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source: palm/trunk/SCRIPTS/mrun @ 2290

Last change on this file since 2290 was 2290, checked in by raasch, 7 years ago
further test output removed
Property svn:keywords set to `Id Rev`
File size: 142.4 KB

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1	#!/bin/bash
2
3	# mrun - script for running PALM jobs
4
5	#--------------------------------------------------------------------------------#
6	# This file is part of PALM.
7	#
8	# PALM is free software: you can redistribute it and/or modify it under the terms
9	# of the GNU General Public License as published by the Free Software Foundation,
10	# either version 3 of the License, or (at your option) any later version.
11	#
12	# PALM is distributed in the hope that it will be useful, but WITHOUT ANY
13	# WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR
14	# A PARTICULAR PURPOSE. See the GNU General Public License for more details.
15	#
16	# You should have received a copy of the GNU General Public License along with
17	# PALM. If not, see <http://www.gnu.org/licenses/>.
18	#
19	# Copyright 1997-2015 Leibniz Universitaet Hannover
20	#--------------------------------------------------------------------------------#
21	#
22	# Current revisions:
23	# ------------------
24	#
25	#
26	# Former revisions:
27	# -----------------
28	# $Id: mrun 2290 2017-06-19 11:03:06Z raasch $
29	# further test output removed
30	#
31	# 2286 2017-06-15 13:31:57Z raasch
32	# test output for cycle number removed
33	#
34	# 2268 2017-06-09 10:34:09Z raasch
35	# bugfix for calculating cycle numbers for output files in r2261
36	#
37	# 2262 2017-06-08 14:52:23Z raasch
38	# bugfix for r2261
39	#
40	# 2261 2017-06-08 14:25:57Z raasch
41	# unified cycle numbers for output files are used,
42	# paths and filenames are allowed to contain arbitrary numbers of dots ".",
43	# creation of file OUTPUT_FILE_CONNECTIONS removed,
44	# archive feature completely removed from the script,
45	# nech related parts completely removed
46	#
47	# 2257 2017-06-07 14:07:05Z witha
48	# adjustments for lceddy, removed lcflow-specific code
49	#
50	# 2186 2017-03-21 05:36:31Z raasch
51	#
52	# 2185 2017-03-21 05:09:29Z raasch
53	# adjustment for lykyo*-hosts (PJM_ENVIRONMENT defines BATCH)
54	#
55	# 2148 2017-02-09 16:56:42Z scharf
56	# changed allocation of resources for lcbullhh in srun command
57	#
58	# 2141 2017-02-06 10:19:32Z gronemeier
59	# made check for existing files language independent
60	#
61	# 1944 2016-06-15 06:29:00Z raasch
62	# adjustments for using HLRN ssh-keys
63	#
64	# 1940 2016-06-14 05:15:20Z raasch $
65	# adjustments for lckiaps
66	#
67	# 1866 2016-04-15 06:50:59Z raasch
68	# adjusted for lcocean
69	#
70	# 1841 2016-04-07 19:14:06Z raasch
71	# script now running under bash
72	#
73	# 1804 2016-04-05 16:30:18Z maronga
74	# test: implementing an execute mechanism where the execute command is given in the
75	# configuration file
76	# ROPTS removed from execution commands
77	# Warnings about missing optional files or user code changed to informative messages
78	# Removed parameter file check
79	#
80	# 1755 2016-02-22 13:53:39Z maronga
81	# Minor bugfix to last commit
82	#
83	# 1753 2016-02-22 13:49:49Z maronga
84	# Bugfix: use random job number when PBS job nummer retrieval fails on lccray*
85	#
86	# 1622 2015-07-20 06:21:36Z heinze
87	# bugfix for Mistral (lcbullhh)
88	#
89	# 1621 2015-07-17 11:39:33Z heinze
90	# adjustments for Mistral at DKRZ Hamburg (lcbullhh)
91	#
92	# 1609 2015-07-03 15:37:58Z maronga
93	# Modified the random number of the temporary working directory to match the
94	# queuing system number on HLRN-III (lccray*).
95	#
96	# 1604 2015-06-23 15:48:03Z suehring
97	# Enable coupled runs for lcmuk
98	#
99	# 1598 2015-05-29 06:45:40Z raasch
100	# bugfix for creating hostfile and total number of MPI tasks if run in openmp-mode on one node
101	#
102	# 1549 2015-01-30 14:26:16Z suehring
103	# Enable interactive debug sessions with allinea debugger
104	#
105	# 1547 2015-01-29 15:09:12Z witha
106	# adjustments for ForWind computing cluster (lcflow)
107	#
108	# 1491 2014-11-12 08:12:57Z heinze
109	# correct setting of batch_job allowed for ibm-machines
110	#
111	# 1468 2014-09-24 14:06:57Z maronga
112	# Typo removed (addres->address)
113	# Bugfix: returning files to IMUK via ssh did not work for lccrayh and lcycrayb
114	# Added support for restart runs (remote) for lcxe6
115	#
116	# 1442 2014-07-28 07:09:10Z raasch
117	# default queues for HLRN-III (lccrayb/lccrayh) defined
118	#
119	# 1422 2014-07-02 10:01:25Z kanani
120	# automatic restarts enabled for lccrayb,
121	# adjustment of path to compilervars.sh at IMUK (see automatic restarts)
122	#
123	# 1420 2014-06-10 06:24:14Z raasch
124	# -j1 option added to aprung command for lccrayf (CSC)
125	#
126	# 1402 2014-05-09 14:25:13Z raasch
127	# batch_job added to envpar-NAMELIST
128	#
129	# 1357 2014-04-11 15:02:03Z witha
130	# adjustments for lccrayh (automatic restarts on lccrayh outside of IMUK are now
131	# possible)
132	#
133	# 1320 2014-03-20 08:40:49Z raasch
134	# check namelist file set false by default
135	#
136	# 1304 2014-03-12 10:29:42Z raasch
137	# ulimit option changed from -Ss to -s
138	#
139	# bugfix: missing "fi" in r1289
140	#
141	# 1289 2014-03-04 07:12:34Z raasch
142	# comments translated to English
143	# necriam-, fimm-, ibmy-, and sgi-specific code removed
144	# export of variables for palm and interpret_config removed
145	#
146	# 1281 2014-02-01 07:55:49Z raasch
147	# rsync-copy restricted to Cray machines, since command is unavailable on some
148	# other systems
149	#
150	# 1279 2014-01-28 12:10:14Z raasch
151	# tasks_per_node must not be an integral divisor of numprocs any more. This was done
152	# in order to remove annoying restrictions concerning the number of processors which
153	# appear on machines with larger nodes (e.g. containing 24 cores). Now without this
154	# restriction, one of the nodes will be filled with less than the given number of
155	# tasks per node. A respective warning is given.
156	#
157	# 1274 2014-01-09 13:14:54Z heinze
158	# adjustments for lccrayh
159	#
160	# 1272 2014-01-08 10:19:32Z witha
161	# small adjustment for lcflow
162	#
163	# 1270 2013-12-16 11:05:01Z fricke
164	# call of combine_plot_fields adjusted for lccrayb/lccrayh
165	#
166	# 1255 2013-11-07 14:43:35Z raasch
167	# further adjustments for lccrayb remote access
168	#
169	# 1241 2013-10-30 11:36:58Z heinze
170	# Enable use of nudging input and input of large scale forcing from
171	# external files
172	#
173	# 1229 2013-09-20 06:55:19Z raasch
174	# further adjustments for lccrayb
175	#
176	# 1224 2013-09-16 07:27:23Z raasch
177	# first adjustments for lccrayb
178	#
179	# 1210 2013-08-14 10:58:20Z raasch
180	# fftw support added
181	#
182	# 1201 2013-07-10 16:17:59Z witha
183	# adjustments for Forwind cluster (lcflow)
184	#
185	# 1199 2013-07-05 14:52:22Z raasch
186	# adjustments for CSC Helsinki (lccrayf),
187	# executables for batch jobs can be created in advance, in order to avoid calling
188	# the compiler within the batch job (only works if batch jobs are submitted on
189	# local host)
190	#
191	# 1190 2013-06-25 09:39:21Z heinze
192	# enable use of automatic restarts for ibmh
193	# use of cluster/express queue enabled (ibmh)
194	#
195	# 1124 2013-04-09 15:46:52Z raasch
196	# variable "memory" is exported via typeset option -x, because otherwise an unknown
197	# side effect may lead to data loss while getopts is reading the script-option arguments
198	#
199	# 1122 2013-04-09 08:37:16Z heinze
200	# Bugfix: change type of variable last_char
201	#
202	# 1119 2013-04-05 15:11:19Z raasch
203	# Bugfix for setting -T option for subjob
204	#
205	# 1108 2013-03-05 07:03:32Z raasch
206	# bugfix for coupled runs on lckyut/lckyuh
207	#
208	# 1106 2013-03-04 05:31:38Z raasch
209	# --stdin argument for mpiexec on lckyuh
210	# -y and -Y settings output to header
211	#
212	# 1103 2013-02-20 02:15:53Z raasch
213	# default script runs again under ksh, because of unsolved problems with read
214	# from stdin: when bash script is called from a ksh, message "read error: 0:
215	# Resource temporarily unavailable" appears and script does not stop,
216	# further bash compatibility adjustments,
217	# shebang line replaced by /bin/bash when running jobs on lckyuh; no restarts
218	# on lckyuh, but mrun does not terminate and issues a warning instead
219	#
220	# 1101 2013-02-17 10:20:21Z raasch
221	# script now running under bash instead of ksh, which required small adjustments
222	# (output formatting with printf instead "typeset -L/-R", print replaced by echo,
223	# read from stdin),
224	# cross compilername on lckyuh compute nodes replaced by real compiler name
225	#
226	# 1099 2013-02-10 01:47:43Z raasch
227	# adjustments for Kyushu-University computing center (lckyuh - hayaka)
228	# and for Forwind cluster (lcflow)
229	# small further adjustments for lckyut
230	#
231	# 1094 2013-02-03 01:52:12Z raasch
232	# explicit ssh/scp port can be set in config file with environment variable
233	# scp_port. This port is handled to all ssh/scp/batch_scp calls.
234	# decalpha parts (yonsei) removed
235	#
236	# 2013-02-02 07:06:13Z raasch
237	# adjustments for Kyushu-University computing center (lckyut - tatara)
238	#
239	# 1083 2013-01-04 10:22:09Z maronga
240	# bugfix in parameter file check (read %cpp_options was missing)
241	#
242	# 1069 2012-11-28 16:18:43Z maronga
243	# bugfix: coupling mode was always set to mpi2, typos removed
244	#
245	# 1058 2012-11-21 07:00:35Z raasch
246	# Intel inspector (inspxe) is given the number of PEs instead of the number of
247	# nodes
248	#
249	# 1046 2012-11-09 14:38:45Z maronga
250	# code put under GPL (PALM 3.9)
251	#
252	# 21/03/94 - Siggi - first version finished
253	# 03/03/94 - Siggi - script development started
254	#
255	#--------------------------------------------------------------------------------#
256	# mrun - script for running PALM jobs
257	#--------------------------------------------------------------------------------#
258
259
260
261	# DECLARATION OF VARIABLES AND THEIR DEFUALT VALUES
262
263	set +o allexport # SUPPRESS EXPORT OF ALL VARIABLES, SINCE IN THE PAST THIS
264	# LES TO PROBLEMS IN ROUTINES CALLED BY MRUN
265	# (TOO MANY ARGUMENTS - PROBLEM)
266	set +o noclobber # EXISTING FILES ARE ALLOWED TO BE OVERWRITTEN
267
268	AddFilenames=""
269	additional_conditions=""
270	add_source_path=""
271	afname=""
272	check_namelist_files=false
273	combine_plot_fields=true
274	compiler_name=""
275	cond1=""
276	cond2=""
277	config_file=.mrun.config
278	coupled_dist=""
279	coupled_mode="mpi1"
280	cpp_opts=""
281	cpp_options=""
282	cpumax=0
283	cpurest=0
284	create_executable_for_batch=false
285	delete_temporary_catalog=true
286	do_batch=false
287	do_compile=true
288	do_remote=false
289	do_stagein=true
290	do_stageout=true
291	do_trace=false
292	email_notification="none"
293	exclude=""
294	executable=""
295	execute_command="none"
296	execution_error=false
297	fftw_inc=""
298	fftw_lib=""
299	fftw_support=false
300	fname=test
301	fromhost=""
302	global_revision=""
303	group_number=none
304	host=""
305	host_file=""
306	hp=""
307	input_list=""
308	interpreted_config_file=""
309	job_catalog="~/job_queue"
310	job_on_file=""
311	keep_data_from_previous_run=false
312	link_local_input=false
313	link_local_output=false
314	localhost_realname=$(hostname)
315	local_dvrserver_running=.FALSE.
316	locat=normal
317	mainprog=""
318	makefile=""
319	max_par_io_str=""
320	mc=$0
321	while [[ $(echo $mc \| grep -c "/") != 0 ]]
322	do
323	mc=`echo $mc \| cut -f2- -d"/"`
324	done
325	module_calls=""
326	mrun_script_name=$mc
327	netcdf_inc=""
328	netcdf_lib=""
329	netcdf_support=false
330	node_usage=default
331	numprocs=""
332	numprocs_atmos=0
333	numprocs_ocean=0
334	OOPT=""
335	openmp=false
336	output_list=""
337	package_list=""
338	queue=none
339	read_from_config=""
340	restart_run=false
341	if [[ `hostname` = rte10 ]]
342	then
343	return_address=133.5.185.60
344	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
345	elif [[ `hostname` = climate0 ]]
346	then
347	return_address=165.132.26.68
348	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
349	elif [[ `hostname` = "schultzl-Latitude-E6540" ]]
350	then
351	return_address="schultzl-Latitude-E6540"
352	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
353	elif [[ `hostname` = urban00 ]]
354	then
355	return_address=147.46.30.151
356	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
357	else
358	return_address=$(nslookup `hostname` 2>&1 \| grep "Address:" \| tail -1 \| awk '{print $2}')
359	fi
360	return_password=""
361	return_username=$LOGNAME
362	remotecall=false
363	remote_username=""
364	run_coupled_model=false
365	run_mode=""
366	dashes=" ----------------------------------------------------------------------------"
367	silent=false
368	source_list=""
369	source_path=SOURCE
370	tasks_per_node=""
371	threads_per_task=1
372	tmpcreate=false
373	tmp_data_catalog=""
374	transfer_problems=false
375	usern=$LOGNAME
376	use_openmp=false
377	version="MRUN 2.1 Rev$Rev: 2290 $"
378	working_directory=`pwd`
379	TOPT=""
380	XOPT=""
381	zeit=$( date \| cut -c 12-19 )
382
383	typeset -i iec=0 iic=0 iin=0 ioc=0 iout=0 stagein_anz=0 stageout_anz=0
384	typeset -x -i memory=0 # HAS TO BE EXPORTED HERE, OTHERWISE AN UNKNOWN SIDE
385	# SIDE EFFECT MAY CAUSE DATA LOSS WHEN GETOPTS IS READING THE
386	# SCRIPT-OPTION ARGUMENTS
387	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
388
389	# ERROR HANDLING IN CASE OF EXIT
390	trap 'rm -rf $working_directory/tmp_mrun
391	if [[ $locat != normal && $locat != control_c ]]
392	then
393
394	# CARRY OUT ERROR-COMMANDS GIVEN IN THE CONFIGURATION FILE (EC:)
395	(( i = 0 ))
396	while (( i < iec ))
397	do
398	(( i = i + 1 ))
399	printf "\n *** Execution of ERROR-command:\n"
400	printf " >>> ${err_command[$i]}\n"
401	eval ${err_command[$i]}
402	done
403	if [[ -n $interpreted_config_file ]]
404	then
405	rm -rf $interpreted_config_file
406	fi
407	if [[ -n .mrun_environment ]]
408	then
409	rm -rf .mrun_environment
410	fi
411	if [[ $tmpcreate = true ]]
412	then
413	# printf "\n *** Contents of \"$TEMPDIR\":\n"
414	# ls -al; cd
415	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
416	fi
417	if [[ "$dvrserver_id" != "" ]]
418	then
419	echo "+++ killing dvrserver_id=$dvrserver_id"
420	kill $dvrserver_id
421	fi
422	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
423	then
424	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
425	fi
426	printf "\n\n+++ MRUN killed \n\n"
427	elif [[ $locat != control_c ]]
428	then
429	printf "\n\n --> all actions finished\n\n"
430	printf " Bye, bye $usern !!\n\n"
431	fi' exit
432
433
434	# ACTIONS IN CASE OF TERMINAL-BREAK (CONTROL-C):
435	trap 'rm -rf $working_directory/tmp_mrun
436	rm -rf $working_directory/tmp_check_namelist_files
437	[[ $tmpcreate = true ]] && (cd; rm -rf $TEMPDIR)
438	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
439	then
440	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
441	fi
442	if [[ "$dvrserver_id" != "" ]]
443	then
444	echo "+++ killing dvrserver_id=$dvrserver_id"
445	kill $dvrserver_id
446	fi
447	printf "\n+++ MRUN killed by \"^C\" \n\n"
448	locat=control_c
449	exit
450	' 2
451
452
453	# CHECK IF THE PATH FOR THE PALM BINARIES (SCRIPTS+UTILITY-PROGRAMS) HAS
454	# BEEN SET
455	if [[ "$PALM_BIN" = "" ]]
456	then
457	printf "\n +++ environment variable PALM_BIN has not been set"
458	printf "\n please set it to the directory where the PALM scripts are located"
459	locat=palm_bin; exit
460	fi
461	export PATH=$PALM_BIN:$PATH
462
463
464
465	# READ SHELLSCRIPT-OPTIONS AND REBUILD THE MRUN-COMMAND STRING (MC),
466	# WHICH WILL BE USED TO START RESTART-JOBS
467	while getopts :a:bBc:Cd:D:Fg:G:h:H:i:kK:m:M:n:o:O:p:P:q:r:R:s:St:T:u:U:vw:xX:yY:zZ option
468	do
469	case $option in
470	(a) afname=$OPTARG;;
471	(b) do_batch=true; mc="$mc -b";;
472	(B) delete_temporary_catalog=false; mc="$mc -B";;
473	(c) config_file=$OPTARG; mc="$mc -c$OPTARG";;
474	(C) restart_run=true; mc="$mc -C";;
475	(d) fname=$OPTARG; mc="$mc -d$OPTARG";;
476	(F) job_on_file="-D"; mc="$mc -F";;
477	(g) group_number=$OPTARG; mc="$mc -g$OPTARG";;
478	(G) global_revision=$OPTARG; mc="$mc -G'$OPTARG'";;
479	(h) host=$OPTARG; mc="$mc -h$OPTARG";;
480	(H) fromhost=$OPTARG; mc="$mc -H$OPTARG";;
481	(i) input_list=$OPTARG; mc="$mc -i'$OPTARG'";;
482	(k) keep_data_from_previous_run=true; mc="$mc -k";;
483	(K) additional_conditions="$OPTARG"; mc="$mc -K'$OPTARG'";;
484	(m) memory=$OPTARG; mc="$mc -m$OPTARG";;
485	(M) makefile=$OPTARG; mc="$mc -M$OPTARG";;
486	(n) node_usage=$OPTARG; mc="$mc -n$OPTARG";;
487	(o) output_list=$OPTARG; mc="$mc -o'$OPTARG'";;
488	(O) use_openmp=true; threads_per_task=$OPTARG; mc="$mc -O$OPTARG";;
489	(p) package_list=$OPTARG; mc="$mc -p'$OPTARG'";;
490	(P) return_password=$OPTARG; mc="$mc -P$OPTARG";;
491	(q) queue=$OPTARG; mc="$mc -q$OPTARG";;
492	(r) run_mode=$OPTARG; mc="$mc -r'$OPTARG'";;
493	(R) remotecall=true;return_address=$OPTARG; mc="$mc -R$OPTARG";;
494	(s) source_list=$OPTARG; mc="$mc -s'$OPTARG'";;
495	(S) read_from_config=false; mc="$mc -S";;
496	(t) cpumax=$OPTARG; mc="$mc -t$OPTARG";;
497	(T) mrun_tasks_per_node=$OPTARG; mc="$mc -T$OPTARG";;
498	(u) remote_username=$OPTARG; mc="$mc -u$OPTARG";;
499	(U) return_username=$OPTARG; mc="$mc -U$OPTARG";;
500	(v) silent=true; mc="$mc -v";;
501	(w) max_par_io_str=$OPTARG; mc="$mc -w$OPTARG";;
502	(x) do_trace=true;set -x; mc="$mc -x";;
503	(X) numprocs=$OPTARG; mc="$mc -X$OPTARG";;
504	(y) ocean_file_appendix=true; mc="$mc -y";;
505	(Y) run_coupled_model=true; coupled_dist=$OPTARG; mc="$mc -Y'$OPTARG'";;
506	(z) check_namelist_files=false; mc="$mc -z";;
507	(Z) combine_plot_fields=false; mc="$mc -Z";;
508	(\?) printf "\n +++ unknown option $OPTARG \n"
509	printf "\n --> type \"$0 ?\" for available options \n"
510	locat=parameter;exit;;
511	esac
512	done
513
514
515	# SKIP GIVEN OPTIONS TO READ POSITIONAL PARAMETER, IF GIVEN
516	# CURRENTLY ONLY PARAMETER ? (TO OUTPUT A SHORT COMMAND INFO) IS ALLOWED
517	(( to_shift = $OPTIND - 1 ))
518	shift $to_shift
519
520	# PRINT SHORT DESCRIPTION OF MRUN OPTIONS
521	if [[ "$1" = "?" ]]
522	then
523	(printf "\n *** mrun can be called as follows:\n"
524	printf "\n $mrun_script_name -b -c.. -d.. -D.. -f.. -F -h.. -i.. -I -K.. -m.. -o.. -p.. -r.. -R -s.. -t.. -T.. -v -x -X.. -y -Y.. -Z <modus> \n"
525	printf "\n Description of available options:\n"
526	printf "\n Option Description Default-Value"
527	printf "\n -a base name of input files equiv. -d"
528	printf "\n -b batch-job on local machine ---"
529	printf "\n -B do not delete temporary directory at end ---"
530	printf "\n -c configuration file .mrun.config"
531	printf "\n -d base name of files attached to program test"
532	printf "\n -D preprocessor(cpp)-directives \"\" "
533	printf "\n -F create remote job file only ---"
534	printf "\n -h execution host $localhost_realname"
535	printf "\n -i INPUT control list \"\" "
536	printf "\n -k keep data from previous run"
537	printf "\n -K additional conditions for controling"
538	printf "\n usage of conditional code and"
539	printf "\n env-variables in configuration file \"\" "
540	printf "\n -m memory demand in MB (batch-jobs) 0 MB"
541	printf "\n -M Makefile name Makefile"
542	printf "\n -n node usage (shared/not_shared) depending on -h"
543	printf "\n -o OUTPUT control list \"\" "
544	printf "\n -O threads per openMP task ---"
545	printf "\n -p software package list \"\" "
546	printf "\n -q queue \"$queue\" "
547	printf "\n -r run control list (combines -i -o) \"\" "
548	printf "\n -s filenames of routines to be compiled \"\" "
549	printf "\n must end with .f, .f90, .F, or .c !"
