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source: palm/trunk/SCRIPTS/mrun @ 1914

Last change on this file since 1914 was 1914, checked in by witha, 8 years ago
Merged branch/forwind into trunk
Property svn:keywords set to `Id Rev`
File size: 169.6 KB

Line
1	#!/bin/bash
2
3	# mrun - script for running PALM jobs
4
5	#--------------------------------------------------------------------------------#
6	# This file is part of PALM.
7	#
8	# PALM is free software: you can redistribute it and/or modify it under the terms
9	# of the GNU General Public License as published by the Free Software Foundation,
10	# either version 3 of the License, or (at your option) any later version.
11	#
12	# PALM is distributed in the hope that it will be useful, but WITHOUT ANY
13	# WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR
14	# A PARTICULAR PURPOSE. See the GNU General Public License for more details.
15	#
16	# You should have received a copy of the GNU General Public License along with
17	# PALM. If not, see <http://www.gnu.org/licenses/>.
18	#
19	# Copyright 1997-2015 Leibniz Universitaet Hannover
20	#--------------------------------------------------------------------------------#
21	#
22	# Current revisions:
23	# ------------------
24	#
25	#
26	# Former revisions:
27	# -----------------
28	# $Id: mrun 1914 2016-05-26 14:44:07Z witha $
29	#
30	# 1866 2016-04-15 06:50:59Z raasch
31	# adjusted for lcocean
32	#
33	# 1841 2016-04-07 19:14:06Z raasch
34	# script now running under bash
35	#
36	# 1804 2016-04-05 16:30:18Z maronga
37	# test: implementing an execute mechanism where the execute command is given in the
38	# configuration file
39	# ROPTS removed from execution commands
40	# Warnings about missing optional files or user code changed to informative messages
41	# Removed parameter file check
42	#
43	# 1755 2016-02-22 13:53:39Z maronga
44	# Minor bugfix to last commit
45	#
46	# 1753 2016-02-22 13:49:49Z maronga
47	# Bugfix: use random job number when PBS job nummer retrieval fails on lccray*
48	#
49	# 1622 2015-07-20 06:21:36Z heinze
50	# bugfix for Mistral (lcbullhh)
51	#
52	# 1621 2015-07-17 11:39:33Z heinze
53	# adjustments for Mistral at DKRZ Hamburg (lcbullhh)
54	#
55	# 1609 2015-07-03 15:37:58Z maronga
56	# Modified the random number of the temporary working directory to match the
57	# queuing system number on HLRN-III (lccray*).
58	#
59	# 1604 2015-06-23 15:48:03Z suehring
60	# Enable coupled runs for lcmuk
61	#
62	# 1598 2015-05-29 06:45:40Z raasch
63	# bugfix for creating hostfile and total number of MPI tasks if run in openmp-mode on one node
64	#
65	# 1549 2015-01-30 14:26:16Z suehring
66	# Enable interactive debug sessions with allinea debugger
67	#
68	# 1547 2015-01-29 15:09:12Z witha
69	# adjustments for ForWind computing cluster (lcflow)
70	#
71	# 1491 2014-11-12 08:12:57Z heinze
72	# correct setting of batch_job allowed for ibm-machines
73	#
74	# 1468 2014-09-24 14:06:57Z maronga
75	# Typo removed (addres->address)
76	# Bugfix: returning files to IMUK via ssh did not work for lccrayh and lcycrayb
77	# Added support for restart runs (remote) for lcxe6
78	#
79	# 1442 2014-07-28 07:09:10Z raasch
80	# default queues for HLRN-III (lccrayb/lccrayh) defined
81	#
82	# 1422 2014-07-02 10:01:25Z kanani
83	# automatic restarts enabled for lccrayb,
84	# adjustment of path to compilervars.sh at IMUK (see automatic restarts)
85	#
86	# 1420 2014-06-10 06:24:14Z raasch
87	# -j1 option added to aprung command for lccrayf (CSC)
88	#
89	# 1402 2014-05-09 14:25:13Z raasch
90	# batch_job added to envpar-NAMELIST
91	#
92	# 1357 2014-04-11 15:02:03Z witha
93	# adjustments for lccrayh (automatic restarts on lccrayh outside of IMUK are now
94	# possible)
95	#
96	# 1320 2014-03-20 08:40:49Z raasch
97	# check namelist file set false by default
98	#
99	# 1304 2014-03-12 10:29:42Z raasch
100	# ulimit option changed from -Ss to -s
101	#
102	# bugfix: missing "fi" in r1289
103	#
104	# 1289 2014-03-04 07:12:34Z raasch
105	# comments translated to English
106	# necriam-, fimm-, ibmy-, and sgi-specific code removed
107	# export of variables for palm and interpret_config removed
108	#
109	# 1281 2014-02-01 07:55:49Z raasch
110	# rsync-copy restricted to Cray machines, since command is unavailable on some
111	# other systems
112	#
113	# 1279 2014-01-28 12:10:14Z raasch
114	# tasks_per_node must not be an integral divisor of numprocs any more. This was done
115	# in order to remove annoying restrictions concerning the number of processors which
116	# appear on machines with larger nodes (e.g. containing 24 cores). Now without this
117	# restriction, one of the nodes will be filled with less than the given number of
118	# tasks per node. A respective warning is given.
119	#
120	# 1274 2014-01-09 13:14:54Z heinze
121	# adjustments for lccrayh
122	#
123	# 1272 2014-01-08 10:19:32Z witha
124	# small adjustment for lcflow
125	#
126	# 1270 2013-12-16 11:05:01Z fricke
127	# call of combine_plot_fields adjusted for lccrayb/lccrayh
128	#
129	# 1255 2013-11-07 14:43:35Z raasch
130	# further adjustments for lccrayb remote access
131	#
132	# 1241 2013-10-30 11:36:58Z heinze
133	# Enable use of nudging input and input of large scale forcing from
134	# external files
135	#
136	# 1229 2013-09-20 06:55:19Z raasch
137	# further adjustments for lccrayb
138	#
139	# 1224 2013-09-16 07:27:23Z raasch
140	# first adjustments for lccrayb
141	#
142	# 1210 2013-08-14 10:58:20Z raasch
143	# fftw support added
144	#
145	# 1201 2013-07-10 16:17:59Z witha
146	# adjustments for Forwind cluster (lcflow)
147	#
148	# 1199 2013-07-05 14:52:22Z raasch
149	# adjustments for CSC Helsinki (lccrayf),
150	# executables for batch jobs can be created in advance, in order to avoid calling
151	# the compiler within the batch job (only works if batch jobs are submitted on
152	# local host)
153	#
154	# 1190 2013-06-25 09:39:21Z heinze
155	# enable use of automatic restarts for ibmh
156	# use of cluster/express queue enabled (ibmh)
157	#
158	# 1124 2013-04-09 15:46:52Z raasch
159	# variable "memory" is exported via typeset option -x, because otherwise an unknown
160	# side effect may lead to data loss while getopts is reading the script-option arguments
161	#
162	# 1122 2013-04-09 08:37:16Z heinze
163	# Bugfix: change type of variable last_char
164	#
165	# 1119 2013-04-05 15:11:19Z raasch
166	# Bugfix for setting -T option for subjob
167	#
168	# 1108 2013-03-05 07:03:32Z raasch
169	# bugfix for coupled runs on lckyut/lckyuh
170	#
171	# 1106 2013-03-04 05:31:38Z raasch
172	# --stdin argument for mpiexec on lckyuh
173	# -y and -Y settings output to header
174	#
175	# 1103 2013-02-20 02:15:53Z raasch
176	# default script runs again under ksh, because of unsolved problems with read
177	# from stdin: when bash script is called from a ksh, message "read error: 0:
178	# Resource temporarily unavailable" appears and script does not stop,
179	# further bash compatibility adjustments,
180	# shebang line replaced by /bin/bash when running jobs on lckyuh; no restarts
181	# on lckyuh, but mrun does not terminate and issues a warning instead
182	#
183	# 1101 2013-02-17 10:20:21Z raasch
184	# script now running under bash instead of ksh, which required small adjustments
185	# (output formatting with printf instead "typeset -L/-R", print replaced by echo,
186	# read from stdin),
187	# cross compilername on lckyuh compute nodes replaced by real compiler name
188	#
189	# 1099 2013-02-10 01:47:43Z raasch
190	# adjustments for Kyushu-University computing center (lckyuh - hayaka)
191	# and for Forwind cluster (lcflow)
192	# small further adjustments for lckyut
193	#
194	# 1094 2013-02-03 01:52:12Z raasch
195	# explicit ssh/scp port can be set in config file with environment variable
196	# scp_port. This port is handled to all ssh/scp/batch_scp calls.
197	# decalpha parts (yonsei) removed
198	#
199	# 2013-02-02 07:06:13Z raasch
200	# adjustments for Kyushu-University computing center (lckyut - tatara)
201	#
202	# 1083 2013-01-04 10:22:09Z maronga
203	# bugfix in parameter file check (read %cpp_options was missing)
204	#
205	# 1069 2012-11-28 16:18:43Z maronga
206	# bugfix: coupling mode was always set to mpi2, typos removed
207	#
208	# 1058 2012-11-21 07:00:35Z raasch
209	# Intel inspector (inspxe) is given the number of PEs instead of the number of
210	# nodes
211	#
212	# 1046 2012-11-09 14:38:45Z maronga
213	# code put under GPL (PALM 3.9)
214	#
215	# 21/03/94 - Siggi - first version finished
216	# 03/03/94 - Siggi - script development started
217	#
218	#--------------------------------------------------------------------------------#
219	# mrun - script for running PALM jobs
220	#--------------------------------------------------------------------------------#
221
222
223
224	# DECLARATION OF VARIABLES AND THEIR DEFUALT VALUES
225
226	set +o allexport # SUPPRESS EXPORT OF ALL VARIABLES, SINCE IN THE PAST THIS
227	# LES TO PROBLEMS IN ROUTINES CALLED BY MRUN
228	# (TOO MANY ARGUMENTS - PROBLEM)
229	set +o noclobber # EXISTING FILES ARE ALLOWED TO BE OVERWRITTEN
230
231	AddFilenames=""
232	additional_conditions=""
233	add_source_path=""
234	afname=""
235	archive_save=true
236	archive_system=none
237	check_namelist_files=false
238	combine_plot_fields=true
239	compiler_name=""
240	cond1=""
241	cond2=""
242	config_file=.mrun.config
243	coupled_dist=""
244	coupled_mode="mpi1"
245	cpp_opts=""
246	cpp_options=""
247	cpumax=0
248	cpurest=0
249	create_executable_for_batch=false
250	delete_temporary_catalog=true
251	do_batch=false
252	do_compile=true
253	do_remote=false
254	do_stagein=true
255	do_stageout=true
256	do_trace=false
257	email_notification="none"
258	exclude=""
259	executable=""
260	execute_command="none"
261	execution_error=false
262	fftw_inc=""
263	fftw_lib=""
264	fftw_support=false
265	fname=test
266	fromhost=""
267	global_revision=""
268	group_number=none
269	host=""
270	host_file=""
271	hp=""
272	ignore_archive_error=false
273	input_list=""
274	interpreted_config_file=""
275	job_catalog="~/job_queue"
276	job_on_file=""
277	keep_data_from_previous_run=false
278	link_local_input=false
279	link_local_output=false
280	localhost_realname=$(hostname)
281	local_dvrserver_running=.FALSE.
282	locat=normal
283	mainprog=""
284	makefile=""
285	max_par_io_str=""
286	mc=$0
287	while [[ $(echo $mc \| grep -c "/") != 0 ]]
288	do
289	mc=`echo $mc \| cut -f2- -d"/"`
290	done
291	module_calls=""
292	mrun_script_name=$mc
293	netcdf_inc=""
294	netcdf_lib=""
295	netcdf_support=false
296	node_usage=default
297	numprocs=""
298	numprocs_atmos=0
299	numprocs_ocean=0
300	OOPT=""
301	openmp=false
302	output_list=""
303	package_list=""
304	queue=none
305	read_from_config=""
306	restart_run=false
307	if [[ `hostname` = rte10 ]]
308	then
309	return_address=133.5.185.60
310	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
311	elif [[ `hostname` = climate0 ]]
312	then
313	return_address=165.132.26.68
314	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
315	elif [[ `hostname` = "schultzl-Latitude-E6540" ]]
316	then
317	return_address="schultzl-Latitude-E6540"
318	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
319	elif [[ `hostname` = urban00 ]]
320	then
321	return_address=147.46.30.151
322	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
323	else
324	return_address=$(nslookup `hostname` 2>&1 \| grep "Address:" \| tail -1 \| awk '{print $2}')
325	fi
326	return_password=""
327	return_username=$LOGNAME
328	remotecall=false
329	remote_username=""
330	run_coupled_model=false
331	run_mode=""
332	store_on_archive_system=false
333	dashes=" ----------------------------------------------------------------------------"
334	silent=false
335	source_list=""
336	source_path=SOURCE
337	tasks_per_node=""
338	threads_per_task=1
339	tmpcreate=false
340	tmp_data_catalog=""
341	transfer_problems=false
342	usern=$LOGNAME
343	use_openmp=false
344	version="MRUN 2.1 Rev$Rev: 1914 $"
345	working_directory=`pwd`
346	TOPT=""
347	XOPT=""
348	zeit=$( date \| cut -c 12-19 )
349
350	typeset -i iec=0 iic=0 iin=0 ioc=0 iout=0 stagein_anz=0 stageout_anz=0
351	typeset -x -i memory=0 # HAS TO BE EXPORTED HERE, OTHERWISE AN UNKNOWN SIDE
352	# SIDE EFFECT MAY CAUSE DATA LOSS WHEN GETOPTS IS READING THE
353	# SCRIPT-OPTION ARGUMENTS
354	typeset -i cputime i ii iia iii iio icycle inode ival jobges jobsek last_char_int maxcycle minuten nodes pes remaining_pes sekunden tp1
355
356	# ERROR HANDLING IN CASE OF EXIT
357	trap 'rm -rf $working_directory/tmp_mrun
358	if [[ $locat != normal && $locat != control_c ]]
359	then
360
361	# CARRY OUT ERROR-COMMANDS GIVEN IN THE CONFIGURATION FILE (EC:)
362	(( i = 0 ))
363	while (( i < iec ))
364	do
365	(( i = i + 1 ))
366	printf "\n *** Execution of ERROR-command:\n"
367	printf " >>> ${err_command[$i]}\n"
368	eval ${err_command[$i]}
369	done
370	if [[ -n $interpreted_config_file ]]
371	then
372	rm -rf $interpreted_config_file
373	fi
374	if [[ -n .mrun_environment ]]
375	then
376	rm -rf .mrun_environment
377	fi
378	if [[ $tmpcreate = true ]]
379	then
380	printf "\n *** Contents of \"$TEMPDIR\":\n"
381	ls -al; cd
382	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
383	fi
384	if [[ "$dvrserver_id" != "" ]]
385	then
386	echo "+++ killing dvrserver_id=$dvrserver_id"
387	kill $dvrserver_id
388	fi
389	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
390	then
391	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
392	fi
393	printf "\n\n+++ MRUN killed \n\n"
394	elif [[ $locat != control_c ]]
395	then
396	printf "\n\n --> all actions finished\n\n"
397	printf " Bye, bye $usern !!\n\n"
398	fi' exit
399
400
401	# ACTIONS IN CASE OF TERMINAL-BREAK (CONTROL-C):
402	trap 'rm -rf $working_directory/tmp_mrun
403	rm -rf $working_directory/tmp_check_namelist_files
404	[[ $tmpcreate = true ]] && (cd; rm -rf $TEMPDIR)
405	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
406	then
407	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
408	fi
409	if [[ "$dvrserver_id" != "" ]]
410	then
411	echo "+++ killing dvrserver_id=$dvrserver_id"
412	kill $dvrserver_id
413	fi
414	printf "\n+++ MRUN killed by \"^C\" \n\n"
415	locat=control_c
416	exit
417	' 2
418
419
420	# CHECK IF THE PATH FOR THE PALM BINARIES (SCRIPTS+UTILITY-PROGRAMS) HAS
421	# BEEN SET
422	if [[ "$PALM_BIN" = "" ]]
423	then
424	printf "\n +++ environment variable PALM_BIN has not been set"
425	printf "\n please set it to the directory where the PALM scripts are located"
426	locat=palm_bin; exit
427	fi
428	export PATH=$PALM_BIN:$PATH
429
430
431
432	# READ SHELLSCRIPT-OPTIONS AND REBUILD THE MRUN-COMMAND STRING (MC),
433	# WHICH WILL BE USED TO START RESTART-JOBS
434	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
435	do
436	case $option in
437	(a) afname=$OPTARG;;
438	(A) store_on_archive_system=true; mc="$mc -A";;
439	(b) do_batch=true; mc="$mc -b";;
440	(B) delete_temporary_catalog=false; mc="$mc -B";;
441	(c) config_file=$OPTARG; mc="$mc -c$OPTARG";;
442	(C) restart_run=true; mc="$mc -C";;
443	(d) fname=$OPTARG; mc="$mc -d$OPTARG";;
444	(D) cpp_opts="$cpp_opts $OPTARG"; mc="$mc -D'$OPTARG'";;
445	(F) job_on_file="-D"; mc="$mc -F";;
446	(g) group_number=$OPTARG; mc="$mc -g$OPTARG";;
447	(G) global_revision=$OPTARG; mc="$mc -G'$OPTARG'";;
448	(h) host=$OPTARG; mc="$mc -h$OPTARG";;
449	(H) fromhost=$OPTARG; mc="$mc -H$OPTARG";;
450	(i) input_list=$OPTARG; mc="$mc -i'$OPTARG'";;
451	(I) ignore_archive_error=true; mc="$mc -I";;
452	(k) keep_data_from_previous_run=true; mc="$mc -k";;
453	(K) additional_conditions="$OPTARG"; mc="$mc -K'$OPTARG'";;
454	(m) memory=$OPTARG; mc="$mc -m$OPTARG";;
455	(M) makefile=$OPTARG; mc="$mc -M$OPTARG";;
456	(n) node_usage=$OPTARG; mc="$mc -n$OPTARG";;
457	(o) output_list=$OPTARG; mc="$mc -o'$OPTARG'";;
458	(O) use_openmp=true; threads_per_task=$OPTARG; mc="$mc -O$OPTARG";;
459	(p) package_list=$OPTARG; mc="$mc -p'$OPTARG'";;
460	(P) return_password=$OPTARG; mc="$mc -P$OPTARG";;
461	(q) queue=$OPTARG; mc="$mc -q$OPTARG";;
462	(r) run_mode=$OPTARG; mc="$mc -r'$OPTARG'";;
463	(R) remotecall=true;return_address=$OPTARG; mc="$mc -R$OPTARG";;
464	(s) source_list=$OPTARG; mc="$mc -s'$OPTARG'";;
465	(S) read_from_config=false; mc="$mc -S";;
466	(t) cpumax=$OPTARG; mc="$mc -t$OPTARG";;
467	(T) mrun_tasks_per_node=$OPTARG; mc="$mc -T$OPTARG";;
468	(u) remote_username=$OPTARG; mc="$mc -u$OPTARG";;
469	(U) return_username=$OPTARG; mc="$mc -U$OPTARG";;
470	(v) silent=true; mc="$mc -v";;
471	(w) max_par_io_str=$OPTARG; mc="$mc -w$OPTARG";;
472	(x) do_trace=true;set -x; mc="$mc -x";;
473	(X) numprocs=$OPTARG; mc="$mc -X$OPTARG";;
474	(y) ocean_file_appendix=true; mc="$mc -y";;
475	(Y) run_coupled_model=true; coupled_dist=$OPTARG; mc="$mc -Y'$OPTARG'";;
476	(z) check_namelist_files=false; mc="$mc -z";;
477	(Z) combine_plot_fields=false; mc="$mc -Z";;
478	(\?) printf "\n +++ unknown option $OPTARG \n"
479	printf "\n --> type \"$0 ?\" for available options \n"
480	locat=parameter;exit;;
481	esac
482	done
483
484
485	# SKIP GIVEN OPTIONS TO READ POSITIONAL PARAMETER, IF GIVEN
486	# CURRENTLY ONLY PARAMETER ? (TO OUTPUT A SHORT COMMAND INFO) IS ALLOWED
487	(( to_shift = $OPTIND - 1 ))
488	shift $to_shift
489
490	# PRINT SHORT DESCRIPTION OF MRUN OPTIONS
491	if [[ "$1" = "?" ]]
492	then
493	(printf "\n *** mrun can be called as follows:\n"
494	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"
495	printf "\n Description of available options:\n"
496	printf "\n Option Description Default-Value"
497	printf "\n -a base name of input files equiv. -d"
498	printf "\n -A archiving when using file-attribute fl"
499	printf "\n -b batch-job on local machine ---"
500	printf "\n -B do not delete temporary directory at end ---"
501	printf "\n -c configuration file .mrun.config"
502	printf "\n -d base name of files attached to program test"
503	printf "\n -D preprocessor(cpp)-directives \"\" "
504	printf "\n -F create remote job file only ---"
505	printf "\n -h execution host $localhost_realname"
506	printf "\n -i INPUT control list \"\" "
507	printf "\n -I archiving errors of previous batch-jobs"
508	printf "\n will be ignored"
509	printf "\n -k keep data from previous run"
510	printf "\n -K additional conditions for controling"
511	printf "\n usage of conditional code and"
512	printf "\n env-variables in configuration file \"\" "
513	printf "\n -m memory demand in MB (batch-jobs) 0 MB"
514	printf "\n -M Makefile name Makefile"
515	printf "\n -n node usage (shared/not_shared) depending on -h"
516	printf "\n -o OUTPUT control list \"\" "
517	printf "\n -O threads per openMP task ---"
518	printf "\n -p software package list \"\" "
519	printf "\n -q queue \"$queue\" "
520	printf "\n -r run control list (combines -i -o) \"\" "
521	printf "\n -s filenames of routines to be compiled \"\" "
522	printf "\n must end with .f, .f90, .F, or .c !"
523	printf "\n use \"..\" for more than one file and wildcards"
524	printf "\n -s LM compiles all locally modified files"
525	printf "\n -S config file interpreted by shellscript ---"
526	printf "\n -t allowed cpu-time in seconds (batch) 0"
527	printf "\n -T tasks per node depending on -h"
528	printf "\n -u username on remote machine \"\" "
529	printf "\n -v no prompt for confirmation ---"
530	printf "\n -w maximum parallel io streams as given by -X"
531	printf "\n -x tracing of mrun for debug purposes ---"
532	printf "\n -X # of processors (on parallel machines) 1"
533	printf "\n -y add appendix \"_O\" to all local output"
534	printf "\n files (ocean precursor runs followed by"
535	printf "\n coupled atmosphere-ocean runs) ---"
536	printf "\n -Y run coupled model, \"#1 #2\" with"
537	printf "\n #1 atmosphere and #2 ocean processors \"#/2 #/2\" depending on -X"
538	printf "\n -Z skip combine_plot_fields at the end of "
539	printf "\n the simulation ---"
540	printf "\n "
541	printf "\n Possible values of positional parameter <modus>:"
542	printf "\n \"?\" - this outline \n\n") \| more
543	exit
544	elif [[ "$1" != "" ]]
545	then
546	printf "\n +++ positional parameter $1 unknown \n"
547	locat=parameter; exit
548	fi
549
550
551
552	# SHORT STARTING MESSAGE
553	printf "\n*** $version "
554	printf "\n will be executed. Please wait ..."
