""
315	makefile=""
316	max_par_io_str=""
317	mc=$0
318	while [[ $(echo $mc \| grep -c "/") != 0 ]]
319	do
320	mc=`echo $mc \| cut -f2- -d"/"`
321	done
322	module_calls=""
323	mrun_script_name=$mc
324	netcdf_inc=""
325	netcdf_lib=""
326	netcdf_support=false
327	node_usage=default
328	numprocs=""
329	numprocs_atmos=0
330	numprocs_ocean=0
331	OOPT=""
332	openmp=false
333	output_list=""
334	package_list=""
335	queue=none
336	read_from_config=""
337	restart_run=false
338	if [[ `hostname` = rte10 ]]
339	then
340	return_address=133.5.185.60
341	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
342	elif [[ `hostname` = climate0 ]]
343	then
344	return_address=165.132.26.68
345	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
346	elif [[ `hostname` = "schultzl-Latitude-E6540" ]]
347	then
348	return_address="schultzl-Latitude-E6540"
349	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
350	elif [[ `hostname` = urban00 ]]
351	then
352	return_address=147.46.30.151
353	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
354	else
355	return_address=$(nslookup `hostname` 2>&1 \| grep "Address:" \| tail -1 \| awk '{print $2}')
356	fi
357	return_password=""
358	return_username=$LOGNAME
359	remotecall=false
360	remote_username=""
361	run_coupled_model=false
362	run_mode=""
363	dashes=" ----------------------------------------------------------------------------"
364	silent=false
365	source_list=""
366	source_path=SOURCE
367	tasks_per_node=""
368	threads_per_task=1
369	tmpcreate=false
370	tmp_data_catalog=""
371	transfer_problems=false
372	usern=$LOGNAME
373	use_openmp=false
374	version="MRUN 2.1 Rev$Rev: 2286 $"
375	working_directory=`pwd`
376	TOPT=""
377	XOPT=""
378	zeit=$( date \| cut -c 12-19 )
379
380	typeset -i iec=0 iic=0 iin=0 ioc=0 iout=0 stagein_anz=0 stageout_anz=0
381	typeset -x -i memory=0 # HAS TO BE EXPORTED HERE, OTHERWISE AN UNKNOWN SIDE
382	# SIDE EFFECT MAY CAUSE DATA LOSS WHEN GETOPTS IS READING THE
383	# SCRIPT-OPTION ARGUMENTS
384	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
385
386	# ERROR HANDLING IN CASE OF EXIT
387	trap 'rm -rf $working_directory/tmp_mrun
388	if [[ $locat != normal && $locat != control_c ]]
389	then
390
391	# CARRY OUT ERROR-COMMANDS GIVEN IN THE CONFIGURATION FILE (EC:)
392	(( i = 0 ))
393	while (( i < iec ))
394	do
395	(( i = i + 1 ))
396	printf "\n *** Execution of ERROR-command:\n"
397	printf " >>> ${err_command[$i]}\n"
398	eval ${err_command[$i]}
399	done
400	if [[ -n $interpreted_config_file ]]
401	then
402	rm -rf $interpreted_config_file
403	fi
404	if [[ -n .mrun_environment ]]
405	then
406	rm -rf .mrun_environment
407	fi
408	if [[ $tmpcreate = true ]]
409	then
410	# printf "\n *** Contents of \"$TEMPDIR\":\n"
411	# ls -al; cd
412	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
413	fi
414	if [[ "$dvrserver_id" != "" ]]
415	then
416	echo "+++ killing dvrserver_id=$dvrserver_id"
417	kill $dvrserver_id
418	fi
419	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
420	then
421	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
422	fi
423	printf "\n\n+++ MRUN killed \n\n"
424	elif [[ $locat != control_c ]]
425	then
426	printf "\n\n --> all actions finished\n\n"
427	printf " Bye, bye $usern !!\n\n"
428	fi' exit
429
430
431	# ACTIONS IN CASE OF TERMINAL-BREAK (CONTROL-C):
432	trap 'rm -rf $working_directory/tmp_mrun
433	rm -rf $working_directory/tmp_check_namelist_files
434	[[ $tmpcreate = true ]] && (cd; rm -rf $TEMPDIR)
435	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
436	then
437	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
438	fi
439	if [[ "$dvrserver_id" != "" ]]
440	then
441	echo "+++ killing dvrserver_id=$dvrserver_id"
442	kill $dvrserver_id
443	fi
444	printf "\n+++ MRUN killed by \"^C\" \n\n"
445	locat=control_c
446	exit
447	' 2
448
449
450	# CHECK IF THE PATH FOR THE PALM BINARIES (SCRIPTS+UTILITY-PROGRAMS) HAS
451	# BEEN SET
452	if [[ "$PALM_BIN" = "" ]]
453	then
454	printf "\n +++ environment variable PALM_BIN has not been set"
455	printf "\n please set it to the directory where the PALM scripts are located"
456	locat=palm_bin; exit
457	fi
458	export PATH=$PALM_BIN:$PATH
459
460
461
462	# READ SHELLSCRIPT-OPTIONS AND REBUILD THE MRUN-COMMAND STRING (MC),
463	# WHICH WILL BE USED TO START RESTART-JOBS
464	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
465	do
466	case $option in
467	(a) afname=$OPTARG;;
468	(b) do_batch=true; mc="$mc -b";;
469	(B) delete_temporary_catalog=false; mc="$mc -B";;
470	(c) config_file=$OPTARG; mc="$mc -c$OPTARG";;
471	(C) restart_run=true; mc="$mc -C";;
472	(d) fname=$OPTARG; mc="$mc -d$OPTARG";;
473	(F) job_on_file="-D"; mc="$mc -F";;
474	(g) group_number=$OPTARG; mc="$mc -g$OPTARG";;
475	(G) global_revision=$OPTARG; mc="$mc -G'$OPTARG'";;
476	(h) host=$OPTARG; mc="$mc -h$OPTARG";;
477	(H) fromhost=$OPTARG; mc="$mc -H$OPTARG";;
478	(i) input_list=$OPTARG; mc="$mc -i'$OPTARG'";;
479	(k) keep_data_from_previous_run=true; mc="$mc -k";;
480	(K) additional_conditions="$OPTARG"; mc="$mc -K'$OPTARG'";;
481	(m) memory=$OPTARG; mc="$mc -m$OPTARG";;
482	(M) makefile=$OPTARG; mc="$mc -M$OPTARG";;
483	(n) node_usage=$OPTARG; mc="$mc -n$OPTARG";;
484	(o) output_list=$OPTARG; mc="$mc -o'$OPTARG'";;
485	(O) use_openmp=true; threads_per_task=$OPTARG; mc="$mc -O$OPTARG";;
486	(p) package_list=$OPTARG; mc="$mc -p'$OPTARG'";;
487	(P) return_password=$OPTARG; mc="$mc -P$OPTARG";;
488	(q) queue=$OPTARG; mc="$mc -q$OPTARG";;
489	(r) run_mode=$OPTARG; mc="$mc -r'$OPTARG'";;
490	(R) remotecall=true;return_address=$OPTARG; mc="$mc -R$OPTARG";;
491	(s) source_list=$OPTARG; mc="$mc -s'$OPTARG'";;
492	(S) read_from_config=false; mc="$mc -S";;
493	(t) cpumax=$OPTARG; mc="$mc -t$OPTARG";;
494	(T) mrun_tasks_per_node=$OPTARG; mc="$mc -T$OPTARG";;
495	(u) remote_username=$OPTARG; mc="$mc -u$OPTARG";;
496	(U) return_username=$OPTARG; mc="$mc -U$OPTARG";;
497	(v) silent=true; mc="$mc -v";;
498	(w) max_par_io_str=$OPTARG; mc="$mc -w$OPTARG";;
499	(x) do_trace=true;set -x; mc="$mc -x";;
500	(X) numprocs=$OPTARG; mc="$mc -X$OPTARG";;
501	(y) ocean_file_appendix=true; mc="$mc -y";;
502	(Y) run_coupled_model=true; coupled_dist=$OPTARG; mc="$mc -Y'$OPTARG'";;
503	(z) check_namelist_files=false; mc="$mc -z";;
504	(Z) combine_plot_fields=false; mc="$mc -Z";;
505	(\?) printf "\n +++ unknown option $OPTARG \n"
506	printf "\n --> type \"$0 ?\" for available options \n"
507	locat=parameter;exit;;
508	esac
509	done
510
511
512	# SKIP GIVEN OPTIONS TO READ POSITIONAL PARAMETER, IF GIVEN
513	# CURRENTLY ONLY PARAMETER ? (TO OUTPUT A SHORT COMMAND INFO) IS ALLOWED
514	(( to_shift = $OPTIND - 1 ))
515	shift $to_shift
516
517	# PRINT SHORT DESCRIPTION OF MRUN OPTIONS
518	if [[ "$1" = "?" ]]
519	then
520	(printf "\n *** mrun can be called as follows:\n"
521	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"
522	printf "\n Description of available options:\n"
523	printf "\n Option Description Default-Value"
524	printf "\n -a base name of input files equiv. -d"
525	printf "\n -b batch-job on local machine ---"
526	printf "\n -B do not delete temporary directory at end ---"
527	printf "\n -c configuration file .mrun.config"
528	printf "\n -d base name of files attached to program test"
529	printf "\n -D preprocessor(cpp)-directives \"\" "
530	printf "\n -F create remote job file only ---"
531	printf "\n -h execution host $localhost_realname"
532	printf "\n -i INPUT control list \"\" "
533	printf "\n -k keep data from previous run"
534	printf "\n -K additional conditions for controling"
535	printf "\n usage of conditional code and"
536	printf "\n env-variables in configuration file \"\" "
537	printf "\n -m memory demand in MB (batch-jobs) 0 MB"
538	printf "\n -M Makefile name Makefile"
539	printf "\n -n node usage (shared/not_shared) depending on -h"
540	printf "\n -o OUTPUT control list \"\" "
541	printf "\n -O threads per openMP task ---"
542	printf "\n -p software package list \"\" "
543	printf "\n -q queue \"$queue\" "
544	printf "\n -r run control list (combines -i -o) \"\" "
545	printf "\n -s filenames of routines to be compiled \"\" "
546	printf "\n must end with .f, .f90, .F, or .c !"
547	printf "\n use \"..\" for more than one file and wildcards"
548	printf "\n -s LM compiles all locally modified files"
549	printf "\n -S config file interpreted by shellscript ---"
550	printf "\n -t allowed cpu-time in seconds (batch) 0"
551	printf "\n -T tasks per node depending on -h"
552	printf "\n -u username on remote machine \"\" "
553	printf "\n -v no prompt for confirmation ---"
554	printf "\n -w maximum parallel io streams as given by -X"
555	printf "\n -x tracing of mrun for debug purposes ---"
556	printf "\n -X # of processors (on parallel machines) 1"
557	printf "\n -y add appendix \"_O\" to all local output"
558	printf "\n files (ocean precursor runs followed by"
559	printf "\n coupled atmosphere-ocean runs) ---"
560	printf "\n -Y run coupled model, \"#1 #2\" with"
561	printf "\n #1 atmosphere and #2 ocean processors \"#/2 #/2\" depending on -X"
562	printf "\n -Z skip combine_plot_fields at the end of "
563	printf "\n the simulation ---"
564	printf "\n "
565	printf "\n Possible values of positional parameter <modus>:"
566	printf "\n \"?\" - this outline \n\n") \| more
567	exit
568	elif [[ "$1" != "" ]]
569	then
570	printf "\n +++ positional parameter $1 unknown \n"
571	locat=parameter; exit
572	fi
573
574
575
576	# SHORT STARTING MESSAGE
577	printf "\n*** $version "
578	printf "\n will be executed. Please wait ..."
579
580
581
582	# CHECK, IF CONFIGURATION FILE EXISTS
583	if [[ ! -f $config_file ]]
584	then
585	printf "\n\n +++ configuration file: "
586	printf "\n $config_file"
587	printf "\n does not exist"
588	locat=connect; exit
589	fi
590
591
592	# DETERMINE THE HOST-IDENTIFIER (localhost) FROM THE CONFIGURATION FILE
593	line=""
594	grep "%host_identifier" $config_file > tmp_mrun
595	while read line
596	do
597	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
598	then
599	HOSTNAME=`echo $line \| cut -d" " -s -f2`
600	host_identifier=`echo $line \| cut -d" " -s -f3`
601	if [[ $localhost_realname = $HOSTNAME ]]
602	then
603	localhost=$host_identifier
604	break
605	fi
606	fi
607	done < tmp_mrun
608
609	if [[ "$localhost" = "" ]]
610	then
611	printf "\n\n +++ no host identifier found in configuration file \"$config_file\""
612	printf "\n for local host \"$localhost_realname\"."
613	printf "\n Please add line"
614	printf "\n \"\%host_identifier $localhost_realname <identifier>\""
615	printf "\n to the configuration file."
616	locat=localhost; exit
617	fi
618
619
620	# ??? THIS SHOULD BE DECRIBED IN THE MRUN DOCUMENTATION ???
621	# SET BASENAME OF THE INPUT-FILES TO THE GENERAL BASENAME (GIVEN BY OPTION -d),
622	# IF IT HAS NOT BEEN SET BY THE USER DIFFERENTLY (USING OPTION -a)
623	[[ "$afname" = "" ]] && afname=$fname
624
625
626	# ADD RUN-FILE ACTIVATION STRINGS (GIVEN BY OPTION -r) TO THE
627	# RESPECTIVE LISTS FOR ACTIVATING THE INPUT/OUTPUT FILE CONNECTION
628	# STATEMENTS IN THE CONFIGURATION FILE
629	if [[ "$run_mode" != "" ]]
630	then
631	input_list="$input_list $run_mode"
632	output_list="$output_list $run_mode"
633	fi
634
635
636	# ??? is this (and the respective option -H) really required ???
637	# STORE HOSTNAME, FROM WHICH THE JOB IS STARTED,
638	# BUT ONLY IF IT HASN'T BEEN ALREADY SET BY OPTION -H
639	# (MRUN IS AUTOMATICALLY SETTING THIS OPTION IN THE MRUN-CALLS WITHIN
640	# THOSE BATCH-JOBS, WHICH ARE CREATED BY MRUN ITSELF)
641	if [[ "$fromhost" = "" ]]
642	then
643	fromhost=$localhost
644	fi
645
646
647	# CHECK, IF EXECUTION SHALL TO BE DONE ON THE REMOTE-MACHINE.
648	# VALUE OF do_remote IS IMPORTANT FOR THE FILE CONNECTIONS.
649	# IN CASE OF EXECUTION ON A REMOTE-MACHINE, A BATCH-JOB HAS
650	# TO BE SUBMITTED (I.E. do_batch=true)
651	if [[ -n $host && "$host" != $localhost ]]
652	then
653	do_batch=true
654	do_remote=true
655	case $host in
656	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lceddy\|lckyoto\|lcocean\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
657	(*) printf "\n"
658	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
659	printf "\n is not available"
660	locat=nqs; (( iec = 0 )); exit;;
661	esac
662	else
663	host=$localhost
664	fi
665
666
667	# EVALUATE ADDITIONAL CONDITIONS GIVEN BY OPTION -K
668	if [[ -n $additional_conditions ]]
669	then
670	cond1=`echo $additional_conditions \| cut -d" " -f1`
671	cond2=`echo $additional_conditions \| cut -d" " -s -f2`
672	dummy=`echo $additional_conditions \| cut -d" " -s -f3`
673	if [[ -n $dummy ]]
674	then
675	printf "\n +++ more than 2 additional conditions given for Option \"-K\""
676	locat=options; exit
677	fi
678	block=_$cond1
679	[[ -n $cond2 ]] && block=${block}_$cond2
680	fi
681
682
683	# EVALUATE MODEL COUPLING FEATURES (OPTION -Y) AND DETERMINE coupled_mode
684	if [[ $run_coupled_model = true ]]
685	then
686
687	numprocs_atmos=`echo $coupled_dist \| cut -d" " -s -f1`
688	numprocs_ocean=`echo $coupled_dist \| cut -d" " -s -f2`
689
690	if (( $numprocs_ocean + $numprocs_atmos != $numprocs ))
691	then
692
693	printf "\n +++ number of processors does not fit to specification by \"-Y\"."
694	printf "\n PEs (total) : $numprocs"
695	printf "\n PEs (atmosphere): $numprocs_atmos"
696	printf "\n PEs (ocean) : $numprocs_ocean"
697	locat=coupling; exit
698
699	fi
700
701
702	# GET coupled_mode FROM THE CONFIG FILE
703	line=""
704	grep "%cpp_options.-D__mpi2.$host" $config_file > tmp_mrun
705	while read line
706	do
707	echo line=\"$line\"
708	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" && $(echo $line \| cut -d" " -s -f4) = $cond1 && $(echo $line \| cut -d" " -s -f5) = $cond2 ]]
709	then
710	coupled_mode="mpi2"
711	fi
712	done < tmp_mrun
713
714	fi
715
716	# SAVE VALUES OF MRUN-OPTIONS SICHERN IN ORDER TO OVERWRITE
717	# THOSE VALUES GIVEN IN THE CONFIGURATION-FILE
718	mrun_memory=$memory
719	mrun_group_number=$group_number
720	mrun_cpumax=$cpumax
721	mrun_numprocs=$numprocs
722
723
724	# READ AND EVALUATE THE CONFIGURATION-FILE FROM WITHIN THIS SHELLSCRIPT
725	# (OPTION -S). THE DEFAULT IS USING THE ROUTINE <<<<
726	if [[ "$read_from_config" = false ]]
727	then
728	[[ $silent = false ]] && printf "\n Reading the configuration file... "
729
730	# READ THE CONFIGURATION FILE LINE BY LINE
731	while read zeile
732	do
733	[[ $silent = false ]] && printf "."