550	printf "\n use \"..\" for more than one file and wildcards"
551	printf "\n -s LM compiles all locally modified files"
552	printf "\n -S config file interpreted by shellscript ---"
553	printf "\n -t allowed cpu-time in seconds (batch) 0"
554	printf "\n -T tasks per node depending on -h"
555	printf "\n -u username on remote machine \"\" "
556	printf "\n -v no prompt for confirmation ---"
557	printf "\n -w maximum parallel io streams as given by -X"
558	printf "\n -x tracing of mrun for debug purposes ---"
559	printf "\n -X # of processors (on parallel machines) 1"
560	printf "\n -y add appendix \"_O\" to all local output"
561	printf "\n files (ocean precursor runs followed by"
562	printf "\n coupled atmosphere-ocean runs) ---"
563	printf "\n -Y run coupled model, \"#1 #2\" with"
564	printf "\n #1 atmosphere and #2 ocean processors \"#/2 #/2\" depending on -X"
565	printf "\n -Z skip combine_plot_fields at the end of "
566	printf "\n the simulation ---"
567	printf "\n "
568	printf "\n Possible values of positional parameter <modus>:"
569	printf "\n \"?\" - this outline \n\n") \| more
570	exit
571	elif [[ "$1" != "" ]]
572	then
573	printf "\n +++ positional parameter $1 unknown \n"
574	locat=parameter; exit
575	fi
576
577
578
579	# SHORT STARTING MESSAGE
580	printf "\n*** $version "
581	printf "\n will be executed. Please wait ..."
582
583
584
585	# CHECK, IF CONFIGURATION FILE EXISTS
586	if [[ ! -f $config_file ]]
587	then
588	printf "\n\n +++ configuration file: "
589	printf "\n $config_file"
590	printf "\n does not exist"
591	locat=connect; exit
592	fi
593
594
595	# DETERMINE THE HOST-IDENTIFIER (localhost) FROM THE CONFIGURATION FILE
596	line=""
597	grep "%host_identifier" $config_file > tmp_mrun
598	while read line
599	do
600	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
601	then
602	HOSTNAME=`echo $line \| cut -d" " -s -f2`
603	host_identifier=`echo $line \| cut -d" " -s -f3`
604	if [[ $localhost_realname = $HOSTNAME ]]
605	then
606	localhost=$host_identifier
607	break
608	fi
609	fi
610	done < tmp_mrun
611
612	if [[ "$localhost" = "" ]]
613	then
614	printf "\n\n +++ no host identifier found in configuration file \"$config_file\""
615	printf "\n for local host \"$localhost_realname\"."
616	printf "\n Please add line"
617	printf "\n \"\%host_identifier $localhost_realname <identifier>\""
618	printf "\n to the configuration file."
619	locat=localhost; exit
620	fi
621
622
623	# ??? THIS SHOULD BE DECRIBED IN THE MRUN DOCUMENTATION ???
624	# SET BASENAME OF THE INPUT-FILES TO THE GENERAL BASENAME (GIVEN BY OPTION -d),
625	# IF IT HAS NOT BEEN SET BY THE USER DIFFERENTLY (USING OPTION -a)
626	[[ "$afname" = "" ]] && afname=$fname
627
628
629	# ADD RUN-FILE ACTIVATION STRINGS (GIVEN BY OPTION -r) TO THE
630	# RESPECTIVE LISTS FOR ACTIVATING THE INPUT/OUTPUT FILE CONNECTION
631	# STATEMENTS IN THE CONFIGURATION FILE
632	if [[ "$run_mode" != "" ]]
633	then
634	input_list="$input_list $run_mode"
635	output_list="$output_list $run_mode"
636	fi
637
638
639	# ??? is this (and the respective option -H) really required ???
640	# STORE HOSTNAME, FROM WHICH THE JOB IS STARTED,
641	# BUT ONLY IF IT HASN'T BEEN ALREADY SET BY OPTION -H
642	# (MRUN IS AUTOMATICALLY SETTING THIS OPTION IN THE MRUN-CALLS WITHIN
643	# THOSE BATCH-JOBS, WHICH ARE CREATED BY MRUN ITSELF)
644	if [[ "$fromhost" = "" ]]
645	then
646	fromhost=$localhost
647	fi
648
649
650	# CHECK, IF EXECUTION SHALL TO BE DONE ON THE REMOTE-MACHINE.
651	# VALUE OF do_remote IS IMPORTANT FOR THE FILE CONNECTIONS.
652	# IN CASE OF EXECUTION ON A REMOTE-MACHINE, A BATCH-JOB HAS
653	# TO BE SUBMITTED (I.E. do_batch=true)
654	if [[ -n $host && "$host" != $localhost ]]
655	then
656	do_batch=true
657	do_remote=true
658	case $host in
659	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lceddy\|lckyoto\|lcocean\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
660	(*) printf "\n"
661	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
662	printf "\n is not available"
663	locat=nqs; (( iec = 0 )); exit;;
664	esac
665	else
666	host=$localhost
667	fi
668
669
670	# EVALUATE ADDITIONAL CONDITIONS GIVEN BY OPTION -K
671	if [[ -n $additional_conditions ]]
672	then
673	cond1=`echo $additional_conditions \| cut -d" " -f1`
674	cond2=`echo $additional_conditions \| cut -d" " -s -f2`
675	dummy=`echo $additional_conditions \| cut -d" " -s -f3`
676	if [[ -n $dummy ]]
677	then
678	printf "\n +++ more than 2 additional conditions given for Option \"-K\""
679	locat=options; exit
680	fi
681	block=_$cond1
682	[[ -n $cond2 ]] && block=${block}_$cond2
683	fi
684
685
686	# EVALUATE MODEL COUPLING FEATURES (OPTION -Y) AND DETERMINE coupled_mode
687	if [[ $run_coupled_model = true ]]
688	then
689
690	numprocs_atmos=`echo $coupled_dist \| cut -d" " -s -f1`
691	numprocs_ocean=`echo $coupled_dist \| cut -d" " -s -f2`
692
693	if (( $numprocs_ocean + $numprocs_atmos != $numprocs ))
694	then
695
696	printf "\n +++ number of processors does not fit to specification by \"-Y\"."
697	printf "\n PEs (total) : $numprocs"
698	printf "\n PEs (atmosphere): $numprocs_atmos"
699	printf "\n PEs (ocean) : $numprocs_ocean"
700	locat=coupling; exit
701
702	fi
703
704
705	# GET coupled_mode FROM THE CONFIG FILE
706	line=""
707	grep "%cpp_options.-D__mpi2.$host" $config_file > tmp_mrun
708	while read line
709	do
710	echo line=\"$line\"
711	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" && $(echo $line \| cut -d" " -s -f4) = $cond1 && $(echo $line \| cut -d" " -s -f5) = $cond2 ]]
712	then
713	coupled_mode="mpi2"
714	fi
715	done < tmp_mrun
716
717	fi
718
719	# SAVE VALUES OF MRUN-OPTIONS SICHERN IN ORDER TO OVERWRITE
720	# THOSE VALUES GIVEN IN THE CONFIGURATION-FILE
721	mrun_memory=$memory
722	mrun_group_number=$group_number
723	mrun_cpumax=$cpumax
724	mrun_numprocs=$numprocs
725
726
727	# READ AND EVALUATE THE CONFIGURATION-FILE FROM WITHIN THIS SHELLSCRIPT
728	# (OPTION -S). THE DEFAULT IS USING THE ROUTINE <<<<
729	if [[ "$read_from_config" = false ]]
730	then
731	[[ $silent = false ]] && printf "\n Reading the configuration file... "
732
733	# READ THE CONFIGURATION FILE LINE BY LINE
734	while read zeile
735	do
736	[[ $silent = false ]] && printf "."
737
738
739	# FIRST REPLACE ENVIRONMENT-VARIABLES BY THEIR RESPECTIVE VALUES
740	eval zeile=\"$zeile\"
741
742
743	# INTERPRET THE LINE
744	if [[ "$(echo $zeile)" = "" ]]
745	then
746	# EMPTY LINE, NO ACTION
747	continue
748
749	elif [[ "$(echo $zeile \| cut -c1)" = "#" ]]
750	then
751
752	# LINE IS A COMMENT LINE
753	true
754
755	elif [[ "$(echo $zeile \| cut -c1)" = "%" ]]
756	then
757
758	# LINE DEFINES AN ENVIRONMENT-VARIABLE
759	zeile=$(echo $zeile \| cut -c2-)
760	var=`echo $zeile \| cut -d" " -f1`
761	value=`echo $zeile \| cut -d" " -s -f2`
762	for_host=`echo $zeile \| cut -d" " -s -f3`
763	for_cond1=`echo $zeile \| cut -d" " -s -f4`
764	for_cond2=`echo $zeile \| cut -d" " -s -f5`
765
766	if [[ "$for_host" = "" \|\| ( "$for_host" = $host && "$for_cond1" = "$cond1" && "$for_cond2" = "$cond2" ) \|\| $(echo "$input_list$output_list"\|grep -c "$for_host") != 0 ]]
767	then
768
769	# REPLACE ":" BY " " IN COMPILER- CPP- OR LINKER-OPTIONS,
770	# "::" IS REPLACED BY ":".
771	value=`echo $value \| sed 's/::/%DUM%/g' \| sed 's/:/ /g' \| sed 's/%DUM%/:/g'`
772
773
774	# VALUE FROM THE CONFIGURATION-FILE IS ASSIGNED TO THE
775	# ENVIRONMENT-VARIABLE, BUT ONLY IF NO VALUE HAS BEEN ALREADY
776	# ASSIGNED WITHIN THIS SCRIPT (E.G. BY SCRIPT-OPTIONS).
777	# NON-ASSIGNED VARIABLES HAVE VALUE "" OR 0 (IN CASE OF INTEGER).
778	# HENCE THE GENERAL RULE IS: SCRIPT-OPTION OVERWRITES THE
779	# CONFIGURATION-FILE.
780	if [[ "$(eval echo \$$var)" = "" \|\| "$(eval echo \$$var)" = "0" ]]
781	then
782	eval $var=\$value
783
784	# TERMINAL OUTPUT OF ENVIRONMENT-VARIABLES, IF TRACEBACK IS SWITCHED on
785	if [[ $do_trace = true ]]
786	then
787	printf "\n*** ENVIRONMENT-VARIABLE $var = $value"
788	fi
789	fi
790
791	# IF AN ENVIRONMENT-VARIABLE DETERMINES THE HOST, THEN EVALUATE IT IMMEDIATELY:
792	# VALUE OF do-remote IS REQUIRED FOR THE FILE CONNECTIONS (COPY OF I/O FILES).
793	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MASCHINE, A BATCH-JOB
794	# MUST HAVE TO BE STARTED
795	if [[ $var = host ]]
796	then
797	if [[ -n $host && "$host" != $localhost ]]
798	then
799	do_batch=true
800	do_remote=true
801	case $host in
802	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lceddy\|lckyoto\|lcocean\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
803	(*) printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
804	printf "\n is not available"
805	locat=nqs; exit;;
806	esac
807	else
808	host=$localhost
809	fi
810	fi
811
812	# USER-DEFINED ENVIRONMENT VARIABLES MUST BE EXPORTED,
813	# BECAUSE THEY MAY BE REQUIRED IN OTHER SCRIPTS CALLED
814	# BY MRUN (E.G. subjob)
815	export $var
816	fi
817
818
819
820
821	elif [[ "$(echo $zeile \| cut -c1-3)" = "EC:" ]]
822	then
823
824	# LINE DEFINES ERROR-COMMAND
825	(( iec = iec + 1 ))
826	zeile=$(echo $zeile \| cut -c4-)
827	err_command[$iec]="$zeile"
828
829	elif [[ "$(echo $zeile \| cut -c1-3)" = "IC:" ]]
830	then
831
832	# LINE DEFINES INPUT-COMMAND
833	(( iic = iic + 1 ))
834	zeile=$(echo $zeile \| cut -c4-)
835	in_command[$iic]="$zeile"
836
837	elif [[ "$(echo $zeile \| cut -c1-3)" = "OC:" ]]
838	then
839
840	# LINE DEFINES OUTPUT-COMMAND
841	(( ioc = ioc + 1 ))
842	zeile=$(echo $zeile \| cut -c4-)
843	out_command[$ioc]="$zeile"
844
845	else
846
847	# LINE DEFINES FILE CONNECTION. READ THE FILE ATTRIBUTES.
848	# s2a: in/out - field
849	# s2b: loc - field (optional)
850	# s2c: tr/ar - field (optional)
851	s1=`echo $zeile \| cut -d" " -f1`
852	s2=`echo $zeile \| cut -d" " -s -f2`
853	s2a=$(echo $s2 \| cut -d":" -f1)
854	if [[ $(echo $s2 \| grep -c ":") = 0 ]]
855	then
856	s2b=""
857	s2c=""
858	else
859	s2b=`echo $s2 \| cut -d":" -f2 \| sed 's/:/ /g'`
860	s2c=`echo $s2 \| cut -d":" -s -f3 \| sed 's/:/ /g'`
861	fi
862	s3=`echo $zeile \| cut -d" " -f3`
863	s4=`echo $zeile \| cut -d" " -s -f4`
864	s5=`echo $zeile \| cut -d" " -s -f5`
865	s6=`echo $zeile \| cut -d" " -s -f6`
866
867
868	# STORE FILE CONNECTION, IF ACTIVATED BY ACTIVATION-STRING FROM
869	# INPUT- OR OUTPUT-LIST.
870	# VARIABLE S3 MAY CONTAIN A LIST OF ACTIVATION STRINGS (FIELD-SEPERATOR ":").
871	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MACHINE AND THE FILE IS ONLY
872	# LOCALLY REQUIRED ON THAT MACHINE (I.E. s2b = loc), THE FILE CONNECTION
873	# IS NOT CHECKED AND STORED.
874	IFSALT="$IFS"; IFS="$IFS:"
875	if [[ "$s2a" = in && ! ( $do_remote = true && ( "$s2b" = loc \|\| "$s2b" = locopt ) ) ]]
876	then
877	found=false
878	for actual in $input_list
879	do
880	for formal in $s3
881	do
882	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
883	done
884	done
885	if [[ $found = true ]]
886	then
887	(( iin = iin + 1 ))
888	localin[$iin]=$s1; transin[$iin]=$s2b; actionin[$iin]=$s2c;
889	typein[$iin]=$s3; pathin[$iin]=$s4; endin[$iin]=$s5;
890	extin[$iin]=$s6
891	fi
892	elif [[ "$s2a" = out && ! ( $do_remote = true && "$s2b" = loc ) ]]
893	then
894	found=false
895	for actual in $output_list
896	do
897	for formal in $s3
898	do
899	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
900	done
901	done
902	if [[ $found = true ]]
903	then
904	(( iout = iout + 1 ))
905	localout[$iout]=$s1; actionout[$iout]=$s2c; typeout[$iout]=$s3;
906	pathout[$iout]=$s4; endout[$iout]=$s5; extout[$iout]=$s6
907	fi
908	elif [[ "$s2a" != in && "$s2a" != out ]]
909	then
910	printf "\n +++ I/O-attribute in configuration file $config_file has the invalid"
911	printf "\n value \"$s2\". Only \"in\" and \"out\" are allowed!"
912	locat=connect; exit
913	fi
914	IFS="$IFSALT"
915	fi
916	done < $config_file
917
918	else
919
920	# EVALUATE THE CONFIGURATION-FILE BY FORTRAN-PROGRAM
921	[[ $silent = false ]] && printf "..."
