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source: palm/trunk/SCRIPTS/mrun @ 1804

Last change on this file since 1804 was 1804, checked in by maronga, 8 years ago
removed parameter file check. update of mrungui for compilation with qt5
Property svn:keywords set to `Id Rev`
File size: 168.4 KB

Line
1	#!/bin/ksh
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	# test: implementing an execute mechanism where the execute command is given in the
25	# configuration file
26	# ROPTS removed from execution commands
27	# Warnings about missing optional files or user code changed to informative messages
28	# Removed parameter file check
29	#
30	# Former revisions:
31	# -----------------
32	# $Id: mrun 1804 2016-04-05 16:30:18Z maronga $
33	#
34	# 1755 2016-02-22 13:53:39Z maronga
35	# Minor bugfix to last commit
36	#
37	# 1753 2016-02-22 13:49:49Z maronga
38	# Bugfix: use random job number when PBS job nummer retrieval fails on lccray*
39	#
40	# 1622 2015-07-20 06:21:36Z heinze
41	# bugfix for Mistral (lcbullhh)
42	#
43	# 1621 2015-07-17 11:39:33Z heinze
44	# adjustments for Mistral at DKRZ Hamburg (lcbullhh)
45	#
46	# 1609 2015-07-03 15:37:58Z maronga
47	# Modified the random number of the temporary working directory to match the
48	# queuing system number on HLRN-III (lccray*).
49	#
50	# 1604 2015-06-23 15:48:03Z suehring
51	# Enable coupled runs for lcmuk
52	#
53	# 1598 2015-05-29 06:45:40Z raasch
54	# bugfix for creating hostfile and total number of MPI tasks if run in openmp-mode on one node
55	#
56	# 1549 2015-01-30 14:26:16Z suehring
57	# Enable interactive debug sessions with allinea debugger
58	#
59	# 1547 2015-01-29 15:09:12Z witha
60	# adjustments for ForWind computing cluster (lcflow)
61	#
62	# 1491 2014-11-12 08:12:57Z heinze
63	# correct setting of batch_job allowed for ibm-machines
64	#
65	# 1468 2014-09-24 14:06:57Z maronga
66	# Typo removed (addres->address)
67	# Bugfix: returning files to IMUK via ssh did not work for lccrayh and lcycrayb
68	# Added support for restart runs (remote) for lcxe6
69	#
70	# 1442 2014-07-28 07:09:10Z raasch
71	# default queues for HLRN-III (lccrayb/lccrayh) defined
72	#
73	# 1422 2014-07-02 10:01:25Z kanani
74	# automatic restarts enabled for lccrayb,
75	# adjustment of path to compilervars.sh at IMUK (see automatic restarts)
76	#
77	# 1420 2014-06-10 06:24:14Z raasch
78	# -j1 option added to aprung command for lccrayf (CSC)
79	#
80	# 1402 2014-05-09 14:25:13Z raasch
81	# batch_job added to envpar-NAMELIST
82	#
83	# 1357 2014-04-11 15:02:03Z witha
84	# adjustments for lccrayh (automatic restarts on lccrayh outside of IMUK are now
85	# possible)
86	#
87	# 1320 2014-03-20 08:40:49Z raasch
88	# check namelist file set false by default
89	#
90	# 1304 2014-03-12 10:29:42Z raasch
91	# ulimit option changed from -Ss to -s
92	#
93	# bugfix: missing "fi" in r1289
94	#
95	# 1289 2014-03-04 07:12:34Z raasch
96	# comments translated to English
97	# necriam-, fimm-, ibmy-, and sgi-specific code removed
98	# export of variables for palm and interpret_config removed
99	#
100	# 1281 2014-02-01 07:55:49Z raasch
101	# rsync-copy restricted to Cray machines, since command is unavailable on some
102	# other systems
103	#
104	# 1279 2014-01-28 12:10:14Z raasch
105	# tasks_per_node must not be an integral divisor of numprocs any more. This was done
106	# in order to remove annoying restrictions concerning the number of processors which
107	# appear on machines with larger nodes (e.g. containing 24 cores). Now without this
108	# restriction, one of the nodes will be filled with less than the given number of
109	# tasks per node. A respective warning is given.
110	#
111	# 1274 2014-01-09 13:14:54Z heinze
112	# adjustments for lccrayh
113	#
114	# 1272 2014-01-08 10:19:32Z witha
115	# small adjustment for lcflow
116	#
117	# 1270 2013-12-16 11:05:01Z fricke
118	# call of combine_plot_fields adjusted for lccrayb/lccrayh
119	#
120	# 1255 2013-11-07 14:43:35Z raasch
121	# further adjustments for lccrayb remote access
122	#
123	# 1241 2013-10-30 11:36:58Z heinze
124	# Enable use of nudging input and input of large scale forcing from
125	# external files
126	#
127	# 1229 2013-09-20 06:55:19Z raasch
128	# further adjustments for lccrayb
129	#
130	# 1224 2013-09-16 07:27:23Z raasch
131	# first adjustments for lccrayb
132	#
133	# 1210 2013-08-14 10:58:20Z raasch
134	# fftw support added
135	#
136	# 1201 2013-07-10 16:17:59Z witha
137	# adjustments for Forwind cluster (lcflow)
138	#
139	# 1199 2013-07-05 14:52:22Z raasch
140	# adjustments for CSC Helsinki (lccrayf),
141	# executables for batch jobs can be created in advance, in order to avoid calling
142	# the compiler within the batch job (only works if batch jobs are submitted on
143	# local host)
144	#
145	# 1190 2013-06-25 09:39:21Z heinze
146	# enable use of automatic restarts for ibmh
147	# use of cluster/express queue enabled (ibmh)
148	#
149	# 1124 2013-04-09 15:46:52Z raasch
150	# variable "memory" is exported via typeset option -x, because otherwise an unknown
151	# side effect may lead to data loss while getopts is reading the script-option arguments
152	#
153	# 1122 2013-04-09 08:37:16Z heinze
154	# Bugfix: change type of variable last_char
155	#
156	# 1119 2013-04-05 15:11:19Z raasch
157	# Bugfix for setting -T option for subjob
158	#
159	# 1108 2013-03-05 07:03:32Z raasch
160	# bugfix for coupled runs on lckyut/lckyuh
161	#
162	# 1106 2013-03-04 05:31:38Z raasch
163	# --stdin argument for mpiexec on lckyuh
164	# -y and -Y settings output to header
165	#
166	# 1103 2013-02-20 02:15:53Z raasch
167	# default script runs again under ksh, because of unsolved problems with read
168	# from stdin: when bash script is called from a ksh, message "read error: 0:
169	# Resource temporarily unavailable" appears and script does not stop,
170	# further bash compatibility adjustments,
171	# shebang line replaced by /bin/bash when running jobs on lckyuh; no restarts
172	# on lckyuh, but mrun does not terminate and issues a warning instead
173	#
174	# 1101 2013-02-17 10:20:21Z raasch
175	# script now running under bash instead of ksh, which required small adjustments
176	# (output formatting with printf instead "typeset -L/-R", print replaced by echo,
177	# read from stdin),
178	# cross compilername on lckyuh compute nodes replaced by real compiler name
179	#
180	# 1099 2013-02-10 01:47:43Z raasch
181	# adjustments for Kyushu-University computing center (lckyuh - hayaka)
182	# and for Forwind cluster (lcflow)
183	# small further adjustments for lckyut
184	#
185	# 1094 2013-02-03 01:52:12Z raasch
186	# explicit ssh/scp port can be set in config file with environment variable
187	# scp_port. This port is handled to all ssh/scp/batch_scp calls.
188	# decalpha parts (yonsei) removed
189	#
190	# 2013-02-02 07:06:13Z raasch
191	# adjustments for Kyushu-University computing center (lckyut - tatara)
192	#
193	# 1083 2013-01-04 10:22:09Z maronga
194	# bugfix in parameter file check (read %cpp_options was missing)
195	#
196	# 1069 2012-11-28 16:18:43Z maronga
197	# bugfix: coupling mode was always set to mpi2, typos removed
198	#
199	# 1058 2012-11-21 07:00:35Z raasch
200	# Intel inspector (inspxe) is given the number of PEs instead of the number of
201	# nodes
202	#
203	# 1046 2012-11-09 14:38:45Z maronga
204	# code put under GPL (PALM 3.9)
205	#
206	# 21/03/94 - Siggi - first version finished
207	# 03/03/94 - Siggi - script development started
208	#
209	#--------------------------------------------------------------------------------#
210	# mrun - script for running PALM jobs
211	#--------------------------------------------------------------------------------#
212
213
214
215	# DECLARATION OF VARIABLES AND THEIR DEFUALT VALUES
216
217	set +o allexport # SUPPRESS EXPORT OF ALL VARIABLES, SINCE IN THE PAST THIS
218	# LES TO PROBLEMS IN ROUTINES CALLED BY MRUN
219	# (TOO MANY ARGUMENTS - PROBLEM)
220	set +o noclobber # EXISTING FILES ARE ALLOWED TO BE OVERWRITTEN
221
222	AddFilenames=""
223	additional_conditions=""
224	add_source_path=""
225	afname=""
226	archive_save=true
227	archive_system=none
228	check_namelist_files=false
229	combine_plot_fields=true
230	compiler_name=""
231	cond1=""
232	cond2=""
233	config_file=.mrun.config
234	coupled_dist=""
235	coupled_mode="mpi1"
236	cpp_opts=""
237	cpp_options=""
238	cpumax=0
239	cpurest=0
240	create_executable_for_batch=false
241	delete_temporary_catalog=true
242	do_batch=false
243	do_compile=true
244	do_remote=false
245	do_stagein=true
246	do_stageout=true
247	do_trace=false
248	email_notification="none"
249	exclude=""
250	executable=""
251	execute_command="none"
252	execution_error=false
253	fftw_inc=""
254	fftw_lib=""
255	fftw_support=false
256	fname=test
257	fromhost=""
258	global_revision=""
259	group_number=none
260	host=""
261	host_file=""
262	hp=""
263	ignore_archive_error=false
264	input_list=""
265	interpreted_config_file=""
266	job_catalog="~/job_queue"
267	job_on_file=""
268	keep_data_from_previous_run=false
269	link_local_input=false
270	link_local_output=false
271	localhost_realname=$(hostname)
272	local_dvrserver_running=.FALSE.
273	locat=normal
274	mainprog=""
275	makefile=""
276	max_par_io_str=""
277	mc=$0
278	while [[ $(echo $mc \| grep -c "/") != 0 ]]
279	do
280	mc=`echo $mc \| cut -f2- -d"/"`
281	done
282	module_calls=""
283	mrun_script_name=$mc
284	netcdf_inc=""
285	netcdf_lib=""
286	netcdf_support=false
287	node_usage=default
288	numprocs=""
289	numprocs_atmos=0
290	numprocs_ocean=0
291	OOPT=""
292	openmp=false
293	output_list=""
294	package_list=""
295	queue=none
296	read_from_config=""
297	restart_run=false
298	if [[ `hostname` = rte10 ]]
299	then
300	return_address=133.5.185.60
301	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
302	elif [[ `hostname` = climate0 ]]
303	then
304	return_address=165.132.26.68
305	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
306	elif [[ `hostname` = urban00 ]]
307	then
308	return_address=147.46.30.151
309	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
310	else
311	return_address=$(nslookup `hostname` 2>&1 \| grep "Address:" \| tail -1 \| awk '{print $2}')
312	fi
313	return_password=""
314	return_username=$LOGNAME
315	remotecall=false
316	remote_username=""
317	run_coupled_model=false
318	run_mode=""
319	store_on_archive_system=false
320	dashes=" ----------------------------------------------------------------------------"
321	silent=false
322	source_list=""
323	source_path=SOURCE
324	tasks_per_node=""
325	threads_per_task=1
326	tmpcreate=false
327	tmp_data_catalog=""
328	transfer_problems=false
329	usern=$LOGNAME
330	use_openmp=false
331	version="MRUN 2.1 Rev$Rev: 1804 $"
332	working_directory=`pwd`
333	TOPT=""
334	XOPT=""
335	zeit=$( date \| cut -c 12-19 )
336
337	typeset -i iec=0 iic=0 iin=0 ioc=0 iout=0 stagein_anz=0 stageout_anz=0
338	typeset -x -i memory=0 # HAS TO BE EXPORTED HERE, OTHERWISE AN UNKNOWN SIDE
339	# SIDE EFFECT MAY CAUSE DATA LOSS WHEN GETOPTS IS READING THE
340	# SCRIPT-OPTION ARGUMENTS
341	typeset -i cputime i ii iia iii iio icycle inode ival jobges jobsek last_char_int maxcycle minuten nodes pes remaining_pes sekunden tp1
342
343	# ERROR HANDLING IN CASE OF EXIT
344	trap 'rm -rf $working_directory/tmp_mrun
345	if [[ $locat != normal && $locat != control_c ]]
346	then
347
348	# CARRY OUT ERROR-COMMANDS GIVEN IN THE CONFIGURATION FILE (EC:)
349	(( i = 0 ))
350	while (( i < iec ))
351	do
352	(( i = i + 1 ))
353	printf "\n *** Execution of ERROR-command:\n"
354	printf " >>> ${err_command[$i]}\n"
355	eval ${err_command[$i]}
356	done
357	if [[ -n $interpreted_config_file ]]
358	then
359	rm -rf $interpreted_config_file
360	fi
361	if [[ -n .mrun_environment ]]
362	then
363	rm -rf .mrun_environment
364	fi
365	if [[ $tmpcreate = true ]]
366	then
367	printf "\n *** Contents of \"$TEMPDIR\":\n"
368	ls -al; cd
369	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
370	fi
371	if [[ "$dvrserver_id" != "" ]]
372	then
373	echo "+++ killing dvrserver_id=$dvrserver_id"
374	kill $dvrserver_id
375	fi
376	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
377	then
378	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
379	fi
380	printf "\n\n+++ MRUN killed \n\n"
381	elif [[ $locat != control_c ]]
382	then
383	printf "\n\n --> all actions finished\n\n"
384	printf " Bye, bye $usern !!\n\n"
385	fi' exit
386
387
388	# ACTIONS IN CASE OF TERMINAL-BREAK (CONTROL-C):
389	trap 'rm -rf $working_directory/tmp_mrun
390	rm -rf $working_directory/tmp_check_namelist_files
391	[[ $tmpcreate = true ]] && (cd; rm -rf $TEMPDIR)
392	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
393	then
394	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
395	fi
396	if [[ "$dvrserver_id" != "" ]]
397	then
398	echo "+++ killing dvrserver_id=$dvrserver_id"
399	kill $dvrserver_id
400	fi
401	printf "\n+++ MRUN killed by \"^C\" \n\n"
402	locat=control_c
403	exit
404	' 2
405
406
407	# CHECK IF THE PATH FOR THE PALM BINARIES (SCRIPTS+UTILITY-PROGRAMS) HAS
408	# BEEN SET
409	if [[ "$PALM_BIN" = "" ]]
410	then
411	printf "\n +++ environment variable PALM_BIN has not been set"
412	printf "\n please set it to the directory where the PALM scripts are located"
413	locat=palm_bin; exit
414	fi
415	export PATH=$PALM_BIN:$PATH
416
417
418
419	# READ SHELLSCRIPT-OPTIONS AND REBUILD THE MRUN-COMMAND STRING (MC),
420	# WHICH WILL BE USED TO START RESTART-JOBS
421	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
422	do
423	case $option in
424	(a) afname=$OPTARG;;
425	(A) store_on_archive_system=true; mc="$mc -A";;
426	(b) do_batch=true; mc="$mc -b";;
427	(B) delete_temporary_catalog=false; mc="$mc -B";;
428	(c) config_file=$OPTARG; mc="$mc -c$OPTARG";;
429	(C) restart_run=true; mc="$mc -C";;
430	(d) fname=$OPTARG; mc="$mc -d$OPTARG";;
431	(D) cpp_opts="$cpp_opts $OPTARG"; mc="$mc -D'$OPTARG'";;
432	(F) job_on_file="-D"; mc="$mc -F";;
433	(g) group_number=$OPTARG; mc="$mc -g$OPTARG";;
434	(G) global_revision=$OPTARG; mc="$mc -G'$OPTARG'";;
435	(h) host=$OPTARG; mc="$mc -h$OPTARG";;
436	(H) fromhost=$OPTARG; mc="$mc -H$OPTARG";;
437	(i) input_list=$OPTARG; mc="$mc -i'$OPTARG'";;
438	(I) ignore_archive_error=true; mc="$mc -I";;
439	(k) keep_data_from_previous_run=true; mc="$mc -k";;
440	(K) additional_conditions="$OPTARG"; mc="$mc -K'$OPTARG'";;
441	(m) memory=$OPTARG; mc="$mc -m$OPTARG";;
442	(M) makefile=$OPTARG; mc="$mc -M$OPTARG";;
443	(n) node_usage=$OPTARG; mc="$mc -n$OPTARG";;
444	(o) output_list=$OPTARG; mc="$mc -o'$OPTARG'";;
445	(O) use_openmp=true; threads_per_task=$OPTARG; mc="$mc -O$OPTARG";;
446	(p) package_list=$OPTARG; mc="$mc -p'$OPTARG'";;
447	(P) return_password=$OPTARG; mc="$mc -P$OPTARG";;
448	(q) queue=$OPTARG; mc="$mc -q$OPTARG";;
449	(r) run_mode=$OPTARG; mc="$mc -r'$OPTARG'";;
450	(R) remotecall=true;return_address=$OPTARG; mc="$mc -R$OPTARG";;
451	(s) source_list=$OPTARG; mc="$mc -s'$OPTARG'";;
452	(S) read_from_config=false; mc="$mc -S";;
453	(t) cpumax=$OPTARG; mc="$mc -t$OPTARG";;
454	(T) mrun_tasks_per_node=$OPTARG; mc="$mc -T$OPTARG";;
455	(u) remote_username=$OPTARG; mc="$mc -u$OPTARG";;
456	(U) return_username=$OPTARG; mc="$mc -U$OPTARG";;
457	(v) silent=true; mc="$mc -v";;
458	(w) max_par_io_str=$OPTARG; mc="$mc -w$OPTARG";;
459	(x) do_trace=true;set -x; mc="$mc -x";;
460	(X) numprocs=$OPTARG; mc="$mc -X$OPTARG";;
461	(y) ocean_file_appendix=true; mc="$mc -y";;
462	(Y) run_coupled_model=true; coupled_dist=$OPTARG; mc="$mc -Y'$OPTARG'";;
463	(z) check_namelist_files=false; mc="$mc -z";;
464	(Z) combine_plot_fields=false; mc="$mc -Z";;
465	(\?) printf "\n +++ unknown option $OPTARG \n"
466	printf "\n --> type \"$0 ?\" for available options \n"
467	locat=parameter;exit;;
468	esac
469	done
470
471
472	# SKIP GIVEN OPTIONS TO READ POSITIONAL PARAMETER, IF GIVEN
473	# CURRENTLY ONLY PARAMETER ? (TO OUTPUT A SHORT COMMAND INFO) IS ALLOWED
474	(( to_shift = $OPTIND - 1 ))
475	shift $to_shift
476
477	# PRINT SHORT DESCRIPTION OF MRUN OPTIONS
478	if [[ "$1" = "?" ]]
479	then
480	(printf "\n *** mrun can be called as follows:\n"
481	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"
482	printf "\n Description of available options:\n"
483	printf "\n Option Description Default-Value"
484	printf "\n -a base name of input files equiv. -d"
485	printf "\n -A archiving when using file-attribute fl"
486	printf "\n -b batch-job on local machine ---"
487	printf "\n -B do not delete temporary directory at end ---"
488	printf "\n -c configuration file .mrun.config"
489	printf "\n -d base name of files attached to program test"
490	printf "\n -D preprocessor(cpp)-directives \"\" "
491	printf "\n -F create remote job file only ---"
492	printf "\n -h execution host $localhost_realname"
493	printf "\n -i INPUT control list \"\" "
494	printf "\n -I archiving errors of previous batch-jobs"
495	printf "\n will be ignored"
496	printf "\n -k keep data from previous run"
497	printf "\n -K additional conditions for controling"
498	printf "\n usage of conditional code and"
499	printf "\n env-variables in configuration file \"\" "
500	printf "\n -m memory demand in MB (batch-jobs) 0 MB"
501	printf "\n -M Makefile name Makefile"
502	printf "\n -n node usage (shared/not_shared) depending on -h"
503	printf "\n -o OUTPUT control list \"\" "
504	printf "\n -O threads per openMP task ---"
505	printf "\n -p software package list \"\" "
506	printf "\n -q queue \"$queue\" "
507	printf "\n -r run control list (combines -i -o) \"\" "
508	printf "\n -s filenames of routines to be compiled \"\" "
509	printf "\n must end with .f, .f90, .F, or .c !"
510	printf "\n use \"..\" for more than one file and wildcards"
511	printf "\n -s LM compiles all locally modified files"
512	printf "\n -S config file interpreted by shellscript ---"
513	printf "\n -t allowed cpu-time in seconds (batch) 0"
514	printf "\n -T tasks per node depending on -h"
515	printf "\n -u username on remote machine \"\" "
516	printf "\n -v no prompt for confirmation ---"
517	printf "\n -w maximum parallel io streams as given by -X"
518	printf "\n -x tracing of mrun for debug purposes ---"
519	printf "\n -X # of processors (on parallel machines) 1"
520	printf "\n -y add appendix \"_O\" to all local output"
521	printf "\n files (ocean precursor runs followed by"
522	printf "\n coupled atmosphere-ocean runs) ---"
523	printf "\n -Y run coupled model, \"#1 #2\" with"
524	printf "\n #1 atmosphere and #2 ocean processors \"#/2 #/2\" depending on -X"
525	printf "\n -Z skip combine_plot_fields at the end of "
526	printf "\n the simulation ---"
527	printf "\n "
528	printf "\n Possible values of positional parameter <modus>:"
529	printf "\n \"?\" - this outline \n\n") \| more
530	exit
531	elif [[ "$1" != "" ]]
532	then
533	printf "\n +++ positional parameter $1 unknown \n"
534	locat=parameter; exit
535	fi
536
537
538
539	# SHORT STARTING MESSAGE
540	printf "\n*** $version "
541	printf "\n will be executed. Please wait ..."
542
543
544
545	# CHECK, IF CONFIGURATION FILE EXISTS
546	if [[ ! -f $config_file ]]
547	then
548	printf "\n\n +++ configuration file: "
549	printf "\n $config_file"
550	printf "\n does not exist"
551	locat=connect; exit
552	fi
553
554
555	# DETERMINE THE HOST-IDENTIFIER (localhost) FROM THE CONFIGURATION FILE
556	line=""
557	grep "%host_identifier" $config_file > tmp_mrun
558	while read line
559	do
560	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
561	then
562	HOSTNAME=`echo $line \| cut -d" " -s -f2`
563	host_identifier=`echo $line \| cut -d" " -s -f3`
564	if [[ $localhost_realname = $HOSTNAME ]]
565	then
566	localhost=$host_identifier
567	break
568	fi
569	fi
570	done < tmp_mrun
571
572	if [[ "$localhost" = "" ]]
573	then
574	printf "\n\n +++ no host identifier found in configuration file \"$config_file\""
575	printf "\n for local host \"$localhost_realname\"."