734
735
736	# FIRST REPLACE ENVIRONMENT-VARIABLES BY THEIR RESPECTIVE VALUES
737	eval zeile=\"$zeile\"
738
739
740	# INTERPRET THE LINE
741	if [[ "$(echo $zeile)" = "" ]]
742	then
743	# EMPTY LINE, NO ACTION
744	continue
745
746	elif [[ "$(echo $zeile \| cut -c1)" = "#" ]]
747	then
748
749	# LINE IS A COMMENT LINE
750	true
751
752	elif [[ "$(echo $zeile \| cut -c1)" = "%" ]]
753	then
754
755	# LINE DEFINES AN ENVIRONMENT-VARIABLE
756	zeile=$(echo $zeile \| cut -c2-)
757	var=`echo $zeile \| cut -d" " -f1`
758	value=`echo $zeile \| cut -d" " -s -f2`
759	for_host=`echo $zeile \| cut -d" " -s -f3`
760	for_cond1=`echo $zeile \| cut -d" " -s -f4`
761	for_cond2=`echo $zeile \| cut -d" " -s -f5`
762
763	if [[ "$for_host" = "" \|\| ( "$for_host" = $host && "$for_cond1" = "$cond1" && "$for_cond2" = "$cond2" ) \|\| $(echo "$input_list$output_list"\|grep -c "$for_host") != 0 ]]
764	then
765
766	# REPLACE ":" BY " " IN COMPILER- CPP- OR LINKER-OPTIONS,
767	# "::" IS REPLACED BY ":".
768	value=`echo $value \| sed 's/::/%DUM%/g' \| sed 's/:/ /g' \| sed 's/%DUM%/:/g'`
769
770
771	# VALUE FROM THE CONFIGURATION-FILE IS ASSIGNED TO THE
772	# ENVIRONMENT-VARIABLE, BUT ONLY IF NO VALUE HAS BEEN ALREADY
773	# ASSIGNED WITHIN THIS SCRIPT (E.G. BY SCRIPT-OPTIONS).
774	# NON-ASSIGNED VARIABLES HAVE VALUE "" OR 0 (IN CASE OF INTEGER).
775	# HENCE THE GENERAL RULE IS: SCRIPT-OPTION OVERWRITES THE
776	# CONFIGURATION-FILE.
777	if [[ "$(eval echo \$$var)" = "" \|\| "$(eval echo \$$var)" = "0" ]]
778	then
779	eval $var=\$value
780
781	# TERMINAL OUTPUT OF ENVIRONMENT-VARIABLES, IF TRACEBACK IS SWITCHED on
782	if [[ $do_trace = true ]]
783	then
784	printf "\n*** ENVIRONMENT-VARIABLE $var = $value"
785	fi
786	fi
787
788	# IF AN ENVIRONMENT-VARIABLE DETERMINES THE HOST, THEN EVALUATE IT IMMEDIATELY:
789	# VALUE OF do-remote IS REQUIRED FOR THE FILE CONNECTIONS (COPY OF I/O FILES).
790	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MASCHINE, A BATCH-JOB
791	# MUST HAVE TO BE STARTED
792	if [[ $var = host ]]
793	then
794	if [[ -n $host && "$host" != $localhost ]]
795	then
796	do_batch=true
797	do_remote=true
798	case $host in
799	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lceddy\|lckyoto\|lcocean\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
800	(*) printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
801	printf "\n is not available"
802	locat=nqs; exit;;
803	esac
804	else
805	host=$localhost
806	fi
807	fi
808
809	# USER-DEFINED ENVIRONMENT VARIABLES MUST BE EXPORTED,
810	# BECAUSE THEY MAY BE REQUIRED IN OTHER SCRIPTS CALLED
811	# BY MRUN (E.G. subjob)
812	export $var
813	fi
814
815
816
817
818	elif [[ "$(echo $zeile \| cut -c1-3)" = "EC:" ]]
819	then
820
821	# LINE DEFINES ERROR-COMMAND
822	(( iec = iec + 1 ))
823	zeile=$(echo $zeile \| cut -c4-)
824	err_command[$iec]="$zeile"
825
826	elif [[ "$(echo $zeile \| cut -c1-3)" = "IC:" ]]
827	then
828
829	# LINE DEFINES INPUT-COMMAND
830	(( iic = iic + 1 ))
831	zeile=$(echo $zeile \| cut -c4-)
832	in_command[$iic]="$zeile"
833
834	elif [[ "$(echo $zeile \| cut -c1-3)" = "OC:" ]]
835	then
836
837	# LINE DEFINES OUTPUT-COMMAND
838	(( ioc = ioc + 1 ))
839	zeile=$(echo $zeile \| cut -c4-)
840	out_command[$ioc]="$zeile"
841
842	else
843
844	# LINE DEFINES FILE CONNECTION. READ THE FILE ATTRIBUTES.
845	# s2a: in/out - field
846	# s2b: loc - field (optional)
847	# s2c: tr/ar - field (optional)
848	s1=`echo $zeile \| cut -d" " -f1`
849	s2=`echo $zeile \| cut -d" " -s -f2`
850	s2a=$(echo $s2 \| cut -d":" -f1)
851	if [[ $(echo $s2 \| grep -c ":") = 0 ]]
852	then
853	s2b=""
854	s2c=""
855	else
856	s2b=`echo $s2 \| cut -d":" -f2 \| sed 's/:/ /g'`
857	s2c=`echo $s2 \| cut -d":" -s -f3 \| sed 's/:/ /g'`
858	fi
859	s3=`echo $zeile \| cut -d" " -f3`
860	s4=`echo $zeile \| cut -d" " -s -f4`
861	s5=`echo $zeile \| cut -d" " -s -f5`
862	s6=`echo $zeile \| cut -d" " -s -f6`
863
864
865	# STORE FILE CONNECTION, IF ACTIVATED BY ACTIVATION-STRING FROM
866	# INPUT- OR OUTPUT-LIST.
867	# VARIABLE S3 MAY CONTAIN A LIST OF ACTIVATION STRINGS (FIELD-SEPERATOR ":").
868	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MACHINE AND THE FILE IS ONLY
869	# LOCALLY REQUIRED ON THAT MACHINE (I.E. s2b = loc), THE FILE CONNECTION
870	# IS NOT CHECKED AND STORED.
871	IFSALT="$IFS"; IFS="$IFS:"
872	if [[ "$s2a" = in && ! ( $do_remote = true && ( "$s2b" = loc \|\| "$s2b" = locopt ) ) ]]
873	then
874	found=false
875	for actual in $input_list
876	do
877	for formal in $s3
878	do
879	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
880	done
881	done
882	if [[ $found = true ]]
883	then
884	(( iin = iin + 1 ))
885	localin[$iin]=$s1; transin[$iin]=$s2b; actionin[$iin]=$s2c;
886	typein[$iin]=$s3; pathin[$iin]=$s4; endin[$iin]=$s5;
887	extin[$iin]=$s6
888	fi
889	elif [[ "$s2a" = out && ! ( $do_remote = true && "$s2b" = loc ) ]]
890	then
891	found=false
892	for actual in $output_list
893	do
894	for formal in $s3
895	do
896	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
897	done
898	done
899	if [[ $found = true ]]
900	then
901	(( iout = iout + 1 ))
902	localout[$iout]=$s1; actionout[$iout]=$s2c; typeout[$iout]=$s3;
903	pathout[$iout]=$s4; endout[$iout]=$s5; extout[$iout]=$s6
904	fi
905	elif [[ "$s2a" != in && "$s2a" != out ]]
906	then
907	printf "\n +++ I/O-attribute in configuration file $config_file has the invalid"
908	printf "\n value \"$s2\". Only \"in\" and \"out\" are allowed!"
909	locat=connect; exit
910	fi
911	IFS="$IFSALT"
912	fi
913	done < $config_file
914
915	else
916
917	# EVALUATE THE CONFIGURATION-FILE BY FORTRAN-PROGRAM
918	[[ $silent = false ]] && printf "..."
919	interpreted_config_file=.icf.$RANDOM
920
921
922
923	# PROVIDE VALUES OF ENVIRONMENT-VARIABLE FOR interpret_config VIA NAMELIST-FILE
924	cat > .mrun_environment << EOF
925	&mrun_environment cond1 = '$cond1', cond2 = '$cond2',
926	config_file = '$config_file', do_remote = '$do_remote',
927	do_trace = '$do_trace', host = '$host',
928	input_list = '$input_list', icf = '$interpreted_config_file',
929	localhost = '$localhost', output_list = '$output_list' /
930
931	EOF
932
933	if [[ "$host" != $localhost ]]
934	then
935
936	# REMOTE JOB FROM LOCAL HOST: JUST TAKE THE FIRST EXECUTABLE FOUND
937	interpret_config_executable=`ls -1 ${PALM_BIN}/interpret_config*.x 2>/dev/null`
938	if [[ $? != 0 ]]
939	then
940	printf "\n\n +++ no interpret_config found"
941	printf "\n run \"mbuild -u -h ...\" to generate utilities for this host"
942	locat=interpret_config; exit
943	fi
944	interpret_config_executable=`echo $interpret_config_executable \| cut -d" " -f1`
945	$interpret_config_executable
946
947	else
948
949	# CHECK, IF THERE IS AN EXECUTABLE FOR THE BLOCK
950	if [[ ! -f ${PALM_BIN}/interpret_config${block}.x ]]
951	then
952	printf "\n\n +++ no interpret_config found for given block \"$cond1 $cond2\""
953	printf "\n run \"mbuild -u -h ...\" to generate utilities for this block"
954	locat=interpret_config; exit
955	else
956	interpret_config${block}.x
957	fi
958
959	fi
960	rm .mrun_environment
961
962
963	# EXECUTE SHELL-COMMANDS GENERATED BY interpret_config WITHIN THIS SHELL
964	chmod u+x $interpreted_config_file
965	export PATH=$PATH:.
966	. $interpreted_config_file
967	rm $interpreted_config_file
968
969	fi
970
971
972	# VALUES OF MRUN-OPTIONS OVERWRITE THOSE FROM THE CONFIGURATION-FILE
973	[[ $mrun_memory != 0 ]] && memory=$mrun_memory
974	[[ "$mrun_group_number" != "none" ]] && group_number=$mrun_group_number
975	[[ $mrun_cpumax != 0 ]] && cpumax=$mrun_cpumax
976	[[ "$mrun_numprocs" != "" ]] && numprocs=$mrun_numprocs
977	[[ "$max_par_io_str" != "" ]] && maximum_parallel_io_streams=$max_par_io_str
978	[[ "$mrun_tasks_per_node" != "" ]] && tasks_per_node=$mrun_tasks_per_node
979
980
981	# ON THE LOCAL MACHINE, DETERMINE (FROM THE CONFIGURATION-FILE) THE PATH
982	# FOR SOURCE-FILES TO BE COMPILED.
983	# IN A BATCH-JOB, SOURCES (ROUTINES TO BE COMPILED) ARE COMPLETE ALREADY.
984	# BEFORE MRUN IS CALLED IN THE JOB, SOURCES_COMPLETE = true IS ASSIGNED (SEE FURTHER BELOW).
985	if [[ "$SOURCES_COMPLETE" = "" ]]
986	then
987
988	# FIRST CHECK, IF A GLOBAL SOURCE PATH (TO BE USED FOR ALL HOSTS)
989	# HAS BEEN DEFINED
990	source_path=""
991	line=""
992	grep "%source_path" $config_file > tmp_mrun
993	while read line
994	do
995	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
996	then
997	if [[ "$(echo $line \| cut -d" " -f3)" = "" ]]
998	then
999	global_source_path=`echo $line \| cut -d" " -f2`
1000	fi
1001	fi
1002	done < tmp_mrun
1003
1004	line=""
1005	found=false
1006	grep " $localhost" $config_file \| grep "%source_path" > tmp_mrun
1007	while read line
1008	do
1009	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
1010	then
1011	if [[ $found = true ]]
1012	then
1013	printf "\n\n +++ more than one source path found in configuration file"
1014	printf "\n for local host \"$localhost\" "
1015	locat=source_path; exit
1016	fi
1017	source_path=`echo $line \| cut -d" " -f2`
1018	found=true
1019	fi
1020	done < tmp_mrun
1021	rm tmp_mrun
1022
1023	if [[ "$source_path" = "" ]]
1024	then
1025	if [[ "$global_source_path" != "" ]]
1026	then
1027	source_path=$global_source_path
1028	else
1029	printf "\n\n +++ no source path found in configuration file"
1030	printf "\n for local host \"$localhost\" "
1031	locat=source_path; exit
1032	fi
1033	fi
1034	eval source_path=$source_path
1035
1036	if [[ ! -d $source_path ]]
1037	then
1038	printf "\n\n +++ source path \"$source_path\" on local host"
1039	printf "\n \"$localhost\" does not exist"
1040	locat=source_path; exit
1041	fi
1042
1043	fi
1044
1045
1046	# GET THE GLOBAL REVISION-NUMBER OF THE SVN-REPOSITORY
1047	# (HANDED OVER TO RESTART-RUNS USING OPTION -G)
1048	if [[ "$global_revision" = "" && $host != "ibmkisti" ]]
1049	then
1050	global_revision=`svnversion $source_path 2>/dev/null`
1051	global_revision="Rev: $global_revision"
1052	fi
1053
1054
1055	# ??? das darf doch eigentlich garnicht passieren, weil optionen config-datei uebersteuern ???
1056	# CHECK AGAIN, IF EXECUTION SHALL BE DONE ON A REMOTE-HOST (BATCH-JOB).
1057	# (HOST MAY HAVE CHANGED DUE TO SETTINGS IN THE CONFIGURATION-FILE)
1058	if [[ -n $host && "$host" != $localhost ]]
1059	then
1060	do_batch=true
1061	do_remote=true
1062	case $host in
1063	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lceddy\|lckyoto\|lcocean\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
1064	(*) printf "\n"
1065	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
1066	printf "\n is not available"
1067	locat=nqs; (( iec = 0 )); exit;;
1068	esac
1069	else
1070	host=$localhost
1071	fi
1072
1073
1074
1075	# IN CASE OF PARALLEL EXECUTION, CHECK SOME SPECIFICATIONS CONCERNING PROCESSOR NUMBERS
1076	if [[ "$cond1" = parallel \|\| "$cond2" = parallel ]]
1077	then
1078
1079	# CHECK, IF NUMBER OF CORES TO BE USED HAS BEEN GIVEN
1080	if [[ ! -n $numprocs ]]
1081	then
1082	printf "\n"
1083	printf "\n +++ option \"-K parallel\" requires additional specification"
1084	printf "\n of the number of processors to be used by"
1085	printf "\n mrun-option \"-X\" or by environment-variable"
1086	printf "\n \"numprocs\" in the configuration file"
1087	locat=numprocs; (( iec = 0 )); exit
1088	fi
1089
1090	# CHECK, IF THE NUMBER OF CORES PER NODE HAS BEEN GIVEN UND IF IT IS AN
1091	# INTEGRAL DIVISOR OF THE TOTAL NUMBER OF CORES GIVEN BY OPTION -X
1092	if [[ "$tasks_per_node" = "" && $host != lcxt5m ]]
1093	then
1094	printf "\n"
1095	printf "\n +++ option \"-T\" (tasks per node) is missing"
1096	printf "\n set -T option or define tasks_per_node in the config file"
1097	locat=tasks_per_node; (( iec = 0 )); exit
1098	fi
1099
1100	if (( numprocs < tasks_per_node ))
1101	then
1102	printf "\n"
1103	printf "\n +++ tasks per node (-T) cannot exceed total number of processors (-X)"
1104	printf "\n given values: -T $tasks_per_node -X $numprocs"
1105	locat=tasks_per_node; (( iec = 0 )); exit
1106	fi
1107
1108	if [[ $host != lcxt5m ]]
1109	then
1110	(( nodes = numprocs / ( tasks_per_node * threads_per_task ) ))
1111	(( ival = $tasks_per_node ))
1112	(( pes = numprocs ))
1113	(( ii = pes / ival ))
1114	(( remaining_pes = pes - ii * ival ))
1115	if (( remaining_pes > 0 ))
1116	then
1117	printf "\n"
1118	printf "\n +++ WARNING: tasks per node (option \"-T\") is not an integral"
1119	printf "\n divisor of the total number of processors (option \"-X\")"
1120	printf "\n values of this mrun-call: \"-T $tasks_per_node\" \"-X $numprocs\""
1121	printf "\n One of the nodes is filled with $remaining_pes instead of $tasks_per_node tasks"
1122	(( nodes = nodes + 1 ))
1123	fi
1124	fi
1125
1126
1127	# SETTINGS FOR SUBJOB-COMMAND
1128	OOPT="-O $threads_per_task"
1129
1130	# SET THE TOTAL NUMBER OF NODES, REQUIRED FOR THE SUBJOB-COMMAND (SEE FURTHER BELOW)
1131	if [[ "$tasks_per_node" != "" ]]
1132	then
1133	TOPT="-T $tasks_per_node"
1134	fi
1135
1136	# CHECK node_usage FOR ALLOWED VALUES AND SET DEFAULT VALUE, IF NECESSARY
1137	if [[ $node_usage = default ]]
1138	then
1139	if [[ $host = ibms ]]
1140	then
1141	node_usage=shared
1142	else
1143	node_usage=not_shared
1144	fi
1145	fi
1146
1147	if [[ $node_usage != shared && $node_usage != not_shared && $node_usage != singlejob && "$(echo $node_usage \| cut -c1-3)" != "sla" ]]
1148	then
1149	printf "\n"
1150	printf "\n +++ node usage (option \"-n\") is only allowed to be set"
1151	printf "\n \"shared\" or \"not_shared\""
1152	locat=tasks_per_node; (( iec = 0 )); exit
1153	fi
1154
1155	fi
1156
1157	# CHECK IF HOSTFILE EXISTS
1158	if [[ -n $hostfile ]]
1159	then
1160	if [[ ! -f $hostfile ]]
1161	then
1162	printf "\n"
1163	printf "\n +++ hostfile \"$hostfile\" does not exist"
1164	locat=hostfile; exit
1165	fi
1166	fi
1167
1168
1169	# SET DEFAULT VALUE FOR THE MAXIMUM NUMBER OF PARALLEL IO STREAMS
1170	if [[ "$maximum_parallel_io_streams" = "" ]]
1171	then
1172	maximum_parallel_io_streams=$numprocs
1173	fi
1174
1175
1176	# SET PORT NUMBER OPTION FOR CALLS OF SSH/SCP, subjob AND batch_scp SCRIPTS
1177	if [[ "$scp_port" != "" ]]
1178	then
1179	PORTOPT="-P $scp_port"
1180	SSH_PORTOPT="-p $scp_port"
1181	fi
1182
1183
1184	# DETERMINE THE SSH-OPTION IN CASE THAT AN SSH-KEY IS EXPLICITLY GIVEN IN THE
1185	# CONFIG-FILE
1186	if [[ "$ssh_key" != "" ]]
1187	then
1188	ssh_key="-i $HOME/.ssh/$ssh_key"
1189	fi
1190
1191
1192	# SET DEFAULT-QUEUE, IF NOT GIVEN
1193	if [[ $queue = none ]]
1194	then
1195	case $host in
1196	(ibmh) queue=cluster;;
1197	(ibmkisti) queue=class.32plus;;
1198	(lcbullhh) queue=compute;;
1199	(lccrayb) queue=mpp1q;;
1200	(lccrayh) queue=mpp1q;;
1201	(lckiaps) queue=normal;;
1202	(lckyoto) queue=ph;;
1203	(lckyuh) queue=fx-single;;
1204	(lckyut) queue=cx-single;;
1205	(lctit) queue=S;;
1206	(unics) queue=unics;;
1207	esac
1208	fi
1209
1210
1211	# GENERATE FULL FILENAMES OF INPUT-FILES, INCLUDING THEIR PATH
1212	# CHECK, IF INPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST)
1213	(( i = 0 ))
1214	while (( i < iin ))
1215	do
1216	(( i = i + 1 ))
1217	(( maxcycle = 0 ))
1218
1219	# GENERATE PATH AND FULL FILE NAME (then-BRANCH: FIXED FULL NAME IS GIVEN, I.E. THE
1220	# FILE IDENTIFIER IS NOT PART OF THE FILENAME))
1221	if [[ "${actionin[$i]}" = di ]]
1222	then
1223	remotepathin[$i]=${pathin[$i]}/${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
1224	# HOST ONLY
1225	eval filename=${pathin[$i]}/${endin[$i]}
1226	else
1227	remotepathin[$i]=${pathin[$i]}/${afname}${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
1228	# HOST ONLY
1229	eval filename=${pathin[$i]}/${afname}${endin[$i]}
1230	fi
1231	eval pathname=${pathin[$i]}
1232
1233	# CHECK IF FILE EXISTS
1234	if ! ls $filename* 1>/dev/null 2>&1
1235	then
1236
1237	# FILES WITH ATTRIBUTE locopt ARE OPTIONAL. NO ABORT, IF THEY DO NOT EXIST.