922	interpreted_config_file=.icf.$RANDOM
923
924
925
926	# PROVIDE VALUES OF ENVIRONMENT-VARIABLE FOR interpret_config VIA NAMELIST-FILE
927	cat > .mrun_environment << EOF
928	&mrun_environment cond1 = '$cond1', cond2 = '$cond2',
929	config_file = '$config_file', do_remote = '$do_remote',
930	do_trace = '$do_trace', host = '$host',
931	input_list = '$input_list', icf = '$interpreted_config_file',
932	localhost = '$localhost', output_list = '$output_list' /
933
934	EOF
935
936	if [[ "$host" != $localhost ]]
937	then
938
939	# REMOTE JOB FROM LOCAL HOST: JUST TAKE THE FIRST EXECUTABLE FOUND
940	interpret_config_executable=`ls -1 ${PALM_BIN}/interpret_config*.x 2>/dev/null`
941	if [[ $? != 0 ]]
942	then
943	printf "\n\n +++ no interpret_config found"
944	printf "\n run \"mbuild -u -h ...\" to generate utilities for this host"
945	locat=interpret_config; exit
946	fi
947	interpret_config_executable=`echo $interpret_config_executable \| cut -d" " -f1`
948	$interpret_config_executable
949
950	else
951
952	# CHECK, IF THERE IS AN EXECUTABLE FOR THE BLOCK
953	if [[ ! -f ${PALM_BIN}/interpret_config${block}.x ]]
954	then
955	printf "\n\n +++ no interpret_config found for given block \"$cond1 $cond2\""
956	printf "\n run \"mbuild -u -h ...\" to generate utilities for this block"
957	locat=interpret_config; exit
958	else
959	interpret_config${block}.x
960	fi
961
962	fi
963	rm .mrun_environment
964
965
966	# EXECUTE SHELL-COMMANDS GENERATED BY interpret_config WITHIN THIS SHELL
967	chmod u+x $interpreted_config_file
968	export PATH=$PATH:.
969	. $interpreted_config_file
970	rm $interpreted_config_file
971
972	fi
973
974
975	# VALUES OF MRUN-OPTIONS OVERWRITE THOSE FROM THE CONFIGURATION-FILE
976	[[ $mrun_memory != 0 ]] && memory=$mrun_memory
977	[[ "$mrun_group_number" != "none" ]] && group_number=$mrun_group_number
978	[[ $mrun_cpumax != 0 ]] && cpumax=$mrun_cpumax
979	[[ "$mrun_numprocs" != "" ]] && numprocs=$mrun_numprocs
980	[[ "$max_par_io_str" != "" ]] && maximum_parallel_io_streams=$max_par_io_str
981	[[ "$mrun_tasks_per_node" != "" ]] && tasks_per_node=$mrun_tasks_per_node
982
983
984	# ON THE LOCAL MACHINE, DETERMINE (FROM THE CONFIGURATION-FILE) THE PATH
985	# FOR SOURCE-FILES TO BE COMPILED.
986	# IN A BATCH-JOB, SOURCES (ROUTINES TO BE COMPILED) ARE COMPLETE ALREADY.
987	# BEFORE MRUN IS CALLED IN THE JOB, SOURCES_COMPLETE = true IS ASSIGNED (SEE FURTHER BELOW).
988	if [[ "$SOURCES_COMPLETE" = "" ]]
989	then
990
991	# FIRST CHECK, IF A GLOBAL SOURCE PATH (TO BE USED FOR ALL HOSTS)
992	# HAS BEEN DEFINED
993	source_path=""
994	line=""
995	grep "%source_path" $config_file > tmp_mrun
996	while read line
997	do
998	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
999	then
1000	if [[ "$(echo $line \| cut -d" " -f3)" = "" ]]
1001	then
1002	global_source_path=`echo $line \| cut -d" " -f2`
1003	fi
1004	fi
1005	done < tmp_mrun
1006
1007	line=""
1008	found=false
1009	grep " $localhost" $config_file \| grep "%source_path" > tmp_mrun
1010	while read line
1011	do
1012	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
1013	then
1014	if [[ $found = true ]]
1015	then
1016	printf "\n\n +++ more than one source path found in configuration file"
1017	printf "\n for local host \"$localhost\" "
1018	locat=source_path; exit
1019	fi
1020	source_path=`echo $line \| cut -d" " -f2`
1021	found=true
1022	fi
1023	done < tmp_mrun
1024	rm tmp_mrun
1025
1026	if [[ "$source_path" = "" ]]
1027	then
1028	if [[ "$global_source_path" != "" ]]
1029	then
1030	source_path=$global_source_path
1031	else
1032	printf "\n\n +++ no source path found in configuration file"
1033	printf "\n for local host \"$localhost\" "
1034	locat=source_path; exit
1035	fi
1036	fi
1037	eval source_path=$source_path
1038
1039	if [[ ! -d $source_path ]]
1040	then
1041	printf "\n\n +++ source path \"$source_path\" on local host"
1042	printf "\n \"$localhost\" does not exist"
1043	locat=source_path; exit
1044	fi
1045
1046	fi
1047
1048
1049	# GET THE GLOBAL REVISION-NUMBER OF THE SVN-REPOSITORY
1050	# (HANDED OVER TO RESTART-RUNS USING OPTION -G)
1051	if [[ "$global_revision" = "" && $host != "ibmkisti" ]]
1052	then
1053	global_revision=`svnversion $source_path 2>/dev/null`
1054	global_revision="Rev: $global_revision"
1055	fi
1056
1057
1058	# ??? das darf doch eigentlich garnicht passieren, weil optionen config-datei uebersteuern ???
1059	# CHECK AGAIN, IF EXECUTION SHALL BE DONE ON A REMOTE-HOST (BATCH-JOB).
1060	# (HOST MAY HAVE CHANGED DUE TO SETTINGS IN THE CONFIGURATION-FILE)
1061	if [[ -n $host && "$host" != $localhost ]]
1062	then
1063	do_batch=true
1064	do_remote=true
1065	case $host in
1066	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lceddy\|lckyoto\|lcocean\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
1067	(*) printf "\n"
1068	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
1069	printf "\n is not available"
1070	locat=nqs; (( iec = 0 )); exit;;
1071	esac
1072	else
1073	host=$localhost
1074	fi
1075
1076
1077
1078	# IN CASE OF PARALLEL EXECUTION, CHECK SOME SPECIFICATIONS CONCERNING PROCESSOR NUMBERS
1079	if [[ "$cond1" = parallel \|\| "$cond2" = parallel ]]
1080	then
1081
1082	# CHECK, IF NUMBER OF CORES TO BE USED HAS BEEN GIVEN
1083	if [[ ! -n $numprocs ]]
1084	then
1085	printf "\n"
1086	printf "\n +++ option \"-K parallel\" requires additional specification"
1087	printf "\n of the number of processors to be used by"
1088	printf "\n mrun-option \"-X\" or by environment-variable"
1089	printf "\n \"numprocs\" in the configuration file"
1090	locat=numprocs; (( iec = 0 )); exit
1091	fi
1092
1093	# CHECK, IF THE NUMBER OF CORES PER NODE HAS BEEN GIVEN UND IF IT IS AN
1094	# INTEGRAL DIVISOR OF THE TOTAL NUMBER OF CORES GIVEN BY OPTION -X
1095	if [[ "$tasks_per_node" = "" && $host != lcxt5m ]]
1096	then
1097	printf "\n"
1098	printf "\n +++ option \"-T\" (tasks per node) is missing"
1099	printf "\n set -T option or define tasks_per_node in the config file"
1100	locat=tasks_per_node; (( iec = 0 )); exit
1101	fi
1102
1103	if (( numprocs < tasks_per_node ))
1104	then
1105	printf "\n"
1106	printf "\n +++ tasks per node (-T) cannot exceed total number of processors (-X)"
1107	printf "\n given values: -T $tasks_per_node -X $numprocs"
1108	locat=tasks_per_node; (( iec = 0 )); exit
1109	fi
1110
1111	if [[ $host != lcxt5m ]]
1112	then
1113	(( nodes = numprocs / ( tasks_per_node * threads_per_task ) ))
1114	(( ival = $tasks_per_node ))
1115	(( pes = numprocs ))
1116	(( ii = pes / ival ))
1117	(( remaining_pes = pes - ii * ival ))
1118	if (( remaining_pes > 0 ))
1119	then
1120	printf "\n"
1121	printf "\n +++ WARNING: tasks per node (option \"-T\") is not an integral"
1122	printf "\n divisor of the total number of processors (option \"-X\")"
1123	printf "\n values of this mrun-call: \"-T $tasks_per_node\" \"-X $numprocs\""
1124	printf "\n One of the nodes is filled with $remaining_pes instead of $tasks_per_node tasks"
1125	(( nodes = nodes + 1 ))
1126	fi
1127	fi
1128
1129
1130	# SETTINGS FOR SUBJOB-COMMAND
1131	OOPT="-O $threads_per_task"
1132
1133	# SET THE TOTAL NUMBER OF NODES, REQUIRED FOR THE SUBJOB-COMMAND (SEE FURTHER BELOW)
1134	if [[ "$tasks_per_node" != "" ]]
1135	then
1136	TOPT="-T $tasks_per_node"
1137	fi
1138
1139	# CHECK node_usage FOR ALLOWED VALUES AND SET DEFAULT VALUE, IF NECESSARY
1140	if [[ $node_usage = default ]]
1141	then
1142	if [[ $host = ibms ]]
1143	then
1144	node_usage=shared
1145	else
1146	node_usage=not_shared
1147	fi
1148	fi
1149
1150	if [[ $node_usage != shared && $node_usage != not_shared && $node_usage != singlejob && "$(echo $node_usage \| cut -c1-3)" != "sla" ]]
1151	then
1152	printf "\n"
1153	printf "\n +++ node usage (option \"-n\") is only allowed to be set"
1154	printf "\n \"shared\" or \"not_shared\""
1155	locat=tasks_per_node; (( iec = 0 )); exit
1156	fi
1157
1158	fi
1159
1160	# CHECK IF HOSTFILE EXISTS
1161	if [[ -n $hostfile ]]
1162	then
1163	if [[ ! -f $hostfile ]]
1164	then
1165	printf "\n"
1166	printf "\n +++ hostfile \"$hostfile\" does not exist"
1167	locat=hostfile; exit
1168	fi
1169	fi
1170
1171
1172	# SET DEFAULT VALUE FOR THE MAXIMUM NUMBER OF PARALLEL IO STREAMS
1173	if [[ "$maximum_parallel_io_streams" = "" ]]
1174	then
1175	maximum_parallel_io_streams=$numprocs
1176	fi
1177
1178
1179	# SET PORT NUMBER OPTION FOR CALLS OF SSH/SCP, subjob AND batch_scp SCRIPTS
1180	if [[ "$scp_port" != "" ]]
1181	then
1182	PORTOPT="-P $scp_port"
1183	SSH_PORTOPT="-p $scp_port"
1184	fi
1185
1186
1187	# DETERMINE THE SSH-OPTION IN CASE THAT AN SSH-KEY IS EXPLICITLY GIVEN IN THE
1188	# CONFIG-FILE
1189	if [[ "$ssh_key" != "" ]]
1190	then
1191	ssh_key="-i $HOME/.ssh/$ssh_key"
1192	fi
1193
1194
1195	# SET DEFAULT-QUEUE, IF NOT GIVEN
1196	if [[ $queue = none ]]
1197	then
1198	case $host in
1199	(ibmh) queue=cluster;;
1200	(ibmkisti) queue=class.32plus;;
1201	(lcbullhh) queue=compute;;
1202	(lccrayb) queue=mpp1q;;
1203	(lccrayh) queue=mpp1q;;
1204	(lckiaps) queue=normal;;
1205	(lckyoto) queue=ph;;
1206	(lckyuh) queue=fx-single;;
1207	(lckyut) queue=cx-single;;
1208	(lctit) queue=S;;
1209	(unics) queue=unics;;
1210	esac
1211	fi
1212
1213
1214	# GENERATE FULL FILENAMES OF INPUT-FILES, INCLUDING THEIR PATH
1215	# CHECK, IF INPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST)
1216	(( i = 0 ))
1217	while (( i < iin ))
1218	do
1219	(( i = i + 1 ))
1220	(( maxcycle = 0 ))
1221
1222	# GENERATE PATH AND FULL FILE NAME (then-BRANCH: FIXED FULL NAME IS GIVEN, I.E. THE
1223	# FILE IDENTIFIER IS NOT PART OF THE FILENAME))
1224	if [[ "${actionin[$i]}" = di ]]
1225	then
1226	remotepathin[$i]=${pathin[$i]}/${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
1227	# HOST ONLY
1228	eval filename=${pathin[$i]}/${endin[$i]}
1229	else
1230	remotepathin[$i]=${pathin[$i]}/${afname}${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
1231	# HOST ONLY
1232	eval filename=${pathin[$i]}/${afname}${endin[$i]}
1233	fi
1234	eval pathname=${pathin[$i]}
1235
1236	# CHECK IF FILE EXISTS
1237	if ! ls $filename* 1>/dev/null 2>&1
1238	then
1239
1240	# FILES WITH ATTRIBUTE locopt ARE OPTIONAL. NO ABORT, IF THEY DO NOT EXIST.
1241	if [[ "${transin[$i]}" != "locopt" ]]
1242	then
1243	printf "\n\n +++ INPUT-file: "
1244	if [[ "${extin[$i]}" = "" \|\| "${extin[$i]}" = " " ]]
1245	then
1246	printf "\n $filename"
1247	else
1248	printf "\n $filename.${extin[$i]}"
1249	fi
1250	printf "\n does not exist\n"
1251	locat=input; exit
1252	else
1253	transin[$i]="unavailable"
1254	fi
1255	else
1256
1257	# DETERMINE THE FILE'S CYCLE NUMBER
1258	ls -1 -d $filename > filelist 2>/dev/null
1259	ls -1 -d $filename.* >> filelist 2>/dev/null
1260	while read zeile
1261	do
1262	# filename without path (i.e. after the last "/")
1263	basefilename=$(basename ${zeile})
1264
1265	# check if there is an extension
1266	extension=${basefilename##*.}
1267	if [[ "$extension" = "$extin[$i]" ]]
1268	then
1269	basefilename=${basefilename&.*}
1270	fi
1271
1272	# check for an existing cycle number
1273	cycle=${basefilename##*.}
1274	if [[ $cycle =~ ^-?[0-9]+$ ]]
1275	then
1276	(( icycle = $cycle ))
1277	else
1278	(( icycle = 0 ))
1279	fi
1280
1281	if (( icycle > maxcycle ))
1282	then
1283	(( maxcycle = icycle ))
1284	fi
1285
1286	# cycle=$(echo $zeile \| cut -f2 -d".")
1287	# if [[ "$cycle" = "$zeile" ]]
1288	# then
1289	# (( icycle = 0 ))
1290	# elif [[ "$cycle" = "${extin[$i]}" ]]
1291	# then
1292	# (( icycle = 0 ))
1293	# else
1294	# (( icycle = $cycle ))
1295	# fi
1296	# if (( icycle > maxcycle ))
1297	# then
1298	# (( maxcycle = icycle ))
1299	# fi
1300	done <filelist
1301	rm filelist
1302
1303	# APPEND CYCLE NUMBER TO FILENAME
1304	if (( maxcycle > 0 ))
1305	then
1306	if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]]
1307	then
1308	filename=${filename}.$maxcycle.${extin[$i]}
1309	else
1310	filename=${filename}.$maxcycle
1311	fi
1312	else
1313	if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]]
1314	then
1315	filename=${filename}.${extin[$i]}
1316	fi
1317	fi
1318
1319	# STORE FILENAME WITHOUT PATH BUT WITH CYCLE NUMBER,
1320	# IS LATER USED FOR TRANSFERRING FILES WIHIN THE JOB (SEE END OF FILE)
1321	absnamein[$i]=$filename
1322	if (( maxcycle > 0 ))
1323	then
1324	if [[ "${actionin[$i]}" = di ]]
1325	then
1326	frelin[$i]=${endin[$i]}.$maxcycle
1327	else
1328	frelin[$i]=${afname}${endin[$i]}.$maxcycle
1329	fi
1330	else
1331	if [[ "${actionin[$i]}" = di ]]
1332	then
1333	frelin[$i]=${endin[$i]}
1334	else
1335	frelin[$i]=${afname}${endin[$i]}
1336	fi
1337	fi
1338
1339	fi
1340	done
1341
1342	# GENERATE FULL FILENAMES OF OUTPUT-FILES (WITHOUT $ OR ~),
1343	# CHECK, IF OUTPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST),
1344	# OR, IN CASE THAT FILE DOES NOT EXIST, CHECK, IF IT CAN BE CREATED
1345	# THESE ACTIONS ARE NOT CARRIED OUT, IF FILES SHALL BE TRASFERRED FROM THE REMOTE TO
1346	# THE LOCAL HOST (BECAUSE THEIR IS NO DIRECT ACCESS TO THE LOCAL DIRECTORIES FROM THE
1347	# REMOTE HOST)
1348	(( i = 0 ))
1349	while (( i < iout ))
1350	do
1351	(( i = i + 1 ))
1352	if [[ ! ( $fromhost != $localhost && ( "${actionout[$i]}" = tr \|\| "${actionout[$i]}" = tra \|\| "${actionout[$i]}" = trpe ) ) ]]
1353	then
1354	if [[ "${actionout[$i]}" = tr ]]
1355	then
1356	actionout[$i]=""
1357	elif [[ "${actionout[$i]}" = trpe ]]
1358	then
1359	actionout[$i]=pe
1360	elif [[ "${actionout[$i]}" = tra ]]
1361	then
1362	actionout[$i]=a
1363	fi
1364	(( maxcycle = 0 ))
1365	eval filename=${pathout[$i]}/${fname}${endout[$i]}
1366	eval catalogname=${pathout[$i]}
1367	if ! ls $filename* 1>/dev/null 2>&1
1368	then
1369
1370	# IF OUTPUT-FILE DOES NOT EXIST CHECK, IF IT CAN BE CREATED
1371	if cat /dev/null > $filename
1372	then
1373	rm $filename
1374	else
1375
1376	# CHECK, IF THE DIRECTORY WHERE FILE SHALL BE COPIED TO EXISTS
1377	# IF IT DOES NOT EXIST, TRY TO CREATE IT
1378	if [[ ! -d $catalogname ]]
1379	then
1380	if mkdir -p $catalogname
1381	then
1382	printf "\n\n *** directory:"
1383	printf "\n $catalogname"
1384	printf "\n was created\n"
1385	else
1386	printf "\n\n +++ OUTPUT-file:"
1387	printf "\n $filename"
1388	printf "\n cannot be created, because directory does not exist"
1389	printf "\n and cannot be created either"
1390	printf "\n"
1391	locat=output ; exit
1392	fi 2>/dev/null
1393	else
1394	printf "\n\n +++ OUTPUT-file:"
1395	printf "\n $filename"
1396	printf "\n cannot be created, although directory exists"
1397	printf "\n"
1398	locat=output ; exit
1399	fi
1400	fi 2>/dev/null
1401	else
1402
1403	# DETERMINE THE CYCLE NUMBER
1404	ls -1 -d $filename > filelist 2>/dev/null
1405	ls -1 -d $filename.* >> filelist 2>/dev/null
1406	while read zeile
1407	do
1408
1409	# filename without path (i.e. after the last "/")
1410	basefilename=$(basename ${zeile})
1411
1412	# check if there is an extension
1413	extension=${basefilename##*.}
1414	if [[ "$extension" = "${extout[$i]}" ]]
1415	then
1416	basefilename=${basefilename%.*}
1417	fi
1418
1419	# check for an existing cycle number
1420	cycle=${basefilename##*.}
1421	if [[ $cycle =~ ^-?[0-9]+$ ]]
1422	then
1423	(( icycle = $cycle + 1 ))
1424	else
1425	(( icycle = 1 ))
1426	fi
1427
1428	if (( icycle > maxcycle ))
1429	then
1430	(( maxcycle = icycle ))
1431	fi
1432
1433	done <filelist
1434	rm filelist
1435	fi
1436
1437	# APPEND CYCLE NUMBER TO FILENAME AND CHECK, IF FILE CAN BE CREATED
1438	# IN CASE OF FILE-APPEND, FILE MUST BE APPENDED TO THE ONE WITH HIGHEST CYCLE NUMBER
1439	if [[ "${actionout[$i]}" != a ]]
1440	then
1441	if (( maxcycle > 0 ))
1442	then
1443	filename_tmp=${filename}.$maxcycle
1444	if cat /dev/null > $filename_tmp
1445	then
1446	rm $filename_tmp
1447	else
1448	printf "\n +++ OUTPUT-file:"
1449	printf "\n $filename_tmp"
1450	printf "\n cannot be created"
1451	locat=output ; exit
1452	fi
1453	fi
1454	else
1455	(( maxcycle = maxcycle - 1 ))
1456	fi
1457
1458	(( cycnum[$i] = maxcycle ))
1459	pathout[$i]=$filename
1460
1461	fi
1462	done
1463
1464
1465	# THE DVR-PACKAGE REQUIRES ITS OWN LIBRARY
1466	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
1467	then
1468	if [[ "$dvr_inc" = "" ]]
1469	then
1470	printf "\n\n +++ no value for \"dvr_inc\" given in configuration file"
1471	printf "\n This is required for the dvrp_graphics package.\n"
1472	locat=dvr; exit
1473	fi
1474	if [[ "$dvr_lib" = "" ]]
1475	then
1476	printf "\n\n +++ no value for \"dvr_lib\" given in configuration file"
1477	printf "\n This is required for the dvrp_graphics package.\n"
1478	locat=dvr; exit
1479	fi
1480	fi
1481
1482
1483	# CHECK, WETHER A MAIN PROGRAM OR AN EXECUTABLE HAVE BEEN DECLARED.
