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source: palm/trunk/SCRIPTS/mrun @ 2141

Last change on this file since 2141 was 2141, checked in by gronemeier, 7 years ago
changed check for existing files at beginning
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File size: 169.6 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	# made check for existing files language independent
25	#
26	# Former revisions:
27	# -----------------
28	# $Id: mrun 2141 2017-02-06 10:19:32Z gronemeier $
29	#
30	# 1944 2016-06-15 06:29:00Z raasch
31	# adjustments for using HLRN ssh-keys
32	#
33	# 1940 2016-06-14 05:15:20Z raasch $
34	# adjustments for lckiaps
35	#
36	# 1866 2016-04-15 06:50:59Z raasch
37	# adjusted for lcocean
38	#
39	# 1841 2016-04-07 19:14:06Z raasch
40	# script now running under bash
41	#
42	# 1804 2016-04-05 16:30:18Z maronga
43	# test: implementing an execute mechanism where the execute command is given in the
44	# configuration file
45	# ROPTS removed from execution commands
46	# Warnings about missing optional files or user code changed to informative messages
47	# Removed parameter file check
48	#
49	# 1755 2016-02-22 13:53:39Z maronga
50	# Minor bugfix to last commit
51	#
52	# 1753 2016-02-22 13:49:49Z maronga
53	# Bugfix: use random job number when PBS job nummer retrieval fails on lccray*
54	#
55	# 1622 2015-07-20 06:21:36Z heinze
56	# bugfix for Mistral (lcbullhh)
57	#
58	# 1621 2015-07-17 11:39:33Z heinze
59	# adjustments for Mistral at DKRZ Hamburg (lcbullhh)
60	#
61	# 1609 2015-07-03 15:37:58Z maronga
62	# Modified the random number of the temporary working directory to match the
63	# queuing system number on HLRN-III (lccray*).
64	#
65	# 1604 2015-06-23 15:48:03Z suehring
66	# Enable coupled runs for lcmuk
67	#
68	# 1598 2015-05-29 06:45:40Z raasch
69	# bugfix for creating hostfile and total number of MPI tasks if run in openmp-mode on one node
70	#
71	# 1549 2015-01-30 14:26:16Z suehring
72	# Enable interactive debug sessions with allinea debugger
73	#
74	# 1547 2015-01-29 15:09:12Z witha
75	# adjustments for ForWind computing cluster (lcflow)
76	#
77	# 1491 2014-11-12 08:12:57Z heinze
78	# correct setting of batch_job allowed for ibm-machines
79	#
80	# 1468 2014-09-24 14:06:57Z maronga
81	# Typo removed (addres->address)
82	# Bugfix: returning files to IMUK via ssh did not work for lccrayh and lcycrayb
83	# Added support for restart runs (remote) for lcxe6
84	#
85	# 1442 2014-07-28 07:09:10Z raasch
86	# default queues for HLRN-III (lccrayb/lccrayh) defined
87	#
88	# 1422 2014-07-02 10:01:25Z kanani
89	# automatic restarts enabled for lccrayb,
90	# adjustment of path to compilervars.sh at IMUK (see automatic restarts)
91	#
92	# 1420 2014-06-10 06:24:14Z raasch
93	# -j1 option added to aprung command for lccrayf (CSC)
94	#
95	# 1402 2014-05-09 14:25:13Z raasch
96	# batch_job added to envpar-NAMELIST
97	#
98	# 1357 2014-04-11 15:02:03Z witha
99	# adjustments for lccrayh (automatic restarts on lccrayh outside of IMUK are now
100	# possible)
101	#
102	# 1320 2014-03-20 08:40:49Z raasch
103	# check namelist file set false by default
104	#
105	# 1304 2014-03-12 10:29:42Z raasch
106	# ulimit option changed from -Ss to -s
107	#
108	# bugfix: missing "fi" in r1289
109	#
110	# 1289 2014-03-04 07:12:34Z raasch
111	# comments translated to English
112	# necriam-, fimm-, ibmy-, and sgi-specific code removed
113	# export of variables for palm and interpret_config removed
114	#
115	# 1281 2014-02-01 07:55:49Z raasch
116	# rsync-copy restricted to Cray machines, since command is unavailable on some
117	# other systems
118	#
119	# 1279 2014-01-28 12:10:14Z raasch
120	# tasks_per_node must not be an integral divisor of numprocs any more. This was done
121	# in order to remove annoying restrictions concerning the number of processors which
122	# appear on machines with larger nodes (e.g. containing 24 cores). Now without this
123	# restriction, one of the nodes will be filled with less than the given number of
124	# tasks per node. A respective warning is given.
125	#
126	# 1274 2014-01-09 13:14:54Z heinze
127	# adjustments for lccrayh
128	#
129	# 1272 2014-01-08 10:19:32Z witha
130	# small adjustment for lcflow
131	#
132	# 1270 2013-12-16 11:05:01Z fricke
133	# call of combine_plot_fields adjusted for lccrayb/lccrayh
134	#
135	# 1255 2013-11-07 14:43:35Z raasch
136	# further adjustments for lccrayb remote access
137	#
138	# 1241 2013-10-30 11:36:58Z heinze
139	# Enable use of nudging input and input of large scale forcing from
140	# external files
141	#
142	# 1229 2013-09-20 06:55:19Z raasch
143	# further adjustments for lccrayb
144	#
145	# 1224 2013-09-16 07:27:23Z raasch
146	# first adjustments for lccrayb
147	#
148	# 1210 2013-08-14 10:58:20Z raasch
149	# fftw support added
150	#
151	# 1201 2013-07-10 16:17:59Z witha
152	# adjustments for Forwind cluster (lcflow)
153	#
154	# 1199 2013-07-05 14:52:22Z raasch
155	# adjustments for CSC Helsinki (lccrayf),
156	# executables for batch jobs can be created in advance, in order to avoid calling
157	# the compiler within the batch job (only works if batch jobs are submitted on
158	# local host)
159	#
160	# 1190 2013-06-25 09:39:21Z heinze
161	# enable use of automatic restarts for ibmh
162	# use of cluster/express queue enabled (ibmh)
163	#
164	# 1124 2013-04-09 15:46:52Z raasch
165	# variable "memory" is exported via typeset option -x, because otherwise an unknown
166	# side effect may lead to data loss while getopts is reading the script-option arguments
167	#
168	# 1122 2013-04-09 08:37:16Z heinze
169	# Bugfix: change type of variable last_char
170	#
171	# 1119 2013-04-05 15:11:19Z raasch
172	# Bugfix for setting -T option for subjob
173	#
174	# 1108 2013-03-05 07:03:32Z raasch
175	# bugfix for coupled runs on lckyut/lckyuh
176	#
177	# 1106 2013-03-04 05:31:38Z raasch
178	# --stdin argument for mpiexec on lckyuh
179	# -y and -Y settings output to header
180	#
181	# 1103 2013-02-20 02:15:53Z raasch
182	# default script runs again under ksh, because of unsolved problems with read
183	# from stdin: when bash script is called from a ksh, message "read error: 0:
184	# Resource temporarily unavailable" appears and script does not stop,
185	# further bash compatibility adjustments,
186	# shebang line replaced by /bin/bash when running jobs on lckyuh; no restarts
187	# on lckyuh, but mrun does not terminate and issues a warning instead
188	#
189	# 1101 2013-02-17 10:20:21Z raasch
190	# script now running under bash instead of ksh, which required small adjustments
191	# (output formatting with printf instead "typeset -L/-R", print replaced by echo,
192	# read from stdin),
193	# cross compilername on lckyuh compute nodes replaced by real compiler name
194	#
195	# 1099 2013-02-10 01:47:43Z raasch
196	# adjustments for Kyushu-University computing center (lckyuh - hayaka)
197	# and for Forwind cluster (lcflow)
198	# small further adjustments for lckyut
199	#
200	# 1094 2013-02-03 01:52:12Z raasch
201	# explicit ssh/scp port can be set in config file with environment variable
202	# scp_port. This port is handled to all ssh/scp/batch_scp calls.
203	# decalpha parts (yonsei) removed
204	#
205	# 2013-02-02 07:06:13Z raasch
206	# adjustments for Kyushu-University computing center (lckyut - tatara)
207	#
208	# 1083 2013-01-04 10:22:09Z maronga
209	# bugfix in parameter file check (read %cpp_options was missing)
210	#
211	# 1069 2012-11-28 16:18:43Z maronga
212	# bugfix: coupling mode was always set to mpi2, typos removed
213	#
214	# 1058 2012-11-21 07:00:35Z raasch
215	# Intel inspector (inspxe) is given the number of PEs instead of the number of
216	# nodes
217	#
218	# 1046 2012-11-09 14:38:45Z maronga
219	# code put under GPL (PALM 3.9)
220	#
221	# 21/03/94 - Siggi - first version finished
222	# 03/03/94 - Siggi - script development started
223	#
224	#--------------------------------------------------------------------------------#
225	# mrun - script for running PALM jobs
226	#--------------------------------------------------------------------------------#
227
228
229
230	# DECLARATION OF VARIABLES AND THEIR DEFUALT VALUES
231
232	set +o allexport # SUPPRESS EXPORT OF ALL VARIABLES, SINCE IN THE PAST THIS
233	# LES TO PROBLEMS IN ROUTINES CALLED BY MRUN
234	# (TOO MANY ARGUMENTS - PROBLEM)
235	set +o noclobber # EXISTING FILES ARE ALLOWED TO BE OVERWRITTEN
236
237	AddFilenames=""
238	additional_conditions=""
239	add_source_path=""
240	afname=""
241	archive_save=true
242	archive_system=none
243	check_namelist_files=false
244	combine_plot_fields=true
245	compiler_name=""
246	cond1=""
247	cond2=""
248	config_file=.mrun.config
249	coupled_dist=""
250	coupled_mode="mpi1"
251	cpp_opts=""
252	cpp_options=""
253	cpumax=0
254	cpurest=0
255	create_executable_for_batch=false
256	delete_temporary_catalog=true
257	do_batch=false
258	do_compile=true
259	do_remote=false
260	do_stagein=true
261	do_stageout=true
262	do_trace=false
263	email_notification="none"
264	exclude=""
265	executable=""
266	execute_command="none"
267	execution_error=false
268	fftw_inc=""
269	fftw_lib=""
270	fftw_support=false
271	fname=test
272	fromhost=""
273	global_revision=""
274	group_number=none
275	host=""
276	host_file=""
277	hp=""
278	ignore_archive_error=false
279	input_list=""
280	interpreted_config_file=""
281	job_catalog="~/job_queue"
282	job_on_file=""
283	keep_data_from_previous_run=false
284	link_local_input=false
285	link_local_output=false
286	localhost_realname=$(hostname)
287	local_dvrserver_running=.FALSE.
288	locat=normal
289	mainprog=""
290	makefile=""
291	max_par_io_str=""
292	mc=$0
293	while [[ $(echo $mc \| grep -c "/") != 0 ]]
294	do
295	mc=`echo $mc \| cut -f2- -d"/"`
296	done
297	module_calls=""
298	mrun_script_name=$mc
299	netcdf_inc=""
300	netcdf_lib=""
301	netcdf_support=false
302	node_usage=default
303	numprocs=""
304	numprocs_atmos=0
305	numprocs_ocean=0
306	OOPT=""
307	openmp=false
308	output_list=""
309	package_list=""
310	queue=none
311	read_from_config=""
312	restart_run=false
313	if [[ `hostname` = rte10 ]]
314	then
315	return_address=133.5.185.60
316	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
317	elif [[ `hostname` = climate0 ]]
318	then
319	return_address=165.132.26.68
320	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
321	elif [[ `hostname` = "schultzl-Latitude-E6540" ]]
322	then
323	return_address="schultzl-Latitude-E6540"
324	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
325	elif [[ `hostname` = urban00 ]]
326	then
327	return_address=147.46.30.151
328	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
329	else
330	return_address=$(nslookup `hostname` 2>&1 \| grep "Address:" \| tail -1 \| awk '{print $2}')
331	fi
332	return_password=""
333	return_username=$LOGNAME
334	remotecall=false
335	remote_username=""
336	run_coupled_model=false
337	run_mode=""
338	store_on_archive_system=false
339	dashes=" ----------------------------------------------------------------------------"
340	silent=false
341	source_list=""
342	source_path=SOURCE
343	tasks_per_node=""
344	threads_per_task=1
345	tmpcreate=false
346	tmp_data_catalog=""
347	transfer_problems=false
348	usern=$LOGNAME
349	use_openmp=false
350	version="MRUN 2.1 Rev$Rev: 2141 $"
351	working_directory=`pwd`
352	TOPT=""
353	XOPT=""
354	zeit=$( date \| cut -c 12-19 )
355
356	typeset -i iec=0 iic=0 iin=0 ioc=0 iout=0 stagein_anz=0 stageout_anz=0
357	typeset -x -i memory=0 # HAS TO BE EXPORTED HERE, OTHERWISE AN UNKNOWN SIDE
358	# SIDE EFFECT MAY CAUSE DATA LOSS WHEN GETOPTS IS READING THE
359	# SCRIPT-OPTION ARGUMENTS
360	typeset -i cputime i ii iia iii iio icycle inode ival jobges jobsek last_char_int maxcycle minuten nodes pes remaining_pes sekunden tp1
361
362	# ERROR HANDLING IN CASE OF EXIT
363	trap 'rm -rf $working_directory/tmp_mrun
364	if [[ $locat != normal && $locat != control_c ]]
365	then
366
367	# CARRY OUT ERROR-COMMANDS GIVEN IN THE CONFIGURATION FILE (EC:)
368	(( i = 0 ))
369	while (( i < iec ))
370	do
371	(( i = i + 1 ))
372	printf "\n *** Execution of ERROR-command:\n"
373	printf " >>> ${err_command[$i]}\n"
374	eval ${err_command[$i]}
375	done
376	if [[ -n $interpreted_config_file ]]
377	then
378	rm -rf $interpreted_config_file
379	fi
380	if [[ -n .mrun_environment ]]
381	then
382	rm -rf .mrun_environment
383	fi
384	if [[ $tmpcreate = true ]]
385	then
386	printf "\n *** Contents of \"$TEMPDIR\":\n"
387	ls -al; cd
388	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
389	fi
390	if [[ "$dvrserver_id" != "" ]]
391	then
392	echo "+++ killing dvrserver_id=$dvrserver_id"
393	kill $dvrserver_id
394	fi
395	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
396	then
397	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
398	fi
399	printf "\n\n+++ MRUN killed \n\n"
400	elif [[ $locat != control_c ]]
401	then
402	printf "\n\n --> all actions finished\n\n"
403	printf " Bye, bye $usern !!\n\n"
404	fi' exit
405
406
407	# ACTIONS IN CASE OF TERMINAL-BREAK (CONTROL-C):
408	trap 'rm -rf $working_directory/tmp_mrun
409	rm -rf $working_directory/tmp_check_namelist_files
410	[[ $tmpcreate = true ]] && (cd; rm -rf $TEMPDIR)
411	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
412	then
413	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
414	fi
415	if [[ "$dvrserver_id" != "" ]]
416	then
417	echo "+++ killing dvrserver_id=$dvrserver_id"
418	kill $dvrserver_id
419	fi
420	printf "\n+++ MRUN killed by \"^C\" \n\n"
421	locat=control_c
422	exit
423	' 2
424
425
426	# CHECK IF THE PATH FOR THE PALM BINARIES (SCRIPTS+UTILITY-PROGRAMS) HAS
427	# BEEN SET
428	if [[ "$PALM_BIN" = "" ]]
429	then
430	printf "\n +++ environment variable PALM_BIN has not been set"
431	printf "\n please set it to the directory where the PALM scripts are located"
432	locat=palm_bin; exit
433	fi
434	export PATH=$PALM_BIN:$PATH
435
436
437
438	# READ SHELLSCRIPT-OPTIONS AND REBUILD THE MRUN-COMMAND STRING (MC),
439	# WHICH WILL BE USED TO START RESTART-JOBS
440	while getopts :a:AbBc:Cd:D:Fg:G:h:H:i:IkK:m:M:n:o:O:p:P:q:r:R:s:St:T:u:U:vw:xX:yY:zZ option
441	do
442	case $option in
443	(a) afname=$OPTARG;;
444	(A) store_on_archive_system=true; mc="$mc -A";;
445	(b) do_batch=true; mc="$mc -b";;
446	(B) delete_temporary_catalog=false; mc="$mc -B";;
447	(c) config_file=$OPTARG; mc="$mc -c$OPTARG";;
448	(C) restart_run=true; mc="$mc -C";;
449	(d) fname=$OPTARG; mc="$mc -d$OPTARG";;
450	(D) cpp_opts="$cpp_opts $OPTARG"; mc="$mc -D'$OPTARG'";;
451	(F) job_on_file="-D"; mc="$mc -F";;
452	(g) group_number=$OPTARG; mc="$mc -g$OPTARG";;
453	(G) global_revision=$OPTARG; mc="$mc -G'$OPTARG'";;
454	(h) host=$OPTARG; mc="$mc -h$OPTARG";;
455	(H) fromhost=$OPTARG; mc="$mc -H$OPTARG";;
456	(i) input_list=$OPTARG; mc="$mc -i'$OPTARG'";;
457	(I) ignore_archive_error=true; mc="$mc -I";;
458	(k) keep_data_from_previous_run=true; mc="$mc -k";;
459	(K) additional_conditions="$OPTARG"; mc="$mc -K'$OPTARG'";;
460	(m) memory=$OPTARG; mc="$mc -m$OPTARG";;
461	(M) makefile=$OPTARG; mc="$mc -M$OPTARG";;
462	(n) node_usage=$OPTARG; mc="$mc -n$OPTARG";;
463	(o) output_list=$OPTARG; mc="$mc -o'$OPTARG'";;
464	(O) use_openmp=true; threads_per_task=$OPTARG; mc="$mc -O$OPTARG";;
465	(p) package_list=$OPTARG; mc="$mc -p'$OPTARG'";;
466	(P) return_password=$OPTARG; mc="$mc -P$OPTARG";;
467	(q) queue=$OPTARG; mc="$mc -q$OPTARG";;
468	(r) run_mode=$OPTARG; mc="$mc -r'$OPTARG'";;
469	(R) remotecall=true;return_address=$OPTARG; mc="$mc -R$OPTARG";;
470	(s) source_list=$OPTARG; mc="$mc -s'$OPTARG'";;
471	(S) read_from_config=false; mc="$mc -S";;
472	(t) cpumax=$OPTARG; mc="$mc -t$OPTARG";;
473	(T) mrun_tasks_per_node=$OPTARG; mc="$mc -T$OPTARG";;
474	(u) remote_username=$OPTARG; mc="$mc -u$OPTARG";;
475	(U) return_username=$OPTARG; mc="$mc -U$OPTARG";;
476	(v) silent=true; mc="$mc -v";;
477	(w) max_par_io_str=$OPTARG; mc="$mc -w$OPTARG";;
478	(x) do_trace=true;set -x; mc="$mc -x";;
479	(X) numprocs=$OPTARG; mc="$mc -X$OPTARG";;
480	(y) ocean_file_appendix=true; mc="$mc -y";;
481	(Y) run_coupled_model=true; coupled_dist=$OPTARG; mc="$mc -Y'$OPTARG'";;
482	(z) check_namelist_files=false; mc="$mc -z";;
483	(Z) combine_plot_fields=false; mc="$mc -Z";;
484	(\?) printf "\n +++ unknown option $OPTARG \n"
485	printf "\n --> type \"$0 ?\" for available options \n"
486	locat=parameter;exit;;
487	esac
488	done
489
490
491	# SKIP GIVEN OPTIONS TO READ POSITIONAL PARAMETER, IF GIVEN
492	# CURRENTLY ONLY PARAMETER ? (TO OUTPUT A SHORT COMMAND INFO) IS ALLOWED
493	(( to_shift = $OPTIND - 1 ))
494	shift $to_shift
495
496	# PRINT SHORT DESCRIPTION OF MRUN OPTIONS
497	if [[ "$1" = "?" ]]
498	then
499	(printf "\n *** mrun can be called as follows:\n"
500	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"
501	printf "\n Description of available options:\n"
502	printf "\n Option Description Default-Value"
503	printf "\n -a base name of input files equiv. -d"
504	printf "\n -A archiving when using file-attribute fl"
505	printf "\n -b batch-job on local machine ---"
506	printf "\n -B do not delete temporary directory at end ---"
507	printf "\n -c configuration file .mrun.config"
508	printf "\n -d base name of files attached to program test"
509	printf "\n -D preprocessor(cpp)-directives \"\" "
510	printf "\n -F create remote job file only ---"
511	printf "\n -h execution host $localhost_realname"
512	printf "\n -i INPUT control list \"\" "
513	printf "\n -I archiving errors of previous batch-jobs"
514	printf "\n will be ignored"
515	printf "\n -k keep data from previous run"
516	printf "\n -K additional conditions for controling"
517	printf "\n usage of conditional code and"
518	printf "\n env-variables in configuration file \"\" "
519	printf "\n -m memory demand in MB (batch-jobs) 0 MB"
520	printf "\n -M Makefile name Makefile"
521	printf "\n -n node usage (shared/not_shared) depending on -h"
522	printf "\n -o OUTPUT control list \"\" "
523	printf "\n -O threads per openMP task ---"
524	printf "\n -p software package list \"\" "
525	printf "\n -q queue \"$queue\" "
526	printf "\n -r run control list (combines -i -o) \"\" "
527	printf "\n -s filenames of routines to be compiled \"\" "
528	printf "\n must end with .f, .f90, .F, or .c !"
529	printf "\n use \"..\" for more than one file and wildcards"
530	printf "\n -s LM compiles all locally modified files"
531	printf "\n -S config file interpreted by shellscript ---"
532	printf "\n -t allowed cpu-time in seconds (batch) 0"
533	printf "\n -T tasks per node depending on -h"
534	printf "\n -u username on remote machine \"\" "
535	printf "\n -v no prompt for confirmation ---"
536	printf "\n -w maximum parallel io streams as given by -X"
537	printf "\n -x tracing of mrun for debug purposes ---"
538	printf "\n -X # of processors (on parallel machines) 1"
539	printf "\n -y add appendix \"_O\" to all local output"
540	printf "\n files (ocean precursor runs followed by"
541	printf "\n coupled atmosphere-ocean runs) ---"
542	printf "\n -Y run coupled model, \"#1 #2\" with"
543	printf "\n #1 atmosphere and #2 ocean processors \"#/2 #/2\" depending on -X"
544	printf "\n -Z skip combine_plot_fields at the end of "
545	printf "\n the simulation ---"
546	printf "\n "
547	printf "\n Possible values of positional parameter <modus>:"
548	printf "\n \"?\" - this outline \n\n") \| more
549	exit
550	elif [[ "$1" != "" ]]
551	then
552	printf "\n +++ positional parameter $1 unknown \n"
553	locat=parameter; exit
554	fi
555
556
557
558	# SHORT STARTING MESSAGE
559	printf "\n*** $version "
560	printf "\n will be executed. Please wait ..."
