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source: palm/trunk/SCRIPTS/mrun @ 2309

Last change on this file since 2309 was 2303, checked in by raasch, 7 years ago
bugfix: setting default value for write_binary
Property svn:keywords set to `Id Rev`
File size: 141.4 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 2303 2017-07-04 12:26:18Z gronemeier $
29	# bugfix: setting default value for write_binary
30	#
31	# 2298 2017-06-29 09:28:18Z raasch
32	# write_binary in ENVPAR has type LOGICAL now,
33	# MPI2 coupling removed
34	#
35	# 2297 2017-06-28 14:35:57Z scharf
36	# adjustments for using lcgeohu (cirrus @ HUB)
37	# cpp_opts removed
38	#
39	# 2290 2017-06-19 11:03:06Z raasch
40	# further test output removed
41	#
42	# 2286 2017-06-15 13:31:57Z raasch
43	# test output for cycle number removed
44	#
45	# 2268 2017-06-09 10:34:09Z raasch
46	# bugfix for calculating cycle numbers for output files in r2261
47	#
48	# 2262 2017-06-08 14:52:23Z raasch
49	# bugfix for r2261
50	#
51	# 2261 2017-06-08 14:25:57Z raasch
52	# unified cycle numbers for output files are used,
53	# paths and filenames are allowed to contain arbitrary numbers of dots ".",
54	# creation of file OUTPUT_FILE_CONNECTIONS removed,
55	# archive feature completely removed from the script,
56	# nech related parts completely removed
57	#
58	# 2257 2017-06-07 14:07:05Z witha
59	# adjustments for lceddy, removed lcflow-specific code
60	#
61	# 2186 2017-03-21 05:36:31Z raasch
62	#
63	# 2185 2017-03-21 05:09:29Z raasch
64	# adjustment for lykyo*-hosts (PJM_ENVIRONMENT defines BATCH)
65	#
66	# 2148 2017-02-09 16:56:42Z scharf
67	# changed allocation of resources for lcbullhh in srun command
68	#
69	# 2141 2017-02-06 10:19:32Z gronemeier
70	# made check for existing files language independent
71	#
72	# 1944 2016-06-15 06:29:00Z raasch
73	# adjustments for using HLRN ssh-keys
74	#
75	# 1940 2016-06-14 05:15:20Z raasch $
76	# adjustments for lckiaps
77	#
78	# 1866 2016-04-15 06:50:59Z raasch
79	# adjusted for lcocean
80	#
81	# 1841 2016-04-07 19:14:06Z raasch
82	# script now running under bash
83	#
84	# 1804 2016-04-05 16:30:18Z maronga
85	# test: implementing an execute mechanism where the execute command is given in the
86	# configuration file
87	# ROPTS removed from execution commands
88	# Warnings about missing optional files or user code changed to informative messages
89	# Removed parameter file check
90	#
91	# 1755 2016-02-22 13:53:39Z maronga
92	# Minor bugfix to last commit
93	#
94	# 1753 2016-02-22 13:49:49Z maronga
95	# Bugfix: use random job number when PBS job nummer retrieval fails on lccray*
96	#
97	# 1622 2015-07-20 06:21:36Z heinze
98	# bugfix for Mistral (lcbullhh)
99	#
100	# 1621 2015-07-17 11:39:33Z heinze
101	# adjustments for Mistral at DKRZ Hamburg (lcbullhh)
102	#
103	# 1609 2015-07-03 15:37:58Z maronga
104	# Modified the random number of the temporary working directory to match the
105	# queuing system number on HLRN-III (lccray*).
106	#
107	# 1604 2015-06-23 15:48:03Z suehring
108	# Enable coupled runs for lcmuk
109	#
110	# 1598 2015-05-29 06:45:40Z raasch
111	# bugfix for creating hostfile and total number of MPI tasks if run in openmp-mode on one node
112	#
113	# 1549 2015-01-30 14:26:16Z suehring
114	# Enable interactive debug sessions with allinea debugger
115	#
116	# 1547 2015-01-29 15:09:12Z witha
117	# adjustments for ForWind computing cluster (lcflow)
118	#
119	# 1491 2014-11-12 08:12:57Z heinze
120	# correct setting of batch_job allowed for ibm-machines
121	#
122	# 1468 2014-09-24 14:06:57Z maronga
123	# Typo removed (addres->address)
124	# Bugfix: returning files to IMUK via ssh did not work for lccrayh and lcycrayb
125	# Added support for restart runs (remote) for lcxe6
126	#
127	# 1442 2014-07-28 07:09:10Z raasch
128	# default queues for HLRN-III (lccrayb/lccrayh) defined
129	#
130	# 1422 2014-07-02 10:01:25Z kanani
131	# automatic restarts enabled for lccrayb,
132	# adjustment of path to compilervars.sh at IMUK (see automatic restarts)
133	#
134	# 1420 2014-06-10 06:24:14Z raasch
135	# -j1 option added to aprung command for lccrayf (CSC)
136	#
137	# 1402 2014-05-09 14:25:13Z raasch
138	# batch_job added to envpar-NAMELIST
139	#
140	# 1357 2014-04-11 15:02:03Z witha
141	# adjustments for lccrayh (automatic restarts on lccrayh outside of IMUK are now
142	# possible)
143	#
144	# 1320 2014-03-20 08:40:49Z raasch
145	# check namelist file set false by default
146	#
147	# 1304 2014-03-12 10:29:42Z raasch
148	# ulimit option changed from -Ss to -s
149	#
150	# bugfix: missing "fi" in r1289
151	#
152	# 1289 2014-03-04 07:12:34Z raasch
153	# comments translated to English
154	# necriam-, fimm-, ibmy-, and sgi-specific code removed
155	# export of variables for palm and interpret_config removed
156	#
157	# 1281 2014-02-01 07:55:49Z raasch
158	# rsync-copy restricted to Cray machines, since command is unavailable on some
159	# other systems
160	#
161	# 1279 2014-01-28 12:10:14Z raasch
162	# tasks_per_node must not be an integral divisor of numprocs any more. This was done
163	# in order to remove annoying restrictions concerning the number of processors which
164	# appear on machines with larger nodes (e.g. containing 24 cores). Now without this
165	# restriction, one of the nodes will be filled with less than the given number of
166	# tasks per node. A respective warning is given.
167	#
168	# 1274 2014-01-09 13:14:54Z heinze
169	# adjustments for lccrayh
170	#
171	# 1272 2014-01-08 10:19:32Z witha
172	# small adjustment for lcflow
173	#
174	# 1270 2013-12-16 11:05:01Z fricke
175	# call of combine_plot_fields adjusted for lccrayb/lccrayh
176	#
177	# 1255 2013-11-07 14:43:35Z raasch
178	# further adjustments for lccrayb remote access
179	#
180	# 1241 2013-10-30 11:36:58Z heinze
181	# Enable use of nudging input and input of large scale forcing from
182	# external files
183	#
184	# 1229 2013-09-20 06:55:19Z raasch
185	# further adjustments for lccrayb
186	#
187	# 1224 2013-09-16 07:27:23Z raasch
188	# first adjustments for lccrayb
189	#
190	# 1210 2013-08-14 10:58:20Z raasch
191	# fftw support added
192	#
193	# 1201 2013-07-10 16:17:59Z witha
194	# adjustments for Forwind cluster (lcflow)
195	#
196	# 1199 2013-07-05 14:52:22Z raasch
197	# adjustments for CSC Helsinki (lccrayf),
198	# executables for batch jobs can be created in advance, in order to avoid calling
199	# the compiler within the batch job (only works if batch jobs are submitted on
200	# local host)
201	#
202	# 1190 2013-06-25 09:39:21Z heinze
203	# enable use of automatic restarts for ibmh
204	# use of cluster/express queue enabled (ibmh)
205	#
206	# 1124 2013-04-09 15:46:52Z raasch
207	# variable "memory" is exported via typeset option -x, because otherwise an unknown
208	# side effect may lead to data loss while getopts is reading the script-option arguments
209	#
210	# 1122 2013-04-09 08:37:16Z heinze
211	# Bugfix: change type of variable last_char
212	#
213	# 1119 2013-04-05 15:11:19Z raasch
214	# Bugfix for setting -T option for subjob
215	#
216	# 1108 2013-03-05 07:03:32Z raasch
217	# bugfix for coupled runs on lckyut/lckyuh
218	#
219	# 1106 2013-03-04 05:31:38Z raasch
220	# --stdin argument for mpiexec on lckyuh
221	# -y and -Y settings output to header
222	#
223	# 1103 2013-02-20 02:15:53Z raasch
224	# default script runs again under ksh, because of unsolved problems with read
225	# from stdin: when bash script is called from a ksh, message "read error: 0:
226	# Resource temporarily unavailable" appears and script does not stop,
227	# further bash compatibility adjustments,
228	# shebang line replaced by /bin/bash when running jobs on lckyuh; no restarts
229	# on lckyuh, but mrun does not terminate and issues a warning instead
230	#
231	# 1101 2013-02-17 10:20:21Z raasch
232	# script now running under bash instead of ksh, which required small adjustments
233	# (output formatting with printf instead "typeset -L/-R", print replaced by echo,
234	# read from stdin),
235	# cross compilername on lckyuh compute nodes replaced by real compiler name
236	#
237	# 1099 2013-02-10 01:47:43Z raasch
238	# adjustments for Kyushu-University computing center (lckyuh - hayaka)
239	# and for Forwind cluster (lcflow)
240	# small further adjustments for lckyut
241	#
242	# 1094 2013-02-03 01:52:12Z raasch
243	# explicit ssh/scp port can be set in config file with environment variable
244	# scp_port. This port is handled to all ssh/scp/batch_scp calls.
245	# decalpha parts (yonsei) removed
246	#
247	# 2013-02-02 07:06:13Z raasch
248	# adjustments for Kyushu-University computing center (lckyut - tatara)
249	#
250	# 1083 2013-01-04 10:22:09Z maronga
251	# bugfix in parameter file check (read %cpp_options was missing)
252	#
253	# 1069 2012-11-28 16:18:43Z maronga
254	# bugfix: coupling mode was always set to mpi2, typos removed
255	#
256	# 1058 2012-11-21 07:00:35Z raasch
257	# Intel inspector (inspxe) is given the number of PEs instead of the number of
258	# nodes
259	#
260	# 1046 2012-11-09 14:38:45Z maronga
261	# code put under GPL (PALM 3.9)
262	#
263	# 21/03/94 - Siggi - first version finished
264	# 03/03/94 - Siggi - script development started
265	#
266	#--------------------------------------------------------------------------------#
267	# mrun - script for running PALM jobs
268	#--------------------------------------------------------------------------------#
269
270
271
272	# DECLARATION OF VARIABLES AND THEIR DEFUALT VALUES
273
274	set +o allexport # SUPPRESS EXPORT OF ALL VARIABLES, SINCE IN THE PAST THIS
275	# LES TO PROBLEMS IN ROUTINES CALLED BY MRUN
276	# (TOO MANY ARGUMENTS - PROBLEM)
277	set +o noclobber # EXISTING FILES ARE ALLOWED TO BE OVERWRITTEN
278
279	AddFilenames=""
280	additional_conditions=""
281	add_source_path=""
282	afname=""
283	check_namelist_files=false
284	combine_plot_fields=true
285	compiler_name=""
286	cond1=""
287	cond2=""
288	config_file=.mrun.config
289	coupled_dist=""
290	cpp_options=""
291	cpumax=0
292	cpurest=0
293	create_executable_for_batch=false
294	delete_temporary_catalog=true
295	do_batch=false
296	do_compile=true
297	do_remote=false
298	do_stagein=true
299	do_stageout=true
300	do_trace=false
301	email_notification="none"
302	exclude=""
303	executable=""
304	execute_command="none"
305	execution_error=false
306	fftw_inc=""
307	fftw_lib=""
308	fftw_support=false
309	fname=test
310	fromhost=""
311	global_revision=""
312	group_number=none
313	host=""
314	host_file=""
315	hp=""
316	input_list=""
317	interpreted_config_file=""
318	job_catalog="~/job_queue"
319	job_on_file=""
320	keep_data_from_previous_run=false
321	link_local_input=false
322	link_local_output=false
323	localhost_realname=$(hostname)
324	local_dvrserver_running=.FALSE.
325	locat=normal
326	mainprog=""
327	makefile=""
328	max_par_io_str=""
329	mc=$0
330	while [[ $(echo $mc \| grep -c "/") != 0 ]]
331	do
332	mc=`echo $mc \| cut -f2- -d"/"`
333	done
334	module_calls=""
335	mrun_script_name=$mc
336	netcdf_inc=""
337	netcdf_lib=""
338	netcdf_support=false
339	node_usage=default
340	numprocs=""
341	numprocs_atmos=0
342	numprocs_ocean=0
343	OOPT=""
344	openmp=false
345	output_list=""
346	package_list=""
347	queue=none
348	read_from_config=""
349	restart_run=false
350	if [[ `hostname` = rte10 ]]
351	then
352	return_address=133.5.185.60
353	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
354	elif [[ `hostname` = climate0 ]]
355	then
356	return_address=165.132.26.68
357	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
358	elif [[ `hostname` = "schultzl-Latitude-E6540" ]]
359	then
360	return_address="schultzl-Latitude-E6540"
361	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
362	elif [[ `hostname` = urban00 ]]
363	then
364	return_address=147.46.30.151
365	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
366	else
367	return_address=$(nslookup `hostname` 2>&1 \| grep "Address:" \| tail -1 \| awk '{print $2}')
368	fi
369	return_password=""
370	return_username=$LOGNAME
371	remotecall=false
372	remote_username=""
373	run_coupled_model=false
374	run_mode=""
375	dashes=" ----------------------------------------------------------------------------"
376	silent=false
377	source_list=""
378	source_path=SOURCE
379	tasks_per_node=""
380	threads_per_task=1
381	tmpcreate=false
382	tmp_data_catalog=""
383	transfer_problems=false
384	usern=$LOGNAME
385	use_openmp=false
386	version="MRUN 2.1 Rev$Rev: 2303 $"
387	working_directory=`pwd`
388	write_binary=false
389	TOPT=""
390	XOPT=""
391	zeit=$( date \| cut -c 12-19 )
392
393	typeset -i iec=0 iic=0 iin=0 ioc=0 iout=0 stagein_anz=0 stageout_anz=0
394	typeset -x -i memory=0 # HAS TO BE EXPORTED HERE, OTHERWISE AN UNKNOWN SIDE
395	# SIDE EFFECT MAY CAUSE DATA LOSS WHEN GETOPTS IS READING THE
396	# SCRIPT-OPTION ARGUMENTS
397	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
398
399	# ERROR HANDLING IN CASE OF EXIT
400	trap 'rm -rf $working_directory/tmp_mrun
401	if [[ $locat != normal && $locat != control_c ]]
402	then
403
404	# CARRY OUT ERROR-COMMANDS GIVEN IN THE CONFIGURATION FILE (EC:)
405	(( i = 0 ))
406	while (( i < iec ))
407	do
408	(( i = i + 1 ))
409	printf "\n *** Execution of ERROR-command:\n"
410	printf " >>> ${err_command[$i]}\n"
411	eval ${err_command[$i]}
412	done
413	if [[ -n $interpreted_config_file ]]
414	then
415	rm -rf $interpreted_config_file
416	fi
417	if [[ -n .mrun_environment ]]
418	then
419	rm -rf .mrun_environment
420	fi
421	if [[ $tmpcreate = true ]]
422	then
423	# printf "\n *** Contents of \"$TEMPDIR\":\n"
424	# ls -al; cd
425	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
426	fi
427	if [[ "$dvrserver_id" != "" ]]
428	then
429	echo "+++ killing dvrserver_id=$dvrserver_id"
430	kill $dvrserver_id
431	fi
432	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
433	then
434	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
435	fi
436	printf "\n\n+++ MRUN killed \n\n"
437	elif [[ $locat != control_c ]]
438	then
439	printf "\n\n --> all actions finished\n\n"
440	printf " Bye, bye $usern !!\n\n"
441	fi' exit
442
443
444	# ACTIONS IN CASE OF TERMINAL-BREAK (CONTROL-C):
445	trap 'rm -rf $working_directory/tmp_mrun
446	rm -rf $working_directory/tmp_check_namelist_files
447	[[ $tmpcreate = true ]] && (cd; rm -rf $TEMPDIR)
448	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
449	then
450	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
451	fi
452	if [[ "$dvrserver_id" != "" ]]
453	then
454	echo "+++ killing dvrserver_id=$dvrserver_id"
455	kill $dvrserver_id
456	fi
457	printf "\n+++ MRUN killed by \"^C\" \n\n"
458	locat=control_c
459	exit
460	' 2
461
462
463	# CHECK IF THE PATH FOR THE PALM BINARIES (SCRIPTS+UTILITY-PROGRAMS) HAS
464	# BEEN SET
465	if [[ "$PALM_BIN" = "" ]]
466	then
467	printf "\n +++ environment variable PALM_BIN has not been set"
468	printf "\n please set it to the directory where the PALM scripts are located"
469	locat=palm_bin; exit
470	fi
471	export PATH=$PALM_BIN:$PATH
472
473
474
475	# READ SHELLSCRIPT-OPTIONS AND REBUILD THE MRUN-COMMAND STRING (MC),
476	# WHICH WILL BE USED TO START RESTART-JOBS
477	while getopts :a:bBc:Cd: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
478	do
479	case $option in
480	(a) afname=$OPTARG;;
481	(b) do_batch=true; mc="$mc -b";;
482	(B) delete_temporary_catalog=false; mc="$mc -B";;
483	(c) config_file=$OPTARG; mc="$mc -c$OPTARG";;
484	(C) restart_run=true; mc="$mc -C";;
485	(d) fname=$OPTARG; mc="$mc -d$OPTARG";;
486	(F) job_on_file="-D"; mc="$mc -F";;
487	(g) group_number=$OPTARG; mc="$mc -g$OPTARG";;
488	(G) global_revision=$OPTARG; mc="$mc -G'$OPTARG'";;
489	(h) host=$OPTARG; mc="$mc -h$OPTARG";;
490	(H) fromhost=$OPTARG; mc="$mc -H$OPTARG";;
491	(i) input_list=$OPTARG; mc="$mc -i'$OPTARG'";;
492	(k) keep_data_from_previous_run=true; mc="$mc -k";;
493	(K) additional_conditions="$OPTARG"; mc="$mc -K'$OPTARG'";;
494	(m) memory=$OPTARG; mc="$mc -m$OPTARG";;
495	(M) makefile=$OPTARG; mc="$mc -M$OPTARG";;
496	(n) node_usage=$OPTARG; mc="$mc -n$OPTARG";;
497	(o) output_list=$OPTARG; mc="$mc -o'$OPTARG'";;
498	(O) use_openmp=true; threads_per_task=$OPTARG; mc="$mc -O$OPTARG";;
499	(p) package_list=$OPTARG; mc="$mc -p'$OPTARG'";;
500	(P) return_password=$OPTARG; mc="$mc -P$OPTARG";;
501	(q) queue=$OPTARG; mc="$mc -q$OPTARG";;
502	(r) run_mode=$OPTARG; mc="$mc -r'$OPTARG'";;
503	(R) remotecall=true;return_address=$OPTARG; mc="$mc -R$OPTARG";;
504	(s) source_list=$OPTARG; mc="$mc -s'$OPTARG'";;
505	(S) read_from_config=false; mc="$mc -S";;
506	(t) cpumax=$OPTARG; mc="$mc -t$OPTARG";;
507	(T) mrun_tasks_per_node=$OPTARG; mc="$mc -T$OPTARG";;
508	(u) remote_username=$OPTARG; mc="$mc -u$OPTARG";;
509	(U) return_username=$OPTARG; mc="$mc -U$OPTARG";;
510	(v) silent=true; mc="$mc -v";;
511	(w) max_par_io_str=$OPTARG; mc="$mc -w$OPTARG";;
512	(x) do_trace=true;set -x; mc="$mc -x";;
513	(X) numprocs=$OPTARG; mc="$mc -X$OPTARG";;
514	(y) ocean_file_appendix=true; mc="$mc -y";;
515	(Y) run_coupled_model=true; coupled_dist=$OPTARG; mc="$mc -Y'$OPTARG'";;
516	(z) check_namelist_files=false; mc="$mc -z";;
517	(Z) combine_plot_fields=false; mc="$mc -Z";;
518	(\?) printf "\n +++ unknown option $OPTARG \n"
519	printf "\n --> type \"$0 ?\" for available options \n"
520	locat=parameter;exit;;
521	esac
522	done
523
524
525	# SKIP GIVEN OPTIONS TO READ POSITIONAL PARAMETER, IF GIVEN
526	# CURRENTLY ONLY PARAMETER ? (TO OUTPUT A SHORT COMMAND INFO) IS ALLOWED
527	(( to_shift = $OPTIND - 1 ))
528	shift $to_shift
529
530	# PRINT SHORT DESCRIPTION OF MRUN OPTIONS
531	if [[ "$1" = "?" ]]
532	then
533	(printf "\n *** mrun can be called as follows:\n"
534	printf "\n $mrun_script_name -b -c.. -d.. -f.. -F -h.. -i.. -I -K.. -m.. -o.. -p.. -r.. -R -s.. -t.. -T.. -v -x -X.. -y -Y.. -Z <modus> \n"
535	printf "\n Description of available options:\n"
536	printf "\n Option Description Default-Value"
537	printf "\n -a base name of input files equiv. -d"
538	printf "\n -b batch-job on local machine ---"
539	printf "\n -B do not delete temporary directory at end ---"
540	printf "\n -c configuration file .mrun.config"
541	printf "\n -d base name of files attached to program test"
542	printf "\n -F create remote job file only ---"
543	printf "\n -h execution host $localhost_realname"
544	printf "\n -i INPUT control list \"\" "
545	printf "\n -k keep data from previous run"
546	printf "\n -K additional conditions for controling"
547	printf "\n usage of conditional code and"
548	printf "\n env-variables in configuration file \"\" "
549	printf "\n -m memory demand in MB (batch-jobs) 0 MB"
550	printf "\n -M Makefile name Makefile"
551	printf "\n -n node usage (shared/not_shared) depending on -h"
552	printf "\n -o OUTPUT control list \"\" "
553	printf "\n -O threads per openMP task ---"
554	printf "\n -p software package list \"\" "
555	printf "\n -q queue \"$queue\" "
556	printf "\n -r run control list (combines -i -o) \"\" "
557	printf "\n -s filenames of routines to be compiled \"\" "
558	printf "\n must end with .f, .f90, .F, or .c !"