1484	# EXECUTABLES DO NOT NEED TO BE COMPILED.
1485	if [[ "$mainprog" = "" && "$executable" = "" ]]
1486	then
1487	printf "\n +++ neither main program nor executable defined"
1488	locat=source; exit
1489	elif [[ "$mainprog" != "" && "$executable" != "" ]]
1490	then
1491	printf "\n +++ main program as well as executable defined"
1492	locat=source; exit
1493	elif [[ "$mainprog" = "" && "$executable" != "" ]]
1494	then
1495	do_compile=false
1496	fi
1497
1498
1499	# CREATE SOURCE-DIRECTORY TO COLLECT ROUTINES TO BE COMPILED.
1500	# LATER THE MRUN-SCRIPT AND CONFIGURATION-FILE WILL ALSO BE COPIED TO THIS DIRECTORY.
1501	if [[ $restart_run != true && "$SOURCES_COMPLETE" = "" ]]
1502	then
1503	rm -rf SOURCES_FOR_RUN_$fname
1504	mkdir SOURCES_FOR_RUN_$fname
1505	fi
1506
1507
1508	# COLLECT ALL ROUTINES TO BE COMPILED
1509	# THIS IS NOT REQUIRED WITHIN BATCH-JOBS, BECAUSE ROUTINES HAVE ALREADY BEEN COLLECTED
1510	# BY THE MRUN-CALL WHICH CREATED THE BATCH-JOB.
1511	if [[ $do_compile = true && "$SOURCES_COMPLETE" = "" ]]
1512	then
1513
1514	[[ "$source_list" = LM ]] && source_list=LOCALLY_MODIFIED
1515
1516	if [[ "$source_list" = LOCALLY_MODIFIED ]]
1517	then
1518
1519	# DETERMINE MODIFIED FILES OF THE SVN WORKING COPY
1520	source_list=""
1521	cd $source_path
1522
1523
1524	# CHECK, IF DIRECTORY IS UNDER SVN CONTROL
1525	if [[ ! -d .svn ]]
1526	then
1527	printf "\n\n +++ source directory"
1528	printf "\n \"$source_path\" "
1529	printf "\n is not under control of \"subversion\"."
1530	printf "\n Please do not use mrun-option \"-s LOCALLY_MODIFIED\"\n"
1531	fi
1532
1533
1534	# LIST ALL MODIFIED SOURCE CODE FILES
1535	Filenames=""
1536	svn status > tmp_mrun
1537	while read line
1538	do
1539	firstc=`echo $line \| cut -c1`
1540	if [[ $firstc = M \|\| $firstc = "?" ]]
1541	then
1542	Name=`echo "$line" \| cut -c8-`
1543	extension=`echo $Name \| cut -d. -f2`
1544	if [[ "$extension" = f90 \|\| "$extension" = F90 \|\| "$extension" = f \|\| "$extension" = F \|\| "$extension" = c ]]
1545	then
1546	Filenames="$Filenames "$Name
1547	fi
1548	fi
1549	done < tmp_mrun
1550
1551
1552	# COPY FILES TO SOURCES_FOR_RUN_...
1553	for dateiname in $Filenames
1554	do
1555	cp $dateiname $working_directory/SOURCES_FOR_RUN_$fname
1556	source_list=$source_list"$dateiname "
1557	done
1558
1559	cd - > /dev/null
1560
1561
1562	# COPY FILES GIVEN BY OPTION -s TO DIRECTORY SOURCES_FOR_RUN_...
1563	# AUTOMATIC RESTART RUNS JUST ACCESS THE DIRECTORY CREATED BY THE INITIAL RUN
1564	elif [[ "$source_list" != "" && $restart_run != true ]]
1565	then
1566
1567	cd $source_path
1568
1569	for filename in $source_list
1570	do
1571
1572	# SOURCE CODE FILE IS NOT ALLOWED TO INCLUDE PATH
1573	if [[ $(echo $filename \| grep -c "/") != 0 ]]
1574	then
1575	printf "\n +++ source code file: $filename"
1576	printf "\n must not contain (\"/\") "
1577	locat=source; exit
1578	fi
1579
1580	if [[ ! -f $filename ]]
1581	then
1582	printf "\n +++ source code file: $filename"
1583	printf "\n does not exist"
1584	locat=source; exit
1585	else
1586	cp $filename $working_directory/SOURCES_FOR_RUN_$fname
1587	fi
1588
1589	done
1590
1591	cd - > /dev/null
1592
1593	fi
1594
1595
1596	# CHECK, IF A MAIN PROGRAM EXISTS AND IF IT IS PART OF THE LIST OF FILES
1597	# TO BE COMPILED. IF NOT, ADD IT TO THE LIST.
1598	if [[ $restart_run != true ]]
1599	then
1600
1601	if [[ ! -f "$source_path/$mainprog" ]]
1602	then
1603	printf "\n\n +++ main program: $mainprog"
1604	printf "\n does not exist in source directory"
1605	printf "\n \"$source_path\"\n"
1606	locat=source; exit
1607	else
1608	if [[ $(echo $source_list \| grep -c $mainprog) = 0 ]]
1609	then
1610	cp $source_path/$mainprog SOURCES_FOR_RUN_$fname
1611	source_list=${mainprog}" $source_list"
1612	fi
1613	fi
1614	fi
1615
1616
1617	# CHECK, IF MAKEFILE EXISTS AND COPY IT TO THE SOURCES_FOR_RUN... DIRECTORY
1618	# NOT REQUIRED FOR RESTART RUNS, SOURCES_FOR_RUN... HAS BEEN CREATED BY THE INITIAL RUN
1619	if [[ "$restart_run" != true ]]
1620	then
1621	[[ "$makefile" = "" ]] && makefile=$source_path/Makefile
1622	if [[ ! -f $makefile ]]
1623	then
1624	printf "\n +++ file \"$makefile\" does not exist"
1625	locat=make; exit
1626	else
1627	cp $makefile SOURCES_FOR_RUN_$fname/Makefile
1628	fi
1629	fi
1630
1631
1632	# COPY FILES FROM OPTIONAL SOURCE PATH GIVEN IN THE CONFIGURATION FILE
1633	if [[ $restart_run != true && "$add_source_path" != "" ]]
1634	then
1635
1636	# DOES THE DIRECTORY EXIST?
1637	if [[ ! -d $add_source_path ]]
1638	then
1639	printf "\n\n *** INFORMATIVE: additional source code directory"
1640	printf "\n \"$add_source_path\" "
1641	printf "\n does not exist or is not a directory."
1642	printf "\n No source code will be used from this directory!\n"
1643	add_source_path=""
1644	if [[ $silent == false ]]
1645	then
1646	sleep 3
1647	fi
1648	else
1649
1650	cd $add_source_path
1651	found=false
1652
1653	Names=$(ls -1 *.f90 2>&1)
1654	[[ $(echo $Names \| grep -c '*.f90') = 0 ]] && AddFilenames="$Names"
1655	Names=$(ls -1 *.F90 2>&1)
1656	[[ $(echo $Names \| grep -c '*.F90') = 0 ]] && AddFilenames="$AddFilenames $Names"
1657	Names=$(ls -1 *.F 2>&1)
1658	[[ $(echo $Names \| grep -c '*.F') = 0 ]] && AddFilenames="$AddFilenames $Names"
1659	Names=$(ls -1 *.f 2>&1)
1660	[[ $(echo $Names \| grep -c '*.f') = 0 ]] && AddFilenames="$AddFilenames $Names"
1661	Names=$(ls -1 *.c 2>&1)
1662	[[ $(echo $Names \| grep -c '*.c') = 0 ]] && AddFilenames="$AddFilenames $Names"
1663
1664	cd - > /dev/null
1665	cd SOURCES_FOR_RUN_$fname
1666
1667	# COPY MAKEFILE IF EXISTING
1668	if [[ -f $add_source_path/Makefile ]]
1669	then
1670	printf "\n\n *** user Makefile from directory"
1671	printf "\n \"$add_source_path\" is used \n"
1672	if [[ $silent == false ]]
1673	then
1674	sleep 1
1675	fi
1676	cp $add_source_path/Makefile .
1677	fi
1678
1679	for dateiname in $AddFilenames
1680	do
1681	if [[ -f $dateiname ]]
1682	then
1683	printf "\n +++ source code file \"$dateiname\" found in additional"
1684	printf "\n source code directory \"$add_source_path\" "
1685	printf "\n but was also given with option \"-s\" which means that it should be taken"
1686	printf "\n from directory \"$source_path\"."
1687	locat=source; exit
1688	fi
1689
1690	cp $add_source_path/$dateiname .
1691	source_list="$source_list $dateiname"
1692
1693	# CHECK IF FILE IS CONTAINED IN MAKEFILE
1694	if [[ $(grep -c $dateiname Makefile) = 0 ]]
1695	then
1696	printf "\n\n +++ user file \"$dateiname\" "
1697	printf "\n is not listed in Makefile \n"
1698	locat=source; exit
1699	else
1700
1701	if [[ $found = false ]]
1702	then
1703	found=true
1704	printf "\n\n *** following user file(s) added to the"
1705	printf " files to be translated:\n "
1706	fi
1707	printf "$dateiname "
1708	if [[ $silent == false ]]
1709	then
1710	sleep 0.5
1711	fi
1712
1713	fi
1714	done
1715	[[ $found = true ]] && printf "\n"
1716	cd - > /dev/null
1717	fi
1718	fi
1719
1720
1721	# ADD ALL ROUTINES BELONGING TO SOFTWARE PACKAGES (GIVEN BY OPTION -p)
1722	# TO THE LIST OF FILES TO BE COMPILED
1723	if [[ $restart_run != true && -n $package_list ]]
1724	then
1725
1726	cd $source_path
1727
1728	for package in $package_list
1729	do
1730
1731	[[ $package = "dvrp_graphics+1PE" ]] && package=dvrp_graphics
1732
1733	# DETERMINE FILES BELONGING TO THE PACKAGE
1734	# ERROR MESSAGE ARE REDIRECTED TO /dev/null, BECAUSE WILDCARD (*) ALSO GIVES
1735	# THE NAME OF THE DIRECTORY
1736	package_source_list=`grep "defined( __$package " * 2>/dev/null \| cut -f1 -d:`
1737
1738
1739	# ADD THESE FILES TO THE LIST OF FILES TO BE COMPILED,
1740	# IF THEY ARE NOT ALREADY PART OF THE LIST
1741	for source_list_name in $package_source_list
1742	do
1743	if [[ $(echo $source_list \| grep -c $source_list_name) = 0 ]]
1744	then
1745
1746	# ONLY TAKE FILES WITH VALID SUFFIX
1747	ending=`echo $source_list_name \| cut -f2 -d.`
1748	if [[ "$ending" = f90 \|\| "$ending" = F90 \|\| "$ending" = f \|\| "$ending" = F \|\| "$ending" = c ]]
1749	then
1750	cp $source_list_name $working_directory/SOURCES_FOR_RUN_$fname
1751	source_list="$source_list $source_list_name"
1752	fi
1753	fi
1754	done
1755	done
1756
1757	cd - > /dev/null
1758	fi
1759
1760	fi # do_compile=true
1761
1762
1763	# IF SOURCE CODE IS TO BE COMPILED, DO SOME MORE CHECKS
1764	# AND SET PRE-PROCESSOR DIRECTIVES
1765	if [[ $do_compile = true \|\| $create_executable_for_batch = true ]]
1766	then
1767
1768	# SET PREPROCESSOR-DIRECTIVES TO SELECT OPERATING SYSTEM SPECIFIC CODE
1769	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1770	then
1771	cpp_options="${cpp_options},-D__ibm=__ibm"
1772	elif [[ $(echo $localhost \| cut -c1-3) = nec ]]
1773	then
1774	cpp_options="$cpp_options -D__nec"
1775	elif [[ $(echo $localhost \| cut -c1-2) = lc ]]
1776	then
1777	cpp_options="$cpp_options -D__lc"
1778	else
1779	cpp_options="$cpp_options -D__$localhost"
1780	fi
1781
1782	# SET DIRECTIVES GIVEN BY OPTION -K (E.G. parallel)
1783	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1784	then
1785	[[ -n $cond1 ]] && cpp_options="${cpp_options},-D__$cond1=__$cond1"
1786	[[ -n $cond2 ]] && cpp_options="${cpp_options},-D__$cond2=__$cond2"
1787	else
1788	[[ -n $cond1 ]] && cpp_options="$cpp_options -D__$cond1"
1789	[[ -n $cond2 ]] && cpp_options="$cpp_options -D__$cond2"
1790	fi
1791
1792	# SET DIRECTIVES FOR ACTIVATING SOFTWARE-PACKAGES (OPTION -p)
1793	if [[ -n $package_list ]]
1794	then
1795	for package in $package_list
1796	do
1797	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1798	then
1799	if [[ $package != "dvrp_graphics+1PE" ]]
1800	then
1801	cpp_options="${cpp_options},-D__$package=__$package"
1802	else
1803	cpp_options="${cpp_options},-D__dvrp_graphics=__dvrp_graphics"
1804	export use_seperate_pe_for_dvrp_output=true
1805	fi
1806	else
1807	if [[ $package != "dvrp_graphics+1PE" ]]
1808	then
1809	cpp_options="$cpp_options -D__$package"
1810	else
1811	cpp_options="$cpp_options -D__dvrp_graphics"
1812	export use_seperate_pe_for_dvrp_output=true
1813	fi
1814	fi
1815	done
1816	fi
1817
1818	# SET DIRECTIVES GIVEN BY OPTION -D
1819	if [[ -n $cpp_opts ]]
1820	then
1821	for popts in $cpp_opts
1822	do
1823	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1824	then
1825	cpp_options="${cpp_options},-D__$popts=__$popts"
1826	else
1827	cpp_options="$cpp_options -D__$popts"
1828	fi
1829	done
1830	fi
1831
1832	else
1833
1834
1835	# FOR LOCAL RUNS CHECK AGAIN, IF EXECUTABLE EXISTS
1836	if [[ $do_remote = false ]]
1837	then
1838	if [[ ! -f $executable ]]
1839	then
1840	printf "\n +++ executable file: $executable"
1841	printf "\n does not exist"
1842	locat=executable; exit
1843	fi
1844	fi
1845	fi
1846
1847
1848	# DETERMINE THE JOB MODE
1849	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1850	then
1851	if [[ "$LOADLBATCH" = yes ]]
1852	then
1853	batch_job=.TRUE.
1854	jobmo=BATCH
1855	else
1856	batch_job=.FALSE.
1857	jobmo=INTERACTIVE
1858	fi
1859	else
1860	if [[ "$ENVIRONMENT" = BATCH \|\| "$PJM_ENVIRONMENT" = BATCH ]]
1861	then
1862	batch_job=.TRUE.
1863	jobmo=BATCH
1864	else
1865	batch_job=.FALSE.
