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source: palm/trunk/SCRIPTS/mrun @ 1552

Last change on this file since 1552 was 1550, checked in by suehring, 9 years ago
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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	# ------------------
[1550]	24	#
[1305]	25	#
[1200]	26	# Former revisions:
	27	# -----------------
	28	# $Id: mrun 1550 2015-01-30 14:27:13Z maronga $
	29	#
[1550]	30	# 1549 2015-01-30 14:26:16Z suehring
	31	# Enable interactive debug sessions with allinea debugger
	32	#
[1548]	33	# 1547 2015-01-29 15:09:12Z witha
	34	# adjustments for ForWind computing cluster (lcflow)
	35	#
[1492]	36	# 1491 2014-11-12 08:12:57Z heinze
	37	# correct setting of batch_job allowed for ibm-machines
	38	#
[1469]	39	# 1468 2014-09-24 14:06:57Z maronga
	40	# Typo removed (addres->address)
	41	# Bugfix: returning files to IMUK via ssh did not work for lccrayh and lcycrayb
	42	# Added support for restart runs (remote) for lcxe6
	43	#
[1443]	44	# 1442 2014-07-28 07:09:10Z raasch
	45	# default queues for HLRN-III (lccrayb/lccrayh) defined
	46	#
[1423]	47	# 1422 2014-07-02 10:01:25Z kanani
	48	# automatic restarts enabled for lccrayb,
	49	# adjustment of path to compilervars.sh at IMUK (see automatic restarts)
	50	#
[1421]	51	# 1420 2014-06-10 06:24:14Z raasch
	52	# -j1 option added to aprung command for lccrayf (CSC)
	53	#
[1403]	54	# 1402 2014-05-09 14:25:13Z raasch
	55	# batch_job added to envpar-NAMELIST
	56	#
[1358]	57	# 1357 2014-04-11 15:02:03Z witha
	58	# adjustments for lccrayh (automatic restarts on lccrayh outside of IMUK are now
	59	# possible)
	60	#
[1328]	61	# 1320 2014-03-20 08:40:49Z raasch
	62	# check namelist file set false by default
	63	#
[1305]	64	# 1304 2014-03-12 10:29:42Z raasch
	65	# ulimit option changed from -Ss to -s
	66	#
	67	# bugfix: missing "fi" in r1289
	68	#
[1290]	69	# 1289 2014-03-04 07:12:34Z raasch
	70	# comments translated to English
	71	# necriam-, fimm-, ibmy-, and sgi-specific code removed
	72	# export of variables for palm and interpret_config removed
	73	#
[1282]	74	# 1281 2014-02-01 07:55:49Z raasch
	75	# rsync-copy restricted to Cray machines, since command is unavailable on some
	76	# other systems
	77	#
[1280]	78	# 1279 2014-01-28 12:10:14Z raasch
	79	# tasks_per_node must not be an integral divisor of numprocs any more. This was done
	80	# in order to remove annoying restrictions concerning the number of processors which
	81	# appear on machines with larger nodes (e.g. containing 24 cores). Now without this
	82	# restriction, one of the nodes will be filled with less than the given number of
	83	# tasks per node. A respective warning is given.
	84	#
[1275]	85	# 1274 2014-01-09 13:14:54Z heinze
	86	# adjustments for lccrayh
	87	#
[1273]	88	# 1272 2014-01-08 10:19:32Z witha
	89	# small adjustment for lcflow
	90	#
[1271]	91	# 1270 2013-12-16 11:05:01Z fricke
	92	# call of combine_plot_fields adjusted for lccrayb/lccrayh
	93	#
[1256]	94	# 1255 2013-11-07 14:43:35Z raasch
	95	# further adjustments for lccrayb remote access
	96	#
[1242]	97	# 1241 2013-10-30 11:36:58Z heinze
	98	# Enable use of nudging input and input of large scale forcing from
	99	# external files
	100	#
[1230]	101	# 1229 2013-09-20 06:55:19Z raasch
	102	# further adjustments for lccrayb
	103	#
[1225]	104	# 1224 2013-09-16 07:27:23Z raasch
	105	# first adjustments for lccrayb
	106	#
[1211]	107	# 1210 2013-08-14 10:58:20Z raasch
	108	# fftw support added
	109	#
[1203]	110	# 1201 2013-07-10 16:17:59Z witha
	111	# adjustments for Forwind cluster (lcflow)
	112	#
[1200]	113	# 1199 2013-07-05 14:52:22Z raasch
[1199]	114	# adjustments for CSC Helsinki (lccrayf),
	115	# executables for batch jobs can be created in advance, in order to avoid calling
	116	# the compiler within the batch job (only works if batch jobs are submitted on
	117	# local host)
[1104]	118	#
[1191]	119	# 1190 2013-06-25 09:39:21Z heinze
	120	# enable use of automatic restarts for ibmh
[1185]	121	# use of cluster/express queue enabled (ibmh)
[1104]	122	#
[1125]	123	# 1124 2013-04-09 15:46:52Z raasch
	124	# variable "memory" is exported via typeset option -x, because otherwise an unknown
	125	# side effect may lead to data loss while getopts is reading the script-option arguments
	126	#
[1123]	127	# 1122 2013-04-09 08:37:16Z heinze
	128	# Bugfix: change type of variable last_char
	129	#
[1121]	130	# 1119 2013-04-05 15:11:19Z raasch
	131	# Bugfix for setting -T option for subjob
	132	#
[1109]	133	# 1108 2013-03-05 07:03:32Z raasch
	134	# bugfix for coupled runs on lckyut/lckyuh
	135	#
[1107]	136	# 1106 2013-03-04 05:31:38Z raasch
	137	# --stdin argument for mpiexec on lckyuh
	138	# -y and -Y settings output to header
	139	#
[1104]	140	# 1103 2013-02-20 02:15:53Z raasch
[1103]	141	# default script runs again under ksh, because of unsolved problems with read
	142	# from stdin: when bash script is called from a ksh, message "read error: 0:
	143	# Resource temporarily unavailable" appears and script does not stop,
	144	# further bash compatibility adjustments,
	145	# shebang line replaced by /bin/bash when running jobs on lckyuh; no restarts
	146	# on lckyuh, but mrun does not terminate and issues a warning instead
[1046]	147	#
[1102]	148	# 1101 2013-02-17 10:20:21Z raasch
	149	# script now running under bash instead of ksh, which required small adjustments
	150	# (output formatting with printf instead "typeset -L/-R", print replaced by echo,
	151	# read from stdin),
	152	# cross compilername on lckyuh compute nodes replaced by real compiler name
	153	#
[1100]	154	# 1099 2013-02-10 01:47:43Z raasch
	155	# adjustments for Kyushu-University computing center (lckyuh - hayaka)
	156	# and for Forwind cluster (lcflow)
	157	# small further adjustments for lckyut
	158	#
[1096]	159	# 1094 2013-02-03 01:52:12Z raasch
	160	# explicit ssh/scp port can be set in config file with environment variable
	161	# scp_port. This port is handled to all ssh/scp/batch_scp calls.
	162	# decalpha parts (yonsei) removed
	163	#
[1091]	164	# 2013-02-02 07:06:13Z raasch
[1099]	165	# adjustments for Kyushu-University computing center (lckyut - tatara)
[1091]	166	#
[1084]	167	# 1083 2013-01-04 10:22:09Z maronga
	168	# bugfix in parameter file check (read %cpp_options was missing)
	169	#
[1070]	170	# 1069 2012-11-28 16:18:43Z maronga
	171	# bugfix: coupling mode was always set to mpi2, typos removed
	172	#
[1059]	173	# 1058 2012-11-21 07:00:35Z raasch
	174	# Intel inspector (inspxe) is given the number of PEs instead of the number of
	175	# nodes
	176	#
[1047]	177	# 1046 2012-11-09 14:38:45Z maronga
	178	# code put under GPL (PALM 3.9)
	179	#
[1090]	180	# 21/03/94 - Siggi - first version finished
	181	# 03/03/94 - Siggi - script development started
	182	#
[1059]	183	#--------------------------------------------------------------------------------#
[1090]	184	# mrun - script for running PALM jobs
	185	#--------------------------------------------------------------------------------#
[1]	186
[1047]	187
[1]	188
[1289]	189	# DECLARATION OF VARIABLES AND THEIR DEFUALT VALUES
[1]	190
[1289]	191	set +o allexport # SUPPRESS EXPORT OF ALL VARIABLES, SINCE IN THE PAST THIS
	192	# LES TO PROBLEMS IN ROUTINES CALLED BY MRUN
	193	# (TOO MANY ARGUMENTS - PROBLEM)
	194	set +o noclobber # EXISTING FILES ARE ALLOWED TO BE OVERWRITTEN
[1]	195
	196	AddFilenames=""
	197	additional_conditions=""
	198	add_source_path=""
	199	afname=""
	200	archive_save=true
	201	archive_system=none
[1320]	202	check_namelist_files=false
[920]	203	combine_plot_fields=true
[1]	204	compiler_name=""
	205	cond1=""
	206	cond2=""
	207	config_file=.mrun.config
[206]	208	coupled_dist=""
	209	coupled_mode="mpi1"
[1]	210	cpp_opts=""
[82]	211	cpp_options=""
[1]	212	cpumax=0
	213	cpurest=0
[1199]	214	create_executable_for_batch=false
[1]	215	delete_temporary_catalog=true
	216	do_batch=false
	217	do_compile=true
	218	do_remote=false
	219	do_stagein=true
	220	do_stageout=true
	221	do_trace=false
[352]	222	email_notification="none"
[1]	223	exclude=""
	224	executable=""
	225	execution_error=false
[1210]	226	fftw_inc=""
	227	fftw_lib=""
	228	fftw_support=false
[1289]	229	fname=test
[1]	230	fromhost=""
[78]	231	global_revision=""
[122]	232	group_number=none
[1]	233	host=""
	234	host_file=""
	235	hp=""
	236	ignore_archive_error=false
	237	input_list=""
	238	interpreted_config_file=""
[164]	239	job_catalog="~/job_queue"
[1]	240	job_on_file=""
	241	keep_data_from_previous_run=false
[183]	242	link_local_input=false
[149]	243	link_local_output=false
[1]	244	localhost_realname=$(hostname)
[260]	245	local_dvrserver_running=.FALSE.
[1]	246	locat=normal
	247	mainprog=""
	248	makefile=""
[759]	249	max_par_io_str=""
[1]	250	mc=$0
	251	while [[ $(echo $mc \| grep -c "/") != 0 ]]
	252	do
	253	mc=`echo $mc \| cut -f2- -d"/"`
	254	done
[493]	255	module_calls=""
[1]	256	mrun_script_name=$mc
[82]	257	netcdf_inc=""
	258	netcdf_lib=""
[1]	259	netcdf_support=false
	260	node_usage=default
	261	numprocs=""
[206]	262	numprocs_atmos=0
	263	numprocs_ocean=0
[1]	264	OOPT=""
	265	openmp=false
	266	output_list=""
	267	package_list=""
	268	queue=none
	269	read_from_config=""
[5]	270	restart_run=false
[622]	271	if [[ `hostname` = rte10 ]]
[1]	272	then
[1468]	273	return_address=133.5.185.60
	274	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
[693]	275	elif [[ `hostname` = climate0 ]]
	276	then
[1468]	277	return_address=165.132.26.68
	278	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
[1021]	279	elif [[ `hostname` = urban00 ]]
	280	then
[1468]	281	return_address=147.46.30.151
	282	echo "+++ WARNING: fixed return_address = $return_address is used !!!!!"
[622]	283	else
[1468]	284	return_address=$(nslookup `hostname` 2>&1 \| grep "Address:" \| tail -1 \| awk '{print $2}')
[1]	285	fi
	286	return_password=""
	287	return_username=$LOGNAME
	288	remotecall=false
	289	remote_username=""
[102]	290	run_coupled_model=false
[1]	291	run_mode=""
[397]	292	store_on_archive_system=false
[1289]	293	dashes=" ----------------------------------------------------------------------------"
[1]	294	silent=false
	295	source_list=""
	296	source_path=SOURCE
	297	tasks_per_node=""
	298	threads_per_task=1
	299	tmpcreate=false
	300	tmp_data_catalog=""
	301	transfer_problems=false
	302	usern=$LOGNAME
[377]	303	use_openmp=false
[1289]	304	version="MRUN 2.1 Rev$Rev: 1550 $"
[1]	305	working_directory=`pwd`
	306	TOPT=""
	307	XOPT=""
	308	zeit=$( date \| cut -c 12-19 )
	309
[1124]	310	typeset -i iec=0 iic=0 iin=0 ioc=0 iout=0 stagein_anz=0 stageout_anz=0
[1289]	311	typeset -x -i memory=0 # HAS TO BE EXPORTED HERE, OTHERWISE AN UNKNOWN SIDE
	312	# SIDE EFFECT MAY CAUSE DATA LOSS WHEN GETOPTS IS READING THE
	313	# SCRIPT-OPTION ARGUMENTS
[1279]	314	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]	315
	316
	317
[1289]	318	# ERROR HANDLING IN CASE OF EXIT
[83]	319	trap 'rm -rf $working_directory/tmp_mrun
[1289]	320	if [[ $locat != normal && $locat != control_c ]]
[1]	321	then
	322
[1289]	323	# CARRY OUT ERROR-COMMANDS GIVEN IN THE CONFIGURATION FILE (EC:)
[1]	324	(( i = 0 ))
	325	while (( i < iec ))
	326	do
	327	(( i = i + 1 ))
	328	printf "\n *** Execution of ERROR-command:\n"
	329	printf " >>> ${err_command[$i]}\n"
	330	eval ${err_command[$i]}
	331	done
[1101]	332	if [[ -n $interpreted_config_file ]]
	333	then
[1]	334	rm -rf $interpreted_config_file
	335	fi
[1101]	336	if [[ -n .mrun_environment ]]
	337	then
[71]	338	rm -rf .mrun_environment
	339	fi
[1]	340	if [[ $tmpcreate = true ]]
	341	then
	342	printf "\n *** Contents of \"$TEMPDIR\":\n"
	343	ls -al; cd
	344	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
	345	fi
[260]	346	if [[ "$dvrserver_id" != "" ]]
	347	then
	348	echo "+++ killing dvrserver_id=$dvrserver_id"
	349	kill $dvrserver_id
	350	fi
[1]	351	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
	352	then
	353	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
	354	fi
	355	printf "\n\n+++ MRUN killed \n\n"
	356	elif [[ $locat != control_c ]]
	357	then
	358	printf "\n\n --> all actions finished\n\n"
	359	printf " Bye, bye $usern !!\n\n"
	360	fi' exit
	361
	362
[1289]	363	# ACTIONS IN CASE OF TERMINAL-BREAK (CONTROL-C):
[83]	364	trap 'rm -rf $working_directory/tmp_mrun
[807]	365	rm -rf $working_directory/tmp_check_namelist_files
[69]	366	[[ $tmpcreate = true ]] && (cd; rm -rf $TEMPDIR)
[1]	367	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
	368	then
	369	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
	370	fi
[260]	371	if [[ "$dvrserver_id" != "" ]]
	372	then
	373	echo "+++ killing dvrserver_id=$dvrserver_id"
	374	kill $dvrserver_id
	375	fi
[1]	376	printf "\n+++ MRUN killed by \"^C\" \n\n"
	377	locat=control_c
	378	exit
	379	' 2
	380
	381
[22]	382	# CHECK IF THE PATH FOR THE PALM BINARIES (SCRIPTS+UTILITY-PROGRAMS) HAS
	383	# BEEN SET
	384	if [[ "$PALM_BIN" = "" ]]
	385	then
	386	printf "\n +++ environment variable PALM_BIN has not been set"
	387	printf "\n please set it to the directory where the PALM scripts are located"
	388	locat=palm_bin; exit
	389	fi
[180]	390	export PATH=$PALM_BIN:$PATH
[22]	391
	392
[1]	393
[1289]	394	# READ SHELLSCRIPT-OPTIONS AND REBUILD THE MRUN-COMMAND STRING (MC),
	395	# WHICH WILL BE USED TO START RESTART-JOBS
[920]	396	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]	397	do
	398	case $option in
	399	(a) afname=$OPTARG;;
[397]	400	(A) store_on_archive_system=true; mc="$mc -A";;
[1]	401	(b) do_batch=true; mc="$mc -b";;
	402	(B) delete_temporary_catalog=false; mc="$mc -B";;
	403	(c) config_file=$OPTARG; mc="$mc -c$OPTARG";;
[5]	404	(C) restart_run=true; mc="$mc -C";;
[1]	405	(d) fname=$OPTARG; mc="$mc -d$OPTARG";;
[210]	406	(D) cpp_opts="$cpp_opts $OPTARG"; mc="$mc -D'$OPTARG'";;
[79]	407	(F) job_on_file="-D"; mc="$mc -F";;
[122]	408	(g) group_number=$OPTARG; mc="$mc -g$OPTARG";;
[78]	409	(G) global_revision=$OPTARG; mc="$mc -G'$OPTARG'";;
[1]	410	(h) host=$OPTARG; mc="$mc -h$OPTARG";;
	411	(H) fromhost=$OPTARG; mc="$mc -H$OPTARG";;
	412	(i) input_list=$OPTARG; mc="$mc -i'$OPTARG'";;
	413	(I) ignore_archive_error=true; mc="$mc -I";;
	414	(k) keep_data_from_previous_run=true; mc="$mc -k";;
[210]	415	(K) additional_conditions="$OPTARG"; mc="$mc -K'$OPTARG'";;
[1]	416	(m) memory=$OPTARG; mc="$mc -m$OPTARG";;
	417	(M) makefile=$OPTARG; mc="$mc -M$OPTARG";;
	418	(n) node_usage=$OPTARG; mc="$mc -n$OPTARG";;
	419	(o) output_list=$OPTARG; mc="$mc -o'$OPTARG'";;
[622]	420	(O) use_openmp=true; threads_per_task=$OPTARG; mc="$mc -O$OPTARG";;
[1]	421	(p) package_list=$OPTARG; mc="$mc -p'$OPTARG'";;
	422	(P) return_password=$OPTARG; mc="$mc -P$OPTARG";;
	423	(q) queue=$OPTARG; mc="$mc -q$OPTARG";;
	424	(r) run_mode=$OPTARG; mc="$mc -r'$OPTARG'";;
[1468]	425	(R) remotecall=true;return_address=$OPTARG; mc="$mc -R$OPTARG";;
[1]	426	(s) source_list=$OPTARG; mc="$mc -s'$OPTARG'";;
	427	(S) read_from_config=false; mc="$mc -S";;
	428	(t) cpumax=$OPTARG; mc="$mc -t$OPTARG";;
[759]	429	(T) mrun_tasks_per_node=$OPTARG; mc="$mc -T$OPTARG";;
[1]	430	(u) remote_username=$OPTARG; mc="$mc -u$OPTARG";;
	431	(U) return_username=$OPTARG; mc="$mc -U$OPTARG";;
	432	(v) silent=true; mc="$mc -v";;
[759]	433	(w) max_par_io_str=$OPTARG; mc="$mc -w$OPTARG";;
[1]	434	(x) do_trace=true;set -x; mc="$mc -x";;
	435	(X) numprocs=$OPTARG; mc="$mc -X$OPTARG";;
[291]	436	(y) ocean_file_appendix=true; mc="$mc -y";;
[206]	437	(Y) run_coupled_model=true; coupled_dist=$OPTARG; mc="$mc -Y'$OPTARG'";;
[807]	438	(z) check_namelist_files=false; mc="$mc -z";;
[920]	439	(Z) combine_plot_fields=false; mc="$mc -Z";;
[1]	440	(\?) printf "\n +++ unknown option $OPTARG \n"
	441	printf "\n --> type \"$0 ?\" for available options \n"
	442	locat=parameter;exit;;
	443	esac
	444	done
	445
	446
[1289]	447	# SKIP GIVEN OPTIONS TO READ POSITIONAL PARAMETER, IF GIVEN
	448	# CURRENTLY ONLY PARAMETER ? (TO OUTPUT A SHORT COMMAND INFO) IS ALLOWED
[1101]	449	(( to_shift = $OPTIND - 1 ))
	450	shift $to_shift
[1]	451
[1289]	452	# PRINT SHORT DESCRIPTION OF MRUN OPTIONS
[1]	453	if [[ "$1" = "?" ]]
	454	then
	455	(printf "\n *** mrun can be called as follows:\n"
[920]	456	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]	457	printf "\n Description of available options:\n"
	458	printf "\n Option Description Default-Value"
	459	printf "\n -a base name of input files equiv. -d"
[400]	460	printf "\n -A archiving when using file-attribute fl"
[1]	461	printf "\n -b batch-job on local machine ---"
	462	printf "\n -B do not delete temporary directory at end ---"
	463	printf "\n -c configuration file .mrun.config"
	464	printf "\n -d base name of files attached to program test"
	465	printf "\n -D preprocessor(cpp)-directives \"\" "
	466	printf "\n -F create remote job file only ---"
	467	printf "\n -h execution host $localhost_realname"
	468	printf "\n -i INPUT control list \"\" "
	469	printf "\n -I archiving errors of previous batch-jobs"
	470	printf "\n will be ignored"
	471	printf "\n -k keep data from previous run"
	472	printf "\n -K additional conditions for controling"
	473	printf "\n usage of conditional code and"
	474	printf "\n env-variables in configuration file \"\" "
	475	printf "\n -m memory demand in MB (batch-jobs) 0 MB"
	476	printf "\n -M Makefile name Makefile"
	477	printf "\n -n node usage (shared/not_shared) depending on -h"
	478	printf "\n -o OUTPUT control list \"\" "
[1304]	479	printf "\n -O threads per openMP task ---"
[1]	480	printf "\n -p software package list \"\" "
	481	printf "\n -q queue \"$queue\" "
	482	printf "\n -r run control list (combines -i -o) \"\" "
	483	printf "\n -s filenames of routines to be compiled \"\" "
	484	printf "\n must end with .f, .f90, .F, or .c !"
	485	printf "\n use \"..\" for more than one file and wildcards"
[837]	486	printf "\n -s LM compiles all locally modified files"
[1]	487	printf "\n -S config file interpreted by shellscript ---"
	488	printf "\n -t allowed cpu-time in seconds (batch) 0"
	489	printf "\n -T tasks per node depending on -h"
	490	printf "\n -u username on remote machine \"\" "
	491	printf "\n -v no prompt for confirmation ---"
[759]	492	printf "\n -w maximum parallel io streams as given by -X"
[1]	493	printf "\n -x tracing of mrun for debug purposes ---"
	494	printf "\n -X # of processors (on parallel machines) 1"
[291]	495	printf "\n -y add appendix \"_O\" to all local output"
	496	printf "\n files (ocean precursor runs followed by"
	497	printf "\n coupled atmosphere-ocean runs) ---"
[206]	498	printf "\n -Y run coupled model, \"#1 #2\" with"
	499	printf "\n #1 atmosphere and #2 ocean processors \"#/2 #/2\" depending on -X"
[920]	500	printf "\n -z disable a priori parameter file check ---"
	501	printf "\n -Z skip combine_plot_fields at the end of "
	502	printf "\n the simulation ---"
[1]	503	printf "\n "
	504	printf "\n Possible values of positional parameter <modus>:"
	505	printf "\n \"?\" - this outline \n\n") \| more
	506	exit
	507	elif [[ "$1" != "" ]]
	508	then
	509	printf "\n +++ positional parameter $1 unknown \n"
	510	locat=parameter; exit
	511	fi
	512
	513
	514
[1289]	515	# SHORT STARTING MESSAGE
[1]	516	printf "\n*** $version "
	517	printf "\n will be executed. Please wait ..."
	518
	519
[82]	520
[1289]	521	# CHECK, IF CONFIGURATION FILE EXISTS
[82]	522	if [[ ! -f $config_file ]]
	523	then
	524	printf "\n\n +++ configuration file: "
	525	printf "\n $config_file"
	526	printf "\n does not exist"
	527	locat=connect; exit
	528	fi
	529
	530
[1289]	531	# DETERMINE THE HOST-IDENTIFIER (localhost) FROM THE CONFIGURATION FILE
[82]	532	line=""
	533	grep "%host_identifier" $config_file > tmp_mrun
	534	while read line
	535	do
[206]	536	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
[82]	537	then
	538	HOSTNAME=`echo $line \| cut -d" " -s -f2`
	539	host_identifier=`echo $line \| cut -d" " -s -f3`
[83]	540	if [[ $localhost_realname = $HOSTNAME ]]
[82]	541	then
	542	localhost=$host_identifier
	543	break
	544	fi
	545	fi
	546	done < tmp_mrun
	547
	548	if [[ "$localhost" = "" ]]
	549	then
	550	printf "\n\n +++ no host identifier found in configuration file \"$config_file\""
	551	printf "\n for local host \"$localhost_realname\"."
	552	printf "\n Please add line"
	553	printf "\n \"\%host_identifier $localhost_realname <identifier>\""
	554	printf "\n to the configuration file."
	555	locat=localhost; exit
	556	fi
	557
	558
[1289]	559	# SET HOST-SPECIFIC VARIABLES
[82]	560	case $localhost_realname in
[397]	561	(r1\|r2\|h01\|b01) archive_system=tivoli;;
[82]	562	(cs*) archive_system=ut;;
	563	esac
	564
	565
[1289]	566	# ??? THIS SHOULD BE DECRIBED IN THE MRUN DOCUMENTATION ???
	567	# SET BASENAME OF THE INPUT-FILES TO THE GENERAL BASENAME (GIVEN BY OPTION -d),
	568	# IF IT HAS NOT BEEN SET BY THE USER DIFFERENTLY (USING OPTION -a)
[1]	569	[[ "$afname" = "" ]] && afname=$fname
	570
	571
[1289]	572	# ADD RUN-FILE ACTIVATION STRINGS (GIVEN BY OPTION -r) TO THE
	573	# RESPECTIVE LISTS FOR ACTIVATING THE INPUT/OUTPUT FILE CONNECTION
	574	# STATEMENTS IN THE CONFIGURATION FILE
[1]	575	if [[ "$run_mode" != "" ]]
	576	then
	577	input_list="$input_list $run_mode"
	578	output_list="$output_list $run_mode"
	579	fi
	580
	581
[1289]	582	# ??? is this (and the respective option -H) really required ???
	583	# STORE HOSTNAME, FROM WHICH THE JOB IS STARTED,
	584	# BUT ONLY IF IT HASN'T BEEN ALREADY SET BY OPTION -H
	585	# (MRUN IS AUTOMATICALLY SETTING THIS OPTION IN THE MRUN-CALLS WITHIN
	586	# THOSE BATCH-JOBS, WHICH ARE CREATED BY MRUN ITSELF)
[1]	587	if [[ "$fromhost" = "" ]]
	588	then
	589	fromhost=$localhost
	590	fi
	591
	592
[1289]	593	# CHECK, IF EXECUTION SHALL TO BE DONE ON THE REMOTE-MACHINE.
	594	# VALUE OF do_remote IS IMPORTANT FOR THE FILE CONNECTIONS.