559	printf "\n use \"..\" for more than one file and wildcards"
560	printf "\n -s LM compiles all locally modified files"
561	printf "\n -S config file interpreted by shellscript ---"
562	printf "\n -t allowed cpu-time in seconds (batch) 0"
563	printf "\n -T tasks per node depending on -h"
564	printf "\n -u username on remote machine \"\" "
565	printf "\n -v no prompt for confirmation ---"
566	printf "\n -w maximum parallel io streams as given by -X"
567	printf "\n -x tracing of mrun for debug purposes ---"
568	printf "\n -X # of processors (on parallel machines) 1"
569	printf "\n -y add appendix \"_O\" to all local output"
570	printf "\n files (ocean precursor runs followed by"
571	printf "\n coupled atmosphere-ocean runs) ---"
572	printf "\n -Y run coupled model, \"#1 #2\" with"
573	printf "\n #1 atmosphere and #2 ocean processors \"#/2 #/2\" depending on -X"
574	printf "\n -Z skip combine_plot_fields at the end of "
575	printf "\n the simulation ---"
576	printf "\n "
577	printf "\n Possible values of positional parameter <modus>:"
578	printf "\n \"?\" - this outline \n\n") \| more
579	exit
580	elif [[ "$1" != "" ]]
581	then
582	printf "\n +++ positional parameter $1 unknown \n"
583	locat=parameter; exit
584	fi
585
586
587
588	# SHORT STARTING MESSAGE
589	printf "\n*** $version "
590	printf "\n will be executed. Please wait ..."
591
592
593
594	# CHECK, IF CONFIGURATION FILE EXISTS
595	if [[ ! -f $config_file ]]
596	then
597	printf "\n\n +++ configuration file: "
598	printf "\n $config_file"
599	printf "\n does not exist"
600	locat=connect; exit
601	fi
602
603
604	# DETERMINE THE HOST-IDENTIFIER (localhost) FROM THE CONFIGURATION FILE
605	line=""
606	grep "%host_identifier" $config_file > tmp_mrun
607	while read line
608	do
609	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
610	then
611	HOSTNAME=`echo $line \| cut -d" " -s -f2`
612	host_identifier=`echo $line \| cut -d" " -s -f3`
613	if [[ $localhost_realname = $HOSTNAME ]]
614	then
615	localhost=$host_identifier
616	break
617	fi
618	fi
619	done < tmp_mrun
620
621	if [[ "$localhost" = "" ]]
622	then
623	printf "\n\n +++ no host identifier found in configuration file \"$config_file\""
624	printf "\n for local host \"$localhost_realname\"."
625	printf "\n Please add line"
626	printf "\n \"\%host_identifier $localhost_realname <identifier>\""
627	printf "\n to the configuration file."
628	locat=localhost; exit
629	fi
630
631
632	# ??? THIS SHOULD BE DECRIBED IN THE MRUN DOCUMENTATION ???
633	# SET BASENAME OF THE INPUT-FILES TO THE GENERAL BASENAME (GIVEN BY OPTION -d),
634	# IF IT HAS NOT BEEN SET BY THE USER DIFFERENTLY (USING OPTION -a)
635	[[ "$afname" = "" ]] && afname=$fname
636
637
638	# ADD RUN-FILE ACTIVATION STRINGS (GIVEN BY OPTION -r) TO THE
639	# RESPECTIVE LISTS FOR ACTIVATING THE INPUT/OUTPUT FILE CONNECTION
640	# STATEMENTS IN THE CONFIGURATION FILE
641	if [[ "$run_mode" != "" ]]
642	then
643	input_list="$input_list $run_mode"
644	output_list="$output_list $run_mode"
645	fi
646
647
648	# ??? is this (and the respective option -H) really required ???
649	# STORE HOSTNAME, FROM WHICH THE JOB IS STARTED,
650	# BUT ONLY IF IT HASN'T BEEN ALREADY SET BY OPTION -H
651	# (MRUN IS AUTOMATICALLY SETTING THIS OPTION IN THE MRUN-CALLS WITHIN
652	# THOSE BATCH-JOBS, WHICH ARE CREATED BY MRUN ITSELF)
653	if [[ "$fromhost" = "" ]]
654	then
655	fromhost=$localhost
656	fi
657
658
659	# CHECK, IF EXECUTION SHALL TO BE DONE ON THE REMOTE-MACHINE.
660	# VALUE OF do_remote IS IMPORTANT FOR THE FILE CONNECTIONS.
661	# IN CASE OF EXECUTION ON A REMOTE-MACHINE, A BATCH-JOB HAS
662	# TO BE SUBMITTED (I.E. do_batch=true)
663	if [[ -n $host && "$host" != $localhost ]]
664	then
665	do_batch=true
666	do_remote=true
667	case $host in
668	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lceddy\|lckyoto\|lcocean\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb\|lcgeohu) true;;
669	(*) printf "\n"
670	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
671	printf "\n is not available"
672	locat=nqs; (( iec = 0 )); exit;;
673	esac
674	else
675	host=$localhost
676	fi
677
678
679	# EVALUATE ADDITIONAL CONDITIONS GIVEN BY OPTION -K
680	if [[ -n $additional_conditions ]]
681	then
682	cond1=`echo $additional_conditions \| cut -d" " -f1`
683	cond2=`echo $additional_conditions \| cut -d" " -s -f2`
684	dummy=`echo $additional_conditions \| cut -d" " -s -f3`
685	if [[ -n $dummy ]]
686	then
687	printf "\n +++ more than 2 additional conditions given for Option \"-K\""
688	locat=options; exit
689	fi
690	block=_$cond1
691	[[ -n $cond2 ]] && block=${block}_$cond2
692	fi
693
694
695	# EVALUATE MODEL COUPLING FEATURES (OPTION -Y)
696	if [[ $run_coupled_model = true ]]
697	then
698
699	numprocs_atmos=`echo $coupled_dist \| cut -d" " -s -f1`
700	numprocs_ocean=`echo $coupled_dist \| cut -d" " -s -f2`
701
702	if (( $numprocs_ocean + $numprocs_atmos != $numprocs ))
703	then
704
705	printf "\n +++ number of processors does not fit to specification by \"-Y\"."
706	printf "\n PEs (total) : $numprocs"
707	printf "\n PEs (atmosphere): $numprocs_atmos"
708	printf "\n PEs (ocean) : $numprocs_ocean"
709	locat=coupling; exit
710
711	fi
712
713	fi
714
715	# SAVE VALUES OF MRUN-OPTIONS SICHERN IN ORDER TO OVERWRITE
716	# THOSE VALUES GIVEN IN THE CONFIGURATION-FILE
717	mrun_memory=$memory
718	mrun_group_number=$group_number
719	mrun_cpumax=$cpumax
720	mrun_numprocs=$numprocs
721
722
723	# READ AND EVALUATE THE CONFIGURATION-FILE FROM WITHIN THIS SHELLSCRIPT
724	# (OPTION -S). THE DEFAULT IS USING THE ROUTINE <<<<
725	if [[ "$read_from_config" = false ]]
726	then
727	[[ $silent = false ]] && printf "\n Reading the configuration file... "
728
729	# READ THE CONFIGURATION FILE LINE BY LINE
730	while read zeile
731	do
732	[[ $silent = false ]] && printf "."
733
734
735	# FIRST REPLACE ENVIRONMENT-VARIABLES BY THEIR RESPECTIVE VALUES
736	eval zeile=\"$zeile\"
737
738
739	# INTERPRET THE LINE
740	if [[ "$(echo $zeile)" = "" ]]
741	then
742	# EMPTY LINE, NO ACTION
743	continue
744
745	elif [[ "$(echo $zeile \| cut -c1)" = "#" ]]
746	then
747
748	# LINE IS A COMMENT LINE
749	true
750
751	elif [[ "$(echo $zeile \| cut -c1)" = "%" ]]
752	then
753
754	# LINE DEFINES AN ENVIRONMENT-VARIABLE
755	zeile=$(echo $zeile \| cut -c2-)
756	var=`echo $zeile \| cut -d" " -f1`
757	value=`echo $zeile \| cut -d" " -s -f2`
758	for_host=`echo $zeile \| cut -d" " -s -f3`
759	for_cond1=`echo $zeile \| cut -d" " -s -f4`
760	for_cond2=`echo $zeile \| cut -d" " -s -f5`
761
762	if [[ "$for_host" = "" \|\| ( "$for_host" = $host && "$for_cond1" = "$cond1" && "$for_cond2" = "$cond2" ) \|\| $(echo "$input_list$output_list"\|grep -c "$for_host") != 0 ]]
763	then
764
765	# REPLACE ":" BY " " IN COMPILER- CPP- OR LINKER-OPTIONS,
766	# "::" IS REPLACED BY ":".
767	value=`echo $value \| sed 's/::/%DUM%/g' \| sed 's/:/ /g' \| sed 's/%DUM%/:/g'`
768
769
770	# VALUE FROM THE CONFIGURATION-FILE IS ASSIGNED TO THE
771	# ENVIRONMENT-VARIABLE, BUT ONLY IF NO VALUE HAS BEEN ALREADY
772	# ASSIGNED WITHIN THIS SCRIPT (E.G. BY SCRIPT-OPTIONS).
773	# NON-ASSIGNED VARIABLES HAVE VALUE "" OR 0 (IN CASE OF INTEGER).
774	# HENCE THE GENERAL RULE IS: SCRIPT-OPTION OVERWRITES THE
775	# CONFIGURATION-FILE.
776	if [[ "$(eval echo \$$var)" = "" \|\| "$(eval echo \$$var)" = "0" ]]
777	then
778	eval $var=\$value
779
780	# TERMINAL OUTPUT OF ENVIRONMENT-VARIABLES, IF TRACEBACK IS SWITCHED on
781	if [[ $do_trace = true ]]
782	then
783	printf "\n*** ENVIRONMENT-VARIABLE $var = $value"
784	fi
785	fi
786
787	# IF AN ENVIRONMENT-VARIABLE DETERMINES THE HOST, THEN EVALUATE IT IMMEDIATELY:
788	# VALUE OF do-remote IS REQUIRED FOR THE FILE CONNECTIONS (COPY OF I/O FILES).
789	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MASCHINE, A BATCH-JOB
790	# MUST HAVE TO BE STARTED
791	if [[ $var = host ]]
792	then
793	if [[ -n $host && "$host" != $localhost ]]
794	then
795	do_batch=true
796	do_remote=true
797	case $host in
798	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lceddy\|lckyoto\|lcocean\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb\|lcgeohu) true;;
799	(*) printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
800	printf "\n is not available"
801	locat=nqs; exit;;
802	esac
803	else
804	host=$localhost
805	fi
806	fi
807
808	# USER-DEFINED ENVIRONMENT VARIABLES MUST BE EXPORTED,
809	# BECAUSE THEY MAY BE REQUIRED IN OTHER SCRIPTS CALLED
810	# BY MRUN (E.G. subjob)
811	export $var
812	fi
813
814
815
816
817	elif [[ "$(echo $zeile \| cut -c1-3)" = "EC:" ]]
818	then
819
820	# LINE DEFINES ERROR-COMMAND
821	(( iec = iec + 1 ))
822	zeile=$(echo $zeile \| cut -c4-)
823	err_command[$iec]="$zeile"
824
825	elif [[ "$(echo $zeile \| cut -c1-3)" = "IC:" ]]
826	then
827
828	# LINE DEFINES INPUT-COMMAND
829	(( iic = iic + 1 ))
830	zeile=$(echo $zeile \| cut -c4-)
831	in_command[$iic]="$zeile"
832
833	elif [[ "$(echo $zeile \| cut -c1-3)" = "OC:" ]]
834	then
835
836	# LINE DEFINES OUTPUT-COMMAND
837	(( ioc = ioc + 1 ))
838	zeile=$(echo $zeile \| cut -c4-)
839	out_command[$ioc]="$zeile"
840
841	else
842
843	# LINE DEFINES FILE CONNECTION. READ THE FILE ATTRIBUTES.
844	# s2a: in/out - field
845	# s2b: loc - field (optional)
846	# s2c: tr/ar - field (optional)
847	s1=`echo $zeile \| cut -d" " -f1`
848	s2=`echo $zeile \| cut -d" " -s -f2`
849	s2a=$(echo $s2 \| cut -d":" -f1)
850	if [[ $(echo $s2 \| grep -c ":") = 0 ]]
851	then
852	s2b=""
853	s2c=""
854	else
855	s2b=`echo $s2 \| cut -d":" -f2 \| sed 's/:/ /g'`
856	s2c=`echo $s2 \| cut -d":" -s -f3 \| sed 's/:/ /g'`
857	fi
858	s3=`echo $zeile \| cut -d" " -f3`
859	s4=`echo $zeile \| cut -d" " -s -f4`
860	s5=`echo $zeile \| cut -d" " -s -f5`
861	s6=`echo $zeile \| cut -d" " -s -f6`
862
863
864	# STORE FILE CONNECTION, IF ACTIVATED BY ACTIVATION-STRING FROM
865	# INPUT- OR OUTPUT-LIST.
866	# VARIABLE S3 MAY CONTAIN A LIST OF ACTIVATION STRINGS (FIELD-SEPERATOR ":").
867	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MACHINE AND THE FILE IS ONLY
868	# LOCALLY REQUIRED ON THAT MACHINE (I.E. s2b = loc), THE FILE CONNECTION
869	# IS NOT CHECKED AND STORED.
870	IFSALT="$IFS"; IFS="$IFS:"
871	if [[ "$s2a" = in && ! ( $do_remote = true && ( "$s2b" = loc \|\| "$s2b" = locopt ) ) ]]
872	then
873	found=false
874	for actual in $input_list
875	do
876	for formal in $s3
877	do
878	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
879	done
880	done
881	if [[ $found = true ]]
882	then
883	(( iin = iin + 1 ))
884	localin[$iin]=$s1; transin[$iin]=$s2b; actionin[$iin]=$s2c;
885	typein[$iin]=$s3; pathin[$iin]=$s4; endin[$iin]=$s5;
886	extin[$iin]=$s6
887	fi
888	elif [[ "$s2a" = out && ! ( $do_remote = true && "$s2b" = loc ) ]]
889	then
890	found=false
891	for actual in $output_list
892	do
893	for formal in $s3
894	do
895	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
896	done
897	done
898	if [[ $found = true ]]
899	then
900	(( iout = iout + 1 ))
901	localout[$iout]=$s1; actionout[$iout]=$s2c; typeout[$iout]=$s3;
902	pathout[$iout]=$s4; endout[$iout]=$s5; extout[$iout]=$s6
903	fi
904	elif [[ "$s2a" != in && "$s2a" != out ]]
905	then
906	printf "\n +++ I/O-attribute in configuration file $config_file has the invalid"
907	printf "\n value \"$s2\". Only \"in\" and \"out\" are allowed!"
908	locat=connect; exit
909	fi
910	IFS="$IFSALT"
911	fi
912	done < $config_file
913
914	else
915
916	# EVALUATE THE CONFIGURATION-FILE BY FORTRAN-PROGRAM
917	[[ $silent = false ]] && printf "..."
918	interpreted_config_file=.icf.$RANDOM
919
920
921
922	# PROVIDE VALUES OF ENVIRONMENT-VARIABLE FOR interpret_config VIA NAMELIST-FILE
923	cat > .mrun_environment << EOF
924	&mrun_environment cond1 = '$cond1', cond2 = '$cond2',
925	config_file = '$config_file', do_remote = '$do_remote',
926	do_trace = '$do_trace', host = '$host',
927	input_list = '$input_list', icf = '$interpreted_config_file',
928	localhost = '$localhost', output_list = '$output_list' /
929
930	EOF
931
932	if [[ "$host" != $localhost ]]
933	then
934
935	# REMOTE JOB FROM LOCAL HOST: JUST TAKE THE FIRST EXECUTABLE FOUND
936	interpret_config_executable=`ls -1 ${PALM_BIN}/interpret_config*.x 2>/dev/null`
937	if [[ $? != 0 ]]
938	then
939	printf "\n\n +++ no interpret_config found"
940	printf "\n run \"mbuild -u -h ...\" to generate utilities for this host"
941	locat=interpret_config; exit
942	fi
943	interpret_config_executable=`echo $interpret_config_executable \| cut -d" " -f1`
944	$interpret_config_executable
945
946	else
947
948	# CHECK, IF THERE IS AN EXECUTABLE FOR THE BLOCK
949	if [[ ! -f ${PALM_BIN}/interpret_config${block}.x ]]
950	then
951	printf "\n\n +++ no interpret_config found for given block \"$cond1 $cond2\""
952	printf "\n run \"mbuild -u -h ...\" to generate utilities for this block"
953	locat=interpret_config; exit
954	else
955	interpret_config${block}.x
956	fi
957
958	fi
959	rm .mrun_environment
960
961
962	# EXECUTE SHELL-COMMANDS GENERATED BY interpret_config WITHIN THIS SHELL
963	chmod u+x $interpreted_config_file
964	export PATH=$PATH:.