576	printf "\n Please add line"
577	printf "\n \"\%host_identifier $localhost_realname <identifier>\""
578	printf "\n to the configuration file."
579	locat=localhost; exit
580	fi
581
582
583	# SET HOST-SPECIFIC VARIABLES
584	case $localhost_realname in
585	(r1\|r2\|h01\|b01) archive_system=tivoli;;
586	(cs*) archive_system=ut;;
587	esac
588
589
590	# ??? THIS SHOULD BE DECRIBED IN THE MRUN DOCUMENTATION ???
591	# SET BASENAME OF THE INPUT-FILES TO THE GENERAL BASENAME (GIVEN BY OPTION -d),
592	# IF IT HAS NOT BEEN SET BY THE USER DIFFERENTLY (USING OPTION -a)
593	[[ "$afname" = "" ]] && afname=$fname
594
595
596	# ADD RUN-FILE ACTIVATION STRINGS (GIVEN BY OPTION -r) TO THE
597	# RESPECTIVE LISTS FOR ACTIVATING THE INPUT/OUTPUT FILE CONNECTION
598	# STATEMENTS IN THE CONFIGURATION FILE
599	if [[ "$run_mode" != "" ]]
600	then
601	input_list="$input_list $run_mode"
602	output_list="$output_list $run_mode"
603	fi
604
605
606	# ??? is this (and the respective option -H) really required ???
607	# STORE HOSTNAME, FROM WHICH THE JOB IS STARTED,
608	# BUT ONLY IF IT HASN'T BEEN ALREADY SET BY OPTION -H
609	# (MRUN IS AUTOMATICALLY SETTING THIS OPTION IN THE MRUN-CALLS WITHIN
610	# THOSE BATCH-JOBS, WHICH ARE CREATED BY MRUN ITSELF)
611	if [[ "$fromhost" = "" ]]
612	then
613	fromhost=$localhost
614	fi
615
616
617	# CHECK, IF EXECUTION SHALL TO BE DONE ON THE REMOTE-MACHINE.
618	# VALUE OF do_remote IS IMPORTANT FOR THE FILE CONNECTIONS.
619	# IN CASE OF EXECUTION ON A REMOTE-MACHINE, A BATCH-JOB HAS
620	# TO BE SUBMITTED (I.E. do_batch=true)
621	if [[ -n $host && "$host" != $localhost ]]
622	then
623	do_batch=true
624	do_remote=true
625	case $host in
626	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|nech\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lcflow\|lckyoto\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
627	(*) printf "\n"
628	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
629	printf "\n is not available"
630	locat=nqs; (( iec = 0 )); exit;;
631	esac
632	else
633	host=$localhost
634	fi
635
636
637	# EVALUATE ADDITIONAL CONDITIONS GIVEN BY OPTION -K
638	if [[ -n $additional_conditions ]]
639	then
640	cond1=`echo $additional_conditions \| cut -d" " -f1`
641	cond2=`echo $additional_conditions \| cut -d" " -s -f2`
642	dummy=`echo $additional_conditions \| cut -d" " -s -f3`
643	if [[ -n $dummy ]]
644	then
645	printf "\n +++ more than 2 additional conditions given for Option \"-K\""
646	locat=options; exit
647	fi
648	block=_$cond1
649	[[ -n $cond2 ]] && block=${block}_$cond2
650	fi
651
652
653	# EVALUATE MODEL COUPLING FEATURES (OPTION -Y) AND DETERMINE coupled_mode
654	if [[ $run_coupled_model = true ]]
655	then
656
657	numprocs_atmos=`echo $coupled_dist \| cut -d" " -s -f1`
658	numprocs_ocean=`echo $coupled_dist \| cut -d" " -s -f2`
659
660	if (( $numprocs_ocean + $numprocs_atmos != $numprocs ))
661	then
662
663	printf "\n +++ number of processors does not fit to specification by \"-Y\"."
664	printf "\n PEs (total) : $numprocs"
665	printf "\n PEs (atmosphere): $numprocs_atmos"
666	printf "\n PEs (ocean) : $numprocs_ocean"
667	locat=coupling; exit
668
669	fi
670
671
672	# GET coupled_mode FROM THE CONFIG FILE
673	line=""
674	grep "%cpp_options.-D__mpi2.$host" $config_file > tmp_mrun
675	while read line
676	do
677	echo line=\"$line\"
678	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" && $(echo $line \| cut -d" " -s -f4) = $cond1 && $(echo $line \| cut -d" " -s -f5) = $cond2 ]]
679	then
680	coupled_mode="mpi2"
681	fi
682	done < tmp_mrun
683
684	fi
685
686	# CHECK, IF FILE-ARCHIVING HAS FAILED IN PREVIOUS JOB (OF A JOB-CHAIN)
687	if [[ -f ~/job_queue/ARCHIVE_ERROR_$fname ]]
688	then
689	if [[ $ignore_archive_error = false ]]
690	then
691	printf "\n +++ data archiving of previous run failed"
692	printf "\n see directory \~/job_queue on remote machine"
693	locat=archive; exit
694	else
695	printf "\n +++ warning: data archiving in a previous run failed"
696	printf "\n MRUN continues, trying to get backup copy"
697	fi
698	fi
699
700
701	# SAVE VALUES OF MRUN-OPTIONS SICHERN IN ORDER TO OVERWRITE
702	# THOSE VALUES GIVEN IN THE CONFIGURATION-FILE
703	mrun_memory=$memory
704	mrun_group_number=$group_number
705	mrun_cpumax=$cpumax
706	mrun_numprocs=$numprocs
707
708
709	# READ AND EVALUATE THE CONFIGURATION-FILE FROM WITHIN THIS SHELLSCRIPT
710	# (OPTION -S). THE DEFAULT IS USING THE ROUTINE <<<<
711	if [[ "$read_from_config" = false ]]
712	then
713	[[ $silent = false ]] && printf "\n Reading the configuration file... "
714
715	# READ THE CONFIGURATION FILE LINE BY LINE
716	while read zeile
717	do
718	[[ $silent = false ]] && printf "."
719
720
721	# FIRST REPLACE ENVIRONMENT-VARIABLES BY THEIR RESPECTIVE VALUES
722	eval zeile=\"$zeile\"
723
724
725	# INTERPRET THE LINE
726	if [[ "$(echo $zeile)" = "" ]]
727	then
728	# EMPTY LINE, NO ACTION
729	continue
730
731	elif [[ "$(echo $zeile \| cut -c1)" = "#" ]]
732	then
733
734	# LINE IS A COMMENT LINE
735	true
736
737	elif [[ "$(echo $zeile \| cut -c1)" = "%" ]]
738	then
739
740	# LINE DEFINES AN ENVIRONMENT-VARIABLE
741	zeile=$(echo $zeile \| cut -c2-)
742	var=`echo $zeile \| cut -d" " -f1`
743	value=`echo $zeile \| cut -d" " -s -f2`
744	for_host=`echo $zeile \| cut -d" " -s -f3`
745	for_cond1=`echo $zeile \| cut -d" " -s -f4`
746	for_cond2=`echo $zeile \| cut -d" " -s -f5`
747
748	if [[ "$for_host" = "" \|\| ( "$for_host" = $host && "$for_cond1" = "$cond1" && "$for_cond2" = "$cond2" ) \|\| $(echo "$input_list$output_list"\|grep -c "$for_host") != 0 ]]
749	then
750
751	# REPLACE ":" BY " " IN COMPILER- CPP- OR LINKER-OPTIONS,
752	# "::" IS REPLACED BY ":".
753	value=`echo $value \| sed 's/::/%DUM%/g' \| sed 's/:/ /g' \| sed 's/%DUM%/:/g'`
754
755
756	# VALUE FROM THE CONFIGURATION-FILE IS ASSIGNED TO THE
757	# ENVIRONMENT-VARIABLE, BUT ONLY IF NO VALUE HAS BEEN ALREADY
758	# ASSIGNED WITHIN THIS SCRIPT (E.G. BY SCRIPT-OPTIONS).
759	# NON-ASSIGNED VARIABLES HAVE VALUE "" OR 0 (IN CASE OF INTEGER).
760	# HENCE THE GENERAL RULE IS: SCRIPT-OPTION OVERWRITES THE
761	# CONFIGURATION-FILE.
762	if [[ "$(eval echo \$$var)" = "" \|\| "$(eval echo \$$var)" = "0" ]]
763	then
764	eval $var=\$value
765
766	# TERMINAL OUTPUT OF ENVIRONMENT-VARIABLES, IF TRACEBACK IS SWITCHED on
767	if [[ $do_trace = true ]]
768	then
769	printf "\n*** ENVIRONMENT-VARIABLE $var = $value"
770	fi
771	fi
772
773	# IF AN ENVIRONMENT-VARIABLE DETERMINES THE HOST, THEN EVALUATE IT IMMEDIATELY:
774	# VALUE OF do-remote IS REQUIRED FOR THE FILE CONNECTIONS (COPY OF I/O FILES).
775	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MASCHINE, A BATCH-JOB
776	# MUST HAVE TO BE STARTED
777	if [[ $var = host ]]
778	then
779	if [[ -n $host && "$host" != $localhost ]]
780	then
781	do_batch=true
782	do_remote=true
783	case $host in
784	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lcflow\|lckyoto\|nech\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
785	(*) printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
786	printf "\n is not available"
787	locat=nqs; exit;;
788	esac
789	else
790	host=$localhost
791	fi
792	fi
793
794	# USER-DEFINED ENVIRONMENT VARIABLES MUST BE EXPORTED,
795	# BECAUSE THEY MAY BE REQUIRED IN OTHER SCRIPTS CALLED
796	# BY MRUN (E.G. subjob)
797	export $var
798	fi
799
800
801
802
803	elif [[ "$(echo $zeile \| cut -c1-3)" = "EC:" ]]
804	then
805
806	# LINE DEFINES ERROR-COMMAND
807	(( iec = iec + 1 ))
808	zeile=$(echo $zeile \| cut -c4-)
809	err_command[$iec]="$zeile"
810
811	elif [[ "$(echo $zeile \| cut -c1-3)" = "IC:" ]]
812	then
813
814	# LINE DEFINES INPUT-COMMAND
815	(( iic = iic + 1 ))
816	zeile=$(echo $zeile \| cut -c4-)
817	in_command[$iic]="$zeile"
818
819	elif [[ "$(echo $zeile \| cut -c1-3)" = "OC:" ]]
820	then
821
822	# LINE DEFINES OUTPUT-COMMAND
823	(( ioc = ioc + 1 ))
824	zeile=$(echo $zeile \| cut -c4-)
825	out_command[$ioc]="$zeile"
826
827	else
828
829	# LINE DEFINES FILE CONNECTION. READ THE FILE ATTRIBUTES.
830	# s2a: in/out - field
831	# s2b: loc - field (optional)
832	# s2c: tr/ar - field (optional)
833	s1=`echo $zeile \| cut -d" " -f1`
834	s2=`echo $zeile \| cut -d" " -s -f2`
835	s2a=$(echo $s2 \| cut -d":" -f1)
836	if [[ $(echo $s2 \| grep -c ":") = 0 ]]
837	then
838	s2b=""
839	s2c=""
840	else
841	s2b=`echo $s2 \| cut -d":" -f2 \| sed 's/:/ /g'`
842	s2c=`echo $s2 \| cut -d":" -s -f3 \| sed 's/:/ /g'`
843	fi
844	s3=`echo $zeile \| cut -d" " -f3`
845	s4=`echo $zeile \| cut -d" " -s -f4`
846	s5=`echo $zeile \| cut -d" " -s -f5`
847	s6=`echo $zeile \| cut -d" " -s -f6`
848
849
850	# STORE FILE CONNECTION, IF ACTIVATED BY ACTIVATION-STRING FROM
851	# INPUT- OR OUTPUT-LIST.
852	# VARIABLE S3 MAY CONTAIN A LIST OF ACTIVATION STRINGS (FIELD-SEPERATOR ":").
853	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MACHINE AND THE FILE IS ONLY
854	# LOCALLY REQUIRED ON THAT MACHINE (I.E. s2b = loc), THE FILE CONNECTION
855	# IS NOT CHECKED AND STORED.
856	IFSALT="$IFS"; IFS="$IFS:"
857	if [[ "$s2a" = in && ! ( $do_remote = true && ( "$s2b" = loc \|\| "$s2b" = locopt ) ) ]]
858	then
859	found=false
860	for actual in $input_list
861	do
862	for formal in $s3
863	do
864	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
865	done
866	done
867	if [[ $found = true ]]
868	then
869	(( iin = iin + 1 ))
870	localin[$iin]=$s1; transin[$iin]=$s2b; actionin[$iin]=$s2c;
871	typein[$iin]=$s3; pathin[$iin]=$s4; endin[$iin]=$s5;
872	extin[$iin]=$s6
873	fi
874	elif [[ "$s2a" = out && ! ( $do_remote = true && "$s2b" = loc ) ]]
875	then
876	found=false
877	for actual in $output_list
878	do
879	for formal in $s3
880	do
881	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
882	done
883	done
884	if [[ $found = true ]]
885	then
886	(( iout = iout + 1 ))
887	localout[$iout]=$s1; actionout[$iout]=$s2c; typeout[$iout]=$s3;
888	pathout[$iout]=$s4; endout[$iout]=$s5; extout[$iout]=$s6
889	fi
890	elif [[ "$s2a" != in && "$s2a" != out ]]
891	then
892	printf "\n +++ I/O-attribute in configuration file $config_file has the invalid"
893	printf "\n value \"$s2\". Only \"in\" and \"out\" are allowed!"
894	locat=connect; exit
895	fi
896	IFS="$IFSALT"
897	fi
898	done < $config_file
899
900	else
901
902	# EVALUATE THE CONFIGURATION-FILE BY FORTRAN-PROGRAM
903	[[ $silent = false ]] && printf "..."
904	interpreted_config_file=.icf.$RANDOM
905
906
907
908	# PROVIDE VALUES OF ENVIRONMENT-VARIABLE FOR interpret_config VIA NAMELIST-FILE
909	cat > .mrun_environment << %%END%%
910	&mrun_environment cond1 = '$cond1', cond2 = '$cond2',
911	config_file = '$config_file', do_remote = '$do_remote',
912	do_trace = '$do_trace', host = '$host',
913	input_list = '$input_list', icf = '$interpreted_config_file',
914	localhost = '$localhost', output_list = '$output_list' /
915
916	%%END%%
917
918	if [[ "$host" != $localhost ]]
919	then
920
921	# REMOTE JOB FROM LOCAL HOST: JUST TAKE THE FIRST EXECUTABLE FOUND
922	interpret_config_executable=`ls -1 ${PALM_BIN}/interpret_config*.x 2>/dev/null`
923	if [[ $? != 0 ]]
924	then
925	printf "\n\n +++ no interpret_config found"
926	printf "\n run \"mbuild -u -h ...\" to generate utilities for this host"
927	locat=interpret_config; exit
928	fi
929	interpret_config_executable=`echo $interpret_config_executable \| cut -d" " -f1`
930	$interpret_config_executable
931
932	else
933
934	# CHECK, IF THERE IS AN EXECUTABLE FOR THE BLOCK
935	if [[ ! -f ${PALM_BIN}/interpret_config${block}.x ]]
936	then
937	printf "\n\n +++ no interpret_config found for given block \"$cond1 $cond2\""
938	printf "\n run \"mbuild -u -h ...\" to generate utilities for this block"
939	locat=interpret_config; exit
940	else
941	interpret_config${block}.x
942	fi
943
944	fi
945	rm .mrun_environment
946
947
948	# EXECUTE SHELL-COMMANDS GENERATED BY interpret_config WITHIN THIS SHELL
949	chmod u+x $interpreted_config_file
950	export PATH=$PATH:.
951	. $interpreted_config_file
952	rm $interpreted_config_file
953
954	fi
955
956
957	# VALUES OF MRUN-OPTIONS OVERWRITE THOSE FROM THE CONFIGURATION-FILE
958	[[ $mrun_memory != 0 ]] && memory=$mrun_memory
959	[[ "$mrun_group_number" != "none" ]] && group_number=$mrun_group_number
960	[[ $mrun_cpumax != 0 ]] && cpumax=$mrun_cpumax
961	[[ "$mrun_numprocs" != "" ]] && numprocs=$mrun_numprocs
962	[[ "$max_par_io_str" != "" ]] && maximum_parallel_io_streams=$max_par_io_str
963	[[ "$mrun_tasks_per_node" != "" ]] && tasks_per_node=$mrun_tasks_per_node
964
965
966	# ON THE LOCAL MACHINE, DETERMINE (FROM THE CONFIGURATION-FILE) THE PATH
967	# FOR SOURCE-FILES TO BE COMPILED.
968	# IN A BATCH-JOB, SOURCES (ROUTINES TO BE COMPILED) ARE COMPLETE ALREADY.
969	# BEFORE MRUN IS CALLED IN THE JOB, SOURCES_COMPLETE = true IS ASSIGNED (SEE FURTHER BELOW).
970	if [[ "$SOURCES_COMPLETE" = "" ]]
971	then
972
973	# FIRST CHECK, IF A GLOBAL SOURCE PATH (TO BE USED FOR ALL HOSTS)
974	# HAS BEEN DEFINED
975	source_path=""
976	line=""
977	grep "%source_path" $config_file > tmp_mrun
978	while read line
979	do
980	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
981	then
982	if [[ "$(echo $line \| cut -d" " -f3)" = "" ]]
983	then
984	global_source_path=`echo $line \| cut -d" " -f2`
985	fi
986	fi
987	done < tmp_mrun
988
989	line=""
990	found=false
991	grep " $localhost" $config_file \| grep "%source_path" > tmp_mrun
992	while read line
993	do
994	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
995	then
996	if [[ $found = true ]]
997	then
998	printf "\n\n +++ more than one source path found in configuration file"
999	printf "\n for local host \"$localhost\" "
1000	locat=source_path; exit
1001	fi
1002	source_path=`echo $line \| cut -d" " -f2`
1003	found=true
1004	fi
1005	done < tmp_mrun
1006	rm tmp_mrun
1007
1008	if [[ "$source_path" = "" ]]
1009	then
1010	if [[ "$global_source_path" != "" ]]
1011	then
1012	source_path=$global_source_path
1013	else
1014	printf "\n\n +++ no source path found in configuration file"
1015	printf "\n for local host \"$localhost\" "
1016	locat=source_path; exit
1017	fi
1018	fi
1019	eval source_path=$source_path
1020
1021	if [[ ! -d $source_path ]]
1022	then
1023	printf "\n\n +++ source path \"$source_path\" on local host"
1024	printf "\n \"$localhost\" does not exist"
1025	locat=source_path; exit
1026	fi
1027
1028	fi
1029
1030
1031	# GET THE GLOBAL REVISION-NUMBER OF THE SVN-REPOSITORY
1032	# (HANDED OVER TO RESTART-RUNS USING OPTION -G)
1033	if [[ "$global_revision" = "" && $host != "ibmkisti" ]]
1034	then
1035	global_revision=`svnversion $source_path 2>/dev/null`
1036	global_revision="Rev: $global_revision"
1037	fi
1038
1039
1040	# ??? das darf doch eigentlich garnicht passieren, weil optionen config-datei uebersteuern ???
1041	# CHECK AGAIN, IF EXECUTION SHALL BE DONE ON A REMOTE-HOST (BATCH-JOB).