1238	if [[ "${transin[$i]}" != "locopt" ]]
1239	then
1240	printf "\n\n +++ INPUT-file: "
1241	if [[ "${extin[$i]}" = "" \|\| "${extin[$i]}" = " " ]]
1242	then
1243	printf "\n $filename"
1244	else
1245	printf "\n $filename.${extin[$i]}"
1246	fi
1247	printf "\n does not exist\n"
1248	locat=input; exit
1249	else
1250	transin[$i]="unavailable"
1251	fi
1252	else
1253
1254	# DETERMINE THE FILE'S CYCLE NUMBER
1255	ls -1 -d $filename > filelist 2>/dev/null
1256	ls -1 -d $filename.* >> filelist 2>/dev/null
1257	while read zeile
1258	do
1259	# filename without path (i.e. after the last "/")
1260	basefilename=$(basename ${zeile})
1261
1262	# check if there is an extension
1263	extension=${basefilename##*.}
1264	if [[ "$extension" = "$extin[$i]" ]]
1265	then
1266	basefilename=${basefilename&.*}
1267	fi
1268
1269	# check for an existing cycle number
1270	cycle=${basefilename##*.}
1271	if [[ $cycle =~ ^-?[0-9]+$ ]]
1272	then
1273	(( icycle = $cycle ))
1274	else
1275	(( icycle = 0 ))
1276	fi
1277
1278	if (( icycle > maxcycle ))
1279	then
1280	(( maxcycle = icycle ))
1281	fi
1282
1283	# cycle=$(echo $zeile \| cut -f2 -d".")
1284	# if [[ "$cycle" = "$zeile" ]]
1285	# then
1286	# (( icycle = 0 ))
1287	# elif [[ "$cycle" = "${extin[$i]}" ]]
1288	# then
1289	# (( icycle = 0 ))
1290	# else
1291	# (( icycle = $cycle ))
1292	# fi
1293	# if (( icycle > maxcycle ))
1294	# then
1295	# (( maxcycle = icycle ))
1296	# fi
1297	done <filelist
1298	rm filelist
1299
1300	# APPEND CYCLE NUMBER TO FILENAME
1301	if (( maxcycle > 0 ))
1302	then
1303	if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]]
1304	then
1305	filename=${filename}.$maxcycle.${extin[$i]}
1306	else
1307	filename=${filename}.$maxcycle
1308	fi
1309	else
1310	if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]]
1311	then
1312	filename=${filename}.${extin[$i]}
1313	fi
1314	fi
1315
1316	# STORE FILENAME WITHOUT PATH BUT WITH CYCLE NUMBER,
1317	# IS LATER USED FOR TRANSFERRING FILES WIHIN THE JOB (SEE END OF FILE)
1318	absnamein[$i]=$filename
1319	if (( maxcycle > 0 ))
1320	then
1321	if [[ "${actionin[$i]}" = di ]]
1322	then
1323	frelin[$i]=${endin[$i]}.$maxcycle
1324	else
1325	frelin[$i]=${afname}${endin[$i]}.$maxcycle
1326	fi
1327	else
1328	if [[ "${actionin[$i]}" = di ]]
1329	then
1330	frelin[$i]=${endin[$i]}
1331	else
1332	frelin[$i]=${afname}${endin[$i]}
1333	fi
1334	fi
1335
1336	fi
1337	done
1338
1339	# GENERATE FULL FILENAMES OF OUTPUT-FILES (WITHOUT $ OR ~),
1340	# CHECK, IF OUTPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST),
1341	# OR, IN CASE THAT FILE DOES NOT EXIST, CHECK, IF IT CAN BE CREATED
1342	# THESE ACTIONS ARE NOT CARRIED OUT, IF FILES SHALL BE TRASFERRED FROM THE REMOTE TO
1343	# THE LOCAL HOST (BECAUSE THEIR IS NO DIRECT ACCESS TO THE LOCAL DIRECTORIES FROM THE
1344	# REMOTE HOST)
1345	(( i = 0 ))
1346	while (( i < iout ))
1347	do
1348	(( i = i + 1 ))
1349	if [[ ! ( $fromhost != $localhost && ( "${actionout[$i]}" = tr \|\| "${actionout[$i]}" = tra \|\| "${actionout[$i]}" = trpe ) ) ]]
1350	then
1351	if [[ "${actionout[$i]}" = tr ]]
1352	then
1353	actionout[$i]=""
1354	elif [[ "${actionout[$i]}" = trpe ]]
1355	then
1356	actionout[$i]=pe
1357	elif [[ "${actionout[$i]}" = tra ]]
1358	then
1359	actionout[$i]=a
1360	fi
1361	(( maxcycle = 0 ))
1362	eval filename=${pathout[$i]}/${fname}${endout[$i]}
1363	eval catalogname=${pathout[$i]}
1364	if ! ls $filename* 1>/dev/null 2>&1
1365	then
1366
1367	# IF OUTPUT-FILE DOES NOT EXIST CHECK, IF IT CAN BE CREATED
1368	if cat /dev/null > $filename
1369	then
1370	rm $filename
1371	else
1372
1373	# CHECK, IF THE DIRECTORY WHERE FILE SHALL BE COPIED TO EXISTS
1374	# IF IT DOES NOT EXIST, TRY TO CREATE IT
1375	if [[ ! -d $catalogname ]]
1376	then
1377	if mkdir -p $catalogname
1378	then
1379	printf "\n\n *** directory:"
1380	printf "\n $catalogname"
1381	printf "\n was created\n"
1382	echo "### filename = $filename"
1383	else
1384	printf "\n\n +++ OUTPUT-file:"
1385	printf "\n $filename"
1386	printf "\n cannot be created, because directory does not exist"
1387	printf "\n and cannot be created either"
1388	printf "\n"
1389	locat=output ; exit
1390	fi 2>/dev/null
1391	else
1392	printf "\n\n +++ OUTPUT-file:"
1393	printf "\n $filename"
1394	printf "\n cannot be created, although directory exists"
1395	printf "\n"
1396	locat=output ; exit
1397	fi
1398	fi 2>/dev/null
1399	else
1400
1401	# DETERMINE THE CYCLE NUMBER
1402	ls -1 -d $filename > filelist 2>/dev/null
1403	ls -1 -d $filename.* >> filelist 2>/dev/null
1404	while read zeile
1405	do
1406
1407	# filename without path (i.e. after the last "/")
1408	basefilename=$(basename ${zeile})
1409
1410	# check if there is an extension
1411	extension=${basefilename##*.}
1412	if [[ "$extension" = "${extout[$i]}" ]]
1413	then
1414	basefilename=${basefilename%.*}
1415	fi
1416
1417	# check for an existing cycle number
1418	cycle=${basefilename##*.}
1419	if [[ $cycle =~ ^-?[0-9]+$ ]]
1420	then
1421	(( icycle = $cycle + 1 ))
1422	else
1423	(( icycle = 1 ))
1424	fi
1425
1426	if (( icycle > maxcycle ))
1427	then
1428	(( maxcycle = icycle ))
1429	fi
1430
1431	done <filelist
1432	rm filelist
1433	fi
1434
1435	# APPEND CYCLE NUMBER TO FILENAME AND CHECK, IF FILE CAN BE CREATED
1436	# IN CASE OF FILE-APPEND, FILE MUST BE APPENDED TO THE ONE WITH HIGHEST CYCLE NUMBER
1437	if [[ "${actionout[$i]}" != a ]]
1438	then
1439	if (( maxcycle > 0 ))
1440	then
1441	filename_tmp=${filename}.$maxcycle
1442	if cat /dev/null > $filename_tmp
1443	then
1444	rm $filename_tmp
1445	else
1446	printf "\n +++ OUTPUT-file:"
1447	printf "\n $filename_tmp"
1448	printf "\n cannot be created"
1449	locat=output ; exit
1450	fi
1451	fi
1452	else
1453	(( maxcycle = maxcycle - 1 ))
1454	fi
1455
1456	(( cycnum[$i] = maxcycle ))
1457	pathout[$i]=$filename
1458
1459	fi
1460	done
1461
1462
1463	# THE DVR-PACKAGE REQUIRES ITS OWN LIBRARY
1464	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
1465	then
1466	if [[ "$dvr_inc" = "" ]]
1467	then
1468	printf "\n\n +++ no value for \"dvr_inc\" given in configuration file"
1469	printf "\n This is required for the dvrp_graphics package.\n"
1470	locat=dvr; exit
1471	fi
1472	if [[ "$dvr_lib" = "" ]]
1473	then
1474	printf "\n\n +++ no value for \"dvr_lib\" given in configuration file"
1475	printf "\n This is required for the dvrp_graphics package.\n"
1476	locat=dvr; exit
1477	fi
1478	fi
1479
1480
1481	# CHECK, WETHER A MAIN PROGRAM OR AN EXECUTABLE HAVE BEEN DECLARED.
1482	# EXECUTABLES DO NOT NEED TO BE COMPILED.
1483	if [[ "$mainprog" = "" && "$executable" = "" ]]
1484	then
1485	printf "\n +++ neither main program nor executable defined"
1486	locat=source; exit
1487	elif [[ "$mainprog" != "" && "$executable" != "" ]]
1488	then
1489	printf "\n +++ main program as well as executable defined"
1490	locat=source; exit
1491	elif [[ "$mainprog" = "" && "$executable" != "" ]]
1492	then
1493	do_compile=false
1494	fi
1495
1496
1497	# CREATE SOURCE-DIRECTORY TO COLLECT ROUTINES TO BE COMPILED.
1498	# LATER THE MRUN-SCRIPT AND CONFIGURATION-FILE WILL ALSO BE COPIED TO THIS DIRECTORY.
1499	if [[ $restart_run != true && "$SOURCES_COMPLETE" = "" ]]
1500	then
1501	rm -rf SOURCES_FOR_RUN_$fname
1502	mkdir SOURCES_FOR_RUN_$fname
1503	fi
1504
1505
1506	# COLLECT ALL ROUTINES TO BE COMPILED
1507	# THIS IS NOT REQUIRED WITHIN BATCH-JOBS, BECAUSE ROUTINES HAVE ALREADY BEEN COLLECTED
1508	# BY THE MRUN-CALL WHICH CREATED THE BATCH-JOB.
1509	if [[ $do_compile = true && "$SOURCES_COMPLETE" = "" ]]
1510	then
1511
1512	[[ "$source_list" = LM ]] && source_list=LOCALLY_MODIFIED
1513
1514	if [[ "$source_list" = LOCALLY_MODIFIED ]]
1515	then
1516
1517	# DETERMINE MODIFIED FILES OF THE SVN WORKING COPY
1518	source_list=""
1519	cd $source_path
1520
1521
1522	# CHECK, IF DIRECTORY IS UNDER SVN CONTROL
1523	if [[ ! -d .svn ]]
1524	then
1525	printf "\n\n +++ source directory"
1526	printf "\n \"$source_path\" "
1527	printf "\n is not under control of \"subversion\"."
1528	printf "\n Please do not use mrun-option \"-s LOCALLY_MODIFIED\"\n"
1529	fi
1530
1531
1532	# LIST ALL MODIFIED SOURCE CODE FILES
1533	Filenames=""
1534	svn status > tmp_mrun
1535	while read line
1536	do
1537	firstc=`echo $line \| cut -c1`
1538	if [[ $firstc = M \|\| $firstc = "?" ]]
1539	then
1540	Name=`echo "$line" \| cut -c8-`
1541	extension=`echo $Name \| cut -d. -f2`
1542	if [[ "$extension" = f90 \|\| "$extension" = F90 \|\| "$extension" = f \|\| "$extension" = F \|\| "$extension" = c ]]
1543	then
1544	Filenames="$Filenames "$Name
1545	fi
1546	fi
1547	done < tmp_mrun
1548
1549
1550	# COPY FILES TO SOURCES_FOR_RUN_...
1551	for dateiname in $Filenames
1552	do
1553	cp $dateiname $working_directory/SOURCES_FOR_RUN_$fname
1554	source_list=$source_list"$dateiname "
1555	done
1556
1557	cd - > /dev/null
1558
1559
1560	# COPY FILES GIVEN BY OPTION -s TO DIRECTORY SOURCES_FOR_RUN_...
1561	# AUTOMATIC RESTART RUNS JUST ACCESS THE DIRECTORY CREATED BY THE INITIAL RUN
1562	elif [[ "$source_list" != "" && $restart_run != true ]]
1563	then
1564
1565	cd $source_path
1566
1567	for filename in $source_list
1568	do
1569
1570	# SOURCE CODE FILE IS NOT ALLOWED TO INCLUDE PATH
1571	if [[ $(echo $filename \| grep -c "/") != 0 ]]
1572	then
1573	printf "\n +++ source code file: $filename"
1574	printf "\n must not contain (\"/\") "
1575	locat=source; exit
1576	fi
1577
1578	if [[ ! -f $filename ]]
1579	then
1580	printf "\n +++ source code file: $filename"
1581	printf "\n does not exist"
1582	locat=source; exit
1583	else
1584	cp $filename $working_directory/SOURCES_FOR_RUN_$fname
1585	fi
1586
1587	done
1588
1589	cd - > /dev/null
1590
1591	fi
1592
1593
1594	# CHECK, IF A MAIN PROGRAM EXISTS AND IF IT IS PART OF THE LIST OF FILES
1595	# TO BE COMPILED. IF NOT, ADD IT TO THE LIST.
1596	if [[ $restart_run != true ]]
1597	then
1598
1599	if [[ ! -f "$source_path/$mainprog" ]]
1600	then
1601	printf "\n\n +++ main program: $mainprog"
1602	printf "\n does not exist in source directory"
1603	printf "\n \"$source_path\"\n"
1604	locat=source; exit
1605	else
1606	if [[ $(echo $source_list \| grep -c $mainprog) = 0 ]]
1607	then
1608	cp $source_path/$mainprog SOURCES_FOR_RUN_$fname
1609	source_list=${mainprog}" $source_list"
1610	fi
1611	fi
1612	fi
1613
1614
1615	# CHECK, IF MAKEFILE EXISTS AND COPY IT TO THE SOURCES_FOR_RUN... DIRECTORY
1616	# NOT REQUIRED FOR RESTART RUNS, SOURCES_FOR_RUN... HAS BEEN CREATED BY THE INITIAL RUN
1617	if [[ "$restart_run" != true ]]
1618	then
1619	[[ "$makefile" = "" ]] && makefile=$source_path/Makefile
1620	if [[ ! -f $makefile ]]
1621	then
1622	printf "\n +++ file \"$makefile\" does not exist"
1623	locat=make; exit
1624	else
1625	cp $makefile SOURCES_FOR_RUN_$fname/Makefile
1626	fi
1627	fi
1628
1629
1630	# COPY FILES FROM OPTIONAL SOURCE PATH GIVEN IN THE CONFIGURATION FILE
1631	if [[ $restart_run != true && "$add_source_path" != "" ]]
1632	then
1633
1634	# DOES THE DIRECTORY EXIST?
1635	if [[ ! -d $add_source_path ]]
1636	then
1637	printf "\n\n *** INFORMATIVE: additional source code directory"
1638	printf "\n \"$add_source_path\" "
1639	printf "\n does not exist or is not a directory."