555
556
557
558	# CHECK, IF CONFIGURATION FILE EXISTS
559	if [[ ! -f $config_file ]]
560	then
561	printf "\n\n +++ configuration file: "
562	printf "\n $config_file"
563	printf "\n does not exist"
564	locat=connect; exit
565	fi
566
567
568	# DETERMINE THE HOST-IDENTIFIER (localhost) FROM THE CONFIGURATION FILE
569	line=""
570	grep "%host_identifier" $config_file > tmp_mrun
571	while read line
572	do
573	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
574	then
575	HOSTNAME=`echo $line \| cut -d" " -s -f2`
576	host_identifier=`echo $line \| cut -d" " -s -f3`
577	if [[ $localhost_realname = $HOSTNAME ]]
578	then
579	localhost=$host_identifier
580	break
581	fi
582	fi
583	done < tmp_mrun
584
585	if [[ "$localhost" = "" ]]
586	then
587	printf "\n\n +++ no host identifier found in configuration file \"$config_file\""
588	printf "\n for local host \"$localhost_realname\"."
589	printf "\n Please add line"
590	printf "\n \"\%host_identifier $localhost_realname <identifier>\""
591	printf "\n to the configuration file."
592	locat=localhost; exit
593	fi
594
595
596	# SET HOST-SPECIFIC VARIABLES
597	case $localhost_realname in
598	(r1\|r2\|h01\|b01) archive_system=tivoli;;
599	(cs*) archive_system=ut;;
600	esac
601
602
603	# ??? THIS SHOULD BE DECRIBED IN THE MRUN DOCUMENTATION ???
604	# SET BASENAME OF THE INPUT-FILES TO THE GENERAL BASENAME (GIVEN BY OPTION -d),
605	# IF IT HAS NOT BEEN SET BY THE USER DIFFERENTLY (USING OPTION -a)
606	[[ "$afname" = "" ]] && afname=$fname
607
608
609	# ADD RUN-FILE ACTIVATION STRINGS (GIVEN BY OPTION -r) TO THE
610	# RESPECTIVE LISTS FOR ACTIVATING THE INPUT/OUTPUT FILE CONNECTION
611	# STATEMENTS IN THE CONFIGURATION FILE
612	if [[ "$run_mode" != "" ]]
613	then
614	input_list="$input_list $run_mode"
615	output_list="$output_list $run_mode"
616	fi
617
618
619	# ??? is this (and the respective option -H) really required ???
620	# STORE HOSTNAME, FROM WHICH THE JOB IS STARTED,
621	# BUT ONLY IF IT HASN'T BEEN ALREADY SET BY OPTION -H
622	# (MRUN IS AUTOMATICALLY SETTING THIS OPTION IN THE MRUN-CALLS WITHIN
623	# THOSE BATCH-JOBS, WHICH ARE CREATED BY MRUN ITSELF)
624	if [[ "$fromhost" = "" ]]
625	then
626	fromhost=$localhost
627	fi
628
629
630	# CHECK, IF EXECUTION SHALL TO BE DONE ON THE REMOTE-MACHINE.
631	# VALUE OF do_remote IS IMPORTANT FOR THE FILE CONNECTIONS.
632	# IN CASE OF EXECUTION ON A REMOTE-MACHINE, A BATCH-JOB HAS
633	# TO BE SUBMITTED (I.E. do_batch=true)
634	if [[ -n $host && "$host" != $localhost ]]
635	then
636	do_batch=true
637	do_remote=true
638	case $host in
639	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|nech\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lcflow\|lckyoto\|lcocean\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
640	(*) printf "\n"
641	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
642	printf "\n is not available"
643	locat=nqs; (( iec = 0 )); exit;;
644	esac
645	else
646	host=$localhost
647	fi
648
649
650	# EVALUATE ADDITIONAL CONDITIONS GIVEN BY OPTION -K
651	if [[ -n $additional_conditions ]]
652	then
653	cond1=`echo $additional_conditions \| cut -d" " -f1`
654	cond2=`echo $additional_conditions \| cut -d" " -s -f2`
655	dummy=`echo $additional_conditions \| cut -d" " -s -f3`
656	if [[ -n $dummy ]]
657	then
658	printf "\n +++ more than 2 additional conditions given for Option \"-K\""
659	locat=options; exit
660	fi
661	block=_$cond1
662	[[ -n $cond2 ]] && block=${block}_$cond2
663	fi
664
665
666	# EVALUATE MODEL COUPLING FEATURES (OPTION -Y) AND DETERMINE coupled_mode
667	if [[ $run_coupled_model = true ]]
668	then
669
670	numprocs_atmos=`echo $coupled_dist \| cut -d" " -s -f1`
671	numprocs_ocean=`echo $coupled_dist \| cut -d" " -s -f2`
672
673	if (( $numprocs_ocean + $numprocs_atmos != $numprocs ))
674	then
675
676	printf "\n +++ number of processors does not fit to specification by \"-Y\"."
677	printf "\n PEs (total) : $numprocs"
678	printf "\n PEs (atmosphere): $numprocs_atmos"
679	printf "\n PEs (ocean) : $numprocs_ocean"
680	locat=coupling; exit
681
682	fi
683
684
685	# GET coupled_mode FROM THE CONFIG FILE
686	line=""
687	grep "%cpp_options.-D__mpi2.$host" $config_file > tmp_mrun
688	while read line
689	do
690	echo line=\"$line\"
691	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" && $(echo $line \| cut -d" " -s -f4) = $cond1 && $(echo $line \| cut -d" " -s -f5) = $cond2 ]]
692	then
693	coupled_mode="mpi2"
694	fi
695	done < tmp_mrun
696
697	fi
698
699	# CHECK, IF FILE-ARCHIVING HAS FAILED IN PREVIOUS JOB (OF A JOB-CHAIN)
700	if [[ -f ~/job_queue/ARCHIVE_ERROR_$fname ]]
701	then
702	if [[ $ignore_archive_error = false ]]
703	then
704	printf "\n +++ data archiving of previous run failed"
705	printf "\n see directory \~/job_queue on remote machine"
706	locat=archive; exit
707	else
708	printf "\n +++ warning: data archiving in a previous run failed"
709	printf "\n MRUN continues, trying to get backup copy"
710	fi
711	fi
712
713
714	# SAVE VALUES OF MRUN-OPTIONS SICHERN IN ORDER TO OVERWRITE
715	# THOSE VALUES GIVEN IN THE CONFIGURATION-FILE
716	mrun_memory=$memory
717	mrun_group_number=$group_number
718	mrun_cpumax=$cpumax
719	mrun_numprocs=$numprocs
720
721
722	# READ AND EVALUATE THE CONFIGURATION-FILE FROM WITHIN THIS SHELLSCRIPT
723	# (OPTION -S). THE DEFAULT IS USING THE ROUTINE <<<<
724	if [[ "$read_from_config" = false ]]
725	then
726	[[ $silent = false ]] && printf "\n Reading the configuration file... "
727
728	# READ THE CONFIGURATION FILE LINE BY LINE
729	while read zeile
730	do
731	[[ $silent = false ]] && printf "."
732
733
734	# FIRST REPLACE ENVIRONMENT-VARIABLES BY THEIR RESPECTIVE VALUES
735	eval zeile=\"$zeile\"
736
737
738	# INTERPRET THE LINE
739	if [[ "$(echo $zeile)" = "" ]]
740	then
741	# EMPTY LINE, NO ACTION
742	continue
743
744	elif [[ "$(echo $zeile \| cut -c1)" = "#" ]]
745	then
746
747	# LINE IS A COMMENT LINE
748	true
749
750	elif [[ "$(echo $zeile \| cut -c1)" = "%" ]]
751	then
752
753	# LINE DEFINES AN ENVIRONMENT-VARIABLE
754	zeile=$(echo $zeile \| cut -c2-)
755	var=`echo $zeile \| cut -d" " -f1`
756	value=`echo $zeile \| cut -d" " -s -f2`
757	for_host=`echo $zeile \| cut -d" " -s -f3`
758	for_cond1=`echo $zeile \| cut -d" " -s -f4`
759	for_cond2=`echo $zeile \| cut -d" " -s -f5`
760
761	if [[ "$for_host" = "" \|\| ( "$for_host" = $host && "$for_cond1" = "$cond1" && "$for_cond2" = "$cond2" ) \|\| $(echo "$input_list$output_list"\|grep -c "$for_host") != 0 ]]
762	then
763
764	# REPLACE ":" BY " " IN COMPILER- CPP- OR LINKER-OPTIONS,
765	# "::" IS REPLACED BY ":".
766	value=`echo $value \| sed 's/::/%DUM%/g' \| sed 's/:/ /g' \| sed 's/%DUM%/:/g'`
767
768
769	# VALUE FROM THE CONFIGURATION-FILE IS ASSIGNED TO THE
770	# ENVIRONMENT-VARIABLE, BUT ONLY IF NO VALUE HAS BEEN ALREADY
771	# ASSIGNED WITHIN THIS SCRIPT (E.G. BY SCRIPT-OPTIONS).
772	# NON-ASSIGNED VARIABLES HAVE VALUE "" OR 0 (IN CASE OF INTEGER).
773	# HENCE THE GENERAL RULE IS: SCRIPT-OPTION OVERWRITES THE
774	# CONFIGURATION-FILE.
775	if [[ "$(eval echo \$$var)" = "" \|\| "$(eval echo \$$var)" = "0" ]]
776	then
777	eval $var=\$value
778
779	# TERMINAL OUTPUT OF ENVIRONMENT-VARIABLES, IF TRACEBACK IS SWITCHED on
780	if [[ $do_trace = true ]]
781	then
782	printf "\n*** ENVIRONMENT-VARIABLE $var = $value"
783	fi
784	fi
785
786	# IF AN ENVIRONMENT-VARIABLE DETERMINES THE HOST, THEN EVALUATE IT IMMEDIATELY:
787	# VALUE OF do-remote IS REQUIRED FOR THE FILE CONNECTIONS (COPY OF I/O FILES).
788	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MASCHINE, A BATCH-JOB
789	# MUST HAVE TO BE STARTED
790	if [[ $var = host ]]
791	then
792	if [[ -n $host && "$host" != $localhost ]]
793	then
794	do_batch=true
795	do_remote=true
796	case $host in
797	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lcflow\|lckyoto\|lcocean\|nech\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
798	(*) printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
799	printf "\n is not available"
800	locat=nqs; exit;;
801	esac
802	else
803	host=$localhost
804	fi
805	fi
806
807	# USER-DEFINED ENVIRONMENT VARIABLES MUST BE EXPORTED,
808	# BECAUSE THEY MAY BE REQUIRED IN OTHER SCRIPTS CALLED
809	# BY MRUN (E.G. subjob)
810	export $var
811	fi
812
813
814
815
816	elif [[ "$(echo $zeile \| cut -c1-3)" = "EC:" ]]
817	then
818
819	# LINE DEFINES ERROR-COMMAND
820	(( iec = iec + 1 ))
821	zeile=$(echo $zeile \| cut -c4-)
822	err_command[$iec]="$zeile"
823
824	elif [[ "$(echo $zeile \| cut -c1-3)" = "IC:" ]]
825	then
826
827	# LINE DEFINES INPUT-COMMAND
828	(( iic = iic + 1 ))
829	zeile=$(echo $zeile \| cut -c4-)
830	in_command[$iic]="$zeile"
831
832	elif [[ "$(echo $zeile \| cut -c1-3)" = "OC:" ]]
833	then
834
835	# LINE DEFINES OUTPUT-COMMAND
836	(( ioc = ioc + 1 ))
837	zeile=$(echo $zeile \| cut -c4-)
838	out_command[$ioc]="$zeile"
839
840	else
841
842	# LINE DEFINES FILE CONNECTION. READ THE FILE ATTRIBUTES.
843	# s2a: in/out - field
844	# s2b: loc - field (optional)
845	# s2c: tr/ar - field (optional)
846	s1=`echo $zeile \| cut -d" " -f1`
847	s2=`echo $zeile \| cut -d" " -s -f2`
848	s2a=$(echo $s2 \| cut -d":" -f1)
849	if [[ $(echo $s2 \| grep -c ":") = 0 ]]
850	then
851	s2b=""
852	s2c=""
853	else
854	s2b=`echo $s2 \| cut -d":" -f2 \| sed 's/:/ /g'`
855	s2c=`echo $s2 \| cut -d":" -s -f3 \| sed 's/:/ /g'`
856	fi
857	s3=`echo $zeile \| cut -d" " -f3`
858	s4=`echo $zeile \| cut -d" " -s -f4`
859	s5=`echo $zeile \| cut -d" " -s -f5`
860	s6=`echo $zeile \| cut -d" " -s -f6`
861
862
863	# STORE FILE CONNECTION, IF ACTIVATED BY ACTIVATION-STRING FROM
864	# INPUT- OR OUTPUT-LIST.
865	# VARIABLE S3 MAY CONTAIN A LIST OF ACTIVATION STRINGS (FIELD-SEPERATOR ":").
866	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MACHINE AND THE FILE IS ONLY
867	# LOCALLY REQUIRED ON THAT MACHINE (I.E. s2b = loc), THE FILE CONNECTION
868	# IS NOT CHECKED AND STORED.
869	IFSALT="$IFS"; IFS="$IFS:"
870	if [[ "$s2a" = in && ! ( $do_remote = true && ( "$s2b" = loc \|\| "$s2b" = locopt ) ) ]]
871	then
872	found=false
873	for actual in $input_list
874	do
875	for formal in $s3
876	do
877	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
878	done
879	done
880	if [[ $found = true ]]
881	then
882	(( iin = iin + 1 ))
883	localin[$iin]=$s1; transin[$iin]=$s2b; actionin[$iin]=$s2c;
884	typein[$iin]=$s3; pathin[$iin]=$s4; endin[$iin]=$s5;
885	extin[$iin]=$s6
886	fi
887	elif [[ "$s2a" = out && ! ( $do_remote = true && "$s2b" = loc ) ]]
888	then
889	found=false
890	for actual in $output_list
891	do
892	for formal in $s3
893	do
894	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
895	done
896	done
897	if [[ $found = true ]]
898	then
899	(( iout = iout + 1 ))
900	localout[$iout]=$s1; actionout[$iout]=$s2c; typeout[$iout]=$s3;
901	pathout[$iout]=$s4; endout[$iout]=$s5; extout[$iout]=$s6
902	fi
903	elif [[ "$s2a" != in && "$s2a" != out ]]
904	then
905	printf "\n +++ I/O-attribute in configuration file $config_file has the invalid"
906	printf "\n value \"$s2\". Only \"in\" and \"out\" are allowed!"
907	locat=connect; exit
908	fi
909	IFS="$IFSALT"
910	fi
911	done < $config_file
912
913	else
914
915	# EVALUATE THE CONFIGURATION-FILE BY FORTRAN-PROGRAM
916	[[ $silent = false ]] && printf "..."
917	interpreted_config_file=.icf.$RANDOM
918
919
920	# PROVIDE VALUES OF ENVIRONMENT-VARIABLE FOR interpret_config VIA NAMELIST-FILE
921	cat > .mrun_environment << %%END%%
922	&mrun_environment cond1 = '$cond1', cond2 = '$cond2',
923	config_file = '$config_file', do_remote = '$do_remote',
924	do_trace = '$do_trace', host = '$host',
925	input_list = '$input_list', icf = '$interpreted_config_file',
926	localhost = '$localhost', output_list = '$output_list' /
927
928
929	%%END%%
930
931	if [[ "$host" != $localhost ]]
932	then
933
934	# REMOTE JOB FROM LOCAL HOST: JUST TAKE THE FIRST EXECUTABLE FOUND
935	interpret_config_executable=`ls -1 ${PALM_BIN}/interpret_config*.x 2>/dev/null`
936	if [[ $? != 0 ]]
937	then
938	printf "\n\n +++ no interpret_config found"
939	printf "\n run \"mbuild -u -h ...\" to generate utilities for this host"
940	locat=interpret_config; exit
941	fi
942	interpret_config_executable=`echo $interpret_config_executable \| cut -d" " -f1`
943	$interpret_config_executable
944
945	else
946
947	# CHECK, IF THERE IS AN EXECUTABLE FOR THE BLOCK
948	if [[ ! -f ${PALM_BIN}/interpret_config${block}.x ]]
949	then
950	printf "\n\n +++ no interpret_config found for given block \"$cond1 $cond2\""
951	printf "\n run \"mbuild -u -h ...\" to generate utilities for this block"
952	locat=interpret_config; exit
953	else
954	interpret_config${block}.x
955	fi
956
957	fi
958	rm .mrun_environment
959
960	# EXECUTE SHELL-COMMANDS GENERATED BY interpret_config WITHIN THIS SHELL
961	chmod u+x $interpreted_config_file
962	export PATH=$PATH:.
963	. $interpreted_config_file
964	rm $interpreted_config_file
965
966	fi
967
968	# VALUES OF MRUN-OPTIONS OVERWRITE THOSE FROM THE CONFIGURATION-FILE
969	[[ $mrun_memory != 0 ]] && memory=$mrun_memory
970	[[ "$mrun_group_number" != "none" ]] && group_number=$mrun_group_number
971	[[ $mrun_cpumax != 0 ]] && cpumax=$mrun_cpumax
972	[[ "$mrun_numprocs" != "" ]] && numprocs=$mrun_numprocs
973	[[ "$max_par_io_str" != "" ]] && maximum_parallel_io_streams=$max_par_io_str
974	[[ "$mrun_tasks_per_node" != "" ]] && tasks_per_node=$mrun_tasks_per_node
975
976
977	# ON THE LOCAL MACHINE, DETERMINE (FROM THE CONFIGURATION-FILE) THE PATH
978	# FOR SOURCE-FILES TO BE COMPILED.
979	# IN A BATCH-JOB, SOURCES (ROUTINES TO BE COMPILED) ARE COMPLETE ALREADY.
980	# BEFORE MRUN IS CALLED IN THE JOB, SOURCES_COMPLETE = true IS ASSIGNED (SEE FURTHER BELOW).
981	if [[ "$SOURCES_COMPLETE" = "" ]]
982	then
983
984	# FIRST CHECK, IF A GLOBAL SOURCE PATH (TO BE USED FOR ALL HOSTS)
985	# HAS BEEN DEFINED
986	source_path=""
987	line=""
988	grep "%source_path" $config_file > tmp_mrun
989	while read line
990	do
991	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
992	then
993	if [[ "$(echo $line \| cut -d" " -f3)" = "" ]]
994	then
995	global_source_path=`echo $line \| cut -d" " -f2`
996	fi
997	fi
998	done < tmp_mrun
999
1000	line=""
1001	found=false
1002	grep " $localhost" $config_file \| grep "%source_path" > tmp_mrun
1003	while read line
1004	do
1005	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
1006	then
1007	if [[ $found = true ]]
1008	then
1009	printf "\n\n +++ more than one source path found in configuration file"
1010	printf "\n for local host \"$localhost\" "
1011	locat=source_path; exit
1012	fi
1013	source_path=`echo $line \| cut -d" " -f2`
1014	found=true
1015	fi
1016	done < tmp_mrun
1017	rm tmp_mrun
1018
1019	if [[ "$source_path" = "" ]]
1020	then
1021	if [[ "$global_source_path" != "" ]]
1022	then
1023	source_path=$global_source_path
1024	else
1025	printf "\n\n +++ no source path found in configuration file"
1026	printf "\n for local host \"$localhost\" "
1027	locat=source_path; exit
1028	fi
1029	fi
1030	eval source_path=$source_path
1031
1032	if [[ ! -d $source_path ]]
1033	then
1034	printf "\n\n +++ source path \"$source_path\" on local host"
1035	printf "\n \"$localhost\" does not exist"
1036	locat=source_path; exit
1037	fi
1038
1039	fi
1040
1041
1042	# GET THE GLOBAL REVISION-NUMBER OF THE SVN-REPOSITORY
1043	# (HANDED OVER TO RESTART-RUNS USING OPTION -G)
1044	if [[ "$global_revision" = "" && $host != "ibmkisti" ]]
1045	then
1046	global_revision=`svnversion $source_path 2>/dev/null`
1047	global_revision="Rev: $global_revision"
1048	fi
1049
1050
1051	# ??? das darf doch eigentlich garnicht passieren, weil optionen config-datei uebersteuern ???
1052	# CHECK AGAIN, IF EXECUTION SHALL BE DONE ON A REMOTE-HOST (BATCH-JOB).