	595	# IN CASE OF EXECUTION ON A REMOTE-MACHINE, A BATCH-JOB HAS
	596	# TO BE SUBMITTED (I.E. do_bacth=true)
[1]	597	if [[ -n $host && "$host" != $localhost ]]
	598	then
	599	do_batch=true
	600	do_remote=true
	601	case $host in
[1289]	602	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|nech\|lccrayb\|lccrayh\|lccrayf\|lcflow\|lckyoto\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
[1]	603	(*) printf "\n"
[83]	604	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
	605	printf "\n is not available"
[1]	606	locat=nqs; (( iec = 0 )); exit;;
	607	esac
	608	else
	609	host=$localhost
	610	fi
	611
	612
[1289]	613	# EVALUATE ADDITIONAL CONDITIONS GIVEN BY OPTION -K
[1]	614	if [[ -n $additional_conditions ]]
	615	then
[69]	616	cond1=`echo $additional_conditions \| cut -d" " -f1`
	617	cond2=`echo $additional_conditions \| cut -d" " -s -f2`
	618	dummy=`echo $additional_conditions \| cut -d" " -s -f3`
[1]	619	if [[ -n $dummy ]]
	620	then
	621	printf "\n +++ more than 2 additional conditions given for Option \"-K\""
	622	locat=options; exit
	623	fi
[503]	624	block=_$cond1
	625	[[ -n $cond2 ]] && block=${block}_$cond2
[1]	626	fi
	627
	628
[1289]	629	# EVALUATE MODEL COUPLING FEATURES (OPTION -Y) AND DETERMINE coupled_mode
[206]	630	if [[ $run_coupled_model = true ]]
	631	then
	632
[1289]	633	numprocs_atmos=`echo $coupled_dist \| cut -d" " -s -f1`
	634	numprocs_ocean=`echo $coupled_dist \| cut -d" " -s -f2`
	635
	636	if (( $numprocs_ocean + $numprocs_atmos != $numprocs ))
[206]	637	then
	638
[1289]	639	printf "\n +++ number of processors does not fit to specification by \"-Y\"."
	640	printf "\n PEs (total) : $numprocs"
	641	printf "\n PEs (atmosphere): $numprocs_atmos"
	642	printf "\n PEs (ocean) : $numprocs_ocean"
	643	locat=coupling; exit
[206]	644
[1289]	645	fi
[206]	646
	647
	648	# GET coupled_mode FROM THE CONFIG FILE
	649	line=""
	650	grep "%cpp_options.-D__mpi2.$host" $config_file > tmp_mrun
	651	while read line
	652	do
[1069]	653	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" && $(echo $line \| cut -d" " -s -f4) = $cond1 && $(echo $line \| cut -d" " -s -f4) = $cond2 ]]
[206]	654	then
	655	coupled_mode="mpi2"
	656	fi
	657	done < tmp_mrun
	658
	659	fi
	660
	661
[1289]	662	# CHECK, IF FILE-ARCHIVING HAS FAILED IN PREVIOUS JOB (OF A JOB-CHAIN)
[1]	663	if [[ -f ~/job_queue/ARCHIVE_ERROR_$fname ]]
	664	then
	665	if [[ $ignore_archive_error = false ]]
	666	then
	667	printf "\n +++ data archiving of previous run failed"
	668	printf "\n see directory \~/job_queue on remote machine"
	669	locat=archive; exit
	670	else
	671	printf "\n +++ warning: data archiving in a previous run failed"
	672	printf "\n MRUN continues, trying to get backup copy"
	673	fi
	674	fi
	675
	676
[1289]	677	# SAVE VALUES OF MRUN-OPTIONS SICHERN IN ORDER TO OVERWRITE
	678	# THOSE VALUES GIVEN IN THE CONFIGURATION-FILE
[1099]	679	mrun_memory=$memory
	680	mrun_group_number=$group_number
	681	mrun_cpumax=$cpumax
	682	mrun_numprocs=$numprocs
[1]	683
[1099]	684
[1289]	685	# READ AND EVALUATE THE CONFIGURATION-FILE FROM WITHIN THIS SHELLSCRIPT
[1468]	686	# (OPTION -S). THE DEFAULT IS USING THE ROUTINE <<<<
[1]	687	if [[ "$read_from_config" = false ]]
	688	then
	689
	690	[[ $silent = false ]] && printf "\n Reading the configuration file... "
[1289]	691
	692	# READ THE CONFIGURATION FILE LINE BY LINE
[1]	693	while read zeile
	694	do
	695	[[ $silent = false ]] && printf "."
	696
	697
[1289]	698	# FIRST REPLACE ENVIRONMENT-VARIABLES BY THEIR RESPECTIVE VALUES
[1]	699	eval zeile=\"$zeile\"
	700
	701
[1289]	702	# INTERPRET THE LINE
[21]	703	if [[ "$(echo $zeile)" = "" ]]
[1]	704	then
[1289]	705	# EMPTY LINE, NO ACTION
[21]	706	continue
[1]	707
[21]	708	elif [[ "$(echo $zeile \| cut -c1)" = "#" ]]
	709	then
	710
[1289]	711	# LINE IS A COMMENT LINE
[1]	712	true
	713
	714	elif [[ "$(echo $zeile \| cut -c1)" = "%" ]]
	715	then
	716
[1289]	717	# LINE DEFINES AN ENVIRONMENT-VARIABLE
[1]	718	zeile=$(echo $zeile \| cut -c2-)
[69]	719	var=`echo $zeile \| cut -d" " -f1`
	720	value=`echo $zeile \| cut -d" " -s -f2`
	721	for_host=`echo $zeile \| cut -d" " -s -f3`
	722	for_cond1=`echo $zeile \| cut -d" " -s -f4`
	723	for_cond2=`echo $zeile \| cut -d" " -s -f5`
[1]	724
	725	if [[ "$for_host" = "" \|\| ( "$for_host" = $host && "$for_cond1" = "$cond1" && "$for_cond2" = "$cond2" ) \|\| $(echo "$input_list$output_list"\|grep -c "$for_host") != 0 ]]
	726	then
	727
[1289]	728	# REPLACE ":" BY " " IN COMPILER- CPP- OR LINKER-OPTIONS,
	729	# "::" IS REPLACED BY ":".
[1]	730	value=`echo $value \| sed 's/::/%DUM%/g' \| sed 's/:/ /g' \| sed 's/%DUM%/:/g'`
	731
	732
[1289]	733	# VALUE FROM THE CONFIGURATION-FILE IS ASSIGNED TO THE
	734	# ENVIRONMENT-VARIABLE, BUT ONLY IF NO VALUE HAS BEEN ALREADY
	735	# ASSIGNED WITHIN THIS SCRIPT (E.G. BY SCRIPT-OPTIONS).
	736	# NON-ASSIGNED VARIABLES HAVE VALUE "" OR 0 (IN CASE OF INTEGER).
	737	# HENCE THE GENERAL RULE IS: SCRIPT-OPTION OVERWRITES THE
	738	# CONFIGURATION-FILE.
[1]	739	if [[ "$(eval echo \$$var)" = "" \|\| "$(eval echo \$$var)" = "0" ]]
	740	then
	741	eval $var=\$value
	742
[1289]	743	# TERMINAL OUTPUT OF ENVIRONMENT-VARIABLES, IF TRACEBACK IS SWITCHED on
[1]	744	if [[ $do_trace = true ]]
	745	then
	746	printf "\n*** ENVIRONMENT-VARIABLE $var = $value"
	747	fi
	748	fi
	749
[1289]	750	# IF AN ENVIRONMENT-VARIABLE DETERMINES THE HOST, THEN EVALUATE IT IMMEDIATELY:
	751	# VALUE OF do-remote IS REQUIRED FOR THE FILE CONNECTIONS (COPY OF I/O FILES).
	752	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MASCHINE, A BATCH-JOB
	753	# MUST HAVE TO BE STARTED
[1]	754	if [[ $var = host ]]
	755	then
	756	if [[ -n $host && "$host" != $localhost ]]
	757	then
	758	do_batch=true
	759	do_remote=true
	760	case $host in
[1289]	761	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lccrayb\|lccrayh\|lccrayf\|lcflow\|lckyoto\|nech\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
[83]	762	(*) printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
	763	printf "\n is not available"
[1]	764	locat=nqs; exit;;
	765	esac
	766	else
	767	host=$localhost
	768	fi
	769	fi
	770
[1289]	771	# USER-DEFINED ENVIRONMENT VARIABLES MUST BE EXPORTED,
	772	# BECAUSE THEY MAY BE REQUIRED IN OTHER SCRIPTS CALLED
	773	# BY MRUN (E.G. subjob)
[1]	774	export $var
	775	fi
	776
	777
	778
	779
	780	elif [[ "$(echo $zeile \| cut -c1-3)" = "EC:" ]]
	781	then
	782
[1289]	783	# LINE DEFINES ERROR-COMMAND
[1]	784	(( iec = iec + 1 ))
	785	zeile=$(echo $zeile \| cut -c4-)
	786	err_command[$iec]="$zeile"
	787
	788	elif [[ "$(echo $zeile \| cut -c1-3)" = "IC:" ]]
	789	then
	790
[1289]	791	# LINE DEFINES INPUT-COMMAND
[1]	792	(( iic = iic + 1 ))
	793	zeile=$(echo $zeile \| cut -c4-)
	794	in_command[$iic]="$zeile"
	795
	796	elif [[ "$(echo $zeile \| cut -c1-3)" = "OC:" ]]
	797	then
	798
[1289]	799	# LINE DEFINES OUTPUT-COMMAND
[1]	800	(( ioc = ioc + 1 ))
	801	zeile=$(echo $zeile \| cut -c4-)
	802	out_command[$ioc]="$zeile"
	803
	804	else
	805
[1289]	806	# LINE DEFINES FILE CONNECTION. READ THE FILE ATTRIBUTES.
	807	# s2a: in/out - field
	808	# s2b: loc - field (optional)
	809	# s2c: tr/ar - field (optional)
[69]	810	s1=`echo $zeile \| cut -d" " -f1`
	811	s2=`echo $zeile \| cut -d" " -s -f2`
[1]	812	s2a=$(echo $s2 \| cut -d":" -f1)
	813	if [[ $(echo $s2 \| grep -c ":") = 0 ]]
	814	then
	815	s2b=""
	816	s2c=""
	817	else
[69]	818	s2b=`echo $s2 \| cut -d":" -f2 \| sed 's/:/ /g'`
	819	s2c=`echo $s2 \| cut -d":" -s -f3 \| sed 's/:/ /g'`
[1]	820	fi
[69]	821	s3=`echo $zeile \| cut -d" " -f3`
	822	s4=`echo $zeile \| cut -d" " -s -f4`
	823	s5=`echo $zeile \| cut -d" " -s -f5`
	824	s6=`echo $zeile \| cut -d" " -s -f6`
[1]	825
	826
[1289]	827	# STORE FILE CONNECTION, IF ACTIVATED BY ACTIVATION-STRING FROM
	828	# INPUT- OR OUTPUT-LIST.
	829	# VARIABLE S3 MAY CONTAIN A LIST OF ACTIVATION STRINGS (FIELD-SEPERATOR ":").
	830	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MACHINE AND THE FILE IS ONLY
	831	# LOCALLY REQUIRED ON THAT MACHINE (I.E. s2b = loc), THE FILE CONNECTION
	832	# IS NOT CHECKED AND STORED.
[1]	833	IFSALT="$IFS"; IFS="$IFS:"
	834	if [[ "$s2a" = in && ! ( $do_remote = true && ( "$s2b" = loc \|\| "$s2b" = locopt ) ) ]]
	835	then
	836	found=false
	837	for actual in $input_list
	838	do
	839	for formal in $s3
	840	do
	841	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
	842	done
	843	done
	844	if [[ $found = true ]]
	845	then
	846	(( iin = iin + 1 ))
	847	localin[$iin]=$s1; transin[$iin]=$s2b; actionin[$iin]=$s2c;
	848	typein[$iin]=$s3; pathin[$iin]=$s4; endin[$iin]=$s5;
	849	extin[$iin]=$s6
	850	fi
	851	elif [[ "$s2a" = out && ! ( $do_remote = true && "$s2b" = loc ) ]]
	852	then
	853	found=false
	854	for actual in $output_list
	855	do
	856	for formal in $s3
	857	do
	858	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
	859	done
	860	done
	861	if [[ $found = true ]]
	862	then
	863	(( iout = iout + 1 ))
	864	localout[$iout]=$s1; actionout[$iout]=$s2c; typeout[$iout]=$s3;
	865	pathout[$iout]=$s4; endout[$iout]=$s5; extout[$iout]=$s6
	866	fi
	867	elif [[ "$s2a" != in && "$s2a" != out ]]
	868	then
	869	printf "\n +++ I/O-attribute in configuration file $config_file has the invalid"
	870	printf "\n value \"$s2\". Only \"in\" and \"out\" are allowed!"
	871	locat=connect; exit
	872	fi
	873	IFS="$IFSALT"
	874	fi
	875	done < $config_file
	876
	877	else
	878
	879
[1289]	880	# EVALUATE THE CONFIGURATION-FILE BY FORTRAN-PROGRAM
[1]	881	[[ $silent = false ]] && printf "..."
[1289]	882	interpreted_config_file=.icf.$RANDOM
[1]	883
	884
[69]	885
[1289]	886	# PROVIDE VALUES OF ENVIRONMENT-VARIABLE FOR interpret_config VIA NAMELIST-FILE
[69]	887	cat > .mrun_environment << %%END%%
	888	&mrun_environment cond1 = '$cond1', cond2 = '$cond2',
	889	config_file = '$config_file', do_remote = '$do_remote',
	890	do_trace = '$do_trace', host = '$host',
	891	input_list = '$input_list', icf = '$interpreted_config_file',
	892	localhost = '$localhost', output_list = '$output_list' /
	893
	894	%%END%%
	895
[1289]	896	if [[ "$host" != $localhost ]]
[66]	897	then
[503]	898
[1289]	899	# REMOTE JOB FROM LOCAL HOST: JUST TAKE THE FIRST EXECUTABLE FOUND
	900	interpret_config_executable=`ls -1 ${PALM_BIN}/interpret_config*.x 2>/dev/null`
	901	if [[ $? != 0 ]]
[503]	902	then
[1289]	903	printf "\n\n +++ no interpret_config found"
	904	printf "\n run \"mbuild -u -h ...\" to generate utilities for this host"
	905	locat=interpret_config; exit
	906	fi
	907	interpret_config_executable=`echo $interpret_config_executable \| cut -d" " -f1`
	908	$interpret_config_executable
[503]	909
[1289]	910	else
[503]	911
[1289]	912	# CHECK, IF THERE IS AN EXECUTABLE FOR THE BLOCK
	913	if [[ ! -f ${PALM_BIN}/interpret_config${block}.x ]]
	914	then
	915	printf "\n\n +++ no interpret_config found for given block \"$cond1 $cond2\""
	916	printf "\n run \"mbuild -u -h ...\" to generate utilities for this block"
	917	locat=interpret_config; exit
[503]	918	else
[1289]	919	interpret_config${block}.x
	920	fi
[503]	921
[66]	922	fi
[71]	923	rm .mrun_environment
[1]	924
[71]	925
[1289]	926	# EXECUTE SHELL-COMMANDS GENERATED BY interpret_config WITHIN THIS SHELL
[1]	927	chmod u+x $interpreted_config_file
	928	export PATH=$PATH:.
	929	. $interpreted_config_file
[71]	930	rm $interpreted_config_file
[1]	931
[1099]	932	fi
[71]	933
[69]	934
[1289]	935	# VALUES OF MRUN-OPTIONS OVERWRITE THOSE FROM THE CONFIGURATION-FILE
[1099]	936	[[ $mrun_memory != 0 ]] && memory=$mrun_memory
	937	[[ "$mrun_group_number" != "none" ]] && group_number=$mrun_group_number
	938	[[ $mrun_cpumax != 0 ]] && cpumax=$mrun_cpumax
	939	[[ "$mrun_numprocs" != "" ]] && numprocs=$mrun_numprocs
	940	[[ "$max_par_io_str" != "" ]] && maximum_parallel_io_streams=$max_par_io_str
	941	[[ "$mrun_tasks_per_node" != "" ]] && tasks_per_node=$mrun_tasks_per_node
[1]	942
	943
[1289]	944	# ON THE LOCAL MACHINE, DETERMINE (FROM THE CONFIGURATION-FILE) THE PATH
	945	# FOR SOURCE-FILES TO BE COMPILED.
	946	# IN A BATCH-JOB, SOURCES (ROUTINES TO BE COMPILED) ARE COMPLETE ALREADY.
	947	# BEFORE MRUN IS CALLED IN THE JOB, SOURCES_COMPLETE = true IS ASSIGNED (SEE FURTHER BELOW).
[1]	948	if [[ "$SOURCES_COMPLETE" = "" ]]
	949	then
	950
[1289]	951	# FIRST CHECK, IF A GLOBAL SOURCE PATH (TO BE USED FOR ALL HOSTS)
	952	# HAS BEEN DEFINED
[1]	953	source_path=""
	954	line=""
	955	grep "%source_path" $config_file > tmp_mrun
	956	while read line
	957	do
	958	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	959	then
	960	if [[ "$(echo $line \| cut -d" " -f3)" = "" ]]
	961	then
	962	global_source_path=`echo $line \| cut -d" " -f2`
	963	fi
	964	fi
	965	done < tmp_mrun
	966
	967	line=""
	968	found=false
	969	grep " $localhost" $config_file \| grep "%source_path" > tmp_mrun
	970	while read line
	971	do
	972	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	973	then
	974	if [[ $found = true ]]
	975	then
	976	printf "\n\n +++ more than one source path found in configuration file"
	977	printf "\n for local host \"$localhost\" "
	978	locat=source_path; exit
	979	fi
	980	source_path=`echo $line \| cut -d" " -f2`
	981	found=true
	982	fi
	983	done < tmp_mrun
	984	rm tmp_mrun
	985
	986	if [[ "$source_path" = "" ]]
	987	then
	988	if [[ "$global_source_path" != "" ]]
	989	then
	990	source_path=$global_source_path
	991	else
	992	printf "\n\n +++ no source path found in configuration file"
	993	printf "\n for local host \"$localhost\" "
	994	locat=source_path; exit
	995	fi
	996	fi
	997	eval source_path=$source_path
	998
	999	if [[ ! -d $source_path ]]
	1000	then
	1001	printf "\n\n +++ source path \"$source_path\" on local host"
	1002	printf "\n \"$localhost\" does not exist"
	1003	locat=source_path; exit
	1004	fi
	1005
	1006	fi
	1007
	1008
[1289]	1009	# GET THE GLOBAL REVISION-NUMBER OF THE SVN-REPOSITORY
	1010	# (HANDED OVER TO RESTART-RUNS USING OPTION -G)
	1011	if [[ "$global_revision" = "" && $host != "ibmkisti" ]]
[78]	1012	then
	1013	global_revision=`svnversion $source_path 2>/dev/null`
	1014	global_revision="Rev: $global_revision"
	1015	fi
[1]	1016
[78]	1017
[1289]	1018	# ??? das darf doch eigentlich garnicht passieren, weil optionen config-datei uebersteuern ???
	1019	# CHECK AGAIN, IF EXECUTION SHALL BE DONE ON A REMOTE-HOST (BATCH-JOB).
	1020	# (HOST MAY HAVE CHANGED DUE TO SETTINGS IN THE CONFIGURATION-FILE)
[1]	1021	if [[ -n $host && "$host" != $localhost ]]
	1022	then
	1023	do_batch=true
	1024	do_remote=true
	1025	case $host in
[1289]	1026	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lccrayb\|lccrayh\|lccrayf\|lcflow\|lckyoto\|nech\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
[1]	1027	(*) printf "\n"
[83]	1028	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
	1029	printf "\n is not available"
[1]	1030	locat=nqs; (( iec = 0 )); exit;;
	1031	esac
	1032	else
	1033	host=$localhost
	1034	fi
	1035
	1036
[1289]	1037	# IN CASE OF PARALLEL EXECUTION, CHECK SOME SPECIFICATIONS CONCERNING PROCESSOR NUMBERS
[1]	1038	if [[ "$cond1" = parallel \|\| "$cond2" = parallel ]]
	1039	then
	1040
[1289]	1041	# CHECK, IF NUMBER OF CORES TO BE USED HAS BEEN GIVEN
[1]	1042	if [[ ! -n $numprocs ]]
	1043	then
	1044	printf "\n"
	1045	printf "\n +++ option \"-K parallel\" requires additional specification"
	1046	printf "\n of the number of processors to be used by"
	1047	printf "\n mrun-option \"-X\" or by environment-variable"
	1048	printf "\n \"numprocs\" in the configuration file"
	1049	locat=numprocs; (( iec = 0 )); exit
	1050	fi
	1051
[1289]	1052	# CHECK, IF THE NUMBER OF CORES PER NODE HAS BEEN GIVEN UND IF IT IS AN
	1053	# INTEGRAL DIVISOR OF THE TOTAL NUMBER OF CORES GIVEN BY OPTION -X
[1039]	1054	if [[ "$tasks_per_node" = "" && $host != lcflow && $host != lcxt5m ]]
[1]	1055	then
[759]	1056	printf "\n"
	1057	printf "\n +++ option \"-T\" (tasks per node) is missing"
	1058	printf "\n set -T option or define tasks_per_node in the config file"
	1059	locat=tasks_per_node; (( iec = 0 )); exit
	1060	fi
[1279]	1061
	1062	if (( numprocs < tasks_per_node ))
	1063	then
	1064	printf "\n"
	1065	printf "\n +++ tasks per node (-T) cannot exceed total number of processors (-X)"
	1066	printf "\n given values: -T $tasks_per_node -X $numprocs"
	1067	locat=tasks_per_node; (( iec = 0 )); exit
	1068	fi
	1069
[1039]	1070	if [[ $host != lcflow && $host != lcxt5m ]]
[759]	1071	then
[1279]	1072	(( nodes = numprocs / ( tasks_per_node * threads_per_task ) ))
[848]	1073	(( ival = $tasks_per_node ))
	1074	(( pes = numprocs ))
	1075	(( ii = pes / ival ))
[1279]	1076	(( remaining_pes = pes - ii * ival ))
	1077	if (( remaining_pes > 0 ))
[848]	1078	then
	1079	printf "\n"
[1279]	1080	printf "\n +++ WARNING: tasks per node (option \"-T\") is not an integral"
[848]	1081	printf "\n divisor of the total number of processors (option \"-X\")"
	1082	printf "\n values of this mrun-call: \"-T $tasks_per_node\" \"-X $numprocs\""
[1279]	1083	printf "\n One of the nodes is filled with $remaining_pes instead of $tasks_per_node tasks"
	1084	(( nodes = nodes + 1 ))
[848]	1085	fi
[1]	1086	fi
	1087
[759]	1088
[377]	1089	# SETTINGS FOR SUBJOB-COMMAND
[1]	1090	OOPT="-O $threads_per_task"
	1091
[1289]	1092	# SET THE TOTAL NUMBER OF NODES, REQUIRED FOR THE SUBJOB-COMMAND (SEE FURTHER BELOW)
[1]	1093	if [[ "$tasks_per_node" != "" ]]
	1094	then
[1119]	1095	TOPT="-T $tasks_per_node"
[1]	1096	fi
	1097
[1289]	1098	# CHECK node_usage FOR ALLOWED VALUES AND SET DEFAULT VALUE, IF NECESSARY
[1]	1099	if [[ $node_usage = default ]]
	1100	then
	1101	if [[ $host = ibms ]]
	1102	then
	1103	node_usage=shared
	1104	else
	1105	node_usage=not_shared
	1106	fi
	1107	fi
[181]	1108
[635]	1109	if [[ $node_usage != shared && $node_usage != not_shared && $node_usage != singlejob && "$(echo $node_usage \| cut -c1-3)" != "sla" ]]
[1]	1110	then
	1111	printf "\n"
	1112	printf "\n +++ node usage (option \"-n\") is only allowed to be set"
	1113	printf "\n \"shared\" or \"not_shared\""
	1114	locat=tasks_per_node; (( iec = 0 )); exit
	1115	fi
	1116
	1117	fi
	1118
[1289]	1119	# CHECK IF HOSTFILE EXISTS
[1]	1120	if [[ -n $hostfile ]]
	1121	then
	1122	if [[ ! -f $hostfile ]]
	1123	then
	1124	printf "\n"
	1125	printf "\n +++ hostfile \"$hostfile\" does not exist"
	1126	locat=hostfile; exit
	1127	fi
	1128	fi
	1129
	1130
[1289]	1131	# SET DEFAULT VALUE FOR THE MAXIMUM NUMBER OF PARALLEL IO STREAMS
[759]	1132	if [[ "$maximum_parallel_io_streams" = "" ]]
	1133	then
	1134	maximum_parallel_io_streams=$numprocs
	1135	fi
[1]	1136
[759]	1137
[1289]	1138	# SET PORT NUMBER OPTION FOR CALLS OF SSH/SCP, subjob AND batch_scp SCRIPTS
[1094]	1139	if [[ "$scp_port" != "" ]]
	1140	then
	1141	PORTOPT="-P $scp_port"
	1142	SSH_PORTOPT="-p $scp_port"
	1143	fi
	1144
	1145
[1289]	1146	# SET DEFAULT-QUEUE, IF NOT GIVEN
[1]	1147	if [[ $queue = none ]]
	1148	then
	1149	case $host in
[1184]	1150	(ibmh) queue=cluster;;
[693]	1151	(ibmkisti) queue=class.32plus;;
[1442]	1152	(lccrayb) queue=mpp1q;;
	1153	(lccrayh) queue=mpp1q;;
[1040]	1154	(lckiaps) queue=normal;;
[440]	1155	(lckyoto) queue=ph;;
[1099]	1156	(lckyuh) queue=fx-single;;
	1157	(lckyut) queue=cx-single;;
[635]	1158	(lctit) queue=S;;
[1]	1159	(nech) queue=none;;
	1160	(unics) queue=unics;;
	1161	esac
	1162	fi
	1163
	1164
[1289]	1165	# GENERATE FULL FILENAMES OF INPUT-FILES, INCLUDING THEIR PATH
	1166	# CHECK, IF INPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST)
[1]	1167	(( i = 0 ))
	1168	while (( i < iin ))
	1169	do
	1170	(( i = i + 1 ))
	1171	(( maxcycle = 0 ))
	1172
[1289]	1173	# GENERATE PATH AND FULL FILE NAME (then-BRANCH: FIXED FULL NAME IS GIVEN, I.E. THE
	1174	# FILE IDENTIFIER IS NOT PART OF THE FILENAME))
[1]	1175	if [[ "${actionin[$i]}" = di ]]
	1176	then
[1289]	1177	remotepathin[$i]=${pathin[$i]}/${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
	1178	# HOST ONLY
[1]	1179	eval filename=${pathin[$i]}/${endin[$i]}
	1180	else
[1289]	1181	remotepathin[$i]=${pathin[$i]}/${afname}${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
	1182	# HOST ONLY
[1]	1183	eval filename=${pathin[$i]}/${afname}${endin[$i]}
	1184	fi
[892]	1185	eval pathname=${pathin[$i]}
[1]	1186
[1289]	1187	# SAVE INPUT FILE NAME FOR PARAMETER FILE CHECK
[920]	1188	if [[ ("${transin[$i]}" = job) && (-f $filename) ]]
	1189	then
	1190	filename_input=$filename
	1191	fi
[892]	1192
[1289]	1193	# CHECK IF FILE EXISTS
[1]	1194	if [[ $(ls $filename* 2>&1 \| grep -c "not found") = 1 \|\| \
[746]	1195	$(ls $filename* 2>&1 \| grep -c "nicht gefunden") = 1 \|\| \
[1]	1196	$(ls $filename* 2>&1 \| grep -c "No such file") = 1 \|\| \
	1197	$(ls $filename* 2>&1 \| grep -c "does not exist") = 1 ]]
	1198	then
[1289]	1199
	1200	# FILES WITH ATTRIBUTE locopt ARE OPTIONAL. NO ABORT, IF THEY DO NOT EXIST.