1042	# (HOST MAY HAVE CHANGED DUE TO SETTINGS IN THE CONFIGURATION-FILE)
1043	if [[ -n $host && "$host" != $localhost ]]
1044	then
1045	do_batch=true
1046	do_remote=true
1047	case $host in
1048	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lcflow\|lckyoto\|nech\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
1049	(*) printf "\n"
1050	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
1051	printf "\n is not available"
1052	locat=nqs; (( iec = 0 )); exit;;
1053	esac
1054	else
1055	host=$localhost
1056	fi
1057
1058
1059
1060	# IN CASE OF PARALLEL EXECUTION, CHECK SOME SPECIFICATIONS CONCERNING PROCESSOR NUMBERS
1061	if [[ "$cond1" = parallel \|\| "$cond2" = parallel ]]
1062	then
1063
1064	# CHECK, IF NUMBER OF CORES TO BE USED HAS BEEN GIVEN
1065	if [[ ! -n $numprocs ]]
1066	then
1067	printf "\n"
1068	printf "\n +++ option \"-K parallel\" requires additional specification"
1069	printf "\n of the number of processors to be used by"
1070	printf "\n mrun-option \"-X\" or by environment-variable"
1071	printf "\n \"numprocs\" in the configuration file"
1072	locat=numprocs; (( iec = 0 )); exit
1073	fi
1074
1075	# CHECK, IF THE NUMBER OF CORES PER NODE HAS BEEN GIVEN UND IF IT IS AN
1076	# INTEGRAL DIVISOR OF THE TOTAL NUMBER OF CORES GIVEN BY OPTION -X
1077	if [[ "$tasks_per_node" = "" && $host != lcflow && $host != lcxt5m ]]
1078	then
1079	printf "\n"
1080	printf "\n +++ option \"-T\" (tasks per node) is missing"
1081	printf "\n set -T option or define tasks_per_node in the config file"
1082	locat=tasks_per_node; (( iec = 0 )); exit
1083	fi
1084
1085	if (( numprocs < tasks_per_node ))
1086	then
1087	printf "\n"
1088	printf "\n +++ tasks per node (-T) cannot exceed total number of processors (-X)"
1089	printf "\n given values: -T $tasks_per_node -X $numprocs"
1090	locat=tasks_per_node; (( iec = 0 )); exit
1091	fi
1092
1093	if [[ $host != lcflow && $host != lcxt5m ]]
1094	then
1095	(( nodes = numprocs / ( tasks_per_node * threads_per_task ) ))
1096	(( ival = $tasks_per_node ))
1097	(( pes = numprocs ))
1098	(( ii = pes / ival ))
1099	(( remaining_pes = pes - ii * ival ))
1100	if (( remaining_pes > 0 ))
1101	then
1102	printf "\n"
1103	printf "\n +++ WARNING: tasks per node (option \"-T\") is not an integral"
1104	printf "\n divisor of the total number of processors (option \"-X\")"
1105	printf "\n values of this mrun-call: \"-T $tasks_per_node\" \"-X $numprocs\""
1106	printf "\n One of the nodes is filled with $remaining_pes instead of $tasks_per_node tasks"
1107	(( nodes = nodes + 1 ))
1108	fi
1109	fi
1110
1111
1112	# SETTINGS FOR SUBJOB-COMMAND
1113	OOPT="-O $threads_per_task"
1114
1115	# SET THE TOTAL NUMBER OF NODES, REQUIRED FOR THE SUBJOB-COMMAND (SEE FURTHER BELOW)
1116	if [[ "$tasks_per_node" != "" ]]
1117	then
1118	TOPT="-T $tasks_per_node"
1119	fi
1120
1121	# CHECK node_usage FOR ALLOWED VALUES AND SET DEFAULT VALUE, IF NECESSARY
1122	if [[ $node_usage = default ]]
1123	then
1124	if [[ $host = ibms ]]
1125	then
1126	node_usage=shared
1127	else
1128	node_usage=not_shared
1129	fi
1130	fi
1131
1132	if [[ $node_usage != shared && $node_usage != not_shared && $node_usage != singlejob && "$(echo $node_usage \| cut -c1-3)" != "sla" ]]
1133	then
1134	printf "\n"
1135	printf "\n +++ node usage (option \"-n\") is only allowed to be set"
1136	printf "\n \"shared\" or \"not_shared\""
1137	locat=tasks_per_node; (( iec = 0 )); exit
1138	fi
1139
1140	fi
1141
1142	# CHECK IF HOSTFILE EXISTS
1143	if [[ -n $hostfile ]]
1144	then
1145	if [[ ! -f $hostfile ]]
1146	then
1147	printf "\n"
1148	printf "\n +++ hostfile \"$hostfile\" does not exist"
1149	locat=hostfile; exit
1150	fi
1151	fi
1152
1153
1154	# SET DEFAULT VALUE FOR THE MAXIMUM NUMBER OF PARALLEL IO STREAMS
1155	if [[ "$maximum_parallel_io_streams" = "" ]]
1156	then
1157	maximum_parallel_io_streams=$numprocs
1158	fi
1159
1160
1161	# SET PORT NUMBER OPTION FOR CALLS OF SSH/SCP, subjob AND batch_scp SCRIPTS
1162	if [[ "$scp_port" != "" ]]
1163	then
1164	PORTOPT="-P $scp_port"
1165	SSH_PORTOPT="-p $scp_port"
1166	fi
1167
1168
1169	# SET DEFAULT-QUEUE, IF NOT GIVEN
1170	if [[ $queue = none ]]
1171	then
1172	case $host in
1173	(ibmh) queue=cluster;;
1174	(ibmkisti) queue=class.32plus;;
1175	(lcbullhh) queue=compute;;
1176	(lccrayb) queue=mpp1q;;
1177	(lccrayh) queue=mpp1q;;
1178	(lckiaps) queue=normal;;
1179	(lckyoto) queue=ph;;
1180	(lckyuh) queue=fx-single;;
1181	(lckyut) queue=cx-single;;
1182	(lctit) queue=S;;
1183	(nech) queue=none;;
1184	(unics) queue=unics;;
1185	esac
1186	fi
1187
1188
1189	# GENERATE FULL FILENAMES OF INPUT-FILES, INCLUDING THEIR PATH
1190	# CHECK, IF INPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST)
1191	(( i = 0 ))
1192	while (( i < iin ))
1193	do
1194	(( i = i + 1 ))
1195	(( maxcycle = 0 ))
1196
1197	# GENERATE PATH AND FULL FILE NAME (then-BRANCH: FIXED FULL NAME IS GIVEN, I.E. THE
1198	# FILE IDENTIFIER IS NOT PART OF THE FILENAME))
1199	if [[ "${actionin[$i]}" = di ]]
1200	then
1201	remotepathin[$i]=${pathin[$i]}/${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
1202	# HOST ONLY
1203	eval filename=${pathin[$i]}/${endin[$i]}
1204	else
1205	remotepathin[$i]=${pathin[$i]}/${afname}${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
1206	# HOST ONLY
1207	eval filename=${pathin[$i]}/${afname}${endin[$i]}
1208	fi
1209	eval pathname=${pathin[$i]}
1210
1211	# CHECK IF FILE EXISTS
1212	if [[ $(ls $filename* 2>&1 \| grep -c "not found") = 1 \|\| \
1213	$(ls $filename* 2>&1 \| grep -c "nicht gefunden") = 1 \|\| \
1214	$(ls $filename* 2>&1 \| grep -c "No such file") = 1 \|\| \
1215	$(ls $filename* 2>&1 \| grep -c "does not exist") = 1 ]]
1216	then
1217
1218	# FILES WITH ATTRIBUTE locopt ARE OPTIONAL. NO ABORT, IF THEY DO NOT EXIST.
1219	if [[ "${transin[$i]}" != "locopt" ]]
1220	then
1221	printf "\n\n +++ INPUT-file: "
1222	if [[ "${extin[$i]}" = "" ]]
1223	then
1224	printf "\n $filename"
1225	else
1226	printf "\n $filename.${extin[$i]}"
1227	fi
1228	printf "\n does not exist\n"
1229	locat=input; exit
1230	else
1231	transin[$i]="unavailable"
1232	fi
1233	else
1234
1235	# DETERMINE THE FILE'S CYCLE NUMBER
1236	ls -1 -d $filename > filelist 2>/dev/null
1237	ls -1 -d $filename.* >> filelist 2>/dev/null
1238	while read zeile
1239	do
1240	cycle=$(echo $zeile \| cut -f2 -d".")
1241	if [[ "$cycle" = "$zeile" ]]
1242	then
1243	(( icycle = 0 ))
1244	elif [[ "$cycle" = "${extin[$i]}" ]]
1245	then
1246	(( icycle = 0 ))
1247	else
1248	(( icycle = $cycle ))
1249	fi
1250	if (( icycle > maxcycle ))
1251	then
1252	(( maxcycle = icycle ))
1253	file_to_be_used=$zeile
1254	fi
1255	done <filelist
1256	rm filelist
1257
1258	# APPEND CYCLE NUMBER TO FILENAME
1259	if (( maxcycle > 0 ))
1260	then
1261	if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]]
1262	then
1263	filename=${filename}.$maxcycle.${extin[$i]}
1264	else
1265	filename=${filename}.$maxcycle
1266	fi
1267	else
1268	if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]]
1269	then
1270	filename=${filename}.${extin[$i]}
1271	fi
1272	fi
1273
1274	# STORE FILENAME WITHOUT PATH BUT WITH CYCLE NUMBER,
1275	# BECAUSE IT MIGHT BE REQUIRED LATER TO RESTORE THE FILE FROM AN ARCHIVE-SYSTEM
1276	absnamein[$i]=$filename
1277	if (( maxcycle > 0 ))
1278	then
1279	if [[ "${actionin[$i]}" = di ]]
1280	then
1281	frelin[$i]=${endin[$i]}.$maxcycle
1282	else
1283	frelin[$i]=${afname}${endin[$i]}.$maxcycle
1284	fi
1285	else
1286	if [[ "${actionin[$i]}" = di ]]
1287	then
1288	frelin[$i]=${endin[$i]}
1289	else
1290	frelin[$i]=${afname}${endin[$i]}
1291	fi
1292	fi
1293
1294	fi
1295	done
1296
1297	# GENERATE FULL FILENAMES OF OUTPUT-FILES (WITHOUT $ OR ~),
1298	# CHECK, IF OUTPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST),
1299	# OR, IN CASE THAT FILE DOES NOT EXIST, CHECK, IF IT CAN BE CREATED
1300	# THESE ACTIONS ARE NOT CARRIED OUT, IF FILES SHALL BE TRASFERRED FROM THE REMOTE TO
1301	# THE LOCAL HOST (BECAUSE THEIR IS NO DIRECT ACCESS TO THE LOCAL DIRECTORIES FROM THE
1302	# REMOTE HOST)
1303	(( i = 0 ))
1304	while (( i < iout ))
1305	do
1306	(( i = i + 1 ))
1307	if [[ ! ( $fromhost != $localhost && ( "${actionout[$i]}" = tr \|\| "${actionout[$i]}" = tra \|\| "${actionout[$i]}" = trpe ) ) ]]
1308	then
1309	if [[ "${actionout[$i]}" = tr ]]
1310	then
1311	actionout[$i]=""
1312	elif [[ "${actionout[$i]}" = trpe ]]
1313	then
1314	actionout[$i]=pe
1315	elif [[ "${actionout[$i]}" = tra ]]
1316	then
1317	actionout[$i]=a
1318	fi
1319	(( maxcycle = 0 ))
1320	eval filename=${pathout[$i]}/${fname}${endout[$i]}
1321	eval catalogname=${pathout[$i]}
1322	if [[ $(ls $filename* 2>&1 \| grep -c "not found") = 1 \|\| \
1323	$(ls $filename* 2>&1 \| grep -c "nicht gefunden") = 1 \|\| \
1324	$(ls $filename* 2>&1 \| grep -c "No such file") = 1 \|\| \
1325	$(ls $filename* 2>&1 \| grep -c "does not exist") = 1 ]]
1326	then
1327
1328	# IF OUTPUT-FILE DOES NOT EXIST CHECK, IF IT CAN BE CREATED
1329	if cat /dev/null > $filename
1330	then
1331	rm $filename
1332	else
1333
1334	# CHECK, IF THE DIRECTORY WHERE FILE SHALL BE COPIED TO EXISTS
1335	# IF IT DOES NOT EXIST, TRY TO CREATE IT
1336	if [[ ! -d $catalogname ]]
1337	then
1338	if mkdir -p $catalogname
1339	then
1340	printf "\n\n *** directory:"
1341	printf "\n $catalogname"
1342	printf "\n was created\n"
1343	else
1344	printf "\n\n +++ OUTPUT-file:"
1345	printf "\n $filename"
1346	printf "\n cannot be created, because directory does not exist"
1347	printf "\n and cannot be created either"
1348	printf "\n"
1349	locat=output ; exit
1350	fi 2>/dev/null
1351	else
1352	printf "\n\n +++ OUTPUT-file:"
1353	printf "\n $filename"
1354	printf "\n cannot be created, although directory exists"
1355	printf "\n"
1356	locat=output ; exit
1357	fi
1358	fi 2>/dev/null
1359	else
1360
1361	# DETERMINE THE CYCLE NUMBER
1362	ls -1 -d $filename > filelist 2>/dev/null
1363	ls -1 -d $filename.* >> filelist 2>/dev/null
1364	while read zeile
1365	do
1366	cycle=$(echo $zeile \| cut -f2 -d".")
1367	if [[ "$cycle" = "$zeile" \|\| "$cycle" = ${extout[$i]} ]]
1368	then
1369	(( icycle = 1 ))
1370	else
1371	(( icycle = $cycle + 1 ))
1372	fi
1373	if (( icycle > maxcycle ))
1374	then
1375	(( maxcycle = icycle ))
1376	fi
1377	done <filelist
1378	rm filelist
1379	fi
1380
1381	# APPEND CYCLE NUMBER TO FILENAME AND CHECK, IF FILE CAN BE CREATED
1382	# IN CASE OF FILE-APPEND, FILE MUST BE APPENDED TO THE ONE WITH HIGHEST CYCLE NUMBER
1383	if [[ "${actionout[$i]}" != a ]]
1384	then
1385	if (( maxcycle > 0 ))
1386	then
1387	filename=${filename}.$maxcycle
1388	if cat /dev/null > $filename
1389	then
1390	rm $filename
1391	else
1392	printf "\n +++ OUTPUT-file:"
1393	printf "\n $filename"
1394	printf "\n cannot be created"
1395	locat=output ; exit
1396	fi
1397	fi
1398	else
1399	(( maxcycle = maxcycle - 1 ))
1400	if (( maxcycle > 0 ))
1401	then
1402	filename=${filename}.$maxcycle
1403	fi
1404	fi
1405
1406	# STORE FILENAME WITHOUT PATH BUT WITH CYCLE NUMBER,
1407	# BECAUSE IT MIGHT BE REQUIRED LATER TO STORE THE FILE ON AN ARCHIVE-SYSTEM
1408	# OR TO PUT THIS FILENAME ON FILE OUTPUT_FILE_CONNECTIONS
1409	pathout[$i]=$filename
1410	if (( maxcycle > 0 ))
1411	then
1412	frelout[$i]=${fname}${endout[$i]}.$maxcycle
1413	else
1414	frelout[$i]=${fname}${endout[$i]}
1415	fi
1416
1417	fi
1418	done
1419
1420
1421	# THE DVR-PACKAGE REQUIRES ITS OWN LIBRARY
1422	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
1423	then
1424	if [[ "$dvr_inc" = "" ]]
1425	then
1426	printf "\n\n +++ no value for \"dvr_inc\" given in configuration file"
1427	printf "\n This is required for the dvrp_graphics package.\n"
1428	locat=dvr; exit
1429	fi
1430	if [[ "$dvr_lib" = "" ]]
1431	then
1432	printf "\n\n +++ no value for \"dvr_lib\" given in configuration file"
1433	printf "\n This is required for the dvrp_graphics package.\n"
1434	locat=dvr; exit
1435	fi
1436	fi
1437
1438
1439	# CHECK, WETHER A MAIN PROGRAM OR AN EXECUTABLE HAVE BEEN DECLARED.
1440	# EXECUTABLES DO NOT NEED TO BE COMPILED.
1441	if [[ "$mainprog" = "" && "$executable" = "" ]]
1442	then
1443	printf "\n +++ neither main program nor executable defined"
1444	locat=source; exit
1445	elif [[ "$mainprog" != "" && "$executable" != "" ]]
1446	then
1447	printf "\n +++ main program as well as executable defined"
1448	locat=source; exit
1449	elif [[ "$mainprog" = "" && "$executable" != "" ]]
1450	then
1451	do_compile=false
1452	fi
1453
1454
1455	# CREATE SOURCE-DIRECTORY TO COLLECT ROUTINES TO BE COMPILED.
1456	# LATER THE MRUN-SCRIPT AND CONFIGURATION-FILE WILL ALSO BE COPIED TO THIS DIRECTORY.
1457	if [[ $restart_run != true && "$SOURCES_COMPLETE" = "" ]]
1458	then
1459	rm -rf SOURCES_FOR_RUN_$fname
1460	mkdir SOURCES_FOR_RUN_$fname
1461	fi
1462
1463
1464	# COLLECT ALL ROUTINES TO BE COMPILED
1465	# THIS IS NOT REQUIRED WITHIN BATCH-JOBS, BECAUSE ROUTINES HAVE ALREADY BEEN COLLECTED
1466	# BY THE MRUN-CALL WHICH CREATED THE BATCH-JOB.
1467	if [[ $do_compile = true && "$SOURCES_COMPLETE" = "" ]]
1468	then
1469
1470	[[ "$source_list" = LM ]] && source_list=LOCALLY_MODIFIED
1471
1472	if [[ "$source_list" = LOCALLY_MODIFIED ]]
1473	then
1474
1475	# DETERMINE MODIFIED FILES OF THE SVN WORKING COPY
1476	source_list=""
1477	cd $source_path
1478
1479
1480	# CHECK, IF DIRECTORY IS UNDER SVN CONTROL
1481	if [[ ! -d .svn ]]
1482	then
1483	printf "\n\n +++ source directory"
1484	printf "\n \"$source_path\" "
1485	printf "\n is not under control of \"subversion\"."
1486	printf "\n Please do not use mrun-option \"-s LOCALLY_MODIFIED\"\n"
1487	fi
1488
1489
1490	# LIST ALL MODIFIED SOURCE CODE FILES
1491	Filenames=""
1492	svn status > tmp_mrun
1493	while read line
1494	do
1495	firstc=`echo $line \| cut -c1`
1496	if [[ $firstc = M \|\| $firstc = "?" ]]
1497	then
1498	Name=`echo "$line" \| cut -c8-`
1499	extension=`echo $Name \| cut -d. -f2`
1500	if [[ "$extension" = f90 \|\| "$extension" = F90 \|\| "$extension" = f \|\| "$extension" = F \|\| "$extension" = c ]]
1501	then
1502	Filenames="$Filenames "$Name
1503	fi
1504	fi
1505	done < tmp_mrun
1506
1507
1508	# COPY FILES TO SOURCES_FOR_RUN_...
1509	for dateiname in $Filenames
1510	do
1511	cp $dateiname $working_directory/SOURCES_FOR_RUN_$fname
1512	source_list=$source_list"$dateiname "
1513	done
1514
1515	cd - > /dev/null
1516
1517
1518	# COPY FILES GIVEN BY OPTION -s TO DIRECTORY SOURCES_FOR_RUN_...
1519	# AUTOMATIC RESTART RUNS JUST ACCESS THE DIRECTORY CREATED BY THE INITIAL RUN
1520	elif [[ "$source_list" != "" && $restart_run != true ]]
1521	then
1522
1523	cd $source_path
1524
1525	for filename in $source_list
1526	do
1527
1528	# SOURCE CODE FILE IS NOT ALLOWED TO INCLUDE PATH
1529	if [[ $(echo $filename \| grep -c "/") != 0 ]]
1530	then
1531	printf "\n +++ source code file: $filename"
1532	printf "\n must not contain (\"/\") "
1533	locat=source; exit
1534	fi
1535
1536	if [[ ! -f $filename ]]
1537	then
1538	printf "\n +++ source code file: $filename"
1539	printf "\n does not exist"
1540	locat=source; exit
1541	else
1542	cp $filename $working_directory/SOURCES_FOR_RUN_$fname
1543	fi
1544
1545	done
1546
1547	cd - > /dev/null
1548
1549	fi
1550
1551
1552	# CHECK, IF A MAIN PROGRAM EXISTS AND IF IT IS PART OF THE LIST OF FILES
1553	# TO BE COMPILED. IF NOT, ADD IT TO THE LIST.
1554	if [[ $restart_run != true ]]
1555	then
1556
1557	if [[ ! -f "$source_path/$mainprog" ]]
1558	then
1559	printf "\n\n +++ main program: $mainprog"
1560	printf "\n does not exist in source directory"
1561	printf "\n \"$source_path\"\n"
1562	locat=source; exit
1563	else
1564	if [[ $(echo $source_list \| grep -c $mainprog) = 0 ]]
1565	then
1566	cp $source_path/$mainprog SOURCES_FOR_RUN_$fname
1567	source_list=${mainprog}" $source_list"
1568	fi
1569	fi
1570	fi
1571
1572
1573	# CHECK, IF MAKEFILE EXISTS AND COPY IT TO THE SOURCES_FOR_RUN... DIRECTORY
1574	# NOT REQUIRED FOR RESTART RUNS, SOURCES_FOR_RUN... HAS BEEN CREATED BY THE INITIAL RUN
1575	if [[ "$restart_run" != true ]]
1576	then
1577	[[ "$makefile" = "" ]] && makefile=$source_path/Makefile
1578	if [[ ! -f $makefile ]]
1579	then
1580	printf "\n +++ file \"$makefile\" does not exist"
1581	locat=make; exit
1582	else
1583	cp $makefile SOURCES_FOR_RUN_$fname/Makefile
1584	fi
1585	fi
1586
1587
1588	# COPY FILES FROM OPTIONAL SOURCE PATH GIVEN IN THE CONFIGURATION FILE
1589	if [[ $restart_run != true && "$add_source_path" != "" ]]
1590	then
1591
1592	# DOES THE DIRECTORY EXIST?
1593	if [[ ! -d $add_source_path ]]
1594	then
1595	printf "\n\n *** INFORMATIVE: additional source code directory"
1596	printf "\n \"$add_source_path\" "
1597	printf "\n does not exist or is not a directory."
1598	printf "\n No source code will be used from this directory!\n"
1599	add_source_path=""
1600	if [[ $silent == false ]]
1601	then
1602	sleep 3
1603	fi
1604	else
1605
1606	cd $add_source_path
1607	found=false
1608
1609	Names=$(ls -1 *.f90 2>&1)
1610	[[ $(echo $Names \| grep -c '*.f90') = 0 ]] && AddFilenames="$Names"
1611	Names=$(ls -1 *.F90 2>&1)
1612	[[ $(echo $Names \| grep -c '*.F90') = 0 ]] && AddFilenames="$AddFilenames $Names"
1613	Names=$(ls -1 *.F 2>&1)
1614	[[ $(echo $Names \| grep -c '*.F') = 0 ]] && AddFilenames="$AddFilenames $Names"
1615	Names=$(ls -1 *.f 2>&1)
1616	[[ $(echo $Names \| grep -c '*.f') = 0 ]] && AddFilenames="$AddFilenames $Names"
1617	Names=$(ls -1 *.c 2>&1)
1618	[[ $(echo $Names \| grep -c '*.c') = 0 ]] && AddFilenames="$AddFilenames $Names"
1619
1620	cd - > /dev/null
1621	cd SOURCES_FOR_RUN_$fname
1622
1623	# COPY MAKEFILE IF EXISTING
1624	if [[ -f $add_source_path/Makefile ]]
1625	then
1626	printf "\n\n *** user Makefile from directory"
1627	printf "\n \"$add_source_path\" is used \n"
1628	if [[ $silent == false ]]
1629	then
1630	sleep 1
1631	fi
1632	cp $add_source_path/Makefile .
1633	fi
1634
1635	for dateiname in $AddFilenames
1636	do
1637	if [[ -f $dateiname ]]
1638	then
1639	printf "\n +++ source code file \"$dateiname\" found in additional"
1640	printf "\n source code directory \"$add_source_path\" "
1641	printf "\n but was also given with option \"-s\" which means that it should be taken"
1642	printf "\n from directory \"$source_path\"."
1643	locat=source; exit
1644	fi
1645
1646	cp $add_source_path/$dateiname .