1053	# (HOST MAY HAVE CHANGED DUE TO SETTINGS IN THE CONFIGURATION-FILE)
1054	if [[ -n $host && "$host" != $localhost ]]
1055	then
1056	do_batch=true
1057	do_remote=true
1058	case $host in
1059	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lcbullhh\|lccrayb\|lccrayh\|lccrayf\|lcflow\|lckyoto\|lcocean\|nech\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
1060	(*) printf "\n"
1061	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
1062	printf "\n is not available"
1063	locat=nqs; (( iec = 0 )); exit;;
1064	esac
1065	else
1066	host=$localhost
1067	fi
1068
1069
1070
1071	# IN CASE OF PARALLEL EXECUTION, CHECK SOME SPECIFICATIONS CONCERNING PROCESSOR NUMBERS
1072	if [[ "$cond1" = parallel \|\| "$cond2" = parallel ]]
1073	then
1074
1075	# CHECK, IF NUMBER OF CORES TO BE USED HAS BEEN GIVEN
1076	if [[ ! -n $numprocs ]]
1077	then
1078	printf "\n"
1079	printf "\n +++ option \"-K parallel\" requires additional specification"
1080	printf "\n of the number of processors to be used by"
1081	printf "\n mrun-option \"-X\" or by environment-variable"
1082	printf "\n \"numprocs\" in the configuration file"
1083	locat=numprocs; (( iec = 0 )); exit
1084	fi
1085
1086	# CHECK, IF THE NUMBER OF CORES PER NODE HAS BEEN GIVEN UND IF IT IS AN
1087	# INTEGRAL DIVISOR OF THE TOTAL NUMBER OF CORES GIVEN BY OPTION -X
1088	if [[ "$tasks_per_node" = "" && $host != lcflow && $host != lcxt5m ]]
1089	then
1090	printf "\n"
1091	printf "\n +++ option \"-T\" (tasks per node) is missing"
1092	printf "\n set -T option or define tasks_per_node in the config file"
1093	locat=tasks_per_node; (( iec = 0 )); exit
1094	fi
1095
1096	if (( numprocs < tasks_per_node ))
1097	then
1098	printf "\n"
1099	printf "\n +++ tasks per node (-T) cannot exceed total number of processors (-X)"
1100	printf "\n given values: -T $tasks_per_node -X $numprocs"
1101	locat=tasks_per_node; (( iec = 0 )); exit
1102	fi
1103
1104	if [[ $host != lcflow && $host != lcxt5m ]]
1105	then
1106	(( nodes = numprocs / ( tasks_per_node * threads_per_task ) ))
1107	(( ival = $tasks_per_node ))
1108	(( pes = numprocs ))
1109	(( ii = pes / ival ))
1110	(( remaining_pes = pes - ii * ival ))
1111	if (( remaining_pes > 0 ))
1112	then
1113	printf "\n"
1114	printf "\n +++ WARNING: tasks per node (option \"-T\") is not an integral"
1115	printf "\n divisor of the total number of processors (option \"-X\")"
1116	printf "\n values of this mrun-call: \"-T $tasks_per_node\" \"-X $numprocs\""
1117	printf "\n One of the nodes is filled with $remaining_pes instead of $tasks_per_node tasks"
1118	(( nodes = nodes + 1 ))
1119	fi
1120	fi
1121
1122
1123	# SETTINGS FOR SUBJOB-COMMAND
1124	OOPT="-O $threads_per_task"
1125
1126	# SET THE TOTAL NUMBER OF NODES, REQUIRED FOR THE SUBJOB-COMMAND (SEE FURTHER BELOW)
1127	if [[ "$tasks_per_node" != "" ]]
1128	then
1129	TOPT="-T $tasks_per_node"
1130	fi
1131
1132	# CHECK node_usage FOR ALLOWED VALUES AND SET DEFAULT VALUE, IF NECESSARY
1133	if [[ $node_usage = default ]]
1134	then
1135	if [[ $host = ibms ]]
1136	then
1137	node_usage=shared
1138	else
1139	node_usage=not_shared
1140	fi
1141	fi
1142
1143	if [[ $node_usage != shared && $node_usage != not_shared && $node_usage != singlejob && "$(echo $node_usage \| cut -c1-3)" != "sla" ]]
1144	then
1145	printf "\n"
1146	printf "\n +++ node usage (option \"-n\") is only allowed to be set"
1147	printf "\n \"shared\" or \"not_shared\""
1148	locat=tasks_per_node; (( iec = 0 )); exit
1149	fi
1150
1151	fi
1152
1153	# CHECK IF HOSTFILE EXISTS
1154	if [[ -n $hostfile ]]
1155	then
1156	if [[ ! -f $hostfile ]]
1157	then
1158	printf "\n"
1159	printf "\n +++ hostfile \"$hostfile\" does not exist"
1160	locat=hostfile; exit
1161	fi
1162	fi
1163
1164
1165	# SET DEFAULT VALUE FOR THE MAXIMUM NUMBER OF PARALLEL IO STREAMS
1166	if [[ "$maximum_parallel_io_streams" = "" ]]
1167	then
1168	maximum_parallel_io_streams=$numprocs
1169	fi
1170
1171
1172	# SET PORT NUMBER OPTION FOR CALLS OF SSH/SCP, subjob AND batch_scp SCRIPTS
1173	if [[ "$scp_port" != "" ]]
1174	then
1175	PORTOPT="-P $scp_port"
1176	SSH_PORTOPT="-p $scp_port"
1177	fi
1178
1179
1180	# SET DEFAULT-QUEUE, IF NOT GIVEN
1181	if [[ $queue = none ]]
1182	then
1183	case $host in
1184	(ibmh) queue=cluster;;
1185	(ibmkisti) queue=class.32plus;;
1186	(lcbullhh) queue=compute;;
1187	(lccrayb) queue=mpp1q;;
1188	(lccrayh) queue=mpp1q;;
1189	(lckiaps) queue=normal;;
1190	(lckyoto) queue=ph;;
1191	(lckyuh) queue=fx-single;;
1192	(lckyut) queue=cx-single;;
1193	(lctit) queue=S;;
1194	(nech) queue=none;;
1195	(unics) queue=unics;;
1196	esac
1197	fi
1198
1199
1200	# GENERATE FULL FILENAMES OF INPUT-FILES, INCLUDING THEIR PATH
1201	# CHECK, IF INPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST)
1202	(( i = 0 ))
1203	while (( i < iin ))
1204	do
1205	(( i = i + 1 ))
1206	(( maxcycle = 0 ))
1207
1208	# GENERATE PATH AND FULL FILE NAME (then-BRANCH: FIXED FULL NAME IS GIVEN, I.E. THE
1209	# FILE IDENTIFIER IS NOT PART OF THE FILENAME))
1210	if [[ "${actionin[$i]}" = di ]]
1211	then
1212	remotepathin[$i]=${pathin[$i]}/${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
1213	# HOST ONLY
1214	eval filename=${pathin[$i]}/${endin[$i]}
1215	else
1216	remotepathin[$i]=${pathin[$i]}/${afname}${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
1217	# HOST ONLY
1218	eval filename=${pathin[$i]}/${afname}${endin[$i]}
1219	fi
1220	eval pathname=${pathin[$i]}
1221
1222	# CHECK IF FILE EXISTS
1223	if [[ $(ls $filename* 2>&1 \| grep -c "not found") = 1 \|\| \
1224	$(ls $filename* 2>&1 \| grep -c "nicht gefunden") = 1 \|\| \
1225	$(ls $filename* 2>&1 \| grep -c "No such file") = 1 \|\| \
1226	$(ls $filename* 2>&1 \| grep -c "does not exist") = 1 ]]
1227	then
1228
1229	# FILES WITH ATTRIBUTE locopt ARE OPTIONAL. NO ABORT, IF THEY DO NOT EXIST.
1230	if [[ "${transin[$i]}" != "locopt" ]]
1231	then
1232	printf "\n\n +++ INPUT-file: "
1233	if [[ "${extin[$i]}" = "" ]]
1234	then
1235	printf "\n $filename"
1236	else
1237	printf "\n $filename.${extin[$i]}"
1238	fi
1239	printf "\n does not exist\n"
1240	locat=input; exit
1241	else
1242	transin[$i]="unavailable"
1243	fi
1244	else
1245
1246	# DETERMINE THE FILE'S CYCLE NUMBER
1247	ls -1 -d $filename > filelist 2>/dev/null
1248	ls -1 -d $filename.* >> filelist 2>/dev/null
1249	while read zeile
1250	do
1251	cycle=$(echo $zeile \| cut -f2 -d".")
1252	if [[ "$cycle" = "$zeile" ]]
1253	then
1254	(( icycle = 0 ))
1255	elif [[ "$cycle" = "${extin[$i]}" ]]
1256	then
1257	(( icycle = 0 ))
1258	else
1259	(( icycle = $cycle ))
1260	fi
1261	if (( icycle > maxcycle ))
1262	then
1263	(( maxcycle = icycle ))
1264	file_to_be_used=$zeile
1265	fi
1266	done <filelist
1267	rm filelist
1268
1269	# APPEND CYCLE NUMBER TO FILENAME
1270	if (( maxcycle > 0 ))
1271	then
1272	if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]]
1273	then
1274	filename=${filename}.$maxcycle.${extin[$i]}
1275	else
1276	filename=${filename}.$maxcycle
1277	fi
1278	else
1279	if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]]
1280	then
1281	filename=${filename}.${extin[$i]}
1282	fi
1283	fi
1284
1285	# STORE FILENAME WITHOUT PATH BUT WITH CYCLE NUMBER,
1286	# BECAUSE IT MIGHT BE REQUIRED LATER TO RESTORE THE FILE FROM AN ARCHIVE-SYSTEM
1287	absnamein[$i]=$filename
1288	if (( maxcycle > 0 ))
1289	then
1290	if [[ "${actionin[$i]}" = di ]]
1291	then
1292	frelin[$i]=${endin[$i]}.$maxcycle
1293	else
1294	frelin[$i]=${afname}${endin[$i]}.$maxcycle
1295	fi
1296	else
1297	if [[ "${actionin[$i]}" = di ]]
1298	then
1299	frelin[$i]=${endin[$i]}
1300	else
1301	frelin[$i]=${afname}${endin[$i]}
1302	fi
1303	fi
1304
1305	fi
1306	done
1307
1308	# GENERATE FULL FILENAMES OF OUTPUT-FILES (WITHOUT $ OR ~),
1309	# CHECK, IF OUTPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST),
1310	# OR, IN CASE THAT FILE DOES NOT EXIST, CHECK, IF IT CAN BE CREATED
1311	# THESE ACTIONS ARE NOT CARRIED OUT, IF FILES SHALL BE TRASFERRED FROM THE REMOTE TO
1312	# THE LOCAL HOST (BECAUSE THEIR IS NO DIRECT ACCESS TO THE LOCAL DIRECTORIES FROM THE
1313	# REMOTE HOST)
1314	(( i = 0 ))
1315	while (( i < iout ))
1316	do
1317	(( i = i + 1 ))
1318	if [[ ! ( $fromhost != $localhost && ( "${actionout[$i]}" = tr \|\| "${actionout[$i]}" = tra \|\| "${actionout[$i]}" = trpe ) ) ]]
1319	then
1320	if [[ "${actionout[$i]}" = tr ]]
1321	then
1322	actionout[$i]=""
1323	elif [[ "${actionout[$i]}" = trpe ]]
1324	then
1325	actionout[$i]=pe
1326	elif [[ "${actionout[$i]}" = tra ]]
1327	then
1328	actionout[$i]=a
1329	fi
1330	(( maxcycle = 0 ))
1331	eval filename=${pathout[$i]}/${fname}${endout[$i]}
1332	eval catalogname=${pathout[$i]}
1333	if [[ $(ls $filename* 2>&1 \| grep -c "not found") = 1 \|\| \
1334	$(ls $filename* 2>&1 \| grep -c "nicht gefunden") = 1 \|\| \
1335	$(ls $filename* 2>&1 \| grep -c "No such file") = 1 \|\| \
1336	$(ls $filename* 2>&1 \| grep -c "does not exist") = 1 ]]
1337	then
1338
1339	# IF OUTPUT-FILE DOES NOT EXIST CHECK, IF IT CAN BE CREATED
1340	if cat /dev/null > $filename
1341	then
1342	rm $filename
1343	else
1344
1345	# CHECK, IF THE DIRECTORY WHERE FILE SHALL BE COPIED TO EXISTS
1346	# IF IT DOES NOT EXIST, TRY TO CREATE IT
1347	if [[ ! -d $catalogname ]]
1348	then
1349	if mkdir -p $catalogname
1350	then
1351	printf "\n\n *** directory:"
1352	printf "\n $catalogname"
1353	printf "\n was created\n"
1354	else
1355	printf "\n\n +++ OUTPUT-file:"
1356	printf "\n $filename"
1357	printf "\n cannot be created, because directory does not exist"
1358	printf "\n and cannot be created either"
1359	printf "\n"
1360	locat=output ; exit
1361	fi 2>/dev/null
1362	else
1363	printf "\n\n +++ OUTPUT-file:"
1364	printf "\n $filename"
1365	printf "\n cannot be created, although directory exists"
1366	printf "\n"
1367	locat=output ; exit
1368	fi
1369	fi 2>/dev/null
1370	else
1371
1372	# DETERMINE THE CYCLE NUMBER
1373	ls -1 -d $filename > filelist 2>/dev/null
1374	ls -1 -d $filename.* >> filelist 2>/dev/null
1375	while read zeile
1376	do
1377	cycle=$(echo $zeile \| cut -f2 -d".")
1378	if [[ "$cycle" = "$zeile" \|\| "$cycle" = ${extout[$i]} ]]
1379	then
1380	(( icycle = 1 ))
1381	else
1382	(( icycle = $cycle + 1 ))
1383	fi
1384	if (( icycle > maxcycle ))
1385	then
1386	(( maxcycle = icycle ))
1387	fi
1388	done <filelist
1389	rm filelist
1390	fi
1391
1392	# APPEND CYCLE NUMBER TO FILENAME AND CHECK, IF FILE CAN BE CREATED
1393	# IN CASE OF FILE-APPEND, FILE MUST BE APPENDED TO THE ONE WITH HIGHEST CYCLE NUMBER
1394	if [[ "${actionout[$i]}" != a ]]
1395	then
1396	if (( maxcycle > 0 ))
1397	then
1398	filename=${filename}.$maxcycle
1399	if cat /dev/null > $filename
1400	then
1401	rm $filename
1402	else
1403	printf "\n +++ OUTPUT-file:"
1404	printf "\n $filename"
1405	printf "\n cannot be created"
1406	locat=output ; exit
1407	fi
1408	fi
1409	else
1410	(( maxcycle = maxcycle - 1 ))
1411	if (( maxcycle > 0 ))
1412	then
1413	filename=${filename}.$maxcycle
1414	fi
1415	fi
1416
1417	# STORE FILENAME WITHOUT PATH BUT WITH CYCLE NUMBER,
1418	# BECAUSE IT MIGHT BE REQUIRED LATER TO STORE THE FILE ON AN ARCHIVE-SYSTEM
1419	# OR TO PUT THIS FILENAME ON FILE OUTPUT_FILE_CONNECTIONS
1420	pathout[$i]=$filename
1421	if (( maxcycle > 0 ))
1422	then
1423	frelout[$i]=${fname}${endout[$i]}.$maxcycle
1424	else
1425	frelout[$i]=${fname}${endout[$i]}
1426	fi
1427
1428	fi
1429	done
1430
1431
1432	# THE DVR-PACKAGE REQUIRES ITS OWN LIBRARY
1433	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
1434	then
1435	if [[ "$dvr_inc" = "" ]]
1436	then
1437	printf "\n\n +++ no value for \"dvr_inc\" given in configuration file"
1438	printf "\n This is required for the dvrp_graphics package.\n"
1439	locat=dvr; exit
1440	fi
1441	if [[ "$dvr_lib" = "" ]]
1442	then
1443	printf "\n\n +++ no value for \"dvr_lib\" given in configuration file"
1444	printf "\n This is required for the dvrp_graphics package.\n"
1445	locat=dvr; exit
1446	fi
1447	fi
1448
1449
1450	# CHECK, WETHER A MAIN PROGRAM OR AN EXECUTABLE HAVE BEEN DECLARED.
1451	# EXECUTABLES DO NOT NEED TO BE COMPILED.
1452	if [[ "$mainprog" = "" && "$executable" = "" ]]
1453	then
1454	printf "\n +++ neither main program nor executable defined"
1455	locat=source; exit
1456	elif [[ "$mainprog" != "" && "$executable" != "" ]]
1457	then
1458	printf "\n +++ main program as well as executable defined"
1459	locat=source; exit
1460	elif [[ "$mainprog" = "" && "$executable" != "" ]]
1461	then
1462	do_compile=false
1463	fi
1464
1465
1466	# CREATE SOURCE-DIRECTORY TO COLLECT ROUTINES TO BE COMPILED.
1467	# LATER THE MRUN-SCRIPT AND CONFIGURATION-FILE WILL ALSO BE COPIED TO THIS DIRECTORY.
1468	if [[ $restart_run != true && "$SOURCES_COMPLETE" = "" ]]
1469	then
1470	rm -rf SOURCES_FOR_RUN_$fname
1471	mkdir SOURCES_FOR_RUN_$fname
1472	fi
1473
1474
1475	# COLLECT ALL ROUTINES TO BE COMPILED
1476	# THIS IS NOT REQUIRED WITHIN BATCH-JOBS, BECAUSE ROUTINES HAVE ALREADY BEEN COLLECTED
1477	# BY THE MRUN-CALL WHICH CREATED THE BATCH-JOB.
1478	if [[ $do_compile = true && "$SOURCES_COMPLETE" = "" ]]
1479	then
1480
1481	[[ "$source_list" = LM ]] && source_list=LOCALLY_MODIFIED
1482
1483	if [[ "$source_list" = LOCALLY_MODIFIED ]]
1484	then
1485
1486	# DETERMINE MODIFIED FILES OF THE SVN WORKING COPY
1487	source_list=""
1488	cd $source_path
1489
1490
1491	# CHECK, IF DIRECTORY IS UNDER SVN CONTROL
1492	if [[ ! -d .svn ]]
1493	then
1494	printf "\n\n +++ source directory"
1495	printf "\n \"$source_path\" "
1496	printf "\n is not under control of \"subversion\"."
1497	printf "\n Please do not use mrun-option \"-s LOCALLY_MODIFIED\"\n"
1498	fi
1499
1500
1501	# LIST ALL MODIFIED SOURCE CODE FILES
1502	Filenames=""
1503	svn status > tmp_mrun
1504	while read line
1505	do
1506	firstc=`echo $line \| cut -c1`
1507	if [[ $firstc = M \|\| $firstc = "?" ]]
1508	then
1509	Name=`echo "$line" \| cut -c8-`
1510	extension=`echo $Name \| cut -d. -f2`
1511	if [[ "$extension" = f90 \|\| "$extension" = F90 \|\| "$extension" = f \|\| "$extension" = F \|\| "$extension" = c ]]
1512	then
1513	Filenames="$Filenames "$Name
1514	fi
1515	fi
1516	done < tmp_mrun
1517
1518
1519	# COPY FILES TO SOURCES_FOR_RUN_...
1520	for dateiname in $Filenames
1521	do
1522	cp $dateiname $working_directory/SOURCES_FOR_RUN_$fname
1523	source_list=$source_list"$dateiname "
1524	done
1525
1526	cd - > /dev/null
1527
1528
1529	# COPY FILES GIVEN BY OPTION -s TO DIRECTORY SOURCES_FOR_RUN_...
1530	# AUTOMATIC RESTART RUNS JUST ACCESS THE DIRECTORY CREATED BY THE INITIAL RUN
1531	elif [[ "$source_list" != "" && $restart_run != true ]]
1532	then
1533
1534	cd $source_path
1535
1536	for filename in $source_list
1537	do
1538
1539	# SOURCE CODE FILE IS NOT ALLOWED TO INCLUDE PATH
1540	if [[ $(echo $filename \| grep -c "/") != 0 ]]
1541	then
1542	printf "\n +++ source code file: $filename"
1543	printf "\n must not contain (\"/\") "
1544	locat=source; exit
1545	fi
1546
1547	if [[ ! -f $filename ]]
1548	then
1549	printf "\n +++ source code file: $filename"
1550	printf "\n does not exist"
1551	locat=source; exit
1552	else
1553	cp $filename $working_directory/SOURCES_FOR_RUN_$fname
1554	fi
1555
1556	done
1557
1558	cd - > /dev/null
1559
1560	fi
1561
1562
1563	# CHECK, IF A MAIN PROGRAM EXISTS AND IF IT IS PART OF THE LIST OF FILES
1564	# TO BE COMPILED. IF NOT, ADD IT TO THE LIST.
1565	if [[ $restart_run != true ]]
1566	then
1567
1568	if [[ ! -f "$source_path/$mainprog" ]]
1569	then
1570	printf "\n\n +++ main program: $mainprog"
1571	printf "\n does not exist in source directory"
1572	printf "\n \"$source_path\"\n"
1573	locat=source; exit
1574	else
1575	if [[ $(echo $source_list \| grep -c $mainprog) = 0 ]]
1576	then
1577	cp $source_path/$mainprog SOURCES_FOR_RUN_$fname
1578	source_list=${mainprog}" $source_list"
1579	fi
1580	fi
1581	fi
1582
1583
1584	# CHECK, IF MAKEFILE EXISTS AND COPY IT TO THE SOURCES_FOR_RUN... DIRECTORY
1585	# NOT REQUIRED FOR RESTART RUNS, SOURCES_FOR_RUN... HAS BEEN CREATED BY THE INITIAL RUN
1586	if [[ "$restart_run" != true ]]
1587	then
1588	[[ "$makefile" = "" ]] && makefile=$source_path/Makefile
1589	if [[ ! -f $makefile ]]
1590	then
1591	printf "\n +++ file \"$makefile\" does not exist"
1592	locat=make; exit
1593	else
1594	cp $makefile SOURCES_FOR_RUN_$fname/Makefile
1595	fi
1596	fi
1597
1598
1599	# COPY FILES FROM OPTIONAL SOURCE PATH GIVEN IN THE CONFIGURATION FILE
1600	if [[ $restart_run != true && "$add_source_path" != "" ]]
1601	then
1602
1603	# DOES THE DIRECTORY EXIST?
1604	if [[ ! -d $add_source_path ]]
1605	then
1606	printf "\n\n *** INFORMATIVE: additional source code directory"
1607	printf "\n \"$add_source_path\" "
1608	printf "\n does not exist or is not a directory."
1609	printf "\n No source code will be used from this directory!\n"
1610	add_source_path=""
1611	if [[ $silent == false ]]
1612	then
1613	sleep 3
1614	fi
1615	else
1616
1617	cd $add_source_path
1618	found=false
1619
1620	Names=$(ls -1 *.f90 2>&1)
1621	[[ $(echo $Names \| grep -c '*.f90') = 0 ]] && AddFilenames="$Names"
1622	Names=$(ls -1 *.F90 2>&1)
1623	[[ $(echo $Names \| grep -c '*.F90') = 0 ]] && AddFilenames="$AddFilenames $Names"
1624	Names=$(ls -1 *.F 2>&1)
1625	[[ $(echo $Names \| grep -c '*.F') = 0 ]] && AddFilenames="$AddFilenames $Names"
1626	Names=$(ls -1 *.f 2>&1)
1627	[[ $(echo $Names \| grep -c '*.f') = 0 ]] && AddFilenames="$AddFilenames $Names"
1628	Names=$(ls -1 *.c 2>&1)
1629	[[ $(echo $Names \| grep -c '*.c') = 0 ]] && AddFilenames="$AddFilenames $Names"
1630
1631	cd - > /dev/null
1632	cd SOURCES_FOR_RUN_$fname
1633
1634	# COPY MAKEFILE IF EXISTING
1635	if [[ -f $add_source_path/Makefile ]]
1636	then
1637	printf "\n\n *** user Makefile from directory"
1638	printf "\n \"$add_source_path\" is used \n"
1639	if [[ $silent == false ]]
1640	then
1641	sleep 1
1642	fi
1643	cp $add_source_path/Makefile .
1644	fi
1645
1646	for dateiname in $AddFilenames
1647	do
1648	if [[ -f $dateiname ]]
1649	then
1650	printf "\n +++ source code file \"$dateiname\" found in additional"
1651	printf "\n source code directory \"$add_source_path\" "
1652	printf "\n but was also given with option \"-s\" which means that it should be taken"
1653	printf "\n from directory \"$source_path\"."
1654	locat=source; exit
1655	fi
1656
1657	cp $add_source_path/$dateiname .
