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source: palm/trunk/SCRIPTS/mrun @ 1490

Last change on this file since 1490 was 1469, checked in by maronga, 11 years ago
last commit documented
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File size: 176.6 KB

Rev	Line
[1103]	1	#!/bin/ksh
[1046]	2
[1059]	3	# mrun - script for running PALM jobs
	4
[1046]	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	#
[1310]	19	# Copyright 1997-2014 Leibniz Universitaet Hannover
[1046]	20	#--------------------------------------------------------------------------------#
	21	#
	22	# Current revisions:
[1090]	23	# ------------------
[1305]	24	#
[1469]	25	#
[1200]	26	# Former revisions:
	27	# -----------------
	28	# $Id: mrun 1469 2014-09-24 14:09:56Z raasch $
	29	#
[1469]	30	# 1468 2014-09-24 14:06:57Z maronga
	31	# Typo removed (addres->address)
	32	# Bugfix: returning files to IMUK via ssh did not work for lccrayh and lcycrayb
	33	# Added support for restart runs (remote) for lcxe6
	34	#
[1443]	35	# 1442 2014-07-28 07:09:10Z raasch
	36	# default queues for HLRN-III (lccrayb/lccrayh) defined
	37	#
[1423]	38	# 1422 2014-07-02 10:01:25Z kanani
	39	# automatic restarts enabled for lccrayb,
	40	# adjustment of path to compilervars.sh at IMUK (see automatic restarts)
	41	#
[1421]	42	# 1420 2014-06-10 06:24:14Z raasch
	43	# -j1 option added to aprung command for lccrayf (CSC)
	44	#
[1403]	45	# 1402 2014-05-09 14:25:13Z raasch
	46	# batch_job added to envpar-NAMELIST
	47	#
[1358]	48	# 1357 2014-04-11 15:02:03Z witha
	49	# adjustments for lccrayh (automatic restarts on lccrayh outside of IMUK are now
	50	# possible)
	51	#
[1328]	52	# 1320 2014-03-20 08:40:49Z raasch
	53	# check namelist file set false by default
	54	#
[1305]	55	# 1304 2014-03-12 10:29:42Z raasch
	56	# ulimit option changed from -Ss to -s
	57	#
	58	# bugfix: missing "fi" in r1289
	59	#
[1290]	60	# 1289 2014-03-04 07:12:34Z raasch
	61	# comments translated to English
	62	# necriam-, fimm-, ibmy-, and sgi-specific code removed
	63	# export of variables for palm and interpret_config removed
	64	#
[1282]	65	# 1281 2014-02-01 07:55:49Z raasch
	66	# rsync-copy restricted to Cray machines, since command is unavailable on some
	67	# other systems
	68	#
[1280]	69	# 1279 2014-01-28 12:10:14Z raasch
	70	# tasks_per_node must not be an integral divisor of numprocs any more. This was done
	71	# in order to remove annoying restrictions concerning the number of processors which
	72	# appear on machines with larger nodes (e.g. containing 24 cores). Now without this
	73	# restriction, one of the nodes will be filled with less than the given number of
	74	# tasks per node. A respective warning is given.
	75	#
[1275]	76	# 1274 2014-01-09 13:14:54Z heinze
	77	# adjustments for lccrayh
	78	#
[1273]	79	# 1272 2014-01-08 10:19:32Z witha
	80	# small adjustment for lcflow
	81	#
[1271]	82	# 1270 2013-12-16 11:05:01Z fricke
	83	# call of combine_plot_fields adjusted for lccrayb/lccrayh
	84	#
[1256]	85	# 1255 2013-11-07 14:43:35Z raasch
	86	# further adjustments for lccrayb remote access
	87	#
[1242]	88	# 1241 2013-10-30 11:36:58Z heinze
	89	# Enable use of nudging input and input of large scale forcing from
	90	# external files
	91	#
[1230]	92	# 1229 2013-09-20 06:55:19Z raasch
	93	# further adjustments for lccrayb
	94	#
[1225]	95	# 1224 2013-09-16 07:27:23Z raasch
	96	# first adjustments for lccrayb
	97	#
[1211]	98	# 1210 2013-08-14 10:58:20Z raasch
	99	# fftw support added
	100	#
[1203]	101	# 1201 2013-07-10 16:17:59Z witha
	102	# adjustments for Forwind cluster (lcflow)
	103	#
[1200]	104	# 1199 2013-07-05 14:52:22Z raasch
[1199]	105	# adjustments for CSC Helsinki (lccrayf),
	106	# executables for batch jobs can be created in advance, in order to avoid calling
	107	# the compiler within the batch job (only works if batch jobs are submitted on
	108	# local host)
[1104]	109	#
[1191]	110	# 1190 2013-06-25 09:39:21Z heinze
	111	# enable use of automatic restarts for ibmh
[1185]	112	# use of cluster/express queue enabled (ibmh)
[1104]	113	#
[1125]	114	# 1124 2013-04-09 15:46:52Z raasch
	115	# variable "memory" is exported via typeset option -x, because otherwise an unknown
	116	# side effect may lead to data loss while getopts is reading the script-option arguments
	117	#
[1123]	118	# 1122 2013-04-09 08:37:16Z heinze
	119	# Bugfix: change type of variable last_char
	120	#
[1121]	121	# 1119 2013-04-05 15:11:19Z raasch
	122	# Bugfix for setting -T option for subjob
	123	#
[1109]	124	# 1108 2013-03-05 07:03:32Z raasch
	125	# bugfix for coupled runs on lckyut/lckyuh
	126	#
[1107]	127	# 1106 2013-03-04 05:31:38Z raasch
	128	# --stdin argument for mpiexec on lckyuh
	129	# -y and -Y settings output to header
	130	#
[1104]	131	# 1103 2013-02-20 02:15:53Z raasch
[1103]	132	# default script runs again under ksh, because of unsolved problems with read
	133	# from stdin: when bash script is called from a ksh, message "read error: 0:
	134	# Resource temporarily unavailable" appears and script does not stop,
	135	# further bash compatibility adjustments,
	136	# shebang line replaced by /bin/bash when running jobs on lckyuh; no restarts
	137	# on lckyuh, but mrun does not terminate and issues a warning instead
[1046]	138	#
[1102]	139	# 1101 2013-02-17 10:20:21Z raasch
	140	# script now running under bash instead of ksh, which required small adjustments
	141	# (output formatting with printf instead "typeset -L/-R", print replaced by echo,
	142	# read from stdin),
	143	# cross compilername on lckyuh compute nodes replaced by real compiler name
	144	#
[1100]	145	# 1099 2013-02-10 01:47:43Z raasch
	146	# adjustments for Kyushu-University computing center (lckyuh - hayaka)
	147	# and for Forwind cluster (lcflow)
	148	# small further adjustments for lckyut
	149	#
[1096]	150	# 1094 2013-02-03 01:52:12Z raasch
	151	# explicit ssh/scp port can be set in config file with environment variable
	152	# scp_port. This port is handled to all ssh/scp/batch_scp calls.
	153	# decalpha parts (yonsei) removed
	154	#
[1091]	155	# 2013-02-02 07:06:13Z raasch
[1099]	156	# adjustments for Kyushu-University computing center (lckyut - tatara)
[1091]	157	#
[1084]	158	# 1083 2013-01-04 10:22:09Z maronga
	159	# bugfix in parameter file check (read %cpp_options was missing)
	160	#
[1070]	161	# 1069 2012-11-28 16:18:43Z maronga
	162	# bugfix: coupling mode was always set to mpi2, typos removed
	163	#
[1059]	164	# 1058 2012-11-21 07:00:35Z raasch
	165	# Intel inspector (inspxe) is given the number of PEs instead of the number of
	166	# nodes
	167	#
[1047]	168	# 1046 2012-11-09 14:38:45Z maronga
	169	# code put under GPL (PALM 3.9)
	170	#
[1090]	171	# 21/03/94 - Siggi - first version finished
	172	# 03/03/94 - Siggi - script development started
	173	#
[1059]	174	#--------------------------------------------------------------------------------#
[1090]	175	# mrun - script for running PALM jobs
	176	#--------------------------------------------------------------------------------#
[1]	177
[1047]	178
[1]	179
[1289]	180	# DECLARATION OF VARIABLES AND THEIR DEFUALT VALUES
[1]	181
[1289]	182	set +o allexport # SUPPRESS EXPORT OF ALL VARIABLES, SINCE IN THE PAST THIS
	183	# LES TO PROBLEMS IN ROUTINES CALLED BY MRUN
	184	# (TOO MANY ARGUMENTS - PROBLEM)
	185	set +o noclobber # EXISTING FILES ARE ALLOWED TO BE OVERWRITTEN
[1]	186
	187	AddFilenames=""
	188	additional_conditions=""
	189	add_source_path=""
	190	afname=""
	191	archive_save=true
	192	archive_system=none
[1320]	193	check_namelist_files=false
[920]	194	combine_plot_fields=true
[1]	195	compiler_name=""
	196	cond1=""
	197	cond2=""
	198	config_file=.mrun.config
[206]	199	coupled_dist=""
	200	coupled_mode="mpi1"
[1]	201	cpp_opts=""
[82]	202	cpp_options=""
[1]	203	cpumax=0
	204	cpurest=0
[1199]	205	create_executable_for_batch=false
[1]	206	delete_temporary_catalog=true
	207	do_batch=false
	208	do_compile=true
	209	do_remote=false
	210	do_stagein=true
	211	do_stageout=true
	212	do_trace=false
[352]	213	email_notification="none"
[1]	214	exclude=""
	215	executable=""
	216	execution_error=false
[1210]	217	fftw_inc=""
	218	fftw_lib=""
	219	fftw_support=false
[1289]	220	fname=test
[1]	221	fromhost=""
[78]	222	global_revision=""
[122]	223	group_number=none
[1]	224	host=""
	225	host_file=""
	226	hp=""
	227	ignore_archive_error=false
	228	input_list=""
	229	interpreted_config_file=""
[164]	230	job_catalog="~/job_queue"
[1]	231	job_on_file=""
	232	keep_data_from_previous_run=false
[183]	233	link_local_input=false
[149]	234	link_local_output=false
[1]	235	localhost_realname=$(hostname)
[260]	236	local_dvrserver_running=.FALSE.
[1]	237	locat=normal
	238	mainprog=""
	239	makefile=""
[759]	240	max_par_io_str=""
[1]	241	mc=$0
	242	while [[ $(echo $mc \| grep -c "/") != 0 ]]
	243	do
	244	mc=`echo $mc \| cut -f2- -d"/"`
	245	done
[493]	246	module_calls=""
[1]	247	mrun_script_name=$mc
[82]	248	netcdf_inc=""
	249	netcdf_lib=""
[1]	250	netcdf_support=false
	251	node_usage=default
	252	numprocs=""
[206]	253	numprocs_atmos=0
	254	numprocs_ocean=0
[1]	255	OOPT=""
	256	openmp=false
	257	output_list=""
	258	package_list=""
	259	queue=none
	260	read_from_config=""
[5]	261	restart_run=false
[622]	262	if [[ `hostname` = rte10 ]]
[1]	263	then
[1468]	264	return_address=133.5.185.60
	265	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
[693]	266	elif [[ `hostname` = climate0 ]]
	267	then
[1468]	268	return_address=165.132.26.68
	269	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
[1021]	270	elif [[ `hostname` = urban00 ]]
	271	then
[1468]	272	return_address=147.46.30.151
	273	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
[622]	274	else
[1468]	275	return_address=$(nslookup `hostname` 2>&1 \| grep "Address:" \| tail -1 \| awk '{print $2}')
[1]	276	fi
	277	return_password=""
	278	return_username=$LOGNAME
	279	remotecall=false
	280	remote_username=""
[102]	281	run_coupled_model=false
[1]	282	run_mode=""
[397]	283	store_on_archive_system=false
[1289]	284	dashes=" ----------------------------------------------------------------------------"
[1]	285	silent=false
	286	source_list=""
	287	source_path=SOURCE
	288	tasks_per_node=""
	289	threads_per_task=1
	290	tmpcreate=false
	291	tmp_data_catalog=""
	292	transfer_problems=false
	293	usern=$LOGNAME
[377]	294	use_openmp=false
[1289]	295	version="MRUN 2.1 Rev$Rev: 1469 $"
[1]	296	working_directory=`pwd`
	297	TOPT=""
	298	XOPT=""
	299	zeit=$( date \| cut -c 12-19 )
	300
[1124]	301	typeset -i iec=0 iic=0 iin=0 ioc=0 iout=0 stagein_anz=0 stageout_anz=0
[1289]	302	typeset -x -i memory=0 # HAS TO BE EXPORTED HERE, OTHERWISE AN UNKNOWN SIDE
	303	# SIDE EFFECT MAY CAUSE DATA LOSS WHEN GETOPTS IS READING THE
	304	# SCRIPT-OPTION ARGUMENTS
[1279]	305	typeset -i cputime i ii iia iii iio icycle inode ival jobges jobsek last_char_int maxcycle minuten nodes pes remaining_pes sekunden tp1
[1]	306
	307
	308
[1289]	309	# ERROR HANDLING IN CASE OF EXIT
[83]	310	trap 'rm -rf $working_directory/tmp_mrun
[1289]	311	if [[ $locat != normal && $locat != control_c ]]
[1]	312	then
	313
[1289]	314	# CARRY OUT ERROR-COMMANDS GIVEN IN THE CONFIGURATION FILE (EC:)
[1]	315	(( i = 0 ))
	316	while (( i < iec ))
	317	do
	318	(( i = i + 1 ))
	319	printf "\n *** Execution of ERROR-command:\n"
	320	printf " >>> ${err_command[$i]}\n"
	321	eval ${err_command[$i]}
	322	done
[1101]	323	if [[ -n $interpreted_config_file ]]
	324	then
[1]	325	rm -rf $interpreted_config_file
	326	fi
[1101]	327	if [[ -n .mrun_environment ]]
	328	then
[71]	329	rm -rf .mrun_environment
	330	fi
[1]	331	if [[ $tmpcreate = true ]]
	332	then
	333	printf "\n *** Contents of \"$TEMPDIR\":\n"
	334	ls -al; cd
	335	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
	336	fi
[260]	337	if [[ "$dvrserver_id" != "" ]]
	338	then
	339	echo "+++ killing dvrserver_id=$dvrserver_id"
	340	kill $dvrserver_id
	341	fi
[1]	342	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
	343	then
	344	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
	345	fi
	346	printf "\n\n+++ MRUN killed \n\n"
	347	elif [[ $locat != control_c ]]
	348	then
	349	printf "\n\n --> all actions finished\n\n"
	350	printf " Bye, bye $usern !!\n\n"
	351	fi' exit
	352
	353
[1289]	354	# ACTIONS IN CASE OF TERMINAL-BREAK (CONTROL-C):
[83]	355	trap 'rm -rf $working_directory/tmp_mrun
[807]	356	rm -rf $working_directory/tmp_check_namelist_files
[69]	357	[[ $tmpcreate = true ]] && (cd; rm -rf $TEMPDIR)
[1]	358	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
	359	then
	360	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
	361	fi
[260]	362	if [[ "$dvrserver_id" != "" ]]
	363	then
	364	echo "+++ killing dvrserver_id=$dvrserver_id"
	365	kill $dvrserver_id
	366	fi
[1]	367	printf "\n+++ MRUN killed by \"^C\" \n\n"
	368	locat=control_c
	369	exit
	370	' 2
	371
	372
[22]	373	# CHECK IF THE PATH FOR THE PALM BINARIES (SCRIPTS+UTILITY-PROGRAMS) HAS
	374	# BEEN SET
	375	if [[ "$PALM_BIN" = "" ]]
	376	then
	377	printf "\n +++ environment variable PALM_BIN has not been set"
	378	printf "\n please set it to the directory where the PALM scripts are located"
	379	locat=palm_bin; exit
	380	fi
[180]	381	export PATH=$PALM_BIN:$PATH
[22]	382
	383
[1]	384
[1289]	385	# READ SHELLSCRIPT-OPTIONS AND REBUILD THE MRUN-COMMAND STRING (MC),
	386	# WHICH WILL BE USED TO START RESTART-JOBS
[920]	387	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
[1]	388	do
	389	case $option in
	390	(a) afname=$OPTARG;;
[397]	391	(A) store_on_archive_system=true; mc="$mc -A";;
[1]	392	(b) do_batch=true; mc="$mc -b";;
	393	(B) delete_temporary_catalog=false; mc="$mc -B";;
	394	(c) config_file=$OPTARG; mc="$mc -c$OPTARG";;
[5]	395	(C) restart_run=true; mc="$mc -C";;
[1]	396	(d) fname=$OPTARG; mc="$mc -d$OPTARG";;
[210]	397	(D) cpp_opts="$cpp_opts $OPTARG"; mc="$mc -D'$OPTARG'";;
[79]	398	(F) job_on_file="-D"; mc="$mc -F";;
[122]	399	(g) group_number=$OPTARG; mc="$mc -g$OPTARG";;
[78]	400	(G) global_revision=$OPTARG; mc="$mc -G'$OPTARG'";;
[1]	401	(h) host=$OPTARG; mc="$mc -h$OPTARG";;
	402	(H) fromhost=$OPTARG; mc="$mc -H$OPTARG";;
	403	(i) input_list=$OPTARG; mc="$mc -i'$OPTARG'";;
	404	(I) ignore_archive_error=true; mc="$mc -I";;
	405	(k) keep_data_from_previous_run=true; mc="$mc -k";;
[210]	406	(K) additional_conditions="$OPTARG"; mc="$mc -K'$OPTARG'";;
[1]	407	(m) memory=$OPTARG; mc="$mc -m$OPTARG";;
	408	(M) makefile=$OPTARG; mc="$mc -M$OPTARG";;
	409	(n) node_usage=$OPTARG; mc="$mc -n$OPTARG";;
	410	(o) output_list=$OPTARG; mc="$mc -o'$OPTARG'";;
[622]	411	(O) use_openmp=true; threads_per_task=$OPTARG; mc="$mc -O$OPTARG";;
[1]	412	(p) package_list=$OPTARG; mc="$mc -p'$OPTARG'";;
	413	(P) return_password=$OPTARG; mc="$mc -P$OPTARG";;
	414	(q) queue=$OPTARG; mc="$mc -q$OPTARG";;
	415	(r) run_mode=$OPTARG; mc="$mc -r'$OPTARG'";;
[1468]	416	(R) remotecall=true;return_address=$OPTARG; mc="$mc -R$OPTARG";;
[1]	417	(s) source_list=$OPTARG; mc="$mc -s'$OPTARG'";;
	418	(S) read_from_config=false; mc="$mc -S";;
	419	(t) cpumax=$OPTARG; mc="$mc -t$OPTARG";;
[759]	420	(T) mrun_tasks_per_node=$OPTARG; mc="$mc -T$OPTARG";;
[1]	421	(u) remote_username=$OPTARG; mc="$mc -u$OPTARG";;
	422	(U) return_username=$OPTARG; mc="$mc -U$OPTARG";;
	423	(v) silent=true; mc="$mc -v";;
[759]	424	(w) max_par_io_str=$OPTARG; mc="$mc -w$OPTARG";;
[1]	425	(x) do_trace=true;set -x; mc="$mc -x";;
	426	(X) numprocs=$OPTARG; mc="$mc -X$OPTARG";;
[291]	427	(y) ocean_file_appendix=true; mc="$mc -y";;
[206]	428	(Y) run_coupled_model=true; coupled_dist=$OPTARG; mc="$mc -Y'$OPTARG'";;
[807]	429	(z) check_namelist_files=false; mc="$mc -z";;
[920]	430	(Z) combine_plot_fields=false; mc="$mc -Z";;
[1]	431	(\?) printf "\n +++ unknown option $OPTARG \n"
	432	printf "\n --> type \"$0 ?\" for available options \n"
	433	locat=parameter;exit;;
	434	esac
	435	done
	436
	437
[1289]	438	# SKIP GIVEN OPTIONS TO READ POSITIONAL PARAMETER, IF GIVEN
	439	# CURRENTLY ONLY PARAMETER ? (TO OUTPUT A SHORT COMMAND INFO) IS ALLOWED
[1101]	440	(( to_shift = $OPTIND - 1 ))
	441	shift $to_shift
[1]	442
[1289]	443	# PRINT SHORT DESCRIPTION OF MRUN OPTIONS
[1]	444	if [[ "$1" = "?" ]]
	445	then
	446	(printf "\n *** mrun can be called as follows:\n"
[920]	447	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 -Z <modus> \n"
[1]	448	printf "\n Description of available options:\n"
	449	printf "\n Option Description Default-Value"
	450	printf "\n -a base name of input files equiv. -d"
[400]	451	printf "\n -A archiving when using file-attribute fl"
[1]	452	printf "\n -b batch-job on local machine ---"
	453	printf "\n -B do not delete temporary directory at end ---"
	454	printf "\n -c configuration file .mrun.config"
	455	printf "\n -d base name of files attached to program test"
	456	printf "\n -D preprocessor(cpp)-directives \"\" "
	457	printf "\n -F create remote job file only ---"
	458	printf "\n -h execution host $localhost_realname"
	459	printf "\n -i INPUT control list \"\" "
	460	printf "\n -I archiving errors of previous batch-jobs"
	461	printf "\n will be ignored"
	462	printf "\n -k keep data from previous run"
	463	printf "\n -K additional conditions for controling"
	464	printf "\n usage of conditional code and"
	465	printf "\n env-variables in configuration file \"\" "
	466	printf "\n -m memory demand in MB (batch-jobs) 0 MB"
	467	printf "\n -M Makefile name Makefile"
	468	printf "\n -n node usage (shared/not_shared) depending on -h"
	469	printf "\n -o OUTPUT control list \"\" "
[1304]	470	printf "\n -O threads per openMP task ---"
[1]	471	printf "\n -p software package list \"\" "
	472	printf "\n -q queue \"$queue\" "
	473	printf "\n -r run control list (combines -i -o) \"\" "
	474	printf "\n -s filenames of routines to be compiled \"\" "
	475	printf "\n must end with .f, .f90, .F, or .c !"
	476	printf "\n use \"..\" for more than one file and wildcards"
[837]	477	printf "\n -s LM compiles all locally modified files"
[1]	478	printf "\n -S config file interpreted by shellscript ---"
	479	printf "\n -t allowed cpu-time in seconds (batch) 0"
	480	printf "\n -T tasks per node depending on -h"
	481	printf "\n -u username on remote machine \"\" "
	482	printf "\n -v no prompt for confirmation ---"
[759]	483	printf "\n -w maximum parallel io streams as given by -X"
[1]	484	printf "\n -x tracing of mrun for debug purposes ---"
	485	printf "\n -X # of processors (on parallel machines) 1"
[291]	486	printf "\n -y add appendix \"_O\" to all local output"
	487	printf "\n files (ocean precursor runs followed by"
	488	printf "\n coupled atmosphere-ocean runs) ---"
[206]	489	printf "\n -Y run coupled model, \"#1 #2\" with"
	490	printf "\n #1 atmosphere and #2 ocean processors \"#/2 #/2\" depending on -X"
[920]	491	printf "\n -z disable a priori parameter file check ---"
	492	printf "\n -Z skip combine_plot_fields at the end of "
	493	printf "\n the simulation ---"
[1]	494	printf "\n "
	495	printf "\n Possible values of positional parameter <modus>:"
	496	printf "\n \"?\" - this outline \n\n") \| more
	497	exit
	498	elif [[ "$1" != "" ]]
	499	then
	500	printf "\n +++ positional parameter $1 unknown \n"
	501	locat=parameter; exit
	502	fi
	503
	504
	505
[1289]	506	# SHORT STARTING MESSAGE
[1]	507	printf "\n*** $version "
	508	printf "\n will be executed. Please wait ..."
	509
	510
[82]	511
[1289]	512	# CHECK, IF CONFIGURATION FILE EXISTS
[82]	513	if [[ ! -f $config_file ]]
	514	then
	515	printf "\n\n +++ configuration file: "
	516	printf "\n $config_file"
	517	printf "\n does not exist"
	518	locat=connect; exit
	519	fi
	520
	521
[1289]	522	# DETERMINE THE HOST-IDENTIFIER (localhost) FROM THE CONFIGURATION FILE
[82]	523	line=""
	524	grep "%host_identifier" $config_file > tmp_mrun
	525	while read line
	526	do
[206]	527	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
[82]	528	then
	529	HOSTNAME=`echo $line \| cut -d" " -s -f2`
	530	host_identifier=`echo $line \| cut -d" " -s -f3`
[83]	531	if [[ $localhost_realname = $HOSTNAME ]]
[82]	532	then
	533	localhost=$host_identifier
	534	break
	535	fi
	536	fi
	537	done < tmp_mrun
	538
	539	if [[ "$localhost" = "" ]]
	540	then
	541	printf "\n\n +++ no host identifier found in configuration file \"$config_file\""
	542	printf "\n for local host \"$localhost_realname\"."
	543	printf "\n Please add line"
	544	printf "\n \"\%host_identifier $localhost_realname <identifier>\""
	545	printf "\n to the configuration file."
	546	locat=localhost; exit
	547	fi
	548
	549
[1289]	550	# SET HOST-SPECIFIC VARIABLES
[82]	551	case $localhost_realname in
[397]	552	(r1\|r2\|h01\|b01) archive_system=tivoli;;
[82]	553	(cs*) archive_system=ut;;
	554	esac
	555
	556
[1289]	557	# ??? THIS SHOULD BE DECRIBED IN THE MRUN DOCUMENTATION ???
	558	# SET BASENAME OF THE INPUT-FILES TO THE GENERAL BASENAME (GIVEN BY OPTION -d),
	559	# IF IT HAS NOT BEEN SET BY THE USER DIFFERENTLY (USING OPTION -a)
[1]	560	[[ "$afname" = "" ]] && afname=$fname
	561
	562
[1289]	563	# ADD RUN-FILE ACTIVATION STRINGS (GIVEN BY OPTION -r) TO THE
	564	# RESPECTIVE LISTS FOR ACTIVATING THE INPUT/OUTPUT FILE CONNECTION
	565	# STATEMENTS IN THE CONFIGURATION FILE
[1]	566	if [[ "$run_mode" != "" ]]
	567	then
	568	input_list="$input_list $run_mode"
	569	output_list="$output_list $run_mode"
	570	fi
	571
	572
[1289]	573	# ??? is this (and the respective option -H) really required ???
	574	# STORE HOSTNAME, FROM WHICH THE JOB IS STARTED,
	575	# BUT ONLY IF IT HASN'T BEEN ALREADY SET BY OPTION -H
	576	# (MRUN IS AUTOMATICALLY SETTING THIS OPTION IN THE MRUN-CALLS WITHIN
	577	# THOSE BATCH-JOBS, WHICH ARE CREATED BY MRUN ITSELF)
[1]	578	if [[ "$fromhost" = "" ]]
	579	then
	580	fromhost=$localhost
	581	fi
	582
	583
[1289]	584	# CHECK, IF EXECUTION SHALL TO BE DONE ON THE REMOTE-MACHINE.
	585	# VALUE OF do_remote IS IMPORTANT FOR THE FILE CONNECTIONS.
