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source: palm/trunk/SCRIPTS/mrun @ 2284

Last change on this file since 2284 was 2268, checked in by raasch, 8 years ago
bugfix for calculating cycle numbers for output files in r2261
Property svn:keywords set to `Id Rev`
File size: 142.4 KB

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1	#!/bin/bash
2
3	# mrun - script for running PALM jobs
4
5	#--------------------------------------------------------------------------------#
6	# This file is part of PALM.
7	#
8	# PALM is free software: you can redistribute it and/or modify it under the terms
9	# of the GNU General Public License as published by the Free Software Foundation,
10	# either version 3 of the License, or (at your option) any later version.
11	#
12	# PALM is distributed in the hope that it will be useful, but WITHOUT ANY
13	# WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR
14	# A PARTICULAR PURPOSE. See the GNU General Public License for more details.
15	#
16	# You should have received a copy of the GNU General Public License along with
17	# PALM. If not, see <http://www.gnu.org/licenses/>.
18	#
19	# Copyright 1997-2015 Leibniz Universitaet Hannover
20	#--------------------------------------------------------------------------------#
21	#
22	# Current revisions:
23	# ------------------
24	#
25	#
26	# Former revisions:
27	# -----------------
28	# $Id: mrun 2268 2017-06-09 10:34:09Z witha $
29	# bugfix for calculating cycle numbers for output files in r2261
30	#
31	# 2262 2017-06-08 14:52:23Z raasch
32	# bugfix for r2261
33	#
34	# 2261 2017-06-08 14:25:57Z raasch
35	# unified cycle numbers for output files are used,
36	# paths and filenames are allowed to contain arbitrary numbers of dots ".",
37	# creation of file OUTPUT_FILE_CONNECTIONS removed,
38	# archive feature completely removed from the script,
39	# nech related parts completely removed
40	#
41	# 2257 2017-06-07 14:07:05Z witha
42	# adjustments for lceddy, removed lcflow-specific code
43	#
44	# 2186 2017-03-21 05:36:31Z raasch
45	#
46	# 2185 2017-03-21 05:09:29Z raasch
47	# adjustment for lykyo*-hosts (PJM_ENVIRONMENT defines BATCH)
48	#
49	# 2148 2017-02-09 16:56:42Z scharf
50	# changed allocation of resources for lcbullhh in srun command
51	#
52	# 2141 2017-02-06 10:19:32Z gronemeier
53	# made check for existing files language independent
54	#
55	# 1944 2016-06-15 06:29:00Z raasch
56	# adjustments for using HLRN ssh-keys
57	#
58	# 1940 2016-06-14 05:15:20Z raasch $
59	# adjustments for lckiaps
60	#
61	# 1866 2016-04-15 06:50:59Z raasch
62	# adjusted for lcocean
63	#
64	# 1841 2016-04-07 19:14:06Z raasch
65	# script now running under bash
66	#
67	# 1804 2016-04-05 16:30:18Z maronga
68	# test: implementing an execute mechanism where the execute command is given in the
69	# configuration file
70	# ROPTS removed from execution commands
71	# Warnings about missing optional files or user code changed to informative messages
72	# Removed parameter file check
73	#
74	# 1755 2016-02-22 13:53:39Z maronga
75	# Minor bugfix to last commit
76	#
77	# 1753 2016-02-22 13:49:49Z maronga
78	# Bugfix: use random job number when PBS job nummer retrieval fails on lccray*
79	#
80	# 1622 2015-07-20 06:21:36Z heinze
81	# bugfix for Mistral (lcbullhh)
82	#
83	# 1621 2015-07-17 11:39:33Z heinze
84	# adjustments for Mistral at DKRZ Hamburg (lcbullhh)
85	#
86	# 1609 2015-07-03 15:37:58Z maronga
87	# Modified the random number of the temporary working directory to match the
88	# queuing system number on HLRN-III (lccray*).
89	#
90	# 1604 2015-06-23 15:48:03Z suehring
91	# Enable coupled runs for lcmuk
92	#
93	# 1598 2015-05-29 06:45:40Z raasch
94	# bugfix for creating hostfile and total number of MPI tasks if run in openmp-mode on one node
95	#
96	# 1549 2015-01-30 14:26:16Z suehring
97	# Enable interactive debug sessions with allinea debugger
98	#
99	# 1547 2015-01-29 15:09:12Z witha
100	# adjustments for ForWind computing cluster (lcflow)
101	#
102	# 1491 2014-11-12 08:12:57Z heinze
103	# correct setting of batch_job allowed for ibm-machines
104	#
105	# 1468 2014-09-24 14:06:57Z maronga
106	# Typo removed (addres->address)
107	# Bugfix: returning files to IMUK via ssh did not work for lccrayh and lcycrayb
108	# Added support for restart runs (remote) for lcxe6
109	#
110	# 1442 2014-07-28 07:09:10Z raasch
111	# default queues for HLRN-III (lccrayb/lccrayh) defined
112	#
113	# 1422 2014-07-02 10:01:25Z kanani
114	# automatic restarts enabled for lccrayb,
115	# adjustment of path to compilervars.sh at IMUK (see automatic restarts)
116	#
117	# 1420 2014-06-10 06:24:14Z raasch
118	# -j1 option added to aprung command for lccrayf (CSC)
119	#
120	# 1402 2014-05-09 14:25:13Z raasch
121	# batch_job added to envpar-NAMELIST
122	#
123	# 1357 2014-04-11 15:02:03Z witha
124	# adjustments for lccrayh (automatic restarts on lccrayh outside of IMUK are now
125	# possible)
126	#
127	# 1320 2014-03-20 08:40:49Z raasch
128	# check namelist file set false by default
129	#
130	# 1304 2014-03-12 10:29:42Z raasch
131	# ulimit option changed from -Ss to -s
132	#
133	# bugfix: missing "fi" in r1289
134	#
135	# 1289 2014-03-04 07:12:34Z raasch
136	# comments translated to English
137	# necriam-, fimm-, ibmy-, and sgi-specific code removed
138	# export of variables for palm and interpret_config removed
139	#
140	# 1281 2014-02-01 07:55:49Z raasch
141	# rsync-copy restricted to Cray machines, since command is unavailable on some
142	# other systems
143	#
144	# 1279 2014-01-28 12:10:14Z raasch
145	# tasks_per_node must not be an integral divisor of numprocs any more. This was done
146	# in order to remove annoying restrictions concerning the number of processors which
147	# appear on machines with larger nodes (e.g. containing 24 cores). Now without this
148	# restriction, one of the nodes will be filled with less than the given number of
149	# tasks per node. A respective warning is given.
150	#
151	# 1274 2014-01-09 13:14:54Z heinze
152	# adjustments for lccrayh
153	#
154	# 1272 2014-01-08 10:19:32Z witha
155	# small adjustment for lcflow
156	#
157	# 1270 2013-12-16 11:05:01Z fricke
158	# call of combine_plot_fields adjusted for lccrayb/lccrayh
159	#
160	# 1255 2013-11-07 14:43:35Z raasch
161	# further adjustments for lccrayb remote access
162	#
163	# 1241 2013-10-30 11:36:58Z heinze
164	# Enable use of nudging input and input of large scale forcing from
165	# external files
166	#
167	# 1229 2013-09-20 06:55:19Z raasch
168	# further adjustments for lccrayb
169	#
170	# 1224 2013-09-16 07:27:23Z raasch
171	# first adjustments for lccrayb
172	#
173	# 1210 2013-08-14 10:58:20Z raasch
174	# fftw support added
175	#
176	# 1201 2013-07-10 16:17:59Z witha
177	# adjustments for Forwind cluster (lcflow)
178	#
179	# 1199 2013-07-05 14:52:22Z raasch
180	# adjustments for CSC Helsinki (lccrayf),
181	# executables for batch jobs can be created in advance, in order to avoid calling
182	# the compiler within the batch job (only works if batch jobs are submitted on
183	# local host)
184	#
185	# 1190 2013-06-25 09:39:21Z heinze
186	# enable use of automatic restarts for ibmh
187	# use of cluster/express queue enabled (ibmh)
188	#
189	# 1124 2013-04-09 15:46:52Z raasch
190	# variable "memory" is exported via typeset option -x, because otherwise an unknown
191	# side effect may lead to data loss while getopts is reading the script-option arguments
192	#
193	# 1122 2013-04-09 08:37:16Z heinze
194	# Bugfix: change type of variable last_char
195	#
196	# 1119 2013-04-05 15:11:19Z raasch
197	# Bugfix for setting -T option for subjob
198	#
199	# 1108 2013-03-05 07:03:32Z raasch
200	# bugfix for coupled runs on lckyut/lckyuh
201	#
202	# 1106 2013-03-04 05:31:38Z raasch
203	# --stdin argument for mpiexec on lckyuh
204	# -y and -Y settings output to header
205	#
206	# 1103 2013-02-20 02:15:53Z raasch
207	# default script runs again under ksh, because of unsolved problems with read
208	# from stdin: when bash script is called from a ksh, message "read error: 0:
209	# Resource temporarily unavailable" appears and script does not stop,
210	# further bash compatibility adjustments,
211	# shebang line replaced by /bin/bash when running jobs on lckyuh; no restarts
212	# on lckyuh, but mrun does not terminate and issues a warning instead
213	#
214	# 1101 2013-02-17 10:20:21Z raasch
215	# script now running under bash instead of ksh, which required small adjustments
216	# (output formatting with printf instead "typeset -L/-R", print replaced by echo,
217	# read from stdin),
218	# cross compilername on lckyuh compute nodes replaced by real compiler name
219	#
220	# 1099 2013-02-10 01:47:43Z raasch
221	# adjustments for Kyushu-University computing center (lckyuh - hayaka)
222	# and for Forwind cluster (lcflow)
223	# small further adjustments for lckyut
224	#
225	# 1094 2013-02-03 01:52:12Z raasch
226	# explicit ssh/scp port can be set in config file with environment variable
227	# scp_port. This port is handled to all ssh/scp/batch_scp calls.
228	# decalpha parts (yonsei) removed
229	#
230	# 2013-02-02 07:06:13Z raasch
231	# adjustments for Kyushu-University computing center (lckyut - tatara)
232	#
233	# 1083 2013-01-04 10:22:09Z maronga
234	# bugfix in parameter file check (read %cpp_options was missing)
235	#
236	# 1069 2012-11-28 16:18:43Z maronga
237	# bugfix: coupling mode was always set to mpi2, typos removed
238	#
239	# 1058 2012-11-21 07:00:35Z raasch
240	# Intel inspector (inspxe) is given the number of PEs instead of the number of
241	# nodes
242	#
243	# 1046 2012-11-09 14:38:45Z maronga
244	# code put under GPL (PALM 3.9)
245	#
246	# 21/03/94 - Siggi - first version finished
247	# 03/03/94 - Siggi - script development started
248	#
249	#--------------------------------------------------------------------------------#
250	# mrun - script for running PALM jobs
251	#--------------------------------------------------------------------------------#
252
253
254
255	# DECLARATION OF VARIABLES AND THEIR DEFUALT VALUES
256
257	set +o allexport # SUPPRESS EXPORT OF ALL VARIABLES, SINCE IN THE PAST THIS
258	# LES TO PROBLEMS IN ROUTINES CALLED BY MRUN
259	# (TOO MANY ARGUMENTS - PROBLEM)
260	set +o noclobber # EXISTING FILES ARE ALLOWED TO BE OVERWRITTEN
261
262	AddFilenames=""
263	additional_conditions=""
264	add_source_path=""
265	afname=""
266	check_namelist_files=false
267	combine_plot_fields=true
268	compiler_name=""
269	cond1=""
270	cond2=""
271	config_file=.mrun.config
272	coupled_dist=""
273	coupled_mode="mpi1"
274	cpp_opts=""
275	cpp_options=""
276	cpumax=0
277	cpurest=0
278	create_executable_for_batch=false
279	delete_temporary_catalog=true
280	do_batch=false
281	do_compile=true
282	do_remote=false
283	do_stagein=true
284	do_stageout=true
285	do_trace=false
286	email_notification="none"
287	exclude=""
288	executable=""
289	execute_command="none"
290	execution_error=false
291	fftw_inc=""
292	fftw_lib=""
293	fftw_support=false
294	fname=test
295	fromhost=""
296	global_revision=""
297	group_number=none
298	host=""
299	host_file=""
300	hp=""
301	input_list=""
302	interpreted_config_file=""
303	job_catalog="~/job_queue"
304	job_on_file=""
305	keep_data_from_previous_run=false
306	link_local_input=false
307	link_local_output=false
308	localhost_realname=$(hostname)
309	local_dvrserver_running=.FALSE.
310	locat=normal
311	mainprog=""
312	makefile=""
313	max_par_io_str=""
314	mc=$0
315	while [[ $(echo $mc \| grep -c "/") != 0 ]]
316	do
317	mc=`echo $mc \| cut -f2- -d"/"`
318	done
319	module_calls=""
320	mrun_script_name=$mc
321	netcdf_inc=""
322	netcdf_lib=""
323	netcdf_support=false
324	node_usage=default
325	numprocs=""
326	numprocs_atmos=0
327	numprocs_ocean=0
328	OOPT=""
329	openmp=false
330	output_list=""
331	package_list=""
332	queue=none
333	read_from_config=""
334	restart_run=false
335	if [[ `hostname` = rte10 ]]
336	then
337	return_address=133.5.185.60
338	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
339	elif [[ `hostname` = climate0 ]]
340	then
341	return_address=165.132.26.68
342	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
343	elif [[ `hostname` = "schultzl-Latitude-E6540" ]]
344	then
345	return_address="schultzl-Latitude-E6540"
346	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
347	elif [[ `hostname` = urban00 ]]
348	then
349	return_address=147.46.30.151
350	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
351	else
352	return_address=$(nslookup `hostname` 2>&1 \| grep "Address:" \| tail -1 \| awk '{print $2}')
353	fi
354	return_password=""
355	return_username=$LOGNAME
356	remotecall=false
357	remote_username=""
358	run_coupled_model=false
359	run_mode=""
360	dashes=" ----------------------------------------------------------------------------"
361	silent=false
362	source_list=""
363	source_path=SOURCE
364	tasks_per_node=""
365	threads_per_task=1
366	tmpcreate=false
367	tmp_data_catalog=""
368	transfer_problems=false
369	usern=$LOGNAME
370	use_openmp=false
371	version="MRUN 2.1 Rev$Rev: 2268 $"
372	working_directory=`pwd`
373	TOPT=""
374	XOPT=""
375	zeit=$( date \| cut -c 12-19 )
376
377	typeset -i iec=0 iic=0 iin=0 ioc=0 iout=0 stagein_anz=0 stageout_anz=0
378	typeset -x -i memory=0 # HAS TO BE EXPORTED HERE, OTHERWISE AN UNKNOWN SIDE
379	# SIDE EFFECT MAY CAUSE DATA LOSS WHEN GETOPTS IS READING THE
380	# SCRIPT-OPTION ARGUMENTS
381	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
382
383	# ERROR HANDLING IN CASE OF EXIT
384	trap 'rm -rf $working_directory/tmp_mrun
385	if [[ $locat != normal && $locat != control_c ]]
386	then
387
388	# CARRY OUT ERROR-COMMANDS GIVEN IN THE CONFIGURATION FILE (EC:)
389	(( i = 0 ))
390	while (( i < iec ))
391	do
392	(( i = i + 1 ))
393	printf "\n *** Execution of ERROR-command:\n"
394	printf " >>> ${err_command[$i]}\n"
395	eval ${err_command[$i]}
396	done
397	if [[ -n $interpreted_config_file ]]
398	then
399	rm -rf $interpreted_config_file
400	fi
401	if [[ -n .mrun_environment ]]
402	then
403	rm -rf .mrun_environment
404	fi
405	if [[ $tmpcreate = true ]]
406	then
407	# printf "\n *** Contents of \"$TEMPDIR\":\n"
408	# ls -al; cd
409	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
410	fi
411	if [[ "$dvrserver_id" != "" ]]
412	then
413	echo "+++ killing dvrserver_id=$dvrserver_id"
414	kill $dvrserver_id
415	fi
416	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
417	then
418	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
419	fi
420	printf "\n\n+++ MRUN killed \n\n"
421	elif [[ $locat != control_c ]]
422	then
423	printf "\n\n --> all actions finished\n\n"
424	printf " Bye, bye $usern !!\n\n"
425	fi' exit
426
427
428	# ACTIONS IN CASE OF TERMINAL-BREAK (CONTROL-C):
429	trap 'rm -rf $working_directory/tmp_mrun
430	rm -rf $working_directory/tmp_check_namelist_files
431	[[ $tmpcreate = true ]] && (cd; rm -rf $TEMPDIR)
432	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
433	then
434	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
435	fi
436	if [[ "$dvrserver_id" != "" ]]
437	then
438	echo "+++ killing dvrserver_id=$dvrserver_id"
439	kill $dvrserver_id
440	fi
441	printf "\n+++ MRUN killed by \"^C\" \n\n"
442	locat=control_c
443	exit
444	' 2
445
446
447	# CHECK IF THE PATH FOR THE PALM BINARIES (SCRIPTS+UTILITY-PROGRAMS) HAS
448	# BEEN SET
449	if [[ "$PALM_BIN" = "" ]]
450	then
451	printf "\n +++ environment variable PALM_BIN has not been set"
452	printf "\n please set it to the directory where the PALM scripts are located"
453	locat=palm_bin; exit
454	fi
455	export PATH=$PALM_BIN:$PATH
456
457
458
459	# READ SHELLSCRIPT-OPTIONS AND REBUILD THE MRUN-COMMAND STRING (MC),
460	# WHICH WILL BE USED TO START RESTART-JOBS
461	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
462	do
463	case $option in
464	(a) afname=$OPTARG;;
465	(b) do_batch=true; mc="$mc -b";;
466	(B) delete_temporary_catalog=false; mc="$mc -B";;
467	(c) config_file=$OPTARG; mc="$mc -c$OPTARG";;
468	(C) restart_run=true; mc="$mc -C";;
469	(d) fname=$OPTARG; mc="$mc -d$OPTARG";;
470	(F) job_on_file="-D"; mc="$mc -F";;
471	(g) group_number=$OPTARG; mc="$mc -g$OPTARG";;
472	(G) global_revision=$OPTARG; mc="$mc -G'$OPTARG'";;
473	(h) host=$OPTARG; mc="$mc -h$OPTARG";;
474	(H) fromhost=$OPTARG; mc="$mc -H$OPTARG";;
475	(i) input_list=$OPTARG; mc="$mc -i'$OPTARG'";;
476	(k) keep_data_from_previous_run=true; mc="$mc -k";;
477	(K) additional_conditions="$OPTARG"; mc="$mc -K'$OPTARG'";;
478	(m) memory=$OPTARG; mc="$mc -m$OPTARG";;
479	(M) makefile=$OPTARG; mc="$mc -M$OPTARG";;
480	(n) node_usage=$OPTARG; mc="$mc -n$OPTARG";;
481	(o) output_list=$OPTARG; mc="$mc -o'$OPTARG'";;
482	(O) use_openmp=true; threads_per_task=$OPTARG; mc="$mc -O$OPTARG";;
483	(p) package_list=$OPTARG; mc="$mc -p'$OPTARG'";;
484	(P) return_password=$OPTARG; mc="$mc -P$OPTARG";;
485	(q) queue=$OPTARG; mc="$mc -q$OPTARG";;
486	(r) run_mode=$OPTARG; mc="$mc -r'$OPTARG'";;
487	(R) remotecall=true;return_address=$OPTARG; mc="$mc -R$OPTARG";;
488	(s) source_list=$OPTARG; mc="$mc -s'$OPTARG'";;
489	(S) read_from_config=false; mc="$mc -S";;
490	(t) cpumax=$OPTARG; mc="$mc -t$OPTARG";;
491	(T) mrun_tasks_per_node=$OPTARG; mc="$mc -T$OPTARG";;
492	(u) remote_username=$OPTARG; mc="$mc -u$OPTARG";;
493	(U) return_username=$OPTARG; mc="$mc -U$OPTARG";;
494	(v) silent=true; mc="$mc -v";;
495	(w) max_par_io_str=$OPTARG; mc="$mc -w$OPTARG";;
496	(x) do_trace=true;set -x; mc="$mc -x";;
497	(X) numprocs=$OPTARG; mc="$mc -X$OPTARG";;
498	(y) ocean_file_appendix=true; mc="$mc -y";;
499	(Y) run_coupled_model=true; coupled_dist=$OPTARG; mc="$mc -Y'$OPTARG'";;
500	(z) check_namelist_files=false; mc="$mc -z";;
501	(Z) combine_plot_fields=false; mc="$mc -Z";;
502	(\?) printf "\n +++ unknown option $OPTARG \n"
503	printf "\n --> type \"$0 ?\" for available options \n"
504	locat=parameter;exit;;
505	esac
506	done
507
508
509	# SKIP GIVEN OPTIONS TO READ POSITIONAL PARAMETER, IF GIVEN
510	# CURRENTLY ONLY PARAMETER ? (TO OUTPUT A SHORT COMMAND INFO) IS ALLOWED
511	(( to_shift = $OPTIND - 1 ))
512	shift $to_shift
513
514	# PRINT SHORT DESCRIPTION OF MRUN OPTIONS
515	if [[ "$1" = "?" ]]
516	then
517	(printf "\n *** mrun can be called as follows:\n"
518	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"
519	printf "\n Description of available options:\n"
520	printf "\n Option Description Default-Value"
521	printf "\n -a base name of input files equiv. -d"
522	printf "\n -b batch-job on local machine ---"
523	printf "\n -B do not delete temporary directory at end ---"
524	printf "\n -c configuration file .mrun.config"
525	printf "\n -d base name of files attached to program test"
526	printf "\n -D preprocessor(cpp)-directives \"\" "
527	printf "\n -F create remote job file only ---"
528	printf "\n -h execution host $localhost_realname"
529	printf "\n -i INPUT control list \"\" "
530	printf "\n -k keep data from previous run"
531	printf "\n -K additional conditions for controling"
532	printf "\n usage of conditional code and"
533	printf "\n env-variables in configuration file \"\" "
534	printf "\n -m memory demand in MB (batch-jobs) 0 MB"
535	printf "\n -M Makefile name Makefile"
536	printf "\n -n node usage (shared/not_shared) depending on -h"
537	printf "\n -o OUTPUT control list \"\" "
538	printf "\n -O threads per openMP task ---"
539	printf "\n -p software package list \"\" "
540	printf "\n -q queue \"$queue\" "
541	printf "\n -r run control list (combines -i -o) \"\" "
542	printf "\n -s filenames of routines to be compiled \"\" "
543	printf "\n must end with .f, .f90, .F, or .c !"