1658	source_list="$source_list $dateiname"
1659
1660	# CHECK IF FILE IS CONTAINED IN MAKEFILE
1661	if [[ $(grep -c $dateiname Makefile) = 0 ]]
1662	then
1663	printf "\n\n +++ user file \"$dateiname\" "
1664	printf "\n is not listed in Makefile \n"
1665	locat=source; exit
1666	else
1667
1668	if [[ $found = false ]]
1669	then
1670	found=true
1671	printf "\n\n *** following user file(s) added to the"
1672	printf " files to be translated:\n "
1673	fi
1674	printf "$dateiname "
1675	if [[ $silent == false ]]
1676	then
1677	sleep 0.5
1678	fi
1679
1680	fi
1681	done
1682	[[ $found = true ]] && printf "\n"
1683	cd - > /dev/null
1684	fi
1685	fi
1686
1687
1688	# ADD ALL ROUTINES BELONGING TO SOFTWARE PACKAGES (GIVEN BY OPTION -p)
1689	# TO THE LIST OF FILES TO BE COMPILED
1690	if [[ $restart_run != true && -n $package_list ]]
1691	then
1692
1693	cd $source_path
1694
1695	for package in $package_list
1696	do
1697
1698	[[ $package = "dvrp_graphics+1PE" ]] && package=dvrp_graphics
1699
1700	# DETERMINE FILES BELONGING TO THE PACKAGE
1701	# ERROR MESSAGE ARE REDIRECTED TO /dev/null, BECAUSE WILDCARD (*) ALSO GIVES
1702	# THE NAME OF THE DIRECTORY
1703	package_source_list=`grep "defined( __$package " * 2>/dev/null \| cut -f1 -d:`
1704
1705
1706	# ADD THESE FILES TO THE LIST OF FILES TO BE COMPILED,
1707	# IF THEY ARE NOT ALREADY PART OF THE LIST
1708	for source_list_name in $package_source_list
1709	do
1710	if [[ $(echo $source_list \| grep -c $source_list_name) = 0 ]]
1711	then
1712
1713	# ONLY TAKE FILES WITH VALID SUFFIX
1714	ending=`echo $source_list_name \| cut -f2 -d.`
1715	if [[ "$ending" = f90 \|\| "$ending" = F90 \|\| "$ending" = f \|\| "$ending" = F \|\| "$ending" = c ]]
1716	then
1717	cp $source_list_name $working_directory/SOURCES_FOR_RUN_$fname
1718	source_list="$source_list $source_list_name"
1719	fi
1720	fi
1721	done
1722	done
1723
1724	cd - > /dev/null
1725	fi
1726
1727	fi # do_compile=true
1728
1729
1730	# IF SOURCE CODE IS TO BE COMPILED, DO SOME MORE CHECKS
1731	# AND SET PRE-PROCESSOR DIRECTIVES
1732	if [[ $do_compile = true \|\| $create_executable_for_batch = true ]]
1733	then
1734
1735	# SET PREPROCESSOR-DIRECTIVES TO SELECT OPERATING SYSTEM SPECIFIC CODE
1736	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1737	then
1738	cpp_options="${cpp_options},-D__ibm=__ibm"
1739	elif [[ $(echo $localhost \| cut -c1-3) = nec ]]
1740	then
1741	cpp_options="$cpp_options -D__nec"
1742	elif [[ $(echo $localhost \| cut -c1-2) = lc ]]
1743	then
1744	cpp_options="$cpp_options -D__lc"
1745	else
1746	cpp_options="$cpp_options -D__$localhost"
1747	fi
1748
1749	# SET DIRECTIVES GIVEN BY OPTION -K (E.G. parallel)
1750	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1751	then
1752	[[ -n $cond1 ]] && cpp_options="${cpp_options},-D__$cond1=__$cond1"
1753	[[ -n $cond2 ]] && cpp_options="${cpp_options},-D__$cond2=__$cond2"
1754	else
1755	[[ -n $cond1 ]] && cpp_options="$cpp_options -D__$cond1"
1756	[[ -n $cond2 ]] && cpp_options="$cpp_options -D__$cond2"
1757	fi
1758
1759	# SET DIRECTIVES FOR ACTIVATING SOFTWARE-PACKAGES (OPTION -p)
1760	if [[ -n $package_list ]]
1761	then
1762	for package in $package_list
1763	do
1764	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1765	then
1766	if [[ $package != "dvrp_graphics+1PE" ]]
1767	then
1768	cpp_options="${cpp_options},-D__$package=__$package"
1769	else
1770	cpp_options="${cpp_options},-D__dvrp_graphics=__dvrp_graphics"
1771	export use_seperate_pe_for_dvrp_output=true
1772	fi
1773	else
1774	if [[ $package != "dvrp_graphics+1PE" ]]
1775	then
1776	cpp_options="$cpp_options -D__$package"
1777	else
1778	cpp_options="$cpp_options -D__dvrp_graphics"
1779	export use_seperate_pe_for_dvrp_output=true
1780	fi
1781	fi
1782	done
1783	fi
1784
1785	# SET DIRECTIVES GIVEN BY OPTION -D
1786	if [[ -n $cpp_opts ]]
1787	then
1788	for popts in $cpp_opts
1789	do
1790	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1791	then
1792	cpp_options="${cpp_options},-D__$popts=__$popts"
1793	else
1794	cpp_options="$cpp_options -D__$popts"
1795	fi
1796	done
1797	fi
1798
1799	else
1800
1801
1802	# FOR LOCAL RUNS CHECK AGAIN, IF EXECUTABLE EXISTS
1803	if [[ $do_remote = false ]]
1804	then
1805	if [[ ! -f $executable ]]
1806	then
1807	printf "\n +++ executable file: $executable"
1808	printf "\n does not exist"
1809	locat=executable; exit
1810	fi
1811	fi
1812	fi
1813
1814
1815	# DETERMINE THE JOB MODE
1816	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
1817	then
1818	if [[ "$LOADLBATCH" = yes ]]
1819	then
1820	batch_job=.TRUE.
1821	jobmo=BATCH
1822	else
1823	batch_job=.FALSE.
1824	jobmo=INTERACTIVE
1825	fi
1826	else
1827	if [[ "$ENVIRONMENT" = BATCH ]]
1828	then
1829	batch_job=.TRUE.
1830	jobmo=BATCH
1831	else
1832	batch_job=.FALSE.
1833	jobmo=INTERACTIVE
1834	fi
1835	fi
1836
1837	# NO INTERACTIVE RUNS ALLOWED ON LCTIT
1838	if [[ $host = lctit && $jobmo = INTERACTIVE && $do_batch = false ]]
1839	then
1840	printf "\n +++ no interactive runs allowed on host \"$host\" "
1841	printf "\n please submit batch job using mrun option \"-b\" \n"
1842	locat=normal; exit
1843	fi
1844
1845
1846	# CHECK, IF USER DEFINED A COMPILER
1847	if [[ "$compiler_name" = "" ]]
1848	then
1849
1850	printf "\n +++ no compiler specified for \"$host $cond1 $cond2\""
1851	locat=compiler_name; exit
1852
1853	fi
1854
1855
1856	# DETERMINE THE NAME OF MRUN'S TEMPORARY WORKING DIRECTORY
1857
1858	# ON HLRN-III, USE THE QUEUING NAME. OTHERWISE USE USERNAME AND RANDOM NUMBER
1859	if [[ $do_batch = false && $(echo $host \| cut -c1-6) = lccray ]]
1860	then
1861	kennung=$(checkjob $PBS_JOBID \| grep Reservation \| cut -d" " -s -f2 \| cut -d"." -s -f2 \| sed "s/['\"]//g")
1862	if [[ "$kennung" = "" ]]
1863	then
1864	kennung=$RANDOM
1865	fi
1866	else
1867	kennung=$RANDOM
1868	fi
1869
1870	if [[ "$tmp_user_catalog" = "" ]]
1871	then
1872	if [[ $localhost = ibmh ]]
1873	then
1874	tmp_user_catalog=$SCRATCH
1875	elif [[ $localhost = nech ]]
1876	then
1877	tmp_user_catalog=$WRKSHR
1878	else
1879	tmp_user_catalog=/tmp
1880	fi
1881	fi
1882	TEMPDIR=$tmp_user_catalog/${usern}.$kennung
1883
1884
1885	# DETERMINE THE NAME OF THE DIRECTORY WHICH IS USED TO TEMPORARILY STORE DATA FOR RESTART RUNS
1886	if [[ "$tmp_data_catalog" = "" ]]
1887	then
1888	if [[ $localhost = nech ]]
1889	then
1890	tmp_data_catalog=$WRKSHR/mrun_restart_data
1891	else
1892	tmp_data_catalog=/tmp/mrun_restart_data
1893	fi
1894	fi
1895
1896
1897	# IN CASE OF LOCAL RUNS REPLACE ENVIRONMENT VARIABLES BY THEIR VALUES
1898	if [[ $do_remote = false && $do_compile = true \|\| $create_executable_for_batch = true ]]
1899	then
1900	eval fopts=\"$fopts\"
1901	eval lopts=\"$lopts\"
1902	fi
1903
1904
1905	# DETERMINE COMPILE- AND LINK-OPTIONS
1906	fopts="$fopts $netcdf_inc $fftw_inc $dvr_inc"
1907	lopts="$lopts $netcdf_lib $fftw_lib $dvr_lib"
1908	XOPT="-X $numprocs"
1909
1910
1911	# CHECK THE CPU-LIMIT. IT MUST BE GIVEN FOR BATCH-JOBS AND IS COMMUNICATED TO THE
1912	# EXECUTABLE VIA NAMELIST-PARAMETER cputime
1913	done=false
1914	while [[ $done = false ]]
1915	do
1916	cputime=$cpumax
1917	if (( $cputime == 0 ))
1918	then
1919	if [[ $do_batch = true ]]
1920	then
1921	printf "\n +++ cpu-time is undefined"
1922	printf "\n >>> Please type CPU-time in seconds as INTEGER:"
1923	printf "\n >>> "
1924	read cputime 1>/dev/null 2>&1
1925	else
1926	cputime=10000000 # NO CPU LIMIT FOR INTERACTIVE RUNS
1927	fi
1928	else
1929	done=true
1930	fi
1931	cpumax=$cputime
1932	done
1933
1934	(( minuten = cputime / 60 ))
1935	(( sekunden = cputime - minuten * 60 ))
1936
1937
1938	# CHECK THE MEMORY DEMAND
1939	if [[ $do_batch = true ]]
1940	then
1941	done=false
1942	while [[ $done = false ]]
1943	do
1944	if (( memory == 0 ))
1945	then
1946	printf "\n +++ memory demand is undefined"
1947	printf "\n >>> Please type memory in MByte per process as INTEGER:"
1948	printf "\n >>> "
1949	read memory 1>/dev/null 2>&1
1950	else
1951	done=true
1952	fi
1953	done
1954	fi
1955
1956
1957	# IN CASE OF REMOTE-JOBS CHECK, IF A USERNAME FOR THE REMOTE HOST IS GIVEN
1958	if [[ $do_remote = true && -z $remote_username ]]
1959	then
1960	while [[ -z $remote_username ]]
1961	do
1962	printf "\n +++ username on remote host \"$host\" is undefined"
1963	printf "\n >>> Please type username:"
1964	printf "\n >>> "
1965	read remote_username
1966	done
1967	mc="$mc -u$remote_username"
1968	fi
1969
1970	# CHECK FOR INITIAL COMMANDS AFTER LOGIN
1971	if [[ "$login_init_cmd" != "" ]]
1972	then
1973	export init_cmds="${login_init_cmd};"
1974	fi
1975
1976
1977	# SET THE MODULE-LOAD COMMAD AND EXPORT IT FOR subjob
1978	if [[ "$modules" != "" ]]
1979	then
1980	if [[ $host = lctit ]]
1981	then
1982	export module_calls=". $modules"
1983	else
1984	export module_calls="module load ${modules};"
1985	fi
1986	fi
1987
1988	# OUTPUT OF THE MRUN-HEADER
1989	calltime=$(date)
1990	printf "\n"
1991	printf "#------------------------------------------------------------------------# \n"
1992	printf "\| %-35s%35s \| \n" "$version" "$calltime"
1993	printf "\| \| \n"
1994	spalte1="called on:"; spalte2=$localhost_realname
1995	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
1996	if [[ $do_remote = true ]]
1997	then
1998	spalte1="execution on:"; spalte2="$host (username: $remote_username)"
1999	else
2000	spalte1="execution on:"; spalte2="$host ($localhost_realname)"
2001	fi
2002	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2003	if [[ -n $numprocs ]]
2004	then
2005	if [[ $run_coupled_model = false ]]
2006	then
2007	spalte1="number of PEs:"; spalte2=$numprocs
2008	else
2009	spalte1="number of PEs:"; spalte2="$numprocs (atmosphere: $numprocs_atmos, ocean: $numprocs_ocean)"
2010	fi
2011	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2012	fi
2013	if [[ -n $tasks_per_node ]]
2014	then
2015	spalte1="tasks per node:"; spalte2="$tasks_per_node (number of nodes: $nodes)"
2016	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2017	if (( remaining_pes > 0 ))
2018	then
2019	spalte1=" "; spalte2="one of the nodes only filled with $remaining_pes tasks"
2020	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2021	fi
2022	fi
2023	if [[ $maximum_parallel_io_streams != $numprocs ]]
2024	then
2025	spalte1="max par io streams:"; spalte2="$maximum_parallel_io_streams"
2026	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2027	fi
2028	if [[ $use_openmp = true ]]
2029	then
2030	spalte1="threads per task:"; spalte2="$threads_per_task"
2031	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2032	fi
2033	printf "\| \| \n"
2034	if [[ $do_compile = true ]]
2035	then
2036	if [[ "$mopts" != "" ]]
2037	then
2038	spalte1="make options:"; spalte2=$(echo "$mopts" \| cut -c-45)
2039	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2040	zeile=$(echo "$mopts" \| cut -c46-)
2041	while [[ "$zeile" != "" ]]
2042	do
2043	spalte1=""
2044	spalte2=$(echo "$zeile" \| cut -c-45)
2045	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2046	zeile=$(echo "$zeile" \| cut -c46-)
2047	done
2048	fi
2049
2050	spalte1="cpp directives:"; spalte2=$(echo "$cpp_options" \| cut -c-45)
2051	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2052	zeile=$(echo "$cpp_options" \| cut -c46-)
2053	while [[ "$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="compiler options:"; spalte2=$(echo "$fopts" \| cut -c-45)
2062	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2063	zeile=$(echo "$fopts" \| 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 "$zeile" \| cut -c46-)
2070	done
2071
2072	spalte1="linker options:"; spalte2=$(echo "$lopts" \| cut -c-45)
2073	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2074	zeile=$(echo "$lopts" \| cut -c46-)
2075	while [[ "$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="modules to be load:"; spalte2=$(echo "$modules" \| cut -c-45)
2084	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2085	zeile=$(echo "$modules" \| cut -c46-)
2086	while [[ "$zeile" != "" ]]
2087	do
2088	spalte1=""
2089	spalte2=$(echo "$zeile" \| cut -c-45)
2090	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2091	zeile=$(echo "$zeile" \| cut -c46-)
2092	done
2093
2094	spalte1="main program:"; spalte2=$mainprog
2095	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2096	else
2097	spalte1=executable:; spalte2=$executable
2098	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2099	fi
2100	printf "\| \| \n"
2101	spalte1="base name of files:"; spalte2=$fname
2102	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2103	if [[ $fname != $afname ]]
2104	then
2105	spalte1="base name of input files:"; spalte2=$afname
2106	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2107	fi
2108	spalte1="INPUT control list:"; spalte2=$(echo $input_list)
2109	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2110	spalte1="OUTPUT control list:"; spalte2=$(echo $output_list)
2111	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2112
2113	if [[ "$ocean_file_appendix" = true ]]
2114	then
2115	printf "\| %-35s%-35s \| \n" "suffix \"_O\" is added to local files" " "
2116	fi
2117
2118	if [[ $do_batch = true \|\| "$LOADLBATCH" = yes ]]
2119	then
2120	spalte1="memory demand / PE":; spalte2="$memory MB"
2121	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2122	spalte1=CPU-time:; spalte2="$minuten:$sekunden"
2123	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
2124	fi
2125
2126	if [[ $do_compile = true ]]
2127	then
2128	printf "\| \| \n"
2129	printf "\| Files to be compiled: \| \n"
2130	zeile=$source_list
2131	while [[ "$zeile" != "" ]]
2132	do
2133	linestart=$(echo $zeile \| cut -c-70)
2134	printf "\| %-70s \| \n" "$linestart"
2135	zeile=$(echo "$zeile" \| cut -c71-)
2136	done
2137	fi
2138	printf "#------------------------------------------------------------------------#"
2139
2140
2141
2142	# OUTPUT OF FILE CONNECTIONS IN CASE OF TRACEBACK
2143	if [[ $do_trace = true ]]
2144	then
2145	(( i = 0 ))
2146	while (( i < iin ))
2147	do
2148	(( i = i + 1 ))
2149	if (( i == 1 ))
2150	then
2151	printf "\n\n >>> INPUT-file assignments:\n"
2152	fi
2153	printf "\n ${localin[$i]} : ${absnamein[$i]}"
2154	done
2155	(( i = 0 ))
2156	while (( i < iout ))
2157	do
2158	(( i = i + 1 ))
2159	if (( i == 1 ))
2160	then
2161	printf "\n\n >>> OUTPUT-file assignments:\n"
2162	fi
2163	printf "\n ${localout[$i]} : ${pathout[$i]}"
2164	done
2165	(( i = 0 ))
2166	while (( i < iic ))
2167	do
2168	(( i = i + 1 ))
2169	if (( i == 1 ))
2170	then
2171	printf "\n\n >>> INPUT-commands:\n"
2172	fi
2173	printf "\n ${in_command[$i]}"
2174	done
2175	(( i = 0 ))
2176	while (( i < ioc ))
2177	do
2178	(( i = i + 1 ))
2179	if (( i == 1 ))
2180	then
2181	printf "\n\n >>> OUTPUT-commands:\n"
2182	fi
2183	printf "\n ${out_command[$i]}"
2184	done
2185	fi
2186
2187	# QUERY FOR CONTINUE (ON LOCAL MACHINES ONLY)
2188	if [[ $remotecall = false && $silent = false && $jobmo != BATCH ]]
2189	then
2190	antwort=dummy
2191	printf "\n\n"
2192	printf " >>> everything o.k. (y/n) ? "
2193	while read antwort
2194	do
2195	if [[ "$antwort" != y && "$antwort" != Y && "$antwort" != n && "$antwort" != N ]]
2196	then
2197	printf " >>> everything o.k. (y/n) ? "
2198	else
2199	break
2200	fi
2201	done
2202	if [[ $antwort = n \|\| $antwort = N ]]
2203	then
2204	locat=user_abort; (( iec = 0 )); exit
2205	fi
2206	if [[ $do_batch = true ]]
2207	then
2208	printf " >>> batch-job will be created and submitted"
2209	else
2210	printf " >>> MRUN will now continue to execute on this machine"
2211	fi
2212	fi
2213
2214
2215	# DETERMINE PATH FOR MAKE DEPOSITORY
2216	if [[ $do_batch = false \|\| $create_executable_for_batch = true ]]
2217	then
2218
2219	line=""
2220	grep "%depository_path" $config_file > tmp_mrun
2221	while read line
2222	do
2223	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
2224	then
2225	if [[ "$(echo $line \| cut -d" " -s -f3)" = "" ]]
2226	then
2227	global_depository_path=`echo $line \| cut -d" " -s -f2`
2228	fi
2229	fi
2230	done < tmp_mrun
2231
2232	line=""
2233	grep " $localhost" $config_file \| grep "%depository_path" > tmp_mrun
2234	while read line
2235	do
2236	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
2237	then
2238	if [[ "$(echo $line \| cut -d" " -s -f4)" = "$cond1" && "$(echo $line \| cut -d" " -s -f5)" = "$cond2" ]]
2239	then
2240	local_depository_path=`echo $line \| cut -d" " -s -f2`
2241	fi
2242	fi
2243	done < tmp_mrun
2244
2245	if [[ "$local_depository_path" = "" ]]
2246	then
2247	if [[ "$global_depository_path" != "" ]]
2248	then
2249	local_depository_path=$global_depository_path
2250	else
2251	printf "\n\n +++ no depository path found in configuration file"
2252	printf "\n for local host \"$localhost\" "
2253	printf "\n please set \"\%depository_path\" in configuration file\n"
2254	locat=config_file; exit
2255	fi
2256	fi
2257	eval local_depository_path=$local_depository_path
2258	[[ "$cond1" != "" ]] && local_depository_path=${local_depository_path}_$cond1
2259	[[ "$cond2" != "" ]] && local_depository_path=${local_depository_path}_$cond2
2260
2261
2262	basename=`echo $mainprog \| cut -f1 -d"."`
2263	eval make_depository=${local_depository_path}/${basename}_current_version.tar
2264	if [[ ! -f $make_depository ]]
2265	then
2266	printf "\n"
2267	printf "\n *** WARNING: make depository \"$make_depository\" not found"
2268	printf "\n \"make\" will fail, if the Makefile or other source files are missing\n"
2269	fi
2270
2271	fi
2272
2273
2274	# NOW PERFORM THOSE ACTIONS REQUIRED TO EXECUTE THE PROGRAM (PALM) ON THIS MACHINE
2275	# (COMPILING/LINKING, EXECUTING, COPYING I/O FILES)
2276	if [[ $do_batch = false ]]
2277	then
2278
2279
2280	# CREATE THE TEMPORARY WORKING DIRECTORY
2281	mkdir -p $TEMPDIR
2282	chmod go+rx $TEMPDIR
2283	tmpcreate=true
2284
2285
2286	# COPY EITHER THE COMPLETE SOURCE CODE FILES TO BE COMPILED OR THE EXECUTABLE
2287	# INTO THE TEMPORARY WORKING DIRECTORY
2288	if [[ $do_compile = true ]]
2289	then
2290
2291	# ON NEC, COMPILATION IS DONE ON HOST CROSS VIA CROSS COMPILING
2292	# CREATE A TEMPORARY DIRECTORY ON THAT MACHINE (HOME MOUNTED VIA NFS)
2293	if [[ $localhost = nech ]]
2294	then
2295	TEMPDIR_COMPILE=$HOME/work/${usern}.$kennung
2296	if mkdir -p $TEMPDIR_COMPILE
2297	then
2298	printf "\n *** \"$TEMPDIR_COMPILE\" "
2299	printf "\n is generated as temporary directory for cross compiling\n"
2300	else
2301	printf "\n +++ creating directory \"$TEMPDIR_COMPILE\" "
2302	printf "\n needed for cross compilation failed"
2303	locat=compile
2304	exit
2305	fi
2306	else
2307	TEMPDIR_COMPILE=$TEMPDIR
2308	fi
2309
2310	cp $make_depository $TEMPDIR_COMPILE
2311	cd $TEMPDIR_COMPILE
2312	tar -xf $make_depository > /dev/null 2>&1
2313	cd - > /dev/null
2314
2315	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
2316	# FILES ON CRAY XC30 SYSTEMS (HLRN III), rsync IS USED INSTEAD
2317	if [[ $(echo $host \| cut -c1-6) = lccray ]]
2318	then
2319	rsync -av -t SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
2320	else
2321	cp SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
2322	fi
2323
2324	else
2325
2326	cp $executable ${TEMPDIR}/a.out
2327
2328	fi
2329
2330
2331	# CHANGE TO THE TEMPORARY WORKING DIRECTORY
2332	cd $TEMPDIR
2333	printf "\n *** changed to temporary directory: $TEMPDIR"
2334
2335
2336	# THE FOLLOWING IS REQUIRED FPR AVS-OUTPUT WITH PALM ??? REMOVE ???