[1]	1201	if [[ "${transin[$i]}" != "locopt" ]]
	1202	then
	1203	printf "\n\n +++ INPUT-file: "
	1204	if [[ "${extin[$i]}" = "" ]]
	1205	then
	1206	printf "\n $filename"
	1207	else
	1208	printf "\n $filename.${extin[$i]}"
	1209	fi
	1210	printf "\n does not exist\n"
	1211	locat=input; exit
	1212	else
	1213	transin[$i]="unavailable"
	1214	fi
	1215	else
	1216
[1289]	1217	# DETERMINE THE FILE'S CYCLE NUMBER
[1]	1218	ls -1 -d $filename > filelist 2>/dev/null
	1219	ls -1 -d $filename.* >> filelist 2>/dev/null
	1220	while read zeile
	1221	do
[1101]	1222	cycle=$(echo $zeile \| cut -f2 -d".")
[1]	1223	if [[ "$cycle" = "$zeile" ]]
	1224	then
	1225	(( icycle = 0 ))
	1226	elif [[ "$cycle" = "${extin[$i]}" ]]
	1227	then
	1228	(( icycle = 0 ))
	1229	else
	1230	(( icycle = $cycle ))
	1231	fi
	1232	if (( icycle > maxcycle ))
	1233	then
	1234	(( maxcycle = icycle ))
	1235	file_to_be_used=$zeile
	1236	fi
	1237	done <filelist
	1238	rm filelist
	1239
[1289]	1240	# APPEND CYCLE NUMBER TO FILENAME
[1]	1241	if (( maxcycle > 0 ))
	1242	then
	1243	if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]]
	1244	then
	1245	filename=${filename}.$maxcycle.${extin[$i]}
	1246	else
	1247	filename=${filename}.$maxcycle
	1248	fi
	1249	else
	1250	if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]]
	1251	then
	1252	filename=${filename}.${extin[$i]}
	1253	fi
	1254	fi
	1255
[1289]	1256	# STORE FILENAME WITHOUT PATH BUT WITH CYCLE NUMBER,
	1257	# BECAUSE IT MIGHT BE REQUIRED LATER TO RESTORE THE FILE FROM AN ARCHIVE-SYSTEM
[1]	1258	absnamein[$i]=$filename
	1259	if (( maxcycle > 0 ))
	1260	then
	1261	if [[ "${actionin[$i]}" = di ]]
	1262	then
	1263	frelin[$i]=${endin[$i]}.$maxcycle
	1264	else
	1265	frelin[$i]=${afname}${endin[$i]}.$maxcycle
	1266	fi
	1267	else
	1268	if [[ "${actionin[$i]}" = di ]]
	1269	then
	1270	frelin[$i]=${endin[$i]}
	1271	else
	1272	frelin[$i]=${afname}${endin[$i]}
	1273	fi
	1274	fi
	1275
	1276	fi
	1277	done
[920]	1278
[1289]	1279	# GENERATE FULL FILENAMES OF OUTPUT-FILES (WITHOUT $ OR ~),
	1280	# CHECK, IF OUTPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST),
	1281	# OR, IN CASE THAT FILE DOES NOT EXIST, CHECK, IF IT CAN BE CREATED
	1282	# THESE ACTIONS ARE NOT CARRIED OUT, IF FILES SHALL BE TRASFERRED FROM THE REMOTE TO
	1283	# THE LOCAL HOST (BECAUSE THEIR IS NO DIRECT ACCESS TO THE LOCAL DIRECTORIES FROM THE
	1284	# REMOTE HOST)
[1]	1285	(( i = 0 ))
	1286	while (( i < iout ))
	1287	do
	1288	(( i = i + 1 ))
	1289	if [[ ! ( $fromhost != $localhost && ( "${actionout[$i]}" = tr \|\| "${actionout[$i]}" = tra \|\| "${actionout[$i]}" = trpe ) ) ]]
	1290	then
[260]	1291	if [[ "${actionout[$i]}" = tr ]]
[1]	1292	then
	1293	actionout[$i]=""
[260]	1294	elif [[ "${actionout[$i]}" = trpe ]]
	1295	then
	1296	actionout[$i]=pe
[1]	1297	elif [[ "${actionout[$i]}" = tra ]]
	1298	then
	1299	actionout[$i]=a
	1300	fi
	1301	(( maxcycle = 0 ))
	1302	eval filename=${pathout[$i]}/${fname}${endout[$i]}
	1303	eval catalogname=${pathout[$i]}
	1304	if [[ $(ls $filename* 2>&1 \| grep -c "not found") = 1 \|\| \
[746]	1305	$(ls $filename* 2>&1 \| grep -c "nicht gefunden") = 1 \|\| \
[1]	1306	$(ls $filename* 2>&1 \| grep -c "No such file") = 1 \|\| \
	1307	$(ls $filename* 2>&1 \| grep -c "does not exist") = 1 ]]
	1308	then
	1309
[1289]	1310	# IF OUTPUT-FILE DOES NOT EXIST CHECK, IF IT CAN BE CREATED
[1]	1311	if cat /dev/null > $filename
	1312	then
	1313	rm $filename
	1314	else
	1315
[1289]	1316	# CHECK, IF THE DIRECTORY WHERE FILE SHALL BE COPIED TO EXISTS
	1317	# IF IT DOES NOT EXIST, TRY TO CREATE IT
[1]	1318	if [[ ! -d $catalogname ]]
	1319	then
	1320	if mkdir -p $catalogname
	1321	then
	1322	printf "\n\n *** directory:"
	1323	printf "\n $catalogname"
	1324	printf "\n was created\n"
	1325	else
	1326	printf "\n\n +++ OUTPUT-file:"
	1327	printf "\n $filename"
	1328	printf "\n cannot be created, because directory does not exist"
	1329	printf "\n and cannot be created either"
	1330	printf "\n"
	1331	locat=output ; exit
	1332	fi 2>/dev/null
	1333	else
	1334	printf "\n\n +++ OUTPUT-file:"
	1335	printf "\n $filename"
	1336	printf "\n cannot be created, although directory exists"
	1337	printf "\n"
	1338	locat=output ; exit
	1339	fi
	1340	fi 2>/dev/null
	1341	else
	1342
[1289]	1343	# DETERMINE THE CYCLE NUMBER
[1]	1344	ls -1 -d $filename > filelist 2>/dev/null
	1345	ls -1 -d $filename.* >> filelist 2>/dev/null
	1346	while read zeile
	1347	do
[1101]	1348	cycle=$(echo $zeile \| cut -f2 -d".")
[1]	1349	if [[ "$cycle" = "$zeile" \|\| "$cycle" = ${extout[$i]} ]]
	1350	then
	1351	(( icycle = 1 ))
	1352	else
	1353	(( icycle = $cycle + 1 ))
	1354	fi
	1355	if (( icycle > maxcycle ))
	1356	then
	1357	(( maxcycle = icycle ))
	1358	fi
	1359	done <filelist
	1360	rm filelist
	1361	fi
	1362
[1289]	1363	# APPEND CYCLE NUMBER TO FILENAME AND CHECK, IF FILE CAN BE CREATED
	1364	# IN CASE OF FILE-APPEND, FILE MUST BE APPENDED TO THE ONE WITH HIGHEST CYCLE NUMBER
[1]	1365	if [[ "${actionout[$i]}" != a ]]
	1366	then
	1367	if (( maxcycle > 0 ))
	1368	then
	1369	filename=${filename}.$maxcycle
	1370	if cat /dev/null > $filename
	1371	then
	1372	rm $filename
	1373	else
	1374	printf "\n +++ OUTPUT-file:"
	1375	printf "\n $filename"
	1376	printf "\n cannot be created"
	1377	locat=output ; exit
	1378	fi
	1379	fi
	1380	else
	1381	(( maxcycle = maxcycle - 1 ))
	1382	if (( maxcycle > 0 ))
	1383	then
	1384	filename=${filename}.$maxcycle
	1385	fi
	1386	fi
	1387
[1289]	1388	# STORE FILENAME WITHOUT PATH BUT WITH CYCLE NUMBER,
	1389	# BECAUSE IT MIGHT BE REQUIRED LATER TO STORE THE FILE ON AN ARCHIVE-SYSTEM
	1390	# OR TO PUT THIS FILENAME ON FILE OUTPUT_FILE_CONNECTIONS
[1]	1391	pathout[$i]=$filename
	1392	if (( maxcycle > 0 ))
	1393	then
	1394	frelout[$i]=${fname}${endout[$i]}.$maxcycle
	1395	else
	1396	frelout[$i]=${fname}${endout[$i]}
	1397	fi
	1398
	1399	fi
	1400	done
	1401
	1402
[1289]	1403	# THE DVR-PACKAGE REQUIRES ITS OWN LIBRARY
[83]	1404	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
	1405	then
[260]	1406	if [[ "$dvr_inc" = "" ]]
[83]	1407	then
[260]	1408	printf "\n\n +++ no value for \"dvr_inc\" given in configuration file"
[83]	1409	printf "\n This is required for the dvrp_graphics package.\n"
[260]	1410	locat=dvr; exit
[83]	1411	fi
[260]	1412	if [[ "$dvr_lib" = "" ]]
[83]	1413	then
[260]	1414	printf "\n\n +++ no value for \"dvr_lib\" given in configuration file"
[83]	1415	printf "\n This is required for the dvrp_graphics package.\n"
[260]	1416	locat=dvr; exit
[83]	1417	fi
	1418	fi
	1419
	1420
[1289]	1421	# CHECK, WETHER A MAIN PROGRAM OR AN EXECUTABLE HAVE BEEN DECLARED.
	1422	# EXECUTABLES DO NOT NEED TO BE COMPILED.
[1]	1423	if [[ "$mainprog" = "" && "$executable" = "" ]]
	1424	then
	1425	printf "\n +++ neither main program nor executable defined"
	1426	locat=source; exit
	1427	elif [[ "$mainprog" != "" && "$executable" != "" ]]
	1428	then
	1429	printf "\n +++ main program as well as executable defined"
	1430	locat=source; exit
	1431	elif [[ "$mainprog" = "" && "$executable" != "" ]]
	1432	then
	1433	do_compile=false
	1434	fi
	1435
	1436
[1289]	1437	# CREATE SOURCE-DIRECTORY TO COLLECT ROUTINES TO BE COMPILED.
	1438	# LATER THE MRUN-SCRIPT AND CONFIGURATION-FILE WILL ALSO BE COPIED TO THIS DIRECTORY.
[193]	1439	if [[ $restart_run != true && "$SOURCES_COMPLETE" = "" ]]
[191]	1440	then
	1441	rm -rf SOURCES_FOR_RUN_$fname
	1442	mkdir SOURCES_FOR_RUN_$fname
	1443	fi
	1444
	1445
[1289]	1446	# COLLECT ALL ROUTINES TO BE COMPILED
	1447	# THIS IS NOT REQUIRED WITHIN BATCH-JOBS, BECAUSE ROUTINES HAVE ALREADY BEEN COLLECTED
	1448	# BY THE MRUN-CALL WHICH CREATED THE BATCH-JOB.
[1]	1449	if [[ $do_compile = true && "$SOURCES_COMPLETE" = "" ]]
	1450	then
	1451
[5]	1452	[[ "$source_list" = LM ]] && source_list=LOCALLY_MODIFIED
[1]	1453
[838]	1454	if [[ "$source_list" = LOCALLY_MODIFIED ]]
[1]	1455	then
	1456
[1289]	1457	# DETERMINE MODIFIED FILES OF THE SVN WORKING COPY
[5]	1458	source_list=""
	1459	cd $source_path
	1460
	1461
[1289]	1462	# CHECK, IF DIRECTORY IS UNDER SVN CONTROL
[5]	1463	if [[ ! -d .svn ]]
	1464	then
	1465	printf "\n\n +++ source directory"
	1466	printf "\n \"$source_path\" "
	1467	printf "\n is not under control of \"subversion\"."
[306]	1468	printf "\n Please do not use mrun-option \"-s LOCALLY_MODIFIED\"\n"
[5]	1469	fi
	1470
	1471
[1289]	1472	# LIST ALL MODIFIED SOURCE CODE FILES
[5]	1473	Filenames=""
[69]	1474	svn status > tmp_mrun
	1475	while read line
[5]	1476	do
	1477	firstc=`echo $line \| cut -c1`
	1478	if [[ $firstc = M \|\| $firstc = "?" ]]
	1479	then
	1480	Name=`echo "$line" \| cut -c8-`
	1481	extension=`echo $Name \| cut -d. -f2`
	1482	if [[ "$extension" = f90 \|\| "$extension" = F90 \|\| "$extension" = f \|\| "$extension" = F \|\| "$extension" = c ]]
	1483	then
	1484	Filenames="$Filenames "$Name
	1485	fi
	1486	fi
[69]	1487	done < tmp_mrun
[5]	1488
	1489
[1289]	1490	# COPY FILES TO SOURCES_FOR_RUN_...
[5]	1491	for dateiname in $Filenames
	1492	do
	1493	cp $dateiname $working_directory/SOURCES_FOR_RUN_$fname
	1494	source_list=$source_list"$dateiname "
	1495	done
	1496
	1497	cd - > /dev/null
	1498
	1499
[1289]	1500	# COPY FILES GIVEN BY OPTION -s TO DIRECTORY SOURCES_FOR_RUN_...
	1501	# AUTOMATIC RESTART RUNS JUST ACCESS THE DIRECTORY CREATED BY THE INITIAL RUN
[5]	1502	elif [[ "$source_list" != "" && $restart_run != true ]]
[1]	1503	then
	1504
	1505	cd $source_path
	1506
	1507	for filename in $source_list
	1508	do
	1509
[1289]	1510	# SOURCE CODE FILE IS NOT ALLOWED TO INCLUDE PATH
[1103]	1511	if [[ $(echo $filename \| grep -c "/") != 0 ]]
[1]	1512	then
	1513	printf "\n +++ source code file: $filename"
	1514	printf "\n must not contain (\"/\") "
	1515	locat=source; exit
	1516	fi
	1517
	1518	if [[ ! -f $filename ]]
	1519	then
	1520	printf "\n +++ source code file: $filename"
	1521	printf "\n does not exist"
	1522	locat=source; exit
	1523	else
	1524	cp $filename $working_directory/SOURCES_FOR_RUN_$fname
	1525	fi
	1526
	1527	done
	1528
	1529	cd - > /dev/null
	1530
	1531	fi
	1532
	1533
[1289]	1534	# CHECK, IF A MAIN PROGRAM EXISTS AND IF IT IS PART OF THE LIST OF FILES
	1535	# TO BE COMPILED. IF NOT, ADD IT TO THE LIST.
[5]	1536	if [[ $restart_run != true ]]
[1]	1537	then
	1538
	1539	if [[ ! -f "$source_path/$mainprog" ]]
	1540	then
	1541	printf "\n\n +++ main program: $mainprog"
	1542	printf "\n does not exist in source directory"
	1543	printf "\n \"$source_path\"\n"
	1544	locat=source; exit
	1545	else
	1546	if [[ $(echo $source_list \| grep -c $mainprog) = 0 ]]
	1547	then
	1548	cp $source_path/$mainprog SOURCES_FOR_RUN_$fname
	1549	source_list=${mainprog}" $source_list"
	1550	fi
	1551	fi
	1552	fi
	1553
	1554
[1289]	1555	# CHECK, IF MAKEFILE EXISTS AND COPY IT TO THE SOURCES_FOR_RUN... DIRECTORY
	1556	# NOT REQUIRED FOR RESTART RUNS, SOURCES_FOR_RUN... HAS BEEN CREATED BY THE INITIAL RUN
[211]	1557	if [[ "$restart_run" != true ]]
	1558	then
	1559	[[ "$makefile" = "" ]] && makefile=$source_path/Makefile
	1560	if [[ ! -f $makefile ]]
	1561	then
	1562	printf "\n +++ file \"$makefile\" does not exist"
	1563	locat=make; exit
	1564	else
	1565	cp $makefile SOURCES_FOR_RUN_$fname/Makefile
	1566	fi
	1567	fi
	1568
	1569
[1289]	1570	# COPY FILES FROM OPTIONAL SOURCE PATH GIVEN IN THE CONFIGURATION FILE
[5]	1571	if [[ $restart_run != true && "$add_source_path" != "" ]]
[1]	1572	then
	1573
[1289]	1574	# DOES THE DIRECTORY EXIST?
[1]	1575	if [[ ! -d $add_source_path ]]
	1576	then
	1577	printf "\n\n +++ WARNING: additional source code directory"
	1578	printf "\n \"$add_source_path\" "
	1579	printf "\n does not exist or is not a directory."
	1580	printf "\n No source code will be used from this directory!\n"
	1581	add_source_path=""
[931]	1582	if [[ $silent == false ]]
	1583	then
	1584	sleep 3
	1585	fi
[1]	1586	else
	1587
	1588	cd $add_source_path
[211]	1589	found=false
[1]	1590
	1591	Names=$(ls -1 *.f90 2>&1)
	1592	[[ $(echo $Names \| grep -c '*.f90') = 0 ]] && AddFilenames="$Names"
	1593	Names=$(ls -1 *.F90 2>&1)
	1594	[[ $(echo $Names \| grep -c '*.F90') = 0 ]] && AddFilenames="$AddFilenames $Names"
	1595	Names=$(ls -1 *.F 2>&1)
	1596	[[ $(echo $Names \| grep -c '*.F') = 0 ]] && AddFilenames="$AddFilenames $Names"
	1597	Names=$(ls -1 *.f 2>&1)
	1598	[[ $(echo $Names \| grep -c '*.f') = 0 ]] && AddFilenames="$AddFilenames $Names"
	1599	Names=$(ls -1 *.c 2>&1)
	1600	[[ $(echo $Names \| grep -c '*.c') = 0 ]] && AddFilenames="$AddFilenames $Names"
	1601
	1602	cd - > /dev/null
	1603	cd SOURCES_FOR_RUN_$fname
	1604
[211]	1605	# COPY MAKEFILE IF EXISTING
	1606	if [[ -f $add_source_path/Makefile ]]
	1607	then
	1608	printf "\n\n *** user Makefile from directory"
	1609	printf "\n \"$add_source_path\" is used \n"
[931]	1610	if [[ $silent == false ]]
	1611	then
	1612	sleep 1
	1613	fi
[211]	1614	cp $add_source_path/Makefile .
	1615	fi
	1616
[1]	1617	for dateiname in $AddFilenames
	1618	do
	1619	if [[ -f $dateiname ]]
	1620	then
	1621	printf "\n +++ source code file \"$dateiname\" found in additional"
	1622	printf "\n source code directory \"$add_source_path\" "
[211]	1623	printf "\n but was also given with option \"-s\" which means that it should be taken"
	1624	printf "\n from directory \"$source_path\"."
[1]	1625	locat=source; exit
	1626	fi
	1627
	1628	cp $add_source_path/$dateiname .
	1629	source_list="$source_list $dateiname"
	1630
[211]	1631	# CHECK IF FILE IS CONTAINED IN MAKEFILE
	1632	if [[ $(grep -c $dateiname Makefile) = 0 ]]
	1633	then
	1634	printf "\n\n +++ user file \"$dateiname\" "
	1635	printf "\n is not listed in Makefile \n"
	1636	locat=source; exit
	1637	else
	1638
	1639	if [[ $found = false ]]
[1]	1640	then
[211]	1641	found=true
	1642	printf "\n\n *** following user file(s) added to the"
	1643	printf " files to be translated:\n "
[1]	1644	fi
[211]	1645	printf "$dateiname "
[931]	1646	if [[ $silent == false ]]
	1647	then
	1648	sleep 0.5
	1649	fi
	1650
[1]	1651	fi
	1652	done
[211]	1653	[[ $found = true ]] && printf "\n"
[1]	1654	cd - > /dev/null
	1655	fi
	1656	fi
	1657
	1658
[1289]	1659	# ADD ALL ROUTINES BELONGING TO SOFTWARE PACKAGES (GIVEN BY OPTION -p)
	1660	# TO THE LIST OF FILES TO BE COMPILED
[5]	1661	if [[ $restart_run != true && -n $package_list ]]
[1]	1662	then
	1663
	1664	cd $source_path
	1665
	1666	for package in $package_list
	1667	do
	1668
	1669	[[ $package = "dvrp_graphics+1PE" ]] && package=dvrp_graphics
	1670
[1289]	1671	# DETERMINE FILES BELONGING TO THE PACKAGE
	1672	# ERROR MESSAGE ARE REDIRECTED TO /dev/null, BECAUSE WILDCARD (*) ALSO GIVES
	1673	# THE NAME OF THE DIRECTORY
[1]	1674	package_source_list=`grep "defined( __$package " * 2>/dev/null \| cut -f1 -d:`
	1675
	1676
[1289]	1677	# ADD THESE FILES TO THE LIST OF FILES TO BE COMPILED,
	1678	# IF THEY ARE NOT ALREADY PART OF THE LIST
[1]	1679	for source_list_name in $package_source_list
	1680	do
	1681	if [[ $(echo $source_list \| grep -c $source_list_name) = 0 ]]
	1682	then
	1683
[1289]	1684	# ONLY TAKE FILES WITH VALID SUFFIX
[1]	1685	ending=`echo $source_list_name \| cut -f2 -d.`
	1686	if [[ "$ending" = f90 \|\| "$ending" = F90 \|\| "$ending" = f \|\| "$ending" = F \|\| "$ending" = c ]]
	1687	then
	1688	cp $source_list_name $working_directory/SOURCES_FOR_RUN_$fname
	1689	source_list="$source_list $source_list_name"
	1690	fi
	1691	fi
	1692	done
	1693	done
	1694
	1695	cd - > /dev/null
	1696	fi
	1697
	1698	fi # do_compile=true
	1699
	1700
[1289]	1701	# IF SOURCE CODE IS TO BE COMPILED, DO SOME MORE CHECKS
	1702	# AND SET PRE-PROCESSOR DIRECTIVES
[1199]	1703	if [[ $do_compile = true \|\| $create_executable_for_batch = true ]]
[1]	1704	then
	1705
[1289]	1706	# SET PREPROCESSOR-DIRECTIVES TO SELECT OPERATING SYSTEM SPECIFIC CODE
[1]	1707	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
	1708	then
[82]	1709	cpp_options="${cpp_options},-D__ibm=__ibm"
[1]	1710	elif [[ $(echo $localhost \| cut -c1-3) = nec ]]
	1711	then
[82]	1712	cpp_options="$cpp_options -D__nec"
	1713	elif [[ $(echo $localhost \| cut -c1-2) = lc ]]
	1714	then
	1715	cpp_options="$cpp_options -D__lc"
[1]	1716	else
[82]	1717	cpp_options="$cpp_options -D__$localhost"
[1]	1718	fi
[83]	1719
[1289]	1720	# SET DIRECTIVES GIVEN BY OPTION -K (E.G. parallel)
[1]	1721	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
	1722	then
[82]	1723	[[ -n $cond1 ]] && cpp_options="${cpp_options},-D__$cond1=__$cond1"
	1724	[[ -n $cond2 ]] && cpp_options="${cpp_options},-D__$cond2=__$cond2"
[1]	1725	else
[82]	1726	[[ -n $cond1 ]] && cpp_options="$cpp_options -D__$cond1"
	1727	[[ -n $cond2 ]] && cpp_options="$cpp_options -D__$cond2"
[1]	1728	fi
[83]	1729
[1289]	1730	# SET DIRECTIVES FOR ACTIVATING SOFTWARE-PACKAGES (OPTION -p)
[1]	1731	if [[ -n $package_list ]]
	1732	then
	1733	for package in $package_list
	1734	do
	1735	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
	1736	then
	1737	if [[ $package != "dvrp_graphics+1PE" ]]
	1738	then
[82]	1739	cpp_options="${cpp_options},-D__$package=__$package"
[1]	1740	else
[82]	1741	cpp_options="${cpp_options},-D__dvrp_graphics=__dvrp_graphics"
[1]	1742	export use_seperate_pe_for_dvrp_output=true
	1743	fi
	1744	else
	1745	if [[ $package != "dvrp_graphics+1PE" ]]
	1746	then
[82]	1747	cpp_options="$cpp_options -D__$package"
[1]	1748	else
[82]	1749	cpp_options="$cpp_options -D__dvrp_graphics"
[1]	1750	export use_seperate_pe_for_dvrp_output=true
	1751	fi
	1752	fi
	1753	done
	1754	fi
[83]	1755
[1289]	1756	# SET DIRECTIVES GIVEN BY OPTION -D
[1]	1757	if [[ -n $cpp_opts ]]
	1758	then
	1759	for popts in $cpp_opts
	1760	do
[82]	1761	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
	1762	then
	1763	cpp_options="${cpp_options},-D__$popts=__$popts"
	1764	else
	1765	cpp_options="$cpp_options -D__$popts"
	1766	fi
[1]	1767	done
	1768	fi
	1769
	1770	else
	1771
	1772
[1289]	1773	# FOR LOCAL RUNS CHECK AGAIN, IF EXECUTABLE EXISTS
[1]	1774	if [[ $do_remote = false ]]
	1775	then
	1776	if [[ ! -f $executable ]]
	1777	then
	1778	printf "\n +++ executable file: $executable"
	1779	printf "\n does not exist"
	1780	locat=executable; exit
	1781	fi
	1782	fi
	1783	fi
	1784
	1785
[1289]	1786	# DETERMINE THE JOB MODE
[1491]	1787	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
[1]	1788	then
[1491]	1789	if [[ "$LOADLBATCH" = yes ]]
	1790	then
	1791	batch_job=.TRUE.
	1792	jobmo=BATCH
	1793	else
	1794	batch_job=.FALSE.
	1795	jobmo=INTERACTIVE
	1796	fi
[1]	1797	else
[1491]	1798	if [[ "$ENVIRONMENT" = BATCH ]]
	1799	then
	1800	batch_job=.TRUE.
	1801	jobmo=BATCH
	1802	else
	1803	batch_job=.FALSE.