561
562
563
564	# CHECK, IF CONFIGURATION FILE EXISTS
565	if [[ ! -f $config_file ]]
566	then
567	printf "\n\n +++ configuration file: "
568	printf "\n $config_file"
569	printf "\n does not exist"
570	locat=connect; exit
571	fi
572
573
574	# DETERMINE THE HOST-IDENTIFIER (localhost) FROM THE CONFIGURATION FILE
575	line=""
576	grep "%host_identifier" $config_file > tmp_mrun
577	while read line
578	do
579	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
580	then
581	HOSTNAME=`echo $line \| cut -d" " -s -f2`
582	host_identifier=`echo $line \| cut -d" " -s -f3`
583	if [[ $localhost_realname = $HOSTNAME ]]
584	then
585	localhost=$host_identifier
586	break
587	fi
588	fi
589	done < tmp_mrun
590
591	if [[ "$localhost" = "" ]]
592	then
593	printf "\n\n +++ no host identifier found in configuration file \"$config_file\""
594	printf "\n for local host \"$localhost_realname\"."
595	printf "\n Please add line"
596	printf "\n \"\%host_identifier $localhost_realname <identifier>\""
597	printf "\n to the configuration file."
598	locat=localhost; exit
599	fi
600
601
602	# SET HOST-SPECIFIC VARIABLES
603	case $localhost_realname in
604	(r1\|r2\|h01\|b01) archive_system=tivoli;;
605	(cs*) archive_system=ut;;
606	esac
607
608
609	# ??? THIS SHOULD BE DECRIBED IN THE MRUN DOCUMENTATION ???
610	# SET BASENAME OF THE INPUT-FILES TO THE GENERAL BASENAME (GIVEN BY OPTION -d),
611	# IF IT HAS NOT BEEN SET BY THE USER DIFFERENTLY (USING OPTION -a)
612	[[ "$afname" = "" ]] && afname=$fname
613
614
615	# ADD RUN-FILE ACTIVATION STRINGS (GIVEN BY OPTION -r) TO THE
616	# RESPECTIVE LISTS FOR ACTIVATING THE INPUT/OUTPUT FILE CONNECTION
617	# STATEMENTS IN THE CONFIGURATION FILE
618	if [[ "$run_mode" != "" ]]
619	then
620	input_list="$input_list $run_mode"
621	output_list="$output_list $run_mode"
622	fi
623
624
625	# ??? is this (and the respective option -H) really required ???
626	# STORE HOSTNAME, FROM WHICH THE JOB IS STARTED,
627	# BUT ONLY IF IT HASN'T BEEN ALREADY SET BY OPTION -H
628	# (MRUN IS AUTOMATICALLY SETTING THIS OPTION IN THE MRUN-CALLS WITHIN
629	# THOSE BATCH-JOBS, WHICH ARE CREATED BY MRUN ITSELF)
630	if [[ "$fromhost" = "" ]]
631	then
632	fromhost=$localhost
633	fi
634
635
636	# CHECK, IF EXECUTION SHALL TO BE DONE ON THE REMOTE-MACHINE.
637	# VALUE OF do_remote IS IMPORTANT FOR THE FILE CONNECTIONS.
638	# IN CASE OF EXECUTION ON A REMOTE-MACHINE, A BATCH-JOB HAS
639	# TO BE SUBMITTED (I.E. do_batch=true)
640	if [[ -n $host && "$host" != $localhost ]]
641	then
642	do_batch=true
643	do_remote=true
644	case $host in
645	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|nech\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lcflow\|lckyoto\|lcocean\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
646	(*) printf "\n"
647	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
648	printf "\n is not available"
649	locat=nqs; (( iec = 0 )); exit;;
650	esac
651	else
652	host=$localhost
653	fi
654
655
656	# EVALUATE ADDITIONAL CONDITIONS GIVEN BY OPTION -K
657	if [[ -n $additional_conditions ]]
658	then
659	cond1=`echo $additional_conditions \| cut -d" " -f1`
660	cond2=`echo $additional_conditions \| cut -d" " -s -f2`
661	dummy=`echo $additional_conditions \| cut -d" " -s -f3`
662	if [[ -n $dummy ]]
663	then
664	printf "\n +++ more than 2 additional conditions given for Option \"-K\""
665	locat=options; exit
666	fi
667	block=_$cond1
668	[[ -n $cond2 ]] && block=${block}_$cond2
669	fi
670
671
672	# EVALUATE MODEL COUPLING FEATURES (OPTION -Y) AND DETERMINE coupled_mode
673	if [[ $run_coupled_model = true ]]
674	then
675
676	numprocs_atmos=`echo $coupled_dist \| cut -d" " -s -f1`
677	numprocs_ocean=`echo $coupled_dist \| cut -d" " -s -f2`
678
679	if (( $numprocs_ocean + $numprocs_atmos != $numprocs ))
680	then
681
682	printf "\n +++ number of processors does not fit to specification by \"-Y\"."
683	printf "\n PEs (total) : $numprocs"
684	printf "\n PEs (atmosphere): $numprocs_atmos"
685	printf "\n PEs (ocean) : $numprocs_ocean"
686	locat=coupling; exit
687
688	fi
689
690
691	# GET coupled_mode FROM THE CONFIG FILE
692	line=""
693	grep "%cpp_options.-D__mpi2.$host" $config_file > tmp_mrun
694	while read line
695	do
696	echo line=\"$line\"
697	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" && $(echo $line \| cut -d" " -s -f4) = $cond1 && $(echo $line \| cut -d" " -s -f5) = $cond2 ]]
698	then
699	coupled_mode="mpi2"
700	fi
701	done < tmp_mrun
702
703	fi
704
705	# CHECK, IF FILE-ARCHIVING HAS FAILED IN PREVIOUS JOB (OF A JOB-CHAIN)
706	if [[ -f ~/job_queue/ARCHIVE_ERROR_$fname ]]
707	then
708	if [[ $ignore_archive_error = false ]]
709	then
710	printf "\n +++ data archiving of previous run failed"
711	printf "\n see directory \~/job_queue on remote machine"
712	locat=archive; exit
713	else
714	printf "\n +++ warning: data archiving in a previous run failed"
715	printf "\n MRUN continues, trying to get backup copy"
716	fi
717	fi
718
719
720	# SAVE VALUES OF MRUN-OPTIONS SICHERN IN ORDER TO OVERWRITE
721	# THOSE VALUES GIVEN IN THE CONFIGURATION-FILE
722	mrun_memory=$memory
723	mrun_group_number=$group_number
724	mrun_cpumax=$cpumax
725	mrun_numprocs=$numprocs
726
727
728	# READ AND EVALUATE THE CONFIGURATION-FILE FROM WITHIN THIS SHELLSCRIPT
729	# (OPTION -S). THE DEFAULT IS USING THE ROUTINE <<<<
730	if [[ "$read_from_config" = false ]]
731	then
732	[[ $silent = false ]] && printf "\n Reading the configuration file... "
733
734	# READ THE CONFIGURATION FILE LINE BY LINE
735	while read zeile
736	do
737	[[ $silent = false ]] && printf "."
738
739
740	# FIRST REPLACE ENVIRONMENT-VARIABLES BY THEIR RESPECTIVE VALUES
741	eval zeile=\"$zeile\"
742
743
744	# INTERPRET THE LINE
745	if [[ "$(echo $zeile)" = "" ]]
746	then
747	# EMPTY LINE, NO ACTION
748	continue
749
750	elif [[ "$(echo $zeile \| cut -c1)" = "#" ]]
751	then
752
753	# LINE IS A COMMENT LINE
754	true
755
756	elif [[ "$(echo $zeile \| cut -c1)" = "%" ]]
757	then
758
759	# LINE DEFINES AN ENVIRONMENT-VARIABLE
760	zeile=$(echo $zeile \| cut -c2-)
761	var=`echo $zeile \| cut -d" " -f1`
762	value=`echo $zeile \| cut -d" " -s -f2`
763	for_host=`echo $zeile \| cut -d" " -s -f3`
764	for_cond1=`echo $zeile \| cut -d" " -s -f4`
765	for_cond2=`echo $zeile \| cut -d" " -s -f5`
766
767	if [[ "$for_host" = "" \|\| ( "$for_host" = $host && "$for_cond1" = "$cond1" && "$for_cond2" = "$cond2" ) \|\| $(echo "$input_list$output_list"\|grep -c "$for_host") != 0 ]]
768	then
769
770	# REPLACE ":" BY " " IN COMPILER- CPP- OR LINKER-OPTIONS,
771	# "::" IS REPLACED BY ":".
772	value=`echo $value \| sed 's/::/%DUM%/g' \| sed 's/:/ /g' \| sed 's/%DUM%/:/g'`
773
774
775	# VALUE FROM THE CONFIGURATION-FILE IS ASSIGNED TO THE
776	# ENVIRONMENT-VARIABLE, BUT ONLY IF NO VALUE HAS BEEN ALREADY
777	# ASSIGNED WITHIN THIS SCRIPT (E.G. BY SCRIPT-OPTIONS).
778	# NON-ASSIGNED VARIABLES HAVE VALUE "" OR 0 (IN CASE OF INTEGER).
779	# HENCE THE GENERAL RULE IS: SCRIPT-OPTION OVERWRITES THE
780	# CONFIGURATION-FILE.
781	if [[ "$(eval echo \$$var)" = "" \|\| "$(eval echo \$$var)" = "0" ]]
782	then
783	eval $var=\$value
784
785	# TERMINAL OUTPUT OF ENVIRONMENT-VARIABLES, IF TRACEBACK IS SWITCHED on
786	if [[ $do_trace = true ]]
787	then
788	printf "\n*** ENVIRONMENT-VARIABLE $var = $value"
789	fi
790	fi
791
792	# IF AN ENVIRONMENT-VARIABLE DETERMINES THE HOST, THEN EVALUATE IT IMMEDIATELY:
793	# VALUE OF do-remote IS REQUIRED FOR THE FILE CONNECTIONS (COPY OF I/O FILES).
794	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MASCHINE, A BATCH-JOB
795	# MUST HAVE TO BE STARTED
796	if [[ $var = host ]]
797	then
798	if [[ -n $host && "$host" != $localhost ]]
799	then
800	do_batch=true
801	do_remote=true
802	case $host in
803	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lcflow\|lckyoto\|lcocean\|nech\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
804	(*) printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
805	printf "\n is not available"
806	locat=nqs; exit;;
807	esac
808	else
809	host=$localhost
810	fi
811	fi
812
813	# USER-DEFINED ENVIRONMENT VARIABLES MUST BE EXPORTED,
814	# BECAUSE THEY MAY BE REQUIRED IN OTHER SCRIPTS CALLED
815	# BY MRUN (E.G. subjob)
816	export $var
817	fi
818
819
820
821
822	elif [[ "$(echo $zeile \| cut -c1-3)" = "EC:" ]]
823	then
824
825	# LINE DEFINES ERROR-COMMAND
826	(( iec = iec + 1 ))
827	zeile=$(echo $zeile \| cut -c4-)
828	err_command[$iec]="$zeile"
829
830	elif [[ "$(echo $zeile \| cut -c1-3)" = "IC:" ]]
831	then
832
833	# LINE DEFINES INPUT-COMMAND
834	(( iic = iic + 1 ))
835	zeile=$(echo $zeile \| cut -c4-)
836	in_command[$iic]="$zeile"
837
838	elif [[ "$(echo $zeile \| cut -c1-3)" = "OC:" ]]
839	then
840
841	# LINE DEFINES OUTPUT-COMMAND
842	(( ioc = ioc + 1 ))
843	zeile=$(echo $zeile \| cut -c4-)
844	out_command[$ioc]="$zeile"
845
846	else
847
848	# LINE DEFINES FILE CONNECTION. READ THE FILE ATTRIBUTES.
849	# s2a: in/out - field
850	# s2b: loc - field (optional)
851	# s2c: tr/ar - field (optional)
852	s1=`echo $zeile \| cut -d" " -f1`
853	s2=`echo $zeile \| cut -d" " -s -f2`
854	s2a=$(echo $s2 \| cut -d":" -f1)
855	if [[ $(echo $s2 \| grep -c ":") = 0 ]]
856	then
857	s2b=""
858	s2c=""
859	else
860	s2b=`echo $s2 \| cut -d":" -f2 \| sed 's/:/ /g'`
861	s2c=`echo $s2 \| cut -d":" -s -f3 \| sed 's/:/ /g'`
862	fi
863	s3=`echo $zeile \| cut -d" " -f3`
864	s4=`echo $zeile \| cut -d" " -s -f4`
865	s5=`echo $zeile \| cut -d" " -s -f5`
866	s6=`echo $zeile \| cut -d" " -s -f6`
867
868
869	# STORE FILE CONNECTION, IF ACTIVATED BY ACTIVATION-STRING FROM
870	# INPUT- OR OUTPUT-LIST.
871	# VARIABLE S3 MAY CONTAIN A LIST OF ACTIVATION STRINGS (FIELD-SEPERATOR ":").
872	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MACHINE AND THE FILE IS ONLY
873	# LOCALLY REQUIRED ON THAT MACHINE (I.E. s2b = loc), THE FILE CONNECTION
874	# IS NOT CHECKED AND STORED.
875	IFSALT="$IFS"; IFS="$IFS:"
876	if [[ "$s2a" = in && ! ( $do_remote = true && ( "$s2b" = loc \|\| "$s2b" = locopt ) ) ]]
877	then
878	found=false
879	for actual in $input_list
880	do
881	for formal in $s3
882	do
883	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
884	done
885	done
886	if [[ $found = true ]]
887	then
888	(( iin = iin + 1 ))
889	localin[$iin]=$s1; transin[$iin]=$s2b; actionin[$iin]=$s2c;
890	typein[$iin]=$s3; pathin[$iin]=$s4; endin[$iin]=$s5;
891	extin[$iin]=$s6
892	fi
893	elif [[ "$s2a" = out && ! ( $do_remote = true && "$s2b" = loc ) ]]
894	then
895	found=false
896	for actual in $output_list
897	do
898	for formal in $s3
899	do
900	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
901	done
902	done
903	if [[ $found = true ]]
904	then
905	(( iout = iout + 1 ))
906	localout[$iout]=$s1; actionout[$iout]=$s2c; typeout[$iout]=$s3;
907	pathout[$iout]=$s4; endout[$iout]=$s5; extout[$iout]=$s6
908	fi
909	elif [[ "$s2a" != in && "$s2a" != out ]]
910	then
911	printf "\n +++ I/O-attribute in configuration file $config_file has the invalid"
912	printf "\n value \"$s2\". Only \"in\" and \"out\" are allowed!"
913	locat=connect; exit
914	fi
915	IFS="$IFSALT"
916	fi
917	done < $config_file
918
919	else
920
921	# EVALUATE THE CONFIGURATION-FILE BY FORTRAN-PROGRAM
922	[[ $silent = false ]] && printf "..."
923	interpreted_config_file=.icf.$RANDOM
924
925
926
927	# PROVIDE VALUES OF ENVIRONMENT-VARIABLE FOR interpret_config VIA NAMELIST-FILE
928	cat > .mrun_environment << %%END%%
929	&mrun_environment cond1 = '$cond1', cond2 = '$cond2',
930	config_file = '$config_file', do_remote = '$do_remote',
931	do_trace = '$do_trace', host = '$host',
932	input_list = '$input_list', icf = '$interpreted_config_file',
933	localhost = '$localhost', output_list = '$output_list' /
934
935	%%END%%
936
937	if [[ "$host" != $localhost ]]
938	then
939
940	# REMOTE JOB FROM LOCAL HOST: JUST TAKE THE FIRST EXECUTABLE FOUND
941	interpret_config_executable=`ls -1 ${PALM_BIN}/interpret_config*.x 2>/dev/null`
942	if [[ $? != 0 ]]
943	then
944	printf "\n\n +++ no interpret_config found"
945	printf "\n run \"mbuild -u -h ...\" to generate utilities for this host"
946	locat=interpret_config; exit
947	fi
948	interpret_config_executable=`echo $interpret_config_executable \| cut -d" " -f1`
949	$interpret_config_executable
950
951	else
952
953	# CHECK, IF THERE IS AN EXECUTABLE FOR THE BLOCK
954	if [[ ! -f ${PALM_BIN}/interpret_config${block}.x ]]
955	then
956	printf "\n\n +++ no interpret_config found for given block \"$cond1 $cond2\""
957	printf "\n run \"mbuild -u -h ...\" to generate utilities for this block"
958	locat=interpret_config; exit
959	else
960	interpret_config${block}.x
961	fi
962
963	fi
964	rm .mrun_environment
965
966
967	# EXECUTE SHELL-COMMANDS GENERATED BY interpret_config WITHIN THIS SHELL
968	chmod u+x $interpreted_config_file
969	export PATH=$PATH:.
970	. $interpreted_config_file
971	rm $interpreted_config_file
972
973	fi
974
975
976	# VALUES OF MRUN-OPTIONS OVERWRITE THOSE FROM THE CONFIGURATION-FILE
977	[[ $mrun_memory != 0 ]] && memory=$mrun_memory
978	[[ "$mrun_group_number" != "none" ]] && group_number=$mrun_group_number
979	[[ $mrun_cpumax != 0 ]] && cpumax=$mrun_cpumax
980	[[ "$mrun_numprocs" != "" ]] && numprocs=$mrun_numprocs
981	[[ "$max_par_io_str" != "" ]] && maximum_parallel_io_streams=$max_par_io_str
982	[[ "$mrun_tasks_per_node" != "" ]] && tasks_per_node=$mrun_tasks_per_node
983
984
985	# ON THE LOCAL MACHINE, DETERMINE (FROM THE CONFIGURATION-FILE) THE PATH
986	# FOR SOURCE-FILES TO BE COMPILED.
987	# IN A BATCH-JOB, SOURCES (ROUTINES TO BE COMPILED) ARE COMPLETE ALREADY.
988	# BEFORE MRUN IS CALLED IN THE JOB, SOURCES_COMPLETE = true IS ASSIGNED (SEE FURTHER BELOW).
989	if [[ "$SOURCES_COMPLETE" = "" ]]
990	then
991
992	# FIRST CHECK, IF A GLOBAL SOURCE PATH (TO BE USED FOR ALL HOSTS)
993	# HAS BEEN DEFINED
994	source_path=""
995	line=""
996	grep "%source_path" $config_file > tmp_mrun
997	while read line
998	do
999	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
1000	then
1001	if [[ "$(echo $line \| cut -d" " -f3)" = "" ]]
1002	then
1003	global_source_path=`echo $line \| cut -d" " -f2`
1004	fi
1005	fi
1006	done < tmp_mrun
1007
1008	line=""
1009	found=false
1010	grep " $localhost" $config_file \| grep "%source_path" > tmp_mrun
1011	while read line
1012	do
1013	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
1014	then
1015	if [[ $found = true ]]
1016	then
1017	printf "\n\n +++ more than one source path found in configuration file"
1018	printf "\n for local host \"$localhost\" "
1019	locat=source_path; exit
1020	fi
1021	source_path=`echo $line \| cut -d" " -f2`
1022	found=true
1023	fi
1024	done < tmp_mrun
1025	rm tmp_mrun
1026
1027	if [[ "$source_path" = "" ]]
1028	then
1029	if [[ "$global_source_path" != "" ]]
1030	then
1031	source_path=$global_source_path
1032	else
1033	printf "\n\n +++ no source path found in configuration file"
1034	printf "\n for local host \"$localhost\" "
1035	locat=source_path; exit
1036	fi
1037	fi
1038	eval source_path=$source_path
1039
1040	if [[ ! -d $source_path ]]
1041	then
1042	printf "\n\n +++ source path \"$source_path\" on local host"
1043	printf "\n \"$localhost\" does not exist"
1044	locat=source_path; exit
1045	fi
1046
1047	fi
1048
1049
1050	# GET THE GLOBAL REVISION-NUMBER OF THE SVN-REPOSITORY
1051	# (HANDED OVER TO RESTART-RUNS USING OPTION -G)
1052	if [[ "$global_revision" = "" && $host != "ibmkisti" ]]
1053	then
1054	global_revision=`svnversion $source_path 2>/dev/null`
1055	global_revision="Rev: $global_revision"
1056	fi
1057
1058
1059	# ??? das darf doch eigentlich garnicht passieren, weil optionen config-datei uebersteuern ???
1060	# CHECK AGAIN, IF EXECUTION SHALL BE DONE ON A REMOTE-HOST (BATCH-JOB).