2337	# WRITE INFORMATIONS ABOUT THE OUTPUT-FILE CONNECTIONS TO A TEMPORARY FILE
2338	# THIS FILE CAN LATER BE READ FROM USER-DEFINED CODE TO DETERMINE THE
2339	# RELATION BETWEEN THE LOCAL TEMPORARY AND PERMANENT FILE NAMES
2340	(( i = 0 ))
2341	while (( i < iout ))
2342	do
2343	(( i = i + 1 ))
2344	if [[ "${actionout[$i]}" = tr \|\| "${actionout[$i]}" = tra \|\| "${actionout[$i]}" = trpe ]]
2345	then
2346	printf "${localout[$i]} ${actionout[$i]}\n${pathout[$i]}\n${localhost}_${fname}${endout[$i]}\n" >> OUTPUT_FILE_CONNECTIONS
2347	else
2348	printf "${localout[$i]} ${actionout[$i]}\n${pathout[$i]}\n${frelout[$i]}\n" >> OUTPUT_FILE_CONNECTIONS
2349	fi
2350	done
2351
2352
2353	# IF REQUIRED, START WITH COMPILING
2354	if [[ $do_compile = true ]]
2355	then
2356
2357
2358	if [[ -f a.out ]]
2359	then
2360
2361	# EXECUTABLE WAS CREATED DURING INTERACTIVE CALL OF MRUN
2362	printf "\n\n\n *** executable a.out found"
2363	printf "\n no compilation required \n"
2364
2365	else
2366
2367	# COMPILING WITH MAKE (ON NEC COMPILER IS CALLED ON HOST CROSS)
2368	printf "\n\n\n *** compilation starts \n$dashes\n"
2369	printf " *** compilation with make using following options:\n"
2370	printf " make depository: $make_depository"
2371	if [[ "$mopts" != "" ]]
2372	then
2373	printf " make options: $mopts\n"
2374	fi
2375	printf " compilername: $compiler_name\n"
2376	printf " compiler options: $fopts\n"
2377	printf " preprocessor directives: $cpp_options \n"
2378	printf " linker options: $lopts \n"
2379	if [[ "$modules" != "" ]]
2380	then
2381	printf " modules to be load: $modules \n"
2382	fi
2383	printf " source code files: $source_list \n"
2384
2385	if [[ $localhost = nech ]]
2386	then
2387	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\" "
2388	cp $TEMPDIR_COMPILE/a.out .
2389	[[ $? != 0 ]] && compile_error=true
2390	rm -rf $TEMPDIR_COMPILE
2391	elif [[ $localhost = ibmh ]]
2392	then
2393	printf " compiler is called via ssh on \"plogin1\" \n"
2394	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\" "
2395	[[ ! -f a.out ]] && compile_error=true
2396	continue # STATUS=1, IF a.out EXISTS
2397	elif [[ $localhost = lcocean ]]
2398	then
2399	printf " compiler is called via ssh on \"ocean\" \n"
2400	echo $PWD
2401	ssh $SSH_PORTOPT ocean -l $usern "$init_cmds $module_calls cd $TEMPDIR; make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT=\"$cpp_options\" F90FLAGS=\"$fopts\" LDFLAGS=\"$lopts\" "
2402	[[ ! -f a.out ]] && compile_error=true
2403	continue # STATUS=1, IF a.out EXISTS
2404	elif [[ $localhost = lcflow ]]
2405	then
2406	printf " compiler is called via ssh on \"flow\" \n"
2407	/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\" "
2408	check_for_file=`/usr/bin/ssh $SSH_PORTOPT flow02.hpc.uni-oldenburg.de -l $usern "ls $TEMPDIR/a.out 2> /dev/null"`
2409	[[ "$check_for_file" = "" ]] && compile_error=true
2410	continue # STATUS=1, IF a.out EXISTS
2411	elif [[ $localhost = lcbullhh \|\| $localhost = lccrayb \|\| $localhost = lccrayf \|\| $localhost = lccrayh ]]
2412	then
2413	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2414	else
2415	[[ "$init_cmds" != "" ]] && eval $init_cmds
2416	[[ "$module_calls" != "" ]] && eval $module_calls
2417	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
2418	fi
2419
2420	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
2421	then
2422	printf "\n +++ error occured while compiling or linking"
2423	locat=compile
2424
2425	exit
2426	else
2427	printf "$dashes\n *** compilation finished \n"
2428	fi
2429
2430	fi
2431
2432	fi
2433
2434
2435	# PROVIDE THE INPUT FILES
2436	# LOOP OVER ALL ACTIVATED FILES (LISTED IN THE CONFIGURATION FILE)
2437	(( i = 0 ))
2438	while (( i < iin ))
2439	do
2440	(( i = i + 1 ))
2441	if (( i == 1 ))
2442	then
2443	printf "\n\n *** providing INPUT-files:\n$dashes"
2444	fi
2445
2446
2447	# SKIP OPTIONAL FILES, IF THEY DO NOT EXIST
2448	if [[ "${transin[$i]}" = unavailable ]]
2449	then
2450	if [[ "${extin[$i]}" = "" \|\| "${extin[$i]}" = " " ]]
2451	then
2452	printf "\n *** INFORMATIVE: input file \"${pathin[$i]}/${afname}${endin[$i]}\" "
2453	printf "\n is not available!"
2454	else
2455	printf "\n *** INFORMATIVE: input file \"${pathin[$i]}/${afname}${endin[$i]}.${extin[$i]}\" "
2456	printf "\n is not available!"
2457	fi
2458	continue
2459	fi
2460
2461	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
2462	files_for_pes=false; datentyp=file
2463	if [[ "${actionin[$i]}" = pe && -n $numprocs ]]
2464	then
2465	files_for_pes=true; datentyp=directory
2466	actionin[$i]=""
2467	elif [[ "${actionin[$i]}" = pe && ! -n $numprocs ]]
2468	then
2469	actionin[$i]=""
2470	elif [[ "${actionin[$i]}" = arpe && -n $numprocs ]]
2471	then
2472	files_for_pes=true; datentyp=directory
2473	actionin[$i]="ar"
2474	elif [[ "${actionin[$i]}" = arpe && ! -n $numprocs ]]
2475	then
2476	actionin[$i]="ar"
2477	elif [[ "${actionin[$i]}" = flpe && -n $numprocs ]]
2478	then
2479	files_for_pes=true; datentyp=directory
2480	actionin[$i]="fl"
2481	elif [[ "${actionin[$i]}" = flpe && ! -n $numprocs ]]
2482	then
2483	actionin[$i]="fl"
2484	fi
2485
2486	if [[ $files_for_pes = true ]]
2487	then
2488	printf "\n >>> INPUT: ${absnamein[$i]}/.... to ${localin[$i]}"
2489	else
2490	printf "\n >>> INPUT: ${absnamein[$i]} to ${localin[$i]}"
2491	fi
2492
2493	# INPUT-FILE FOR A RESTART RUN.
2494	# CHECK, IF THIS FILE STILL EXISTS ON THE TEMPORARY DATA DIRECTORY.
2495	# IF NOT, TRY TO GET IT FROM THE ARCHIVE SYSTEM
2496	if [[ "${actionin[$i]}" = fl ]]
2497	then
2498	printf "\n $datentyp will be fetched from temporary directory \"${tmp_data_catalog}\" !"
2499	if [[ $files_for_pes = false ]]
2500	then
2501	if [[ -f "$tmp_data_catalog/${frelin[$i]}" ]]
2502	then
2503	ln $tmp_data_catalog/${frelin[$i]} ${localin[$i]}
2504	got_tmp[$i]=true
2505	elif [[ -f "$WORK/${frelin[$i]}" && $ignore_archive_error = true ]]
2506	then
2507	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" !"
2508	printf "\n *** trying to use backup copy in \"$WORK\" "
2509	cp $WORK/${frelin[$i]} ${localin[$i]}
2510	else
2511	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" "
2512	printf "\n or \"$tmp_data_catalog\" does not exist!"
2513	printf "\n *** trying to get copy from archive"
2514	actionin[$i]=ar
2515	fi
2516	else
2517	if [[ -d "$tmp_data_catalog/${frelin[$i]}" ]]
2518	then
2519	mkdir ${localin[$i]}
2520	cd $tmp_data_catalog/${frelin[$i]}
2521	for file in $(ls *)
2522	do
2523	ln $file $TEMPDIR/${localin[$i]}
2524	done
2525	cd $TEMPDIR
2526	got_tmp[$i]=true
2527	elif [[ -d "$WORK/${frelin[$i]}" && $ignore_archive_error = true ]]
2528	then
2529	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" !"
2530	printf "\n *** trying to use backup copy in \"$WORK\" "
2531	cp -r $WORK/${frelin[$i]} ${localin[$i]}
2532	else
2533	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" "
2534	printf "\n or \"$tmp_data_catalog\" does not exist!"
2535	printf "\n *** trying to get copy from archive"
2536	actionin[$i]=ar
2537	fi
2538	fi
2539	fi
2540
2541
2542	# FILE IS STORED ON THE ARCHIVE SYSTEM
2543	if [[ "${actionin[$i]}" = ar ]]
2544	then
2545
2546	if [[ $files_for_pes = false ]]
2547	then
2548	printf "\n file will be restored from archive-system ($archive_system)!"
2549	else
2550	printf "\n directory will be restored from archive-system ($archive_system)!"
2551	fi
2552
2553	file_restored=false
2554
2555	if [[ $archive_system = asterix ]]
2556	then
2557	do_stagein=true
2558	(( stagein_anz = 0 ))
2559	while [[ $do_stagein = true ]]
2560	do
2561	if [[ $files_for_pes = false ]]
2562	then
2563	stagein -O ${frelin[$i]} > STAGEIN_OUTPUT
2564	else
2565	stagein -t -O ${frelin[$i]} > STAGEIN_OUTPUT
2566	fi
2567	cat STAGEIN_OUTPUT
2568	if [[ $(grep -c "st.msg:i24" STAGEIN_OUTPUT) != 0 ]]
2569	then
2570	file_restored=true
2571	do_stagein=false
2572	else
2573	(( stagein_anz = stagein_anz + 1 ))
2574	if (( stagein_anz == 10 ))
2575	then
2576	printf "\n +++ stagein stoped after 10 tries"
2577	locat=stage
2578	exit
2579	fi
2580	printf "\n +++ restoring from archive failed, trying again:"
2581	sleep 900
2582	fi
2583	done
2584	elif [[ $archive_system = DMF ]]
2585	then
2586	if [[ $files_for_pes = false ]]
2587	then
2588	printf "\n +++ restoring of single files impossible with $archive_system !\n"
2589	locat=DMF
2590	exit
2591	else
2592	find $ARCHIVE/${frelin[$i]} -type m -print \| dmget
2593	cp -r $ARCHIVE/${frelin[$i]} $PWD
2594	file_restored=true
2595	fi
2596	elif [[ $archive_system = tivoli ]]
2597	then
2598	if [[ $files_for_pes = false ]]
2599	then
2600	ssh $SSH_PORTOPT $usern@bicedata.hlrn.de "cp $PERM/${frelin[$i]} $PWD"
2601	else
2602	(( inode = 0 ))
2603	while (( inode < nodes ))
2604	do
2605	ssh $SSH_PORTOPT $usern@bicedata.hlrn.de "cd $PWD; tar xf $PERM/${frelin[$i]}/${frelin[$i]}.node_$inode.tar"
2606	(( inode = inode + 1 ))
2607	done
2608	fi
2609	file_restored=true
2610	elif [[ $archive_system = ut ]]
2611	then
2612	if [[ $files_for_pes = false ]]
2613	then
2614	cp $UT/${frelin[$i]} .
2615	else
2616	(( inode = 0 ))
2617	while (( inode < nodes ))
2618	do
2619	tar xf $UT/${frelin[$i]}/${frelin[$i]}.node_$inode.tar
2620	(( inode = inode + 1 ))
2621	done
2622	fi
2623	file_restored=true
2624	else
2625	printf "\n +++ archive_system=\"$archive_system\" restore impossible!"
2626	locat=rearchive
2627	exit
2628	fi
2629
2630	if [[ $file_restored = true ]]
2631	then
2632
2633	# PUT FILE ON THE TEMPORARY DATA DIRECTORY TOO.
2634	# THIS WILL MAKE FILE ACCESS EASIER FOR LATER RUNS
2635	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog; chmod g+rx $tmp_data_catalog
2636	if [[ $files_for_pes = false ]]
2637	then
2638	ln -f ${frelin[$i]} $tmp_data_catalog/${frelin[$i]}
2639	else
2640	mkdir $tmp_data_catalog/${frelin[$i]}
2641	ln -f ${frelin[$i]}/* $tmp_data_catalog/${frelin[$i]}
2642	fi
2643	got_tmp[$i]=true
2644
2645	# PROVIDE THE FILE UNDER ITS LOCAL NAME
2646	mv ${frelin[$i]} ${localin[$i]}
2647
2648	fi
2649	fi
2650
2651
2652	# FILE IS STORED IN THE RESPECTIVE DIRECTORY GIVEN IN THE CONFIGURATION FILE
2653	if [[ "${actionin[$i]}" = "" \|\| "${actionin[$i]}" = "di" \|\| "${actionin[$i]}" = "npe" ]]
2654	then
2655
2656	if [[ "${actionin[$i]}" = "npe" && -n $numprocs ]]
2657	then
2658
2659	# FILE COPIES ARE PROVIDED FOR ALL CORES
2660	# EACH FILE GETS A UNIQUE FILENAME WITH A FOUR DIGIT NUMBER
2661	printf "\n file will be provided for $numprocs processors"
2662	mkdir ${localin[$i]}
2663	ival=$numprocs
2664	(( ii = 0 ))
2665	while (( ii <= ival-1 ))
2666	do
2667	if (( ii < 10 ))
2668	then
2669	cp ${absnamein[$i]} ${localin[$i]}/_000$ii
2670	elif (( ii < 100 ))
2671	then
2672	cp ${absnamein[$i]} ${localin[$i]}/_00$ii
2673	elif (( ii < 1000 ))
2674	then
2675	cp ${absnamein[$i]} ${localin[$i]}/_0$ii
2676	else
2677	cp ${absnamein[$i]} ${localin[$i]}/_$ii
2678	fi
2679	(( ii = ii + 1 ))
2680	done
2681
2682	else
2683
2684	if [[ $files_for_pes = true ]]
2685	then
2686
2687	# PROVIDE FILES FOR EACH CORE
2688	# FIRST CREATE THE LOCAL DIRECTORY, THEN COPY FILES
2689	# FROM THE PERMANENT DIRECTORY BY LINKING THEM TO THE LOCAL ONE
2690	printf "\n providing $numprocs files for the respective processors"
2691	mkdir ${localin[$i]}
2692	if [[ $link_local_input = true ]]
2693	then
2694	printf " using ln -f\n"
2695	cd ${absnamein[$i]}
2696	for file in $(ls *)
2697	do
2698	ln -f $file ${localin[$i]}
2699	done
2700	cd $TEMPDIR
2701	fi
2702
2703	# IF "ln -f" FAILED OR IF "$link_local_input = false" DO A NORMAL "cp -r"
2704	if [[ ! -f "${localin[$i]}/_0000" ]]
2705	then
2706	if [[ $link_local_input = true ]]
2707	then
2708	printf " ln failed for .../_0000, using cp...\n"
2709	fi
2710	cp -r ${absnamein[$i]}/* ${localin[$i]}
2711	fi
2712
2713	else
2714
2715	# PROVIDE FILE FOR RUNS ON A SINGLE CORE
2716	if [[ $link_local_input = true ]]
2717	then
2718	printf " using ln -f\n"
2719	ln -f ${absnamein[$i]} ${localin[$i]}
2720	fi
2721	# If "ln -f" fails of if "$link_local_input = false" do a normal "cp"
2722	if [[ ! -f "${localin[$i]}" ]]
2723	then
2724	if [[ $link_local_input = true ]]
2725	then
2726	printf " ln failed, using cp...\n"
2727	fi
2728	cp ${absnamein[$i]} ${localin[$i]}
2729	fi
2730	fi
2731	fi
2732	fi
2733
2734	done
2735	if (( i != 0 ))
2736	then
2737	printf "\n$dashes\n *** all INPUT-files provided \n"
2738	fi
2739
2740
2741	# EXECUTE INPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
2742	(( i = 0 ))
2743	while (( i < iic ))
2744	do
2745	(( i = i + 1 ))
2746	if (( i == 1 ))
2747	then
2748	printf "\n\n *** execution of INPUT-commands:\n$dashes"
2749	fi
2750	printf "\n >>> ${in_command[$i]}"
2751	eval ${in_command[$i]}
2752	if (( i == iic ))
2753	then
2754	printf "\n$dashes\n"
2755	fi
2756	done
2757
2758
2759	# SET THE REMAINING CPU-TIME
2760	cpurest=${cpumax}.
2761
2762
2763	# START DVR STREAMING SERVER
2764	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
2765	then
2766	if [[ "$dvr_server" != "" ]]
2767	then
2768
2769	printf "\n\n *** preparing the dvr streaming server configuration file"
2770
2771	# CHECK, IF A DVR SERVER IS ALREADY RUNNING
2772	running_dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config \| grep -v grep) \| cut -d" " -f2`
2773	if [[ "$running_dvrserver_id" != "" ]]
2774	then
2775
2776	printf "\n\n +++ WARNING: A dvr server with id=$running_dvrserver_id is already running!"
2777	printf "\n This server is used instead starting a new one!"
2778	printf "\n If required, script \"process_dvr_output\" has to be run manually."
2779
2780	else
2781
2782	# COPY CONFIGURATION FILE FOR STREAMING SERVER FROM REPOSITORY TO HERE
2783	if [[ -f ${PALM_BIN}/.dvrserver.config ]]
2784	then
2785	cp ${PALM_BIN}/.dvrserver.config .
2786
2787	# ENTERING THE BASEDIR, UID AND GID INTO THIS FILE
2788	user_id=`id -u`
2789	group_id=`id -g`
2790
2791	# "&" IS REQUIRED AS A SEPERATOR, BECAUSE TEMPDIR CONTAINS "/"
2792	sed "s&<replace by dvr data directory>&${TEMPDIR}&g" .dvrserver.config > .dvrserver.1
2793	sed "s/<replace by user id>/$user_id/g" .dvrserver.1 > .dvrserver.2
2794	sed "s/<replace by group id>/$group_id/g" .dvrserver.2 > .dvrserver.3
2795	mv .dvrserver.3 .dvrserver.config
2796	rm .dvrserver.1 .dvrserver.2
2797
2798	# START DVR SERVER IN BACKGROUND, GET HIS ID AND PRINT ON TERMINAL
2799	$dvr_server .dvrserver.config >> DVR_LOGFILE 2>&1 &
2800	dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config) \| cut -d" " -f2`
2801	printf "\n *** streaming server with id=$dvrserver_id is started in background"
2802	local_dvrserver_running=.TRUE.