	1804	jobmo=INTERACTIVE
	1805	fi
[1]	1806	fi
	1807
[1289]	1808	# NO INTERACTIVE RUNS ALLOWED ON LCTIT
[635]	1809	if [[ $host = lctit && $jobmo = INTERACTIVE && $do_batch = false ]]
	1810	then
	1811	printf "\n +++ no interactive runs allowed on host \"$host\" "
	1812	printf "\n please submit batch job using mrun option \"-b\" \n"
	1813	locat=normal; exit
	1814	fi
	1815
	1816
[1289]	1817	# CHECK, IF USER DEFINED A COMPILER
[1]	1818	if [[ "$compiler_name" = "" ]]
	1819	then
[82]	1820
[220]	1821	printf "\n +++ no compiler specified for \"$host $cond1 $cond2\""
[82]	1822	locat=compiler_name; exit
	1823
[1]	1824	fi
	1825
	1826
[1289]	1827	# DETERMINE THE NAME OF MRUN'S TEMPORARY WORKING DIRECTORY
[1]	1828	kennung=$RANDOM
	1829	if [[ "$tmp_user_catalog" = "" ]]
	1830	then
[312]	1831	if [[ $localhost = ibmh ]]
[1]	1832	then
[312]	1833	tmp_user_catalog=$SCRATCH
[1]	1834	elif [[ $localhost = nech ]]
	1835	then
	1836	tmp_user_catalog=$WRKSHR
	1837	else
	1838	tmp_user_catalog=/tmp
	1839	fi
	1840	fi
	1841	TEMPDIR=$tmp_user_catalog/${usern}.$kennung
	1842
	1843
[1289]	1844	# DETERMINE THE NAME OF THE DIRECTORY WHICH IS USED TO TEMPORARILY STORE DATA FOR RESTART RUNS
[1]	1845	if [[ "$tmp_data_catalog" = "" ]]
	1846	then
[622]	1847	if [[ $localhost = nech ]]
[1]	1848	then
	1849	tmp_data_catalog=$WRKSHR/mrun_restart_data
	1850	else
	1851	tmp_data_catalog=/tmp/mrun_restart_data
	1852	fi
	1853	fi
	1854
	1855
[1289]	1856	# IN CASE OF LOCAL RUNS REPLACE ENVIRONMENT VARIABLES BY THEIR VALUES
[1199]	1857	if [[ $do_remote = false && $do_compile = true \|\| $create_executable_for_batch = true ]]
[1]	1858	then
	1859	eval fopts=\"$fopts\"
	1860	eval lopts=\"$lopts\"
	1861	fi
	1862
	1863
	1864
[1289]	1865	# DETERMINE COMPILE- AND LINK-OPTIONS
[1210]	1866	fopts="$fopts $netcdf_inc $fftw_inc $dvr_inc"
	1867	lopts="$lopts $netcdf_lib $fftw_lib $dvr_lib"
[1]	1868	ROPTS="$ropts"
[1289]	1869	# 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]	1870	# then
[1]	1871	XOPT="-X $numprocs"
[1090]	1872	# fi
[1]	1873
	1874
	1875
[1289]	1876	# CHECK THE CPU-LIMIT. IT MUST BE GIVEN FOR BATCH-JOBS AND IS COMMUNICATED TO THE
	1877	# EXECUTABLE VIA NAMELIST-PARAMETER cputime
[1]	1878	done=false
	1879	while [[ $done = false ]]
	1880	do
	1881	cputime=$cpumax
	1882	if (( $cputime == 0 ))
	1883	then
[246]	1884	if [[ $do_batch = true ]]
	1885	then
	1886	printf "\n +++ cpu-time is undefined"
	1887	printf "\n >>> Please type CPU-time in seconds as INTEGER:"
	1888	printf "\n >>> "
	1889	read cputime 1>/dev/null 2>&1
	1890	else
	1891	cputime=10000000 # NO CPU LIMIT FOR INTERACTIVE RUNS
	1892	fi
[1]	1893	else
	1894	done=true
	1895	fi
	1896	cpumax=$cputime
	1897	done
	1898
	1899	(( minuten = cputime / 60 ))
	1900	(( sekunden = cputime - minuten * 60 ))
	1901
	1902
[1289]	1903	# CHECK THE MEMORY DEMAND
[1]	1904	if [[ $do_batch = true ]]
	1905	then
	1906	done=false
	1907	while [[ $done = false ]]
	1908	do
	1909	if (( memory == 0 ))
	1910	then
	1911	printf "\n +++ memory demand is undefined"
	1912	printf "\n >>> Please type memory in MByte per process as INTEGER:"
	1913	printf "\n >>> "
	1914	read memory 1>/dev/null 2>&1
	1915	else
	1916	done=true
	1917	fi
	1918	done
	1919	fi
	1920
	1921
[1289]	1922	# IN CASE OF REMOTE-JOBS CHECK, IF A USERNAME FOR THE REMOTE HOST IS GIVEN
[1]	1923	if [[ $do_remote = true && -z $remote_username ]]
	1924	then
	1925	while [[ -z $remote_username ]]
	1926	do
	1927	printf "\n +++ username on remote host \"$host\" is undefined"
	1928	printf "\n >>> Please type username:"
	1929	printf "\n >>> "
	1930	read remote_username
	1931	done
	1932	mc="$mc -u$remote_username"
	1933	fi
	1934
[892]	1935	# CHECK FOR INITIAL COMMANDS AFTER LOGIN
	1936	if [[ "$login_init_cmd" != "" ]]
	1937	then
	1938	export init_cmds="${login_init_cmd};"
	1939	fi
[221]	1940
[892]	1941
[1289]	1942	# SET THE MODULE-LOAD COMMAD AND EXPORT IT FOR subjob
[493]	1943	if [[ "$modules" != "" ]]
	1944	then
[678]	1945	if [[ $host = lctit ]]
	1946	then
	1947	export module_calls=". $modules"
	1948	else
	1949	export module_calls="module load ${modules};"
	1950	fi
[493]	1951	fi
	1952
	1953
[555]	1954
[1289]	1955	# OUTPUT OF THE MRUN-HEADER
[1]	1956	calltime=$(date)
	1957	printf "\n"
[1101]	1958	printf "#------------------------------------------------------------------------# \n"
	1959	printf "\| %-35s%35s \| \n" "$version" "$calltime"
	1960	printf "\| \| \n"
[1]	1961	spalte1="called on:"; spalte2=$localhost_realname
[1101]	1962	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1289]	1963	if [[ $do_remote = true ]]
[1]	1964	then
[1289]	1965	spalte1="execution on:"; spalte2="$host (username: $remote_username)"
[1]	1966	else
[1289]	1967	spalte1="execution on:"; spalte2="$host ($localhost_realname)"
[1]	1968	fi
[1101]	1969	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	1970	if [[ -n $numprocs ]]
	1971	then
[1106]	1972	if [[ $run_coupled_model = false ]]
	1973	then
	1974	spalte1="number of PEs:"; spalte2=$numprocs
	1975	else
	1976	spalte1="number of PEs:"; spalte2="$numprocs (atmosphere: $numprocs_atmos, ocean: $numprocs_ocean)"
	1977	fi
[1101]	1978	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	1979	fi
	1980	if [[ -n $tasks_per_node ]]
	1981	then
	1982	spalte1="tasks per node:"; spalte2="$tasks_per_node (number of nodes: $nodes)"
[1101]	1983	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1279]	1984	if (( remaining_pes > 0 ))
	1985	then
	1986	spalte1=" "; spalte2="one of the nodes only filled with $remaining_pes tasks"
	1987	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	1988	fi
[1]	1989	fi
[759]	1990	if [[ $maximum_parallel_io_streams != $numprocs ]]
	1991	then
	1992	spalte1="max par io streams:"; spalte2="$maximum_parallel_io_streams"
[1101]	1993	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[759]	1994	fi
[622]	1995	if [[ $use_openmp = true ]]
[1]	1996	then
	1997	spalte1="threads per task:"; spalte2="$threads_per_task"
[1101]	1998	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	1999	fi
[1101]	2000	printf "\| \| \n"
[1]	2001	if [[ $do_compile = true ]]
	2002	then
[475]	2003	if [[ "$mopts" != "" ]]
	2004	then
[1101]	2005	spalte1="make options:"; spalte2=$(echo "$mopts" \| cut -c-45)
	2006	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2007	zeile=$(echo "$mopts" \| cut -c46-)
[475]	2008	while [[ "$zeile" != "" ]]
	2009	do
	2010	spalte1=""
[1101]	2011	spalte2=$(echo "$zeile" \| cut -c-45)
	2012	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2013	zeile=$(echo "$zeile" \| cut -c46-)
[475]	2014	done
	2015	fi
	2016
[1101]	2017	spalte1="cpp directives:"; spalte2=$(echo "$cpp_options" \| cut -c-45)
	2018	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2019	zeile=$(echo "$cpp_options" \| cut -c46-)
[1]	2020	while [[ "$zeile" != "" ]]
	2021	do
	2022	spalte1=""
[1101]	2023	spalte2=$(echo "$zeile" \| cut -c-45)
	2024	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2025	zeile=$(echo "$zeile" \| cut -c46-)
[1]	2026	done
	2027
[1101]	2028	spalte1="compiler options:"; spalte2=$(echo "$fopts" \| cut -c-45)
	2029	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2030	zeile=$(echo "$fopts" \| cut -c46-)
[1]	2031	while [[ "$zeile" != "" ]]
	2032	do
	2033	spalte1=""
[1101]	2034	spalte2=$(echo "$zeile" \| cut -c-45)
	2035	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2036	zeile=$(echo "$zeile" \| cut -c46-)
[1]	2037	done
	2038
[1101]	2039	spalte1="linker options:"; spalte2=$(echo "$lopts" \| cut -c-45)
	2040	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2041	zeile=$(echo "$lopts" \| cut -c46-)
[1]	2042	while [[ "$zeile" != "" ]]
	2043	do
	2044	spalte1=""
[1101]	2045	spalte2=$(echo "$zeile" \| cut -c-45)
	2046	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2047	zeile=$(echo "$zeile" \| cut -c46-)
[1]	2048	done
	2049
[1101]	2050	spalte1="modules to be load:"; spalte2=$(echo "$modules" \| cut -c-45)
	2051	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2052	zeile=$(echo "$modules" \| cut -c46-)
[493]	2053	while [[ "$zeile" != "" ]]
	2054	do
	2055	spalte1=""
[1101]	2056	spalte2=$(echo "$zeile" \| cut -c-45)
	2057	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2058	zeile=$(echo "$zeile" \| cut -c46-)
[493]	2059	done
	2060
[1101]	2061	spalte1="main program:"; spalte2=$mainprog
	2062	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	2063	else
	2064	spalte1=executable:; spalte2=$executable
[1101]	2065	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	2066	fi
[1101]	2067	printf "\| \| \n"
	2068	spalte1="base name of files:"; spalte2=$fname
	2069	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	2070	if [[ $fname != $afname ]]
	2071	then
[1101]	2072	spalte1="base name of input files:"; spalte2=$afname
	2073	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	2074	fi
[1101]	2075	spalte1="INPUT control list:"; spalte2=$(echo $input_list)
	2076	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2077	spalte1="OUTPUT control list:"; spalte2=$(echo $output_list)
	2078	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	2079
[1106]	2080	if [[ "$ocean_file_appendix" = true ]]
	2081	then
	2082	printf "\| %-35s%-35s \| \n" "suffix \"_O\" is added to local files" " "
	2083	fi
	2084
[1]	2085	if [[ $do_batch = true \|\| "$LOADLBATCH" = yes ]]
	2086	then
	2087	spalte1="memory demand / PE":; spalte2="$memory MB"
[1101]	2088	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	2089	spalte1=CPU-time:; spalte2="$minuten:$sekunden"
[1101]	2090	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	2091	fi
	2092
	2093	if [[ $do_compile = true ]]
	2094	then
[1101]	2095	printf "\| \| \n"
	2096	printf "\| Files to be compiled: \| \n"
[1]	2097	zeile=$source_list
	2098	while [[ "$zeile" != "" ]]
	2099	do
[1101]	2100	linestart=$(echo $zeile \| cut -c-70)
	2101	printf "\| %-70s \| \n" "$linestart"
	2102	zeile=$(echo "$zeile" \| cut -c71-)
[1]	2103	done
	2104	fi
[1101]	2105	printf "#------------------------------------------------------------------------#"
[1]	2106
	2107
	2108
[1289]	2109	# OUTPUT OF FILE CONNECTIONS IN CASE OF TRACEBACK
[1]	2110	if [[ $do_trace = true ]]
	2111	then
	2112	(( i = 0 ))
	2113	while (( i < iin ))
	2114	do
	2115	(( i = i + 1 ))
	2116	if (( i == 1 ))
	2117	then
	2118	printf "\n\n >>> INPUT-file assignments:\n"
	2119	fi
	2120	printf "\n ${localin[$i]} : ${absnamein[$i]}"
	2121	done
	2122	(( i = 0 ))
	2123	while (( i < iout ))
	2124	do
	2125	(( i = i + 1 ))
	2126	if (( i == 1 ))
	2127	then
	2128	printf "\n\n >>> OUTPUT-file assignments:\n"
	2129	fi
	2130	printf "\n ${localout[$i]} : ${pathout[$i]}"
	2131	done
	2132	(( i = 0 ))
	2133	while (( i < iic ))
	2134	do
	2135	(( i = i + 1 ))
	2136	if (( i == 1 ))
	2137	then
	2138	printf "\n\n >>> INPUT-commands:\n"
	2139	fi
	2140	printf "\n ${in_command[$i]}"
	2141	done
	2142	(( i = 0 ))
	2143	while (( i < ioc ))
	2144	do
	2145	(( i = i + 1 ))
	2146	if (( i == 1 ))
	2147	then
	2148	printf "\n\n >>> OUTPUT-commands:\n"
	2149	fi
	2150	printf "\n ${out_command[$i]}"
	2151	done
	2152	fi
	2153
	2154
[1289]	2155	# QUERY FOR CONTINUE (ON LOCAL MACHINES ONLY)
[1]	2156	if [[ $remotecall = false && $silent = false && $jobmo != BATCH ]]
	2157	then
	2158	antwort=dummy
	2159	printf "\n\n"
[1101]	2160	printf " >>> everything o.k. (y/n) ? "
	2161	while read antwort
[1]	2162	do
[1101]	2163	if [[ "$antwort" != y && "$antwort" != Y && "$antwort" != n && "$antwort" != N ]]
	2164	then
	2165	printf " >>> everything o.k. (y/n) ? "
	2166	else
	2167	break
	2168	fi
[1]	2169	done
	2170	if [[ $antwort = n \|\| $antwort = N ]]
	2171	then
	2172	locat=user_abort; (( iec = 0 )); exit
	2173	fi
	2174	if [[ $do_batch = true ]]
	2175	then
	2176	printf " >>> batch-job will be created and submitted"
	2177	else
[1289]	2178	printf " >>> MRUN will now continue to execute on this machine"
[1]	2179	fi
	2180	fi
	2181
[841]	2182
[1101]	2183	# PERFORM PARAMETER FILE CHECK (COUPLED RUNS ARE NOT SUPPORTED YET)
	2184	# DEFINE VARIABLES FOR FREQUENTLY USED DIRECTORIES
[841]	2185	check_depository="${working_directory}/trunk/UTIL"
	2186	check_sources="${working_directory}/tmp_check_namelist_files"
[818]	2187	skip_check=false
[841]	2188
[1101]	2189	# CHECK IF NAMELIST_FILE_CHECK HAS BEEN COMPILED SUCCESSFULLY
[920]	2190	if [[ ! -f $check_depository/check_namelist_files.tar ]]
[841]	2191	then
[1101]	2192	skip_check=true
	2193	reason="run on remote host or parameter file check has not been compiled."
[920]	2194	fi
	2195	if [[ ! -f $PALM_BIN/check_namelist_files.x ]]
	2196	then
[1101]	2197	skip_check=true
	2198	reason="parameter file check has not been compiled."
[892]	2199	fi
[841]	2200
[1101]	2201	# CHECK FOR PARALLEL RUN; OTHERWISE SKIP CHECK
[892]	2202	if [[ "$cond1" != "parallel" && "$cond2" != "parallel" ]]
	2203	then
[1101]	2204	skip_check=true
	2205	reason="serial run."
[841]	2206	fi
	2207
[1101]	2208	# ONLY PERFORM CHECK IF -z OPTION IS NOT SET, NO RESTART RUN IS CARRIED OUT
	2209	# AND IF THE EXECUTION HOST IS THE LOCAL HOST
	2210	# ATTENTION: THIS ROUTINE DOES NOT WORK IF THE COMPILER ON THE LOCAL HOST
	2211	# DIFFERS FROM THE COMPILER ON THE REMOTE HOST
[892]	2212	if [[ $check_namelist_files == false ]]
[807]	2213	then
[1101]	2214	skip_check=true
	2215	reason="-z option set."
[815]	2216	fi
[892]	2217
	2218	if [[ $fromhost != $localhost ]]
[815]	2219	then
[1101]	2220	skip_check=true
	2221	reason="submitting host is local host."
[892]	2222	fi
[1]	2223
[892]	2224	if [[ $run_coupled_model == true ]]
	2225	then
	2226	skip_check=true
	2227	reason="coupled run."
	2228	fi
[1]	2229
[892]	2230	if [[ $restart_run == true ]]
	2231	then
	2232	skip_check=true
	2233	reason="restart run."
	2234	fi
[807]	2235
[1101]	2236	# SKIP CHECK IN CASE OF RESTART RUN: CHECK WHETHER THE LAST CHAR IS "f" IN PARIN
[1122]	2237	(( last_char_int = `echo $filename_input \| wc -c` - 1 ))
	2238	last_char=`echo $filename_input \| cut -c $last_char_int`
[892]	2239	if [[ "$last_char" == "f" ]]
	2240	then
	2241	skip_check=true
[1069]	2242	reason="restart run."
[892]	2243	fi
[807]	2244
[892]	2245	if [[ $skip_check == false ]]
	2246	then
	2247	tmp_check=${working_directory}/tmp_check
[841]	2248
[1241]	2249	# GET TOPOGRAPHY PARAMETER FILE SUFFIX (USUALLY "_TOPO"). THIS FILE IS
[1101]	2250	# NOT NECESSARILY REQUIRED
[818]	2251	line=""
	2252	found=false
[892]	2253	grep "TOPOGRAPHY_DATA" $config_file > $tmp_check
[818]	2254	while read line1
	2255	do
	2256	line="$line1"
	2257	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	2258	then
	2259	topo_suffix=`echo $line \| tr -s " " \| cut -d" " -s -f5`
	2260	found=true
	2261	fi
	2262	done < $tmp_check
[807]	2263
[818]	2264	if [[ $found = false ]]
	2265	then
	2266	printf "\n +++ no TOPOGRAPHY list entry found in the configuration file."
	2267	fi
	2268
[1241]	2269	# GET NUDGING PARAMETER FILE SUFFIX (USUALLY "_NUDGE"). THIS FILE IS
	2270	# NOT NECESSARILY REQUIRED
	2271	line=""
	2272	found=false
	2273	grep "NUDGING_DATA" $config_file > $tmp_check
	2274	while read line1
	2275	do
	2276	line="$line1"
	2277	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	2278	then
	2279	nudge_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 NUDGING list entry found in the configuration file."
	2287	fi
	2288
	2289	# GET LARGE SCALE FORCING PARAMETER FILE SUFFIX (USUALLY "_LSF"). THIS FILE IS
	2290	# NOT NECESSARILY REQUIRED
	2291	line=""
	2292	found=false
	2293	grep "LSF_DATA" $config_file > $tmp_check
	2294	while read line1
	2295	do
	2296	line="$line1"
	2297	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	2298	then
	2299	lsf_suffix=`echo $line \| tr -s " " \| cut -d" " -s -f5`
	2300	found=true
	2301	fi
	2302	done < $tmp_check
	2303
	2304	if [[ $found = false ]]
	2305	then
	2306	printf "\n +++ no LSF list entry found in the configuration file."
	2307	fi
	2308
[807]	2309	rm -rf ${working_directory}/tmp_check
	2310
[1241]	2311	# CHECK IF THE P3DF FILE MUST BE CHECKED
[807]	2312	for item in $input_list
	2313	do
[892]	2314	if [[ "$item" == "restart" ]]
[807]	2315	then
	2316	check_restart=1
	2317	else
	2318	check_restart=0
	2319	fi
	2320	done
	2321
[1101]	2322	# ERROR IF NO PARAMETER FILE WAS FOUND, OTHERWISE PROCEED
	2323	if [[ (! -f $filename_input) && ( "$filename_input" != "" ) ]]
[807]	2324	then
[920]	2325	printf "\n\n +++ ERROR: parameter file ($filename_input) not found."
[807]	2326	locat=check_namelist; exit
	2327	fi
	2328
[1101]	2329	# CHECK IF THE RESTART PARAMETER FILE EXISTS (IF NECESSARY)
[807]	2330	if [[ $check_restart == 1 ]]
	2331	then
[892]	2332
[920]	2333	filenamef="${filename_input}f"
[892]	2334	if [[ ! -f $filenamef ]]
[807]	2335	then
[892]	2336	printf "\n\n +++ WARNING: restart parameter file ($filenamef) is missing."
[807]	2337	check_restart=0
	2338	answer=dummy
	2339	printf "\n\n"
	2340
[818]	2341	if [[ $silent == false ]]
[807]	2342	then
[818]	2343	while [[ "$answer" != c && "$answer" != C && "$answer" != a && "$answer" != A ]]
	2344	do
	2345	printf " >>> continue anyway (c(ontinue)/a(bort)) ? "
	2346	read answer
	2347	done
	2348	if [[ $answer = a \|\| $answer = A ]]
	2349	then
	2350	printf "\n +++ Aborting...."
	2351	locat=normal; exit
	2352	fi
[807]	2353	fi
	2354	else
	2355	check_restart=1
	2356	fi
	2357	fi
	2358
[1101]	2359	# CREATE TEMPORARY SOURCES_FOR_CHECK PATH
[807]	2360	mkdir $check_sources
	2361	cd $check_sources
	2362
[892]	2363
[1101]	2364	# CHECK FOR USER CODE, OTHERWISE USE THE PRECOMPILED CHECK_NAMELIST_FILES.X
[892]	2365	if [[ -d $add_source_path ]]
[807]	2366	then
	2367	printf "\n\n *** copying files from $check_depository"
	2368	cp $check_depository/check_namelist_files.tar ./
	2369
	2370	printf "\n\n *** untar of makefile and source files in $check_sources"
	2371	tar -xf check_namelist_files.tar > /dev/null 2>&1
	2372
	2373	printf "\n\n *** adding user code."
[892]	2374	cp $add_source_path/* ./
[807]	2375	touch check_namelist_files.f90
	2376
[1101]	2377	# GET COMPILER OPTIONS AND PERFORM MAKE
[807]	2378	printf "\n\n *** compiling code if necessary...\n"
[1045]	2379
[1101]	2380	# workaround for batch jobs on local machine (lcxe6)
[1045]	2381	if [[ $do_batch == true && $do_remote == false ]]
	2382	then
	2383	eval $init_cmds
	2384	fi
	2385
[1101]	2386	# GET CHECK OPTIONS
[1083]	2387	line=""
	2388	found=false
	2389
	2390	grep "$localhost" ${base_directory}/${config_file} \| grep "%cpp_options" > $tmp_check
	2391
	2392	while read line1
	2393	do
	2394
	2395	if [[ $(echo $line1 \| cut -d" " -s -f3-) = "$localhost" ]]
	2396	then
	2397	line="$line1"
	2398	fi
	2399
	2400	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	2401	then
[1289]	2402	# REMOVE COLONS FROM OPTION-STRING, REMOVE ALL -D OPTIONS
[1101]	2403	line="$line "
[1083]	2404	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'`
	2405	found=true
	2406	fi
	2407
	2408	done < $tmp_check
	2409	copts_check="$copts_check -D__check -D__parallel"
	2410
[807]	2411	make -f Makefile_check F90=$compiler_name_ser COPT="$copts_check"
	2412
[1101]	2413	# GET MAKE OUTPUT
[807]	2414	if [[ $? != 0 ]]
	2415	then
[815]	2416	printf "\n +++ error during make."
	2417	answer=dummy
	2418	printf "\n\n"
[818]	2419	if [[ $silent == false ]]
[815]	2420	then
[818]	2421	while [[ "$answer" != c && "$answer" != C && "$answer" != a && "$answer" != A ]]
	2422	do
	2423	printf " >>> continue anyway (c(ontinue)/a(bort)) ? "
	2424	read answer
	2425	done
	2426	if [[ $answer = a \|\| $answer = A ]]
	2427	then
	2428	printf "\n +++ Aborting..."
	2429	rm -rf $check_sources
	2430	locat=normal; exit
	2431	else
	2432	skip_check=true
	2433	fi
[815]	2434	else
	2435	skip_check=true
	2436	fi
[807]	2437	fi
	2438	else
	2439	cp $PALM_BIN/check_namelist_files.x ./
	2440	fi
	2441
[920]	2442	cp $filename_input ./PARIN
[807]	2443	if [[ $check_restart == 1 ]]
	2444	then
[892]	2445	cp $filenamef ./PARINF
[807]	2446	fi
	2447
[892]	2448	if [[ -f ${pathname}/${fname}${topo_suffix} && $skip_check == false ]]
[818]	2449	then
	2450	printf "\n *** adding topography data"
[892]	2451	cp ${pathname}/${fname}${topo_suffix} ./TOPOGRAPHY_DATA
[818]	2452
[1101]	2453	# IN CASE OF TOPOGRAPHY AND HIGH GRID POINT NUMBERS, THE STACK SIZE
	2454	# MUST BE INCREASED. THIS IS DUE TO THE ARRAY nzb_local AND topo_height,
	2455	# WHICH REQUIRE SUFFICIENT MEMORY
[818]	2456	ulimit -s unlimited
	2457	fi
	2458
[1241]	2459	if [[ -f ${pathname}/${fname}${nudge_suffix} && $skip_check == false ]]
	2460	then
	2461	printf "\n *** adding nudging data"
	2462	cp ${pathname}/${fname}${nudge_suffix} ./NUDGING_DATA
	2463	fi
	2464
	2465	if [[ -f ${pathname}/${fname}${lsf_suffix} && $skip_check == false ]]
	2466	then
	2467	printf "\n *** adding large scale forcing data"
	2468	cp ${pathname}/${fname}${lsf_suffix} ./LSF_DATA
	2469	fi
	2470
[1101]	2471	# CREATE ENVPAR FILE, WHICH IS NEEDED BY CHECK_NAMELIST_FILES.X
[807]	2472	cat > ENVPAR << %%END%%
[823]	2473	&envpar run_identifier = '$fname', host = '$host',
[807]	2474	write_binary = '$write_binary', tasks_per_node = $tasks_per_node,
	2475	maximum_parallel_io_streams = $maximum_parallel_io_streams,
	2476	maximum_cpu_time_allowed = ${cpumax}.,
	2477	revision = '$global_revision',
	2478	local_dvrserver_running = $local_dvrserver_running /
	2479
	2480	%%END%%
	2481
[1101]	2482	# SAFETY CHECK: ONLY PROCEED IF THE PARAMETER CHECK PROGRAM WAS PROPERLY COMPILED
	2483	if [[ ! -f check_namelist_files.x && $skip_check == false ]]
	2484	then
[807]	2485	printf "\n +++ WARNING: check_namelist_files.x not found."
	2486	answer=dummy
	2487	printf "\n\n"
[818]	2488
	2489	if [[ $silent == false ]]
[807]	2490	then
[818]	2491	while [[ "$answer" != c && "$answer" != C && "$answer" != a && "$answer" != A ]]
	2492	do
	2493	printf " >>> continue anyway (c(ontinue)/a(bort)) ? "
	2494	read answer
	2495	done
	2496	if [[ $answer = a \|\| $answer = A ]]
	2497	then
	2498	printf "\n +++ Aborting..."