1640	printf "\n No source code will be used from this directory!\n"
1641	add_source_path=""
1642	if [[ $silent == false ]]
1643	then
1644	sleep 3
1645	fi
1646	else
1647
1648	cd $add_source_path
1649	found=false
1650
1651	Names=$(ls -1 *.f90 2>&1)
1652	[[ $(echo $Names \| grep -c '*.f90') = 0 ]] && AddFilenames="$Names"
1653	Names=$(ls -1 *.F90 2>&1)
1654	[[ $(echo $Names \| grep -c '*.F90') = 0 ]] && AddFilenames="$AddFilenames $Names"
1655	Names=$(ls -1 *.F 2>&1)
1656	[[ $(echo $Names \| grep -c '*.F') = 0 ]] && AddFilenames="$AddFilenames $Names"
1657	Names=$(ls -1 *.f 2>&1)
1658	[[ $(echo $Names \| grep -c '*.f') = 0 ]] && AddFilenames="$AddFilenames $Names"
1659	Names=$(ls -1 *.c 2>&1)
1660	[[ $(echo $Names \| grep -c '*.c') = 0 ]] && AddFilenames="$AddFilenames $Names"
1661
1662	cd - > /dev/null
1663	cd SOURCES_FOR_RUN_$fname
1664
1665	# COPY MAKEFILE IF EXISTING
1666	if [[ -f $add_source_path/Makefile ]]
1667	then
1668	printf "\n\n *** user Makefile from directory"
1669	printf "\n \"$add_source_path\" is used \n"
1670	if [[ $silent == false ]]
1671	then
1672	sleep 1
1673	fi
1674	cp $add_source_path/Makefile .
1675	fi
1676
1677	for dateiname in $AddFilenames
1678	do
1679	if [[ -f $dateiname ]]
1680	then
1681	printf "\n +++ source code file \"$dateiname\" found in additional"
1682	printf "\n source code directory \"$add_source_path\" "
1683	printf "\n but was also given with option \"-s\" which means that it should be taken"
1684	printf "\n from directory \"$source_path\"."
1685	locat=source; exit
1686	fi
1687
1688	cp $add_source_path/$dateiname .
1689	source_list="$source_list $dateiname"
1690
1691	# CHECK IF FILE IS CONTAINED IN MAKEFILE
1692	if [[ $(grep -c $dateiname Makefile) = 0 ]]
1693	then
1694	printf "\n\n +++ user file \"$dateiname\" "
1695	printf "\n is not listed in Makefile \n"
1696	locat=source; exit
1697	else
1698
1699	if [[ $found = false ]]
1700	then
1701	found=true
1702	printf "\n\n *** following user file(s) added to the"
1703	printf " files to be translated:\n "
1704	fi
1705	printf "$dateiname "
1706	if [[ $silent == false ]]
1707	then
1708	sleep 0.5
1709	fi
1710
1711	fi
1712	done
1713	[[ $found = true ]] && printf "\n"
1714	cd - > /dev/null
1715	fi
1716	fi
1717
1718
1719	# ADD ALL ROUTINES BELONGING TO SOFTWARE PACKAGES (GIVEN BY OPTION -p)
1720	# TO THE LIST OF FILES TO BE COMPILED
1721	if [[ $restart_run != true && -n $package_list ]]
1722	then
1723
1724	cd $source_path
1725
1726	for package in $package_list
1727	do
1728
1729	[[ $package = "dvrp_graphics+1PE" ]] && package=dvrp_graphics
1730
1731	# DETERMINE FILES BELONGING TO THE PACKAGE
1732	# ERROR MESSAGE ARE REDIRECTED TO /dev/null, BECAUSE WILDCARD (*) ALSO GIVES
1733	# THE NAME OF THE DIRECTORY
1734	package_source_list=`grep "defined( __$package " * 2>/dev/null \| cut -f1 -d:`
1735
1736
1737	# ADD THESE FILES TO THE LIST OF FILES TO BE COMPILED,
1738	# IF THEY ARE NOT ALREADY PART OF THE LIST
1739	for source_list_name in $package_source_list
1740	do
1741	if [[ $(echo $source_list \| grep -c $source_list_name) = 0 ]]
1742	then
1743
1744	# ONLY TAKE FILES WITH VALID SUFFIX
1745	ending=`echo $source_list_name \| cut -f2 -d.`
1746	if [[ "$ending" = f90 \|\| "$ending" = F90 \|\| "$ending" = f \|\| "$ending" = F \|\| "$ending" = c ]]
1747	then
1748	cp $source_list_name $working_directory/SOURCES_FOR_RUN_$fname
1749	source_list="$source_list $source_list_name"
1750	fi
1751	fi
1752	done
1753	done
1754
1755	cd - > /dev/null
1756	fi
1757
1758	fi # do_compile=true
1759
1760
1761	# IF SOURCE CODE IS TO BE COMPILED, DO SOME MORE CHECKS
1762	# AND SET PRE-PROCESSOR DIRECTIVES
1763	if [[ $do_compile = true \|\| $create_executable_for_batch = true ]]
1764	then
1765
1766	# SET PREPROCESSOR-DIRECTIVES TO SELECT OPERATING SYSTEM SPECIFIC CODE
1767	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1768	then
1769	cpp_options="${cpp_options},-D__ibm=__ibm"
1770	elif [[ $(echo $localhost \| cut -c1-3) = nec ]]
1771	then
1772	cpp_options="$cpp_options -D__nec"
1773	elif [[ $(echo $localhost \| cut -c1-2) = lc ]]
1774	then
1775	cpp_options="$cpp_options -D__lc"
1776	else
1777	cpp_options="$cpp_options -D__$localhost"
1778	fi
1779
1780	# SET DIRECTIVES GIVEN BY OPTION -K (E.G. parallel)
1781	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1782	then
1783	[[ -n $cond1 ]] && cpp_options="${cpp_options},-D__$cond1=__$cond1"
1784	[[ -n $cond2 ]] && cpp_options="${cpp_options},-D__$cond2=__$cond2"
1785	else
1786	[[ -n $cond1 ]] && cpp_options="$cpp_options -D__$cond1"
1787	[[ -n $cond2 ]] && cpp_options="$cpp_options -D__$cond2"
1788	fi
1789
1790	# SET DIRECTIVES FOR ACTIVATING SOFTWARE-PACKAGES (OPTION -p)
1791	if [[ -n $package_list ]]
1792	then
1793	for package in $package_list
1794	do
1795	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1796	then
1797	if [[ $package != "dvrp_graphics+1PE" ]]
1798	then
1799	cpp_options="${cpp_options},-D__$package=__$package"
1800	else
1801	cpp_options="${cpp_options},-D__dvrp_graphics=__dvrp_graphics"
1802	export use_seperate_pe_for_dvrp_output=true
1803	fi
1804	else
1805	if [[ $package != "dvrp_graphics+1PE" ]]
1806	then
1807	cpp_options="$cpp_options -D__$package"
1808	else
1809	cpp_options="$cpp_options -D__dvrp_graphics"
1810	export use_seperate_pe_for_dvrp_output=true
1811	fi
1812	fi
1813	done
1814	fi
1815
1816	# SET DIRECTIVES GIVEN BY OPTION -D
1817	if [[ -n $cpp_opts ]]
1818	then
1819	for popts in $cpp_opts
1820	do
1821	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1822	then
1823	cpp_options="${cpp_options},-D__$popts=__$popts"
1824	else
1825	cpp_options="$cpp_options -D__$popts"
1826	fi
1827	done
1828	fi
1829
1830	else
1831
1832
1833	# FOR LOCAL RUNS CHECK AGAIN, IF EXECUTABLE EXISTS
1834	if [[ $do_remote = false ]]
1835	then
1836	if [[ ! -f $executable ]]
1837	then
1838	printf "\n +++ executable file: $executable"
1839	printf "\n does not exist"
1840	locat=executable; exit
1841	fi
1842	fi
1843	fi
1844
1845
1846	# DETERMINE THE JOB MODE
1847	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1848	then
1849	if [[ "$LOADLBATCH" = yes ]]
1850	then
1851	batch_job=.TRUE.
1852	jobmo=BATCH
1853	else
1854	batch_job=.FALSE.
1855	jobmo=INTERACTIVE
1856	fi
1857	else
1858	if [[ "$ENVIRONMENT" = BATCH \|\| "$PJM_ENVIRONMENT" = BATCH ]]
1859	then
1860	batch_job=.TRUE.
1861	jobmo=BATCH
1862	else
1863	batch_job=.FALSE.
1864	jobmo=INTERACTIVE
1865	fi
1866	fi
1867
1868	# NO INTERACTIVE RUNS ALLOWED ON LCTIT
1869	if [[ $host = lctit && $jobmo = INTERACTIVE && $do_batch = false ]]
1870	then
1871	printf "\n +++ no interactive runs allowed on host \"$host\" "
1872	printf "\n please submit batch job using mrun option \"-b\" \n"
1873	locat=normal; exit
1874	fi
1875
1876
1877	# CHECK, IF USER DEFINED A COMPILER
1878	if [[ "$compiler_name" = "" ]]
1879	then
1880
1881	printf "\n +++ no compiler specified for \"$host $cond1 $cond2\""
1882	locat=compiler_name; exit
1883
1884	fi
1885
1886
1887	# DETERMINE THE NAME OF MRUN'S TEMPORARY WORKING DIRECTORY
1888
1889	# ON HLRN-III, USE THE QUEUING NAME. OTHERWISE USE USERNAME AND RANDOM NUMBER
1890	if [[ $do_batch = false && $(echo $host \| cut -c1-6) = lccray ]]
1891	then
1892	kennung=$(checkjob $PBS_JOBID \| grep Reservation \| cut -d" " -s -f2 \| cut -d"." -s -f2 \| sed "s/['\"]//g")
1893	if [[ "$kennung" = "" ]]
1894	then
1895	kennung=$RANDOM
1896	fi
1897	else
1898	kennung=$RANDOM
1899	fi
1900
1901	if [[ "$tmp_user_catalog" = "" ]]
1902	then
1903	if [[ $localhost = ibmh ]]
1904	then
1905	tmp_user_catalog=$SCRATCH
1906	else
1907	tmp_user_catalog=/tmp
1908	fi
1909	fi
1910	TEMPDIR=$tmp_user_catalog/${usern}.$kennung
1911
1912
1913	# DETERMINE THE NAME OF THE DIRECTORY WHICH IS USED TO TEMPORARILY STORE DATA FOR RESTART RUNS
1914	if [[ "$tmp_data_catalog" = "" ]]
1915	then
1916	tmp_data_catalog=/tmp/mrun_restart_data
1917	fi
1918
1919
1920	# IN CASE OF LOCAL RUNS REPLACE ENVIRONMENT VARIABLES BY THEIR VALUES
1921	if [[ $do_remote = false && $do_compile = true \|\| $create_executable_for_batch = true ]]
1922	then
1923	eval fopts=\"$fopts\"
1924	eval lopts=\"$lopts\"
1925	fi
1926
1927
1928	# DETERMINE COMPILE- AND LINK-OPTIONS
1929	fopts="$fopts $netcdf_inc $fftw_inc $dvr_inc"
1930	lopts="$lopts $netcdf_lib $fftw_lib $dvr_lib"
1931	XOPT="-X $numprocs"
1932
1933
1934	# CHECK THE CPU-LIMIT. IT MUST BE GIVEN FOR BATCH-JOBS AND IS COMMUNICATED TO THE
1935	# EXECUTABLE VIA NAMELIST-PARAMETER cputime
1936	done=false
1937	while [[ $done = false ]]
1938	do
1939	cputime=$cpumax
1940	if (( $cputime == 0 ))
1941	then
1942	if [[ $do_batch = true ]]
1943	then
1944	printf "\n +++ cpu-time is undefined"
1945	printf "\n >>> Please type CPU-time in seconds as INTEGER:"
1946	printf "\n >>> "
1947	read cputime 1>/dev/null 2>&1
1948	else
1949	cputime=10000000 # NO CPU LIMIT FOR INTERACTIVE RUNS
1950	fi
1951	else
1952	done=true
1953	fi
1954	cpumax=$cputime
1955	done
1956
1957	(( minuten = cputime / 60 ))
1958	(( sekunden = cputime - minuten * 60 ))
1959
1960
1961	# CHECK THE MEMORY DEMAND
1962	if [[ $do_batch = true ]]
1963	then
1964	done=false
1965	while [[ $done = false ]]
1966	do
1967	if (( memory == 0 ))
1968	then
1969	printf "\n +++ memory demand is undefined"
1970	printf "\n >>> Please type memory in MByte per process as INTEGER:"
1971	printf "\n >>> "
1972	read memory 1>/dev/null 2>&1
1973	else
1974	done=true
1975	fi
1976	done
1977	fi
1978
1979
1980	# IN CASE OF REMOTE-JOBS CHECK, IF A USERNAME FOR THE REMOTE HOST IS GIVEN
1981	if [[ $do_remote = true && -z $remote_username ]]
1982	then
1983	while [[ -z $remote_username ]]
1984	do
1985	printf "\n +++ username on remote host \"$host\" is undefined"
1986	printf "\n >>> Please type username:"
1987	printf "\n >>> "
1988	read remote_username
1989	done
1990	mc="$mc -u$remote_username"
1991	fi
1992
1993	# CHECK FOR INITIAL COMMANDS AFTER LOGIN
1994	if [[ "$login_init_cmd" != "" ]]
1995	then
1996	export init_cmds="${login_init_cmd};"
1997	fi
1998
1999
2000	# SET THE MODULE-LOAD COMMAD AND EXPORT IT FOR subjob
2001	if [[ "$modules" != "" ]]
2002	then
2003	if [[ $host = lctit ]]
2004	then
2005	export module_calls=". $modules"
2006	else
2007	export module_calls="module load ${modules};"
2008	fi
2009	fi
2010
2011	# OUTPUT OF THE MRUN-HEADER
2012	calltime=$(date)
2013	printf "\n"
2014	printf "#------------------------------------------------------------------------# \n"
2015	printf "\| %-35s%35s \| \n" "$version" "$calltime"
2016	printf "\| \| \n"
2017	spalte1="called on:"; spalte2=$localhost_realname
2018	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2019	if [[ $do_remote = true ]]
2020	then
2021	spalte1="execution on:"; spalte2="$host (username: $remote_username)"
2022	else
2023	spalte1="execution on:"; spalte2="$host ($localhost_realname)"
2024	fi
2025	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2026	if [[ -n $numprocs ]]
2027	then
2028	if [[ $run_coupled_model = false ]]
2029	then
2030	spalte1="number of PEs:"; spalte2=$numprocs
2031	else
2032	spalte1="number of PEs:"; spalte2="$numprocs (atmosphere: $numprocs_atmos, ocean: $numprocs_ocean)"
2033	fi
2034	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2035	fi
2036	if [[ -n $tasks_per_node ]]
2037	then
2038	spalte1="tasks per node:"; spalte2="$tasks_per_node (number of nodes: $nodes)"
2039	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2040	if (( remaining_pes > 0 ))
2041	then
2042	spalte1=" "; spalte2="one of the nodes only filled with $remaining_pes tasks"
2043	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2044	fi
2045	fi
2046	if [[ $maximum_parallel_io_streams != $numprocs ]]
2047	then
2048	spalte1="max par io streams:"; spalte2="$maximum_parallel_io_streams"
2049	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2050	fi
2051	if [[ $use_openmp = true ]]
2052	then
2053	spalte1="threads per task:"; spalte2="$threads_per_task"
2054	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2055	fi
2056	printf "\| \| \n"
2057	if [[ $do_compile = true ]]
2058	then
2059	if [[ "$mopts" != "" ]]
2060	then
2061	spalte1="make options:"; spalte2=$(echo "$mopts" \| cut -c-45)
2062	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2063	zeile=$(echo "$mopts" \| cut -c46-)
2064	while [[ "$zeile" != "" ]]
2065	do
2066	spalte1=""
2067	spalte2=$(echo "$zeile" \| cut -c-45)
2068	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2069	zeile=$(echo "$zeile" \| cut -c46-)
2070	done
2071	fi
2072
2073	spalte1="cpp directives:"; spalte2=$(echo "$cpp_options" \| cut -c-45)
2074	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2075	zeile=$(echo "$cpp_options" \| cut -c46-)
2076	while [[ "$zeile" != "" ]]
2077	do
2078	spalte1=""
2079	spalte2=$(echo "$zeile" \| cut -c-45)
2080	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2081	zeile=$(echo "$zeile" \| cut -c46-)
2082	done
2083
2084	spalte1="compiler options:"; spalte2=$(echo "$fopts" \| cut -c-45)
2085	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2086	zeile=$(echo "$fopts" \| cut -c46-)
2087	while [[ "$zeile" != "" ]]
2088	do
2089	spalte1=""
2090	spalte2=$(echo "$zeile" \| cut -c-45)
2091	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2092	zeile=$(echo "$zeile" \| cut -c46-)
2093	done
2094
2095	spalte1="linker options:"; spalte2=$(echo "$lopts" \| cut -c-45)
2096	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2097	zeile=$(echo "$lopts" \| cut -c46-)
2098	while [[ "$zeile" != "" ]]
2099	do
2100	spalte1=""
2101	spalte2=$(echo "$zeile" \| cut -c-45)
2102	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2103	zeile=$(echo "$zeile" \| cut -c46-)
2104	done
2105
2106	spalte1="modules to be load:"; spalte2=$(echo "$modules" \| cut -c-45)
2107	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2108	zeile=$(echo "$modules" \| cut -c46-)
2109	while [[ "$zeile" != "" ]]
2110	do
2111	spalte1=""
2112	spalte2=$(echo "$zeile" \| cut -c-45)
2113	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2114	zeile=$(echo "$zeile" \| cut -c46-)
2115	done
2116
2117	spalte1="main program:"; spalte2=$mainprog
2118	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2119	else
2120	spalte1=executable:; spalte2=$executable
2121	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2122	fi
2123	printf "\| \| \n"
2124	spalte1="base name of files:"; spalte2=$fname
2125	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2126	if [[ $fname != $afname ]]
2127	then
2128	spalte1="base name of input files:"; spalte2=$afname
2129	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2130	fi
2131	spalte1="INPUT control list:"; spalte2=$(echo $input_list)
2132	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2133	spalte1="OUTPUT control list:"; spalte2=$(echo $output_list)
2134	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2135
2136	if [[ "$ocean_file_appendix" = true ]]
2137	then