2803	else
2804	printf "\n +++ missing file \".dvrserver.config\" in directory:"
2805	printf "\n \"$PALM_BIN\" "
2806	locat=dvr
2807	exit
2808	fi
2809
2810	fi
2811
2812	else
2813	printf "\n\n --- INFORMATIVE: no dvr streaming server will be started"
2814	fi
2815	fi
2816
2817
2818	# CREATE THE NAMELIST-FILE WITH VALUES OF ENVIRONMENT-VARIABLES REQUIRED BY PALM
2819	# (FILE ENVPAR WILL BE READ BY PALM)
2820	cat > ENVPAR << %%END%%
2821	&envpar run_identifier = '$fname', host = '$localhost',
2822	write_binary = '$write_binary', tasks_per_node = $tasks_per_node,
2823	maximum_parallel_io_streams = $maximum_parallel_io_streams,
2824	maximum_cpu_time_allowed = ${cpumax}.,
2825	revision = '$global_revision',
2826	local_dvrserver_running = $local_dvrserver_running,
2827	batch_job = $batch_job /
2828
2829	%%END%%
2830
2831
2832	# STARTING THE EXECUTABLE
2833	printf "\n\n *** execution starts in directory\n \"`pwd`\"\n$dashes\n"
2834	PATH=$PATH:$TEMPDIR
2835
2836
2837	if [[ $execute_command != "none" ]]
2838	then
2839
2840	printf "\n +++ branch still not realized"
2841	locat=execution
2842	exit
2843
2844	else
2845
2846	# MPI DEBUG OPTION (ARGUMENT CHECKING, SLOWS DOWN EXECUTION DUE TO INCREASED LATENCY)
2847	if [[ "$mpi_debug" = true ]]
2848	then
2849	export MPI_CHECK_ARGS=1
2850	printf "\n +++ MPI_CHECK_ARGS=$MPI_CHECK_ARGS"
2851	fi
2852
2853	if [[ "$totalview" = true ]]
2854	then
2855	printf "\n *** totalview debugger will be used"
2856	tv_opt="-tv"
2857	else
2858	tv_opt=""
2859	fi
2860
2861	if [[ "$cond1" = debug \|\| "$cond2" = debug ]]
2862	then
2863
2864	#Interactive ALLINEA DEBUG seesion
2865	if [[ "$ENVIRONMENT" != BATCH ]]
2866	then
2867	if [[ $host = lccrayb \|\| $host = lccrayh ]]
2868	then
2869	if [[ "$allinea" = true ]]
2870	then
2871	echo "--- aprun -n $ii -N $tasks_per_node a.out < runfile_atmos"
2872
2873	ddt aprun -n $ii -N $tasks_per_node a.out
2874	wait
2875	fi
2876	fi
2877	fi
2878
2879	if [[ $localhost = ibmh ]]
2880	then
2881
2882	# SETUP THE IBM MPI ENVIRONMENT
2883	export MP_SHARED_MEMORY=yes
2884	export AIXTHREADS_SCOPE=S
2885	export OMP_NUM_THREADS=$threads_per_task
2886	export AUTHSTATE=files
2887	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
2888
2889	# FOLLOWING OPTIONS ARE MANDATORY FOR TOTALVIEW
2890	export MP_ADAPTER_USE=shared
2891	export MP_CPU_USE=multiple
2892	export MP_TIMEOUT=1200
2893
2894	unset MP_TASK_AFFINITY
2895
2896	if [[ "$LOADLBATCH" = yes ]]
2897	then
2898	totalview poe a.out
2899	else
2900	echo totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1
2901	export TVDSVRLAUNCHCMD=ssh
2902	totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1
2903	fi
2904
2905	fi # END DEBUG MODE
2906
2907	else
2908
2909	# NORMAL EXECUTION
2910	if [[ -n $numprocs ]]
2911	then
2912
2913	# RUNNING THE PROGRAM ON PARALLEL MACHINES
2914	if [[ $(echo $host \| cut -c1-3) = ibm ]]
2915	then
2916
2917	# SETUP THE IBM MPI ENVIRONMENT
2918	if [[ $host != ibmh && $host != ibmkisti ]]
2919	then
2920	export MP_SHARED_MEMORY=yes
2921	export AIXTHREAD_SCOPE=S
2922	export OMP_NUM_THREADS=$threads_per_task
2923	export XLSMPOPTS="spins=0:yields=0:stack=20000000"
2924	export AUTHSTATE=files
2925	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
2926	# export MP_PRINTENV=yes
2927
2928	# TUNING-VARIABLES TO IMPROVE COMMUNICATION SPEED
2929	# DO NOT SHOW SIGNIFICANT EFFECTS (SEP 04, FEDERATION-SWITCH)
2930	export MP_WAIT_MODE=poll
2931	[[ $node_usage = not_shared ]] && export MP_SINGLE_THREAD=yes
2932	fi
2933
2934	if [[ $host = ibmkisti ]]
2935	then
2936	export LANG=en_US
2937	export MP_SHARED_MEMORY=yes
2938	if [[ $threads_per_task = 1 ]]
2939	then
2940	export MP_SINGLE_THREAD=yes
2941	export MEMORY_AFFINITY=MCM
2942	else
2943	export OMP_NUM_THREADS=$threads_per_task
2944	fi
2945	fi
2946
2947	if [[ "$LOADLBATCH" = yes ]]
2948	then
2949	printf "\n--- Control: OMP_NUM_THREADS = \"$OMP_NUM_THREADS\" \n"
2950	if [[ "$cond1" = hpmcount \|\| "$cond2" = hpmcount ]]
2951	then
2952	/opt/optibm/HPM_2_4_1/bin/hpmcount a.out
2953	else
2954	if [[ $run_coupled_model = false ]]
2955	then
2956	if [[ "$ocean_file_appendix" = true ]]
2957	then
2958	echo "precursor_ocean" > runfile_atmos
2959	else
2960	echo "precursor_atmos" > runfile_atmos
2961	fi
2962	else
2963	(( iia = $numprocs_atmos / $threads_per_task ))
2964	(( iio = $numprocs_ocean / $threads_per_task ))
2965	printf "\n coupled run ($iia atmosphere, $iio ocean)"
2966	printf "\n using $coupled_mode coupling"
2967	printf "\n\n"
2968	echo "coupled_run $iia $iio" > runfile_atmos
2969	fi
2970	poe ./a.out < runfile_atmos
2971	fi
2972	else
2973	if [[ $localhost = ibmh \|\| $localhost = ibms ]]
2974	then
2975	poe a.out -procs $numprocs -nodes 1 -rmpool 0
2976	elif [[ $localhost = ibmkisti \|\| $localhost = ibmku ]]
2977	then
2978	if [[ -f $hostfile ]]
2979	then
2980	cp $hostfile hostfile
2981	else
2982	(( ii = 1 ))
2983	while (( ii <= $numprocs ))
2984	do
2985	echo $localhost_realname >> hostfile
2986	(( ii = ii + 1 ))
2987	done
2988	fi
2989	export MP_HOSTFILE=hostfile
2990	if [[ $run_coupled_model = false ]]
2991	then
2992	if [[ "$ocean_file_appendix" = true ]]
2993	then
2994	echo "precursor_ocean" > runfile_atmos
2995	else
2996	echo "precursor_atmos" > runfile_atmos
2997	fi
2998	else
2999	(( iia = $numprocs_atmos / $threads_per_task ))
3000	(( iio = $numprocs_ocean / $threads_per_task ))
3001	printf "\n coupled run ($iia atmosphere, $iio ocean)"
3002	printf "\n using $coupled_mode coupling"
3003	printf "\n\n"
3004	echo "coupled_run $iia $iio" > runfile_atmos
3005	fi
3006
3007	poe ./a.out -procs $numprocs < runfile_atmos
3008
3009	else
3010	if [[ "$host_file" = "" ]]
3011	then
3012	printf "\n +++ no hostfile given in configuration file"
3013	locat=config_file
3014	exit
3015	else
3016	eval host_file=$host_file
3017	fi
3018	export MP_HOSTFILE=$host_file
3019	poe a.out -procs $numprocs -tasks_per_node $numprocs
3020	fi
3021	fi
3022
3023	elif [[ $host = nech ]] # running on NEC machines
3024	then
3025
3026	(( ii = nodes ))
3027	if [[ $ii = 1 ]]
3028	then
3029	export F_ERRCNT=0 # acceptable number of errors before program is stopped
3030	export MPIPROGINF=YES
3031	# export F_TRACE=YES\|FMT1\|FMT2 # output of ftrace informations to job protocol
3032	echo "*** execution on single node with mpirun"
3033	mpirun -np $numprocs ./a.out
3034	else
3035	(( i = 0 ))
3036	while (( i < ii ))
3037	do
3038	echo "-h $i -p $tasks_per_node -e ./mpi_exec_shell" >> multinode_config
3039	(( i = i + 1 ))
3040	done
3041
3042	echo "#!/bin/sh" > mpi_exec_shell
3043	echo " " >> mpi_exec_shell
3044	echo "set -u" >> mpi_exec_shell
3045	echo "F_ERRCNT=0" >> mpi_exec_shell
3046	echo "MPIPROGINV=YES" >> mpi_exec_shell
3047	echo "OMP_NUM_THREADS=$threads_per_task" >> mpi_exec_shell
3048	echo "cpurest=$cpurest" >> mpi_exec_shell
3049	echo "fname=$fname" >> mpi_exec_shell
3050	echo "localhost=$localhost" >> mpi_exec_shell
3051	echo "return_address=$return_address" >> mpi_exec_shell
3052	echo "return_username=$return_username" >> mpi_exec_shell
3053	echo "tasks_per_node=$tasks_per_node" >> mpi_exec_shell
3054	echo "write_binary=$write_binary" >> mpi_exec_shell
3055	echo "use_seperate_pe_for_dvrp_output=$use_seperate_pe_for_dvrp_output" >> mpi_exec_shell
3056	echo " " >> mpi_exec_shell
3057	echo "export F_ERRCNT" >> mpi_exec_shell
3058	echo "export MPIPROGINV" >> mpi_exec_shell
3059	echo "export OMP_NUM_THREADS" >> mpi_exec_shell
3060	echo "export cpurest" >> mpi_exec_shell
3061	echo "export fname" >> mpi_exec_shell
3062	echo "export localhost" >> mpi_exec_shell
3063	echo "export return_address" >> mpi_exec_shell
3064	echo "export return_username" >> mpi_exec_shell
3065	echo "export tasks_per_node" >> mpi_exec_shell
3066	echo "export write_binary" >> mpi_exec_shell
3067	echo "export use_seperate_pe_for_dvrp_output" >> mpi_exec_shell
3068	echo " " >> mpi_exec_shell
3069	echo "exec ./a.out" >> mpi_exec_shell
3070
3071	chmod u+x mpi_exec_shell
3072	export MPIPROGINF=YES
3073	mpirun -f multinode_config &
3074	wait
3075
3076	fi
3077
3078	elif [[ $(echo $host \| cut -c1-2) = lc && $host != lckyoto && $host != lctit ]]
3079	then
3080
3081	# COPY HOSTFILE FROM SOURCE DIRECTORY OR CREATE IT, IF IT
3082	# DOES NOT EXIST
3083	if [[ $host != lcbullhh && $host != lccrayb && $host != lccrayf && $host != lccrayh && $host != lckyuh && $host != lckyut && $host != lcocean ]]
3084	then
3085	if [[ -f $hostfile ]]
3086	then
3087	cp $hostfile hostfile
3088	(( ii = $numprocs / $threads_per_task ))
3089	[[ $ii = 0 ]] && (( ii = 1 ))
3090	else
3091	(( ii = 1 ))
3092	while (( ii <= $numprocs / $threads_per_task ))
3093	do
3094	echo $localhost_realname >> hostfile
3095	(( ii = ii + 1 ))
3096	done
3097	if (( $numprocs / $threads_per_task == 0 ))
3098	then
3099	echo $localhost_realname >> hostfile
3100	fi
3101	fi
3102	eval zeile=\"`head -n $ii hostfile`\"
3103	printf "\n *** running on: $zeile"
3104	fi
3105
3106	(( ii = $numprocs / $threads_per_task ))
3107	[[ $ii = 0 ]] && (( ii = 1 ))
3108	export OMP_NUM_THREADS=$threads_per_task
3109
3110	if [[ $threads_per_task != 1 ]]
3111	then
3112	# INCREASE STACK SIZE TO UNLIMITED, BECAUSE OTHERWISE LARGE RUNS
3113	# MAY ABORT
3114	ulimit -s unlimited
3115	printf "\n threads per task: $threads_per_task stacksize: unlimited"
3116	fi
3117	if [[ $run_coupled_model = false ]]
3118	then
3119	if [[ "$ocean_file_appendix" = true ]]
3120	then
3121	echo "precursor_ocean" > runfile_atmos
3122	else
3123	echo "precursor_atmos" > runfile_atmos
3124	fi
3125	printf "\n\n"
3126
3127	if [[ $host = lccrayb \|\| $host = lccrayh ]]
3128	then
3129	echo "--- aprun -n $ii -N $tasks_per_node a.out < runfile_atmos"
3130	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
3131	elif [[ $host = lcbullhh ]]
3132	then
3133	export OMPI_MCA_pml=cm
3134	export OMPI_MCA_mtl=mxm
3135	export OMPI_MCA_coll=^ghc
3136	export OMPI_MCA_mtl_mxm_np=0
3137	export MXM_RDMA_PORTS=mlx5_0:1
3138	export MXM_LOG_LEVEL=ERROR
3139	export OMP_NUM_THREADS=$threads_per_task
3140	export KMP_AFFINITY=verbose,granularity=core,compact,1
3141	export KMP_STACKSIZE=64m
3142
3143	srun --nodes=$nodes --ntasks-per-node=$tasks_per_node ./a.out < runfile_atmos
3144
3145	elif [[ $host = lccrayf ]]
3146	then
3147	aprun -j1 -n $ii -N $tasks_per_node -m ${memory}M a.out < runfile_atmos
3148	elif [[ $host = lcxe6 \|\| $host = lcxt5m ]]
3149	then
3150	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
3151	elif [[ $host = lcflow ]]
3152	then
3153	mpirun -np $ii a.out < runfile_atmos
3154	elif [[ $host = lcocean ]]
3155	then
3156	mpirun a.out $ROPTS < runfile_atmos
3157	elif [[ $host = lcsb ]]
3158	then
3159	mpirun_rsh -hostfile $PBS_NODEFILE -np `cat $PBS_NODEFILE \| wc -l` a.out < runfile_atmos
3160	elif [[ $host = lckiaps ]]
3161	then
3162	mpirun -np $ii -f $PBS_NODEFILE a.out < runfile_atmos
3163	elif [[ $host = lckyu* ]]
3164	then
3165	mpiexec -n $ii --stdin runfile_atmos ./a.out
3166	else
3167	mpiexec -machinefile hostfile -n $ii a.out < runfile_atmos
3168	fi
3169
3170	else
3171
3172	# CURRENTLY THERE IS NO FULL MPI-2 SUPPORT ON ICE AND XT4
3173	(( iia = $numprocs_atmos / $threads_per_task ))
3174	(( iio = $numprocs_ocean / $threads_per_task ))
3175	printf "\n coupled run ($iia atmosphere, $iio ocean)"
3176	printf "\n using $coupled_mode coupling"
3177	printf "\n\n"
3178
3179	if [[ $coupled_mode = "mpi2" ]]
3180	then
3181	echo "atmosphere_to_ocean $iia $iio" > runfile_atmos
3182	echo "ocean_to_atmosphere $iia $iio" > runfile_ocean
3183
3184	if [[ $host = lccrayf \|\| $host = lcxe6 \|\| $host = lcxt5m ]]
3185	then
3186
3187	aprun -n $iia -N $tasks_per_node a.out < runfile_atmos &
3188	aprun -n $iio -N $tasks_per_node a.out < runfile_ocean &
3189
3190	else
3191	# WORKAROUND BECAUSE mpiexec WITH -env option IS NOT AVAILABLE ON SOME SYSTEMS
3192	mpiexec -machinefile hostfile -n $iia a.out < runfile_atmos &
3193	mpiexec -machinefile hostfile -n $iio a.out < runfile_ocean &
3194	# mpiexec -machinefile hostfile -n $iia -env coupling_mode atmosphere_to_ocean a.out &
3195	# mpiexec -machinefile hostfile -n $iio -env coupling_mode ocean_to_atmosphere a.out &
3196	fi
3197	wait
3198
3199	else
3200
3201	echo "coupled_run $iia $iio" > runfile_atmos
3202
3203	if [[ $host = lccrayf \|\| $host = lcxe6 \|\| $host = lcxt5m ]]
3204	then
3205
3206	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos
3207
3208	elif [[ $host = lck \|\| $host = lckordi ]]
3209	then
3210
3211	mpiexec -n $ii ./a.out < runfile_atmos &
3212
3213	elif [[ $host = lckyu* ]]
3214	then
3215
3216	mpiexec -n $ii --stdin runfile_atmos ./a.out
3217
3218	elif [[ $host = lcmuk ]]
3219	then
3220
3221	mpiexec -machinefile hostfile -n $ii a.out < runfile_atmos
3222
3223	fi
3224	wait
3225	fi
3226
3227	fi
3228
3229	elif [[ $host = lckyoto ]]
3230	then
3231	set -xv
3232	export P4_RSHCOMMAND=plesh
3233	echo " P4_RSHCOMMAND = $P4_RSHCOMMAND"
3234	if [[ "$ENVIRONMENT" = BATCH ]]
3235	then
3236	if [[ "$cond2" = fujitsu ]]
3237	then
3238	mpiexec -n $numprocs ./a.out # for fujitsu-compiler
3239	elif [[ "cond2" = pgi ]]
3240	then
3241	mpirun -np $numprocs -machinefile ${QSUB_NODEINF} ./a.out
3242	else
3243	mpirun_rsh -np $numprocs -hostfile ${QSUB_NODEINF} MV2_USE_SRQ=0 ./a.out \|\| /bin/true
3244	fi
3245	else
3246	if [[ "$cond2" = "" ]]
3247	then
3248	mpiruni_rsh -np $numprocs ./a.out # for intel
3249	else
3250	mpirun -np $numprocs ./a.out
3251	fi
3252	fi
3253	set +xv
3254
3255	elif [[ $host = lctit ]]
3256	then
3257	export OMP_NUM_THREADS=$threads_per_task
3258	echo "OMP_NUM_THREADS=$OMP_NUM_THREADS"
3259	if [[ "$threads_per_task" != 1 ]]
3260	then
3261	export MV2_ENABLE_AFFINITY=0
3262	fi
3263	echo "----- PBS_NODEFILE content:"
3264	cat $PBS_NODEFILE
3265	echo "-----"
3266	(( ii = $numprocs / $threads_per_task ))
3267	echo "mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out"
3268	mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out
3269
3270	else
3271	mpprun -n $numprocs a.out
3272	fi
3273	else
3274	a.out
3275	fi
3276
3277	fi # end normal (non-debug) execution
3278
3279	fi # end explicit execute_command or host-specific execute actions
3280
3281	if [[ $? != 0 ]]
3282	then
3283
3284	# ABORT IN CASE OF RUNTIME ERRORS
3285	printf "\n +++ runtime error occured"
3286	locat=execution
3287	exit
3288
3289	else
3290
3291	printf "\n$dashes\n *** execution finished \n"
3292
3293	# STOP THE DVR STREAMING SERVER AND PROCESS THE DVR OUTPUT IN ORDER
3294	# TO CREAT DVRS- AND HTML-FILES CONTAINING ALL STREAMS
3295	if [[ "$dvrserver_id" != "" ]]
3296	then
3297	kill $dvrserver_id
3298	printf "\n *** dvr server with id=$dvrserver_id has been stopped"
3299
3300	# IF THERE IS A DIRECTORY, DATA HAVE BEEN OUTPUT BY THE
3301	# STREAMING SERVER. OTHERWISE, USER HAS CHOSEN dvrp_output=local
3302	if [[ -d DATA_DVR ]]
3303	then
3304
3305	# ADD THE CURRENT DVR CONFIGURATION FILE TO THE DVR OUTPUT
3306	# DIRECTORY
3307	cp .dvrserver.config DATA_DVR
3308
3309	# PROCESS THE DVR OUTPUT (OPTION -s FOR GENERATING
3310	# SEQUENCE MODE DATA TOO)
3311	process_dvr_output -d DATA_DVR -f $fname -s
3312
3313	else
3314
3315	# PROCESS THE LOCAL OUTPUT
3316	process_dvr_output -l -d DATA_DVR -f $fname
3317
3318	fi
3319
3320	elif [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
3321	then
3322
3323	# PROCESS DVR OUTPUT GENERATD IN LOCAL MODE (dvrp_output=local)
3324	process_dvr_output -l -d DATA_DVR -f $fname
3325
3326	fi
3327	fi
3328
3329
3330
3331	# CALL OF combine_plot_fields IN ORDER TO MERGE SINGLE FILES WRITTEN
3332	# BY EACH CORE INTO ONE FILE
3333	if [[ ! -f ${PALM_BIN}/combine_plot_fields${block}.x ]]
3334	then
3335	printf "\n\n\n +++ WARNING: no combine_plot_fields found for given block \"$cond1 $cond2\""
3336	printf "\n 2d- and/or 3d-data may be incomplete!"
3337	printf "\n Run \"mbuild -u -h $localhost\" to generate utilities for this block.\n"
3338	elif [[ "$combine_plot_fields" == true ]]
3339	then
3340	if [[ $localhost = lccrayh \|\| $localhost = lccrayb ]]
3341	then
3342	printf "\n\n\n *** post-processing: now executing \"aprun -n 1 -N 1 combine_plot_fields${block}.x\" ..."
3343	aprun -n 1 -N 1 combine_plot_fields${block}.x
3344	else
3345	printf "\n\n\n *** post-processing: now executing \"combine_plot_fields${block}.x\" ..."
3346	combine_plot_fields${block}.x
3347	fi
3348	else
3349
3350	# TEMPORARY SOLUTION TO SKIP combine_plot_fields. THIS IS REQUIRED IN CASE OF HUGE AMOUNT OF
3351	# DATA OUTPUT. TO DO: EXTEND THIS BRANCH BY CREATING A BATCH JOB for combine_plot_fields.
3352	# ??? koennen wir das streichen ???
3353	printf "\n\n\n *** post-processing: skipping combine_plot_fields (-Z option set) ..."