	2499	rm -rf $check_sources
	2500	locat=normal; exit
	2501	else
[1101]	2502	printf "\n *** skipping parameter file check."
[818]	2503	fi
	2504	fi
	2505
[815]	2506	elif [[ $skip_check == false ]]
	2507	then
[1101]	2508	# STARTING THE PARAMETER FILE CHECK
[807]	2509	printf "\n\n *** starting parameter file check..."
	2510
[1101]	2511	# CHECKING THE P3D FILE
[920]	2512	printf "\n\n (1) checking $filename_input"
[931]	2513	echo "$numprocs 0 0" > VARIN
[807]	2514	errors=`./check_namelist_files.x < VARIN 2>&1`
	2515
	2516	check_error=false
	2517	if [[ "$errors" == "" ]]
	2518	then
	2519	printf " --> o.k."
	2520	else
	2521	printf " --> failed."
	2522	check_error=true
	2523	printf "\n\n $errors"
	2524	fi
	2525
[1101]	2526	# CHECKING THE PD3F FILE IF NECESSARY
[807]	2527	if [[ $check_restart == 1 && $check_error == false ]]
	2528	then
[892]	2529	printf "\n\n (2) checking $filenamef"
[807]	2530
[1101]	2531	# FIRST CHECK IF INITIALIZING_ACTIONS="READ_RESTART_DATA" IS SET
	2532	# IN &INIPAR LIST
[807]	2533	found=false
[1101]	2534	cat PARINF \| while read line
[807]	2535	do
	2536	line=$(echo $line\|sed 's/ //g')
	2537	if [[ $line == "&inipar" ]]
	2538	then
	2539	start_search=true
	2540	fi
	2541
	2542	if [[ $start_search == true ]]
	2543	then
	2544	if [[ $line == "initializing_actions='read_restart_data'" ]]
	2545	then
	2546	found=true
	2547	break
	2548	fi
	2549	fi
	2550
	2551	if [[ $line == "/" ]]
	2552	then
	2553	start_search=false
	2554	fi
	2555
	2556	done
	2557
	2558	if [[ $found = false ]]
	2559	then
	2560	printf "\n\n +++ ERROR: initializing_actions = 'read_restart_data' not found"
	2561	printf "\n in &inipar list in $fname$p3df_suffix."
	2562	rm -rf $check_sources
	2563	locat=check_namelist; exit
	2564	fi
	2565
[1101]	2566	# READ max_user_pr FROM FILES
[931]	2567	if [[ -f parin_for_check ]]
	2568	then
	2569	read max_pr_user < parin_for_check
	2570	else
	2571	max_user_pr=0
	2572	fi
	2573
	2574	echo "$numprocs 1 $max_pr_user" > VARIN
[807]	2575	errors=`./check_namelist_files.x < VARIN 2>&1`
	2576
	2577	if [[ "$errors" == "" ]]
	2578	then
	2579	printf " --> o.k."
	2580	else
	2581	printf " --> failed."
	2582	check_error=true
	2583	printf "\n\n $errors"
	2584	fi
	2585	fi
	2586
[1101]	2587	# REPORT ERRORS AND CONTINUE/EXIT
[807]	2588	if [[ $check_error == true ]]
	2589	then
	2590	printf "\n +++ errors found in the parameter file!\n"
	2591	answer=dummy
	2592	printf "\n\n"
	2593
	2594	while [[ "$answer" != c && "$answer" != C && "$answer" != a && "$answer" != A ]]
	2595	do
[1101]	2596	printf " >>> continue anyway (c(ontinue)/a(bort)) ? "
	2597	read answer
[807]	2598	done
	2599
	2600	if [[ $answer = a \|\| $answer = A ]]
	2601	then
	2602	printf "\n +++ Aborting..."
	2603	rm -rf $check_sources
	2604	locat=normal; exit
	2605	fi
	2606	else
	2607	printf "\n\n *** parameter file(s) seem(s) to be o.k.\n"
	2608	fi
	2609	rm -rf $check_sources
	2610	fi
	2611	else
[1103]	2612	printf "\n\n +++ skipping parameter file check due to following reason: $reason \n"
[807]	2613	fi
	2614
[818]	2615	# DELETE TEMPORARY DIRECTORY AND FINISH NAMELIST FILE CHECK
	2616	rm -rf $check_sources
[807]	2617	cd $working_directory
	2618
[892]	2619
[1199]	2620	# DETERMINE PATH FOR MAKE DEPOSITORY
	2621	if [[ $do_batch = false \|\| $create_executable_for_batch = true ]]
	2622	then
	2623
	2624	line=""
	2625	grep "%depository_path" $config_file > tmp_mrun
	2626	while read line
	2627	do
	2628	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	2629	then
	2630	if [[ "$(echo $line \| cut -d" " -s -f3)" = "" ]]
	2631	then
	2632	global_depository_path=`echo $line \| cut -d" " -s -f2`
	2633	fi
	2634	fi
	2635	done < tmp_mrun
	2636
	2637	line=""
	2638	grep " $localhost" $config_file \| grep "%depository_path" > tmp_mrun
	2639	while read line
	2640	do
	2641	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	2642	then
	2643	if [[ "$(echo $line \| cut -d" " -s -f4)" = "$cond1" && "$(echo $line \| cut -d" " -s -f5)" = "$cond2" ]]
	2644	then
	2645	local_depository_path=`echo $line \| cut -d" " -s -f2`
	2646	fi
	2647	fi
	2648	done < tmp_mrun
	2649
	2650	if [[ "$local_depository_path" = "" ]]
	2651	then
	2652	if [[ "$global_depository_path" != "" ]]
	2653	then
	2654	local_depository_path=$global_depository_path
	2655	else
	2656	printf "\n\n +++ no depository path found in configuration file"
	2657	printf "\n for local host \"$localhost\" "
	2658	printf "\n please set \"\%depository_path\" in configuration file\n"
	2659	locat=config_file; exit
	2660	fi
	2661	fi
	2662	eval local_depository_path=$local_depository_path
	2663	[[ "$cond1" != "" ]] && local_depository_path=${local_depository_path}_$cond1
	2664	[[ "$cond2" != "" ]] && local_depository_path=${local_depository_path}_$cond2
	2665
	2666
	2667	basename=`echo $mainprog \| cut -f1 -d"."`
	2668	eval make_depository=${local_depository_path}/${basename}_current_version.tar
	2669	if [[ ! -f $make_depository ]]
	2670	then
	2671	printf "\n"
	2672	printf "\n *** WARNING: make depository \"$make_depository\" not found"
	2673	printf "\n \"make\" will fail, if the Makefile or other source files are missing\n"
	2674	fi
	2675
	2676	fi
	2677
	2678
[1289]	2679	# NOW PERFORM THOSE ACTIONS REQUIRED TO EXECUTE THE PROGRAM (PALM) ON THIS MACHINE
	2680	# (COMPILING/LINKING, EXECUTING, COPYING I/O FILES)
[1]	2681	if [[ $do_batch = false ]]
	2682	then
	2683
	2684
[1289]	2685	# CREATE THE TEMPORARY WORKING DIRECTORY
[1]	2686	mkdir -p $TEMPDIR
	2687	chmod go+rx $TEMPDIR
	2688	tmpcreate=true
	2689
	2690
[1289]	2691	# COPY EITHER THE COMPLETE SOURCE CODE FILES TO BE COMPILED OR THE EXECUTABLE
	2692	# INTO THE TEMPORARY WORKING DIRECTORY
[1]	2693	if [[ $do_compile = true ]]
	2694	then
	2695
	2696	# ON NEC, COMPILATION IS DONE ON HOST CROSS VIA CROSS COMPILING
	2697	# CREATE A TEMPORARY DIRECTORY ON THAT MACHINE (HOME MOUNTED VIA NFS)
	2698	if [[ $localhost = nech ]]
	2699	then
	2700	TEMPDIR_COMPILE=$HOME/work/${usern}.$kennung
	2701	if mkdir -p $TEMPDIR_COMPILE
	2702	then
	2703	printf "\n *** \"$TEMPDIR_COMPILE\" "
	2704	printf "\n is generated as temporary directory for cross compiling\n"
	2705	else
	2706	printf "\n +++ creating directory \"$TEMPDIR_COMPILE\" "
	2707	printf "\n needed for cross compilation failed"
	2708	locat=compile
	2709	exit
	2710	fi
	2711	else
	2712	TEMPDIR_COMPILE=$TEMPDIR
	2713	fi
	2714
[1199]	2715	cp $make_depository $TEMPDIR_COMPILE
	2716	cd $TEMPDIR_COMPILE
	2717	tar -xf $make_depository > /dev/null 2>&1
	2718	cd - > /dev/null
[1]	2719
[1255]	2720	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
	2721	# FILES ON CRAY XC30 SYSTEMS (HLRN III), rsync IS USED INSTEAD
[1281]	2722	if [[ $(echo $host \| cut -c1-6) = lccray ]]
	2723	then
	2724	rsync -av -t SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
	2725	else
	2726	cp SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
	2727	fi
[82]	2728
[1]	2729	else
[475]	2730
[1]	2731	cp $executable ${TEMPDIR}/a.out
[475]	2732
[1]	2733	fi
	2734
	2735
[1289]	2736	# CHANGE TO THE TEMPORARY WORKING DIRECTORY
[475]	2737	cd $TEMPDIR
[1]	2738	printf "\n *** changed to temporary directory: $TEMPDIR"
	2739
	2740
[1289]	2741	# THE FOLLOWING IS REQUIRED FPR AVS-OUTPUT WITH PALM ??? REMOVE ???
	2742	# WRITE INFORMATIONS ABOUT THE OUTPUT-FILE CONNECTIONS TO A TEMPORARY FILE
	2743	# THIS FILE CAN LATER BE READ FROM USER-DEFINED CODE TO DETERMINE THE
	2744	# RELATION BETWEEN THE LOCAL TEMPORARY AND PERMANENT FILE NAMES
[1]	2745	(( i = 0 ))
	2746	while (( i < iout ))
	2747	do
	2748	(( i = i + 1 ))
	2749	if [[ "${actionout[$i]}" = tr \|\| "${actionout[$i]}" = tra \|\| "${actionout[$i]}" = trpe ]]
	2750	then
	2751	printf "${localout[$i]} ${actionout[$i]}\n${pathout[$i]}\n${localhost}_${fname}${endout[$i]}\n" >> OUTPUT_FILE_CONNECTIONS
	2752	else
	2753	printf "${localout[$i]} ${actionout[$i]}\n${pathout[$i]}\n${frelout[$i]}\n" >> OUTPUT_FILE_CONNECTIONS
	2754	fi
	2755	done
	2756
	2757
[1289]	2758	# IF REQUIRED, START WITH COMPILING
[1]	2759	if [[ $do_compile = true ]]
	2760	then
	2761
	2762
[1199]	2763	if [[ -f a.out ]]
[475]	2764	then
[82]	2765
[1199]	2766	# EXECUTABLE WAS CREATED DURING INTERACTIVE CALL OF MRUN
	2767	printf "\n\n\n *** executable a.out found"
	2768	printf "\n no compilation required \n"
	2769
[1]	2770	else
[807]	2771
[1199]	2772	# COMPILING WITH MAKE (ON NEC COMPILER IS CALLED ON HOST CROSS)
[1289]	2773	printf "\n\n\n *** compilation starts \n$dashes\n"
[1199]	2774	printf " *** compilation with make using following options:\n"
	2775	printf " make depository: $make_depository"
	2776	if [[ "$mopts" != "" ]]
	2777	then
	2778	printf " make options: $mopts\n"
	2779	fi
	2780	printf " compilername: $compiler_name\n"
	2781	printf " compiler options: $fopts\n"
	2782	printf " preprocessor directives: $cpp_options \n"
	2783	printf " linker options: $lopts \n"
	2784	if [[ "$modules" != "" ]]
	2785	then
	2786	printf " modules to be load: $modules \n"
	2787	fi
	2788	printf " source code files: $source_list \n"
[1]	2789
[1199]	2790	if [[ $localhost = nech ]]
	2791	then
	2792	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\" "
	2793	cp $TEMPDIR_COMPILE/a.out .
	2794	[[ $? != 0 ]] && compile_error=true
	2795	rm -rf $TEMPDIR_COMPILE
	2796	elif [[ $localhost = ibmh ]]
	2797	then
	2798	printf " compiler is called via ssh on \"plogin1\" \n"
	2799	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\" "
	2800	[[ ! -f a.out ]] && compile_error=true
[1289]	2801	continue # STATUS=1, IF a.out EXISTS
[1199]	2802	elif [[ $localhost = lcflow ]]
	2803	then
	2804	printf " compiler is called via ssh on \"flow\" \n"
[1201]	2805	/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]	2806	check_for_file=`/usr/bin/ssh $SSH_PORTOPT flow02.hpc.uni-oldenburg.de -l $usern "ls $TEMPDIR/a.out 2> /dev/null"`
	2807	[[ "$check_for_file" = "" ]] && compile_error=true
[1289]	2808	continue # STATUS=1, IF a.out EXISTS
[1274]	2809	elif [[ $localhost = lccrayb \|\| $localhost = lccrayf \|\| $localhost = lccrayh ]]
[1199]	2810	then
	2811	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
	2812	else
	2813	[[ "$init_cmds" != "" ]] && eval $init_cmds
	2814	[[ "$module_calls" != "" ]] && eval $module_calls
	2815	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
	2816	fi
[181]	2817
[1199]	2818	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
	2819	then
	2820	printf "\n +++ error occured while compiling or linking"
	2821	locat=compile
	2822
[181]	2823	exit
[1199]	2824	else
[1289]	2825	printf "$dashes\n *** compilation finished \n"
[1199]	2826	fi
	2827
[1]	2828	fi
[1199]	2829
[1]	2830	fi
	2831
	2832
[1289]	2833	# PROVIDE THE INPUT FILES
	2834	# LOOP OVER ALL ACTIVATED FILES (LISTED IN THE CONFIGURATION FILE)
[1]	2835	(( i = 0 ))
	2836	while (( i < iin ))
	2837	do
	2838	(( i = i + 1 ))
	2839	if (( i == 1 ))
	2840	then
[1289]	2841	printf "\n\n *** providing INPUT-files:\n$dashes"
[1]	2842	fi
	2843
	2844
[1289]	2845	# SKIP OPTIONAL FILES, IF THEY DO NOT EXIST
[1]	2846	if [[ "${transin[$i]}" = unavailable ]]
	2847	then
	2848	if [[ "${extin[$i]}" = "" \|\| "${extin[$i]}" = " " ]]
	2849	then
	2850	printf "\n +++ WARNING: input file \"${pathin[$i]}/${afname}${endin[$i]}\" "
	2851	printf "\n is not available!"
	2852	else
	2853	printf "\n +++ WARNING: input file \"${pathin[$i]}/${afname}${endin[$i]}.${extin[$i]}\" "
	2854	printf "\n is not available!"
	2855	fi
	2856	continue
	2857	fi
	2858
[1289]	2859	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
[1]	2860	files_for_pes=false; datentyp=file
	2861	if [[ "${actionin[$i]}" = pe && -n $numprocs ]]
	2862	then
	2863	files_for_pes=true; datentyp=directory
	2864	actionin[$i]=""
	2865	elif [[ "${actionin[$i]}" = pe && ! -n $numprocs ]]
	2866	then
	2867	actionin[$i]=""
	2868	elif [[ "${actionin[$i]}" = arpe && -n $numprocs ]]
	2869	then
	2870	files_for_pes=true; datentyp=directory
	2871	actionin[$i]="ar"
	2872	elif [[ "${actionin[$i]}" = arpe && ! -n $numprocs ]]
	2873	then
	2874	actionin[$i]="ar"
	2875	elif [[ "${actionin[$i]}" = flpe && -n $numprocs ]]
	2876	then
	2877	files_for_pes=true; datentyp=directory
	2878	actionin[$i]="fl"
	2879	elif [[ "${actionin[$i]}" = flpe && ! -n $numprocs ]]
	2880	then
	2881	actionin[$i]="fl"
	2882	fi
	2883
	2884	if [[ $files_for_pes = true ]]
	2885	then
	2886	printf "\n >>> INPUT: ${absnamein[$i]}/.... to ${localin[$i]}"
	2887	else
	2888	printf "\n >>> INPUT: ${absnamein[$i]} to ${localin[$i]}"
	2889	fi
	2890
[1289]	2891	# INPUT-FILE FOR A RESTART RUN.
	2892	# CHECK, IF THIS FILE STILL EXISTS ON THE TEMPORARY DATA DIRECTORY.
	2893	# IF NOT, TRY TO GET IT FROM THE ARCHIVE SYSTEM
[1]	2894	if [[ "${actionin[$i]}" = fl ]]
	2895	then
	2896	printf "\n $datentyp will be fetched from temporary directory \"${tmp_data_catalog}\" !"
	2897	if [[ $files_for_pes = false ]]
	2898	then
	2899	if [[ -f "$tmp_data_catalog/${frelin[$i]}" ]]
	2900	then
	2901	ln $tmp_data_catalog/${frelin[$i]} ${localin[$i]}
	2902	got_tmp[$i]=true
	2903	elif [[ -f "$WORK/${frelin[$i]}" && $ignore_archive_error = true ]]
	2904	then
	2905	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" !"
	2906	printf "\n *** trying to use backup copy in \"$WORK\" "
	2907	cp $WORK/${frelin[$i]} ${localin[$i]}
	2908	else
	2909	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" "
	2910	printf "\n or \"$tmp_data_catalog\" does not exist!"
	2911	printf "\n *** trying to get copy from archive"
	2912	actionin[$i]=ar
	2913	fi
	2914	else
	2915	if [[ -d "$tmp_data_catalog/${frelin[$i]}" ]]
	2916	then
	2917	mkdir ${localin[$i]}
[149]	2918	cd $tmp_data_catalog/${frelin[$i]}
	2919	for file in $(ls *)
	2920	do
	2921	ln $file $TEMPDIR/${localin[$i]}
	2922	done
	2923	cd $TEMPDIR
[1]	2924	got_tmp[$i]=true
	2925	elif [[ -d "$WORK/${frelin[$i]}" && $ignore_archive_error = true ]]
	2926	then
	2927	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" !"
	2928	printf "\n *** trying to use backup copy in \"$WORK\" "
	2929	cp -r $WORK/${frelin[$i]} ${localin[$i]}
	2930	else
	2931	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" "
	2932	printf "\n or \"$tmp_data_catalog\" does not exist!"
	2933	printf "\n *** trying to get copy from archive"
	2934	actionin[$i]=ar
	2935	fi
	2936	fi
	2937	fi
	2938
	2939
[1289]	2940	# FILE IS STORED ON THE ARCHIVE SYSTEM
[1]	2941	if [[ "${actionin[$i]}" = ar ]]
	2942	then
	2943
	2944	if [[ $files_for_pes = false ]]
	2945	then
	2946	printf "\n file will be restored from archive-system ($archive_system)!"
	2947	else
	2948	printf "\n directory will be restored from archive-system ($archive_system)!"
	2949	fi
	2950
	2951	file_restored=false
	2952
	2953	if [[ $archive_system = asterix ]]
	2954	then
	2955	do_stagein=true
	2956	(( stagein_anz = 0 ))
	2957	while [[ $do_stagein = true ]]
	2958	do
	2959	if [[ $files_for_pes = false ]]
	2960	then
	2961	stagein -O ${frelin[$i]} > STAGEIN_OUTPUT
	2962	else
	2963	stagein -t -O ${frelin[$i]} > STAGEIN_OUTPUT
	2964	fi
	2965	cat STAGEIN_OUTPUT
	2966	if [[ $(grep -c "st.msg:i24" STAGEIN_OUTPUT) != 0 ]]
	2967	then
	2968	file_restored=true
	2969	do_stagein=false
	2970	else
	2971	(( stagein_anz = stagein_anz + 1 ))
	2972	if (( stagein_anz == 10 ))
	2973	then
	2974	printf "\n +++ stagein stoped after 10 tries"
	2975	locat=stage
	2976	exit
	2977	fi
	2978	printf "\n +++ restoring from archive failed, trying again:"
	2979	sleep 900
	2980	fi
	2981	done
	2982	elif [[ $archive_system = DMF ]]
	2983	then
	2984	if [[ $files_for_pes = false ]]
	2985	then
	2986	printf "\n +++ restoring of single files impossible with $archive_system !\n"
	2987	locat=DMF
	2988	exit
	2989	else
	2990	find $ARCHIVE/${frelin[$i]} -type m -print \| dmget
	2991	cp -r $ARCHIVE/${frelin[$i]} $PWD
	2992	file_restored=true
	2993	fi
	2994	elif [[ $archive_system = tivoli ]]
	2995	then
	2996	if [[ $files_for_pes = false ]]
	2997	then
[1289]	2998	ssh $SSH_PORTOPT $usern@bicedata.hlrn.de "cp $PERM/${frelin[$i]} $PWD"
[1]	2999	else
	3000	(( inode = 0 ))
	3001	while (( inode < nodes ))
	3002	do
[1289]	3003	ssh $SSH_PORTOPT $usern@bicedata.hlrn.de "cd $PWD; tar xf $PERM/${frelin[$i]}/${frelin[$i]}.node_$inode.tar"
[1]	3004	(( inode = inode + 1 ))
	3005	done
	3006	fi
	3007	file_restored=true
	3008	elif [[ $archive_system = ut ]]
	3009	then
	3010	if [[ $files_for_pes = false ]]
	3011	then
	3012	cp $UT/${frelin[$i]} .
	3013	else
	3014	(( inode = 0 ))
	3015	while (( inode < nodes ))
	3016	do
	3017	tar xf $UT/${frelin[$i]}/${frelin[$i]}.node_$inode.tar
	3018	(( inode = inode + 1 ))
	3019	done
	3020	fi
	3021	file_restored=true
	3022	else
	3023	printf "\n +++ archive_system=\"$archive_system\" restore impossible!"
	3024	locat=rearchive
	3025	exit
	3026	fi
	3027
	3028	if [[ $file_restored = true ]]
	3029	then
	3030
[1289]	3031	# PUT FILE ON THE TEMPORARY DATA DIRECTORY TOO.
	3032	# THIS WILL MAKE FILE ACCESS EASIER FOR LATER RUNS
[1]	3033	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog; chmod g+rx $tmp_data_catalog
	3034	if [[ $files_for_pes = false ]]
	3035	then
	3036	ln -f ${frelin[$i]} $tmp_data_catalog/${frelin[$i]}
	3037	else
	3038	mkdir $tmp_data_catalog/${frelin[$i]}
	3039	ln -f ${frelin[$i]}/* $tmp_data_catalog/${frelin[$i]}
	3040	fi
	3041	got_tmp[$i]=true
	3042
[1289]	3043	# PROVIDE THE FILE UNDER ITS LOCAL NAME
[1]	3044	mv ${frelin[$i]} ${localin[$i]}
	3045
	3046	fi
	3047	fi
	3048
	3049
[1289]	3050	# FILE IS STORED IN THE RESPECTIVE DIRECTORY GIVEN IN THE CONFIGURATION FILE
[1]	3051	if [[ "${actionin[$i]}" = "" \|\| "${actionin[$i]}" = "di" \|\| "${actionin[$i]}" = "npe" ]]
	3052	then
	3053
	3054	if [[ "${actionin[$i]}" = "npe" && -n $numprocs ]]
	3055	then
	3056
[1289]	3057	# FILE COPIES ARE PROVIDED FOR ALL CORES
	3058	# EACH FILE GETS A UNIQUE FILENAME WITH A FOUR DIGIT NUMBER
[1]	3059	printf "\n file will be provided for $numprocs processors"
	3060	mkdir ${localin[$i]}
	3061	ival=$numprocs
	3062	(( ii = 0 ))
	3063	while (( ii <= ival-1 ))
	3064	do
	3065	if (( ii < 10 ))
	3066	then
	3067	cp ${absnamein[$i]} ${localin[$i]}/_000$ii
	3068	elif (( ii < 100 ))
	3069	then
	3070	cp ${absnamein[$i]} ${localin[$i]}/_00$ii
	3071	elif (( ii < 1000 ))
	3072	then
	3073	cp ${absnamein[$i]} ${localin[$i]}/_0$ii
	3074	else
	3075	cp ${absnamein[$i]} ${localin[$i]}/_$ii
	3076	fi
	3077	(( ii = ii + 1 ))
	3078	done
	3079
	3080	else
	3081
	3082	if [[ $files_for_pes = true ]]
	3083	then
	3084
[1289]	3085	# PROVIDE FILES FOR EACH CORE
	3086	# FIRST CREATE THE LOCAL DIRECTORY, THEN COPY FILES
	3087	# FROM THE PERMANENT DIRECTORY BY LINKING THEM TO THE LOCAL ONE
[1]	3088	printf "\n providing $numprocs files for the respective processors"
	3089	mkdir ${localin[$i]}
[183]	3090	if [[ $link_local_input = true ]]
	3091	then
	3092	printf " using ln -f\n"
	3093	cd ${absnamein[$i]}
	3094	for file in $(ls *)
	3095	do
	3096	ln -f $file ${localin[$i]}
	3097	done
	3098	cd $TEMPDIR
	3099	fi
[1289]	3100
	3101	# IF "ln -f" FAILED OR IF "$link_local_input = false" DO A NORMAL "cp -r"
[183]	3102	if [[ ! -f "${localin[$i]}/_0000" ]]
	3103	then
	3104	if [[ $link_local_input = true ]]
	3105	then
	3106	printf " ln failed for .../_0000, using cp...\n"
	3107	fi
	3108	cp -r ${absnamein[$i]}/* ${localin[$i]}
	3109	fi
[1]	3110
	3111	else
[1289]	3112
	3113	# PROVIDE FILE FOR RUNS ON A SINGLE CORE
[183]	3114	if [[ $link_local_input = true ]]
	3115	then
	3116	printf " using ln -f\n"
	3117	ln -f ${absnamein[$i]} ${localin[$i]}
	3118	fi
	3119	# If "ln -f" fails of if "$link_local_input = false" do a normal "cp"
	3120	if [[ ! -f "${localin[$i]}" ]]
	3121	then
	3122	if [[ $link_local_input = true ]]
	3123	then
	3124	printf " ln failed, using cp...\n"
	3125	fi
	3126	cp ${absnamein[$i]} ${localin[$i]}
	3127	fi
[1]	3128	fi
	3129	fi
	3130	fi
	3131
	3132	done
	3133	if (( i != 0 ))
	3134	then
[1289]	3135	printf "\n$dashes\n *** all INPUT-files provided \n"
[1]	3136	fi
	3137
	3138
[1289]	3139	# EXECUTE INPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
[1]	3140	(( i = 0 ))
	3141	while (( i < iic ))
	3142	do
	3143	(( i = i + 1 ))
	3144	if (( i == 1 ))
	3145	then
[1289]	3146	printf "\n\n *** execution of INPUT-commands:\n$dashes"
[1]	3147	fi
	3148	printf "\n >>> ${in_command[$i]}"
	3149	eval ${in_command[$i]}
	3150	if (( i == iic ))
	3151	then
[1289]	3152	printf "\n$dashes\n"
[1]	3153	fi
	3154	done
	3155
	3156
[1289]	3157	# SET THE REMAINING CPU-TIME
[1]	3158	cpurest=${cpumax}.