2138	printf "\| %-35s%-35s \| \n" "suffix \"_O\" is added to local files" " "
2139	fi
2140
2141	if [[ $do_batch = true \|\| "$LOADLBATCH" = yes ]]
2142	then
2143	spalte1="memory demand / PE":; spalte2="$memory MB"
2144	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2145	spalte1=CPU-time:; spalte2="$minuten:$sekunden"
2146	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2147	fi
2148
2149	if [[ $do_compile = true ]]
2150	then
2151	printf "\| \| \n"
2152	printf "\| Files to be compiled: \| \n"
2153	zeile=$source_list
2154	while [[ "$zeile" != "" ]]
2155	do
2156	linestart=$(echo $zeile \| cut -c-70)
2157	printf "\| %-70s \| \n" "$linestart"
2158	zeile=$(echo "$zeile" \| cut -c71-)
2159	done
2160	fi
2161	printf "#------------------------------------------------------------------------#"
2162
2163
2164
2165	# OUTPUT OF FILE CONNECTIONS IN CASE OF TRACEBACK
2166	if [[ $do_trace = true ]]
2167	then
2168	(( i = 0 ))
2169	while (( i < iin ))
2170	do
2171	(( i = i + 1 ))
2172	if (( i == 1 ))
2173	then
2174	printf "\n\n >>> INPUT-file assignments:\n"
2175	fi
2176	printf "\n ${localin[$i]} : ${absnamein[$i]}"
2177	done
2178	(( i = 0 ))
2179	while (( i < iout ))
2180	do
2181	(( i = i + 1 ))
2182	if (( i == 1 ))
2183	then
2184	printf "\n\n >>> OUTPUT-file assignments:\n"
2185	fi
2186	printf "\n ${localout[$i]} : ${pathout[$i]}"
2187	done
2188	(( i = 0 ))
2189	while (( i < iic ))
2190	do
2191	(( i = i + 1 ))
2192	if (( i == 1 ))
2193	then
2194	printf "\n\n >>> INPUT-commands:\n"
2195	fi
2196	printf "\n ${in_command[$i]}"
2197	done
2198	(( i = 0 ))
2199	while (( i < ioc ))
2200	do
2201	(( i = i + 1 ))
2202	if (( i == 1 ))
2203	then
2204	printf "\n\n >>> OUTPUT-commands:\n"
2205	fi
2206	printf "\n ${out_command[$i]}"
2207	done
2208	fi
2209
2210	# QUERY FOR CONTINUE (ON LOCAL MACHINES ONLY)
2211	if [[ $remotecall = false && $silent = false && $jobmo != BATCH ]]
2212	then
2213	antwort=dummy
2214	printf "\n\n"
2215	printf " >>> everything o.k. (y/n) ? "
2216	while read antwort
2217	do
2218	if [[ "$antwort" != y && "$antwort" != Y && "$antwort" != n && "$antwort" != N ]]
2219	then
2220	printf " >>> everything o.k. (y/n) ? "
2221	else
2222	break
2223	fi
2224	done
2225	if [[ $antwort = n \|\| $antwort = N ]]
2226	then
2227	locat=user_abort; (( iec = 0 )); exit
2228	fi
2229	if [[ $do_batch = true ]]
2230	then
2231	printf " >>> batch-job will be created and submitted"
2232	else
2233	printf " >>> MRUN will now continue to execute on this machine"
2234	fi
2235	fi
2236
2237
2238	# DETERMINE PATH FOR MAKE DEPOSITORY
2239	if [[ $do_batch = false \|\| $create_executable_for_batch = true ]]
2240	then
2241
2242	line=""
2243	grep "%depository_path" $config_file > tmp_mrun
2244	while read line
2245	do
2246	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
2247	then
2248	if [[ "$(echo $line \| cut -d" " -s -f3)" = "" ]]
2249	then
2250	global_depository_path=`echo $line \| cut -d" " -s -f2`
2251	fi
2252	fi
2253	done < tmp_mrun
2254
2255	line=""
2256	grep " $localhost" $config_file \| grep "%depository_path" > tmp_mrun
2257	while read line
2258	do
2259	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
2260	then
2261	if [[ "$(echo $line \| cut -d" " -s -f4)" = "$cond1" && "$(echo $line \| cut -d" " -s -f5)" = "$cond2" ]]
2262	then
2263	local_depository_path=`echo $line \| cut -d" " -s -f2`
2264	fi
2265	fi
2266	done < tmp_mrun
2267
2268	if [[ "$local_depository_path" = "" ]]
2269	then
2270	if [[ "$global_depository_path" != "" ]]
2271	then
2272	local_depository_path=$global_depository_path
2273	else
2274	printf "\n\n +++ no depository path found in configuration file"
2275	printf "\n for local host \"$localhost\" "
2276	printf "\n please set \"\%depository_path\" in configuration file\n"
2277	locat=config_file; exit
2278	fi
2279	fi
2280	eval local_depository_path=$local_depository_path
2281	[[ "$cond1" != "" ]] && local_depository_path=${local_depository_path}_$cond1
2282	[[ "$cond2" != "" ]] && local_depository_path=${local_depository_path}_$cond2
2283
2284
2285	basename=`echo $mainprog \| cut -f1 -d"."`
2286	eval make_depository=${local_depository_path}/${basename}_current_version.tar
2287	if [[ ! -f $make_depository ]]
2288	then
2289	printf "\n"
2290	printf "\n *** WARNING: make depository \"$make_depository\" not found"
2291	printf "\n \"make\" will fail, if the Makefile or other source files are missing\n"
2292	fi
2293
2294	fi
2295
2296
2297	# NOW PERFORM THOSE ACTIONS REQUIRED TO EXECUTE THE PROGRAM (PALM) ON THIS MACHINE
2298	# (COMPILING/LINKING, EXECUTING, COPYING I/O FILES)
2299	if [[ $do_batch = false ]]
2300	then
2301
2302
2303	# CREATE THE TEMPORARY WORKING DIRECTORY
2304	mkdir -p $TEMPDIR
2305	chmod go+rx $TEMPDIR
2306	tmpcreate=true
2307
2308
2309	# COPY EITHER THE COMPLETE SOURCE CODE FILES TO BE COMPILED OR THE EXECUTABLE
2310	# INTO THE TEMPORARY WORKING DIRECTORY
2311	if [[ $do_compile = true ]]
2312	then
2313
2314	TEMPDIR_COMPILE=$TEMPDIR
2315
2316	cp $make_depository $TEMPDIR_COMPILE
2317	cd $TEMPDIR_COMPILE
2318	tar -xf $make_depository > /dev/null 2>&1
2319	cd - > /dev/null
2320
2321	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
2322	# FILES ON CRAY XC30 SYSTEMS (HLRN III), rsync IS USED INSTEAD
2323	if [[ $(echo $host \| cut -c1-6) = lccray ]]
2324	then
2325	rsync -av -t SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
2326	else
2327	cp SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
2328	fi
2329
2330	else
2331
2332	cp $executable ${TEMPDIR}/a.out
2333
2334	fi
2335
2336
2337	# CHANGE TO THE TEMPORARY WORKING DIRECTORY
2338	cd $TEMPDIR
2339	printf "\n *** changed to temporary directory: $TEMPDIR"
2340
2341
2342	# IF REQUIRED, START WITH COMPILING
2343	if [[ $do_compile = true ]]
2344	then
2345
2346
2347	if [[ -f a.out ]]
2348	then
2349
2350	# EXECUTABLE WAS CREATED DURING INTERACTIVE CALL OF MRUN
2351	printf "\n\n\n *** executable a.out found"
2352	printf "\n no compilation required \n"
2353
2354	else
2355
2356	# COMPILING WITH MAKE (ON NEC COMPILER IS CALLED ON HOST CROSS)
2357	printf "\n\n\n *** compilation starts \n$dashes\n"
2358	printf " *** compilation with make using following options:\n"
2359	printf " make depository: $make_depository"
2360	if [[ "$mopts" != "" ]]
2361	then
2362	printf " make options: $mopts\n"
2363	fi
2364	printf " compilername: $compiler_name\n"
2365	printf " compiler options: $fopts\n"
2366	printf " preprocessor directives: $cpp_options \n"
2367	printf " linker options: $lopts \n"
2368	if [[ "$modules" != "" ]]
2369	then
2370	printf " modules to be load: $modules \n"
2371	fi
2372	printf " source code files: $source_list \n"
2373
2374	if [[ $localhost = ibmh ]]
2375	then
2376	printf " compiler is called via ssh on \"plogin1\" \n"
2377	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\" "
2378	[[ ! -f a.out ]] && compile_error=true
2379	continue # STATUS=1, IF a.out EXISTS
2380	elif [[ $localhost = lcocean ]]
2381	then
2382	printf " compiler is called via ssh on \"ocean\" \n"
2383	echo $PWD
2384	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\" "
2385	[[ ! -f a.out ]] && compile_error=true
2386	continue # STATUS=1, IF a.out EXISTS
2387	elif [[ $localhost = lcbullhh \|\| $localhost = lccrayb \|\| $localhost = lccrayf \|\| $localhost = lccrayh ]]
2388	then
2389	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2390	elif [[ $localhost = lceddy ]]
2391	then
2392	which mpifc
2393	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2394	else
2395	[[ "$init_cmds" != "" ]] && eval $init_cmds
2396	[[ "$module_calls" != "" ]] && eval $module_calls
2397	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2398	fi
2399
2400	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
2401	then
2402	printf "\n +++ error occured while compiling or linking"
2403	locat=compile
2404
2405	exit
2406	else
2407	printf "$dashes\n *** compilation finished \n"
2408	fi
2409
2410	fi
2411
2412	fi
2413
2414
2415	# PROVIDE THE INPUT FILES
2416	# LOOP OVER ALL ACTIVATED FILES (LISTED IN THE CONFIGURATION FILE)
2417	(( i = 0 ))
2418	while (( i < iin ))
2419	do
2420	(( i = i + 1 ))
2421	if (( i == 1 ))
2422	then
2423	printf "\n\n *** providing INPUT-files:\n$dashes"
2424	fi
2425
2426
2427	# SKIP OPTIONAL FILES, IF THEY DO NOT EXIST
2428	if [[ "${transin[$i]}" = unavailable ]]
2429	then
2430	if [[ "${extin[$i]}" = "" \|\| "${extin[$i]}" = " " ]]
2431	then
2432	printf "\n *** INFORMATIVE: input file \"${pathin[$i]}/${afname}${endin[$i]}\" "
2433	printf "\n is not available!"
2434	else
2435	printf "\n *** INFORMATIVE: input file \"${pathin[$i]}/${afname}${endin[$i]}.${extin[$i]}\" "
2436	printf "\n is not available!"
2437	fi
2438	continue
2439	fi
2440
2441	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
2442	files_for_pes=false; datentyp=file
2443	if [[ "${actionin[$i]}" = pe && -n $numprocs ]]
2444	then
2445	files_for_pes=true; datentyp=files
2446	actionin[$i]=""
2447	elif [[ "${actionin[$i]}" = pe && ! -n $numprocs ]]
2448	then
2449	actionin[$i]=""
2450	elif [[ "${actionin[$i]}" = lnpe && -n $numprocs ]]
2451	then
2452	files_for_pes=true; datentyp=files
2453	actionin[$i]="ln"
2454	elif [[ "${actionin[$i]}" = lnpe && ! -n $numprocs ]]
2455	then
2456	actionin[$i]="ln"
2457	fi
2458
2459	if [[ $files_for_pes = true ]]
2460	then
2461	printf "\n >>> INPUT: ${absnamein[$i]}/.... to ${localin[$i]}"
2462	else
2463	printf "\n >>> INPUT: ${absnamein[$i]} to ${localin[$i]}"
2464	fi
2465
2466	# INPUT-FILES TO BE LINKED
2467	if [[ "${actionin[$i]}" = ln ]]
2468	then
2469
2470	printf "\n $datentyp will be linked"
2471	if [[ $files_for_pes = false ]]
2472	then
2473	if [[ -f "${absnamein[$i]}" ]]
2474	then
2475	ln ${absnamein[$i]} ${localin[$i]}
2476	got_tmp[$i]=true
2477	fi
2478	else
2479	if [[ -d "${absnamein[$i]}" ]]
2480	then
2481	mkdir ${localin[$i]}
2482	cd ${absnamein[$i]}
2483	for file in $(ls *)
2484	do
2485	ln $file $TEMPDIR/${localin[$i]}
2486	done >\|/dev/null 2>&1
2487	cd $TEMPDIR
2488	fi
2489
2490	# IF "ln -f" HAS FAILED DO A NORMAL COPY "cp -r"
2491	if [[ ! -f "${localin[$i]}/_000000" ]]
2492	then
2493	printf "\n --- WARNING: ln failed, using cp instead (might be time consuming...)"
2494	cp -r ${absnamein[$i]}/* ${localin[$i]}
2495	fi
2496
2497	got_tmp[$i]=true
2498	fi
2499	fi
2500
2501	# FILE IS STORED IN THE RESPECTIVE DIRECTORY GIVEN IN THE CONFIGURATION FILE
2502	if [[ "${actionin[$i]}" = "" \|\| "${actionin[$i]}" = "di" \|\| "${actionin[$i]}" = "npe" ]]
2503	then
2504
2505	if [[ "${actionin[$i]}" = "npe" && -n $numprocs ]]
2506	then
2507
2508	# FILE COPIES ARE PROVIDED FOR ALL CORES
2509	# EACH FILE GETS A UNIQUE FILENAME WITH A FOUR DIGIT NUMBER
2510	printf "\n file will be provided for $numprocs processors"
2511	mkdir ${localin[$i]}
2512	ival=$numprocs
2513	(( ii = 0 ))
2514	while (( ii <= ival-1 ))
2515	do
2516	if (( ii < 10 ))
2517	then
2518	cp ${absnamein[$i]} ${localin[$i]}/_000$ii
2519	elif (( ii < 100 ))
2520	then
2521	cp ${absnamein[$i]} ${localin[$i]}/_00$ii
2522	elif (( ii < 1000 ))
2523	then
2524	cp ${absnamein[$i]} ${localin[$i]}/_0$ii
2525	else
2526	cp ${absnamein[$i]} ${localin[$i]}/_$ii
2527	fi
2528	(( ii = ii + 1 ))
2529	done
2530
2531	else
2532
2533	if [[ $files_for_pes = true ]]
2534	then
2535
2536	# PROVIDE FILES FOR EACH CORE
2537	# FIRST CREATE THE LOCAL DIRECTORY, THEN COPY FILES
2538	# FROM THE PERMANENT DIRECTORY BY LINKING THEM TO THE LOCAL ONE
2539	printf "\n providing $numprocs files for the respective processors"
2540	mkdir ${localin[$i]}
2541	if [[ $link_local_input = true ]]
2542	then
2543	printf " files will be linked\n"
2544	cd ${absnamein[$i]}
2545	for file in $(ls *)
2546	do
2547	ln -f $file ${localin[$i]}
2548	done
2549	cd $TEMPDIR
2550	fi
2551
2552	# IF "ln -f" FAILED OR IF "$link_local_input = false" DO A NORMAL "cp -r"
2553	if [[ ! -f "${localin[$i]}/_000000" ]]
2554	then
2555	if [[ $link_local_input = true ]]
2556	then
2557	printf "\n --- WARNING: ln failed, using cp instead (might be time consuming...)"
2558	fi
2559	cp -r ${absnamein[$i]}/* ${localin[$i]}
2560	fi
2561
2562	else
2563
2564	# PROVIDE FILE FOR RUNS ON A SINGLE CORE
2565	if [[ $link_local_input = true ]]
2566	then
2567	printf " file will be linked\n"
2568	ln -f ${absnamein[$i]} ${localin[$i]}
2569	fi
2570	# If "ln -f" fails of if "$link_local_input = false" do a normal "cp"
2571	if [[ ! -f "${localin[$i]}" ]]
2572	then
2573	if [[ $link_local_input = true ]]
2574	then
2575	printf "\n --- WARNING: ln failed, using cp instead (might be time consuming...)"
2576	fi
2577	cp ${absnamein[$i]} ${localin[$i]}
2578	fi
2579	fi
2580	fi
2581	fi
2582
2583	done
2584	if (( i != 0 ))
2585	then
2586	printf "\n$dashes\n *** all INPUT-files provided \n"
2587	fi
2588
2589
2590	# EXECUTE INPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
2591	(( i = 0 ))
2592	while (( i < iic ))
2593	do
2594	(( i = i + 1 ))
2595	if (( i == 1 ))
2596	then
2597	printf "\n\n *** execution of INPUT-commands:\n$dashes"
2598	fi
2599	printf "\n >>> ${in_command[$i]}"
2600	eval ${in_command[$i]}
2601	if (( i == iic ))
2602	then
2603	printf "\n$dashes\n"
2604	fi
2605	done
2606
2607
2608	# SET THE REMAINING CPU-TIME
2609	cpurest=${cpumax}.
2610
2611
2612	# START DVR STREAMING SERVER
2613	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
2614	then
2615	if [[ "$dvr_server" != "" ]]
2616	then
2617
2618	printf "\n\n *** preparing the dvr streaming server configuration file"
2619
2620	# CHECK, IF A DVR SERVER IS ALREADY RUNNING
2621	running_dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config \| grep -v grep) \| cut -d" " -f2`
2622	if [[ "$running_dvrserver_id" != "" ]]
2623	then
2624
2625	printf "\n\n +++ WARNING: A dvr server with id=$running_dvrserver_id is already running!"
2626	printf "\n This server is used instead starting a new one!"
2627	printf "\n If required, script \"process_dvr_output\" has to be run manually."
2628
2629	else
2630
2631	# COPY CONFIGURATION FILE FOR STREAMING SERVER FROM REPOSITORY TO HERE
2632	if [[ -f ${PALM_BIN}/.dvrserver.config ]]
2633	then
2634	cp ${PALM_BIN}/.dvrserver.config .
2635
2636	# ENTERING THE BASEDIR, UID AND GID INTO THIS FILE
2637	user_id=`id -u`
2638	group_id=`id -g`
2639
2640	# "&" IS REQUIRED AS A SEPERATOR, BECAUSE TEMPDIR CONTAINS "/"
2641	sed "s&<replace by dvr data directory>&${TEMPDIR}&g" .dvrserver.config > .dvrserver.1
2642	sed "s/<replace by user id>/$user_id/g" .dvrserver.1 > .dvrserver.2
2643	sed "s/<replace by group id>/$group_id/g" .dvrserver.2 > .dvrserver.3
2644	mv .dvrserver.3 .dvrserver.config
2645	rm .dvrserver.1 .dvrserver.2
2646
2647	# START DVR SERVER IN BACKGROUND, GET HIS ID AND PRINT ON TERMINAL
2648	$dvr_server .dvrserver.config >> DVR_LOGFILE 2>&1 &
2649	dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config) \| cut -d" " -f2`
2650	printf "\n *** streaming server with id=$dvrserver_id is started in background"
2651	local_dvrserver_running=.TRUE.