965	. $interpreted_config_file
966	rm $interpreted_config_file
967
968	fi
969
970
971	# VALUES OF MRUN-OPTIONS OVERWRITE THOSE FROM THE CONFIGURATION-FILE
972	[[ $mrun_memory != 0 ]] && memory=$mrun_memory
973	[[ "$mrun_group_number" != "none" ]] && group_number=$mrun_group_number
974	[[ $mrun_cpumax != 0 ]] && cpumax=$mrun_cpumax
975	[[ "$mrun_numprocs" != "" ]] && numprocs=$mrun_numprocs
976	[[ "$max_par_io_str" != "" ]] && maximum_parallel_io_streams=$max_par_io_str
977	[[ "$mrun_tasks_per_node" != "" ]] && tasks_per_node=$mrun_tasks_per_node
978
979
980	# ON THE LOCAL MACHINE, DETERMINE (FROM THE CONFIGURATION-FILE) THE PATH
981	# FOR SOURCE-FILES TO BE COMPILED.
982	# IN A BATCH-JOB, SOURCES (ROUTINES TO BE COMPILED) ARE COMPLETE ALREADY.
983	# BEFORE MRUN IS CALLED IN THE JOB, SOURCES_COMPLETE = true IS ASSIGNED (SEE FURTHER BELOW).
984	if [[ "$SOURCES_COMPLETE" = "" ]]
985	then
986
987	# FIRST CHECK, IF A GLOBAL SOURCE PATH (TO BE USED FOR ALL HOSTS)
988	# HAS BEEN DEFINED
989	source_path=""
990	line=""
991	grep "%source_path" $config_file > tmp_mrun
992	while read line
993	do
994	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
995	then
996	if [[ "$(echo $line \| cut -d" " -f3)" = "" ]]
997	then
998	global_source_path=`echo $line \| cut -d" " -f2`
999	fi
1000	fi
1001	done < tmp_mrun
1002
1003	line=""
1004	found=false
1005	grep " $localhost" $config_file \| grep "%source_path" > tmp_mrun
1006	while read line
1007	do
1008	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
1009	then
1010	if [[ $found = true ]]
1011	then
1012	printf "\n\n +++ more than one source path found in configuration file"
1013	printf "\n for local host \"$localhost\" "
1014	locat=source_path; exit
1015	fi
1016	source_path=`echo $line \| cut -d" " -f2`
1017	found=true
1018	fi
1019	done < tmp_mrun
1020	rm tmp_mrun
1021
1022	if [[ "$source_path" = "" ]]
1023	then
1024	if [[ "$global_source_path" != "" ]]
1025	then
1026	source_path=$global_source_path
1027	else
1028	printf "\n\n +++ no source path found in configuration file"
1029	printf "\n for local host \"$localhost\" "
1030	locat=source_path; exit
1031	fi
1032	fi
1033	eval source_path=$source_path
1034
1035	if [[ ! -d $source_path ]]
1036	then
1037	printf "\n\n +++ source path \"$source_path\" on local host"
1038	printf "\n \"$localhost\" does not exist"
1039	locat=source_path; exit
1040	fi
1041
1042	fi
1043
1044
1045	# GET THE GLOBAL REVISION-NUMBER OF THE SVN-REPOSITORY
1046	# (HANDED OVER TO RESTART-RUNS USING OPTION -G)
1047	if [[ "$global_revision" = "" && $host != "ibmkisti" ]]
1048	then
1049	global_revision=`svnversion $source_path 2>/dev/null`
1050	global_revision="Rev: $global_revision"
1051	fi
1052
1053
1054	# ??? das darf doch eigentlich garnicht passieren, weil optionen config-datei uebersteuern ???
1055	# CHECK AGAIN, IF EXECUTION SHALL BE DONE ON A REMOTE-HOST (BATCH-JOB).
1056	# (HOST MAY HAVE CHANGED DUE TO SETTINGS IN THE CONFIGURATION-FILE)
1057	if [[ -n $host && "$host" != $localhost ]]
1058	then
1059	do_batch=true
1060	do_remote=true
1061	case $host in
1062	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lceddy\|lckyoto\|lcocean\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb\|lcgeohu) true;;
1063	(*) printf "\n"
1064	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
1065	printf "\n is not available"
1066	locat=nqs; (( iec = 0 )); exit;;
1067	esac
1068	else
1069	host=$localhost
1070	fi
1071
1072
1073
1074	# IN CASE OF PARALLEL EXECUTION, CHECK SOME SPECIFICATIONS CONCERNING PROCESSOR NUMBERS
1075	if [[ "$cond1" = parallel \|\| "$cond2" = parallel ]]
1076	then
1077
1078	# CHECK, IF NUMBER OF CORES TO BE USED HAS BEEN GIVEN
1079	if [[ ! -n $numprocs ]]
1080	then
1081	printf "\n"
1082	printf "\n +++ option \"-K parallel\" requires additional specification"
1083	printf "\n of the number of processors to be used by"
1084	printf "\n mrun-option \"-X\" or by environment-variable"
1085	printf "\n \"numprocs\" in the configuration file"
1086	locat=numprocs; (( iec = 0 )); exit
1087	fi
1088
1089	# CHECK, IF THE NUMBER OF CORES PER NODE HAS BEEN GIVEN UND IF IT IS AN
1090	# INTEGRAL DIVISOR OF THE TOTAL NUMBER OF CORES GIVEN BY OPTION -X
1091	if [[ "$tasks_per_node" = "" && $host != lcxt5m ]]
1092	then
1093	printf "\n"
1094	printf "\n +++ option \"-T\" (tasks per node) is missing"
1095	printf "\n set -T option or define tasks_per_node in the config file"
1096	locat=tasks_per_node; (( iec = 0 )); exit
1097	fi
1098
1099	if (( numprocs < tasks_per_node ))
1100	then
1101	printf "\n"
1102	printf "\n +++ tasks per node (-T) cannot exceed total number of processors (-X)"
1103	printf "\n given values: -T $tasks_per_node -X $numprocs"
1104	locat=tasks_per_node; (( iec = 0 )); exit
1105	fi
1106
1107	if [[ $host != lcxt5m ]]
1108	then
1109	(( nodes = numprocs / ( tasks_per_node * threads_per_task ) ))
1110	(( ival = $tasks_per_node ))
1111	(( pes = numprocs ))
1112	(( ii = pes / ival ))
1113	(( remaining_pes = pes - ii * ival ))
1114	if (( remaining_pes > 0 ))
1115	then
1116	printf "\n"
1117	printf "\n +++ WARNING: tasks per node (option \"-T\") is not an integral"
1118	printf "\n divisor of the total number of processors (option \"-X\")"
1119	printf "\n values of this mrun-call: \"-T $tasks_per_node\" \"-X $numprocs\""
1120	printf "\n One of the nodes is filled with $remaining_pes instead of $tasks_per_node tasks"
1121	(( nodes = nodes + 1 ))
1122	fi
1123	fi
1124
1125
1126	# SETTINGS FOR SUBJOB-COMMAND
1127	OOPT="-O $threads_per_task"
1128
1129	# SET THE TOTAL NUMBER OF NODES, REQUIRED FOR THE SUBJOB-COMMAND (SEE FURTHER BELOW)
1130	if [[ "$tasks_per_node" != "" ]]
1131	then
1132	TOPT="-T $tasks_per_node"
1133	fi
1134
1135	# CHECK node_usage FOR ALLOWED VALUES AND SET DEFAULT VALUE, IF NECESSARY
1136	if [[ $node_usage = default ]]
1137	then
1138	if [[ $host = ibms ]]
1139	then
1140	node_usage=shared
1141	else
1142	node_usage=not_shared
1143	fi
1144	fi
1145
1146	if [[ $node_usage != shared && $node_usage != not_shared && $node_usage != singlejob && "$(echo $node_usage \| cut -c1-3)" != "sla" ]]
1147	then
1148	printf "\n"
1149	printf "\n +++ node usage (option \"-n\") is only allowed to be set"
1150	printf "\n \"shared\" or \"not_shared\""
1151	locat=tasks_per_node; (( iec = 0 )); exit
1152	fi
1153
1154	fi
1155
1156	# CHECK IF HOSTFILE EXISTS
1157	if [[ -n $hostfile ]]
1158	then
1159	if [[ ! -f $hostfile ]]
1160	then
1161	printf "\n"
1162	printf "\n +++ hostfile \"$hostfile\" does not exist"
1163	locat=hostfile; exit
1164	fi
1165	fi
1166
1167
1168	# SET DEFAULT VALUE FOR THE MAXIMUM NUMBER OF PARALLEL IO STREAMS
1169	if [[ "$maximum_parallel_io_streams" = "" ]]
1170	then
1171	maximum_parallel_io_streams=$numprocs
1172	fi
1173
1174
1175	# SET PORT NUMBER OPTION FOR CALLS OF SSH/SCP, subjob AND batch_scp SCRIPTS
1176	if [[ "$scp_port" != "" ]]
1177	then
1178	PORTOPT="-P $scp_port"
1179	SSH_PORTOPT="-p $scp_port"
1180	fi
1181
1182
1183	# DETERMINE THE SSH-OPTION IN CASE THAT AN SSH-KEY IS EXPLICITLY GIVEN IN THE
1184	# CONFIG-FILE
1185	if [[ "$ssh_key" != "" ]]
1186	then
1187	ssh_key="-i $HOME/.ssh/$ssh_key"
1188	fi
1189
1190
1191	# SET DEFAULT-QUEUE, IF NOT GIVEN
1192	if [[ $queue = none ]]
1193	then
1194	case $host in
1195	(ibmh) queue=cluster;;
1196	(ibmkisti) queue=class.32plus;;
1197	(lcbullhh) queue=compute;;
1198	(lccrayb) queue=mpp1q;;
1199	(lccrayh) queue=mpp1q;;
1200	(lcgeohu) queue=short;;
1201	(lckiaps) queue=normal;;
1202	(lckyoto) queue=ph;;
1203	(lckyuh) queue=fx-single;;
1204	(lckyut) queue=cx-single;;
1205	(lctit) queue=S;;
1206	(unics) queue=unics;;
1207	esac
1208	fi
1209
1210
1211	# GENERATE FULL FILENAMES OF INPUT-FILES, INCLUDING THEIR PATH
1212	# CHECK, IF INPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST)
1213	(( i = 0 ))
1214	while (( i < iin ))
1215	do
1216	(( i = i + 1 ))
1217	(( maxcycle = 0 ))
1218
1219	# GENERATE PATH AND FULL FILE NAME (then-BRANCH: FIXED FULL NAME IS GIVEN, I.E. THE
1220	# FILE IDENTIFIER IS NOT PART OF THE FILENAME))
1221	if [[ "${actionin[$i]}" = di ]]
1222	then
1223	remotepathin[$i]=${pathin[$i]}/${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
1224	# HOST ONLY
1225	eval filename=${pathin[$i]}/${endin[$i]}
1226	else
1227	remotepathin[$i]=${pathin[$i]}/${afname}${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
1228	# HOST ONLY
1229	eval filename=${pathin[$i]}/${afname}${endin[$i]}
1230	fi
1231	eval pathname=${pathin[$i]}
1232
1233	# CHECK IF FILE EXISTS
1234	if ! ls $filename* 1>/dev/null 2>&1
1235	then
1236
1237	# FILES WITH ATTRIBUTE locopt ARE OPTIONAL. NO ABORT, IF THEY DO NOT EXIST.
1238	if [[ "${transin[$i]}" != "locopt" ]]
1239	then
1240	printf "\n\n +++ INPUT-file: "
1241	if [[ "${extin[$i]}" = "" \|\| "${extin[$i]}" = " " ]]
1242	then
1243	printf "\n $filename"
1244	else
1245	printf "\n $filename.${extin[$i]}"
1246	fi
1247	printf "\n does not exist\n"
1248	locat=input; exit
1249	else
1250	transin[$i]="unavailable"
1251	fi
1252	else
1253
1254	# DETERMINE THE FILE'S CYCLE NUMBER
1255	ls -1 -d $filename > filelist 2>/dev/null
1256	ls -1 -d $filename.* >> filelist 2>/dev/null
1257	while read zeile
1258	do
1259	# filename without path (i.e. after the last "/")
1260	basefilename=$(basename ${zeile})
1261
1262	# check if there is an extension
1263	extension=${basefilename##*.}
1264	if [[ "$extension" = "$extin[$i]" ]]
1265	then
1266	basefilename=${basefilename&.*}
1267	fi
1268
1269	# check for an existing cycle number
1270	cycle=${basefilename##*.}
1271	if [[ $cycle =~ ^-?[0-9]+$ ]]
1272	then
1273	(( icycle = $cycle ))
1274	else
1275	(( icycle = 0 ))
1276	fi
1277
1278	if (( icycle > maxcycle ))
1279	then
1280	(( maxcycle = icycle ))
1281	fi
1282
1283	# cycle=$(echo $zeile \| cut -f2 -d".")
1284	# if [[ "$cycle" = "$zeile" ]]
1285	# then
1286	# (( icycle = 0 ))
1287	# elif [[ "$cycle" = "${extin[$i]}" ]]
1288	# then
1289	# (( icycle = 0 ))
1290	# else
1291	# (( icycle = $cycle ))
1292	# fi
1293	# if (( icycle > maxcycle ))
1294	# then
1295	# (( maxcycle = icycle ))
1296	# fi
1297	done <filelist
1298	rm filelist
1299
1300	# APPEND CYCLE NUMBER TO FILENAME
1301	if (( maxcycle > 0 ))
1302	then
1303	if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]]
1304	then
1305	filename=${filename}.$maxcycle.${extin[$i]}
1306	else
1307	filename=${filename}.$maxcycle
1308	fi
1309	else
1310	if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]]
1311	then
1312	filename=${filename}.${extin[$i]}
1313	fi
1314	fi
1315
1316	# STORE FILENAME WITHOUT PATH BUT WITH CYCLE NUMBER,
1317	# IS LATER USED FOR TRANSFERRING FILES WIHIN THE JOB (SEE END OF FILE)
1318	absnamein[$i]=$filename
1319	if (( maxcycle > 0 ))
1320	then
1321	if [[ "${actionin[$i]}" = di ]]
1322	then
1323	frelin[$i]=${endin[$i]}.$maxcycle
1324	else
1325	frelin[$i]=${afname}${endin[$i]}.$maxcycle
1326	fi
1327	else
1328	if [[ "${actionin[$i]}" = di ]]
1329	then
1330	frelin[$i]=${endin[$i]}
1331	else
1332	frelin[$i]=${afname}${endin[$i]}
1333	fi
1334	fi
1335
1336	fi
1337	done
1338
1339	# GENERATE FULL FILENAMES OF OUTPUT-FILES (WITHOUT $ OR ~),
1340	# CHECK, IF OUTPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST),
1341	# OR, IN CASE THAT FILE DOES NOT EXIST, CHECK, IF IT CAN BE CREATED
1342	# THESE ACTIONS ARE NOT CARRIED OUT, IF FILES SHALL BE TRASFERRED FROM THE REMOTE TO
1343	# THE LOCAL HOST (BECAUSE THEIR IS NO DIRECT ACCESS TO THE LOCAL DIRECTORIES FROM THE
1344	# REMOTE HOST)
1345	(( i = 0 ))
1346	while (( i < iout ))
1347	do
1348	(( i = i + 1 ))
1349	if [[ ! ( $fromhost != $localhost && ( "${actionout[$i]}" = tr \|\| "${actionout[$i]}" = tra \|\| "${actionout[$i]}" = trpe ) ) ]]
1350	then
1351	if [[ "${actionout[$i]}" = tr ]]
1352	then
1353	actionout[$i]=""
1354	elif [[ "${actionout[$i]}" = trpe ]]
1355	then
1356	actionout[$i]=pe
1357	elif [[ "${actionout[$i]}" = tra ]]
1358	then
1359	actionout[$i]=a
1360	fi
1361	(( maxcycle = 0 ))
1362	eval filename=${pathout[$i]}/${fname}${endout[$i]}
1363	eval catalogname=${pathout[$i]}
1364	if ! ls $filename* 1>/dev/null 2>&1
1365	then
1366
1367	# IF OUTPUT-FILE DOES NOT EXIST CHECK, IF IT CAN BE CREATED
1368	if cat /dev/null > $filename
1369	then
1370	rm $filename
1371	else
1372
1373	# CHECK, IF THE DIRECTORY WHERE FILE SHALL BE COPIED TO EXISTS
1374	# IF IT DOES NOT EXIST, TRY TO CREATE IT
1375	if [[ ! -d $catalogname ]]
1376	then
1377	if mkdir -p $catalogname
1378	then
1379	printf "\n\n *** directory:"
1380	printf "\n $catalogname"
1381	printf "\n was created\n"
1382	else
1383	printf "\n\n +++ OUTPUT-file:"
1384	printf "\n $filename"
1385	printf "\n cannot be created, because directory does not exist"
1386	printf "\n and cannot be created either"
1387	printf "\n"
1388	locat=output ; exit
1389	fi 2>/dev/null
1390	else
1391	printf "\n\n +++ OUTPUT-file:"
1392	printf "\n $filename"
1393	printf "\n cannot be created, although directory exists"
1394	printf "\n"
1395	locat=output ; exit
1396	fi
1397	fi 2>/dev/null
1398	else
1399
1400	# DETERMINE THE CYCLE NUMBER
1401	ls -1 -d $filename > filelist 2>/dev/null
1402	ls -1 -d $filename.* >> filelist 2>/dev/null
1403	while read zeile
1404	do
1405
1406	# filename without path (i.e. after the last "/")
1407	basefilename=$(basename ${zeile})
1408
1409	# check if there is an extension
1410	extension=${basefilename##*.}
1411	if [[ "$extension" = "${extout[$i]}" ]]
1412	then
1413	basefilename=${basefilename%.*}
1414	fi
1415
1416	# check for an existing cycle number
1417	cycle=${basefilename##*.}
1418	if [[ $cycle =~ ^-?[0-9]+$ ]]
1419	then
1420	(( icycle = $cycle + 1 ))
1421	else
1422	(( icycle = 1 ))
1423	fi
1424
1425	if (( icycle > maxcycle ))
1426	then
1427	(( maxcycle = icycle ))
1428	fi
1429
1430	done <filelist
1431	rm filelist
1432	fi
1433
1434	# APPEND CYCLE NUMBER TO FILENAME AND CHECK, IF FILE CAN BE CREATED
1435	# IN CASE OF FILE-APPEND, FILE MUST BE APPENDED TO THE ONE WITH HIGHEST CYCLE NUMBER
1436	if [[ "${actionout[$i]}" != a ]]
1437	then
1438	if (( maxcycle > 0 ))
1439	then
1440	filename_tmp=${filename}.$maxcycle
1441	if cat /dev/null > $filename_tmp
1442	then
1443	rm $filename_tmp
1444	else
1445	printf "\n +++ OUTPUT-file:"
1446	printf "\n $filename_tmp"
1447	printf "\n cannot be created"
1448	locat=output ; exit
1449	fi
1450	fi
1451	else
1452	(( maxcycle = maxcycle - 1 ))
1453	fi
1454
1455	(( cycnum[$i] = maxcycle ))
1456	pathout[$i]=$filename
1457
1458	fi
1459	done
1460
1461
1462	# THE DVR-PACKAGE REQUIRES ITS OWN LIBRARY
1463	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
1464	then
1465	if [[ "$dvr_inc" = "" ]]
1466	then
1467	printf "\n\n +++ no value for \"dvr_inc\" given in configuration file"
1468	printf "\n This is required for the dvrp_graphics package.\n"
1469	locat=dvr; exit
1470	fi
1471	if [[ "$dvr_lib" = "" ]]
1472	then
1473	printf "\n\n +++ no value for \"dvr_lib\" given in configuration file"
1474	printf "\n This is required for the dvrp_graphics package.\n"
1475	locat=dvr; exit
1476	fi
1477	fi
1478
1479
1480	# CHECK, WETHER A MAIN PROGRAM OR AN EXECUTABLE HAVE BEEN DECLARED.