	586	# IN CASE OF EXECUTION ON A REMOTE-MACHINE, A BATCH-JOB HAS
	587	# TO BE SUBMITTED (I.E. do_bacth=true)
[1]	588	if [[ -n $host && "$host" != $localhost ]]
	589	then
	590	do_batch=true
	591	do_remote=true
	592	case $host in
[1289]	593	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|nech\|lccrayb\|lccrayh\|lccrayf\|lcflow\|lckyoto\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
[1]	594	(*) printf "\n"
[83]	595	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
	596	printf "\n is not available"
[1]	597	locat=nqs; (( iec = 0 )); exit;;
	598	esac
	599	else
	600	host=$localhost
	601	fi
	602
	603
[1289]	604	# EVALUATE ADDITIONAL CONDITIONS GIVEN BY OPTION -K
[1]	605	if [[ -n $additional_conditions ]]
	606	then
[69]	607	cond1=`echo $additional_conditions \| cut -d" " -f1`
	608	cond2=`echo $additional_conditions \| cut -d" " -s -f2`
	609	dummy=`echo $additional_conditions \| cut -d" " -s -f3`
[1]	610	if [[ -n $dummy ]]
	611	then
	612	printf "\n +++ more than 2 additional conditions given for Option \"-K\""
	613	locat=options; exit
	614	fi
[503]	615	block=_$cond1
	616	[[ -n $cond2 ]] && block=${block}_$cond2
[1]	617	fi
	618
	619
[1289]	620	# EVALUATE MODEL COUPLING FEATURES (OPTION -Y) AND DETERMINE coupled_mode
[206]	621	if [[ $run_coupled_model = true ]]
	622	then
	623
[1289]	624	numprocs_atmos=`echo $coupled_dist \| cut -d" " -s -f1`
	625	numprocs_ocean=`echo $coupled_dist \| cut -d" " -s -f2`
	626
	627	if (( $numprocs_ocean + $numprocs_atmos != $numprocs ))
[206]	628	then
	629
[1289]	630	printf "\n +++ number of processors does not fit to specification by \"-Y\"."
	631	printf "\n PEs (total) : $numprocs"
	632	printf "\n PEs (atmosphere): $numprocs_atmos"
	633	printf "\n PEs (ocean) : $numprocs_ocean"
	634	locat=coupling; exit
[206]	635
[1289]	636	fi
[206]	637
	638
	639	# GET coupled_mode FROM THE CONFIG FILE
	640	line=""
	641	grep "%cpp_options.-D__mpi2.$host" $config_file > tmp_mrun
	642	while read line
	643	do
[1069]	644	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" && $(echo $line \| cut -d" " -s -f4) = $cond1 && $(echo $line \| cut -d" " -s -f4) = $cond2 ]]
[206]	645	then
	646	coupled_mode="mpi2"
	647	fi
	648	done < tmp_mrun
	649
	650	fi
	651
	652
[1289]	653	# CHECK, IF FILE-ARCHIVING HAS FAILED IN PREVIOUS JOB (OF A JOB-CHAIN)
[1]	654	if [[ -f ~/job_queue/ARCHIVE_ERROR_$fname ]]
	655	then
	656	if [[ $ignore_archive_error = false ]]
	657	then
	658	printf "\n +++ data archiving of previous run failed"
	659	printf "\n see directory \~/job_queue on remote machine"
	660	locat=archive; exit
	661	else
	662	printf "\n +++ warning: data archiving in a previous run failed"
	663	printf "\n MRUN continues, trying to get backup copy"
	664	fi
	665	fi
	666
	667
[1289]	668	# SAVE VALUES OF MRUN-OPTIONS SICHERN IN ORDER TO OVERWRITE
	669	# THOSE VALUES GIVEN IN THE CONFIGURATION-FILE
[1099]	670	mrun_memory=$memory
	671	mrun_group_number=$group_number
	672	mrun_cpumax=$cpumax
	673	mrun_numprocs=$numprocs
[1]	674
[1099]	675
[1289]	676	# READ AND EVALUATE THE CONFIGURATION-FILE FROM WITHIN THIS SHELLSCRIPT
[1468]	677	# (OPTION -S). THE DEFAULT IS USING THE ROUTINE <<<<
[1]	678	if [[ "$read_from_config" = false ]]
	679	then
	680
	681	[[ $silent = false ]] && printf "\n Reading the configuration file... "
[1289]	682
	683	# READ THE CONFIGURATION FILE LINE BY LINE
[1]	684	while read zeile
	685	do
	686	[[ $silent = false ]] && printf "."
	687
	688
[1289]	689	# FIRST REPLACE ENVIRONMENT-VARIABLES BY THEIR RESPECTIVE VALUES
[1]	690	eval zeile=\"$zeile\"
	691
	692
[1289]	693	# INTERPRET THE LINE
[21]	694	if [[ "$(echo $zeile)" = "" ]]
[1]	695	then
[1289]	696	# EMPTY LINE, NO ACTION
[21]	697	continue
[1]	698
[21]	699	elif [[ "$(echo $zeile \| cut -c1)" = "#" ]]
	700	then
	701
[1289]	702	# LINE IS A COMMENT LINE
[1]	703	true
	704
	705	elif [[ "$(echo $zeile \| cut -c1)" = "%" ]]
	706	then
	707
[1289]	708	# LINE DEFINES AN ENVIRONMENT-VARIABLE
[1]	709	zeile=$(echo $zeile \| cut -c2-)
[69]	710	var=`echo $zeile \| cut -d" " -f1`
	711	value=`echo $zeile \| cut -d" " -s -f2`
	712	for_host=`echo $zeile \| cut -d" " -s -f3`
	713	for_cond1=`echo $zeile \| cut -d" " -s -f4`
	714	for_cond2=`echo $zeile \| cut -d" " -s -f5`
[1]	715
	716	if [[ "$for_host" = "" \|\| ( "$for_host" = $host && "$for_cond1" = "$cond1" && "$for_cond2" = "$cond2" ) \|\| $(echo "$input_list$output_list"\|grep -c "$for_host") != 0 ]]
	717	then
	718
[1289]	719	# REPLACE ":" BY " " IN COMPILER- CPP- OR LINKER-OPTIONS,
	720	# "::" IS REPLACED BY ":".
[1]	721	value=`echo $value \| sed 's/::/%DUM%/g' \| sed 's/:/ /g' \| sed 's/%DUM%/:/g'`
	722
	723
[1289]	724	# VALUE FROM THE CONFIGURATION-FILE IS ASSIGNED TO THE
	725	# ENVIRONMENT-VARIABLE, BUT ONLY IF NO VALUE HAS BEEN ALREADY
	726	# ASSIGNED WITHIN THIS SCRIPT (E.G. BY SCRIPT-OPTIONS).
	727	# NON-ASSIGNED VARIABLES HAVE VALUE "" OR 0 (IN CASE OF INTEGER).
	728	# HENCE THE GENERAL RULE IS: SCRIPT-OPTION OVERWRITES THE
	729	# CONFIGURATION-FILE.
[1]	730	if [[ "$(eval echo \$$var)" = "" \|\| "$(eval echo \$$var)" = "0" ]]
	731	then
	732	eval $var=\$value
	733
[1289]	734	# TERMINAL OUTPUT OF ENVIRONMENT-VARIABLES, IF TRACEBACK IS SWITCHED on
[1]	735	if [[ $do_trace = true ]]
	736	then
	737	printf "\n*** ENVIRONMENT-VARIABLE $var = $value"
	738	fi
	739	fi
	740
[1289]	741	# IF AN ENVIRONMENT-VARIABLE DETERMINES THE HOST, THEN EVALUATE IT IMMEDIATELY:
	742	# VALUE OF do-remote IS REQUIRED FOR THE FILE CONNECTIONS (COPY OF I/O FILES).
	743	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MASCHINE, A BATCH-JOB
	744	# MUST HAVE TO BE STARTED
[1]	745	if [[ $var = host ]]
	746	then
	747	if [[ -n $host && "$host" != $localhost ]]
	748	then
	749	do_batch=true
	750	do_remote=true
	751	case $host in
[1289]	752	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lccrayb\|lccrayh\|lccrayf\|lcflow\|lckyoto\|nech\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
[83]	753	(*) printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
	754	printf "\n is not available"
[1]	755	locat=nqs; exit;;
	756	esac
	757	else
	758	host=$localhost
	759	fi
	760	fi
	761
[1289]	762	# USER-DEFINED ENVIRONMENT VARIABLES MUST BE EXPORTED,
	763	# BECAUSE THEY MAY BE REQUIRED IN OTHER SCRIPTS CALLED
	764	# BY MRUN (E.G. subjob)
[1]	765	export $var
	766	fi
	767
	768
	769
	770
	771	elif [[ "$(echo $zeile \| cut -c1-3)" = "EC:" ]]
	772	then
	773
[1289]	774	# LINE DEFINES ERROR-COMMAND
[1]	775	(( iec = iec + 1 ))
	776	zeile=$(echo $zeile \| cut -c4-)
	777	err_command[$iec]="$zeile"
	778
	779	elif [[ "$(echo $zeile \| cut -c1-3)" = "IC:" ]]
	780	then
	781
[1289]	782	# LINE DEFINES INPUT-COMMAND
[1]	783	(( iic = iic + 1 ))
	784	zeile=$(echo $zeile \| cut -c4-)
	785	in_command[$iic]="$zeile"
	786
	787	elif [[ "$(echo $zeile \| cut -c1-3)" = "OC:" ]]
	788	then
	789
[1289]	790	# LINE DEFINES OUTPUT-COMMAND
[1]	791	(( ioc = ioc + 1 ))
	792	zeile=$(echo $zeile \| cut -c4-)
	793	out_command[$ioc]="$zeile"
	794
	795	else
	796
[1289]	797	# LINE DEFINES FILE CONNECTION. READ THE FILE ATTRIBUTES.
	798	# s2a: in/out - field
	799	# s2b: loc - field (optional)
	800	# s2c: tr/ar - field (optional)
[69]	801	s1=`echo $zeile \| cut -d" " -f1`
	802	s2=`echo $zeile \| cut -d" " -s -f2`
[1]	803	s2a=$(echo $s2 \| cut -d":" -f1)
	804	if [[ $(echo $s2 \| grep -c ":") = 0 ]]
	805	then
	806	s2b=""
	807	s2c=""
	808	else
[69]	809	s2b=`echo $s2 \| cut -d":" -f2 \| sed 's/:/ /g'`
	810	s2c=`echo $s2 \| cut -d":" -s -f3 \| sed 's/:/ /g'`
[1]	811	fi
[69]	812	s3=`echo $zeile \| cut -d" " -f3`
	813	s4=`echo $zeile \| cut -d" " -s -f4`
	814	s5=`echo $zeile \| cut -d" " -s -f5`
	815	s6=`echo $zeile \| cut -d" " -s -f6`
[1]	816
	817
[1289]	818	# STORE FILE CONNECTION, IF ACTIVATED BY ACTIVATION-STRING FROM
	819	# INPUT- OR OUTPUT-LIST.
	820	# VARIABLE S3 MAY CONTAIN A LIST OF ACTIVATION STRINGS (FIELD-SEPERATOR ":").
	821	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MACHINE AND THE FILE IS ONLY
	822	# LOCALLY REQUIRED ON THAT MACHINE (I.E. s2b = loc), THE FILE CONNECTION
	823	# IS NOT CHECKED AND STORED.
[1]	824	IFSALT="$IFS"; IFS="$IFS:"
	825	if [[ "$s2a" = in && ! ( $do_remote = true && ( "$s2b" = loc \|\| "$s2b" = locopt ) ) ]]
	826	then
	827	found=false
	828	for actual in $input_list
	829	do
	830	for formal in $s3
	831	do
	832	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
	833	done
	834	done
	835	if [[ $found = true ]]
	836	then
	837	(( iin = iin + 1 ))
	838	localin[$iin]=$s1; transin[$iin]=$s2b; actionin[$iin]=$s2c;
	839	typein[$iin]=$s3; pathin[$iin]=$s4; endin[$iin]=$s5;
	840	extin[$iin]=$s6
	841	fi
	842	elif [[ "$s2a" = out && ! ( $do_remote = true && "$s2b" = loc ) ]]
	843	then
	844	found=false
	845	for actual in $output_list
	846	do
	847	for formal in $s3
	848	do
	849	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
	850	done
	851	done
	852	if [[ $found = true ]]
	853	then
	854	(( iout = iout + 1 ))
	855	localout[$iout]=$s1; actionout[$iout]=$s2c; typeout[$iout]=$s3;
	856	pathout[$iout]=$s4; endout[$iout]=$s5; extout[$iout]=$s6
	857	fi
	858	elif [[ "$s2a" != in && "$s2a" != out ]]
	859	then
	860	printf "\n +++ I/O-attribute in configuration file $config_file has the invalid"
	861	printf "\n value \"$s2\". Only \"in\" and \"out\" are allowed!"
	862	locat=connect; exit
	863	fi
	864	IFS="$IFSALT"
	865	fi
	866	done < $config_file
	867
	868	else
	869
	870
[1289]	871	# EVALUATE THE CONFIGURATION-FILE BY FORTRAN-PROGRAM
[1]	872	[[ $silent = false ]] && printf "..."
[1289]	873	interpreted_config_file=.icf.$RANDOM
[1]	874
	875
[69]	876
[1289]	877	# PROVIDE VALUES OF ENVIRONMENT-VARIABLE FOR interpret_config VIA NAMELIST-FILE
[69]	878	cat > .mrun_environment << %%END%%
	879	&mrun_environment cond1 = '$cond1', cond2 = '$cond2',
	880	config_file = '$config_file', do_remote = '$do_remote',
	881	do_trace = '$do_trace', host = '$host',
	882	input_list = '$input_list', icf = '$interpreted_config_file',
	883	localhost = '$localhost', output_list = '$output_list' /
	884
	885	%%END%%
	886
[1289]	887	if [[ "$host" != $localhost ]]
[66]	888	then
[503]	889
[1289]	890	# REMOTE JOB FROM LOCAL HOST: JUST TAKE THE FIRST EXECUTABLE FOUND
	891	interpret_config_executable=`ls -1 ${PALM_BIN}/interpret_config*.x 2>/dev/null`
	892	if [[ $? != 0 ]]
[503]	893	then
[1289]	894	printf "\n\n +++ no interpret_config found"
	895	printf "\n run \"mbuild -u -h ...\" to generate utilities for this host"
	896	locat=interpret_config; exit
	897	fi
	898	interpret_config_executable=`echo $interpret_config_executable \| cut -d" " -f1`
	899	$interpret_config_executable
[503]	900
[1289]	901	else
[503]	902
[1289]	903	# CHECK, IF THERE IS AN EXECUTABLE FOR THE BLOCK
	904	if [[ ! -f ${PALM_BIN}/interpret_config${block}.x ]]
	905	then
	906	printf "\n\n +++ no interpret_config found for given block \"$cond1 $cond2\""
	907	printf "\n run \"mbuild -u -h ...\" to generate utilities for this block"
	908	locat=interpret_config; exit
[503]	909	else
[1289]	910	interpret_config${block}.x
	911	fi
[503]	912
[66]	913	fi
[71]	914	rm .mrun_environment
[1]	915
[71]	916
[1289]	917	# EXECUTE SHELL-COMMANDS GENERATED BY interpret_config WITHIN THIS SHELL
[1]	918	chmod u+x $interpreted_config_file
	919	export PATH=$PATH:.
	920	. $interpreted_config_file
[71]	921	rm $interpreted_config_file
[1]	922
[1099]	923	fi
[71]	924
[69]	925
[1289]	926	# VALUES OF MRUN-OPTIONS OVERWRITE THOSE FROM THE CONFIGURATION-FILE
[1099]	927	[[ $mrun_memory != 0 ]] && memory=$mrun_memory
	928	[[ "$mrun_group_number" != "none" ]] && group_number=$mrun_group_number
	929	[[ $mrun_cpumax != 0 ]] && cpumax=$mrun_cpumax
	930	[[ "$mrun_numprocs" != "" ]] && numprocs=$mrun_numprocs
	931	[[ "$max_par_io_str" != "" ]] && maximum_parallel_io_streams=$max_par_io_str
	932	[[ "$mrun_tasks_per_node" != "" ]] && tasks_per_node=$mrun_tasks_per_node
[1]	933
	934
[1289]	935	# ON THE LOCAL MACHINE, DETERMINE (FROM THE CONFIGURATION-FILE) THE PATH
	936	# FOR SOURCE-FILES TO BE COMPILED.
	937	# IN A BATCH-JOB, SOURCES (ROUTINES TO BE COMPILED) ARE COMPLETE ALREADY.
	938	# BEFORE MRUN IS CALLED IN THE JOB, SOURCES_COMPLETE = true IS ASSIGNED (SEE FURTHER BELOW).
[1]	939	if [[ "$SOURCES_COMPLETE" = "" ]]
	940	then
	941
[1289]	942	# FIRST CHECK, IF A GLOBAL SOURCE PATH (TO BE USED FOR ALL HOSTS)
	943	# HAS BEEN DEFINED
[1]	944	source_path=""
	945	line=""
	946	grep "%source_path" $config_file > tmp_mrun
	947	while read line
	948	do
	949	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	950	then
	951	if [[ "$(echo $line \| cut -d" " -f3)" = "" ]]
	952	then
	953	global_source_path=`echo $line \| cut -d" " -f2`
	954	fi
	955	fi
	956	done < tmp_mrun
	957
	958	line=""
	959	found=false
	960	grep " $localhost" $config_file \| grep "%source_path" > tmp_mrun
	961	while read line
	962	do
	963	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	964	then
	965	if [[ $found = true ]]
	966	then
	967	printf "\n\n +++ more than one source path found in configuration file"
	968	printf "\n for local host \"$localhost\" "
	969	locat=source_path; exit
	970	fi
	971	source_path=`echo $line \| cut -d" " -f2`
	972	found=true
	973	fi
	974	done < tmp_mrun
	975	rm tmp_mrun
	976
	977	if [[ "$source_path" = "" ]]
	978	then
	979	if [[ "$global_source_path" != "" ]]
	980	then
	981	source_path=$global_source_path
	982	else
	983	printf "\n\n +++ no source path found in configuration file"
	984	printf "\n for local host \"$localhost\" "
	985	locat=source_path; exit
	986	fi
	987	fi
	988	eval source_path=$source_path
	989
	990	if [[ ! -d $source_path ]]
	991	then
	992	printf "\n\n +++ source path \"$source_path\" on local host"
	993	printf "\n \"$localhost\" does not exist"
	994	locat=source_path; exit
	995	fi
	996
	997	fi
	998
	999
[1289]	1000	# GET THE GLOBAL REVISION-NUMBER OF THE SVN-REPOSITORY
	1001	# (HANDED OVER TO RESTART-RUNS USING OPTION -G)
	1002	if [[ "$global_revision" = "" && $host != "ibmkisti" ]]
[78]	1003	then
	1004	global_revision=`svnversion $source_path 2>/dev/null`
	1005	global_revision="Rev: $global_revision"
	1006	fi
[1]	1007
[78]	1008
[1289]	1009	# ??? das darf doch eigentlich garnicht passieren, weil optionen config-datei uebersteuern ???
	1010	# CHECK AGAIN, IF EXECUTION SHALL BE DONE ON A REMOTE-HOST (BATCH-JOB).
	1011	# (HOST MAY HAVE CHANGED DUE TO SETTINGS IN THE CONFIGURATION-FILE)
[1]	1012	if [[ -n $host && "$host" != $localhost ]]
	1013	then
	1014	do_batch=true
	1015	do_remote=true
	1016	case $host in
[1289]	1017	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lccrayb\|lccrayh\|lccrayf\|lcflow\|lckyoto\|nech\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
[1]	1018	(*) printf "\n"
[83]	1019	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
	1020	printf "\n is not available"
[1]	1021	locat=nqs; (( iec = 0 )); exit;;
	1022	esac
	1023	else
	1024	host=$localhost
	1025	fi
	1026
	1027
[1289]	1028	# IN CASE OF PARALLEL EXECUTION, CHECK SOME SPECIFICATIONS CONCERNING PROCESSOR NUMBERS
[1]	1029	if [[ "$cond1" = parallel \|\| "$cond2" = parallel ]]
	1030	then
	1031
[1289]	1032	# CHECK, IF NUMBER OF CORES TO BE USED HAS BEEN GIVEN
[1]	1033	if [[ ! -n $numprocs ]]
	1034	then
	1035	printf "\n"
	1036	printf "\n +++ option \"-K parallel\" requires additional specification"
	1037	printf "\n of the number of processors to be used by"
	1038	printf "\n mrun-option \"-X\" or by environment-variable"
	1039	printf "\n \"numprocs\" in the configuration file"
	1040	locat=numprocs; (( iec = 0 )); exit
	1041	fi
	1042
[1289]	1043	# CHECK, IF THE NUMBER OF CORES PER NODE HAS BEEN GIVEN UND IF IT IS AN
	1044	# INTEGRAL DIVISOR OF THE TOTAL NUMBER OF CORES GIVEN BY OPTION -X
[1039]	1045	if [[ "$tasks_per_node" = "" && $host != lcflow && $host != lcxt5m ]]
[1]	1046	then
[759]	1047	printf "\n"
	1048	printf "\n +++ option \"-T\" (tasks per node) is missing"
	1049	printf "\n set -T option or define tasks_per_node in the config file"
	1050	locat=tasks_per_node; (( iec = 0 )); exit
	1051	fi
[1279]	1052
	1053	if (( numprocs < tasks_per_node ))
	1054	then
	1055	printf "\n"
	1056	printf "\n +++ tasks per node (-T) cannot exceed total number of processors (-X)"
	1057	printf "\n given values: -T $tasks_per_node -X $numprocs"
	1058	locat=tasks_per_node; (( iec = 0 )); exit
	1059	fi
	1060
[1039]	1061	if [[ $host != lcflow && $host != lcxt5m ]]
[759]	1062	then
[1279]	1063	(( nodes = numprocs / ( tasks_per_node * threads_per_task ) ))
[848]	1064	(( ival = $tasks_per_node ))
	1065	(( pes = numprocs ))
	1066	(( ii = pes / ival ))
[1279]	1067	(( remaining_pes = pes - ii * ival ))
	1068	if (( remaining_pes > 0 ))
[848]	1069	then
	1070	printf "\n"
[1279]	1071	printf "\n +++ WARNING: tasks per node (option \"-T\") is not an integral"
[848]	1072	printf "\n divisor of the total number of processors (option \"-X\")"
	1073	printf "\n values of this mrun-call: \"-T $tasks_per_node\" \"-X $numprocs\""
[1279]	1074	printf "\n One of the nodes is filled with $remaining_pes instead of $tasks_per_node tasks"
	1075	(( nodes = nodes + 1 ))
[848]	1076	fi
[1]	1077	fi
	1078
[759]	1079
[377]	1080	# SETTINGS FOR SUBJOB-COMMAND
[1]	1081	OOPT="-O $threads_per_task"
	1082
[1289]	1083	# SET THE TOTAL NUMBER OF NODES, REQUIRED FOR THE SUBJOB-COMMAND (SEE FURTHER BELOW)
[1]	1084	if [[ "$tasks_per_node" != "" ]]
	1085	then
[1119]	1086	TOPT="-T $tasks_per_node"
[1]	1087	fi
	1088
[1289]	1089	# CHECK node_usage FOR ALLOWED VALUES AND SET DEFAULT VALUE, IF NECESSARY
[1]	1090	if [[ $node_usage = default ]]
	1091	then
	1092	if [[ $host = ibms ]]
	1093	then
	1094	node_usage=shared
	1095	else
	1096	node_usage=not_shared
	1097	fi
	1098	fi
[181]	1099
[635]	1100	if [[ $node_usage != shared && $node_usage != not_shared && $node_usage != singlejob && "$(echo $node_usage \| cut -c1-3)" != "sla" ]]
[1]	1101	then
	1102	printf "\n"
	1103	printf "\n +++ node usage (option \"-n\") is only allowed to be set"
	1104	printf "\n \"shared\" or \"not_shared\""
	1105	locat=tasks_per_node; (( iec = 0 )); exit
	1106	fi
	1107
	1108	fi
	1109
[1289]	1110	# CHECK IF HOSTFILE EXISTS
[1]	1111	if [[ -n $hostfile ]]
	1112	then
	1113	if [[ ! -f $hostfile ]]
	1114	then
	1115	printf "\n"
	1116	printf "\n +++ hostfile \"$hostfile\" does not exist"
	1117	locat=hostfile; exit
	1118	fi
	1119	fi
	1120
	1121
[1289]	1122	# SET DEFAULT VALUE FOR THE MAXIMUM NUMBER OF PARALLEL IO STREAMS
[759]	1123	if [[ "$maximum_parallel_io_streams" = "" ]]
	1124	then
	1125	maximum_parallel_io_streams=$numprocs
	1126	fi
[1]	1127
[759]	1128
[1289]	1129	# SET PORT NUMBER OPTION FOR CALLS OF SSH/SCP, subjob AND batch_scp SCRIPTS
[1094]	1130	if [[ "$scp_port" != "" ]]
	1131	then
	1132	PORTOPT="-P $scp_port"
	1133	SSH_PORTOPT="-p $scp_port"
	1134	fi
	1135
	1136
[1289]	1137	# SET DEFAULT-QUEUE, IF NOT GIVEN
[1]	1138	if [[ $queue = none ]]
	1139	then
	1140	case $host in
[1184]	1141	(ibmh) queue=cluster;;
[693]	1142	(ibmkisti) queue=class.32plus;;
[1442]	1143	(lccrayb) queue=mpp1q;;
	1144	(lccrayh) queue=mpp1q;;
[1040]	1145	(lckiaps) queue=normal;;
[440]	1146	(lckyoto) queue=ph;;
[1099]	1147	(lckyuh) queue=fx-single;;
	1148	(lckyut) queue=cx-single;;
[635]	1149	(lctit) queue=S;;
[1]	1150	(nech) queue=none;;
	1151	(unics) queue=unics;;
	1152	esac
	1153	fi
	1154
	1155
[1289]	1156	# GENERATE FULL FILENAMES OF INPUT-FILES, INCLUDING THEIR PATH
	1157	# CHECK, IF INPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST)
[1]	1158	(( i = 0 ))
	1159	while (( i < iin ))
	1160	do
	1161	(( i = i + 1 ))
	1162	(( maxcycle = 0 ))
	1163
[1289]	1164	# GENERATE PATH AND FULL FILE NAME (then-BRANCH: FIXED FULL NAME IS GIVEN, I.E. THE
	1165	# FILE IDENTIFIER IS NOT PART OF THE FILENAME))
[1]	1166	if [[ "${actionin[$i]}" = di ]]
	1167	then
[1289]	1168	remotepathin[$i]=${pathin[$i]}/${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
	1169	# HOST ONLY
[1]	1170	eval filename=${pathin[$i]}/${endin[$i]}
	1171	else
[1289]	1172	remotepathin[$i]=${pathin[$i]}/${afname}${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
	1173	# HOST ONLY
[1]	1174	eval filename=${pathin[$i]}/${afname}${endin[$i]}
	1175	fi
[892]	1176	eval pathname=${pathin[$i]}
[1]	1177
[1289]	1178	# SAVE INPUT FILE NAME FOR PARAMETER FILE CHECK
[920]	1179	if [[ ("${transin[$i]}" = job) && (-f $filename) ]]
	1180	then
	1181	filename_input=$filename
	1182	fi
[892]	1183
[1289]	1184	# CHECK IF FILE EXISTS
[1]	1185	if [[ $(ls $filename* 2>&1 \| grep -c "not found") = 1 \|\| \
[746]	1186	$(ls $filename* 2>&1 \| grep -c "nicht gefunden") = 1 \|\| \
[1]	1187	$(ls $filename* 2>&1 \| grep -c "No such file") = 1 \|\| \
	1188	$(ls $filename* 2>&1 \| grep -c "does not exist") = 1 ]]
	1189	then
[1289]	1190
	1191	# FILES WITH ATTRIBUTE locopt ARE OPTIONAL. NO ABORT, IF THEY DO NOT EXIST.