2652	else
2653	printf "\n +++ missing file \".dvrserver.config\" in directory:"
2654	printf "\n \"$PALM_BIN\" "
2655	locat=dvr
2656	exit
2657	fi
2658
2659	fi
2660
2661	else
2662	printf "\n\n --- INFORMATIVE: no dvr streaming server will be started"
2663	fi
2664	fi
2665
2666
2667	# CREATE THE NAMELIST-FILE WITH VALUES OF ENVIRONMENT-VARIABLES REQUIRED BY PALM
2668	# (FILE ENVPAR WILL BE READ BY PALM)
2669	cat > ENVPAR << EOF
2670	&envpar run_identifier = '$fname', host = '$localhost',
2671	write_binary = '$write_binary', tasks_per_node = $tasks_per_node,
2672	maximum_parallel_io_streams = $maximum_parallel_io_streams,
2673	maximum_cpu_time_allowed = ${cpumax}.,
2674	revision = '$global_revision',
2675	local_dvrserver_running = $local_dvrserver_running,
2676	batch_job = $batch_job /
2677
2678	EOF
2679
2680
2681	# STARTING THE EXECUTABLE
2682	printf "\n\n *** execution starts in directory\n \"`pwd`\"\n$dashes\n"
2683	PATH=$PATH:$TEMPDIR
2684
2685
2686	if [[ $execute_command != "none" ]]
2687	then
2688
2689	printf "\n +++ branch still not realized"
2690	locat=execution
2691	exit
2692
2693	else
2694
2695	# MPI DEBUG OPTION (ARGUMENT CHECKING, SLOWS DOWN EXECUTION DUE TO INCREASED LATENCY)
2696	if [[ "$mpi_debug" = true ]]
2697	then
2698	export MPI_CHECK_ARGS=1
2699	printf "\n +++ MPI_CHECK_ARGS=$MPI_CHECK_ARGS"
2700	fi
2701
2702	if [[ "$totalview" = true ]]
2703	then
2704	printf "\n *** totalview debugger will be used"
2705	tv_opt="-tv"
2706	else
2707	tv_opt=""
2708	fi
2709
2710	if [[ "$cond1" = debug \|\| "$cond2" = debug ]]
2711	then
2712
2713	#Interactive ALLINEA DEBUG seesion
2714	if [[ "$ENVIRONMENT" != BATCH ]]
2715	then
2716	if [[ $host = lccrayb \|\| $host = lccrayh ]]
2717	then
2718	if [[ "$allinea" = true ]]
2719	then
2720	echo "--- aprun -n $ii -N $tasks_per_node a.out < runfile_atmos"
2721
2722	ddt aprun -n $ii -N $tasks_per_node a.out
2723	wait
2724	fi
2725	fi
2726	fi
2727
2728	if [[ $localhost = ibmh ]]
2729	then
2730
2731	# SETUP THE IBM MPI ENVIRONMENT
2732	export MP_SHARED_MEMORY=yes
2733	export AIXTHREADS_SCOPE=S
2734	export OMP_NUM_THREADS=$threads_per_task
2735	export AUTHSTATE=files
2736	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
2737
2738	# FOLLOWING OPTIONS ARE MANDATORY FOR TOTALVIEW
2739	export MP_ADAPTER_USE=shared
2740	export MP_CPU_USE=multiple
2741	export MP_TIMEOUT=1200
2742
2743	unset MP_TASK_AFFINITY
2744
2745	if [[ "$LOADLBATCH" = yes ]]
2746	then
2747	totalview poe a.out
2748	else
2749	echo totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1
2750	export TVDSVRLAUNCHCMD=ssh
2751	totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1
2752	fi
2753
2754	fi # END DEBUG MODE
2755
2756	else
2757
2758	# NORMAL EXECUTION
2759	if [[ -n $numprocs ]]
2760	then
2761
2762	# RUNNING THE PROGRAM ON PARALLEL MACHINES
2763	if [[ $(echo $host \| cut -c1-3) = ibm ]]
2764	then
2765
2766	# SETUP THE IBM MPI ENVIRONMENT
2767	if [[ $host != ibmh && $host != ibmkisti ]]
2768	then
2769	export MP_SHARED_MEMORY=yes
2770	export AIXTHREAD_SCOPE=S
2771	export OMP_NUM_THREADS=$threads_per_task
2772	export XLSMPOPTS="spins=0:yields=0:stack=20000000"
2773	export AUTHSTATE=files
2774	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
2775	# export MP_PRINTENV=yes
2776
2777	# TUNING-VARIABLES TO IMPROVE COMMUNICATION SPEED
2778	# DO NOT SHOW SIGNIFICANT EFFECTS (SEP 04, FEDERATION-SWITCH)
2779	export MP_WAIT_MODE=poll
2780	[[ $node_usage = not_shared ]] && export MP_SINGLE_THREAD=yes
2781	fi
2782
2783	if [[ $host = ibmkisti ]]
2784	then
2785	export LANG=en_US
2786	export MP_SHARED_MEMORY=yes
2787	if [[ $threads_per_task = 1 ]]
2788	then
2789	export MP_SINGLE_THREAD=yes
2790	export MEMORY_AFFINITY=MCM
2791	else
2792	export OMP_NUM_THREADS=$threads_per_task
2793	fi
2794	fi
2795
2796	if [[ "$LOADLBATCH" = yes ]]
2797	then
2798	printf "\n--- Control: OMP_NUM_THREADS = \"$OMP_NUM_THREADS\" \n"
2799	if [[ "$cond1" = hpmcount \|\| "$cond2" = hpmcount ]]
2800	then
2801	/opt/optibm/HPM_2_4_1/bin/hpmcount a.out
2802	else
2803	if [[ $run_coupled_model = false ]]
2804	then
2805	if [[ "$ocean_file_appendix" = true ]]
2806	then
2807	echo "precursor_ocean" > runfile_atmos
2808	else
2809	echo "precursor_atmos" > runfile_atmos
2810	fi
2811	else
2812	(( iia = $numprocs_atmos / $threads_per_task ))
2813	(( iio = $numprocs_ocean / $threads_per_task ))
2814	printf "\n coupled run ($iia atmosphere, $iio ocean)"
2815	printf "\n using $coupled_mode coupling"
2816	printf "\n\n"
2817	echo "coupled_run $iia $iio" > runfile_atmos
2818	fi
2819	poe ./a.out < runfile_atmos
2820	fi
2821	else
2822	if [[ $localhost = ibmh \|\| $localhost = ibms ]]
2823	then
2824	poe a.out -procs $numprocs -nodes 1 -rmpool 0
2825	elif [[ $localhost = ibmkisti \|\| $localhost = ibmku ]]
2826	then
2827	if [[ -f $hostfile ]]
2828	then
2829	cp $hostfile hostfile
2830	else
2831	(( ii = 1 ))
2832	while (( ii <= $numprocs ))
2833	do
2834	echo $localhost_realname >> hostfile
2835	(( ii = ii + 1 ))
2836	done
2837	fi
2838	export MP_HOSTFILE=hostfile
2839	if [[ $run_coupled_model = false ]]
2840	then
2841	if [[ "$ocean_file_appendix" = true ]]
2842	then
2843	echo "precursor_ocean" > runfile_atmos
2844	else
2845	echo "precursor_atmos" > runfile_atmos
2846	fi
2847	else
2848	(( iia = $numprocs_atmos / $threads_per_task ))
2849	(( iio = $numprocs_ocean / $threads_per_task ))
2850	printf "\n coupled run ($iia atmosphere, $iio ocean)"
2851	printf "\n using $coupled_mode coupling"
2852	printf "\n\n"
2853	echo "coupled_run $iia $iio" > runfile_atmos
2854	fi
2855
2856	poe ./a.out -procs $numprocs < runfile_atmos
2857
2858	else
2859	if [[ "$host_file" = "" ]]
2860	then
2861	printf "\n +++ no hostfile given in configuration file"
2862	locat=config_file
2863	exit
2864	else
2865	eval host_file=$host_file
2866	fi
2867	export MP_HOSTFILE=$host_file
2868	poe a.out -procs $numprocs -tasks_per_node $numprocs
2869	fi
2870	fi
2871
2872	elif [[ $(echo $host \| cut -c1-2) = lc && $host != lckyoto && $host != lctit ]]
2873	then
2874
2875	# COPY HOSTFILE FROM SOURCE DIRECTORY OR CREATE IT, IF IT
2876	# DOES NOT EXIST
2877	if [[ $host != lcbullhh && $host != lccrayb && $host != lccrayf && $host != lccrayh && $host != lckyuh && $host != lckyut && $host != lcocean && $host != lceddy ]]
2878	then
2879	if [[ -f $hostfile ]]
2880	then
2881	cp $hostfile hostfile
2882	(( ii = $numprocs / $threads_per_task ))
2883	[[ $ii = 0 ]] && (( ii = 1 ))
2884	else
2885	(( ii = 1 ))
2886	while (( ii <= $numprocs / $threads_per_task ))
2887	do
2888	echo $localhost_realname >> hostfile
2889	(( ii = ii + 1 ))
2890	done
2891	if (( $numprocs / $threads_per_task == 0 ))
2892	then
2893	echo $localhost_realname >> hostfile
2894	fi
2895	fi
2896	eval zeile=\"`head -n $ii hostfile`\"
2897	printf "\n *** running on: $zeile"
2898	fi
2899
2900	(( ii = $numprocs / $threads_per_task ))
2901	[[ $ii = 0 ]] && (( ii = 1 ))
2902	export OMP_NUM_THREADS=$threads_per_task
2903
2904	if [[ $threads_per_task != 1 ]]
2905	then
2906	# INCREASE STACK SIZE TO UNLIMITED, BECAUSE OTHERWISE LARGE RUNS
2907	# MAY ABORT
2908	ulimit -s unlimited
2909	printf "\n threads per task: $threads_per_task stacksize: unlimited"
2910	fi
2911	if [[ $run_coupled_model = false ]]
2912	then
2913	if [[ "$ocean_file_appendix" = true ]]
2914	then
2915	echo "precursor_ocean" > runfile_atmos
2916	else
2917	echo "precursor_atmos" > runfile_atmos
2918	fi
2919	printf "\n\n"
2920
2921	if [[ $host = lccrayb \|\| $host = lccrayh ]]
2922	then
2923	echo "--- aprun -n $ii -N $tasks_per_node a.out < runfile_atmos"
2924	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
2925	elif [[ $host = lcbullhh ]]
2926	then
2927	export OMPI_MCA_pml=cm
2928	export OMPI_MCA_mtl=mxm
2929	export OMPI_MCA_coll=^ghc
2930	export OMPI_MCA_mtl_mxm_np=0
2931	export MXM_RDMA_PORTS=mlx5_0:1
2932	export MXM_LOG_LEVEL=ERROR
2933	export OMP_NUM_THREADS=$threads_per_task
2934	export KMP_AFFINITY=verbose,granularity=core,compact,1
2935	export KMP_STACKSIZE=64m
2936
2937	srun -n $ii --ntasks-per-node=$tasks_per_node ./a.out < runfile_atmos
2938
2939	elif [[ $host = lccrayf ]]
2940	then
2941	aprun -j1 -n $ii -N $tasks_per_node -m ${memory}M a.out < runfile_atmos
2942	elif [[ $host = lcxe6 \|\| $host = lcxt5m ]]
2943	then
2944	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
2945	elif [[ $host = lceddy ]]
2946	then
2947	echo $ii
2948	echo $tasks_per_node
2949	echo $nodes
2950	mpirun -n $ii a.out < runfile_atmos
2951	elif [[ $host = lcocean ]]
2952	then
2953	mpirun a.out $ROPTS < runfile_atmos
2954	elif [[ $host = lcsb ]]
2955	then
2956	mpirun_rsh -hostfile $PBS_NODEFILE -np `cat $PBS_NODEFILE \| wc -l` a.out < runfile_atmos
2957
2958	elif [[ $host = lckiaps ]]
2959	then
2960	mpirun -np $ii -machinefile $PBS_NODEFILE ./a.out < runfile_atmos
2961	elif [[ $host = lckyu* ]]
2962	then
2963	mpiexec -n $ii --stdin runfile_atmos ./a.out
2964	else
2965	mpiexec -machinefile hostfile -n $ii a.out < runfile_atmos
2966	fi
2967
2968	else
2969
2970	# CURRENTLY THERE IS NO FULL MPI-2 SUPPORT ON ICE AND XT4
2971	(( iia = $numprocs_atmos / $threads_per_task ))
2972	(( iio = $numprocs_ocean / $threads_per_task ))
2973	printf "\n coupled run ($iia atmosphere, $iio ocean)"
2974	printf "\n using $coupled_mode coupling"
2975	printf "\n\n"
2976
2977	if [[ $coupled_mode = "mpi2" ]]
2978	then
2979	echo "atmosphere_to_ocean $iia $iio" > runfile_atmos
2980	echo "ocean_to_atmosphere $iia $iio" > runfile_ocean
2981
2982	if [[ $host = lccrayf \|\| $host = lcxe6 \|\| $host = lcxt5m ]]
2983	then
2984
2985	aprun -n $iia -N $tasks_per_node a.out < runfile_atmos &
2986	aprun -n $iio -N $tasks_per_node a.out < runfile_ocean &
2987
2988	else
2989	# WORKAROUND BECAUSE mpiexec WITH -env option IS NOT AVAILABLE ON SOME SYSTEMS
2990	mpiexec -machinefile hostfile -n $iia a.out < runfile_atmos &
2991	mpiexec -machinefile hostfile -n $iio a.out < runfile_ocean &
2992	# mpiexec -machinefile hostfile -n $iia -env coupling_mode atmosphere_to_ocean a.out &
2993	# mpiexec -machinefile hostfile -n $iio -env coupling_mode ocean_to_atmosphere a.out &
2994	fi
2995	wait
2996
2997	else
2998
2999	echo "coupled_run $iia $iio" > runfile_atmos
3000
3001	if [[ $host = lccrayf \|\| $host = lcxe6 \|\| $host = lcxt5m ]]
3002	then
3003
3004	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
3005
3006	elif [[ $host = lck \|\| $host = lckordi ]]
3007	then
3008
3009	mpiexec -n $ii ./a.out < runfile_atmos &
3010
3011	elif [[ $host = lckyu* ]]
3012	then
3013
3014	mpiexec -n $ii --stdin runfile_atmos ./a.out
3015
3016	elif [[ $host = lcmuk ]]
3017	then
3018
3019	mpiexec -machinefile hostfile -n $ii a.out < runfile_atmos
3020
3021	fi
3022	wait
3023	fi
3024
3025	fi
3026
3027	elif [[ $host = lckyoto ]]
3028	then
3029	set -xv
3030	export P4_RSHCOMMAND=plesh
3031	echo " P4_RSHCOMMAND = $P4_RSHCOMMAND"
3032	if [[ "$ENVIRONMENT" = BATCH ]]
3033	then
3034	if [[ "$cond2" = fujitsu ]]
3035	then
3036	mpiexec -n $numprocs ./a.out # for fujitsu-compiler
3037	elif [[ "cond2" = pgi ]]
3038	then
3039	mpirun -np $numprocs -machinefile ${QSUB_NODEINF} ./a.out
3040	else
3041	mpirun_rsh -np $numprocs -hostfile ${QSUB_NODEINF} MV2_USE_SRQ=0 ./a.out \|\| /bin/true
3042	fi
3043	else
3044	if [[ "$cond2" = "" ]]
3045	then
3046	mpiruni_rsh -np $numprocs ./a.out # for intel
3047	else
3048	mpirun -np $numprocs ./a.out
3049	fi
3050	fi
3051	set +xv
3052
3053	elif [[ $host = lctit ]]
3054	then
3055	export OMP_NUM_THREADS=$threads_per_task
3056	echo "OMP_NUM_THREADS=$OMP_NUM_THREADS"
3057	if [[ "$threads_per_task" != 1 ]]
3058	then
3059	export MV2_ENABLE_AFFINITY=0
3060	fi
3061	echo "----- PBS_NODEFILE content:"
3062	cat $PBS_NODEFILE
3063	echo "-----"
3064	(( ii = $numprocs / $threads_per_task ))
3065	echo "mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out"
3066	mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out
3067
3068	else
3069	mpprun -n $numprocs a.out
3070	fi
3071	else
3072	a.out
3073	fi
3074
3075	fi # end normal (non-debug) execution
3076
3077	fi # end explicit execute_command or host-specific execute actions
3078
3079	if [[ $? != 0 ]]
3080	then
3081
3082	# ABORT IN CASE OF RUNTIME ERRORS
3083	printf "\n +++ runtime error occured"
3084	locat=execution
3085	exit
3086
3087	else
3088
3089	printf "\n$dashes\n *** execution finished \n"
3090
3091	# STOP THE DVR STREAMING SERVER AND PROCESS THE DVR OUTPUT IN ORDER
3092	# TO CREAT DVRS- AND HTML-FILES CONTAINING ALL STREAMS
3093	if [[ "$dvrserver_id" != "" ]]
3094	then
3095	kill $dvrserver_id
3096	printf "\n *** dvr server with id=$dvrserver_id has been stopped"
3097
3098	# IF THERE IS A DIRECTORY, DATA HAVE BEEN OUTPUT BY THE
3099	# STREAMING SERVER. OTHERWISE, USER HAS CHOSEN dvrp_output=local
3100	if [[ -d DATA_DVR ]]
3101	then
3102
3103	# ADD THE CURRENT DVR CONFIGURATION FILE TO THE DVR OUTPUT
3104	# DIRECTORY
3105	cp .dvrserver.config DATA_DVR
3106
3107	# PROCESS THE DVR OUTPUT (OPTION -s FOR GENERATING
3108	# SEQUENCE MODE DATA TOO)
3109	process_dvr_output -d DATA_DVR -f $fname -s
3110
3111	else
3112
3113	# PROCESS THE LOCAL OUTPUT
3114	process_dvr_output -l -d DATA_DVR -f $fname
3115
3116	fi
3117
3118	elif [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
3119	then
3120
3121	# PROCESS DVR OUTPUT GENERATD IN LOCAL MODE (dvrp_output=local)
3122	process_dvr_output -l -d DATA_DVR -f $fname
3123
3124	fi
3125	fi
3126
3127
3128
3129	# CALL OF combine_plot_fields IN ORDER TO MERGE SINGLE FILES WRITTEN
3130	# BY EACH CORE INTO ONE FILE
3131	if [[ ! -f ${PALM_BIN}/combine_plot_fields${block}.x ]]
3132	then
3133	printf "\n\n\n +++ WARNING: no combine_plot_fields found for given block \"$cond1 $cond2\""
3134	printf "\n 2d- and/or 3d-data may be incomplete!"