544	printf "\n use \"..\" for more than one file and wildcards"
545	printf "\n -s LM compiles all locally modified files"
546	printf "\n -S config file interpreted by shellscript ---"
547	printf "\n -t allowed cpu-time in seconds (batch) 0"
548	printf "\n -T tasks per node depending on -h"
549	printf "\n -u username on remote machine \"\" "
550	printf "\n -v no prompt for confirmation ---"
551	printf "\n -w maximum parallel io streams as given by -X"
552	printf "\n -x tracing of mrun for debug purposes ---"
553	printf "\n -X # of processors (on parallel machines) 1"
554	printf "\n -y add appendix \"_O\" to all local output"
555	printf "\n files (ocean precursor runs followed by"
556	printf "\n coupled atmosphere-ocean runs) ---"
557	printf "\n -Y run coupled model, \"#1 #2\" with"
558	printf "\n #1 atmosphere and #2 ocean processors \"#/2 #/2\" depending on -X"
559	printf "\n -Z skip combine_plot_fields at the end of "
560	printf "\n the simulation ---"
561	printf "\n "
562	printf "\n Possible values of positional parameter <modus>:"
563	printf "\n \"?\" - this outline \n\n") \| more
564	exit
565	elif [[ "$1" != "" ]]
566	then
567	printf "\n +++ positional parameter $1 unknown \n"
568	locat=parameter; exit
569	fi
570
571
572
573	# SHORT STARTING MESSAGE
574	printf "\n*** $version "
575	printf "\n will be executed. Please wait ..."
576
577
578
579	# CHECK, IF CONFIGURATION FILE EXISTS
580	if [[ ! -f $config_file ]]
581	then
582	printf "\n\n +++ configuration file: "
583	printf "\n $config_file"
584	printf "\n does not exist"
585	locat=connect; exit
586	fi
587
588
589	# DETERMINE THE HOST-IDENTIFIER (localhost) FROM THE CONFIGURATION FILE
590	line=""
591	grep "%host_identifier" $config_file > tmp_mrun
592	while read line
593	do
594	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
595	then
596	HOSTNAME=`echo $line \| cut -d" " -s -f2`
597	host_identifier=`echo $line \| cut -d" " -s -f3`
598	if [[ $localhost_realname = $HOSTNAME ]]
599	then
600	localhost=$host_identifier
601	break
602	fi
603	fi
604	done < tmp_mrun
605
606	if [[ "$localhost" = "" ]]
607	then
608	printf "\n\n +++ no host identifier found in configuration file \"$config_file\""
609	printf "\n for local host \"$localhost_realname\"."
610	printf "\n Please add line"
611	printf "\n \"\%host_identifier $localhost_realname <identifier>\""
612	printf "\n to the configuration file."
613	locat=localhost; exit
614	fi
615
616
617	# ??? THIS SHOULD BE DECRIBED IN THE MRUN DOCUMENTATION ???
618	# SET BASENAME OF THE INPUT-FILES TO THE GENERAL BASENAME (GIVEN BY OPTION -d),
619	# IF IT HAS NOT BEEN SET BY THE USER DIFFERENTLY (USING OPTION -a)
620	[[ "$afname" = "" ]] && afname=$fname
621
622
623	# ADD RUN-FILE ACTIVATION STRINGS (GIVEN BY OPTION -r) TO THE
624	# RESPECTIVE LISTS FOR ACTIVATING THE INPUT/OUTPUT FILE CONNECTION
625	# STATEMENTS IN THE CONFIGURATION FILE
626	if [[ "$run_mode" != "" ]]
627	then
628	input_list="$input_list $run_mode"
629	output_list="$output_list $run_mode"
630	fi
631
632
633	# ??? is this (and the respective option -H) really required ???
634	# STORE HOSTNAME, FROM WHICH THE JOB IS STARTED,
635	# BUT ONLY IF IT HASN'T BEEN ALREADY SET BY OPTION -H
636	# (MRUN IS AUTOMATICALLY SETTING THIS OPTION IN THE MRUN-CALLS WITHIN
637	# THOSE BATCH-JOBS, WHICH ARE CREATED BY MRUN ITSELF)
638	if [[ "$fromhost" = "" ]]
639	then
640	fromhost=$localhost
641	fi
642
643
644	# CHECK, IF EXECUTION SHALL TO BE DONE ON THE REMOTE-MACHINE.
645	# VALUE OF do_remote IS IMPORTANT FOR THE FILE CONNECTIONS.
646	# IN CASE OF EXECUTION ON A REMOTE-MACHINE, A BATCH-JOB HAS
647	# TO BE SUBMITTED (I.E. do_batch=true)
648	if [[ -n $host && "$host" != $localhost ]]
649	then
650	do_batch=true
651	do_remote=true
652	case $host in
653	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lceddy\|lckyoto\|lcocean\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
654	(*) printf "\n"
655	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
656	printf "\n is not available"
657	locat=nqs; (( iec = 0 )); exit;;
658	esac
659	else
660	host=$localhost
661	fi
662
663
664	# EVALUATE ADDITIONAL CONDITIONS GIVEN BY OPTION -K
665	if [[ -n $additional_conditions ]]
666	then
667	cond1=`echo $additional_conditions \| cut -d" " -f1`
668	cond2=`echo $additional_conditions \| cut -d" " -s -f2`
669	dummy=`echo $additional_conditions \| cut -d" " -s -f3`
670	if [[ -n $dummy ]]
671	then
672	printf "\n +++ more than 2 additional conditions given for Option \"-K\""
673	locat=options; exit
674	fi
675	block=_$cond1
676	[[ -n $cond2 ]] && block=${block}_$cond2
677	fi
678
679
680	# EVALUATE MODEL COUPLING FEATURES (OPTION -Y) AND DETERMINE coupled_mode
681	if [[ $run_coupled_model = true ]]
682	then
683
684	numprocs_atmos=`echo $coupled_dist \| cut -d" " -s -f1`
685	numprocs_ocean=`echo $coupled_dist \| cut -d" " -s -f2`
686
687	if (( $numprocs_ocean + $numprocs_atmos != $numprocs ))
688	then
689
690	printf "\n +++ number of processors does not fit to specification by \"-Y\"."
691	printf "\n PEs (total) : $numprocs"
692	printf "\n PEs (atmosphere): $numprocs_atmos"
693	printf "\n PEs (ocean) : $numprocs_ocean"
694	locat=coupling; exit
695
696	fi
697
698
699	# GET coupled_mode FROM THE CONFIG FILE
700	line=""
701	grep "%cpp_options.-D__mpi2.$host" $config_file > tmp_mrun
702	while read line
703	do
704	echo line=\"$line\"
705	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" && $(echo $line \| cut -d" " -s -f4) = $cond1 && $(echo $line \| cut -d" " -s -f5) = $cond2 ]]
706	then
707	coupled_mode="mpi2"
708	fi
709	done < tmp_mrun
710
711	fi
712
713	# SAVE VALUES OF MRUN-OPTIONS SICHERN IN ORDER TO OVERWRITE
714	# THOSE VALUES GIVEN IN THE CONFIGURATION-FILE
715	mrun_memory=$memory
716	mrun_group_number=$group_number
717	mrun_cpumax=$cpumax
718	mrun_numprocs=$numprocs
719
720
721	# READ AND EVALUATE THE CONFIGURATION-FILE FROM WITHIN THIS SHELLSCRIPT
722	# (OPTION -S). THE DEFAULT IS USING THE ROUTINE <<<<
723	if [[ "$read_from_config" = false ]]
724	then
725	[[ $silent = false ]] && printf "\n Reading the configuration file... "
726
727	# READ THE CONFIGURATION FILE LINE BY LINE
728	while read zeile
729	do
730	[[ $silent = false ]] && printf "."
731
732
733	# FIRST REPLACE ENVIRONMENT-VARIABLES BY THEIR RESPECTIVE VALUES
734	eval zeile=\"$zeile\"
735
736
737	# INTERPRET THE LINE
738	if [[ "$(echo $zeile)" = "" ]]
739	then
740	# EMPTY LINE, NO ACTION
741	continue
742
743	elif [[ "$(echo $zeile \| cut -c1)" = "#" ]]
744	then
745
746	# LINE IS A COMMENT LINE
747	true
748
749	elif [[ "$(echo $zeile \| cut -c1)" = "%" ]]
750	then
751
752	# LINE DEFINES AN ENVIRONMENT-VARIABLE
753	zeile=$(echo $zeile \| cut -c2-)
754	var=`echo $zeile \| cut -d" " -f1`
755	value=`echo $zeile \| cut -d" " -s -f2`
756	for_host=`echo $zeile \| cut -d" " -s -f3`
757	for_cond1=`echo $zeile \| cut -d" " -s -f4`
758	for_cond2=`echo $zeile \| cut -d" " -s -f5`
759
760	if [[ "$for_host" = "" \|\| ( "$for_host" = $host && "$for_cond1" = "$cond1" && "$for_cond2" = "$cond2" ) \|\| $(echo "$input_list$output_list"\|grep -c "$for_host") != 0 ]]
761	then
762
763	# REPLACE ":" BY " " IN COMPILER- CPP- OR LINKER-OPTIONS,
764	# "::" IS REPLACED BY ":".
765	value=`echo $value \| sed 's/::/%DUM%/g' \| sed 's/:/ /g' \| sed 's/%DUM%/:/g'`
766
767
768	# VALUE FROM THE CONFIGURATION-FILE IS ASSIGNED TO THE
769	# ENVIRONMENT-VARIABLE, BUT ONLY IF NO VALUE HAS BEEN ALREADY
770	# ASSIGNED WITHIN THIS SCRIPT (E.G. BY SCRIPT-OPTIONS).
771	# NON-ASSIGNED VARIABLES HAVE VALUE "" OR 0 (IN CASE OF INTEGER).
772	# HENCE THE GENERAL RULE IS: SCRIPT-OPTION OVERWRITES THE
773	# CONFIGURATION-FILE.
774	if [[ "$(eval echo \$$var)" = "" \|\| "$(eval echo \$$var)" = "0" ]]
775	then
776	eval $var=\$value
777
778	# TERMINAL OUTPUT OF ENVIRONMENT-VARIABLES, IF TRACEBACK IS SWITCHED on
779	if [[ $do_trace = true ]]
780	then
781	printf "\n*** ENVIRONMENT-VARIABLE $var = $value"
782	fi
783	fi
784
785	# IF AN ENVIRONMENT-VARIABLE DETERMINES THE HOST, THEN EVALUATE IT IMMEDIATELY:
786	# VALUE OF do-remote IS REQUIRED FOR THE FILE CONNECTIONS (COPY OF I/O FILES).
787	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MASCHINE, A BATCH-JOB
788	# MUST HAVE TO BE STARTED
789	if [[ $var = host ]]
790	then
791	if [[ -n $host && "$host" != $localhost ]]
792	then
793	do_batch=true
794	do_remote=true
795	case $host in
796	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lceddy\|lckyoto\|lcocean\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
797	(*) printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
798	printf "\n is not available"
799	locat=nqs; exit;;
800	esac
801	else
802	host=$localhost
803	fi
804	fi
805
806	# USER-DEFINED ENVIRONMENT VARIABLES MUST BE EXPORTED,
807	# BECAUSE THEY MAY BE REQUIRED IN OTHER SCRIPTS CALLED
808	# BY MRUN (E.G. subjob)
809	export $var
810	fi
811
812
813
814
815	elif [[ "$(echo $zeile \| cut -c1-3)" = "EC:" ]]
816	then
817
818	# LINE DEFINES ERROR-COMMAND
819	(( iec = iec + 1 ))
820	zeile=$(echo $zeile \| cut -c4-)
821	err_command[$iec]="$zeile"
822
823	elif [[ "$(echo $zeile \| cut -c1-3)" = "IC:" ]]
824	then
825
826	# LINE DEFINES INPUT-COMMAND
827	(( iic = iic + 1 ))
828	zeile=$(echo $zeile \| cut -c4-)
829	in_command[$iic]="$zeile"
830
831	elif [[ "$(echo $zeile \| cut -c1-3)" = "OC:" ]]
832	then
833
834	# LINE DEFINES OUTPUT-COMMAND
835	(( ioc = ioc + 1 ))
836	zeile=$(echo $zeile \| cut -c4-)
837	out_command[$ioc]="$zeile"
838
839	else
840
841	# LINE DEFINES FILE CONNECTION. READ THE FILE ATTRIBUTES.
842	# s2a: in/out - field
843	# s2b: loc - field (optional)
844	# s2c: tr/ar - field (optional)
845	s1=`echo $zeile \| cut -d" " -f1`
846	s2=`echo $zeile \| cut -d" " -s -f2`
847	s2a=$(echo $s2 \| cut -d":" -f1)
848	if [[ $(echo $s2 \| grep -c ":") = 0 ]]
849	then
850	s2b=""
851	s2c=""
852	else
853	s2b=`echo $s2 \| cut -d":" -f2 \| sed 's/:/ /g'`
854	s2c=`echo $s2 \| cut -d":" -s -f3 \| sed 's/:/ /g'`
855	fi
856	s3=`echo $zeile \| cut -d" " -f3`
857	s4=`echo $zeile \| cut -d" " -s -f4`
858	s5=`echo $zeile \| cut -d" " -s -f5`
859	s6=`echo $zeile \| cut -d" " -s -f6`
860
861
862	# STORE FILE CONNECTION, IF ACTIVATED BY ACTIVATION-STRING FROM
863	# INPUT- OR OUTPUT-LIST.
864	# VARIABLE S3 MAY CONTAIN A LIST OF ACTIVATION STRINGS (FIELD-SEPERATOR ":").
865	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MACHINE AND THE FILE IS ONLY
866	# LOCALLY REQUIRED ON THAT MACHINE (I.E. s2b = loc), THE FILE CONNECTION
867	# IS NOT CHECKED AND STORED.
868	IFSALT="$IFS"; IFS="$IFS:"
869	if [[ "$s2a" = in && ! ( $do_remote = true && ( "$s2b" = loc \|\| "$s2b" = locopt ) ) ]]
870	then
871	found=false
872	for actual in $input_list
873	do
874	for formal in $s3
875	do
876	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
877	done
878	done
879	if [[ $found = true ]]
880	then
881	(( iin = iin + 1 ))
882	localin[$iin]=$s1; transin[$iin]=$s2b; actionin[$iin]=$s2c;
883	typein[$iin]=$s3; pathin[$iin]=$s4; endin[$iin]=$s5;
884	extin[$iin]=$s6
885	fi
886	elif [[ "$s2a" = out && ! ( $do_remote = true && "$s2b" = loc ) ]]
887	then
888	found=false
889	for actual in $output_list
890	do
891	for formal in $s3
892	do
893	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
894	done
895	done
896	if [[ $found = true ]]
897	then
898	(( iout = iout + 1 ))
899	localout[$iout]=$s1; actionout[$iout]=$s2c; typeout[$iout]=$s3;
900	pathout[$iout]=$s4; endout[$iout]=$s5; extout[$iout]=$s6
901	fi
902	elif [[ "$s2a" != in && "$s2a" != out ]]
903	then
904	printf "\n +++ I/O-attribute in configuration file $config_file has the invalid"
905	printf "\n value \"$s2\". Only \"in\" and \"out\" are allowed!"
906	locat=connect; exit
907	fi
908	IFS="$IFSALT"
909	fi
910	done < $config_file
911
912	else
913
914	# EVALUATE THE CONFIGURATION-FILE BY FORTRAN-PROGRAM
915	[[ $silent = false ]] && printf "..."
916	interpreted_config_file=.icf.$RANDOM
917
918
919
920	# PROVIDE VALUES OF ENVIRONMENT-VARIABLE FOR interpret_config VIA NAMELIST-FILE
921	cat > .mrun_environment << EOF
922	&mrun_environment cond1 = '$cond1', cond2 = '$cond2',
923	config_file = '$config_file', do_remote = '$do_remote',
924	do_trace = '$do_trace', host = '$host',
925	input_list = '$input_list', icf = '$interpreted_config_file',
926	localhost = '$localhost', output_list = '$output_list' /
927
928	EOF
929
930	if [[ "$host" != $localhost ]]
931	then
932
933	# REMOTE JOB FROM LOCAL HOST: JUST TAKE THE FIRST EXECUTABLE FOUND
934	interpret_config_executable=`ls -1 ${PALM_BIN}/interpret_config*.x 2>/dev/null`
935	if [[ $? != 0 ]]
936	then
937	printf "\n\n +++ no interpret_config found"
938	printf "\n run \"mbuild -u -h ...\" to generate utilities for this host"
939	locat=interpret_config; exit
940	fi
941	interpret_config_executable=`echo $interpret_config_executable \| cut -d" " -f1`
942	$interpret_config_executable
943
944	else
945
946	# CHECK, IF THERE IS AN EXECUTABLE FOR THE BLOCK
947	if [[ ! -f ${PALM_BIN}/interpret_config${block}.x ]]
948	then
949	printf "\n\n +++ no interpret_config found for given block \"$cond1 $cond2\""
950	printf "\n run \"mbuild -u -h ...\" to generate utilities for this block"
951	locat=interpret_config; exit
952	else
953	interpret_config${block}.x
954	fi
955
956	fi
957	rm .mrun_environment
958
959
960	# EXECUTE SHELL-COMMANDS GENERATED BY interpret_config WITHIN THIS SHELL
961	chmod u+x $interpreted_config_file
962	export PATH=$PATH:.