[1]	1192	if [[ "${transin[$i]}" != "locopt" ]]
	1193	then
	1194	printf "\n\n +++ INPUT-file: "
	1195	if [[ "${extin[$i]}" = "" ]]
	1196	then
	1197	printf "\n $filename"
	1198	else
	1199	printf "\n $filename.${extin[$i]}"
	1200	fi
	1201	printf "\n does not exist\n"
	1202	locat=input; exit
	1203	else
	1204	transin[$i]="unavailable"
	1205	fi
	1206	else
	1207
[1289]	1208	# DETERMINE THE FILE'S CYCLE NUMBER
[1]	1209	ls -1 -d $filename > filelist 2>/dev/null
	1210	ls -1 -d $filename.* >> filelist 2>/dev/null
	1211	while read zeile
	1212	do
[1101]	1213	cycle=$(echo $zeile \| cut -f2 -d".")
[1]	1214	if [[ "$cycle" = "$zeile" ]]
	1215	then
	1216	(( icycle = 0 ))
	1217	elif [[ "$cycle" = "${extin[$i]}" ]]
	1218	then
	1219	(( icycle = 0 ))
	1220	else
	1221	(( icycle = $cycle ))
	1222	fi
	1223	if (( icycle > maxcycle ))
	1224	then
	1225	(( maxcycle = icycle ))
	1226	file_to_be_used=$zeile
	1227	fi
	1228	done <filelist
	1229	rm filelist
	1230
[1289]	1231	# APPEND CYCLE NUMBER TO FILENAME
[1]	1232	if (( maxcycle > 0 ))
	1233	then
	1234	if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]]
	1235	then
	1236	filename=${filename}.$maxcycle.${extin[$i]}
	1237	else
	1238	filename=${filename}.$maxcycle
	1239	fi
	1240	else
	1241	if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]]
	1242	then
	1243	filename=${filename}.${extin[$i]}
	1244	fi
	1245	fi
	1246
[1289]	1247	# STORE FILENAME WITHOUT PATH BUT WITH CYCLE NUMBER,
	1248	# BECAUSE IT MIGHT BE REQUIRED LATER TO RESTORE THE FILE FROM AN ARCHIVE-SYSTEM
[1]	1249	absnamein[$i]=$filename
	1250	if (( maxcycle > 0 ))
	1251	then
	1252	if [[ "${actionin[$i]}" = di ]]
	1253	then
	1254	frelin[$i]=${endin[$i]}.$maxcycle
	1255	else
	1256	frelin[$i]=${afname}${endin[$i]}.$maxcycle
	1257	fi
	1258	else
	1259	if [[ "${actionin[$i]}" = di ]]
	1260	then
	1261	frelin[$i]=${endin[$i]}
	1262	else
	1263	frelin[$i]=${afname}${endin[$i]}
	1264	fi
	1265	fi
	1266
	1267	fi
	1268	done
[920]	1269
[1289]	1270	# GENERATE FULL FILENAMES OF OUTPUT-FILES (WITHOUT $ OR ~),
	1271	# CHECK, IF OUTPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST),
	1272	# OR, IN CASE THAT FILE DOES NOT EXIST, CHECK, IF IT CAN BE CREATED
	1273	# THESE ACTIONS ARE NOT CARRIED OUT, IF FILES SHALL BE TRASFERRED FROM THE REMOTE TO
	1274	# THE LOCAL HOST (BECAUSE THEIR IS NO DIRECT ACCESS TO THE LOCAL DIRECTORIES FROM THE
	1275	# REMOTE HOST)
[1]	1276	(( i = 0 ))
	1277	while (( i < iout ))
	1278	do
	1279	(( i = i + 1 ))
	1280	if [[ ! ( $fromhost != $localhost && ( "${actionout[$i]}" = tr \|\| "${actionout[$i]}" = tra \|\| "${actionout[$i]}" = trpe ) ) ]]
	1281	then
[260]	1282	if [[ "${actionout[$i]}" = tr ]]
[1]	1283	then
	1284	actionout[$i]=""
[260]	1285	elif [[ "${actionout[$i]}" = trpe ]]
	1286	then
	1287	actionout[$i]=pe
[1]	1288	elif [[ "${actionout[$i]}" = tra ]]
	1289	then
	1290	actionout[$i]=a
	1291	fi
	1292	(( maxcycle = 0 ))
	1293	eval filename=${pathout[$i]}/${fname}${endout[$i]}
	1294	eval catalogname=${pathout[$i]}
	1295	if [[ $(ls $filename* 2>&1 \| grep -c "not found") = 1 \|\| \
[746]	1296	$(ls $filename* 2>&1 \| grep -c "nicht gefunden") = 1 \|\| \
[1]	1297	$(ls $filename* 2>&1 \| grep -c "No such file") = 1 \|\| \
	1298	$(ls $filename* 2>&1 \| grep -c "does not exist") = 1 ]]
	1299	then
	1300
[1289]	1301	# IF OUTPUT-FILE DOES NOT EXIST CHECK, IF IT CAN BE CREATED
[1]	1302	if cat /dev/null > $filename
	1303	then
	1304	rm $filename
	1305	else
	1306
[1289]	1307	# CHECK, IF THE DIRECTORY WHERE FILE SHALL BE COPIED TO EXISTS
	1308	# IF IT DOES NOT EXIST, TRY TO CREATE IT
[1]	1309	if [[ ! -d $catalogname ]]
	1310	then
	1311	if mkdir -p $catalogname
	1312	then
	1313	printf "\n\n *** directory:"
	1314	printf "\n $catalogname"
	1315	printf "\n was created\n"
	1316	else
	1317	printf "\n\n +++ OUTPUT-file:"
	1318	printf "\n $filename"
	1319	printf "\n cannot be created, because directory does not exist"
	1320	printf "\n and cannot be created either"
	1321	printf "\n"
	1322	locat=output ; exit
	1323	fi 2>/dev/null
	1324	else
	1325	printf "\n\n +++ OUTPUT-file:"
	1326	printf "\n $filename"
	1327	printf "\n cannot be created, although directory exists"
	1328	printf "\n"
	1329	locat=output ; exit
	1330	fi
	1331	fi 2>/dev/null
	1332	else
	1333
[1289]	1334	# DETERMINE THE CYCLE NUMBER
[1]	1335	ls -1 -d $filename > filelist 2>/dev/null
	1336	ls -1 -d $filename.* >> filelist 2>/dev/null
	1337	while read zeile
	1338	do
[1101]	1339	cycle=$(echo $zeile \| cut -f2 -d".")
[1]	1340	if [[ "$cycle" = "$zeile" \|\| "$cycle" = ${extout[$i]} ]]
	1341	then
	1342	(( icycle = 1 ))
	1343	else
	1344	(( icycle = $cycle + 1 ))
	1345	fi
	1346	if (( icycle > maxcycle ))
	1347	then
	1348	(( maxcycle = icycle ))
	1349	fi
	1350	done <filelist
	1351	rm filelist
	1352	fi
	1353
[1289]	1354	# APPEND CYCLE NUMBER TO FILENAME AND CHECK, IF FILE CAN BE CREATED
	1355	# IN CASE OF FILE-APPEND, FILE MUST BE APPENDED TO THE ONE WITH HIGHEST CYCLE NUMBER
[1]	1356	if [[ "${actionout[$i]}" != a ]]
	1357	then
	1358	if (( maxcycle > 0 ))
	1359	then
	1360	filename=${filename}.$maxcycle
	1361	if cat /dev/null > $filename
	1362	then
	1363	rm $filename
	1364	else
	1365	printf "\n +++ OUTPUT-file:"
	1366	printf "\n $filename"
	1367	printf "\n cannot be created"
	1368	locat=output ; exit
	1369	fi
	1370	fi
	1371	else
	1372	(( maxcycle = maxcycle - 1 ))
	1373	if (( maxcycle > 0 ))
	1374	then
	1375	filename=${filename}.$maxcycle
	1376	fi
	1377	fi
	1378
[1289]	1379	# STORE FILENAME WITHOUT PATH BUT WITH CYCLE NUMBER,
	1380	# BECAUSE IT MIGHT BE REQUIRED LATER TO STORE THE FILE ON AN ARCHIVE-SYSTEM
	1381	# OR TO PUT THIS FILENAME ON FILE OUTPUT_FILE_CONNECTIONS
[1]	1382	pathout[$i]=$filename
	1383	if (( maxcycle > 0 ))
	1384	then
	1385	frelout[$i]=${fname}${endout[$i]}.$maxcycle
	1386	else
	1387	frelout[$i]=${fname}${endout[$i]}
	1388	fi
	1389
	1390	fi
	1391	done
	1392
	1393
[1289]	1394	# THE DVR-PACKAGE REQUIRES ITS OWN LIBRARY
[83]	1395	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
	1396	then
[260]	1397	if [[ "$dvr_inc" = "" ]]
[83]	1398	then
[260]	1399	printf "\n\n +++ no value for \"dvr_inc\" given in configuration file"
[83]	1400	printf "\n This is required for the dvrp_graphics package.\n"
[260]	1401	locat=dvr; exit
[83]	1402	fi
[260]	1403	if [[ "$dvr_lib" = "" ]]
[83]	1404	then
[260]	1405	printf "\n\n +++ no value for \"dvr_lib\" given in configuration file"
[83]	1406	printf "\n This is required for the dvrp_graphics package.\n"
[260]	1407	locat=dvr; exit
[83]	1408	fi
	1409	fi
	1410
	1411
[1289]	1412	# CHECK, WETHER A MAIN PROGRAM OR AN EXECUTABLE HAVE BEEN DECLARED.
	1413	# EXECUTABLES DO NOT NEED TO BE COMPILED.
[1]	1414	if [[ "$mainprog" = "" && "$executable" = "" ]]
	1415	then
	1416	printf "\n +++ neither main program nor executable defined"
	1417	locat=source; exit
	1418	elif [[ "$mainprog" != "" && "$executable" != "" ]]
	1419	then
	1420	printf "\n +++ main program as well as executable defined"
	1421	locat=source; exit
	1422	elif [[ "$mainprog" = "" && "$executable" != "" ]]
	1423	then
	1424	do_compile=false
	1425	fi
	1426
	1427
[1289]	1428	# CREATE SOURCE-DIRECTORY TO COLLECT ROUTINES TO BE COMPILED.
	1429	# LATER THE MRUN-SCRIPT AND CONFIGURATION-FILE WILL ALSO BE COPIED TO THIS DIRECTORY.
[193]	1430	if [[ $restart_run != true && "$SOURCES_COMPLETE" = "" ]]
[191]	1431	then
	1432	rm -rf SOURCES_FOR_RUN_$fname
	1433	mkdir SOURCES_FOR_RUN_$fname
	1434	fi
	1435
	1436
[1289]	1437	# COLLECT ALL ROUTINES TO BE COMPILED
	1438	# THIS IS NOT REQUIRED WITHIN BATCH-JOBS, BECAUSE ROUTINES HAVE ALREADY BEEN COLLECTED
	1439	# BY THE MRUN-CALL WHICH CREATED THE BATCH-JOB.
[1]	1440	if [[ $do_compile = true && "$SOURCES_COMPLETE" = "" ]]
	1441	then
	1442
[5]	1443	[[ "$source_list" = LM ]] && source_list=LOCALLY_MODIFIED
[1]	1444
[838]	1445	if [[ "$source_list" = LOCALLY_MODIFIED ]]
[1]	1446	then
	1447
[1289]	1448	# DETERMINE MODIFIED FILES OF THE SVN WORKING COPY
[5]	1449	source_list=""
	1450	cd $source_path
	1451
	1452
[1289]	1453	# CHECK, IF DIRECTORY IS UNDER SVN CONTROL
[5]	1454	if [[ ! -d .svn ]]
	1455	then
	1456	printf "\n\n +++ source directory"
	1457	printf "\n \"$source_path\" "
	1458	printf "\n is not under control of \"subversion\"."
[306]	1459	printf "\n Please do not use mrun-option \"-s LOCALLY_MODIFIED\"\n"
[5]	1460	fi
	1461
	1462
[1289]	1463	# LIST ALL MODIFIED SOURCE CODE FILES
[5]	1464	Filenames=""
[69]	1465	svn status > tmp_mrun
	1466	while read line
[5]	1467	do
	1468	firstc=`echo $line \| cut -c1`
	1469	if [[ $firstc = M \|\| $firstc = "?" ]]
	1470	then
	1471	Name=`echo "$line" \| cut -c8-`
	1472	extension=`echo $Name \| cut -d. -f2`
	1473	if [[ "$extension" = f90 \|\| "$extension" = F90 \|\| "$extension" = f \|\| "$extension" = F \|\| "$extension" = c ]]
	1474	then
	1475	Filenames="$Filenames "$Name
	1476	fi
	1477	fi
[69]	1478	done < tmp_mrun
[5]	1479
	1480
[1289]	1481	# COPY FILES TO SOURCES_FOR_RUN_...
[5]	1482	for dateiname in $Filenames
	1483	do
	1484	cp $dateiname $working_directory/SOURCES_FOR_RUN_$fname
	1485	source_list=$source_list"$dateiname "
	1486	done
	1487
	1488	cd - > /dev/null
	1489
	1490
[1289]	1491	# COPY FILES GIVEN BY OPTION -s TO DIRECTORY SOURCES_FOR_RUN_...
	1492	# AUTOMATIC RESTART RUNS JUST ACCESS THE DIRECTORY CREATED BY THE INITIAL RUN
[5]	1493	elif [[ "$source_list" != "" && $restart_run != true ]]
[1]	1494	then
	1495
	1496	cd $source_path
	1497
	1498	for filename in $source_list
	1499	do
	1500
[1289]	1501	# SOURCE CODE FILE IS NOT ALLOWED TO INCLUDE PATH
[1103]	1502	if [[ $(echo $filename \| grep -c "/") != 0 ]]
[1]	1503	then
	1504	printf "\n +++ source code file: $filename"
	1505	printf "\n must not contain (\"/\") "
	1506	locat=source; exit
	1507	fi
	1508
	1509	if [[ ! -f $filename ]]
	1510	then
	1511	printf "\n +++ source code file: $filename"
	1512	printf "\n does not exist"
	1513	locat=source; exit
	1514	else
	1515	cp $filename $working_directory/SOURCES_FOR_RUN_$fname
	1516	fi
	1517
	1518	done
	1519
	1520	cd - > /dev/null
	1521
	1522	fi
	1523
	1524
[1289]	1525	# CHECK, IF A MAIN PROGRAM EXISTS AND IF IT IS PART OF THE LIST OF FILES
	1526	# TO BE COMPILED. IF NOT, ADD IT TO THE LIST.
[5]	1527	if [[ $restart_run != true ]]
[1]	1528	then
	1529
	1530	if [[ ! -f "$source_path/$mainprog" ]]
	1531	then
	1532	printf "\n\n +++ main program: $mainprog"
	1533	printf "\n does not exist in source directory"
	1534	printf "\n \"$source_path\"\n"
	1535	locat=source; exit
	1536	else
	1537	if [[ $(echo $source_list \| grep -c $mainprog) = 0 ]]
	1538	then
	1539	cp $source_path/$mainprog SOURCES_FOR_RUN_$fname
	1540	source_list=${mainprog}" $source_list"
	1541	fi
	1542	fi
	1543	fi
	1544
	1545
[1289]	1546	# CHECK, IF MAKEFILE EXISTS AND COPY IT TO THE SOURCES_FOR_RUN... DIRECTORY
	1547	# NOT REQUIRED FOR RESTART RUNS, SOURCES_FOR_RUN... HAS BEEN CREATED BY THE INITIAL RUN
[211]	1548	if [[ "$restart_run" != true ]]
	1549	then
	1550	[[ "$makefile" = "" ]] && makefile=$source_path/Makefile
	1551	if [[ ! -f $makefile ]]
	1552	then
	1553	printf "\n +++ file \"$makefile\" does not exist"
	1554	locat=make; exit
	1555	else
	1556	cp $makefile SOURCES_FOR_RUN_$fname/Makefile
	1557	fi
	1558	fi
	1559
	1560
[1289]	1561	# COPY FILES FROM OPTIONAL SOURCE PATH GIVEN IN THE CONFIGURATION FILE
[5]	1562	if [[ $restart_run != true && "$add_source_path" != "" ]]
[1]	1563	then
	1564
[1289]	1565	# DOES THE DIRECTORY EXIST?
[1]	1566	if [[ ! -d $add_source_path ]]
	1567	then
	1568	printf "\n\n +++ WARNING: additional source code directory"
	1569	printf "\n \"$add_source_path\" "
	1570	printf "\n does not exist or is not a directory."
	1571	printf "\n No source code will be used from this directory!\n"
	1572	add_source_path=""
[931]	1573	if [[ $silent == false ]]
	1574	then
	1575	sleep 3
	1576	fi
[1]	1577	else
	1578
	1579	cd $add_source_path
[211]	1580	found=false
[1]	1581
	1582	Names=$(ls -1 *.f90 2>&1)
	1583	[[ $(echo $Names \| grep -c '*.f90') = 0 ]] && AddFilenames="$Names"
	1584	Names=$(ls -1 *.F90 2>&1)
	1585	[[ $(echo $Names \| grep -c '*.F90') = 0 ]] && AddFilenames="$AddFilenames $Names"
	1586	Names=$(ls -1 *.F 2>&1)
	1587	[[ $(echo $Names \| grep -c '*.F') = 0 ]] && AddFilenames="$AddFilenames $Names"
	1588	Names=$(ls -1 *.f 2>&1)
	1589	[[ $(echo $Names \| grep -c '*.f') = 0 ]] && AddFilenames="$AddFilenames $Names"
	1590	Names=$(ls -1 *.c 2>&1)
	1591	[[ $(echo $Names \| grep -c '*.c') = 0 ]] && AddFilenames="$AddFilenames $Names"
	1592
	1593	cd - > /dev/null
	1594	cd SOURCES_FOR_RUN_$fname
	1595
[211]	1596	# COPY MAKEFILE IF EXISTING
	1597	if [[ -f $add_source_path/Makefile ]]
	1598	then
	1599	printf "\n\n *** user Makefile from directory"
	1600	printf "\n \"$add_source_path\" is used \n"
[931]	1601	if [[ $silent == false ]]
	1602	then
	1603	sleep 1
	1604	fi
[211]	1605	cp $add_source_path/Makefile .
	1606	fi
	1607
[1]	1608	for dateiname in $AddFilenames
	1609	do
	1610	if [[ -f $dateiname ]]
	1611	then
	1612	printf "\n +++ source code file \"$dateiname\" found in additional"
	1613	printf "\n source code directory \"$add_source_path\" "
[211]	1614	printf "\n but was also given with option \"-s\" which means that it should be taken"
	1615	printf "\n from directory \"$source_path\"."
[1]	1616	locat=source; exit
	1617	fi
	1618
	1619	cp $add_source_path/$dateiname .
	1620	source_list="$source_list $dateiname"
	1621
[211]	1622	# CHECK IF FILE IS CONTAINED IN MAKEFILE
	1623	if [[ $(grep -c $dateiname Makefile) = 0 ]]
	1624	then
	1625	printf "\n\n +++ user file \"$dateiname\" "
	1626	printf "\n is not listed in Makefile \n"
	1627	locat=source; exit
	1628	else
	1629
	1630	if [[ $found = false ]]
[1]	1631	then
[211]	1632	found=true
	1633	printf "\n\n *** following user file(s) added to the"
	1634	printf " files to be translated:\n "
[1]	1635	fi
[211]	1636	printf "$dateiname "
[931]	1637	if [[ $silent == false ]]
	1638	then
	1639	sleep 0.5
	1640	fi
	1641
[1]	1642	fi
	1643	done
[211]	1644	[[ $found = true ]] && printf "\n"
[1]	1645	cd - > /dev/null
	1646	fi
	1647	fi
	1648
	1649
[1289]	1650	# ADD ALL ROUTINES BELONGING TO SOFTWARE PACKAGES (GIVEN BY OPTION -p)
	1651	# TO THE LIST OF FILES TO BE COMPILED
[5]	1652	if [[ $restart_run != true && -n $package_list ]]
[1]	1653	then
	1654
	1655	cd $source_path
	1656
	1657	for package in $package_list
	1658	do
	1659
	1660	[[ $package = "dvrp_graphics+1PE" ]] && package=dvrp_graphics
	1661
[1289]	1662	# DETERMINE FILES BELONGING TO THE PACKAGE
	1663	# ERROR MESSAGE ARE REDIRECTED TO /dev/null, BECAUSE WILDCARD (*) ALSO GIVES
	1664	# THE NAME OF THE DIRECTORY
[1]	1665	package_source_list=`grep "defined( __$package " * 2>/dev/null \| cut -f1 -d:`
	1666
	1667
[1289]	1668	# ADD THESE FILES TO THE LIST OF FILES TO BE COMPILED,
	1669	# IF THEY ARE NOT ALREADY PART OF THE LIST
[1]	1670	for source_list_name in $package_source_list
	1671	do
	1672	if [[ $(echo $source_list \| grep -c $source_list_name) = 0 ]]
	1673	then
	1674
[1289]	1675	# ONLY TAKE FILES WITH VALID SUFFIX
[1]	1676	ending=`echo $source_list_name \| cut -f2 -d.`
	1677	if [[ "$ending" = f90 \|\| "$ending" = F90 \|\| "$ending" = f \|\| "$ending" = F \|\| "$ending" = c ]]
	1678	then
	1679	cp $source_list_name $working_directory/SOURCES_FOR_RUN_$fname
	1680	source_list="$source_list $source_list_name"
	1681	fi
	1682	fi
	1683	done
	1684	done
	1685
	1686	cd - > /dev/null
	1687	fi
	1688
	1689	fi # do_compile=true
	1690
	1691
[1289]	1692	# IF SOURCE CODE IS TO BE COMPILED, DO SOME MORE CHECKS
	1693	# AND SET PRE-PROCESSOR DIRECTIVES
[1199]	1694	if [[ $do_compile = true \|\| $create_executable_for_batch = true ]]
[1]	1695	then
	1696
[1289]	1697	# SET PREPROCESSOR-DIRECTIVES TO SELECT OPERATING SYSTEM SPECIFIC CODE
[1]	1698	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
	1699	then
[82]	1700	cpp_options="${cpp_options},-D__ibm=__ibm"
[1]	1701	elif [[ $(echo $localhost \| cut -c1-3) = nec ]]
	1702	then
[82]	1703	cpp_options="$cpp_options -D__nec"
	1704	elif [[ $(echo $localhost \| cut -c1-2) = lc ]]
	1705	then
	1706	cpp_options="$cpp_options -D__lc"
[1]	1707	else
[82]	1708	cpp_options="$cpp_options -D__$localhost"
[1]	1709	fi
[83]	1710
[1289]	1711	# SET DIRECTIVES GIVEN BY OPTION -K (E.G. parallel)
[1]	1712	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
	1713	then
[82]	1714	[[ -n $cond1 ]] && cpp_options="${cpp_options},-D__$cond1=__$cond1"
	1715	[[ -n $cond2 ]] && cpp_options="${cpp_options},-D__$cond2=__$cond2"
[1]	1716	else
[82]	1717	[[ -n $cond1 ]] && cpp_options="$cpp_options -D__$cond1"
	1718	[[ -n $cond2 ]] && cpp_options="$cpp_options -D__$cond2"
[1]	1719	fi
[83]	1720
[1289]	1721	# SET DIRECTIVES FOR ACTIVATING SOFTWARE-PACKAGES (OPTION -p)
[1]	1722	if [[ -n $package_list ]]
	1723	then
	1724	for package in $package_list
	1725	do
	1726	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
	1727	then
	1728	if [[ $package != "dvrp_graphics+1PE" ]]
	1729	then
[82]	1730	cpp_options="${cpp_options},-D__$package=__$package"
[1]	1731	else
[82]	1732	cpp_options="${cpp_options},-D__dvrp_graphics=__dvrp_graphics"
[1]	1733	export use_seperate_pe_for_dvrp_output=true
	1734	fi
	1735	else
	1736	if [[ $package != "dvrp_graphics+1PE" ]]
	1737	then
[82]	1738	cpp_options="$cpp_options -D__$package"
[1]	1739	else
[82]	1740	cpp_options="$cpp_options -D__dvrp_graphics"
[1]	1741	export use_seperate_pe_for_dvrp_output=true
	1742	fi
	1743	fi
	1744	done
	1745	fi
[83]	1746
[1289]	1747	# SET DIRECTIVES GIVEN BY OPTION -D
[1]	1748	if [[ -n $cpp_opts ]]
	1749	then
	1750	for popts in $cpp_opts
	1751	do
[82]	1752	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
	1753	then
	1754	cpp_options="${cpp_options},-D__$popts=__$popts"
	1755	else
	1756	cpp_options="$cpp_options -D__$popts"
	1757	fi
[1]	1758	done
	1759	fi
	1760
	1761	else
	1762
	1763
[1289]	1764	# FOR LOCAL RUNS CHECK AGAIN, IF EXECUTABLE EXISTS
[1]	1765	if [[ $do_remote = false ]]
	1766	then
	1767	if [[ ! -f $executable ]]
	1768	then
	1769	printf "\n +++ executable file: $executable"
	1770	printf "\n does not exist"
	1771	locat=executable; exit
	1772	fi
	1773	fi
	1774	fi
	1775
	1776
[1289]	1777	# DETERMINE THE JOB MODE
[635]	1778	if [[ "$ENVIRONMENT" = BATCH ]]
[1]	1779	then
[1402]	1780	batch_job=.TRUE.
[1]	1781	jobmo=BATCH
	1782	else
[1402]	1783	batch_job=.FALSE.