1481	# EXECUTABLES DO NOT NEED TO BE COMPILED.
1482	if [[ "$mainprog" = "" && "$executable" = "" ]]
1483	then
1484	printf "\n +++ neither main program nor executable defined"
1485	locat=source; exit
1486	elif [[ "$mainprog" != "" && "$executable" != "" ]]
1487	then
1488	printf "\n +++ main program as well as executable defined"
1489	locat=source; exit
1490	elif [[ "$mainprog" = "" && "$executable" != "" ]]
1491	then
1492	do_compile=false
1493	fi
1494
1495
1496	# CREATE SOURCE-DIRECTORY TO COLLECT ROUTINES TO BE COMPILED.
1497	# LATER THE MRUN-SCRIPT AND CONFIGURATION-FILE WILL ALSO BE COPIED TO THIS DIRECTORY.
1498	if [[ $restart_run != true && "$SOURCES_COMPLETE" = "" ]]
1499	then
1500	rm -rf SOURCES_FOR_RUN_$fname
1501	mkdir SOURCES_FOR_RUN_$fname
1502	fi
1503
1504
1505	# COLLECT ALL ROUTINES TO BE COMPILED
1506	# THIS IS NOT REQUIRED WITHIN BATCH-JOBS, BECAUSE ROUTINES HAVE ALREADY BEEN COLLECTED
1507	# BY THE MRUN-CALL WHICH CREATED THE BATCH-JOB.
1508	if [[ $do_compile = true && "$SOURCES_COMPLETE" = "" ]]
1509	then
1510
1511	[[ "$source_list" = LM ]] && source_list=LOCALLY_MODIFIED
1512
1513	if [[ "$source_list" = LOCALLY_MODIFIED ]]
1514	then
1515
1516	# DETERMINE MODIFIED FILES OF THE SVN WORKING COPY
1517	source_list=""
1518	cd $source_path
1519
1520
1521	# CHECK, IF DIRECTORY IS UNDER SVN CONTROL
1522	if [[ ! -d .svn ]]
1523	then
1524	printf "\n\n +++ source directory"
1525	printf "\n \"$source_path\" "
1526	printf "\n is not under control of \"subversion\"."
1527	printf "\n Please do not use mrun-option \"-s LOCALLY_MODIFIED\"\n"
1528	fi
1529
1530
1531	# LIST ALL MODIFIED SOURCE CODE FILES
1532	Filenames=""
1533	svn status > tmp_mrun
1534	while read line
1535	do
1536	firstc=`echo $line \| cut -c1`
1537	if [[ $firstc = M \|\| $firstc = "?" ]]
1538	then
1539	Name=`echo "$line" \| cut -c8-`
1540	extension=`echo $Name \| cut -d. -f2`
1541	if [[ "$extension" = f90 \|\| "$extension" = F90 \|\| "$extension" = f \|\| "$extension" = F \|\| "$extension" = c ]]
1542	then
1543	Filenames="$Filenames "$Name
1544	fi
1545	fi
1546	done < tmp_mrun
1547
1548
1549	# COPY FILES TO SOURCES_FOR_RUN_...
1550	for dateiname in $Filenames
1551	do
1552	cp $dateiname $working_directory/SOURCES_FOR_RUN_$fname
1553	source_list=$source_list"$dateiname "
1554	done
1555
1556	cd - > /dev/null
1557
1558
1559	# COPY FILES GIVEN BY OPTION -s TO DIRECTORY SOURCES_FOR_RUN_...
1560	# AUTOMATIC RESTART RUNS JUST ACCESS THE DIRECTORY CREATED BY THE INITIAL RUN
1561	elif [[ "$source_list" != "" && $restart_run != true ]]
1562	then
1563
1564	cd $source_path
1565
1566	for filename in $source_list
1567	do
1568
1569	# SOURCE CODE FILE IS NOT ALLOWED TO INCLUDE PATH
1570	if [[ $(echo $filename \| grep -c "/") != 0 ]]
1571	then
1572	printf "\n +++ source code file: $filename"
1573	printf "\n must not contain (\"/\") "
1574	locat=source; exit
1575	fi
1576
1577	if [[ ! -f $filename ]]
1578	then
1579	printf "\n +++ source code file: $filename"
1580	printf "\n does not exist"
1581	locat=source; exit
1582	else
1583	cp $filename $working_directory/SOURCES_FOR_RUN_$fname
1584	fi
1585
1586	done
1587
1588	cd - > /dev/null
1589
1590	fi
1591
1592
1593	# CHECK, IF A MAIN PROGRAM EXISTS AND IF IT IS PART OF THE LIST OF FILES
1594	# TO BE COMPILED. IF NOT, ADD IT TO THE LIST.
1595	if [[ $restart_run != true ]]
1596	then
1597
1598	if [[ ! -f "$source_path/$mainprog" ]]
1599	then
1600	printf "\n\n +++ main program: $mainprog"
1601	printf "\n does not exist in source directory"
1602	printf "\n \"$source_path\"\n"
1603	locat=source; exit
1604	else
1605	if [[ $(echo $source_list \| grep -c $mainprog) = 0 ]]
1606	then
1607	cp $source_path/$mainprog SOURCES_FOR_RUN_$fname
1608	source_list=${mainprog}" $source_list"
1609	fi
1610	fi
1611	fi
1612
1613
1614	# CHECK, IF MAKEFILE EXISTS AND COPY IT TO THE SOURCES_FOR_RUN... DIRECTORY
1615	# NOT REQUIRED FOR RESTART RUNS, SOURCES_FOR_RUN... HAS BEEN CREATED BY THE INITIAL RUN
1616	if [[ "$restart_run" != true ]]
1617	then
1618	[[ "$makefile" = "" ]] && makefile=$source_path/Makefile
1619	if [[ ! -f $makefile ]]
1620	then
1621	printf "\n +++ file \"$makefile\" does not exist"
1622	locat=make; exit
1623	else
1624	cp $makefile SOURCES_FOR_RUN_$fname/Makefile
1625	fi
1626	fi
1627
1628
1629	# COPY FILES FROM OPTIONAL SOURCE PATH GIVEN IN THE CONFIGURATION FILE
1630	if [[ $restart_run != true && "$add_source_path" != "" ]]
1631	then
1632
1633	# DOES THE DIRECTORY EXIST?
1634	if [[ ! -d $add_source_path ]]
1635	then
1636	printf "\n\n *** INFORMATIVE: additional source code directory"
1637	printf "\n \"$add_source_path\" "
1638	printf "\n does not exist or is not a directory."
1639	printf "\n No source code will be used from this directory!\n"
1640	add_source_path=""
1641	if [[ $silent == false ]]
1642	then
1643	sleep 3
1644	fi
1645	else
1646
1647	cd $add_source_path
1648	found=false
1649
1650	Names=$(ls -1 *.f90 2>&1)
1651	[[ $(echo $Names \| grep -c '*.f90') = 0 ]] && AddFilenames="$Names"
1652	Names=$(ls -1 *.F90 2>&1)
1653	[[ $(echo $Names \| grep -c '*.F90') = 0 ]] && AddFilenames="$AddFilenames $Names"
1654	Names=$(ls -1 *.F 2>&1)
1655	[[ $(echo $Names \| grep -c '*.F') = 0 ]] && AddFilenames="$AddFilenames $Names"
1656	Names=$(ls -1 *.f 2>&1)
1657	[[ $(echo $Names \| grep -c '*.f') = 0 ]] && AddFilenames="$AddFilenames $Names"
1658	Names=$(ls -1 *.c 2>&1)
1659	[[ $(echo $Names \| grep -c '*.c') = 0 ]] && AddFilenames="$AddFilenames $Names"
1660
1661	cd - > /dev/null
1662	cd SOURCES_FOR_RUN_$fname
1663
1664	# COPY MAKEFILE IF EXISTING
1665	if [[ -f $add_source_path/Makefile ]]
1666	then
1667	printf "\n\n *** user Makefile from directory"
1668	printf "\n \"$add_source_path\" is used \n"
1669	if [[ $silent == false ]]
1670	then
1671	sleep 1
1672	fi
1673	cp $add_source_path/Makefile .
1674	fi
1675
1676	for dateiname in $AddFilenames
1677	do
1678	if [[ -f $dateiname ]]
1679	then
1680	printf "\n +++ source code file \"$dateiname\" found in additional"
1681	printf "\n source code directory \"$add_source_path\" "
1682	printf "\n but was also given with option \"-s\" which means that it should be taken"
1683	printf "\n from directory \"$source_path\"."
1684	locat=source; exit
1685	fi
1686
1687	cp $add_source_path/$dateiname .
1688	source_list="$source_list $dateiname"
1689
1690	# CHECK IF FILE IS CONTAINED IN MAKEFILE
1691	if [[ $(grep -c $dateiname Makefile) = 0 ]]
1692	then
1693	printf "\n\n +++ user file \"$dateiname\" "
1694	printf "\n is not listed in Makefile \n"
1695	locat=source; exit
1696	else
1697
1698	if [[ $found = false ]]
1699	then
1700	found=true
1701	printf "\n\n *** following user file(s) added to the"
1702	printf " files to be translated:\n "
1703	fi
1704	printf "$dateiname "
1705	if [[ $silent == false ]]
1706	then
1707	sleep 0.5
1708	fi
1709
1710	fi
1711	done
1712	[[ $found = true ]] && printf "\n"
1713	cd - > /dev/null
1714	fi
1715	fi
1716
1717
1718	# ADD ALL ROUTINES BELONGING TO SOFTWARE PACKAGES (GIVEN BY OPTION -p)
1719	# TO THE LIST OF FILES TO BE COMPILED
1720	if [[ $restart_run != true && -n $package_list ]]
1721	then
1722
1723	cd $source_path
1724
1725	for package in $package_list
1726	do
1727
1728	[[ $package = "dvrp_graphics+1PE" ]] && package=dvrp_graphics
1729
1730	# DETERMINE FILES BELONGING TO THE PACKAGE
1731	# ERROR MESSAGE ARE REDIRECTED TO /dev/null, BECAUSE WILDCARD (*) ALSO GIVES
1732	# THE NAME OF THE DIRECTORY
1733	package_source_list=`grep "defined( __$package " * 2>/dev/null \| cut -f1 -d:`
1734
1735
1736	# ADD THESE FILES TO THE LIST OF FILES TO BE COMPILED,
1737	# IF THEY ARE NOT ALREADY PART OF THE LIST
1738	for source_list_name in $package_source_list
1739	do
1740	if [[ $(echo $source_list \| grep -c $source_list_name) = 0 ]]
1741	then
1742
1743	# ONLY TAKE FILES WITH VALID SUFFIX
1744	ending=`echo $source_list_name \| cut -f2 -d.`
1745	if [[ "$ending" = f90 \|\| "$ending" = F90 \|\| "$ending" = f \|\| "$ending" = F \|\| "$ending" = c ]]
1746	then
1747	cp $source_list_name $working_directory/SOURCES_FOR_RUN_$fname
1748	source_list="$source_list $source_list_name"
1749	fi
1750	fi
1751	done
1752	done
1753
1754	cd - > /dev/null
1755	fi
1756
1757	fi # do_compile=true
1758
1759
1760	# IF SOURCE CODE IS TO BE COMPILED, DO SOME MORE CHECKS
1761	# AND SET PRE-PROCESSOR DIRECTIVES
1762	if [[ $do_compile = true \|\| $create_executable_for_batch = true ]]
1763	then
1764
1765	# SET PREPROCESSOR-DIRECTIVES TO SELECT OPERATING SYSTEM SPECIFIC CODE
1766	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1767	then
1768	cpp_options="${cpp_options},-D__ibm=__ibm"
1769	elif [[ $(echo $localhost \| cut -c1-3) = nec ]]
1770	then
1771	cpp_options="$cpp_options -D__nec"
1772	elif [[ $(echo $localhost \| cut -c1-2) = lc ]]
1773	then
1774	cpp_options="$cpp_options -D__lc"
1775	else
1776	cpp_options="$cpp_options -D__$localhost"
1777	fi
1778
1779	# SET DIRECTIVES GIVEN BY OPTION -K (E.G. parallel)
1780	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1781	then
1782	[[ -n $cond1 ]] && cpp_options="${cpp_options},-D__$cond1=__$cond1"
1783	[[ -n $cond2 ]] && cpp_options="${cpp_options},-D__$cond2=__$cond2"
1784	else
1785	[[ -n $cond1 ]] && cpp_options="$cpp_options -D__$cond1"
1786	[[ -n $cond2 ]] && cpp_options="$cpp_options -D__$cond2"
1787	fi
1788
1789	# SET DIRECTIVES FOR ACTIVATING SOFTWARE-PACKAGES (OPTION -p)
1790	if [[ -n $package_list ]]
1791	then
1792	for package in $package_list
1793	do
1794	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1795	then
1796	if [[ $package != "dvrp_graphics+1PE" ]]
1797	then
1798	cpp_options="${cpp_options},-D__$package=__$package"
1799	else
1800	cpp_options="${cpp_options},-D__dvrp_graphics=__dvrp_graphics"
1801	export use_seperate_pe_for_dvrp_output=true
1802	fi
1803	else
1804	if [[ $package != "dvrp_graphics+1PE" ]]
1805	then
1806	cpp_options="$cpp_options -D__$package"
1807	else
1808	cpp_options="$cpp_options -D__dvrp_graphics"
1809	export use_seperate_pe_for_dvrp_output=true
1810	fi
1811	fi
1812	done
1813	fi
1814
1815	else
1816
1817
1818	# FOR LOCAL RUNS CHECK AGAIN, IF EXECUTABLE EXISTS
1819	if [[ $do_remote = false ]]
1820	then
1821	if [[ ! -f $executable ]]
1822	then
1823	printf "\n +++ executable file: $executable"
1824	printf "\n does not exist"
1825	locat=executable; exit
1826	fi
1827	fi
1828	fi
1829
1830
1831	# DETERMINE THE JOB MODE
1832	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1833	then
1834	if [[ "$LOADLBATCH" = yes ]]
1835	then
1836	batch_job=.TRUE.
1837	jobmo=BATCH
1838	else
1839	batch_job=.FALSE.
1840	jobmo=INTERACTIVE
1841	fi
1842	else
1843	if [[ "$ENVIRONMENT" = BATCH \|\| "$PJM_ENVIRONMENT" = BATCH ]]
1844	then
1845	batch_job=.TRUE.
1846	jobmo=BATCH
1847	else
1848	batch_job=.FALSE.