1647	source_list="$source_list $dateiname"
1648
1649	# CHECK IF FILE IS CONTAINED IN MAKEFILE
1650	if [[ $(grep -c $dateiname Makefile) = 0 ]]
1651	then
1652	printf "\n\n +++ user file \"$dateiname\" "
1653	printf "\n is not listed in Makefile \n"
1654	locat=source; exit
1655	else
1656
1657	if [[ $found = false ]]
1658	then
1659	found=true
1660	printf "\n\n *** following user file(s) added to the"
1661	printf " files to be translated:\n "
1662	fi
1663	printf "$dateiname "
1664	if [[ $silent == false ]]
1665	then
1666	sleep 0.5
1667	fi
1668
1669	fi
1670	done
1671	[[ $found = true ]] && printf "\n"
1672	cd - > /dev/null
1673	fi
1674	fi
1675
1676
1677	# ADD ALL ROUTINES BELONGING TO SOFTWARE PACKAGES (GIVEN BY OPTION -p)
1678	# TO THE LIST OF FILES TO BE COMPILED
1679	if [[ $restart_run != true && -n $package_list ]]
1680	then
1681
1682	cd $source_path
1683
1684	for package in $package_list
1685	do
1686
1687	[[ $package = "dvrp_graphics+1PE" ]] && package=dvrp_graphics
1688
1689	# DETERMINE FILES BELONGING TO THE PACKAGE
1690	# ERROR MESSAGE ARE REDIRECTED TO /dev/null, BECAUSE WILDCARD (*) ALSO GIVES
1691	# THE NAME OF THE DIRECTORY
1692	package_source_list=`grep "defined( __$package " * 2>/dev/null \| cut -f1 -d:`
1693
1694
1695	# ADD THESE FILES TO THE LIST OF FILES TO BE COMPILED,
1696	# IF THEY ARE NOT ALREADY PART OF THE LIST
1697	for source_list_name in $package_source_list
1698	do
1699	if [[ $(echo $source_list \| grep -c $source_list_name) = 0 ]]
1700	then
1701
1702	# ONLY TAKE FILES WITH VALID SUFFIX
1703	ending=`echo $source_list_name \| cut -f2 -d.`
1704	if [[ "$ending" = f90 \|\| "$ending" = F90 \|\| "$ending" = f \|\| "$ending" = F \|\| "$ending" = c ]]
1705	then
1706	cp $source_list_name $working_directory/SOURCES_FOR_RUN_$fname
1707	source_list="$source_list $source_list_name"
1708	fi
1709	fi
1710	done
1711	done
1712
1713	cd - > /dev/null
1714	fi
1715
1716	fi # do_compile=true
1717
1718
1719	# IF SOURCE CODE IS TO BE COMPILED, DO SOME MORE CHECKS
1720	# AND SET PRE-PROCESSOR DIRECTIVES
1721	if [[ $do_compile = true \|\| $create_executable_for_batch = true ]]
1722	then
1723
1724	# SET PREPROCESSOR-DIRECTIVES TO SELECT OPERATING SYSTEM SPECIFIC CODE
1725	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1726	then
1727	cpp_options="${cpp_options},-D__ibm=__ibm"
1728	elif [[ $(echo $localhost \| cut -c1-3) = nec ]]
1729	then
1730	cpp_options="$cpp_options -D__nec"
1731	elif [[ $(echo $localhost \| cut -c1-2) = lc ]]
1732	then
1733	cpp_options="$cpp_options -D__lc"
1734	else
1735	cpp_options="$cpp_options -D__$localhost"
1736	fi
1737
1738	# SET DIRECTIVES GIVEN BY OPTION -K (E.G. parallel)
1739	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1740	then
1741	[[ -n $cond1 ]] && cpp_options="${cpp_options},-D__$cond1=__$cond1"
1742	[[ -n $cond2 ]] && cpp_options="${cpp_options},-D__$cond2=__$cond2"
1743	else
1744	[[ -n $cond1 ]] && cpp_options="$cpp_options -D__$cond1"
1745	[[ -n $cond2 ]] && cpp_options="$cpp_options -D__$cond2"
1746	fi
1747
1748	# SET DIRECTIVES FOR ACTIVATING SOFTWARE-PACKAGES (OPTION -p)
1749	if [[ -n $package_list ]]
1750	then
1751	for package in $package_list
1752	do
1753	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1754	then
1755	if [[ $package != "dvrp_graphics+1PE" ]]
1756	then
1757	cpp_options="${cpp_options},-D__$package=__$package"
1758	else
1759	cpp_options="${cpp_options},-D__dvrp_graphics=__dvrp_graphics"
1760	export use_seperate_pe_for_dvrp_output=true
1761	fi
1762	else
1763	if [[ $package != "dvrp_graphics+1PE" ]]
1764	then
1765	cpp_options="$cpp_options -D__$package"
1766	else
1767	cpp_options="$cpp_options -D__dvrp_graphics"
1768	export use_seperate_pe_for_dvrp_output=true
1769	fi
1770	fi
1771	done
1772	fi
1773
1774	# SET DIRECTIVES GIVEN BY OPTION -D
1775	if [[ -n $cpp_opts ]]
1776	then
1777	for popts in $cpp_opts
1778	do
1779	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1780	then
1781	cpp_options="${cpp_options},-D__$popts=__$popts"
1782	else
1783	cpp_options="$cpp_options -D__$popts"
1784	fi
1785	done
1786	fi
1787
1788	else
1789
1790
1791	# FOR LOCAL RUNS CHECK AGAIN, IF EXECUTABLE EXISTS
1792	if [[ $do_remote = false ]]
1793	then
1794	if [[ ! -f $executable ]]
1795	then
1796	printf "\n +++ executable file: $executable"
1797	printf "\n does not exist"
1798	locat=executable; exit
1799	fi
1800	fi
1801	fi
1802
1803
1804	# DETERMINE THE JOB MODE
1805	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1806	then
1807	if [[ "$LOADLBATCH" = yes ]]
1808	then
1809	batch_job=.TRUE.
1810	jobmo=BATCH
1811	else
1812	batch_job=.FALSE.
1813	jobmo=INTERACTIVE
1814	fi
1815	else
1816	if [[ "$ENVIRONMENT" = BATCH ]]
1817	then
1818	batch_job=.TRUE.
1819	jobmo=BATCH
1820	else
1821	batch_job=.FALSE.
1822	jobmo=INTERACTIVE
1823	fi
1824	fi
1825
1826	# NO INTERACTIVE RUNS ALLOWED ON LCTIT
1827	if [[ $host = lctit && $jobmo = INTERACTIVE && $do_batch = false ]]
1828	then
1829	printf "\n +++ no interactive runs allowed on host \"$host\" "
1830	printf "\n please submit batch job using mrun option \"-b\" \n"
1831	locat=normal; exit
1832	fi
1833
1834
1835	# CHECK, IF USER DEFINED A COMPILER
1836	if [[ "$compiler_name" = "" ]]
1837	then
1838
1839	printf "\n +++ no compiler specified for \"$host $cond1 $cond2\""
1840	locat=compiler_name; exit
1841
1842	fi
1843
1844
1845	# DETERMINE THE NAME OF MRUN'S TEMPORARY WORKING DIRECTORY
1846
1847	# ON HLRN-III, USE THE QUEUING NAME. OTHERWISE USE USERNAME AND RANDOM NUMBER
1848	if [[ $do_batch = false && $(echo $host \| cut -c1-6) = lccray ]]
1849	then
1850	kennung=$(checkjob $PBS_JOBID \| grep Reservation \| cut -d" " -s -f2 \| cut -d"." -s -f2 \| sed "s/['\"]//g")
1851	if [[ "$kennung" = "" ]]
1852	then
1853	kennung=$RANDOM
1854	fi
1855	else
1856	kennung=$RANDOM
1857	fi
1858
1859	if [[ "$tmp_user_catalog" = "" ]]
1860	then
1861	if [[ $localhost = ibmh ]]
1862	then
1863	tmp_user_catalog=$SCRATCH
1864	elif [[ $localhost = nech ]]
1865	then
1866	tmp_user_catalog=$WRKSHR
1867	else
1868	tmp_user_catalog=/tmp
1869	fi
1870	fi
1871	TEMPDIR=$tmp_user_catalog/${usern}.$kennung
1872
1873
1874	# DETERMINE THE NAME OF THE DIRECTORY WHICH IS USED TO TEMPORARILY STORE DATA FOR RESTART RUNS
1875	if [[ "$tmp_data_catalog" = "" ]]
1876	then
1877	if [[ $localhost = nech ]]
1878	then
1879	tmp_data_catalog=$WRKSHR/mrun_restart_data
1880	else
1881	tmp_data_catalog=/tmp/mrun_restart_data
1882	fi
1883	fi
1884
1885
1886	# IN CASE OF LOCAL RUNS REPLACE ENVIRONMENT VARIABLES BY THEIR VALUES
1887	if [[ $do_remote = false && $do_compile = true \|\| $create_executable_for_batch = true ]]
1888	then
1889	eval fopts=\"$fopts\"
1890	eval lopts=\"$lopts\"
1891	fi
1892
1893
1894	# DETERMINE COMPILE- AND LINK-OPTIONS
1895	fopts="$fopts $netcdf_inc $fftw_inc $dvr_inc"
1896	lopts="$lopts $netcdf_lib $fftw_lib $dvr_lib"
1897	XOPT="-X $numprocs"
1898
1899
1900	# CHECK THE CPU-LIMIT. IT MUST BE GIVEN FOR BATCH-JOBS AND IS COMMUNICATED TO THE
1901	# EXECUTABLE VIA NAMELIST-PARAMETER cputime
1902	done=false
1903	while [[ $done = false ]]
1904	do
1905	cputime=$cpumax
1906	if (( $cputime == 0 ))
1907	then
1908	if [[ $do_batch = true ]]
1909	then
1910	printf "\n +++ cpu-time is undefined"
1911	printf "\n >>> Please type CPU-time in seconds as INTEGER:"
1912	printf "\n >>> "
1913	read cputime 1>/dev/null 2>&1
1914	else
1915	cputime=10000000 # NO CPU LIMIT FOR INTERACTIVE RUNS
1916	fi
1917	else
1918	done=true
1919	fi
1920	cpumax=$cputime
1921	done
1922
1923	(( minuten = cputime / 60 ))
1924	(( sekunden = cputime - minuten * 60 ))
1925
1926
1927	# CHECK THE MEMORY DEMAND
1928	if [[ $do_batch = true ]]
1929	then
1930	done=false
1931	while [[ $done = false ]]
1932	do
1933	if (( memory == 0 ))
1934	then
1935	printf "\n +++ memory demand is undefined"
1936	printf "\n >>> Please type memory in MByte per process as INTEGER:"
1937	printf "\n >>> "
1938	read memory 1>/dev/null 2>&1
1939	else
1940	done=true
1941	fi
1942	done
1943	fi
1944
1945
1946	# IN CASE OF REMOTE-JOBS CHECK, IF A USERNAME FOR THE REMOTE HOST IS GIVEN
1947	if [[ $do_remote = true && -z $remote_username ]]
1948	then
1949	while [[ -z $remote_username ]]
1950	do
1951	printf "\n +++ username on remote host \"$host\" is undefined"
1952	printf "\n >>> Please type username:"
1953	printf "\n >>> "
1954	read remote_username
1955	done
1956	mc="$mc -u$remote_username"
1957	fi
1958
1959	# CHECK FOR INITIAL COMMANDS AFTER LOGIN
1960	if [[ "$login_init_cmd" != "" ]]
1961	then
1962	export init_cmds="${login_init_cmd};"
1963	fi
1964
1965
1966	# SET THE MODULE-LOAD COMMAD AND EXPORT IT FOR subjob
1967	if [[ "$modules" != "" ]]
1968	then
1969	if [[ $host = lctit ]]
1970	then
1971	export module_calls=". $modules"
1972	else
1973	export module_calls="module load ${modules};"
1974	fi
1975	fi
1976
1977	# OUTPUT OF THE MRUN-HEADER
1978	calltime=$(date)
1979	printf "\n"
1980	printf "#------------------------------------------------------------------------# \n"
1981	printf "\| %-35s%35s \| \n" "$version" "$calltime"
1982	printf "\| \| \n"
1983	spalte1="called on:"; spalte2=$localhost_realname
1984	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
1985	if [[ $do_remote = true ]]
1986	then
1987	spalte1="execution on:"; spalte2="$host (username: $remote_username)"
1988	else
1989	spalte1="execution on:"; spalte2="$host ($localhost_realname)"
1990	fi
1991	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
1992	if [[ -n $numprocs ]]
1993	then
1994	if [[ $run_coupled_model = false ]]
1995	then
1996	spalte1="number of PEs:"; spalte2=$numprocs
1997	else
1998	spalte1="number of PEs:"; spalte2="$numprocs (atmosphere: $numprocs_atmos, ocean: $numprocs_ocean)"
1999	fi
2000	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2001	fi
2002	if [[ -n $tasks_per_node ]]
2003	then
2004	spalte1="tasks per node:"; spalte2="$tasks_per_node (number of nodes: $nodes)"
2005	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2006	if (( remaining_pes > 0 ))
2007	then
2008	spalte1=" "; spalte2="one of the nodes only filled with $remaining_pes tasks"
2009	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2010	fi
2011	fi
2012	if [[ $maximum_parallel_io_streams != $numprocs ]]
2013	then
2014	spalte1="max par io streams:"; spalte2="$maximum_parallel_io_streams"
2015	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2016	fi
2017	if [[ $use_openmp = true ]]
2018	then
2019	spalte1="threads per task:"; spalte2="$threads_per_task"
2020	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2021	fi
2022	printf "\| \| \n"
2023	if [[ $do_compile = true ]]
2024	then
2025	if [[ "$mopts" != "" ]]
2026	then
2027	spalte1="make options:"; spalte2=$(echo "$mopts" \| cut -c-45)
2028	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2029	zeile=$(echo "$mopts" \| cut -c46-)
2030	while [[ "$zeile" != "" ]]
2031	do
2032	spalte1=""
2033	spalte2=$(echo "$zeile" \| cut -c-45)
2034	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2035	zeile=$(echo "$zeile" \| cut -c46-)
2036	done
2037	fi
2038
2039	spalte1="cpp directives:"; spalte2=$(echo "$cpp_options" \| cut -c-45)
2040	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2041	zeile=$(echo "$cpp_options" \| cut -c46-)
2042	while [[ "$zeile" != "" ]]
2043	do
2044	spalte1=""
2045	spalte2=$(echo "$zeile" \| cut -c-45)
2046	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2047	zeile=$(echo "$zeile" \| cut -c46-)
2048	done
2049
2050	spalte1="compiler options:"; spalte2=$(echo "$fopts" \| cut -c-45)
2051	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2052	zeile=$(echo "$fopts" \| cut -c46-)
2053	while [[ "$zeile" != "" ]]
2054	do
2055	spalte1=""
2056	spalte2=$(echo "$zeile" \| cut -c-45)
2057	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2058	zeile=$(echo "$zeile" \| cut -c46-)
2059	done
2060
2061	spalte1="linker options:"; spalte2=$(echo "$lopts" \| cut -c-45)
2062	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2063	zeile=$(echo "$lopts" \| cut -c46-)
2064	while [[ "$zeile" != "" ]]
2065	do
2066	spalte1=""
2067	spalte2=$(echo "$zeile" \| cut -c-45)
2068	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2069	zeile=$(echo "$zeile" \| cut -c46-)
2070	done
2071
2072	spalte1="modules to be load:"; spalte2=$(echo "$modules" \| cut -c-45)
2073	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2074	zeile=$(echo "$modules" \| cut -c46-)
2075	while [[ "$zeile" != "" ]]
2076	do
2077	spalte1=""
2078	spalte2=$(echo "$zeile" \| cut -c-45)
2079	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2080	zeile=$(echo "$zeile" \| cut -c46-)
2081	done
2082
2083	spalte1="main program:"; spalte2=$mainprog
2084	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2085	else
2086	spalte1=executable:; spalte2=$executable
2087	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2088	fi
2089	printf "\| \| \n"
2090	spalte1="base name of files:"; spalte2=$fname
2091	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2092	if [[ $fname != $afname ]]
2093	then
2094	spalte1="base name of input files:"; spalte2=$afname
2095	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2096	fi
2097	spalte1="INPUT control list:"; spalte2=$(echo $input_list)
2098	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2099	spalte1="OUTPUT control list:"; spalte2=$(echo $output_list)
2100	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2101
2102	if [[ "$ocean_file_appendix" = true ]]
2103	then
2104	printf "\| %-35s%-35s \| \n" "suffix \"_O\" is added to local files" " "
2105	fi
2106
2107	if [[ $do_batch = true \|\| "$LOADLBATCH" = yes ]]
2108	then
2109	spalte1="memory demand / PE":; spalte2="$memory MB"
2110	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2111	spalte1=CPU-time:; spalte2="$minuten:$sekunden"
2112	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2113	fi
2114
2115	if [[ $do_compile = true ]]
2116	then
2117	printf "\| \| \n"
2118	printf "\| Files to be compiled: \| \n"
2119	zeile=$source_list
2120	while [[ "$zeile" != "" ]]
2121	do
2122	linestart=$(echo $zeile \| cut -c-70)
2123	printf "\| %-70s \| \n" "$linestart"
2124	zeile=$(echo "$zeile" \| cut -c71-)
2125	done
2126	fi
2127	printf "#------------------------------------------------------------------------#"
2128
2129
2130
2131	# OUTPUT OF FILE CONNECTIONS IN CASE OF TRACEBACK
2132	if [[ $do_trace = true ]]
2133	then
2134	(( i = 0 ))
2135	while (( i < iin ))
2136	do
2137	(( i = i + 1 ))
2138	if (( i == 1 ))
2139	then
2140	printf "\n\n >>> INPUT-file assignments:\n"
2141	fi
2142	printf "\n ${localin[$i]} : ${absnamein[$i]}"
2143	done
2144	(( i = 0 ))
2145	while (( i < iout ))
2146	do
2147	(( i = i + 1 ))
2148	if (( i == 1 ))
2149	then
2150	printf "\n\n >>> OUTPUT-file assignments:\n"
2151	fi
2152	printf "\n ${localout[$i]} : ${pathout[$i]}"
2153	done
2154	(( i = 0 ))
2155	while (( i < iic ))
2156	do
2157	(( i = i + 1 ))
2158	if (( i == 1 ))
2159	then
2160	printf "\n\n >>> INPUT-commands:\n"
2161	fi
2162	printf "\n ${in_command[$i]}"
2163	done
2164	(( i = 0 ))
2165	while (( i < ioc ))
2166	do
2167	(( i = i + 1 ))
2168	if (( i == 1 ))
2169	then
2170	printf "\n\n >>> OUTPUT-commands:\n"
2171	fi
2172	printf "\n ${out_command[$i]}"
2173	done
2174	fi
2175
2176	# QUERY FOR CONTINUE (ON LOCAL MACHINES ONLY)
2177	if [[ $remotecall = false && $silent = false && $jobmo != BATCH ]]
2178	then
2179	antwort=dummy
2180	printf "\n\n"
2181	printf " >>> everything o.k. (y/n) ? "
2182	while read antwort
2183	do
2184	if [[ "$antwort" != y && "$antwort" != Y && "$antwort" != n && "$antwort" != N ]]
2185	then
2186	printf " >>> everything o.k. (y/n) ? "
2187	else
2188	break
2189	fi
2190	done
2191	if [[ $antwort = n \|\| $antwort = N ]]
2192	then
2193	locat=user_abort; (( iec = 0 )); exit
2194	fi
2195	if [[ $do_batch = true ]]
2196	then
2197	printf " >>> batch-job will be created and submitted"
2198	else
2199	printf " >>> MRUN will now continue to execute on this machine"
2200	fi
2201	fi
2202
2203
2204	# DETERMINE PATH FOR MAKE DEPOSITORY
2205	if [[ $do_batch = false \|\| $create_executable_for_batch = true ]]
2206	then
2207
2208	line=""
2209	grep "%depository_path" $config_file > tmp_mrun
2210	while read line
2211	do
2212	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
2213	then
2214	if [[ "$(echo $line \| cut -d" " -s -f3)" = "" ]]
2215	then
2216	global_depository_path=`echo $line \| cut -d" " -s -f2`
2217	fi
2218	fi
2219	done < tmp_mrun
2220
2221	line=""
2222	grep " $localhost" $config_file \| grep "%depository_path" > tmp_mrun
2223	while read line
2224	do
2225	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
2226	then
2227	if [[ "$(echo $line \| cut -d" " -s -f4)" = "$cond1" && "$(echo $line \| cut -d" " -s -f5)" = "$cond2" ]]
2228	then
2229	local_depository_path=`echo $line \| cut -d" " -s -f2`
2230	fi
2231	fi
2232	done < tmp_mrun
2233
2234	if [[ "$local_depository_path" = "" ]]
2235	then
2236	if [[ "$global_depository_path" != "" ]]
2237	then
2238	local_depository_path=$global_depository_path
2239	else
2240	printf "\n\n +++ no depository path found in configuration file"
2241	printf "\n for local host \"$localhost\" "
2242	printf "\n please set \"\%depository_path\" in configuration file\n"
2243	locat=config_file; exit
2244	fi
2245	fi
2246	eval local_depository_path=$local_depository_path
2247	[[ "$cond1" != "" ]] && local_depository_path=${local_depository_path}_$cond1
2248	[[ "$cond2" != "" ]] && local_depository_path=${local_depository_path}_$cond2
2249
2250
2251	basename=`echo $mainprog \| cut -f1 -d"."`
2252	eval make_depository=${local_depository_path}/${basename}_current_version.tar
2253	if [[ ! -f $make_depository ]]
2254	then
2255	printf "\n"
2256	printf "\n *** WARNING: make depository \"$make_depository\" not found"
2257	printf "\n \"make\" will fail, if the Makefile or other source files are missing\n"
2258	fi
2259
2260	fi
2261
2262
2263	# NOW PERFORM THOSE ACTIONS REQUIRED TO EXECUTE THE PROGRAM (PALM) ON THIS MACHINE
2264	# (COMPILING/LINKING, EXECUTING, COPYING I/O FILES)
2265	if [[ $do_batch = false ]]
2266	then
2267
2268
2269	# CREATE THE TEMPORARY WORKING DIRECTORY
2270	mkdir -p $TEMPDIR
2271	chmod go+rx $TEMPDIR
2272	tmpcreate=true
2273
2274
2275	# COPY EITHER THE COMPLETE SOURCE CODE FILES TO BE COMPILED OR THE EXECUTABLE
2276	# INTO THE TEMPORARY WORKING DIRECTORY
2277	if [[ $do_compile = true ]]
2278	then
2279
2280	# ON NEC, COMPILATION IS DONE ON HOST CROSS VIA CROSS COMPILING
2281	# CREATE A TEMPORARY DIRECTORY ON THAT MACHINE (HOME MOUNTED VIA NFS)
2282	if [[ $localhost = nech ]]
2283	then
2284	TEMPDIR_COMPILE=$HOME/work/${usern}.$kennung
2285	if mkdir -p $TEMPDIR_COMPILE
2286	then
2287	printf "\n *** \"$TEMPDIR_COMPILE\" "
2288	printf "\n is generated as temporary directory for cross compiling\n"
2289	else
2290	printf "\n +++ creating directory \"$TEMPDIR_COMPILE\" "
2291	printf "\n needed for cross compilation failed"
2292	locat=compile
2293	exit
2294	fi
2295	else
2296	TEMPDIR_COMPILE=$TEMPDIR
2297	fi
2298
2299	cp $make_depository $TEMPDIR_COMPILE
2300	cd $TEMPDIR_COMPILE
2301	tar -xf $make_depository > /dev/null 2>&1
2302	cd - > /dev/null
2303
2304	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
2305	# FILES ON CRAY XC30 SYSTEMS (HLRN III), rsync IS USED INSTEAD
2306	if [[ $(echo $host \| cut -c1-6) = lccray ]]
2307	then
2308	rsync -av -t SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
2309	else
2310	cp SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
2311	fi
2312
2313	else
2314
2315	cp $executable ${TEMPDIR}/a.out
2316
2317	fi
2318
2319
2320	# CHANGE TO THE TEMPORARY WORKING DIRECTORY
2321	cd $TEMPDIR
2322	printf "\n *** changed to temporary directory: $TEMPDIR"
2323
2324
2325	# THE FOLLOWING IS REQUIRED FPR AVS-OUTPUT WITH PALM ??? REMOVE ???