[1]	1784	jobmo=INTERACTIVE
	1785	fi
	1786
	1787
[1289]	1788	# NO INTERACTIVE RUNS ALLOWED ON LCTIT
[635]	1789	if [[ $host = lctit && $jobmo = INTERACTIVE && $do_batch = false ]]
	1790	then
	1791	printf "\n +++ no interactive runs allowed on host \"$host\" "
	1792	printf "\n please submit batch job using mrun option \"-b\" \n"
	1793	locat=normal; exit
	1794	fi
	1795
	1796
[1289]	1797	# CHECK, IF USER DEFINED A COMPILER
[1]	1798	if [[ "$compiler_name" = "" ]]
	1799	then
[82]	1800
[220]	1801	printf "\n +++ no compiler specified for \"$host $cond1 $cond2\""
[82]	1802	locat=compiler_name; exit
	1803
[1]	1804	fi
	1805
	1806
[1289]	1807	# DETERMINE THE NAME OF MRUN'S TEMPORARY WORKING DIRECTORY
[1]	1808	kennung=$RANDOM
	1809	if [[ "$tmp_user_catalog" = "" ]]
	1810	then
[312]	1811	if [[ $localhost = ibmh ]]
[1]	1812	then
[312]	1813	tmp_user_catalog=$SCRATCH
[1]	1814	elif [[ $localhost = nech ]]
	1815	then
	1816	tmp_user_catalog=$WRKSHR
	1817	else
	1818	tmp_user_catalog=/tmp
	1819	fi
	1820	fi
	1821	TEMPDIR=$tmp_user_catalog/${usern}.$kennung
	1822
	1823
[1289]	1824	# DETERMINE THE NAME OF THE DIRECTORY WHICH IS USED TO TEMPORARILY STORE DATA FOR RESTART RUNS
[1]	1825	if [[ "$tmp_data_catalog" = "" ]]
	1826	then
[622]	1827	if [[ $localhost = nech ]]
[1]	1828	then
	1829	tmp_data_catalog=$WRKSHR/mrun_restart_data
	1830	else
	1831	tmp_data_catalog=/tmp/mrun_restart_data
	1832	fi
	1833	fi
	1834
	1835
[1289]	1836	# IN CASE OF LOCAL RUNS REPLACE ENVIRONMENT VARIABLES BY THEIR VALUES
[1199]	1837	if [[ $do_remote = false && $do_compile = true \|\| $create_executable_for_batch = true ]]
[1]	1838	then
	1839	eval fopts=\"$fopts\"
	1840	eval lopts=\"$lopts\"
	1841	fi
	1842
	1843
	1844
[1289]	1845	# DETERMINE COMPILE- AND LINK-OPTIONS
[1210]	1846	fopts="$fopts $netcdf_inc $fftw_inc $dvr_inc"
	1847	lopts="$lopts $netcdf_lib $fftw_lib $dvr_lib"
[1]	1848	ROPTS="$ropts"
[1289]	1849	# if [[ ( $(echo $host \| cut -c1-3) = nec \|\| $(echo $host \| cut -c1-3) = ibm \|\| $host = lckyoto \|\| $host = lctit \|\| $host = lcflow \|\| $host = lcxe6 \|\| $host = lcxt5m \|\| $host = lck \|\| $host = lckiaps \|\| $host = lckordi \|\| $host = lcsb \|\| $host ) && -n $numprocs ]]
[1090]	1850	# then
[1]	1851	XOPT="-X $numprocs"
[1090]	1852	# fi
[1]	1853
	1854
	1855
[1289]	1856	# CHECK THE CPU-LIMIT. IT MUST BE GIVEN FOR BATCH-JOBS AND IS COMMUNICATED TO THE
	1857	# EXECUTABLE VIA NAMELIST-PARAMETER cputime
[1]	1858	done=false
	1859	while [[ $done = false ]]
	1860	do
	1861	cputime=$cpumax
	1862	if (( $cputime == 0 ))
	1863	then
[246]	1864	if [[ $do_batch = true ]]
	1865	then
	1866	printf "\n +++ cpu-time is undefined"
	1867	printf "\n >>> Please type CPU-time in seconds as INTEGER:"
	1868	printf "\n >>> "
	1869	read cputime 1>/dev/null 2>&1
	1870	else
	1871	cputime=10000000 # NO CPU LIMIT FOR INTERACTIVE RUNS
	1872	fi
[1]	1873	else
	1874	done=true
	1875	fi
	1876	cpumax=$cputime
	1877	done
	1878
	1879	(( minuten = cputime / 60 ))
	1880	(( sekunden = cputime - minuten * 60 ))
	1881
	1882
[1289]	1883	# CHECK THE MEMORY DEMAND
[1]	1884	if [[ $do_batch = true ]]
	1885	then
	1886	done=false
	1887	while [[ $done = false ]]
	1888	do
	1889	if (( memory == 0 ))
	1890	then
	1891	printf "\n +++ memory demand is undefined"
	1892	printf "\n >>> Please type memory in MByte per process as INTEGER:"
	1893	printf "\n >>> "
	1894	read memory 1>/dev/null 2>&1
	1895	else
	1896	done=true
	1897	fi
	1898	done
	1899	fi
	1900
	1901
[1289]	1902	# IN CASE OF REMOTE-JOBS CHECK, IF A USERNAME FOR THE REMOTE HOST IS GIVEN
[1]	1903	if [[ $do_remote = true && -z $remote_username ]]
	1904	then
	1905	while [[ -z $remote_username ]]
	1906	do
	1907	printf "\n +++ username on remote host \"$host\" is undefined"
	1908	printf "\n >>> Please type username:"
	1909	printf "\n >>> "
	1910	read remote_username
	1911	done
	1912	mc="$mc -u$remote_username"
	1913	fi
	1914
[892]	1915	# CHECK FOR INITIAL COMMANDS AFTER LOGIN
	1916	if [[ "$login_init_cmd" != "" ]]
	1917	then
	1918	export init_cmds="${login_init_cmd};"
	1919	fi
[221]	1920
[892]	1921
[1289]	1922	# SET THE MODULE-LOAD COMMAD AND EXPORT IT FOR subjob
[493]	1923	if [[ "$modules" != "" ]]
	1924	then
[678]	1925	if [[ $host = lctit ]]
	1926	then
	1927	export module_calls=". $modules"
	1928	else
	1929	export module_calls="module load ${modules};"
	1930	fi
[493]	1931	fi
	1932
	1933
[555]	1934
[1289]	1935	# OUTPUT OF THE MRUN-HEADER
[1]	1936	calltime=$(date)
	1937	printf "\n"
[1101]	1938	printf "#------------------------------------------------------------------------# \n"
	1939	printf "\| %-35s%35s \| \n" "$version" "$calltime"
	1940	printf "\| \| \n"
[1]	1941	spalte1="called on:"; spalte2=$localhost_realname
[1101]	1942	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1289]	1943	if [[ $do_remote = true ]]
[1]	1944	then
[1289]	1945	spalte1="execution on:"; spalte2="$host (username: $remote_username)"
[1]	1946	else
[1289]	1947	spalte1="execution on:"; spalte2="$host ($localhost_realname)"
[1]	1948	fi
[1101]	1949	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	1950	if [[ -n $numprocs ]]
	1951	then
[1106]	1952	if [[ $run_coupled_model = false ]]
	1953	then
	1954	spalte1="number of PEs:"; spalte2=$numprocs
	1955	else
	1956	spalte1="number of PEs:"; spalte2="$numprocs (atmosphere: $numprocs_atmos, ocean: $numprocs_ocean)"
	1957	fi
[1101]	1958	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	1959	fi
	1960	if [[ -n $tasks_per_node ]]
	1961	then
	1962	spalte1="tasks per node:"; spalte2="$tasks_per_node (number of nodes: $nodes)"
[1101]	1963	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1279]	1964	if (( remaining_pes > 0 ))
	1965	then
	1966	spalte1=" "; spalte2="one of the nodes only filled with $remaining_pes tasks"
	1967	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	1968	fi
[1]	1969	fi
[759]	1970	if [[ $maximum_parallel_io_streams != $numprocs ]]
	1971	then
	1972	spalte1="max par io streams:"; spalte2="$maximum_parallel_io_streams"
[1101]	1973	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[759]	1974	fi
[622]	1975	if [[ $use_openmp = true ]]
[1]	1976	then
	1977	spalte1="threads per task:"; spalte2="$threads_per_task"
[1101]	1978	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	1979	fi
[1101]	1980	printf "\| \| \n"
[1]	1981	if [[ $do_compile = true ]]
	1982	then
[475]	1983	if [[ "$mopts" != "" ]]
	1984	then
[1101]	1985	spalte1="make options:"; spalte2=$(echo "$mopts" \| cut -c-45)
	1986	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	1987	zeile=$(echo "$mopts" \| cut -c46-)
[475]	1988	while [[ "$zeile" != "" ]]
	1989	do
	1990	spalte1=""
[1101]	1991	spalte2=$(echo "$zeile" \| cut -c-45)
	1992	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	1993	zeile=$(echo "$zeile" \| cut -c46-)
[475]	1994	done
	1995	fi
	1996
[1101]	1997	spalte1="cpp directives:"; spalte2=$(echo "$cpp_options" \| cut -c-45)
	1998	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	1999	zeile=$(echo "$cpp_options" \| cut -c46-)
[1]	2000	while [[ "$zeile" != "" ]]
	2001	do
	2002	spalte1=""
[1101]	2003	spalte2=$(echo "$zeile" \| cut -c-45)
	2004	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2005	zeile=$(echo "$zeile" \| cut -c46-)
[1]	2006	done
	2007
[1101]	2008	spalte1="compiler options:"; spalte2=$(echo "$fopts" \| cut -c-45)
	2009	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2010	zeile=$(echo "$fopts" \| cut -c46-)
[1]	2011	while [[ "$zeile" != "" ]]
	2012	do
	2013	spalte1=""
[1101]	2014	spalte2=$(echo "$zeile" \| cut -c-45)
	2015	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2016	zeile=$(echo "$zeile" \| cut -c46-)
[1]	2017	done
	2018
[1101]	2019	spalte1="linker options:"; spalte2=$(echo "$lopts" \| cut -c-45)
	2020	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2021	zeile=$(echo "$lopts" \| cut -c46-)
[1]	2022	while [[ "$zeile" != "" ]]
	2023	do
	2024	spalte1=""
[1101]	2025	spalte2=$(echo "$zeile" \| cut -c-45)
	2026	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2027	zeile=$(echo "$zeile" \| cut -c46-)
[1]	2028	done
	2029
[1101]	2030	spalte1="modules to be load:"; spalte2=$(echo "$modules" \| cut -c-45)
	2031	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2032	zeile=$(echo "$modules" \| cut -c46-)
[493]	2033	while [[ "$zeile" != "" ]]
	2034	do
	2035	spalte1=""
[1101]	2036	spalte2=$(echo "$zeile" \| cut -c-45)
	2037	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2038	zeile=$(echo "$zeile" \| cut -c46-)
[493]	2039	done
	2040
[1101]	2041	spalte1="main program:"; spalte2=$mainprog
	2042	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	2043	else
	2044	spalte1=executable:; spalte2=$executable
[1101]	2045	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	2046	fi
[1101]	2047	printf "\| \| \n"
	2048	spalte1="base name of files:"; spalte2=$fname
	2049	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	2050	if [[ $fname != $afname ]]
	2051	then
[1101]	2052	spalte1="base name of input files:"; spalte2=$afname
	2053	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	2054	fi
[1101]	2055	spalte1="INPUT control list:"; spalte2=$(echo $input_list)
	2056	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2057	spalte1="OUTPUT control list:"; spalte2=$(echo $output_list)
	2058	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	2059
[1106]	2060	if [[ "$ocean_file_appendix" = true ]]
	2061	then
	2062	printf "\| %-35s%-35s \| \n" "suffix \"_O\" is added to local files" " "
	2063	fi
	2064
[1]	2065	if [[ $do_batch = true \|\| "$LOADLBATCH" = yes ]]
	2066	then
	2067	spalte1="memory demand / PE":; spalte2="$memory MB"
[1101]	2068	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	2069	spalte1=CPU-time:; spalte2="$minuten:$sekunden"
[1101]	2070	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	2071	fi
	2072
	2073	if [[ $do_compile = true ]]
	2074	then
[1101]	2075	printf "\| \| \n"
	2076	printf "\| Files to be compiled: \| \n"
[1]	2077	zeile=$source_list
	2078	while [[ "$zeile" != "" ]]
	2079	do
[1101]	2080	linestart=$(echo $zeile \| cut -c-70)
	2081	printf "\| %-70s \| \n" "$linestart"
	2082	zeile=$(echo "$zeile" \| cut -c71-)
[1]	2083	done
	2084	fi
[1101]	2085	printf "#------------------------------------------------------------------------#"
[1]	2086
	2087
	2088
[1289]	2089	# OUTPUT OF FILE CONNECTIONS IN CASE OF TRACEBACK
[1]	2090	if [[ $do_trace = true ]]
	2091	then
	2092	(( i = 0 ))
	2093	while (( i < iin ))
	2094	do
	2095	(( i = i + 1 ))
	2096	if (( i == 1 ))
	2097	then
	2098	printf "\n\n >>> INPUT-file assignments:\n"
	2099	fi
	2100	printf "\n ${localin[$i]} : ${absnamein[$i]}"
	2101	done
	2102	(( i = 0 ))
	2103	while (( i < iout ))
	2104	do
	2105	(( i = i + 1 ))
	2106	if (( i == 1 ))
	2107	then
	2108	printf "\n\n >>> OUTPUT-file assignments:\n"
	2109	fi
	2110	printf "\n ${localout[$i]} : ${pathout[$i]}"
	2111	done
	2112	(( i = 0 ))
	2113	while (( i < iic ))
	2114	do
	2115	(( i = i + 1 ))
	2116	if (( i == 1 ))
	2117	then
	2118	printf "\n\n >>> INPUT-commands:\n"
	2119	fi
	2120	printf "\n ${in_command[$i]}"
	2121	done
	2122	(( i = 0 ))
	2123	while (( i < ioc ))
	2124	do
	2125	(( i = i + 1 ))
	2126	if (( i == 1 ))
	2127	then
	2128	printf "\n\n >>> OUTPUT-commands:\n"
	2129	fi
	2130	printf "\n ${out_command[$i]}"
	2131	done
	2132	fi
	2133
	2134
[1289]	2135	# QUERY FOR CONTINUE (ON LOCAL MACHINES ONLY)
[1]	2136	if [[ $remotecall = false && $silent = false && $jobmo != BATCH ]]
	2137	then
	2138	antwort=dummy
	2139	printf "\n\n"
[1101]	2140	printf " >>> everything o.k. (y/n) ? "
	2141	while read antwort
[1]	2142	do
[1101]	2143	if [[ "$antwort" != y && "$antwort" != Y && "$antwort" != n && "$antwort" != N ]]
	2144	then
	2145	printf " >>> everything o.k. (y/n) ? "
	2146	else
	2147	break
	2148	fi
[1]	2149	done
	2150	if [[ $antwort = n \|\| $antwort = N ]]
	2151	then
	2152	locat=user_abort; (( iec = 0 )); exit
	2153	fi
	2154	if [[ $do_batch = true ]]
	2155	then
	2156	printf " >>> batch-job will be created and submitted"
	2157	else
[1289]	2158	printf " >>> MRUN will now continue to execute on this machine"
[1]	2159	fi
	2160	fi
	2161
[841]	2162
[1101]	2163	# PERFORM PARAMETER FILE CHECK (COUPLED RUNS ARE NOT SUPPORTED YET)
	2164	# DEFINE VARIABLES FOR FREQUENTLY USED DIRECTORIES
[841]	2165	check_depository="${working_directory}/trunk/UTIL"
	2166	check_sources="${working_directory}/tmp_check_namelist_files"
[818]	2167	skip_check=false
[841]	2168
[1101]	2169	# CHECK IF NAMELIST_FILE_CHECK HAS BEEN COMPILED SUCCESSFULLY
[920]	2170	if [[ ! -f $check_depository/check_namelist_files.tar ]]
[841]	2171	then
[1101]	2172	skip_check=true
	2173	reason="run on remote host or parameter file check has not been compiled."
[920]	2174	fi
	2175	if [[ ! -f $PALM_BIN/check_namelist_files.x ]]
	2176	then
[1101]	2177	skip_check=true
	2178	reason="parameter file check has not been compiled."
[892]	2179	fi
[841]	2180
[1101]	2181	# CHECK FOR PARALLEL RUN; OTHERWISE SKIP CHECK
[892]	2182	if [[ "$cond1" != "parallel" && "$cond2" != "parallel" ]]
	2183	then
[1101]	2184	skip_check=true
	2185	reason="serial run."
[841]	2186	fi
	2187
[1101]	2188	# ONLY PERFORM CHECK IF -z OPTION IS NOT SET, NO RESTART RUN IS CARRIED OUT
	2189	# AND IF THE EXECUTION HOST IS THE LOCAL HOST
	2190	# ATTENTION: THIS ROUTINE DOES NOT WORK IF THE COMPILER ON THE LOCAL HOST
	2191	# DIFFERS FROM THE COMPILER ON THE REMOTE HOST
[892]	2192	if [[ $check_namelist_files == false ]]
[807]	2193	then
[1101]	2194	skip_check=true
	2195	reason="-z option set."
[815]	2196	fi
[892]	2197
	2198	if [[ $fromhost != $localhost ]]
[815]	2199	then
[1101]	2200	skip_check=true
	2201	reason="submitting host is local host."
[892]	2202	fi
[1]	2203
[892]	2204	if [[ $run_coupled_model == true ]]
	2205	then
	2206	skip_check=true
	2207	reason="coupled run."
	2208	fi
[1]	2209
[892]	2210	if [[ $restart_run == true ]]
	2211	then
	2212	skip_check=true
	2213	reason="restart run."
	2214	fi
[807]	2215
[1101]	2216	# SKIP CHECK IN CASE OF RESTART RUN: CHECK WHETHER THE LAST CHAR IS "f" IN PARIN
[1122]	2217	(( last_char_int = `echo $filename_input \| wc -c` - 1 ))
	2218	last_char=`echo $filename_input \| cut -c $last_char_int`
[892]	2219	if [[ "$last_char" == "f" ]]
	2220	then
	2221	skip_check=true
[1069]	2222	reason="restart run."
[892]	2223	fi
[807]	2224
[892]	2225	if [[ $skip_check == false ]]
	2226	then
	2227	tmp_check=${working_directory}/tmp_check
[841]	2228
[1241]	2229	# GET TOPOGRAPHY PARAMETER FILE SUFFIX (USUALLY "_TOPO"). THIS FILE IS
[1101]	2230	# NOT NECESSARILY REQUIRED
[818]	2231	line=""
	2232	found=false
[892]	2233	grep "TOPOGRAPHY_DATA" $config_file > $tmp_check
[818]	2234	while read line1
	2235	do
	2236	line="$line1"
	2237	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	2238	then
	2239	topo_suffix=`echo $line \| tr -s " " \| cut -d" " -s -f5`
	2240	found=true
	2241	fi
	2242	done < $tmp_check
[807]	2243
[818]	2244	if [[ $found = false ]]
	2245	then
	2246	printf "\n +++ no TOPOGRAPHY list entry found in the configuration file."
	2247	fi
	2248
[1241]	2249	# GET NUDGING PARAMETER FILE SUFFIX (USUALLY "_NUDGE"). THIS FILE IS
	2250	# NOT NECESSARILY REQUIRED
	2251	line=""
	2252	found=false
	2253	grep "NUDGING_DATA" $config_file > $tmp_check
	2254	while read line1
	2255	do
	2256	line="$line1"
	2257	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	2258	then
	2259	nudge_suffix=`echo $line \| tr -s " " \| cut -d" " -s -f5`
	2260	found=true
	2261	fi
	2262	done < $tmp_check
	2263
	2264	if [[ $found = false ]]
	2265	then
	2266	printf "\n +++ no NUDGING list entry found in the configuration file."
	2267	fi
	2268
	2269	# GET LARGE SCALE FORCING PARAMETER FILE SUFFIX (USUALLY "_LSF"). THIS FILE IS
	2270	# NOT NECESSARILY REQUIRED
	2271	line=""
	2272	found=false
	2273	grep "LSF_DATA" $config_file > $tmp_check
	2274	while read line1
	2275	do
	2276	line="$line1"
	2277	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	2278	then
	2279	lsf_suffix=`echo $line \| tr -s " " \| cut -d" " -s -f5`
	2280	found=true
	2281	fi
	2282	done < $tmp_check
	2283
	2284	if [[ $found = false ]]
	2285	then
	2286	printf "\n +++ no LSF list entry found in the configuration file."
	2287	fi
	2288
[807]	2289	rm -rf ${working_directory}/tmp_check
	2290
[1241]	2291	# CHECK IF THE P3DF FILE MUST BE CHECKED
[807]	2292	for item in $input_list
	2293	do
[892]	2294	if [[ "$item" == "restart" ]]
[807]	2295	then
	2296	check_restart=1
	2297	else
	2298	check_restart=0
	2299	fi
	2300	done
	2301
[1101]	2302	# ERROR IF NO PARAMETER FILE WAS FOUND, OTHERWISE PROCEED
	2303	if [[ (! -f $filename_input) && ( "$filename_input" != "" ) ]]
[807]	2304	then
[920]	2305	printf "\n\n +++ ERROR: parameter file ($filename_input) not found."
[807]	2306	locat=check_namelist; exit
	2307	fi
	2308
[1101]	2309	# CHECK IF THE RESTART PARAMETER FILE EXISTS (IF NECESSARY)
[807]	2310	if [[ $check_restart == 1 ]]
	2311	then
[892]	2312
[920]	2313	filenamef="${filename_input}f"
[892]	2314	if [[ ! -f $filenamef ]]
[807]	2315	then
[892]	2316	printf "\n\n +++ WARNING: restart parameter file ($filenamef) is missing."
[807]	2317	check_restart=0
	2318	answer=dummy
	2319	printf "\n\n"
	2320
[818]	2321	if [[ $silent == false ]]
[807]	2322	then
[818]	2323	while [[ "$answer" != c && "$answer" != C && "$answer" != a && "$answer" != A ]]
	2324	do
	2325	printf " >>> continue anyway (c(ontinue)/a(bort)) ? "
	2326	read answer
	2327	done
	2328	if [[ $answer = a \|\| $answer = A ]]
	2329	then
	2330	printf "\n +++ Aborting...."
	2331	locat=normal; exit
	2332	fi
[807]	2333	fi
	2334	else
	2335	check_restart=1
	2336	fi
	2337	fi
	2338
[1101]	2339	# CREATE TEMPORARY SOURCES_FOR_CHECK PATH
[807]	2340	mkdir $check_sources
	2341	cd $check_sources
	2342
[892]	2343
[1101]	2344	# CHECK FOR USER CODE, OTHERWISE USE THE PRECOMPILED CHECK_NAMELIST_FILES.X
[892]	2345	if [[ -d $add_source_path ]]
[807]	2346	then
	2347	printf "\n\n *** copying files from $check_depository"
	2348	cp $check_depository/check_namelist_files.tar ./
	2349
	2350	printf "\n\n *** untar of makefile and source files in $check_sources"
	2351	tar -xf check_namelist_files.tar > /dev/null 2>&1
	2352
	2353	printf "\n\n *** adding user code."
[892]	2354	cp $add_source_path/* ./
[807]	2355	touch check_namelist_files.f90
	2356
[1101]	2357	# GET COMPILER OPTIONS AND PERFORM MAKE
[807]	2358	printf "\n\n *** compiling code if necessary...\n"
[1045]	2359
[1101]	2360	# workaround for batch jobs on local machine (lcxe6)
[1045]	2361	if [[ $do_batch == true && $do_remote == false ]]
	2362	then
	2363	eval $init_cmds
	2364	fi
	2365
[1101]	2366	# GET CHECK OPTIONS
[1083]	2367	line=""
	2368	found=false
	2369
	2370	grep "$localhost" ${base_directory}/${config_file} \| grep "%cpp_options" > $tmp_check
	2371
	2372	while read line1
	2373	do
	2374
	2375	if [[ $(echo $line1 \| cut -d" " -s -f3-) = "$localhost" ]]
	2376	then
	2377	line="$line1"
	2378	fi
	2379
	2380	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	2381	then
[1289]	2382	# REMOVE COLONS FROM OPTION-STRING, REMOVE ALL -D OPTIONS
[1101]	2383	line="$line "
[1083]	2384	copts_check=`echo $line \| cut -d" " -s -f2 \| sed 's/::/%DUM%/g' \| sed 's/:/ /g' \| sed 's/%DUM%/:/g' \| sed 's/-D[^ ]* //g' \| sed 's/ -D.*//g'`
	2385	found=true
	2386	fi
	2387
	2388	done < $tmp_check
	2389	copts_check="$copts_check -D__check -D__parallel"
	2390
[807]	2391	make -f Makefile_check F90=$compiler_name_ser COPT="$copts_check"
	2392
[1101]	2393	# GET MAKE OUTPUT
[807]	2394	if [[ $? != 0 ]]
	2395	then
[815]	2396	printf "\n +++ error during make."
	2397	answer=dummy
	2398	printf "\n\n"
[818]	2399	if [[ $silent == false ]]
[815]	2400	then
[818]	2401	while [[ "$answer" != c && "$answer" != C && "$answer" != a && "$answer" != A ]]
	2402	do
	2403	printf " >>> continue anyway (c(ontinue)/a(bort)) ? "
	2404	read answer
	2405	done
	2406	if [[ $answer = a \|\| $answer = A ]]
	2407	then
	2408	printf "\n +++ Aborting..."
	2409	rm -rf $check_sources
	2410	locat=normal; exit
	2411	else
	2412	skip_check=true
	2413	fi
[815]	2414	else
	2415	skip_check=true
	2416	fi
[807]	2417	fi
	2418	else
	2419	cp $PALM_BIN/check_namelist_files.x ./
	2420	fi
	2421
[920]	2422	cp $filename_input ./PARIN
[807]	2423	if [[ $check_restart == 1 ]]
	2424	then
[892]	2425	cp $filenamef ./PARINF
[807]	2426	fi
	2427
[892]	2428	if [[ -f ${pathname}/${fname}${topo_suffix} && $skip_check == false ]]
[818]	2429	then
	2430	printf "\n *** adding topography data"
[892]	2431	cp ${pathname}/${fname}${topo_suffix} ./TOPOGRAPHY_DATA
[818]	2432
[1101]	2433	# IN CASE OF TOPOGRAPHY AND HIGH GRID POINT NUMBERS, THE STACK SIZE
	2434	# MUST BE INCREASED. THIS IS DUE TO THE ARRAY nzb_local AND topo_height,
	2435	# WHICH REQUIRE SUFFICIENT MEMORY
[818]	2436	ulimit -s unlimited
	2437	fi
	2438
[1241]	2439	if [[ -f ${pathname}/${fname}${nudge_suffix} && $skip_check == false ]]
	2440	then
	2441	printf "\n *** adding nudging data"
	2442	cp ${pathname}/${fname}${nudge_suffix} ./NUDGING_DATA
	2443	fi
	2444
	2445	if [[ -f ${pathname}/${fname}${lsf_suffix} && $skip_check == false ]]
	2446	then
	2447	printf "\n *** adding large scale forcing data"
	2448	cp ${pathname}/${fname}${lsf_suffix} ./LSF_DATA
	2449	fi
	2450
[1101]	2451	# CREATE ENVPAR FILE, WHICH IS NEEDED BY CHECK_NAMELIST_FILES.X
[807]	2452	cat > ENVPAR << %%END%%
[823]	2453	&envpar run_identifier = '$fname', host = '$host',
[807]	2454	write_binary = '$write_binary', tasks_per_node = $tasks_per_node,
	2455	maximum_parallel_io_streams = $maximum_parallel_io_streams,
	2456	maximum_cpu_time_allowed = ${cpumax}.,
	2457	revision = '$global_revision',
	2458	local_dvrserver_running = $local_dvrserver_running /
	2459
	2460	%%END%%
	2461
[1101]	2462	# SAFETY CHECK: ONLY PROCEED IF THE PARAMETER CHECK PROGRAM WAS PROPERLY COMPILED
	2463	if [[ ! -f check_namelist_files.x && $skip_check == false ]]
	2464	then
[807]	2465	printf "\n +++ WARNING: check_namelist_files.x not found."