1849	jobmo=INTERACTIVE
1850	fi
1851	fi
1852
1853	# NO INTERACTIVE RUNS ALLOWED ON LCTIT
1854	if [[ $host = lctit && $jobmo = INTERACTIVE && $do_batch = false ]]
1855	then
1856	printf "\n +++ no interactive runs allowed on host \"$host\" "
1857	printf "\n please submit batch job using mrun option \"-b\" \n"
1858	locat=normal; exit
1859	fi
1860
1861
1862	# CHECK, IF USER DEFINED A COMPILER
1863	if [[ "$compiler_name" = "" ]]
1864	then
1865
1866	printf "\n +++ no compiler specified for \"$host $cond1 $cond2\""
1867	locat=compiler_name; exit
1868
1869	fi
1870
1871
1872	# DETERMINE THE NAME OF MRUN'S TEMPORARY WORKING DIRECTORY
1873
1874	# ON HLRN-III, USE THE QUEUING NAME. OTHERWISE USE USERNAME AND RANDOM NUMBER
1875	if [[ $do_batch = false && $(echo $host \| cut -c1-6) = lccray ]]
1876	then
1877	kennung=$(checkjob $PBS_JOBID \| grep Reservation \| cut -d" " -s -f2 \| cut -d"." -s -f2 \| sed "s/['\"]//g")
1878	if [[ "$kennung" = "" ]]
1879	then
1880	kennung=$RANDOM
1881	fi
1882	else
1883	kennung=$RANDOM
1884	fi
1885
1886	if [[ "$tmp_user_catalog" = "" ]]
1887	then
1888	if [[ $localhost = ibmh ]]
1889	then
1890	tmp_user_catalog=$SCRATCH
1891	else
1892	tmp_user_catalog=/tmp
1893	fi
1894	fi
1895	TEMPDIR=$tmp_user_catalog/${usern}.$kennung
1896
1897
1898	# DETERMINE THE NAME OF THE DIRECTORY WHICH IS USED TO TEMPORARILY STORE DATA FOR RESTART RUNS
1899	if [[ "$tmp_data_catalog" = "" ]]
1900	then
1901	tmp_data_catalog=/tmp/mrun_restart_data
1902	fi
1903
1904
1905	# IN CASE OF LOCAL RUNS REPLACE ENVIRONMENT VARIABLES BY THEIR VALUES
1906	if [[ $do_remote = false && $do_compile = true \|\| $create_executable_for_batch = true ]]
1907	then
1908	eval fopts=\"$fopts\"
1909	eval lopts=\"$lopts\"
1910	fi
1911
1912
1913	# DETERMINE COMPILE- AND LINK-OPTIONS
1914	fopts="$fopts $netcdf_inc $fftw_inc $dvr_inc"
1915	lopts="$lopts $netcdf_lib $fftw_lib $dvr_lib"
1916	XOPT="-X $numprocs"
1917
1918
1919	# CHECK THE CPU-LIMIT. IT MUST BE GIVEN FOR BATCH-JOBS AND IS COMMUNICATED TO THE
1920	# EXECUTABLE VIA NAMELIST-PARAMETER cputime
1921	done=false
1922	while [[ $done = false ]]
1923	do
1924	cputime=$cpumax
1925	if (( $cputime == 0 ))
1926	then
1927	if [[ $do_batch = true ]]
1928	then
1929	printf "\n +++ cpu-time is undefined"
1930	printf "\n >>> Please type CPU-time in seconds as INTEGER:"
1931	printf "\n >>> "
1932	read cputime 1>/dev/null 2>&1
1933	else
1934	cputime=10000000 # NO CPU LIMIT FOR INTERACTIVE RUNS
1935	fi
1936	else
1937	done=true
1938	fi
1939	cpumax=$cputime
1940	done
1941
1942	(( minuten = cputime / 60 ))
1943	(( sekunden = cputime - minuten * 60 ))
1944
1945
1946	# CHECK THE MEMORY DEMAND
1947	if [[ $do_batch = true ]]
1948	then
1949	done=false
1950	while [[ $done = false ]]
1951	do
1952	if (( memory == 0 ))
1953	then
1954	printf "\n +++ memory demand is undefined"
1955	printf "\n >>> Please type memory in MByte per process as INTEGER:"
1956	printf "\n >>> "
1957	read memory 1>/dev/null 2>&1
1958	else
1959	done=true
1960	fi
1961	done
1962	fi
1963
1964
1965	# IN CASE OF REMOTE-JOBS CHECK, IF A USERNAME FOR THE REMOTE HOST IS GIVEN
1966	if [[ $do_remote = true && -z $remote_username ]]
1967	then
1968	while [[ -z $remote_username ]]
1969	do
1970	printf "\n +++ username on remote host \"$host\" is undefined"
1971	printf "\n >>> Please type username:"
1972	printf "\n >>> "
1973	read remote_username
1974	done
1975	mc="$mc -u$remote_username"
1976	fi
1977
1978	# CHECK FOR INITIAL COMMANDS AFTER LOGIN
1979	if [[ "$login_init_cmd" != "" ]]
1980	then
1981	export init_cmds="${login_init_cmd};"
1982	fi
1983
1984
1985	# SET THE MODULE-LOAD COMMAD AND EXPORT IT FOR subjob
1986	if [[ "$modules" != "" ]]
1987	then
1988	if [[ $host = lctit ]]
1989	then
1990	export module_calls=". $modules"
1991	else
1992	export module_calls="module load ${modules};"
1993	fi
1994	fi
1995
1996	# OUTPUT OF THE MRUN-HEADER
1997	calltime=$(date)
1998	printf "\n"
1999	printf "#------------------------------------------------------------------------# \n"
2000	printf "\| %-35s%35s \| \n" "$version" "$calltime"
2001	printf "\| \| \n"
2002	spalte1="called on:"; spalte2=$localhost_realname
2003	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2004	if [[ $do_remote = true ]]
2005	then
2006	spalte1="execution on:"; spalte2="$host (username: $remote_username)"
2007	else
2008	spalte1="execution on:"; spalte2="$host ($localhost_realname)"
2009	fi
2010	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2011	if [[ -n $numprocs ]]
2012	then
2013	if [[ $run_coupled_model = false ]]
2014	then
2015	spalte1="number of PEs:"; spalte2=$numprocs
2016	else
2017	spalte1="number of PEs:"; spalte2="$numprocs (atmosphere: $numprocs_atmos, ocean: $numprocs_ocean)"
2018	fi
2019	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2020	fi
2021	if [[ -n $tasks_per_node ]]
2022	then
2023	spalte1="tasks per node:"; spalte2="$tasks_per_node (number of nodes: $nodes)"
2024	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2025	if (( remaining_pes > 0 ))
2026	then
2027	spalte1=" "; spalte2="one of the nodes only filled with $remaining_pes tasks"
2028	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2029	fi
2030	fi
2031	if [[ $maximum_parallel_io_streams != $numprocs ]]
2032	then
2033	spalte1="max par io streams:"; spalte2="$maximum_parallel_io_streams"
2034	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2035	fi
2036	if [[ $use_openmp = true ]]
2037	then
2038	spalte1="threads per task:"; spalte2="$threads_per_task"
2039	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2040	fi
2041	printf "\| \| \n"
2042	if [[ $do_compile = true ]]
2043	then
2044	if [[ "$mopts" != "" ]]
2045	then
2046	spalte1="make options:"; spalte2=$(echo "$mopts" \| cut -c-45)
2047	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2048	zeile=$(echo "$mopts" \| cut -c46-)
2049	while [[ "$zeile" != "" ]]
2050	do
2051	spalte1=""
2052	spalte2=$(echo "$zeile" \| cut -c-45)
2053	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2054	zeile=$(echo "$zeile" \| cut -c46-)
2055	done
2056	fi
2057
2058	spalte1="cpp directives:"; spalte2=$(echo "$cpp_options" \| cut -c-45)
2059	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2060	zeile=$(echo "$cpp_options" \| cut -c46-)
2061	while [[ "$zeile" != "" ]]
2062	do
2063	spalte1=""
2064	spalte2=$(echo "$zeile" \| cut -c-45)
2065	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2066	zeile=$(echo "$zeile" \| cut -c46-)
2067	done
2068
2069	spalte1="compiler options:"; spalte2=$(echo "$fopts" \| cut -c-45)
2070	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2071	zeile=$(echo "$fopts" \| cut -c46-)
2072	while [[ "$zeile" != "" ]]
2073	do
2074	spalte1=""
2075	spalte2=$(echo "$zeile" \| cut -c-45)
2076	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2077	zeile=$(echo "$zeile" \| cut -c46-)
2078	done
2079
2080	spalte1="linker options:"; spalte2=$(echo "$lopts" \| cut -c-45)
2081	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2082	zeile=$(echo "$lopts" \| cut -c46-)
2083	while [[ "$zeile" != "" ]]
2084	do
2085	spalte1=""
2086	spalte2=$(echo "$zeile" \| cut -c-45)
2087	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2088	zeile=$(echo "$zeile" \| cut -c46-)
2089	done
2090
2091	spalte1="modules to be load:"; spalte2=$(echo "$modules" \| cut -c-45)
2092	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2093	zeile=$(echo "$modules" \| cut -c46-)
2094	while [[ "$zeile" != "" ]]
2095	do
2096	spalte1=""
2097	spalte2=$(echo "$zeile" \| cut -c-45)
2098	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2099	zeile=$(echo "$zeile" \| cut -c46-)
2100	done
2101
2102	spalte1="main program:"; spalte2=$mainprog
2103	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2104	else
2105	spalte1=executable:; spalte2=$executable
2106	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2107	fi
2108	printf "\| \| \n"
2109	spalte1="base name of files:"; spalte2=$fname
2110	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2111	if [[ $fname != $afname ]]
2112	then
2113	spalte1="base name of input files:"; spalte2=$afname
2114	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2115	fi
2116	spalte1="INPUT control list:"; spalte2=$(echo $input_list)
2117	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2118	spalte1="OUTPUT control list:"; spalte2=$(echo $output_list)
2119	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2120
2121	if [[ "$ocean_file_appendix" = true ]]
2122	then
2123	printf "\| %-35s%-35s \| \n" "suffix \"_O\" is added to local files" " "
2124	fi
2125
2126	if [[ $do_batch = true \|\| "$LOADLBATCH" = yes ]]
2127	then
2128	spalte1="memory demand / PE":; spalte2="$memory MB"
2129	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2130	spalte1=CPU-time:; spalte2="$minuten:$sekunden"
2131	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2132	fi
2133
2134	if [[ $do_compile = true ]]
2135	then
2136	printf "\| \| \n"
2137	printf "\| Files to be compiled: \| \n"
2138	zeile=$source_list
2139	while [[ "$zeile" != "" ]]
2140	do
2141	linestart=$(echo $zeile \| cut -c-70)
2142	printf "\| %-70s \| \n" "$linestart"
2143	zeile=$(echo "$zeile" \| cut -c71-)
2144	done
2145	fi
2146	printf "#------------------------------------------------------------------------#"
2147
2148
2149
2150	# OUTPUT OF FILE CONNECTIONS IN CASE OF TRACEBACK
2151	if [[ $do_trace = true ]]
2152	then
2153	(( i = 0 ))
2154	while (( i < iin ))
2155	do
2156	(( i = i + 1 ))
2157	if (( i == 1 ))
2158	then
2159	printf "\n\n >>> INPUT-file assignments:\n"
2160	fi
2161	printf "\n ${localin[$i]} : ${absnamein[$i]}"
2162	done
2163	(( i = 0 ))
2164	while (( i < iout ))
2165	do
2166	(( i = i + 1 ))
2167	if (( i == 1 ))
2168	then
2169	printf "\n\n >>> OUTPUT-file assignments:\n"
2170	fi
2171	printf "\n ${localout[$i]} : ${pathout[$i]}"
2172	done
2173	(( i = 0 ))
2174	while (( i < iic ))
2175	do
2176	(( i = i + 1 ))
2177	if (( i == 1 ))
2178	then
2179	printf "\n\n >>> INPUT-commands:\n"
2180	fi
2181	printf "\n ${in_command[$i]}"
2182	done
2183	(( i = 0 ))
2184	while (( i < ioc ))
2185	do
2186	(( i = i + 1 ))
2187	if (( i == 1 ))
2188	then
2189	printf "\n\n >>> OUTPUT-commands:\n"
2190	fi
2191	printf "\n ${out_command[$i]}"
2192	done
2193	fi
2194
2195	# QUERY FOR CONTINUE (ON LOCAL MACHINES ONLY)
2196	if [[ $remotecall = false && $silent = false && $jobmo != BATCH ]]
2197	then
2198	antwort=dummy
2199	printf "\n\n"
2200	printf " >>> everything o.k. (y/n) ? "
2201	while read antwort
2202	do
2203	if [[ "$antwort" != y && "$antwort" != Y && "$antwort" != n && "$antwort" != N ]]
2204	then
2205	printf " >>> everything o.k. (y/n) ? "
2206	else
2207	break
2208	fi
2209	done
2210	if [[ $antwort = n \|\| $antwort = N ]]
2211	then
2212	locat=user_abort; (( iec = 0 )); exit
2213	fi
2214	if [[ $do_batch = true ]]
2215	then
2216	printf " >>> batch-job will be created and submitted"
2217	else
2218	printf " >>> MRUN will now continue to execute on this machine"
2219	fi
2220	fi
2221
2222
2223	# DETERMINE PATH FOR MAKE DEPOSITORY
2224	if [[ $do_batch = false \|\| $create_executable_for_batch = true ]]
2225	then
2226
2227	line=""
2228	grep "%depository_path" $config_file > tmp_mrun
2229	while read line
2230	do
2231	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
2232	then
2233	if [[ "$(echo $line \| cut -d" " -s -f3)" = "" ]]
2234	then
2235	global_depository_path=`echo $line \| cut -d" " -s -f2`
2236	fi
2237	fi
2238	done < tmp_mrun
2239
2240	line=""
2241	grep " $localhost" $config_file \| grep "%depository_path" > tmp_mrun
2242	while read line
2243	do
2244	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
2245	then
2246	if [[ "$(echo $line \| cut -d" " -s -f4)" = "$cond1" && "$(echo $line \| cut -d" " -s -f5)" = "$cond2" ]]
2247	then
2248	local_depository_path=`echo $line \| cut -d" " -s -f2`
2249	fi
2250	fi
2251	done < tmp_mrun
2252
2253	if [[ "$local_depository_path" = "" ]]
2254	then
2255	if [[ "$global_depository_path" != "" ]]
2256	then
2257	local_depository_path=$global_depository_path
2258	else
2259	printf "\n\n +++ no depository path found in configuration file"
2260	printf "\n for local host \"$localhost\" "
2261	printf "\n please set \"\%depository_path\" in configuration file\n"
2262	locat=config_file; exit
2263	fi
2264	fi
2265	eval local_depository_path=$local_depository_path
2266	[[ "$cond1" != "" ]] && local_depository_path=${local_depository_path}_$cond1
2267	[[ "$cond2" != "" ]] && local_depository_path=${local_depository_path}_$cond2
2268
2269
2270	basename=`echo $mainprog \| cut -f1 -d"."`
2271	eval make_depository=${local_depository_path}/${basename}_current_version.tar
2272	if [[ ! -f $make_depository ]]
2273	then
2274	printf "\n"
2275	printf "\n *** WARNING: make depository \"$make_depository\" not found"
2276	printf "\n \"make\" will fail, if the Makefile or other source files are missing\n"
2277	fi
2278
2279	fi
2280
2281
2282	# NOW PERFORM THOSE ACTIONS REQUIRED TO EXECUTE THE PROGRAM (PALM) ON THIS MACHINE
2283	# (COMPILING/LINKING, EXECUTING, COPYING I/O FILES)
2284	if [[ $do_batch = false ]]
2285	then
2286
2287
2288	# CREATE THE TEMPORARY WORKING DIRECTORY
2289	mkdir -p $TEMPDIR
2290	chmod go+rx $TEMPDIR
2291	tmpcreate=true
2292
2293
2294	# COPY EITHER THE COMPLETE SOURCE CODE FILES TO BE COMPILED OR THE EXECUTABLE
2295	# INTO THE TEMPORARY WORKING DIRECTORY
2296	if [[ $do_compile = true ]]
2297	then
2298
2299	TEMPDIR_COMPILE=$TEMPDIR
2300
2301	cp $make_depository $TEMPDIR_COMPILE
2302	cd $TEMPDIR_COMPILE
2303	tar -xf $make_depository > /dev/null 2>&1
2304	cd - > /dev/null
2305
2306	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
2307	# FILES ON CRAY XC30 SYSTEMS (HLRN III), rsync IS USED INSTEAD
2308	if [[ $(echo $host \| cut -c1-6) = lccray ]]
2309	then
2310	rsync -av -t SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
2311	else
2312	cp SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
2313	fi
2314
2315	else
2316
2317	cp $executable ${TEMPDIR}/a.out
2318
2319	fi
2320
2321
2322	# CHANGE TO THE TEMPORARY WORKING DIRECTORY
2323	cd $TEMPDIR
2324	printf "\n *** changed to temporary directory: $TEMPDIR"
2325
2326
2327	# IF REQUIRED, START WITH COMPILING
2328	if [[ $do_compile = true ]]
2329	then
2330
2331
2332	if [[ -f a.out ]]
2333	then
2334
2335	# EXECUTABLE WAS CREATED DURING INTERACTIVE CALL OF MRUN
2336	printf "\n\n\n *** executable a.out found"
2337	printf "\n no compilation required \n"
2338
2339	else
2340
2341	# COMPILING WITH MAKE (ON NEC COMPILER IS CALLED ON HOST CROSS)
2342	printf "\n\n\n *** compilation starts \n$dashes\n"
2343	printf " *** compilation with make using following options:\n"
2344	printf " make depository: $make_depository"
2345	if [[ "$mopts" != "" ]]
2346	then
2347	printf " make options: $mopts\n"
2348	fi
2349	printf " compilername: $compiler_name\n"
2350	printf " compiler options: $fopts\n"
2351	printf " preprocessor directives: $cpp_options \n"
2352	printf " linker options: $lopts \n"
2353	if [[ "$modules" != "" ]]
2354	then
2355	printf " modules to be load: $modules \n"
2356	fi
2357	printf " source code files: $source_list \n"
2358
2359	if [[ $localhost = ibmh ]]
2360	then
2361	printf " compiler is called via ssh on \"plogin1\" \n"
2362	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\" "
2363	[[ ! -f a.out ]] && compile_error=true
2364	continue # STATUS=1, IF a.out EXISTS
2365	elif [[ $localhost = lcocean ]]
2366	then
2367	printf " compiler is called via ssh on \"ocean\" \n"
2368	echo $PWD
2369	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\" "
2370	[[ ! -f a.out ]] && compile_error=true
2371	continue # STATUS=1, IF a.out EXISTS
2372	elif [[ $localhost = lcbullhh \|\| $localhost = lccrayb \|\| $localhost = lccrayf \|\| $localhost = lccrayh ]]
2373	then
2374	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2375	elif [[ $localhost = lceddy ]]
2376	then
2377	which mpifc
2378	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2379	elif [[ $localhost = lcgeohu ]]
2380	then
2381	printf " compiler is called via ssh on \"cirrus\" \n"
2382	ssh $SSH_PORTOPT cirrus.geo.hu-berlin.de -l $usern "$init_cmds $module_calls cd $TEMPDIR; make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT=\"$cpp_options\" F90FLAGS=\"$fopts\" LDFLAGS=\"$lopts\" "
2383	# this check did not work. Although a.out exists, it sets compile_error to true!
2384	# [[ ! -f a.out ]] && compile_error=true
2385	continue # STATUS=1, IF a.out EXISTS
2386	else
2387	[[ "$init_cmds" != "" ]] && eval $init_cmds
2388	[[ "$module_calls" != "" ]] && eval $module_calls
2389	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2390	fi
2391
2392	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
2393	then
2394	printf "\n +++ error occured while compiling or linking"
2395	locat=compile
2396
2397	exit
2398	else
2399	printf "$dashes\n *** compilation finished \n"
2400	fi
2401
2402	fi
2403
2404	fi
2405
2406
2407	# PROVIDE THE INPUT FILES
2408	# LOOP OVER ALL ACTIVATED FILES (LISTED IN THE CONFIGURATION FILE)
2409	(( i = 0 ))
2410	while (( i < iin ))
2411	do
2412	(( i = i + 1 ))
2413	if (( i == 1 ))
2414	then
2415	printf "\n\n *** providing INPUT-files:\n$dashes"
2416	fi
2417
2418
2419	# SKIP OPTIONAL FILES, IF THEY DO NOT EXIST
2420	if [[ "${transin[$i]}" = unavailable ]]
2421	then
2422	if [[ "${extin[$i]}" = "" \|\| "${extin[$i]}" = " " ]]
2423	then
2424	printf "\n *** INFORMATIVE: input file \"${pathin[$i]}/${afname}${endin[$i]}\" "
2425	printf "\n is not available!"
2426	else
2427	printf "\n *** INFORMATIVE: input file \"${pathin[$i]}/${afname}${endin[$i]}.${extin[$i]}\" "
2428	printf "\n is not available!"
2429	fi
2430	continue
2431	fi
2432
2433	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
2434	files_for_pes=false; datentyp=file
2435	if [[ "${actionin[$i]}" = pe && -n $numprocs ]]
2436	then
2437	files_for_pes=true; datentyp=files
2438	actionin[$i]=""
2439	elif [[ "${actionin[$i]}" = pe && ! -n $numprocs ]]
2440	then
2441	actionin[$i]=""
2442	elif [[ "${actionin[$i]}" = lnpe && -n $numprocs ]]
2443	then
2444	files_for_pes=true; datentyp=files
2445	actionin[$i]="ln"
2446	elif [[ "${actionin[$i]}" = lnpe && ! -n $numprocs ]]
2447	then
2448	actionin[$i]="ln"
2449	fi
2450
2451	if [[ $files_for_pes = true ]]
2452	then
2453	printf "\n >>> INPUT: ${absnamein[$i]}/.... to ${localin[$i]}"
2454	else
2455	printf "\n >>> INPUT: ${absnamein[$i]} to ${localin[$i]}"
2456	fi
2457
2458	# INPUT-FILES TO BE LINKED
2459	if [[ "${actionin[$i]}" = ln ]]
2460	then
2461
2462	printf "\n $datentyp will be linked"
2463	if [[ $files_for_pes = false ]]
2464	then
2465	if [[ -f "${absnamein[$i]}" ]]
2466	then
2467	ln ${absnamein[$i]} ${localin[$i]}
2468	got_tmp[$i]=true
2469	fi
2470	else
2471	if [[ -d "${absnamein[$i]}" ]]
2472	then
2473	mkdir ${localin[$i]}
2474	cd ${absnamein[$i]}
2475	for file in $(ls *)
2476	do
2477	ln $file $TEMPDIR/${localin[$i]}
2478	done >\|/dev/null 2>&1
2479	cd $TEMPDIR
2480	fi
2481
2482	# IF "ln -f" HAS FAILED DO A NORMAL COPY "cp -r"
2483	if [[ ! -f "${localin[$i]}/_000000" ]]
2484	then
2485	printf "\n --- WARNING: ln failed, using cp instead (might be time consuming...)"