2326	# WRITE INFORMATIONS ABOUT THE OUTPUT-FILE CONNECTIONS TO A TEMPORARY FILE
2327	# THIS FILE CAN LATER BE READ FROM USER-DEFINED CODE TO DETERMINE THE
2328	# RELATION BETWEEN THE LOCAL TEMPORARY AND PERMANENT FILE NAMES
2329	(( i = 0 ))
2330	while (( i < iout ))
2331	do
2332	(( i = i + 1 ))
2333	if [[ "${actionout[$i]}" = tr \|\| "${actionout[$i]}" = tra \|\| "${actionout[$i]}" = trpe ]]
2334	then
2335	printf "${localout[$i]} ${actionout[$i]}\n${pathout[$i]}\n${localhost}_${fname}${endout[$i]}\n" >> OUTPUT_FILE_CONNECTIONS
2336	else
2337	printf "${localout[$i]} ${actionout[$i]}\n${pathout[$i]}\n${frelout[$i]}\n" >> OUTPUT_FILE_CONNECTIONS
2338	fi
2339	done
2340
2341
2342	# IF REQUIRED, START WITH COMPILING
2343	if [[ $do_compile = true ]]
2344	then
2345
2346
2347	if [[ -f a.out ]]
2348	then
2349
2350	# EXECUTABLE WAS CREATED DURING INTERACTIVE CALL OF MRUN
2351	printf "\n\n\n *** executable a.out found"
2352	printf "\n no compilation required \n"
2353
2354	else
2355
2356	# COMPILING WITH MAKE (ON NEC COMPILER IS CALLED ON HOST CROSS)
2357	printf "\n\n\n *** compilation starts \n$dashes\n"
2358	printf " *** compilation with make using following options:\n"
2359	printf " make depository: $make_depository"
2360	if [[ "$mopts" != "" ]]
2361	then
2362	printf " make options: $mopts\n"
2363	fi
2364	printf " compilername: $compiler_name\n"
2365	printf " compiler options: $fopts\n"
2366	printf " preprocessor directives: $cpp_options \n"
2367	printf " linker options: $lopts \n"
2368	if [[ "$modules" != "" ]]
2369	then
2370	printf " modules to be load: $modules \n"
2371	fi
2372	printf " source code files: $source_list \n"
2373
2374	if [[ $localhost = nech ]]
2375	then
2376	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\" "
2377	cp $TEMPDIR_COMPILE/a.out .
2378	[[ $? != 0 ]] && compile_error=true
2379	rm -rf $TEMPDIR_COMPILE
2380	elif [[ $localhost = ibmh ]]
2381	then
2382	printf " compiler is called via ssh on \"plogin1\" \n"
2383	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\" "
2384	[[ ! -f a.out ]] && compile_error=true
2385	continue # STATUS=1, IF a.out EXISTS
2386	elif [[ $localhost = lcflow ]]
2387	then
2388	printf " compiler is called via ssh on \"flow\" \n"
2389	/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\" "
2390	check_for_file=`/usr/bin/ssh $SSH_PORTOPT flow02.hpc.uni-oldenburg.de -l $usern "ls $TEMPDIR/a.out 2> /dev/null"`
2391	[[ "$check_for_file" = "" ]] && compile_error=true
2392	continue # STATUS=1, IF a.out EXISTS
2393	elif [[ $localhost = lcbullhh \|\| $localhost = lccrayb \|\| $localhost = lccrayf \|\| $localhost = lccrayh ]]
2394	then
2395	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2396	else
2397	[[ "$init_cmds" != "" ]] && eval $init_cmds
2398	[[ "$module_calls" != "" ]] && eval $module_calls
2399	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2400	fi
2401
2402	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
2403	then
2404	printf "\n +++ error occured while compiling or linking"
2405	locat=compile
2406
2407	exit
2408	else
2409	printf "$dashes\n *** compilation finished \n"
2410	fi
2411
2412	fi
2413
2414	fi
2415
2416
2417	# PROVIDE THE INPUT FILES
2418	# LOOP OVER ALL ACTIVATED FILES (LISTED IN THE CONFIGURATION FILE)
2419	(( i = 0 ))
2420	while (( i < iin ))
2421	do
2422	(( i = i + 1 ))
2423	if (( i == 1 ))
2424	then
2425	printf "\n\n *** providing INPUT-files:\n$dashes"
2426	fi
2427
2428
2429	# SKIP OPTIONAL FILES, IF THEY DO NOT EXIST
2430	if [[ "${transin[$i]}" = unavailable ]]
2431	then
2432	if [[ "${extin[$i]}" = "" \|\| "${extin[$i]}" = " " ]]
2433	then
2434	printf "\n *** INFORMATIVE: input file \"${pathin[$i]}/${afname}${endin[$i]}\" "
2435	printf "\n is not available!"
2436	else
2437	printf "\n *** INFORMATIVE: input file \"${pathin[$i]}/${afname}${endin[$i]}.${extin[$i]}\" "
2438	printf "\n is not available!"
2439	fi
2440	continue
2441	fi
2442
2443	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
2444	files_for_pes=false; datentyp=file
2445	if [[ "${actionin[$i]}" = pe && -n $numprocs ]]
2446	then
2447	files_for_pes=true; datentyp=directory
2448	actionin[$i]=""
2449	elif [[ "${actionin[$i]}" = pe && ! -n $numprocs ]]
2450	then
2451	actionin[$i]=""
2452	elif [[ "${actionin[$i]}" = arpe && -n $numprocs ]]
2453	then
2454	files_for_pes=true; datentyp=directory
2455	actionin[$i]="ar"
2456	elif [[ "${actionin[$i]}" = arpe && ! -n $numprocs ]]
2457	then
2458	actionin[$i]="ar"
2459	elif [[ "${actionin[$i]}" = flpe && -n $numprocs ]]
2460	then
2461	files_for_pes=true; datentyp=directory
2462	actionin[$i]="fl"
2463	elif [[ "${actionin[$i]}" = flpe && ! -n $numprocs ]]
2464	then
2465	actionin[$i]="fl"
2466	fi
2467
2468	if [[ $files_for_pes = true ]]
2469	then
2470	printf "\n >>> INPUT: ${absnamein[$i]}/.... to ${localin[$i]}"
2471	else
2472	printf "\n >>> INPUT: ${absnamein[$i]} to ${localin[$i]}"
2473	fi
2474
2475	# INPUT-FILE FOR A RESTART RUN.
2476	# CHECK, IF THIS FILE STILL EXISTS ON THE TEMPORARY DATA DIRECTORY.
2477	# IF NOT, TRY TO GET IT FROM THE ARCHIVE SYSTEM
2478	if [[ "${actionin[$i]}" = fl ]]
2479	then
2480	printf "\n $datentyp will be fetched from temporary directory \"${tmp_data_catalog}\" !"
2481	if [[ $files_for_pes = false ]]
2482	then
2483	if [[ -f "$tmp_data_catalog/${frelin[$i]}" ]]
2484	then
2485	ln $tmp_data_catalog/${frelin[$i]} ${localin[$i]}
2486	got_tmp[$i]=true
2487	elif [[ -f "$WORK/${frelin[$i]}" && $ignore_archive_error = true ]]
2488	then
2489	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" !"
2490	printf "\n *** trying to use backup copy in \"$WORK\" "
2491	cp $WORK/${frelin[$i]} ${localin[$i]}
2492	else
2493	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" "
2494	printf "\n or \"$tmp_data_catalog\" does not exist!"
2495	printf "\n *** trying to get copy from archive"
2496	actionin[$i]=ar
2497	fi
2498	else
2499	if [[ -d "$tmp_data_catalog/${frelin[$i]}" ]]
2500	then
2501	mkdir ${localin[$i]}
2502	cd $tmp_data_catalog/${frelin[$i]}
2503	for file in $(ls *)
2504	do
2505	ln $file $TEMPDIR/${localin[$i]}
2506	done
2507	cd $TEMPDIR
2508	got_tmp[$i]=true
2509	elif [[ -d "$WORK/${frelin[$i]}" && $ignore_archive_error = true ]]
2510	then
2511	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" !"
2512	printf "\n *** trying to use backup copy in \"$WORK\" "
2513	cp -r $WORK/${frelin[$i]} ${localin[$i]}
2514	else
2515	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" "
2516	printf "\n or \"$tmp_data_catalog\" does not exist!"
2517	printf "\n *** trying to get copy from archive"
2518	actionin[$i]=ar
2519	fi
2520	fi
2521	fi
2522
2523
2524	# FILE IS STORED ON THE ARCHIVE SYSTEM
2525	if [[ "${actionin[$i]}" = ar ]]
2526	then
2527
2528	if [[ $files_for_pes = false ]]
2529	then
2530	printf "\n file will be restored from archive-system ($archive_system)!"
2531	else
2532	printf "\n directory will be restored from archive-system ($archive_system)!"
2533	fi
2534
2535	file_restored=false
2536
2537	if [[ $archive_system = asterix ]]
2538	then
2539	do_stagein=true
2540	(( stagein_anz = 0 ))
2541	while [[ $do_stagein = true ]]
2542	do
2543	if [[ $files_for_pes = false ]]
2544	then
2545	stagein -O ${frelin[$i]} > STAGEIN_OUTPUT
2546	else
2547	stagein -t -O ${frelin[$i]} > STAGEIN_OUTPUT
2548	fi
2549	cat STAGEIN_OUTPUT
2550	if [[ $(grep -c "st.msg:i24" STAGEIN_OUTPUT) != 0 ]]
2551	then
2552	file_restored=true
2553	do_stagein=false
2554	else
2555	(( stagein_anz = stagein_anz + 1 ))
2556	if (( stagein_anz == 10 ))
2557	then
2558	printf "\n +++ stagein stoped after 10 tries"
2559	locat=stage
2560	exit
2561	fi
2562	printf "\n +++ restoring from archive failed, trying again:"
2563	sleep 900
2564	fi
2565	done
2566	elif [[ $archive_system = DMF ]]
2567	then
2568	if [[ $files_for_pes = false ]]
2569	then
2570	printf "\n +++ restoring of single files impossible with $archive_system !\n"
2571	locat=DMF
2572	exit
2573	else
2574	find $ARCHIVE/${frelin[$i]} -type m -print \| dmget
2575	cp -r $ARCHIVE/${frelin[$i]} $PWD
2576	file_restored=true
2577	fi
2578	elif [[ $archive_system = tivoli ]]
2579	then
2580	if [[ $files_for_pes = false ]]
2581	then
2582	ssh $SSH_PORTOPT $usern@bicedata.hlrn.de "cp $PERM/${frelin[$i]} $PWD"
2583	else
2584	(( inode = 0 ))
2585	while (( inode < nodes ))
2586	do
2587	ssh $SSH_PORTOPT $usern@bicedata.hlrn.de "cd $PWD; tar xf $PERM/${frelin[$i]}/${frelin[$i]}.node_$inode.tar"
2588	(( inode = inode + 1 ))
2589	done
2590	fi
2591	file_restored=true
2592	elif [[ $archive_system = ut ]]
2593	then
2594	if [[ $files_for_pes = false ]]
2595	then
2596	cp $UT/${frelin[$i]} .
2597	else
2598	(( inode = 0 ))
2599	while (( inode < nodes ))
2600	do
2601	tar xf $UT/${frelin[$i]}/${frelin[$i]}.node_$inode.tar
2602	(( inode = inode + 1 ))
2603	done
2604	fi
2605	file_restored=true
2606	else
2607	printf "\n +++ archive_system=\"$archive_system\" restore impossible!"
2608	locat=rearchive
2609	exit
2610	fi
2611
2612	if [[ $file_restored = true ]]
2613	then
2614
2615	# PUT FILE ON THE TEMPORARY DATA DIRECTORY TOO.
2616	# THIS WILL MAKE FILE ACCESS EASIER FOR LATER RUNS
2617	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog; chmod g+rx $tmp_data_catalog
2618	if [[ $files_for_pes = false ]]
2619	then
2620	ln -f ${frelin[$i]} $tmp_data_catalog/${frelin[$i]}
2621	else
2622	mkdir $tmp_data_catalog/${frelin[$i]}
2623	ln -f ${frelin[$i]}/* $tmp_data_catalog/${frelin[$i]}
2624	fi
2625	got_tmp[$i]=true
2626
2627	# PROVIDE THE FILE UNDER ITS LOCAL NAME
2628	mv ${frelin[$i]} ${localin[$i]}
2629
2630	fi
2631	fi
2632
2633
2634	# FILE IS STORED IN THE RESPECTIVE DIRECTORY GIVEN IN THE CONFIGURATION FILE
2635	if [[ "${actionin[$i]}" = "" \|\| "${actionin[$i]}" = "di" \|\| "${actionin[$i]}" = "npe" ]]
2636	then
2637
2638	if [[ "${actionin[$i]}" = "npe" && -n $numprocs ]]
2639	then
2640
2641	# FILE COPIES ARE PROVIDED FOR ALL CORES
2642	# EACH FILE GETS A UNIQUE FILENAME WITH A FOUR DIGIT NUMBER
2643	printf "\n file will be provided for $numprocs processors"
2644	mkdir ${localin[$i]}
2645	ival=$numprocs
2646	(( ii = 0 ))
2647	while (( ii <= ival-1 ))
2648	do
2649	if (( ii < 10 ))
2650	then
2651	cp ${absnamein[$i]} ${localin[$i]}/_000$ii
2652	elif (( ii < 100 ))
2653	then
2654	cp ${absnamein[$i]} ${localin[$i]}/_00$ii
2655	elif (( ii < 1000 ))
2656	then
2657	cp ${absnamein[$i]} ${localin[$i]}/_0$ii
2658	else
2659	cp ${absnamein[$i]} ${localin[$i]}/_$ii
2660	fi
2661	(( ii = ii + 1 ))
2662	done
2663
2664	else
2665
2666	if [[ $files_for_pes = true ]]
2667	then
2668
2669	# PROVIDE FILES FOR EACH CORE
2670	# FIRST CREATE THE LOCAL DIRECTORY, THEN COPY FILES
2671	# FROM THE PERMANENT DIRECTORY BY LINKING THEM TO THE LOCAL ONE
2672	printf "\n providing $numprocs files for the respective processors"
2673	mkdir ${localin[$i]}
2674	if [[ $link_local_input = true ]]
2675	then
2676	printf " using ln -f\n"
2677	cd ${absnamein[$i]}
2678	for file in $(ls *)
2679	do
2680	ln -f $file ${localin[$i]}
2681	done
2682	cd $TEMPDIR
2683	fi
2684
2685	# IF "ln -f" FAILED OR IF "$link_local_input = false" DO A NORMAL "cp -r"
2686	if [[ ! -f "${localin[$i]}/_0000" ]]
2687	then
2688	if [[ $link_local_input = true ]]
2689	then
2690	printf " ln failed for .../_0000, using cp...\n"
2691	fi
2692	cp -r ${absnamein[$i]}/* ${localin[$i]}
2693	fi
2694
2695	else
2696
2697	# PROVIDE FILE FOR RUNS ON A SINGLE CORE
2698	if [[ $link_local_input = true ]]
2699	then
2700	printf " using ln -f\n"
2701	ln -f ${absnamein[$i]} ${localin[$i]}
2702	fi
2703	# If "ln -f" fails of if "$link_local_input = false" do a normal "cp"
2704	if [[ ! -f "${localin[$i]}" ]]
2705	then
2706	if [[ $link_local_input = true ]]
2707	then
2708	printf " ln failed, using cp...\n"
2709	fi
2710	cp ${absnamein[$i]} ${localin[$i]}
2711	fi
2712	fi
2713	fi
2714	fi
2715
2716	done
2717	if (( i != 0 ))
2718	then
2719	printf "\n$dashes\n *** all INPUT-files provided \n"
2720	fi
2721
2722
2723	# EXECUTE INPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
2724	(( i = 0 ))
2725	while (( i < iic ))
2726	do
2727	(( i = i + 1 ))
2728	if (( i == 1 ))
2729	then
2730	printf "\n\n *** execution of INPUT-commands:\n$dashes"
2731	fi
2732	printf "\n >>> ${in_command[$i]}"
2733	eval ${in_command[$i]}
2734	if (( i == iic ))
2735	then
2736	printf "\n$dashes\n"
2737	fi
2738	done
2739
2740
2741	# SET THE REMAINING CPU-TIME
2742	cpurest=${cpumax}.
2743
2744
2745	# START DVR STREAMING SERVER
2746	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
2747	then
2748	if [[ "$dvr_server" != "" ]]
2749	then
2750
2751	printf "\n\n *** preparing the dvr streaming server configuration file"
2752
2753	# CHECK, IF A DVR SERVER IS ALREADY RUNNING
2754	running_dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config \| grep -v grep) \| cut -d" " -f2`
2755	if [[ "$running_dvrserver_id" != "" ]]
2756	then
2757
2758	printf "\n\n +++ WARNING: A dvr server with id=$running_dvrserver_id is already running!"
2759	printf "\n This server is used instead starting a new one!"
2760	printf "\n If required, script \"process_dvr_output\" has to be run manually."
2761
2762	else
2763
2764	# COPY CONFIGURATION FILE FOR STREAMING SERVER FROM REPOSITORY TO HERE
2765	if [[ -f ${PALM_BIN}/.dvrserver.config ]]
2766	then
2767	cp ${PALM_BIN}/.dvrserver.config .
2768
2769	# ENTERING THE BASEDIR, UID AND GID INTO THIS FILE
2770	user_id=`id -u`
2771	group_id=`id -g`
2772
2773	# "&" IS REQUIRED AS A SEPERATOR, BECAUSE TEMPDIR CONTAINS "/"
2774	sed "s&<replace by dvr data directory>&${TEMPDIR}&g" .dvrserver.config > .dvrserver.1
2775	sed "s/<replace by user id>/$user_id/g" .dvrserver.1 > .dvrserver.2
2776	sed "s/<replace by group id>/$group_id/g" .dvrserver.2 > .dvrserver.3
2777	mv .dvrserver.3 .dvrserver.config
2778	rm .dvrserver.1 .dvrserver.2
2779
2780	# START DVR SERVER IN BACKGROUND, GET HIS ID AND PRINT ON TERMINAL
2781	$dvr_server .dvrserver.config >> DVR_LOGFILE 2>&1 &
2782	dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config) \| cut -d" " -f2`
2783	printf "\n *** streaming server with id=$dvrserver_id is started in background"
2784	local_dvrserver_running=.TRUE.