1866	jobmo=INTERACTIVE
1867	fi
1868	fi
1869
1870	# NO INTERACTIVE RUNS ALLOWED ON LCTIT
1871	if [[ $host = lctit && $jobmo = INTERACTIVE && $do_batch = false ]]
1872	then
1873	printf "\n +++ no interactive runs allowed on host \"$host\" "
1874	printf "\n please submit batch job using mrun option \"-b\" \n"
1875	locat=normal; exit
1876	fi
1877
1878
1879	# CHECK, IF USER DEFINED A COMPILER
1880	if [[ "$compiler_name" = "" ]]
1881	then
1882
1883	printf "\n +++ no compiler specified for \"$host $cond1 $cond2\""
1884	locat=compiler_name; exit
1885
1886	fi
1887
1888
1889	# DETERMINE THE NAME OF MRUN'S TEMPORARY WORKING DIRECTORY
1890
1891	# ON HLRN-III, USE THE QUEUING NAME. OTHERWISE USE USERNAME AND RANDOM NUMBER
1892	if [[ $do_batch = false && $(echo $host \| cut -c1-6) = lccray ]]
1893	then
1894	kennung=$(checkjob $PBS_JOBID \| grep Reservation \| cut -d" " -s -f2 \| cut -d"." -s -f2 \| sed "s/['\"]//g")
1895	if [[ "$kennung" = "" ]]
1896	then
1897	kennung=$RANDOM
1898	fi
1899	else
1900	kennung=$RANDOM
1901	fi
1902
1903	if [[ "$tmp_user_catalog" = "" ]]
1904	then
1905	if [[ $localhost = ibmh ]]
1906	then
1907	tmp_user_catalog=$SCRATCH
1908	else
1909	tmp_user_catalog=/tmp
1910	fi
1911	fi
1912	TEMPDIR=$tmp_user_catalog/${usern}.$kennung
1913
1914
1915	# DETERMINE THE NAME OF THE DIRECTORY WHICH IS USED TO TEMPORARILY STORE DATA FOR RESTART RUNS
1916	if [[ "$tmp_data_catalog" = "" ]]
1917	then
1918	tmp_data_catalog=/tmp/mrun_restart_data
1919	fi
1920
1921
1922	# IN CASE OF LOCAL RUNS REPLACE ENVIRONMENT VARIABLES BY THEIR VALUES
1923	if [[ $do_remote = false && $do_compile = true \|\| $create_executable_for_batch = true ]]
1924	then
1925	eval fopts=\"$fopts\"
1926	eval lopts=\"$lopts\"
1927	fi
1928
1929
1930	# DETERMINE COMPILE- AND LINK-OPTIONS
1931	fopts="$fopts $netcdf_inc $fftw_inc $dvr_inc"
1932	lopts="$lopts $netcdf_lib $fftw_lib $dvr_lib"
1933	XOPT="-X $numprocs"
1934
1935
1936	# CHECK THE CPU-LIMIT. IT MUST BE GIVEN FOR BATCH-JOBS AND IS COMMUNICATED TO THE
1937	# EXECUTABLE VIA NAMELIST-PARAMETER cputime
1938	done=false
1939	while [[ $done = false ]]
1940	do
1941	cputime=$cpumax
1942	if (( $cputime == 0 ))
1943	then
1944	if [[ $do_batch = true ]]
1945	then
1946	printf "\n +++ cpu-time is undefined"
1947	printf "\n >>> Please type CPU-time in seconds as INTEGER:"
1948	printf "\n >>> "
1949	read cputime 1>/dev/null 2>&1
1950	else
1951	cputime=10000000 # NO CPU LIMIT FOR INTERACTIVE RUNS
1952	fi
1953	else
1954	done=true
1955	fi
1956	cpumax=$cputime
1957	done
1958
1959	(( minuten = cputime / 60 ))
1960	(( sekunden = cputime - minuten * 60 ))
1961
1962
1963	# CHECK THE MEMORY DEMAND
1964	if [[ $do_batch = true ]]
1965	then
1966	done=false
1967	while [[ $done = false ]]
1968	do
1969	if (( memory == 0 ))
1970	then
1971	printf "\n +++ memory demand is undefined"
1972	printf "\n >>> Please type memory in MByte per process as INTEGER:"
1973	printf "\n >>> "
1974	read memory 1>/dev/null 2>&1
1975	else
1976	done=true
1977	fi
1978	done
1979	fi
1980
1981
1982	# IN CASE OF REMOTE-JOBS CHECK, IF A USERNAME FOR THE REMOTE HOST IS GIVEN
1983	if [[ $do_remote = true && -z $remote_username ]]
1984	then
1985	while [[ -z $remote_username ]]
1986	do
1987	printf "\n +++ username on remote host \"$host\" is undefined"
1988	printf "\n >>> Please type username:"
1989	printf "\n >>> "
1990	read remote_username
1991	done
1992	mc="$mc -u$remote_username"
1993	fi
1994
1995	# CHECK FOR INITIAL COMMANDS AFTER LOGIN
1996	if [[ "$login_init_cmd" != "" ]]
1997	then
1998	export init_cmds="${login_init_cmd};"
1999	fi
2000
2001
2002	# SET THE MODULE-LOAD COMMAD AND EXPORT IT FOR subjob
2003	if [[ "$modules" != "" ]]
2004	then
2005	if [[ $host = lctit ]]
2006	then
2007	export module_calls=". $modules"
2008	else
2009	export module_calls="module load ${modules};"
2010	fi
2011	fi
2012
2013	# OUTPUT OF THE MRUN-HEADER
2014	calltime=$(date)
2015	printf "\n"
2016	printf "#------------------------------------------------------------------------# \n"
2017	printf "\| %-35s%35s \| \n" "$version" "$calltime"
2018	printf "\| \| \n"
2019	spalte1="called on:"; spalte2=$localhost_realname
2020	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2021	if [[ $do_remote = true ]]
2022	then
2023	spalte1="execution on:"; spalte2="$host (username: $remote_username)"
2024	else
2025	spalte1="execution on:"; spalte2="$host ($localhost_realname)"
2026	fi
2027	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2028	if [[ -n $numprocs ]]
2029	then
2030	if [[ $run_coupled_model = false ]]
2031	then
2032	spalte1="number of PEs:"; spalte2=$numprocs
2033	else
2034	spalte1="number of PEs:"; spalte2="$numprocs (atmosphere: $numprocs_atmos, ocean: $numprocs_ocean)"
2035	fi
2036	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2037	fi
2038	if [[ -n $tasks_per_node ]]
2039	then
2040	spalte1="tasks per node:"; spalte2="$tasks_per_node (number of nodes: $nodes)"
2041	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2042	if (( remaining_pes > 0 ))
2043	then
2044	spalte1=" "; spalte2="one of the nodes only filled with $remaining_pes tasks"
2045	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2046	fi
2047	fi
2048	if [[ $maximum_parallel_io_streams != $numprocs ]]
2049	then
2050	spalte1="max par io streams:"; spalte2="$maximum_parallel_io_streams"
2051	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2052	fi
2053	if [[ $use_openmp = true ]]
2054	then
2055	spalte1="threads per task:"; spalte2="$threads_per_task"
2056	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2057	fi
2058	printf "\| \| \n"
2059	if [[ $do_compile = true ]]
2060	then
2061	if [[ "$mopts" != "" ]]
2062	then
2063	spalte1="make options:"; spalte2=$(echo "$mopts" \| cut -c-45)
2064	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2065	zeile=$(echo "$mopts" \| cut -c46-)
2066	while [[ "$zeile" != "" ]]
2067	do
2068	spalte1=""
2069	spalte2=$(echo "$zeile" \| cut -c-45)
2070	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2071	zeile=$(echo "$zeile" \| cut -c46-)
2072	done
2073	fi
2074
2075	spalte1="cpp directives:"; spalte2=$(echo "$cpp_options" \| cut -c-45)
2076	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2077	zeile=$(echo "$cpp_options" \| cut -c46-)
2078	while [[ "$zeile" != "" ]]
2079	do
2080	spalte1=""
2081	spalte2=$(echo "$zeile" \| cut -c-45)
2082	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2083	zeile=$(echo "$zeile" \| cut -c46-)
2084	done
2085
2086	spalte1="compiler options:"; spalte2=$(echo "$fopts" \| cut -c-45)
2087	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2088	zeile=$(echo "$fopts" \| cut -c46-)
2089	while [[ "$zeile" != "" ]]
2090	do
2091	spalte1=""
2092	spalte2=$(echo "$zeile" \| cut -c-45)
2093	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2094	zeile=$(echo "$zeile" \| cut -c46-)
2095	done
2096
2097	spalte1="linker options:"; spalte2=$(echo "$lopts" \| cut -c-45)
2098	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2099	zeile=$(echo "$lopts" \| cut -c46-)
2100	while [[ "$zeile" != "" ]]
2101	do
2102	spalte1=""
2103	spalte2=$(echo "$zeile" \| cut -c-45)
2104	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2105	zeile=$(echo "$zeile" \| cut -c46-)
2106	done
2107
2108	spalte1="modules to be load:"; spalte2=$(echo "$modules" \| cut -c-45)
2109	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2110	zeile=$(echo "$modules" \| cut -c46-)
2111	while [[ "$zeile" != "" ]]
2112	do
2113	spalte1=""
2114	spalte2=$(echo "$zeile" \| cut -c-45)
2115	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2116	zeile=$(echo "$zeile" \| cut -c46-)
2117	done
2118
2119	spalte1="main program:"; spalte2=$mainprog
2120	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2121	else
2122	spalte1=executable:; spalte2=$executable
2123	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2124	fi
2125	printf "\| \| \n"
2126	spalte1="base name of files:"; spalte2=$fname
2127	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2128	if [[ $fname != $afname ]]
2129	then
2130	spalte1="base name of input files:"; spalte2=$afname
2131	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2132	fi
2133	spalte1="INPUT control list:"; spalte2=$(echo $input_list)
2134	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2135	spalte1="OUTPUT control list:"; spalte2=$(echo $output_list)
2136	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2137
2138	if [[ "$ocean_file_appendix" = true ]]
2139	then
2140	printf "\| %-35s%-35s \| \n" "suffix \"_O\" is added to local files" " "
2141	fi
2142
2143	if [[ $do_batch = true \|\| "$LOADLBATCH" = yes ]]
2144	then
2145	spalte1="memory demand / PE":; spalte2="$memory MB"
2146	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2147	spalte1=CPU-time:; spalte2="$minuten:$sekunden"
2148	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2149	fi
2150
2151	if [[ $do_compile = true ]]
2152	then
2153	printf "\| \| \n"
2154	printf "\| Files to be compiled: \| \n"
2155	zeile=$source_list
2156	while [[ "$zeile" != "" ]]
2157	do
2158	linestart=$(echo $zeile \| cut -c-70)
2159	printf "\| %-70s \| \n" "$linestart"
2160	zeile=$(echo "$zeile" \| cut -c71-)
2161	done
2162	fi
2163	printf "#------------------------------------------------------------------------#"
2164
2165
2166
2167	# OUTPUT OF FILE CONNECTIONS IN CASE OF TRACEBACK
2168	if [[ $do_trace = true ]]
2169	then
2170	(( i = 0 ))
2171	while (( i < iin ))
2172	do
2173	(( i = i + 1 ))
2174	if (( i == 1 ))
2175	then
2176	printf "\n\n >>> INPUT-file assignments:\n"
2177	fi
2178	printf "\n ${localin[$i]} : ${absnamein[$i]}"
2179	done
2180	(( i = 0 ))
2181	while (( i < iout ))
2182	do
2183	(( i = i + 1 ))
2184	if (( i == 1 ))
2185	then
2186	printf "\n\n >>> OUTPUT-file assignments:\n"
2187	fi
2188	printf "\n ${localout[$i]} : ${pathout[$i]}"
2189	done
2190	(( i = 0 ))
2191	while (( i < iic ))
2192	do
2193	(( i = i + 1 ))
2194	if (( i == 1 ))
2195	then
2196	printf "\n\n >>> INPUT-commands:\n"
2197	fi
2198	printf "\n ${in_command[$i]}"
2199	done
2200	(( i = 0 ))
2201	while (( i < ioc ))
2202	do
2203	(( i = i + 1 ))
2204	if (( i == 1 ))
2205	then
2206	printf "\n\n >>> OUTPUT-commands:\n"
2207	fi
2208	printf "\n ${out_command[$i]}"
2209	done
2210	fi
2211
2212	# QUERY FOR CONTINUE (ON LOCAL MACHINES ONLY)
2213	if [[ $remotecall = false && $silent = false && $jobmo != BATCH ]]
2214	then
2215	antwort=dummy
2216	printf "\n\n"
2217	printf " >>> everything o.k. (y/n) ? "
2218	while read antwort
2219	do
2220	if [[ "$antwort" != y && "$antwort" != Y && "$antwort" != n && "$antwort" != N ]]
2221	then
2222	printf " >>> everything o.k. (y/n) ? "
2223	else
2224	break
2225	fi
2226	done
2227	if [[ $antwort = n \|\| $antwort = N ]]
2228	then
2229	locat=user_abort; (( iec = 0 )); exit
2230	fi
2231	if [[ $do_batch = true ]]
2232	then
2233	printf " >>> batch-job will be created and submitted"
2234	else
2235	printf " >>> MRUN will now continue to execute on this machine"
2236	fi
2237	fi
2238
2239
2240	# DETERMINE PATH FOR MAKE DEPOSITORY
2241	if [[ $do_batch = false \|\| $create_executable_for_batch = true ]]
2242	then
2243
2244	line=""
2245	grep "%depository_path" $config_file > tmp_mrun
2246	while read line
2247	do
2248	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
2249	then
2250	if [[ "$(echo $line \| cut -d" " -s -f3)" = "" ]]
2251	then
2252	global_depository_path=`echo $line \| cut -d" " -s -f2`
2253	fi
2254	fi
2255	done < tmp_mrun
2256
2257	line=""
2258	grep " $localhost" $config_file \| grep "%depository_path" > tmp_mrun
2259	while read line
2260	do
2261	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
2262	then
2263	if [[ "$(echo $line \| cut -d" " -s -f4)" = "$cond1" && "$(echo $line \| cut -d" " -s -f5)" = "$cond2" ]]
2264	then
2265	local_depository_path=`echo $line \| cut -d" " -s -f2`
2266	fi
2267	fi
2268	done < tmp_mrun
2269
2270	if [[ "$local_depository_path" = "" ]]
2271	then
2272	if [[ "$global_depository_path" != "" ]]
2273	then
2274	local_depository_path=$global_depository_path
2275	else
2276	printf "\n\n +++ no depository path found in configuration file"
2277	printf "\n for local host \"$localhost\" "
2278	printf "\n please set \"\%depository_path\" in configuration file\n"
2279	locat=config_file; exit
2280	fi
2281	fi
2282	eval local_depository_path=$local_depository_path
2283	[[ "$cond1" != "" ]] && local_depository_path=${local_depository_path}_$cond1
2284	[[ "$cond2" != "" ]] && local_depository_path=${local_depository_path}_$cond2
2285
2286
2287	basename=`echo $mainprog \| cut -f1 -d"."`
2288	eval make_depository=${local_depository_path}/${basename}_current_version.tar
2289	if [[ ! -f $make_depository ]]
2290	then
2291	printf "\n"
2292	printf "\n *** WARNING: make depository \"$make_depository\" not found"
2293	printf "\n \"make\" will fail, if the Makefile or other source files are missing\n"
2294	fi
2295
2296	fi
2297
2298
2299	# NOW PERFORM THOSE ACTIONS REQUIRED TO EXECUTE THE PROGRAM (PALM) ON THIS MACHINE
2300	# (COMPILING/LINKING, EXECUTING, COPYING I/O FILES)
2301	if [[ $do_batch = false ]]
2302	then
2303
2304
2305	# CREATE THE TEMPORARY WORKING DIRECTORY
2306	mkdir -p $TEMPDIR
2307	chmod go+rx $TEMPDIR
2308	tmpcreate=true
2309
2310
2311	# COPY EITHER THE COMPLETE SOURCE CODE FILES TO BE COMPILED OR THE EXECUTABLE
2312	# INTO THE TEMPORARY WORKING DIRECTORY
2313	if [[ $do_compile = true ]]
2314	then
2315
2316	TEMPDIR_COMPILE=$TEMPDIR
2317
2318	cp $make_depository $TEMPDIR_COMPILE
2319	cd $TEMPDIR_COMPILE
2320	tar -xf $make_depository > /dev/null 2>&1
2321	cd - > /dev/null
2322
2323	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
2324	# FILES ON CRAY XC30 SYSTEMS (HLRN III), rsync IS USED INSTEAD
2325	if [[ $(echo $host \| cut -c1-6) = lccray ]]
2326	then
2327	rsync -av -t SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
2328	else
2329	cp SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
2330	fi
2331
2332	else
2333
2334	cp $executable ${TEMPDIR}/a.out
2335
2336	fi
2337
2338
2339	# CHANGE TO THE TEMPORARY WORKING DIRECTORY
2340	cd $TEMPDIR
2341	printf "\n *** changed to temporary directory: $TEMPDIR"
2342
2343
2344	# IF REQUIRED, START WITH COMPILING
2345	if [[ $do_compile = true ]]
2346	then
2347
2348
2349	if [[ -f a.out ]]
2350	then
2351
2352	# EXECUTABLE WAS CREATED DURING INTERACTIVE CALL OF MRUN
2353	printf "\n\n\n *** executable a.out found"
2354	printf "\n no compilation required \n"
2355
2356	else
2357
2358	# COMPILING WITH MAKE (ON NEC COMPILER IS CALLED ON HOST CROSS)
2359	printf "\n\n\n *** compilation starts \n$dashes\n"
2360	printf " *** compilation with make using following options:\n"
2361	printf " make depository: $make_depository"
2362	if [[ "$mopts" != "" ]]
2363	then
2364	printf " make options: $mopts\n"
2365	fi
2366	printf " compilername: $compiler_name\n"
2367	printf " compiler options: $fopts\n"
2368	printf " preprocessor directives: $cpp_options \n"
2369	printf " linker options: $lopts \n"
2370	if [[ "$modules" != "" ]]
2371	then
2372	printf " modules to be load: $modules \n"
2373	fi
2374	printf " source code files: $source_list \n"
2375
2376	if [[ $localhost = ibmh ]]
2377	then
2378	printf " compiler is called via ssh on \"plogin1\" \n"
2379	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\" "
2380	[[ ! -f a.out ]] && compile_error=true
2381	continue # STATUS=1, IF a.out EXISTS
2382	elif [[ $localhost = lcocean ]]
2383	then
2384	printf " compiler is called via ssh on \"ocean\" \n"
2385	echo $PWD
2386	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\" "
2387	[[ ! -f a.out ]] && compile_error=true
2388	continue # STATUS=1, IF a.out EXISTS
2389	elif [[ $localhost = lcbullhh \|\| $localhost = lccrayb \|\| $localhost = lccrayf \|\| $localhost = lccrayh ]]
2390	then
2391	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2392	elif [[ $localhost = lceddy ]]
2393	then
2394	which mpifc
2395	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2396	else
2397	[[ "$init_cmds" != "" ]] && eval $init_cmds
2398	[[ "$module_calls" != "" ]] && eval $module_calls
2399	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2400	fi
2401
2402	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
2403	then
2404	printf "\n +++ error occured while compiling or linking"
2405	locat=compile
2406
2407	exit
2408	else
2409	printf "$dashes\n *** compilation finished \n"
2410	fi
2411
2412	fi
2413
2414	fi
2415
2416
2417	# PROVIDE THE INPUT FILES
2418	# LOOP OVER ALL ACTIVATED FILES (LISTED IN THE CONFIGURATION FILE)
2419	(( i = 0 ))
2420	while (( i < iin ))
2421	do
2422	(( i = i + 1 ))
2423	if (( i == 1 ))
2424	then
2425	printf "\n\n *** providing INPUT-files:\n$dashes"
2426	fi
2427
2428
2429	# SKIP OPTIONAL FILES, IF THEY DO NOT EXIST
2430	if [[ "${transin[$i]}" = unavailable ]]
2431	then
2432	if [[ "${extin[$i]}" = "" \|\| "${extin[$i]}" = " " ]]
2433	then
2434	printf "\n *** INFORMATIVE: input file \"${pathin[$i]}/${afname}${endin[$i]}\" "
2435	printf "\n is not available!"
2436	else
2437	printf "\n *** INFORMATIVE: input file \"${pathin[$i]}/${afname}${endin[$i]}.${extin[$i]}\" "
2438	printf "\n is not available!"
2439	fi
2440	continue
2441	fi
2442
2443	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
2444	files_for_pes=false; datentyp=file
2445	if [[ "${actionin[$i]}" = pe && -n $numprocs ]]
2446	then
2447	files_for_pes=true; datentyp=files
2448	actionin[$i]=""
2449	elif [[ "${actionin[$i]}" = pe && ! -n $numprocs ]]
2450	then
2451	actionin[$i]=""
2452	elif [[ "${actionin[$i]}" = lnpe && -n $numprocs ]]
2453	then
2454	files_for_pes=true; datentyp=files
2455	actionin[$i]="ln"
2456	elif [[ "${actionin[$i]}" = lnpe && ! -n $numprocs ]]
2457	then
2458	actionin[$i]="ln"
2459	fi
2460
2461	if [[ $files_for_pes = true ]]
2462	then
2463	printf "\n >>> INPUT: ${absnamein[$i]}/.... to ${localin[$i]}"
2464	else
2465	printf "\n >>> INPUT: ${absnamein[$i]} to ${localin[$i]}"
2466	fi
2467
2468	# INPUT-FILES TO BE LINKED
2469	if [[ "${actionin[$i]}" = ln ]]
2470	then
2471
2472	printf "\n $datentyp will be linked"
2473	if [[ $files_for_pes = false ]]
2474	then
2475	if [[ -f "${absnamein[$i]}" ]]
2476	then
2477	ln ${absnamein[$i]} ${localin[$i]}
2478	got_tmp[$i]=true
2479	fi
2480	else
2481	if [[ -d "${absnamein[$i]}" ]]
2482	then
2483	mkdir ${localin[$i]}
2484	cd ${absnamein[$i]}
2485	for file in $(ls *)
2486	do
2487	ln $file $TEMPDIR/${localin[$i]}
2488	done >\|/dev/null 2>&1
2489	cd $TEMPDIR
2490	fi
2491
2492	# IF "ln -f" HAS FAILED DO A NORMAL COPY "cp -r"
2493	if [[ ! -f "${localin[$i]}/_000000" ]]
2494	then
2495	printf "\n --- WARNING: ln failed, using cp instead (might be time consuming...)"