963	. $interpreted_config_file
964	rm $interpreted_config_file
965
966	fi
967
968
969	# VALUES OF MRUN-OPTIONS OVERWRITE THOSE FROM THE CONFIGURATION-FILE
970	[[ $mrun_memory != 0 ]] && memory=$mrun_memory
971	[[ "$mrun_group_number" != "none" ]] && group_number=$mrun_group_number
972	[[ $mrun_cpumax != 0 ]] && cpumax=$mrun_cpumax
973	[[ "$mrun_numprocs" != "" ]] && numprocs=$mrun_numprocs
974	[[ "$max_par_io_str" != "" ]] && maximum_parallel_io_streams=$max_par_io_str
975	[[ "$mrun_tasks_per_node" != "" ]] && tasks_per_node=$mrun_tasks_per_node
976
977
978	# ON THE LOCAL MACHINE, DETERMINE (FROM THE CONFIGURATION-FILE) THE PATH
979	# FOR SOURCE-FILES TO BE COMPILED.
980	# IN A BATCH-JOB, SOURCES (ROUTINES TO BE COMPILED) ARE COMPLETE ALREADY.
981	# BEFORE MRUN IS CALLED IN THE JOB, SOURCES_COMPLETE = true IS ASSIGNED (SEE FURTHER BELOW).
982	if [[ "$SOURCES_COMPLETE" = "" ]]
983	then
984
985	# FIRST CHECK, IF A GLOBAL SOURCE PATH (TO BE USED FOR ALL HOSTS)
986	# HAS BEEN DEFINED
987	source_path=""
988	line=""
989	grep "%source_path" $config_file > tmp_mrun
990	while read line
991	do
992	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
993	then
994	if [[ "$(echo $line \| cut -d" " -f3)" = "" ]]
995	then
996	global_source_path=`echo $line \| cut -d" " -f2`
997	fi
998	fi
999	done < tmp_mrun
1000
1001	line=""
1002	found=false
1003	grep " $localhost" $config_file \| grep "%source_path" > tmp_mrun
1004	while read line
1005	do
1006	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
1007	then
1008	if [[ $found = true ]]
1009	then
1010	printf "\n\n +++ more than one source path found in configuration file"
1011	printf "\n for local host \"$localhost\" "
1012	locat=source_path; exit
1013	fi
1014	source_path=`echo $line \| cut -d" " -f2`
1015	found=true
1016	fi
1017	done < tmp_mrun
1018	rm tmp_mrun
1019
1020	if [[ "$source_path" = "" ]]
1021	then
1022	if [[ "$global_source_path" != "" ]]
1023	then
1024	source_path=$global_source_path
1025	else
1026	printf "\n\n +++ no source path found in configuration file"
1027	printf "\n for local host \"$localhost\" "
1028	locat=source_path; exit
1029	fi
1030	fi
1031	eval source_path=$source_path
1032
1033	if [[ ! -d $source_path ]]
1034	then
1035	printf "\n\n +++ source path \"$source_path\" on local host"
1036	printf "\n \"$localhost\" does not exist"
1037	locat=source_path; exit
1038	fi
1039
1040	fi
1041
1042
1043	# GET THE GLOBAL REVISION-NUMBER OF THE SVN-REPOSITORY
1044	# (HANDED OVER TO RESTART-RUNS USING OPTION -G)
1045	if [[ "$global_revision" = "" && $host != "ibmkisti" ]]
1046	then
1047	global_revision=`svnversion $source_path 2>/dev/null`
1048	global_revision="Rev: $global_revision"
1049	fi
1050
1051
1052	# ??? das darf doch eigentlich garnicht passieren, weil optionen config-datei uebersteuern ???
1053	# CHECK AGAIN, IF EXECUTION SHALL BE DONE ON A REMOTE-HOST (BATCH-JOB).
1054	# (HOST MAY HAVE CHANGED DUE TO SETTINGS IN THE CONFIGURATION-FILE)
1055	if [[ -n $host && "$host" != $localhost ]]
1056	then
1057	do_batch=true
1058	do_remote=true
1059	case $host in
1060	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lceddy\|lckyoto\|lcocean\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
1061	(*) printf "\n"
1062	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
1063	printf "\n is not available"
1064	locat=nqs; (( iec = 0 )); exit;;
1065	esac
1066	else
1067	host=$localhost
1068	fi
1069
1070
1071
1072	# IN CASE OF PARALLEL EXECUTION, CHECK SOME SPECIFICATIONS CONCERNING PROCESSOR NUMBERS
1073	if [[ "$cond1" = parallel \|\| "$cond2" = parallel ]]
1074	then
1075
1076	# CHECK, IF NUMBER OF CORES TO BE USED HAS BEEN GIVEN
1077	if [[ ! -n $numprocs ]]
1078	then
1079	printf "\n"
1080	printf "\n +++ option \"-K parallel\" requires additional specification"
1081	printf "\n of the number of processors to be used by"
1082	printf "\n mrun-option \"-X\" or by environment-variable"
1083	printf "\n \"numprocs\" in the configuration file"
1084	locat=numprocs; (( iec = 0 )); exit
1085	fi
1086
1087	# CHECK, IF THE NUMBER OF CORES PER NODE HAS BEEN GIVEN UND IF IT IS AN
1088	# INTEGRAL DIVISOR OF THE TOTAL NUMBER OF CORES GIVEN BY OPTION -X
1089	if [[ "$tasks_per_node" = "" && $host != lcxt5m ]]
1090	then
1091	printf "\n"
1092	printf "\n +++ option \"-T\" (tasks per node) is missing"
1093	printf "\n set -T option or define tasks_per_node in the config file"
1094	locat=tasks_per_node; (( iec = 0 )); exit
1095	fi
1096
1097	if (( numprocs < tasks_per_node ))
1098	then
1099	printf "\n"
1100	printf "\n +++ tasks per node (-T) cannot exceed total number of processors (-X)"
1101	printf "\n given values: -T $tasks_per_node -X $numprocs"
1102	locat=tasks_per_node; (( iec = 0 )); exit
1103	fi
1104
1105	if [[ $host != lcxt5m ]]
1106	then
1107	(( nodes = numprocs / ( tasks_per_node * threads_per_task ) ))
1108	(( ival = $tasks_per_node ))
1109	(( pes = numprocs ))
1110	(( ii = pes / ival ))
1111	(( remaining_pes = pes - ii * ival ))
1112	if (( remaining_pes > 0 ))
1113	then
1114	printf "\n"
1115	printf "\n +++ WARNING: tasks per node (option \"-T\") is not an integral"
1116	printf "\n divisor of the total number of processors (option \"-X\")"
1117	printf "\n values of this mrun-call: \"-T $tasks_per_node\" \"-X $numprocs\""
1118	printf "\n One of the nodes is filled with $remaining_pes instead of $tasks_per_node tasks"
1119	(( nodes = nodes + 1 ))
1120	fi
1121	fi
1122
1123
1124	# SETTINGS FOR SUBJOB-COMMAND
1125	OOPT="-O $threads_per_task"
1126
1127	# SET THE TOTAL NUMBER OF NODES, REQUIRED FOR THE SUBJOB-COMMAND (SEE FURTHER BELOW)
1128	if [[ "$tasks_per_node" != "" ]]
1129	then
1130	TOPT="-T $tasks_per_node"
1131	fi
1132
1133	# CHECK node_usage FOR ALLOWED VALUES AND SET DEFAULT VALUE, IF NECESSARY
1134	if [[ $node_usage = default ]]
1135	then
1136	if [[ $host = ibms ]]
1137	then
1138	node_usage=shared
1139	else
1140	node_usage=not_shared
1141	fi
1142	fi
1143
1144	if [[ $node_usage != shared && $node_usage != not_shared && $node_usage != singlejob && "$(echo $node_usage \| cut -c1-3)" != "sla" ]]
1145	then
1146	printf "\n"
1147	printf "\n +++ node usage (option \"-n\") is only allowed to be set"
1148	printf "\n \"shared\" or \"not_shared\""
1149	locat=tasks_per_node; (( iec = 0 )); exit
1150	fi
1151
1152	fi
1153
1154	# CHECK IF HOSTFILE EXISTS
1155	if [[ -n $hostfile ]]
1156	then
1157	if [[ ! -f $hostfile ]]
1158	then
1159	printf "\n"
1160	printf "\n +++ hostfile \"$hostfile\" does not exist"
1161	locat=hostfile; exit
1162	fi
1163	fi
1164
1165
1166	# SET DEFAULT VALUE FOR THE MAXIMUM NUMBER OF PARALLEL IO STREAMS
1167	if [[ "$maximum_parallel_io_streams" = "" ]]
1168	then
1169	maximum_parallel_io_streams=$numprocs
1170	fi
1171
1172
1173	# SET PORT NUMBER OPTION FOR CALLS OF SSH/SCP, subjob AND batch_scp SCRIPTS
1174	if [[ "$scp_port" != "" ]]
1175	then
1176	PORTOPT="-P $scp_port"
1177	SSH_PORTOPT="-p $scp_port"
1178	fi
1179
1180
1181	# DETERMINE THE SSH-OPTION IN CASE THAT AN SSH-KEY IS EXPLICITLY GIVEN IN THE
1182	# CONFIG-FILE
1183	if [[ "$ssh_key" != "" ]]
1184	then
1185	ssh_key="-i $HOME/.ssh/$ssh_key"
1186	fi
1187
1188
1189	# SET DEFAULT-QUEUE, IF NOT GIVEN
1190	if [[ $queue = none ]]
1191	then
1192	case $host in
1193	(ibmh) queue=cluster;;
1194	(ibmkisti) queue=class.32plus;;
1195	(lcbullhh) queue=compute;;
1196	(lccrayb) queue=mpp1q;;
1197	(lccrayh) queue=mpp1q;;
1198	(lckiaps) queue=normal;;
1199	(lckyoto) queue=ph;;
1200	(lckyuh) queue=fx-single;;
1201	(lckyut) queue=cx-single;;
1202	(lctit) queue=S;;
1203	(unics) queue=unics;;
1204	esac
1205	fi
1206
1207
1208	# GENERATE FULL FILENAMES OF INPUT-FILES, INCLUDING THEIR PATH
1209	# CHECK, IF INPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST)
1210	(( i = 0 ))
1211	while (( i < iin ))
1212	do
1213	(( i = i + 1 ))
1214	(( maxcycle = 0 ))
1215
1216	# GENERATE PATH AND FULL FILE NAME (then-BRANCH: FIXED FULL NAME IS GIVEN, I.E. THE
1217	# FILE IDENTIFIER IS NOT PART OF THE FILENAME))
1218	if [[ "${actionin[$i]}" = di ]]
1219	then
1220	remotepathin[$i]=${pathin[$i]}/${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
1221	# HOST ONLY
1222	eval filename=${pathin[$i]}/${endin[$i]}
1223	else
1224	remotepathin[$i]=${pathin[$i]}/${afname}${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
1225	# HOST ONLY
1226	eval filename=${pathin[$i]}/${afname}${endin[$i]}
1227	fi
1228	eval pathname=${pathin[$i]}
1229
1230	# CHECK IF FILE EXISTS
1231	if ! ls $filename* 1>/dev/null 2>&1
1232	then
1233
1234	# FILES WITH ATTRIBUTE locopt ARE OPTIONAL. NO ABORT, IF THEY DO NOT EXIST.
1235	if [[ "${transin[$i]}" != "locopt" ]]
1236	then
1237	printf "\n\n +++ INPUT-file: "
1238	if [[ "${extin[$i]}" = "" \|\| "${extin[$i]}" = " " ]]
1239	then
1240	printf "\n $filename"
1241	else
1242	printf "\n $filename.${extin[$i]}"
1243	fi
1244	printf "\n does not exist\n"
1245	locat=input; exit
1246	else
1247	transin[$i]="unavailable"
1248	fi
1249	else
1250
1251	# DETERMINE THE FILE'S CYCLE NUMBER
1252	ls -1 -d $filename > filelist 2>/dev/null
1253	ls -1 -d $filename.* >> filelist 2>/dev/null
1254	while read zeile
1255	do
1256	# filename without path (i.e. after the last "/")
1257	basefilename=$(basename ${zeile})
1258
1259	# check if there is an extension
1260	extension=${basefilename##*.}
1261	if [[ "$extension" = "$extin[$i]" ]]
1262	then
1263	basefilename=${basefilename&.*}
1264	fi
1265
1266	# check for an existing cycle number
1267	cycle=${basefilename##*.}
1268	if [[ $cycle =~ ^-?[0-9]+$ ]]
1269	then
1270	(( icycle = $cycle ))
1271	else
1272	(( icycle = 0 ))
1273	fi
1274
1275	if (( icycle > maxcycle ))
1276	then
1277	(( maxcycle = icycle ))
1278	fi
1279
1280	# cycle=$(echo $zeile \| cut -f2 -d".")
1281	# if [[ "$cycle" = "$zeile" ]]
1282	# then
1283	# (( icycle = 0 ))
1284	# elif [[ "$cycle" = "${extin[$i]}" ]]
1285	# then
1286	# (( icycle = 0 ))
1287	# else
1288	# (( icycle = $cycle ))
1289	# fi
1290	# if (( icycle > maxcycle ))
1291	# then
1292	# (( maxcycle = icycle ))
1293	# fi
1294	done <filelist
1295	rm filelist
1296
1297	# APPEND CYCLE NUMBER TO FILENAME
1298	if (( maxcycle > 0 ))
1299	then
1300	if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]]
1301	then
1302	filename=${filename}.$maxcycle.${extin[$i]}
1303	else
1304	filename=${filename}.$maxcycle
1305	fi
1306	else
1307	if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]]
1308	then
1309	filename=${filename}.${extin[$i]}
1310	fi
1311	fi
1312
1313	# STORE FILENAME WITHOUT PATH BUT WITH CYCLE NUMBER,
1314	# IS LATER USED FOR TRANSFERRING FILES WIHIN THE JOB (SEE END OF FILE)
1315	absnamein[$i]=$filename
1316	if (( maxcycle > 0 ))
1317	then
1318	if [[ "${actionin[$i]}" = di ]]
1319	then
1320	frelin[$i]=${endin[$i]}.$maxcycle
1321	else
1322	frelin[$i]=${afname}${endin[$i]}.$maxcycle
1323	fi
1324	else
1325	if [[ "${actionin[$i]}" = di ]]
1326	then
1327	frelin[$i]=${endin[$i]}
1328	else
1329	frelin[$i]=${afname}${endin[$i]}
1330	fi
1331	fi
1332
1333	fi
1334	done
1335
1336	# GENERATE FULL FILENAMES OF OUTPUT-FILES (WITHOUT $ OR ~),
1337	# CHECK, IF OUTPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST),
1338	# OR, IN CASE THAT FILE DOES NOT EXIST, CHECK, IF IT CAN BE CREATED
1339	# THESE ACTIONS ARE NOT CARRIED OUT, IF FILES SHALL BE TRASFERRED FROM THE REMOTE TO
1340	# THE LOCAL HOST (BECAUSE THEIR IS NO DIRECT ACCESS TO THE LOCAL DIRECTORIES FROM THE
1341	# REMOTE HOST)
1342	(( i = 0 ))
1343	while (( i < iout ))
1344	do
1345	(( i = i + 1 ))
1346	if [[ ! ( $fromhost != $localhost && ( "${actionout[$i]}" = tr \|\| "${actionout[$i]}" = tra \|\| "${actionout[$i]}" = trpe ) ) ]]
1347	then
1348	if [[ "${actionout[$i]}" = tr ]]
1349	then
1350	actionout[$i]=""
1351	elif [[ "${actionout[$i]}" = trpe ]]
1352	then
1353	actionout[$i]=pe
1354	elif [[ "${actionout[$i]}" = tra ]]
1355	then
1356	actionout[$i]=a
1357	fi
1358	(( maxcycle = 0 ))
1359	eval filename=${pathout[$i]}/${fname}${endout[$i]}
1360	eval catalogname=${pathout[$i]}
1361	if ! ls $filename* 1>/dev/null 2>&1
1362	then
1363
1364	# IF OUTPUT-FILE DOES NOT EXIST CHECK, IF IT CAN BE CREATED
1365	if cat /dev/null > $filename
1366	then
1367	rm $filename
1368	else
1369
1370	# CHECK, IF THE DIRECTORY WHERE FILE SHALL BE COPIED TO EXISTS
1371	# IF IT DOES NOT EXIST, TRY TO CREATE IT
1372	if [[ ! -d $catalogname ]]
1373	then
1374	if mkdir -p $catalogname
1375	then
1376	printf "\n\n *** directory:"
1377	printf "\n $catalogname"
1378	printf "\n was created\n"
1379	echo "### filename = $filename"
1380	else
1381	printf "\n\n +++ OUTPUT-file:"
1382	printf "\n $filename"
1383	printf "\n cannot be created, because directory does not exist"
1384	printf "\n and cannot be created either"
1385	printf "\n"
1386	locat=output ; exit
1387	fi 2>/dev/null
1388	else
1389	printf "\n\n +++ OUTPUT-file:"
1390	printf "\n $filename"
1391	printf "\n cannot be created, although directory exists"
1392	printf "\n"
1393	locat=output ; exit
1394	fi
1395	fi 2>/dev/null
1396	else
1397
1398	# DETERMINE THE CYCLE NUMBER
1399	ls -1 -d $filename > filelist 2>/dev/null
1400	ls -1 -d $filename.* >> filelist 2>/dev/null
1401	while read zeile
1402	do
1403
1404	# filename without path (i.e. after the last "/")
1405	basefilename=$(basename ${zeile})
1406
1407	# check if there is an extension
1408	extension=${basefilename##*.}
1409	if [[ "$extension" = "${extout[$i]}" ]]
1410	then
1411	basefilename=${basefilename%.*}
1412	fi
1413
1414	# check for an existing cycle number
1415	cycle=${basefilename##*.}
1416	if [[ $cycle =~ ^-?[0-9]+$ ]]
1417	then
1418	(( icycle = $cycle + 1 ))
1419	else
1420	(( icycle = 1 ))
1421	fi
1422
1423	if (( icycle > maxcycle ))
1424	then
1425	(( maxcycle = icycle ))
1426	fi
1427
1428	done <filelist
1429	rm filelist
1430	fi
1431
1432	# APPEND CYCLE NUMBER TO FILENAME AND CHECK, IF FILE CAN BE CREATED
1433	# IN CASE OF FILE-APPEND, FILE MUST BE APPENDED TO THE ONE WITH HIGHEST CYCLE NUMBER
1434	if [[ "${actionout[$i]}" != a ]]
1435	then
1436	if (( maxcycle > 0 ))
1437	then
1438	filename_tmp=${filename}.$maxcycle
1439	if cat /dev/null > $filename_tmp
1440	then
1441	rm $filename_tmp
1442	else
1443	printf "\n +++ OUTPUT-file:"
1444	printf "\n $filename_tmp"
1445	printf "\n cannot be created"
1446	locat=output ; exit
1447	fi
1448	fi
1449	else
1450	(( maxcycle = maxcycle - 1 ))
1451	fi
1452
1453	(( cycnum[$i] = maxcycle ))
1454	echo "### file \"$filename\" will get cycle ${cycnum[$i]}"
1455	pathout[$i]=$filename
1456
1457	fi
1458	done
1459
1460
1461	# THE DVR-PACKAGE REQUIRES ITS OWN LIBRARY
1462	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
1463	then
1464	if [[ "$dvr_inc" = "" ]]
1465	then
1466	printf "\n\n +++ no value for \"dvr_inc\" given in configuration file"
1467	printf "\n This is required for the dvrp_graphics package.\n"
1468	locat=dvr; exit
1469	fi
1470	if [[ "$dvr_lib" = "" ]]
1471	then
1472	printf "\n\n +++ no value for \"dvr_lib\" given in configuration file"
1473	printf "\n This is required for the dvrp_graphics package.\n"
1474	locat=dvr; exit
1475	fi
1476	fi
1477
1478
1479	# CHECK, WETHER A MAIN PROGRAM OR AN EXECUTABLE HAVE BEEN DECLARED.