	2466	answer=dummy
	2467	printf "\n\n"
[818]	2468
	2469	if [[ $silent == false ]]
[807]	2470	then
[818]	2471	while [[ "$answer" != c && "$answer" != C && "$answer" != a && "$answer" != A ]]
	2472	do
	2473	printf " >>> continue anyway (c(ontinue)/a(bort)) ? "
	2474	read answer
	2475	done
	2476	if [[ $answer = a \|\| $answer = A ]]
	2477	then
	2478	printf "\n +++ Aborting..."
	2479	rm -rf $check_sources
	2480	locat=normal; exit
	2481	else
[1101]	2482	printf "\n *** skipping parameter file check."
[818]	2483	fi
	2484	fi
	2485
[815]	2486	elif [[ $skip_check == false ]]
	2487	then
[1101]	2488	# STARTING THE PARAMETER FILE CHECK
[807]	2489	printf "\n\n *** starting parameter file check..."
	2490
[1101]	2491	# CHECKING THE P3D FILE
[920]	2492	printf "\n\n (1) checking $filename_input"
[931]	2493	echo "$numprocs 0 0" > VARIN
[807]	2494	errors=`./check_namelist_files.x < VARIN 2>&1`
	2495
	2496	check_error=false
	2497	if [[ "$errors" == "" ]]
	2498	then
	2499	printf " --> o.k."
	2500	else
	2501	printf " --> failed."
	2502	check_error=true
	2503	printf "\n\n $errors"
	2504	fi
	2505
[1101]	2506	# CHECKING THE PD3F FILE IF NECESSARY
[807]	2507	if [[ $check_restart == 1 && $check_error == false ]]
	2508	then
[892]	2509	printf "\n\n (2) checking $filenamef"
[807]	2510
[1101]	2511	# FIRST CHECK IF INITIALIZING_ACTIONS="READ_RESTART_DATA" IS SET
	2512	# IN &INIPAR LIST
[807]	2513	found=false
[1101]	2514	cat PARINF \| while read line
[807]	2515	do
	2516	line=$(echo $line\|sed 's/ //g')
	2517	if [[ $line == "&inipar" ]]
	2518	then
	2519	start_search=true
	2520	fi
	2521
	2522	if [[ $start_search == true ]]
	2523	then
	2524	if [[ $line == "initializing_actions='read_restart_data'" ]]
	2525	then
	2526	found=true
	2527	break
	2528	fi
	2529	fi
	2530
	2531	if [[ $line == "/" ]]
	2532	then
	2533	start_search=false
	2534	fi
	2535
	2536	done
	2537
	2538	if [[ $found = false ]]
	2539	then
	2540	printf "\n\n +++ ERROR: initializing_actions = 'read_restart_data' not found"
	2541	printf "\n in &inipar list in $fname$p3df_suffix."
	2542	rm -rf $check_sources
	2543	locat=check_namelist; exit
	2544	fi
	2545
[1101]	2546	# READ max_user_pr FROM FILES
[931]	2547	if [[ -f parin_for_check ]]
	2548	then
	2549	read max_pr_user < parin_for_check
	2550	else
	2551	max_user_pr=0
	2552	fi
	2553
	2554	echo "$numprocs 1 $max_pr_user" > VARIN
[807]	2555	errors=`./check_namelist_files.x < VARIN 2>&1`
	2556
	2557	if [[ "$errors" == "" ]]
	2558	then
	2559	printf " --> o.k."
	2560	else
	2561	printf " --> failed."
	2562	check_error=true
	2563	printf "\n\n $errors"
	2564	fi
	2565	fi
	2566
[1101]	2567	# REPORT ERRORS AND CONTINUE/EXIT
[807]	2568	if [[ $check_error == true ]]
	2569	then
	2570	printf "\n +++ errors found in the parameter file!\n"
	2571	answer=dummy
	2572	printf "\n\n"
	2573
	2574	while [[ "$answer" != c && "$answer" != C && "$answer" != a && "$answer" != A ]]
	2575	do
[1101]	2576	printf " >>> continue anyway (c(ontinue)/a(bort)) ? "
	2577	read answer
[807]	2578	done
	2579
	2580	if [[ $answer = a \|\| $answer = A ]]
	2581	then
	2582	printf "\n +++ Aborting..."
	2583	rm -rf $check_sources
	2584	locat=normal; exit
	2585	fi
	2586	else
	2587	printf "\n\n *** parameter file(s) seem(s) to be o.k.\n"
	2588	fi
	2589	rm -rf $check_sources
	2590	fi
	2591	else
[1103]	2592	printf "\n\n +++ skipping parameter file check due to following reason: $reason \n"
[807]	2593	fi
	2594
[818]	2595	# DELETE TEMPORARY DIRECTORY AND FINISH NAMELIST FILE CHECK
	2596	rm -rf $check_sources
[807]	2597	cd $working_directory
	2598
[892]	2599
[1199]	2600	# DETERMINE PATH FOR MAKE DEPOSITORY
	2601	if [[ $do_batch = false \|\| $create_executable_for_batch = true ]]
	2602	then
	2603
	2604	line=""
	2605	grep "%depository_path" $config_file > tmp_mrun
	2606	while read line
	2607	do
	2608	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	2609	then
	2610	if [[ "$(echo $line \| cut -d" " -s -f3)" = "" ]]
	2611	then
	2612	global_depository_path=`echo $line \| cut -d" " -s -f2`
	2613	fi
	2614	fi
	2615	done < tmp_mrun
	2616
	2617	line=""
	2618	grep " $localhost" $config_file \| grep "%depository_path" > tmp_mrun
	2619	while read line
	2620	do
	2621	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	2622	then
	2623	if [[ "$(echo $line \| cut -d" " -s -f4)" = "$cond1" && "$(echo $line \| cut -d" " -s -f5)" = "$cond2" ]]
	2624	then
	2625	local_depository_path=`echo $line \| cut -d" " -s -f2`
	2626	fi
	2627	fi
	2628	done < tmp_mrun
	2629
	2630	if [[ "$local_depository_path" = "" ]]
	2631	then
	2632	if [[ "$global_depository_path" != "" ]]
	2633	then
	2634	local_depository_path=$global_depository_path
	2635	else
	2636	printf "\n\n +++ no depository path found in configuration file"
	2637	printf "\n for local host \"$localhost\" "
	2638	printf "\n please set \"\%depository_path\" in configuration file\n"
	2639	locat=config_file; exit
	2640	fi
	2641	fi
	2642	eval local_depository_path=$local_depository_path
	2643	[[ "$cond1" != "" ]] && local_depository_path=${local_depository_path}_$cond1
	2644	[[ "$cond2" != "" ]] && local_depository_path=${local_depository_path}_$cond2
	2645
	2646
	2647	basename=`echo $mainprog \| cut -f1 -d"."`
	2648	eval make_depository=${local_depository_path}/${basename}_current_version.tar
	2649	if [[ ! -f $make_depository ]]
	2650	then
	2651	printf "\n"
	2652	printf "\n *** WARNING: make depository \"$make_depository\" not found"
	2653	printf "\n \"make\" will fail, if the Makefile or other source files are missing\n"
	2654	fi
	2655
	2656	fi
	2657
	2658
[1289]	2659	# NOW PERFORM THOSE ACTIONS REQUIRED TO EXECUTE THE PROGRAM (PALM) ON THIS MACHINE
	2660	# (COMPILING/LINKING, EXECUTING, COPYING I/O FILES)
[1]	2661	if [[ $do_batch = false ]]
	2662	then
	2663
	2664
[1289]	2665	# CREATE THE TEMPORARY WORKING DIRECTORY
[1]	2666	mkdir -p $TEMPDIR
	2667	chmod go+rx $TEMPDIR
	2668	tmpcreate=true
	2669
	2670
[1289]	2671	# COPY EITHER THE COMPLETE SOURCE CODE FILES TO BE COMPILED OR THE EXECUTABLE
	2672	# INTO THE TEMPORARY WORKING DIRECTORY
[1]	2673	if [[ $do_compile = true ]]
	2674	then
	2675
	2676	# ON NEC, COMPILATION IS DONE ON HOST CROSS VIA CROSS COMPILING
	2677	# CREATE A TEMPORARY DIRECTORY ON THAT MACHINE (HOME MOUNTED VIA NFS)
	2678	if [[ $localhost = nech ]]
	2679	then
	2680	TEMPDIR_COMPILE=$HOME/work/${usern}.$kennung
	2681	if mkdir -p $TEMPDIR_COMPILE
	2682	then
	2683	printf "\n *** \"$TEMPDIR_COMPILE\" "
	2684	printf "\n is generated as temporary directory for cross compiling\n"
	2685	else
	2686	printf "\n +++ creating directory \"$TEMPDIR_COMPILE\" "
	2687	printf "\n needed for cross compilation failed"
	2688	locat=compile
	2689	exit
	2690	fi
	2691	else
	2692	TEMPDIR_COMPILE=$TEMPDIR
	2693	fi
	2694
[1199]	2695	cp $make_depository $TEMPDIR_COMPILE
	2696	cd $TEMPDIR_COMPILE
	2697	tar -xf $make_depository > /dev/null 2>&1
	2698	cd - > /dev/null
[1]	2699
[1255]	2700	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
	2701	# FILES ON CRAY XC30 SYSTEMS (HLRN III), rsync IS USED INSTEAD
[1281]	2702	if [[ $(echo $host \| cut -c1-6) = lccray ]]
	2703	then
	2704	rsync -av -t SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
	2705	else
	2706	cp SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
	2707	fi
[82]	2708
[1]	2709	else
[475]	2710
[1]	2711	cp $executable ${TEMPDIR}/a.out
[475]	2712
[1]	2713	fi
	2714
	2715
[1289]	2716	# CHANGE TO THE TEMPORARY WORKING DIRECTORY
[475]	2717	cd $TEMPDIR
[1]	2718	printf "\n *** changed to temporary directory: $TEMPDIR"
	2719
	2720
[1289]	2721	# THE FOLLOWING IS REQUIRED FPR AVS-OUTPUT WITH PALM ??? REMOVE ???
	2722	# WRITE INFORMATIONS ABOUT THE OUTPUT-FILE CONNECTIONS TO A TEMPORARY FILE
	2723	# THIS FILE CAN LATER BE READ FROM USER-DEFINED CODE TO DETERMINE THE
	2724	# RELATION BETWEEN THE LOCAL TEMPORARY AND PERMANENT FILE NAMES
[1]	2725	(( i = 0 ))
	2726	while (( i < iout ))
	2727	do
	2728	(( i = i + 1 ))
	2729	if [[ "${actionout[$i]}" = tr \|\| "${actionout[$i]}" = tra \|\| "${actionout[$i]}" = trpe ]]
	2730	then
	2731	printf "${localout[$i]} ${actionout[$i]}\n${pathout[$i]}\n${localhost}_${fname}${endout[$i]}\n" >> OUTPUT_FILE_CONNECTIONS
	2732	else
	2733	printf "${localout[$i]} ${actionout[$i]}\n${pathout[$i]}\n${frelout[$i]}\n" >> OUTPUT_FILE_CONNECTIONS
	2734	fi
	2735	done
	2736
	2737
[1289]	2738	# IF REQUIRED, START WITH COMPILING
[1]	2739	if [[ $do_compile = true ]]
	2740	then
	2741
	2742
[1199]	2743	if [[ -f a.out ]]
[475]	2744	then
[82]	2745
[1199]	2746	# EXECUTABLE WAS CREATED DURING INTERACTIVE CALL OF MRUN
	2747	printf "\n\n\n *** executable a.out found"
	2748	printf "\n no compilation required \n"
	2749
[1]	2750	else
[807]	2751
[1199]	2752	# COMPILING WITH MAKE (ON NEC COMPILER IS CALLED ON HOST CROSS)
[1289]	2753	printf "\n\n\n *** compilation starts \n$dashes\n"
[1199]	2754	printf " *** compilation with make using following options:\n"
	2755	printf " make depository: $make_depository"
	2756	if [[ "$mopts" != "" ]]
	2757	then
	2758	printf " make options: $mopts\n"
	2759	fi
	2760	printf " compilername: $compiler_name\n"
	2761	printf " compiler options: $fopts\n"
	2762	printf " preprocessor directives: $cpp_options \n"
	2763	printf " linker options: $lopts \n"
	2764	if [[ "$modules" != "" ]]
	2765	then
	2766	printf " modules to be load: $modules \n"
	2767	fi
	2768	printf " source code files: $source_list \n"
[1]	2769
[1199]	2770	if [[ $localhost = nech ]]
	2771	then
	2772	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\" "
	2773	cp $TEMPDIR_COMPILE/a.out .
	2774	[[ $? != 0 ]] && compile_error=true
	2775	rm -rf $TEMPDIR_COMPILE
	2776	elif [[ $localhost = ibmh ]]
	2777	then
	2778	printf " compiler is called via ssh on \"plogin1\" \n"
	2779	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\" "
	2780	[[ ! -f a.out ]] && compile_error=true
[1289]	2781	continue # STATUS=1, IF a.out EXISTS
[1199]	2782	elif [[ $localhost = lcflow ]]
	2783	then
	2784	printf " compiler is called via ssh on \"flow\" \n"
[1201]	2785	/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\" "
[1272]	2786	check_for_file=`/usr/bin/ssh $SSH_PORTOPT flow02.hpc.uni-oldenburg.de -l $usern "ls $TEMPDIR/a.out 2> /dev/null"`
	2787	[[ "$check_for_file" = "" ]] && compile_error=true
[1289]	2788	continue # STATUS=1, IF a.out EXISTS
[1274]	2789	elif [[ $localhost = lccrayb \|\| $localhost = lccrayf \|\| $localhost = lccrayh ]]
[1199]	2790	then
	2791	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
	2792	else
	2793	[[ "$init_cmds" != "" ]] && eval $init_cmds
	2794	[[ "$module_calls" != "" ]] && eval $module_calls
	2795	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
	2796	fi
[181]	2797
[1199]	2798	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
	2799	then
	2800	printf "\n +++ error occured while compiling or linking"
	2801	locat=compile
	2802
[181]	2803	exit
[1199]	2804	else
[1289]	2805	printf "$dashes\n *** compilation finished \n"
[1199]	2806	fi
	2807
[1]	2808	fi
[1199]	2809
[1]	2810	fi
	2811
	2812
[1289]	2813	# PROVIDE THE INPUT FILES
	2814	# LOOP OVER ALL ACTIVATED FILES (LISTED IN THE CONFIGURATION FILE)
[1]	2815	(( i = 0 ))
	2816	while (( i < iin ))
	2817	do
	2818	(( i = i + 1 ))
	2819	if (( i == 1 ))
	2820	then
[1289]	2821	printf "\n\n *** providing INPUT-files:\n$dashes"
[1]	2822	fi
	2823
	2824
[1289]	2825	# SKIP OPTIONAL FILES, IF THEY DO NOT EXIST
[1]	2826	if [[ "${transin[$i]}" = unavailable ]]
	2827	then
	2828	if [[ "${extin[$i]}" = "" \|\| "${extin[$i]}" = " " ]]
	2829	then
	2830	printf "\n +++ WARNING: input file \"${pathin[$i]}/${afname}${endin[$i]}\" "
	2831	printf "\n is not available!"
	2832	else
	2833	printf "\n +++ WARNING: input file \"${pathin[$i]}/${afname}${endin[$i]}.${extin[$i]}\" "
	2834	printf "\n is not available!"
	2835	fi
	2836	continue
	2837	fi
	2838
[1289]	2839	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
[1]	2840	files_for_pes=false; datentyp=file
	2841	if [[ "${actionin[$i]}" = pe && -n $numprocs ]]
	2842	then
	2843	files_for_pes=true; datentyp=directory
	2844	actionin[$i]=""
	2845	elif [[ "${actionin[$i]}" = pe && ! -n $numprocs ]]
	2846	then
	2847	actionin[$i]=""
	2848	elif [[ "${actionin[$i]}" = arpe && -n $numprocs ]]
	2849	then
	2850	files_for_pes=true; datentyp=directory
	2851	actionin[$i]="ar"
	2852	elif [[ "${actionin[$i]}" = arpe && ! -n $numprocs ]]
	2853	then
	2854	actionin[$i]="ar"
	2855	elif [[ "${actionin[$i]}" = flpe && -n $numprocs ]]
	2856	then
	2857	files_for_pes=true; datentyp=directory
	2858	actionin[$i]="fl"
	2859	elif [[ "${actionin[$i]}" = flpe && ! -n $numprocs ]]
	2860	then
	2861	actionin[$i]="fl"
	2862	fi
	2863
	2864	if [[ $files_for_pes = true ]]
	2865	then
	2866	printf "\n >>> INPUT: ${absnamein[$i]}/.... to ${localin[$i]}"
	2867	else
	2868	printf "\n >>> INPUT: ${absnamein[$i]} to ${localin[$i]}"
	2869	fi
	2870
[1289]	2871	# INPUT-FILE FOR A RESTART RUN.
	2872	# CHECK, IF THIS FILE STILL EXISTS ON THE TEMPORARY DATA DIRECTORY.
	2873	# IF NOT, TRY TO GET IT FROM THE ARCHIVE SYSTEM
[1]	2874	if [[ "${actionin[$i]}" = fl ]]
	2875	then
	2876	printf "\n $datentyp will be fetched from temporary directory \"${tmp_data_catalog}\" !"
	2877	if [[ $files_for_pes = false ]]
	2878	then
	2879	if [[ -f "$tmp_data_catalog/${frelin[$i]}" ]]
	2880	then
	2881	ln $tmp_data_catalog/${frelin[$i]} ${localin[$i]}
	2882	got_tmp[$i]=true
	2883	elif [[ -f "$WORK/${frelin[$i]}" && $ignore_archive_error = true ]]
	2884	then
	2885	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" !"
	2886	printf "\n *** trying to use backup copy in \"$WORK\" "
	2887	cp $WORK/${frelin[$i]} ${localin[$i]}
	2888	else
	2889	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" "
	2890	printf "\n or \"$tmp_data_catalog\" does not exist!"
	2891	printf "\n *** trying to get copy from archive"
	2892	actionin[$i]=ar
	2893	fi
	2894	else
	2895	if [[ -d "$tmp_data_catalog/${frelin[$i]}" ]]
	2896	then
	2897	mkdir ${localin[$i]}
[149]	2898	cd $tmp_data_catalog/${frelin[$i]}
	2899	for file in $(ls *)
	2900	do
	2901	ln $file $TEMPDIR/${localin[$i]}
	2902	done
	2903	cd $TEMPDIR
[1]	2904	got_tmp[$i]=true
	2905	elif [[ -d "$WORK/${frelin[$i]}" && $ignore_archive_error = true ]]
	2906	then
	2907	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" !"
	2908	printf "\n *** trying to use backup copy in \"$WORK\" "
	2909	cp -r $WORK/${frelin[$i]} ${localin[$i]}
	2910	else
	2911	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" "
	2912	printf "\n or \"$tmp_data_catalog\" does not exist!"
	2913	printf "\n *** trying to get copy from archive"
	2914	actionin[$i]=ar
	2915	fi
	2916	fi
	2917	fi
	2918
	2919
[1289]	2920	# FILE IS STORED ON THE ARCHIVE SYSTEM
[1]	2921	if [[ "${actionin[$i]}" = ar ]]
	2922	then
	2923
	2924	if [[ $files_for_pes = false ]]
	2925	then
	2926	printf "\n file will be restored from archive-system ($archive_system)!"
	2927	else
	2928	printf "\n directory will be restored from archive-system ($archive_system)!"
	2929	fi
	2930
	2931	file_restored=false
	2932
	2933	if [[ $archive_system = asterix ]]
	2934	then
	2935	do_stagein=true
	2936	(( stagein_anz = 0 ))
	2937	while [[ $do_stagein = true ]]
	2938	do
	2939	if [[ $files_for_pes = false ]]
	2940	then
	2941	stagein -O ${frelin[$i]} > STAGEIN_OUTPUT
	2942	else
	2943	stagein -t -O ${frelin[$i]} > STAGEIN_OUTPUT
	2944	fi
	2945	cat STAGEIN_OUTPUT
	2946	if [[ $(grep -c "st.msg:i24" STAGEIN_OUTPUT) != 0 ]]
	2947	then
	2948	file_restored=true
	2949	do_stagein=false
	2950	else
	2951	(( stagein_anz = stagein_anz + 1 ))
	2952	if (( stagein_anz == 10 ))
	2953	then
	2954	printf "\n +++ stagein stoped after 10 tries"
	2955	locat=stage
	2956	exit
	2957	fi
	2958	printf "\n +++ restoring from archive failed, trying again:"
	2959	sleep 900
	2960	fi
	2961	done
	2962	elif [[ $archive_system = DMF ]]
	2963	then
	2964	if [[ $files_for_pes = false ]]
	2965	then
	2966	printf "\n +++ restoring of single files impossible with $archive_system !\n"
	2967	locat=DMF
	2968	exit
	2969	else
	2970	find $ARCHIVE/${frelin[$i]} -type m -print \| dmget
	2971	cp -r $ARCHIVE/${frelin[$i]} $PWD
	2972	file_restored=true
	2973	fi
	2974	elif [[ $archive_system = tivoli ]]
	2975	then
	2976	if [[ $files_for_pes = false ]]
	2977	then
[1289]	2978	ssh $SSH_PORTOPT $usern@bicedata.hlrn.de "cp $PERM/${frelin[$i]} $PWD"
[1]	2979	else
	2980	(( inode = 0 ))
	2981	while (( inode < nodes ))
	2982	do
[1289]	2983	ssh $SSH_PORTOPT $usern@bicedata.hlrn.de "cd $PWD; tar xf $PERM/${frelin[$i]}/${frelin[$i]}.node_$inode.tar"
[1]	2984	(( inode = inode + 1 ))
	2985	done
	2986	fi
	2987	file_restored=true
	2988	elif [[ $archive_system = ut ]]
	2989	then
	2990	if [[ $files_for_pes = false ]]
	2991	then
	2992	cp $UT/${frelin[$i]} .
	2993	else
	2994	(( inode = 0 ))
	2995	while (( inode < nodes ))
	2996	do
	2997	tar xf $UT/${frelin[$i]}/${frelin[$i]}.node_$inode.tar
	2998	(( inode = inode + 1 ))
	2999	done
	3000	fi
	3001	file_restored=true
	3002	else
	3003	printf "\n +++ archive_system=\"$archive_system\" restore impossible!"
	3004	locat=rearchive
	3005	exit
	3006	fi
	3007
	3008	if [[ $file_restored = true ]]
	3009	then
	3010
[1289]	3011	# PUT FILE ON THE TEMPORARY DATA DIRECTORY TOO.
	3012	# THIS WILL MAKE FILE ACCESS EASIER FOR LATER RUNS
[1]	3013	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog; chmod g+rx $tmp_data_catalog
	3014	if [[ $files_for_pes = false ]]
	3015	then
	3016	ln -f ${frelin[$i]} $tmp_data_catalog/${frelin[$i]}
	3017	else
	3018	mkdir $tmp_data_catalog/${frelin[$i]}
	3019	ln -f ${frelin[$i]}/* $tmp_data_catalog/${frelin[$i]}
	3020	fi
	3021	got_tmp[$i]=true
	3022
[1289]	3023	# PROVIDE THE FILE UNDER ITS LOCAL NAME
[1]	3024	mv ${frelin[$i]} ${localin[$i]}
	3025
	3026	fi
	3027	fi
	3028
	3029
[1289]	3030	# FILE IS STORED IN THE RESPECTIVE DIRECTORY GIVEN IN THE CONFIGURATION FILE
[1]	3031	if [[ "${actionin[$i]}" = "" \|\| "${actionin[$i]}" = "di" \|\| "${actionin[$i]}" = "npe" ]]
	3032	then
	3033
	3034	if [[ "${actionin[$i]}" = "npe" && -n $numprocs ]]
	3035	then
	3036
[1289]	3037	# FILE COPIES ARE PROVIDED FOR ALL CORES
	3038	# EACH FILE GETS A UNIQUE FILENAME WITH A FOUR DIGIT NUMBER
[1]	3039	printf "\n file will be provided for $numprocs processors"
	3040	mkdir ${localin[$i]}
	3041	ival=$numprocs
	3042	(( ii = 0 ))
	3043	while (( ii <= ival-1 ))
	3044	do
	3045	if (( ii < 10 ))
	3046	then
	3047	cp ${absnamein[$i]} ${localin[$i]}/_000$ii
	3048	elif (( ii < 100 ))
	3049	then
	3050	cp ${absnamein[$i]} ${localin[$i]}/_00$ii
	3051	elif (( ii < 1000 ))
	3052	then
	3053	cp ${absnamein[$i]} ${localin[$i]}/_0$ii
	3054	else
	3055	cp ${absnamein[$i]} ${localin[$i]}/_$ii
	3056	fi
	3057	(( ii = ii + 1 ))
	3058	done
	3059
	3060	else
	3061
	3062	if [[ $files_for_pes = true ]]
	3063	then
	3064
[1289]	3065	# PROVIDE FILES FOR EACH CORE
	3066	# FIRST CREATE THE LOCAL DIRECTORY, THEN COPY FILES
	3067	# FROM THE PERMANENT DIRECTORY BY LINKING THEM TO THE LOCAL ONE
[1]	3068	printf "\n providing $numprocs files for the respective processors"
	3069	mkdir ${localin[$i]}
[183]	3070	if [[ $link_local_input = true ]]
	3071	then
	3072	printf " using ln -f\n"
	3073	cd ${absnamein[$i]}
	3074	for file in $(ls *)
	3075	do
	3076	ln -f $file ${localin[$i]}
	3077	done
	3078	cd $TEMPDIR
	3079	fi
[1289]	3080
	3081	# IF "ln -f" FAILED OR IF "$link_local_input = false" DO A NORMAL "cp -r"
[183]	3082	if [[ ! -f "${localin[$i]}/_0000" ]]
	3083	then
	3084	if [[ $link_local_input = true ]]
	3085	then
	3086	printf " ln failed for .../_0000, using cp...\n"
	3087	fi
	3088	cp -r ${absnamein[$i]}/* ${localin[$i]}
	3089	fi
[1]	3090
	3091	else
[1289]	3092
	3093	# PROVIDE FILE FOR RUNS ON A SINGLE CORE
[183]	3094	if [[ $link_local_input = true ]]
	3095	then
	3096	printf " using ln -f\n"
	3097	ln -f ${absnamein[$i]} ${localin[$i]}
	3098	fi
	3099	# If "ln -f" fails of if "$link_local_input = false" do a normal "cp"
	3100	if [[ ! -f "${localin[$i]}" ]]
	3101	then
	3102	if [[ $link_local_input = true ]]
	3103	then
	3104	printf " ln failed, using cp...\n"
	3105	fi
	3106	cp ${absnamein[$i]} ${localin[$i]}
	3107	fi
[1]	3108	fi
	3109	fi
	3110	fi
	3111
	3112	done
	3113	if (( i != 0 ))
	3114	then
[1289]	3115	printf "\n$dashes\n *** all INPUT-files provided \n"
[1]	3116	fi
	3117
	3118
[1289]	3119	# EXECUTE INPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
[1]	3120	(( i = 0 ))
	3121	while (( i < iic ))
	3122	do
	3123	(( i = i + 1 ))
	3124	if (( i == 1 ))
	3125	then
[1289]	3126	printf "\n\n *** execution of INPUT-commands:\n$dashes"
[1]	3127	fi
	3128	printf "\n >>> ${in_command[$i]}"
	3129	eval ${in_command[$i]}
	3130	if (( i == iic ))
	3131	then
[1289]	3132	printf "\n$dashes\n"
[1]	3133	fi
	3134	done
	3135
	3136
[1289]	3137	# SET THE REMAINING CPU-TIME
[1]	3138	cpurest=${cpumax}.