2785	else
2786	printf "\n +++ missing file \".dvrserver.config\" in directory:"
2787	printf "\n \"$PALM_BIN\" "
2788	locat=dvr
2789	exit
2790	fi
2791
2792	fi
2793
2794	else
2795	printf "\n\n --- INFORMATIVE: no dvr streaming server will be started"
2796	fi
2797	fi
2798
2799
2800	# CREATE THE NAMELIST-FILE WITH VALUES OF ENVIRONMENT-VARIABLES REQUIRED BY PALM
2801	# (FILE ENVPAR WILL BE READ BY PALM)
2802	cat > ENVPAR << %%END%%
2803	&envpar run_identifier = '$fname', host = '$localhost',
2804	write_binary = '$write_binary', tasks_per_node = $tasks_per_node,
2805	maximum_parallel_io_streams = $maximum_parallel_io_streams,
2806	maximum_cpu_time_allowed = ${cpumax}.,
2807	revision = '$global_revision',
2808	local_dvrserver_running = $local_dvrserver_running,
2809	batch_job = $batch_job /
2810
2811	%%END%%
2812
2813
2814	# STARTING THE EXECUTABLE
2815	printf "\n\n *** execution starts in directory\n \"`pwd`\"\n$dashes\n"
2816	PATH=$PATH:$TEMPDIR
2817
2818
2819	if [[ $execute_command != "none" ]]
2820	then
2821
2822	printf "\n +++ branch still not realized"
2823	locat=execution
2824	exit
2825
2826	else
2827
2828	# MPI DEBUG OPTION (ARGUMENT CHECKING, SLOWS DOWN EXECUTION DUE TO INCREASED LATENCY)
2829	if [[ "$mpi_debug" = true ]]
2830	then
2831	export MPI_CHECK_ARGS=1
2832	printf "\n +++ MPI_CHECK_ARGS=$MPI_CHECK_ARGS"
2833	fi
2834
2835	if [[ "$totalview" = true ]]
2836	then
2837	printf "\n *** totalview debugger will be used"
2838	tv_opt="-tv"
2839	else
2840	tv_opt=""
2841	fi
2842
2843	if [[ "$cond1" = debug \|\| "$cond2" = debug ]]
2844	then
2845
2846	#Interactive ALLINEA DEBUG seesion
2847	if [[ "$ENVIRONMENT" != BATCH ]]
2848	then
2849	if [[ $host = lccrayb \|\| $host = lccrayh ]]
2850	then
2851	if [[ "$allinea" = true ]]
2852	then
2853	echo "--- aprun -n $ii -N $tasks_per_node a.out < runfile_atmos"
2854
2855	ddt aprun -n $ii -N $tasks_per_node a.out
2856	wait
2857	fi
2858	fi
2859	fi
2860
2861	if [[ $localhost = ibmh ]]
2862	then
2863
2864	# SETUP THE IBM MPI ENVIRONMENT
2865	export MP_SHARED_MEMORY=yes
2866	export AIXTHREADS_SCOPE=S
2867	export OMP_NUM_THREADS=$threads_per_task
2868	export AUTHSTATE=files
2869	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
2870
2871	# FOLLOWING OPTIONS ARE MANDATORY FOR TOTALVIEW
2872	export MP_ADAPTER_USE=shared
2873	export MP_CPU_USE=multiple
2874	export MP_TIMEOUT=1200
2875
2876	unset MP_TASK_AFFINITY
2877
2878	if [[ "$LOADLBATCH" = yes ]]
2879	then
2880	totalview poe a.out
2881	else
2882	echo totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1
2883	export TVDSVRLAUNCHCMD=ssh
2884	totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1
2885	fi
2886
2887	fi # END DEBUG MODE
2888
2889	else
2890
2891	# NORMAL EXECUTION
2892	if [[ -n $numprocs ]]
2893	then
2894
2895	# RUNNING THE PROGRAM ON PARALLEL MACHINES
2896	if [[ $(echo $host \| cut -c1-3) = ibm ]]
2897	then
2898
2899	# SETUP THE IBM MPI ENVIRONMENT
2900	if [[ $host != ibmh && $host != ibmkisti ]]
2901	then
2902	export MP_SHARED_MEMORY=yes
2903	export AIXTHREAD_SCOPE=S
2904	export OMP_NUM_THREADS=$threads_per_task
2905	export XLSMPOPTS="spins=0:yields=0:stack=20000000"
2906	export AUTHSTATE=files
2907	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
2908	# export MP_PRINTENV=yes
2909
2910	# TUNING-VARIABLES TO IMPROVE COMMUNICATION SPEED
2911	# DO NOT SHOW SIGNIFICANT EFFECTS (SEP 04, FEDERATION-SWITCH)
2912	export MP_WAIT_MODE=poll
2913	[[ $node_usage = not_shared ]] && export MP_SINGLE_THREAD=yes
2914	fi
2915
2916	if [[ $host = ibmkisti ]]
2917	then
2918	export LANG=en_US
2919	export MP_SHARED_MEMORY=yes
2920	if [[ $threads_per_task = 1 ]]
2921	then
2922	export MP_SINGLE_THREAD=yes
2923	export MEMORY_AFFINITY=MCM
2924	else
2925	export OMP_NUM_THREADS=$threads_per_task
2926	fi
2927	fi
2928
2929	if [[ "$LOADLBATCH" = yes ]]
2930	then
2931	printf "\n--- Control: OMP_NUM_THREADS = \"$OMP_NUM_THREADS\" \n"
2932	if [[ "$cond1" = hpmcount \|\| "$cond2" = hpmcount ]]
2933	then
2934	/opt/optibm/HPM_2_4_1/bin/hpmcount a.out
2935	else
2936	if [[ $run_coupled_model = false ]]
2937	then
2938	if [[ "$ocean_file_appendix" = true ]]
2939	then
2940	echo "precursor_ocean" > runfile_atmos
2941	else
2942	echo "precursor_atmos" > runfile_atmos
2943	fi
2944	else
2945	(( iia = $numprocs_atmos / $threads_per_task ))
2946	(( iio = $numprocs_ocean / $threads_per_task ))
2947	printf "\n coupled run ($iia atmosphere, $iio ocean)"
2948	printf "\n using $coupled_mode coupling"
2949	printf "\n\n"
2950	echo "coupled_run $iia $iio" > runfile_atmos
2951	fi
2952	poe ./a.out < runfile_atmos
2953	fi
2954	else
2955	if [[ $localhost = ibmh \|\| $localhost = ibms ]]
2956	then
2957	poe a.out -procs $numprocs -nodes 1 -rmpool 0
2958	elif [[ $localhost = ibmkisti \|\| $localhost = ibmku ]]
2959	then
2960	if [[ -f $hostfile ]]
2961	then
2962	cp $hostfile hostfile
2963	else
2964	(( ii = 1 ))
2965	while (( ii <= $numprocs ))
2966	do
2967	echo $localhost_realname >> hostfile
2968	(( ii = ii + 1 ))
2969	done
2970	fi
2971	export MP_HOSTFILE=hostfile
2972	if [[ $run_coupled_model = false ]]
2973	then
2974	if [[ "$ocean_file_appendix" = true ]]
2975	then
2976	echo "precursor_ocean" > runfile_atmos
2977	else
2978	echo "precursor_atmos" > runfile_atmos
2979	fi
2980	else
2981	(( iia = $numprocs_atmos / $threads_per_task ))
2982	(( iio = $numprocs_ocean / $threads_per_task ))
2983	printf "\n coupled run ($iia atmosphere, $iio ocean)"
2984	printf "\n using $coupled_mode coupling"
2985	printf "\n\n"
2986	echo "coupled_run $iia $iio" > runfile_atmos
2987	fi
2988
2989	poe ./a.out -procs $numprocs < runfile_atmos
2990
2991	else
2992	if [[ "$host_file" = "" ]]
2993	then
2994	printf "\n +++ no hostfile given in configuration file"
2995	locat=config_file
2996	exit
2997	else
2998	eval host_file=$host_file
2999	fi
3000	export MP_HOSTFILE=$host_file
3001	poe a.out -procs $numprocs -tasks_per_node $numprocs
3002	fi
3003	fi
3004
3005	elif [[ $host = nech ]] # running on NEC machines
3006	then
3007
3008	(( ii = nodes ))
3009	if [[ $ii = 1 ]]
3010	then
3011	export F_ERRCNT=0 # acceptable number of errors before program is stopped
3012	export MPIPROGINF=YES
3013	# export F_TRACE=YES\|FMT1\|FMT2 # output of ftrace informations to job protocol
3014	echo "*** execution on single node with mpirun"
3015	mpirun -np $numprocs ./a.out
3016	else
3017	(( i = 0 ))
3018	while (( i < ii ))
3019	do
3020	echo "-h $i -p $tasks_per_node -e ./mpi_exec_shell" >> multinode_config
3021	(( i = i + 1 ))
3022	done
3023
3024	echo "#!/bin/sh" > mpi_exec_shell
3025	echo " " >> mpi_exec_shell
3026	echo "set -u" >> mpi_exec_shell
3027	echo "F_ERRCNT=0" >> mpi_exec_shell
3028	echo "MPIPROGINV=YES" >> mpi_exec_shell
3029	echo "OMP_NUM_THREADS=$threads_per_task" >> mpi_exec_shell
3030	echo "cpurest=$cpurest" >> mpi_exec_shell
3031	echo "fname=$fname" >> mpi_exec_shell
3032	echo "localhost=$localhost" >> mpi_exec_shell
3033	echo "return_address=$return_address" >> mpi_exec_shell
3034	echo "return_username=$return_username" >> mpi_exec_shell
3035	echo "tasks_per_node=$tasks_per_node" >> mpi_exec_shell
3036	echo "write_binary=$write_binary" >> mpi_exec_shell
3037	echo "use_seperate_pe_for_dvrp_output=$use_seperate_pe_for_dvrp_output" >> mpi_exec_shell
3038	echo " " >> mpi_exec_shell
3039	echo "export F_ERRCNT" >> mpi_exec_shell
3040	echo "export MPIPROGINV" >> mpi_exec_shell
3041	echo "export OMP_NUM_THREADS" >> mpi_exec_shell
3042	echo "export cpurest" >> mpi_exec_shell
3043	echo "export fname" >> mpi_exec_shell
3044	echo "export localhost" >> mpi_exec_shell
3045	echo "export return_address" >> mpi_exec_shell
3046	echo "export return_username" >> mpi_exec_shell
3047	echo "export tasks_per_node" >> mpi_exec_shell
3048	echo "export write_binary" >> mpi_exec_shell
3049	echo "export use_seperate_pe_for_dvrp_output" >> mpi_exec_shell
3050	echo " " >> mpi_exec_shell
3051	echo "exec ./a.out" >> mpi_exec_shell
3052
3053	chmod u+x mpi_exec_shell
3054	export MPIPROGINF=YES
3055	mpirun -f multinode_config &
3056	wait
3057
3058	fi
3059
3060	elif [[ $(echo $host \| cut -c1-2) = lc && $host != lckyoto && $host != lctit ]]
3061	then
3062
3063	# COPY HOSTFILE FROM SOURCE DIRECTORY OR CREATE IT, IF IT
3064	# DOES NOT EXIST
3065	if [[ $host != lcbullhh && $host != lccrayb && $host != lccrayf && $host != lccrayh && $host != lckyuh && $host != lckyut ]]
3066	then
3067	if [[ -f $hostfile ]]
3068	then
3069	cp $hostfile hostfile
3070	(( ii = $numprocs / $threads_per_task ))
3071	[[ $ii = 0 ]] && (( ii = 1 ))
3072	else
3073	(( ii = 1 ))
3074	while (( ii <= $numprocs / $threads_per_task ))
3075	do
3076	echo $localhost_realname >> hostfile
3077	(( ii = ii + 1 ))
3078	done
3079	if (( $numprocs / $threads_per_task == 0 ))
3080	then
3081	echo $localhost_realname >> hostfile
3082	fi
3083	fi
3084	eval zeile=\"`head -n $ii hostfile`\"
3085	printf "\n *** running on: $zeile"
3086	fi
3087
3088	(( ii = $numprocs / $threads_per_task ))
3089	[[ $ii = 0 ]] && (( ii = 1 ))
3090	export OMP_NUM_THREADS=$threads_per_task
3091
3092	if [[ $threads_per_task != 1 ]]
3093	then
3094	# INCREASE STACK SIZE TO UNLIMITED, BECAUSE OTHERWISE LARGE RUNS
3095	# MAY ABORT
3096	ulimit -s unlimited
3097	printf "\n threads per task: $threads_per_task stacksize: unlimited"
3098	fi
3099	if [[ $run_coupled_model = false ]]
3100	then
3101	if [[ "$ocean_file_appendix" = true ]]
3102	then
3103	echo "precursor_ocean" > runfile_atmos
3104	else
3105	echo "precursor_atmos" > runfile_atmos
3106	fi
3107	printf "\n\n"
3108
3109	if [[ $host = lccrayb \|\| $host = lccrayh ]]
3110	then
3111	echo "--- aprun -n $ii -N $tasks_per_node a.out < runfile_atmos"
3112	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
3113	elif [[ $host = lcbullhh ]]
3114	then
3115	export OMPI_MCA_pml=cm
3116	export OMPI_MCA_mtl=mxm
3117	export OMPI_MCA_coll=^ghc
3118	export OMPI_MCA_mtl_mxm_np=0
3119	export MXM_RDMA_PORTS=mlx5_0:1
3120	export MXM_LOG_LEVEL=ERROR
3121	export OMP_NUM_THREADS=$threads_per_task
3122	export KMP_AFFINITY=verbose,granularity=core,compact,1
3123	export KMP_STACKSIZE=64m
3124
3125	srun --nodes=$nodes --ntasks-per-node=$tasks_per_node ./a.out < runfile_atmos
3126
3127	elif [[ $host = lccrayf ]]
3128	then
3129	aprun -j1 -n $ii -N $tasks_per_node -m ${memory}M a.out < runfile_atmos
3130	elif [[ $host = lcxe6 \|\| $host = lcxt5m ]]
3131	then
3132	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
3133	elif [[ $host = lcflow ]]
3134	then
3135	mpirun -np $ii a.out < runfile_atmos
3136	elif [[ $host = lcsb ]]
3137	then
3138	mpirun_rsh -hostfile $PBS_NODEFILE -np `cat $PBS_NODEFILE \| wc -l` a.out < runfile_atmos
3139	elif [[ $host = lckiaps ]]
3140	then
3141	mpirun -np $ii -f $PBS_NODEFILE a.out < runfile_atmos
3142	elif [[ $host = lckyu* ]]
3143	then
3144	mpiexec -n $ii --stdin runfile_atmos ./a.out
3145	else
3146	mpiexec -machinefile hostfile -n $ii a.out < runfile_atmos
3147	fi
3148
3149	else
3150
3151	# CURRENTLY THERE IS NO FULL MPI-2 SUPPORT ON ICE AND XT4
3152	(( iia = $numprocs_atmos / $threads_per_task ))
3153	(( iio = $numprocs_ocean / $threads_per_task ))
3154	printf "\n coupled run ($iia atmosphere, $iio ocean)"
3155	printf "\n using $coupled_mode coupling"
3156	printf "\n\n"
3157
3158	if [[ $coupled_mode = "mpi2" ]]
3159	then
3160	echo "atmosphere_to_ocean $iia $iio" > runfile_atmos
3161	echo "ocean_to_atmosphere $iia $iio" > runfile_ocean
3162
3163	if [[ $host = lccrayf \|\| $host = lcxe6 \|\| $host = lcxt5m ]]
3164	then
3165
3166	aprun -n $iia -N $tasks_per_node a.out < runfile_atmos &
3167	aprun -n $iio -N $tasks_per_node a.out < runfile_ocean &
3168
3169	else
3170	# WORKAROUND BECAUSE mpiexec WITH -env option IS NOT AVAILABLE ON SOME SYSTEMS
3171	mpiexec -machinefile hostfile -n $iia a.out < runfile_atmos &
3172	mpiexec -machinefile hostfile -n $iio a.out < runfile_ocean &
3173	# mpiexec -machinefile hostfile -n $iia -env coupling_mode atmosphere_to_ocean a.out &
3174	# mpiexec -machinefile hostfile -n $iio -env coupling_mode ocean_to_atmosphere a.out &
3175	fi
3176	wait
3177
3178	else
3179
3180	echo "coupled_run $iia $iio" > runfile_atmos
3181
3182	if [[ $host = lccrayf \|\| $host = lcxe6 \|\| $host = lcxt5m ]]
3183	then
3184
3185	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
3186
3187	elif [[ $host = lck \|\| $host = lckordi ]]
3188	then
3189
3190	mpiexec -n $ii ./a.out < runfile_atmos &
3191
3192	elif [[ $host = lckyu* ]]
3193	then
3194
3195	mpiexec -n $ii --stdin runfile_atmos ./a.out
3196
3197	elif [[ $host = lcmuk ]]
3198	then
3199
3200	mpiexec -machinefile hostfile -n $ii a.out < runfile_atmos
3201
3202	fi
3203	wait
3204	fi
3205
3206	fi
3207
3208	elif [[ $host = lckyoto ]]
3209	then
3210	set -xv
3211	export P4_RSHCOMMAND=plesh
3212	echo " P4_RSHCOMMAND = $P4_RSHCOMMAND"
3213	if [[ "$ENVIRONMENT" = BATCH ]]
3214	then
3215	if [[ "$cond2" = fujitsu ]]
3216	then
3217	mpiexec -n $numprocs ./a.out # for fujitsu-compiler
3218	elif [[ "cond2" = pgi ]]
3219	then
3220	mpirun -np $numprocs -machinefile ${QSUB_NODEINF} ./a.out
3221	else
3222	mpirun_rsh -np $numprocs -hostfile ${QSUB_NODEINF} MV2_USE_SRQ=0 ./a.out \|\| /bin/true
3223	fi
3224	else
3225	if [[ "$cond2" = "" ]]
3226	then
3227	mpiruni_rsh -np $numprocs ./a.out # for intel
3228	else
3229	mpirun -np $numprocs ./a.out
3230	fi
3231	fi
3232	set +xv
3233
3234	elif [[ $host = lctit ]]
3235	then
3236	export OMP_NUM_THREADS=$threads_per_task
3237	echo "OMP_NUM_THREADS=$OMP_NUM_THREADS"
3238	if [[ "$threads_per_task" != 1 ]]
3239	then
3240	export MV2_ENABLE_AFFINITY=0
3241	fi
3242	echo "----- PBS_NODEFILE content:"
3243	cat $PBS_NODEFILE
3244	echo "-----"
3245	(( ii = $numprocs / $threads_per_task ))
3246	echo "mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out"
3247	mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out
3248
3249	else
3250	mpprun -n $numprocs a.out
3251	fi
3252	else
3253	a.out
3254	fi
3255
3256	fi # end normal (non-debug) execution
3257
3258	fi # end explicit execute_command or host-specific execute actions
3259
3260	if [[ $? != 0 ]]
3261	then
3262
3263	# ABORT IN CASE OF RUNTIME ERRORS
3264	printf "\n +++ runtime error occured"
3265	locat=execution
3266	exit
3267
3268	else
3269
3270	printf "\n$dashes\n *** execution finished \n"
3271
3272	# STOP THE DVR STREAMING SERVER AND PROCESS THE DVR OUTPUT IN ORDER
3273	# TO CREAT DVRS- AND HTML-FILES CONTAINING ALL STREAMS
3274	if [[ "$dvrserver_id" != "" ]]
3275	then
3276	kill $dvrserver_id
3277	printf "\n *** dvr server with id=$dvrserver_id has been stopped"
3278
3279	# IF THERE IS A DIRECTORY, DATA HAVE BEEN OUTPUT BY THE
3280	# STREAMING SERVER. OTHERWISE, USER HAS CHOSEN dvrp_output=local
3281	if [[ -d DATA_DVR ]]
3282	then
3283
3284	# ADD THE CURRENT DVR CONFIGURATION FILE TO THE DVR OUTPUT
3285	# DIRECTORY
3286	cp .dvrserver.config DATA_DVR
3287
3288	# PROCESS THE DVR OUTPUT (OPTION -s FOR GENERATING
3289	# SEQUENCE MODE DATA TOO)
3290	process_dvr_output -d DATA_DVR -f $fname -s
3291
3292	else
3293
3294	# PROCESS THE LOCAL OUTPUT
3295	process_dvr_output -l -d DATA_DVR -f $fname
3296
3297	fi
3298
3299	elif [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
3300	then
3301
3302	# PROCESS DVR OUTPUT GENERATD IN LOCAL MODE (dvrp_output=local)
3303	process_dvr_output -l -d DATA_DVR -f $fname
3304
3305	fi
3306	fi
3307
3308
3309
3310	# CALL OF combine_plot_fields IN ORDER TO MERGE SINGLE FILES WRITTEN
3311	# BY EACH CORE INTO ONE FILE
3312	if [[ ! -f ${PALM_BIN}/combine_plot_fields${block}.x ]]
3313	then
3314	printf "\n\n\n +++ WARNING: no combine_plot_fields found for given block \"$cond1 $cond2\""
3315	printf "\n 2d- and/or 3d-data may be incomplete!"
3316	printf "\n Run \"mbuild -u -h $localhost\" to generate utilities for this block.\n"
3317	elif [[ "$combine_plot_fields" == true ]]
3318	then
3319	if [[ $localhost = lccrayh \|\| $localhost = lccrayb ]]
3320	then
3321	printf "\n\n\n *** post-processing: now executing \"aprun -n 1 -N 1 combine_plot_fields${block}.x\" ..."
3322	aprun -n 1 -N 1 combine_plot_fields${block}.x
3323	else
3324	printf "\n\n\n *** post-processing: now executing \"combine_plot_fields${block}.x\" ..."
3325	combine_plot_fields${block}.x
3326	fi
3327	else
3328
3329	# TEMPORARY SOLUTION TO SKIP combine_plot_fields. THIS IS REQUIRED IN CASE OF HUGE AMOUNT OF
3330	# DATA OUTPUT. TO DO: EXTEND THIS BRANCH BY CREATING A BATCH JOB for combine_plot_fields.
3331	# ??? koennen wir das streichen ???
3332	printf "\n\n\n *** post-processing: skipping combine_plot_fields (-Z option set) ..."
3333	fi
3334
3335
3336
3337	# EXECUTE OUTPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
3338	(( i = 0 ))
3339	while (( i < ioc ))
3340	do
3341	(( i = i + 1 ))
3342	if (( i == 1 ))
3343	then
3344	printf "\n\n *** execution of OUTPUT-commands:\n$dashes"
3345	fi
3346	printf "\n >>> ${out_command[$i]}"
3347	eval ${out_command[$i]}
3348	if (( i == ioc ))
3349	then
3350	printf "\n$dashes\n"
3351	fi
3352	done
3353
3354
3355	# IN TRACE-MODE PRINT CONTENTS OF THE CURRENT (TEMPORARY) WORKING DIRECTORY
3356	if [[ $do_trace = true ]]
3357	then
3358	printf "\n\n"
3359	ls -al
3360	fi
3361
3362
3363
3364	# COPY LOCAL OUTPUT-FILES TO THEIR PERMANENT DESTINATIONS
3365	(( i = 0 ))
3366	while (( i < iout ))
3367	do
3368	(( i = i + 1 ))
3369	if (( i == 1 ))
3370	then
3371	printf "\n\n *** saving OUTPUT-files:\n$dashes"
3372	fi
3373
3374	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
3375	files_for_pes=false; filetyp=file
3376	if [[ "${actionout[$i]}" = pe && -n $numprocs ]]
3377	then
3378	files_for_pes=true; filetyp=directory
3379	actionout[$i]=""
3380	elif [[ "${actionout[$i]}" = pe && ! -n $numprocs ]]
3381	then
3382	actionout[$i]=""
3383	elif [[ "${actionout[$i]}" = arpe && -n $numprocs ]]
3384	then
3385	files_for_pes=true; filetyp=directory
3386	actionout[$i]="ar"
3387	elif [[ "${actionout[$i]}" = arpe && ! -n $numprocs ]]
3388	then
3389	actionout[$i]="ar"
3390	elif [[ "${actionout[$i]}" = flpe && -n $numprocs ]]
3391	then
3392	files_for_pes=true; filetyp=directory
3393	actionout[$i]="fl"
3394	elif [[ "${actionout[$i]}" = flpe && ! -n $numprocs ]]
3395	then
3396	actionout[$i]="fl"
3397	elif [[ "${actionout[$i]}" = trpe && -n $numprocs ]]
3398	then
3399	files_for_pes=true; filetyp=directory
3400	actionout[$i]="tr"
3401	elif [[ "${actionout[$i]}" = trpe && ! -n $numprocs ]]
3402	then
3403	actionout[$i]="tr"
3404	fi
3405
3406	if [[ ! -f ${localout[$i]} && $files_for_pes = false ]]
3407	then
3408	printf "\n +++ temporary OUTPUT-file ${localout[$i]} does not exist\n"
3409	elif [[ ! -d ${localout[$i]} && $files_for_pes = true ]]
3410	then
3411	printf "\n +++ temporary OUTPUT-file ${localout[$i]}/.... does not exist\n"
3412	else
3413
3414
3415	# COPY VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
3416	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
3417	if [[ "${actionout[$i]}" = tr ]]
3418	then
3419	if [[ $localhost != $fromhost ]]
3420	then
3421	if [[ $files_for_pes = false ]]
3422	then
3423	cps=""
3424	cst=""
3425	else
3426	cps=-c
3427	cst="/"
3428	fi
3429	if [[ $localhost = nech ]]
3430	then
3431
3432	# TRANSFER IN SEPERATE JOB
3433	# FIRST COPY FILE TO TEMPORY DATA DIRECTORY
3434	[[ ! -d $tmp_data_catalog/TRANSFER ]] && mkdir -p $tmp_data_catalog/TRANSFER
3435	file_to_transfer=${fname}_${localout[$i]}_to_transfer_$kennung
3436	if [[ $files_for_pes = false ]]
3437	then
3438	ln -f ${localout[$i]} $tmp_data_catalog/TRANSFER/$file_to_transfer
3439	else
3440	mkdir $tmp_data_catalog/TRANSFER/$file_to_transfer
3441	ln ${localout[$i]}/* $tmp_data_catalog/TRANSFER/$file_to_transfer
3442	fi
3443
3444	echo "set -x" > transfer_${localout[$i]}
3445	echo "cd $tmp_data_catalog/TRANSFER" >> transfer_${localout[$i]}
3446
3447	printf "\n >>> OUTPUT: ${localout[$i]}$cst by SCP in seperate job to"
3448	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}$cst"
3449	printf "\n or higher cycle\n"
3450	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]}
3451
3452	echo "[[ \$? = 0 ]] && rm $file_to_transfer" >> transfer_${localout[$i]}
3453
3454	if [[ $localhost = nech ]]
3455	then
3456	subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 900 $PORTOPT transfer_${localout[$i]}
3457	else
3458	if [[ "$LOGNAME" = b323013 ]]
3459	then
3460	subjob -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3461	else
3462	subjob -d -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3463	fi
3464	fi
3465
3466	else
3467
3468	# TRANSFER WITHIN THIS JOB
3469	transfer_failed=false
3470	printf "\n >>> OUTPUT: ${localout[$i]}$cst by SCP to"
3471	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}$cst\n"
3472	if [[ $localhost = lccrayb ]]
3473	then
3474	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]}"
3475	elif [[ $localhost = lccrayh ]]
3476	then
3477	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]}"
3478	elif [[ $localhost = lcbullhh ]]
3479	then
3480	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]}"
3481	elif [[ $localhost = lcxe6 ]]
3482	then
3483	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]}"
3484	else
3485	batch_scp $PORTOPT $cps -b -m -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
3486	fi
3487	[[ $? != 0 ]] && transfer_failed=true
3488
3489	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
3490	if [[ $transfer_failed = true ]]
3491	then
3492	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
3493	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
3494
3495	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
3496	eval local_catalog=${pathout[$i]}
3497	if [[ ! -d $local_catalog ]]
3498	then
3499	printf " *** local directory does not exist. Trying to create:\n"
3500	printf " $local_catalog \n"
3501	mkdir -p $local_catalog
3502	fi
3503	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
3504	transfer_problems=true
3505	fi
3506	fi
3507	else
3508
3509	# UNSET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE COPIED ON THIS MACHINE
3510	actionout[$i]=""
3511	fi
3512	fi
3513
3514
3515	# APPEND VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
3516	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
3517	if [[ "${actionout[$i]}" = tra ]]
3518	then
3519	if [[ $localhost != $fromhost ]]
3520	then
3521	if [[ $localhost = ibmh \|\| $localhost = nech ]]
3522	then
3523
3524	# TRANSFER IN SEPERATE JOB
3525	# FIRST COPY FILE TO TEMPORY DATA DIRECTORY
3526	[[ ! -d $tmp_data_catalog/TRANSFER ]] && mkdir -p $tmp_data_catalog/TRANSFER
3527	file_to_transfer=${fname}_${localout[$i]}_to_transfer_$kennung
3528	ln -f ${localout[$i]} $tmp_data_catalog/TRANSFER/$file_to_transfer
3529
3530	echo "set -x" > transfer_${localout[$i]}
3531	echo "cd $tmp_data_catalog/TRANSFER" >> transfer_${localout[$i]}
3532
3533	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP in seperate job to"
3534	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}"
3535	printf "\n or higher cycle\n"
3536	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]}
3537
3538	echo "[[ \$? = 0 ]] && rm $file_to_transfer" >> transfer_${localout[$i]}
3539
3540	if [[ $localhost = nech ]]
3541	then
3542	subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 900 $PORTOPT transfer_${localout[$i]}
3543	else
3544	if [[ $LOGNAME = b323013 ]]
3545	then
3546	subjob -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3547	else
3548	subjob -d -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3549	fi
3550	fi
3551
3552	else
3553
3554	# TRANSFER WITHIN THIS JOB
3555	transfer_failed=false
3556	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP to"
3557	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}\n"
3558	if [[ $localhost = lccrayb ]]
3559	then
3560	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]}"
3561	elif [[ $localhost = lccrayh ]]
3562	then
3563	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]}"
3564	elif [[ $localhost = lcxe6 ]]
3565	then
3566	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]}"
3567	else
3568	batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
3569	fi
3570	[[ $? != 0 ]] && transfer_failed=true
3571
3572	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
3573	if [[ $transfer_failed = true ]]
3574	then
3575	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
3576	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
3577
3578	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
3579	eval local_catalog=${pathout[$i]}
3580	if [[ ! -d $local_catalog ]]
3581	then
3582	printf " *** local directory does not exist. Trying to create:\n"
3583	printf " $local_catalog \n"
3584	mkdir -p $local_catalog
3585	fi
3586
3587	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
3588	transfer_problems=true
3589	fi
3590	fi
3591	else
3592
3593	# RESET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE APPENDED ON THIS MACHINE
3594	actionout[$i]=a
3595	fi
3596	fi
3597
3598
3599	# OUTPUT-FILE FOR A RESTART-RUN.