1061	# (HOST MAY HAVE CHANGED DUE TO SETTINGS IN THE CONFIGURATION-FILE)
1062	if [[ -n $host && "$host" != $localhost ]]
1063	then
1064	do_batch=true
1065	do_remote=true
1066	case $host in
1067	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lcflow\|lckyoto\|lcocean\|nech\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
1068	(*) printf "\n"
1069	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
1070	printf "\n is not available"
1071	locat=nqs; (( iec = 0 )); exit;;
1072	esac
1073	else
1074	host=$localhost
1075	fi
1076
1077
1078
1079	# IN CASE OF PARALLEL EXECUTION, CHECK SOME SPECIFICATIONS CONCERNING PROCESSOR NUMBERS
1080	if [[ "$cond1" = parallel \|\| "$cond2" = parallel ]]
1081	then
1082
1083	# CHECK, IF NUMBER OF CORES TO BE USED HAS BEEN GIVEN
1084	if [[ ! -n $numprocs ]]
1085	then
1086	printf "\n"
1087	printf "\n +++ option \"-K parallel\" requires additional specification"
1088	printf "\n of the number of processors to be used by"
1089	printf "\n mrun-option \"-X\" or by environment-variable"
1090	printf "\n \"numprocs\" in the configuration file"
1091	locat=numprocs; (( iec = 0 )); exit
1092	fi
1093
1094	# CHECK, IF THE NUMBER OF CORES PER NODE HAS BEEN GIVEN UND IF IT IS AN
1095	# INTEGRAL DIVISOR OF THE TOTAL NUMBER OF CORES GIVEN BY OPTION -X
1096	if [[ "$tasks_per_node" = "" && $host != lcflow && $host != lcxt5m ]]
1097	then
1098	printf "\n"
1099	printf "\n +++ option \"-T\" (tasks per node) is missing"
1100	printf "\n set -T option or define tasks_per_node in the config file"
1101	locat=tasks_per_node; (( iec = 0 )); exit
1102	fi
1103
1104	if (( numprocs < tasks_per_node ))
1105	then
1106	printf "\n"
1107	printf "\n +++ tasks per node (-T) cannot exceed total number of processors (-X)"
1108	printf "\n given values: -T $tasks_per_node -X $numprocs"
1109	locat=tasks_per_node; (( iec = 0 )); exit
1110	fi
1111
1112	if [[ $host != lcflow && $host != lcxt5m ]]
1113	then
1114	(( nodes = numprocs / ( tasks_per_node * threads_per_task ) ))
1115	(( ival = $tasks_per_node ))
1116	(( pes = numprocs ))
1117	(( ii = pes / ival ))
1118	(( remaining_pes = pes - ii * ival ))
1119	if (( remaining_pes > 0 ))
1120	then
1121	printf "\n"
1122	printf "\n +++ WARNING: tasks per node (option \"-T\") is not an integral"
1123	printf "\n divisor of the total number of processors (option \"-X\")"
1124	printf "\n values of this mrun-call: \"-T $tasks_per_node\" \"-X $numprocs\""
1125	printf "\n One of the nodes is filled with $remaining_pes instead of $tasks_per_node tasks"
1126	(( nodes = nodes + 1 ))
1127	fi
1128	fi
1129
1130
1131	# SETTINGS FOR SUBJOB-COMMAND
1132	OOPT="-O $threads_per_task"
1133
1134	# SET THE TOTAL NUMBER OF NODES, REQUIRED FOR THE SUBJOB-COMMAND (SEE FURTHER BELOW)
1135	if [[ "$tasks_per_node" != "" ]]
1136	then
1137	TOPT="-T $tasks_per_node"
1138	fi
1139
1140	# CHECK node_usage FOR ALLOWED VALUES AND SET DEFAULT VALUE, IF NECESSARY
1141	if [[ $node_usage = default ]]
1142	then
1143	if [[ $host = ibms ]]
1144	then
1145	node_usage=shared
1146	else
1147	node_usage=not_shared
1148	fi
1149	fi
1150
1151	if [[ $node_usage != shared && $node_usage != not_shared && $node_usage != singlejob && "$(echo $node_usage \| cut -c1-3)" != "sla" ]]
1152	then
1153	printf "\n"
1154	printf "\n +++ node usage (option \"-n\") is only allowed to be set"
1155	printf "\n \"shared\" or \"not_shared\""
1156	locat=tasks_per_node; (( iec = 0 )); exit
1157	fi
1158
1159	fi
1160
1161	# CHECK IF HOSTFILE EXISTS
1162	if [[ -n $hostfile ]]
1163	then
1164	if [[ ! -f $hostfile ]]
1165	then
1166	printf "\n"
1167	printf "\n +++ hostfile \"$hostfile\" does not exist"
1168	locat=hostfile; exit
1169	fi
1170	fi
1171
1172
1173	# SET DEFAULT VALUE FOR THE MAXIMUM NUMBER OF PARALLEL IO STREAMS
1174	if [[ "$maximum_parallel_io_streams" = "" ]]
1175	then
1176	maximum_parallel_io_streams=$numprocs
1177	fi
1178
1179
1180	# SET PORT NUMBER OPTION FOR CALLS OF SSH/SCP, subjob AND batch_scp SCRIPTS
1181	if [[ "$scp_port" != "" ]]
1182	then
1183	PORTOPT="-P $scp_port"
1184	SSH_PORTOPT="-p $scp_port"
1185	fi
1186
1187
1188	# DETERMINE THE SSH-OPTION IN CASE THAT AN SSH-KEY IS EXPLICITLY GIVEN IN THE
1189	# CONFIG-FILE
1190	if [[ "$ssh_key" != "" ]]
1191	then
1192	ssh_key="-i $HOME/.ssh/$ssh_key"
1193	fi
1194
1195
1196	# SET DEFAULT-QUEUE, IF NOT GIVEN
1197	if [[ $queue = none ]]
1198	then
1199	case $host in
1200	(ibmh) queue=cluster;;
1201	(ibmkisti) queue=class.32plus;;
1202	(lcbullhh) queue=compute;;
1203	(lccrayb) queue=mpp1q;;
1204	(lccrayh) queue=mpp1q;;
1205	(lckiaps) queue=normal;;
1206	(lckyoto) queue=ph;;
1207	(lckyuh) queue=fx-single;;
1208	(lckyut) queue=cx-single;;
1209	(lctit) queue=S;;
1210	(nech) queue=none;;
1211	(unics) queue=unics;;
1212	esac
1213	fi
1214
1215
1216	# GENERATE FULL FILENAMES OF INPUT-FILES, INCLUDING THEIR PATH
1217	# CHECK, IF INPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST)
1218	(( i = 0 ))
1219	while (( i < iin ))
1220	do
1221	(( i = i + 1 ))
1222	(( maxcycle = 0 ))
1223
1224	# GENERATE PATH AND FULL FILE NAME (then-BRANCH: FIXED FULL NAME IS GIVEN, I.E. THE
1225	# FILE IDENTIFIER IS NOT PART OF THE FILENAME))
1226	if [[ "${actionin[$i]}" = di ]]
1227	then
1228	remotepathin[$i]=${pathin[$i]}/${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
1229	# HOST ONLY
1230	eval filename=${pathin[$i]}/${endin[$i]}
1231	else
1232	remotepathin[$i]=${pathin[$i]}/${afname}${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
1233	# HOST ONLY
1234	eval filename=${pathin[$i]}/${afname}${endin[$i]}
1235	fi
1236	eval pathname=${pathin[$i]}
1237
1238	# CHECK IF FILE EXISTS
1239	if ! ls $filename* 1>/dev/null 2>&1
1240	then
1241
1242	# FILES WITH ATTRIBUTE locopt ARE OPTIONAL. NO ABORT, IF THEY DO NOT EXIST.
1243	if [[ "${transin[$i]}" != "locopt" ]]
1244	then
1245	printf "\n\n +++ INPUT-file: "
1246	if [[ "${extin[$i]}" = "" ]]
1247	then
1248	printf "\n $filename"
1249	else
1250	printf "\n $filename.${extin[$i]}"
1251	fi
1252	printf "\n does not exist\n"
1253	locat=input; exit
1254	else
1255	transin[$i]="unavailable"
1256	fi
1257	else
1258
1259	# DETERMINE THE FILE'S CYCLE NUMBER
1260	ls -1 -d $filename > filelist 2>/dev/null
1261	ls -1 -d $filename.* >> filelist 2>/dev/null
1262	while read zeile
1263	do
1264	cycle=$(echo $zeile \| cut -f2 -d".")
1265	if [[ "$cycle" = "$zeile" ]]
1266	then
1267	(( icycle = 0 ))
1268	elif [[ "$cycle" = "${extin[$i]}" ]]
1269	then
1270	(( icycle = 0 ))
1271	else
1272	(( icycle = $cycle ))
1273	fi
1274	if (( icycle > maxcycle ))
1275	then
1276	(( maxcycle = icycle ))
1277	file_to_be_used=$zeile
1278	fi
1279	done <filelist
1280	rm filelist
1281
1282	# APPEND CYCLE NUMBER TO FILENAME
1283	if (( maxcycle > 0 ))
1284	then
1285	if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]]
1286	then
1287	filename=${filename}.$maxcycle.${extin[$i]}
1288	else
1289	filename=${filename}.$maxcycle
1290	fi
1291	else
1292	if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]]
1293	then
1294	filename=${filename}.${extin[$i]}
1295	fi
1296	fi
1297
1298	# STORE FILENAME WITHOUT PATH BUT WITH CYCLE NUMBER,
1299	# BECAUSE IT MIGHT BE REQUIRED LATER TO RESTORE THE FILE FROM AN ARCHIVE-SYSTEM
1300	absnamein[$i]=$filename
1301	if (( maxcycle > 0 ))
1302	then
1303	if [[ "${actionin[$i]}" = di ]]
1304	then
1305	frelin[$i]=${endin[$i]}.$maxcycle
1306	else
1307	frelin[$i]=${afname}${endin[$i]}.$maxcycle
1308	fi
1309	else
1310	if [[ "${actionin[$i]}" = di ]]
1311	then
1312	frelin[$i]=${endin[$i]}
1313	else
1314	frelin[$i]=${afname}${endin[$i]}
1315	fi
1316	fi
1317
1318	fi
1319	done
1320
1321	# GENERATE FULL FILENAMES OF OUTPUT-FILES (WITHOUT $ OR ~),
1322	# CHECK, IF OUTPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST),
1323	# OR, IN CASE THAT FILE DOES NOT EXIST, CHECK, IF IT CAN BE CREATED
1324	# THESE ACTIONS ARE NOT CARRIED OUT, IF FILES SHALL BE TRASFERRED FROM THE REMOTE TO
1325	# THE LOCAL HOST (BECAUSE THEIR IS NO DIRECT ACCESS TO THE LOCAL DIRECTORIES FROM THE
1326	# REMOTE HOST)
1327	(( i = 0 ))
1328	while (( i < iout ))
1329	do
1330	(( i = i + 1 ))
1331	if [[ ! ( $fromhost != $localhost && ( "${actionout[$i]}" = tr \|\| "${actionout[$i]}" = tra \|\| "${actionout[$i]}" = trpe ) ) ]]
1332	then
1333	if [[ "${actionout[$i]}" = tr ]]
1334	then
1335	actionout[$i]=""
1336	elif [[ "${actionout[$i]}" = trpe ]]
1337	then
1338	actionout[$i]=pe
1339	elif [[ "${actionout[$i]}" = tra ]]
1340	then
1341	actionout[$i]=a
1342	fi
1343	(( maxcycle = 0 ))
1344	eval filename=${pathout[$i]}/${fname}${endout[$i]}
1345	eval catalogname=${pathout[$i]}
1346	if ! ls $filename* 1>/dev/null 2>&1
1347	then
1348
1349	# IF OUTPUT-FILE DOES NOT EXIST CHECK, IF IT CAN BE CREATED
1350	if cat /dev/null > $filename
1351	then
1352	rm $filename
1353	else
1354
1355	# CHECK, IF THE DIRECTORY WHERE FILE SHALL BE COPIED TO EXISTS
1356	# IF IT DOES NOT EXIST, TRY TO CREATE IT
1357	if [[ ! -d $catalogname ]]
1358	then
1359	if mkdir -p $catalogname
1360	then
1361	printf "\n\n *** directory:"
1362	printf "\n $catalogname"
1363	printf "\n was created\n"
1364	else
1365	printf "\n\n +++ OUTPUT-file:"
1366	printf "\n $filename"
1367	printf "\n cannot be created, because directory does not exist"
1368	printf "\n and cannot be created either"
1369	printf "\n"
1370	locat=output ; exit
1371	fi 2>/dev/null
1372	else
1373	printf "\n\n +++ OUTPUT-file:"
1374	printf "\n $filename"
1375	printf "\n cannot be created, although directory exists"
1376	printf "\n"
1377	locat=output ; exit
1378	fi
1379	fi 2>/dev/null
1380	else
1381
1382	# DETERMINE THE CYCLE NUMBER
1383	ls -1 -d $filename > filelist 2>/dev/null
1384	ls -1 -d $filename.* >> filelist 2>/dev/null
1385	while read zeile
1386	do
1387	cycle=$(echo $zeile \| cut -f2 -d".")
1388	if [[ "$cycle" = "$zeile" \|\| "$cycle" = ${extout[$i]} ]]
1389	then
1390	(( icycle = 1 ))
1391	else
1392	(( icycle = $cycle + 1 ))
1393	fi
1394	if (( icycle > maxcycle ))
1395	then
1396	(( maxcycle = icycle ))
1397	fi
1398	done <filelist
1399	rm filelist
1400	fi
1401
1402	# APPEND CYCLE NUMBER TO FILENAME AND CHECK, IF FILE CAN BE CREATED
1403	# IN CASE OF FILE-APPEND, FILE MUST BE APPENDED TO THE ONE WITH HIGHEST CYCLE NUMBER
1404	if [[ "${actionout[$i]}" != a ]]
1405	then
1406	if (( maxcycle > 0 ))
1407	then
1408	filename=${filename}.$maxcycle
1409	if cat /dev/null > $filename
1410	then
1411	rm $filename
1412	else
1413	printf "\n +++ OUTPUT-file:"
1414	printf "\n $filename"
1415	printf "\n cannot be created"
1416	locat=output ; exit
1417	fi
1418	fi
1419	else
1420	(( maxcycle = maxcycle - 1 ))
1421	if (( maxcycle > 0 ))
1422	then
1423	filename=${filename}.$maxcycle
1424	fi
1425	fi
1426
1427	# STORE FILENAME WITHOUT PATH BUT WITH CYCLE NUMBER,
1428	# BECAUSE IT MIGHT BE REQUIRED LATER TO STORE THE FILE ON AN ARCHIVE-SYSTEM
1429	# OR TO PUT THIS FILENAME ON FILE OUTPUT_FILE_CONNECTIONS
1430	pathout[$i]=$filename
1431	if (( maxcycle > 0 ))
1432	then
1433	frelout[$i]=${fname}${endout[$i]}.$maxcycle
1434	else
1435	frelout[$i]=${fname}${endout[$i]}
1436	fi
1437
1438	fi
1439	done
1440
1441
1442	# THE DVR-PACKAGE REQUIRES ITS OWN LIBRARY
1443	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
1444	then
1445	if [[ "$dvr_inc" = "" ]]
1446	then
1447	printf "\n\n +++ no value for \"dvr_inc\" given in configuration file"
1448	printf "\n This is required for the dvrp_graphics package.\n"
1449	locat=dvr; exit
1450	fi
1451	if [[ "$dvr_lib" = "" ]]
1452	then
1453	printf "\n\n +++ no value for \"dvr_lib\" given in configuration file"
1454	printf "\n This is required for the dvrp_graphics package.\n"
1455	locat=dvr; exit
1456	fi
1457	fi
1458
1459
1460	# CHECK, WETHER A MAIN PROGRAM OR AN EXECUTABLE HAVE BEEN DECLARED.
1461	# EXECUTABLES DO NOT NEED TO BE COMPILED.
1462	if [[ "$mainprog" = "" && "$executable" = "" ]]
1463	then
1464	printf "\n +++ neither main program nor executable defined"
1465	locat=source; exit
1466	elif [[ "$mainprog" != "" && "$executable" != "" ]]
1467	then
1468	printf "\n +++ main program as well as executable defined"
1469	locat=source; exit
1470	elif [[ "$mainprog" = "" && "$executable" != "" ]]
1471	then
1472	do_compile=false
1473	fi
1474
1475
1476	# CREATE SOURCE-DIRECTORY TO COLLECT ROUTINES TO BE COMPILED.
1477	# LATER THE MRUN-SCRIPT AND CONFIGURATION-FILE WILL ALSO BE COPIED TO THIS DIRECTORY.
1478	if [[ $restart_run != true && "$SOURCES_COMPLETE" = "" ]]
1479	then
1480	rm -rf SOURCES_FOR_RUN_$fname
1481	mkdir SOURCES_FOR_RUN_$fname
1482	fi
1483
1484
1485	# COLLECT ALL ROUTINES TO BE COMPILED
1486	# THIS IS NOT REQUIRED WITHIN BATCH-JOBS, BECAUSE ROUTINES HAVE ALREADY BEEN COLLECTED
1487	# BY THE MRUN-CALL WHICH CREATED THE BATCH-JOB.
1488	if [[ $do_compile = true && "$SOURCES_COMPLETE" = "" ]]
1489	then
1490
1491	[[ "$source_list" = LM ]] && source_list=LOCALLY_MODIFIED
1492
1493	if [[ "$source_list" = LOCALLY_MODIFIED ]]
1494	then
1495
1496	# DETERMINE MODIFIED FILES OF THE SVN WORKING COPY
1497	source_list=""
1498	cd $source_path
1499
1500
1501	# CHECK, IF DIRECTORY IS UNDER SVN CONTROL
1502	if [[ ! -d .svn ]]
1503	then
1504	printf "\n\n +++ source directory"
1505	printf "\n \"$source_path\" "
1506	printf "\n is not under control of \"subversion\"."
1507	printf "\n Please do not use mrun-option \"-s LOCALLY_MODIFIED\"\n"
1508	fi
1509
1510
1511	# LIST ALL MODIFIED SOURCE CODE FILES
1512	Filenames=""
1513	svn status > tmp_mrun
1514	while read line
1515	do
1516	firstc=`echo $line \| cut -c1`
1517	if [[ $firstc = M \|\| $firstc = "?" ]]
1518	then
1519	Name=`echo "$line" \| cut -c8-`
1520	extension=`echo $Name \| cut -d. -f2`
1521	if [[ "$extension" = f90 \|\| "$extension" = F90 \|\| "$extension" = f \|\| "$extension" = F \|\| "$extension" = c ]]
1522	then
1523	Filenames="$Filenames "$Name
1524	fi
1525	fi
1526	done < tmp_mrun
1527
1528
1529	# COPY FILES TO SOURCES_FOR_RUN_...
1530	for dateiname in $Filenames
1531	do
1532	cp $dateiname $working_directory/SOURCES_FOR_RUN_$fname
1533	source_list=$source_list"$dateiname "
1534	done
1535
1536	cd - > /dev/null
1537
1538
1539	# COPY FILES GIVEN BY OPTION -s TO DIRECTORY SOURCES_FOR_RUN_...
1540	# AUTOMATIC RESTART RUNS JUST ACCESS THE DIRECTORY CREATED BY THE INITIAL RUN
1541	elif [[ "$source_list" != "" && $restart_run != true ]]
1542	then
1543
1544	cd $source_path
1545
1546	for filename in $source_list
1547	do
1548
1549	# SOURCE CODE FILE IS NOT ALLOWED TO INCLUDE PATH
1550	if [[ $(echo $filename \| grep -c "/") != 0 ]]
1551	then
1552	printf "\n +++ source code file: $filename"
1553	printf "\n must not contain (\"/\") "
1554	locat=source; exit
1555	fi
1556
1557	if [[ ! -f $filename ]]
1558	then
1559	printf "\n +++ source code file: $filename"
1560	printf "\n does not exist"
1561	locat=source; exit
1562	else
1563	cp $filename $working_directory/SOURCES_FOR_RUN_$fname
1564	fi
1565
1566	done
1567
1568	cd - > /dev/null
1569
1570	fi
1571
1572
1573	# CHECK, IF A MAIN PROGRAM EXISTS AND IF IT IS PART OF THE LIST OF FILES
1574	# TO BE COMPILED. IF NOT, ADD IT TO THE LIST.
1575	if [[ $restart_run != true ]]
1576	then
1577
1578	if [[ ! -f "$source_path/$mainprog" ]]
1579	then
1580	printf "\n\n +++ main program: $mainprog"
1581	printf "\n does not exist in source directory"
1582	printf "\n \"$source_path\"\n"
1583	locat=source; exit
1584	else
1585	if [[ $(echo $source_list \| grep -c $mainprog) = 0 ]]
1586	then
1587	cp $source_path/$mainprog SOURCES_FOR_RUN_$fname
1588	source_list=${mainprog}" $source_list"
1589	fi
1590	fi
1591	fi
1592
1593
1594	# CHECK, IF MAKEFILE EXISTS AND COPY IT TO THE SOURCES_FOR_RUN... DIRECTORY
1595	# NOT REQUIRED FOR RESTART RUNS, SOURCES_FOR_RUN... HAS BEEN CREATED BY THE INITIAL RUN
1596	if [[ "$restart_run" != true ]]
1597	then
1598	[[ "$makefile" = "" ]] && makefile=$source_path/Makefile
1599	if [[ ! -f $makefile ]]
1600	then
1601	printf "\n +++ file \"$makefile\" does not exist"
1602	locat=make; exit
1603	else
1604	cp $makefile SOURCES_FOR_RUN_$fname/Makefile
1605	fi
1606	fi
1607
1608
1609	# COPY FILES FROM OPTIONAL SOURCE PATH GIVEN IN THE CONFIGURATION FILE
1610	if [[ $restart_run != true && "$add_source_path" != "" ]]
1611	then
1612
1613	# DOES THE DIRECTORY EXIST?
1614	if [[ ! -d $add_source_path ]]
1615	then
1616	printf "\n\n *** INFORMATIVE: additional source code directory"
1617	printf "\n \"$add_source_path\" "
1618	printf "\n does not exist or is not a directory."
1619	printf "\n No source code will be used from this directory!\n"
1620	add_source_path=""
1621	if [[ $silent == false ]]
1622	then
1623	sleep 3
1624	fi
1625	else
1626
1627	cd $add_source_path
1628	found=false
1629
1630	Names=$(ls -1 *.f90 2>&1)
1631	[[ $(echo $Names \| grep -c '*.f90') = 0 ]] && AddFilenames="$Names"
1632	Names=$(ls -1 *.F90 2>&1)
1633	[[ $(echo $Names \| grep -c '*.F90') = 0 ]] && AddFilenames="$AddFilenames $Names"
1634	Names=$(ls -1 *.F 2>&1)
1635	[[ $(echo $Names \| grep -c '*.F') = 0 ]] && AddFilenames="$AddFilenames $Names"
1636	Names=$(ls -1 *.f 2>&1)
1637	[[ $(echo $Names \| grep -c '*.f') = 0 ]] && AddFilenames="$AddFilenames $Names"
1638	Names=$(ls -1 *.c 2>&1)
1639	[[ $(echo $Names \| grep -c '*.c') = 0 ]] && AddFilenames="$AddFilenames $Names"
1640
1641	cd - > /dev/null
1642	cd SOURCES_FOR_RUN_$fname
1643
1644	# COPY MAKEFILE IF EXISTING
1645	if [[ -f $add_source_path/Makefile ]]
1646	then
1647	printf "\n\n *** user Makefile from directory"
1648	printf "\n \"$add_source_path\" is used \n"
1649	if [[ $silent == false ]]
1650	then
1651	sleep 1
1652	fi
1653	cp $add_source_path/Makefile .
1654	fi
1655
1656	for dateiname in $AddFilenames
1657	do
1658	if [[ -f $dateiname ]]
1659	then
1660	printf "\n +++ source code file \"$dateiname\" found in additional"
1661	printf "\n source code directory \"$add_source_path\" "
1662	printf "\n but was also given with option \"-s\" which means that it should be taken"
1663	printf "\n from directory \"$source_path\"."
1664	locat=source; exit
1665	fi
1666
1667	cp $add_source_path/$dateiname .