3354	fi
3355
3356
3357
3358	# EXECUTE OUTPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
3359	(( i = 0 ))
3360	while (( i < ioc ))
3361	do
3362	(( i = i + 1 ))
3363	if (( i == 1 ))
3364	then
3365	printf "\n\n *** execution of OUTPUT-commands:\n$dashes"
3366	fi
3367	printf "\n >>> ${out_command[$i]}"
3368	eval ${out_command[$i]}
3369	if (( i == ioc ))
3370	then
3371	printf "\n$dashes\n"
3372	fi
3373	done
3374
3375
3376	# IN TRACE-MODE PRINT CONTENTS OF THE CURRENT (TEMPORARY) WORKING DIRECTORY
3377	if [[ $do_trace = true ]]
3378	then
3379	printf "\n\n"
3380	ls -al
3381	fi
3382
3383
3384
3385	# COPY LOCAL OUTPUT-FILES TO THEIR PERMANENT DESTINATIONS
3386	(( i = 0 ))
3387	while (( i < iout ))
3388	do
3389	(( i = i + 1 ))
3390	if (( i == 1 ))
3391	then
3392	printf "\n\n *** saving OUTPUT-files:\n$dashes"
3393	fi
3394
3395	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
3396	files_for_pes=false; filetyp=file
3397	if [[ "${actionout[$i]}" = pe && -n $numprocs ]]
3398	then
3399	files_for_pes=true; filetyp=directory
3400	actionout[$i]=""
3401	elif [[ "${actionout[$i]}" = pe && ! -n $numprocs ]]
3402	then
3403	actionout[$i]=""
3404	elif [[ "${actionout[$i]}" = arpe && -n $numprocs ]]
3405	then
3406	files_for_pes=true; filetyp=directory
3407	actionout[$i]="ar"
3408	elif [[ "${actionout[$i]}" = arpe && ! -n $numprocs ]]
3409	then
3410	actionout[$i]="ar"
3411	elif [[ "${actionout[$i]}" = flpe && -n $numprocs ]]
3412	then
3413	files_for_pes=true; filetyp=directory
3414	actionout[$i]="fl"
3415	elif [[ "${actionout[$i]}" = flpe && ! -n $numprocs ]]
3416	then
3417	actionout[$i]="fl"
3418	elif [[ "${actionout[$i]}" = trpe && -n $numprocs ]]
3419	then
3420	files_for_pes=true; filetyp=directory
3421	actionout[$i]="tr"
3422	elif [[ "${actionout[$i]}" = trpe && ! -n $numprocs ]]
3423	then
3424	actionout[$i]="tr"
3425	fi
3426
3427	if [[ ! -f ${localout[$i]} && $files_for_pes = false ]]
3428	then
3429	printf "\n +++ temporary OUTPUT-file ${localout[$i]} does not exist\n"
3430	elif [[ ! -d ${localout[$i]} && $files_for_pes = true ]]
3431	then
3432	printf "\n +++ temporary OUTPUT-file ${localout[$i]}/.... does not exist\n"
3433	else
3434
3435
3436	# COPY VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
3437	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
3438	if [[ "${actionout[$i]}" = tr ]]
3439	then
3440	if [[ $localhost != $fromhost ]]
3441	then
3442	if [[ $files_for_pes = false ]]
3443	then
3444	cps=""
3445	cst=""
3446	else
3447	cps=-c
3448	cst="/"
3449	fi
3450	if [[ $localhost = nech ]]
3451	then
3452
3453	# TRANSFER IN SEPERATE JOB
3454	# FIRST COPY FILE TO TEMPORY DATA DIRECTORY
3455	[[ ! -d $tmp_data_catalog/TRANSFER ]] && mkdir -p $tmp_data_catalog/TRANSFER
3456	file_to_transfer=${fname}_${localout[$i]}_to_transfer_$kennung
3457	if [[ $files_for_pes = false ]]
3458	then
3459	ln -f ${localout[$i]} $tmp_data_catalog/TRANSFER/$file_to_transfer
3460	else
3461	mkdir $tmp_data_catalog/TRANSFER/$file_to_transfer
3462	ln ${localout[$i]}/* $tmp_data_catalog/TRANSFER/$file_to_transfer
3463	fi
3464
3465	echo "set -x" > transfer_${localout[$i]}
3466	echo "cd $tmp_data_catalog/TRANSFER" >> transfer_${localout[$i]}
3467
3468	printf "\n >>> OUTPUT: ${localout[$i]}$cst by SCP in seperate job to"
3469	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}$cst"
3470	printf "\n or higher cycle\n"
3471	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]}
3472
3473	echo "[[ \$? = 0 ]] && rm $file_to_transfer" >> transfer_${localout[$i]}
3474
3475	if [[ $localhost = nech ]]
3476	then
3477	subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 900 $PORTOPT transfer_${localout[$i]}
3478	else
3479	if [[ "$LOGNAME" = b323013 ]]
3480	then
3481	subjob -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3482	else
3483	subjob -d -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3484	fi
3485	fi
3486
3487	else
3488
3489	# TRANSFER WITHIN THIS JOB
3490	transfer_failed=false
3491	printf "\n >>> OUTPUT: ${localout[$i]}$cst by SCP to"
3492	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}$cst\n"
3493	if [[ $localhost = lccrayb ]]
3494	then
3495	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]}"
3496	elif [[ $localhost = lccrayh ]]
3497	then
3498	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]}"
3499	elif [[ $localhost = lcbullhh ]]
3500	then
3501	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]}"
3502	elif [[ $localhost = lcxe6 ]]
3503	then
3504	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]}"
3505	else
3506	batch_scp $PORTOPT $cps -b -m -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
3507	fi
3508	[[ $? != 0 ]] && transfer_failed=true
3509
3510	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
3511	if [[ $transfer_failed = true ]]
3512	then
3513	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
3514	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
3515
3516	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
3517	eval local_catalog=${pathout[$i]}
3518	if [[ ! -d $local_catalog ]]
3519	then
3520	printf " *** local directory does not exist. Trying to create:\n"
3521	printf " $local_catalog \n"
3522	mkdir -p $local_catalog
3523	fi
3524	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
3525	transfer_problems=true
3526	fi
3527	fi
3528	else
3529
3530	# UNSET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE COPIED ON THIS MACHINE
3531	actionout[$i]=""
3532	fi
3533	fi
3534
3535
3536	# APPEND VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
3537	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
3538	if [[ "${actionout[$i]}" = tra ]]
3539	then
3540	if [[ $localhost != $fromhost ]]
3541	then
3542	if [[ $localhost = ibmh \|\| $localhost = nech ]]
3543	then
3544
3545	# TRANSFER IN SEPERATE JOB
3546	# FIRST COPY FILE TO TEMPORY DATA DIRECTORY
3547	[[ ! -d $tmp_data_catalog/TRANSFER ]] && mkdir -p $tmp_data_catalog/TRANSFER
3548	file_to_transfer=${fname}_${localout[$i]}_to_transfer_$kennung
3549	ln -f ${localout[$i]} $tmp_data_catalog/TRANSFER/$file_to_transfer
3550
3551	echo "set -x" > transfer_${localout[$i]}
3552	echo "cd $tmp_data_catalog/TRANSFER" >> transfer_${localout[$i]}
3553
3554	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP in seperate job to"
3555	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}"
3556	printf "\n or higher cycle\n"
3557	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]}
3558
3559	echo "[[ \$? = 0 ]] && rm $file_to_transfer" >> transfer_${localout[$i]}
3560
3561	if [[ $localhost = nech ]]
3562	then
3563	subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 900 $PORTOPT transfer_${localout[$i]}
3564	else
3565	if [[ $LOGNAME = b323013 ]]
3566	then
3567	subjob -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3568	else
3569	subjob -d -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
3570	fi
3571	fi
3572
3573	else
3574
3575	# TRANSFER WITHIN THIS JOB
3576	transfer_failed=false
3577	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP to"
3578	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}\n"
3579	if [[ $localhost = lccrayb ]]
3580	then
3581	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]}"
3582	elif [[ $localhost = lccrayh ]]
3583	then
3584	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]}"
3585	elif [[ $localhost = lcxe6 ]]
3586	then
3587	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]}"
3588	else
3589	batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
3590	fi
3591	[[ $? != 0 ]] && transfer_failed=true
3592
3593	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
3594	if [[ $transfer_failed = true ]]
3595	then
3596	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
3597	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
3598
3599	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
3600	eval local_catalog=${pathout[$i]}
3601	if [[ ! -d $local_catalog ]]
3602	then
3603	printf " *** local directory does not exist. Trying to create:\n"
3604	printf " $local_catalog \n"
3605	mkdir -p $local_catalog
3606	fi
3607
3608	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
3609	transfer_problems=true
3610	fi
3611	fi
3612	else
3613
3614	# RESET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE APPENDED ON THIS MACHINE
3615	actionout[$i]=a
3616	fi
3617	fi
3618
3619
3620	# OUTPUT-FILE FOR A RESTART-RUN.
3621	# FILE IS MOVED TO THE TEMPORARY DATA DIRECTORY USING link COMMAND.
3622	# OPTION -f IS USED TO OVERWRITE EXISTING FILES.
3623	# AS LAST ACTION, ARCHIVING IS INITIATED.
3624	if [[ "${actionout[$i]}" = fl ]]
3625	then
3626	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog
3627	chmod g+rx $tmp_data_catalog
3628	if [[ $files_for_pes = false ]]
3629	then
3630	printf "\n >>> OUTPUT: ${localout[$i]} to"
3631	printf "\n $tmp_data_catalog/${frelout[$i]} (temporary data catalog)\n"
3632	ln -f ${localout[$i]} $tmp_data_catalog/${frelout[$i]}
3633	else
3634	printf "\n >>> OUTPUT: ${localout[$i]}/.... to"
3635	printf "\n $tmp_data_catalog/${frelout[$i]} (temporary data catalog)\n"
3636	mkdir $tmp_data_catalog/${frelout[$i]}
3637	cd ${localout[$i]}
3638	for file in $(ls *)
3639	do
3640	ln -f $file $tmp_data_catalog/${frelout[$i]}
3641	done
3642	cd $TEMPDIR
3643	fi
3644
3645
3646	# CREATE AND SUBMIT ARCHIVING-JOB
3647	if [[ $store_on_archive_system = true ]]
3648	then
3649
3650	if [[ $archive_system = asterix ]]
3651	then
3652	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
3653	if [[ $files_for_pes = false ]]
3654	then
3655	echo "stageout ${frelout[$i]} > STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
3656	else
3657	echo "stageout -t ${frelout[$i]} > STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
3658	fi
3659	echo "cat STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
3660	echo "if [[ \$(grep -c \"st.msg:150\" STAGE_OUTPUT${i}_$kennung) != 0 ]]" >> archive_${frelout[$i]}
3661	echo "then" >> archive_${frelout[$i]}
3662	echo " do_stageout=false" >> archive_${frelout[$i]}
3663	echo "else" >> archive_${frelout[$i]}
3664	echo " echo \" +++ $filetyp ${frelout[$i]} could not be stored on archive-system\" " >> archive_${frelout[$i]}
3665	echo " cat /dev/null > ~/job_queue/ARCHIVE_ERROR_$fname" >> archive_${frelout[$i]}
3666	echo " cat STAGE_OUTPUT${i}_$kennung > ~/job_queue/archive_${frelout[$i]}_error" >> archive_${frelout[$i]}
3667	echo " echo \" *** $filetyp ${frelout[$i]} will be copied to \$WORK as backup\" " >> archive_${frelout[$i]}
3668	if [[ $files_for_pes = false ]]
3669	then
3670	echo " cp ${frelout[$i]} \$WORK" >> archive_${frelout[$i]}
3671	else
3672	echo " cp -r ${frelout[$i]} \$WORK/${frelout[$i]}" >> archive_${frelout[$i]}
3673	fi
3674	echo " echo \" *** $filetyp ${frelout[$i]} saved\" " >> archive_${frelout[$i]}
3675	echo "fi" >> archive_${frelout[$i]}
3676	echo "rm STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
3677	elif [[ $archive_system = DMF ]]
3678	then
3679	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
3680	if [[ $files_for_pes = false ]]
3681	then
3682	printf "\n +++ archiving of single files impossible with $archive_system !\n"
3683	locat=DMF
3684	exit
3685	else
3686	# ??? nicht benÃ¶tigte Archiv-Systeme entfernen ???
3687	# FUER RECHNER IN JUELICH. DORT KOENNTEN AUCH
3688	# EINZELNE DATEIEN GESICHERT WERDEN (SPAETER KORR.)
3689	echo "rm -rf \$ARCHIVE/${frelout[$i]}" >> archive_${frelout[$i]}
3690	echo "cp -r ${frelout[$i]} \$ARCHIVE" >> archive_${frelout[$i]}
3691	fi
3692	elif [[ $archive_system = tivoli ]]
3693	then
3694	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
3695	if [[ $files_for_pes = false ]]
3696	then
3697	# REMOVE EXISTING OLD FILES FROM THE ARCHIVE
3698	echo "set -x" >> archive_${frelout[$i]}
3699	echo "rm -rf \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
3700	echo "cp ${frelout[$i]} \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
3701	else
3702
3703	echo "set -x" >> archive_${frelout[$i]}
3704	echo "rm -rf \$PERM/${frelout[$i]}/*" >> archive_${frelout[$i]}
3705	echo "[[ ! -d \$PERM/${frelout[$i]} ]] && mkdir $PERM/${frelout[$i]}" >> archive_${frelout[$i]}
3706	cd $tmp_data_catalog
3707	all_files=`ls -1 ${frelout[$i]}/*`
3708	cd - > /dev/null
3709	(( inode = 0 ))
3710	(( tp1 = tasks_per_node + 1 ))
3711	while (( inode < nodes ))
3712	do
3713	files=`echo $all_files \| cut -d" " -f1-$tasks_per_node`
3714	all_files=`echo $all_files \| cut -d" " -f$tp1-`
3715	echo "tar cvf \$PERM/${frelout[$i]}/${frelout[$i]}.node_$inode.tar $files" >> archive_${frelout[$i]}
3716	(( inode = inode + 1 ))
3717	done
3718	fi
3719	elif [[ $archive_system = ut ]]
3720	then
3721	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
3722	if [[ $files_for_pes = false ]]
3723	then
3724	# REMOVE EXISTING OLD FILES FROM THE ARCHIVE
3725	echo "set -x" >> archive_${frelout[$i]}
3726	echo "rm -rf \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
3727	echo "cp ${frelout[$i]} \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
3728	else
3729
3730	echo "set -x" >> archive_${frelout[$i]}
3731	echo "rm -rf \$UT/${frelout[$i]}/*" >> archive_${frelout[$i]}
3732	echo "[[ ! -d \$UT/${frelout[$i]} ]] && mkdir $UT/${frelout[$i]}" >> archive_${frelout[$i]}
3733	cd $tmp_data_catalog
3734	all_files=`ls -1 ${frelout[$i]}/*`
3735	cd - > /dev/null
3736	(( inode = 0 ))
3737	(( tp1 = tasks_per_node + 1 ))
3738	while (( inode < nodes ))
3739	do
3740	files=`echo $all_files \| cut -d" " -f1-$tasks_per_node`
3741	all_files=`echo $all_files \| cut -d" " -f$tp1-`
3742	echo "tar cvf \$UT/${frelout[$i]}/${frelout[$i]}.node_$inode.tar $files" >> archive_${frelout[$i]}
3743	(( inode = inode + 1 ))
3744	done
3745	fi
3746	elif [[ $archive_system = none ]]
3747	then
3748	printf " +++ archiving on $localhost not available!\n"
3749	fi
3750
3751	if [[ $archive_system != none ]]
3752	then
3753	if [[ $localhost = nech ]]
3754	then
3755	subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 7200 $PORTOPT archive_${frelout[$i]}
3756	fi
3757	printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n"
3758	fi
3759	else
3760	printf " +++ caution: option -A is switched off. No archiving on $archive_system!\n"
3761	fi
3762
3763
3764	# CREATE AN EMPTY DIRECTORY IN THE USERS PERMANENT DIRECTORY,
3765	# IN ORDER TO NOTE THE RESPECTIVE CYCLE NUMBER ON THE ARCHIVE SYSTEM
3766	# RESTART-JOBS ARE USING THESE EMPTY-DIRECTORIES TO GET THE CURRENT HIGHEST
3767	# CYCLE NUMBER ON THE ARCHIVE SYSTEM (IN CASE THAT INFORMATIONS ARE DIFFICULT TO
3768	# TO ACCESS FROM THE ARCHIVE-SYSTEM DIRECTLY))
3769	if [[ $files_for_pes = false ]]
3770	then
3771	cat /dev/null > ${pathout[$i]}
3772	else
3773	mkdir -p ${pathout[$i]}
3774	fi
3775
3776	fi
3777
3778
3779	# COPY FROM THIS HOST TO THE ARCHIVE-SYSTEM
3780	# IF ANY ARCHIVING FAILS, AN ERROR-FLAG-FILE IS SET
3781	# THIS FILE REMAINS TO BE SET, EVEN IF ARCHIVING OF FURTHER FILES IS SUCCESSFULL
3782	if [[ "${actionout[$i]}" = ar ]]
3783	then
3784	if [[ $files_for_pes = false ]]
3785	then
3786	printf "\n >>> OUTPUT: ${localout[$i]} to"
3787	printf "\n ${pathout[$i]}"
3788	printf "\n File will be copied to archive-system ($archive_system) !\n"
3789	else
3790	printf "\n >>> OUTPUT: ${localout[$i]}/_.... to"
3791	printf "\n ${pathout[$i]}"
3792	printf "\n Directory will be copied to archive-system ($archive_system) !\n"
3793	fi
3794	mv ${localout[$i]} ${frelout[$i]}
3795
3796	file_saved=false
3797
3798	if [[ $archive_system = asterix ]]
3799	then
3800	do_stageout=true
3801	(( stageout_anz = 0 ))
3802	while [[ $do_stageout = true ]]
3803	do
3804	if [[ $files_for_pes = false ]]
3805	then
3806	stageout ${frelout[$i]} > STAGE_OUTPUT
3807	else
3808	stageout -t ${frelout[$i]} > STAGE_OUTPUT
3809	fi
3810	cat STAGE_OUTPUT
3811	if [[ $(grep -c "st.msg:150" STAGE_OUTPUT) != 0 ]]
3812	then
3813	file_saved=true
3814	do_stageout=false
3815	else
3816	if [[ $files_for_pes = false ]]
3817	then
3818	printf "\n +++ file ${frelout[$i]} could not be saved on archive-system"
3819	else
3820	printf "\n +++ directory ${frelout[$i]} could not be saved on archive-system"
3821	fi
3822	(( stageout_anz = stageout_anz + 1 ))
3823	if (( stageout_anz == 10 ))
3824	then
3825	printf "\n +++ stoped after 10 unsuccessful tries!"
3826	archive_save=false
3827	do_stageout=false
3828	else
3829	printf "\n *** new try to store on archive after 15 min:"
3830	sleep 900
3831	fi
3832	fi
3833	done
3834	elif [[ $archive_system = DMF ]]
3835	then
3836	if [[ $files_for_pes = false ]]
3837	then
3838	printf "\n +++ archiving of single files impossible on $archive_system!\n"
3839	locat=DMF
3840	exit
3841	else
3842	rm -rf $ARCHIVE/${frelout[$i]}
3843	cp -r ${frelout[$i]} $ARCHIVE
3844	fi
3845	file_saved=true
3846	elif [[ $archive_system = tivoli ]]
3847	then
3848	# ARCHIVING ONLY POSSIBLE VIA BATCH-JOB
3849	# IN THE MEANTIME, FILE IS STORED IN THE TEMPORARY DATA DIRECTORY,
3850	# BECAUSE MRUN'S CURRENT TEMPORARY WORKING DIRECTORY MAY ALREADY BE DELETED
3851	# WHEN THE ARCHIVE-JOB IS EXECUTED
3852	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog
3853	chmod g+rx $tmp_data_catalog
3854	if [[ $files_for_pes = false ]]
3855	then
3856	ln -f ${frelout[$i]} $tmp_data_catalog/${frelout[$i]}
3857	else
3858	mkdir $tmp_data_catalog/${frelout[$i]}
3859	ln -f ${frelout[$i]}/* $tmp_data_catalog/${frelout[$i]}
3860	fi
3861
3862	# GENERATE AND SUBMIT BATCH-JOB
3863	# FILE HAS TO BE DELETED FROM THE TEMPORARY DATA DIRECTORY
3864	# DELETE OLD EXISTING FILES FROM THE ARCHIVE
3865	echo "cd $tmp_data_catalog" > archive_${frelout[$i]}
3866	if [[ $files_for_pes = false ]]
3867	then
3868	echo "rm -rf \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
3869	echo "cp ${frelout[$i]} \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
3870	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
3871	else
3872	echo "rm -rf \$PERM/${frelout[$i]}.tar" >> archive_${frelout[$i]}
3873	echo "tar cvf \$PERM/${frelout[$i]}.tar ${frelout[$i]}" >> archive_${frelout[$i]}
3874	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
3875	fi
3876
3877	subjob -v -d -q cdata -X 0 -m 1000 -t 43200 -c $job_catalog $PORTOPT archive_${frelout[$i]}
3878	printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n"
3879	file_saved=true
3880
3881	elif [[ $archive_system = ut ]]
3882	then
3883	# ARCHIVING ONLY POSSIBLE VIA BATCH-JOB
3884	# IN THE MEANTIME, FILE IS STORED IN THE TEMPORARY DATA DIRECTORY,
3885	# BECAUSE MRUN'S CURRENT TEMPORARY WORKING DIRECTORY MAY ALREADY BE DELETED
3886	# WHEN THE ARCHIVE-JOB IS EXECUTED
3887	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog
3888	chmod g+rx $tmp_data_catalog
3889	if [[ $files_for_pes = false ]]
3890	then
3891	ln -f ${frelout[$i]} $tmp_data_catalog/${frelout[$i]}
3892	else
3893	mkdir $tmp_data_catalog/${frelout[$i]}
3894	ln -f ${frelout[$i]}/* $tmp_data_catalog/${frelout[$i]}
3895	fi
3896
3897	# GENERATE AND SUBMIT BATCH-JOB
3898	# FILE HAS TO BE DELETED FROM THE TEMPORARY DATA DIRECTORY
3899	# DELETE OLD EXISTING FILES FROM THE ARCHIVE
3900	echo "cd $tmp_data_catalog" > archive_${frelout[$i]}
3901	if [[ $files_for_pes = false ]]
3902	then
3903	echo "rm -rf \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
3904	echo "cp ${frelout[$i]} \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
3905	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
3906	else
3907	echo "rm -rf \$UT/${frelout[$i]}.tar" >> archive_${frelout[$i]}
3908	echo "tar cvf \$UT/${frelout[$i]}.tar ${frelout[$i]}" >> archive_${frelout[$i]}
3909	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
3910	fi
3911
3912	subjob -v -c /pf/b/$usern/job_queue -d -q pp -X 0 -m 1000 -t 7200 $PORTOPT archive_${frelout[$i]}
3913	printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n"
3914	file_saved=true
3915
3916	else
3917	printf "\n +++ archive_system=\"$archive_system\" archiving impossible!"
3918	archive_save=false
3919	fi
3920
3921	# CREATE EMPTY FLAG-FILE OR -DIRECTORY
3922	# IN ORDER TO NOTE THE RESPECTIVE CYCLE NUMBER ON THE ARCHIVE SYSTEM
3923	# RESTART-JOBS ARE USING THESE EMPTY-DIRECTORIES TO GET THE CURRENT HIGHEST
3924	# CYCLE NUMBER ON THE ARCHIVE SYSTEM (IN CASE THAT INFORMATIONS ARE DIFFICULT TO
3925	# TO ACCESS FROM THE ARCHIVE-SYSTEM DIRECTLY))
3926	if [[ $file_saved = true ]]
3927	then
3928	if [[ $files_for_pes = false ]]
3929	then
3930	cat /dev/null > ${pathout[$i]}
3931	else
3932	mkdir -p ${pathout[$i]}
3933	fi
3934	fi
3935
3936	fi
3937
3938	# APPEND ON THIS MACHINE
3939	if [[ "${actionout[$i]}" = "a" ]]
3940	then
3941	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
3942	then
3943	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}.${extout[$i]}\n"
3944	cat ${localout[$i]} >> ${pathout[$i]}.${extout[$i]}
3945	else
3946	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}\n"
3947	cat ${localout[$i]} >> ${pathout[$i]}
3948	fi
3949	fi
3950
3951	# COPY ON THIS MACHINE
3952	# COPY HAS TO BE USED, BECAUSE MOVE DOES NOT WORK IF FILE-ORIGIN AND TARGET ARE
3953	# ON DIFFERENT FILE-SYSTEMS
3954	if [[ "${actionout[$i]}" = "" && $files_for_pes = false ]]
3955	then
3956
3957	# COPY IN CASE OF RUNS ON SINGLE CORES
3958	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
3959	then
3960	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}.${extout[$i]}\n"
3961	if [[ $link_local_output = true ]]
3962	then
3963	printf " using ln -f\n"
3964	ln -f ${localout[$i]} ${pathout[$i]}.${extout[$i]}
3965	fi
3966	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
3967	if [[ ! -f "${pathout[$i]}.${extout[$i]}" ]]
3968	then
3969	if [[ $link_local_output = true ]]
3970	then
3971	printf " ln failed, using cp...\n"
3972	fi
3973	cp ${localout[$i]} ${pathout[$i]}.${extout[$i]}
3974	fi
3975	else
3976	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}\n"
3977	if [[ $link_local_output = true ]]
3978	then
3979	printf " using ln -f\n"
3980	ln -f ${localout[$i]} ${pathout[$i]}
3981	fi
3982	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
3983	if [[ ! -f "${pathout[$i]}" ]]
3984	then
3985	if [[ $link_local_output = true ]]
3986	then
3987	printf " ln failed, using cp...\n"
3988	fi
3989	cp ${localout[$i]} ${pathout[$i]}
3990	fi
3991	fi
3992
3993	elif [[ "${actionout[$i]}" = "" && $files_for_pes = true ]]
3994	then
3995
3996	# FILES FROM THE DIFFERENT CORES ARE MOVED WITH ln-COMMAND TO THE PERMANENT DIRECTORY
3997	# AS A FIRST STEP, THE PERMANENT DIRECTORY IS CREATED
3998	printf "\n >>> OUTPUT: ${localout[$i]}/_.... to ${pathout[$i]}\n"
3999	if [[ $link_local_output = true ]]
4000	then
4001	printf " using ln -f\n"
4002	mkdir ${pathout[$i]}
4003	cd ${localout[$i]}
4004	for file in $(ls *)
4005	do
4006	ln -f $file ${pathout[$i]}
4007	done
4008	cd $TEMPDIR
4009	fi
4010
4011	# IF "ln -f" HAS FAILED OR IF "$link_local_output = false" DO A NORMAL COPY "cp -r"
4012	if [[ ! -f "${pathout[$i]}/_0000" ]]
4013	then
4014	if [[ $link_local_output = true ]]
4015	then
4016	printf " ln failed for .../_0000, using cp...\n"
4017	fi
4018	cp -r ${localout[$i]} ${pathout[$i]}
4019	fi
4020
4021	fi
4022	fi
4023	done
4024	if (( i != 0 ))
4025	then
4026	if [[ $transfer_problems = true ]]
4027	then
4028	printf "\n$dashes\n *** OUTPUT-files saved"
4029	printf "\n +++ WARNING: some data transfers failed! \n"
4030	else
4031	printf "\n$dashes\n *** all OUTPUT-files saved \n"
4032	fi
4033	fi
4034
4035
4036	# IF REQUIRED, START A RESTART-JOB
4037	# FILE CONTINUE_RUN MUST HAVE BEEN CREATED BY THE EXECUTABLE (PALM)
4038	if [[ -f CONTINUE_RUN ]]
4039	then
4040
4041	if [[ $archive_save = true ]]
4042	then
4043
4044	# ADD RESTART-OPTIONS TO THE MRUN-CALL (IF THEY ARE NOT USED ALREADY):
4045	# -C TELLS MRUN THAT IT IS A RESTART-RUN
4046	# -v SILENT MODE WITHOUT INTERACTIVE QUERIES
4047	# -n BATCH-MODE (IMPORTANT ONLY IN CASE OF BATCH JOBS ON THE LOCAL MACHINE)
4048	[[ $(echo $mc \| grep -c "\-C") = 0 ]] && mc="$mc -C"
4049	[[ $(echo $mc \| grep -c "\-v") = 0 ]] && mc="$mc -v"
4050	[[ $(echo $mc \| grep -c "\-b") = 0 ]] && mc="$mc -b"
4051	if [[ $(echo $mc \| grep -c "#") != 0 ]]
4052	then
4053	mc=`echo $mc \| sed 's/#/f/g'`
4054	fi
4055
4056
4057	# START THE RESTART-JOB
4058	printf "\n\n *** initiating restart-run on \"$return_address\" using command:\n"
4059	echo " $mc"
4060	printf "\n$dashes\n"
4061	if [[ $localhost != $fromhost ]]
4062	then
4063
4064	if [[ $localhost = lcbullhh \|\| $localhost = lccrayb \|\| $localhost = lccrayh \|\| $localhost = nech \|\| $localhost = ibmh \|\| $localhost = ibmkisti \|\| $localhost = ibmku \|\| $localhost = ibms \|\| $localhost = lcflow \|\| $localhost = lckyu* \|\| $localhost = lcxe6 ]]
4065	then
4066	echo "*** ssh will be used to initiate restart-runs!"