3600	# FILE IS MOVED TO THE TEMPORARY DATA DIRECTORY USING link COMMAND.
3601	# OPTION -f IS USED TO OVERWRITE EXISTING FILES.
3602	# AS LAST ACTION, ARCHIVING IS INITIATED.
3603	if [[ "${actionout[$i]}" = fl ]]
3604	then
3605	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog
3606	chmod g+rx $tmp_data_catalog
3607	if [[ $files_for_pes = false ]]
3608	then
3609	printf "\n >>> OUTPUT: ${localout[$i]} to"
3610	printf "\n $tmp_data_catalog/${frelout[$i]} (temporary data catalog)\n"
3611	ln -f ${localout[$i]} $tmp_data_catalog/${frelout[$i]}
3612	else
3613	printf "\n >>> OUTPUT: ${localout[$i]}/.... to"
3614	printf "\n $tmp_data_catalog/${frelout[$i]} (temporary data catalog)\n"
3615	mkdir $tmp_data_catalog/${frelout[$i]}
3616	cd ${localout[$i]}
3617	for file in $(ls *)
3618	do
3619	ln -f $file $tmp_data_catalog/${frelout[$i]}
3620	done
3621	cd $TEMPDIR
3622	fi
3623
3624
3625	# CREATE AND SUBMIT ARCHIVING-JOB
3626	if [[ $store_on_archive_system = true ]]
3627	then
3628
3629	if [[ $archive_system = asterix ]]
3630	then
3631	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
3632	if [[ $files_for_pes = false ]]
3633	then
3634	echo "stageout ${frelout[$i]} > STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
3635	else
3636	echo "stageout -t ${frelout[$i]} > STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
3637	fi
3638	echo "cat STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
3639	echo "if [[ \$(grep -c \"st.msg:150\" STAGE_OUTPUT${i}_$kennung) != 0 ]]" >> archive_${frelout[$i]}
3640	echo "then" >> archive_${frelout[$i]}
3641	echo " do_stageout=false" >> archive_${frelout[$i]}
3642	echo "else" >> archive_${frelout[$i]}
3643	echo " echo \" +++ $filetyp ${frelout[$i]} could not be stored on archive-system\" " >> archive_${frelout[$i]}
3644	echo " cat /dev/null > ~/job_queue/ARCHIVE_ERROR_$fname" >> archive_${frelout[$i]}
3645	echo " cat STAGE_OUTPUT${i}_$kennung > ~/job_queue/archive_${frelout[$i]}_error" >> archive_${frelout[$i]}
3646	echo " echo \" *** $filetyp ${frelout[$i]} will be copied to \$WORK as backup\" " >> archive_${frelout[$i]}
3647	if [[ $files_for_pes = false ]]
3648	then
3649	echo " cp ${frelout[$i]} \$WORK" >> archive_${frelout[$i]}
3650	else
3651	echo " cp -r ${frelout[$i]} \$WORK/${frelout[$i]}" >> archive_${frelout[$i]}
3652	fi
3653	echo " echo \" *** $filetyp ${frelout[$i]} saved\" " >> archive_${frelout[$i]}
3654	echo "fi" >> archive_${frelout[$i]}
3655	echo "rm STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
3656	elif [[ $archive_system = DMF ]]
3657	then
3658	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
3659	if [[ $files_for_pes = false ]]
3660	then
3661	printf "\n +++ archiving of single files impossible with $archive_system !\n"
3662	locat=DMF
3663	exit
3664	else
3665	# ??? nicht benÃ¶tigte Archiv-Systeme entfernen ???
3666	# FUER RECHNER IN JUELICH. DORT KOENNTEN AUCH
3667	# EINZELNE DATEIEN GESICHERT WERDEN (SPAETER KORR.)
3668	echo "rm -rf \$ARCHIVE/${frelout[$i]}" >> archive_${frelout[$i]}
3669	echo "cp -r ${frelout[$i]} \$ARCHIVE" >> archive_${frelout[$i]}
3670	fi
3671	elif [[ $archive_system = tivoli ]]
3672	then
3673	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
3674	if [[ $files_for_pes = false ]]
3675	then
3676	# REMOVE EXISTING OLD FILES FROM THE ARCHIVE
3677	echo "set -x" >> archive_${frelout[$i]}
3678	echo "rm -rf \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
3679	echo "cp ${frelout[$i]} \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
3680	else
3681
3682	echo "set -x" >> archive_${frelout[$i]}
3683	echo "rm -rf \$PERM/${frelout[$i]}/*" >> archive_${frelout[$i]}
3684	echo "[[ ! -d \$PERM/${frelout[$i]} ]] && mkdir $PERM/${frelout[$i]}" >> archive_${frelout[$i]}
3685	cd $tmp_data_catalog
3686	all_files=`ls -1 ${frelout[$i]}/*`
3687	cd - > /dev/null
3688	(( inode = 0 ))
3689	(( tp1 = tasks_per_node + 1 ))
3690	while (( inode < nodes ))
3691	do
3692	files=`echo $all_files \| cut -d" " -f1-$tasks_per_node`
3693	all_files=`echo $all_files \| cut -d" " -f$tp1-`
3694	echo "tar cvf \$PERM/${frelout[$i]}/${frelout[$i]}.node_$inode.tar $files" >> archive_${frelout[$i]}
3695	(( inode = inode + 1 ))
3696	done
3697	fi
3698	elif [[ $archive_system = ut ]]
3699	then
3700	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
3701	if [[ $files_for_pes = false ]]
3702	then
3703	# REMOVE EXISTING OLD FILES FROM THE ARCHIVE
3704	echo "set -x" >> archive_${frelout[$i]}
3705	echo "rm -rf \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
3706	echo "cp ${frelout[$i]} \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
3707	else
3708
3709	echo "set -x" >> archive_${frelout[$i]}
3710	echo "rm -rf \$UT/${frelout[$i]}/*" >> archive_${frelout[$i]}
3711	echo "[[ ! -d \$UT/${frelout[$i]} ]] && mkdir $UT/${frelout[$i]}" >> archive_${frelout[$i]}
3712	cd $tmp_data_catalog
3713	all_files=`ls -1 ${frelout[$i]}/*`
3714	cd - > /dev/null
3715	(( inode = 0 ))
3716	(( tp1 = tasks_per_node + 1 ))
3717	while (( inode < nodes ))
3718	do
3719	files=`echo $all_files \| cut -d" " -f1-$tasks_per_node`
3720	all_files=`echo $all_files \| cut -d" " -f$tp1-`
3721	echo "tar cvf \$UT/${frelout[$i]}/${frelout[$i]}.node_$inode.tar $files" >> archive_${frelout[$i]}
3722	(( inode = inode + 1 ))
3723	done
3724	fi
3725	elif [[ $archive_system = none ]]
3726	then
3727	printf " +++ archiving on $localhost not available!\n"
3728	fi
3729
3730	if [[ $archive_system != none ]]
3731	then
3732	if [[ $localhost = nech ]]
3733	then
3734	subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 7200 $PORTOPT archive_${frelout[$i]}
3735	fi
3736	printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n"
3737	fi
3738	else
3739	printf " +++ caution: option -A is switched off. No archiving on $archive_system!\n"
3740	fi
3741
3742
3743	# CREATE AN EMPTY DIRECTORY IN THE USERS PERMANENT DIRECTORY,
3744	# IN ORDER TO NOTE THE RESPECTIVE CYCLE NUMBER ON THE ARCHIVE SYSTEM
3745	# RESTART-JOBS ARE USING THESE EMPTY-DIRECTORIES TO GET THE CURRENT HIGHEST
3746	# CYCLE NUMBER ON THE ARCHIVE SYSTEM (IN CASE THAT INFORMATIONS ARE DIFFICULT TO
3747	# TO ACCESS FROM THE ARCHIVE-SYSTEM DIRECTLY))
3748	if [[ $files_for_pes = false ]]
3749	then
3750	cat /dev/null > ${pathout[$i]}
3751	else
3752	mkdir -p ${pathout[$i]}
3753	fi
3754
3755	fi
3756
3757
3758	# COPY FROM THIS HOST TO THE ARCHIVE-SYSTEM
3759	# IF ANY ARCHIVING FAILS, AN ERROR-FLAG-FILE IS SET
3760	# THIS FILE REMAINS TO BE SET, EVEN IF ARCHIVING OF FURTHER FILES IS SUCCESSFULL
3761	if [[ "${actionout[$i]}" = ar ]]
3762	then
3763	if [[ $files_for_pes = false ]]
3764	then
3765	printf "\n >>> OUTPUT: ${localout[$i]} to"
3766	printf "\n ${pathout[$i]}"
3767	printf "\n File will be copied to archive-system ($archive_system) !\n"
3768	else
3769	printf "\n >>> OUTPUT: ${localout[$i]}/_.... to"
3770	printf "\n ${pathout[$i]}"
3771	printf "\n Directory will be copied to archive-system ($archive_system) !\n"
3772	fi
3773	mv ${localout[$i]} ${frelout[$i]}
3774
3775	file_saved=false
3776
3777	if [[ $archive_system = asterix ]]
3778	then
3779	do_stageout=true
3780	(( stageout_anz = 0 ))
3781	while [[ $do_stageout = true ]]
3782	do
3783	if [[ $files_for_pes = false ]]
3784	then
3785	stageout ${frelout[$i]} > STAGE_OUTPUT
3786	else
3787	stageout -t ${frelout[$i]} > STAGE_OUTPUT
3788	fi
3789	cat STAGE_OUTPUT
3790	if [[ $(grep -c "st.msg:150" STAGE_OUTPUT) != 0 ]]
3791	then
3792	file_saved=true
3793	do_stageout=false
3794	else
3795	if [[ $files_for_pes = false ]]
3796	then
3797	printf "\n +++ file ${frelout[$i]} could not be saved on archive-system"
3798	else
3799	printf "\n +++ directory ${frelout[$i]} could not be saved on archive-system"
3800	fi
3801	(( stageout_anz = stageout_anz + 1 ))
3802	if (( stageout_anz == 10 ))
3803	then
3804	printf "\n +++ stoped after 10 unsuccessful tries!"
3805	archive_save=false
3806	do_stageout=false
3807	else
3808	printf "\n *** new try to store on archive after 15 min:"
3809	sleep 900
3810	fi
3811	fi
3812	done
3813	elif [[ $archive_system = DMF ]]
3814	then
3815	if [[ $files_for_pes = false ]]
3816	then
3817	printf "\n +++ archiving of single files impossible on $archive_system!\n"
3818	locat=DMF
3819	exit
3820	else
3821	rm -rf $ARCHIVE/${frelout[$i]}
3822	cp -r ${frelout[$i]} $ARCHIVE
3823	fi
3824	file_saved=true
3825	elif [[ $archive_system = tivoli ]]
3826	then
3827	# ARCHIVING ONLY POSSIBLE VIA BATCH-JOB
3828	# IN THE MEANTIME, FILE IS STORED IN THE TEMPORARY DATA DIRECTORY,
3829	# BECAUSE MRUN'S CURRENT TEMPORARY WORKING DIRECTORY MAY ALREADY BE DELETED
3830	# WHEN THE ARCHIVE-JOB IS EXECUTED
3831	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog
3832	chmod g+rx $tmp_data_catalog
3833	if [[ $files_for_pes = false ]]
3834	then
3835	ln -f ${frelout[$i]} $tmp_data_catalog/${frelout[$i]}
3836	else
3837	mkdir $tmp_data_catalog/${frelout[$i]}
3838	ln -f ${frelout[$i]}/* $tmp_data_catalog/${frelout[$i]}
3839	fi
3840
3841	# GENERATE AND SUBMIT BATCH-JOB
3842	# FILE HAS TO BE DELETED FROM THE TEMPORARY DATA DIRECTORY
3843	# DELETE OLD EXISTING FILES FROM THE ARCHIVE
3844	echo "cd $tmp_data_catalog" > archive_${frelout[$i]}
3845	if [[ $files_for_pes = false ]]
3846	then
3847	echo "rm -rf \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
3848	echo "cp ${frelout[$i]} \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
3849	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
3850	else
3851	echo "rm -rf \$PERM/${frelout[$i]}.tar" >> archive_${frelout[$i]}
3852	echo "tar cvf \$PERM/${frelout[$i]}.tar ${frelout[$i]}" >> archive_${frelout[$i]}
3853	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
3854	fi
3855
3856	subjob -v -d -q cdata -X 0 -m 1000 -t 43200 -c $job_catalog $PORTOPT archive_${frelout[$i]}
3857	printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n"
3858	file_saved=true
3859
3860	elif [[ $archive_system = ut ]]
3861	then
3862	# ARCHIVING ONLY POSSIBLE VIA BATCH-JOB
3863	# IN THE MEANTIME, FILE IS STORED IN THE TEMPORARY DATA DIRECTORY,
3864	# BECAUSE MRUN'S CURRENT TEMPORARY WORKING DIRECTORY MAY ALREADY BE DELETED
3865	# WHEN THE ARCHIVE-JOB IS EXECUTED
3866	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog
3867	chmod g+rx $tmp_data_catalog
3868	if [[ $files_for_pes = false ]]
3869	then
3870	ln -f ${frelout[$i]} $tmp_data_catalog/${frelout[$i]}
3871	else
3872	mkdir $tmp_data_catalog/${frelout[$i]}
3873	ln -f ${frelout[$i]}/* $tmp_data_catalog/${frelout[$i]}
3874	fi
3875
3876	# GENERATE AND SUBMIT BATCH-JOB
3877	# FILE HAS TO BE DELETED FROM THE TEMPORARY DATA DIRECTORY
3878	# DELETE OLD EXISTING FILES FROM THE ARCHIVE
3879	echo "cd $tmp_data_catalog" > archive_${frelout[$i]}
3880	if [[ $files_for_pes = false ]]
3881	then
3882	echo "rm -rf \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
3883	echo "cp ${frelout[$i]} \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
3884	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
3885	else
3886	echo "rm -rf \$UT/${frelout[$i]}.tar" >> archive_${frelout[$i]}
3887	echo "tar cvf \$UT/${frelout[$i]}.tar ${frelout[$i]}" >> archive_${frelout[$i]}
3888	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
3889	fi
3890
3891	subjob -v -c /pf/b/$usern/job_queue -d -q pp -X 0 -m 1000 -t 7200 $PORTOPT archive_${frelout[$i]}
3892	printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n"
3893	file_saved=true
3894
3895	else
3896	printf "\n +++ archive_system=\"$archive_system\" archiving impossible!"
3897	archive_save=false
3898	fi
3899
3900	# CREATE EMPTY FLAG-FILE OR -DIRECTORY
3901	# IN ORDER TO NOTE THE RESPECTIVE CYCLE NUMBER ON THE ARCHIVE SYSTEM
3902	# RESTART-JOBS ARE USING THESE EMPTY-DIRECTORIES TO GET THE CURRENT HIGHEST
3903	# CYCLE NUMBER ON THE ARCHIVE SYSTEM (IN CASE THAT INFORMATIONS ARE DIFFICULT TO
3904	# TO ACCESS FROM THE ARCHIVE-SYSTEM DIRECTLY))
3905	if [[ $file_saved = true ]]
3906	then
3907	if [[ $files_for_pes = false ]]
3908	then
3909	cat /dev/null > ${pathout[$i]}
3910	else
3911	mkdir -p ${pathout[$i]}
3912	fi
3913	fi
3914
3915	fi
3916
3917	# APPEND ON THIS MACHINE
3918	if [[ "${actionout[$i]}" = "a" ]]
3919	then
3920	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
3921	then
3922	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}.${extout[$i]}\n"
3923	cat ${localout[$i]} >> ${pathout[$i]}.${extout[$i]}
3924	else
3925	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}\n"
3926	cat ${localout[$i]} >> ${pathout[$i]}
3927	fi
3928	fi
3929
3930	# COPY ON THIS MACHINE
3931	# COPY HAS TO BE USED, BECAUSE MOVE DOES NOT WORK IF FILE-ORIGIN AND TARGET ARE
3932	# ON DIFFERENT FILE-SYSTEMS
3933	if [[ "${actionout[$i]}" = "" && $files_for_pes = false ]]
3934	then
3935
3936	# COPY IN CASE OF RUNS ON SINGLE CORES
3937	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
3938	then
3939	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}.${extout[$i]}\n"
3940	if [[ $link_local_output = true ]]
3941	then
3942	printf " using ln -f\n"
3943	ln -f ${localout[$i]} ${pathout[$i]}.${extout[$i]}
3944	fi
3945	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
3946	if [[ ! -f "${pathout[$i]}.${extout[$i]}" ]]
3947	then
3948	if [[ $link_local_output = true ]]
3949	then
3950	printf " ln failed, using cp...\n"
3951	fi
3952	cp ${localout[$i]} ${pathout[$i]}.${extout[$i]}
3953	fi
3954	else
3955	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}\n"
3956	if [[ $link_local_output = true ]]
3957	then
3958	printf " using ln -f\n"
3959	ln -f ${localout[$i]} ${pathout[$i]}
3960	fi
3961	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
3962	if [[ ! -f "${pathout[$i]}" ]]
3963	then
3964	if [[ $link_local_output = true ]]
3965	then
3966	printf " ln failed, using cp...\n"
3967	fi
3968	cp ${localout[$i]} ${pathout[$i]}
3969	fi
3970	fi
3971
3972	elif [[ "${actionout[$i]}" = "" && $files_for_pes = true ]]
3973	then
3974
3975	# FILES FROM THE DIFFERENT CORES ARE MOVED WITH ln-COMMAND TO THE PERMANENT DIRECTORY
3976	# AS A FIRST STEP, THE PERMANENT DIRECTORY IS CREATED
3977	printf "\n >>> OUTPUT: ${localout[$i]}/_.... to ${pathout[$i]}\n"
3978	if [[ $link_local_output = true ]]
3979	then
3980	printf " using ln -f\n"
3981	mkdir ${pathout[$i]}
3982	cd ${localout[$i]}
3983	for file in $(ls *)
3984	do
3985	ln -f $file ${pathout[$i]}
3986	done
3987	cd $TEMPDIR
3988	fi
3989
3990	# IF "ln -f" HAS FAILED OR IF "$link_local_output = false" DO A NORMAL COPY "cp -r"
3991	if [[ ! -f "${pathout[$i]}/_0000" ]]
3992	then
3993	if [[ $link_local_output = true ]]
3994	then
3995	printf " ln failed for .../_0000, using cp...\n"
3996	fi
3997	cp -r ${localout[$i]} ${pathout[$i]}
3998	fi
3999
4000	fi
4001	fi
4002	done
4003	if (( i != 0 ))
4004	then
4005	if [[ $transfer_problems = true ]]
4006	then
4007	printf "\n$dashes\n *** OUTPUT-files saved"
4008	printf "\n +++ WARNING: some data transfers failed! \n"
4009	else
4010	printf "\n$dashes\n *** all OUTPUT-files saved \n"
4011	fi
4012	fi
4013
4014
4015	# IF REQUIRED, START A RESTART-JOB
4016	# FILE CONTINUE_RUN MUST HAVE BEEN CREATED BY THE EXECUTABLE (PALM)
4017	if [[ -f CONTINUE_RUN ]]
4018	then
4019
4020	if [[ $archive_save = true ]]
4021	then
4022
4023	# ADD RESTART-OPTIONS TO THE MRUN-CALL (IF THEY ARE NOT USED ALREADY):
4024	# -C TELLS MRUN THAT IT IS A RESTART-RUN
4025	# -v SILENT MODE WITHOUT INTERACTIVE QUERIES
4026	# -n BATCH-MODE (IMPORTANT ONLY IN CASE OF BATCH JOBS ON THE LOCAL MACHINE)
4027	[[ $(echo $mc \| grep -c "\-C") = 0 ]] && mc="$mc -C"
4028	[[ $(echo $mc \| grep -c "\-v") = 0 ]] && mc="$mc -v"
4029	[[ $(echo $mc \| grep -c "\-b") = 0 ]] && mc="$mc -b"
4030	if [[ $(echo $mc \| grep -c "#") != 0 ]]
4031	then
4032	mc=`echo $mc \| sed 's/#/f/g'`
4033	fi
4034
4035
4036	# START THE RESTART-JOB
4037	printf "\n\n *** initiating restart-run on \"$return_address\" using command:\n"
4038	echo " $mc"
4039	printf "\n$dashes\n"
4040	if [[ $localhost != $fromhost ]]
4041	then
4042
4043	if [[ $localhost = lcbullhh \|\| $localhost = lccrayb \|\| $localhost = lccrayh \|\| $localhost = nech \|\| $localhost = ibmh \|\| $localhost = ibmkisti \|\| $localhost = ibmku \|\| $localhost = ibms \|\| $localhost = lcflow \|\| $localhost = lckyu* \|\| $localhost = lcxe6 ]]
4044	then
4045	echo "*** ssh will be used to initiate restart-runs!"