2496	cp -r ${absnamein[$i]}/* ${localin[$i]}
2497	fi
2498
2499	got_tmp[$i]=true
2500	fi
2501	fi
2502
2503	# FILE IS STORED IN THE RESPECTIVE DIRECTORY GIVEN IN THE CONFIGURATION FILE
2504	if [[ "${actionin[$i]}" = "" \|\| "${actionin[$i]}" = "di" \|\| "${actionin[$i]}" = "npe" ]]
2505	then
2506
2507	if [[ "${actionin[$i]}" = "npe" && -n $numprocs ]]
2508	then
2509
2510	# FILE COPIES ARE PROVIDED FOR ALL CORES
2511	# EACH FILE GETS A UNIQUE FILENAME WITH A FOUR DIGIT NUMBER
2512	printf "\n file will be provided for $numprocs processors"
2513	mkdir ${localin[$i]}
2514	ival=$numprocs
2515	(( ii = 0 ))
2516	while (( ii <= ival-1 ))
2517	do
2518	if (( ii < 10 ))
2519	then
2520	cp ${absnamein[$i]} ${localin[$i]}/_000$ii
2521	elif (( ii < 100 ))
2522	then
2523	cp ${absnamein[$i]} ${localin[$i]}/_00$ii
2524	elif (( ii < 1000 ))
2525	then
2526	cp ${absnamein[$i]} ${localin[$i]}/_0$ii
2527	else
2528	cp ${absnamein[$i]} ${localin[$i]}/_$ii
2529	fi
2530	(( ii = ii + 1 ))
2531	done
2532
2533	else
2534
2535	if [[ $files_for_pes = true ]]
2536	then
2537
2538	# PROVIDE FILES FOR EACH CORE
2539	# FIRST CREATE THE LOCAL DIRECTORY, THEN COPY FILES
2540	# FROM THE PERMANENT DIRECTORY BY LINKING THEM TO THE LOCAL ONE
2541	printf "\n providing $numprocs files for the respective processors"
2542	mkdir ${localin[$i]}
2543	if [[ $link_local_input = true ]]
2544	then
2545	printf " files will be linked\n"
2546	cd ${absnamein[$i]}
2547	for file in $(ls *)
2548	do
2549	ln -f $file ${localin[$i]}
2550	done
2551	cd $TEMPDIR
2552	fi
2553
2554	# IF "ln -f" FAILED OR IF "$link_local_input = false" DO A NORMAL "cp -r"
2555	if [[ ! -f "${localin[$i]}/_000000" ]]
2556	then
2557	if [[ $link_local_input = true ]]
2558	then
2559	printf "\n --- WARNING: ln failed, using cp instead (might be time consuming...)"
2560	fi
2561	cp -r ${absnamein[$i]}/* ${localin[$i]}
2562	fi
2563
2564	else
2565
2566	# PROVIDE FILE FOR RUNS ON A SINGLE CORE
2567	if [[ $link_local_input = true ]]
2568	then
2569	printf " file will be linked\n"
2570	ln -f ${absnamein[$i]} ${localin[$i]}
2571	fi
2572	# If "ln -f" fails of if "$link_local_input = false" do a normal "cp"
2573	if [[ ! -f "${localin[$i]}" ]]
2574	then
2575	if [[ $link_local_input = true ]]
2576	then
2577	printf "\n --- WARNING: ln failed, using cp instead (might be time consuming...)"
2578	fi
2579	cp ${absnamein[$i]} ${localin[$i]}
2580	fi
2581	fi
2582	fi
2583	fi
2584
2585	done
2586	if (( i != 0 ))
2587	then
2588	printf "\n$dashes\n *** all INPUT-files provided \n"
2589	fi
2590
2591
2592	# EXECUTE INPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
2593	(( i = 0 ))
2594	while (( i < iic ))
2595	do
2596	(( i = i + 1 ))
2597	if (( i == 1 ))
2598	then
2599	printf "\n\n *** execution of INPUT-commands:\n$dashes"
2600	fi
2601	printf "\n >>> ${in_command[$i]}"
2602	eval ${in_command[$i]}
2603	if (( i == iic ))
2604	then
2605	printf "\n$dashes\n"
2606	fi
2607	done
2608
2609
2610	# SET THE REMAINING CPU-TIME
2611	cpurest=${cpumax}.
2612
2613
2614	# START DVR STREAMING SERVER
2615	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
2616	then
2617	if [[ "$dvr_server" != "" ]]
2618	then
2619
2620	printf "\n\n *** preparing the dvr streaming server configuration file"
2621
2622	# CHECK, IF A DVR SERVER IS ALREADY RUNNING
2623	running_dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config \| grep -v grep) \| cut -d" " -f2`
2624	if [[ "$running_dvrserver_id" != "" ]]
2625	then
2626
2627	printf "\n\n +++ WARNING: A dvr server with id=$running_dvrserver_id is already running!"
2628	printf "\n This server is used instead starting a new one!"
2629	printf "\n If required, script \"process_dvr_output\" has to be run manually."
2630
2631	else
2632
2633	# COPY CONFIGURATION FILE FOR STREAMING SERVER FROM REPOSITORY TO HERE
2634	if [[ -f ${PALM_BIN}/.dvrserver.config ]]
2635	then
2636	cp ${PALM_BIN}/.dvrserver.config .
2637
2638	# ENTERING THE BASEDIR, UID AND GID INTO THIS FILE
2639	user_id=`id -u`
2640	group_id=`id -g`
2641
2642	# "&" IS REQUIRED AS A SEPERATOR, BECAUSE TEMPDIR CONTAINS "/"
2643	sed "s&<replace by dvr data directory>&${TEMPDIR}&g" .dvrserver.config > .dvrserver.1
2644	sed "s/<replace by user id>/$user_id/g" .dvrserver.1 > .dvrserver.2
2645	sed "s/<replace by group id>/$group_id/g" .dvrserver.2 > .dvrserver.3
2646	mv .dvrserver.3 .dvrserver.config
2647	rm .dvrserver.1 .dvrserver.2
2648
2649	# START DVR SERVER IN BACKGROUND, GET HIS ID AND PRINT ON TERMINAL
2650	$dvr_server .dvrserver.config >> DVR_LOGFILE 2>&1 &
2651	dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config) \| cut -d" " -f2`
2652	printf "\n *** streaming server with id=$dvrserver_id is started in background"
2653	local_dvrserver_running=.TRUE.
2654	else
2655	printf "\n +++ missing file \".dvrserver.config\" in directory:"
2656	printf "\n \"$PALM_BIN\" "
2657	locat=dvr
2658	exit
2659	fi
2660
2661	fi
2662
2663	else
2664	printf "\n\n --- INFORMATIVE: no dvr streaming server will be started"
2665	fi
2666	fi
2667
2668
2669	# CREATE THE NAMELIST-FILE WITH VALUES OF ENVIRONMENT-VARIABLES REQUIRED BY PALM
2670	# (FILE ENVPAR WILL BE READ BY PALM)
2671	cat > ENVPAR << EOF
2672	&envpar run_identifier = '$fname', host = '$localhost',
2673	write_binary = '$write_binary', tasks_per_node = $tasks_per_node,
2674	maximum_parallel_io_streams = $maximum_parallel_io_streams,
2675	maximum_cpu_time_allowed = ${cpumax}.,
2676	revision = '$global_revision',
2677	local_dvrserver_running = $local_dvrserver_running,
2678	batch_job = $batch_job /
2679
2680	EOF
2681
2682
2683	# STARTING THE EXECUTABLE
2684	printf "\n\n *** execution starts in directory\n \"`pwd`\"\n$dashes\n"
2685	PATH=$PATH:$TEMPDIR
2686
2687
2688	if [[ $execute_command != "none" ]]
2689	then
2690
2691	printf "\n +++ branch still not realized"
2692	locat=execution
2693	exit
2694
2695	else
2696
2697	# MPI DEBUG OPTION (ARGUMENT CHECKING, SLOWS DOWN EXECUTION DUE TO INCREASED LATENCY)
2698	if [[ "$mpi_debug" = true ]]
2699	then
2700	export MPI_CHECK_ARGS=1
2701	printf "\n +++ MPI_CHECK_ARGS=$MPI_CHECK_ARGS"
2702	fi
2703
2704	if [[ "$totalview" = true ]]
2705	then
2706	printf "\n *** totalview debugger will be used"
2707	tv_opt="-tv"
2708	else
2709	tv_opt=""
2710	fi
2711
2712	if [[ "$cond1" = debug \|\| "$cond2" = debug ]]
2713	then
2714
2715	#Interactive ALLINEA DEBUG seesion
2716	if [[ "$ENVIRONMENT" != BATCH ]]
2717	then
2718	if [[ $host = lccrayb \|\| $host = lccrayh ]]
2719	then
2720	if [[ "$allinea" = true ]]
2721	then
2722	echo "--- aprun -n $ii -N $tasks_per_node a.out < runfile_atmos"
2723
2724	ddt aprun -n $ii -N $tasks_per_node a.out
2725	wait
2726	fi
2727	fi
2728	fi
2729
2730	if [[ $localhost = ibmh ]]
2731	then
2732
2733	# SETUP THE IBM MPI ENVIRONMENT
2734	export MP_SHARED_MEMORY=yes
2735	export AIXTHREADS_SCOPE=S
2736	export OMP_NUM_THREADS=$threads_per_task
2737	export AUTHSTATE=files
2738	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
2739
2740	# FOLLOWING OPTIONS ARE MANDATORY FOR TOTALVIEW
2741	export MP_ADAPTER_USE=shared
2742	export MP_CPU_USE=multiple
2743	export MP_TIMEOUT=1200
2744
2745	unset MP_TASK_AFFINITY
2746
2747	if [[ "$LOADLBATCH" = yes ]]
2748	then
2749	totalview poe a.out
2750	else
2751	echo totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1
2752	export TVDSVRLAUNCHCMD=ssh
2753	totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1
2754	fi
2755
2756	fi # END DEBUG MODE
2757
2758	else
2759
2760	# NORMAL EXECUTION
2761	if [[ -n $numprocs ]]
2762	then
2763
2764	# RUNNING THE PROGRAM ON PARALLEL MACHINES
2765	if [[ $(echo $host \| cut -c1-3) = ibm ]]
2766	then
2767
2768	# SETUP THE IBM MPI ENVIRONMENT
2769	if [[ $host != ibmh && $host != ibmkisti ]]
2770	then
2771	export MP_SHARED_MEMORY=yes
2772	export AIXTHREAD_SCOPE=S
2773	export OMP_NUM_THREADS=$threads_per_task
2774	export XLSMPOPTS="spins=0:yields=0:stack=20000000"
2775	export AUTHSTATE=files
2776	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
2777	# export MP_PRINTENV=yes
2778
2779	# TUNING-VARIABLES TO IMPROVE COMMUNICATION SPEED
2780	# DO NOT SHOW SIGNIFICANT EFFECTS (SEP 04, FEDERATION-SWITCH)
2781	export MP_WAIT_MODE=poll
2782	[[ $node_usage = not_shared ]] && export MP_SINGLE_THREAD=yes
2783	fi
2784
2785	if [[ $host = ibmkisti ]]
2786	then
2787	export LANG=en_US
2788	export MP_SHARED_MEMORY=yes
2789	if [[ $threads_per_task = 1 ]]
2790	then
2791	export MP_SINGLE_THREAD=yes
2792	export MEMORY_AFFINITY=MCM
2793	else
2794	export OMP_NUM_THREADS=$threads_per_task
2795	fi
2796	fi
2797
2798	if [[ "$LOADLBATCH" = yes ]]
2799	then
2800	printf "\n--- Control: OMP_NUM_THREADS = \"$OMP_NUM_THREADS\" \n"
2801	if [[ "$cond1" = hpmcount \|\| "$cond2" = hpmcount ]]
2802	then
2803	/opt/optibm/HPM_2_4_1/bin/hpmcount a.out
2804	else
2805	if [[ $run_coupled_model = false ]]
2806	then
2807	if [[ "$ocean_file_appendix" = true ]]
2808	then
2809	echo "precursor_ocean" > runfile_atmos
2810	else
2811	echo "precursor_atmos" > runfile_atmos
2812	fi
2813	else
2814	(( iia = $numprocs_atmos / $threads_per_task ))
2815	(( iio = $numprocs_ocean / $threads_per_task ))
2816	printf "\n coupled run ($iia atmosphere, $iio ocean)"
2817	printf "\n using $coupled_mode coupling"
2818	printf "\n\n"
2819	echo "coupled_run $iia $iio" > runfile_atmos
2820	fi
2821	poe ./a.out < runfile_atmos
2822	fi
2823	else
2824	if [[ $localhost = ibmh \|\| $localhost = ibms ]]
2825	then
2826	poe a.out -procs $numprocs -nodes 1 -rmpool 0
2827	elif [[ $localhost = ibmkisti \|\| $localhost = ibmku ]]
2828	then
2829	if [[ -f $hostfile ]]
2830	then
2831	cp $hostfile hostfile
2832	else
2833	(( ii = 1 ))
2834	while (( ii <= $numprocs ))
2835	do
2836	echo $localhost_realname >> hostfile
2837	(( ii = ii + 1 ))
2838	done
2839	fi
2840	export MP_HOSTFILE=hostfile
2841	if [[ $run_coupled_model = false ]]
2842	then
2843	if [[ "$ocean_file_appendix" = true ]]
2844	then
2845	echo "precursor_ocean" > runfile_atmos
2846	else
2847	echo "precursor_atmos" > runfile_atmos
2848	fi
2849	else
2850	(( iia = $numprocs_atmos / $threads_per_task ))
2851	(( iio = $numprocs_ocean / $threads_per_task ))
2852	printf "\n coupled run ($iia atmosphere, $iio ocean)"
2853	printf "\n using $coupled_mode coupling"
2854	printf "\n\n"
2855	echo "coupled_run $iia $iio" > runfile_atmos
2856	fi
2857
2858	poe ./a.out -procs $numprocs < runfile_atmos
2859
2860	else
2861	if [[ "$host_file" = "" ]]
2862	then
2863	printf "\n +++ no hostfile given in configuration file"
2864	locat=config_file
2865	exit
2866	else
2867	eval host_file=$host_file
2868	fi
2869	export MP_HOSTFILE=$host_file
2870	poe a.out -procs $numprocs -tasks_per_node $numprocs
2871	fi
2872	fi
2873
2874	elif [[ $(echo $host \| cut -c1-2) = lc && $host != lckyoto && $host != lctit ]]
2875	then
2876
2877	# COPY HOSTFILE FROM SOURCE DIRECTORY OR CREATE IT, IF IT
2878	# DOES NOT EXIST
2879	if [[ $host != lcbullhh && $host != lccrayb && $host != lccrayf && $host != lccrayh && $host != lckyuh && $host != lckyut && $host != lcocean && $host != lceddy ]]
2880	then
2881	if [[ -f $hostfile ]]
2882	then
2883	cp $hostfile hostfile
2884	(( ii = $numprocs / $threads_per_task ))
2885	[[ $ii = 0 ]] && (( ii = 1 ))
2886	else
2887	(( ii = 1 ))
2888	while (( ii <= $numprocs / $threads_per_task ))
2889	do
2890	echo $localhost_realname >> hostfile
2891	(( ii = ii + 1 ))
2892	done
2893	if (( $numprocs / $threads_per_task == 0 ))
2894	then
2895	echo $localhost_realname >> hostfile
2896	fi
2897	fi
2898	eval zeile=\"`head -n $ii hostfile`\"
2899	printf "\n *** running on: $zeile"
2900	fi
2901
2902	(( ii = $numprocs / $threads_per_task ))
2903	[[ $ii = 0 ]] && (( ii = 1 ))
2904	export OMP_NUM_THREADS=$threads_per_task
2905
2906	if [[ $threads_per_task != 1 ]]
2907	then
2908	# INCREASE STACK SIZE TO UNLIMITED, BECAUSE OTHERWISE LARGE RUNS
2909	# MAY ABORT
2910	ulimit -s unlimited
2911	printf "\n threads per task: $threads_per_task stacksize: unlimited"
2912	fi
2913	if [[ $run_coupled_model = false ]]
2914	then
2915	if [[ "$ocean_file_appendix" = true ]]
2916	then
2917	echo "precursor_ocean" > runfile_atmos
2918	else
2919	echo "precursor_atmos" > runfile_atmos
2920	fi
2921	printf "\n\n"
2922
2923	if [[ $host = lccrayb \|\| $host = lccrayh ]]
2924	then
2925	echo "--- aprun -n $ii -N $tasks_per_node a.out < runfile_atmos"
2926	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
2927	elif [[ $host = lcbullhh ]]
2928	then
2929	export OMPI_MCA_pml=cm
2930	export OMPI_MCA_mtl=mxm
2931	export OMPI_MCA_coll=^ghc
2932	export OMPI_MCA_mtl_mxm_np=0
2933	export MXM_RDMA_PORTS=mlx5_0:1
2934	export MXM_LOG_LEVEL=ERROR
2935	export OMP_NUM_THREADS=$threads_per_task
2936	export KMP_AFFINITY=verbose,granularity=core,compact,1
2937	export KMP_STACKSIZE=64m
2938
2939	srun -n $ii --ntasks-per-node=$tasks_per_node ./a.out < runfile_atmos
2940
2941	elif [[ $host = lccrayf ]]
2942	then
2943	aprun -j1 -n $ii -N $tasks_per_node -m ${memory}M a.out < runfile_atmos
2944	elif [[ $host = lcxe6 \|\| $host = lcxt5m ]]
2945	then
2946	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
2947	elif [[ $host = lceddy ]]
2948	then
2949	echo $ii
2950	echo $tasks_per_node
2951	echo $nodes
2952	mpirun -n $ii a.out < runfile_atmos
2953	elif [[ $host = lcocean ]]
2954	then
2955	mpirun a.out $ROPTS < runfile_atmos
2956	elif [[ $host = lcsb ]]
2957	then
2958	mpirun_rsh -hostfile $PBS_NODEFILE -np `cat $PBS_NODEFILE \| wc -l` a.out < runfile_atmos
2959
2960	elif [[ $host = lckiaps ]]
2961	then
2962	mpirun -np $ii -machinefile $PBS_NODEFILE ./a.out < runfile_atmos
2963	elif [[ $host = lckyu* ]]
2964	then
2965	mpiexec -n $ii --stdin runfile_atmos ./a.out
2966	else
2967	mpiexec -machinefile hostfile -n $ii a.out < runfile_atmos
2968	fi
2969
2970	else
2971
2972	# CURRENTLY THERE IS NO FULL MPI-2 SUPPORT ON ICE AND XT4
2973	(( iia = $numprocs_atmos / $threads_per_task ))
2974	(( iio = $numprocs_ocean / $threads_per_task ))
2975	printf "\n coupled run ($iia atmosphere, $iio ocean)"
2976	printf "\n using $coupled_mode coupling"
2977	printf "\n\n"
2978
2979	if [[ $coupled_mode = "mpi2" ]]
2980	then
2981	echo "atmosphere_to_ocean $iia $iio" > runfile_atmos
2982	echo "ocean_to_atmosphere $iia $iio" > runfile_ocean
2983
2984	if [[ $host = lccrayf \|\| $host = lcxe6 \|\| $host = lcxt5m ]]
2985	then
2986
2987	aprun -n $iia -N $tasks_per_node a.out < runfile_atmos &
2988	aprun -n $iio -N $tasks_per_node a.out < runfile_ocean &
2989
2990	else
2991	# WORKAROUND BECAUSE mpiexec WITH -env option IS NOT AVAILABLE ON SOME SYSTEMS
2992	mpiexec -machinefile hostfile -n $iia a.out < runfile_atmos &
2993	mpiexec -machinefile hostfile -n $iio a.out < runfile_ocean &
2994	# mpiexec -machinefile hostfile -n $iia -env coupling_mode atmosphere_to_ocean a.out &
2995	# mpiexec -machinefile hostfile -n $iio -env coupling_mode ocean_to_atmosphere a.out &
2996	fi
2997	wait
2998
2999	else
3000
3001	echo "coupled_run $iia $iio" > runfile_atmos
3002
3003	if [[ $host = lccrayf \|\| $host = lcxe6 \|\| $host = lcxt5m ]]
3004	then
3005
3006	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
3007
3008	elif [[ $host = lck \|\| $host = lckordi ]]
3009	then
3010
3011	mpiexec -n $ii ./a.out < runfile_atmos &
3012
3013	elif [[ $host = lckyu* ]]
3014	then
3015
3016	mpiexec -n $ii --stdin runfile_atmos ./a.out
3017
3018	elif [[ $host = lcmuk ]]
3019	then
3020
3021	mpiexec -machinefile hostfile -n $ii a.out < runfile_atmos
3022
3023	fi
3024	wait
3025	fi
3026
3027	fi
3028
3029	elif [[ $host = lckyoto ]]
3030	then
3031	set -xv
3032	export P4_RSHCOMMAND=plesh
3033	echo " P4_RSHCOMMAND = $P4_RSHCOMMAND"
3034	if [[ "$ENVIRONMENT" = BATCH ]]
3035	then
3036	if [[ "$cond2" = fujitsu ]]
3037	then
3038	mpiexec -n $numprocs ./a.out # for fujitsu-compiler
3039	elif [[ "cond2" = pgi ]]
3040	then
3041	mpirun -np $numprocs -machinefile ${QSUB_NODEINF} ./a.out
3042	else
3043	mpirun_rsh -np $numprocs -hostfile ${QSUB_NODEINF} MV2_USE_SRQ=0 ./a.out \|\| /bin/true
3044	fi
3045	else
3046	if [[ "$cond2" = "" ]]
3047	then
3048	mpiruni_rsh -np $numprocs ./a.out # for intel
3049	else
3050	mpirun -np $numprocs ./a.out
3051	fi
3052	fi
3053	set +xv
3054
3055	elif [[ $host = lctit ]]
3056	then
3057	export OMP_NUM_THREADS=$threads_per_task
3058	echo "OMP_NUM_THREADS=$OMP_NUM_THREADS"
3059	if [[ "$threads_per_task" != 1 ]]
3060	then
3061	export MV2_ENABLE_AFFINITY=0
3062	fi
3063	echo "----- PBS_NODEFILE content:"
3064	cat $PBS_NODEFILE
3065	echo "-----"
3066	(( ii = $numprocs / $threads_per_task ))
3067	echo "mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out"
3068	mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out
3069
3070	else
3071	mpprun -n $numprocs a.out
3072	fi
3073	else
3074	a.out
3075	fi
3076
3077	fi # end normal (non-debug) execution
3078
3079	fi # end explicit execute_command or host-specific execute actions
3080
3081	if [[ $? != 0 ]]
3082	then
3083
3084	# ABORT IN CASE OF RUNTIME ERRORS
3085	printf "\n +++ runtime error occured"
3086	locat=execution
3087	exit
3088
3089	else
3090
3091	printf "\n$dashes\n *** execution finished \n"
3092
3093	# STOP THE DVR STREAMING SERVER AND PROCESS THE DVR OUTPUT IN ORDER
3094	# TO CREAT DVRS- AND HTML-FILES CONTAINING ALL STREAMS
3095	if [[ "$dvrserver_id" != "" ]]
3096	then
3097	kill $dvrserver_id
3098	printf "\n *** dvr server with id=$dvrserver_id has been stopped"
3099
3100	# IF THERE IS A DIRECTORY, DATA HAVE BEEN OUTPUT BY THE
3101	# STREAMING SERVER. OTHERWISE, USER HAS CHOSEN dvrp_output=local
3102	if [[ -d DATA_DVR ]]
3103	then
3104
3105	# ADD THE CURRENT DVR CONFIGURATION FILE TO THE DVR OUTPUT
3106	# DIRECTORY
3107	cp .dvrserver.config DATA_DVR
3108
3109	# PROCESS THE DVR OUTPUT (OPTION -s FOR GENERATING
3110	# SEQUENCE MODE DATA TOO)
3111	process_dvr_output -d DATA_DVR -f $fname -s
3112
3113	else
3114
3115	# PROCESS THE LOCAL OUTPUT
3116	process_dvr_output -l -d DATA_DVR -f $fname
3117
3118	fi
3119
3120	elif [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
3121	then
3122
3123	# PROCESS DVR OUTPUT GENERATD IN LOCAL MODE (dvrp_output=local)
3124	process_dvr_output -l -d DATA_DVR -f $fname
3125
3126	fi
3127	fi
3128
3129
3130
3131	# CALL OF combine_plot_fields IN ORDER TO MERGE SINGLE FILES WRITTEN
3132	# BY EACH CORE INTO ONE FILE
3133	if [[ ! -f ${PALM_BIN}/combine_plot_fields${block}.x ]]
3134	then
3135	printf "\n\n\n +++ WARNING: no combine_plot_fields found for given block \"$cond1 $cond2\""
3136	printf "\n 2d- and/or 3d-data may be incomplete!"