1668	source_list="$source_list $dateiname"
1669
1670	# CHECK IF FILE IS CONTAINED IN MAKEFILE
1671	if [[ $(grep -c $dateiname Makefile) = 0 ]]
1672	then
1673	printf "\n\n +++ user file \"$dateiname\" "
1674	printf "\n is not listed in Makefile \n"
1675	locat=source; exit
1676	else
1677
1678	if [[ $found = false ]]
1679	then
1680	found=true
1681	printf "\n\n *** following user file(s) added to the"
1682	printf " files to be translated:\n "
1683	fi
1684	printf "$dateiname "
1685	if [[ $silent == false ]]
1686	then
1687	sleep 0.5
1688	fi
1689
1690	fi
1691	done
1692	[[ $found = true ]] && printf "\n"
1693	cd - > /dev/null
1694	fi
1695	fi
1696
1697
1698	# ADD ALL ROUTINES BELONGING TO SOFTWARE PACKAGES (GIVEN BY OPTION -p)
1699	# TO THE LIST OF FILES TO BE COMPILED
1700	if [[ $restart_run != true && -n $package_list ]]
1701	then
1702
1703	cd $source_path
1704
1705	for package in $package_list
1706	do
1707
1708	[[ $package = "dvrp_graphics+1PE" ]] && package=dvrp_graphics
1709
1710	# DETERMINE FILES BELONGING TO THE PACKAGE
1711	# ERROR MESSAGE ARE REDIRECTED TO /dev/null, BECAUSE WILDCARD (*) ALSO GIVES
1712	# THE NAME OF THE DIRECTORY
1713	package_source_list=`grep "defined( __$package " * 2>/dev/null \| cut -f1 -d:`
1714
1715
1716	# ADD THESE FILES TO THE LIST OF FILES TO BE COMPILED,
1717	# IF THEY ARE NOT ALREADY PART OF THE LIST
1718	for source_list_name in $package_source_list
1719	do
1720	if [[ $(echo $source_list \| grep -c $source_list_name) = 0 ]]
1721	then
1722
1723	# ONLY TAKE FILES WITH VALID SUFFIX
1724	ending=`echo $source_list_name \| cut -f2 -d.`
1725	if [[ "$ending" = f90 \|\| "$ending" = F90 \|\| "$ending" = f \|\| "$ending" = F \|\| "$ending" = c ]]
1726	then
1727	cp $source_list_name $working_directory/SOURCES_FOR_RUN_$fname
1728	source_list="$source_list $source_list_name"
1729	fi
1730	fi
1731	done
1732	done
1733
1734	cd - > /dev/null
1735	fi
1736
1737	fi # do_compile=true
1738
1739
1740	# IF SOURCE CODE IS TO BE COMPILED, DO SOME MORE CHECKS
1741	# AND SET PRE-PROCESSOR DIRECTIVES
1742	if [[ $do_compile = true \|\| $create_executable_for_batch = true ]]
1743	then
1744
1745	# SET PREPROCESSOR-DIRECTIVES TO SELECT OPERATING SYSTEM SPECIFIC CODE
1746	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1747	then
1748	cpp_options="${cpp_options},-D__ibm=__ibm"
1749	elif [[ $(echo $localhost \| cut -c1-3) = nec ]]
1750	then
1751	cpp_options="$cpp_options -D__nec"
1752	elif [[ $(echo $localhost \| cut -c1-2) = lc ]]
1753	then
1754	cpp_options="$cpp_options -D__lc"
1755	else
1756	cpp_options="$cpp_options -D__$localhost"
1757	fi
1758
1759	# SET DIRECTIVES GIVEN BY OPTION -K (E.G. parallel)
1760	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1761	then
1762	[[ -n $cond1 ]] && cpp_options="${cpp_options},-D__$cond1=__$cond1"
1763	[[ -n $cond2 ]] && cpp_options="${cpp_options},-D__$cond2=__$cond2"
1764	else
1765	[[ -n $cond1 ]] && cpp_options="$cpp_options -D__$cond1"
1766	[[ -n $cond2 ]] && cpp_options="$cpp_options -D__$cond2"
1767	fi
1768
1769	# SET DIRECTIVES FOR ACTIVATING SOFTWARE-PACKAGES (OPTION -p)
1770	if [[ -n $package_list ]]
1771	then
1772	for package in $package_list
1773	do
1774	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1775	then
1776	if [[ $package != "dvrp_graphics+1PE" ]]
1777	then
1778	cpp_options="${cpp_options},-D__$package=__$package"
1779	else
1780	cpp_options="${cpp_options},-D__dvrp_graphics=__dvrp_graphics"
1781	export use_seperate_pe_for_dvrp_output=true
1782	fi
1783	else
1784	if [[ $package != "dvrp_graphics+1PE" ]]
1785	then
1786	cpp_options="$cpp_options -D__$package"
1787	else
1788	cpp_options="$cpp_options -D__dvrp_graphics"
1789	export use_seperate_pe_for_dvrp_output=true
1790	fi
1791	fi
1792	done
1793	fi
1794
1795	# SET DIRECTIVES GIVEN BY OPTION -D
1796	if [[ -n $cpp_opts ]]
1797	then
1798	for popts in $cpp_opts
1799	do
1800	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1801	then
1802	cpp_options="${cpp_options},-D__$popts=__$popts"
1803	else
1804	cpp_options="$cpp_options -D__$popts"
1805	fi
1806	done
1807	fi
1808
1809	else
1810
1811
1812	# FOR LOCAL RUNS CHECK AGAIN, IF EXECUTABLE EXISTS
1813	if [[ $do_remote = false ]]
1814	then
1815	if [[ ! -f $executable ]]
1816	then
1817	printf "\n +++ executable file: $executable"
1818	printf "\n does not exist"
1819	locat=executable; exit
1820	fi
1821	fi
1822	fi
1823
1824
1825	# DETERMINE THE JOB MODE
1826	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1827	then
1828	if [[ "$LOADLBATCH" = yes ]]
1829	then
1830	batch_job=.TRUE.
1831	jobmo=BATCH
1832	else
1833	batch_job=.FALSE.
1834	jobmo=INTERACTIVE
1835	fi
1836	else
1837	if [[ "$ENVIRONMENT" = BATCH ]]
1838	then
1839	batch_job=.TRUE.
1840	jobmo=BATCH
1841	else
1842	batch_job=.FALSE.
1843	jobmo=INTERACTIVE
1844	fi
1845	fi
1846
1847	# NO INTERACTIVE RUNS ALLOWED ON LCTIT
1848	if [[ $host = lctit && $jobmo = INTERACTIVE && $do_batch = false ]]
1849	then
1850	printf "\n +++ no interactive runs allowed on host \"$host\" "
1851	printf "\n please submit batch job using mrun option \"-b\" \n"
1852	locat=normal; exit
1853	fi
1854
1855
1856	# CHECK, IF USER DEFINED A COMPILER
1857	if [[ "$compiler_name" = "" ]]
1858	then
1859
1860	printf "\n +++ no compiler specified for \"$host $cond1 $cond2\""
1861	locat=compiler_name; exit
1862
1863	fi
1864
1865
1866	# DETERMINE THE NAME OF MRUN'S TEMPORARY WORKING DIRECTORY
1867
1868	# ON HLRN-III, USE THE QUEUING NAME. OTHERWISE USE USERNAME AND RANDOM NUMBER
1869	if [[ $do_batch = false && $(echo $host \| cut -c1-6) = lccray ]]
1870	then
1871	kennung=$(checkjob $PBS_JOBID \| grep Reservation \| cut -d" " -s -f2 \| cut -d"." -s -f2 \| sed "s/['\"]//g")
1872	if [[ "$kennung" = "" ]]
1873	then
1874	kennung=$RANDOM
1875	fi
1876	else
1877	kennung=$RANDOM
1878	fi
1879
1880	if [[ "$tmp_user_catalog" = "" ]]
1881	then
1882	if [[ $localhost = ibmh ]]
1883	then
1884	tmp_user_catalog=$SCRATCH
1885	elif [[ $localhost = nech ]]
1886	then
1887	tmp_user_catalog=$WRKSHR
1888	else
1889	tmp_user_catalog=/tmp
1890	fi
1891	fi
1892	TEMPDIR=$tmp_user_catalog/${usern}.$kennung
1893
1894
1895	# DETERMINE THE NAME OF THE DIRECTORY WHICH IS USED TO TEMPORARILY STORE DATA FOR RESTART RUNS
1896	if [[ "$tmp_data_catalog" = "" ]]
1897	then
1898	if [[ $localhost = nech ]]
1899	then
1900	tmp_data_catalog=$WRKSHR/mrun_restart_data
1901	else
1902	tmp_data_catalog=/tmp/mrun_restart_data
1903	fi
1904	fi
1905
1906
1907	# IN CASE OF LOCAL RUNS REPLACE ENVIRONMENT VARIABLES BY THEIR VALUES
1908	if [[ $do_remote = false && $do_compile = true \|\| $create_executable_for_batch = true ]]
1909	then
1910	eval fopts=\"$fopts\"
1911	eval lopts=\"$lopts\"
1912	fi
1913
1914
1915	# DETERMINE COMPILE- AND LINK-OPTIONS
1916	fopts="$fopts $netcdf_inc $fftw_inc $dvr_inc"
1917	lopts="$lopts $netcdf_lib $fftw_lib $dvr_lib"
1918	XOPT="-X $numprocs"
1919
1920
1921	# CHECK THE CPU-LIMIT. IT MUST BE GIVEN FOR BATCH-JOBS AND IS COMMUNICATED TO THE
1922	# EXECUTABLE VIA NAMELIST-PARAMETER cputime
1923	done=false
1924	while [[ $done = false ]]
1925	do
1926	cputime=$cpumax
1927	if (( $cputime == 0 ))
1928	then
1929	if [[ $do_batch = true ]]
1930	then
1931	printf "\n +++ cpu-time is undefined"
1932	printf "\n >>> Please type CPU-time in seconds as INTEGER:"
1933	printf "\n >>> "
1934	read cputime 1>/dev/null 2>&1
1935	else
1936	cputime=10000000 # NO CPU LIMIT FOR INTERACTIVE RUNS
1937	fi
1938	else
1939	done=true
1940	fi
1941	cpumax=$cputime
1942	done
1943
1944	(( minuten = cputime / 60 ))
1945	(( sekunden = cputime - minuten * 60 ))
1946
1947
1948	# CHECK THE MEMORY DEMAND
1949	if [[ $do_batch = true ]]
1950	then
1951	done=false
1952	while [[ $done = false ]]
1953	do
1954	if (( memory == 0 ))
1955	then
1956	printf "\n +++ memory demand is undefined"
1957	printf "\n >>> Please type memory in MByte per process as INTEGER:"
1958	printf "\n >>> "
1959	read memory 1>/dev/null 2>&1
1960	else
1961	done=true
1962	fi
1963	done
1964	fi
1965
1966
1967	# IN CASE OF REMOTE-JOBS CHECK, IF A USERNAME FOR THE REMOTE HOST IS GIVEN
1968	if [[ $do_remote = true && -z $remote_username ]]
1969	then
1970	while [[ -z $remote_username ]]
1971	do
1972	printf "\n +++ username on remote host \"$host\" is undefined"
1973	printf "\n >>> Please type username:"
1974	printf "\n >>> "
1975	read remote_username
1976	done
1977	mc="$mc -u$remote_username"
1978	fi
1979
1980	# CHECK FOR INITIAL COMMANDS AFTER LOGIN
1981	if [[ "$login_init_cmd" != "" ]]
1982	then
1983	export init_cmds="${login_init_cmd};"
1984	fi
1985
1986
1987	# SET THE MODULE-LOAD COMMAD AND EXPORT IT FOR subjob
1988	if [[ "$modules" != "" ]]
1989	then
1990	if [[ $host = lctit ]]
1991	then
1992	export module_calls=". $modules"
1993	else
1994	export module_calls="module load ${modules};"
1995	fi
1996	fi
1997
1998	# OUTPUT OF THE MRUN-HEADER
1999	calltime=$(date)
2000	printf "\n"
2001	printf "#------------------------------------------------------------------------# \n"
2002	printf "\| %-35s%35s \| \n" "$version" "$calltime"
2003	printf "\| \| \n"
2004	spalte1="called on:"; spalte2=$localhost_realname
2005	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2006	if [[ $do_remote = true ]]
2007	then
2008	spalte1="execution on:"; spalte2="$host (username: $remote_username)"
2009	else
2010	spalte1="execution on:"; spalte2="$host ($localhost_realname)"
2011	fi
2012	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2013	if [[ -n $numprocs ]]
2014	then
2015	if [[ $run_coupled_model = false ]]
2016	then
2017	spalte1="number of PEs:"; spalte2=$numprocs
2018	else
2019	spalte1="number of PEs:"; spalte2="$numprocs (atmosphere: $numprocs_atmos, ocean: $numprocs_ocean)"
2020	fi
2021	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2022	fi
2023	if [[ -n $tasks_per_node ]]
2024	then
2025	spalte1="tasks per node:"; spalte2="$tasks_per_node (number of nodes: $nodes)"
2026	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2027	if (( remaining_pes > 0 ))
2028	then
2029	spalte1=" "; spalte2="one of the nodes only filled with $remaining_pes tasks"
2030	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2031	fi
2032	fi
2033	if [[ $maximum_parallel_io_streams != $numprocs ]]
2034	then
2035	spalte1="max par io streams:"; spalte2="$maximum_parallel_io_streams"
2036	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2037	fi
2038	if [[ $use_openmp = true ]]
2039	then
2040	spalte1="threads per task:"; spalte2="$threads_per_task"
2041	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2042	fi
2043	printf "\| \| \n"
2044	if [[ $do_compile = true ]]
2045	then
2046	if [[ "$mopts" != "" ]]
2047	then
2048	spalte1="make options:"; spalte2=$(echo "$mopts" \| cut -c-45)
2049	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2050	zeile=$(echo "$mopts" \| cut -c46-)
2051	while [[ "$zeile" != "" ]]
2052	do
2053	spalte1=""
2054	spalte2=$(echo "$zeile" \| cut -c-45)
2055	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2056	zeile=$(echo "$zeile" \| cut -c46-)
2057	done
2058	fi
2059
2060	spalte1="cpp directives:"; spalte2=$(echo "$cpp_options" \| cut -c-45)
2061	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2062	zeile=$(echo "$cpp_options" \| cut -c46-)
2063	while [[ "$zeile" != "" ]]
2064	do
2065	spalte1=""
2066	spalte2=$(echo "$zeile" \| cut -c-45)
2067	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2068	zeile=$(echo "$zeile" \| cut -c46-)
2069	done
2070
2071	spalte1="compiler options:"; spalte2=$(echo "$fopts" \| cut -c-45)
2072	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2073	zeile=$(echo "$fopts" \| cut -c46-)
2074	while [[ "$zeile" != "" ]]
2075	do
2076	spalte1=""
2077	spalte2=$(echo "$zeile" \| cut -c-45)
2078	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2079	zeile=$(echo "$zeile" \| cut -c46-)
2080	done
2081
2082	spalte1="linker options:"; spalte2=$(echo "$lopts" \| cut -c-45)
2083	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2084	zeile=$(echo "$lopts" \| cut -c46-)
2085	while [[ "$zeile" != "" ]]
2086	do
2087	spalte1=""
2088	spalte2=$(echo "$zeile" \| cut -c-45)
2089	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2090	zeile=$(echo "$zeile" \| cut -c46-)
2091	done
2092
2093	spalte1="modules to be load:"; spalte2=$(echo "$modules" \| cut -c-45)
2094	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2095	zeile=$(echo "$modules" \| cut -c46-)
2096	while [[ "$zeile" != "" ]]
2097	do
2098	spalte1=""
2099	spalte2=$(echo "$zeile" \| cut -c-45)
2100	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2101	zeile=$(echo "$zeile" \| cut -c46-)
2102	done
2103
2104	spalte1="main program:"; spalte2=$mainprog
2105	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2106	else
2107	spalte1=executable:; spalte2=$executable
2108	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2109	fi
2110	printf "\| \| \n"
2111	spalte1="base name of files:"; spalte2=$fname
2112	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2113	if [[ $fname != $afname ]]
2114	then
2115	spalte1="base name of input files:"; spalte2=$afname
2116	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2117	fi
2118	spalte1="INPUT control list:"; spalte2=$(echo $input_list)
2119	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2120	spalte1="OUTPUT control list:"; spalte2=$(echo $output_list)
2121	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2122
2123	if [[ "$ocean_file_appendix" = true ]]
2124	then
2125	printf "\| %-35s%-35s \| \n" "suffix \"_O\" is added to local files" " "
2126	fi
2127
2128	if [[ $do_batch = true \|\| "$LOADLBATCH" = yes ]]
2129	then
2130	spalte1="memory demand / PE":; spalte2="$memory MB"
2131	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2132	spalte1=CPU-time:; spalte2="$minuten:$sekunden"
2133	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2134	fi
2135
2136	if [[ $do_compile = true ]]
2137	then
2138	printf "\| \| \n"
2139	printf "\| Files to be compiled: \| \n"
2140	zeile=$source_list
2141	while [[ "$zeile" != "" ]]
2142	do
2143	linestart=$(echo $zeile \| cut -c-70)
2144	printf "\| %-70s \| \n" "$linestart"
2145	zeile=$(echo "$zeile" \| cut -c71-)
2146	done
2147	fi
2148	printf "#------------------------------------------------------------------------#"
2149
2150
2151
2152	# OUTPUT OF FILE CONNECTIONS IN CASE OF TRACEBACK
2153	if [[ $do_trace = true ]]
2154	then
2155	(( i = 0 ))
2156	while (( i < iin ))
2157	do
2158	(( i = i + 1 ))
2159	if (( i == 1 ))
2160	then
2161	printf "\n\n >>> INPUT-file assignments:\n"
2162	fi
2163	printf "\n ${localin[$i]} : ${absnamein[$i]}"
2164	done
2165	(( i = 0 ))
2166	while (( i < iout ))
2167	do
2168	(( i = i + 1 ))
2169	if (( i == 1 ))
2170	then
2171	printf "\n\n >>> OUTPUT-file assignments:\n"
2172	fi
2173	printf "\n ${localout[$i]} : ${pathout[$i]}"
2174	done
2175	(( i = 0 ))
2176	while (( i < iic ))
2177	do
2178	(( i = i + 1 ))
2179	if (( i == 1 ))
2180	then
2181	printf "\n\n >>> INPUT-commands:\n"
2182	fi
2183	printf "\n ${in_command[$i]}"
2184	done
2185	(( i = 0 ))
2186	while (( i < ioc ))
2187	do
2188	(( i = i + 1 ))
2189	if (( i == 1 ))
2190	then
2191	printf "\n\n >>> OUTPUT-commands:\n"
2192	fi
2193	printf "\n ${out_command[$i]}"
2194	done
2195	fi
2196
2197	# QUERY FOR CONTINUE (ON LOCAL MACHINES ONLY)
2198	if [[ $remotecall = false && $silent = false && $jobmo != BATCH ]]
2199	then
2200	antwort=dummy
2201	printf "\n\n"
2202	printf " >>> everything o.k. (y/n) ? "
2203	while read antwort
2204	do
2205	if [[ "$antwort" != y && "$antwort" != Y && "$antwort" != n && "$antwort" != N ]]
2206	then
2207	printf " >>> everything o.k. (y/n) ? "
2208	else
2209	break
2210	fi
2211	done
2212	if [[ $antwort = n \|\| $antwort = N ]]
2213	then
2214	locat=user_abort; (( iec = 0 )); exit
2215	fi
2216	if [[ $do_batch = true ]]
2217	then
2218	printf " >>> batch-job will be created and submitted"
2219	else
2220	printf " >>> MRUN will now continue to execute on this machine"
2221	fi
2222	fi
2223
2224
2225	# DETERMINE PATH FOR MAKE DEPOSITORY
2226	if [[ $do_batch = false \|\| $create_executable_for_batch = true ]]
2227	then
2228
2229	line=""
2230	grep "%depository_path" $config_file > tmp_mrun
2231	while read line
2232	do
2233	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
2234	then
2235	if [[ "$(echo $line \| cut -d" " -s -f3)" = "" ]]
2236	then
2237	global_depository_path=`echo $line \| cut -d" " -s -f2`
2238	fi
2239	fi
2240	done < tmp_mrun
2241
2242	line=""
2243	grep " $localhost" $config_file \| grep "%depository_path" > tmp_mrun
2244	while read line
2245	do
2246	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
2247	then
2248	if [[ "$(echo $line \| cut -d" " -s -f4)" = "$cond1" && "$(echo $line \| cut -d" " -s -f5)" = "$cond2" ]]
2249	then
2250	local_depository_path=`echo $line \| cut -d" " -s -f2`
2251	fi
2252	fi
2253	done < tmp_mrun
2254
2255	if [[ "$local_depository_path" = "" ]]
2256	then
2257	if [[ "$global_depository_path" != "" ]]
2258	then
2259	local_depository_path=$global_depository_path
2260	else
2261	printf "\n\n +++ no depository path found in configuration file"
2262	printf "\n for local host \"$localhost\" "
2263	printf "\n please set \"\%depository_path\" in configuration file\n"
2264	locat=config_file; exit
2265	fi
2266	fi
2267	eval local_depository_path=$local_depository_path
2268	[[ "$cond1" != "" ]] && local_depository_path=${local_depository_path}_$cond1
2269	[[ "$cond2" != "" ]] && local_depository_path=${local_depository_path}_$cond2
2270
2271
2272	basename=`echo $mainprog \| cut -f1 -d"."`
2273	eval make_depository=${local_depository_path}/${basename}_current_version.tar
2274	if [[ ! -f $make_depository ]]
2275	then
2276	printf "\n"
2277	printf "\n *** WARNING: make depository \"$make_depository\" not found"
2278	printf "\n \"make\" will fail, if the Makefile or other source files are missing\n"
2279	fi
2280
2281	fi
2282
2283
2284	# NOW PERFORM THOSE ACTIONS REQUIRED TO EXECUTE THE PROGRAM (PALM) ON THIS MACHINE
2285	# (COMPILING/LINKING, EXECUTING, COPYING I/O FILES)
2286	if [[ $do_batch = false ]]
2287	then
2288
2289
2290	# CREATE THE TEMPORARY WORKING DIRECTORY
2291	mkdir -p $TEMPDIR
2292	chmod go+rx $TEMPDIR
2293	tmpcreate=true
2294
2295
2296	# COPY EITHER THE COMPLETE SOURCE CODE FILES TO BE COMPILED OR THE EXECUTABLE
2297	# INTO THE TEMPORARY WORKING DIRECTORY
2298	if [[ $do_compile = true ]]
2299	then
2300
2301	# ON NEC, COMPILATION IS DONE ON HOST CROSS VIA CROSS COMPILING
2302	# CREATE A TEMPORARY DIRECTORY ON THAT MACHINE (HOME MOUNTED VIA NFS)
2303	if [[ $localhost = nech ]]
2304	then
2305	TEMPDIR_COMPILE=$HOME/work/${usern}.$kennung
2306	if mkdir -p $TEMPDIR_COMPILE
2307	then
2308	printf "\n *** \"$TEMPDIR_COMPILE\" "
2309	printf "\n is generated as temporary directory for cross compiling\n"
2310	else
2311	printf "\n +++ creating directory \"$TEMPDIR_COMPILE\" "
2312	printf "\n needed for cross compilation failed"
2313	locat=compile
2314	exit
2315	fi
2316	else
2317	TEMPDIR_COMPILE=$TEMPDIR
2318	fi
2319
2320	cp $make_depository $TEMPDIR_COMPILE
2321	cd $TEMPDIR_COMPILE
2322	tar -xf $make_depository > /dev/null 2>&1
2323	cd - > /dev/null
2324
2325	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
2326	# FILES ON CRAY XC30 SYSTEMS (HLRN III), rsync IS USED INSTEAD
2327	if [[ $(echo $host \| cut -c1-6) = lccray ]]
2328	then
2329	rsync -av -t SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
2330	else
2331	cp SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
2332	fi
2333
2334	else
2335
2336	cp $executable ${TEMPDIR}/a.out
2337
2338	fi
2339
2340
2341	# CHANGE TO THE TEMPORARY WORKING DIRECTORY
2342	cd $TEMPDIR
2343	printf "\n *** changed to temporary directory: $TEMPDIR"
2344
2345
2346	# THE FOLLOWING IS REQUIRED FPR AVS-OUTPUT WITH PALM ??? REMOVE ???