2486	cp -r ${absnamein[$i]}/* ${localin[$i]}
2487	fi
2488
2489	got_tmp[$i]=true
2490	fi
2491	fi
2492
2493	# FILE IS STORED IN THE RESPECTIVE DIRECTORY GIVEN IN THE CONFIGURATION FILE
2494	if [[ "${actionin[$i]}" = "" \|\| "${actionin[$i]}" = "di" \|\| "${actionin[$i]}" = "npe" ]]
2495	then
2496
2497	if [[ "${actionin[$i]}" = "npe" && -n $numprocs ]]
2498	then
2499
2500	# FILE COPIES ARE PROVIDED FOR ALL CORES
2501	# EACH FILE GETS A UNIQUE FILENAME WITH A FOUR DIGIT NUMBER
2502	printf "\n file will be provided for $numprocs processors"
2503	mkdir ${localin[$i]}
2504	ival=$numprocs
2505	(( ii = 0 ))
2506	while (( ii <= ival-1 ))
2507	do
2508	if (( ii < 10 ))
2509	then
2510	cp ${absnamein[$i]} ${localin[$i]}/_000$ii
2511	elif (( ii < 100 ))
2512	then
2513	cp ${absnamein[$i]} ${localin[$i]}/_00$ii
2514	elif (( ii < 1000 ))
2515	then
2516	cp ${absnamein[$i]} ${localin[$i]}/_0$ii
2517	else
2518	cp ${absnamein[$i]} ${localin[$i]}/_$ii
2519	fi
2520	(( ii = ii + 1 ))
2521	done
2522
2523	else
2524
2525	if [[ $files_for_pes = true ]]
2526	then
2527
2528	# PROVIDE FILES FOR EACH CORE
2529	# FIRST CREATE THE LOCAL DIRECTORY, THEN COPY FILES
2530	# FROM THE PERMANENT DIRECTORY BY LINKING THEM TO THE LOCAL ONE
2531	printf "\n providing $numprocs files for the respective processors"
2532	mkdir ${localin[$i]}
2533	if [[ $link_local_input = true ]]
2534	then
2535	printf " files will be linked\n"
2536	cd ${absnamein[$i]}
2537	for file in $(ls *)
2538	do
2539	ln -f $file ${localin[$i]}
2540	done
2541	cd $TEMPDIR
2542	fi
2543
2544	# IF "ln -f" FAILED OR IF "$link_local_input = false" DO A NORMAL "cp -r"
2545	if [[ ! -f "${localin[$i]}/_000000" ]]
2546	then
2547	if [[ $link_local_input = true ]]
2548	then
2549	printf "\n --- WARNING: ln failed, using cp instead (might be time consuming...)"
2550	fi
2551	cp -r ${absnamein[$i]}/* ${localin[$i]}
2552	fi
2553
2554	else
2555
2556	# PROVIDE FILE FOR RUNS ON A SINGLE CORE
2557	if [[ $link_local_input = true ]]
2558	then
2559	printf " file will be linked\n"
2560	ln -f ${absnamein[$i]} ${localin[$i]}
2561	fi
2562	# If "ln -f" fails of if "$link_local_input = false" do a normal "cp"
2563	if [[ ! -f "${localin[$i]}" ]]
2564	then
2565	if [[ $link_local_input = true ]]
2566	then
2567	printf "\n --- WARNING: ln failed, using cp instead (might be time consuming...)"
2568	fi
2569	cp ${absnamein[$i]} ${localin[$i]}
2570	fi
2571	fi
2572	fi
2573	fi
2574
2575	done
2576	if (( i != 0 ))
2577	then
2578	printf "\n$dashes\n *** all INPUT-files provided \n"
2579	fi
2580
2581
2582	# EXECUTE INPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
2583	(( i = 0 ))
2584	while (( i < iic ))
2585	do
2586	(( i = i + 1 ))
2587	if (( i == 1 ))
2588	then
2589	printf "\n\n *** execution of INPUT-commands:\n$dashes"
2590	fi
2591	printf "\n >>> ${in_command[$i]}"
2592	eval ${in_command[$i]}
2593	if (( i == iic ))
2594	then
2595	printf "\n$dashes\n"
2596	fi
2597	done
2598
2599
2600	# SET THE REMAINING CPU-TIME
2601	cpurest=${cpumax}.
2602
2603
2604	# START DVR STREAMING SERVER
2605	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
2606	then
2607	if [[ "$dvr_server" != "" ]]
2608	then
2609
2610	printf "\n\n *** preparing the dvr streaming server configuration file"
2611
2612	# CHECK, IF A DVR SERVER IS ALREADY RUNNING
2613	running_dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config \| grep -v grep) \| cut -d" " -f2`
2614	if [[ "$running_dvrserver_id" != "" ]]
2615	then
2616
2617	printf "\n\n +++ WARNING: A dvr server with id=$running_dvrserver_id is already running!"
2618	printf "\n This server is used instead starting a new one!"
2619	printf "\n If required, script \"process_dvr_output\" has to be run manually."
2620
2621	else
2622
2623	# COPY CONFIGURATION FILE FOR STREAMING SERVER FROM REPOSITORY TO HERE
2624	if [[ -f ${PALM_BIN}/.dvrserver.config ]]
2625	then
2626	cp ${PALM_BIN}/.dvrserver.config .
2627
2628	# ENTERING THE BASEDIR, UID AND GID INTO THIS FILE
2629	user_id=`id -u`
2630	group_id=`id -g`
2631
2632	# "&" IS REQUIRED AS A SEPERATOR, BECAUSE TEMPDIR CONTAINS "/"
2633	sed "s&<replace by dvr data directory>&${TEMPDIR}&g" .dvrserver.config > .dvrserver.1
2634	sed "s/<replace by user id>/$user_id/g" .dvrserver.1 > .dvrserver.2
2635	sed "s/<replace by group id>/$group_id/g" .dvrserver.2 > .dvrserver.3
2636	mv .dvrserver.3 .dvrserver.config
2637	rm .dvrserver.1 .dvrserver.2
2638
2639	# START DVR SERVER IN BACKGROUND, GET HIS ID AND PRINT ON TERMINAL
2640	$dvr_server .dvrserver.config >> DVR_LOGFILE 2>&1 &
2641	dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config) \| cut -d" " -f2`
2642	printf "\n *** streaming server with id=$dvrserver_id is started in background"
2643	local_dvrserver_running=.TRUE.
2644	else
2645	printf "\n +++ missing file \".dvrserver.config\" in directory:"
2646	printf "\n \"$PALM_BIN\" "
2647	locat=dvr
2648	exit
2649	fi
2650
2651	fi
2652
2653	else
2654	printf "\n\n --- INFORMATIVE: no dvr streaming server will be started"
2655	fi
2656	fi
2657
2658
2659	# CREATE THE NAMELIST-FILE WITH VALUES OF ENVIRONMENT-VARIABLES REQUIRED BY PALM
2660	# (FILE ENVPAR WILL BE READ BY PALM)
2661	cat > ENVPAR << EOF
2662	&envpar run_identifier = '$fname', host = '$localhost',
2663	write_binary = .${write_binary}., tasks_per_node = $tasks_per_node,
2664	maximum_parallel_io_streams = $maximum_parallel_io_streams,
2665	maximum_cpu_time_allowed = ${cpumax}.,
2666	revision = '$global_revision',
2667	local_dvrserver_running = $local_dvrserver_running,
2668	batch_job = $batch_job /
2669
2670	EOF
2671
2672
2673	# STARTING THE EXECUTABLE
2674	printf "\n\n *** execution starts in directory\n \"`pwd`\"\n$dashes\n"
2675	PATH=$PATH:$TEMPDIR
2676
2677
2678	if [[ $execute_command != "none" ]]
2679	then
2680
2681	printf "\n +++ branch still not realized"
2682	locat=execution
2683	exit
2684
2685	else
2686
2687	# MPI DEBUG OPTION (ARGUMENT CHECKING, SLOWS DOWN EXECUTION DUE TO INCREASED LATENCY)
2688	if [[ "$mpi_debug" = true ]]
2689	then
2690	export MPI_CHECK_ARGS=1
2691	printf "\n +++ MPI_CHECK_ARGS=$MPI_CHECK_ARGS"
2692	fi
2693
2694	if [[ "$totalview" = true ]]
2695	then
2696	printf "\n *** totalview debugger will be used"
2697	tv_opt="-tv"
2698	else
2699	tv_opt=""
2700	fi
2701
2702	if [[ "$cond1" = debug \|\| "$cond2" = debug ]]
2703	then
2704
2705	#Interactive ALLINEA DEBUG seesion
2706	if [[ "$ENVIRONMENT" != BATCH ]]
2707	then
2708	if [[ $host = lccrayb \|\| $host = lccrayh ]]
2709	then
2710	if [[ "$allinea" = true ]]
2711	then
2712	echo "--- aprun -n $ii -N $tasks_per_node a.out < runfile_atmos"
2713
2714	ddt aprun -n $ii -N $tasks_per_node a.out
2715	wait
2716	fi
2717	fi
2718	fi
2719
2720	if [[ $localhost = ibmh ]]
2721	then
2722
2723	# SETUP THE IBM MPI ENVIRONMENT
2724	export MP_SHARED_MEMORY=yes
2725	export AIXTHREADS_SCOPE=S
2726	export OMP_NUM_THREADS=$threads_per_task
2727	export AUTHSTATE=files
2728	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
2729
2730	# FOLLOWING OPTIONS ARE MANDATORY FOR TOTALVIEW
2731	export MP_ADAPTER_USE=shared
2732	export MP_CPU_USE=multiple
2733	export MP_TIMEOUT=1200
2734
2735	unset MP_TASK_AFFINITY
2736
2737	if [[ "$LOADLBATCH" = yes ]]
2738	then
2739	totalview poe a.out
2740	else
2741	echo totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1
2742	export TVDSVRLAUNCHCMD=ssh
2743	totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1
2744	fi
2745
2746	fi # END DEBUG MODE
2747
2748	else
2749
2750	# NORMAL EXECUTION
2751	if [[ -n $numprocs ]]
2752	then
2753
2754	# RUNNING THE PROGRAM ON PARALLEL MACHINES
2755	if [[ $(echo $host \| cut -c1-3) = ibm ]]
2756	then
2757
2758	# SETUP THE IBM MPI ENVIRONMENT
2759	if [[ $host != ibmh && $host != ibmkisti ]]
2760	then
2761	export MP_SHARED_MEMORY=yes
2762	export AIXTHREAD_SCOPE=S
2763	export OMP_NUM_THREADS=$threads_per_task
2764	export XLSMPOPTS="spins=0:yields=0:stack=20000000"
2765	export AUTHSTATE=files
2766	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
2767	# export MP_PRINTENV=yes
2768
2769	# TUNING-VARIABLES TO IMPROVE COMMUNICATION SPEED
2770	# DO NOT SHOW SIGNIFICANT EFFECTS (SEP 04, FEDERATION-SWITCH)
2771	export MP_WAIT_MODE=poll
2772	[[ $node_usage = not_shared ]] && export MP_SINGLE_THREAD=yes
2773	fi
2774
2775	if [[ $host = ibmkisti ]]
2776	then
2777	export LANG=en_US
2778	export MP_SHARED_MEMORY=yes
2779	if [[ $threads_per_task = 1 ]]
2780	then
2781	export MP_SINGLE_THREAD=yes
2782	export MEMORY_AFFINITY=MCM
2783	else
2784	export OMP_NUM_THREADS=$threads_per_task
2785	fi
2786	fi
2787
2788	if [[ "$LOADLBATCH" = yes ]]
2789	then
2790	printf "\n--- Control: OMP_NUM_THREADS = \"$OMP_NUM_THREADS\" \n"
2791	if [[ "$cond1" = hpmcount \|\| "$cond2" = hpmcount ]]
2792	then
2793	/opt/optibm/HPM_2_4_1/bin/hpmcount a.out
2794	else
2795	if [[ $run_coupled_model = false ]]
2796	then
2797	if [[ "$ocean_file_appendix" = true ]]
2798	then
2799	echo "precursor_ocean" > runfile_atmos
2800	else
2801	echo "precursor_atmos" > runfile_atmos
2802	fi
2803	else
2804	(( iia = $numprocs_atmos / $threads_per_task ))
2805	(( iio = $numprocs_ocean / $threads_per_task ))
2806	printf "\n coupled run ($iia atmosphere, $iio ocean)"
2807	printf "\n\n"
2808	echo "coupled_run $iia $iio" > runfile_atmos
2809	fi
2810	poe ./a.out < runfile_atmos
2811	fi
2812	else
2813	if [[ $localhost = ibmh \|\| $localhost = ibms ]]
2814	then
2815	poe a.out -procs $numprocs -nodes 1 -rmpool 0
2816	elif [[ $localhost = ibmkisti \|\| $localhost = ibmku ]]
2817	then
2818	if [[ -f $hostfile ]]
2819	then
2820	cp $hostfile hostfile
2821	else
2822	(( ii = 1 ))
2823	while (( ii <= $numprocs ))
2824	do
2825	echo $localhost_realname >> hostfile
2826	(( ii = ii + 1 ))
2827	done
2828	fi
2829	export MP_HOSTFILE=hostfile
2830	if [[ $run_coupled_model = false ]]
2831	then
2832	if [[ "$ocean_file_appendix" = true ]]
2833	then
2834	echo "precursor_ocean" > runfile_atmos
2835	else
2836	echo "precursor_atmos" > runfile_atmos
2837	fi
2838	else
2839	(( iia = $numprocs_atmos / $threads_per_task ))
2840	(( iio = $numprocs_ocean / $threads_per_task ))
2841	printf "\n coupled run ($iia atmosphere, $iio ocean)"
2842	printf "\n\n"
2843	echo "coupled_run $iia $iio" > runfile_atmos
2844	fi
2845
2846	poe ./a.out -procs $numprocs < runfile_atmos
2847
2848	else
2849	if [[ "$host_file" = "" ]]
2850	then
2851	printf "\n +++ no hostfile given in configuration file"
2852	locat=config_file
2853	exit
2854	else
2855	eval host_file=$host_file
2856	fi
2857	export MP_HOSTFILE=$host_file
2858	poe a.out -procs $numprocs -tasks_per_node $numprocs
2859	fi
2860	fi
2861
2862	elif [[ $(echo $host \| cut -c1-2) = lc && $host != lckyoto && $host != lctit ]]
2863	then
2864
2865	# COPY HOSTFILE FROM SOURCE DIRECTORY OR CREATE IT, IF IT
2866	# DOES NOT EXIST
2867	if [[ $host != lcbullhh && $host != lccrayb && $host != lccrayf && $host != lccrayh && $host != lckyuh && $host != lckyut && $host != lcocean && $host != lceddy ]]
2868	then
2869	if [[ -f $hostfile ]]
2870	then
2871	cp $hostfile hostfile
2872	(( ii = $numprocs / $threads_per_task ))
2873	[[ $ii = 0 ]] && (( ii = 1 ))
2874	else
2875	(( ii = 1 ))
2876	while (( ii <= $numprocs / $threads_per_task ))
2877	do
2878	echo $localhost_realname >> hostfile
2879	(( ii = ii + 1 ))
2880	done
2881	if (( $numprocs / $threads_per_task == 0 ))
2882	then
2883	echo $localhost_realname >> hostfile
2884	fi
2885	fi
2886	eval zeile=\"`head -n $ii hostfile`\"
2887	printf "\n *** running on: $zeile"
2888	fi
2889
2890	(( ii = $numprocs / $threads_per_task ))
2891	[[ $ii = 0 ]] && (( ii = 1 ))
2892	export OMP_NUM_THREADS=$threads_per_task
2893
2894	if [[ $threads_per_task != 1 ]]
2895	then
2896	# INCREASE STACK SIZE TO UNLIMITED, BECAUSE OTHERWISE LARGE RUNS
2897	# MAY ABORT
2898	ulimit -s unlimited
2899	printf "\n threads per task: $threads_per_task stacksize: unlimited"
2900	fi
2901	if [[ $run_coupled_model = false ]]
2902	then
2903	if [[ "$ocean_file_appendix" = true ]]
2904	then
2905	echo "precursor_ocean" > runfile_atmos
2906	else
2907	echo "precursor_atmos" > runfile_atmos
2908	fi
2909	printf "\n\n"
2910
2911	if [[ $host = lccrayb \|\| $host = lccrayh ]]
2912	then
2913	echo "--- aprun -n $ii -N $tasks_per_node a.out < runfile_atmos"
2914	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
2915	elif [[ $host = lcbullhh ]]
2916	then
2917	export OMPI_MCA_pml=cm
2918	export OMPI_MCA_mtl=mxm
2919	export OMPI_MCA_coll=^ghc
2920	export OMPI_MCA_mtl_mxm_np=0
2921	export MXM_RDMA_PORTS=mlx5_0:1
2922	export MXM_LOG_LEVEL=ERROR
2923	export OMP_NUM_THREADS=$threads_per_task
2924	export KMP_AFFINITY=verbose,granularity=core,compact,1
2925	export KMP_STACKSIZE=64m
2926
2927	srun -n $ii --ntasks-per-node=$tasks_per_node ./a.out < runfile_atmos
2928
2929	elif [[ $host = lccrayf ]]
2930	then
2931	aprun -j1 -n $ii -N $tasks_per_node -m ${memory}M a.out < runfile_atmos
2932	elif [[ $host = lcxe6 \|\| $host = lcxt5m ]]
2933	then
2934	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
2935	elif [[ $host = lceddy ]]
2936	then
2937	echo $ii
2938	echo $tasks_per_node
2939	echo $nodes
2940	mpirun -n $ii a.out < runfile_atmos
2941	elif [[ $host = lcgeohu ]]
2942	then
2943	srun -n $ii a.out < runfile_atmos
2944	elif [[ $host = lcocean ]]
2945	then
2946	mpirun a.out $ROPTS < runfile_atmos
2947	elif [[ $host = lcsb ]]
2948	then
2949	mpirun_rsh -hostfile $PBS_NODEFILE -np `cat $PBS_NODEFILE \| wc -l` a.out < runfile_atmos
2950
2951	elif [[ $host = lckiaps ]]
2952	then
2953	mpirun -np $ii -machinefile $PBS_NODEFILE ./a.out < runfile_atmos
2954	elif [[ $host = lckyu* ]]
2955	then
2956	mpiexec -n $ii --stdin runfile_atmos ./a.out
2957	else
2958	mpiexec -machinefile hostfile -n $ii a.out < runfile_atmos
2959	fi
2960
2961	else
2962
2963	# COUPLED RUN
2964	(( iia = $numprocs_atmos / $threads_per_task ))
2965	(( iio = $numprocs_ocean / $threads_per_task ))
2966	printf "\n coupled run ($iia atmosphere, $iio ocean)"
2967	printf "\n\n"
2968
2969	echo "coupled_run $iia $iio" > runfile_atmos
2970
2971	if [[ $host = lccrayf \|\| $host = lcxe6 \|\| $host = lcxt5m ]]
2972	then
2973
2974	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
2975
2976	elif [[ $host = lck \|\| $host = lckordi ]]
2977	then
2978
2979	mpiexec -n $ii ./a.out < runfile_atmos &
2980
2981	elif [[ $host = lckyu* ]]
2982	then
2983
2984	mpiexec -n $ii --stdin runfile_atmos ./a.out
2985
2986	elif [[ $host = lcmuk ]]
2987	then
2988
2989	mpiexec -machinefile hostfile -n $ii a.out < runfile_atmos
2990
2991	fi
2992	wait
2993
2994	fi
2995
2996	elif [[ $host = lckyoto ]]
2997	then
2998	set -xv
2999	export P4_RSHCOMMAND=plesh
3000	echo " P4_RSHCOMMAND = $P4_RSHCOMMAND"
3001	if [[ "$ENVIRONMENT" = BATCH ]]
3002	then
3003	if [[ "$cond2" = fujitsu ]]
3004	then
3005	mpiexec -n $numprocs ./a.out # for fujitsu-compiler
3006	elif [[ "cond2" = pgi ]]
3007	then
3008	mpirun -np $numprocs -machinefile ${QSUB_NODEINF} ./a.out
3009	else
3010	mpirun_rsh -np $numprocs -hostfile ${QSUB_NODEINF} MV2_USE_SRQ=0 ./a.out \|\| /bin/true
3011	fi
3012	else
3013	if [[ "$cond2" = "" ]]
3014	then
3015	mpiruni_rsh -np $numprocs ./a.out # for intel
3016	else
3017	mpirun -np $numprocs ./a.out
3018	fi
3019	fi
3020	set +xv
3021
3022	elif [[ $host = lctit ]]
3023	then
3024	export OMP_NUM_THREADS=$threads_per_task
3025	echo "OMP_NUM_THREADS=$OMP_NUM_THREADS"
3026	if [[ "$threads_per_task" != 1 ]]
3027	then
3028	export MV2_ENABLE_AFFINITY=0
3029	fi
3030	echo "----- PBS_NODEFILE content:"
3031	cat $PBS_NODEFILE
3032	echo "-----"
3033	(( ii = $numprocs / $threads_per_task ))
3034	echo "mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out"
3035	mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out
3036
3037	else
3038	mpprun -n $numprocs a.out
3039	fi
3040	else
3041	a.out
3042	fi
3043
3044	fi # end normal (non-debug) execution
3045
3046	fi # end explicit execute_command or host-specific execute actions
3047
3048	if [[ $? != 0 ]]
3049	then
3050
3051	# ABORT IN CASE OF RUNTIME ERRORS
3052	printf "\n +++ runtime error occured"
3053	locat=execution
3054	exit
3055
3056	else
3057
3058	printf "\n$dashes\n *** execution finished \n"
3059
3060	# STOP THE DVR STREAMING SERVER AND PROCESS THE DVR OUTPUT IN ORDER
3061	# TO CREAT DVRS- AND HTML-FILES CONTAINING ALL STREAMS
3062	if [[ "$dvrserver_id" != "" ]]
3063	then
3064	kill $dvrserver_id
3065	printf "\n *** dvr server with id=$dvrserver_id has been stopped"
3066
3067	# IF THERE IS A DIRECTORY, DATA HAVE BEEN OUTPUT BY THE
3068	# STREAMING SERVER. OTHERWISE, USER HAS CHOSEN dvrp_output=local
3069	if [[ -d DATA_DVR ]]
3070	then
3071
3072	# ADD THE CURRENT DVR CONFIGURATION FILE TO THE DVR OUTPUT
3073	# DIRECTORY
3074	cp .dvrserver.config DATA_DVR
3075
3076	# PROCESS THE DVR OUTPUT (OPTION -s FOR GENERATING
3077	# SEQUENCE MODE DATA TOO)
3078	process_dvr_output -d DATA_DVR -f $fname -s
3079
3080	else
3081
3082	# PROCESS THE LOCAL OUTPUT
3083	process_dvr_output -l -d DATA_DVR -f $fname
3084
3085	fi
3086
3087	elif [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
3088	then
3089
3090	# PROCESS DVR OUTPUT GENERATD IN LOCAL MODE (dvrp_output=local)
3091	process_dvr_output -l -d DATA_DVR -f $fname
3092
3093	fi
3094	fi
3095
3096
3097
3098	# CALL OF combine_plot_fields IN ORDER TO MERGE SINGLE FILES WRITTEN
3099	# BY EACH CORE INTO ONE FILE
3100	if [[ ! -f ${PALM_BIN}/combine_plot_fields${block}.x ]]
3101	then
3102	printf "\n\n\n +++ WARNING: no combine_plot_fields found for given block \"$cond1 $cond2\""
3103	printf "\n 2d- and/or 3d-data may be incomplete!"