	3139
	3140
[260]	3141	# START DVR STREAMING SERVER
	3142	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
	3143	then
	3144	if [[ "$dvr_server" != "" ]]
	3145	then
	3146
	3147	printf "\n\n *** preparing the dvr streaming server configuration file"
	3148
[1289]	3149	# CHECK, IF A DVR SERVER IS ALREADY RUNNING
[260]	3150	running_dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config \| grep -v grep) \| cut -d" " -f2`
	3151	if [[ "$running_dvrserver_id" != "" ]]
	3152	then
	3153
[261]	3154	printf "\n\n +++ WARNING: A dvr server with id=$running_dvrserver_id is already running!"
[260]	3155	printf "\n This server is used instead starting a new one!"
[261]	3156	printf "\n If required, script \"process_dvr_output\" has to be run manually."
[260]	3157
	3158	else
	3159
	3160	# COPY CONFIGURATION FILE FOR STREAMING SERVER FROM REPOSITORY TO HERE
	3161	if [[ -f ${PALM_BIN}/.dvrserver.config ]]
	3162	then
	3163	cp ${PALM_BIN}/.dvrserver.config .
	3164
[1289]	3165	# ENTERING THE BASEDIR, UID AND GID INTO THIS FILE
[260]	3166	user_id=`id -u`
	3167	group_id=`id -g`
[1289]	3168
	3169	# "&" IS REQUIRED AS A SEPERATOR, BECAUSE TEMPDIR CONTAINS "/"
[260]	3170	sed "s&<replace by dvr data directory>&${TEMPDIR}&g" .dvrserver.config > .dvrserver.1
	3171	sed "s/<replace by user id>/$user_id/g" .dvrserver.1 > .dvrserver.2
	3172	sed "s/<replace by group id>/$group_id/g" .dvrserver.2 > .dvrserver.3
	3173	mv .dvrserver.3 .dvrserver.config
	3174	rm .dvrserver.1 .dvrserver.2
	3175
[1289]	3176	# START DVR SERVER IN BACKGROUND, GET HIS ID AND PRINT ON TERMINAL
[260]	3177	$dvr_server .dvrserver.config >> DVR_LOGFILE 2>&1 &
	3178	dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config) \| cut -d" " -f2`
	3179	printf "\n *** streaming server with id=$dvrserver_id is started in background"
	3180	local_dvrserver_running=.TRUE.
	3181	else
	3182	printf "\n +++ missing file \".dvrserver.config\" in directory:"
	3183	printf "\n \"$PALM_BIN\" "
	3184	locat=dvr
	3185	exit
	3186	fi
	3187
	3188	fi
	3189
	3190	else
	3191	printf "\n\n --- INFORMATIVE: no dvr streaming server will be started"
	3192	fi
	3193	fi
	3194
	3195
[1289]	3196	# CREATE THE NAMELIST-FILE WITH VALUES OF ENVIRONMENT-VARIABLES REQUIRED BY PALM
	3197	# (FILE ENVPAR WILL BE READ BY PALM)
[260]	3198	cat > ENVPAR << %%END%%
	3199	&envpar run_identifier = '$fname', host = '$localhost',
	3200	write_binary = '$write_binary', tasks_per_node = $tasks_per_node,
[759]	3201	maximum_parallel_io_streams = $maximum_parallel_io_streams,
[260]	3202	maximum_cpu_time_allowed = ${cpumax}.,
	3203	revision = '$global_revision',
[1402]	3204	local_dvrserver_running = $local_dvrserver_running,
	3205	batch_job = $batch_job /
[260]	3206
	3207	%%END%%
	3208
	3209
[1289]	3210	# STARTING THE EXECUTABLE
	3211	printf "\n\n *** execution starts in directory\n \"`pwd`\"\n$dashes\n"
[1]	3212	PATH=$PATH:$TEMPDIR
	3213
[1289]	3214	# MPI DEBUG OPTION (ARGUMENT CHECKING, SLOWS DOWN EXECUTION DUE TO INCREASED LATENCY)
[359]	3215	if [[ "$mpi_debug" = true ]]
	3216	then
	3217	export MPI_CHECK_ARGS=1
	3218	printf "\n +++ MPI_CHECK_ARGS=$MPI_CHECK_ARGS"
	3219	fi
	3220
[693]	3221	if [[ "$totalview" = true ]]
	3222	then
	3223	printf "\n *** totalview debugger will be used"
	3224	tv_opt="-tv"
	3225	else
	3226	tv_opt=""
	3227	fi
	3228
[1]	3229	if [[ "$cond1" = debug \|\| "$cond2" = debug ]]
	3230	then
	3231	if [[ "$ENVIRONMENT" = BATCH ]]
	3232	then
[1289]	3233	continue
[1]	3234	fi
[1096]	3235	if [[ $localhost = ibmh ]]
[1]	3236	then
	3237
	3238	# SETUP THE IBM MPI ENVIRONMENT
	3239	export MP_SHARED_MEMORY=yes
	3240	export AIXTHREADS_SCOPE=S
	3241	export OMP_NUM_THREADS=$threads_per_task
	3242	export AUTHSTATE=files
	3243	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
	3244
	3245	# FOLLOWING OPTIONS ARE MANDATORY FOR TOTALVIEW
	3246	export MP_ADAPTER_USE=shared
	3247	export MP_CPU_USE=multiple
	3248	export MP_TIMEOUT=1200
	3249
	3250	unset MP_TASK_AFFINITY
	3251
	3252	# SO FAR, TOTALVIEW NEEDS HOSTFILE MECHANISM FOR EXECUTION
	3253	#(( ii = 1 ))
	3254	#while (( ii <= $numprocs ))
	3255	#do
	3256	# echo $localhost_realname >> hostfile
	3257	# (( ii = ii + 1 ))
	3258	#done
	3259	#export MP_HOSTFILE=hostfile
	3260
	3261	if [[ "$LOADLBATCH" = yes ]]
	3262	then
	3263	totalview poe a.out $ROPTS
	3264	else
	3265	echo totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1 $ROPTS
	3266	export TVDSVRLAUNCHCMD=ssh
	3267	totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1 $ROPTS
	3268	fi
[622]	3269
[1295]	3270	fi # END DEBUG MODE
	3271
[1]	3272	else
[622]	3273
[1289]	3274	# NORMAL EXECUTION
[1]	3275	if [[ -n $numprocs ]]
	3276	then
[1289]	3277
[1]	3278	# RUNNING THE PROGRAM ON PARALLEL MACHINES
	3279	if [[ $(echo $host \| cut -c1-3) = ibm ]]
	3280	then
[1289]	3281
[1]	3282	# SETUP THE IBM MPI ENVIRONMENT
[693]	3283	if [[ $host != ibmh && $host != ibmkisti ]]
[312]	3284	then
	3285	export MP_SHARED_MEMORY=yes
	3286	export AIXTHREAD_SCOPE=S
	3287	export OMP_NUM_THREADS=$threads_per_task
	3288	export XLSMPOPTS="spins=0:yields=0:stack=20000000"
	3289	export AUTHSTATE=files
	3290	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
	3291	# export MP_PRINTENV=yes
[1]	3292
[1289]	3293	# TUNING-VARIABLES TO IMPROVE COMMUNICATION SPEED
	3294	# DO NOT SHOW SIGNIFICANT EFFECTS (SEP 04, FEDERATION-SWITCH)
[312]	3295	export MP_WAIT_MODE=poll
	3296	[[ $node_usage = not_shared ]] && export MP_SINGLE_THREAD=yes
	3297	fi
[693]	3298
	3299	if [[ $host = ibmkisti ]]
	3300	then
	3301	export LANG=en_US
	3302	export MP_SHARED_MEMORY=yes
[696]	3303	if [[ $threads_per_task = 1 ]]
	3304	then
	3305	export MP_SINGLE_THREAD=yes
	3306	export MEMORY_AFFINITY=MCM
	3307	else
	3308	export OMP_NUM_THREADS=$threads_per_task
	3309	fi
[693]	3310	fi
	3311
[1]	3312	if [[ "$LOADLBATCH" = yes ]]
	3313	then
	3314	printf "\n--- Control: OMP_NUM_THREADS = \"$OMP_NUM_THREADS\" \n"
	3315	if [[ "$cond1" = hpmcount \|\| "$cond2" = hpmcount ]]
	3316	then
[102]	3317	/opt/optibm/HPM_2_4_1/bin/hpmcount a.out $ROPTS
[1]	3318	else
[343]	3319	if [[ $run_coupled_model = false ]]
	3320	then
	3321	if [[ "$ocean_file_appendix" = true ]]
	3322	then
	3323	echo "precursor_ocean" > runfile_atmos
	3324	else
	3325	echo "precursor_atmos" > runfile_atmos
	3326	fi
	3327	else
	3328	(( iia = $numprocs_atmos / $threads_per_task ))
	3329	(( iio = $numprocs_ocean / $threads_per_task ))
	3330	printf "\n coupled run ($iia atmosphere, $iio ocean)"
	3331	printf "\n using $coupled_mode coupling"
	3332	printf "\n\n"
	3333	echo "coupled_run $iia $iio" > runfile_atmos
	3334	fi
	3335	poe ./a.out $ROPTS < runfile_atmos
[1]	3336	fi
	3337	else
[622]	3338	if [[ $localhost = ibmh \|\| $localhost = ibms ]]
[1]	3339	then
[102]	3340	poe a.out -procs $numprocs -nodes 1 -rmpool 0 $ROPTS
[1289]	3341	elif [[ $localhost = ibmkisti \|\| $localhost = ibmku ]]
[1]	3342	then
	3343	if [[ -f $hostfile ]]
	3344	then
	3345	cp $hostfile hostfile
	3346	else
	3347	(( ii = 1 ))
	3348	while (( ii <= $numprocs ))
	3349	do
	3350	echo $localhost_realname >> hostfile
	3351	(( ii = ii + 1 ))
	3352	done
	3353	fi
	3354	export MP_HOSTFILE=hostfile
[331]	3355	if [[ $run_coupled_model = false ]]
	3356	then
	3357	if [[ "$ocean_file_appendix" = true ]]
	3358	then
	3359	echo "precursor_ocean" > runfile_atmos
	3360	else
	3361	echo "precursor_atmos" > runfile_atmos
	3362	fi
	3363	else
	3364	(( iia = $numprocs_atmos / $threads_per_task ))
	3365	(( iio = $numprocs_ocean / $threads_per_task ))
	3366	printf "\n coupled run ($iia atmosphere, $iio ocean)"
	3367	printf "\n using $coupled_mode coupling"
	3368	printf "\n\n"
	3369	echo "coupled_run $iia $iio" > runfile_atmos
	3370	fi
	3371
[1289]	3372	poe ./a.out -procs $numprocs $ROPTS < runfile_atmos
	3373
[1]	3374	else
	3375	if [[ "$host_file" = "" ]]
	3376	then
	3377	printf "\n +++ no hostfile given in configuration file"
	3378	locat=config_file
	3379	exit
	3380	else
	3381	eval host_file=$host_file
	3382	fi
	3383	export MP_HOSTFILE=$host_file
[102]	3384	poe a.out -procs $numprocs -tasks_per_node $numprocs $ROPTS
[1]	3385	fi
	3386	fi
[1289]	3387	elif [[ $host = nech ]]
[1]	3388	then
	3389	(( ii = nodes ))
	3390	if [[ $ii = 1 ]]
	3391	then
	3392	export F_ERRCNT=0 # acceptable number of errors before program is stopped
	3393	export MPIPROGINF=YES
[61]	3394	# export F_TRACE=YES\|FMT1\|FMT2 # output of ftrace informations to job protocol
[1]	3395	echo "*** execution on single node with mpirun"
[102]	3396	mpirun -np $numprocs ./a.out $ROPTS
[1]	3397	else
	3398	(( i = 0 ))
	3399	while (( i < ii ))
	3400	do
	3401	echo "-h $i -p $tasks_per_node -e ./mpi_exec_shell" >> multinode_config
	3402	(( i = i + 1 ))
	3403	done
	3404
	3405	echo "#!/bin/sh" > mpi_exec_shell
	3406	echo " " >> mpi_exec_shell
	3407	echo "set -u" >> mpi_exec_shell
	3408	echo "F_ERRCNT=0" >> mpi_exec_shell
	3409	echo "MPIPROGINV=YES" >> mpi_exec_shell
	3410	echo "OMP_NUM_THREADS=$threads_per_task" >> mpi_exec_shell
	3411	echo "cpurest=$cpurest" >> mpi_exec_shell
	3412	echo "fname=$fname" >> mpi_exec_shell
	3413	echo "localhost=$localhost" >> mpi_exec_shell
[1468]	3414	echo "return_address=$return_address" >> mpi_exec_shell
[1]	3415	echo "return_username=$return_username" >> mpi_exec_shell
	3416	echo "tasks_per_node=$tasks_per_node" >> mpi_exec_shell
	3417	echo "write_binary=$write_binary" >> mpi_exec_shell
	3418	echo "use_seperate_pe_for_dvrp_output=$use_seperate_pe_for_dvrp_output" >> mpi_exec_shell
	3419	echo " " >> mpi_exec_shell
	3420	echo "export F_ERRCNT" >> mpi_exec_shell
	3421	echo "export MPIPROGINV" >> mpi_exec_shell
	3422	echo "export OMP_NUM_THREADS" >> mpi_exec_shell
	3423	echo "export cpurest" >> mpi_exec_shell
	3424	echo "export fname" >> mpi_exec_shell
	3425	echo "export localhost" >> mpi_exec_shell
[1468]	3426	echo "export return_address" >> mpi_exec_shell
[1]	3427	echo "export return_username" >> mpi_exec_shell
	3428	echo "export tasks_per_node" >> mpi_exec_shell
	3429	echo "export write_binary" >> mpi_exec_shell
	3430	echo "export use_seperate_pe_for_dvrp_output" >> mpi_exec_shell
	3431	echo " " >> mpi_exec_shell
[102]	3432	echo "exec ./a.out" >> mpi_exec_shell
[1]	3433
	3434	chmod u+x mpi_exec_shell
	3435	export MPIPROGINF=YES
	3436	mpirun -f multinode_config &
	3437	wait
	3438
	3439	fi
[440]	3440	elif [[ $(echo $host \| cut -c1-2) = lc && $host != lckyoto && $host != lctit ]]
[1]	3441	then
	3442
	3443	# COPY HOSTFILE FROM SOURCE DIRECTORY OR CREATE IT, IF IT
	3444	# DOES NOT EXIST
[1289]	3445	if [[ $host != lccrayb &&$host != lccrayf && $host != lccrayh && $host != lckyuh && $host != lckyut ]]
[1]	3446	then
[179]	3447	if [[ -f $hostfile ]]
	3448	then
	3449	cp $hostfile hostfile
[746]	3450	(( ii = $numprocs / $threads_per_task ))
[179]	3451	else
	3452	(( ii = 1 ))
	3453	while (( ii <= $numprocs / $threads_per_task ))
	3454	do
	3455	echo $localhost_realname >> hostfile
	3456	(( ii = ii + 1 ))
	3457	done
	3458	fi
	3459	eval zeile=\"`head -n $ii hostfile`\"
	3460	printf "\n *** running on: $zeile"
[1]	3461	fi
[179]	3462
[1]	3463	(( ii = $numprocs / $threads_per_task ))
	3464	export OMP_NUM_THREADS=$threads_per_task
[1289]	3465
[1]	3466	if [[ $threads_per_task != 1 ]]
	3467	then
[1289]	3468	# INCREASE STACK SIZE TO UNLIMITED, BECAUSE OTHERWISE LARGE RUNS
	3469	# MAY ABORT
[1304]	3470	ulimit -s unlimited
[405]	3471	printf "\n threads per task: $threads_per_task stacksize: unlimited"
[1]	3472	fi
[102]	3473	if [[ $run_coupled_model = false ]]
[1]	3474	then
[291]	3475	if [[ "$ocean_file_appendix" = true ]]
	3476	then
	3477	echo "precursor_ocean" > runfile_atmos
	3478	else
	3479	echo "precursor_atmos" > runfile_atmos
	3480	fi
[102]	3481	printf "\n\n"
[388]	3482
[1289]	3483	if [[ $host = lccrayb \|\| $host = lccrayh ]]
[1224]	3484	then
	3485	echo "--- aprun -n $ii -N $tasks_per_node a.out $ROPTS < runfile_atmos"
	3486	aprun -n $ii -N $tasks_per_node a.out $ROPTS < runfile_atmos
	3487	# aprun -n $ii -ss -r2 -j1 a.out $ROPTS < runfile_atmos
[1197]	3488	elif [[ $host = lccrayf ]]
	3489	then
[1420]	3490	aprun -j1 -n $ii -N $tasks_per_node -m ${memory}M a.out $ROPTS < runfile_atmos
[892]	3491	elif [[ $host = lcxe6 \|\| $host = lcxt5m ]]
[179]	3492	then
[544]	3493	aprun -n $ii -N $tasks_per_node a.out $ROPTS < runfile_atmos
[755]	3494	elif [[ $host = lcflow ]]
	3495	then
[1201]	3496	mpirun -bootstrap sge -np $ii -env I_MPI_FABRICS shm:ofa a.out < runfile_atmos $ROPTS
[1021]	3497	elif [[ $host = lcsb ]]
	3498	then
	3499	mpirun_rsh -hostfile $PBS_NODEFILE -np `cat $PBS_NODEFILE \| wc -l` a.out < runfile_atmos $ROPTS
[1040]	3500	elif [[ $host = lckiaps ]]
	3501	then
	3502	mpirun -np $ii -f $PBS_NODEFILE a.out < runfile_atmos $ROPTS
[1090]	3503	elif [[ $host = lckyu* ]]
	3504	then
[1106]	3505	mpiexec -n $ii --stdin runfile_atmos ./a.out $ROPTS
[164]	3506	else
[1106]	3507	mpiexec -machinefile hostfile -n $ii a.out < runfile_atmos $ROPTS
[164]	3508	fi
[1]	3509	else
[164]	3510
[1289]	3511	# CURRENTLY THERE IS NO FULL MPI-2 SUPPORT ON ICE AND XT4
[206]	3512	(( iia = $numprocs_atmos / $threads_per_task ))
	3513	(( iio = $numprocs_ocean / $threads_per_task ))
	3514	printf "\n coupled run ($iia atmosphere, $iio ocean)"
	3515	printf "\n using $coupled_mode coupling"
[102]	3516	printf "\n\n"
[164]	3517
[206]	3518	if [[ $coupled_mode = "mpi2" ]]
[164]	3519	then
[206]	3520	echo "atmosphere_to_ocean $iia $iio" > runfile_atmos
	3521	echo "ocean_to_atmosphere $iia $iio" > runfile_ocean
[197]	3522
[1289]	3523	if [[ $host = lccrayf \|\| $host = lcxe6 \|\| $host = lcxt5m ]]
[206]	3524	then
[197]	3525
[206]	3526	aprun -n $iia -N $tasks_per_node a.out < runfile_atmos $ROPTS &
	3527	aprun -n $iio -N $tasks_per_node a.out < runfile_ocean $ROPTS &
	3528
	3529	else
	3530	# WORKAROUND BECAUSE mpiexec WITH -env option IS NOT AVAILABLE ON SOME SYSTEMS
	3531	mpiexec -machinefile hostfile -n $iia a.out $ROPTS < runfile_atmos &
	3532	mpiexec -machinefile hostfile -n $iio a.out $ROPTS < runfile_ocean &
	3533	# mpiexec -machinefile hostfile -n $iia -env coupling_mode atmosphere_to_ocean a.out $ROPTS &
	3534	# mpiexec -machinefile hostfile -n $iio -env coupling_mode ocean_to_atmosphere a.out $ROPTS &
	3535	fi
	3536	wait
	3537
[164]	3538	else
	3539
[206]	3540	echo "coupled_run $iia $iio" > runfile_atmos
	3541
[1289]	3542	if [[ $host = lccrayf \|\| $host = lcxe6 \|\| $host = lcxt5m ]]
[206]	3543	then
	3544
	3545	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos $ROPTS
	3546
[718]	3547	elif [[ $host = lck \|\| $host = lckordi ]]
[367]	3548	then
[1108]	3549
	3550	mpiexec -n $ii ./a.out $ROPTS < runfile_atmos &
	3551
	3552	elif [[ $host = lckyu* ]]
	3553	then
	3554
	3555	mpiexec -n $ii --stdin runfile_atmos ./a.out $ROPTS
	3556
[206]	3557	fi
	3558	wait
[164]	3559	fi
[102]	3560
[206]	3561	fi
[1289]	3562
[440]	3563	elif [[ $host = lckyoto ]]
	3564	then
	3565	set -xv
	3566	export P4_RSHCOMMAND=plesh
	3567	echo " P4_RSHCOMMAND = $P4_RSHCOMMAND"
	3568	if [[ "$ENVIRONMENT" = BATCH ]]
	3569	then
[505]	3570	if [[ "$cond2" = fujitsu ]]
	3571	then
	3572	mpiexec -n $numprocs ./a.out $ROPTS # for fujitsu-compiler
	3573	elif [[ "cond2" = pgi ]]
	3574	then
	3575	mpirun -np $numprocs -machinefile ${QSUB_NODEINF} ./a.out $ROPTS
	3576	else
	3577	mpirun_rsh -np $numprocs -hostfile ${QSUB_NODEINF} MV2_USE_SRQ=0 ./a.out ${ROPTS} \|\| /bin/true
	3578	fi
[440]	3579	else
[505]	3580	if [[ "$cond2" = "" ]]
	3581	then
	3582	mpiruni_rsh -np $numprocs ./a.out $ROPTS # for intel
	3583	else
	3584	mpirun -np $numprocs ./a.out $ROPTS
	3585	fi
[440]	3586	fi
	3587	set +xv
[1289]	3588
[1]	3589	elif [[ $host = lctit ]]
	3590	then
[678]	3591	export OMP_NUM_THREADS=$threads_per_task
	3592	echo "OMP_NUM_THREADS=$OMP_NUM_THREADS"
	3593	if [[ "$threads_per_task" != 1 ]]
	3594	then
	3595	export MV2_ENABLE_AFFINITY=0
	3596	fi
	3597	echo "----- PBS_NODEFILE content:"
	3598	cat $PBS_NODEFILE
	3599	echo "-----"
	3600	(( ii = $numprocs / $threads_per_task ))
	3601	echo "mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out $ROPTS"
	3602	mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out $ROPTS
[1]	3603	else
[102]	3604	mpprun -n $numprocs a.out $ROPTS
[1]	3605	fi
	3606	else
[102]	3607	a.out $ROPTS
[1]	3608	fi
	3609	fi
[1289]	3610
	3611	if [[ $? != 0 ]]
[1]	3612	then
	3613
[1289]	3614	# ABORT IN CASE OF RUNTIME ERRORS
[1]	3615	printf "\n +++ runtime error occured"
	3616	locat=execution
	3617	exit
[1289]	3618
[1]	3619	else
[260]	3620
[1289]	3621	printf "\n$dashes\n *** execution finished \n"
	3622
	3623	# STOP THE DVR STREAMING SERVER AND PROCESS THE DVR OUTPUT IN ORDER
	3624	# TO CREAT DVRS- AND HTML-FILES CONTAINING ALL STREAMS
[260]	3625	if [[ "$dvrserver_id" != "" ]]
	3626	then
	3627	kill $dvrserver_id
	3628	printf "\n *** dvr server with id=$dvrserver_id has been stopped"
[261]	3629
[1289]	3630	# IF THERE IS A DIRECTORY, DATA HAVE BEEN OUTPUT BY THE
	3631	# STREAMING SERVER. OTHERWISE, USER HAS CHOSEN dvrp_output=local
[262]	3632	if [[ -d DATA_DVR ]]
	3633	then
[261]	3634
[1289]	3635	# ADD THE CURRENT DVR CONFIGURATION FILE TO THE DVR OUTPUT
	3636	# DIRECTORY
[262]	3637	cp .dvrserver.config DATA_DVR
	3638
[1289]	3639	# PROCESS THE DVR OUTPUT (OPTION -s FOR GENERATING
	3640	# SEQUENCE MODE DATA TOO)
[262]	3641	process_dvr_output -d DATA_DVR -f $fname -s
	3642
	3643	else
	3644
[1289]	3645	# PROCESS THE LOCAL OUTPUT
[262]	3646	process_dvr_output -l -d DATA_DVR -f $fname
	3647
	3648	fi
	3649
	3650	elif [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
	3651	then
	3652
[1289]	3653	# PROCESS DVR OUTPUT GENERATD IN LOCAL MODE (dvrp_output=local)
[262]	3654	process_dvr_output -l -d DATA_DVR -f $fname
	3655
[260]	3656	fi
[1]	3657	fi
	3658
	3659
	3660
[1289]	3661	# CALL OF combine_plot_fields IN ORDER TO MERGE SINGLE FILES WRITTEN
	3662	# BY EACH CORE INTO ONE FILE
[920]	3663	if [[ ! -f ${PALM_BIN}/combine_plot_fields${block}.x ]]
	3664	then
	3665	printf "\n\n\n +++ WARNING: no combine_plot_fields found for given block \"$cond1 $cond2\""
	3666	printf "\n 2d- and/or 3d-data may be incomplete!"
	3667	printf "\n Run \"mbuild -u -h $localhost\" to generate utilities for this block.\n"
	3668	elif [[ "$combine_plot_fields" == true ]]
	3669	then
[1270]	3670	if [[ $localhost = lccrayh \|\| $localhost = lccrayb ]]
	3671	then
	3672	printf "\n\n\n *** post-processing: now executing \"aprun -n 1 -N 1 combine_plot_fields${block}.x\" ..."
	3673	aprun -n 1 -N 1 combine_plot_fields${block}.x #$ROPTS < runfile_atmos
	3674	else
	3675	printf "\n\n\n *** post-processing: now executing \"combine_plot_fields${block}.x\" ..."
	3676	combine_plot_fields${block}.x
	3677	fi
[920]	3678	else
[1289]	3679
	3680	# TEMPORARY SOLUTION TO SKIP combine_plot_fields. THIS IS REQUIRED IN CASE OF HUGE AMOUNT OF
	3681	# DATA OUTPUT. TO DO: EXTEND THIS BRANCH BY CREATING A BATCH JOB for combine_plot_fields.
	3682	# ??? koennen wir das streichen ???
[920]	3683	printf "\n\n\n *** post-processing: skipping combine_plot_fields (-Z option set) ..."