2347	# WRITE INFORMATIONS ABOUT THE OUTPUT-FILE CONNECTIONS TO A TEMPORARY FILE
2348	# THIS FILE CAN LATER BE READ FROM USER-DEFINED CODE TO DETERMINE THE
2349	# RELATION BETWEEN THE LOCAL TEMPORARY AND PERMANENT FILE NAMES
2350	(( i = 0 ))
2351	while (( i < iout ))
2352	do
2353	(( i = i + 1 ))
2354	if [[ "${actionout[$i]}" = tr \|\| "${actionout[$i]}" = tra \|\| "${actionout[$i]}" = trpe ]]
2355	then
2356	printf "${localout[$i]} ${actionout[$i]}\n${pathout[$i]}\n${localhost}_${fname}${endout[$i]}\n" >> OUTPUT_FILE_CONNECTIONS
2357	else
2358	printf "${localout[$i]} ${actionout[$i]}\n${pathout[$i]}\n${frelout[$i]}\n" >> OUTPUT_FILE_CONNECTIONS
2359	fi
2360	done
2361
2362
2363	# IF REQUIRED, START WITH COMPILING
2364	if [[ $do_compile = true ]]
2365	then
2366
2367
2368	if [[ -f a.out ]]
2369	then
2370
2371	# EXECUTABLE WAS CREATED DURING INTERACTIVE CALL OF MRUN
2372	printf "\n\n\n *** executable a.out found"
2373	printf "\n no compilation required \n"
2374
2375	else
2376
2377	# COMPILING WITH MAKE (ON NEC COMPILER IS CALLED ON HOST CROSS)
2378	printf "\n\n\n *** compilation starts \n$dashes\n"
2379	printf " *** compilation with make using following options:\n"
2380	printf " make depository: $make_depository"
2381	if [[ "$mopts" != "" ]]
2382	then
2383	printf " make options: $mopts\n"
2384	fi
2385	printf " compilername: $compiler_name\n"
2386	printf " compiler options: $fopts\n"
2387	printf " preprocessor directives: $cpp_options \n"
2388	printf " linker options: $lopts \n"
2389	if [[ "$modules" != "" ]]
2390	then
2391	printf " modules to be load: $modules \n"
2392	fi
2393	printf " source code files: $source_list \n"
2394
2395	if [[ $localhost = nech ]]
2396	then
2397	ssh $SSH_PORTOPT 136.172.44.192 -l $usern "$init_cmds $module_calls cd \$HOME/work/${usern}.$kennung; sxmake $mopts -f Makefile PROG=a.out F90=$compiler_name COPT=\"$cpp_options\" F90FLAGS=\"$fopts\" LDFLAGS=\"$lopts\" "
2398	cp $TEMPDIR_COMPILE/a.out .
2399	[[ $? != 0 ]] && compile_error=true
2400	rm -rf $TEMPDIR_COMPILE
2401	elif [[ $localhost = ibmh ]]
2402	then
2403	printf " compiler is called via ssh on \"plogin1\" \n"
2404	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\" "
2405	[[ ! -f a.out ]] && compile_error=true
2406	continue # STATUS=1, IF a.out EXISTS
2407	elif [[ $localhost = lcocean ]]
2408	then
2409	printf " compiler is called via ssh on \"ocean\" \n"
2410	echo $PWD
2411	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\" "
2412	[[ ! -f a.out ]] && compile_error=true
2413	continue # STATUS=1, IF a.out EXISTS
2414	elif [[ $localhost = lcflow ]]
2415	then
2416	printf " compiler is called via ssh on \"flow\" \n"
2417	/usr/bin/ssh $SSH_PORTOPT flow02.hpc.uni-oldenburg.de -l $usern "$init_cmds $module_calls cd $TEMPDIR; make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT=\"$cpp_options\" F90FLAGS=\"$fopts\" LDFLAGS=\"$lopts\" "
2418	check_for_file=`/usr/bin/ssh $SSH_PORTOPT flow02.hpc.uni-oldenburg.de -l $usern "ls $TEMPDIR/a.out 2> /dev/null"`
2419	[[ "$check_for_file" = "" ]] && compile_error=true
2420	continue # STATUS=1, IF a.out EXISTS
2421	elif [[ $localhost = lcbullhh \|\| $localhost = lccrayb \|\| $localhost = lccrayf \|\| $localhost = lccrayh ]]
2422	then
2423	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2424	else
2425	[[ "$init_cmds" != "" ]] && eval $init_cmds
2426	[[ "$module_calls" != "" ]] && eval $module_calls
2427	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2428	fi
2429
2430	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
2431	then
2432	printf "\n +++ error occured while compiling or linking"
2433	locat=compile
2434
2435	exit
2436	else
2437	printf "$dashes\n *** compilation finished \n"
2438	fi
2439
2440	fi
2441
2442	fi
2443
2444
2445	# PROVIDE THE INPUT FILES
2446	# LOOP OVER ALL ACTIVATED FILES (LISTED IN THE CONFIGURATION FILE)
2447	(( i = 0 ))
2448	while (( i < iin ))
2449	do
2450	(( i = i + 1 ))
2451	if (( i == 1 ))
2452	then
2453	printf "\n\n *** providing INPUT-files:\n$dashes"
2454	fi
2455
2456
2457	# SKIP OPTIONAL FILES, IF THEY DO NOT EXIST
2458	if [[ "${transin[$i]}" = unavailable ]]
2459	then
2460	if [[ "${extin[$i]}" = "" \|\| "${extin[$i]}" = " " ]]
2461	then
2462	printf "\n *** INFORMATIVE: input file \"${pathin[$i]}/${afname}${endin[$i]}\" "
2463	printf "\n is not available!"
2464	else
2465	printf "\n *** INFORMATIVE: input file \"${pathin[$i]}/${afname}${endin[$i]}.${extin[$i]}\" "
2466	printf "\n is not available!"
2467	fi
2468	continue
2469	fi
2470
2471	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
2472	files_for_pes=false; datentyp=file
2473	if [[ "${actionin[$i]}" = pe && -n $numprocs ]]
2474	then
2475	files_for_pes=true; datentyp=directory
2476	actionin[$i]=""
2477	elif [[ "${actionin[$i]}" = pe && ! -n $numprocs ]]
2478	then
2479	actionin[$i]=""
2480	elif [[ "${actionin[$i]}" = arpe && -n $numprocs ]]
2481	then
2482	files_for_pes=true; datentyp=directory
2483	actionin[$i]="ar"
2484	elif [[ "${actionin[$i]}" = arpe && ! -n $numprocs ]]
2485	then
2486	actionin[$i]="ar"
2487	elif [[ "${actionin[$i]}" = flpe && -n $numprocs ]]
2488	then
2489	files_for_pes=true; datentyp=directory
2490	actionin[$i]="fl"
2491	elif [[ "${actionin[$i]}" = flpe && ! -n $numprocs ]]
2492	then
2493	actionin[$i]="fl"
2494	fi
2495
2496	if [[ $files_for_pes = true ]]
2497	then
2498	printf "\n >>> INPUT: ${absnamein[$i]}/.... to ${localin[$i]}"
2499	else
2500	printf "\n >>> INPUT: ${absnamein[$i]} to ${localin[$i]}"
2501	fi
2502
2503	# INPUT-FILE FOR A RESTART RUN.
2504	# CHECK, IF THIS FILE STILL EXISTS ON THE TEMPORARY DATA DIRECTORY.
2505	# IF NOT, TRY TO GET IT FROM THE ARCHIVE SYSTEM
2506	if [[ "${actionin[$i]}" = fl ]]
2507	then
2508	printf "\n $datentyp will be fetched from temporary directory \"${tmp_data_catalog}\" !"
2509	if [[ $files_for_pes = false ]]
2510	then
2511	if [[ -f "$tmp_data_catalog/${frelin[$i]}" ]]
2512	then
2513	ln $tmp_data_catalog/${frelin[$i]} ${localin[$i]}
2514	got_tmp[$i]=true
2515	elif [[ -f "$WORK/${frelin[$i]}" && $ignore_archive_error = true ]]
2516	then
2517	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" !"
2518	printf "\n *** trying to use backup copy in \"$WORK\" "
2519	cp $WORK/${frelin[$i]} ${localin[$i]}
2520	else
2521	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" "
2522	printf "\n or \"$tmp_data_catalog\" does not exist!"
2523	printf "\n *** trying to get copy from archive"
2524	actionin[$i]=ar
2525	fi
2526	else
2527	if [[ -d "$tmp_data_catalog/${frelin[$i]}" ]]
2528	then
2529	mkdir ${localin[$i]}
2530	cd $tmp_data_catalog/${frelin[$i]}
2531	for file in $(ls *)
2532	do
2533	ln $file $TEMPDIR/${localin[$i]}
2534	done
2535	cd $TEMPDIR
2536	got_tmp[$i]=true
2537	elif [[ -d "$WORK/${frelin[$i]}" && $ignore_archive_error = true ]]
2538	then
2539	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" !"
2540	printf "\n *** trying to use backup copy in \"$WORK\" "
2541	cp -r $WORK/${frelin[$i]} ${localin[$i]}
2542	else
2543	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" "
2544	printf "\n or \"$tmp_data_catalog\" does not exist!"
2545	printf "\n *** trying to get copy from archive"
2546	actionin[$i]=ar
2547	fi
2548	fi
2549	fi
2550
2551
2552	# FILE IS STORED ON THE ARCHIVE SYSTEM
2553	if [[ "${actionin[$i]}" = ar ]]
2554	then
2555
2556	if [[ $files_for_pes = false ]]
2557	then
2558	printf "\n file will be restored from archive-system ($archive_system)!"
2559	else
2560	printf "\n directory will be restored from archive-system ($archive_system)!"
2561	fi
2562
2563	file_restored=false
2564
2565	if [[ $archive_system = asterix ]]
2566	then
2567	do_stagein=true
2568	(( stagein_anz = 0 ))
2569	while [[ $do_stagein = true ]]
2570	do
2571	if [[ $files_for_pes = false ]]
2572	then
2573	stagein -O ${frelin[$i]} > STAGEIN_OUTPUT
2574	else
2575	stagein -t -O ${frelin[$i]} > STAGEIN_OUTPUT
2576	fi
2577	cat STAGEIN_OUTPUT
2578	if [[ $(grep -c "st.msg:i24" STAGEIN_OUTPUT) != 0 ]]
2579	then
2580	file_restored=true
2581	do_stagein=false
2582	else
2583	(( stagein_anz = stagein_anz + 1 ))
2584	if (( stagein_anz == 10 ))
2585	then
2586	printf "\n +++ stagein stoped after 10 tries"
2587	locat=stage
2588	exit
2589	fi
2590	printf "\n +++ restoring from archive failed, trying again:"
2591	sleep 900
2592	fi
2593	done
2594	elif [[ $archive_system = DMF ]]
2595	then
2596	if [[ $files_for_pes = false ]]
2597	then
2598	printf "\n +++ restoring of single files impossible with $archive_system !\n"
2599	locat=DMF
2600	exit
2601	else
2602	find $ARCHIVE/${frelin[$i]} -type m -print \| dmget
2603	cp -r $ARCHIVE/${frelin[$i]} $PWD
2604	file_restored=true
2605	fi
2606	elif [[ $archive_system = tivoli ]]
2607	then
2608	if [[ $files_for_pes = false ]]
2609	then
2610	ssh $SSH_PORTOPT $usern@bicedata.hlrn.de "cp $PERM/${frelin[$i]} $PWD"
2611	else
2612	(( inode = 0 ))
2613	while (( inode < nodes ))
2614	do
2615	ssh $SSH_PORTOPT $usern@bicedata.hlrn.de "cd $PWD; tar xf $PERM/${frelin[$i]}/${frelin[$i]}.node_$inode.tar"
2616	(( inode = inode + 1 ))
2617	done
2618	fi
2619	file_restored=true
2620	elif [[ $archive_system = ut ]]
2621	then
2622	if [[ $files_for_pes = false ]]
2623	then
2624	cp $UT/${frelin[$i]} .
2625	else
2626	(( inode = 0 ))
2627	while (( inode < nodes ))
2628	do
2629	tar xf $UT/${frelin[$i]}/${frelin[$i]}.node_$inode.tar
2630	(( inode = inode + 1 ))
2631	done
2632	fi
2633	file_restored=true
2634	else
2635	printf "\n +++ archive_system=\"$archive_system\" restore impossible!"
2636	locat=rearchive
2637	exit
2638	fi
2639
2640	if [[ $file_restored = true ]]
2641	then
2642
2643	# PUT FILE ON THE TEMPORARY DATA DIRECTORY TOO.
2644	# THIS WILL MAKE FILE ACCESS EASIER FOR LATER RUNS
2645	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog; chmod g+rx $tmp_data_catalog
2646	if [[ $files_for_pes = false ]]
2647	then
2648	ln -f ${frelin[$i]} $tmp_data_catalog/${frelin[$i]}
2649	else
2650	mkdir $tmp_data_catalog/${frelin[$i]}
2651	ln -f ${frelin[$i]}/* $tmp_data_catalog/${frelin[$i]}
2652	fi
2653	got_tmp[$i]=true
2654
2655	# PROVIDE THE FILE UNDER ITS LOCAL NAME
2656	mv ${frelin[$i]} ${localin[$i]}
2657
2658	fi
2659	fi
2660
2661
2662	# FILE IS STORED IN THE RESPECTIVE DIRECTORY GIVEN IN THE CONFIGURATION FILE
2663	if [[ "${actionin[$i]}" = "" \|\| "${actionin[$i]}" = "di" \|\| "${actionin[$i]}" = "npe" ]]
2664	then
2665
2666	if [[ "${actionin[$i]}" = "npe" && -n $numprocs ]]
2667	then
2668
2669	# FILE COPIES ARE PROVIDED FOR ALL CORES
2670	# EACH FILE GETS A UNIQUE FILENAME WITH A FOUR DIGIT NUMBER
2671	printf "\n file will be provided for $numprocs processors"
2672	mkdir ${localin[$i]}
2673	ival=$numprocs
2674	(( ii = 0 ))
2675	while (( ii <= ival-1 ))
2676	do
2677	if (( ii < 10 ))
2678	then
2679	cp ${absnamein[$i]} ${localin[$i]}/_000$ii
2680	elif (( ii < 100 ))
2681	then
2682	cp ${absnamein[$i]} ${localin[$i]}/_00$ii
2683	elif (( ii < 1000 ))
2684	then
2685	cp ${absnamein[$i]} ${localin[$i]}/_0$ii
2686	else
2687	cp ${absnamein[$i]} ${localin[$i]}/_$ii
2688	fi
2689	(( ii = ii + 1 ))
2690	done
2691
2692	else
2693
2694	if [[ $files_for_pes = true ]]
2695	then
2696
2697	# PROVIDE FILES FOR EACH CORE
2698	# FIRST CREATE THE LOCAL DIRECTORY, THEN COPY FILES
2699	# FROM THE PERMANENT DIRECTORY BY LINKING THEM TO THE LOCAL ONE
2700	printf "\n providing $numprocs files for the respective processors"
2701	mkdir ${localin[$i]}
2702	if [[ $link_local_input = true ]]
2703	then
2704	printf " using ln -f\n"
2705	cd ${absnamein[$i]}
2706	for file in $(ls *)
2707	do
2708	ln -f $file ${localin[$i]}
2709	done
2710	cd $TEMPDIR
2711	fi
2712
2713	# IF "ln -f" FAILED OR IF "$link_local_input = false" DO A NORMAL "cp -r"
2714	if [[ ! -f "${localin[$i]}/_0000" ]]
2715	then
2716	if [[ $link_local_input = true ]]
2717	then
2718	printf " ln failed for .../_0000, using cp...\n"
2719	fi
2720	cp -r ${absnamein[$i]}/* ${localin[$i]}
2721	fi
2722
2723	else
2724
2725	# PROVIDE FILE FOR RUNS ON A SINGLE CORE
2726	if [[ $link_local_input = true ]]
2727	then
2728	printf " using ln -f\n"
2729	ln -f ${absnamein[$i]} ${localin[$i]}
2730	fi
2731	# If "ln -f" fails of if "$link_local_input = false" do a normal "cp"
2732	if [[ ! -f "${localin[$i]}" ]]
2733	then
2734	if [[ $link_local_input = true ]]
2735	then
2736	printf " ln failed, using cp...\n"
2737	fi
2738	cp ${absnamein[$i]} ${localin[$i]}
2739	fi
2740	fi
2741	fi
2742	fi
2743
2744	done
2745	if (( i != 0 ))
2746	then
2747	printf "\n$dashes\n *** all INPUT-files provided \n"
2748	fi
2749
2750
2751	# EXECUTE INPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
2752	(( i = 0 ))
2753	while (( i < iic ))
2754	do
2755	(( i = i + 1 ))
2756	if (( i == 1 ))
2757	then
2758	printf "\n\n *** execution of INPUT-commands:\n$dashes"
2759	fi
2760	printf "\n >>> ${in_command[$i]}"
2761	eval ${in_command[$i]}
2762	if (( i == iic ))
2763	then
2764	printf "\n$dashes\n"
2765	fi
2766	done
2767
2768
2769	# SET THE REMAINING CPU-TIME
2770	cpurest=${cpumax}.
2771
2772
2773	# START DVR STREAMING SERVER
2774	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
2775	then
2776	if [[ "$dvr_server" != "" ]]
2777	then
2778
2779	printf "\n\n *** preparing the dvr streaming server configuration file"
2780
2781	# CHECK, IF A DVR SERVER IS ALREADY RUNNING
2782	running_dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config \| grep -v grep) \| cut -d" " -f2`
2783	if [[ "$running_dvrserver_id" != "" ]]
2784	then
2785
2786	printf "\n\n +++ WARNING: A dvr server with id=$running_dvrserver_id is already running!"
2787	printf "\n This server is used instead starting a new one!"
2788	printf "\n If required, script \"process_dvr_output\" has to be run manually."
2789
2790	else
2791
2792	# COPY CONFIGURATION FILE FOR STREAMING SERVER FROM REPOSITORY TO HERE
2793	if [[ -f ${PALM_BIN}/.dvrserver.config ]]
2794	then
2795	cp ${PALM_BIN}/.dvrserver.config .
2796
2797	# ENTERING THE BASEDIR, UID AND GID INTO THIS FILE
2798	user_id=`id -u`
2799	group_id=`id -g`
2800
2801	# "&" IS REQUIRED AS A SEPERATOR, BECAUSE TEMPDIR CONTAINS "/"
2802	sed "s&<replace by dvr data directory>&${TEMPDIR}&g" .dvrserver.config > .dvrserver.1
2803	sed "s/<replace by user id>/$user_id/g" .dvrserver.1 > .dvrserver.2
2804	sed "s/<replace by group id>/$group_id/g" .dvrserver.2 > .dvrserver.3
2805	mv .dvrserver.3 .dvrserver.config
2806	rm .dvrserver.1 .dvrserver.2
2807
2808	# START DVR SERVER IN BACKGROUND, GET HIS ID AND PRINT ON TERMINAL
2809	$dvr_server .dvrserver.config >> DVR_LOGFILE 2>&1 &
2810	dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config) \| cut -d" " -f2`
2811	printf "\n *** streaming server with id=$dvrserver_id is started in background"
2812	local_dvrserver_running=.TRUE.