3104	printf "\n Run \"mbuild -u -h $localhost\" to generate utilities for this block.\n"
3105	elif [[ "$combine_plot_fields" == true ]]
3106	then
3107	if [[ $localhost = lccrayh \|\| $localhost = lccrayb ]]
3108	then
3109	printf "\n\n\n *** post-processing: now executing \"aprun -n 1 -N 1 combine_plot_fields${block}.x\" ..."
3110	aprun -n 1 -N 1 combine_plot_fields${block}.x
3111	else
3112	printf "\n\n\n *** post-processing: now executing \"combine_plot_fields${block}.x\" ..."
3113	combine_plot_fields${block}.x
3114	fi
3115	else
3116
3117	# TEMPORARY SOLUTION TO SKIP combine_plot_fields. THIS IS REQUIRED IN CASE OF HUGE AMOUNT OF
3118	# DATA OUTPUT. TO DO: EXTEND THIS BRANCH BY CREATING A BATCH JOB for combine_plot_fields.
3119	# ??? koennen wir das streichen ???
3120	printf "\n\n\n *** post-processing: skipping combine_plot_fields (-Z option set) ..."
3121	fi
3122
3123
3124
3125	# EXECUTE OUTPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
3126	(( i = 0 ))
3127	while (( i < ioc ))
3128	do
3129	(( i = i + 1 ))
3130	if (( i == 1 ))
3131	then
3132	printf "\n\n *** execution of OUTPUT-commands:\n$dashes"
3133	fi
3134	printf "\n >>> ${out_command[$i]}"
3135	eval ${out_command[$i]}
3136	if (( i == ioc ))
3137	then
3138	printf "\n$dashes\n"
3139	fi
3140	done
3141
3142
3143	# IN TRACE-MODE PRINT CONTENTS OF THE CURRENT (TEMPORARY) WORKING DIRECTORY
3144	if [[ $do_trace = true ]]
3145	then
3146	printf "\n\n"
3147	ls -al
3148	fi
3149
3150
3151	# COPY LOCAL OUTPUT-FILES TO THEIR PERMANENT DESTINATIONS
3152	(( i = 0 ))
3153	while (( i < iout ))
3154	do
3155	(( i = i + 1 ))
3156	if (( i == 1 ))
3157	then
3158	printf "\n\n *** saving OUTPUT-files:"
3159
3160	# GET RUN NUMBER ASSIGNED BY PALM
3161	if [[ -f RUN_NUMBER ]]
3162	then
3163	read run_number < RUN_NUMBER
3164	printf "\n *** PALM generated run_number = "$run_number" will be used as unified cycle number for all output files"
3165	usecycle_option="-U $run_number"
3166	else
3167	run_number=0
3168	usecycle_option=""
3169	fi
3170	printf "\n$dashes"
3171	fi
3172
3173	# ADD CYCLE NUMBER TO FILENAME
3174	if [[ ! ( $fromhost != $localhost && ( "${actionout[$i]}" = tr \|\| "${actionout[$i]}" = tra \|\| "${actionout[$i]}" = trpe ) ) ]]
3175	then
3176
3177	# IN APPEND MODE, FILES KEEP THEIR CURRENT CYCLE NUMBER
3178	if [[ "${actionout[$i]}" != "a" ]]
3179	then
3180	# SET RUN NUMBER AS CYCLE NUMBER, IF THERE IS NOT A CONFLICT
3181	# WITH AN EXISTING CYCLE NUMBER
3182	if (( run_number >= cycnum[$i] ))
3183	then
3184	(( cycnum[$i] = run_number ))
3185	else
3186	if (( run_number > 0 ))
3187	then
3188	printf "\n --- INFORMATIVE: The following file cannot get a unified cycle number"
3189	fi
3190	fi
3191	fi
3192	if (( cycnum[$i] > 0 ))
3193	then
3194	pathout[$i]=${pathout[$i]}.${cycnum[$i]}
3195	fi
3196	fi
3197
3198	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
3199	files_for_pes=false; filetyp=file
3200	link_local_output=false
3201	if [[ "${actionout[$i]}" = pe && -n $numprocs ]]
3202	then
3203	files_for_pes=true; filetyp=directory
3204	actionout[$i]=""
3205	elif [[ "${actionout[$i]}" = pe && ! -n $numprocs ]]
3206	then
3207	actionout[$i]=""
3208	elif [[ "${actionout[$i]}" = lnpe && -n $numprocs ]]
3209	then
3210	files_for_pes=true; filetyp=directory
3211	link_local_output=true
3212	actionout[$i]=""
3213	elif [[ "${actionout[$i]}" = lnpe && ! -n $numprocs ]]
3214	then
3215	link_local_output
3216	actionout[$i]=""
3217	elif [[ "${actionout[$i]}" = trpe && -n $numprocs ]]
3218	then
3219	files_for_pes=true; filetyp=directory
3220	actionout[$i]="tr"
3221	elif [[ "${actionout[$i]}" = trpe && ! -n $numprocs ]]
3222	then
3223	actionout[$i]="tr"
3224	fi
3225
3226	if [[ ! -f ${localout[$i]} && $files_for_pes = false ]]
3227	then
3228	printf "\n +++ temporary OUTPUT-file ${localout[$i]} does not exist\n"
3229	elif [[ ! -d ${localout[$i]} && $files_for_pes = true ]]
3230	then
3231	printf "\n +++ temporary OUTPUT-file ${localout[$i]}/.... does not exist\n"
3232	else
3233
3234
3235	# COPY VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
3236	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
3237	if [[ "${actionout[$i]}" = tr ]]
3238	then
3239	if [[ $localhost != $fromhost ]]
3240	then
3241	if [[ $files_for_pes = false ]]
3242	then
3243	cps=""
3244	cst=""
3245	else
3246	cps=-c
3247	cst="/"
3248	fi
3249
3250	transfer_failed=false
3251	printf "\n >>> OUTPUT: ${localout[$i]}$cst by SCP to"
3252	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}$cst\n"
3253	if [[ $localhost = lccrayb ]]
3254	then
3255	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]}"
3256	elif [[ $localhost = lccrayh ]]
3257	then
3258	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]}"
3259	elif [[ $localhost = lcbullhh ]]
3260	then
3261	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]}"
3262	elif [[ $localhost = lcxe6 ]]
3263	then
3264	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]}"
3265	else
3266	batch_scp $PORTOPT $cps -b -m $usecycle_option -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
3267	fi
3268	[[ $? != 0 ]] && transfer_failed=true
3269
3270	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
3271	if [[ $transfer_failed = true ]]
3272	then
3273	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
3274	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
3275
3276	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
3277	eval local_catalog=${pathout[$i]}
3278	if [[ ! -d $local_catalog ]]
3279	then
3280	printf " *** local directory does not exist. Trying to create:\n"
3281	printf " $local_catalog \n"
3282	mkdir -p $local_catalog
3283	fi
3284	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
3285	transfer_problems=true
3286	fi
3287
3288	else
3289
3290	# UNSET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE COPIED ON THIS MACHINE
3291	actionout[$i]=""
3292	fi
3293	fi
3294
3295
3296	# APPEND VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
3297	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
3298	if [[ "${actionout[$i]}" = tra ]]
3299	then
3300	if [[ $localhost != $fromhost ]]
3301	then
3302	if [[ $localhost = ibmh ]]
3303	then
3304
3305	# TRANSFER IN SEPERATE JOB
3306	# FIRST COPY FILE TO TEMPORY DATA DIRECTORY
3307	[[ ! -d $tmp_data_catalog/TRANSFER ]] && mkdir -p $tmp_data_catalog/TRANSFER
3308	file_to_transfer=${fname}_${localout[$i]}_to_transfer_$kennung
3309	ln -f ${localout[$i]} $tmp_data_catalog/TRANSFER/$file_to_transfer
3310
3311	echo "set -x" > transfer_${localout[$i]}
3312	echo "cd $tmp_data_catalog/TRANSFER" >> transfer_${localout[$i]}
3313
3314	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP in seperate job to"
3315	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}"
3316	printf "\n or higher cycle\n"
3317	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]}
3318
3319	echo "[[ \$? = 0 ]] && rm $file_to_transfer" >> transfer_${localout[$i]}
3320
3321	if [[ $LOGNAME = b323013 ]]
3322	then
3323	subjob -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3324	else
3325	subjob -d -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3326	fi
3327
3328	else
3329
3330	# TRANSFER WITHIN THIS JOB
3331	transfer_failed=false
3332	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP to"
3333	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}\n"
3334	if [[ $localhost = lccrayb ]]
3335	then
3336	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]}"
3337	elif [[ $localhost = lccrayh ]]
3338	then
3339	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]}"
3340	elif [[ $localhost = lcxe6 ]]
3341	then
3342	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]}"
3343	else
3344	batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
3345	fi
3346	[[ $? != 0 ]] && transfer_failed=true
3347
3348	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
3349	if [[ $transfer_failed = true ]]
3350	then
3351	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
3352	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
3353
3354	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
3355	eval local_catalog=${pathout[$i]}
3356	if [[ ! -d $local_catalog ]]
3357	then
3358	printf " *** local directory does not exist. Trying to create:\n"
3359	printf " $local_catalog \n"
3360	mkdir -p $local_catalog
3361	fi
3362
3363	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
3364	transfer_problems=true
3365	fi
3366	fi
3367	else
3368
3369	# RESET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE APPENDED ON THIS MACHINE
3370	actionout[$i]=a
3371	fi
3372	fi
3373
3374
3375	# APPEND ON THIS MACHINE
3376	if [[ "${actionout[$i]}" = "a" ]]
3377	then
3378	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
3379	then
3380	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}.${extout[$i]}\n"
3381	cat ${localout[$i]} >> ${pathout[$i]}.${extout[$i]}
3382	else
3383	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}\n"
3384	cat ${localout[$i]} >> ${pathout[$i]}
3385	fi
3386	fi
3387
3388	# COPY ON THIS MACHINE
3389	# COPY HAS TO BE USED, BECAUSE MOVE DOES NOT WORK IF FILE-ORIGIN AND TARGET ARE
3390	# ON DIFFERENT FILE-SYSTEMS
3391	if [[ "${actionout[$i]}" = "" && $files_for_pes = false ]]
3392	then
3393
3394	# COPY IN CASE OF RUNS ON SINGLE CORES
3395	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
3396	then
3397	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}.${extout[$i]}\n"
3398	if [[ $link_local_output = true ]]
3399	then
3400	printf " file will be linked\n"
3401	ln -f ${localout[$i]} ${pathout[$i]}.${extout[$i]}
3402	fi
3403	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
3404	if [[ ! -f "${pathout[$i]}.${extout[$i]}" ]]
3405	then
3406	if [[ $link_local_output = true ]]
3407	then
3408	printf " --- WARNING: ln failed, using cp instead (might be time consuming...)\n"
3409	fi
3410	cp ${localout[$i]} ${pathout[$i]}.${extout[$i]}
3411	else
3412	printf "+++ no copy because file ${pathout[$i]}.${extout[$i]} exists\n"
3413	fi
3414	else
3415	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}\n"
3416	if [[ $link_local_output = true ]]
3417	then
3418	printf " file will be linked\n"
3419	ln -f ${localout[$i]} ${pathout[$i]}
3420	fi
3421	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
3422	if [[ ! -f "${pathout[$i]}" ]]
3423	then
3424	if [[ $link_local_output = true ]]
3425	then
3426	printf " --- WARNING: ln failed, using cp instead (might be time consuming...)\n"
3427	fi
3428	cp ${localout[$i]} ${pathout[$i]}
3429	else
3430	printf "+++ no copy because file ${pathout[$i]} exists\n"
3431	fi
3432	fi
3433
3434	elif [[ "${actionout[$i]}" = "" && $files_for_pes = true ]]
3435	then
3436
3437	# FILES FROM THE DIFFERENT CORES ARE MOVED WITH ln-COMMAND TO THE PERMANENT DIRECTORY
3438	# AS A FIRST STEP, THE PERMANENT DIRECTORY IS CREATED
3439	printf "\n >>> OUTPUT: ${localout[$i]}/_.... to ${pathout[$i]}\n"
3440	if [[ $link_local_output = true ]]
3441	then
3442	printf " files will be linked\n"
3443	mkdir ${pathout[$i]}
3444	cd ${localout[$i]}
3445	for file in $(ls *)
3446	do
3447	ln -f $file ${pathout[$i]}
3448	done >\|/dev/null 2>&1
3449	cd $TEMPDIR
3450	fi
3451
3452	# IF "ln -f" HAS FAILED OR IF "$link_local_output = false" DO A NORMAL COPY "cp -r"
3453	if [[ ! -f "${pathout[$i]}/_000000" ]]
3454	then
3455	if [[ $link_local_output = true ]]
3456	then
3457	printf " --- WARNING: ln failed, using cp instead (might be time consuming...)\n"
3458	fi
3459	cp -r ${localout[$i]}/* ${pathout[$i]}
3460	fi
3461
3462	fi
3463	fi
3464	done
3465	if (( i != 0 ))
3466	then
3467	if [[ $transfer_problems = true ]]
3468	then
3469	printf "\n$dashes\n *** OUTPUT-files saved"
3470	printf "\n +++ WARNING: some data transfers failed! \n"
3471	else
3472	printf "\n$dashes\n *** all OUTPUT-files saved \n"
3473	fi
3474	fi
3475
3476
3477	# IF REQUIRED, START A RESTART-JOB
3478	# FILE CONTINUE_RUN MUST HAVE BEEN CREATED BY THE EXECUTABLE (PALM)
3479	if [[ -f CONTINUE_RUN ]]
3480	then
3481
3482	# ADD RESTART-OPTIONS TO THE MRUN-CALL (IF THEY ARE NOT USED ALREADY):
3483	# -C TELLS MRUN THAT IT IS A RESTART-RUN
3484	# -v SILENT MODE WITHOUT INTERACTIVE QUERIES
3485	# -n BATCH-MODE (IMPORTANT ONLY IN CASE OF BATCH JOBS ON THE LOCAL MACHINE)
3486	[[ $(echo $mc \| grep -c "\-C") = 0 ]] && mc="$mc -C"
3487	[[ $(echo $mc \| grep -c "\-v") = 0 ]] && mc="$mc -v"
3488	[[ $(echo $mc \| grep -c "\-b") = 0 ]] && mc="$mc -b"
3489	if [[ $(echo $mc \| grep -c "#") != 0 ]]
3490	then
3491	mc=`echo $mc \| sed 's/#/f/g'`
3492	fi
3493
3494
3495	# START THE RESTART-JOB
3496	printf "\n\n *** initiating restart-run on \"$return_address\" using command:\n"
3497	echo " $mc"
3498	printf "\n$dashes\n"
3499	if [[ $localhost != $fromhost ]]
3500	then
3501
3502	if [[ $localhost = lcbullhh \|\| $localhost = lccrayb \|\| $localhost = lccrayh \|\| $localhost = ibmh \|\| $localhost = ibmkisti \|\| $localhost = ibmku \|\| $localhost = ibms \|\| $localhost = lceddy \|\| $localhost = lckyu* \|\| $localhost = lcxe6 \|\| $localhost = lcgeohu ]]
3503	then
3504	echo "*** ssh will be used to initiate restart-runs!"