	3684	fi
[503]	3685
	3686
	3687
[1289]	3688	# EXECUTE OUTPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
[1]	3689	(( i = 0 ))
	3690	while (( i < ioc ))
	3691	do
	3692	(( i = i + 1 ))
	3693	if (( i == 1 ))
	3694	then
[1289]	3695	printf "\n\n *** execution of OUTPUT-commands:\n$dashes"
[1]	3696	fi
	3697	printf "\n >>> ${out_command[$i]}"
	3698	eval ${out_command[$i]}
	3699	if (( i == ioc ))
	3700	then
[1289]	3701	printf "\n$dashes\n"
[1]	3702	fi
	3703	done
	3704
	3705
[1289]	3706	# IN TRACE-MODE PRINT CONTENTS OF THE CURRENT (TEMPORARY) WORKING DIRECTORY
[1]	3707	if [[ $do_trace = true ]]
	3708	then
	3709	printf "\n\n"
	3710	ls -al
	3711	fi
	3712
	3713
	3714
[1289]	3715	# COPY LOCAL OUTPUT-FILES TO THEIR PERMANENT DESTINATIONS
[1]	3716	(( i = 0 ))
	3717	while (( i < iout ))
	3718	do
	3719	(( i = i + 1 ))
	3720	if (( i == 1 ))
	3721	then
[1289]	3722	printf "\n\n *** saving OUTPUT-files:\n$dashes"
[1]	3723	fi
	3724
[1289]	3725	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
[1]	3726	files_for_pes=false; filetyp=file
	3727	if [[ "${actionout[$i]}" = pe && -n $numprocs ]]
	3728	then
	3729	files_for_pes=true; filetyp=directory
	3730	actionout[$i]=""
	3731	elif [[ "${actionout[$i]}" = pe && ! -n $numprocs ]]
	3732	then
	3733	actionout[$i]=""
	3734	elif [[ "${actionout[$i]}" = arpe && -n $numprocs ]]
	3735	then
	3736	files_for_pes=true; filetyp=directory
	3737	actionout[$i]="ar"
	3738	elif [[ "${actionout[$i]}" = arpe && ! -n $numprocs ]]
	3739	then
	3740	actionout[$i]="ar"
	3741	elif [[ "${actionout[$i]}" = flpe && -n $numprocs ]]
	3742	then
	3743	files_for_pes=true; filetyp=directory
	3744	actionout[$i]="fl"
	3745	elif [[ "${actionout[$i]}" = flpe && ! -n $numprocs ]]
	3746	then
	3747	actionout[$i]="fl"
	3748	elif [[ "${actionout[$i]}" = trpe && -n $numprocs ]]
	3749	then
	3750	files_for_pes=true; filetyp=directory
	3751	actionout[$i]="tr"
	3752	elif [[ "${actionout[$i]}" = trpe && ! -n $numprocs ]]
	3753	then
	3754	actionout[$i]="tr"
	3755	fi
	3756
	3757	if [[ ! -f ${localout[$i]} && $files_for_pes = false ]]
	3758	then
	3759	printf "\n +++ temporary OUTPUT-file ${localout[$i]} does not exist\n"
[260]	3760	elif [[ ! -d ${localout[$i]} && $files_for_pes = true ]]
[1]	3761	then
	3762	printf "\n +++ temporary OUTPUT-file ${localout[$i]}/.... does not exist\n"
	3763	else
	3764
	3765
[1289]	3766	# COPY VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
	3767	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
[1]	3768	if [[ "${actionout[$i]}" = tr ]]
	3769	then
	3770	if [[ $localhost != $fromhost ]]
	3771	then
	3772	if [[ $files_for_pes = false ]]
	3773	then
	3774	cps=""
	3775	cst=""
	3776	else
	3777	cps=-c
	3778	cst="/"
	3779	fi
[622]	3780	if [[ $localhost = nech ]]
[1]	3781	then
	3782
[1289]	3783	# TRANSFER IN SEPERATE JOB
	3784	# FIRST COPY FILE TO TEMPORY DATA DIRECTORY
[1]	3785	[[ ! -d $tmp_data_catalog/TRANSFER ]] && mkdir -p $tmp_data_catalog/TRANSFER
	3786	file_to_transfer=${fname}_${localout[$i]}_to_transfer_$kennung
	3787	if [[ $files_for_pes = false ]]
	3788	then
	3789	ln -f ${localout[$i]} $tmp_data_catalog/TRANSFER/$file_to_transfer
	3790	else
	3791	mkdir $tmp_data_catalog/TRANSFER/$file_to_transfer
	3792	ln ${localout[$i]}/* $tmp_data_catalog/TRANSFER/$file_to_transfer
	3793	fi
	3794
	3795	echo "set -x" > transfer_${localout[$i]}
	3796	echo "cd $tmp_data_catalog/TRANSFER" >> transfer_${localout[$i]}
[82]	3797
	3798	printf "\n >>> OUTPUT: ${localout[$i]}$cst by SCP in seperate job to"
	3799	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}$cst"
	3800	printf "\n or higher cycle\n"
[1468]	3801	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]}
[82]	3802
[1]	3803	echo "[[ \$? = 0 ]] && rm $file_to_transfer" >> transfer_${localout[$i]}
	3804
	3805	if [[ $localhost = nech ]]
	3806	then
[1094]	3807	subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 900 $PORTOPT transfer_${localout[$i]}
[1]	3808	else
	3809	if [[ "$LOGNAME" = b323013 ]]
	3810	then
[1094]	3811	subjob -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
[1]	3812	else
[1094]	3813	subjob -d -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
[1]	3814	fi
	3815	fi
	3816
	3817	else
	3818
[1289]	3819	# TRANSFER WITHIN THIS JOB
[1]	3820	transfer_failed=false
[82]	3821	printf "\n >>> OUTPUT: ${localout[$i]}$cst by SCP to"
	3822	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}$cst\n"
[1255]	3823	if [[ $localhost = lccrayb ]]
	3824	then
[1468]	3825	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]}"
[1274]	3826	elif [[ $localhost = lccrayh ]]
	3827	then
[1468]	3828	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]}"
	3829	elif [[ $localhost = lcxe6 ]]
	3830	then
	3831	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]}"
[1255]	3832	else
[1468]	3833	batch_scp $PORTOPT $cps -b -m -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
[1255]	3834	fi
[82]	3835	[[ $? != 0 ]] && transfer_failed=true
[1]	3836
[1289]	3837	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
[1]	3838	if [[ $transfer_failed = true ]]
	3839	then
[1289]	3840	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
[1]	3841	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
	3842
[1289]	3843	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
[1]	3844	eval local_catalog=${pathout[$i]}
	3845	if [[ ! -d $local_catalog ]]
	3846	then
	3847	printf " *** local directory does not exist. Trying to create:\n"
	3848	printf " $local_catalog \n"
	3849	mkdir -p $local_catalog
	3850	fi
	3851	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
	3852	transfer_problems=true
	3853	fi
	3854	fi
	3855	else
	3856
[1289]	3857	# UNSET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE COPIED ON THIS MACHINE
[1]	3858	actionout[$i]=""
	3859	fi
	3860	fi
	3861
	3862
[1289]	3863	# APPEND VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
	3864	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
[1]	3865	if [[ "${actionout[$i]}" = tra ]]
	3866	then
	3867	if [[ $localhost != $fromhost ]]
	3868	then
[622]	3869	if [[ $localhost = ibmh \|\| $localhost = nech ]]
[1]	3870	then
	3871
[1289]	3872	# TRANSFER IN SEPERATE JOB
	3873	# FIRST COPY FILE TO TEMPORY DATA DIRECTORY
[1]	3874	[[ ! -d $tmp_data_catalog/TRANSFER ]] && mkdir -p $tmp_data_catalog/TRANSFER
	3875	file_to_transfer=${fname}_${localout[$i]}_to_transfer_$kennung
	3876	ln -f ${localout[$i]} $tmp_data_catalog/TRANSFER/$file_to_transfer
	3877
	3878	echo "set -x" > transfer_${localout[$i]}
	3879	echo "cd $tmp_data_catalog/TRANSFER" >> transfer_${localout[$i]}
[82]	3880
	3881	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP in seperate job to"
	3882	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}"
	3883	printf "\n or higher cycle\n"
[1468]	3884	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]}
[82]	3885
[1]	3886	echo "[[ \$? = 0 ]] && rm $file_to_transfer" >> transfer_${localout[$i]}
	3887
	3888	if [[ $localhost = nech ]]
	3889	then
[1094]	3890	subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 900 $PORTOPT transfer_${localout[$i]}
[1]	3891	else
	3892	if [[ $LOGNAME = b323013 ]]
	3893	then
[1094]	3894	subjob -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
[1]	3895	else
[1094]	3896	subjob -d -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
[1]	3897	fi
	3898	fi
	3899
	3900	else
	3901
[1289]	3902	# TRANSFER WITHIN THIS JOB
[1]	3903	transfer_failed=false
[82]	3904	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP to"
	3905	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}\n"
[1255]	3906	if [[ $localhost = lccrayb ]]
	3907	then
[1468]	3908	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]}"
[1274]	3909	elif [[ $localhost = lccrayh ]]
	3910	then
[1468]	3911	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]}"
	3912	elif [[ $localhost = lcxe6 ]]
	3913	then
	3914	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]}"
[1255]	3915	else
[1468]	3916	batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
[1255]	3917	fi
[82]	3918	[[ $? != 0 ]] && transfer_failed=true
[1]	3919
[1289]	3920	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
[1]	3921	if [[ $transfer_failed = true ]]
	3922	then
[1289]	3923	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
[1]	3924	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
	3925
[1289]	3926	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
[1]	3927	eval local_catalog=${pathout[$i]}
	3928	if [[ ! -d $local_catalog ]]
	3929	then
	3930	printf " *** local directory does not exist. Trying to create:\n"
	3931	printf " $local_catalog \n"
	3932	mkdir -p $local_catalog
	3933	fi
	3934
	3935	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
	3936	transfer_problems=true
	3937	fi
	3938	fi
	3939	else
	3940
[1289]	3941	# RESET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE APPENDED ON THIS MACHINE
[1]	3942	actionout[$i]=a
	3943	fi
	3944	fi
	3945
	3946
[1289]	3947	# OUTPUT-FILE FOR A RESTART-RUN.
	3948	# FILE IS MOVED TO THE TEMPORARY DATA DIRECTORY USING link COMMAND.
	3949	# OPTION -f IS USED TO OVERWRITE EXISTING FILES.
	3950	# AS LAST ACTION, ARCHIVING IS INITIATED.
[1]	3951	if [[ "${actionout[$i]}" = fl ]]
	3952	then
	3953	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog
	3954	chmod g+rx $tmp_data_catalog
	3955	if [[ $files_for_pes = false ]]
	3956	then
	3957	printf "\n >>> OUTPUT: ${localout[$i]} to"
	3958	printf "\n $tmp_data_catalog/${frelout[$i]} (temporary data catalog)\n"
	3959	ln -f ${localout[$i]} $tmp_data_catalog/${frelout[$i]}
	3960	else
	3961	printf "\n >>> OUTPUT: ${localout[$i]}/.... to"
	3962	printf "\n $tmp_data_catalog/${frelout[$i]} (temporary data catalog)\n"
	3963	mkdir $tmp_data_catalog/${frelout[$i]}
[149]	3964	cd ${localout[$i]}
	3965	for file in $(ls *)
	3966	do
	3967	ln -f $file $tmp_data_catalog/${frelout[$i]}
	3968	done
	3969	cd $TEMPDIR
[1]	3970	fi
	3971
	3972
[1289]	3973	# CREATE AND SUBMIT ARCHIVING-JOB
[1]	3974	if [[ $store_on_archive_system = true ]]
	3975	then
	3976
	3977	if [[ $archive_system = asterix ]]
	3978	then
	3979	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
	3980	if [[ $files_for_pes = false ]]
	3981	then
	3982	echo "stageout ${frelout[$i]} > STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
	3983	else
	3984	echo "stageout -t ${frelout[$i]} > STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
	3985	fi
	3986	echo "cat STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
	3987	echo "if [[ \$(grep -c \"st.msg:150\" STAGE_OUTPUT${i}_$kennung) != 0 ]]" >> archive_${frelout[$i]}
	3988	echo "then" >> archive_${frelout[$i]}
	3989	echo " do_stageout=false" >> archive_${frelout[$i]}
	3990	echo "else" >> archive_${frelout[$i]}
	3991	echo " echo \" +++ $filetyp ${frelout[$i]} could not be stored on archive-system\" " >> archive_${frelout[$i]}
	3992	echo " cat /dev/null > ~/job_queue/ARCHIVE_ERROR_$fname" >> archive_${frelout[$i]}
	3993	echo " cat STAGE_OUTPUT${i}_$kennung > ~/job_queue/archive_${frelout[$i]}_error" >> archive_${frelout[$i]}
	3994	echo " echo \" *** $filetyp ${frelout[$i]} will be copied to \$WORK as backup\" " >> archive_${frelout[$i]}
	3995	if [[ $files_for_pes = false ]]
	3996	then
	3997	echo " cp ${frelout[$i]} \$WORK" >> archive_${frelout[$i]}
	3998	else
	3999	echo " cp -r ${frelout[$i]} \$WORK/${frelout[$i]}" >> archive_${frelout[$i]}
	4000	fi
	4001	echo " echo \" *** $filetyp ${frelout[$i]} saved\" " >> archive_${frelout[$i]}
	4002	echo "fi" >> archive_${frelout[$i]}
	4003	echo "rm STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
	4004	elif [[ $archive_system = DMF ]]
	4005	then
	4006	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
	4007	if [[ $files_for_pes = false ]]
	4008	then
	4009	printf "\n +++ archiving of single files impossible with $archive_system !\n"
	4010	locat=DMF
	4011	exit
	4012	else
[1289]	4013	# ??? nicht benÃ¶tigte Archiv-Systeme entfernen ???
[1]	4014	# FUER RECHNER IN JUELICH. DORT KOENNTEN AUCH
	4015	# EINZELNE DATEIEN GESICHERT WERDEN (SPAETER KORR.)
	4016	echo "rm -rf \$ARCHIVE/${frelout[$i]}" >> archive_${frelout[$i]}
	4017	echo "cp -r ${frelout[$i]} \$ARCHIVE" >> archive_${frelout[$i]}
	4018	fi
	4019	elif [[ $archive_system = tivoli ]]
	4020	then
	4021	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
	4022	if [[ $files_for_pes = false ]]
	4023	then
[1289]	4024	# REMOVE EXISTING OLD FILES FROM THE ARCHIVE
[1]	4025	echo "set -x" >> archive_${frelout[$i]}
	4026	echo "rm -rf \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
	4027	echo "cp ${frelout[$i]} \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
	4028	else
	4029
	4030	echo "set -x" >> archive_${frelout[$i]}
	4031	echo "rm -rf \$PERM/${frelout[$i]}/*" >> archive_${frelout[$i]}
	4032	echo "[[ ! -d \$PERM/${frelout[$i]} ]] && mkdir $PERM/${frelout[$i]}" >> archive_${frelout[$i]}
	4033	cd $tmp_data_catalog
	4034	all_files=`ls -1 ${frelout[$i]}/*`
	4035	cd - > /dev/null
	4036	(( inode = 0 ))
	4037	(( tp1 = tasks_per_node + 1 ))
	4038	while (( inode < nodes ))
	4039	do
	4040	files=`echo $all_files \| cut -d" " -f1-$tasks_per_node`
	4041	all_files=`echo $all_files \| cut -d" " -f$tp1-`
[1289]	4042	echo "tar cvf \$PERM/${frelout[$i]}/${frelout[$i]}.node_$inode.tar $files" >> archive_${frelout[$i]}
[1]	4043	(( inode = inode + 1 ))
	4044	done
	4045	fi
	4046	elif [[ $archive_system = ut ]]
	4047	then
	4048	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
	4049	if [[ $files_for_pes = false ]]
	4050	then
[1289]	4051	# REMOVE EXISTING OLD FILES FROM THE ARCHIVE
[1]	4052	echo "set -x" >> archive_${frelout[$i]}
	4053	echo "rm -rf \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
	4054	echo "cp ${frelout[$i]} \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
	4055	else
	4056
	4057	echo "set -x" >> archive_${frelout[$i]}
	4058	echo "rm -rf \$UT/${frelout[$i]}/*" >> archive_${frelout[$i]}
	4059	echo "[[ ! -d \$UT/${frelout[$i]} ]] && mkdir $UT/${frelout[$i]}" >> archive_${frelout[$i]}
	4060	cd $tmp_data_catalog
	4061	all_files=`ls -1 ${frelout[$i]}/*`
	4062	cd - > /dev/null
	4063	(( inode = 0 ))
	4064	(( tp1 = tasks_per_node + 1 ))
	4065	while (( inode < nodes ))
	4066	do
	4067	files=`echo $all_files \| cut -d" " -f1-$tasks_per_node`
	4068	all_files=`echo $all_files \| cut -d" " -f$tp1-`
	4069	echo "tar cvf \$UT/${frelout[$i]}/${frelout[$i]}.node_$inode.tar $files" >> archive_${frelout[$i]}
	4070	(( inode = inode + 1 ))
	4071	done
	4072	fi
	4073	elif [[ $archive_system = none ]]
	4074	then
	4075	printf " +++ archiving on $localhost not available!\n"
	4076	fi
	4077
	4078	if [[ $archive_system != none ]]
	4079	then
[1289]	4080	if [[ $localhost = nech ]]
[1]	4081	then
[1094]	4082	subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 7200 $PORTOPT archive_${frelout[$i]}
[1]	4083	fi
	4084	printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n"
	4085	fi
	4086	else
[399]	4087	printf " +++ caution: option -A is switched off. No archiving on $archive_system!\n"
[1]	4088	fi
	4089
	4090
[1289]	4091	# CREATE AN EMPTY DIRECTORY IN THE USERS PERMANENT DIRECTORY,
	4092	# IN ORDER TO NOTE THE RESPECTIVE CYCLE NUMBER ON THE ARCHIVE SYSTEM
	4093	# RESTART-JOBS ARE USING THESE EMPTY-DIRECTORIES TO GET THE CURRENT HIGHEST
	4094	# CYCLE NUMBER ON THE ARCHIVE SYSTEM (IN CASE THAT INFORMATIONS ARE DIFFICULT TO
	4095	# TO ACCESS FROM THE ARCHIVE-SYSTEM DIRECTLY))
[1]	4096	if [[ $files_for_pes = false ]]
	4097	then
	4098	cat /dev/null > ${pathout[$i]}
	4099	else
	4100	mkdir -p ${pathout[$i]}
	4101	fi
	4102
	4103	fi
	4104
	4105
[1289]	4106	# COPY FROM THIS HOST TO THE ARCHIVE-SYSTEM
	4107	# IF ANY ARCHIVING FAILS, AN ERROR-FLAG-FILE IS SET
	4108	# THIS FILE REMAINS TO BE SET, EVEN IF ARCHIVING OF FURTHER FILES IS SUCCESSFULL
[1]	4109	if [[ "${actionout[$i]}" = ar ]]
	4110	then
	4111	if [[ $files_for_pes = false ]]
	4112	then
	4113	printf "\n >>> OUTPUT: ${localout[$i]} to"
	4114	printf "\n ${pathout[$i]}"
	4115	printf "\n File will be copied to archive-system ($archive_system) !\n"
	4116	else
	4117	printf "\n >>> OUTPUT: ${localout[$i]}/_.... to"
	4118	printf "\n ${pathout[$i]}"
	4119	printf "\n Directory will be copied to archive-system ($archive_system) !\n"
	4120	fi
	4121	mv ${localout[$i]} ${frelout[$i]}
	4122
	4123	file_saved=false
	4124
	4125	if [[ $archive_system = asterix ]]
	4126	then
	4127	do_stageout=true
	4128	(( stageout_anz = 0 ))
	4129	while [[ $do_stageout = true ]]
	4130	do
	4131	if [[ $files_for_pes = false ]]
	4132	then
	4133	stageout ${frelout[$i]} > STAGE_OUTPUT
	4134	else
	4135	stageout -t ${frelout[$i]} > STAGE_OUTPUT
	4136	fi
	4137	cat STAGE_OUTPUT
	4138	if [[ $(grep -c "st.msg:150" STAGE_OUTPUT) != 0 ]]
	4139	then
	4140	file_saved=true
	4141	do_stageout=false
	4142	else
	4143	if [[ $files_for_pes = false ]]
	4144	then
	4145	printf "\n +++ file ${frelout[$i]} could not be saved on archive-system"
	4146	else
	4147	printf "\n +++ directory ${frelout[$i]} could not be saved on archive-system"
	4148	fi
	4149	(( stageout_anz = stageout_anz + 1 ))
	4150	if (( stageout_anz == 10 ))
	4151	then
	4152	printf "\n +++ stoped after 10 unsuccessful tries!"
	4153	archive_save=false
	4154	do_stageout=false
	4155	else
	4156	printf "\n *** new try to store on archive after 15 min:"
	4157	sleep 900
	4158	fi
	4159	fi
	4160	done
	4161	elif [[ $archive_system = DMF ]]
	4162	then
	4163	if [[ $files_for_pes = false ]]
	4164	then
	4165	printf "\n +++ archiving of single files impossible on $archive_system!\n"
	4166	locat=DMF
	4167	exit
	4168	else
	4169	rm -rf $ARCHIVE/${frelout[$i]}
	4170	cp -r ${frelout[$i]} $ARCHIVE
	4171	fi
	4172	file_saved=true
	4173	elif [[ $archive_system = tivoli ]]
	4174	then
[1289]	4175	# ARCHIVING ONLY POSSIBLE VIA BATCH-JOB
	4176	# IN THE MEANTIME, FILE IS STORED IN THE TEMPORARY DATA DIRECTORY,
	4177	# BECAUSE MRUN'S CURRENT TEMPORARY WORKING DIRECTORY MAY ALREADY BE DELETED
	4178	# WHEN THE ARCHIVE-JOB IS EXECUTED
[1]	4179	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog
	4180	chmod g+rx $tmp_data_catalog
	4181	if [[ $files_for_pes = false ]]
	4182	then
	4183	ln -f ${frelout[$i]} $tmp_data_catalog/${frelout[$i]}
	4184	else
	4185	mkdir $tmp_data_catalog/${frelout[$i]}
	4186	ln -f ${frelout[$i]}/* $tmp_data_catalog/${frelout[$i]}
	4187	fi
	4188
[1289]	4189	# GENERATE AND SUBMIT BATCH-JOB
	4190	# FILE HAS TO BE DELETED FROM THE TEMPORARY DATA DIRECTORY
	4191	# DELETE OLD EXISTING FILES FROM THE ARCHIVE
[1]	4192	echo "cd $tmp_data_catalog" > archive_${frelout[$i]}
	4193	if [[ $files_for_pes = false ]]
	4194	then
	4195	echo "rm -rf \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
	4196	echo "cp ${frelout[$i]} \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
	4197	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
	4198	else
	4199	echo "rm -rf \$PERM/${frelout[$i]}.tar" >> archive_${frelout[$i]}
	4200	echo "tar cvf \$PERM/${frelout[$i]}.tar ${frelout[$i]}" >> archive_${frelout[$i]}
	4201	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
	4202	fi
	4203
[1094]	4204	subjob -v -d -q cdata -X 0 -m 1000 -t 43200 -c $job_catalog $PORTOPT archive_${frelout[$i]}
[1]	4205	printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n"
	4206	file_saved=true
	4207
	4208	elif [[ $archive_system = ut ]]
	4209	then
[1289]	4210	# ARCHIVING ONLY POSSIBLE VIA BATCH-JOB
	4211	# IN THE MEANTIME, FILE IS STORED IN THE TEMPORARY DATA DIRECTORY,
	4212	# BECAUSE MRUN'S CURRENT TEMPORARY WORKING DIRECTORY MAY ALREADY BE DELETED
	4213	# WHEN THE ARCHIVE-JOB IS EXECUTED
[1]	4214	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog
	4215	chmod g+rx $tmp_data_catalog
	4216	if [[ $files_for_pes = false ]]
	4217	then
	4218	ln -f ${frelout[$i]} $tmp_data_catalog/${frelout[$i]}
	4219	else
	4220	mkdir $tmp_data_catalog/${frelout[$i]}
	4221	ln -f ${frelout[$i]}/* $tmp_data_catalog/${frelout[$i]}
	4222	fi
	4223
[1289]	4224	# GENERATE AND SUBMIT BATCH-JOB
	4225	# FILE HAS TO BE DELETED FROM THE TEMPORARY DATA DIRECTORY
	4226	# DELETE OLD EXISTING FILES FROM THE ARCHIVE
[1]	4227	echo "cd $tmp_data_catalog" > archive_${frelout[$i]}
	4228	if [[ $files_for_pes = false ]]
	4229	then
	4230	echo "rm -rf \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
	4231	echo "cp ${frelout[$i]} \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
	4232	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
	4233	else
	4234	echo "rm -rf \$UT/${frelout[$i]}.tar" >> archive_${frelout[$i]}
	4235	echo "tar cvf \$UT/${frelout[$i]}.tar ${frelout[$i]}" >> archive_${frelout[$i]}
	4236	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
	4237	fi
	4238
[1094]	4239	subjob -v -c /pf/b/$usern/job_queue -d -q pp -X 0 -m 1000 -t 7200 $PORTOPT archive_${frelout[$i]}
[1]	4240	printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n"
	4241	file_saved=true
	4242
	4243	else
	4244	printf "\n +++ archive_system=\"$archive_system\" archiving impossible!"