2813	else
2814	printf "\n +++ missing file \".dvrserver.config\" in directory:"
2815	printf "\n \"$PALM_BIN\" "
2816	locat=dvr
2817	exit
2818	fi
2819
2820	fi
2821
2822	else
2823	printf "\n\n --- INFORMATIVE: no dvr streaming server will be started"
2824	fi
2825	fi
2826
2827
2828	# CREATE THE NAMELIST-FILE WITH VALUES OF ENVIRONMENT-VARIABLES REQUIRED BY PALM
2829	# (FILE ENVPAR WILL BE READ BY PALM)
2830	cat > ENVPAR << %%END%%
2831	&envpar run_identifier = '$fname', host = '$localhost',
2832	write_binary = '$write_binary', tasks_per_node = $tasks_per_node,
2833	maximum_parallel_io_streams = $maximum_parallel_io_streams,
2834	maximum_cpu_time_allowed = ${cpumax}.,
2835	revision = '$global_revision',
2836	local_dvrserver_running = $local_dvrserver_running,
2837	batch_job = $batch_job /
2838
2839	%%END%%
2840
2841
2842	# STARTING THE EXECUTABLE
2843	printf "\n\n *** execution starts in directory\n \"`pwd`\"\n$dashes\n"
2844	PATH=$PATH:$TEMPDIR
2845
2846
2847	if [[ $execute_command != "none" ]]
2848	then
2849
2850	printf "\n +++ branch still not realized"
2851	locat=execution
2852	exit
2853
2854	else
2855
2856	# MPI DEBUG OPTION (ARGUMENT CHECKING, SLOWS DOWN EXECUTION DUE TO INCREASED LATENCY)
2857	if [[ "$mpi_debug" = true ]]
2858	then
2859	export MPI_CHECK_ARGS=1
2860	printf "\n +++ MPI_CHECK_ARGS=$MPI_CHECK_ARGS"
2861	fi
2862
2863	if [[ "$totalview" = true ]]
2864	then
2865	printf "\n *** totalview debugger will be used"
2866	tv_opt="-tv"
2867	else
2868	tv_opt=""
2869	fi
2870
2871	if [[ "$cond1" = debug \|\| "$cond2" = debug ]]
2872	then
2873
2874	#Interactive ALLINEA DEBUG seesion
2875	if [[ "$ENVIRONMENT" != BATCH ]]
2876	then
2877	if [[ $host = lccrayb \|\| $host = lccrayh ]]
2878	then
2879	if [[ "$allinea" = true ]]
2880	then
2881	echo "--- aprun -n $ii -N $tasks_per_node a.out < runfile_atmos"
2882
2883	ddt aprun -n $ii -N $tasks_per_node a.out
2884	wait
2885	fi
2886	fi
2887	fi
2888
2889	if [[ $localhost = ibmh ]]
2890	then
2891
2892	# SETUP THE IBM MPI ENVIRONMENT
2893	export MP_SHARED_MEMORY=yes
2894	export AIXTHREADS_SCOPE=S
2895	export OMP_NUM_THREADS=$threads_per_task
2896	export AUTHSTATE=files
2897	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
2898
2899	# FOLLOWING OPTIONS ARE MANDATORY FOR TOTALVIEW
2900	export MP_ADAPTER_USE=shared
2901	export MP_CPU_USE=multiple
2902	export MP_TIMEOUT=1200
2903
2904	unset MP_TASK_AFFINITY
2905
2906	if [[ "$LOADLBATCH" = yes ]]
2907	then
2908	totalview poe a.out
2909	else
2910	echo totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1
2911	export TVDSVRLAUNCHCMD=ssh
2912	totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1
2913	fi
2914
2915	fi # END DEBUG MODE
2916
2917	else
2918
2919	# NORMAL EXECUTION
2920	if [[ -n $numprocs ]]
2921	then
2922
2923	# RUNNING THE PROGRAM ON PARALLEL MACHINES
2924	if [[ $(echo $host \| cut -c1-3) = ibm ]]
2925	then
2926
2927	# SETUP THE IBM MPI ENVIRONMENT
2928	if [[ $host != ibmh && $host != ibmkisti ]]
2929	then
2930	export MP_SHARED_MEMORY=yes
2931	export AIXTHREAD_SCOPE=S
2932	export OMP_NUM_THREADS=$threads_per_task
2933	export XLSMPOPTS="spins=0:yields=0:stack=20000000"
2934	export AUTHSTATE=files
2935	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
2936	# export MP_PRINTENV=yes
2937
2938	# TUNING-VARIABLES TO IMPROVE COMMUNICATION SPEED
2939	# DO NOT SHOW SIGNIFICANT EFFECTS (SEP 04, FEDERATION-SWITCH)
2940	export MP_WAIT_MODE=poll
2941	[[ $node_usage = not_shared ]] && export MP_SINGLE_THREAD=yes
2942	fi
2943
2944	if [[ $host = ibmkisti ]]
2945	then
2946	export LANG=en_US
2947	export MP_SHARED_MEMORY=yes
2948	if [[ $threads_per_task = 1 ]]
2949	then
2950	export MP_SINGLE_THREAD=yes
2951	export MEMORY_AFFINITY=MCM
2952	else
2953	export OMP_NUM_THREADS=$threads_per_task
2954	fi
2955	fi
2956
2957	if [[ "$LOADLBATCH" = yes ]]
2958	then
2959	printf "\n--- Control: OMP_NUM_THREADS = \"$OMP_NUM_THREADS\" \n"
2960	if [[ "$cond1" = hpmcount \|\| "$cond2" = hpmcount ]]
2961	then
2962	/opt/optibm/HPM_2_4_1/bin/hpmcount a.out
2963	else
2964	if [[ $run_coupled_model = false ]]
2965	then
2966	if [[ "$ocean_file_appendix" = true ]]
2967	then
2968	echo "precursor_ocean" > runfile_atmos
2969	else
2970	echo "precursor_atmos" > runfile_atmos
2971	fi
2972	else
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	echo "coupled_run $iia $iio" > runfile_atmos
2979	fi
2980	poe ./a.out < runfile_atmos
2981	fi
2982	else
2983	if [[ $localhost = ibmh \|\| $localhost = ibms ]]
2984	then
2985	poe a.out -procs $numprocs -nodes 1 -rmpool 0
2986	elif [[ $localhost = ibmkisti \|\| $localhost = ibmku ]]
2987	then
2988	if [[ -f $hostfile ]]
2989	then
2990	cp $hostfile hostfile
2991	else
2992	(( ii = 1 ))
2993	while (( ii <= $numprocs ))
2994	do
2995	echo $localhost_realname >> hostfile
2996	(( ii = ii + 1 ))
2997	done
2998	fi
2999	export MP_HOSTFILE=hostfile
3000	if [[ $run_coupled_model = false ]]
3001	then
3002	if [[ "$ocean_file_appendix" = true ]]
3003	then
3004	echo "precursor_ocean" > runfile_atmos
3005	else
3006	echo "precursor_atmos" > runfile_atmos
3007	fi
3008	else
3009	(( iia = $numprocs_atmos / $threads_per_task ))
3010	(( iio = $numprocs_ocean / $threads_per_task ))
3011	printf "\n coupled run ($iia atmosphere, $iio ocean)"
3012	printf "\n using $coupled_mode coupling"
3013	printf "\n\n"
3014	echo "coupled_run $iia $iio" > runfile_atmos
3015	fi
3016
3017	poe ./a.out -procs $numprocs < runfile_atmos
3018
3019	else
3020	if [[ "$host_file" = "" ]]
3021	then
3022	printf "\n +++ no hostfile given in configuration file"
3023	locat=config_file
3024	exit
3025	else
3026	eval host_file=$host_file
3027	fi
3028	export MP_HOSTFILE=$host_file
3029	poe a.out -procs $numprocs -tasks_per_node $numprocs
3030	fi
3031	fi
3032
3033	elif [[ $host = nech ]] # running on NEC machines
3034	then
3035
3036	(( ii = nodes ))
3037	if [[ $ii = 1 ]]
3038	then
3039	export F_ERRCNT=0 # acceptable number of errors before program is stopped
3040	export MPIPROGINF=YES
3041	# export F_TRACE=YES\|FMT1\|FMT2 # output of ftrace informations to job protocol
3042	echo "*** execution on single node with mpirun"
3043	mpirun -np $numprocs ./a.out
3044	else
3045	(( i = 0 ))
3046	while (( i < ii ))
3047	do
3048	echo "-h $i -p $tasks_per_node -e ./mpi_exec_shell" >> multinode_config
3049	(( i = i + 1 ))
3050	done
3051
3052	echo "#!/bin/sh" > mpi_exec_shell
3053	echo " " >> mpi_exec_shell
3054	echo "set -u" >> mpi_exec_shell
3055	echo "F_ERRCNT=0" >> mpi_exec_shell
3056	echo "MPIPROGINV=YES" >> mpi_exec_shell
3057	echo "OMP_NUM_THREADS=$threads_per_task" >> mpi_exec_shell
3058	echo "cpurest=$cpurest" >> mpi_exec_shell
3059	echo "fname=$fname" >> mpi_exec_shell
3060	echo "localhost=$localhost" >> mpi_exec_shell
3061	echo "return_address=$return_address" >> mpi_exec_shell
3062	echo "return_username=$return_username" >> mpi_exec_shell
3063	echo "tasks_per_node=$tasks_per_node" >> mpi_exec_shell
3064	echo "write_binary=$write_binary" >> mpi_exec_shell
3065	echo "use_seperate_pe_for_dvrp_output=$use_seperate_pe_for_dvrp_output" >> mpi_exec_shell
3066	echo " " >> mpi_exec_shell
3067	echo "export F_ERRCNT" >> mpi_exec_shell
3068	echo "export MPIPROGINV" >> mpi_exec_shell
3069	echo "export OMP_NUM_THREADS" >> mpi_exec_shell
3070	echo "export cpurest" >> mpi_exec_shell
3071	echo "export fname" >> mpi_exec_shell
3072	echo "export localhost" >> mpi_exec_shell
3073	echo "export return_address" >> mpi_exec_shell
3074	echo "export return_username" >> mpi_exec_shell
3075	echo "export tasks_per_node" >> mpi_exec_shell
3076	echo "export write_binary" >> mpi_exec_shell
3077	echo "export use_seperate_pe_for_dvrp_output" >> mpi_exec_shell
3078	echo " " >> mpi_exec_shell
3079	echo "exec ./a.out" >> mpi_exec_shell
3080
3081	chmod u+x mpi_exec_shell
3082	export MPIPROGINF=YES
3083	mpirun -f multinode_config &
3084	wait
3085
3086	fi
3087
3088	elif [[ $(echo $host \| cut -c1-2) = lc && $host != lckyoto && $host != lctit ]]
3089	then
3090
3091	# COPY HOSTFILE FROM SOURCE DIRECTORY OR CREATE IT, IF IT
3092	# DOES NOT EXIST
3093	if [[ $host != lcbullhh && $host != lccrayb && $host != lccrayf && $host != lccrayh && $host != lckyuh && $host != lckyut && $host != lcocean ]]
3094	then
3095	if [[ -f $hostfile ]]
3096	then
3097	cp $hostfile hostfile
3098	(( ii = $numprocs / $threads_per_task ))
3099	[[ $ii = 0 ]] && (( ii = 1 ))
3100	else
3101	(( ii = 1 ))
3102	while (( ii <= $numprocs / $threads_per_task ))
3103	do
3104	echo $localhost_realname >> hostfile
3105	(( ii = ii + 1 ))
3106	done
3107	if (( $numprocs / $threads_per_task == 0 ))
3108	then
3109	echo $localhost_realname >> hostfile
3110	fi
3111	fi
3112	eval zeile=\"`head -n $ii hostfile`\"
3113	printf "\n *** running on: $zeile"
3114	fi
3115
3116	(( ii = $numprocs / $threads_per_task ))
3117	[[ $ii = 0 ]] && (( ii = 1 ))
3118	export OMP_NUM_THREADS=$threads_per_task
3119
3120	if [[ $threads_per_task != 1 ]]
3121	then
3122	# INCREASE STACK SIZE TO UNLIMITED, BECAUSE OTHERWISE LARGE RUNS
3123	# MAY ABORT
3124	ulimit -s unlimited
3125	printf "\n threads per task: $threads_per_task stacksize: unlimited"
3126	fi
3127	if [[ $run_coupled_model = false ]]
3128	then
3129	if [[ "$ocean_file_appendix" = true ]]
3130	then
3131	echo "precursor_ocean" > runfile_atmos
3132	else
3133	echo "precursor_atmos" > runfile_atmos
3134	fi
3135	printf "\n\n"
3136
3137	if [[ $host = lccrayb \|\| $host = lccrayh ]]
3138	then
3139	echo "--- aprun -n $ii -N $tasks_per_node a.out < runfile_atmos"
3140	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
3141	elif [[ $host = lcbullhh ]]
3142	then
3143	export OMPI_MCA_pml=cm
3144	export OMPI_MCA_mtl=mxm
3145	export OMPI_MCA_coll=^ghc
3146	export OMPI_MCA_mtl_mxm_np=0
3147	export MXM_RDMA_PORTS=mlx5_0:1
3148	export MXM_LOG_LEVEL=ERROR
3149	export OMP_NUM_THREADS=$threads_per_task
3150	export KMP_AFFINITY=verbose,granularity=core,compact,1
3151	export KMP_STACKSIZE=64m
3152
3153	srun --nodes=$nodes --ntasks-per-node=$tasks_per_node ./a.out < runfile_atmos
3154
3155	elif [[ $host = lccrayf ]]
3156	then
3157	aprun -j1 -n $ii -N $tasks_per_node -m ${memory}M a.out < runfile_atmos
3158	elif [[ $host = lcxe6 \|\| $host = lcxt5m ]]
3159	then
3160	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
3161	elif [[ $host = lcflow ]]
3162	then
3163	mpirun -np $ii a.out < runfile_atmos
3164	elif [[ $host = lcocean ]]
3165	then
3166	mpirun a.out $ROPTS < runfile_atmos
3167	elif [[ $host = lcsb ]]
3168	then
3169	mpirun_rsh -hostfile $PBS_NODEFILE -np `cat $PBS_NODEFILE \| wc -l` a.out < runfile_atmos
3170	elif [[ $host = lckiaps ]]
3171	then
3172	mpirun -np $ii -machinefile $PBS_NODEFILE ./a.out < runfile_atmos
3173	elif [[ $host = lckyu* ]]
3174	then
3175	mpiexec -n $ii --stdin runfile_atmos ./a.out
3176	else
3177	mpiexec -machinefile hostfile -n $ii a.out < runfile_atmos
3178	fi
3179
3180	else
3181
3182	# CURRENTLY THERE IS NO FULL MPI-2 SUPPORT ON ICE AND XT4
3183	(( iia = $numprocs_atmos / $threads_per_task ))
3184	(( iio = $numprocs_ocean / $threads_per_task ))
3185	printf "\n coupled run ($iia atmosphere, $iio ocean)"
3186	printf "\n using $coupled_mode coupling"
3187	printf "\n\n"
3188
3189	if [[ $coupled_mode = "mpi2" ]]
3190	then
3191	echo "atmosphere_to_ocean $iia $iio" > runfile_atmos
3192	echo "ocean_to_atmosphere $iia $iio" > runfile_ocean
3193
3194	if [[ $host = lccrayf \|\| $host = lcxe6 \|\| $host = lcxt5m ]]
3195	then
3196
3197	aprun -n $iia -N $tasks_per_node a.out < runfile_atmos &
3198	aprun -n $iio -N $tasks_per_node a.out < runfile_ocean &
3199
3200	else
3201	# WORKAROUND BECAUSE mpiexec WITH -env option IS NOT AVAILABLE ON SOME SYSTEMS
3202	mpiexec -machinefile hostfile -n $iia a.out < runfile_atmos &
3203	mpiexec -machinefile hostfile -n $iio a.out < runfile_ocean &
3204	# mpiexec -machinefile hostfile -n $iia -env coupling_mode atmosphere_to_ocean a.out &
3205	# mpiexec -machinefile hostfile -n $iio -env coupling_mode ocean_to_atmosphere a.out &
3206	fi
3207	wait
3208
3209	else
3210
3211	echo "coupled_run $iia $iio" > runfile_atmos
3212
3213	if [[ $host = lccrayf \|\| $host = lcxe6 \|\| $host = lcxt5m ]]
3214	then
3215
3216	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
3217
3218	elif [[ $host = lck \|\| $host = lckordi ]]
3219	then
3220
3221	mpiexec -n $ii ./a.out < runfile_atmos &
3222
3223	elif [[ $host = lckyu* ]]
3224	then
3225
3226	mpiexec -n $ii --stdin runfile_atmos ./a.out
3227
3228	elif [[ $host = lcmuk ]]
3229	then
3230
3231	mpiexec -machinefile hostfile -n $ii a.out < runfile_atmos
3232
3233	fi
3234	wait
3235	fi
3236
3237	fi
3238
3239	elif [[ $host = lckyoto ]]
3240	then
3241	set -xv
3242	export P4_RSHCOMMAND=plesh
3243	echo " P4_RSHCOMMAND = $P4_RSHCOMMAND"
3244	if [[ "$ENVIRONMENT" = BATCH ]]
3245	then
3246	if [[ "$cond2" = fujitsu ]]
3247	then
3248	mpiexec -n $numprocs ./a.out # for fujitsu-compiler
3249	elif [[ "cond2" = pgi ]]
3250	then
3251	mpirun -np $numprocs -machinefile ${QSUB_NODEINF} ./a.out
3252	else
3253	mpirun_rsh -np $numprocs -hostfile ${QSUB_NODEINF} MV2_USE_SRQ=0 ./a.out \|\| /bin/true
3254	fi
3255	else
3256	if [[ "$cond2" = "" ]]
3257	then
3258	mpiruni_rsh -np $numprocs ./a.out # for intel
3259	else
3260	mpirun -np $numprocs ./a.out
3261	fi
3262	fi
3263	set +xv
3264
3265	elif [[ $host = lctit ]]
3266	then
3267	export OMP_NUM_THREADS=$threads_per_task
3268	echo "OMP_NUM_THREADS=$OMP_NUM_THREADS"
3269	if [[ "$threads_per_task" != 1 ]]
3270	then
3271	export MV2_ENABLE_AFFINITY=0
3272	fi
3273	echo "----- PBS_NODEFILE content:"
3274	cat $PBS_NODEFILE
3275	echo "-----"
3276	(( ii = $numprocs / $threads_per_task ))
3277	echo "mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out"
3278	mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out
3279
3280	else
3281	mpprun -n $numprocs a.out
3282	fi
3283	else
3284	a.out
3285	fi
3286
3287	fi # end normal (non-debug) execution
3288
3289	fi # end explicit execute_command or host-specific execute actions
3290
3291	if [[ $? != 0 ]]
3292	then
3293
3294	# ABORT IN CASE OF RUNTIME ERRORS
3295	printf "\n +++ runtime error occured"
3296	locat=execution
3297	exit
3298
3299	else
3300
3301	printf "\n$dashes\n *** execution finished \n"
3302
3303	# STOP THE DVR STREAMING SERVER AND PROCESS THE DVR OUTPUT IN ORDER
3304	# TO CREAT DVRS- AND HTML-FILES CONTAINING ALL STREAMS
3305	if [[ "$dvrserver_id" != "" ]]
3306	then
3307	kill $dvrserver_id
3308	printf "\n *** dvr server with id=$dvrserver_id has been stopped"
3309
3310	# IF THERE IS A DIRECTORY, DATA HAVE BEEN OUTPUT BY THE
3311	# STREAMING SERVER. OTHERWISE, USER HAS CHOSEN dvrp_output=local
3312	if [[ -d DATA_DVR ]]
3313	then
3314
3315	# ADD THE CURRENT DVR CONFIGURATION FILE TO THE DVR OUTPUT
3316	# DIRECTORY
3317	cp .dvrserver.config DATA_DVR
3318
3319	# PROCESS THE DVR OUTPUT (OPTION -s FOR GENERATING
3320	# SEQUENCE MODE DATA TOO)
3321	process_dvr_output -d DATA_DVR -f $fname -s
3322
3323	else
3324
3325	# PROCESS THE LOCAL OUTPUT
3326	process_dvr_output -l -d DATA_DVR -f $fname
3327
3328	fi
3329
3330	elif [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
3331	then
3332
3333	# PROCESS DVR OUTPUT GENERATD IN LOCAL MODE (dvrp_output=local)
3334	process_dvr_output -l -d DATA_DVR -f $fname
3335
3336	fi
3337	fi
3338
3339
3340
3341	# CALL OF combine_plot_fields IN ORDER TO MERGE SINGLE FILES WRITTEN
3342	# BY EACH CORE INTO ONE FILE
3343	if [[ ! -f ${PALM_BIN}/combine_plot_fields${block}.x ]]
3344	then
3345	printf "\n\n\n +++ WARNING: no combine_plot_fields found for given block \"$cond1 $cond2\""
3346	printf "\n 2d- and/or 3d-data may be incomplete!"
3347	printf "\n Run \"mbuild -u -h $localhost\" to generate utilities for this block.\n"
3348	elif [[ "$combine_plot_fields" == true ]]
3349	then
3350	if [[ $localhost = lccrayh \|\| $localhost = lccrayb ]]
3351	then
3352	printf "\n\n\n *** post-processing: now executing \"aprun -n 1 -N 1 combine_plot_fields${block}.x\" ..."
3353	aprun -n 1 -N 1 combine_plot_fields${block}.x
3354	else
3355	printf "\n\n\n *** post-processing: now executing \"combine_plot_fields${block}.x\" ..."
3356	combine_plot_fields${block}.x
3357	fi
3358	else
3359
3360	# TEMPORARY SOLUTION TO SKIP combine_plot_fields. THIS IS REQUIRED IN CASE OF HUGE AMOUNT OF
3361	# DATA OUTPUT. TO DO: EXTEND THIS BRANCH BY CREATING A BATCH JOB for combine_plot_fields.
3362	# ??? koennen wir das streichen ???
3363	printf "\n\n\n *** post-processing: skipping combine_plot_fields (-Z option set) ..."
3364	fi
3365
3366
3367
3368	# EXECUTE OUTPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
3369	(( i = 0 ))
3370	while (( i < ioc ))
3371	do
3372	(( i = i + 1 ))
3373	if (( i == 1 ))
3374	then
3375	printf "\n\n *** execution of OUTPUT-commands:\n$dashes"
3376	fi
3377	printf "\n >>> ${out_command[$i]}"
3378	eval ${out_command[$i]}
3379	if (( i == ioc ))
3380	then
3381	printf "\n$dashes\n"
3382	fi
3383	done
3384
3385
3386	# IN TRACE-MODE PRINT CONTENTS OF THE CURRENT (TEMPORARY) WORKING DIRECTORY
3387	if [[ $do_trace = true ]]
3388	then
3389	printf "\n\n"
3390	ls -al
3391	fi
3392
3393
3394
3395	# COPY LOCAL OUTPUT-FILES TO THEIR PERMANENT DESTINATIONS
3396	(( i = 0 ))
3397	while (( i < iout ))
3398	do
3399	(( i = i + 1 ))
3400	if (( i == 1 ))
3401	then
3402	printf "\n\n *** saving OUTPUT-files:\n$dashes"
3403	fi
3404
3405	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
3406	files_for_pes=false; filetyp=file
3407	if [[ "${actionout[$i]}" = pe && -n $numprocs ]]
3408	then
3409	files_for_pes=true; filetyp=directory
3410	actionout[$i]=""
3411	elif [[ "${actionout[$i]}" = pe && ! -n $numprocs ]]
3412	then
3413	actionout[$i]=""
3414	elif [[ "${actionout[$i]}" = arpe && -n $numprocs ]]
3415	then
3416	files_for_pes=true; filetyp=directory
3417	actionout[$i]="ar"
3418	elif [[ "${actionout[$i]}" = arpe && ! -n $numprocs ]]
3419	then
3420	actionout[$i]="ar"
3421	elif [[ "${actionout[$i]}" = flpe && -n $numprocs ]]
3422	then
3423	files_for_pes=true; filetyp=directory
3424	actionout[$i]="fl"
3425	elif [[ "${actionout[$i]}" = flpe && ! -n $numprocs ]]
3426	then
3427	actionout[$i]="fl"
3428	elif [[ "${actionout[$i]}" = trpe && -n $numprocs ]]
3429	then
3430	files_for_pes=true; filetyp=directory
3431	actionout[$i]="tr"
3432	elif [[ "${actionout[$i]}" = trpe && ! -n $numprocs ]]
3433	then
3434	actionout[$i]="tr"
3435	fi
3436
3437	if [[ ! -f ${localout[$i]} && $files_for_pes = false ]]
3438	then
3439	printf "\n +++ temporary OUTPUT-file ${localout[$i]} does not exist\n"
3440	elif [[ ! -d ${localout[$i]} && $files_for_pes = true ]]
3441	then
3442	printf "\n +++ temporary OUTPUT-file ${localout[$i]}/.... does not exist\n"
3443	else
3444
3445
3446	# COPY VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
3447	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
3448	if [[ "${actionout[$i]}" = tr ]]
3449	then
3450	if [[ $localhost != $fromhost ]]
3451	then
3452	if [[ $files_for_pes = false ]]
3453	then
3454	cps=""
3455	cst=""
3456	else
3457	cps=-c
3458	cst="/"
3459	fi
3460	if [[ $localhost = nech ]]
3461	then
3462
3463	# TRANSFER IN SEPERATE JOB
3464	# FIRST COPY FILE TO TEMPORY DATA DIRECTORY
3465	[[ ! -d $tmp_data_catalog/TRANSFER ]] && mkdir -p $tmp_data_catalog/TRANSFER
3466	file_to_transfer=${fname}_${localout[$i]}_to_transfer_$kennung
3467	if [[ $files_for_pes = false ]]
3468	then
3469	ln -f ${localout[$i]} $tmp_data_catalog/TRANSFER/$file_to_transfer
3470	else
3471	mkdir $tmp_data_catalog/TRANSFER/$file_to_transfer
3472	ln ${localout[$i]}/* $tmp_data_catalog/TRANSFER/$file_to_transfer
3473	fi
3474
3475	echo "set -x" > transfer_${localout[$i]}
3476	echo "cd $tmp_data_catalog/TRANSFER" >> transfer_${localout[$i]}
3477
3478	printf "\n >>> OUTPUT: ${localout[$i]}$cst by SCP in seperate job to"
3479	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}$cst"
3480	printf "\n or higher cycle\n"
3481	echo "batch_scp $PORTOPT $cps -b -m -u $return_username $return_address $file_to_transfer \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}" >> transfer_${localout[$i]}
3482
3483	echo "[[ \$? = 0 ]] && rm $file_to_transfer" >> transfer_${localout[$i]}
3484
3485	if [[ $localhost = nech ]]
3486	then
3487	subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 900 $PORTOPT transfer_${localout[$i]}
3488	else
3489	if [[ "$LOGNAME" = b323013 ]]
3490	then
3491	subjob -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3492	else
3493	subjob -d -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3494	fi
3495	fi
3496
3497	else
3498
3499	# TRANSFER WITHIN THIS JOB
3500	transfer_failed=false
3501	printf "\n >>> OUTPUT: ${localout[$i]}$cst by SCP to"
3502	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}$cst\n"
3503	if [[ $localhost = lccrayb ]]
3504	then
3505	ssh $usern@blogin1 ". \\$HOME/.profile; cd $TEMPDIR; batch_scp $PORTOPT $cps -b -m -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
3506	elif [[ $localhost = lccrayh ]]
3507	then
3508	ssh $usern@hlogin1 ". \\$HOME/.profile; cd $TEMPDIR; batch_scp $PORTOPT $cps -b -m -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
3509	elif [[ $localhost = lcbullhh ]]
3510	then
3511	ssh $usern@mlogin101 ". \\$HOME/.profile; cd $TEMPDIR; batch_scp $PORTOPT $cps -b -m -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
3512	elif [[ $localhost = lcxe6 ]]
3513	then
3514	ssh $usern@hexagon ". \\$HOME/.profile; cd $TEMPDIR; batch_scp $PORTOPT $cps -b -m -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
3515	else
3516	batch_scp $PORTOPT $cps -b -m -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
3517	fi
3518	[[ $? != 0 ]] && transfer_failed=true
3519
3520	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
3521	if [[ $transfer_failed = true ]]
3522	then
3523	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
3524	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
3525
3526	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
3527	eval local_catalog=${pathout[$i]}
3528	if [[ ! -d $local_catalog ]]
3529	then
3530	printf " *** local directory does not exist. Trying to create:\n"
3531	printf " $local_catalog \n"
3532	mkdir -p $local_catalog
3533	fi
3534	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
3535	transfer_problems=true
3536	fi
3537	fi
3538	else
3539
3540	# UNSET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE COPIED ON THIS MACHINE
3541	actionout[$i]=""
3542	fi
3543	fi
3544
3545
3546	# APPEND VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
3547	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
3548	if [[ "${actionout[$i]}" = tra ]]
3549	then
3550	if [[ $localhost != $fromhost ]]
3551	then
3552	if [[ $localhost = ibmh \|\| $localhost = nech ]]
3553	then
3554
3555	# TRANSFER IN SEPERATE JOB
3556	# FIRST COPY FILE TO TEMPORY DATA DIRECTORY
3557	[[ ! -d $tmp_data_catalog/TRANSFER ]] && mkdir -p $tmp_data_catalog/TRANSFER
3558	file_to_transfer=${fname}_${localout[$i]}_to_transfer_$kennung
3559	ln -f ${localout[$i]} $tmp_data_catalog/TRANSFER/$file_to_transfer
3560
3561	echo "set -x" > transfer_${localout[$i]}
3562	echo "cd $tmp_data_catalog/TRANSFER" >> transfer_${localout[$i]}
3563
3564	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP in seperate job to"
3565	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}"
3566	printf "\n or higher cycle\n"
3567	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]}
3568
3569	echo "[[ \$? = 0 ]] && rm $file_to_transfer" >> transfer_${localout[$i]}
3570
3571	if [[ $localhost = nech ]]
3572	then
3573	subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 900 $PORTOPT transfer_${localout[$i]}
3574	else
3575	if [[ $LOGNAME = b323013 ]]
3576	then
3577	subjob -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3578	else
3579	subjob -d -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3580	fi
3581	fi
3582
3583	else
3584
3585	# TRANSFER WITHIN THIS JOB
3586	transfer_failed=false
3587	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP to"
3588	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}\n"
3589	if [[ $localhost = lccrayb ]]
3590	then
3591	ssh $usern@blogin1 ". \\$HOME/.profile; cd $TEMPDIR; batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
3592	elif [[ $localhost = lccrayh ]]
3593	then
3594	ssh $usern@hlogin1 ". \\$HOME/.profile; cd $TEMPDIR; batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
3595	elif [[ $localhost = lcxe6 ]]
3596	then
3597	ssh $usern@hexagon ". \\$HOME/.profile; cd $TEMPDIR; batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
3598	else
3599	batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
3600	fi
3601	[[ $? != 0 ]] && transfer_failed=true
3602
3603	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
3604	if [[ $transfer_failed = true ]]
3605	then
3606	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
3607	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
3608
3609	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
3610	eval local_catalog=${pathout[$i]}
3611	if [[ ! -d $local_catalog ]]
3612	then
3613	printf " *** local directory does not exist. Trying to create:\n"
3614	printf " $local_catalog \n"
3615	mkdir -p $local_catalog
3616	fi
3617
3618	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
3619	transfer_problems=true
3620	fi
3621	fi
3622	else
3623
3624	# RESET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE APPENDED ON THIS MACHINE
3625	actionout[$i]=a
3626	fi
3627	fi
3628
3629
3630	# OUTPUT-FILE FOR A RESTART-RUN.