3505	echo " return_address=\"$return_address\" "
3506	echo " return_username=\"$return_username\" "
3507	if [[ $(echo $return_address \| grep -c "130.75.105") = 1 ]]
3508	then
3509	if [[ $localhost = ibmh ]]
3510	then
3511	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\" "
3512	elif [[ $localhost = lcbullhh ]]
3513	then
3514	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\" "
3515	elif [[ $localhost = lccrayb ]]
3516	then
3517	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\" "
3518	elif [[ $localhost = lccrayh ]]
3519	then
3520	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\" "
3521	elif [[ $localhost = lcxe6 ]]
3522	then
3523	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\" "
3524	else
3525	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 "
3526	fi
3527	else
3528	if [[ $localhost = ibmkisti ]]
3529	then
3530	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\" "
3531	elif [[ $localhost = lceddy ]]
3532	then
3533	/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 "
3534	elif [[ $localhost = lcocean ]]
3535	then
3536	/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 "
3537	elif [[ $localhost = lccrayb ]]
3538	then
3539	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\" "
3540	elif [[ $localhost = lccrayh ]]
3541	then
3542	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\" "
3543	elif [[ $localhost = lccgeohu ]]
3544	then
3545	ssh $usern@cirrus.geo.hu-berlin.de "ssh $SSH_PORTOPT $return_address -l $return_username \"PATH=\\\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc\" "
3546	else
3547	ssh $SSH_PORTOPT $return_address -l $return_username "PATH=\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc "
3548	fi
3549	fi
3550	else
3551	printf "\n +++ no restart mechanism available for host \"$localhost\" "
3552	locat=restart; exit
3553	fi
3554
3555	# WAIT TO ALLOW THE RESTART-JOB TO BE QUEUED, BEFORE THE CURRENT JOB IS FINISHED
3556	if [[ $queue = special1q ]]
3557	then
3558	sleep 120
3559	else
3560	sleep 30
3561	fi
3562
3563	else
3564
3565	# JOBS RUNNING (AND STARTED) ON THE LOCAL MACHINE CAN DIRECTLY CALL MRUN (WITHOUT
3566	# USING SSH)
3567	cd $LOCAL_PWD
3568	if [[ $localhost = lckyuh ]]
3569	then
3570	printf "\n +++ WARNING: no restart mechanism available for host \"$localhost\" "
3571	printf "\n please restart job manually using command:\n"
3572	printf "\n \"$mc\" "
3573	else
3574	eval $mc # THE ' MUST BE EVALUATED
3575	fi
3576	cd - > /dev/null
3577	fi
3578	if [[ $localhost = lckyuh ]]
3579	then
3580	printf "\n$dashes\n *** restart-run to be initiated manually\n"
3581	else
3582	printf "\n$dashes\n *** restart-run initiated \n"
3583	fi
3584
3585
3586	# DELETE INPUT-(RESTART)FILES, WHICH HAVE BEEN FETCHED FROM THE TEMPORARY DATA
3587	# DIRECTORY, BACAUSE THEY ARE NOT REQUIRED BY THE RESTART-JOB.
3588	# THIS IS DONE IN ORDER TO AVOID EXCEEDING DISC QUOTAS OR DISC SPACE (RESTART-FILES
3589	# MAY BE VERY HUGE)
3590	(( i = 0 ))
3591	while (( i < iin ))
3592	do
3593	(( i = i + 1 ))
3594	if [[ "${got_tmp[$i]}" = true && $keep_data_from_previous_run = false ]]
3595	then
3596	rm -r ${absnamein[$i]}
3597	fi
3598	done
3599
3600	fi
3601
3602
3603
3604	# SEND EMAIL NOTIFICATION ABOUT THE FINISHED RUN
3605	if [[ "$email_notification" != "none" ]]
3606	then
3607
3608	if [[ $localhost != $fromhost ]]
3609	then
3610	if [[ -f CONTINUE_RUN ]]
3611	then
3612	echo "PALM restart run necessary" > email_text
3613	echo "description header of actual run:" >> email_text
3614	cat CONTINUE_RUN >> email_text
3615	echo "mrun-command to restart:" >> email_text
3616	echo "$mc" >> email_text
3617	else
3618	echo "PALM run with base filename \"$fname\" on host \"$localhost\" finished" > email_text
3619	fi
3620	mail $email_notification < email_text
3621	printf "\n *** email notification sent to \"$email_notification\" "
3622	fi
3623	fi
3624
3625
3626
3627	# ALL ACTIONS FINISHED, TEMPORARY WORKING-DIRECTORY CAN BE DELETED
3628	cd $HOME
3629	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
3630
3631	else
3632
3633	# PREPARING ACTIONS,
3634	# IF A BATCH-JOB IS TO BE GENERATED AND STARTED ON A REMOTE-MACHINE GERECHNET
3635
3636	# BUILD THE MRUN-COMMAND TO BE CALLED IN THE BATCH-JOB ON THE REMOTE-MACHINE
3637	mrun_com="$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 $remote_username"
3638	[[ "$global_revision" != "" ]] && mrun_com=${mrun_com}" -G \"$global_revision\""
3639	[[ $group_number != none ]] && mrun_com=${mrun_com}" -g $group_number"
3640	[[ $do_compile = true ]] && mrun_com=${mrun_com}" -s \"$source_list\""
3641	[[ "$input_list" != "" ]] && mrun_com=${mrun_com}" -i \"$input_list\""
3642	[[ $keep_data_from_previous_run = true ]] && mrun_com=${mrun_com}" -k"
3643	[[ "$additional_conditions" != "" ]] && mrun_com=${mrun_com}" -K \"$additional_conditions\""
3644	[[ "$output_list" != "" ]] && mrun_com=${mrun_com}" -o \"$output_list\""
3645	[[ "$read_from_config" = false ]] && mrun_com=${mrun_com}" -S"
3646	[[ $do_trace = true ]] && mrun_com=${mrun_com}" -x"
3647	[[ "$numprocs" != "" ]] && mrun_com=${mrun_com}" -X $numprocs"
3648	if [[ $use_openmp = true ]]
3649	then
3650	mrun_com=${mrun_com}" -O $threads_per_task"
3651	fi
3652	[[ "$tasks_per_node" != "" ]] && mrun_com=${mrun_com}" -T $tasks_per_node"
3653	[[ $package_list != "" ]] && mrun_com=${mrun_com}" -p \"$package_list\""
3654	[[ $return_password != "" ]] && mrun_com=${mrun_com}" -P $return_password"
3655	[[ $delete_temporary_catalog = false ]] && mrun_com=${mrun_com}" -B"
3656	[[ $node_usage != default && "$(echo $node_usage \| cut -c1-3)" != "sla" && $node_usage != novice ]] && mrun_com=${mrun_com}" -n $node_usage"
3657	[[ "$ocean_file_appendix" = true ]] && mrun_com=${mrun_com}" -y"
3658	[[ $run_coupled_model = true ]] && mrun_com=${mrun_com}" -Y \"$coupled_dist\""
3659	[[ "$check_namelist_files" = false ]] && mrun_com=${mrun_com}" -z"
3660	[[ "$combine_plot_fields" = false ]] && mrun_com=${mrun_com}" -Z"
3661	[[ "$max_par_io_str" != "" ]] && mrun_com=${mrun_com}" -w $max_par_io_str"
3662	if [[ $do_remote = true ]]
3663	then
3664	printf "\n>>>> MRUN-command on execution host:\n>>>> $mrun_com \n"
3665	fi
3666
3667
3668	# CREATE EXECUTABLE FOR BATCH JOB
3669	if [[ $create_executable_for_batch = true && $restart_run != true ]]
3670	then
3671
3672	printf "\n *** creating the executable for batch job\n"
3673
3674	# METHOD ONLY WORKS FOR BATCH JOBS ON LOCAL HOSTS
3675	if [[ $host != $localhost ]]
3676	then
3677	printf "\n +++ creation of executables is only allowed for batch jobs on local hosts."
3678	printf "\n Please set create_executable_for_batch = false in the config-file.\n"
3679	locat=create_executable; exit
3680	fi
3681
3682	mkdir $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
3683	cd $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
3684
3685	cp $make_depository .
3686	tar -xf $make_depository > /dev/null 2>&1
3687	cp ../* . > /dev/null 2>&1
3688
3689	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
3690
3691	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
3692	then
3693	printf "\n +++ error occured while compiling or linking"
3694	locat=compile
3695	exit
3696	fi
3697
3698	mv a.out ..
3699	cd - > /dev/null 2>&1
3700	rm -rf $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
3701
3702	printf " *** executable created in \"$working_directory/SOURCES_FOR_RUN_${fname}\"\n "
3703
3704	fi
3705
3706
3707	# BUILD THE JOB-SCRIPTS ON FILE jobfile
3708	jobfile=jobfile.$RANDOM
3709
3710
3711	# CREATE TEMPORARY DIRECTORY AND SWITCH TO IT
3712	echo "mkdir $TEMPDIR" >> $jobfile
3713	echo "cd $TEMPDIR" >> $jobfile
3714
3715
3716	# ACTIVATE ERROR-TRACEBACK
3717	if [[ $do_trace = true ]]
3718	then
3719	echo "set -x" >> $jobfile
3720	else
3721	echo "set +vx" >> $jobfile
3722	fi
3723
3724
3725	# INITIALIZE THE ENVIRONMENT AND LOAD MODULES
3726	if [[ "$init_cmds" != "" ]]
3727	then
3728	echo "$init_cmds" >> $jobfile
3729	fi
3730	if [[ "$module_calls" != "" ]]
3731	then
3732	echo "$module_calls" >> $jobfile
3733	fi
3734
3735
3736	# PROVIDE SOURCE-CODE FILES, MRUN-SCRIPT AND CONFIGURATION-FILE FOR THE JOB
3737	# then-CLAUSE: FILES ARE COLLECTED IN THE SOURCES_FOR_RUN_... DIRECTORY ON THE LOCAL HOST,
3738	# WHICH IS THEN FETCHED FROM THE BATCH-JOB BY USING cp/scp
3739	# THE SOURCE-CODE FILES ALREADY EXIST IN THIS DIRECTORY
3740	# else-CLAUSE: FILE-CONTENTS ARE PUT INTO THE JOB-FILE AS HERE-DOCUMENTS
3741	# THIS MAY CREATE A QUITE LARGE JOB-FILE, WHICH CAN CAUSE PROBLEMS WITH SOME
3742	# QUEUEING-SYSTEMS
3743	if [[ $host = ibmkisti \|\| $host = lcbullhh \|\| $host = lccrayb \|\| $host = lccrayf \|\| $host = lccrayh \|\| $host = lcocean \|\| $host = lcgeohu ]]
3744	then
3745
3746	# COPY CONFIGURATION-FILE AND MRUN-SCRIPT INTO THE SOURCES_FOR_RUN... DIRECTORY
3747	if [[ $restart_run != true ]]
3748	then
3749	cp $config_file $working_directory/SOURCES_FOR_RUN_$fname
3750	cp ${PALM_BIN}/$mrun_script_name $working_directory/SOURCES_FOR_RUN_$fname
3751	fi
3752
3753	# COPY THE SOURCES_FOR_RUN... DIRECTORY FROM THE LOCAL HOST TO THE JOB VIA scp
3754	# (then-CLAUSE: JOBS ON THE LOCAL HOST CAN JUST USE cp)
3755	echo "set -x" >> $jobfile
3756	if [[ $host = $localhost ]]
3757	then
3758	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
3759	# FILES ON CRAY XC30 SYSTEMS (CSC HELSINKI), rsync IS USED INSTEAD
3760	if [[ $(echo $host \| cut -c1-6) = lccray ]]
3761	then
3762	echo "rsync -av -t $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
3763	else
3764	echo "cp -r $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
3765	fi
3766
3767	else
3768	if [[ $host = ibmkisti ]]
3769	then
3770	# ON KISTI'S IBM FIREWALL IS ONLY OPENED ON INTERACTIVE NODE
3771	echo "localdir=\`pwd\`" >> $jobfile
3772	echo "ssh $SSH_PORTOPT $remote_username@gaiad \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
3773	elif [[ $host = lcbullhh ]]
3774	then
3775	echo "localdir=\`pwd\`" >> $jobfile
3776	echo "ssh $SSH_PORTOPT $remote_username@mlogin101 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
3777
3778	elif [[ $host = lccrayb ]]
3779	then
3780	echo "localdir=\`pwd\`" >> $jobfile
3781	echo "ssh $SSH_PORTOPT $remote_username@blogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
3782	elif [[ $host = lccrayh ]]
3783	then
3784	echo "localdir=\`pwd\`" >> $jobfile
3785	echo "ssh $SSH_PORTOPT $remote_username@hlogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
3786
3787	else
3788	echo "scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
3789	fi
3790	fi
3791	echo "export SOURCES_COMPLETE=true" >> $jobfile
3792
3793	# MOVE MRUN-SCRIPT AND CONFIGURATION-FILE FROM THE SOURCES_FOR_RUN... DIRECTORY TO THE
3794	# WORKING DIRECTORY OF THE JOB
3795	echo "mv SOURCES_FOR_RUN_$fname/$config_file . " >> $jobfile
3796	echo "mv SOURCES_FOR_RUN_$fname/$mrun_script_name . " >> $jobfile
3797	echo "chmod u+rwx $mrun_script_name" >> $jobfile
3798	echo "execute_mrun=true" >> $jobfile
3799	echo " " >> $jobfile
3800
3801	else
3802
3803	# PROVIDE SOURCE-CODE FILES AND MAKEFILE AS HERE DOCUMENT
3804	if [[ $do_compile = true ]]
3805	then
3806
3807	source_catalog=SOURCES_FOR_RUN_$fname
3808
3809	# CREATE SOURCES_FOR_RUN... DIRECTORY TO STORE THE SOURCE CODE FILES AND THE MAKEFILE
3810	echo "mkdir SOURCES_FOR_RUN_$fname" >> $jobfile
3811	echo "export SOURCES_COMPLETE=true" >> $jobfile
3812	echo "cd SOURCES_FOR_RUN_$fname" >> $jobfile
3813
3814	for filename in $source_list
3815	do
3816	# BACKSLASH IS USED FOR MASKING
3817	echo "cat > $filename << \"%END%\"" >> $jobfile
3818	cat $source_catalog/$filename >> $jobfile
3819	echo " " >> $jobfile
3820	echo "%END%" >> $jobfile
3821	echo " " >> $jobfile
3822	done
3823
3824	# BACKSLASH IS USED FOR MASKING
3825	echo "cat > Makefile << \"%END%\"" >> $jobfile
3826	cat $source_catalog/Makefile >> $jobfile
3827	echo " " >> $jobfile
3828	echo "%END%" >> $jobfile
3829	echo " " >> $jobfile
3830
3831	echo "cd - > /dev/null" >> $jobfile
3832
3833	fi
3834
3835
3836	# PROVIDE THE CONFIGURATION-FILE AS HERE-DOCUMENT
3837	# BACKSLASH IS USED FOR MASKING
3838	# LINES WITH #$ IN THE CONFIGURATION-FILE, COMING FROM THE SVN KEYWORD SUBSTITUTION,
3839	# ARE REMOVED FROM THE FILE IN ORDER TO AVOID PROBLEMS WITH THE SGE BATCH SYSTEM
3840	echo "cat > $config_file << \"%END%\"" >> $jobfile
3841	if [[ $host = lckyuh ]]
3842	then
3843	# NO CROSS-COMPILER ON COMPUTE NODE
3844	sed 's/frtpx/frt/g' $config_file >> $jobfile
3845	else
3846	sed 's/#$.*//g' $config_file >> $jobfile
3847	fi
3848	echo "%END%" >> $jobfile
3849	echo " " >> $jobfile
3850
3851
3852	# PROVIDE THE MRUN-SCRIPTS AS HERE-DOCUMENT
3853	# BACKSLASH IS USED FOR MASKING
3854	echo "cat > $mrun_script_name <<\"%END%\"" >> $jobfile
3855	if [[ $host = lckyuh ]]
3856	then
3857	sed 's/\/bin\/ksh/\/bin\/bash/g' ${PALM_BIN}/$mrun_script_name >> $jobfile
3858	else
3859	cat ${PALM_BIN}/$mrun_script_name >> $jobfile
3860	fi
3861	echo "%END%" >> $jobfile
3862	echo "chmod u+x $mrun_script_name" >> $jobfile
3863	echo "execute_mrun=true" >> $jobfile
3864	echo " " >> $jobfile
3865
3866	fi
3867
3868
3869	# GET REQUIRED INPUT-FILES BY SCP OR BY SENDING THEM WITH THE JOB AS HERE-DOCUMENT
3870	# PUT THESE FILES INTO THE USER'S RESPECTIVE PERMANENT DIRECTORIES ON THE REMOTE-HOST
3871	# IF THE DIRECTORIES DO NOT EXIST, TRY TO CREATE THEM
3872	if [[ $do_remote = true ]]
3873	then
3874	(( i = 0 ))
3875	while (( i < iin ))
3876	do
3877	(( i = i + 1 ))
3878	echo "[[ ! -d ${pathin[$i]} ]] && mkdir -p ${pathin[$i]}" >> $jobfile
3879	if [[ "${transin[$i]}" = job ]]
3880	then
3881	echo "cat > ${remotepathin[$i]} <<\"%END%\"" >> $jobfile
3882	eval cat ${pathin[$i]}/${frelin[$i]} >> $jobfile
3883	echo " " >> $jobfile
3884	echo "%END%" >> $jobfile
3885	else
3886	echo "batch_scp $PORTOPT -b -o -g -s -u $return_username $return_address ${remotepathin[$i]} \"${pathin[$i]}\" ${frelin[$i]}" >> $jobfile
3887	fi
3888
3889	# CHECK, IF FILE COULD BE CREATED
3890	echo "if [[ \$? = 1 ]]" >> $jobfile
3891	echo "then" >> $jobfile
3892	echo " echo \" \" " >> $jobfile
3893	echo " echo \"+++ file ${remotepathin[$i]} could not be created\" " >> $jobfile
3894	echo " echo \" please check, if directory exists on $host!\" " >> $jobfile
3895	echo " echo \"+++ MRUN will not be continued\" " >> $jobfile
3896	echo " execute_mrun=false" >> $jobfile
3897	echo "fi" >> $jobfile
3898	done
3899	fi
3900
3901	# PROVIDE NAME OF THE CURRENT WORKING-DIRECTORY ON THE LOCAL MACHINE (FROM WHERE THE JOB IS
3902	# STARTED) BY SETTING AN ENVIRONMENT-VARIABLE. THIS INFORMATION IS USED IN THE JOB BY MRUN
3903	# IN CASE THAT RESTART-RUNS HAVE TO BE GENERATED
3904	echo "LOCAL_PWD=$working_directory" >> $jobfile
3905	echo "export LOCAL_PWD" >> $jobfile
3906
3907	# PROVIDE THE PATH OF THE LOCAL MRUN-SCRIPT FOR THE SAME REASON
3908	echo "LOCAL_MRUN_PATH=$PALM_BIN" >> $jobfile
3909	echo "export LOCAL_MRUN_PATH" >> $jobfile
3910
3911	# lceddy ALSO REQUIRES TO PROVIDE PATH FOR THE PALM-SCRIPTS
3912	if [[ $host = lceddy \|\| $localhost = lceddy ]]
3913	then
3914	echo "export PALM_BIN=$PALM_BIN" \| sed -e 's:'$HOME':$HOME:' >> $jobfile
3915	echo "export PATH=\$PATH:\$PALM_BIN" >> $jobfile
3916	fi
3917
3918	# CALL MRUN WITHIN THE JOB (SETTING QUEUE IS A WORKAROUND FOR ibmkisti)
3919	# AS FINAL ACTION, REMOVE THE TEMPORARY DIRECTORY CREATED AT THE BEGINNING OF THE JOB
3920	echo "set -x" >> $jobfile
3921	echo "queue=$queue" >> $jobfile
3922	echo "[[ \$execute_mrun = true ]] && ./$mrun_com" >> $jobfile
3923	echo 'ls -al; echo `pwd`' >> $jobfile
3924	echo "cd \$HOME" >> $jobfile
3925	echo "rm -rf $TEMPDIR" >> $jobfile
3926
3927
3928
3929
3930	# START THE JOB USING SUBJOB-COMMAND
3931	if [[ $silent = false ]]
3932	then
3933	printf "\n "
3934	else
3935	printf "\n\n"
3936	fi
3937
3938	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
3939	rm -rf $jobfile
3940
3941
3942	fi # END OF REMOTE-PART

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