	3159
	3160
[260]	3161	# START DVR STREAMING SERVER
	3162	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
	3163	then
	3164	if [[ "$dvr_server" != "" ]]
	3165	then
	3166
	3167	printf "\n\n *** preparing the dvr streaming server configuration file"
	3168
[1289]	3169	# CHECK, IF A DVR SERVER IS ALREADY RUNNING
[260]	3170	running_dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config \| grep -v grep) \| cut -d" " -f2`
	3171	if [[ "$running_dvrserver_id" != "" ]]
	3172	then
	3173
[261]	3174	printf "\n\n +++ WARNING: A dvr server with id=$running_dvrserver_id is already running!"
[260]	3175	printf "\n This server is used instead starting a new one!"
[261]	3176	printf "\n If required, script \"process_dvr_output\" has to be run manually."
[260]	3177
	3178	else
	3179
	3180	# COPY CONFIGURATION FILE FOR STREAMING SERVER FROM REPOSITORY TO HERE
	3181	if [[ -f ${PALM_BIN}/.dvrserver.config ]]
	3182	then
	3183	cp ${PALM_BIN}/.dvrserver.config .
	3184
[1289]	3185	# ENTERING THE BASEDIR, UID AND GID INTO THIS FILE
[260]	3186	user_id=`id -u`
	3187	group_id=`id -g`
[1289]	3188
	3189	# "&" IS REQUIRED AS A SEPERATOR, BECAUSE TEMPDIR CONTAINS "/"
[260]	3190	sed "s&<replace by dvr data directory>&${TEMPDIR}&g" .dvrserver.config > .dvrserver.1
	3191	sed "s/<replace by user id>/$user_id/g" .dvrserver.1 > .dvrserver.2
	3192	sed "s/<replace by group id>/$group_id/g" .dvrserver.2 > .dvrserver.3
	3193	mv .dvrserver.3 .dvrserver.config
	3194	rm .dvrserver.1 .dvrserver.2
	3195
[1289]	3196	# START DVR SERVER IN BACKGROUND, GET HIS ID AND PRINT ON TERMINAL
[260]	3197	$dvr_server .dvrserver.config >> DVR_LOGFILE 2>&1 &
	3198	dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config) \| cut -d" " -f2`
	3199	printf "\n *** streaming server with id=$dvrserver_id is started in background"
	3200	local_dvrserver_running=.TRUE.
	3201	else
	3202	printf "\n +++ missing file \".dvrserver.config\" in directory:"
	3203	printf "\n \"$PALM_BIN\" "
	3204	locat=dvr
	3205	exit
	3206	fi
	3207
	3208	fi
	3209
	3210	else
	3211	printf "\n\n --- INFORMATIVE: no dvr streaming server will be started"
	3212	fi
	3213	fi
	3214
	3215
[1289]	3216	# CREATE THE NAMELIST-FILE WITH VALUES OF ENVIRONMENT-VARIABLES REQUIRED BY PALM
	3217	# (FILE ENVPAR WILL BE READ BY PALM)
[260]	3218	cat > ENVPAR << %%END%%
	3219	&envpar run_identifier = '$fname', host = '$localhost',
	3220	write_binary = '$write_binary', tasks_per_node = $tasks_per_node,
[759]	3221	maximum_parallel_io_streams = $maximum_parallel_io_streams,
[260]	3222	maximum_cpu_time_allowed = ${cpumax}.,
	3223	revision = '$global_revision',
[1402]	3224	local_dvrserver_running = $local_dvrserver_running,
	3225	batch_job = $batch_job /
[260]	3226
	3227	%%END%%
	3228
	3229
[1289]	3230	# STARTING THE EXECUTABLE
	3231	printf "\n\n *** execution starts in directory\n \"`pwd`\"\n$dashes\n"
[1]	3232	PATH=$PATH:$TEMPDIR
	3233
[1289]	3234	# MPI DEBUG OPTION (ARGUMENT CHECKING, SLOWS DOWN EXECUTION DUE TO INCREASED LATENCY)
[359]	3235	if [[ "$mpi_debug" = true ]]
	3236	then
	3237	export MPI_CHECK_ARGS=1
	3238	printf "\n +++ MPI_CHECK_ARGS=$MPI_CHECK_ARGS"
	3239	fi
	3240
[693]	3241	if [[ "$totalview" = true ]]
	3242	then
	3243	printf "\n *** totalview debugger will be used"
	3244	tv_opt="-tv"
	3245	else
	3246	tv_opt=""
	3247	fi
	3248
[1]	3249	if [[ "$cond1" = debug \|\| "$cond2" = debug ]]
	3250	then
[1549]	3251
	3252	#Interactive ALLINEA DEBUG seesion
	3253	if [[ "$ENVIRONMENT" != BATCH ]]
	3254	then
	3255	if [[ $host = lccrayb \|\| $host = lccrayh ]]
	3256	then
	3257	if [[ "$allinea" = true ]]
	3258	then
	3259	echo "--- aprun -n $ii -N $tasks_per_node a.out $ROPTS < runfile_atmos"
	3260
	3261	ddt aprun -n $ii -N $tasks_per_node a.out $ROPTS
	3262	wait
	3263	fi
	3264	fi
	3265	fi
	3266
[1]	3267	if [[ "$ENVIRONMENT" = BATCH ]]
	3268	then
[1289]	3269	continue
[1]	3270	fi
[1096]	3271	if [[ $localhost = ibmh ]]
[1]	3272	then
	3273
	3274	# SETUP THE IBM MPI ENVIRONMENT
	3275	export MP_SHARED_MEMORY=yes
	3276	export AIXTHREADS_SCOPE=S
	3277	export OMP_NUM_THREADS=$threads_per_task
	3278	export AUTHSTATE=files
	3279	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
	3280
	3281	# FOLLOWING OPTIONS ARE MANDATORY FOR TOTALVIEW
	3282	export MP_ADAPTER_USE=shared
	3283	export MP_CPU_USE=multiple
	3284	export MP_TIMEOUT=1200
	3285
	3286	unset MP_TASK_AFFINITY
	3287
	3288	# SO FAR, TOTALVIEW NEEDS HOSTFILE MECHANISM FOR EXECUTION
	3289	#(( ii = 1 ))
	3290	#while (( ii <= $numprocs ))
	3291	#do
	3292	# echo $localhost_realname >> hostfile
	3293	# (( ii = ii + 1 ))
	3294	#done
	3295	#export MP_HOSTFILE=hostfile
	3296
	3297	if [[ "$LOADLBATCH" = yes ]]
	3298	then
	3299	totalview poe a.out $ROPTS
	3300	else
	3301	echo totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1 $ROPTS
	3302	export TVDSVRLAUNCHCMD=ssh
	3303	totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1 $ROPTS
	3304	fi
[622]	3305
[1295]	3306	fi # END DEBUG MODE
	3307
[1]	3308	else
[622]	3309
[1289]	3310	# NORMAL EXECUTION
[1]	3311	if [[ -n $numprocs ]]
	3312	then
[1289]	3313
[1]	3314	# RUNNING THE PROGRAM ON PARALLEL MACHINES
	3315	if [[ $(echo $host \| cut -c1-3) = ibm ]]
	3316	then
[1289]	3317
[1]	3318	# SETUP THE IBM MPI ENVIRONMENT
[693]	3319	if [[ $host != ibmh && $host != ibmkisti ]]
[312]	3320	then
	3321	export MP_SHARED_MEMORY=yes
	3322	export AIXTHREAD_SCOPE=S
	3323	export OMP_NUM_THREADS=$threads_per_task
	3324	export XLSMPOPTS="spins=0:yields=0:stack=20000000"
	3325	export AUTHSTATE=files
	3326	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
	3327	# export MP_PRINTENV=yes
[1]	3328
[1289]	3329	# TUNING-VARIABLES TO IMPROVE COMMUNICATION SPEED
	3330	# DO NOT SHOW SIGNIFICANT EFFECTS (SEP 04, FEDERATION-SWITCH)
[312]	3331	export MP_WAIT_MODE=poll
	3332	[[ $node_usage = not_shared ]] && export MP_SINGLE_THREAD=yes
	3333	fi
[693]	3334
	3335	if [[ $host = ibmkisti ]]
	3336	then
	3337	export LANG=en_US
	3338	export MP_SHARED_MEMORY=yes
[696]	3339	if [[ $threads_per_task = 1 ]]
	3340	then
	3341	export MP_SINGLE_THREAD=yes
	3342	export MEMORY_AFFINITY=MCM
	3343	else
	3344	export OMP_NUM_THREADS=$threads_per_task
	3345	fi
[693]	3346	fi
	3347
[1]	3348	if [[ "$LOADLBATCH" = yes ]]
	3349	then
	3350	printf "\n--- Control: OMP_NUM_THREADS = \"$OMP_NUM_THREADS\" \n"
	3351	if [[ "$cond1" = hpmcount \|\| "$cond2" = hpmcount ]]
	3352	then
[102]	3353	/opt/optibm/HPM_2_4_1/bin/hpmcount a.out $ROPTS
[1]	3354	else
[343]	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	poe ./a.out $ROPTS < runfile_atmos
[1]	3372	fi
	3373	else
[622]	3374	if [[ $localhost = ibmh \|\| $localhost = ibms ]]
[1]	3375	then
[102]	3376	poe a.out -procs $numprocs -nodes 1 -rmpool 0 $ROPTS
[1289]	3377	elif [[ $localhost = ibmkisti \|\| $localhost = ibmku ]]
[1]	3378	then
	3379	if [[ -f $hostfile ]]
	3380	then
	3381	cp $hostfile hostfile
	3382	else
	3383	(( ii = 1 ))
	3384	while (( ii <= $numprocs ))
	3385	do
	3386	echo $localhost_realname >> hostfile
	3387	(( ii = ii + 1 ))
	3388	done
	3389	fi
	3390	export MP_HOSTFILE=hostfile
[331]	3391	if [[ $run_coupled_model = false ]]
	3392	then
	3393	if [[ "$ocean_file_appendix" = true ]]
	3394	then
	3395	echo "precursor_ocean" > runfile_atmos
	3396	else
	3397	echo "precursor_atmos" > runfile_atmos
	3398	fi
	3399	else
	3400	(( iia = $numprocs_atmos / $threads_per_task ))
	3401	(( iio = $numprocs_ocean / $threads_per_task ))
	3402	printf "\n coupled run ($iia atmosphere, $iio ocean)"
	3403	printf "\n using $coupled_mode coupling"
	3404	printf "\n\n"
	3405	echo "coupled_run $iia $iio" > runfile_atmos
	3406	fi
	3407
[1289]	3408	poe ./a.out -procs $numprocs $ROPTS < runfile_atmos
	3409
[1]	3410	else
	3411	if [[ "$host_file" = "" ]]
	3412	then
	3413	printf "\n +++ no hostfile given in configuration file"
	3414	locat=config_file
	3415	exit
	3416	else
	3417	eval host_file=$host_file
	3418	fi
	3419	export MP_HOSTFILE=$host_file
[102]	3420	poe a.out -procs $numprocs -tasks_per_node $numprocs $ROPTS
[1]	3421	fi
	3422	fi
[1289]	3423	elif [[ $host = nech ]]
[1]	3424	then
	3425	(( ii = nodes ))
	3426	if [[ $ii = 1 ]]
	3427	then
	3428	export F_ERRCNT=0 # acceptable number of errors before program is stopped
	3429	export MPIPROGINF=YES
[61]	3430	# export F_TRACE=YES\|FMT1\|FMT2 # output of ftrace informations to job protocol
[1]	3431	echo "*** execution on single node with mpirun"
[102]	3432	mpirun -np $numprocs ./a.out $ROPTS
[1]	3433	else
	3434	(( i = 0 ))
	3435	while (( i < ii ))
	3436	do
	3437	echo "-h $i -p $tasks_per_node -e ./mpi_exec_shell" >> multinode_config
	3438	(( i = i + 1 ))
	3439	done
	3440
	3441	echo "#!/bin/sh" > mpi_exec_shell
	3442	echo " " >> mpi_exec_shell
	3443	echo "set -u" >> mpi_exec_shell
	3444	echo "F_ERRCNT=0" >> mpi_exec_shell
	3445	echo "MPIPROGINV=YES" >> mpi_exec_shell
	3446	echo "OMP_NUM_THREADS=$threads_per_task" >> mpi_exec_shell
	3447	echo "cpurest=$cpurest" >> mpi_exec_shell
	3448	echo "fname=$fname" >> mpi_exec_shell
	3449	echo "localhost=$localhost" >> mpi_exec_shell
[1468]	3450	echo "return_address=$return_address" >> mpi_exec_shell
[1]	3451	echo "return_username=$return_username" >> mpi_exec_shell
	3452	echo "tasks_per_node=$tasks_per_node" >> mpi_exec_shell
	3453	echo "write_binary=$write_binary" >> mpi_exec_shell
	3454	echo "use_seperate_pe_for_dvrp_output=$use_seperate_pe_for_dvrp_output" >> mpi_exec_shell
	3455	echo " " >> mpi_exec_shell
	3456	echo "export F_ERRCNT" >> mpi_exec_shell
	3457	echo "export MPIPROGINV" >> mpi_exec_shell
	3458	echo "export OMP_NUM_THREADS" >> mpi_exec_shell
	3459	echo "export cpurest" >> mpi_exec_shell
	3460	echo "export fname" >> mpi_exec_shell
	3461	echo "export localhost" >> mpi_exec_shell
[1468]	3462	echo "export return_address" >> mpi_exec_shell
[1]	3463	echo "export return_username" >> mpi_exec_shell
	3464	echo "export tasks_per_node" >> mpi_exec_shell
	3465	echo "export write_binary" >> mpi_exec_shell
	3466	echo "export use_seperate_pe_for_dvrp_output" >> mpi_exec_shell
	3467	echo " " >> mpi_exec_shell
[102]	3468	echo "exec ./a.out" >> mpi_exec_shell
[1]	3469
	3470	chmod u+x mpi_exec_shell
	3471	export MPIPROGINF=YES
	3472	mpirun -f multinode_config &
	3473	wait
	3474
	3475	fi
[440]	3476	elif [[ $(echo $host \| cut -c1-2) = lc && $host != lckyoto && $host != lctit ]]
[1]	3477	then
	3478
	3479	# COPY HOSTFILE FROM SOURCE DIRECTORY OR CREATE IT, IF IT
	3480	# DOES NOT EXIST
[1289]	3481	if [[ $host != lccrayb &&$host != lccrayf && $host != lccrayh && $host != lckyuh && $host != lckyut ]]
[1]	3482	then
[179]	3483	if [[ -f $hostfile ]]
	3484	then
	3485	cp $hostfile hostfile
[746]	3486	(( ii = $numprocs / $threads_per_task ))
[179]	3487	else
	3488	(( ii = 1 ))
	3489	while (( ii <= $numprocs / $threads_per_task ))
	3490	do
	3491	echo $localhost_realname >> hostfile
	3492	(( ii = ii + 1 ))
	3493	done
	3494	fi
	3495	eval zeile=\"`head -n $ii hostfile`\"
	3496	printf "\n *** running on: $zeile"
[1]	3497	fi
[179]	3498
[1]	3499	(( ii = $numprocs / $threads_per_task ))
	3500	export OMP_NUM_THREADS=$threads_per_task
[1289]	3501
[1]	3502	if [[ $threads_per_task != 1 ]]
	3503	then
[1289]	3504	# INCREASE STACK SIZE TO UNLIMITED, BECAUSE OTHERWISE LARGE RUNS
	3505	# MAY ABORT
[1304]	3506	ulimit -s unlimited
[405]	3507	printf "\n threads per task: $threads_per_task stacksize: unlimited"
[1]	3508	fi
[102]	3509	if [[ $run_coupled_model = false ]]
[1]	3510	then
[291]	3511	if [[ "$ocean_file_appendix" = true ]]
	3512	then
	3513	echo "precursor_ocean" > runfile_atmos
	3514	else
	3515	echo "precursor_atmos" > runfile_atmos
	3516	fi
[102]	3517	printf "\n\n"
[388]	3518
[1289]	3519	if [[ $host = lccrayb \|\| $host = lccrayh ]]
[1224]	3520	then
	3521	echo "--- aprun -n $ii -N $tasks_per_node a.out $ROPTS < runfile_atmos"
	3522	aprun -n $ii -N $tasks_per_node a.out $ROPTS < runfile_atmos
	3523	# aprun -n $ii -ss -r2 -j1 a.out $ROPTS < runfile_atmos
[1197]	3524	elif [[ $host = lccrayf ]]
	3525	then
[1420]	3526	aprun -j1 -n $ii -N $tasks_per_node -m ${memory}M a.out $ROPTS < runfile_atmos
[892]	3527	elif [[ $host = lcxe6 \|\| $host = lcxt5m ]]
[179]	3528	then
[544]	3529	aprun -n $ii -N $tasks_per_node a.out $ROPTS < runfile_atmos
[755]	3530	elif [[ $host = lcflow ]]
	3531	then
[1547]	3532	mpirun -np $ii a.out < runfile_atmos $ROPTS
[1021]	3533	elif [[ $host = lcsb ]]
	3534	then
	3535	mpirun_rsh -hostfile $PBS_NODEFILE -np `cat $PBS_NODEFILE \| wc -l` a.out < runfile_atmos $ROPTS
[1040]	3536	elif [[ $host = lckiaps ]]
	3537	then
	3538	mpirun -np $ii -f $PBS_NODEFILE a.out < runfile_atmos $ROPTS
[1090]	3539	elif [[ $host = lckyu* ]]
	3540	then
[1106]	3541	mpiexec -n $ii --stdin runfile_atmos ./a.out $ROPTS
[164]	3542	else
[1106]	3543	mpiexec -machinefile hostfile -n $ii a.out < runfile_atmos $ROPTS
[164]	3544	fi
[1]	3545	else
[164]	3546
[1289]	3547	# CURRENTLY THERE IS NO FULL MPI-2 SUPPORT ON ICE AND XT4
[206]	3548	(( iia = $numprocs_atmos / $threads_per_task ))
	3549	(( iio = $numprocs_ocean / $threads_per_task ))
	3550	printf "\n coupled run ($iia atmosphere, $iio ocean)"
	3551	printf "\n using $coupled_mode coupling"
[102]	3552	printf "\n\n"
[164]	3553
[206]	3554	if [[ $coupled_mode = "mpi2" ]]
[164]	3555	then
[206]	3556	echo "atmosphere_to_ocean $iia $iio" > runfile_atmos
	3557	echo "ocean_to_atmosphere $iia $iio" > runfile_ocean
[197]	3558
[1289]	3559	if [[ $host = lccrayf \|\| $host = lcxe6 \|\| $host = lcxt5m ]]
[206]	3560	then
[197]	3561
[206]	3562	aprun -n $iia -N $tasks_per_node a.out < runfile_atmos $ROPTS &
	3563	aprun -n $iio -N $tasks_per_node a.out < runfile_ocean $ROPTS &
	3564
	3565	else
	3566	# WORKAROUND BECAUSE mpiexec WITH -env option IS NOT AVAILABLE ON SOME SYSTEMS
	3567	mpiexec -machinefile hostfile -n $iia a.out $ROPTS < runfile_atmos &
	3568	mpiexec -machinefile hostfile -n $iio a.out $ROPTS < runfile_ocean &
	3569	# mpiexec -machinefile hostfile -n $iia -env coupling_mode atmosphere_to_ocean a.out $ROPTS &
	3570	# mpiexec -machinefile hostfile -n $iio -env coupling_mode ocean_to_atmosphere a.out $ROPTS &
	3571	fi
	3572	wait
	3573
[164]	3574	else
	3575
[206]	3576	echo "coupled_run $iia $iio" > runfile_atmos
	3577
[1289]	3578	if [[ $host = lccrayf \|\| $host = lcxe6 \|\| $host = lcxt5m ]]
[206]	3579	then
	3580
	3581	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos $ROPTS
	3582
[718]	3583	elif [[ $host = lck \|\| $host = lckordi ]]
[367]	3584	then
[1108]	3585
	3586	mpiexec -n $ii ./a.out $ROPTS < runfile_atmos &
	3587
	3588	elif [[ $host = lckyu* ]]
	3589	then
	3590
	3591	mpiexec -n $ii --stdin runfile_atmos ./a.out $ROPTS
	3592
[206]	3593	fi
	3594	wait
[164]	3595	fi
[102]	3596
[206]	3597	fi
[1289]	3598
[440]	3599	elif [[ $host = lckyoto ]]
	3600	then
	3601	set -xv
	3602	export P4_RSHCOMMAND=plesh
	3603	echo " P4_RSHCOMMAND = $P4_RSHCOMMAND"
	3604	if [[ "$ENVIRONMENT" = BATCH ]]
	3605	then
[505]	3606	if [[ "$cond2" = fujitsu ]]
	3607	then
	3608	mpiexec -n $numprocs ./a.out $ROPTS # for fujitsu-compiler
	3609	elif [[ "cond2" = pgi ]]
	3610	then
	3611	mpirun -np $numprocs -machinefile ${QSUB_NODEINF} ./a.out $ROPTS
	3612	else
	3613	mpirun_rsh -np $numprocs -hostfile ${QSUB_NODEINF} MV2_USE_SRQ=0 ./a.out ${ROPTS} \|\| /bin/true
	3614	fi
[440]	3615	else
[505]	3616	if [[ "$cond2" = "" ]]
	3617	then
	3618	mpiruni_rsh -np $numprocs ./a.out $ROPTS # for intel
	3619	else
	3620	mpirun -np $numprocs ./a.out $ROPTS
	3621	fi
[440]	3622	fi
	3623	set +xv
[1289]	3624
[1]	3625	elif [[ $host = lctit ]]
	3626	then
[678]	3627	export OMP_NUM_THREADS=$threads_per_task
	3628	echo "OMP_NUM_THREADS=$OMP_NUM_THREADS"
	3629	if [[ "$threads_per_task" != 1 ]]
	3630	then
	3631	export MV2_ENABLE_AFFINITY=0
	3632	fi
	3633	echo "----- PBS_NODEFILE content:"
	3634	cat $PBS_NODEFILE
	3635	echo "-----"
	3636	(( ii = $numprocs / $threads_per_task ))
	3637	echo "mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out $ROPTS"
	3638	mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out $ROPTS
[1]	3639	else
[102]	3640	mpprun -n $numprocs a.out $ROPTS
[1]	3641	fi
	3642	else
[102]	3643	a.out $ROPTS
[1]	3644	fi
	3645	fi
[1289]	3646
	3647	if [[ $? != 0 ]]
[1]	3648	then
	3649
[1289]	3650	# ABORT IN CASE OF RUNTIME ERRORS
[1]	3651	printf "\n +++ runtime error occured"
	3652	locat=execution
	3653	exit
[1289]	3654
[1]	3655	else
[260]	3656
[1289]	3657	printf "\n$dashes\n *** execution finished \n"
	3658
	3659	# STOP THE DVR STREAMING SERVER AND PROCESS THE DVR OUTPUT IN ORDER
	3660	# TO CREAT DVRS- AND HTML-FILES CONTAINING ALL STREAMS
[260]	3661	if [[ "$dvrserver_id" != "" ]]
	3662	then
	3663	kill $dvrserver_id
	3664	printf "\n *** dvr server with id=$dvrserver_id has been stopped"
[261]	3665
[1289]	3666	# IF THERE IS A DIRECTORY, DATA HAVE BEEN OUTPUT BY THE
	3667	# STREAMING SERVER. OTHERWISE, USER HAS CHOSEN dvrp_output=local
[262]	3668	if [[ -d DATA_DVR ]]
	3669	then
[261]	3670
[1289]	3671	# ADD THE CURRENT DVR CONFIGURATION FILE TO THE DVR OUTPUT
	3672	# DIRECTORY
[262]	3673	cp .dvrserver.config DATA_DVR
	3674
[1289]	3675	# PROCESS THE DVR OUTPUT (OPTION -s FOR GENERATING
	3676	# SEQUENCE MODE DATA TOO)
[262]	3677	process_dvr_output -d DATA_DVR -f $fname -s
	3678
	3679	else
	3680
[1289]	3681	# PROCESS THE LOCAL OUTPUT
[262]	3682	process_dvr_output -l -d DATA_DVR -f $fname
	3683
	3684	fi
	3685
	3686	elif [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
	3687	then
	3688
[1289]	3689	# PROCESS DVR OUTPUT GENERATD IN LOCAL MODE (dvrp_output=local)
[262]	3690	process_dvr_output -l -d DATA_DVR -f $fname
	3691
[260]	3692	fi
[1]	3693	fi
	3694
	3695
	3696
[1289]	3697	# CALL OF combine_plot_fields IN ORDER TO MERGE SINGLE FILES WRITTEN
	3698	# BY EACH CORE INTO ONE FILE
[920]	3699	if [[ ! -f ${PALM_BIN}/combine_plot_fields${block}.x ]]
	3700	then
	3701	printf "\n\n\n +++ WARNING: no combine_plot_fields found for given block \"$cond1 $cond2\""
	3702	printf "\n 2d- and/or 3d-data may be incomplete!"
	3703	printf "\n Run \"mbuild -u -h $localhost\" to generate utilities for this block.\n"
	3704	elif [[ "$combine_plot_fields" == true ]]
	3705	then
[1270]	3706	if [[ $localhost = lccrayh \|\| $localhost = lccrayb ]]
	3707	then
	3708	printf "\n\n\n *** post-processing: now executing \"aprun -n 1 -N 1 combine_plot_fields${block}.x\" ..."
	3709	aprun -n 1 -N 1 combine_plot_fields${block}.x #$ROPTS < runfile_atmos
	3710	else
	3711	printf "\n\n\n *** post-processing: now executing \"combine_plot_fields${block}.x\" ..."
	3712	combine_plot_fields${block}.x
	3713	fi
[920]	3714	else
[1289]	3715
	3716	# TEMPORARY SOLUTION TO SKIP combine_plot_fields. THIS IS REQUIRED IN CASE OF HUGE AMOUNT OF
	3717	# DATA OUTPUT. TO DO: EXTEND THIS BRANCH BY CREATING A BATCH JOB for combine_plot_fields.
	3718	# ??? koennen wir das streichen ???
[920]	3719	printf "\n\n\n *** post-processing: skipping combine_plot_fields (-Z option set) ..."