	4245	archive_save=false
	4246	fi
[1289]	4247
	4248	# CREATE EMPTY FLAG-FILE OR -DIRECTORY
	4249	# IN ORDER TO NOTE THE RESPECTIVE CYCLE NUMBER ON THE ARCHIVE SYSTEM
	4250	# RESTART-JOBS ARE USING THESE EMPTY-DIRECTORIES TO GET THE CURRENT HIGHEST
	4251	# CYCLE NUMBER ON THE ARCHIVE SYSTEM (IN CASE THAT INFORMATIONS ARE DIFFICULT TO
	4252	# TO ACCESS FROM THE ARCHIVE-SYSTEM DIRECTLY))
[1]	4253	if [[ $file_saved = true ]]
	4254	then
	4255	if [[ $files_for_pes = false ]]
	4256	then
	4257	cat /dev/null > ${pathout[$i]}
	4258	else
	4259	mkdir -p ${pathout[$i]}
	4260	fi
	4261	fi
[1289]	4262
[1]	4263	fi
	4264
[1289]	4265	# APPEND ON THIS MACHINE
[1]	4266	if [[ "${actionout[$i]}" = "a" ]]
	4267	then
[741]	4268	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
	4269	then
	4270	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}.${extout[$i]}\n"
	4271	cat ${localout[$i]} >> ${pathout[$i]}.${extout[$i]}
	4272	else
	4273	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}\n"
	4274	cat ${localout[$i]} >> ${pathout[$i]}
	4275	fi
[1]	4276	fi
	4277
[1289]	4278	# COPY ON THIS MACHINE
	4279	# COPY HAS TO BE USED, BECAUSE MOVE DOES NOT WORK IF FILE-ORIGIN AND TARGET ARE
	4280	# ON DIFFERENT FILE-SYSTEMS
[1]	4281	if [[ "${actionout[$i]}" = "" && $files_for_pes = false ]]
	4282	then
	4283
[1289]	4284	# COPY IN CASE OF RUNS ON SINGLE CORES
[5]	4285	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
[1]	4286	then
	4287	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}.${extout[$i]}\n"
[149]	4288	if [[ $link_local_output = true ]]
	4289	then
	4290	printf " using ln -f\n"
	4291	ln -f ${localout[$i]} ${pathout[$i]}.${extout[$i]}
	4292	fi
	4293	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
	4294	if [[ ! -f "${pathout[$i]}.${extout[$i]}" ]]
	4295	then
	4296	if [[ $link_local_output = true ]]
	4297	then
	4298	printf " ln failed, using cp...\n"
	4299	fi
	4300	cp ${localout[$i]} ${pathout[$i]}.${extout[$i]}
	4301	fi
[1]	4302	else
	4303	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}\n"
[149]	4304	if [[ $link_local_output = true ]]
	4305	then
	4306	printf " using ln -f\n"
	4307	ln -f ${localout[$i]} ${pathout[$i]}
	4308	fi
	4309	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
	4310	if [[ ! -f "${pathout[$i]}" ]]
	4311	then
	4312	if [[ $link_local_output = true ]]
	4313	then
	4314	printf " ln failed, using cp...\n"
	4315	fi
	4316	cp ${localout[$i]} ${pathout[$i]}
	4317	fi
[1]	4318	fi
	4319
	4320	elif [[ "${actionout[$i]}" = "" && $files_for_pes = true ]]
	4321	then
	4322
[1289]	4323	# FILES FROM THE DIFFERENT CORES ARE MOVED WITH ln-COMMAND TO THE PERMANENT DIRECTORY
	4324	# AS A FIRST STEP, THE PERMANENT DIRECTORY IS CREATED
[1]	4325	printf "\n >>> OUTPUT: ${localout[$i]}/_.... to ${pathout[$i]}\n"
[149]	4326	if [[ $link_local_output = true ]]
	4327	then
	4328	printf " using ln -f\n"
	4329	mkdir ${pathout[$i]}
	4330	cd ${localout[$i]}
	4331	for file in $(ls *)
	4332	do
	4333	ln -f $file ${pathout[$i]}
	4334	done
	4335	cd $TEMPDIR
	4336	fi
[1289]	4337
	4338	# IF "ln -f" HAS FAILED OR IF "$link_local_output = false" DO A NORMAL COPY "cp -r"
[149]	4339	if [[ ! -f "${pathout[$i]}/_0000" ]]
	4340	then
	4341	if [[ $link_local_output = true ]]
	4342	then
	4343	printf " ln failed for .../_0000, using cp...\n"
	4344	fi
	4345	cp -r ${localout[$i]} ${pathout[$i]}
	4346	fi
[1]	4347
	4348	fi
	4349	fi
	4350	done
	4351	if (( i != 0 ))
	4352	then
	4353	if [[ $transfer_problems = true ]]
	4354	then
[1289]	4355	printf "\n$dashes\n *** OUTPUT-files saved"
[1]	4356	printf "\n +++ WARNING: some data transfers failed! \n"
	4357	else
[1289]	4358	printf "\n$dashes\n *** all OUTPUT-files saved \n"
[1]	4359	fi
	4360	fi
	4361
	4362
[1289]	4363	# IF REQUIRED, START A RESTART-JOB
	4364	# FILE CONTINUE_RUN MUST HAVE BEEN CREATED BY THE EXECUTABLE (PALM)
[1]	4365	if [[ -f CONTINUE_RUN ]]
	4366	then
	4367
	4368	if [[ $archive_save = true ]]
	4369	then
	4370
[1289]	4371	# ADD RESTART-OPTIONS TO THE MRUN-CALL (IF THEY ARE NOT USED ALREADY):
	4372	# -C TELLS MRUN THAT IT IS A RESTART-RUN
	4373	# -v SILENT MODE WITHOUT INTERACTIVE QUERIES
	4374	# -n BATCH-MODE (IMPORTANT ONLY IN CASE OF BATCH JOBS ON THE LOCAL MACHINE)
[1]	4375	[[ $(echo $mc \| grep -c "\-C") = 0 ]] && mc="$mc -C"
	4376	[[ $(echo $mc \| grep -c "\-v") = 0 ]] && mc="$mc -v"
	4377	[[ $(echo $mc \| grep -c "\-b") = 0 ]] && mc="$mc -b"
	4378	if [[ $(echo $mc \| grep -c "#") != 0 ]]
	4379	then
	4380	mc=`echo $mc \| sed 's/#/f/g'`
	4381	fi
	4382
	4383
[1289]	4384	# START THE RESTART-JOB
[1468]	4385	printf "\n\n *** initiating restart-run on \"$return_address\" using command:\n"
[1]	4386	echo " $mc"
[1289]	4387	printf "\n$dashes\n"
[1]	4388	if [[ $localhost != $fromhost ]]
	4389	then
	4390
[1468]	4391	if [[ $localhost = lccrayb \|\| $localhost = lccrayh \|\| $localhost = nech \|\| $localhost = ibmh \|\| $localhost = ibmkisti \|\| $localhost = ibmku \|\| $localhost = ibms \|\| $localhost = lcflow \|\| $localhost = lckyu* \|\| $localhost = lcxe6 ]]
[1]	4392	then
	4393	echo "*** ssh will be used to initiate restart-runs!"
[1468]	4394	echo " return_address=\"$return_address\" "
[1]	4395	echo " return_username=\"$return_username\" "
[1468]	4396	if [[ $(echo $return_address \| grep -c "130.75.105") = 1 ]]
[1]	4397	then
[1190]	4398	if [[ $localhost = ibmh ]]
	4399	then
[1468]	4400	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\" "
[1255]	4401	elif [[ $localhost = lccrayb ]]
	4402	then
[1468]	4403	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\" "
[1274]	4404	elif [[ $localhost = lccrayh ]]
	4405	then
[1468]	4406	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\" "
	4407	elif [[ $localhost = lcxe6 ]]
	4408	then
	4409	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\" "
[1190]	4410	else
[1468]	4411	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 "
[1190]	4412	fi
[1]	4413	else
[693]	4414	if [[ $localhost = ibmkisti ]]
	4415	then
[1468]	4416	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\" "
[1255]	4417	elif [[ $localhost = lcflow ]]
	4418	then
[1468]	4419	/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 "
[1255]	4420	elif [[ $localhost = lccrayb ]]
	4421	then
[1468]	4422	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\" "
[1274]	4423	elif [[ $localhost = lccrayh ]]
	4424	then
[1468]	4425	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\" "
[693]	4426	else
[1468]	4427	ssh $SSH_PORTOPT $return_address -l $return_username "PATH=\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc "
[693]	4428	fi
[1]	4429	fi
	4430	else
	4431	printf "\n +++ no restart mechanism available for host \"$localhost\" "
	4432	locat=restart; exit
	4433	fi
	4434
[1289]	4435	# WAIT TO ALLOW THE RESTART-JOB TO BE QUEUED, BEFORE THE CURRENT JOB IS FINISHED
[399]	4436	if [[ $queue = special1q ]]
	4437	then
	4438	sleep 120
	4439	else
	4440	sleep 30
	4441	fi
[1]	4442
	4443	else
	4444
[1289]	4445	# JOBS RUNNING (AND STARTED) ON THE LOCAL MACHINE CAN DIRECTLY CALL MRUN (WITHOUT
	4446	# USING SSH)
[1]	4447	cd $LOCAL_PWD
[1289]	4448	if [[ $localhost = lckyuh ]]
[108]	4449	then
[1103]	4450	printf "\n +++ WARNING: no restart mechanism available for host \"$localhost\" "
	4451	printf "\n please restart job manually using command:\n"
	4452	printf "\n \"$mc\" "
[108]	4453	else
[1289]	4454	eval $mc # THE ' MUST BE EVALUATED
[108]	4455	fi
[1]	4456	cd - > /dev/null
	4457	fi
[1103]	4458	if [[ $localhost = lckyuh ]]
	4459	then
[1289]	4460	printf "\n$dashes\n *** restart-run to be initiated manually\n"
[1103]	4461	else
[1289]	4462	printf "\n$dashes\n *** restart-run initiated \n"
[1103]	4463	fi
[1]	4464
	4465
[1289]	4466	# DELETE INPUT-(RESTART)FILES, WHICH HAVE BEEN FETCHED FROM THE TEMPORARY DATA
	4467	# DIRECTORY, BACAUSE THEY ARE NOT REQUIRED BY THE RESTART-JOB.
	4468	# THIS IS DONE IN ORDER TO AVOID EXCEEDING DISC QUOTAS OR DISC SPACE (RESTART-FILES
	4469	# MAY BE VERY HUGE)
[1]	4470	(( i = 0 ))
	4471	while (( i < iin ))
	4472	do
	4473	(( i = i + 1 ))
	4474	if [[ "${got_tmp[$i]}" = true && $keep_data_from_previous_run = false ]]
	4475	then
	4476	rm -r $tmp_data_catalog/${frelin[$i]}
	4477	fi
	4478	done
	4479
	4480	else
	4481
	4482	printf "\n +++ no restart-run possible, since errors occured"
	4483	printf "\n during the archive process"
	4484	fi
	4485
	4486	fi
	4487
	4488
	4489
[1289]	4490	# SEND EMAIL NOTIFICATION ABOUT THE FINISHED RUN
[352]	4491	if [[ "$email_notification" != "none" ]]
[1]	4492	then
	4493
	4494	if [[ $localhost != $fromhost ]]
	4495	then
	4496	if [[ -f CONTINUE_RUN ]]
	4497	then
	4498	echo "PALM restart run necessary" > email_text
	4499	echo "description header of actual run:" >> email_text
	4500	cat CONTINUE_RUN >> email_text
	4501	echo "mrun-command to restart:" >> email_text
	4502	echo "$mc" >> email_text
	4503	else
	4504	echo "PALM run with base filename \"$fname\" on host \"$localhost\" finished" > email_text
	4505	fi
	4506	mail $email_notification < email_text
	4507	printf "\n *** email notification sent to \"$email_notification\" "
	4508	fi
	4509	fi
	4510
	4511
	4512
[1289]	4513	# ALL ACTIONS FINISHED, TEMPORARY WORKING-DIRECTORY CAN BE DELETED
[1]	4514	cd $HOME
	4515	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
	4516
	4517	else
	4518
	4519
[1289]	4520	# PREPARING ACTIONS,
	4521	# IF A BATCH-JOB IS TO BE GENERATED AND STARTED ON A REMOTE-MACHINE GERECHNET
[1]	4522
[1289]	4523	# BUILD THE MRUN-COMMAND TO BE CALLED IN THE BATCH-JOB ON THE REMOTE-MACHINE
[1468]	4524	mrun_com="$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 $remote_username"
[1]	4525	[[ "$cpp_opts" != "" ]] && mrun_com=${mrun_com}" -D \"$cpp_opts\""
[79]	4526	[[ "$global_revision" != "" ]] && mrun_com=${mrun_com}" -G \"$global_revision\""
[123]	4527	[[ $group_number != none ]] && mrun_com=${mrun_com}" -g $group_number"
[1]	4528	[[ $do_compile = true ]] && mrun_com=${mrun_com}" -s \"$source_list\""
	4529	[[ "$input_list" != "" ]] && mrun_com=${mrun_com}" -i \"$input_list\""
	4530	[[ $ignore_archive_error = true ]] && mrun_com=${mrun_com}" -I"
	4531	[[ $keep_data_from_previous_run = true ]] && mrun_com=${mrun_com}" -k"
	4532	[[ "$additional_conditions" != "" ]] && mrun_com=${mrun_com}" -K \"$additional_conditions\""
	4533	[[ "$output_list" != "" ]] && mrun_com=${mrun_com}" -o \"$output_list\""
	4534	[[ "$read_from_config" = false ]] && mrun_com=${mrun_com}" -S"
	4535	[[ $do_trace = true ]] && mrun_com=${mrun_com}" -x"
	4536	[[ "$numprocs" != "" ]] && mrun_com=${mrun_com}" -X $numprocs"
	4537	if [[ $use_openmp = true ]]
	4538	then
[622]	4539	mrun_com=${mrun_com}" -O $threads_per_task"
[1]	4540	fi
[759]	4541	[[ "$tasks_per_node" != "" ]] && mrun_com=${mrun_com}" -T $tasks_per_node"
[397]	4542	[[ $store_on_archive_system = true ]] && mrun_com=${mrun_com}" -A"
[1]	4543	[[ $package_list != "" ]] && mrun_com=${mrun_com}" -p \"$package_list\""
	4544	[[ $return_password != "" ]] && mrun_com=${mrun_com}" -P $return_password"
	4545	[[ $delete_temporary_catalog = false ]] && mrun_com=${mrun_com}" -B"
[127]	4546	[[ $node_usage != default && "$(echo $node_usage \| cut -c1-3)" != "sla" && $node_usage != novice ]] && mrun_com=${mrun_com}" -n $node_usage"
[291]	4547	[[ "$ocean_file_appendix" = true ]] && mrun_com=${mrun_com}" -y"
[206]	4548	[[ $run_coupled_model = true ]] && mrun_com=${mrun_com}" -Y \"$coupled_dist\""
[920]	4549	[[ "$check_namelist_files" = false ]] && mrun_com=${mrun_com}" -z"
	4550	[[ "$combine_plot_fields" = false ]] && mrun_com=${mrun_com}" -Z"
[759]	4551	[[ "$max_par_io_str" != "" ]] && mrun_com=${mrun_com}" -w $max_par_io_str"
[1]	4552	if [[ $do_remote = true ]]
	4553	then
	4554	printf "\n>>>> MRUN-command on execution host:\n>>>> $mrun_com \n"
	4555	fi
	4556
	4557
[1289]	4558	# CREATE EXECUTABLE FOR BATCH JOB
[1199]	4559	if [[ $create_executable_for_batch = true && $restart_run != true ]]
	4560	then
	4561
	4562	printf "\n *** creating the executable for batch job\n"
	4563
[1289]	4564	# METHOD ONLY WORKS FOR BATCH JOBS ON LOCAL HOSTS
[1199]	4565	if [[ $host != $localhost ]]
	4566	then
	4567	printf "\n +++ creation of executables is only allowed for batch jobs on local hosts."
	4568	printf "\n Please set create_executable_for_batch = false in the config-file.\n"
	4569	locat=create_executable; exit
	4570	fi
	4571
	4572	mkdir $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
	4573	cd $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
	4574
	4575	cp $make_depository .
	4576	tar -xf $make_depository > /dev/null 2>&1
	4577	cp ../* . > /dev/null 2>&1
	4578
	4579	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
	4580
	4581	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
	4582	then
	4583	printf "\n +++ error occured while compiling or linking"
	4584	locat=compile
	4585	exit
	4586	fi
	4587
	4588	mv a.out ..
	4589	cd - > /dev/null 2>&1
	4590	rm -rf $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
	4591
	4592	printf " *** executable created in \"$working_directory/SOURCES_FOR_RUN_${fname}\"\n "
	4593
	4594	fi
	4595
	4596
[1289]	4597	# BUILD THE JOB-SCRIPTS ON FILE jobfile
[1]	4598	jobfile=jobfile.$RANDOM
	4599
	4600
[1289]	4601	# CREATE TEMPORARY DIRECTORY AND SWITCH TO IT
[1]	4602	echo "mkdir $TEMPDIR" >> $jobfile
	4603	echo "cd $TEMPDIR" >> $jobfile
	4604
	4605
[1289]	4606	# ACTIVATE ERROR-TRACEBACK
[1]	4607	if [[ $do_trace = true ]]
	4608	then
	4609	echo "set -x" >> $jobfile
	4610	else
	4611	echo "set +vx" >> $jobfile
	4612	fi
	4613
	4614
[1289]	4615	# INITIALIZE THE ENVIRONMENT AND LOAD MODULES
[1043]	4616	if [[ "$init_cmds" != "" ]]
	4617	then
	4618	echo "$init_cmds" >> $jobfile
	4619	fi
	4620	if [[ "$module_calls" != "" ]]
	4621	then
	4622	echo "$module_calls" >> $jobfile
	4623	fi
	4624
	4625
[1289]	4626	# PROVIDE SOURCE-CODE FILES, MRUN-SCRIPT AND CONFIGURATION-FILE FOR THE JOB
	4627	# then-CLAUSE: FILES ARE COLLECTED IN THE SOURCES_FOR_RUN_... DIRECTORY ON THE LOCAL HOST,
	4628	# WHICH IS THEN FETCHED FROM THE BATCH-JOB BY USING cp/scp
	4629	# THE SOURCE-CODE FILES ALREADY EXIST IN THIS DIRECTORY
	4630	# else-CLAUSE: FILE-CONTENTS ARE PUT INTO THE JOB-FILE AS HERE-DOCUMENTS
	4631	# THIS MAY CREATE A QUITE LARGE JOB-FILE, WHICH CAN CAUSE PROBLEMS WITH SOME
	4632	# QUEUEING-SYSTEMS
	4633	if [[ $host = ibmkisti \|\| $host = lccrayb \|\| $host = lccrayf \|\| $host = lccrayh ]]
[1]	4634	then
	4635
[1289]	4636	# COPY CONFIGURATION-FILE AND MRUN-SCRIPT INTO THE SOURCES_FOR_RUN... DIRECTORY
[191]	4637	if [[ $restart_run != true ]]
	4638	then
	4639	cp $config_file $working_directory/SOURCES_FOR_RUN_$fname
	4640	cp ${PALM_BIN}/$mrun_script_name $working_directory/SOURCES_FOR_RUN_$fname
	4641	fi
[1]	4642
[1289]	4643	# COPY THE SOURCES_FOR_RUN... DIRECTORY FROM THE LOCAL HOST TO THE JOB VIA scp
	4644	# (then-CLAUSE: JOBS ON THE LOCAL HOST CAN JUST USE cp)
[193]	4645	echo "set -x" >> $jobfile
[693]	4646	if [[ $host = $localhost ]]
	4647	then
[1199]	4648
	4649	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
	4650	# FILES ON CRAY XC30 SYSTEMS (CSC HELSINKI), rsync IS USED INSTEAD
[1281]	4651	if [[ $(echo $host \| cut -c1-6) = lccray ]]
	4652	then
	4653	echo "rsync -av -t $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
	4654	else
	4655	echo "cp -r $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
	4656	fi
[1199]	4657
[693]	4658	else
[1255]	4659	if [[ $host = ibmkisti ]]
[693]	4660	then
[1289]	4661	# ON KISTI'S IBM FIREWALL IS ONLY OPENED ON INTERACTIVE NODE
[693]	4662	echo "localdir=\`pwd\`" >> $jobfile
[1468]	4663	echo "ssh $SSH_PORTOPT $remote_username@gaiad \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
[1255]	4664	elif [[ $host = lccrayb ]]
	4665	then
	4666	echo "localdir=\`pwd\`" >> $jobfile
[1468]	4667	echo "ssh $SSH_PORTOPT $remote_username@blogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
[1274]	4668	elif [[ $host = lccrayh ]]
	4669	then
	4670	echo "localdir=\`pwd\`" >> $jobfile
[1468]	4671	echo "ssh $SSH_PORTOPT $remote_username@hlogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
[1274]	4672
[1255]	4673	else
[1468]	4674	echo "scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
[693]	4675	fi
	4676	fi
[193]	4677	echo "export SOURCES_COMPLETE=true" >> $jobfile
[1]	4678
[1289]	4679	# MOVE MRUN-SCRIPT AND CONFIGURATION-FILE FROM THE SOURCES_FOR_RUN... DIRECTORY TO THE
	4680	# WORKING DIRECTORY OF THE JOB
[193]	4681	echo "mv SOURCES_FOR_RUN_$fname/$config_file . " >> $jobfile
	4682	echo "mv SOURCES_FOR_RUN_$fname/$mrun_script_name . " >> $jobfile
[1199]	4683	echo "chmod u+rwx $mrun_script_name" >> $jobfile
[193]	4684	echo "execute_mrun=true" >> $jobfile
	4685	echo " " >> $jobfile
	4686
[191]	4687	else
	4688
[1289]	4689	# PROVIDE SOURCE-CODE FILES AND MAKEFILE AS HERE DOCUMENT
[191]	4690	if [[ $do_compile = true ]]
	4691	then
	4692
	4693	source_catalog=SOURCES_FOR_RUN_$fname
	4694
[1289]	4695	# CREATE SOURCES_FOR_RUN... DIRECTORY TO STORE THE SOURCE CODE FILES AND THE MAKEFILE
[191]	4696	echo "mkdir SOURCES_FOR_RUN_$fname" >> $jobfile
	4697	echo "export SOURCES_COMPLETE=true" >> $jobfile
	4698	echo "cd SOURCES_FOR_RUN_$fname" >> $jobfile
	4699
	4700	for filename in $source_list
	4701	do
[1289]	4702	# BACKSLASH IS USED FOR MASKING
[191]	4703	echo "cat > $filename << \"%END%\"" >> $jobfile
	4704	cat $source_catalog/$filename >> $jobfile
	4705	echo " " >> $jobfile
	4706	echo "%END%" >> $jobfile
	4707	echo " " >> $jobfile
	4708	done
	4709
[1289]	4710	# BACKSLASH IS USED FOR MASKING
[191]	4711	echo "cat > Makefile << \"%END%\"" >> $jobfile
	4712	cat $source_catalog/Makefile >> $jobfile
[1]	4713	echo " " >> $jobfile
	4714	echo "%END%" >> $jobfile
	4715	echo " " >> $jobfile
	4716
[191]	4717	echo "cd - > /dev/null" >> $jobfile
[1]	4718
[191]	4719	fi
[1]	4720
	4721
[1289]	4722	# PROVIDE THE CONFIGURATION-FILE AS HERE-DOCUMENT
	4723	# BACKSLASH IS USED FOR MASKING
	4724	# LINES WITH #$ IN THE CONFIGURATION-FILE, COMING FROM THE SVN KEYWORD SUBSTITUTION,
	4725	# ARE REMOVED FROM THE FILE IN ORDER TO AVOID PROBLEMS WITH THE SGE BATCH SYSTEM
[191]	4726	echo "cat > $config_file << \"%END%\"" >> $jobfile
[1101]	4727	if [[ $host = lckyuh ]]
	4728	then
[1289]	4729	# NO CROSS-COMPILER ON COMPUTE NODE
[1101]	4730	sed 's/frtpx/frt/g' $config_file >> $jobfile
	4731	else
	4732	sed 's/#$.*//g' $config_file >> $jobfile
	4733	fi
[191]	4734	echo "%END%" >> $jobfile
	4735	echo " " >> $jobfile
[1]	4736
	4737
[1289]	4738	# PROVIDE THE MRUN-SCRIPTS AS HERE-DOCUMENT
	4739	# BACKSLASH IS USED FOR MASKING
[1101]	4740	echo "cat > $mrun_script_name <<\"%END%\"" >> $jobfile
[1103]	4741	if [[ $host = lckyuh ]]
	4742	then
	4743	sed 's/\/bin\/ksh/\/bin\/bash/g' ${PALM_BIN}/$mrun_script_name >> $jobfile
	4744	else
	4745	cat ${PALM_BIN}/$mrun_script_name >> $jobfile
	4746	fi
[1101]	4747	echo "%END%" >> $jobfile
[191]	4748	echo "chmod u+x $mrun_script_name" >> $jobfile
	4749	echo "execute_mrun=true" >> $jobfile
	4750	echo " " >> $jobfile
[1]	4751
	4752	fi
	4753
[191]	4754
[1289]	4755	# GET REQUIRED INPUT-FILES BY SCP OR BY SENDING THEM WITH THE JOB AS HERE-DOCUMENT
	4756	# PUT THESE FILES INTO THE USER'S RESPECTIVE PERMANENT DIRECTORIES ON THE REMOTE-HOST
	4757	# IF THE DIRECTORIES DO NOT EXIST, TRY TO CREATE THEM
[1]	4758	if [[ $do_remote = true ]]
	4759	then
	4760	(( i = 0 ))
	4761	while (( i < iin ))
	4762	do
	4763	(( i = i + 1 ))
	4764	echo "[[ ! -d ${pathin[$i]} ]] && mkdir -p ${pathin[$i]}" >> $jobfile
	4765	if [[ "${transin[$i]}" = job ]]
	4766	then
	4767	echo "cat > ${remotepathin[$i]} <<\"%END%\"" >> $jobfile
	4768	eval cat ${pathin[$i]}/${frelin[$i]} >> $jobfile
	4769	echo " " >> $jobfile
	4770	echo "%END%" >> $jobfile
	4771	else
[1468]	4772	echo "batch_scp $PORTOPT -b -o -g -s -u $return_username $return_address ${remotepathin[$i]} \"${pathin[$i]}\" ${frelin[$i]}" >> $jobfile
[1]	4773	fi
	4774
[1289]	4775	# CHECK, IF FILE COULD BE CREATED
[1]	4776	echo "if [[ \$? = 1 ]]" >> $jobfile
	4777	echo "then" >> $jobfile
	4778	echo " echo \" \" " >> $jobfile
	4779	echo " echo \"+++ file ${remotepathin[$i]} could not be created\" " >> $jobfile
	4780	echo " echo \" please check, if directory exists on $host!\" " >> $jobfile
	4781	echo " echo \"+++ MRUN will not be continued\" " >> $jobfile
	4782	echo " execute_mrun=false" >> $jobfile
	4783	echo "fi" >> $jobfile
	4784	done
	4785	fi
	4786
[1289]	4787	# PROVIDE NAME OF THE CURRENT WORKING-DIRECTORY ON THE LOCAL MACHINE (FROM WHERE THE JOB IS
	4788	# STARTED) BY SETTING AN ENVIRONMENT-VARIABLE. THIS INFORMATION IS USED IN THE JOB BY MRUN
	4789	# IN CASE THAT RESTART-RUNS HAVE TO BE GENERATED
[1]	4790	echo "LOCAL_PWD=$working_directory" >> $jobfile
	4791	echo "export LOCAL_PWD" >> $jobfile
	4792
[1289]	4793	# PROVIDE THE PATH OF THE LOCAL MRUN-SCRIPT FOR THE SAME REASON
[22]	4794	echo "LOCAL_MRUN_PATH=$PALM_BIN" >> $jobfile
[1]	4795	echo "export LOCAL_MRUN_PATH" >> $jobfile
	4796
[1289]	4797	# lcflow ALSO REQUIRES TO PROVIDE PATH FOR THE PALM-SCRIPTS
	4798	if [[ $host = lcflow \|\| $localhost = lcflow ]]
[66]	4799	then
[1099]	4800	echo "export PALM_BIN=$PALM_BIN" \| sed -e 's:'$HOME':$HOME:' >> $jobfile
	4801	echo "export PATH=\$PATH:\$PALM_BIN" >> $jobfile
[66]	4802	fi
[1]	4803
[1289]	4804	# CALL MRUN WITHIN THE JOB (SETTING QUEUE IS A WORKAROUND FOR ibmkisti)
	4805	# AS FINAL ACTION, REMOVE THE TEMPORARY DIRECTORY CREATED AT THE BEGINNING OF THE JOB
[1101]	4806	echo "set -x" >> $jobfile
	4807	echo "queue=$queue" >> $jobfile
[1]	4808	echo "[[ \$execute_mrun = true ]] && ./$mrun_com" >> $jobfile
[1101]	4809	echo 'ls -al; echo `pwd`' >> $jobfile
	4810	echo "cd \$HOME" >> $jobfile
	4811	echo "rm -rf $TEMPDIR" >> $jobfile
[1]	4812
	4813
	4814
	4815
[1289]	4816	# START THE JOB USING SUBJOB-COMMAND
[1]	4817	if [[ $silent = false ]]
	4818	then
	4819	printf "\n "
	4820	else
	4821	printf "\n\n"
	4822	fi
	4823
[1094]	4824	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
[1]	4825	rm -rf $jobfile
	4826
	4827
[1289]	4828	fi # END OF REMOTE-PART

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