3137	printf "\n Run \"mbuild -u -h $localhost\" to generate utilities for this block.\n"
3138	elif [[ "$combine_plot_fields" == true ]]
3139	then
3140	if [[ $localhost = lccrayh \|\| $localhost = lccrayb ]]
3141	then
3142	printf "\n\n\n *** post-processing: now executing \"aprun -n 1 -N 1 combine_plot_fields${block}.x\" ..."
3143	aprun -n 1 -N 1 combine_plot_fields${block}.x
3144	else
3145	printf "\n\n\n *** post-processing: now executing \"combine_plot_fields${block}.x\" ..."
3146	combine_plot_fields${block}.x
3147	fi
3148	else
3149
3150	# TEMPORARY SOLUTION TO SKIP combine_plot_fields. THIS IS REQUIRED IN CASE OF HUGE AMOUNT OF
3151	# DATA OUTPUT. TO DO: EXTEND THIS BRANCH BY CREATING A BATCH JOB for combine_plot_fields.
3152	# ??? koennen wir das streichen ???
3153	printf "\n\n\n *** post-processing: skipping combine_plot_fields (-Z option set) ..."
3154	fi
3155
3156
3157
3158	# EXECUTE OUTPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
3159	(( i = 0 ))
3160	while (( i < ioc ))
3161	do
3162	(( i = i + 1 ))
3163	if (( i == 1 ))
3164	then
3165	printf "\n\n *** execution of OUTPUT-commands:\n$dashes"
3166	fi
3167	printf "\n >>> ${out_command[$i]}"
3168	eval ${out_command[$i]}
3169	if (( i == ioc ))
3170	then
3171	printf "\n$dashes\n"
3172	fi
3173	done
3174
3175
3176	# IN TRACE-MODE PRINT CONTENTS OF THE CURRENT (TEMPORARY) WORKING DIRECTORY
3177	if [[ $do_trace = true ]]
3178	then
3179	printf "\n\n"
3180	ls -al
3181	fi
3182
3183
3184	# COPY LOCAL OUTPUT-FILES TO THEIR PERMANENT DESTINATIONS
3185	(( i = 0 ))
3186	while (( i < iout ))
3187	do
3188	(( i = i + 1 ))
3189	if (( i == 1 ))
3190	then
3191	printf "\n\n *** saving OUTPUT-files:"
3192
3193	# GET RUN NUMBER ASSIGNED BY PALM
3194	if [[ -f RUN_NUMBER ]]
3195	then
3196	read run_number < RUN_NUMBER
3197	printf "\n *** PALM generated run_number = "$run_number" will be used as unified cycle number for all output files"
3198	usecycle_option="-U $run_number"
3199	else
3200	run_number=0
3201	usecycle_option=""
3202	fi
3203	printf "\n$dashes"
3204	fi
3205
3206	# ADD CYCLE NUMBER TO FILENAME
3207	if [[ ! ( $fromhost != $localhost && ( "${actionout[$i]}" = tr \|\| "${actionout[$i]}" = tra \|\| "${actionout[$i]}" = trpe ) ) ]]
3208	then
3209
3210	# IN APPEND MODE, FILES KEEP THEIR CURRENT CYCLE NUMBER
3211	if [[ "${actionout[$i]}" != "a" ]]
3212	then
3213	# SET RUN NUMBER AS CYCLE NUMBER, IF THERE IS NOT A CONFLICT
3214	# WITH AN EXISTING CYCLE NUMBER
3215	if (( run_number >= cycnum[$i] ))
3216	then
3217	(( cycnum[$i] = run_number ))
3218	else
3219	if (( run_number > 0 ))
3220	then
3221	printf "\n --- INFORMATIVE: The following file cannot get a unified cycle number"
3222	fi
3223	fi
3224	fi
3225	if (( cycnum[$i] > 0 ))
3226	then
3227	pathout[$i]=${pathout[$i]}.${cycnum[$i]}
3228	fi
3229	fi
3230
3231	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
3232	files_for_pes=false; filetyp=file
3233	link_local_output=false
3234	if [[ "${actionout[$i]}" = pe && -n $numprocs ]]
3235	then
3236	files_for_pes=true; filetyp=directory
3237	actionout[$i]=""
3238	elif [[ "${actionout[$i]}" = pe && ! -n $numprocs ]]
3239	then
3240	actionout[$i]=""
3241	elif [[ "${actionout[$i]}" = lnpe && -n $numprocs ]]
3242	then
3243	files_for_pes=true; filetyp=directory
3244	link_local_output=true
3245	actionout[$i]=""
3246	elif [[ "${actionout[$i]}" = lnpe && ! -n $numprocs ]]
3247	then
3248	link_local_output
3249	actionout[$i]=""
3250	elif [[ "${actionout[$i]}" = trpe && -n $numprocs ]]
3251	then
3252	files_for_pes=true; filetyp=directory
3253	actionout[$i]="tr"
3254	elif [[ "${actionout[$i]}" = trpe && ! -n $numprocs ]]
3255	then
3256	actionout[$i]="tr"
3257	fi
3258
3259	if [[ ! -f ${localout[$i]} && $files_for_pes = false ]]
3260	then
3261	printf "\n +++ temporary OUTPUT-file ${localout[$i]} does not exist\n"
3262	elif [[ ! -d ${localout[$i]} && $files_for_pes = true ]]
3263	then
3264	printf "\n +++ temporary OUTPUT-file ${localout[$i]}/.... does not exist\n"
3265	else
3266
3267
3268	# COPY VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
3269	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
3270	if [[ "${actionout[$i]}" = tr ]]
3271	then
3272	if [[ $localhost != $fromhost ]]
3273	then
3274	if [[ $files_for_pes = false ]]
3275	then
3276	cps=""
3277	cst=""
3278	else
3279	cps=-c
3280	cst="/"
3281	fi
3282
3283	transfer_failed=false
3284	printf "\n >>> OUTPUT: ${localout[$i]}$cst by SCP to"
3285	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}$cst\n"
3286	if [[ $localhost = lccrayb ]]
3287	then
3288	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]}"
3289	elif [[ $localhost = lccrayh ]]
3290	then
3291	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]}"
3292	elif [[ $localhost = lcbullhh ]]
3293	then
3294	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]}"
3295	elif [[ $localhost = lcxe6 ]]
3296	then
3297	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]}"
3298	else
3299	batch_scp $PORTOPT $cps -b -m $usecycle_option -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
3300	fi
3301	[[ $? != 0 ]] && transfer_failed=true
3302
3303	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
3304	if [[ $transfer_failed = true ]]
3305	then
3306	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
3307	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
3308
3309	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
3310	eval local_catalog=${pathout[$i]}
3311	if [[ ! -d $local_catalog ]]
3312	then
3313	printf " *** local directory does not exist. Trying to create:\n"
3314	printf " $local_catalog \n"
3315	mkdir -p $local_catalog
3316	fi
3317	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
3318	transfer_problems=true
3319	fi
3320
3321	else
3322
3323	# UNSET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE COPIED ON THIS MACHINE
3324	actionout[$i]=""
3325	fi
3326	fi
3327
3328
3329	# APPEND VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
3330	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
3331	if [[ "${actionout[$i]}" = tra ]]
3332	then
3333	if [[ $localhost != $fromhost ]]
3334	then
3335	if [[ $localhost = ibmh ]]
3336	then
3337
3338	# TRANSFER IN SEPERATE JOB
3339	# FIRST COPY FILE TO TEMPORY DATA DIRECTORY
3340	[[ ! -d $tmp_data_catalog/TRANSFER ]] && mkdir -p $tmp_data_catalog/TRANSFER
3341	file_to_transfer=${fname}_${localout[$i]}_to_transfer_$kennung
3342	ln -f ${localout[$i]} $tmp_data_catalog/TRANSFER/$file_to_transfer
3343
3344	echo "set -x" > transfer_${localout[$i]}
3345	echo "cd $tmp_data_catalog/TRANSFER" >> transfer_${localout[$i]}
3346
3347	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP in seperate job to"
3348	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}"
3349	printf "\n or higher cycle\n"
3350	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]}
3351
3352	echo "[[ \$? = 0 ]] && rm $file_to_transfer" >> transfer_${localout[$i]}
3353
3354	if [[ $LOGNAME = b323013 ]]
3355	then
3356	subjob -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3357	else
3358	subjob -d -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3359	fi
3360
3361	else
3362
3363	# TRANSFER WITHIN THIS JOB
3364	transfer_failed=false
3365	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP to"
3366	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}\n"
3367	if [[ $localhost = lccrayb ]]
3368	then
3369	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]}"
3370	elif [[ $localhost = lccrayh ]]
3371	then
3372	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]}"
3373	elif [[ $localhost = lcxe6 ]]
3374	then
3375	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]}"
3376	else
3377	batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
3378	fi
3379	[[ $? != 0 ]] && transfer_failed=true
3380
3381	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
3382	if [[ $transfer_failed = true ]]
3383	then
3384	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
3385	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
3386
3387	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
3388	eval local_catalog=${pathout[$i]}
3389	if [[ ! -d $local_catalog ]]
3390	then
3391	printf " *** local directory does not exist. Trying to create:\n"
3392	printf " $local_catalog \n"
3393	mkdir -p $local_catalog
3394	fi
3395
3396	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
3397	transfer_problems=true
3398	fi
3399	fi
3400	else
3401
3402	# RESET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE APPENDED ON THIS MACHINE
3403	actionout[$i]=a
3404	fi
3405	fi
3406
3407
3408	# APPEND ON THIS MACHINE
3409	if [[ "${actionout[$i]}" = "a" ]]
3410	then
3411	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
3412	then
3413	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}.${extout[$i]}\n"
3414	cat ${localout[$i]} >> ${pathout[$i]}.${extout[$i]}
3415	else
3416	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}\n"
3417	cat ${localout[$i]} >> ${pathout[$i]}
3418	fi
3419	fi
3420
3421	# COPY ON THIS MACHINE
3422	# COPY HAS TO BE USED, BECAUSE MOVE DOES NOT WORK IF FILE-ORIGIN AND TARGET ARE
3423	# ON DIFFERENT FILE-SYSTEMS
3424	if [[ "${actionout[$i]}" = "" && $files_for_pes = false ]]
3425	then
3426
3427	# COPY IN CASE OF RUNS ON SINGLE CORES
3428	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
3429	then
3430	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}.${extout[$i]}\n"
3431	if [[ $link_local_output = true ]]
3432	then
3433	printf " file will be linked\n"
3434	ln -f ${localout[$i]} ${pathout[$i]}.${extout[$i]}
3435	fi
3436	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
3437	if [[ ! -f "${pathout[$i]}.${extout[$i]}" ]]
3438	then
3439	if [[ $link_local_output = true ]]
3440	then
3441	printf " --- WARNING: ln failed, using cp instead (might be time consuming...)\n"
3442	fi
3443	cp ${localout[$i]} ${pathout[$i]}.${extout[$i]}
3444	else
3445	printf "+++ no copy because file ${pathout[$i]}.${extout[$i]} exists\n"
3446	fi
3447	else
3448	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}\n"
3449	if [[ $link_local_output = true ]]
3450	then
3451	printf " file will be linked\n"
3452	ln -f ${localout[$i]} ${pathout[$i]}
3453	fi
3454	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
3455	if [[ ! -f "${pathout[$i]}" ]]
3456	then
3457	if [[ $link_local_output = true ]]
3458	then
3459	printf " --- WARNING: ln failed, using cp instead (might be time consuming...)\n"
3460	fi
3461	cp ${localout[$i]} ${pathout[$i]}
3462	else
3463	printf "+++ no copy because file ${pathout[$i]} exists\n"
3464	fi
3465	fi
3466
3467	elif [[ "${actionout[$i]}" = "" && $files_for_pes = true ]]
3468	then
3469
3470	# FILES FROM THE DIFFERENT CORES ARE MOVED WITH ln-COMMAND TO THE PERMANENT DIRECTORY
3471	# AS A FIRST STEP, THE PERMANENT DIRECTORY IS CREATED
3472	printf "\n >>> OUTPUT: ${localout[$i]}/_.... to ${pathout[$i]}\n"
3473	if [[ $link_local_output = true ]]
3474	then
3475	printf " files will be linked\n"
3476	mkdir ${pathout[$i]}
3477	cd ${localout[$i]}
3478	for file in $(ls *)
3479	do
3480	ln -f $file ${pathout[$i]}
3481	done >\|/dev/null 2>&1
3482	cd $TEMPDIR
3483	fi
3484
3485	# IF "ln -f" HAS FAILED OR IF "$link_local_output = false" DO A NORMAL COPY "cp -r"
3486	if [[ ! -f "${pathout[$i]}/_000000" ]]
3487	then
3488	if [[ $link_local_output = true ]]
3489	then
3490	printf " --- WARNING: ln failed, using cp instead (might be time consuming...)\n"
3491	fi
3492	cp -r ${localout[$i]}/* ${pathout[$i]}
3493	fi
3494
3495	fi
3496	fi
3497	done
3498	if (( i != 0 ))
3499	then
3500	if [[ $transfer_problems = true ]]
3501	then
3502	printf "\n$dashes\n *** OUTPUT-files saved"
3503	printf "\n +++ WARNING: some data transfers failed! \n"
3504	else
3505	printf "\n$dashes\n *** all OUTPUT-files saved \n"
3506	fi
3507	fi
3508
3509
3510	# IF REQUIRED, START A RESTART-JOB
3511	# FILE CONTINUE_RUN MUST HAVE BEEN CREATED BY THE EXECUTABLE (PALM)
3512	if [[ -f CONTINUE_RUN ]]
3513	then
3514
3515	# ADD RESTART-OPTIONS TO THE MRUN-CALL (IF THEY ARE NOT USED ALREADY):
3516	# -C TELLS MRUN THAT IT IS A RESTART-RUN
3517	# -v SILENT MODE WITHOUT INTERACTIVE QUERIES
3518	# -n BATCH-MODE (IMPORTANT ONLY IN CASE OF BATCH JOBS ON THE LOCAL MACHINE)
3519	[[ $(echo $mc \| grep -c "\-C") = 0 ]] && mc="$mc -C"
3520	[[ $(echo $mc \| grep -c "\-v") = 0 ]] && mc="$mc -v"
3521	[[ $(echo $mc \| grep -c "\-b") = 0 ]] && mc="$mc -b"
3522	if [[ $(echo $mc \| grep -c "#") != 0 ]]
3523	then
3524	mc=`echo $mc \| sed 's/#/f/g'`
3525	fi
3526
3527
3528	# START THE RESTART-JOB
3529	printf "\n\n *** initiating restart-run on \"$return_address\" using command:\n"
3530	echo " $mc"
3531	printf "\n$dashes\n"
3532	if [[ $localhost != $fromhost ]]
3533	then
3534
3535	if [[ $localhost = lcbullhh \|\| $localhost = lccrayb \|\| $localhost = lccrayh \|\| $localhost = ibmh \|\| $localhost = ibmkisti \|\| $localhost = ibmku \|\| $localhost = ibms \|\| $localhost = lceddy \|\| $localhost = lckyu* \|\| $localhost = lcxe6 ]]
3536	then
3537	echo "*** ssh will be used to initiate restart-runs!"
