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source: palm/trunk/SCRIPTS/mrun @ 1405

Last change on this file since 1405 was 1403, checked in by raasch, 11 years ago
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File size: 174.9 KB

Rev	Line
[1103]	1	#!/bin/ksh
[1046]	2
[1059]	3	# mrun - script for running PALM jobs
	4
[1046]	5	#--------------------------------------------------------------------------------#
	6	# This file is part of PALM.
	7	#
	8	# PALM is free software: you can redistribute it and/or modify it under the terms
	9	# of the GNU General Public License as published by the Free Software Foundation,
	10	# either version 3 of the License, or (at your option) any later version.
	11	#
	12	# PALM is distributed in the hope that it will be useful, but WITHOUT ANY
	13	# WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR
	14	# A PARTICULAR PURPOSE. See the GNU General Public License for more details.
	15	#
	16	# You should have received a copy of the GNU General Public License along with
	17	# PALM. If not, see <http://www.gnu.org/licenses/>.
	18	#
[1310]	19	# Copyright 1997-2014 Leibniz Universitaet Hannover
[1046]	20	#--------------------------------------------------------------------------------#
	21	#
	22	# Current revisions:
[1090]	23	# ------------------
[1305]	24	#
[1403]	25	#
[1200]	26	# Former revisions:
	27	# -----------------
	28	# $Id: mrun 1403 2014-05-09 14:52:24Z keck $
	29	#
[1403]	30	# 1402 2014-05-09 14:25:13Z raasch
	31	# batch_job added to envpar-NAMELIST
	32	#
[1358]	33	# 1357 2014-04-11 15:02:03Z witha
	34	# adjustments for lccrayh (automatic restarts on lccrayh outside of IMUK are now
	35	# possible)
	36	#
[1328]	37	# 1320 2014-03-20 08:40:49Z raasch
	38	# check namelist file set false by default
	39	#
[1305]	40	# 1304 2014-03-12 10:29:42Z raasch
	41	# ulimit option changed from -Ss to -s
	42	#
	43	# bugfix: missing "fi" in r1289
	44	#
[1290]	45	# 1289 2014-03-04 07:12:34Z raasch
	46	# comments translated to English
	47	# necriam-, fimm-, ibmy-, and sgi-specific code removed
	48	# export of variables for palm and interpret_config removed
	49	#
[1282]	50	# 1281 2014-02-01 07:55:49Z raasch
	51	# rsync-copy restricted to Cray machines, since command is unavailable on some
	52	# other systems
	53	#
[1280]	54	# 1279 2014-01-28 12:10:14Z raasch
	55	# tasks_per_node must not be an integral divisor of numprocs any more. This was done
	56	# in order to remove annoying restrictions concerning the number of processors which
	57	# appear on machines with larger nodes (e.g. containing 24 cores). Now without this
	58	# restriction, one of the nodes will be filled with less than the given number of
	59	# tasks per node. A respective warning is given.
	60	#
[1275]	61	# 1274 2014-01-09 13:14:54Z heinze
	62	# adjustments for lccrayh
	63	#
[1273]	64	# 1272 2014-01-08 10:19:32Z witha
	65	# small adjustment for lcflow
	66	#
[1271]	67	# 1270 2013-12-16 11:05:01Z fricke
	68	# call of combine_plot_fields adjusted for lccrayb/lccrayh
	69	#
[1256]	70	# 1255 2013-11-07 14:43:35Z raasch
	71	# further adjustments for lccrayb remote access
	72	#
[1242]	73	# 1241 2013-10-30 11:36:58Z heinze
	74	# Enable use of nudging input and input of large scale forcing from
	75	# external files
	76	#
[1230]	77	# 1229 2013-09-20 06:55:19Z raasch
	78	# further adjustments for lccrayb
	79	#
[1225]	80	# 1224 2013-09-16 07:27:23Z raasch
	81	# first adjustments for lccrayb
	82	#
[1211]	83	# 1210 2013-08-14 10:58:20Z raasch
	84	# fftw support added
	85	#
[1203]	86	# 1201 2013-07-10 16:17:59Z witha
	87	# adjustments for Forwind cluster (lcflow)
	88	#
[1200]	89	# 1199 2013-07-05 14:52:22Z raasch
[1199]	90	# adjustments for CSC Helsinki (lccrayf),
	91	# executables for batch jobs can be created in advance, in order to avoid calling