1480	# EXECUTABLES DO NOT NEED TO BE COMPILED.
1481	if [[ "$mainprog" = "" && "$executable" = "" ]]
1482	then
1483	printf "\n +++ neither main program nor executable defined"
1484	locat=source; exit
1485	elif [[ "$mainprog" != "" && "$executable" != "" ]]
1486	then
1487	printf "\n +++ main program as well as executable defined"
1488	locat=source; exit
1489	elif [[ "$mainprog" = "" && "$executable" != "" ]]
1490	then
1491	do_compile=false
1492	fi
1493
1494
1495	# CREATE SOURCE-DIRECTORY TO COLLECT ROUTINES TO BE COMPILED.
1496	# LATER THE MRUN-SCRIPT AND CONFIGURATION-FILE WILL ALSO BE COPIED TO THIS DIRECTORY.
1497	if [[ $restart_run != true && "$SOURCES_COMPLETE" = "" ]]
1498	then
1499	rm -rf SOURCES_FOR_RUN_$fname
1500	mkdir SOURCES_FOR_RUN_$fname
1501	fi
1502
1503
1504	# COLLECT ALL ROUTINES TO BE COMPILED
1505	# THIS IS NOT REQUIRED WITHIN BATCH-JOBS, BECAUSE ROUTINES HAVE ALREADY BEEN COLLECTED
1506	# BY THE MRUN-CALL WHICH CREATED THE BATCH-JOB.
1507	if [[ $do_compile = true && "$SOURCES_COMPLETE" = "" ]]
1508	then
1509
1510	[[ "$source_list" = LM ]] && source_list=LOCALLY_MODIFIED
1511
1512	if [[ "$source_list" = LOCALLY_MODIFIED ]]
1513	then
1514
1515	# DETERMINE MODIFIED FILES OF THE SVN WORKING COPY
1516	source_list=""
1517	cd $source_path
1518
1519
1520	# CHECK, IF DIRECTORY IS UNDER SVN CONTROL
1521	if [[ ! -d .svn ]]
1522	then
1523	printf "\n\n +++ source directory"
1524	printf "\n \"$source_path\" "
1525	printf "\n is not under control of \"subversion\"."
1526	printf "\n Please do not use mrun-option \"-s LOCALLY_MODIFIED\"\n"
1527	fi
1528
1529
1530	# LIST ALL MODIFIED SOURCE CODE FILES
1531	Filenames=""
1532	svn status > tmp_mrun
1533	while read line
1534	do
1535	firstc=`echo $line \| cut -c1`
1536	if [[ $firstc = M \|\| $firstc = "?" ]]
1537	then
1538	Name=`echo "$line" \| cut -c8-`
1539	extension=`echo $Name \| cut -d. -f2`
1540	if [[ "$extension" = f90 \|\| "$extension" = F90 \|\| "$extension" = f \|\| "$extension" = F \|\| "$extension" = c ]]
1541	then
1542	Filenames="$Filenames "$Name
1543	fi
1544	fi
1545	done < tmp_mrun
1546
1547
1548	# COPY FILES TO SOURCES_FOR_RUN_...
1549	for dateiname in $Filenames
1550	do
1551	cp $dateiname $working_directory/SOURCES_FOR_RUN_$fname
1552	source_list=$source_list"$dateiname "
1553	done
1554
1555	cd - > /dev/null
1556
1557
1558	# COPY FILES GIVEN BY OPTION -s TO DIRECTORY SOURCES_FOR_RUN_...
1559	# AUTOMATIC RESTART RUNS JUST ACCESS THE DIRECTORY CREATED BY THE INITIAL RUN
1560	elif [[ "$source_list" != "" && $restart_run != true ]]
1561	then
1562
1563	cd $source_path
1564
1565	for filename in $source_list
1566	do
1567
1568	# SOURCE CODE FILE IS NOT ALLOWED TO INCLUDE PATH
1569	if [[ $(echo $filename \| grep -c "/") != 0 ]]
1570	then
1571	printf "\n +++ source code file: $filename"
1572	printf "\n must not contain (\"/\") "
1573	locat=source; exit
1574	fi
1575
1576	if [[ ! -f $filename ]]
1577	then
1578	printf "\n +++ source code file: $filename"
1579	printf "\n does not exist"
1580	locat=source; exit
1581	else
1582	cp $filename $working_directory/SOURCES_FOR_RUN_$fname
1583	fi
1584
1585	done
1586
1587	cd - > /dev/null
1588
1589	fi
1590
1591
1592	# CHECK, IF A MAIN PROGRAM EXISTS AND IF IT IS PART OF THE LIST OF FILES
1593	# TO BE COMPILED. IF NOT, ADD IT TO THE LIST.
1594	if [[ $restart_run != true ]]
1595	then
1596
1597	if [[ ! -f "$source_path/$mainprog" ]]
1598	then
1599	printf "\n\n +++ main program: $mainprog"
1600	printf "\n does not exist in source directory"
1601	printf "\n \"$source_path\"\n"
1602	locat=source; exit
1603	else
1604	if [[ $(echo $source_list \| grep -c $mainprog) = 0 ]]
1605	then
1606	cp $source_path/$mainprog SOURCES_FOR_RUN_$fname
1607	source_list=${mainprog}" $source_list"
1608	fi
1609	fi
1610	fi
1611
1612
1613	# CHECK, IF MAKEFILE EXISTS AND COPY IT TO THE SOURCES_FOR_RUN... DIRECTORY
1614	# NOT REQUIRED FOR RESTART RUNS, SOURCES_FOR_RUN... HAS BEEN CREATED BY THE INITIAL RUN
1615	if [[ "$restart_run" != true ]]
1616	then
1617	[[ "$makefile" = "" ]] && makefile=$source_path/Makefile
1618	if [[ ! -f $makefile ]]
1619	then
1620	printf "\n +++ file \"$makefile\" does not exist"
1621	locat=make; exit
1622	else
1623	cp $makefile SOURCES_FOR_RUN_$fname/Makefile
1624	fi
1625	fi
1626
1627
1628	# COPY FILES FROM OPTIONAL SOURCE PATH GIVEN IN THE CONFIGURATION FILE
1629	if [[ $restart_run != true && "$add_source_path" != "" ]]
1630	then
1631
1632	# DOES THE DIRECTORY EXIST?
1633	if [[ ! -d $add_source_path ]]
1634	then
1635	printf "\n\n *** INFORMATIVE: additional source code directory"
1636	printf "\n \"$add_source_path\" "
1637	printf "\n does not exist or is not a directory."
1638	printf "\n No source code will be used from this directory!\n"
1639	add_source_path=""
1640	if [[ $silent == false ]]
1641	then
1642	sleep 3
1643	fi
1644	else
1645
1646	cd $add_source_path
1647	found=false
1648
1649	Names=$(ls -1 *.f90 2>&1)
1650	[[ $(echo $Names \| grep -c '*.f90') = 0 ]] && AddFilenames="$Names"
1651	Names=$(ls -1 *.F90 2>&1)
1652	[[ $(echo $Names \| grep -c '*.F90') = 0 ]] && AddFilenames="$AddFilenames $Names"
1653	Names=$(ls -1 *.F 2>&1)
1654	[[ $(echo $Names \| grep -c '*.F') = 0 ]] && AddFilenames="$AddFilenames $Names"
1655	Names=$(ls -1 *.f 2>&1)
1656	[[ $(echo $Names \| grep -c '*.f') = 0 ]] && AddFilenames="$AddFilenames $Names"
1657	Names=$(ls -1 *.c 2>&1)
1658	[[ $(echo $Names \| grep -c '*.c') = 0 ]] && AddFilenames="$AddFilenames $Names"
1659
1660	cd - > /dev/null
1661	cd SOURCES_FOR_RUN_$fname
1662
1663	# COPY MAKEFILE IF EXISTING
1664	if [[ -f $add_source_path/Makefile ]]
1665	then
1666	printf "\n\n *** user Makefile from directory"
1667	printf "\n \"$add_source_path\" is used \n"
1668	if [[ $silent == false ]]
1669	then
1670	sleep 1
1671	fi
1672	cp $add_source_path/Makefile .
1673	fi
1674
1675	for dateiname in $AddFilenames
1676	do
1677	if [[ -f $dateiname ]]
1678	then
1679	printf "\n +++ source code file \"$dateiname\" found in additional"
1680	printf "\n source code directory \"$add_source_path\" "
1681	printf "\n but was also given with option \"-s\" which means that it should be taken"
1682	printf "\n from directory \"$source_path\"."
1683	locat=source; exit
1684	fi
1685
1686	cp $add_source_path/$dateiname .
1687	source_list="$source_list $dateiname"
1688
1689	# CHECK IF FILE IS CONTAINED IN MAKEFILE
1690	if [[ $(grep -c $dateiname Makefile) = 0 ]]
1691	then
1692	printf "\n\n +++ user file \"$dateiname\" "
1693	printf "\n is not listed in Makefile \n"
1694	locat=source; exit
1695	else
1696
1697	if [[ $found = false ]]
1698	then
1699	found=true
1700	printf "\n\n *** following user file(s) added to the"
1701	printf " files to be translated:\n "
1702	fi
1703	printf "$dateiname "
1704	if [[ $silent == false ]]
1705	then
1706	sleep 0.5
1707	fi
1708
1709	fi
1710	done
1711	[[ $found = true ]] && printf "\n"
1712	cd - > /dev/null
1713	fi
1714	fi
1715
1716
1717	# ADD ALL ROUTINES BELONGING TO SOFTWARE PACKAGES (GIVEN BY OPTION -p)
1718	# TO THE LIST OF FILES TO BE COMPILED
1719	if [[ $restart_run != true && -n $package_list ]]
1720	then
1721
1722	cd $source_path
1723
1724	for package in $package_list
1725	do
1726
1727	[[ $package = "dvrp_graphics+1PE" ]] && package=dvrp_graphics
1728
1729	# DETERMINE FILES BELONGING TO THE PACKAGE
1730	# ERROR MESSAGE ARE REDIRECTED TO /dev/null, BECAUSE WILDCARD (*) ALSO GIVES
1731	# THE NAME OF THE DIRECTORY
1732	package_source_list=`grep "defined( __$package " * 2>/dev/null \| cut -f1 -d:`
1733
1734
1735	# ADD THESE FILES TO THE LIST OF FILES TO BE COMPILED,
1736	# IF THEY ARE NOT ALREADY PART OF THE LIST
1737	for source_list_name in $package_source_list
1738	do
1739	if [[ $(echo $source_list \| grep -c $source_list_name) = 0 ]]
1740	then
1741
1742	# ONLY TAKE FILES WITH VALID SUFFIX
1743	ending=`echo $source_list_name \| cut -f2 -d.`
1744	if [[ "$ending" = f90 \|\| "$ending" = F90 \|\| "$ending" = f \|\| "$ending" = F \|\| "$ending" = c ]]
1745	then
1746	cp $source_list_name $working_directory/SOURCES_FOR_RUN_$fname
1747	source_list="$source_list $source_list_name"
1748	fi
1749	fi
1750	done
1751	done
1752
1753	cd - > /dev/null
1754	fi
1755
1756	fi # do_compile=true
1757
1758
1759	# IF SOURCE CODE IS TO BE COMPILED, DO SOME MORE CHECKS
1760	# AND SET PRE-PROCESSOR DIRECTIVES
1761	if [[ $do_compile = true \|\| $create_executable_for_batch = true ]]
1762	then
1763
1764	# SET PREPROCESSOR-DIRECTIVES TO SELECT OPERATING SYSTEM SPECIFIC CODE
1765	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1766	then
1767	cpp_options="${cpp_options},-D__ibm=__ibm"
1768	elif [[ $(echo $localhost \| cut -c1-3) = nec ]]
1769	then
1770	cpp_options="$cpp_options -D__nec"
1771	elif [[ $(echo $localhost \| cut -c1-2) = lc ]]
1772	then
1773	cpp_options="$cpp_options -D__lc"
1774	else
1775	cpp_options="$cpp_options -D__$localhost"
1776	fi
1777
1778	# SET DIRECTIVES GIVEN BY OPTION -K (E.G. parallel)
1779	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1780	then
1781	[[ -n $cond1 ]] && cpp_options="${cpp_options},-D__$cond1=__$cond1"
1782	[[ -n $cond2 ]] && cpp_options="${cpp_options},-D__$cond2=__$cond2"
1783	else
1784	[[ -n $cond1 ]] && cpp_options="$cpp_options -D__$cond1"
1785	[[ -n $cond2 ]] && cpp_options="$cpp_options -D__$cond2"
1786	fi
1787
1788	# SET DIRECTIVES FOR ACTIVATING SOFTWARE-PACKAGES (OPTION -p)
1789	if [[ -n $package_list ]]
1790	then
1791	for package in $package_list
1792	do
1793	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1794	then
1795	if [[ $package != "dvrp_graphics+1PE" ]]
1796	then
1797	cpp_options="${cpp_options},-D__$package=__$package"
1798	else
1799	cpp_options="${cpp_options},-D__dvrp_graphics=__dvrp_graphics"
1800	export use_seperate_pe_for_dvrp_output=true
1801	fi
1802	else
1803	if [[ $package != "dvrp_graphics+1PE" ]]
1804	then
1805	cpp_options="$cpp_options -D__$package"
1806	else
1807	cpp_options="$cpp_options -D__dvrp_graphics"
1808	export use_seperate_pe_for_dvrp_output=true
1809	fi
1810	fi
1811	done
1812	fi
1813
1814	# SET DIRECTIVES GIVEN BY OPTION -D
1815	if [[ -n $cpp_opts ]]
1816	then
1817	for popts in $cpp_opts
1818	do
1819	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1820	then
1821	cpp_options="${cpp_options},-D__$popts=__$popts"
1822	else
1823	cpp_options="$cpp_options -D__$popts"
1824	fi
1825	done
1826	fi
1827
1828	else
1829
1830
1831	# FOR LOCAL RUNS CHECK AGAIN, IF EXECUTABLE EXISTS
1832	if [[ $do_remote = false ]]
1833	then
1834	if [[ ! -f $executable ]]
1835	then
1836	printf "\n +++ executable file: $executable"
1837	printf "\n does not exist"
1838	locat=executable; exit
1839	fi
1840	fi
1841	fi
1842
1843
1844	# DETERMINE THE JOB MODE
1845	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1846	then
1847	if [[ "$LOADLBATCH" = yes ]]
1848	then
1849	batch_job=.TRUE.
1850	jobmo=BATCH
1851	else
1852	batch_job=.FALSE.
1853	jobmo=INTERACTIVE
1854	fi
1855	else
1856	if [[ "$ENVIRONMENT" = BATCH \|\| "$PJM_ENVIRONMENT" = BATCH ]]
1857	then
1858	batch_job=.TRUE.
1859	jobmo=BATCH
1860	else
1861	batch_job=.FALSE.