3135	printf "\n Run \"mbuild -u -h $localhost\" to generate utilities for this block.\n"
3136	elif [[ "$combine_plot_fields" == true ]]
3137	then
3138	if [[ $localhost = lccrayh \|\| $localhost = lccrayb ]]
3139	then
3140	printf "\n\n\n *** post-processing: now executing \"aprun -n 1 -N 1 combine_plot_fields${block}.x\" ..."
3141	aprun -n 1 -N 1 combine_plot_fields${block}.x
3142	else
3143	printf "\n\n\n *** post-processing: now executing \"combine_plot_fields${block}.x\" ..."
3144	combine_plot_fields${block}.x
3145	fi
3146	else
3147
3148	# TEMPORARY SOLUTION TO SKIP combine_plot_fields. THIS IS REQUIRED IN CASE OF HUGE AMOUNT OF
3149	# DATA OUTPUT. TO DO: EXTEND THIS BRANCH BY CREATING A BATCH JOB for combine_plot_fields.
3150	# ??? koennen wir das streichen ???
3151	printf "\n\n\n *** post-processing: skipping combine_plot_fields (-Z option set) ..."
3152	fi
3153
3154
3155
3156	# EXECUTE OUTPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
3157	(( i = 0 ))
3158	while (( i < ioc ))
3159	do
3160	(( i = i + 1 ))
3161	if (( i == 1 ))
3162	then
3163	printf "\n\n *** execution of OUTPUT-commands:\n$dashes"
3164	fi
3165	printf "\n >>> ${out_command[$i]}"
3166	eval ${out_command[$i]}
3167	if (( i == ioc ))
3168	then
3169	printf "\n$dashes\n"
3170	fi
3171	done
3172
3173
3174	# IN TRACE-MODE PRINT CONTENTS OF THE CURRENT (TEMPORARY) WORKING DIRECTORY
3175	if [[ $do_trace = true ]]
3176	then
3177	printf "\n\n"
3178	ls -al
3179	fi
3180
3181
3182	# COPY LOCAL OUTPUT-FILES TO THEIR PERMANENT DESTINATIONS
3183	(( i = 0 ))
3184	while (( i < iout ))
3185	do
3186	(( i = i + 1 ))
3187	if (( i == 1 ))
3188	then
3189	printf "\n\n *** saving OUTPUT-files:"
3190
3191	# GET RUN NUMBER ASSIGNED BY PALM
3192	if [[ -f RUN_NUMBER ]]
3193	then
3194	read run_number < RUN_NUMBER
3195	printf "\n *** PALM generated run_number = "$run_number" will be used as unified cycle number for all output files"
3196	usecycle_option="-U $run_number"
3197	else
3198	run_number=0
3199	usecycle_option=""
3200	fi
3201	printf "\n$dashes"
3202	fi
3203
3204	# ADD CYCLE NUMBER TO FILENAME
3205	if [[ ! ( $fromhost != $localhost && ( "${actionout[$i]}" = tr \|\| "${actionout[$i]}" = tra \|\| "${actionout[$i]}" = trpe ) ) ]]
3206	then
3207
3208	# IN APPEND MODE, FILES KEEP THEIR CURRENT CYCLE NUMBER
3209	if [[ "${actionout[$i]}" != "a" ]]
3210	then
3211	# SET RUN NUMBER AS CYCLE NUMBER, IF THERE IS NOT A CONFLICT
3212	# WITH AN EXISTING CYCLE NUMBER
3213	if (( run_number >= cycnum[$i] ))
3214	then
3215	(( cycnum[$i] = run_number ))
3216	else
3217	if (( run_number > 0 ))
3218	then
3219	printf "\n --- INFORMATIVE: The following file cannot get a unified cycle number"
3220	fi
3221	fi
3222	fi
3223	if (( cycnum[$i] > 0 ))
3224	then
3225	pathout[$i]=${pathout[$i]}.${cycnum[$i]}
3226	fi
3227	fi
3228
3229	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
3230	files_for_pes=false; filetyp=file
3231	link_local_output=false
3232	if [[ "${actionout[$i]}" = pe && -n $numprocs ]]
3233	then
3234	files_for_pes=true; filetyp=directory
3235	actionout[$i]=""
3236	elif [[ "${actionout[$i]}" = pe && ! -n $numprocs ]]
3237	then
3238	actionout[$i]=""
3239	elif [[ "${actionout[$i]}" = lnpe && -n $numprocs ]]
3240	then
3241	files_for_pes=true; filetyp=directory
3242	link_local_output=true
3243	actionout[$i]=""
3244	elif [[ "${actionout[$i]}" = lnpe && ! -n $numprocs ]]
3245	then
3246	link_local_output
3247	actionout[$i]=""
3248	elif [[ "${actionout[$i]}" = trpe && -n $numprocs ]]
3249	then
3250	files_for_pes=true; filetyp=directory
3251	actionout[$i]="tr"
3252	elif [[ "${actionout[$i]}" = trpe && ! -n $numprocs ]]
3253	then
3254	actionout[$i]="tr"
3255	fi
3256
3257	if [[ ! -f ${localout[$i]} && $files_for_pes = false ]]
3258	then
3259	printf "\n +++ temporary OUTPUT-file ${localout[$i]} does not exist\n"
3260	elif [[ ! -d ${localout[$i]} && $files_for_pes = true ]]
3261	then
3262	printf "\n +++ temporary OUTPUT-file ${localout[$i]}/.... does not exist\n"
3263	else
3264
3265
3266	# COPY VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
3267	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
3268	if [[ "${actionout[$i]}" = tr ]]
3269	then
3270	if [[ $localhost != $fromhost ]]
3271	then
3272	if [[ $files_for_pes = false ]]
3273	then
3274	cps=""
3275	cst=""
3276	else
3277	cps=-c
3278	cst="/"
3279	fi
3280
3281	transfer_failed=false
3282	printf "\n >>> OUTPUT: ${localout[$i]}$cst by SCP to"
3283	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}$cst\n"
3284	if [[ $localhost = lccrayb ]]
3285	then
3286	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]}"
3287	elif [[ $localhost = lccrayh ]]
3288	then
3289	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]}"
3290	elif [[ $localhost = lcbullhh ]]
3291	then
3292	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]}"
3293	elif [[ $localhost = lcxe6 ]]
3294	then
3295	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]}"
3296	else
3297	batch_scp $PORTOPT $cps -b -m $usecycle_option -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
3298	fi
3299	[[ $? != 0 ]] && transfer_failed=true
3300
3301	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
3302	if [[ $transfer_failed = true ]]
3303	then
3304	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
3305	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
3306
3307	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
3308	eval local_catalog=${pathout[$i]}
3309	if [[ ! -d $local_catalog ]]
3310	then
3311	printf " *** local directory does not exist. Trying to create:\n"
3312	printf " $local_catalog \n"
3313	mkdir -p $local_catalog
3314	fi
3315	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
3316	transfer_problems=true
3317	fi
3318
3319	else
3320
3321	# UNSET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE COPIED ON THIS MACHINE
3322	actionout[$i]=""
3323	fi
3324	fi
3325
3326
3327	# APPEND VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
3328	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
3329	if [[ "${actionout[$i]}" = tra ]]
3330	then
3331	if [[ $localhost != $fromhost ]]
3332	then
3333	if [[ $localhost = ibmh ]]
3334	then
3335
3336	# TRANSFER IN SEPERATE JOB
3337	# FIRST COPY FILE TO TEMPORY DATA DIRECTORY
3338	[[ ! -d $tmp_data_catalog/TRANSFER ]] && mkdir -p $tmp_data_catalog/TRANSFER
3339	file_to_transfer=${fname}_${localout[$i]}_to_transfer_$kennung
3340	ln -f ${localout[$i]} $tmp_data_catalog/TRANSFER/$file_to_transfer
3341
3342	echo "set -x" > transfer_${localout[$i]}
3343	echo "cd $tmp_data_catalog/TRANSFER" >> transfer_${localout[$i]}
3344
3345	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP in seperate job to"
3346	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}"
3347	printf "\n or higher cycle\n"
3348	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]}
3349
3350	echo "[[ \$? = 0 ]] && rm $file_to_transfer" >> transfer_${localout[$i]}
3351
3352	if [[ $LOGNAME = b323013 ]]
3353	then
3354	subjob -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3355	else
3356	subjob -d -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3357	fi
3358
3359	else
3360
3361	# TRANSFER WITHIN THIS JOB
3362	transfer_failed=false
3363	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP to"
3364	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}\n"
3365	if [[ $localhost = lccrayb ]]
3366	then
3367	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]}"
3368	elif [[ $localhost = lccrayh ]]
3369	then
3370	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]}"
3371	elif [[ $localhost = lcxe6 ]]
3372	then
3373	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]}"
3374	else
3375	batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
3376	fi
3377	[[ $? != 0 ]] && transfer_failed=true
3378
3379	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
3380	if [[ $transfer_failed = true ]]
3381	then
3382	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
3383	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
3384
3385	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
3386	eval local_catalog=${pathout[$i]}
3387	if [[ ! -d $local_catalog ]]
3388	then
3389	printf " *** local directory does not exist. Trying to create:\n"
3390	printf " $local_catalog \n"
3391	mkdir -p $local_catalog
3392	fi
3393
3394	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
3395	transfer_problems=true
3396	fi
3397	fi
3398	else
3399
3400	# RESET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE APPENDED ON THIS MACHINE
3401	actionout[$i]=a
3402	fi
3403	fi
3404
3405
3406	# APPEND ON THIS MACHINE
3407	if [[ "${actionout[$i]}" = "a" ]]
3408	then
3409	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
3410	then
3411	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}.${extout[$i]}\n"
3412	cat ${localout[$i]} >> ${pathout[$i]}.${extout[$i]}
3413	else
3414	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}\n"
3415	cat ${localout[$i]} >> ${pathout[$i]}
3416	fi
3417	fi
3418
3419	# COPY ON THIS MACHINE
3420	# COPY HAS TO BE USED, BECAUSE MOVE DOES NOT WORK IF FILE-ORIGIN AND TARGET ARE
3421	# ON DIFFERENT FILE-SYSTEMS
3422	if [[ "${actionout[$i]}" = "" && $files_for_pes = false ]]
3423	then
3424
3425	# COPY IN CASE OF RUNS ON SINGLE CORES
3426	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
3427	then
3428	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}.${extout[$i]}\n"
3429	if [[ $link_local_output = true ]]
3430	then
3431	printf " file will be linked\n"
3432	ln -f ${localout[$i]} ${pathout[$i]}.${extout[$i]}
3433	fi
3434	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
3435	if [[ ! -f "${pathout[$i]}.${extout[$i]}" ]]
3436	then
3437	if [[ $link_local_output = true ]]
3438	then
3439	printf " --- WARNING: ln failed, using cp instead (might be time consuming...)\n"
3440	fi
3441	cp ${localout[$i]} ${pathout[$i]}.${extout[$i]}
3442	else
3443	printf "+++ no copy because file ${pathout[$i]}.${extout[$i]} exists\n"
3444	fi
3445	else
3446	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}\n"
3447	if [[ $link_local_output = true ]]
3448	then
3449	printf " file will be linked\n"
3450	ln -f ${localout[$i]} ${pathout[$i]}
3451	fi
3452	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
3453	if [[ ! -f "${pathout[$i]}" ]]
3454	then
3455	if [[ $link_local_output = true ]]
3456	then
3457	printf " --- WARNING: ln failed, using cp instead (might be time consuming...)\n"
3458	fi
3459	cp ${localout[$i]} ${pathout[$i]}
3460	else
3461	printf "+++ no copy because file ${pathout[$i]} exists\n"
3462	fi
3463	fi
3464
3465	elif [[ "${actionout[$i]}" = "" && $files_for_pes = true ]]
3466	then
3467
3468	# FILES FROM THE DIFFERENT CORES ARE MOVED WITH ln-COMMAND TO THE PERMANENT DIRECTORY
3469	# AS A FIRST STEP, THE PERMANENT DIRECTORY IS CREATED
3470	printf "\n >>> OUTPUT: ${localout[$i]}/_.... to ${pathout[$i]}\n"
3471	if [[ $link_local_output = true ]]
3472	then
3473	printf " files will be linked\n"
3474	mkdir ${pathout[$i]}
3475	cd ${localout[$i]}
3476	for file in $(ls *)
3477	do
3478	ln -f $file ${pathout[$i]}
3479	done >\|/dev/null 2>&1
3480	cd $TEMPDIR
3481	fi
3482
3483	# IF "ln -f" HAS FAILED OR IF "$link_local_output = false" DO A NORMAL COPY "cp -r"
3484	if [[ ! -f "${pathout[$i]}/_000000" ]]
3485	then
3486	if [[ $link_local_output = true ]]
3487	then
3488	printf " --- WARNING: ln failed, using cp instead (might be time consuming...)\n"
3489	fi
3490	cp -r ${localout[$i]}/* ${pathout[$i]}
3491	fi
3492
3493	fi
3494	fi
3495	done
3496	if (( i != 0 ))
3497	then
3498	if [[ $transfer_problems = true ]]
3499	then
3500	printf "\n$dashes\n *** OUTPUT-files saved"
3501	printf "\n +++ WARNING: some data transfers failed! \n"
3502	else
3503	printf "\n$dashes\n *** all OUTPUT-files saved \n"
3504	fi
3505	fi
3506
3507
3508	# IF REQUIRED, START A RESTART-JOB
3509	# FILE CONTINUE_RUN MUST HAVE BEEN CREATED BY THE EXECUTABLE (PALM)
3510	if [[ -f CONTINUE_RUN ]]
3511	then
3512
3513	# ADD RESTART-OPTIONS TO THE MRUN-CALL (IF THEY ARE NOT USED ALREADY):
3514	# -C TELLS MRUN THAT IT IS A RESTART-RUN
3515	# -v SILENT MODE WITHOUT INTERACTIVE QUERIES
3516	# -n BATCH-MODE (IMPORTANT ONLY IN CASE OF BATCH JOBS ON THE LOCAL MACHINE)
3517	[[ $(echo $mc \| grep -c "\-C") = 0 ]] && mc="$mc -C"
3518	[[ $(echo $mc \| grep -c "\-v") = 0 ]] && mc="$mc -v"
3519	[[ $(echo $mc \| grep -c "\-b") = 0 ]] && mc="$mc -b"
3520	if [[ $(echo $mc \| grep -c "#") != 0 ]]
3521	then
3522	mc=`echo $mc \| sed 's/#/f/g'`
3523	fi
3524
3525
3526	# START THE RESTART-JOB
3527	printf "\n\n *** initiating restart-run on \"$return_address\" using command:\n"
3528	echo " $mc"
3529	printf "\n$dashes\n"
3530	if [[ $localhost != $fromhost ]]
3531	then
3532
3533	if [[ $localhost = lcbullhh \|\| $localhost = lccrayb \|\| $localhost = lccrayh \|\| $localhost = ibmh \|\| $localhost = ibmkisti \|\| $localhost = ibmku \|\| $localhost = ibms \|\| $localhost = lceddy \|\| $localhost = lckyu* \|\| $localhost = lcxe6 ]]
3534	then
3535	echo "*** ssh will be used to initiate restart-runs!"
3536	echo " return_address=\"$return_address\" "
3537	echo " return_username=\"$return_username\" "
3538	if [[ $(echo $return_address \| grep -c "130.75.105") = 1 ]]
3539	then
3540	if [[ $localhost = ibmh ]]
3541	then
3542	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\" "
3543	elif [[ $localhost = lcbullhh ]]
3544	then
3545	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\" "
3546	elif [[ $localhost = lccrayb ]]
3547	then
3548	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\" "
3549	elif [[ $localhost = lccrayh ]]
3550	then
3551	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\" "
3552	elif [[ $localhost = lcxe6 ]]
3553	then
3554	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\" "
3555	else
3556	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	fi
3558	else
3559	if [[ $localhost = ibmkisti ]]
3560	then
3561	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\" "
3562	elif [[ $localhost = lceddy ]]
3563	then
3564	/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 "
3565	elif [[ $localhost = lcocean ]]
3566	then
3567	/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 "
3568	elif [[ $localhost = lccrayb ]]
3569	then
3570	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\" "
3571	elif [[ $localhost = lccrayh ]]
3572	then
3573	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\" "
3574	else
3575	ssh $SSH_PORTOPT $return_address -l $return_username "PATH=\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc "
3576	fi
3577	fi
3578	else
3579	printf "\n +++ no restart mechanism available for host \"$localhost\" "
3580	locat=restart; exit
3581	fi
3582
3583	# WAIT TO ALLOW THE RESTART-JOB TO BE QUEUED, BEFORE THE CURRENT JOB IS FINISHED
3584	if [[ $queue = special1q ]]
3585	then
3586	sleep 120
3587	else
3588	sleep 30
3589	fi
3590
3591	else
3592
3593	# JOBS RUNNING (AND STARTED) ON THE LOCAL MACHINE CAN DIRECTLY CALL MRUN (WITHOUT
3594	# USING SSH)
3595	cd $LOCAL_PWD
3596	if [[ $localhost = lckyuh ]]
3597	then
3598	printf "\n +++ WARNING: no restart mechanism available for host \"$localhost\" "
3599	printf "\n please restart job manually using command:\n"
3600	printf "\n \"$mc\" "
3601	else
3602	eval $mc # THE ' MUST BE EVALUATED
3603	fi
3604	cd - > /dev/null
3605	fi
3606	if [[ $localhost = lckyuh ]]
3607	then
3608	printf "\n$dashes\n *** restart-run to be initiated manually\n"
3609	else
3610	printf "\n$dashes\n *** restart-run initiated \n"
3611	fi
3612
3613
3614	# DELETE INPUT-(RESTART)FILES, WHICH HAVE BEEN FETCHED FROM THE TEMPORARY DATA
3615	# DIRECTORY, BACAUSE THEY ARE NOT REQUIRED BY THE RESTART-JOB.