	3720	fi
[503]	3721
	3722
	3723
[1289]	3724	# EXECUTE OUTPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
[1]	3725	(( i = 0 ))
	3726	while (( i < ioc ))
	3727	do
	3728	(( i = i + 1 ))
	3729	if (( i == 1 ))
	3730	then
[1289]	3731	printf "\n\n *** execution of OUTPUT-commands:\n$dashes"
[1]	3732	fi
	3733	printf "\n >>> ${out_command[$i]}"
	3734	eval ${out_command[$i]}
	3735	if (( i == ioc ))
	3736	then
[1289]	3737	printf "\n$dashes\n"
[1]	3738	fi
	3739	done
	3740
	3741
[1289]	3742	# IN TRACE-MODE PRINT CONTENTS OF THE CURRENT (TEMPORARY) WORKING DIRECTORY
[1]	3743	if [[ $do_trace = true ]]
	3744	then
	3745	printf "\n\n"
	3746	ls -al
	3747	fi
	3748
	3749
	3750
[1289]	3751	# COPY LOCAL OUTPUT-FILES TO THEIR PERMANENT DESTINATIONS
[1]	3752	(( i = 0 ))
	3753	while (( i < iout ))
	3754	do
	3755	(( i = i + 1 ))
	3756	if (( i == 1 ))
	3757	then
[1289]	3758	printf "\n\n *** saving OUTPUT-files:\n$dashes"
[1]	3759	fi
	3760
[1289]	3761	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
[1]	3762	files_for_pes=false; filetyp=file
	3763	if [[ "${actionout[$i]}" = pe && -n $numprocs ]]
	3764	then
	3765	files_for_pes=true; filetyp=directory
	3766	actionout[$i]=""
	3767	elif [[ "${actionout[$i]}" = pe && ! -n $numprocs ]]
	3768	then
	3769	actionout[$i]=""
	3770	elif [[ "${actionout[$i]}" = arpe && -n $numprocs ]]
	3771	then
	3772	files_for_pes=true; filetyp=directory
	3773	actionout[$i]="ar"
	3774	elif [[ "${actionout[$i]}" = arpe && ! -n $numprocs ]]
	3775	then
	3776	actionout[$i]="ar"
	3777	elif [[ "${actionout[$i]}" = flpe && -n $numprocs ]]
	3778	then
	3779	files_for_pes=true; filetyp=directory
	3780	actionout[$i]="fl"
	3781	elif [[ "${actionout[$i]}" = flpe && ! -n $numprocs ]]
	3782	then
	3783	actionout[$i]="fl"
	3784	elif [[ "${actionout[$i]}" = trpe && -n $numprocs ]]
	3785	then
	3786	files_for_pes=true; filetyp=directory
	3787	actionout[$i]="tr"
	3788	elif [[ "${actionout[$i]}" = trpe && ! -n $numprocs ]]
	3789	then
	3790	actionout[$i]="tr"
	3791	fi
	3792
	3793	if [[ ! -f ${localout[$i]} && $files_for_pes = false ]]
	3794	then
	3795	printf "\n +++ temporary OUTPUT-file ${localout[$i]} does not exist\n"
[260]	3796	elif [[ ! -d ${localout[$i]} && $files_for_pes = true ]]
[1]	3797	then
	3798	printf "\n +++ temporary OUTPUT-file ${localout[$i]}/.... does not exist\n"
	3799	else
	3800
	3801
[1289]	3802	# COPY VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
	3803	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
[1]	3804	if [[ "${actionout[$i]}" = tr ]]
	3805	then
	3806	if [[ $localhost != $fromhost ]]
	3807	then
	3808	if [[ $files_for_pes = false ]]
	3809	then
	3810	cps=""
	3811	cst=""
	3812	else
	3813	cps=-c
	3814	cst="/"
	3815	fi
[622]	3816	if [[ $localhost = nech ]]
[1]	3817	then
	3818
[1289]	3819	# TRANSFER IN SEPERATE JOB
	3820	# FIRST COPY FILE TO TEMPORY DATA DIRECTORY
[1]	3821	[[ ! -d $tmp_data_catalog/TRANSFER ]] && mkdir -p $tmp_data_catalog/TRANSFER
	3822	file_to_transfer=${fname}_${localout[$i]}_to_transfer_$kennung
	3823	if [[ $files_for_pes = false ]]
	3824	then
	3825	ln -f ${localout[$i]} $tmp_data_catalog/TRANSFER/$file_to_transfer
	3826	else
	3827	mkdir $tmp_data_catalog/TRANSFER/$file_to_transfer
	3828	ln ${localout[$i]}/* $tmp_data_catalog/TRANSFER/$file_to_transfer
	3829	fi
	3830
	3831	echo "set -x" > transfer_${localout[$i]}
	3832	echo "cd $tmp_data_catalog/TRANSFER" >> transfer_${localout[$i]}
[82]	3833
	3834	printf "\n >>> OUTPUT: ${localout[$i]}$cst by SCP in seperate job to"
	3835	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}$cst"
	3836	printf "\n or higher cycle\n"
[1468]	3837	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]	3838
[1]	3839	echo "[[ \$? = 0 ]] && rm $file_to_transfer" >> transfer_${localout[$i]}
	3840
	3841	if [[ $localhost = nech ]]
	3842	then
[1094]	3843	subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 900 $PORTOPT transfer_${localout[$i]}
[1]	3844	else
	3845	if [[ "$LOGNAME" = b323013 ]]
	3846	then
[1094]	3847	subjob -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
[1]	3848	else
[1094]	3849	subjob -d -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
[1]	3850	fi
	3851	fi
	3852
	3853	else
	3854
[1289]	3855	# TRANSFER WITHIN THIS JOB
[1]	3856	transfer_failed=false
[82]	3857	printf "\n >>> OUTPUT: ${localout[$i]}$cst by SCP to"
	3858	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}$cst\n"
[1255]	3859	if [[ $localhost = lccrayb ]]
	3860	then
[1468]	3861	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]	3862	elif [[ $localhost = lccrayh ]]
	3863	then
[1468]	3864	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]}"
	3865	elif [[ $localhost = lcxe6 ]]
	3866	then
	3867	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]	3868	else
[1468]	3869	batch_scp $PORTOPT $cps -b -m -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
[1255]	3870	fi
[82]	3871	[[ $? != 0 ]] && transfer_failed=true
[1]	3872
[1289]	3873	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
[1]	3874	if [[ $transfer_failed = true ]]
	3875	then
[1289]	3876	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
[1]	3877	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
	3878
[1289]	3879	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
[1]	3880	eval local_catalog=${pathout[$i]}
	3881	if [[ ! -d $local_catalog ]]
	3882	then
	3883	printf " *** local directory does not exist. Trying to create:\n"
	3884	printf " $local_catalog \n"
	3885	mkdir -p $local_catalog
	3886	fi
	3887	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
	3888	transfer_problems=true
	3889	fi
	3890	fi
	3891	else
	3892
[1289]	3893	# UNSET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE COPIED ON THIS MACHINE
[1]	3894	actionout[$i]=""
	3895	fi
	3896	fi
	3897
	3898
[1289]	3899	# APPEND VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
	3900	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
[1]	3901	if [[ "${actionout[$i]}" = tra ]]
	3902	then
	3903	if [[ $localhost != $fromhost ]]
	3904	then
[622]	3905	if [[ $localhost = ibmh \|\| $localhost = nech ]]
[1]	3906	then
	3907
[1289]	3908	# TRANSFER IN SEPERATE JOB
	3909	# FIRST COPY FILE TO TEMPORY DATA DIRECTORY
[1]	3910	[[ ! -d $tmp_data_catalog/TRANSFER ]] && mkdir -p $tmp_data_catalog/TRANSFER
	3911	file_to_transfer=${fname}_${localout[$i]}_to_transfer_$kennung
	3912	ln -f ${localout[$i]} $tmp_data_catalog/TRANSFER/$file_to_transfer
	3913
	3914	echo "set -x" > transfer_${localout[$i]}
	3915	echo "cd $tmp_data_catalog/TRANSFER" >> transfer_${localout[$i]}
[82]	3916
	3917	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP in seperate job to"
	3918	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}"
	3919	printf "\n or higher cycle\n"
[1468]	3920	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]	3921
[1]	3922	echo "[[ \$? = 0 ]] && rm $file_to_transfer" >> transfer_${localout[$i]}
	3923
	3924	if [[ $localhost = nech ]]
	3925	then
[1094]	3926	subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 900 $PORTOPT transfer_${localout[$i]}
[1]	3927	else
	3928	if [[ $LOGNAME = b323013 ]]
	3929	then
[1094]	3930	subjob -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
[1]	3931	else
[1094]	3932	subjob -d -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
[1]	3933	fi
	3934	fi
	3935
	3936	else
	3937
[1289]	3938	# TRANSFER WITHIN THIS JOB
[1]	3939	transfer_failed=false
[82]	3940	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP to"
	3941	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}\n"
[1255]	3942	if [[ $localhost = lccrayb ]]
	3943	then
[1468]	3944	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]	3945	elif [[ $localhost = lccrayh ]]
	3946	then
[1468]	3947	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]}"
	3948	elif [[ $localhost = lcxe6 ]]
	3949	then
	3950	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]	3951	else
[1468]	3952	batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
[1255]	3953	fi
[82]	3954	[[ $? != 0 ]] && transfer_failed=true
[1]	3955
[1289]	3956	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
[1]	3957	if [[ $transfer_failed = true ]]
	3958	then
[1289]	3959	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
[1]	3960	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
	3961
[1289]	3962	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
[1]	3963	eval local_catalog=${pathout[$i]}
	3964	if [[ ! -d $local_catalog ]]
	3965	then
	3966	printf " *** local directory does not exist. Trying to create:\n"
	3967	printf " $local_catalog \n"
	3968	mkdir -p $local_catalog
	3969	fi
	3970
	3971	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
	3972	transfer_problems=true
	3973	fi
	3974	fi
	3975	else
	3976
[1289]	3977	# RESET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE APPENDED ON THIS MACHINE
[1]	3978	actionout[$i]=a
	3979	fi
	3980	fi
	3981
	3982
[1289]	3983	# OUTPUT-FILE FOR A RESTART-RUN.
	3984	# FILE IS MOVED TO THE TEMPORARY DATA DIRECTORY USING link COMMAND.
	3985	# OPTION -f IS USED TO OVERWRITE EXISTING FILES.
	3986	# AS LAST ACTION, ARCHIVING IS INITIATED.
[1]	3987	if [[ "${actionout[$i]}" = fl ]]
	3988	then
	3989	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog
	3990	chmod g+rx $tmp_data_catalog
	3991	if [[ $files_for_pes = false ]]
	3992	then
	3993	printf "\n >>> OUTPUT: ${localout[$i]} to"
	3994	printf "\n $tmp_data_catalog/${frelout[$i]} (temporary data catalog)\n"
	3995	ln -f ${localout[$i]} $tmp_data_catalog/${frelout[$i]}
	3996	else
	3997	printf "\n >>> OUTPUT: ${localout[$i]}/.... to"
	3998	printf "\n $tmp_data_catalog/${frelout[$i]} (temporary data catalog)\n"
	3999	mkdir $tmp_data_catalog/${frelout[$i]}
[149]	4000	cd ${localout[$i]}
	4001	for file in $(ls *)
	4002	do
	4003	ln -f $file $tmp_data_catalog/${frelout[$i]}
	4004	done
	4005	cd $TEMPDIR
[1]	4006	fi
	4007
	4008
[1289]	4009	# CREATE AND SUBMIT ARCHIVING-JOB
[1]	4010	if [[ $store_on_archive_system = true ]]
	4011	then
	4012
	4013	if [[ $archive_system = asterix ]]
	4014	then
	4015	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
	4016	if [[ $files_for_pes = false ]]
	4017	then
	4018	echo "stageout ${frelout[$i]} > STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
	4019	else
	4020	echo "stageout -t ${frelout[$i]} > STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
	4021	fi
	4022	echo "cat STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
	4023	echo "if [[ \$(grep -c \"st.msg:150\" STAGE_OUTPUT${i}_$kennung) != 0 ]]" >> archive_${frelout[$i]}
	4024	echo "then" >> archive_${frelout[$i]}
	4025	echo " do_stageout=false" >> archive_${frelout[$i]}
	4026	echo "else" >> archive_${frelout[$i]}
	4027	echo " echo \" +++ $filetyp ${frelout[$i]} could not be stored on archive-system\" " >> archive_${frelout[$i]}
	4028	echo " cat /dev/null > ~/job_queue/ARCHIVE_ERROR_$fname" >> archive_${frelout[$i]}
	4029	echo " cat STAGE_OUTPUT${i}_$kennung > ~/job_queue/archive_${frelout[$i]}_error" >> archive_${frelout[$i]}
	4030	echo " echo \" *** $filetyp ${frelout[$i]} will be copied to \$WORK as backup\" " >> archive_${frelout[$i]}
	4031	if [[ $files_for_pes = false ]]
	4032	then
	4033	echo " cp ${frelout[$i]} \$WORK" >> archive_${frelout[$i]}
	4034	else
	4035	echo " cp -r ${frelout[$i]} \$WORK/${frelout[$i]}" >> archive_${frelout[$i]}
	4036	fi
	4037	echo " echo \" *** $filetyp ${frelout[$i]} saved\" " >> archive_${frelout[$i]}
	4038	echo "fi" >> archive_${frelout[$i]}
	4039	echo "rm STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
	4040	elif [[ $archive_system = DMF ]]
	4041	then
	4042	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
	4043	if [[ $files_for_pes = false ]]
	4044	then
	4045	printf "\n +++ archiving of single files impossible with $archive_system !\n"
	4046	locat=DMF
	4047	exit
	4048	else
[1289]	4049	# ??? nicht benÃ¶tigte Archiv-Systeme entfernen ???
[1]	4050	# FUER RECHNER IN JUELICH. DORT KOENNTEN AUCH
	4051	# EINZELNE DATEIEN GESICHERT WERDEN (SPAETER KORR.)
	4052	echo "rm -rf \$ARCHIVE/${frelout[$i]}" >> archive_${frelout[$i]}
	4053	echo "cp -r ${frelout[$i]} \$ARCHIVE" >> archive_${frelout[$i]}
	4054	fi
	4055	elif [[ $archive_system = tivoli ]]
	4056	then
	4057	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
	4058	if [[ $files_for_pes = false ]]
	4059	then
[1289]	4060	# REMOVE EXISTING OLD FILES FROM THE ARCHIVE
[1]	4061	echo "set -x" >> archive_${frelout[$i]}
	4062	echo "rm -rf \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
	4063	echo "cp ${frelout[$i]} \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
	4064	else
	4065
	4066	echo "set -x" >> archive_${frelout[$i]}
	4067	echo "rm -rf \$PERM/${frelout[$i]}/*" >> archive_${frelout[$i]}
	4068	echo "[[ ! -d \$PERM/${frelout[$i]} ]] && mkdir $PERM/${frelout[$i]}" >> archive_${frelout[$i]}
	4069	cd $tmp_data_catalog
	4070	all_files=`ls -1 ${frelout[$i]}/*`
	4071	cd - > /dev/null
	4072	(( inode = 0 ))
	4073	(( tp1 = tasks_per_node + 1 ))
	4074	while (( inode < nodes ))
	4075	do
	4076	files=`echo $all_files \| cut -d" " -f1-$tasks_per_node`
	4077	all_files=`echo $all_files \| cut -d" " -f$tp1-`
[1289]	4078	echo "tar cvf \$PERM/${frelout[$i]}/${frelout[$i]}.node_$inode.tar $files" >> archive_${frelout[$i]}
[1]	4079	(( inode = inode + 1 ))
	4080	done
	4081	fi
	4082	elif [[ $archive_system = ut ]]
	4083	then
	4084	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
	4085	if [[ $files_for_pes = false ]]
	4086	then
[1289]	4087	# REMOVE EXISTING OLD FILES FROM THE ARCHIVE
[1]	4088	echo "set -x" >> archive_${frelout[$i]}
	4089	echo "rm -rf \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
	4090	echo "cp ${frelout[$i]} \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
	4091	else
	4092
	4093	echo "set -x" >> archive_${frelout[$i]}
	4094	echo "rm -rf \$UT/${frelout[$i]}/*" >> archive_${frelout[$i]}
	4095	echo "[[ ! -d \$UT/${frelout[$i]} ]] && mkdir $UT/${frelout[$i]}" >> archive_${frelout[$i]}
	4096	cd $tmp_data_catalog
	4097	all_files=`ls -1 ${frelout[$i]}/*`
	4098	cd - > /dev/null
	4099	(( inode = 0 ))
	4100	(( tp1 = tasks_per_node + 1 ))
	4101	while (( inode < nodes ))
	4102	do
	4103	files=`echo $all_files \| cut -d" " -f1-$tasks_per_node`
	4104	all_files=`echo $all_files \| cut -d" " -f$tp1-`
	4105	echo "tar cvf \$UT/${frelout[$i]}/${frelout[$i]}.node_$inode.tar $files" >> archive_${frelout[$i]}
	4106	(( inode = inode + 1 ))
	4107	done
	4108	fi
	4109	elif [[ $archive_system = none ]]
	4110	then
	4111	printf " +++ archiving on $localhost not available!\n"
	4112	fi
	4113
	4114	if [[ $archive_system != none ]]
	4115	then
[1289]	4116	if [[ $localhost = nech ]]
[1]	4117	then
[1094]	4118	subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 7200 $PORTOPT archive_${frelout[$i]}
[1]	4119	fi
	4120	printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n"
	4121	fi
	4122	else
[399]	4123	printf " +++ caution: option -A is switched off. No archiving on $archive_system!\n"
[1]	4124	fi
	4125
	4126
[1289]	4127	# CREATE AN EMPTY DIRECTORY IN THE USERS PERMANENT DIRECTORY,
	4128	# IN ORDER TO NOTE THE RESPECTIVE CYCLE NUMBER ON THE ARCHIVE SYSTEM
	4129	# RESTART-JOBS ARE USING THESE EMPTY-DIRECTORIES TO GET THE CURRENT HIGHEST
	4130	# CYCLE NUMBER ON THE ARCHIVE SYSTEM (IN CASE THAT INFORMATIONS ARE DIFFICULT TO
	4131	# TO ACCESS FROM THE ARCHIVE-SYSTEM DIRECTLY))
[1]	4132	if [[ $files_for_pes = false ]]
	4133	then
	4134	cat /dev/null > ${pathout[$i]}
	4135	else
	4136	mkdir -p ${pathout[$i]}
	4137	fi
	4138
	4139	fi
	4140
	4141
[1289]	4142	# COPY FROM THIS HOST TO THE ARCHIVE-SYSTEM
	4143	# IF ANY ARCHIVING FAILS, AN ERROR-FLAG-FILE IS SET
	4144	# THIS FILE REMAINS TO BE SET, EVEN IF ARCHIVING OF FURTHER FILES IS SUCCESSFULL
[1]	4145	if [[ "${actionout[$i]}" = ar ]]
	4146	then
	4147	if [[ $files_for_pes = false ]]
	4148	then
	4149	printf "\n >>> OUTPUT: ${localout[$i]} to"
	4150	printf "\n ${pathout[$i]}"
	4151	printf "\n File will be copied to archive-system ($archive_system) !\n"
	4152	else
	4153	printf "\n >>> OUTPUT: ${localout[$i]}/_.... to"
	4154	printf "\n ${pathout[$i]}"
	4155	printf "\n Directory will be copied to archive-system ($archive_system) !\n"
	4156	fi
	4157	mv ${localout[$i]} ${frelout[$i]}
	4158
	4159	file_saved=false
	4160
	4161	if [[ $archive_system = asterix ]]
	4162	then
	4163	do_stageout=true
	4164	(( stageout_anz = 0 ))
	4165	while [[ $do_stageout = true ]]
	4166	do
	4167	if [[ $files_for_pes = false ]]
	4168	then
	4169	stageout ${frelout[$i]} > STAGE_OUTPUT
	4170	else
	4171	stageout -t ${frelout[$i]} > STAGE_OUTPUT
	4172	fi
	4173	cat STAGE_OUTPUT
	4174	if [[ $(grep -c "st.msg:150" STAGE_OUTPUT) != 0 ]]
	4175	then
	4176	file_saved=true
	4177	do_stageout=false
	4178	else
	4179	if [[ $files_for_pes = false ]]
	4180	then
	4181	printf "\n +++ file ${frelout[$i]} could not be saved on archive-system"
	4182	else
	4183	printf "\n +++ directory ${frelout[$i]} could not be saved on archive-system"
	4184	fi
	4185	(( stageout_anz = stageout_anz + 1 ))
	4186	if (( stageout_anz == 10 ))
	4187	then
	4188	printf "\n +++ stoped after 10 unsuccessful tries!"
	4189	archive_save=false
	4190	do_stageout=false
	4191	else
	4192	printf "\n *** new try to store on archive after 15 min:"
	4193	sleep 900
	4194	fi
	4195	fi
	4196	done
	4197	elif [[ $archive_system = DMF ]]
	4198	then
	4199	if [[ $files_for_pes = false ]]
	4200	then
	4201	printf "\n +++ archiving of single files impossible on $archive_system!\n"
	4202	locat=DMF
	4203	exit
	4204	else
	4205	rm -rf $ARCHIVE/${frelout[$i]}
	4206	cp -r ${frelout[$i]} $ARCHIVE
	4207	fi
	4208	file_saved=true
	4209	elif [[ $archive_system = tivoli ]]
	4210	then
[1289]	4211	# ARCHIVING ONLY POSSIBLE VIA BATCH-JOB
	4212	# IN THE MEANTIME, FILE IS STORED IN THE TEMPORARY DATA DIRECTORY,
	4213	# BECAUSE MRUN'S CURRENT TEMPORARY WORKING DIRECTORY MAY ALREADY BE DELETED
	4214	# WHEN THE ARCHIVE-JOB IS EXECUTED
[1]	4215	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog
	4216	chmod g+rx $tmp_data_catalog
	4217	if [[ $files_for_pes = false ]]
	4218	then
	4219	ln -f ${frelout[$i]} $tmp_data_catalog/${frelout[$i]}
	4220	else
	4221	mkdir $tmp_data_catalog/${frelout[$i]}
	4222	ln -f ${frelout[$i]}/* $tmp_data_catalog/${frelout[$i]}
	4223	fi
	4224
[1289]	4225	# GENERATE AND SUBMIT BATCH-JOB
	4226	# FILE HAS TO BE DELETED FROM THE TEMPORARY DATA DIRECTORY
	4227	# DELETE OLD EXISTING FILES FROM THE ARCHIVE
[1]	4228	echo "cd $tmp_data_catalog" > archive_${frelout[$i]}
	4229	if [[ $files_for_pes = false ]]
	4230	then
	4231	echo "rm -rf \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
	4232	echo "cp ${frelout[$i]} \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
	4233	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
	4234	else
	4235	echo "rm -rf \$PERM/${frelout[$i]}.tar" >> archive_${frelout[$i]}
	4236	echo "tar cvf \$PERM/${frelout[$i]}.tar ${frelout[$i]}" >> archive_${frelout[$i]}
	4237	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
	4238	fi
	4239
[1094]	4240	subjob -v -d -q cdata -X 0 -m 1000 -t 43200 -c $job_catalog $PORTOPT archive_${frelout[$i]}
[1]	4241	printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n"
	4242	file_saved=true
	4243
	4244	elif [[ $archive_system = ut ]]
	4245	then
[1289]	4246	# ARCHIVING ONLY POSSIBLE VIA BATCH-JOB
	4247	# IN THE MEANTIME, FILE IS STORED IN THE TEMPORARY DATA DIRECTORY,
	4248	# BECAUSE MRUN'S CURRENT TEMPORARY WORKING DIRECTORY MAY ALREADY BE DELETED
	4249	# WHEN THE ARCHIVE-JOB IS EXECUTED
[1]	4250	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog
	4251	chmod g+rx $tmp_data_catalog
	4252	if [[ $files_for_pes = false ]]
	4253	then
	4254	ln -f ${frelout[$i]} $tmp_data_catalog/${frelout[$i]}
	4255	else
	4256	mkdir $tmp_data_catalog/${frelout[$i]}
	4257	ln -f ${frelout[$i]}/* $tmp_data_catalog/${frelout[$i]}
	4258	fi
	4259
[1289]	4260	# GENERATE AND SUBMIT BATCH-JOB
	4261	# FILE HAS TO BE DELETED FROM THE TEMPORARY DATA DIRECTORY
	4262	# DELETE OLD EXISTING FILES FROM THE ARCHIVE
[1]	4263	echo "cd $tmp_data_catalog" > archive_${frelout[$i]}
	4264	if [[ $files_for_pes = false ]]
	4265	then
	4266	echo "rm -rf \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
	4267	echo "cp ${frelout[$i]} \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
	4268	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
	4269	else
	4270	echo "rm -rf \$UT/${frelout[$i]}.tar" >> archive_${frelout[$i]}
	4271	echo "tar cvf \$UT/${frelout[$i]}.tar ${frelout[$i]}" >> archive_${frelout[$i]}
	4272	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
	4273	fi
	4274
[1094]	4275	subjob -v -c /pf/b/$usern/job_queue -d -q pp -X 0 -m 1000 -t 7200 $PORTOPT archive_${frelout[$i]}
[1]	4276	printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n"
	4277	file_saved=true
	4278
	4279	else
	4280	printf "\n +++ archive_system=\"$archive_system\" archiving impossible!"