4046	echo " return_address=\"$return_address\" "
4047	echo " return_username=\"$return_username\" "
4048	if [[ $(echo $return_address \| grep -c "130.75.105") = 1 ]]
4049	then
4050	if [[ $localhost = ibmh ]]
4051	then
4052	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\" "
4053	elif [[ $localhost = lcbullhh ]]
4054	then
4055	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\" "
4056	elif [[ $localhost = lccrayb ]]
4057	then
4058	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\" "
4059	elif [[ $localhost = lccrayh ]]
4060	then
4061	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\" "
4062	elif [[ $localhost = lcxe6 ]]
4063	then
4064	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\" "
4065	else
4066	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 "
4067	fi
4068	else
4069	if [[ $localhost = ibmkisti ]]
4070	then
4071	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\" "
4072	elif [[ $localhost = lcflow ]]
4073	then
4074	/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 "
4075	elif [[ $localhost = lccrayb ]]
4076	then
4077	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\" "
4078	elif [[ $localhost = lccrayh ]]
4079	then
4080	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\" "
4081	else
4082	ssh $SSH_PORTOPT $return_address -l $return_username "PATH=\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc "
4083	fi
4084	fi
4085	else
4086	printf "\n +++ no restart mechanism available for host \"$localhost\" "
4087	locat=restart; exit
4088	fi
4089
4090	# WAIT TO ALLOW THE RESTART-JOB TO BE QUEUED, BEFORE THE CURRENT JOB IS FINISHED
4091	if [[ $queue = special1q ]]
4092	then
4093	sleep 120
4094	else
4095	sleep 30
4096	fi
4097
4098	else
4099
4100	# JOBS RUNNING (AND STARTED) ON THE LOCAL MACHINE CAN DIRECTLY CALL MRUN (WITHOUT
4101	# USING SSH)
4102	cd $LOCAL_PWD
4103	if [[ $localhost = lckyuh ]]
4104	then
4105	printf "\n +++ WARNING: no restart mechanism available for host \"$localhost\" "
4106	printf "\n please restart job manually using command:\n"
4107	printf "\n \"$mc\" "
4108	else
4109	eval $mc # THE ' MUST BE EVALUATED
4110	fi
4111	cd - > /dev/null
4112	fi
4113	if [[ $localhost = lckyuh ]]
4114	then
4115	printf "\n$dashes\n *** restart-run to be initiated manually\n"
4116	else
4117	printf "\n$dashes\n *** restart-run initiated \n"
4118	fi
4119
4120
4121	# DELETE INPUT-(RESTART)FILES, WHICH HAVE BEEN FETCHED FROM THE TEMPORARY DATA
4122	# DIRECTORY, BACAUSE THEY ARE NOT REQUIRED BY THE RESTART-JOB.
4123	# THIS IS DONE IN ORDER TO AVOID EXCEEDING DISC QUOTAS OR DISC SPACE (RESTART-FILES
4124	# MAY BE VERY HUGE)
4125	(( i = 0 ))
4126	while (( i < iin ))
4127	do
4128	(( i = i + 1 ))
4129	if [[ "${got_tmp[$i]}" = true && $keep_data_from_previous_run = false ]]
4130	then
4131	rm -r $tmp_data_catalog/${frelin[$i]}
4132	fi
4133	done
4134
4135	else
4136
4137	printf "\n +++ no restart-run possible, since errors occured"
4138	printf "\n during the archive process"
4139	fi
4140
4141	fi
4142
4143
4144
4145	# SEND EMAIL NOTIFICATION ABOUT THE FINISHED RUN
4146	if [[ "$email_notification" != "none" ]]
4147	then
4148
4149	if [[ $localhost != $fromhost ]]
4150	then
4151	if [[ -f CONTINUE_RUN ]]
4152	then
4153	echo "PALM restart run necessary" > email_text
4154	echo "description header of actual run:" >> email_text
4155	cat CONTINUE_RUN >> email_text
4156	echo "mrun-command to restart:" >> email_text
4157	echo "$mc" >> email_text
4158	else
4159	echo "PALM run with base filename \"$fname\" on host \"$localhost\" finished" > email_text
4160	fi
4161	mail $email_notification < email_text
4162	printf "\n *** email notification sent to \"$email_notification\" "
4163	fi
4164	fi
4165
4166
4167
4168	# ALL ACTIONS FINISHED, TEMPORARY WORKING-DIRECTORY CAN BE DELETED
4169	cd $HOME
4170	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
4171
4172	else
4173
4174	# PREPARING ACTIONS,
4175	# IF A BATCH-JOB IS TO BE GENERATED AND STARTED ON A REMOTE-MACHINE GERECHNET
4176
4177	# BUILD THE MRUN-COMMAND TO BE CALLED IN THE BATCH-JOB ON THE REMOTE-MACHINE
4178	mrun_com="$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 $remote_username"
4179	[[ "$cpp_opts" != "" ]] && mrun_com=${mrun_com}" -D \"$cpp_opts\""
4180	[[ "$global_revision" != "" ]] && mrun_com=${mrun_com}" -G \"$global_revision\""
4181	[[ $group_number != none ]] && mrun_com=${mrun_com}" -g $group_number"
4182	[[ $do_compile = true ]] && mrun_com=${mrun_com}" -s \"$source_list\""
4183	[[ "$input_list" != "" ]] && mrun_com=${mrun_com}" -i \"$input_list\""
4184	[[ $ignore_archive_error = true ]] && mrun_com=${mrun_com}" -I"
4185	[[ $keep_data_from_previous_run = true ]] && mrun_com=${mrun_com}" -k"
4186	[[ "$additional_conditions" != "" ]] && mrun_com=${mrun_com}" -K \"$additional_conditions\""
4187	[[ "$output_list" != "" ]] && mrun_com=${mrun_com}" -o \"$output_list\""
4188	[[ "$read_from_config" = false ]] && mrun_com=${mrun_com}" -S"
4189	[[ $do_trace = true ]] && mrun_com=${mrun_com}" -x"
4190	[[ "$numprocs" != "" ]] && mrun_com=${mrun_com}" -X $numprocs"
4191	if [[ $use_openmp = true ]]
4192	then
4193	mrun_com=${mrun_com}" -O $threads_per_task"
4194	fi
4195	[[ "$tasks_per_node" != "" ]] && mrun_com=${mrun_com}" -T $tasks_per_node"
4196	[[ $store_on_archive_system = true ]] && mrun_com=${mrun_com}" -A"
4197	[[ $package_list != "" ]] && mrun_com=${mrun_com}" -p \"$package_list\""
4198	[[ $return_password != "" ]] && mrun_com=${mrun_com}" -P $return_password"
4199	[[ $delete_temporary_catalog = false ]] && mrun_com=${mrun_com}" -B"
4200	[[ $node_usage != default && "$(echo $node_usage \| cut -c1-3)" != "sla" && $node_usage != novice ]] && mrun_com=${mrun_com}" -n $node_usage"
4201	[[ "$ocean_file_appendix" = true ]] && mrun_com=${mrun_com}" -y"
4202	[[ $run_coupled_model = true ]] && mrun_com=${mrun_com}" -Y \"$coupled_dist\""
4203	[[ "$check_namelist_files" = false ]] && mrun_com=${mrun_com}" -z"
4204	[[ "$combine_plot_fields" = false ]] && mrun_com=${mrun_com}" -Z"
4205	[[ "$max_par_io_str" != "" ]] && mrun_com=${mrun_com}" -w $max_par_io_str"
4206	if [[ $do_remote = true ]]
4207	then
4208	printf "\n>>>> MRUN-command on execution host:\n>>>> $mrun_com \n"
4209	fi
4210
4211
4212	# CREATE EXECUTABLE FOR BATCH JOB
4213	if [[ $create_executable_for_batch = true && $restart_run != true ]]
4214	then
4215
4216	printf "\n *** creating the executable for batch job\n"
4217
4218	# METHOD ONLY WORKS FOR BATCH JOBS ON LOCAL HOSTS
4219	if [[ $host != $localhost ]]
4220	then
4221	printf "\n +++ creation of executables is only allowed for batch jobs on local hosts."
4222	printf "\n Please set create_executable_for_batch = false in the config-file.\n"
4223	locat=create_executable; exit
4224	fi
4225
4226	mkdir $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
4227	cd $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
4228
4229	cp $make_depository .
4230	tar -xf $make_depository > /dev/null 2>&1
4231	cp ../* . > /dev/null 2>&1
4232
4233	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
4234
4235	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
4236	then
4237	printf "\n +++ error occured while compiling or linking"
4238	locat=compile
4239	exit
4240	fi
4241
4242	mv a.out ..
4243	cd - > /dev/null 2>&1
4244	rm -rf $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
4245
4246	printf " *** executable created in \"$working_directory/SOURCES_FOR_RUN_${fname}\"\n "
4247
4248	fi
4249
4250
4251	# BUILD THE JOB-SCRIPTS ON FILE jobfile
4252	jobfile=jobfile.$RANDOM
4253
4254
4255	# CREATE TEMPORARY DIRECTORY AND SWITCH TO IT
4256	echo "mkdir $TEMPDIR" >> $jobfile
4257	echo "cd $TEMPDIR" >> $jobfile
4258
4259
4260	# ACTIVATE ERROR-TRACEBACK
4261	if [[ $do_trace = true ]]
4262	then
4263	echo "set -x" >> $jobfile
4264	else
4265	echo "set +vx" >> $jobfile
4266	fi
4267
4268
4269	# INITIALIZE THE ENVIRONMENT AND LOAD MODULES
4270	if [[ "$init_cmds" != "" ]]
4271	then
4272	echo "$init_cmds" >> $jobfile
4273	fi
4274	if [[ "$module_calls" != "" ]]
4275	then
4276	echo "$module_calls" >> $jobfile
4277	fi
4278
4279
4280	# PROVIDE SOURCE-CODE FILES, MRUN-SCRIPT AND CONFIGURATION-FILE FOR THE JOB
4281	# then-CLAUSE: FILES ARE COLLECTED IN THE SOURCES_FOR_RUN_... DIRECTORY ON THE LOCAL HOST,
4282	# WHICH IS THEN FETCHED FROM THE BATCH-JOB BY USING cp/scp
4283	# THE SOURCE-CODE FILES ALREADY EXIST IN THIS DIRECTORY
4284	# else-CLAUSE: FILE-CONTENTS ARE PUT INTO THE JOB-FILE AS HERE-DOCUMENTS
4285	# THIS MAY CREATE A QUITE LARGE JOB-FILE, WHICH CAN CAUSE PROBLEMS WITH SOME
4286	# QUEUEING-SYSTEMS
4287	if [[ $host = ibmkisti \|\| $host = lcbullhh \|\| $host = lccrayb \|\| $host = lccrayf \|\| $host = lccrayh ]]
4288	then
4289
4290	# COPY CONFIGURATION-FILE AND MRUN-SCRIPT INTO THE SOURCES_FOR_RUN... DIRECTORY
4291	if [[ $restart_run != true ]]
4292	then
4293	cp $config_file $working_directory/SOURCES_FOR_RUN_$fname
4294	cp ${PALM_BIN}/$mrun_script_name $working_directory/SOURCES_FOR_RUN_$fname
4295	fi
4296
4297	# COPY THE SOURCES_FOR_RUN... DIRECTORY FROM THE LOCAL HOST TO THE JOB VIA scp
4298	# (then-CLAUSE: JOBS ON THE LOCAL HOST CAN JUST USE cp)
4299	echo "set -x" >> $jobfile
4300	if [[ $host = $localhost ]]
4301	then
4302	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
4303	# FILES ON CRAY XC30 SYSTEMS (CSC HELSINKI), rsync IS USED INSTEAD
4304	if [[ $(echo $host \| cut -c1-6) = lccray ]]
4305	then
4306	echo "rsync -av -t $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
4307	else
4308	echo "cp -r $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
4309	fi
4310
4311	else
4312	if [[ $host = ibmkisti ]]
4313	then
4314	# ON KISTI'S IBM FIREWALL IS ONLY OPENED ON INTERACTIVE NODE
4315	echo "localdir=\`pwd\`" >> $jobfile
4316	echo "ssh $SSH_PORTOPT $remote_username@gaiad \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
4317	elif [[ $host = lcbullhh ]]
4318	then
4319	echo "localdir=\`pwd\`" >> $jobfile
4320	echo "ssh $SSH_PORTOPT $remote_username@mlogin101 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
4321
4322	elif [[ $host = lccrayb ]]
4323	then
4324	echo "localdir=\`pwd\`" >> $jobfile
4325	echo "ssh $SSH_PORTOPT $remote_username@blogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
4326	elif [[ $host = lccrayh ]]
4327	then
4328	echo "localdir=\`pwd\`" >> $jobfile
4329	echo "ssh $SSH_PORTOPT $remote_username@hlogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
4330
4331	else
4332	echo "scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
4333	fi
4334	fi
4335	echo "export SOURCES_COMPLETE=true" >> $jobfile
4336
4337	# MOVE MRUN-SCRIPT AND CONFIGURATION-FILE FROM THE SOURCES_FOR_RUN... DIRECTORY TO THE
4338	# WORKING DIRECTORY OF THE JOB
4339	echo "mv SOURCES_FOR_RUN_$fname/$config_file . " >> $jobfile
4340	echo "mv SOURCES_FOR_RUN_$fname/$mrun_script_name . " >> $jobfile
4341	echo "chmod u+rwx $mrun_script_name" >> $jobfile
4342	echo "execute_mrun=true" >> $jobfile
4343	echo " " >> $jobfile
4344
4345	else
4346
4347	# PROVIDE SOURCE-CODE FILES AND MAKEFILE AS HERE DOCUMENT
4348	if [[ $do_compile = true ]]
4349	then
4350
4351	source_catalog=SOURCES_FOR_RUN_$fname
4352
4353	# CREATE SOURCES_FOR_RUN... DIRECTORY TO STORE THE SOURCE CODE FILES AND THE MAKEFILE
4354	echo "mkdir SOURCES_FOR_RUN_$fname" >> $jobfile
4355	echo "export SOURCES_COMPLETE=true" >> $jobfile
4356	echo "cd SOURCES_FOR_RUN_$fname" >> $jobfile
4357
4358	for filename in $source_list
4359	do
4360	# BACKSLASH IS USED FOR MASKING
4361	echo "cat > $filename << \"%END%\"" >> $jobfile
4362	cat $source_catalog/$filename >> $jobfile
4363	echo " " >> $jobfile
4364	echo "%END%" >> $jobfile
4365	echo " " >> $jobfile
4366	done
4367
4368	# BACKSLASH IS USED FOR MASKING
4369	echo "cat > Makefile << \"%END%\"" >> $jobfile
4370	cat $source_catalog/Makefile >> $jobfile
4371	echo " " >> $jobfile
4372	echo "%END%" >> $jobfile
4373	echo " " >> $jobfile
4374
4375	echo "cd - > /dev/null" >> $jobfile
4376
4377	fi
4378
4379
4380	# PROVIDE THE CONFIGURATION-FILE AS HERE-DOCUMENT
4381	# BACKSLASH IS USED FOR MASKING
4382	# LINES WITH #$ IN THE CONFIGURATION-FILE, COMING FROM THE SVN KEYWORD SUBSTITUTION,
4383	# ARE REMOVED FROM THE FILE IN ORDER TO AVOID PROBLEMS WITH THE SGE BATCH SYSTEM
4384	echo "cat > $config_file << \"%END%\"" >> $jobfile
4385	if [[ $host = lckyuh ]]
4386	then
4387	# NO CROSS-COMPILER ON COMPUTE NODE
4388	sed 's/frtpx/frt/g' $config_file >> $jobfile
4389	else
4390	sed 's/#$.*//g' $config_file >> $jobfile
4391	fi
4392	echo "%END%" >> $jobfile
4393	echo " " >> $jobfile
4394
4395
4396	# PROVIDE THE MRUN-SCRIPTS AS HERE-DOCUMENT
4397	# BACKSLASH IS USED FOR MASKING
4398	echo "cat > $mrun_script_name <<\"%END%\"" >> $jobfile
4399	if [[ $host = lckyuh ]]
4400	then
4401	sed 's/\/bin\/ksh/\/bin\/bash/g' ${PALM_BIN}/$mrun_script_name >> $jobfile
4402	else
4403	cat ${PALM_BIN}/$mrun_script_name >> $jobfile
4404	fi
4405	echo "%END%" >> $jobfile
4406	echo "chmod u+x $mrun_script_name" >> $jobfile
4407	echo "execute_mrun=true" >> $jobfile
4408	echo " " >> $jobfile
4409
4410	fi
4411
4412
4413	# GET REQUIRED INPUT-FILES BY SCP OR BY SENDING THEM WITH THE JOB AS HERE-DOCUMENT
4414	# PUT THESE FILES INTO THE USER'S RESPECTIVE PERMANENT DIRECTORIES ON THE REMOTE-HOST
4415	# IF THE DIRECTORIES DO NOT EXIST, TRY TO CREATE THEM
4416	if [[ $do_remote = true ]]
4417	then
4418	(( i = 0 ))
4419	while (( i < iin ))
4420	do
4421	(( i = i + 1 ))
4422	echo "[[ ! -d ${pathin[$i]} ]] && mkdir -p ${pathin[$i]}" >> $jobfile
4423	if [[ "${transin[$i]}" = job ]]
4424	then
4425	echo "cat > ${remotepathin[$i]} <<\"%END%\"" >> $jobfile
4426	eval cat ${pathin[$i]}/${frelin[$i]} >> $jobfile
4427	echo " " >> $jobfile
4428	echo "%END%" >> $jobfile
4429	else
4430	echo "batch_scp $PORTOPT -b -o -g -s -u $return_username $return_address ${remotepathin[$i]} \"${pathin[$i]}\" ${frelin[$i]}" >> $jobfile
4431	fi
4432
4433	# CHECK, IF FILE COULD BE CREATED
4434	echo "if [[ \$? = 1 ]]" >> $jobfile
4435	echo "then" >> $jobfile
4436	echo " echo \" \" " >> $jobfile
4437	echo " echo \"+++ file ${remotepathin[$i]} could not be created\" " >> $jobfile
4438	echo " echo \" please check, if directory exists on $host!\" " >> $jobfile
4439	echo " echo \"+++ MRUN will not be continued\" " >> $jobfile
4440	echo " execute_mrun=false" >> $jobfile
4441	echo "fi" >> $jobfile
4442	done
4443	fi
4444
4445	# PROVIDE NAME OF THE CURRENT WORKING-DIRECTORY ON THE LOCAL MACHINE (FROM WHERE THE JOB IS
4446	# STARTED) BY SETTING AN ENVIRONMENT-VARIABLE. THIS INFORMATION IS USED IN THE JOB BY MRUN
4447	# IN CASE THAT RESTART-RUNS HAVE TO BE GENERATED
4448	echo "LOCAL_PWD=$working_directory" >> $jobfile
4449	echo "export LOCAL_PWD" >> $jobfile
4450
4451	# PROVIDE THE PATH OF THE LOCAL MRUN-SCRIPT FOR THE SAME REASON
4452	echo "LOCAL_MRUN_PATH=$PALM_BIN" >> $jobfile
4453	echo "export LOCAL_MRUN_PATH" >> $jobfile
4454
4455	# lcflow ALSO REQUIRES TO PROVIDE PATH FOR THE PALM-SCRIPTS
4456	# if [[ $host = lcflow \|\| $localhost = lcflow ]]
4457	# then
4458	echo "export PALM_BIN=$PALM_BIN" \| sed -e 's:'$HOME':$HOME:' >> $jobfile
4459	echo "export PATH=\$PATH:\$PALM_BIN" >> $jobfile
4460	# fi
4461
4462	# CALL MRUN WITHIN THE JOB (SETTING QUEUE IS A WORKAROUND FOR ibmkisti)
4463	# AS FINAL ACTION, REMOVE THE TEMPORARY DIRECTORY CREATED AT THE BEGINNING OF THE JOB
4464	echo "set -x" >> $jobfile
4465	echo "queue=$queue" >> $jobfile
4466	echo "[[ \$execute_mrun = true ]] && ./$mrun_com" >> $jobfile
4467	echo 'ls -al; echo `pwd`' >> $jobfile
4468	echo "cd \$HOME" >> $jobfile
4469	echo "rm -rf $TEMPDIR" >> $jobfile
4470
4471
4472
4473
4474	# START THE JOB USING SUBJOB-COMMAND
4475	if [[ $silent = false ]]
4476	then
4477	printf "\n "
4478	else
4479	printf "\n\n"
4480	fi
4481
4482	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
4483	rm -rf $jobfile
4484
4485
4486	fi # END OF REMOTE-PART

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