4067	echo " return_address=\"$return_address\" "
4068	echo " return_username=\"$return_username\" "
4069	if [[ $(echo $return_address \| grep -c "130.75.105") = 1 ]]
4070	then
4071	if [[ $localhost = ibmh ]]
4072	then
4073	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\" "
4074	elif [[ $localhost = lcbullhh ]]
4075	then
4076	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\" "
4077	elif [[ $localhost = lccrayb ]]
4078	then
4079	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\" "
4080	elif [[ $localhost = lccrayh ]]
4081	then
4082	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\" "
4083	elif [[ $localhost = lcxe6 ]]
4084	then
4085	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\" "
4086	else
4087	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 "
4088	fi
4089	else
4090	if [[ $localhost = ibmkisti ]]
4091	then
4092	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\" "
4093	elif [[ $localhost = lcflow ]]
4094	then
4095	/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 "
4096	elif [[ $localhost = lcocean ]]
4097	then
4098	/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 "
4099	elif [[ $localhost = lccrayb ]]
4100	then
4101	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\" "
4102	elif [[ $localhost = lccrayh ]]
4103	then
4104	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\" "
4105	else
4106	ssh $SSH_PORTOPT $return_address -l $return_username "PATH=\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc "
4107	fi
4108	fi
4109	else
4110	printf "\n +++ no restart mechanism available for host \"$localhost\" "
4111	locat=restart; exit
4112	fi
4113
4114	# WAIT TO ALLOW THE RESTART-JOB TO BE QUEUED, BEFORE THE CURRENT JOB IS FINISHED
4115	if [[ $queue = special1q ]]
4116	then
4117	sleep 120
4118	else
4119	sleep 30
4120	fi
4121
4122	else
4123
4124	# JOBS RUNNING (AND STARTED) ON THE LOCAL MACHINE CAN DIRECTLY CALL MRUN (WITHOUT
4125	# USING SSH)
4126	cd $LOCAL_PWD
4127	if [[ $localhost = lckyuh ]]
4128	then
4129	printf "\n +++ WARNING: no restart mechanism available for host \"$localhost\" "
4130	printf "\n please restart job manually using command:\n"
4131	printf "\n \"$mc\" "
4132	else
4133	eval $mc # THE ' MUST BE EVALUATED
4134	fi
4135	cd - > /dev/null
4136	fi
4137	if [[ $localhost = lckyuh ]]
4138	then
4139	printf "\n$dashes\n *** restart-run to be initiated manually\n"
4140	else
4141	printf "\n$dashes\n *** restart-run initiated \n"
4142	fi
4143
4144
4145	# DELETE INPUT-(RESTART)FILES, WHICH HAVE BEEN FETCHED FROM THE TEMPORARY DATA
4146	# DIRECTORY, BACAUSE THEY ARE NOT REQUIRED BY THE RESTART-JOB.
4147	# THIS IS DONE IN ORDER TO AVOID EXCEEDING DISC QUOTAS OR DISC SPACE (RESTART-FILES
4148	# MAY BE VERY HUGE)
4149	(( i = 0 ))
4150	while (( i < iin ))
4151	do
4152	(( i = i + 1 ))
4153	if [[ "${got_tmp[$i]}" = true && $keep_data_from_previous_run = false ]]
4154	then
4155	rm -r $tmp_data_catalog/${frelin[$i]}
4156	fi
4157	done
4158
4159	else
4160
4161	printf "\n +++ no restart-run possible, since errors occured"
4162	printf "\n during the archive process"
4163	fi
4164
4165	fi
4166
4167
4168
4169	# SEND EMAIL NOTIFICATION ABOUT THE FINISHED RUN
4170	if [[ "$email_notification" != "none" ]]
4171	then
4172
4173	if [[ $localhost != $fromhost ]]
4174	then
4175	if [[ -f CONTINUE_RUN ]]
4176	then
4177	echo "PALM restart run necessary" > email_text
4178	echo "description header of actual run:" >> email_text
4179	cat CONTINUE_RUN >> email_text
4180	echo "mrun-command to restart:" >> email_text
4181	echo "$mc" >> email_text
4182	else
4183	echo "PALM run with base filename \"$fname\" on host \"$localhost\" finished" > email_text
4184	fi
4185	mail $email_notification < email_text
4186	printf "\n *** email notification sent to \"$email_notification\" "
4187	fi
4188	fi
4189
4190
4191
4192	# ALL ACTIONS FINISHED, TEMPORARY WORKING-DIRECTORY CAN BE DELETED
4193	cd $HOME
4194	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
4195
4196	else
4197
4198	# PREPARING ACTIONS,
4199	# IF A BATCH-JOB IS TO BE GENERATED AND STARTED ON A REMOTE-MACHINE GERECHNET
4200
4201	# BUILD THE MRUN-COMMAND TO BE CALLED IN THE BATCH-JOB ON THE REMOTE-MACHINE
4202	mrun_com="$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 $remote_username"
4203	[[ "$cpp_opts" != "" ]] && mrun_com=${mrun_com}" -D \"$cpp_opts\""
4204	[[ "$global_revision" != "" ]] && mrun_com=${mrun_com}" -G \"$global_revision\""
4205	[[ $group_number != none ]] && mrun_com=${mrun_com}" -g $group_number"
4206	[[ $do_compile = true ]] && mrun_com=${mrun_com}" -s \"$source_list\""
4207	[[ "$input_list" != "" ]] && mrun_com=${mrun_com}" -i \"$input_list\""
4208	[[ $ignore_archive_error = true ]] && mrun_com=${mrun_com}" -I"
4209	[[ $keep_data_from_previous_run = true ]] && mrun_com=${mrun_com}" -k"
4210	[[ "$additional_conditions" != "" ]] && mrun_com=${mrun_com}" -K \"$additional_conditions\""
4211	[[ "$output_list" != "" ]] && mrun_com=${mrun_com}" -o \"$output_list\""
4212	[[ "$read_from_config" = false ]] && mrun_com=${mrun_com}" -S"
4213	[[ $do_trace = true ]] && mrun_com=${mrun_com}" -x"
4214	[[ "$numprocs" != "" ]] && mrun_com=${mrun_com}" -X $numprocs"
4215	if [[ $use_openmp = true ]]
4216	then
4217	mrun_com=${mrun_com}" -O $threads_per_task"
4218	fi
4219	[[ "$tasks_per_node" != "" ]] && mrun_com=${mrun_com}" -T $tasks_per_node"
4220	[[ $store_on_archive_system = true ]] && mrun_com=${mrun_com}" -A"
4221	[[ $package_list != "" ]] && mrun_com=${mrun_com}" -p \"$package_list\""
4222	[[ $return_password != "" ]] && mrun_com=${mrun_com}" -P $return_password"
4223	[[ $delete_temporary_catalog = false ]] && mrun_com=${mrun_com}" -B"
4224	[[ $node_usage != default && "$(echo $node_usage \| cut -c1-3)" != "sla" && $node_usage != novice ]] && mrun_com=${mrun_com}" -n $node_usage"
4225	[[ "$ocean_file_appendix" = true ]] && mrun_com=${mrun_com}" -y"
4226	[[ $run_coupled_model = true ]] && mrun_com=${mrun_com}" -Y \"$coupled_dist\""
4227	[[ "$check_namelist_files" = false ]] && mrun_com=${mrun_com}" -z"
4228	[[ "$combine_plot_fields" = false ]] && mrun_com=${mrun_com}" -Z"
4229	[[ "$max_par_io_str" != "" ]] && mrun_com=${mrun_com}" -w $max_par_io_str"
4230	if [[ $do_remote = true ]]
4231	then
4232	printf "\n>>>> MRUN-command on execution host:\n>>>> $mrun_com \n"
4233	fi
4234
4235
4236	# CREATE EXECUTABLE FOR BATCH JOB
4237	if [[ $create_executable_for_batch = true && $restart_run != true ]]
4238	then
4239
4240	printf "\n *** creating the executable for batch job\n"
4241
4242	# METHOD ONLY WORKS FOR BATCH JOBS ON LOCAL HOSTS
4243	if [[ $host != $localhost ]]
4244	then
4245	printf "\n +++ creation of executables is only allowed for batch jobs on local hosts."
4246	printf "\n Please set create_executable_for_batch = false in the config-file.\n"
4247	locat=create_executable; exit
4248	fi
4249
4250	mkdir $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
4251	cd $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
4252
4253	cp $make_depository .
4254	tar -xf $make_depository > /dev/null 2>&1
4255	cp ../* . > /dev/null 2>&1
4256
4257	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
4258
4259	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
4260	then
4261	printf "\n +++ error occured while compiling or linking"
4262	locat=compile
4263	exit
4264	fi
4265
4266	mv a.out ..
4267	cd - > /dev/null 2>&1
4268	rm -rf $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
4269
4270	printf " *** executable created in \"$working_directory/SOURCES_FOR_RUN_${fname}\"\n "
4271
4272	fi
4273
4274
4275	# BUILD THE JOB-SCRIPTS ON FILE jobfile
4276	jobfile=jobfile.$RANDOM
4277
4278
4279	# CREATE TEMPORARY DIRECTORY AND SWITCH TO IT
4280	echo "mkdir $TEMPDIR" >> $jobfile
4281	echo "cd $TEMPDIR" >> $jobfile
4282
4283
4284	# ACTIVATE ERROR-TRACEBACK
4285	if [[ $do_trace = true ]]
4286	then
4287	echo "set -x" >> $jobfile
4288	else
4289	echo "set +vx" >> $jobfile
4290	fi
4291
4292
4293	# INITIALIZE THE ENVIRONMENT AND LOAD MODULES
4294	if [[ "$init_cmds" != "" ]]
4295	then
4296	echo "$init_cmds" >> $jobfile
4297	fi
4298	if [[ "$module_calls" != "" ]]
4299	then
4300	echo "$module_calls" >> $jobfile
4301	fi
4302
4303
4304	# PROVIDE SOURCE-CODE FILES, MRUN-SCRIPT AND CONFIGURATION-FILE FOR THE JOB
4305	# then-CLAUSE: FILES ARE COLLECTED IN THE SOURCES_FOR_RUN_... DIRECTORY ON THE LOCAL HOST,
4306	# WHICH IS THEN FETCHED FROM THE BATCH-JOB BY USING cp/scp
4307	# THE SOURCE-CODE FILES ALREADY EXIST IN THIS DIRECTORY
4308	# else-CLAUSE: FILE-CONTENTS ARE PUT INTO THE JOB-FILE AS HERE-DOCUMENTS
4309	# THIS MAY CREATE A QUITE LARGE JOB-FILE, WHICH CAN CAUSE PROBLEMS WITH SOME
4310	# QUEUEING-SYSTEMS
4311	if [[ $host = ibmkisti \|\| $host = lcbullhh \|\| $host = lccrayb \|\| $host = lccrayf \|\| $host = lccrayh \|\| $host = lcocean ]]
4312	then
4313
4314	# COPY CONFIGURATION-FILE AND MRUN-SCRIPT INTO THE SOURCES_FOR_RUN... DIRECTORY
4315	if [[ $restart_run != true ]]
4316	then
4317	cp $config_file $working_directory/SOURCES_FOR_RUN_$fname
4318	cp ${PALM_BIN}/$mrun_script_name $working_directory/SOURCES_FOR_RUN_$fname
4319	fi
4320
4321	# COPY THE SOURCES_FOR_RUN... DIRECTORY FROM THE LOCAL HOST TO THE JOB VIA scp
4322	# (then-CLAUSE: JOBS ON THE LOCAL HOST CAN JUST USE cp)
4323	echo "set -x" >> $jobfile
4324	if [[ $host = $localhost ]]
4325	then
4326	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
4327	# FILES ON CRAY XC30 SYSTEMS (CSC HELSINKI), rsync IS USED INSTEAD
4328	if [[ $(echo $host \| cut -c1-6) = lccray ]]
4329	then
4330	echo "rsync -av -t $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
4331	else
4332	echo "cp -r $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
4333	fi
4334
4335	else
4336	if [[ $host = ibmkisti ]]
4337	then
4338	# ON KISTI'S IBM FIREWALL IS ONLY OPENED ON INTERACTIVE NODE
4339	echo "localdir=\`pwd\`" >> $jobfile
4340	echo "ssh $SSH_PORTOPT $remote_username@gaiad \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
4341	elif [[ $host = lcbullhh ]]
4342	then
4343	echo "localdir=\`pwd\`" >> $jobfile
4344	echo "ssh $SSH_PORTOPT $remote_username@mlogin101 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
4345
4346	elif [[ $host = lccrayb ]]
4347	then
4348	echo "localdir=\`pwd\`" >> $jobfile
4349	echo "ssh $SSH_PORTOPT $remote_username@blogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
4350	elif [[ $host = lccrayh ]]
4351	then
4352	echo "localdir=\`pwd\`" >> $jobfile
4353	echo "ssh $SSH_PORTOPT $remote_username@hlogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
4354
4355	else
4356	echo "scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
4357	fi
4358	fi
4359	echo "export SOURCES_COMPLETE=true" >> $jobfile
4360
4361	# MOVE MRUN-SCRIPT AND CONFIGURATION-FILE FROM THE SOURCES_FOR_RUN... DIRECTORY TO THE
4362	# WORKING DIRECTORY OF THE JOB
4363	echo "mv SOURCES_FOR_RUN_$fname/$config_file . " >> $jobfile
4364	echo "mv SOURCES_FOR_RUN_$fname/$mrun_script_name . " >> $jobfile
4365	echo "chmod u+rwx $mrun_script_name" >> $jobfile
4366	echo "execute_mrun=true" >> $jobfile
4367	echo " " >> $jobfile
4368
4369	else
4370
4371	# PROVIDE SOURCE-CODE FILES AND MAKEFILE AS HERE DOCUMENT
4372	if [[ $do_compile = true ]]
4373	then
4374
4375	source_catalog=SOURCES_FOR_RUN_$fname
4376
4377	# CREATE SOURCES_FOR_RUN... DIRECTORY TO STORE THE SOURCE CODE FILES AND THE MAKEFILE
4378	echo "mkdir SOURCES_FOR_RUN_$fname" >> $jobfile
4379	echo "export SOURCES_COMPLETE=true" >> $jobfile
4380	echo "cd SOURCES_FOR_RUN_$fname" >> $jobfile
4381
4382	for filename in $source_list
4383	do
4384	# BACKSLASH IS USED FOR MASKING
4385	echo "cat > $filename << \"%END%\"" >> $jobfile
4386	cat $source_catalog/$filename >> $jobfile
4387	echo " " >> $jobfile
4388	echo "%END%" >> $jobfile
4389	echo " " >> $jobfile
4390	done
4391
4392	# BACKSLASH IS USED FOR MASKING
4393	echo "cat > Makefile << \"%END%\"" >> $jobfile
4394	cat $source_catalog/Makefile >> $jobfile
4395	echo " " >> $jobfile
4396	echo "%END%" >> $jobfile
4397	echo " " >> $jobfile
4398
4399	echo "cd - > /dev/null" >> $jobfile
4400
4401	fi
4402
4403
4404	# PROVIDE THE CONFIGURATION-FILE AS HERE-DOCUMENT
4405	# BACKSLASH IS USED FOR MASKING
4406	# LINES WITH #$ IN THE CONFIGURATION-FILE, COMING FROM THE SVN KEYWORD SUBSTITUTION,
4407	# ARE REMOVED FROM THE FILE IN ORDER TO AVOID PROBLEMS WITH THE SGE BATCH SYSTEM
4408	echo "cat > $config_file << \"%END%\"" >> $jobfile
4409	if [[ $host = lckyuh ]]
4410	then
4411	# NO CROSS-COMPILER ON COMPUTE NODE
4412	sed 's/frtpx/frt/g' $config_file >> $jobfile
4413	else
4414	sed 's/#$.*//g' $config_file >> $jobfile
4415	fi
4416	echo "%END%" >> $jobfile
4417	echo " " >> $jobfile
4418
4419
4420	# PROVIDE THE MRUN-SCRIPTS AS HERE-DOCUMENT
4421	# BACKSLASH IS USED FOR MASKING
4422	echo "cat > $mrun_script_name <<\"%END%\"" >> $jobfile
4423	if [[ $host = lckyuh ]]
4424	then
4425	sed 's/\/bin\/ksh/\/bin\/bash/g' ${PALM_BIN}/$mrun_script_name >> $jobfile
4426	else
4427	cat ${PALM_BIN}/$mrun_script_name >> $jobfile
4428	fi
4429	echo "%END%" >> $jobfile
4430	echo "chmod u+x $mrun_script_name" >> $jobfile
4431	echo "execute_mrun=true" >> $jobfile
4432	echo " " >> $jobfile
4433
4434	fi
4435
4436
4437	# GET REQUIRED INPUT-FILES BY SCP OR BY SENDING THEM WITH THE JOB AS HERE-DOCUMENT
4438	# PUT THESE FILES INTO THE USER'S RESPECTIVE PERMANENT DIRECTORIES ON THE REMOTE-HOST
4439	# IF THE DIRECTORIES DO NOT EXIST, TRY TO CREATE THEM
4440	if [[ $do_remote = true ]]
4441	then
4442	(( i = 0 ))
4443	while (( i < iin ))
4444	do
4445	(( i = i + 1 ))
4446	echo "[[ ! -d ${pathin[$i]} ]] && mkdir -p ${pathin[$i]}" >> $jobfile
4447	if [[ "${transin[$i]}" = job ]]
4448	then
4449	echo "cat > ${remotepathin[$i]} <<\"%END%\"" >> $jobfile
4450	eval cat ${pathin[$i]}/${frelin[$i]} >> $jobfile
4451	echo " " >> $jobfile
4452	echo "%END%" >> $jobfile
4453	else
4454	echo "batch_scp $PORTOPT -b -o -g -s -u $return_username $return_address ${remotepathin[$i]} \"${pathin[$i]}\" ${frelin[$i]}" >> $jobfile
4455	fi
4456
4457	# CHECK, IF FILE COULD BE CREATED
4458	echo "if [[ \$? = 1 ]]" >> $jobfile
4459	echo "then" >> $jobfile
4460	echo " echo \" \" " >> $jobfile
4461	echo " echo \"+++ file ${remotepathin[$i]} could not be created\" " >> $jobfile
4462	echo " echo \" please check, if directory exists on $host!\" " >> $jobfile
4463	echo " echo \"+++ MRUN will not be continued\" " >> $jobfile
4464	echo " execute_mrun=false" >> $jobfile
4465	echo "fi" >> $jobfile
4466	done
4467	fi
4468
4469	# PROVIDE NAME OF THE CURRENT WORKING-DIRECTORY ON THE LOCAL MACHINE (FROM WHERE THE JOB IS
4470	# STARTED) BY SETTING AN ENVIRONMENT-VARIABLE. THIS INFORMATION IS USED IN THE JOB BY MRUN
4471	# IN CASE THAT RESTART-RUNS HAVE TO BE GENERATED
4472	echo "LOCAL_PWD=$working_directory" >> $jobfile
4473	echo "export LOCAL_PWD" >> $jobfile
4474
4475	# PROVIDE THE PATH OF THE LOCAL MRUN-SCRIPT FOR THE SAME REASON
4476	echo "LOCAL_MRUN_PATH=$PALM_BIN" >> $jobfile
4477	echo "export LOCAL_MRUN_PATH" >> $jobfile
4478
4479	# lcflow ALSO REQUIRES TO PROVIDE PATH FOR THE PALM-SCRIPTS
4480	# if [[ $host = lcflow \|\| $localhost = lcflow ]]
4481	# then
4482	echo "export PALM_BIN=$PALM_BIN" \| sed -e 's:'$HOME':$HOME:' >> $jobfile
4483	echo "export PATH=\$PATH:\$PALM_BIN" >> $jobfile
4484	# fi
4485
4486	# CALL MRUN WITHIN THE JOB (SETTING QUEUE IS A WORKAROUND FOR ibmkisti)
4487	# AS FINAL ACTION, REMOVE THE TEMPORARY DIRECTORY CREATED AT THE BEGINNING OF THE JOB
4488	echo "set -x" >> $jobfile
4489	echo "queue=$queue" >> $jobfile
4490	echo "[[ \$execute_mrun = true ]] && ./$mrun_com" >> $jobfile
4491	echo 'ls -al; echo `pwd`' >> $jobfile
4492	echo "cd \$HOME" >> $jobfile
4493	echo "rm -rf $TEMPDIR" >> $jobfile
4494
4495
4496
4497
4498	# START THE JOB USING SUBJOB-COMMAND
4499	if [[ $silent = false ]]
4500	then
4501	printf "\n "
4502	else
4503	printf "\n\n"
4504	fi
4505
4506	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
4507	rm -rf $jobfile
4508
4509
4510	fi # END OF REMOTE-PART

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