1862	jobmo=INTERACTIVE
1863	fi
1864	fi
1865
1866	# NO INTERACTIVE RUNS ALLOWED ON LCTIT
1867	if [[ $host = lctit && $jobmo = INTERACTIVE && $do_batch = false ]]
1868	then
1869	printf "\n +++ no interactive runs allowed on host \"$host\" "
1870	printf "\n please submit batch job using mrun option \"-b\" \n"
1871	locat=normal; exit
1872	fi
1873
1874
1875	# CHECK, IF USER DEFINED A COMPILER
1876	if [[ "$compiler_name" = "" ]]
1877	then
1878
1879	printf "\n +++ no compiler specified for \"$host $cond1 $cond2\""
1880	locat=compiler_name; exit
1881
1882	fi
1883
1884
1885	# DETERMINE THE NAME OF MRUN'S TEMPORARY WORKING DIRECTORY
1886
1887	# ON HLRN-III, USE THE QUEUING NAME. OTHERWISE USE USERNAME AND RANDOM NUMBER
1888	if [[ $do_batch = false && $(echo $host \| cut -c1-6) = lccray ]]
1889	then
1890	kennung=$(checkjob $PBS_JOBID \| grep Reservation \| cut -d" " -s -f2 \| cut -d"." -s -f2 \| sed "s/['\"]//g")
1891	if [[ "$kennung" = "" ]]
1892	then
1893	kennung=$RANDOM
1894	fi
1895	else
1896	kennung=$RANDOM
1897	fi
1898
1899	if [[ "$tmp_user_catalog" = "" ]]
1900	then
1901	if [[ $localhost = ibmh ]]
1902	then
1903	tmp_user_catalog=$SCRATCH
1904	else
1905	tmp_user_catalog=/tmp
1906	fi
1907	fi
1908	TEMPDIR=$tmp_user_catalog/${usern}.$kennung
1909
1910
1911	# DETERMINE THE NAME OF THE DIRECTORY WHICH IS USED TO TEMPORARILY STORE DATA FOR RESTART RUNS
1912	if [[ "$tmp_data_catalog" = "" ]]
1913	then
1914	tmp_data_catalog=/tmp/mrun_restart_data
1915	fi
1916
1917
1918	# IN CASE OF LOCAL RUNS REPLACE ENVIRONMENT VARIABLES BY THEIR VALUES
1919	if [[ $do_remote = false && $do_compile = true \|\| $create_executable_for_batch = true ]]
1920	then
1921	eval fopts=\"$fopts\"
1922	eval lopts=\"$lopts\"
1923	fi
1924
1925
1926	# DETERMINE COMPILE- AND LINK-OPTIONS
1927	fopts="$fopts $netcdf_inc $fftw_inc $dvr_inc"
1928	lopts="$lopts $netcdf_lib $fftw_lib $dvr_lib"
1929	XOPT="-X $numprocs"
1930
1931
1932	# CHECK THE CPU-LIMIT. IT MUST BE GIVEN FOR BATCH-JOBS AND IS COMMUNICATED TO THE
1933	# EXECUTABLE VIA NAMELIST-PARAMETER cputime
1934	done=false
1935	while [[ $done = false ]]
1936	do
1937	cputime=$cpumax
1938	if (( $cputime == 0 ))
1939	then
1940	if [[ $do_batch = true ]]
1941	then
1942	printf "\n +++ cpu-time is undefined"
1943	printf "\n >>> Please type CPU-time in seconds as INTEGER:"
1944	printf "\n >>> "
1945	read cputime 1>/dev/null 2>&1
1946	else
1947	cputime=10000000 # NO CPU LIMIT FOR INTERACTIVE RUNS
1948	fi
1949	else
1950	done=true
1951	fi
1952	cpumax=$cputime
1953	done
1954
1955	(( minuten = cputime / 60 ))
1956	(( sekunden = cputime - minuten * 60 ))
1957
1958
1959	# CHECK THE MEMORY DEMAND
1960	if [[ $do_batch = true ]]
1961	then
1962	done=false
1963	while [[ $done = false ]]
1964	do
1965	if (( memory == 0 ))
1966	then
1967	printf "\n +++ memory demand is undefined"
1968	printf "\n >>> Please type memory in MByte per process as INTEGER:"
1969	printf "\n >>> "
1970	read memory 1>/dev/null 2>&1
1971	else
1972	done=true
1973	fi
1974	done
1975	fi
1976
1977
1978	# IN CASE OF REMOTE-JOBS CHECK, IF A USERNAME FOR THE REMOTE HOST IS GIVEN
1979	if [[ $do_remote = true && -z $remote_username ]]
1980	then
1981	while [[ -z $remote_username ]]
1982	do
1983	printf "\n +++ username on remote host \"$host\" is undefined"
1984	printf "\n >>> Please type username:"
1985	printf "\n >>> "
1986	read remote_username
1987	done
1988	mc="$mc -u$remote_username"
1989	fi
1990
1991	# CHECK FOR INITIAL COMMANDS AFTER LOGIN
1992	if [[ "$login_init_cmd" != "" ]]
1993	then
1994	export init_cmds="${login_init_cmd};"
1995	fi
1996
1997
1998	# SET THE MODULE-LOAD COMMAD AND EXPORT IT FOR subjob
1999	if [[ "$modules" != "" ]]
2000	then
2001	if [[ $host = lctit ]]
2002	then
2003	export module_calls=". $modules"
2004	else
2005	export module_calls="module load ${modules};"
2006	fi
2007	fi
2008
2009	# OUTPUT OF THE MRUN-HEADER
2010	calltime=$(date)
2011	printf "\n"
2012	printf "#------------------------------------------------------------------------# \n"
2013	printf "\| %-35s%35s \| \n" "$version" "$calltime"
2014	printf "\| \| \n"
2015	spalte1="called on:"; spalte2=$localhost_realname
2016	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2017	if [[ $do_remote = true ]]
2018	then
2019	spalte1="execution on:"; spalte2="$host (username: $remote_username)"
2020	else
2021	spalte1="execution on:"; spalte2="$host ($localhost_realname)"
2022	fi
2023	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2024	if [[ -n $numprocs ]]
2025	then
2026	if [[ $run_coupled_model = false ]]
2027	then
2028	spalte1="number of PEs:"; spalte2=$numprocs
2029	else
2030	spalte1="number of PEs:"; spalte2="$numprocs (atmosphere: $numprocs_atmos, ocean: $numprocs_ocean)"
2031	fi
2032	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2033	fi
2034	if [[ -n $tasks_per_node ]]
2035	then
2036	spalte1="tasks per node:"; spalte2="$tasks_per_node (number of nodes: $nodes)"
2037	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2038	if (( remaining_pes > 0 ))
2039	then
2040	spalte1=" "; spalte2="one of the nodes only filled with $remaining_pes tasks"
2041	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2042	fi
2043	fi
2044	if [[ $maximum_parallel_io_streams != $numprocs ]]
2045	then
2046	spalte1="max par io streams:"; spalte2="$maximum_parallel_io_streams"
2047	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2048	fi
2049	if [[ $use_openmp = true ]]
2050	then
2051	spalte1="threads per task:"; spalte2="$threads_per_task"
2052	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2053	fi
2054	printf "\| \| \n"
2055	if [[ $do_compile = true ]]
2056	then
2057	if [[ "$mopts" != "" ]]
2058	then
2059	spalte1="make options:"; spalte2=$(echo "$mopts" \| cut -c-45)
2060	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2061	zeile=$(echo "$mopts" \| cut -c46-)
2062	while [[ "$zeile" != "" ]]
2063	do
2064	spalte1=""
2065	spalte2=$(echo "$zeile" \| cut -c-45)
2066	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2067	zeile=$(echo "$zeile" \| cut -c46-)
2068	done
2069	fi
2070
2071	spalte1="cpp directives:"; spalte2=$(echo "$cpp_options" \| cut -c-45)
2072	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2073	zeile=$(echo "$cpp_options" \| cut -c46-)
2074	while [[ "$zeile" != "" ]]
2075	do
2076	spalte1=""
2077	spalte2=$(echo "$zeile" \| cut -c-45)
2078	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2079	zeile=$(echo "$zeile" \| cut -c46-)
2080	done
2081
2082	spalte1="compiler options:"; spalte2=$(echo "$fopts" \| cut -c-45)
2083	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2084	zeile=$(echo "$fopts" \| cut -c46-)
2085	while [[ "$zeile" != "" ]]
2086	do
2087	spalte1=""
2088	spalte2=$(echo "$zeile" \| cut -c-45)
2089	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2090	zeile=$(echo "$zeile" \| cut -c46-)
2091	done
2092
2093	spalte1="linker options:"; spalte2=$(echo "$lopts" \| cut -c-45)
2094	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2095	zeile=$(echo "$lopts" \| cut -c46-)
2096	while [[ "$zeile" != "" ]]
2097	do
2098	spalte1=""
2099	spalte2=$(echo "$zeile" \| cut -c-45)
2100	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2101	zeile=$(echo "$zeile" \| cut -c46-)
2102	done
2103
2104	spalte1="modules to be load:"; spalte2=$(echo "$modules" \| cut -c-45)
2105	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2106	zeile=$(echo "$modules" \| cut -c46-)
2107	while [[ "$zeile" != "" ]]
2108	do
2109	spalte1=""
2110	spalte2=$(echo "$zeile" \| cut -c-45)
2111	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2112	zeile=$(echo "$zeile" \| cut -c46-)
2113	done
2114
2115	spalte1="main program:"; spalte2=$mainprog
2116	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2117	else
2118	spalte1=executable:; spalte2=$executable
2119	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2120	fi
2121	printf "\| \| \n"
2122	spalte1="base name of files:"; spalte2=$fname
2123	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2124	if [[ $fname != $afname ]]
2125	then
2126	spalte1="base name of input files:"; spalte2=$afname
2127	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2128	fi
2129	spalte1="INPUT control list:"; spalte2=$(echo $input_list)
2130	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2131	spalte1="OUTPUT control list:"; spalte2=$(echo $output_list)
2132	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2133
2134	if [[ "$ocean_file_appendix" = true ]]
2135	then
2136	printf "\| %-35s%-35s \| \n" "suffix \"_O\" is added to local files" " "
2137	fi
2138
2139	if [[ $do_batch = true \|\| "$LOADLBATCH" = yes ]]
2140	then
2141	spalte1="memory demand / PE":; spalte2="$memory MB"
2142	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2143	spalte1=CPU-time:; spalte2="$minuten:$sekunden"
2144	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2145	fi
2146
2147	if [[ $do_compile = true ]]
2148	then
2149	printf "\| \| \n"
2150	printf "\| Files to be compiled: \| \n"
2151	zeile=$source_list
2152	while [[ "$zeile" != "" ]]
2153	do
2154	linestart=$(echo $zeile \| cut -c-70)
2155	printf "\| %-70s \| \n" "$linestart"
2156	zeile=$(echo "$zeile" \| cut -c71-)
2157	done
2158	fi
2159	printf "#------------------------------------------------------------------------#"
2160
2161
2162
2163	# OUTPUT OF FILE CONNECTIONS IN CASE OF TRACEBACK
2164	if [[ $do_trace = true ]]
2165	then
2166	(( i = 0 ))
2167	while (( i < iin ))
2168	do
2169	(( i = i + 1 ))
2170	if (( i == 1 ))
2171	then
2172	printf "\n\n >>> INPUT-file assignments:\n"
2173	fi
2174	printf "\n ${localin[$i]} : ${absnamein[$i]}"
2175	done
2176	(( i = 0 ))
2177	while (( i < iout ))
2178	do
2179	(( i = i + 1 ))
2180	if (( i == 1 ))
2181	then
2182	printf "\n\n >>> OUTPUT-file assignments:\n"
2183	fi
2184	printf "\n ${localout[$i]} : ${pathout[$i]}"
2185	done
2186	(( i = 0 ))
2187	while (( i < iic ))
2188	do
2189	(( i = i + 1 ))
2190	if (( i == 1 ))
2191	then
2192	printf "\n\n >>> INPUT-commands:\n"
2193	fi
2194	printf "\n ${in_command[$i]}"
2195	done
2196	(( i = 0 ))
2197	while (( i < ioc ))
2198	do
2199	(( i = i + 1 ))
2200	if (( i == 1 ))
2201	then
2202	printf "\n\n >>> OUTPUT-commands:\n"
2203	fi
2204	printf "\n ${out_command[$i]}"
2205	done
2206	fi
2207
2208	# QUERY FOR CONTINUE (ON LOCAL MACHINES ONLY)
2209	if [[ $remotecall = false && $silent = false && $jobmo != BATCH ]]
2210	then
2211	antwort=dummy
2212	printf "\n\n"
2213	printf " >>> everything o.k. (y/n) ? "
2214	while read antwort
2215	do
2216	if [[ "$antwort" != y && "$antwort" != Y && "$antwort" != n && "$antwort" != N ]]
2217	then
2218	printf " >>> everything o.k. (y/n) ? "
2219	else
2220	break
2221	fi
2222	done
2223	if [[ $antwort = n \|\| $antwort = N ]]
2224	then
2225	locat=user_abort; (( iec = 0 )); exit
2226	fi
2227	if [[ $do_batch = true ]]
2228	then
2229	printf " >>> batch-job will be created and submitted"
2230	else
2231	printf " >>> MRUN will now continue to execute on this machine"
2232	fi
2233	fi
2234
2235
2236	# DETERMINE PATH FOR MAKE DEPOSITORY
2237	if [[ $do_batch = false \|\| $create_executable_for_batch = true ]]
2238	then
2239
2240	line=""
2241	grep "%depository_path" $config_file > tmp_mrun
2242	while read line
2243	do
2244	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
2245	then
2246	if [[ "$(echo $line \| cut -d" " -s -f3)" = "" ]]
2247	then
2248	global_depository_path=`echo $line \| cut -d" " -s -f2`
2249	fi
2250	fi
2251	done < tmp_mrun
2252
2253	line=""
2254	grep " $localhost" $config_file \| grep "%depository_path" > tmp_mrun
2255	while read line
2256	do
2257	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
2258	then
2259	if [[ "$(echo $line \| cut -d" " -s -f4)" = "$cond1" && "$(echo $line \| cut -d" " -s -f5)" = "$cond2" ]]
2260	then
2261	local_depository_path=`echo $line \| cut -d" " -s -f2`
2262	fi
2263	fi
2264	done < tmp_mrun
2265
2266	if [[ "$local_depository_path" = "" ]]
2267	then
2268	if [[ "$global_depository_path" != "" ]]
2269	then
2270	local_depository_path=$global_depository_path
2271	else
2272	printf "\n\n +++ no depository path found in configuration file"
2273	printf "\n for local host \"$localhost\" "
2274	printf "\n please set \"\%depository_path\" in configuration file\n"
2275	locat=config_file; exit
2276	fi
2277	fi
2278	eval local_depository_path=$local_depository_path
2279	[[ "$cond1" != "" ]] && local_depository_path=${local_depository_path}_$cond1
2280	[[ "$cond2" != "" ]] && local_depository_path=${local_depository_path}_$cond2
2281
2282
2283	basename=`echo $mainprog \| cut -f1 -d"."`
2284	eval make_depository=${local_depository_path}/${basename}_current_version.tar
2285	if [[ ! -f $make_depository ]]
2286	then
2287	printf "\n"
2288	printf "\n *** WARNING: make depository \"$make_depository\" not found"
2289	printf "\n \"make\" will fail, if the Makefile or other source files are missing\n"
2290	fi
2291
2292	fi
2293
2294
2295	# NOW PERFORM THOSE ACTIONS REQUIRED TO EXECUTE THE PROGRAM (PALM) ON THIS MACHINE
2296	# (COMPILING/LINKING, EXECUTING, COPYING I/O FILES)
2297	if [[ $do_batch = false ]]
2298	then
2299
2300
2301	# CREATE THE TEMPORARY WORKING DIRECTORY
2302	mkdir -p $TEMPDIR
2303	chmod go+rx $TEMPDIR
2304	tmpcreate=true
2305
2306
2307	# COPY EITHER THE COMPLETE SOURCE CODE FILES TO BE COMPILED OR THE EXECUTABLE
2308	# INTO THE TEMPORARY WORKING DIRECTORY
2309	if [[ $do_compile = true ]]
2310	then
2311
2312	TEMPDIR_COMPILE=$TEMPDIR
2313
2314	cp $make_depository $TEMPDIR_COMPILE
2315	cd $TEMPDIR_COMPILE
2316	tar -xf $make_depository > /dev/null 2>&1
2317	cd - > /dev/null
2318
2319	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
2320	# FILES ON CRAY XC30 SYSTEMS (HLRN III), rsync IS USED INSTEAD
2321	if [[ $(echo $host \| cut -c1-6) = lccray ]]
2322	then
2323	rsync -av -t SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
2324	else
2325	cp SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
2326	fi
2327
2328	else
2329
2330	cp $executable ${TEMPDIR}/a.out
2331
2332	fi
2333
2334
2335	# CHANGE TO THE TEMPORARY WORKING DIRECTORY
2336	cd $TEMPDIR
2337	printf "\n *** changed to temporary directory: $TEMPDIR"
2338
2339
2340	# IF REQUIRED, START WITH COMPILING
2341	if [[ $do_compile = true ]]
2342	then
2343
2344
2345	if [[ -f a.out ]]
2346	then
2347
2348	# EXECUTABLE WAS CREATED DURING INTERACTIVE CALL OF MRUN
2349	printf "\n\n\n *** executable a.out found"
2350	printf "\n no compilation required \n"
2351
2352	else
2353
2354	# COMPILING WITH MAKE (ON NEC COMPILER IS CALLED ON HOST CROSS)
2355	printf "\n\n\n *** compilation starts \n$dashes\n"
2356	printf " *** compilation with make using following options:\n"
2357	printf " make depository: $make_depository"
2358	if [[ "$mopts" != "" ]]
2359	then
2360	printf " make options: $mopts\n"
2361	fi
2362	printf " compilername: $compiler_name\n"
2363	printf " compiler options: $fopts\n"
2364	printf " preprocessor directives: $cpp_options \n"
2365	printf " linker options: $lopts \n"
2366	if [[ "$modules" != "" ]]
2367	then
2368	printf " modules to be load: $modules \n"
2369	fi
2370	printf " source code files: $source_list \n"
2371
2372	if [[ $localhost = ibmh ]]
2373	then
2374	printf " compiler is called via ssh on \"plogin1\" \n"
2375	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\" "
2376	[[ ! -f a.out ]] && compile_error=true
2377	continue # STATUS=1, IF a.out EXISTS
2378	elif [[ $localhost = lcocean ]]
2379	then
2380	printf " compiler is called via ssh on \"ocean\" \n"
2381	echo $PWD
2382	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\" "
2383	[[ ! -f a.out ]] && compile_error=true
2384	continue # STATUS=1, IF a.out EXISTS
2385	elif [[ $localhost = lcbullhh \|\| $localhost = lccrayb \|\| $localhost = lccrayf \|\| $localhost = lccrayh ]]
2386	then
2387	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2388	elif [[ $localhost = lceddy ]]
2389	then
2390	which mpifc
2391	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2392	else
2393	[[ "$init_cmds" != "" ]] && eval $init_cmds
2394	[[ "$module_calls" != "" ]] && eval $module_calls
2395	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2396	fi
2397
2398	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
2399	then
2400	printf "\n +++ error occured while compiling or linking"
2401	locat=compile
2402
2403	exit
2404	else
2405	printf "$dashes\n *** compilation finished \n"
2406	fi
2407
2408	fi
2409
2410	fi
2411
2412
2413	# PROVIDE THE INPUT FILES
2414	# LOOP OVER ALL ACTIVATED FILES (LISTED IN THE CONFIGURATION FILE)
2415	(( i = 0 ))
2416	while (( i < iin ))
2417	do
2418	(( i = i + 1 ))
2419	if (( i == 1 ))
2420	then
2421	printf "\n\n *** providing INPUT-files:\n$dashes"
2422	fi
2423
2424
2425	# SKIP OPTIONAL FILES, IF THEY DO NOT EXIST
2426	if [[ "${transin[$i]}" = unavailable ]]
2427	then
2428	if [[ "${extin[$i]}" = "" \|\| "${extin[$i]}" = " " ]]
2429	then
2430	printf "\n *** INFORMATIVE: input file \"${pathin[$i]}/${afname}${endin[$i]}\" "
2431	printf "\n is not available!"
2432	else
2433	printf "\n *** INFORMATIVE: input file \"${pathin[$i]}/${afname}${endin[$i]}.${extin[$i]}\" "
2434	printf "\n is not available!"
2435	fi
2436	continue
2437	fi
2438
2439	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
2440	files_for_pes=false; datentyp=file
2441	if [[ "${actionin[$i]}" = pe && -n $numprocs ]]
2442	then
2443	files_for_pes=true; datentyp=files
2444	actionin[$i]=""
2445	elif [[ "${actionin[$i]}" = pe && ! -n $numprocs ]]
2446	then
2447	actionin[$i]=""
2448	elif [[ "${actionin[$i]}" = lnpe && -n $numprocs ]]
2449	then
2450	files_for_pes=true; datentyp=files
2451	actionin[$i]="ln"
2452	elif [[ "${actionin[$i]}" = lnpe && ! -n $numprocs ]]
2453	then
2454	actionin[$i]="ln"
2455	fi
2456
2457	if [[ $files_for_pes = true ]]
2458	then
2459	printf "\n >>> INPUT: ${absnamein[$i]}/.... to ${localin[$i]}"
2460	else
2461	printf "\n >>> INPUT: ${absnamein[$i]} to ${localin[$i]}"
2462	fi
2463
2464	# INPUT-FILES TO BE LINKED
2465	if [[ "${actionin[$i]}" = ln ]]
2466	then
2467
2468	printf "\n $datentyp will be linked"
2469	if [[ $files_for_pes = false ]]
2470	then
2471	if [[ -f "${absnamein[$i]}" ]]
2472	then
2473	ln ${absnamein[$i]} ${localin[$i]}
2474	got_tmp[$i]=true
2475	fi
2476	else
2477	if [[ -d "${absnamein[$i]}" ]]
2478	then
2479	mkdir ${localin[$i]}
2480	cd ${absnamein[$i]}
2481	for file in $(ls *)
2482	do
2483	ln $file $TEMPDIR/${localin[$i]}
2484	done >\|/dev/null 2>&1
2485	cd $TEMPDIR
2486	fi
2487
2488	# IF "ln -f" HAS FAILED DO A NORMAL COPY "cp -r"
2489	if [[ ! -f "${localin[$i]}/_000000" ]]
2490	then
2491	printf "\n --- WARNING: ln failed, using cp instead (might be time consuming...)"