3538	echo " return_address=\"$return_address\" "
3539	echo " return_username=\"$return_username\" "
3540	if [[ $(echo $return_address \| grep -c "130.75.105") = 1 ]]
3541	then
3542	if [[ $localhost = ibmh ]]
3543	then
3544	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\" "
3545	elif [[ $localhost = lcbullhh ]]
3546	then
3547	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\" "
3548	elif [[ $localhost = lccrayb ]]
3549	then
3550	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\" "
3551	elif [[ $localhost = lccrayh ]]
3552	then
3553	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\" "
3554	elif [[ $localhost = lcxe6 ]]
3555	then
3556	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\" "
3557	else
3558	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 "
3559	fi
3560	else
3561	if [[ $localhost = ibmkisti ]]
3562	then
3563	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\" "
3564	elif [[ $localhost = lceddy ]]
3565	then
3566	/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 "
3567	elif [[ $localhost = lcocean ]]
3568	then
3569	/usr/bin/ssh $SSH_PORTOPT $return_address -l $return_username "PATH=\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc "
3570	elif [[ $localhost = lccrayb ]]
3571	then
3572	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\" "
3573	elif [[ $localhost = lccrayh ]]
3574	then
3575	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\" "
3576	else
3577	ssh $SSH_PORTOPT $return_address -l $return_username "PATH=\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc "
3578	fi
3579	fi
3580	else
3581	printf "\n +++ no restart mechanism available for host \"$localhost\" "
3582	locat=restart; exit
3583	fi
3584
3585	# WAIT TO ALLOW THE RESTART-JOB TO BE QUEUED, BEFORE THE CURRENT JOB IS FINISHED
3586	if [[ $queue = special1q ]]
3587	then
3588	sleep 120
3589	else
3590	sleep 30
3591	fi
3592
3593	else
3594
3595	# JOBS RUNNING (AND STARTED) ON THE LOCAL MACHINE CAN DIRECTLY CALL MRUN (WITHOUT
3596	# USING SSH)
3597	cd $LOCAL_PWD
3598	if [[ $localhost = lckyuh ]]
3599	then
3600	printf "\n +++ WARNING: no restart mechanism available for host \"$localhost\" "
3601	printf "\n please restart job manually using command:\n"
3602	printf "\n \"$mc\" "
3603	else
3604	eval $mc # THE ' MUST BE EVALUATED
3605	fi
3606	cd - > /dev/null
3607	fi
3608	if [[ $localhost = lckyuh ]]
3609	then
3610	printf "\n$dashes\n *** restart-run to be initiated manually\n"
3611	else
3612	printf "\n$dashes\n *** restart-run initiated \n"
3613	fi
3614
3615
3616	# DELETE INPUT-(RESTART)FILES, WHICH HAVE BEEN FETCHED FROM THE TEMPORARY DATA
3617	# DIRECTORY, BACAUSE THEY ARE NOT REQUIRED BY THE RESTART-JOB.
3618	# THIS IS DONE IN ORDER TO AVOID EXCEEDING DISC QUOTAS OR DISC SPACE (RESTART-FILES
3619	# MAY BE VERY HUGE)
3620	(( i = 0 ))
3621	while (( i < iin ))
3622	do
3623	(( i = i + 1 ))
3624	if [[ "${got_tmp[$i]}" = true && $keep_data_from_previous_run = false ]]
3625	then
3626	rm -r ${absnamein[$i]}
3627	fi
3628	done
3629
3630	fi
3631
3632
3633
3634	# SEND EMAIL NOTIFICATION ABOUT THE FINISHED RUN
3635	if [[ "$email_notification" != "none" ]]
3636	then
3637
3638	if [[ $localhost != $fromhost ]]
3639	then
3640	if [[ -f CONTINUE_RUN ]]
3641	then
3642	echo "PALM restart run necessary" > email_text
3643	echo "description header of actual run:" >> email_text
3644	cat CONTINUE_RUN >> email_text
3645	echo "mrun-command to restart:" >> email_text
3646	echo "$mc" >> email_text
3647	else
3648	echo "PALM run with base filename \"$fname\" on host \"$localhost\" finished" > email_text
3649	fi
3650	mail $email_notification < email_text
3651	printf "\n *** email notification sent to \"$email_notification\" "
3652	fi
3653	fi
3654
3655
3656
3657	# ALL ACTIONS FINISHED, TEMPORARY WORKING-DIRECTORY CAN BE DELETED
3658	cd $HOME
3659	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
3660
3661	else
3662
3663	# PREPARING ACTIONS,
3664	# IF A BATCH-JOB IS TO BE GENERATED AND STARTED ON A REMOTE-MACHINE GERECHNET
3665
3666	# BUILD THE MRUN-COMMAND TO BE CALLED IN THE BATCH-JOB ON THE REMOTE-MACHINE
3667	mrun_com="$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 $remote_username"
3668	[[ "$cpp_opts" != "" ]] && mrun_com=${mrun_com}" -D \"$cpp_opts\""
3669	[[ "$global_revision" != "" ]] && mrun_com=${mrun_com}" -G \"$global_revision\""
3670	[[ $group_number != none ]] && mrun_com=${mrun_com}" -g $group_number"
3671	[[ $do_compile = true ]] && mrun_com=${mrun_com}" -s \"$source_list\""
3672	[[ "$input_list" != "" ]] && mrun_com=${mrun_com}" -i \"$input_list\""
3673	[[ $keep_data_from_previous_run = true ]] && mrun_com=${mrun_com}" -k"
3674	[[ "$additional_conditions" != "" ]] && mrun_com=${mrun_com}" -K \"$additional_conditions\""
3675	[[ "$output_list" != "" ]] && mrun_com=${mrun_com}" -o \"$output_list\""
3676	[[ "$read_from_config" = false ]] && mrun_com=${mrun_com}" -S"
3677	[[ $do_trace = true ]] && mrun_com=${mrun_com}" -x"
3678	[[ "$numprocs" != "" ]] && mrun_com=${mrun_com}" -X $numprocs"
3679	if [[ $use_openmp = true ]]
3680	then
3681	mrun_com=${mrun_com}" -O $threads_per_task"
3682	fi
3683	[[ "$tasks_per_node" != "" ]] && mrun_com=${mrun_com}" -T $tasks_per_node"
3684	[[ $package_list != "" ]] && mrun_com=${mrun_com}" -p \"$package_list\""
3685	[[ $return_password != "" ]] && mrun_com=${mrun_com}" -P $return_password"
3686	[[ $delete_temporary_catalog = false ]] && mrun_com=${mrun_com}" -B"
3687	[[ $node_usage != default && "$(echo $node_usage \| cut -c1-3)" != "sla" && $node_usage != novice ]] && mrun_com=${mrun_com}" -n $node_usage"
3688	[[ "$ocean_file_appendix" = true ]] && mrun_com=${mrun_com}" -y"
3689	[[ $run_coupled_model = true ]] && mrun_com=${mrun_com}" -Y \"$coupled_dist\""
3690	[[ "$check_namelist_files" = false ]] && mrun_com=${mrun_com}" -z"
3691	[[ "$combine_plot_fields" = false ]] && mrun_com=${mrun_com}" -Z"
3692	[[ "$max_par_io_str" != "" ]] && mrun_com=${mrun_com}" -w $max_par_io_str"
3693	if [[ $do_remote = true ]]
3694	then
3695	printf "\n>>>> MRUN-command on execution host:\n>>>> $mrun_com \n"
3696	fi
3697
3698
3699	# CREATE EXECUTABLE FOR BATCH JOB
3700	if [[ $create_executable_for_batch = true && $restart_run != true ]]
3701	then
3702
3703	printf "\n *** creating the executable for batch job\n"
3704
3705	# METHOD ONLY WORKS FOR BATCH JOBS ON LOCAL HOSTS
3706	if [[ $host != $localhost ]]
3707	then
3708	printf "\n +++ creation of executables is only allowed for batch jobs on local hosts."
3709	printf "\n Please set create_executable_for_batch = false in the config-file.\n"
3710	locat=create_executable; exit
3711	fi
3712
3713	mkdir $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
3714	cd $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
3715
3716	cp $make_depository .
3717	tar -xf $make_depository > /dev/null 2>&1
3718	cp ../* . > /dev/null 2>&1
3719
3720	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
3721
3722	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
3723	then
3724	printf "\n +++ error occured while compiling or linking"
3725	locat=compile
3726	exit
3727	fi
3728
3729	mv a.out ..
3730	cd - > /dev/null 2>&1
3731	rm -rf $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
3732
3733	printf " *** executable created in \"$working_directory/SOURCES_FOR_RUN_${fname}\"\n "
3734
3735	fi
3736
3737
3738	# BUILD THE JOB-SCRIPTS ON FILE jobfile
3739	jobfile=jobfile.$RANDOM
3740
3741
3742	# CREATE TEMPORARY DIRECTORY AND SWITCH TO IT
3743	echo "mkdir $TEMPDIR" >> $jobfile
3744	echo "cd $TEMPDIR" >> $jobfile
3745
3746
3747	# ACTIVATE ERROR-TRACEBACK
3748	if [[ $do_trace = true ]]
3749	then
3750	echo "set -x" >> $jobfile
3751	else
3752	echo "set +vx" >> $jobfile
3753	fi
3754
3755
3756	# INITIALIZE THE ENVIRONMENT AND LOAD MODULES
3757	if [[ "$init_cmds" != "" ]]
3758	then
3759	echo "$init_cmds" >> $jobfile
3760	fi
3761	if [[ "$module_calls" != "" ]]
3762	then
3763	echo "$module_calls" >> $jobfile
3764	fi
3765
3766
3767	# PROVIDE SOURCE-CODE FILES, MRUN-SCRIPT AND CONFIGURATION-FILE FOR THE JOB
3768	# then-CLAUSE: FILES ARE COLLECTED IN THE SOURCES_FOR_RUN_... DIRECTORY ON THE LOCAL HOST,
3769	# WHICH IS THEN FETCHED FROM THE BATCH-JOB BY USING cp/scp
3770	# THE SOURCE-CODE FILES ALREADY EXIST IN THIS DIRECTORY
3771	# else-CLAUSE: FILE-CONTENTS ARE PUT INTO THE JOB-FILE AS HERE-DOCUMENTS
3772	# THIS MAY CREATE A QUITE LARGE JOB-FILE, WHICH CAN CAUSE PROBLEMS WITH SOME
3773	# QUEUEING-SYSTEMS
3774	if [[ $host = ibmkisti \|\| $host = lcbullhh \|\| $host = lccrayb \|\| $host = lccrayf \|\| $host = lccrayh \|\| $host = lcocean ]]
3775	then
3776
3777	# COPY CONFIGURATION-FILE AND MRUN-SCRIPT INTO THE SOURCES_FOR_RUN... DIRECTORY
3778	if [[ $restart_run != true ]]
3779	then
3780	cp $config_file $working_directory/SOURCES_FOR_RUN_$fname
3781	cp ${PALM_BIN}/$mrun_script_name $working_directory/SOURCES_FOR_RUN_$fname
3782	fi
3783
3784	# COPY THE SOURCES_FOR_RUN... DIRECTORY FROM THE LOCAL HOST TO THE JOB VIA scp
3785	# (then-CLAUSE: JOBS ON THE LOCAL HOST CAN JUST USE cp)
3786	echo "set -x" >> $jobfile
3787	if [[ $host = $localhost ]]
3788	then
3789	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
3790	# FILES ON CRAY XC30 SYSTEMS (CSC HELSINKI), rsync IS USED INSTEAD
3791	if [[ $(echo $host \| cut -c1-6) = lccray ]]
3792	then
3793	echo "rsync -av -t $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
3794	else
3795	echo "cp -r $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
3796	fi
3797
3798	else
3799	if [[ $host = ibmkisti ]]
3800	then
3801	# ON KISTI'S IBM FIREWALL IS ONLY OPENED ON INTERACTIVE NODE
3802	echo "localdir=\`pwd\`" >> $jobfile
3803	echo "ssh $SSH_PORTOPT $remote_username@gaiad \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
3804	elif [[ $host = lcbullhh ]]
3805	then
3806	echo "localdir=\`pwd\`" >> $jobfile
3807	echo "ssh $SSH_PORTOPT $remote_username@mlogin101 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
3808
3809	elif [[ $host = lccrayb ]]
3810	then
3811	echo "localdir=\`pwd\`" >> $jobfile
3812	echo "ssh $SSH_PORTOPT $remote_username@blogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
3813	elif [[ $host = lccrayh ]]
3814	then
3815	echo "localdir=\`pwd\`" >> $jobfile
3816	echo "ssh $SSH_PORTOPT $remote_username@hlogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
3817
3818	else
3819	echo "scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
3820	fi
3821	fi
3822	echo "export SOURCES_COMPLETE=true" >> $jobfile
3823
3824	# MOVE MRUN-SCRIPT AND CONFIGURATION-FILE FROM THE SOURCES_FOR_RUN... DIRECTORY TO THE
3825	# WORKING DIRECTORY OF THE JOB
3826	echo "mv SOURCES_FOR_RUN_$fname/$config_file . " >> $jobfile
3827	echo "mv SOURCES_FOR_RUN_$fname/$mrun_script_name . " >> $jobfile
3828	echo "chmod u+rwx $mrun_script_name" >> $jobfile
3829	echo "execute_mrun=true" >> $jobfile
3830	echo " " >> $jobfile
3831
3832	else
3833
3834	# PROVIDE SOURCE-CODE FILES AND MAKEFILE AS HERE DOCUMENT
3835	if [[ $do_compile = true ]]
3836	then
3837
3838	source_catalog=SOURCES_FOR_RUN_$fname
3839
3840	# CREATE SOURCES_FOR_RUN... DIRECTORY TO STORE THE SOURCE CODE FILES AND THE MAKEFILE
3841	echo "mkdir SOURCES_FOR_RUN_$fname" >> $jobfile
3842	echo "export SOURCES_COMPLETE=true" >> $jobfile
3843	echo "cd SOURCES_FOR_RUN_$fname" >> $jobfile
3844
3845	for filename in $source_list
3846	do
3847	# BACKSLASH IS USED FOR MASKING
3848	echo "cat > $filename << \"%END%\"" >> $jobfile
3849	cat $source_catalog/$filename >> $jobfile
3850	echo " " >> $jobfile
3851	echo "%END%" >> $jobfile
3852	echo " " >> $jobfile
3853	done
3854
3855	# BACKSLASH IS USED FOR MASKING
3856	echo "cat > Makefile << \"%END%\"" >> $jobfile
3857	cat $source_catalog/Makefile >> $jobfile
3858	echo " " >> $jobfile
3859	echo "%END%" >> $jobfile
3860	echo " " >> $jobfile
3861
3862	echo "cd - > /dev/null" >> $jobfile
3863
3864	fi
3865
3866
3867	# PROVIDE THE CONFIGURATION-FILE AS HERE-DOCUMENT
3868	# BACKSLASH IS USED FOR MASKING
3869	# LINES WITH #$ IN THE CONFIGURATION-FILE, COMING FROM THE SVN KEYWORD SUBSTITUTION,
3870	# ARE REMOVED FROM THE FILE IN ORDER TO AVOID PROBLEMS WITH THE SGE BATCH SYSTEM
3871	echo "cat > $config_file << \"%END%\"" >> $jobfile
3872	if [[ $host = lckyuh ]]
3873	then
3874	# NO CROSS-COMPILER ON COMPUTE NODE
3875	sed 's/frtpx/frt/g' $config_file >> $jobfile
3876	else
3877	sed 's/#$.*//g' $config_file >> $jobfile
3878	fi
3879	echo "%END%" >> $jobfile
3880	echo " " >> $jobfile
3881
3882
3883	# PROVIDE THE MRUN-SCRIPTS AS HERE-DOCUMENT
3884	# BACKSLASH IS USED FOR MASKING
3885	echo "cat > $mrun_script_name <<\"%END%\"" >> $jobfile
3886	if [[ $host = lckyuh ]]
3887	then
3888	sed 's/\/bin\/ksh/\/bin\/bash/g' ${PALM_BIN}/$mrun_script_name >> $jobfile
3889	else
3890	cat ${PALM_BIN}/$mrun_script_name >> $jobfile
3891	fi
3892	echo "%END%" >> $jobfile
3893	echo "chmod u+x $mrun_script_name" >> $jobfile
3894	echo "execute_mrun=true" >> $jobfile
3895	echo " " >> $jobfile
3896
3897	fi
3898
3899
3900	# GET REQUIRED INPUT-FILES BY SCP OR BY SENDING THEM WITH THE JOB AS HERE-DOCUMENT
3901	# PUT THESE FILES INTO THE USER'S RESPECTIVE PERMANENT DIRECTORIES ON THE REMOTE-HOST
3902	# IF THE DIRECTORIES DO NOT EXIST, TRY TO CREATE THEM
3903	if [[ $do_remote = true ]]
3904	then
3905	(( i = 0 ))
3906	while (( i < iin ))
3907	do
3908	(( i = i + 1 ))
3909	echo "[[ ! -d ${pathin[$i]} ]] && mkdir -p ${pathin[$i]}" >> $jobfile
3910	if [[ "${transin[$i]}" = job ]]
3911	then
3912	echo "cat > ${remotepathin[$i]} <<\"%END%\"" >> $jobfile
3913	eval cat ${pathin[$i]}/${frelin[$i]} >> $jobfile
3914	echo " " >> $jobfile
3915	echo "%END%" >> $jobfile
3916	else
3917	echo "batch_scp $PORTOPT -b -o -g -s -u $return_username $return_address ${remotepathin[$i]} \"${pathin[$i]}\" ${frelin[$i]}" >> $jobfile
3918	fi
3919
3920	# CHECK, IF FILE COULD BE CREATED
3921	echo "if [[ \$? = 1 ]]" >> $jobfile
3922	echo "then" >> $jobfile
3923	echo " echo \" \" " >> $jobfile
3924	echo " echo \"+++ file ${remotepathin[$i]} could not be created\" " >> $jobfile
3925	echo " echo \" please check, if directory exists on $host!\" " >> $jobfile
3926	echo " echo \"+++ MRUN will not be continued\" " >> $jobfile
3927	echo " execute_mrun=false" >> $jobfile
3928	echo "fi" >> $jobfile
3929	done
3930	fi
3931
3932	# PROVIDE NAME OF THE CURRENT WORKING-DIRECTORY ON THE LOCAL MACHINE (FROM WHERE THE JOB IS
3933	# STARTED) BY SETTING AN ENVIRONMENT-VARIABLE. THIS INFORMATION IS USED IN THE JOB BY MRUN
3934	# IN CASE THAT RESTART-RUNS HAVE TO BE GENERATED
3935	echo "LOCAL_PWD=$working_directory" >> $jobfile
3936	echo "export LOCAL_PWD" >> $jobfile
3937
3938	# PROVIDE THE PATH OF THE LOCAL MRUN-SCRIPT FOR THE SAME REASON
3939	echo "LOCAL_MRUN_PATH=$PALM_BIN" >> $jobfile
3940	echo "export LOCAL_MRUN_PATH" >> $jobfile
3941
3942	# lceddy ALSO REQUIRES TO PROVIDE PATH FOR THE PALM-SCRIPTS
3943	if [[ $host = lceddy \|\| $localhost = lceddy ]]
3944	then
3945	echo "export PALM_BIN=$PALM_BIN" \| sed -e 's:'$HOME':$HOME:' >> $jobfile
3946	echo "export PATH=\$PATH:\$PALM_BIN" >> $jobfile
3947	fi
3948
3949	# CALL MRUN WITHIN THE JOB (SETTING QUEUE IS A WORKAROUND FOR ibmkisti)
3950	# AS FINAL ACTION, REMOVE THE TEMPORARY DIRECTORY CREATED AT THE BEGINNING OF THE JOB
3951	echo "set -x" >> $jobfile
3952	echo "queue=$queue" >> $jobfile
3953	echo "[[ \$execute_mrun = true ]] && ./$mrun_com" >> $jobfile
3954	echo 'ls -al; echo `pwd`' >> $jobfile
3955	echo "cd \$HOME" >> $jobfile
3956	echo "rm -rf $TEMPDIR" >> $jobfile
3957
3958
3959
3960
3961	# START THE JOB USING SUBJOB-COMMAND
3962	if [[ $silent = false ]]
3963	then
3964	printf "\n "
3965	else
3966	printf "\n\n"
3967	fi
3968
3969	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
3970	rm -rf $jobfile
3971
3972
3973	fi # END OF REMOTE-PART

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