3631	# FILE IS MOVED TO THE TEMPORARY DATA DIRECTORY USING link COMMAND.
3632	# OPTION -f IS USED TO OVERWRITE EXISTING FILES.
3633	# AS LAST ACTION, ARCHIVING IS INITIATED.
3634	if [[ "${actionout[$i]}" = fl ]]
3635	then
3636	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog
3637	chmod g+rx $tmp_data_catalog
3638	if [[ $files_for_pes = false ]]
3639	then
3640	printf "\n >>> OUTPUT: ${localout[$i]} to"
3641	printf "\n $tmp_data_catalog/${frelout[$i]} (temporary data catalog)\n"
3642	ln -f ${localout[$i]} $tmp_data_catalog/${frelout[$i]}
3643	else
3644	printf "\n >>> OUTPUT: ${localout[$i]}/.... to"
3645	printf "\n $tmp_data_catalog/${frelout[$i]} (temporary data catalog)\n"
3646	mkdir $tmp_data_catalog/${frelout[$i]}
3647	cd ${localout[$i]}
3648	for file in $(ls *)
3649	do
3650	ln -f $file $tmp_data_catalog/${frelout[$i]}
3651	done
3652	cd $TEMPDIR
3653	fi
3654
3655
3656	# CREATE AND SUBMIT ARCHIVING-JOB
3657	if [[ $store_on_archive_system = true ]]
3658	then
3659
3660	if [[ $archive_system = asterix ]]
3661	then
3662	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
3663	if [[ $files_for_pes = false ]]
3664	then
3665	echo "stageout ${frelout[$i]} > STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
3666	else
3667	echo "stageout -t ${frelout[$i]} > STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
3668	fi
3669	echo "cat STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
3670	echo "if [[ \$(grep -c \"st.msg:150\" STAGE_OUTPUT${i}_$kennung) != 0 ]]" >> archive_${frelout[$i]}
3671	echo "then" >> archive_${frelout[$i]}
3672	echo " do_stageout=false" >> archive_${frelout[$i]}
3673	echo "else" >> archive_${frelout[$i]}
3674	echo " echo \" +++ $filetyp ${frelout[$i]} could not be stored on archive-system\" " >> archive_${frelout[$i]}
3675	echo " cat /dev/null > ~/job_queue/ARCHIVE_ERROR_$fname" >> archive_${frelout[$i]}
3676	echo " cat STAGE_OUTPUT${i}_$kennung > ~/job_queue/archive_${frelout[$i]}_error" >> archive_${frelout[$i]}
3677	echo " echo \" *** $filetyp ${frelout[$i]} will be copied to \$WORK as backup\" " >> archive_${frelout[$i]}
3678	if [[ $files_for_pes = false ]]
3679	then
3680	echo " cp ${frelout[$i]} \$WORK" >> archive_${frelout[$i]}
3681	else
3682	echo " cp -r ${frelout[$i]} \$WORK/${frelout[$i]}" >> archive_${frelout[$i]}
3683	fi
3684	echo " echo \" *** $filetyp ${frelout[$i]} saved\" " >> archive_${frelout[$i]}
3685	echo "fi" >> archive_${frelout[$i]}
3686	echo "rm STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
3687	elif [[ $archive_system = DMF ]]
3688	then
3689	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
3690	if [[ $files_for_pes = false ]]
3691	then
3692	printf "\n +++ archiving of single files impossible with $archive_system !\n"
3693	locat=DMF
3694	exit
3695	else
3696	# ??? nicht benÃ¶tigte Archiv-Systeme entfernen ???
3697	# FUER RECHNER IN JUELICH. DORT KOENNTEN AUCH
3698	# EINZELNE DATEIEN GESICHERT WERDEN (SPAETER KORR.)
3699	echo "rm -rf \$ARCHIVE/${frelout[$i]}" >> archive_${frelout[$i]}
3700	echo "cp -r ${frelout[$i]} \$ARCHIVE" >> archive_${frelout[$i]}
3701	fi
3702	elif [[ $archive_system = tivoli ]]
3703	then
3704	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
3705	if [[ $files_for_pes = false ]]
3706	then
3707	# REMOVE EXISTING OLD FILES FROM THE ARCHIVE
3708	echo "set -x" >> archive_${frelout[$i]}
3709	echo "rm -rf \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
3710	echo "cp ${frelout[$i]} \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
3711	else
3712
3713	echo "set -x" >> archive_${frelout[$i]}
3714	echo "rm -rf \$PERM/${frelout[$i]}/*" >> archive_${frelout[$i]}
3715	echo "[[ ! -d \$PERM/${frelout[$i]} ]] && mkdir $PERM/${frelout[$i]}" >> archive_${frelout[$i]}
3716	cd $tmp_data_catalog
3717	all_files=`ls -1 ${frelout[$i]}/*`
3718	cd - > /dev/null
3719	(( inode = 0 ))
3720	(( tp1 = tasks_per_node + 1 ))
3721	while (( inode < nodes ))
3722	do
3723	files=`echo $all_files \| cut -d" " -f1-$tasks_per_node`
3724	all_files=`echo $all_files \| cut -d" " -f$tp1-`
3725	echo "tar cvf \$PERM/${frelout[$i]}/${frelout[$i]}.node_$inode.tar $files" >> archive_${frelout[$i]}
3726	(( inode = inode + 1 ))
3727	done
3728	fi
3729	elif [[ $archive_system = ut ]]
3730	then
3731	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
3732	if [[ $files_for_pes = false ]]
3733	then
3734	# REMOVE EXISTING OLD FILES FROM THE ARCHIVE
3735	echo "set -x" >> archive_${frelout[$i]}
3736	echo "rm -rf \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
3737	echo "cp ${frelout[$i]} \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
3738	else
3739
3740	echo "set -x" >> archive_${frelout[$i]}
3741	echo "rm -rf \$UT/${frelout[$i]}/*" >> archive_${frelout[$i]}
3742	echo "[[ ! -d \$UT/${frelout[$i]} ]] && mkdir $UT/${frelout[$i]}" >> archive_${frelout[$i]}
3743	cd $tmp_data_catalog
3744	all_files=`ls -1 ${frelout[$i]}/*`
3745	cd - > /dev/null
3746	(( inode = 0 ))
3747	(( tp1 = tasks_per_node + 1 ))
3748	while (( inode < nodes ))
3749	do
3750	files=`echo $all_files \| cut -d" " -f1-$tasks_per_node`
3751	all_files=`echo $all_files \| cut -d" " -f$tp1-`
3752	echo "tar cvf \$UT/${frelout[$i]}/${frelout[$i]}.node_$inode.tar $files" >> archive_${frelout[$i]}
3753	(( inode = inode + 1 ))
3754	done
3755	fi
3756	elif [[ $archive_system = none ]]
3757	then
3758	printf " +++ archiving on $localhost not available!\n"
3759	fi
3760
3761	if [[ $archive_system != none ]]
3762	then
3763	if [[ $localhost = nech ]]
3764	then
3765	subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 7200 $PORTOPT archive_${frelout[$i]}
3766	fi
3767	printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n"
3768	fi
3769	else
3770	printf " +++ caution: option -A is switched off. No archiving on $archive_system!\n"
3771	fi
3772
3773
3774	# CREATE AN EMPTY DIRECTORY IN THE USERS PERMANENT DIRECTORY,
3775	# IN ORDER TO NOTE THE RESPECTIVE CYCLE NUMBER ON THE ARCHIVE SYSTEM
3776	# RESTART-JOBS ARE USING THESE EMPTY-DIRECTORIES TO GET THE CURRENT HIGHEST
3777	# CYCLE NUMBER ON THE ARCHIVE SYSTEM (IN CASE THAT INFORMATIONS ARE DIFFICULT TO
3778	# TO ACCESS FROM THE ARCHIVE-SYSTEM DIRECTLY))
3779	if [[ $files_for_pes = false ]]
3780	then
3781	cat /dev/null > ${pathout[$i]}
3782	else
3783	mkdir -p ${pathout[$i]}
3784	fi
3785
3786	fi
3787
3788
3789	# COPY FROM THIS HOST TO THE ARCHIVE-SYSTEM
3790	# IF ANY ARCHIVING FAILS, AN ERROR-FLAG-FILE IS SET
3791	# THIS FILE REMAINS TO BE SET, EVEN IF ARCHIVING OF FURTHER FILES IS SUCCESSFULL
3792	if [[ "${actionout[$i]}" = ar ]]
3793	then
3794	if [[ $files_for_pes = false ]]
3795	then
3796	printf "\n >>> OUTPUT: ${localout[$i]} to"
3797	printf "\n ${pathout[$i]}"
3798	printf "\n File will be copied to archive-system ($archive_system) !\n"
3799	else
3800	printf "\n >>> OUTPUT: ${localout[$i]}/_.... to"
3801	printf "\n ${pathout[$i]}"
3802	printf "\n Directory will be copied to archive-system ($archive_system) !\n"
3803	fi
3804	mv ${localout[$i]} ${frelout[$i]}
3805
3806	file_saved=false
3807
3808	if [[ $archive_system = asterix ]]
3809	then
3810	do_stageout=true
3811	(( stageout_anz = 0 ))
3812	while [[ $do_stageout = true ]]
3813	do
3814	if [[ $files_for_pes = false ]]
3815	then
3816	stageout ${frelout[$i]} > STAGE_OUTPUT
3817	else
3818	stageout -t ${frelout[$i]} > STAGE_OUTPUT
3819	fi
3820	cat STAGE_OUTPUT
3821	if [[ $(grep -c "st.msg:150" STAGE_OUTPUT) != 0 ]]
3822	then
3823	file_saved=true
3824	do_stageout=false
3825	else
3826	if [[ $files_for_pes = false ]]
3827	then
3828	printf "\n +++ file ${frelout[$i]} could not be saved on archive-system"
3829	else
3830	printf "\n +++ directory ${frelout[$i]} could not be saved on archive-system"
3831	fi
3832	(( stageout_anz = stageout_anz + 1 ))
3833	if (( stageout_anz == 10 ))
3834	then
3835	printf "\n +++ stoped after 10 unsuccessful tries!"
3836	archive_save=false
3837	do_stageout=false
3838	else
3839	printf "\n *** new try to store on archive after 15 min:"
3840	sleep 900
3841	fi
3842	fi
3843	done
3844	elif [[ $archive_system = DMF ]]
3845	then
3846	if [[ $files_for_pes = false ]]
3847	then
3848	printf "\n +++ archiving of single files impossible on $archive_system!\n"
3849	locat=DMF
3850	exit
3851	else
3852	rm -rf $ARCHIVE/${frelout[$i]}
3853	cp -r ${frelout[$i]} $ARCHIVE
3854	fi
3855	file_saved=true
3856	elif [[ $archive_system = tivoli ]]
3857	then
3858	# ARCHIVING ONLY POSSIBLE VIA BATCH-JOB
3859	# IN THE MEANTIME, FILE IS STORED IN THE TEMPORARY DATA DIRECTORY,
3860	# BECAUSE MRUN'S CURRENT TEMPORARY WORKING DIRECTORY MAY ALREADY BE DELETED
3861	# WHEN THE ARCHIVE-JOB IS EXECUTED
3862	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog
3863	chmod g+rx $tmp_data_catalog
3864	if [[ $files_for_pes = false ]]
3865	then
3866	ln -f ${frelout[$i]} $tmp_data_catalog/${frelout[$i]}
3867	else
3868	mkdir $tmp_data_catalog/${frelout[$i]}
3869	ln -f ${frelout[$i]}/* $tmp_data_catalog/${frelout[$i]}
3870	fi
3871
3872	# GENERATE AND SUBMIT BATCH-JOB
3873	# FILE HAS TO BE DELETED FROM THE TEMPORARY DATA DIRECTORY
3874	# DELETE OLD EXISTING FILES FROM THE ARCHIVE
3875	echo "cd $tmp_data_catalog" > archive_${frelout[$i]}
3876	if [[ $files_for_pes = false ]]
3877	then
3878	echo "rm -rf \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
3879	echo "cp ${frelout[$i]} \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
3880	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
3881	else
3882	echo "rm -rf \$PERM/${frelout[$i]}.tar" >> archive_${frelout[$i]}
3883	echo "tar cvf \$PERM/${frelout[$i]}.tar ${frelout[$i]}" >> archive_${frelout[$i]}
3884	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
3885	fi
3886
3887	subjob -v -d -q cdata -X 0 -m 1000 -t 43200 -c $job_catalog $PORTOPT archive_${frelout[$i]}
3888	printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n"
3889	file_saved=true
3890
3891	elif [[ $archive_system = ut ]]
3892	then
3893	# ARCHIVING ONLY POSSIBLE VIA BATCH-JOB
3894	# IN THE MEANTIME, FILE IS STORED IN THE TEMPORARY DATA DIRECTORY,
3895	# BECAUSE MRUN'S CURRENT TEMPORARY WORKING DIRECTORY MAY ALREADY BE DELETED
3896	# WHEN THE ARCHIVE-JOB IS EXECUTED
3897	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog
3898	chmod g+rx $tmp_data_catalog
3899	if [[ $files_for_pes = false ]]
3900	then
3901	ln -f ${frelout[$i]} $tmp_data_catalog/${frelout[$i]}
3902	else
3903	mkdir $tmp_data_catalog/${frelout[$i]}
3904	ln -f ${frelout[$i]}/* $tmp_data_catalog/${frelout[$i]}
3905	fi
3906
3907	# GENERATE AND SUBMIT BATCH-JOB
3908	# FILE HAS TO BE DELETED FROM THE TEMPORARY DATA DIRECTORY
3909	# DELETE OLD EXISTING FILES FROM THE ARCHIVE
3910	echo "cd $tmp_data_catalog" > archive_${frelout[$i]}
3911	if [[ $files_for_pes = false ]]
3912	then
3913	echo "rm -rf \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
3914	echo "cp ${frelout[$i]} \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
3915	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
3916	else
3917	echo "rm -rf \$UT/${frelout[$i]}.tar" >> archive_${frelout[$i]}
3918	echo "tar cvf \$UT/${frelout[$i]}.tar ${frelout[$i]}" >> archive_${frelout[$i]}
3919	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
3920	fi
3921
3922	subjob -v -c /pf/b/$usern/job_queue -d -q pp -X 0 -m 1000 -t 7200 $PORTOPT archive_${frelout[$i]}
3923	printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n"
3924	file_saved=true
3925
3926	else
3927	printf "\n +++ archive_system=\"$archive_system\" archiving impossible!"
3928	archive_save=false
3929	fi
3930
3931	# CREATE EMPTY FLAG-FILE OR -DIRECTORY
3932	# IN ORDER TO NOTE THE RESPECTIVE CYCLE NUMBER ON THE ARCHIVE SYSTEM
3933	# RESTART-JOBS ARE USING THESE EMPTY-DIRECTORIES TO GET THE CURRENT HIGHEST
3934	# CYCLE NUMBER ON THE ARCHIVE SYSTEM (IN CASE THAT INFORMATIONS ARE DIFFICULT TO
3935	# TO ACCESS FROM THE ARCHIVE-SYSTEM DIRECTLY))
3936	if [[ $file_saved = true ]]
3937	then
3938	if [[ $files_for_pes = false ]]
3939	then
3940	cat /dev/null > ${pathout[$i]}
3941	else
3942	mkdir -p ${pathout[$i]}
3943	fi
3944	fi
3945
3946	fi
3947
3948	# APPEND ON THIS MACHINE
3949	if [[ "${actionout[$i]}" = "a" ]]
3950	then
3951	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
3952	then
3953	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}.${extout[$i]}\n"
3954	cat ${localout[$i]} >> ${pathout[$i]}.${extout[$i]}
3955	else
3956	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}\n"
3957	cat ${localout[$i]} >> ${pathout[$i]}
3958	fi
3959	fi
3960
3961	# COPY ON THIS MACHINE
3962	# COPY HAS TO BE USED, BECAUSE MOVE DOES NOT WORK IF FILE-ORIGIN AND TARGET ARE
3963	# ON DIFFERENT FILE-SYSTEMS
3964	if [[ "${actionout[$i]}" = "" && $files_for_pes = false ]]
3965	then
3966
3967	# COPY IN CASE OF RUNS ON SINGLE CORES
3968	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
3969	then
3970	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}.${extout[$i]}\n"
3971	if [[ $link_local_output = true ]]
3972	then
3973	printf " using ln -f\n"
3974	ln -f ${localout[$i]} ${pathout[$i]}.${extout[$i]}
3975	fi
3976	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
3977	if [[ ! -f "${pathout[$i]}.${extout[$i]}" ]]
3978	then
3979	if [[ $link_local_output = true ]]
3980	then
3981	printf " ln failed, using cp...\n"
3982	fi
3983	cp ${localout[$i]} ${pathout[$i]}.${extout[$i]}
3984	fi
3985	else
3986	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}\n"
3987	if [[ $link_local_output = true ]]
3988	then
3989	printf " using ln -f\n"
3990	ln -f ${localout[$i]} ${pathout[$i]}
3991	fi
3992	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
3993	if [[ ! -f "${pathout[$i]}" ]]
3994	then
3995	if [[ $link_local_output = true ]]
3996	then
3997	printf " ln failed, using cp...\n"
3998	fi
3999	cp ${localout[$i]} ${pathout[$i]}
4000	fi
4001	fi
4002
4003	elif [[ "${actionout[$i]}" = "" && $files_for_pes = true ]]
4004	then
4005
4006	# FILES FROM THE DIFFERENT CORES ARE MOVED WITH ln-COMMAND TO THE PERMANENT DIRECTORY
4007	# AS A FIRST STEP, THE PERMANENT DIRECTORY IS CREATED
4008	printf "\n >>> OUTPUT: ${localout[$i]}/_.... to ${pathout[$i]}\n"
4009	if [[ $link_local_output = true ]]
4010	then
4011	printf " using ln -f\n"
4012	mkdir ${pathout[$i]}
4013	cd ${localout[$i]}
4014	for file in $(ls *)
4015	do
4016	ln -f $file ${pathout[$i]}
4017	done
4018	cd $TEMPDIR
4019	fi
4020
4021	# IF "ln -f" HAS FAILED OR IF "$link_local_output = false" DO A NORMAL COPY "cp -r"
4022	if [[ ! -f "${pathout[$i]}/_0000" ]]
4023	then
4024	if [[ $link_local_output = true ]]
4025	then
4026	printf " ln failed for .../_0000, using cp...\n"
4027	fi
4028	cp -r ${localout[$i]} ${pathout[$i]}
4029	fi
4030
4031	fi
4032	fi
4033	done
4034	if (( i != 0 ))
4035	then
4036	if [[ $transfer_problems = true ]]
4037	then
4038	printf "\n$dashes\n *** OUTPUT-files saved"
4039	printf "\n +++ WARNING: some data transfers failed! \n"
4040	else
4041	printf "\n$dashes\n *** all OUTPUT-files saved \n"
4042	fi
4043	fi
4044
4045
4046	# IF REQUIRED, START A RESTART-JOB
4047	# FILE CONTINUE_RUN MUST HAVE BEEN CREATED BY THE EXECUTABLE (PALM)
4048	if [[ -f CONTINUE_RUN ]]
4049	then
4050
4051	if [[ $archive_save = true ]]
4052	then
4053
4054	# ADD RESTART-OPTIONS TO THE MRUN-CALL (IF THEY ARE NOT USED ALREADY):
4055	# -C TELLS MRUN THAT IT IS A RESTART-RUN
4056	# -v SILENT MODE WITHOUT INTERACTIVE QUERIES
4057	# -n BATCH-MODE (IMPORTANT ONLY IN CASE OF BATCH JOBS ON THE LOCAL MACHINE)
4058	[[ $(echo $mc \| grep -c "\-C") = 0 ]] && mc="$mc -C"
4059	[[ $(echo $mc \| grep -c "\-v") = 0 ]] && mc="$mc -v"
4060	[[ $(echo $mc \| grep -c "\-b") = 0 ]] && mc="$mc -b"
4061	if [[ $(echo $mc \| grep -c "#") != 0 ]]
4062	then
4063	mc=`echo $mc \| sed 's/#/f/g'`
4064	fi
4065
4066
4067	# START THE RESTART-JOB
4068	printf "\n\n *** initiating restart-run on \"$return_address\" using command:\n"
4069	echo " $mc"
4070	printf "\n$dashes\n"
4071	if [[ $localhost != $fromhost ]]
4072	then
4073
4074	if [[ $localhost = lcbullhh \|\| $localhost = lccrayb \|\| $localhost = lccrayh \|\| $localhost = nech \|\| $localhost = ibmh \|\| $localhost = ibmkisti \|\| $localhost = ibmku \|\| $localhost = ibms \|\| $localhost = lcflow \|\| $localhost = lckyu* \|\| $localhost = lcxe6 ]]
4075	then
4076	echo "*** ssh will be used to initiate restart-runs!"