2492	cp -r ${absnamein[$i]}/* ${localin[$i]}
2493	fi
2494
2495	got_tmp[$i]=true
2496	fi
2497	fi
2498
2499	# FILE IS STORED IN THE RESPECTIVE DIRECTORY GIVEN IN THE CONFIGURATION FILE
2500	if [[ "${actionin[$i]}" = "" \|\| "${actionin[$i]}" = "di" \|\| "${actionin[$i]}" = "npe" ]]
2501	then
2502
2503	if [[ "${actionin[$i]}" = "npe" && -n $numprocs ]]
2504	then
2505
2506	# FILE COPIES ARE PROVIDED FOR ALL CORES
2507	# EACH FILE GETS A UNIQUE FILENAME WITH A FOUR DIGIT NUMBER
2508	printf "\n file will be provided for $numprocs processors"
2509	mkdir ${localin[$i]}
2510	ival=$numprocs
2511	(( ii = 0 ))
2512	while (( ii <= ival-1 ))
2513	do
2514	if (( ii < 10 ))
2515	then
2516	cp ${absnamein[$i]} ${localin[$i]}/_000$ii
2517	elif (( ii < 100 ))
2518	then
2519	cp ${absnamein[$i]} ${localin[$i]}/_00$ii
2520	elif (( ii < 1000 ))
2521	then
2522	cp ${absnamein[$i]} ${localin[$i]}/_0$ii
2523	else
2524	cp ${absnamein[$i]} ${localin[$i]}/_$ii
2525	fi
2526	(( ii = ii + 1 ))
2527	done
2528
2529	else
2530
2531	if [[ $files_for_pes = true ]]
2532	then
2533
2534	# PROVIDE FILES FOR EACH CORE
2535	# FIRST CREATE THE LOCAL DIRECTORY, THEN COPY FILES
2536	# FROM THE PERMANENT DIRECTORY BY LINKING THEM TO THE LOCAL ONE
2537	printf "\n providing $numprocs files for the respective processors"
2538	mkdir ${localin[$i]}
2539	if [[ $link_local_input = true ]]
2540	then
2541	printf " files will be linked\n"
2542	cd ${absnamein[$i]}
2543	for file in $(ls *)
2544	do
2545	ln -f $file ${localin[$i]}
2546	done
2547	cd $TEMPDIR
2548	fi
2549
2550	# IF "ln -f" FAILED OR IF "$link_local_input = false" DO A NORMAL "cp -r"
2551	if [[ ! -f "${localin[$i]}/_000000" ]]
2552	then
2553	if [[ $link_local_input = true ]]
2554	then
2555	printf "\n --- WARNING: ln failed, using cp instead (might be time consuming...)"
2556	fi
2557	cp -r ${absnamein[$i]}/* ${localin[$i]}
2558	fi
2559
2560	else
2561
2562	# PROVIDE FILE FOR RUNS ON A SINGLE CORE
2563	if [[ $link_local_input = true ]]
2564	then
2565	printf " file will be linked\n"
2566	ln -f ${absnamein[$i]} ${localin[$i]}
2567	fi
2568	# If "ln -f" fails of if "$link_local_input = false" do a normal "cp"
2569	if [[ ! -f "${localin[$i]}" ]]
2570	then
2571	if [[ $link_local_input = true ]]
2572	then
2573	printf "\n --- WARNING: ln failed, using cp instead (might be time consuming...)"
2574	fi
2575	cp ${absnamein[$i]} ${localin[$i]}
2576	fi
2577	fi
2578	fi
2579	fi
2580
2581	done
2582	if (( i != 0 ))
2583	then
2584	printf "\n$dashes\n *** all INPUT-files provided \n"
2585	fi
2586
2587
2588	# EXECUTE INPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
2589	(( i = 0 ))
2590	while (( i < iic ))
2591	do
2592	(( i = i + 1 ))
2593	if (( i == 1 ))
2594	then
2595	printf "\n\n *** execution of INPUT-commands:\n$dashes"
2596	fi
2597	printf "\n >>> ${in_command[$i]}"
2598	eval ${in_command[$i]}
2599	if (( i == iic ))
2600	then
2601	printf "\n$dashes\n"
2602	fi
2603	done
2604
2605
2606	# SET THE REMAINING CPU-TIME
2607	cpurest=${cpumax}.
2608
2609
2610	# START DVR STREAMING SERVER
2611	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
2612	then
2613	if [[ "$dvr_server" != "" ]]
2614	then
2615
2616	printf "\n\n *** preparing the dvr streaming server configuration file"
2617
2618	# CHECK, IF A DVR SERVER IS ALREADY RUNNING
2619	running_dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config \| grep -v grep) \| cut -d" " -f2`
2620	if [[ "$running_dvrserver_id" != "" ]]
2621	then
2622
2623	printf "\n\n +++ WARNING: A dvr server with id=$running_dvrserver_id is already running!"
2624	printf "\n This server is used instead starting a new one!"
2625	printf "\n If required, script \"process_dvr_output\" has to be run manually."
2626
2627	else
2628
2629	# COPY CONFIGURATION FILE FOR STREAMING SERVER FROM REPOSITORY TO HERE
2630	if [[ -f ${PALM_BIN}/.dvrserver.config ]]
2631	then
2632	cp ${PALM_BIN}/.dvrserver.config .
2633
2634	# ENTERING THE BASEDIR, UID AND GID INTO THIS FILE
2635	user_id=`id -u`
2636	group_id=`id -g`
2637
2638	# "&" IS REQUIRED AS A SEPERATOR, BECAUSE TEMPDIR CONTAINS "/"
2639	sed "s&<replace by dvr data directory>&${TEMPDIR}&g" .dvrserver.config > .dvrserver.1
2640	sed "s/<replace by user id>/$user_id/g" .dvrserver.1 > .dvrserver.2
2641	sed "s/<replace by group id>/$group_id/g" .dvrserver.2 > .dvrserver.3
2642	mv .dvrserver.3 .dvrserver.config
2643	rm .dvrserver.1 .dvrserver.2
2644
2645	# START DVR SERVER IN BACKGROUND, GET HIS ID AND PRINT ON TERMINAL
2646	$dvr_server .dvrserver.config >> DVR_LOGFILE 2>&1 &
2647	dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config) \| cut -d" " -f2`
2648	printf "\n *** streaming server with id=$dvrserver_id is started in background"
2649	local_dvrserver_running=.TRUE.
2650	else
2651	printf "\n +++ missing file \".dvrserver.config\" in directory:"
2652	printf "\n \"$PALM_BIN\" "
2653	locat=dvr
2654	exit
2655	fi
2656
2657	fi
2658
2659	else
2660	printf "\n\n --- INFORMATIVE: no dvr streaming server will be started"
2661	fi
2662	fi
2663
2664
2665	# CREATE THE NAMELIST-FILE WITH VALUES OF ENVIRONMENT-VARIABLES REQUIRED BY PALM
2666	# (FILE ENVPAR WILL BE READ BY PALM)
2667	cat > ENVPAR << EOF
2668	&envpar run_identifier = '$fname', host = '$localhost',
2669	write_binary = '$write_binary', tasks_per_node = $tasks_per_node,
2670	maximum_parallel_io_streams = $maximum_parallel_io_streams,
2671	maximum_cpu_time_allowed = ${cpumax}.,
2672	revision = '$global_revision',
2673	local_dvrserver_running = $local_dvrserver_running,
2674	batch_job = $batch_job /
2675
2676	EOF
2677
2678
2679	# STARTING THE EXECUTABLE
2680	printf "\n\n *** execution starts in directory\n \"`pwd`\"\n$dashes\n"
2681	PATH=$PATH:$TEMPDIR
2682
2683
2684	if [[ $execute_command != "none" ]]
2685	then
2686
2687	printf "\n +++ branch still not realized"
2688	locat=execution
2689	exit
2690
2691	else
2692
2693	# MPI DEBUG OPTION (ARGUMENT CHECKING, SLOWS DOWN EXECUTION DUE TO INCREASED LATENCY)
2694	if [[ "$mpi_debug" = true ]]
2695	then
2696	export MPI_CHECK_ARGS=1
2697	printf "\n +++ MPI_CHECK_ARGS=$MPI_CHECK_ARGS"
2698	fi
2699
2700	if [[ "$totalview" = true ]]
2701	then
2702	printf "\n *** totalview debugger will be used"
2703	tv_opt="-tv"
2704	else
2705	tv_opt=""
2706	fi
2707
2708	if [[ "$cond1" = debug \|\| "$cond2" = debug ]]
2709	then
2710
2711	#Interactive ALLINEA DEBUG seesion
2712	if [[ "$ENVIRONMENT" != BATCH ]]
2713	then
2714	if [[ $host = lccrayb \|\| $host = lccrayh ]]
2715	then
2716	if [[ "$allinea" = true ]]
2717	then
2718	echo "--- aprun -n $ii -N $tasks_per_node a.out < runfile_atmos"
2719
2720	ddt aprun -n $ii -N $tasks_per_node a.out
2721	wait
2722	fi
2723	fi
2724	fi
2725
2726	if [[ $localhost = ibmh ]]
2727	then
2728
2729	# SETUP THE IBM MPI ENVIRONMENT
2730	export MP_SHARED_MEMORY=yes
2731	export AIXTHREADS_SCOPE=S
2732	export OMP_NUM_THREADS=$threads_per_task
2733	export AUTHSTATE=files
2734	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
2735
2736	# FOLLOWING OPTIONS ARE MANDATORY FOR TOTALVIEW
2737	export MP_ADAPTER_USE=shared
2738	export MP_CPU_USE=multiple
2739	export MP_TIMEOUT=1200
2740
2741	unset MP_TASK_AFFINITY
2742
2743	if [[ "$LOADLBATCH" = yes ]]
2744	then
2745	totalview poe a.out
2746	else
2747	echo totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1
2748	export TVDSVRLAUNCHCMD=ssh
2749	totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1
2750	fi
2751
2752	fi # END DEBUG MODE
2753
2754	else
2755
2756	# NORMAL EXECUTION
2757	if [[ -n $numprocs ]]
2758	then
2759
2760	# RUNNING THE PROGRAM ON PARALLEL MACHINES
2761	if [[ $(echo $host \| cut -c1-3) = ibm ]]
2762	then
2763
2764	# SETUP THE IBM MPI ENVIRONMENT
2765	if [[ $host != ibmh && $host != ibmkisti ]]
2766	then
2767	export MP_SHARED_MEMORY=yes
2768	export AIXTHREAD_SCOPE=S
2769	export OMP_NUM_THREADS=$threads_per_task
2770	export XLSMPOPTS="spins=0:yields=0:stack=20000000"
2771	export AUTHSTATE=files
2772	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
2773	# export MP_PRINTENV=yes
2774
2775	# TUNING-VARIABLES TO IMPROVE COMMUNICATION SPEED
2776	# DO NOT SHOW SIGNIFICANT EFFECTS (SEP 04, FEDERATION-SWITCH)
2777	export MP_WAIT_MODE=poll
2778	[[ $node_usage = not_shared ]] && export MP_SINGLE_THREAD=yes
2779	fi
2780
2781	if [[ $host = ibmkisti ]]
2782	then
2783	export LANG=en_US
2784	export MP_SHARED_MEMORY=yes
2785	if [[ $threads_per_task = 1 ]]
2786	then
2787	export MP_SINGLE_THREAD=yes
2788	export MEMORY_AFFINITY=MCM
2789	else
2790	export OMP_NUM_THREADS=$threads_per_task
2791	fi
2792	fi
2793
2794	if [[ "$LOADLBATCH" = yes ]]
2795	then
2796	printf "\n--- Control: OMP_NUM_THREADS = \"$OMP_NUM_THREADS\" \n"
2797	if [[ "$cond1" = hpmcount \|\| "$cond2" = hpmcount ]]
2798	then
2799	/opt/optibm/HPM_2_4_1/bin/hpmcount a.out
2800	else
2801	if [[ $run_coupled_model = false ]]
2802	then
2803	if [[ "$ocean_file_appendix" = true ]]
2804	then
2805	echo "precursor_ocean" > runfile_atmos
2806	else
2807	echo "precursor_atmos" > runfile_atmos
2808	fi
2809	else
2810	(( iia = $numprocs_atmos / $threads_per_task ))
2811	(( iio = $numprocs_ocean / $threads_per_task ))
2812	printf "\n coupled run ($iia atmosphere, $iio ocean)"
2813	printf "\n using $coupled_mode coupling"
2814	printf "\n\n"
2815	echo "coupled_run $iia $iio" > runfile_atmos
2816	fi
2817	poe ./a.out < runfile_atmos
2818	fi
2819	else
2820	if [[ $localhost = ibmh \|\| $localhost = ibms ]]
2821	then
2822	poe a.out -procs $numprocs -nodes 1 -rmpool 0
2823	elif [[ $localhost = ibmkisti \|\| $localhost = ibmku ]]
2824	then
2825	if [[ -f $hostfile ]]
2826	then
2827	cp $hostfile hostfile
2828	else
2829	(( ii = 1 ))
2830	while (( ii <= $numprocs ))
2831	do
2832	echo $localhost_realname >> hostfile
2833	(( ii = ii + 1 ))
2834	done
2835	fi
2836	export MP_HOSTFILE=hostfile
2837	if [[ $run_coupled_model = false ]]
2838	then
2839	if [[ "$ocean_file_appendix" = true ]]
2840	then
2841	echo "precursor_ocean" > runfile_atmos
2842	else
2843	echo "precursor_atmos" > runfile_atmos
2844	fi
2845	else
2846	(( iia = $numprocs_atmos / $threads_per_task ))
2847	(( iio = $numprocs_ocean / $threads_per_task ))
2848	printf "\n coupled run ($iia atmosphere, $iio ocean)"
2849	printf "\n using $coupled_mode coupling"
2850	printf "\n\n"
2851	echo "coupled_run $iia $iio" > runfile_atmos
2852	fi
2853
2854	poe ./a.out -procs $numprocs < runfile_atmos
2855
2856	else
2857	if [[ "$host_file" = "" ]]
2858	then
2859	printf "\n +++ no hostfile given in configuration file"
2860	locat=config_file
2861	exit
2862	else
2863	eval host_file=$host_file
2864	fi
2865	export MP_HOSTFILE=$host_file
2866	poe a.out -procs $numprocs -tasks_per_node $numprocs
2867	fi
2868	fi
2869
2870	elif [[ $(echo $host \| cut -c1-2) = lc && $host != lckyoto && $host != lctit ]]
2871	then
2872
2873	# COPY HOSTFILE FROM SOURCE DIRECTORY OR CREATE IT, IF IT
2874	# DOES NOT EXIST
2875	if [[ $host != lcbullhh && $host != lccrayb && $host != lccrayf && $host != lccrayh && $host != lckyuh && $host != lckyut && $host != lcocean && $host != lceddy ]]
2876	then
2877	if [[ -f $hostfile ]]
2878	then
2879	cp $hostfile hostfile
2880	(( ii = $numprocs / $threads_per_task ))
2881	[[ $ii = 0 ]] && (( ii = 1 ))
2882	else
2883	(( ii = 1 ))
2884	while (( ii <= $numprocs / $threads_per_task ))
2885	do
2886	echo $localhost_realname >> hostfile
2887	(( ii = ii + 1 ))
2888	done
2889	if (( $numprocs / $threads_per_task == 0 ))
2890	then
2891	echo $localhost_realname >> hostfile
2892	fi
2893	fi
2894	eval zeile=\"`head -n $ii hostfile`\"
2895	printf "\n *** running on: $zeile"
2896	fi
2897
2898	(( ii = $numprocs / $threads_per_task ))
2899	[[ $ii = 0 ]] && (( ii = 1 ))
2900	export OMP_NUM_THREADS=$threads_per_task
2901
2902	if [[ $threads_per_task != 1 ]]
2903	then
2904	# INCREASE STACK SIZE TO UNLIMITED, BECAUSE OTHERWISE LARGE RUNS
2905	# MAY ABORT
2906	ulimit -s unlimited
2907	printf "\n threads per task: $threads_per_task stacksize: unlimited"
2908	fi
2909	if [[ $run_coupled_model = false ]]
2910	then
2911	if [[ "$ocean_file_appendix" = true ]]
2912	then
2913	echo "precursor_ocean" > runfile_atmos
2914	else
2915	echo "precursor_atmos" > runfile_atmos
2916	fi
2917	printf "\n\n"
2918
2919	if [[ $host = lccrayb \|\| $host = lccrayh ]]
2920	then
2921	echo "--- aprun -n $ii -N $tasks_per_node a.out < runfile_atmos"
2922	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
2923	elif [[ $host = lcbullhh ]]
2924	then
2925	export OMPI_MCA_pml=cm
2926	export OMPI_MCA_mtl=mxm
2927	export OMPI_MCA_coll=^ghc
2928	export OMPI_MCA_mtl_mxm_np=0
2929	export MXM_RDMA_PORTS=mlx5_0:1
2930	export MXM_LOG_LEVEL=ERROR
2931	export OMP_NUM_THREADS=$threads_per_task
2932	export KMP_AFFINITY=verbose,granularity=core,compact,1
2933	export KMP_STACKSIZE=64m
2934
2935	srun -n $ii --ntasks-per-node=$tasks_per_node ./a.out < runfile_atmos
2936
2937	elif [[ $host = lccrayf ]]
2938	then
2939	aprun -j1 -n $ii -N $tasks_per_node -m ${memory}M a.out < runfile_atmos
2940	elif [[ $host = lcxe6 \|\| $host = lcxt5m ]]
2941	then
2942	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
2943	elif [[ $host = lceddy ]]
2944	then
2945	echo $ii
2946	echo $tasks_per_node
2947	echo $nodes
2948	mpirun -n $ii a.out < runfile_atmos
2949	elif [[ $host = lcocean ]]
2950	then
2951	mpirun a.out $ROPTS < runfile_atmos
2952	elif [[ $host = lcsb ]]
2953	then
2954	mpirun_rsh -hostfile $PBS_NODEFILE -np `cat $PBS_NODEFILE \| wc -l` a.out < runfile_atmos
2955
2956	elif [[ $host = lckiaps ]]
2957	then
2958	mpirun -np $ii -machinefile $PBS_NODEFILE ./a.out < runfile_atmos
2959	elif [[ $host = lckyu* ]]
2960	then
2961	mpiexec -n $ii --stdin runfile_atmos ./a.out
2962	else
2963	mpiexec -machinefile hostfile -n $ii a.out < runfile_atmos
2964	fi
2965
2966	else
2967
2968	# CURRENTLY THERE IS NO FULL MPI-2 SUPPORT ON ICE AND XT4
2969	(( iia = $numprocs_atmos / $threads_per_task ))
2970	(( iio = $numprocs_ocean / $threads_per_task ))
2971	printf "\n coupled run ($iia atmosphere, $iio ocean)"
2972	printf "\n using $coupled_mode coupling"
2973	printf "\n\n"
2974
2975	if [[ $coupled_mode = "mpi2" ]]
2976	then
2977	echo "atmosphere_to_ocean $iia $iio" > runfile_atmos
2978	echo "ocean_to_atmosphere $iia $iio" > runfile_ocean
2979
2980	if [[ $host = lccrayf \|\| $host = lcxe6 \|\| $host = lcxt5m ]]
2981	then
2982
2983	aprun -n $iia -N $tasks_per_node a.out < runfile_atmos &
2984	aprun -n $iio -N $tasks_per_node a.out < runfile_ocean &
2985
2986	else
2987	# WORKAROUND BECAUSE mpiexec WITH -env option IS NOT AVAILABLE ON SOME SYSTEMS
2988	mpiexec -machinefile hostfile -n $iia a.out < runfile_atmos &
2989	mpiexec -machinefile hostfile -n $iio a.out < runfile_ocean &
2990	# mpiexec -machinefile hostfile -n $iia -env coupling_mode atmosphere_to_ocean a.out &
2991	# mpiexec -machinefile hostfile -n $iio -env coupling_mode ocean_to_atmosphere a.out &
2992	fi
2993	wait
2994
2995	else
2996
2997	echo "coupled_run $iia $iio" > runfile_atmos
2998
2999	if [[ $host = lccrayf \|\| $host = lcxe6 \|\| $host = lcxt5m ]]
3000	then
3001
3002	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
3003
3004	elif [[ $host = lck \|\| $host = lckordi ]]
3005	then
3006
3007	mpiexec -n $ii ./a.out < runfile_atmos &
3008
3009	elif [[ $host = lckyu* ]]
3010	then
3011
3012	mpiexec -n $ii --stdin runfile_atmos ./a.out
3013
3014	elif [[ $host = lcmuk ]]
3015	then
3016
3017	mpiexec -machinefile hostfile -n $ii a.out < runfile_atmos
3018
3019	fi
3020	wait
3021	fi
3022
3023	fi
3024
3025	elif [[ $host = lckyoto ]]
3026	then
3027	set -xv
3028	export P4_RSHCOMMAND=plesh
3029	echo " P4_RSHCOMMAND = $P4_RSHCOMMAND"
3030	if [[ "$ENVIRONMENT" = BATCH ]]
3031	then
3032	if [[ "$cond2" = fujitsu ]]
3033	then
3034	mpiexec -n $numprocs ./a.out # for fujitsu-compiler
3035	elif [[ "cond2" = pgi ]]
3036	then
3037	mpirun -np $numprocs -machinefile ${QSUB_NODEINF} ./a.out
3038	else
3039	mpirun_rsh -np $numprocs -hostfile ${QSUB_NODEINF} MV2_USE_SRQ=0 ./a.out \|\| /bin/true
3040	fi
3041	else
3042	if [[ "$cond2" = "" ]]
3043	then
3044	mpiruni_rsh -np $numprocs ./a.out # for intel
3045	else
3046	mpirun -np $numprocs ./a.out
3047	fi
3048	fi
3049	set +xv
3050
3051	elif [[ $host = lctit ]]
3052	then
3053	export OMP_NUM_THREADS=$threads_per_task
3054	echo "OMP_NUM_THREADS=$OMP_NUM_THREADS"
3055	if [[ "$threads_per_task" != 1 ]]
3056	then
3057	export MV2_ENABLE_AFFINITY=0
3058	fi
3059	echo "----- PBS_NODEFILE content:"
3060	cat $PBS_NODEFILE
3061	echo "-----"
3062	(( ii = $numprocs / $threads_per_task ))
3063	echo "mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out"
3064	mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out
3065
3066	else
3067	mpprun -n $numprocs a.out
3068	fi
3069	else
3070	a.out
3071	fi
3072
3073	fi # end normal (non-debug) execution
3074
3075	fi # end explicit execute_command or host-specific execute actions
3076
3077	if [[ $? != 0 ]]
3078	then
3079
3080	# ABORT IN CASE OF RUNTIME ERRORS
3081	printf "\n +++ runtime error occured"
3082	locat=execution
3083	exit
3084
3085	else
3086
3087	printf "\n$dashes\n *** execution finished \n"
3088
3089	# STOP THE DVR STREAMING SERVER AND PROCESS THE DVR OUTPUT IN ORDER
3090	# TO CREAT DVRS- AND HTML-FILES CONTAINING ALL STREAMS
3091	if [[ "$dvrserver_id" != "" ]]
3092	then
3093	kill $dvrserver_id
3094	printf "\n *** dvr server with id=$dvrserver_id has been stopped"
3095
3096	# IF THERE IS A DIRECTORY, DATA HAVE BEEN OUTPUT BY THE
3097	# STREAMING SERVER. OTHERWISE, USER HAS CHOSEN dvrp_output=local
3098	if [[ -d DATA_DVR ]]
3099	then
3100
3101	# ADD THE CURRENT DVR CONFIGURATION FILE TO THE DVR OUTPUT
3102	# DIRECTORY
3103	cp .dvrserver.config DATA_DVR
3104
3105	# PROCESS THE DVR OUTPUT (OPTION -s FOR GENERATING
3106	# SEQUENCE MODE DATA TOO)
3107	process_dvr_output -d DATA_DVR -f $fname -s
3108
3109	else
3110
3111	# PROCESS THE LOCAL OUTPUT
3112	process_dvr_output -l -d DATA_DVR -f $fname
3113
3114	fi
3115
3116	elif [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
3117	then
3118
3119	# PROCESS DVR OUTPUT GENERATD IN LOCAL MODE (dvrp_output=local)
3120	process_dvr_output -l -d DATA_DVR -f $fname
3121
3122	fi
3123	fi
3124
3125
3126
3127	# CALL OF combine_plot_fields IN ORDER TO MERGE SINGLE FILES WRITTEN
3128	# BY EACH CORE INTO ONE FILE
3129	if [[ ! -f ${PALM_BIN}/combine_plot_fields${block}.x ]]
3130	then
3131	printf "\n\n\n +++ WARNING: no combine_plot_fields found for given block \"$cond1 $cond2\""
3132	printf "\n 2d- and/or 3d-data may be incomplete!"