3616	# THIS IS DONE IN ORDER TO AVOID EXCEEDING DISC QUOTAS OR DISC SPACE (RESTART-FILES
3617	# MAY BE VERY HUGE)
3618	(( i = 0 ))
3619	while (( i < iin ))
3620	do
3621	(( i = i + 1 ))
3622	if [[ "${got_tmp[$i]}" = true && $keep_data_from_previous_run = false ]]
3623	then
3624	rm -r ${absnamein[$i]}
3625	fi
3626	done
3627
3628	fi
3629
3630
3631
3632	# SEND EMAIL NOTIFICATION ABOUT THE FINISHED RUN
3633	if [[ "$email_notification" != "none" ]]
3634	then
3635
3636	if [[ $localhost != $fromhost ]]
3637	then
3638	if [[ -f CONTINUE_RUN ]]
3639	then
3640	echo "PALM restart run necessary" > email_text
3641	echo "description header of actual run:" >> email_text
3642	cat CONTINUE_RUN >> email_text
3643	echo "mrun-command to restart:" >> email_text
3644	echo "$mc" >> email_text
3645	else
3646	echo "PALM run with base filename \"$fname\" on host \"$localhost\" finished" > email_text
3647	fi
3648	mail $email_notification < email_text
3649	printf "\n *** email notification sent to \"$email_notification\" "
3650	fi
3651	fi
3652
3653
3654
3655	# ALL ACTIONS FINISHED, TEMPORARY WORKING-DIRECTORY CAN BE DELETED
3656	cd $HOME
3657	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
3658
3659	else
3660
3661	# PREPARING ACTIONS,
3662	# IF A BATCH-JOB IS TO BE GENERATED AND STARTED ON A REMOTE-MACHINE GERECHNET
3663
3664	# BUILD THE MRUN-COMMAND TO BE CALLED IN THE BATCH-JOB ON THE REMOTE-MACHINE
3665	mrun_com="$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 $remote_username"
3666	[[ "$cpp_opts" != "" ]] && mrun_com=${mrun_com}" -D \"$cpp_opts\""
3667	[[ "$global_revision" != "" ]] && mrun_com=${mrun_com}" -G \"$global_revision\""
3668	[[ $group_number != none ]] && mrun_com=${mrun_com}" -g $group_number"
3669	[[ $do_compile = true ]] && mrun_com=${mrun_com}" -s \"$source_list\""
3670	[[ "$input_list" != "" ]] && mrun_com=${mrun_com}" -i \"$input_list\""
3671	[[ $keep_data_from_previous_run = true ]] && mrun_com=${mrun_com}" -k"
3672	[[ "$additional_conditions" != "" ]] && mrun_com=${mrun_com}" -K \"$additional_conditions\""
3673	[[ "$output_list" != "" ]] && mrun_com=${mrun_com}" -o \"$output_list\""
3674	[[ "$read_from_config" = false ]] && mrun_com=${mrun_com}" -S"
3675	[[ $do_trace = true ]] && mrun_com=${mrun_com}" -x"
3676	[[ "$numprocs" != "" ]] && mrun_com=${mrun_com}" -X $numprocs"
3677	if [[ $use_openmp = true ]]
3678	then
3679	mrun_com=${mrun_com}" -O $threads_per_task"
3680	fi
3681	[[ "$tasks_per_node" != "" ]] && mrun_com=${mrun_com}" -T $tasks_per_node"
3682	[[ $package_list != "" ]] && mrun_com=${mrun_com}" -p \"$package_list\""
3683	[[ $return_password != "" ]] && mrun_com=${mrun_com}" -P $return_password"
3684	[[ $delete_temporary_catalog = false ]] && mrun_com=${mrun_com}" -B"
3685	[[ $node_usage != default && "$(echo $node_usage \| cut -c1-3)" != "sla" && $node_usage != novice ]] && mrun_com=${mrun_com}" -n $node_usage"
3686	[[ "$ocean_file_appendix" = true ]] && mrun_com=${mrun_com}" -y"
3687	[[ $run_coupled_model = true ]] && mrun_com=${mrun_com}" -Y \"$coupled_dist\""
3688	[[ "$check_namelist_files" = false ]] && mrun_com=${mrun_com}" -z"
3689	[[ "$combine_plot_fields" = false ]] && mrun_com=${mrun_com}" -Z"
3690	[[ "$max_par_io_str" != "" ]] && mrun_com=${mrun_com}" -w $max_par_io_str"
3691	if [[ $do_remote = true ]]
3692	then
3693	printf "\n>>>> MRUN-command on execution host:\n>>>> $mrun_com \n"
3694	fi
3695
3696
3697	# CREATE EXECUTABLE FOR BATCH JOB
3698	if [[ $create_executable_for_batch = true && $restart_run != true ]]
3699	then
3700
3701	printf "\n *** creating the executable for batch job\n"
3702
3703	# METHOD ONLY WORKS FOR BATCH JOBS ON LOCAL HOSTS
3704	if [[ $host != $localhost ]]
3705	then
3706	printf "\n +++ creation of executables is only allowed for batch jobs on local hosts."
3707	printf "\n Please set create_executable_for_batch = false in the config-file.\n"
3708	locat=create_executable; exit
3709	fi
3710
3711	mkdir $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
3712	cd $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
3713
3714	cp $make_depository .
3715	tar -xf $make_depository > /dev/null 2>&1
3716	cp ../* . > /dev/null 2>&1
3717
3718	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
3719
3720	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
3721	then
3722	printf "\n +++ error occured while compiling or linking"
3723	locat=compile
3724	exit
3725	fi
3726
3727	mv a.out ..
3728	cd - > /dev/null 2>&1
3729	rm -rf $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
3730
3731	printf " *** executable created in \"$working_directory/SOURCES_FOR_RUN_${fname}\"\n "
3732
3733	fi
3734
3735
3736	# BUILD THE JOB-SCRIPTS ON FILE jobfile
3737	jobfile=jobfile.$RANDOM
3738
3739
3740	# CREATE TEMPORARY DIRECTORY AND SWITCH TO IT
3741	echo "mkdir $TEMPDIR" >> $jobfile
3742	echo "cd $TEMPDIR" >> $jobfile
3743
3744
3745	# ACTIVATE ERROR-TRACEBACK
3746	if [[ $do_trace = true ]]
3747	then
3748	echo "set -x" >> $jobfile
3749	else
3750	echo "set +vx" >> $jobfile
3751	fi
3752
3753
3754	# INITIALIZE THE ENVIRONMENT AND LOAD MODULES
3755	if [[ "$init_cmds" != "" ]]
3756	then
3757	echo "$init_cmds" >> $jobfile
3758	fi
3759	if [[ "$module_calls" != "" ]]
3760	then
3761	echo "$module_calls" >> $jobfile
3762	fi
3763
3764
3765	# PROVIDE SOURCE-CODE FILES, MRUN-SCRIPT AND CONFIGURATION-FILE FOR THE JOB
3766	# then-CLAUSE: FILES ARE COLLECTED IN THE SOURCES_FOR_RUN_... DIRECTORY ON THE LOCAL HOST,
3767	# WHICH IS THEN FETCHED FROM THE BATCH-JOB BY USING cp/scp
3768	# THE SOURCE-CODE FILES ALREADY EXIST IN THIS DIRECTORY
3769	# else-CLAUSE: FILE-CONTENTS ARE PUT INTO THE JOB-FILE AS HERE-DOCUMENTS
3770	# THIS MAY CREATE A QUITE LARGE JOB-FILE, WHICH CAN CAUSE PROBLEMS WITH SOME
3771	# QUEUEING-SYSTEMS
3772	if [[ $host = ibmkisti \|\| $host = lcbullhh \|\| $host = lccrayb \|\| $host = lccrayf \|\| $host = lccrayh \|\| $host = lcocean ]]
3773	then
3774
3775	# COPY CONFIGURATION-FILE AND MRUN-SCRIPT INTO THE SOURCES_FOR_RUN... DIRECTORY
3776	if [[ $restart_run != true ]]
3777	then
3778	cp $config_file $working_directory/SOURCES_FOR_RUN_$fname
3779	cp ${PALM_BIN}/$mrun_script_name $working_directory/SOURCES_FOR_RUN_$fname
3780	fi
3781
3782	# COPY THE SOURCES_FOR_RUN... DIRECTORY FROM THE LOCAL HOST TO THE JOB VIA scp
3783	# (then-CLAUSE: JOBS ON THE LOCAL HOST CAN JUST USE cp)
3784	echo "set -x" >> $jobfile
3785	if [[ $host = $localhost ]]
3786	then
3787	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
3788	# FILES ON CRAY XC30 SYSTEMS (CSC HELSINKI), rsync IS USED INSTEAD
3789	if [[ $(echo $host \| cut -c1-6) = lccray ]]
3790	then
3791	echo "rsync -av -t $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
3792	else
3793	echo "cp -r $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
3794	fi
3795
3796	else
3797	if [[ $host = ibmkisti ]]
3798	then
3799	# ON KISTI'S IBM FIREWALL IS ONLY OPENED ON INTERACTIVE NODE
3800	echo "localdir=\`pwd\`" >> $jobfile
3801	echo "ssh $SSH_PORTOPT $remote_username@gaiad \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
3802	elif [[ $host = lcbullhh ]]
3803	then
3804	echo "localdir=\`pwd\`" >> $jobfile
3805	echo "ssh $SSH_PORTOPT $remote_username@mlogin101 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
3806
3807	elif [[ $host = lccrayb ]]
3808	then
3809	echo "localdir=\`pwd\`" >> $jobfile
3810	echo "ssh $SSH_PORTOPT $remote_username@blogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
3811	elif [[ $host = lccrayh ]]
3812	then
3813	echo "localdir=\`pwd\`" >> $jobfile
3814	echo "ssh $SSH_PORTOPT $remote_username@hlogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
3815
3816	else
3817	echo "scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
3818	fi
3819	fi
3820	echo "export SOURCES_COMPLETE=true" >> $jobfile
3821
3822	# MOVE MRUN-SCRIPT AND CONFIGURATION-FILE FROM THE SOURCES_FOR_RUN... DIRECTORY TO THE
3823	# WORKING DIRECTORY OF THE JOB
3824	echo "mv SOURCES_FOR_RUN_$fname/$config_file . " >> $jobfile
3825	echo "mv SOURCES_FOR_RUN_$fname/$mrun_script_name . " >> $jobfile
3826	echo "chmod u+rwx $mrun_script_name" >> $jobfile
3827	echo "execute_mrun=true" >> $jobfile
3828	echo " " >> $jobfile
3829
3830	else
3831
3832	# PROVIDE SOURCE-CODE FILES AND MAKEFILE AS HERE DOCUMENT
3833	if [[ $do_compile = true ]]
3834	then
3835
3836	source_catalog=SOURCES_FOR_RUN_$fname
3837
3838	# CREATE SOURCES_FOR_RUN... DIRECTORY TO STORE THE SOURCE CODE FILES AND THE MAKEFILE
3839	echo "mkdir SOURCES_FOR_RUN_$fname" >> $jobfile
3840	echo "export SOURCES_COMPLETE=true" >> $jobfile
3841	echo "cd SOURCES_FOR_RUN_$fname" >> $jobfile
3842
3843	for filename in $source_list
3844	do
3845	# BACKSLASH IS USED FOR MASKING
3846	echo "cat > $filename << \"%END%\"" >> $jobfile
3847	cat $source_catalog/$filename >> $jobfile
3848	echo " " >> $jobfile
3849	echo "%END%" >> $jobfile
3850	echo " " >> $jobfile
3851	done
3852
3853	# BACKSLASH IS USED FOR MASKING
3854	echo "cat > Makefile << \"%END%\"" >> $jobfile
3855	cat $source_catalog/Makefile >> $jobfile
3856	echo " " >> $jobfile
3857	echo "%END%" >> $jobfile
3858	echo " " >> $jobfile
3859
3860	echo "cd - > /dev/null" >> $jobfile
3861
3862	fi
3863
3864
3865	# PROVIDE THE CONFIGURATION-FILE AS HERE-DOCUMENT
3866	# BACKSLASH IS USED FOR MASKING
3867	# LINES WITH #$ IN THE CONFIGURATION-FILE, COMING FROM THE SVN KEYWORD SUBSTITUTION,
3868	# ARE REMOVED FROM THE FILE IN ORDER TO AVOID PROBLEMS WITH THE SGE BATCH SYSTEM
3869	echo "cat > $config_file << \"%END%\"" >> $jobfile
3870	if [[ $host = lckyuh ]]
3871	then
3872	# NO CROSS-COMPILER ON COMPUTE NODE
3873	sed 's/frtpx/frt/g' $config_file >> $jobfile
3874	else
3875	sed 's/#$.*//g' $config_file >> $jobfile
3876	fi
3877	echo "%END%" >> $jobfile
3878	echo " " >> $jobfile
3879
3880
3881	# PROVIDE THE MRUN-SCRIPTS AS HERE-DOCUMENT
3882	# BACKSLASH IS USED FOR MASKING
3883	echo "cat > $mrun_script_name <<\"%END%\"" >> $jobfile
3884	if [[ $host = lckyuh ]]
3885	then
3886	sed 's/\/bin\/ksh/\/bin\/bash/g' ${PALM_BIN}/$mrun_script_name >> $jobfile
3887	else
3888	cat ${PALM_BIN}/$mrun_script_name >> $jobfile
3889	fi
3890	echo "%END%" >> $jobfile
3891	echo "chmod u+x $mrun_script_name" >> $jobfile
3892	echo "execute_mrun=true" >> $jobfile
3893	echo " " >> $jobfile
3894
3895	fi
3896
3897
3898	# GET REQUIRED INPUT-FILES BY SCP OR BY SENDING THEM WITH THE JOB AS HERE-DOCUMENT
3899	# PUT THESE FILES INTO THE USER'S RESPECTIVE PERMANENT DIRECTORIES ON THE REMOTE-HOST
3900	# IF THE DIRECTORIES DO NOT EXIST, TRY TO CREATE THEM
3901	if [[ $do_remote = true ]]
3902	then
3903	(( i = 0 ))
3904	while (( i < iin ))
3905	do
3906	(( i = i + 1 ))
3907	echo "[[ ! -d ${pathin[$i]} ]] && mkdir -p ${pathin[$i]}" >> $jobfile
3908	if [[ "${transin[$i]}" = job ]]
3909	then
3910	echo "cat > ${remotepathin[$i]} <<\"%END%\"" >> $jobfile
3911	eval cat ${pathin[$i]}/${frelin[$i]} >> $jobfile
3912	echo " " >> $jobfile
3913	echo "%END%" >> $jobfile
3914	else
3915	echo "batch_scp $PORTOPT -b -o -g -s -u $return_username $return_address ${remotepathin[$i]} \"${pathin[$i]}\" ${frelin[$i]}" >> $jobfile
3916	fi
3917
3918	# CHECK, IF FILE COULD BE CREATED
3919	echo "if [[ \$? = 1 ]]" >> $jobfile
3920	echo "then" >> $jobfile
3921	echo " echo \" \" " >> $jobfile
3922	echo " echo \"+++ file ${remotepathin[$i]} could not be created\" " >> $jobfile
3923	echo " echo \" please check, if directory exists on $host!\" " >> $jobfile
3924	echo " echo \"+++ MRUN will not be continued\" " >> $jobfile
3925	echo " execute_mrun=false" >> $jobfile
3926	echo "fi" >> $jobfile
3927	done
3928	fi
3929
3930	# PROVIDE NAME OF THE CURRENT WORKING-DIRECTORY ON THE LOCAL MACHINE (FROM WHERE THE JOB IS
3931	# STARTED) BY SETTING AN ENVIRONMENT-VARIABLE. THIS INFORMATION IS USED IN THE JOB BY MRUN
3932	# IN CASE THAT RESTART-RUNS HAVE TO BE GENERATED
3933	echo "LOCAL_PWD=$working_directory" >> $jobfile
3934	echo "export LOCAL_PWD" >> $jobfile
3935
3936	# PROVIDE THE PATH OF THE LOCAL MRUN-SCRIPT FOR THE SAME REASON
3937	echo "LOCAL_MRUN_PATH=$PALM_BIN" >> $jobfile
3938	echo "export LOCAL_MRUN_PATH" >> $jobfile
3939
3940	# lceddy ALSO REQUIRES TO PROVIDE PATH FOR THE PALM-SCRIPTS
3941	if [[ $host = lceddy \|\| $localhost = lceddy ]]
3942	then
3943	echo "export PALM_BIN=$PALM_BIN" \| sed -e 's:'$HOME':$HOME:' >> $jobfile
3944	echo "export PATH=\$PATH:\$PALM_BIN" >> $jobfile
3945	fi
3946
3947	# CALL MRUN WITHIN THE JOB (SETTING QUEUE IS A WORKAROUND FOR ibmkisti)
3948	# AS FINAL ACTION, REMOVE THE TEMPORARY DIRECTORY CREATED AT THE BEGINNING OF THE JOB
3949	echo "set -x" >> $jobfile
3950	echo "queue=$queue" >> $jobfile
3951	echo "[[ \$execute_mrun = true ]] && ./$mrun_com" >> $jobfile
3952	echo 'ls -al; echo `pwd`' >> $jobfile
3953	echo "cd \$HOME" >> $jobfile
3954	echo "rm -rf $TEMPDIR" >> $jobfile
3955
3956
3957
3958
3959	# START THE JOB USING SUBJOB-COMMAND
3960	if [[ $silent = false ]]
3961	then
3962	printf "\n "
3963	else
3964	printf "\n\n"
3965	fi
3966
3967	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
3968	rm -rf $jobfile
3969
3970
3971	fi # END OF REMOTE-PART

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