4077	echo " return_address=\"$return_address\" "
4078	echo " return_username=\"$return_username\" "
4079	if [[ $(echo $return_address \| grep -c "130.75.105") = 1 ]]
4080	then
4081	if [[ $localhost = ibmh ]]
4082	then
4083	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\" "
4084	elif [[ $localhost = lcbullhh ]]
4085	then
4086	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\" "
4087	elif [[ $localhost = lccrayb ]]
4088	then
4089	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\" "
4090	elif [[ $localhost = lccrayh ]]
4091	then
4092	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\" "
4093	elif [[ $localhost = lcxe6 ]]
4094	then
4095	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\" "
4096	else
4097	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 "
4098	fi
4099	else
4100	if [[ $localhost = ibmkisti ]]
4101	then
4102	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\" "
4103	elif [[ $localhost = lcflow ]]
4104	then
4105	/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 "
4106	elif [[ $localhost = lcocean ]]
4107	then
4108	/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 "
4109	elif [[ $localhost = lccrayb ]]
4110	then
4111	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\" "
4112	elif [[ $localhost = lccrayh ]]
4113	then
4114	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\" "
4115	else
4116	ssh $SSH_PORTOPT $return_address -l $return_username "PATH=\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc "
4117	fi
4118	fi
4119	else
4120	printf "\n +++ no restart mechanism available for host \"$localhost\" "
4121	locat=restart; exit
4122	fi
4123
4124	# WAIT TO ALLOW THE RESTART-JOB TO BE QUEUED, BEFORE THE CURRENT JOB IS FINISHED
4125	if [[ $queue = special1q ]]
4126	then
4127	sleep 120
4128	else
4129	sleep 30
4130	fi
4131
4132	else
4133
4134	# JOBS RUNNING (AND STARTED) ON THE LOCAL MACHINE CAN DIRECTLY CALL MRUN (WITHOUT
4135	# USING SSH)
4136	cd $LOCAL_PWD
4137	if [[ $localhost = lckyuh ]]
4138	then
4139	printf "\n +++ WARNING: no restart mechanism available for host \"$localhost\" "
4140	printf "\n please restart job manually using command:\n"
4141	printf "\n \"$mc\" "
4142	else
4143	eval $mc # THE ' MUST BE EVALUATED
4144	fi
4145	cd - > /dev/null
4146	fi
4147	if [[ $localhost = lckyuh ]]
4148	then
4149	printf "\n$dashes\n *** restart-run to be initiated manually\n"
4150	else
4151	printf "\n$dashes\n *** restart-run initiated \n"
4152	fi
4153
4154
4155	# DELETE INPUT-(RESTART)FILES, WHICH HAVE BEEN FETCHED FROM THE TEMPORARY DATA
4156	# DIRECTORY, BACAUSE THEY ARE NOT REQUIRED BY THE RESTART-JOB.
4157	# THIS IS DONE IN ORDER TO AVOID EXCEEDING DISC QUOTAS OR DISC SPACE (RESTART-FILES
4158	# MAY BE VERY HUGE)
4159	(( i = 0 ))
4160	while (( i < iin ))
4161	do
4162	(( i = i + 1 ))
4163	if [[ "${got_tmp[$i]}" = true && $keep_data_from_previous_run = false ]]
4164	then
4165	rm -r $tmp_data_catalog/${frelin[$i]}
4166	fi
4167	done
4168
4169	else
4170
4171	printf "\n +++ no restart-run possible, since errors occured"
4172	printf "\n during the archive process"
4173	fi
4174
4175	fi
4176
4177
4178
4179	# SEND EMAIL NOTIFICATION ABOUT THE FINISHED RUN
4180	if [[ "$email_notification" != "none" ]]
4181	then
4182
4183	if [[ $localhost != $fromhost ]]
4184	then
4185	if [[ -f CONTINUE_RUN ]]
4186	then
4187	echo "PALM restart run necessary" > email_text
4188	echo "description header of actual run:" >> email_text
4189	cat CONTINUE_RUN >> email_text
4190	echo "mrun-command to restart:" >> email_text
4191	echo "$mc" >> email_text
4192	else
4193	echo "PALM run with base filename \"$fname\" on host \"$localhost\" finished" > email_text
4194	fi
4195	mail $email_notification < email_text
4196	printf "\n *** email notification sent to \"$email_notification\" "
4197	fi
4198	fi
4199
4200
4201
4202	# ALL ACTIONS FINISHED, TEMPORARY WORKING-DIRECTORY CAN BE DELETED
4203	cd $HOME
4204	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
4205
4206	else
4207
4208	# PREPARING ACTIONS,
4209	# IF A BATCH-JOB IS TO BE GENERATED AND STARTED ON A REMOTE-MACHINE GERECHNET
4210
4211	# BUILD THE MRUN-COMMAND TO BE CALLED IN THE BATCH-JOB ON THE REMOTE-MACHINE
4212	mrun_com="$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 $remote_username"
4213	[[ "$cpp_opts" != "" ]] && mrun_com=${mrun_com}" -D \"$cpp_opts\""
4214	[[ "$global_revision" != "" ]] && mrun_com=${mrun_com}" -G \"$global_revision\""
4215	[[ $group_number != none ]] && mrun_com=${mrun_com}" -g $group_number"
4216	[[ $do_compile = true ]] && mrun_com=${mrun_com}" -s \"$source_list\""
4217	[[ "$input_list" != "" ]] && mrun_com=${mrun_com}" -i \"$input_list\""
4218	[[ $ignore_archive_error = true ]] && mrun_com=${mrun_com}" -I"
4219	[[ $keep_data_from_previous_run = true ]] && mrun_com=${mrun_com}" -k"
4220	[[ "$additional_conditions" != "" ]] && mrun_com=${mrun_com}" -K \"$additional_conditions\""
4221	[[ "$output_list" != "" ]] && mrun_com=${mrun_com}" -o \"$output_list\""
4222	[[ "$read_from_config" = false ]] && mrun_com=${mrun_com}" -S"
4223	[[ $do_trace = true ]] && mrun_com=${mrun_com}" -x"
4224	[[ "$numprocs" != "" ]] && mrun_com=${mrun_com}" -X $numprocs"
4225	if [[ $use_openmp = true ]]
4226	then
4227	mrun_com=${mrun_com}" -O $threads_per_task"
4228	fi
4229	[[ "$tasks_per_node" != "" ]] && mrun_com=${mrun_com}" -T $tasks_per_node"
4230	[[ $store_on_archive_system = true ]] && mrun_com=${mrun_com}" -A"
4231	[[ $package_list != "" ]] && mrun_com=${mrun_com}" -p \"$package_list\""
4232	[[ $return_password != "" ]] && mrun_com=${mrun_com}" -P $return_password"
4233	[[ $delete_temporary_catalog = false ]] && mrun_com=${mrun_com}" -B"
4234	[[ $node_usage != default && "$(echo $node_usage \| cut -c1-3)" != "sla" && $node_usage != novice ]] && mrun_com=${mrun_com}" -n $node_usage"
4235	[[ "$ocean_file_appendix" = true ]] && mrun_com=${mrun_com}" -y"
4236	[[ $run_coupled_model = true ]] && mrun_com=${mrun_com}" -Y \"$coupled_dist\""
4237	[[ "$check_namelist_files" = false ]] && mrun_com=${mrun_com}" -z"
4238	[[ "$combine_plot_fields" = false ]] && mrun_com=${mrun_com}" -Z"
4239	[[ "$max_par_io_str" != "" ]] && mrun_com=${mrun_com}" -w $max_par_io_str"
4240	if [[ $do_remote = true ]]
4241	then
4242	printf "\n>>>> MRUN-command on execution host:\n>>>> $mrun_com \n"
4243	fi
4244
4245
4246	# CREATE EXECUTABLE FOR BATCH JOB
4247	if [[ $create_executable_for_batch = true && $restart_run != true ]]
4248	then
4249
4250	printf "\n *** creating the executable for batch job\n"
4251
4252	# METHOD ONLY WORKS FOR BATCH JOBS ON LOCAL HOSTS
4253	if [[ $host != $localhost ]]
4254	then
4255	printf "\n +++ creation of executables is only allowed for batch jobs on local hosts."
4256	printf "\n Please set create_executable_for_batch = false in the config-file.\n"
4257	locat=create_executable; exit
4258	fi
4259
4260	mkdir $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
4261	cd $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
4262
4263	cp $make_depository .
4264	tar -xf $make_depository > /dev/null 2>&1
4265	cp ../* . > /dev/null 2>&1
4266
4267	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
4268
4269	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
4270	then
4271	printf "\n +++ error occured while compiling or linking"
4272	locat=compile
4273	exit
4274	fi
4275
4276	mv a.out ..
4277	cd - > /dev/null 2>&1
4278	rm -rf $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
4279
4280	printf " *** executable created in \"$working_directory/SOURCES_FOR_RUN_${fname}\"\n "
4281
4282	fi
4283
4284
4285	# BUILD THE JOB-SCRIPTS ON FILE jobfile
4286	jobfile=jobfile.$RANDOM
4287
4288
4289	# CREATE TEMPORARY DIRECTORY AND SWITCH TO IT
4290	echo "mkdir $TEMPDIR" >> $jobfile
4291	echo "cd $TEMPDIR" >> $jobfile
4292
4293
4294	# ACTIVATE ERROR-TRACEBACK
4295	if [[ $do_trace = true ]]
4296	then
4297	echo "set -x" >> $jobfile
4298	else
4299	echo "set +vx" >> $jobfile
4300	fi
4301
4302
4303	# INITIALIZE THE ENVIRONMENT AND LOAD MODULES
4304	if [[ "$init_cmds" != "" ]]
4305	then
4306	echo "$init_cmds" >> $jobfile
4307	fi
4308	if [[ "$module_calls" != "" ]]
4309	then
4310	echo "$module_calls" >> $jobfile
4311	fi
4312
4313
4314	# PROVIDE SOURCE-CODE FILES, MRUN-SCRIPT AND CONFIGURATION-FILE FOR THE JOB
4315	# then-CLAUSE: FILES ARE COLLECTED IN THE SOURCES_FOR_RUN_... DIRECTORY ON THE LOCAL HOST,
4316	# WHICH IS THEN FETCHED FROM THE BATCH-JOB BY USING cp/scp
4317	# THE SOURCE-CODE FILES ALREADY EXIST IN THIS DIRECTORY
4318	# else-CLAUSE: FILE-CONTENTS ARE PUT INTO THE JOB-FILE AS HERE-DOCUMENTS
4319	# THIS MAY CREATE A QUITE LARGE JOB-FILE, WHICH CAN CAUSE PROBLEMS WITH SOME
4320	# QUEUEING-SYSTEMS
4321	if [[ $host = ibmkisti \|\| $host = lcbullhh \|\| $host = lccrayb \|\| $host = lccrayf \|\| $host = lccrayh \|\| $host = lcocean ]]
4322	then
4323
4324	# COPY CONFIGURATION-FILE AND MRUN-SCRIPT INTO THE SOURCES_FOR_RUN... DIRECTORY
4325	if [[ $restart_run != true ]]
4326	then
4327	cp $config_file $working_directory/SOURCES_FOR_RUN_$fname
4328	cp ${PALM_BIN}/$mrun_script_name $working_directory/SOURCES_FOR_RUN_$fname
4329	fi
4330
4331	# COPY THE SOURCES_FOR_RUN... DIRECTORY FROM THE LOCAL HOST TO THE JOB VIA scp
4332	# (then-CLAUSE: JOBS ON THE LOCAL HOST CAN JUST USE cp)
4333	echo "set -x" >> $jobfile
4334	if [[ $host = $localhost ]]
4335	then
4336	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
4337	# FILES ON CRAY XC30 SYSTEMS (CSC HELSINKI), rsync IS USED INSTEAD
4338	if [[ $(echo $host \| cut -c1-6) = lccray ]]
4339	then
4340	echo "rsync -av -t $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
4341	else
4342	echo "cp -r $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
4343	fi
4344
4345	else
4346	if [[ $host = ibmkisti ]]
4347	then
4348	# ON KISTI'S IBM FIREWALL IS ONLY OPENED ON INTERACTIVE NODE
4349	echo "localdir=\`pwd\`" >> $jobfile
4350	echo "ssh $SSH_PORTOPT $remote_username@gaiad \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
4351	elif [[ $host = lcbullhh ]]
4352	then
4353	echo "localdir=\`pwd\`" >> $jobfile
4354	echo "ssh $SSH_PORTOPT $remote_username@mlogin101 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
4355
4356	elif [[ $host = lccrayb ]]
4357	then
4358	echo "localdir=\`pwd\`" >> $jobfile
4359	echo "ssh $SSH_PORTOPT $remote_username@blogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
4360	elif [[ $host = lccrayh ]]
4361	then
4362	echo "localdir=\`pwd\`" >> $jobfile
4363	echo "ssh $SSH_PORTOPT $remote_username@hlogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
4364
4365	else
4366	echo "scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
4367	fi
4368	fi
4369	echo "export SOURCES_COMPLETE=true" >> $jobfile
4370
4371	# MOVE MRUN-SCRIPT AND CONFIGURATION-FILE FROM THE SOURCES_FOR_RUN... DIRECTORY TO THE
4372	# WORKING DIRECTORY OF THE JOB
4373	echo "mv SOURCES_FOR_RUN_$fname/$config_file . " >> $jobfile
4374	echo "mv SOURCES_FOR_RUN_$fname/$mrun_script_name . " >> $jobfile
4375	echo "chmod u+rwx $mrun_script_name" >> $jobfile
4376	echo "execute_mrun=true" >> $jobfile
4377	echo " " >> $jobfile
4378
4379	else
4380
4381	# PROVIDE SOURCE-CODE FILES AND MAKEFILE AS HERE DOCUMENT
4382	if [[ $do_compile = true ]]
4383	then
4384
4385	source_catalog=SOURCES_FOR_RUN_$fname
4386
4387	# CREATE SOURCES_FOR_RUN... DIRECTORY TO STORE THE SOURCE CODE FILES AND THE MAKEFILE
4388	echo "mkdir SOURCES_FOR_RUN_$fname" >> $jobfile
4389	echo "export SOURCES_COMPLETE=true" >> $jobfile
4390	echo "cd SOURCES_FOR_RUN_$fname" >> $jobfile
4391
4392	for filename in $source_list
4393	do
4394	# BACKSLASH IS USED FOR MASKING
4395	echo "cat > $filename << \"%END%\"" >> $jobfile
4396	cat $source_catalog/$filename >> $jobfile
4397	echo " " >> $jobfile
4398	echo "%END%" >> $jobfile
4399	echo " " >> $jobfile
4400	done
4401
4402	# BACKSLASH IS USED FOR MASKING
4403	echo "cat > Makefile << \"%END%\"" >> $jobfile
4404	cat $source_catalog/Makefile >> $jobfile
4405	echo " " >> $jobfile
4406	echo "%END%" >> $jobfile
4407	echo " " >> $jobfile
4408
4409	echo "cd - > /dev/null" >> $jobfile
4410
4411	fi
4412
4413
4414	# PROVIDE THE CONFIGURATION-FILE AS HERE-DOCUMENT
4415	# BACKSLASH IS USED FOR MASKING
4416	# LINES WITH #$ IN THE CONFIGURATION-FILE, COMING FROM THE SVN KEYWORD SUBSTITUTION,
4417	# ARE REMOVED FROM THE FILE IN ORDER TO AVOID PROBLEMS WITH THE SGE BATCH SYSTEM
4418	echo "cat > $config_file << \"%END%\"" >> $jobfile
4419	if [[ $host = lckyuh ]]
4420	then
4421	# NO CROSS-COMPILER ON COMPUTE NODE
4422	sed 's/frtpx/frt/g' $config_file >> $jobfile
4423	else
4424	sed 's/#$.*//g' $config_file >> $jobfile
4425	fi
4426	echo "%END%" >> $jobfile
4427	echo " " >> $jobfile
4428
4429
4430	# PROVIDE THE MRUN-SCRIPTS AS HERE-DOCUMENT
4431	# BACKSLASH IS USED FOR MASKING
4432	echo "cat > $mrun_script_name <<\"%END%\"" >> $jobfile
4433	if [[ $host = lckyuh ]]
4434	then
4435	sed 's/\/bin\/ksh/\/bin\/bash/g' ${PALM_BIN}/$mrun_script_name >> $jobfile
4436	else
4437	cat ${PALM_BIN}/$mrun_script_name >> $jobfile
4438	fi
4439	echo "%END%" >> $jobfile
4440	echo "chmod u+x $mrun_script_name" >> $jobfile
4441	echo "execute_mrun=true" >> $jobfile
4442	echo " " >> $jobfile
4443
4444	fi
4445
4446
4447	# GET REQUIRED INPUT-FILES BY SCP OR BY SENDING THEM WITH THE JOB AS HERE-DOCUMENT
4448	# PUT THESE FILES INTO THE USER'S RESPECTIVE PERMANENT DIRECTORIES ON THE REMOTE-HOST
4449	# IF THE DIRECTORIES DO NOT EXIST, TRY TO CREATE THEM
4450	if [[ $do_remote = true ]]
4451	then
4452	(( i = 0 ))
4453	while (( i < iin ))
4454	do
4455	(( i = i + 1 ))
4456	echo "[[ ! -d ${pathin[$i]} ]] && mkdir -p ${pathin[$i]}" >> $jobfile
4457	if [[ "${transin[$i]}" = job ]]
4458	then
4459	echo "cat > ${remotepathin[$i]} <<\"%END%\"" >> $jobfile
4460	eval cat ${pathin[$i]}/${frelin[$i]} >> $jobfile
4461	echo " " >> $jobfile
4462	echo "%END%" >> $jobfile
4463	else
4464	echo "batch_scp $PORTOPT -b -o -g -s -u $return_username $return_address ${remotepathin[$i]} \"${pathin[$i]}\" ${frelin[$i]}" >> $jobfile
4465	fi
4466
4467	# CHECK, IF FILE COULD BE CREATED
4468	echo "if [[ \$? = 1 ]]" >> $jobfile
4469	echo "then" >> $jobfile
4470	echo " echo \" \" " >> $jobfile
4471	echo " echo \"+++ file ${remotepathin[$i]} could not be created\" " >> $jobfile
4472	echo " echo \" please check, if directory exists on $host!\" " >> $jobfile
4473	echo " echo \"+++ MRUN will not be continued\" " >> $jobfile
4474	echo " execute_mrun=false" >> $jobfile
4475	echo "fi" >> $jobfile
4476	done
4477	fi
4478
4479	# PROVIDE NAME OF THE CURRENT WORKING-DIRECTORY ON THE LOCAL MACHINE (FROM WHERE THE JOB IS
4480	# STARTED) BY SETTING AN ENVIRONMENT-VARIABLE. THIS INFORMATION IS USED IN THE JOB BY MRUN
4481	# IN CASE THAT RESTART-RUNS HAVE TO BE GENERATED
4482	echo "LOCAL_PWD=$working_directory" >> $jobfile
4483	echo "export LOCAL_PWD" >> $jobfile
4484
4485	# PROVIDE THE PATH OF THE LOCAL MRUN-SCRIPT FOR THE SAME REASON
4486	echo "LOCAL_MRUN_PATH=$PALM_BIN" >> $jobfile
4487	echo "export LOCAL_MRUN_PATH" >> $jobfile
4488
4489	# lcflow ALSO REQUIRES TO PROVIDE PATH FOR THE PALM-SCRIPTS
4490	# if [[ $host = lcflow \|\| $localhost = lcflow ]]
4491	# then
4492	echo "export PALM_BIN=$PALM_BIN" \| sed -e 's:'$HOME':$HOME:' >> $jobfile
4493	echo "export PATH=\$PATH:\$PALM_BIN" >> $jobfile
4494	# fi
4495
4496	# CALL MRUN WITHIN THE JOB (SETTING QUEUE IS A WORKAROUND FOR ibmkisti)
4497	# AS FINAL ACTION, REMOVE THE TEMPORARY DIRECTORY CREATED AT THE BEGINNING OF THE JOB
4498	echo "set -x" >> $jobfile
4499	echo "queue=$queue" >> $jobfile
4500	echo "[[ \$execute_mrun = true ]] && ./$mrun_com" >> $jobfile
4501	echo 'ls -al; echo `pwd`' >> $jobfile
4502	echo "cd \$HOME" >> $jobfile
4503	echo "rm -rf $TEMPDIR" >> $jobfile
4504
4505
4506
4507
4508	# START THE JOB USING SUBJOB-COMMAND
4509	if [[ $silent = false ]]
4510	then
4511	printf "\n "
4512	else
4513	printf "\n\n"
4514	fi
4515
4516	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
4517	rm -rf $jobfile
4518
4519
4520	fi # END OF REMOTE-PART

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