3133	printf "\n Run \"mbuild -u -h $localhost\" to generate utilities for this block.\n"
3134	elif [[ "$combine_plot_fields" == true ]]
3135	then
3136	if [[ $localhost = lccrayh \|\| $localhost = lccrayb ]]
3137	then
3138	printf "\n\n\n *** post-processing: now executing \"aprun -n 1 -N 1 combine_plot_fields${block}.x\" ..."
3139	aprun -n 1 -N 1 combine_plot_fields${block}.x
3140	else
3141	printf "\n\n\n *** post-processing: now executing \"combine_plot_fields${block}.x\" ..."
3142	combine_plot_fields${block}.x
3143	fi
3144	else
3145
3146	# TEMPORARY SOLUTION TO SKIP combine_plot_fields. THIS IS REQUIRED IN CASE OF HUGE AMOUNT OF
3147	# DATA OUTPUT. TO DO: EXTEND THIS BRANCH BY CREATING A BATCH JOB for combine_plot_fields.
3148	# ??? koennen wir das streichen ???
3149	printf "\n\n\n *** post-processing: skipping combine_plot_fields (-Z option set) ..."
3150	fi
3151
3152
3153
3154	# EXECUTE OUTPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
3155	(( i = 0 ))
3156	while (( i < ioc ))
3157	do
3158	(( i = i + 1 ))
3159	if (( i == 1 ))
3160	then
3161	printf "\n\n *** execution of OUTPUT-commands:\n$dashes"
3162	fi
3163	printf "\n >>> ${out_command[$i]}"
3164	eval ${out_command[$i]}
3165	if (( i == ioc ))
3166	then
3167	printf "\n$dashes\n"
3168	fi
3169	done
3170
3171
3172	# IN TRACE-MODE PRINT CONTENTS OF THE CURRENT (TEMPORARY) WORKING DIRECTORY
3173	if [[ $do_trace = true ]]
3174	then
3175	printf "\n\n"
3176	ls -al
3177	fi
3178
3179
3180	# COPY LOCAL OUTPUT-FILES TO THEIR PERMANENT DESTINATIONS
3181	(( i = 0 ))
3182	while (( i < iout ))
3183	do
3184	(( i = i + 1 ))
3185	if (( i == 1 ))
3186	then
3187	printf "\n\n *** saving OUTPUT-files:"
3188
3189	# GET RUN NUMBER ASSIGNED BY PALM
3190	if [[ -f RUN_NUMBER ]]
3191	then
3192	read run_number < RUN_NUMBER
3193	printf "\n *** PALM generated run_number = "$run_number" will be used as unified cycle number for all output files"
3194	usecycle_option="-U $run_number"
3195	else
3196	run_number=0
3197	usecycle_option=""
3198	fi
3199	printf "\n$dashes"
3200	fi
3201
3202	# ADD CYCLE NUMBER TO FILENAME
3203	if [[ ! ( $fromhost != $localhost && ( "${actionout[$i]}" = tr \|\| "${actionout[$i]}" = tra \|\| "${actionout[$i]}" = trpe ) ) ]]
3204	then
3205
3206	# IN APPEND MODE, FILES KEEP THEIR CURRENT CYCLE NUMBER
3207	if [[ "${actionout[$i]}" != "a" ]]
3208	then
3209	# SET RUN NUMBER AS CYCLE NUMBER, IF THERE IS NOT A CONFLICT
3210	# WITH AN EXISTING CYCLE NUMBER
3211	if (( run_number >= cycnum[$i] ))
3212	then
3213	(( cycnum[$i] = run_number ))
3214	else
3215	if (( run_number > 0 ))
3216	then
3217	printf "\n --- INFORMATIVE: The following file cannot get a unified cycle number"
3218	fi
3219	fi
3220	fi
3221	if (( cycnum[$i] > 0 ))
3222	then
3223	pathout[$i]=${pathout[$i]}.${cycnum[$i]}
3224	fi
3225	fi
3226
3227	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
3228	files_for_pes=false; filetyp=file
3229	link_local_output=false
3230	if [[ "${actionout[$i]}" = pe && -n $numprocs ]]
3231	then
3232	files_for_pes=true; filetyp=directory
3233	actionout[$i]=""
3234	elif [[ "${actionout[$i]}" = pe && ! -n $numprocs ]]
3235	then
3236	actionout[$i]=""
3237	elif [[ "${actionout[$i]}" = lnpe && -n $numprocs ]]
3238	then
3239	files_for_pes=true; filetyp=directory
3240	link_local_output=true
3241	actionout[$i]=""
3242	elif [[ "${actionout[$i]}" = lnpe && ! -n $numprocs ]]
3243	then
3244	link_local_output
3245	actionout[$i]=""
3246	elif [[ "${actionout[$i]}" = trpe && -n $numprocs ]]
3247	then
3248	files_for_pes=true; filetyp=directory
3249	actionout[$i]="tr"
3250	elif [[ "${actionout[$i]}" = trpe && ! -n $numprocs ]]
3251	then
3252	actionout[$i]="tr"
3253	fi
3254
3255	if [[ ! -f ${localout[$i]} && $files_for_pes = false ]]
3256	then
3257	printf "\n +++ temporary OUTPUT-file ${localout[$i]} does not exist\n"
3258	elif [[ ! -d ${localout[$i]} && $files_for_pes = true ]]
3259	then
3260	printf "\n +++ temporary OUTPUT-file ${localout[$i]}/.... does not exist\n"
3261	else
3262
3263
3264	# COPY VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
3265	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
3266	if [[ "${actionout[$i]}" = tr ]]
3267	then
3268	if [[ $localhost != $fromhost ]]
3269	then
3270	if [[ $files_for_pes = false ]]
3271	then
3272	cps=""
3273	cst=""
3274	else
3275	cps=-c
3276	cst="/"
3277	fi
3278
3279	transfer_failed=false
3280	printf "\n >>> OUTPUT: ${localout[$i]}$cst by SCP to"
3281	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}$cst\n"
3282	if [[ $localhost = lccrayb ]]
3283	then
3284	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]}"
3285	elif [[ $localhost = lccrayh ]]
3286	then
3287	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]}"
3288	elif [[ $localhost = lcbullhh ]]
3289	then
3290	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]}"
3291	elif [[ $localhost = lcxe6 ]]
3292	then
3293	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]}"
3294	else
3295	batch_scp $PORTOPT $cps -b -m $usecycle_option -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
3296	fi
3297	[[ $? != 0 ]] && transfer_failed=true
3298
3299	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
3300	if [[ $transfer_failed = true ]]
3301	then
3302	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
3303	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
3304
3305	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
3306	eval local_catalog=${pathout[$i]}
3307	if [[ ! -d $local_catalog ]]
3308	then
3309	printf " *** local directory does not exist. Trying to create:\n"
3310	printf " $local_catalog \n"
3311	mkdir -p $local_catalog
3312	fi
3313	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
3314	transfer_problems=true
3315	fi
3316
3317	else
3318
3319	# UNSET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE COPIED ON THIS MACHINE
3320	actionout[$i]=""
3321	fi
3322	fi
3323
3324
3325	# APPEND VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
3326	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
3327	if [[ "${actionout[$i]}" = tra ]]
3328	then
3329	if [[ $localhost != $fromhost ]]
3330	then
3331	if [[ $localhost = ibmh ]]
3332	then
3333
3334	# TRANSFER IN SEPERATE JOB
3335	# FIRST COPY FILE TO TEMPORY DATA DIRECTORY
3336	[[ ! -d $tmp_data_catalog/TRANSFER ]] && mkdir -p $tmp_data_catalog/TRANSFER
3337	file_to_transfer=${fname}_${localout[$i]}_to_transfer_$kennung
3338	ln -f ${localout[$i]} $tmp_data_catalog/TRANSFER/$file_to_transfer
3339
3340	echo "set -x" > transfer_${localout[$i]}
3341	echo "cd $tmp_data_catalog/TRANSFER" >> transfer_${localout[$i]}
3342
3343	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP in seperate job to"
3344	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}"
3345	printf "\n or higher cycle\n"
3346	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]}
3347
3348	echo "[[ \$? = 0 ]] && rm $file_to_transfer" >> transfer_${localout[$i]}
3349
3350	if [[ $LOGNAME = b323013 ]]
3351	then
3352	subjob -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3353	else
3354	subjob -d -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3355	fi
3356
3357	else
3358
3359	# TRANSFER WITHIN THIS JOB
3360	transfer_failed=false
3361	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP to"
3362	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}\n"
3363	if [[ $localhost = lccrayb ]]
3364	then
3365	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]}"
3366	elif [[ $localhost = lccrayh ]]
3367	then
3368	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]}"
3369	elif [[ $localhost = lcxe6 ]]
3370	then
3371	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]}"
3372	else
3373	batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
3374	fi
3375	[[ $? != 0 ]] && transfer_failed=true
3376
3377	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
3378	if [[ $transfer_failed = true ]]
3379	then
3380	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
3381	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
3382
3383	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
3384	eval local_catalog=${pathout[$i]}
3385	if [[ ! -d $local_catalog ]]
3386	then
3387	printf " *** local directory does not exist. Trying to create:\n"
3388	printf " $local_catalog \n"
3389	mkdir -p $local_catalog
3390	fi
3391
3392	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
3393	transfer_problems=true
3394	fi
3395	fi
3396	else
3397
3398	# RESET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE APPENDED ON THIS MACHINE
3399	actionout[$i]=a
3400	fi
3401	fi
3402
3403
3404	# APPEND ON THIS MACHINE
3405	if [[ "${actionout[$i]}" = "a" ]]
3406	then
3407	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
3408	then
3409	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}.${extout[$i]}\n"
3410	cat ${localout[$i]} >> ${pathout[$i]}.${extout[$i]}
3411	else
3412	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}\n"
3413	cat ${localout[$i]} >> ${pathout[$i]}
3414	fi
3415	fi
3416
3417	# COPY ON THIS MACHINE
3418	# COPY HAS TO BE USED, BECAUSE MOVE DOES NOT WORK IF FILE-ORIGIN AND TARGET ARE
3419	# ON DIFFERENT FILE-SYSTEMS
3420	if [[ "${actionout[$i]}" = "" && $files_for_pes = false ]]
3421	then
3422
3423	# COPY IN CASE OF RUNS ON SINGLE CORES
3424	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
3425	then
3426	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}.${extout[$i]}\n"
3427	if [[ $link_local_output = true ]]
3428	then
3429	printf " file will be linked\n"
3430	ln -f ${localout[$i]} ${pathout[$i]}.${extout[$i]}
3431	fi
3432	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
3433	if [[ ! -f "${pathout[$i]}.${extout[$i]}" ]]
3434	then
3435	if [[ $link_local_output = true ]]
3436	then
3437	printf " --- WARNING: ln failed, using cp instead (might be time consuming...)\n"
3438	fi
3439	cp ${localout[$i]} ${pathout[$i]}.${extout[$i]}
3440	else
3441	printf "+++ no copy because file ${pathout[$i]}.${extout[$i]} exists\n"
3442	fi
3443	else
3444	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}\n"
3445	if [[ $link_local_output = true ]]
3446	then
3447	printf " file will be linked\n"
3448	ln -f ${localout[$i]} ${pathout[$i]}
3449	fi
3450	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
3451	if [[ ! -f "${pathout[$i]}" ]]
3452	then
3453	if [[ $link_local_output = true ]]
3454	then
3455	printf " --- WARNING: ln failed, using cp instead (might be time consuming...)\n"
3456	fi
3457	cp ${localout[$i]} ${pathout[$i]}
3458	else
3459	printf "+++ no copy because file ${pathout[$i]} exists\n"
3460	fi
3461	fi
3462
3463	elif [[ "${actionout[$i]}" = "" && $files_for_pes = true ]]
3464	then
3465
3466	# FILES FROM THE DIFFERENT CORES ARE MOVED WITH ln-COMMAND TO THE PERMANENT DIRECTORY
3467	# AS A FIRST STEP, THE PERMANENT DIRECTORY IS CREATED
3468	printf "\n >>> OUTPUT: ${localout[$i]}/_.... to ${pathout[$i]}\n"
3469	if [[ $link_local_output = true ]]
3470	then
3471	printf " files will be linked\n"
3472	mkdir ${pathout[$i]}
3473	cd ${localout[$i]}
3474	for file in $(ls *)
3475	do
3476	ln -f $file ${pathout[$i]}
3477	done >\|/dev/null 2>&1
3478	cd $TEMPDIR
3479	fi
3480
3481	# IF "ln -f" HAS FAILED OR IF "$link_local_output = false" DO A NORMAL COPY "cp -r"
3482	if [[ ! -f "${pathout[$i]}/_000000" ]]
3483	then
3484	if [[ $link_local_output = true ]]
3485	then
3486	printf " --- WARNING: ln failed, using cp instead (might be time consuming...)\n"
3487	fi
3488	cp -r ${localout[$i]}/* ${pathout[$i]}
3489	fi
3490
3491	fi
3492	fi
3493	done
3494	if (( i != 0 ))
3495	then
3496	if [[ $transfer_problems = true ]]
3497	then
3498	printf "\n$dashes\n *** OUTPUT-files saved"
3499	printf "\n +++ WARNING: some data transfers failed! \n"
3500	else
3501	printf "\n$dashes\n *** all OUTPUT-files saved \n"
3502	fi
3503	fi
3504
3505
3506	# IF REQUIRED, START A RESTART-JOB
3507	# FILE CONTINUE_RUN MUST HAVE BEEN CREATED BY THE EXECUTABLE (PALM)
3508	if [[ -f CONTINUE_RUN ]]
3509	then
3510
3511	# ADD RESTART-OPTIONS TO THE MRUN-CALL (IF THEY ARE NOT USED ALREADY):
3512	# -C TELLS MRUN THAT IT IS A RESTART-RUN
3513	# -v SILENT MODE WITHOUT INTERACTIVE QUERIES
3514	# -n BATCH-MODE (IMPORTANT ONLY IN CASE OF BATCH JOBS ON THE LOCAL MACHINE)
3515	[[ $(echo $mc \| grep -c "\-C") = 0 ]] && mc="$mc -C"
3516	[[ $(echo $mc \| grep -c "\-v") = 0 ]] && mc="$mc -v"
3517	[[ $(echo $mc \| grep -c "\-b") = 0 ]] && mc="$mc -b"
3518	if [[ $(echo $mc \| grep -c "#") != 0 ]]
3519	then
3520	mc=`echo $mc \| sed 's/#/f/g'`
3521	fi
3522
3523
3524	# START THE RESTART-JOB
3525	printf "\n\n *** initiating restart-run on \"$return_address\" using command:\n"
3526	echo " $mc"
3527	printf "\n$dashes\n"
3528	if [[ $localhost != $fromhost ]]
3529	then
3530
3531	if [[ $localhost = lcbullhh \|\| $localhost = lccrayb \|\| $localhost = lccrayh \|\| $localhost = ibmh \|\| $localhost = ibmkisti \|\| $localhost = ibmku \|\| $localhost = ibms \|\| $localhost = lceddy \|\| $localhost = lckyu* \|\| $localhost = lcxe6 ]]
3532	then
3533	echo "*** ssh will be used to initiate restart-runs!"