	4281	archive_save=false
	4282	fi
[1289]	4283
	4284	# CREATE EMPTY FLAG-FILE OR -DIRECTORY
	4285	# IN ORDER TO NOTE THE RESPECTIVE CYCLE NUMBER ON THE ARCHIVE SYSTEM
	4286	# RESTART-JOBS ARE USING THESE EMPTY-DIRECTORIES TO GET THE CURRENT HIGHEST
	4287	# CYCLE NUMBER ON THE ARCHIVE SYSTEM (IN CASE THAT INFORMATIONS ARE DIFFICULT TO
	4288	# TO ACCESS FROM THE ARCHIVE-SYSTEM DIRECTLY))
[1]	4289	if [[ $file_saved = true ]]
	4290	then
	4291	if [[ $files_for_pes = false ]]
	4292	then
	4293	cat /dev/null > ${pathout[$i]}
	4294	else
	4295	mkdir -p ${pathout[$i]}
	4296	fi
	4297	fi
[1289]	4298
[1]	4299	fi
	4300
[1289]	4301	# APPEND ON THIS MACHINE
[1]	4302	if [[ "${actionout[$i]}" = "a" ]]
	4303	then
[741]	4304	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
	4305	then
	4306	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}.${extout[$i]}\n"
	4307	cat ${localout[$i]} >> ${pathout[$i]}.${extout[$i]}
	4308	else
	4309	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}\n"
	4310	cat ${localout[$i]} >> ${pathout[$i]}
	4311	fi
[1]	4312	fi
	4313
[1289]	4314	# COPY ON THIS MACHINE
	4315	# COPY HAS TO BE USED, BECAUSE MOVE DOES NOT WORK IF FILE-ORIGIN AND TARGET ARE
	4316	# ON DIFFERENT FILE-SYSTEMS
[1]	4317	if [[ "${actionout[$i]}" = "" && $files_for_pes = false ]]
	4318	then
	4319
[1289]	4320	# COPY IN CASE OF RUNS ON SINGLE CORES
[5]	4321	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
[1]	4322	then
	4323	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}.${extout[$i]}\n"
[149]	4324	if [[ $link_local_output = true ]]
	4325	then
	4326	printf " using ln -f\n"
	4327	ln -f ${localout[$i]} ${pathout[$i]}.${extout[$i]}
	4328	fi
	4329	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
	4330	if [[ ! -f "${pathout[$i]}.${extout[$i]}" ]]
	4331	then
	4332	if [[ $link_local_output = true ]]
	4333	then
	4334	printf " ln failed, using cp...\n"
	4335	fi
	4336	cp ${localout[$i]} ${pathout[$i]}.${extout[$i]}
	4337	fi
[1]	4338	else
	4339	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}\n"
[149]	4340	if [[ $link_local_output = true ]]
	4341	then
	4342	printf " using ln -f\n"
	4343	ln -f ${localout[$i]} ${pathout[$i]}
	4344	fi
	4345	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
	4346	if [[ ! -f "${pathout[$i]}" ]]
	4347	then
	4348	if [[ $link_local_output = true ]]
	4349	then
	4350	printf " ln failed, using cp...\n"
	4351	fi
	4352	cp ${localout[$i]} ${pathout[$i]}
	4353	fi
[1]	4354	fi
	4355
	4356	elif [[ "${actionout[$i]}" = "" && $files_for_pes = true ]]
	4357	then
	4358
[1289]	4359	# FILES FROM THE DIFFERENT CORES ARE MOVED WITH ln-COMMAND TO THE PERMANENT DIRECTORY
	4360	# AS A FIRST STEP, THE PERMANENT DIRECTORY IS CREATED
[1]	4361	printf "\n >>> OUTPUT: ${localout[$i]}/_.... to ${pathout[$i]}\n"
[149]	4362	if [[ $link_local_output = true ]]
	4363	then
	4364	printf " using ln -f\n"
	4365	mkdir ${pathout[$i]}
	4366	cd ${localout[$i]}
	4367	for file in $(ls *)
	4368	do
	4369	ln -f $file ${pathout[$i]}
	4370	done
	4371	cd $TEMPDIR
	4372	fi
[1289]	4373
	4374	# IF "ln -f" HAS FAILED OR IF "$link_local_output = false" DO A NORMAL COPY "cp -r"
[149]	4375	if [[ ! -f "${pathout[$i]}/_0000" ]]
	4376	then
	4377	if [[ $link_local_output = true ]]
	4378	then
	4379	printf " ln failed for .../_0000, using cp...\n"
	4380	fi
	4381	cp -r ${localout[$i]} ${pathout[$i]}
	4382	fi
[1]	4383
	4384	fi
	4385	fi
	4386	done
	4387	if (( i != 0 ))
	4388	then
	4389	if [[ $transfer_problems = true ]]
	4390	then
[1289]	4391	printf "\n$dashes\n *** OUTPUT-files saved"
[1]	4392	printf "\n +++ WARNING: some data transfers failed! \n"
	4393	else
[1289]	4394	printf "\n$dashes\n *** all OUTPUT-files saved \n"
[1]	4395	fi
	4396	fi
	4397
	4398
[1289]	4399	# IF REQUIRED, START A RESTART-JOB
	4400	# FILE CONTINUE_RUN MUST HAVE BEEN CREATED BY THE EXECUTABLE (PALM)
[1]	4401	if [[ -f CONTINUE_RUN ]]
	4402	then
	4403
	4404	if [[ $archive_save = true ]]
	4405	then
	4406
[1289]	4407	# ADD RESTART-OPTIONS TO THE MRUN-CALL (IF THEY ARE NOT USED ALREADY):
	4408	# -C TELLS MRUN THAT IT IS A RESTART-RUN
	4409	# -v SILENT MODE WITHOUT INTERACTIVE QUERIES
	4410	# -n BATCH-MODE (IMPORTANT ONLY IN CASE OF BATCH JOBS ON THE LOCAL MACHINE)
[1]	4411	[[ $(echo $mc \| grep -c "\-C") = 0 ]] && mc="$mc -C"
	4412	[[ $(echo $mc \| grep -c "\-v") = 0 ]] && mc="$mc -v"
	4413	[[ $(echo $mc \| grep -c "\-b") = 0 ]] && mc="$mc -b"
	4414	if [[ $(echo $mc \| grep -c "#") != 0 ]]
	4415	then
	4416	mc=`echo $mc \| sed 's/#/f/g'`
	4417	fi
	4418
	4419
[1289]	4420	# START THE RESTART-JOB
[1468]	4421	printf "\n\n *** initiating restart-run on \"$return_address\" using command:\n"
[1]	4422	echo " $mc"
[1289]	4423	printf "\n$dashes\n"
[1]	4424	if [[ $localhost != $fromhost ]]
	4425	then
	4426
[1468]	4427	if [[ $localhost = lccrayb \|\| $localhost = lccrayh \|\| $localhost = nech \|\| $localhost = ibmh \|\| $localhost = ibmkisti \|\| $localhost = ibmku \|\| $localhost = ibms \|\| $localhost = lcflow \|\| $localhost = lckyu* \|\| $localhost = lcxe6 ]]
[1]	4428	then
	4429	echo "*** ssh will be used to initiate restart-runs!"
[1468]	4430	echo " return_address=\"$return_address\" "
[1]	4431	echo " return_username=\"$return_username\" "
[1468]	4432	if [[ $(echo $return_address \| grep -c "130.75.105") = 1 ]]
[1]	4433	then
[1190]	4434	if [[ $localhost = ibmh ]]
	4435	then
[1468]	4436	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]	4437	elif [[ $localhost = lccrayb ]]
	4438	then
[1468]	4439	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]	4440	elif [[ $localhost = lccrayh ]]
	4441	then
[1468]	4442	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\" "
	4443	elif [[ $localhost = lcxe6 ]]
	4444	then
	4445	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]	4446	else
[1468]	4447	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]	4448	fi
[1]	4449	else
[693]	4450	if [[ $localhost = ibmkisti ]]
	4451	then
[1468]	4452	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]	4453	elif [[ $localhost = lcflow ]]
	4454	then
[1468]	4455	/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]	4456	elif [[ $localhost = lccrayb ]]
	4457	then
[1468]	4458	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]	4459	elif [[ $localhost = lccrayh ]]
	4460	then
[1468]	4461	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]	4462	else
[1468]	4463	ssh $SSH_PORTOPT $return_address -l $return_username "PATH=\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc "
[693]	4464	fi
[1]	4465	fi
	4466	else
	4467	printf "\n +++ no restart mechanism available for host \"$localhost\" "
	4468	locat=restart; exit
	4469	fi
	4470
[1289]	4471	# WAIT TO ALLOW THE RESTART-JOB TO BE QUEUED, BEFORE THE CURRENT JOB IS FINISHED
[399]	4472	if [[ $queue = special1q ]]
	4473	then
	4474	sleep 120
	4475	else
	4476	sleep 30
	4477	fi
[1]	4478
	4479	else
	4480
[1289]	4481	# JOBS RUNNING (AND STARTED) ON THE LOCAL MACHINE CAN DIRECTLY CALL MRUN (WITHOUT
	4482	# USING SSH)
[1]	4483	cd $LOCAL_PWD
[1289]	4484	if [[ $localhost = lckyuh ]]
[108]	4485	then
[1103]	4486	printf "\n +++ WARNING: no restart mechanism available for host \"$localhost\" "
	4487	printf "\n please restart job manually using command:\n"
	4488	printf "\n \"$mc\" "
[108]	4489	else
[1289]	4490	eval $mc # THE ' MUST BE EVALUATED
[108]	4491	fi
[1]	4492	cd - > /dev/null
	4493	fi
[1103]	4494	if [[ $localhost = lckyuh ]]
	4495	then
[1289]	4496	printf "\n$dashes\n *** restart-run to be initiated manually\n"
[1103]	4497	else
[1289]	4498	printf "\n$dashes\n *** restart-run initiated \n"
[1103]	4499	fi
[1]	4500
	4501
[1289]	4502	# DELETE INPUT-(RESTART)FILES, WHICH HAVE BEEN FETCHED FROM THE TEMPORARY DATA
	4503	# DIRECTORY, BACAUSE THEY ARE NOT REQUIRED BY THE RESTART-JOB.
	4504	# THIS IS DONE IN ORDER TO AVOID EXCEEDING DISC QUOTAS OR DISC SPACE (RESTART-FILES
	4505	# MAY BE VERY HUGE)
[1]	4506	(( i = 0 ))
	4507	while (( i < iin ))
	4508	do
	4509	(( i = i + 1 ))
	4510	if [[ "${got_tmp[$i]}" = true && $keep_data_from_previous_run = false ]]
	4511	then
	4512	rm -r $tmp_data_catalog/${frelin[$i]}
	4513	fi
	4514	done
	4515
	4516	else
	4517
	4518	printf "\n +++ no restart-run possible, since errors occured"
	4519	printf "\n during the archive process"
	4520	fi
	4521
	4522	fi
	4523
	4524
	4525
[1289]	4526	# SEND EMAIL NOTIFICATION ABOUT THE FINISHED RUN
[352]	4527	if [[ "$email_notification" != "none" ]]
[1]	4528	then
	4529
	4530	if [[ $localhost != $fromhost ]]
	4531	then
	4532	if [[ -f CONTINUE_RUN ]]
	4533	then
	4534	echo "PALM restart run necessary" > email_text
	4535	echo "description header of actual run:" >> email_text
	4536	cat CONTINUE_RUN >> email_text
	4537	echo "mrun-command to restart:" >> email_text
	4538	echo "$mc" >> email_text
	4539	else
	4540	echo "PALM run with base filename \"$fname\" on host \"$localhost\" finished" > email_text
	4541	fi
	4542	mail $email_notification < email_text
	4543	printf "\n *** email notification sent to \"$email_notification\" "
	4544	fi
	4545	fi
	4546
	4547
	4548
[1289]	4549	# ALL ACTIONS FINISHED, TEMPORARY WORKING-DIRECTORY CAN BE DELETED
[1]	4550	cd $HOME
	4551	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
	4552
	4553	else
	4554
	4555
[1289]	4556	# PREPARING ACTIONS,
	4557	# IF A BATCH-JOB IS TO BE GENERATED AND STARTED ON A REMOTE-MACHINE GERECHNET
[1]	4558
[1289]	4559	# BUILD THE MRUN-COMMAND TO BE CALLED IN THE BATCH-JOB ON THE REMOTE-MACHINE
[1468]	4560	mrun_com="$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 $remote_username"
[1]	4561	[[ "$cpp_opts" != "" ]] && mrun_com=${mrun_com}" -D \"$cpp_opts\""
[79]	4562	[[ "$global_revision" != "" ]] && mrun_com=${mrun_com}" -G \"$global_revision\""
[123]	4563	[[ $group_number != none ]] && mrun_com=${mrun_com}" -g $group_number"
[1]	4564	[[ $do_compile = true ]] && mrun_com=${mrun_com}" -s \"$source_list\""
	4565	[[ "$input_list" != "" ]] && mrun_com=${mrun_com}" -i \"$input_list\""
	4566	[[ $ignore_archive_error = true ]] && mrun_com=${mrun_com}" -I"
	4567	[[ $keep_data_from_previous_run = true ]] && mrun_com=${mrun_com}" -k"
	4568	[[ "$additional_conditions" != "" ]] && mrun_com=${mrun_com}" -K \"$additional_conditions\""
	4569	[[ "$output_list" != "" ]] && mrun_com=${mrun_com}" -o \"$output_list\""
	4570	[[ "$read_from_config" = false ]] && mrun_com=${mrun_com}" -S"
	4571	[[ $do_trace = true ]] && mrun_com=${mrun_com}" -x"
	4572	[[ "$numprocs" != "" ]] && mrun_com=${mrun_com}" -X $numprocs"
	4573	if [[ $use_openmp = true ]]
	4574	then
[622]	4575	mrun_com=${mrun_com}" -O $threads_per_task"
[1]	4576	fi
[759]	4577	[[ "$tasks_per_node" != "" ]] && mrun_com=${mrun_com}" -T $tasks_per_node"
[397]	4578	[[ $store_on_archive_system = true ]] && mrun_com=${mrun_com}" -A"
[1]	4579	[[ $package_list != "" ]] && mrun_com=${mrun_com}" -p \"$package_list\""
	4580	[[ $return_password != "" ]] && mrun_com=${mrun_com}" -P $return_password"
	4581	[[ $delete_temporary_catalog = false ]] && mrun_com=${mrun_com}" -B"
[127]	4582	[[ $node_usage != default && "$(echo $node_usage \| cut -c1-3)" != "sla" && $node_usage != novice ]] && mrun_com=${mrun_com}" -n $node_usage"
[291]	4583	[[ "$ocean_file_appendix" = true ]] && mrun_com=${mrun_com}" -y"
[206]	4584	[[ $run_coupled_model = true ]] && mrun_com=${mrun_com}" -Y \"$coupled_dist\""
[920]	4585	[[ "$check_namelist_files" = false ]] && mrun_com=${mrun_com}" -z"
	4586	[[ "$combine_plot_fields" = false ]] && mrun_com=${mrun_com}" -Z"
[759]	4587	[[ "$max_par_io_str" != "" ]] && mrun_com=${mrun_com}" -w $max_par_io_str"
[1]	4588	if [[ $do_remote = true ]]
	4589	then
	4590	printf "\n>>>> MRUN-command on execution host:\n>>>> $mrun_com \n"
	4591	fi
	4592
	4593
[1289]	4594	# CREATE EXECUTABLE FOR BATCH JOB
[1199]	4595	if [[ $create_executable_for_batch = true && $restart_run != true ]]
	4596	then
	4597
	4598	printf "\n *** creating the executable for batch job\n"
	4599
[1289]	4600	# METHOD ONLY WORKS FOR BATCH JOBS ON LOCAL HOSTS
[1199]	4601	if [[ $host != $localhost ]]
	4602	then
	4603	printf "\n +++ creation of executables is only allowed for batch jobs on local hosts."
	4604	printf "\n Please set create_executable_for_batch = false in the config-file.\n"
	4605	locat=create_executable; exit
	4606	fi
	4607
	4608	mkdir $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
	4609	cd $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
	4610
	4611	cp $make_depository .
	4612	tar -xf $make_depository > /dev/null 2>&1
	4613	cp ../* . > /dev/null 2>&1
	4614
	4615	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
	4616
	4617	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
	4618	then
	4619	printf "\n +++ error occured while compiling or linking"
	4620	locat=compile
	4621	exit
	4622	fi
	4623
	4624	mv a.out ..
	4625	cd - > /dev/null 2>&1
	4626	rm -rf $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
	4627
	4628	printf " *** executable created in \"$working_directory/SOURCES_FOR_RUN_${fname}\"\n "
	4629
	4630	fi
	4631
	4632
[1289]	4633	# BUILD THE JOB-SCRIPTS ON FILE jobfile
[1]	4634	jobfile=jobfile.$RANDOM
	4635
	4636
[1289]	4637	# CREATE TEMPORARY DIRECTORY AND SWITCH TO IT
[1]	4638	echo "mkdir $TEMPDIR" >> $jobfile
	4639	echo "cd $TEMPDIR" >> $jobfile
	4640
	4641
[1289]	4642	# ACTIVATE ERROR-TRACEBACK
[1]	4643	if [[ $do_trace = true ]]
	4644	then
	4645	echo "set -x" >> $jobfile
	4646	else
	4647	echo "set +vx" >> $jobfile
	4648	fi
	4649
	4650
[1289]	4651	# INITIALIZE THE ENVIRONMENT AND LOAD MODULES
[1043]	4652	if [[ "$init_cmds" != "" ]]
	4653	then
	4654	echo "$init_cmds" >> $jobfile
	4655	fi
	4656	if [[ "$module_calls" != "" ]]
	4657	then
	4658	echo "$module_calls" >> $jobfile
	4659	fi
	4660
	4661
[1289]	4662	# PROVIDE SOURCE-CODE FILES, MRUN-SCRIPT AND CONFIGURATION-FILE FOR THE JOB
	4663	# then-CLAUSE: FILES ARE COLLECTED IN THE SOURCES_FOR_RUN_... DIRECTORY ON THE LOCAL HOST,
	4664	# WHICH IS THEN FETCHED FROM THE BATCH-JOB BY USING cp/scp
	4665	# THE SOURCE-CODE FILES ALREADY EXIST IN THIS DIRECTORY
	4666	# else-CLAUSE: FILE-CONTENTS ARE PUT INTO THE JOB-FILE AS HERE-DOCUMENTS
	4667	# THIS MAY CREATE A QUITE LARGE JOB-FILE, WHICH CAN CAUSE PROBLEMS WITH SOME
	4668	# QUEUEING-SYSTEMS
	4669	if [[ $host = ibmkisti \|\| $host = lccrayb \|\| $host = lccrayf \|\| $host = lccrayh ]]
[1]	4670	then
	4671
[1289]	4672	# COPY CONFIGURATION-FILE AND MRUN-SCRIPT INTO THE SOURCES_FOR_RUN... DIRECTORY
[191]	4673	if [[ $restart_run != true ]]
	4674	then
	4675	cp $config_file $working_directory/SOURCES_FOR_RUN_$fname
	4676	cp ${PALM_BIN}/$mrun_script_name $working_directory/SOURCES_FOR_RUN_$fname
	4677	fi
[1]	4678
[1289]	4679	# COPY THE SOURCES_FOR_RUN... DIRECTORY FROM THE LOCAL HOST TO THE JOB VIA scp
	4680	# (then-CLAUSE: JOBS ON THE LOCAL HOST CAN JUST USE cp)
[193]	4681	echo "set -x" >> $jobfile
[693]	4682	if [[ $host = $localhost ]]
	4683	then
[1199]	4684
	4685	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
	4686	# FILES ON CRAY XC30 SYSTEMS (CSC HELSINKI), rsync IS USED INSTEAD
[1281]	4687	if [[ $(echo $host \| cut -c1-6) = lccray ]]
	4688	then
	4689	echo "rsync -av -t $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
	4690	else
	4691	echo "cp -r $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
	4692	fi
[1199]	4693
[693]	4694	else
[1255]	4695	if [[ $host = ibmkisti ]]
[693]	4696	then
[1289]	4697	# ON KISTI'S IBM FIREWALL IS ONLY OPENED ON INTERACTIVE NODE
[693]	4698	echo "localdir=\`pwd\`" >> $jobfile
[1468]	4699	echo "ssh $SSH_PORTOPT $remote_username@gaiad \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
[1255]	4700	elif [[ $host = lccrayb ]]
	4701	then
	4702	echo "localdir=\`pwd\`" >> $jobfile
[1468]	4703	echo "ssh $SSH_PORTOPT $remote_username@blogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
[1274]	4704	elif [[ $host = lccrayh ]]
	4705	then
	4706	echo "localdir=\`pwd\`" >> $jobfile
[1468]	4707	echo "ssh $SSH_PORTOPT $remote_username@hlogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
[1274]	4708
[1255]	4709	else
[1468]	4710	echo "scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
[693]	4711	fi
	4712	fi
[193]	4713	echo "export SOURCES_COMPLETE=true" >> $jobfile
[1]	4714
[1289]	4715	# MOVE MRUN-SCRIPT AND CONFIGURATION-FILE FROM THE SOURCES_FOR_RUN... DIRECTORY TO THE
	4716	# WORKING DIRECTORY OF THE JOB
[193]	4717	echo "mv SOURCES_FOR_RUN_$fname/$config_file . " >> $jobfile
	4718	echo "mv SOURCES_FOR_RUN_$fname/$mrun_script_name . " >> $jobfile
[1199]	4719	echo "chmod u+rwx $mrun_script_name" >> $jobfile
[193]	4720	echo "execute_mrun=true" >> $jobfile
	4721	echo " " >> $jobfile
	4722
[191]	4723	else
	4724
[1289]	4725	# PROVIDE SOURCE-CODE FILES AND MAKEFILE AS HERE DOCUMENT
[191]	4726	if [[ $do_compile = true ]]
	4727	then
	4728
	4729	source_catalog=SOURCES_FOR_RUN_$fname
	4730
[1289]	4731	# CREATE SOURCES_FOR_RUN... DIRECTORY TO STORE THE SOURCE CODE FILES AND THE MAKEFILE
[191]	4732	echo "mkdir SOURCES_FOR_RUN_$fname" >> $jobfile
	4733	echo "export SOURCES_COMPLETE=true" >> $jobfile
	4734	echo "cd SOURCES_FOR_RUN_$fname" >> $jobfile
	4735
	4736	for filename in $source_list
	4737	do
[1289]	4738	# BACKSLASH IS USED FOR MASKING
[191]	4739	echo "cat > $filename << \"%END%\"" >> $jobfile
	4740	cat $source_catalog/$filename >> $jobfile
	4741	echo " " >> $jobfile
	4742	echo "%END%" >> $jobfile
	4743	echo " " >> $jobfile
	4744	done
	4745
[1289]	4746	# BACKSLASH IS USED FOR MASKING
[191]	4747	echo "cat > Makefile << \"%END%\"" >> $jobfile
	4748	cat $source_catalog/Makefile >> $jobfile
[1]	4749	echo " " >> $jobfile
	4750	echo "%END%" >> $jobfile
	4751	echo " " >> $jobfile
	4752
[191]	4753	echo "cd - > /dev/null" >> $jobfile
[1]	4754
[191]	4755	fi
[1]	4756
	4757
[1289]	4758	# PROVIDE THE CONFIGURATION-FILE AS HERE-DOCUMENT
	4759	# BACKSLASH IS USED FOR MASKING
	4760	# LINES WITH #$ IN THE CONFIGURATION-FILE, COMING FROM THE SVN KEYWORD SUBSTITUTION,
	4761	# ARE REMOVED FROM THE FILE IN ORDER TO AVOID PROBLEMS WITH THE SGE BATCH SYSTEM
[191]	4762	echo "cat > $config_file << \"%END%\"" >> $jobfile
[1101]	4763	if [[ $host = lckyuh ]]
	4764	then
[1289]	4765	# NO CROSS-COMPILER ON COMPUTE NODE
[1101]	4766	sed 's/frtpx/frt/g' $config_file >> $jobfile
	4767	else
	4768	sed 's/#$.*//g' $config_file >> $jobfile
	4769	fi
[191]	4770	echo "%END%" >> $jobfile
	4771	echo " " >> $jobfile
[1]	4772
	4773
[1289]	4774	# PROVIDE THE MRUN-SCRIPTS AS HERE-DOCUMENT
	4775	# BACKSLASH IS USED FOR MASKING
[1101]	4776	echo "cat > $mrun_script_name <<\"%END%\"" >> $jobfile
[1103]	4777	if [[ $host = lckyuh ]]
	4778	then
	4779	sed 's/\/bin\/ksh/\/bin\/bash/g' ${PALM_BIN}/$mrun_script_name >> $jobfile
	4780	else
	4781	cat ${PALM_BIN}/$mrun_script_name >> $jobfile
	4782	fi
[1101]	4783	echo "%END%" >> $jobfile
[191]	4784	echo "chmod u+x $mrun_script_name" >> $jobfile
	4785	echo "execute_mrun=true" >> $jobfile
	4786	echo " " >> $jobfile
[1]	4787
	4788	fi
	4789
[191]	4790
[1289]	4791	# GET REQUIRED INPUT-FILES BY SCP OR BY SENDING THEM WITH THE JOB AS HERE-DOCUMENT
	4792	# PUT THESE FILES INTO THE USER'S RESPECTIVE PERMANENT DIRECTORIES ON THE REMOTE-HOST
	4793	# IF THE DIRECTORIES DO NOT EXIST, TRY TO CREATE THEM
[1]	4794	if [[ $do_remote = true ]]
	4795	then
	4796	(( i = 0 ))
	4797	while (( i < iin ))
	4798	do
	4799	(( i = i + 1 ))
	4800	echo "[[ ! -d ${pathin[$i]} ]] && mkdir -p ${pathin[$i]}" >> $jobfile
	4801	if [[ "${transin[$i]}" = job ]]
	4802	then
	4803	echo "cat > ${remotepathin[$i]} <<\"%END%\"" >> $jobfile
	4804	eval cat ${pathin[$i]}/${frelin[$i]} >> $jobfile
	4805	echo " " >> $jobfile
	4806	echo "%END%" >> $jobfile
	4807	else
[1468]	4808	echo "batch_scp $PORTOPT -b -o -g -s -u $return_username $return_address ${remotepathin[$i]} \"${pathin[$i]}\" ${frelin[$i]}" >> $jobfile
[1]	4809	fi
	4810
[1289]	4811	# CHECK, IF FILE COULD BE CREATED
[1]	4812	echo "if [[ \$? = 1 ]]" >> $jobfile
	4813	echo "then" >> $jobfile
	4814	echo " echo \" \" " >> $jobfile
	4815	echo " echo \"+++ file ${remotepathin[$i]} could not be created\" " >> $jobfile
	4816	echo " echo \" please check, if directory exists on $host!\" " >> $jobfile
	4817	echo " echo \"+++ MRUN will not be continued\" " >> $jobfile
	4818	echo " execute_mrun=false" >> $jobfile
	4819	echo "fi" >> $jobfile
	4820	done
	4821	fi
	4822
[1289]	4823	# PROVIDE NAME OF THE CURRENT WORKING-DIRECTORY ON THE LOCAL MACHINE (FROM WHERE THE JOB IS
	4824	# STARTED) BY SETTING AN ENVIRONMENT-VARIABLE. THIS INFORMATION IS USED IN THE JOB BY MRUN
	4825	# IN CASE THAT RESTART-RUNS HAVE TO BE GENERATED
[1]	4826	echo "LOCAL_PWD=$working_directory" >> $jobfile
	4827	echo "export LOCAL_PWD" >> $jobfile
	4828
[1289]	4829	# PROVIDE THE PATH OF THE LOCAL MRUN-SCRIPT FOR THE SAME REASON
[22]	4830	echo "LOCAL_MRUN_PATH=$PALM_BIN" >> $jobfile
[1]	4831	echo "export LOCAL_MRUN_PATH" >> $jobfile
	4832
[1289]	4833	# lcflow ALSO REQUIRES TO PROVIDE PATH FOR THE PALM-SCRIPTS
[1547]	4834	# if [[ $host = lcflow \|\| $localhost = lcflow ]]
	4835	# then
[1099]	4836	echo "export PALM_BIN=$PALM_BIN" \| sed -e 's:'$HOME':$HOME:' >> $jobfile
	4837	echo "export PATH=\$PATH:\$PALM_BIN" >> $jobfile
[1547]	4838	# fi
[1]	4839
[1289]	4840	# CALL MRUN WITHIN THE JOB (SETTING QUEUE IS A WORKAROUND FOR ibmkisti)
	4841	# AS FINAL ACTION, REMOVE THE TEMPORARY DIRECTORY CREATED AT THE BEGINNING OF THE JOB
[1101]	4842	echo "set -x" >> $jobfile
	4843	echo "queue=$queue" >> $jobfile
[1]	4844	echo "[[ \$execute_mrun = true ]] && ./$mrun_com" >> $jobfile
[1101]	4845	echo 'ls -al; echo `pwd`' >> $jobfile
	4846	echo "cd \$HOME" >> $jobfile
	4847	echo "rm -rf $TEMPDIR" >> $jobfile
[1]	4848
	4849
	4850
	4851
[1289]	4852	# START THE JOB USING SUBJOB-COMMAND
[1]	4853	if [[ $silent = false ]]
	4854	then
	4855	printf "\n "
	4856	else
	4857	printf "\n\n"
	4858	fi
	4859
[1094]	4860	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]	4861	rm -rf $jobfile
	4862
	4863
[1289]	4864	fi # END OF REMOTE-PART

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