3534	echo " return_address=\"$return_address\" "
3535	echo " return_username=\"$return_username\" "
3536	if [[ $(echo $return_address \| grep -c "130.75.105") = 1 ]]
3537	then
3538	if [[ $localhost = ibmh ]]
3539	then
3540	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\" "
3541	elif [[ $localhost = lcbullhh ]]
3542	then
3543	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\" "
3544	elif [[ $localhost = lccrayb ]]
3545	then
3546	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\" "
3547	elif [[ $localhost = lccrayh ]]
3548	then
3549	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\" "
3550	elif [[ $localhost = lcxe6 ]]
3551	then
3552	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\" "
3553	else
3554	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	fi
3556	else
3557	if [[ $localhost = ibmkisti ]]
3558	then
3559	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\" "
3560	elif [[ $localhost = lceddy ]]
3561	then
3562	/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 "
3563	elif [[ $localhost = lcocean ]]
3564	then
3565	/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 "
3566	elif [[ $localhost = lccrayb ]]
3567	then
3568	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\" "
3569	elif [[ $localhost = lccrayh ]]
3570	then
3571	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\" "
3572	else
3573	ssh $SSH_PORTOPT $return_address -l $return_username "PATH=\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc "
3574	fi
3575	fi
3576	else
3577	printf "\n +++ no restart mechanism available for host \"$localhost\" "
3578	locat=restart; exit
3579	fi
3580
3581	# WAIT TO ALLOW THE RESTART-JOB TO BE QUEUED, BEFORE THE CURRENT JOB IS FINISHED
3582	if [[ $queue = special1q ]]
3583	then
3584	sleep 120
3585	else
3586	sleep 30
3587	fi
3588
3589	else
3590
3591	# JOBS RUNNING (AND STARTED) ON THE LOCAL MACHINE CAN DIRECTLY CALL MRUN (WITHOUT
3592	# USING SSH)
3593	cd $LOCAL_PWD
3594	if [[ $localhost = lckyuh ]]
3595	then
3596	printf "\n +++ WARNING: no restart mechanism available for host \"$localhost\" "
3597	printf "\n please restart job manually using command:\n"
3598	printf "\n \"$mc\" "
3599	else
3600	eval $mc # THE ' MUST BE EVALUATED
3601	fi
3602	cd - > /dev/null
3603	fi
3604	if [[ $localhost = lckyuh ]]
3605	then
3606	printf "\n$dashes\n *** restart-run to be initiated manually\n"
3607	else
3608	printf "\n$dashes\n *** restart-run initiated \n"
3609	fi
3610
3611
3612	# DELETE INPUT-(RESTART)FILES, WHICH HAVE BEEN FETCHED FROM THE TEMPORARY DATA
3613	# DIRECTORY, BACAUSE THEY ARE NOT REQUIRED BY THE RESTART-JOB.
3614	# THIS IS DONE IN ORDER TO AVOID EXCEEDING DISC QUOTAS OR DISC SPACE (RESTART-FILES
3615	# MAY BE VERY HUGE)
3616	(( i = 0 ))
3617	while (( i < iin ))
3618	do
3619	(( i = i + 1 ))
3620	if [[ "${got_tmp[$i]}" = true && $keep_data_from_previous_run = false ]]
3621	then
3622	rm -r ${absnamein[$i]}
3623	fi
3624	done
3625
3626	fi
3627
3628
3629
3630	# SEND EMAIL NOTIFICATION ABOUT THE FINISHED RUN
3631	if [[ "$email_notification" != "none" ]]
3632	then
3633
3634	if [[ $localhost != $fromhost ]]
3635	then
3636	if [[ -f CONTINUE_RUN ]]
3637	then
3638	echo "PALM restart run necessary" > email_text
3639	echo "description header of actual run:" >> email_text
3640	cat CONTINUE_RUN >> email_text
3641	echo "mrun-command to restart:" >> email_text
3642	echo "$mc" >> email_text
3643	else
3644	echo "PALM run with base filename \"$fname\" on host \"$localhost\" finished" > email_text
3645	fi
3646	mail $email_notification < email_text
3647	printf "\n *** email notification sent to \"$email_notification\" "
3648	fi
3649	fi
3650
3651
3652
3653	# ALL ACTIONS FINISHED, TEMPORARY WORKING-DIRECTORY CAN BE DELETED
3654	cd $HOME
3655	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
3656
3657	else
3658
3659	# PREPARING ACTIONS,
3660	# IF A BATCH-JOB IS TO BE GENERATED AND STARTED ON A REMOTE-MACHINE GERECHNET
3661
3662	# BUILD THE MRUN-COMMAND TO BE CALLED IN THE BATCH-JOB ON THE REMOTE-MACHINE
3663	mrun_com="$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 $remote_username"
3664	[[ "$cpp_opts" != "" ]] && mrun_com=${mrun_com}" -D \"$cpp_opts\""
3665	[[ "$global_revision" != "" ]] && mrun_com=${mrun_com}" -G \"$global_revision\""
3666	[[ $group_number != none ]] && mrun_com=${mrun_com}" -g $group_number"
3667	[[ $do_compile = true ]] && mrun_com=${mrun_com}" -s \"$source_list\""
3668	[[ "$input_list" != "" ]] && mrun_com=${mrun_com}" -i \"$input_list\""
3669	[[ $keep_data_from_previous_run = true ]] && mrun_com=${mrun_com}" -k"
3670	[[ "$additional_conditions" != "" ]] && mrun_com=${mrun_com}" -K \"$additional_conditions\""
3671	[[ "$output_list" != "" ]] && mrun_com=${mrun_com}" -o \"$output_list\""
3672	[[ "$read_from_config" = false ]] && mrun_com=${mrun_com}" -S"
3673	[[ $do_trace = true ]] && mrun_com=${mrun_com}" -x"
3674	[[ "$numprocs" != "" ]] && mrun_com=${mrun_com}" -X $numprocs"
3675	if [[ $use_openmp = true ]]
3676	then
3677	mrun_com=${mrun_com}" -O $threads_per_task"
3678	fi
3679	[[ "$tasks_per_node" != "" ]] && mrun_com=${mrun_com}" -T $tasks_per_node"
3680	[[ $package_list != "" ]] && mrun_com=${mrun_com}" -p \"$package_list\""
3681	[[ $return_password != "" ]] && mrun_com=${mrun_com}" -P $return_password"
3682	[[ $delete_temporary_catalog = false ]] && mrun_com=${mrun_com}" -B"
3683	[[ $node_usage != default && "$(echo $node_usage \| cut -c1-3)" != "sla" && $node_usage != novice ]] && mrun_com=${mrun_com}" -n $node_usage"
3684	[[ "$ocean_file_appendix" = true ]] && mrun_com=${mrun_com}" -y"
3685	[[ $run_coupled_model = true ]] && mrun_com=${mrun_com}" -Y \"$coupled_dist\""
3686	[[ "$check_namelist_files" = false ]] && mrun_com=${mrun_com}" -z"
3687	[[ "$combine_plot_fields" = false ]] && mrun_com=${mrun_com}" -Z"
3688	[[ "$max_par_io_str" != "" ]] && mrun_com=${mrun_com}" -w $max_par_io_str"
3689	if [[ $do_remote = true ]]
3690	then
3691	printf "\n>>>> MRUN-command on execution host:\n>>>> $mrun_com \n"
3692	fi
3693
3694
3695	# CREATE EXECUTABLE FOR BATCH JOB
3696	if [[ $create_executable_for_batch = true && $restart_run != true ]]
3697	then
3698
3699	printf "\n *** creating the executable for batch job\n"
3700
3701	# METHOD ONLY WORKS FOR BATCH JOBS ON LOCAL HOSTS
3702	if [[ $host != $localhost ]]
3703	then
3704	printf "\n +++ creation of executables is only allowed for batch jobs on local hosts."
3705	printf "\n Please set create_executable_for_batch = false in the config-file.\n"
3706	locat=create_executable; exit
3707	fi
3708
3709	mkdir $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
3710	cd $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
3711
3712	cp $make_depository .
3713	tar -xf $make_depository > /dev/null 2>&1
3714	cp ../* . > /dev/null 2>&1
3715
3716	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
3717
3718	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
3719	then
3720	printf "\n +++ error occured while compiling or linking"
3721	locat=compile
3722	exit
3723	fi
3724
3725	mv a.out ..
3726	cd - > /dev/null 2>&1
3727	rm -rf $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
3728
3729	printf " *** executable created in \"$working_directory/SOURCES_FOR_RUN_${fname}\"\n "
3730
3731	fi
3732
3733
3734	# BUILD THE JOB-SCRIPTS ON FILE jobfile
3735	jobfile=jobfile.$RANDOM
3736
3737
3738	# CREATE TEMPORARY DIRECTORY AND SWITCH TO IT
3739	echo "mkdir $TEMPDIR" >> $jobfile
3740	echo "cd $TEMPDIR" >> $jobfile
3741
3742
3743	# ACTIVATE ERROR-TRACEBACK
3744	if [[ $do_trace = true ]]
3745	then
3746	echo "set -x" >> $jobfile
3747	else
3748	echo "set +vx" >> $jobfile
3749	fi
3750
3751
3752	# INITIALIZE THE ENVIRONMENT AND LOAD MODULES
3753	if [[ "$init_cmds" != "" ]]
3754	then
3755	echo "$init_cmds" >> $jobfile
3756	fi
3757	if [[ "$module_calls" != "" ]]
3758	then
3759	echo "$module_calls" >> $jobfile
3760	fi
3761
3762
3763	# PROVIDE SOURCE-CODE FILES, MRUN-SCRIPT AND CONFIGURATION-FILE FOR THE JOB
3764	# then-CLAUSE: FILES ARE COLLECTED IN THE SOURCES_FOR_RUN_... DIRECTORY ON THE LOCAL HOST,
3765	# WHICH IS THEN FETCHED FROM THE BATCH-JOB BY USING cp/scp
3766	# THE SOURCE-CODE FILES ALREADY EXIST IN THIS DIRECTORY
3767	# else-CLAUSE: FILE-CONTENTS ARE PUT INTO THE JOB-FILE AS HERE-DOCUMENTS
3768	# THIS MAY CREATE A QUITE LARGE JOB-FILE, WHICH CAN CAUSE PROBLEMS WITH SOME
3769	# QUEUEING-SYSTEMS
3770	if [[ $host = ibmkisti \|\| $host = lcbullhh \|\| $host = lccrayb \|\| $host = lccrayf \|\| $host = lccrayh \|\| $host = lcocean ]]
3771	then
3772
3773	# COPY CONFIGURATION-FILE AND MRUN-SCRIPT INTO THE SOURCES_FOR_RUN... DIRECTORY
3774	if [[ $restart_run != true ]]
3775	then
3776	cp $config_file $working_directory/SOURCES_FOR_RUN_$fname
3777	cp ${PALM_BIN}/$mrun_script_name $working_directory/SOURCES_FOR_RUN_$fname
3778	fi
3779
3780	# COPY THE SOURCES_FOR_RUN... DIRECTORY FROM THE LOCAL HOST TO THE JOB VIA scp
3781	# (then-CLAUSE: JOBS ON THE LOCAL HOST CAN JUST USE cp)
3782	echo "set -x" >> $jobfile
3783	if [[ $host = $localhost ]]
3784	then
3785	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
3786	# FILES ON CRAY XC30 SYSTEMS (CSC HELSINKI), rsync IS USED INSTEAD
3787	if [[ $(echo $host \| cut -c1-6) = lccray ]]
3788	then
3789	echo "rsync -av -t $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
3790	else
3791	echo "cp -r $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
3792	fi
3793
3794	else
3795	if [[ $host = ibmkisti ]]
3796	then
3797	# ON KISTI'S IBM FIREWALL IS ONLY OPENED ON INTERACTIVE NODE
3798	echo "localdir=\`pwd\`" >> $jobfile
3799	echo "ssh $SSH_PORTOPT $remote_username@gaiad \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
3800	elif [[ $host = lcbullhh ]]
3801	then
3802	echo "localdir=\`pwd\`" >> $jobfile
3803	echo "ssh $SSH_PORTOPT $remote_username@mlogin101 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
3804
3805	elif [[ $host = lccrayb ]]
3806	then
3807	echo "localdir=\`pwd\`" >> $jobfile
3808	echo "ssh $SSH_PORTOPT $remote_username@blogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
3809	elif [[ $host = lccrayh ]]
3810	then
3811	echo "localdir=\`pwd\`" >> $jobfile
3812	echo "ssh $SSH_PORTOPT $remote_username@hlogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
3813
3814	else
3815	echo "scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
3816	fi
3817	fi
3818	echo "export SOURCES_COMPLETE=true" >> $jobfile
3819
3820	# MOVE MRUN-SCRIPT AND CONFIGURATION-FILE FROM THE SOURCES_FOR_RUN... DIRECTORY TO THE
3821	# WORKING DIRECTORY OF THE JOB
3822	echo "mv SOURCES_FOR_RUN_$fname/$config_file . " >> $jobfile
3823	echo "mv SOURCES_FOR_RUN_$fname/$mrun_script_name . " >> $jobfile
3824	echo "chmod u+rwx $mrun_script_name" >> $jobfile
3825	echo "execute_mrun=true" >> $jobfile
3826	echo " " >> $jobfile
3827
3828	else
3829
3830	# PROVIDE SOURCE-CODE FILES AND MAKEFILE AS HERE DOCUMENT
3831	if [[ $do_compile = true ]]
3832	then
3833
3834	source_catalog=SOURCES_FOR_RUN_$fname
3835
3836	# CREATE SOURCES_FOR_RUN... DIRECTORY TO STORE THE SOURCE CODE FILES AND THE MAKEFILE
3837	echo "mkdir SOURCES_FOR_RUN_$fname" >> $jobfile
3838	echo "export SOURCES_COMPLETE=true" >> $jobfile
3839	echo "cd SOURCES_FOR_RUN_$fname" >> $jobfile
3840
3841	for filename in $source_list
3842	do
3843	# BACKSLASH IS USED FOR MASKING
3844	echo "cat > $filename << \"%END%\"" >> $jobfile
3845	cat $source_catalog/$filename >> $jobfile
3846	echo " " >> $jobfile
3847	echo "%END%" >> $jobfile
3848	echo " " >> $jobfile
3849	done
3850
3851	# BACKSLASH IS USED FOR MASKING
3852	echo "cat > Makefile << \"%END%\"" >> $jobfile
3853	cat $source_catalog/Makefile >> $jobfile
3854	echo " " >> $jobfile
3855	echo "%END%" >> $jobfile
3856	echo " " >> $jobfile
3857
3858	echo "cd - > /dev/null" >> $jobfile
3859
3860	fi
3861
3862
3863	# PROVIDE THE CONFIGURATION-FILE AS HERE-DOCUMENT
3864	# BACKSLASH IS USED FOR MASKING
3865	# LINES WITH #$ IN THE CONFIGURATION-FILE, COMING FROM THE SVN KEYWORD SUBSTITUTION,
3866	# ARE REMOVED FROM THE FILE IN ORDER TO AVOID PROBLEMS WITH THE SGE BATCH SYSTEM
3867	echo "cat > $config_file << \"%END%\"" >> $jobfile
3868	if [[ $host = lckyuh ]]
3869	then
3870	# NO CROSS-COMPILER ON COMPUTE NODE
3871	sed 's/frtpx/frt/g' $config_file >> $jobfile
3872	else
3873	sed 's/#$.*//g' $config_file >> $jobfile
3874	fi
3875	echo "%END%" >> $jobfile
3876	echo " " >> $jobfile
3877
3878
3879	# PROVIDE THE MRUN-SCRIPTS AS HERE-DOCUMENT
3880	# BACKSLASH IS USED FOR MASKING
3881	echo "cat > $mrun_script_name <<\"%END%\"" >> $jobfile
3882	if [[ $host = lckyuh ]]
3883	then
3884	sed 's/\/bin\/ksh/\/bin\/bash/g' ${PALM_BIN}/$mrun_script_name >> $jobfile
3885	else
3886	cat ${PALM_BIN}/$mrun_script_name >> $jobfile
3887	fi
3888	echo "%END%" >> $jobfile
3889	echo "chmod u+x $mrun_script_name" >> $jobfile
3890	echo "execute_mrun=true" >> $jobfile
3891	echo " " >> $jobfile
3892
3893	fi
3894
3895
3896	# GET REQUIRED INPUT-FILES BY SCP OR BY SENDING THEM WITH THE JOB AS HERE-DOCUMENT
3897	# PUT THESE FILES INTO THE USER'S RESPECTIVE PERMANENT DIRECTORIES ON THE REMOTE-HOST
3898	# IF THE DIRECTORIES DO NOT EXIST, TRY TO CREATE THEM
3899	if [[ $do_remote = true ]]
3900	then
3901	(( i = 0 ))
3902	while (( i < iin ))
3903	do
3904	(( i = i + 1 ))
3905	echo "[[ ! -d ${pathin[$i]} ]] && mkdir -p ${pathin[$i]}" >> $jobfile
3906	if [[ "${transin[$i]}" = job ]]
3907	then
3908	echo "cat > ${remotepathin[$i]} <<\"%END%\"" >> $jobfile
3909	eval cat ${pathin[$i]}/${frelin[$i]} >> $jobfile
3910	echo " " >> $jobfile
3911	echo "%END%" >> $jobfile
3912	else
3913	echo "batch_scp $PORTOPT -b -o -g -s -u $return_username $return_address ${remotepathin[$i]} \"${pathin[$i]}\" ${frelin[$i]}" >> $jobfile
3914	fi
3915
3916	# CHECK, IF FILE COULD BE CREATED
3917	echo "if [[ \$? = 1 ]]" >> $jobfile
3918	echo "then" >> $jobfile
3919	echo " echo \" \" " >> $jobfile
3920	echo " echo \"+++ file ${remotepathin[$i]} could not be created\" " >> $jobfile
3921	echo " echo \" please check, if directory exists on $host!\" " >> $jobfile
3922	echo " echo \"+++ MRUN will not be continued\" " >> $jobfile
3923	echo " execute_mrun=false" >> $jobfile
3924	echo "fi" >> $jobfile
3925	done
3926	fi
3927
3928	# PROVIDE NAME OF THE CURRENT WORKING-DIRECTORY ON THE LOCAL MACHINE (FROM WHERE THE JOB IS
3929	# STARTED) BY SETTING AN ENVIRONMENT-VARIABLE. THIS INFORMATION IS USED IN THE JOB BY MRUN
3930	# IN CASE THAT RESTART-RUNS HAVE TO BE GENERATED
3931	echo "LOCAL_PWD=$working_directory" >> $jobfile
3932	echo "export LOCAL_PWD" >> $jobfile
3933
3934	# PROVIDE THE PATH OF THE LOCAL MRUN-SCRIPT FOR THE SAME REASON
3935	echo "LOCAL_MRUN_PATH=$PALM_BIN" >> $jobfile
3936	echo "export LOCAL_MRUN_PATH" >> $jobfile
3937
3938	# lceddy ALSO REQUIRES TO PROVIDE PATH FOR THE PALM-SCRIPTS
3939	if [[ $host = lceddy \|\| $localhost = lceddy ]]
3940	then
3941	echo "export PALM_BIN=$PALM_BIN" \| sed -e 's:'$HOME':$HOME:' >> $jobfile
3942	echo "export PATH=\$PATH:\$PALM_BIN" >> $jobfile
3943	fi
3944
3945	# CALL MRUN WITHIN THE JOB (SETTING QUEUE IS A WORKAROUND FOR ibmkisti)
3946	# AS FINAL ACTION, REMOVE THE TEMPORARY DIRECTORY CREATED AT THE BEGINNING OF THE JOB
3947	echo "set -x" >> $jobfile
3948	echo "queue=$queue" >> $jobfile
3949	echo "[[ \$execute_mrun = true ]] && ./$mrun_com" >> $jobfile
3950	echo 'ls -al; echo `pwd`' >> $jobfile
3951	echo "cd \$HOME" >> $jobfile
3952	echo "rm -rf $TEMPDIR" >> $jobfile
3953
3954
3955
3956
3957	# START THE JOB USING SUBJOB-COMMAND
3958	if [[ $silent = false ]]
3959	then
3960	printf "\n "
3961	else
3962	printf "\n\n"
3963	fi
3964
3965	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
3966	rm -rf $jobfile
3967
3968
3969	fi # END OF REMOTE-PART

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