	92	# the compiler within the batch job (only works if batch jobs are submitted on
	93	# local host)
[1104]	94	#
[1191]	95	# 1190 2013-06-25 09:39:21Z heinze
	96	# enable use of automatic restarts for ibmh
[1185]	97	# use of cluster/express queue enabled (ibmh)
[1104]	98	#
[1125]	99	# 1124 2013-04-09 15:46:52Z raasch
	100	# variable "memory" is exported via typeset option -x, because otherwise an unknown
	101	# side effect may lead to data loss while getopts is reading the script-option arguments
	102	#
[1123]	103	# 1122 2013-04-09 08:37:16Z heinze
	104	# Bugfix: change type of variable last_char
	105	#
[1121]	106	# 1119 2013-04-05 15:11:19Z raasch
	107	# Bugfix for setting -T option for subjob
	108	#
[1109]	109	# 1108 2013-03-05 07:03:32Z raasch
	110	# bugfix for coupled runs on lckyut/lckyuh
	111	#
[1107]	112	# 1106 2013-03-04 05:31:38Z raasch
	113	# --stdin argument for mpiexec on lckyuh
	114	# -y and -Y settings output to header
	115	#
[1104]	116	# 1103 2013-02-20 02:15:53Z raasch
[1103]	117	# default script runs again under ksh, because of unsolved problems with read
	118	# from stdin: when bash script is called from a ksh, message "read error: 0:
	119	# Resource temporarily unavailable" appears and script does not stop,
	120	# further bash compatibility adjustments,
	121	# shebang line replaced by /bin/bash when running jobs on lckyuh; no restarts
	122	# on lckyuh, but mrun does not terminate and issues a warning instead
[1046]	123	#
[1102]	124	# 1101 2013-02-17 10:20:21Z raasch
	125	# script now running under bash instead of ksh, which required small adjustments
	126	# (output formatting with printf instead "typeset -L/-R", print replaced by echo,
	127	# read from stdin),
	128	# cross compilername on lckyuh compute nodes replaced by real compiler name
	129	#
[1100]	130	# 1099 2013-02-10 01:47:43Z raasch
	131	# adjustments for Kyushu-University computing center (lckyuh - hayaka)
	132	# and for Forwind cluster (lcflow)
	133	# small further adjustments for lckyut
	134	#
[1096]	135	# 1094 2013-02-03 01:52:12Z raasch
	136	# explicit ssh/scp port can be set in config file with environment variable
	137	# scp_port. This port is handled to all ssh/scp/batch_scp calls.
	138	# decalpha parts (yonsei) removed
	139	#
[1091]	140	# 2013-02-02 07:06:13Z raasch
[1099]	141	# adjustments for Kyushu-University computing center (lckyut - tatara)
[1091]	142	#
[1084]	143	# 1083 2013-01-04 10:22:09Z maronga
	144	# bugfix in parameter file check (read %cpp_options was missing)
	145	#
[1070]	146	# 1069 2012-11-28 16:18:43Z maronga
	147	# bugfix: coupling mode was always set to mpi2, typos removed
	148	#
[1059]	149	# 1058 2012-11-21 07:00:35Z raasch
	150	# Intel inspector (inspxe) is given the number of PEs instead of the number of
	151	# nodes
	152	#
[1047]	153	# 1046 2012-11-09 14:38:45Z maronga
	154	# code put under GPL (PALM 3.9)
	155	#
[1090]	156	# 21/03/94 - Siggi - first version finished
	157	# 03/03/94 - Siggi - script development started
	158	#
[1059]	159	#--------------------------------------------------------------------------------#
[1090]	160	# mrun - script for running PALM jobs
	161	#--------------------------------------------------------------------------------#
[1]	162
[1047]	163
[1]	164
[1289]	165	# DECLARATION OF VARIABLES AND THEIR DEFUALT VALUES
[1]	166
[1289]	167	set +o allexport # SUPPRESS EXPORT OF ALL VARIABLES, SINCE IN THE PAST THIS
	168	# LES TO PROBLEMS IN ROUTINES CALLED BY MRUN
	169	# (TOO MANY ARGUMENTS - PROBLEM)
	170	set +o noclobber # EXISTING FILES ARE ALLOWED TO BE OVERWRITTEN
[1]	171
	172	AddFilenames=""
	173	additional_conditions=""
	174	add_source_path=""
	175	afname=""
	176	archive_save=true
	177	archive_system=none
[1320]	178	check_namelist_files=false
[920]	179	combine_plot_fields=true
[1]	180	compiler_name=""
	181	cond1=""
	182	cond2=""
	183	config_file=.mrun.config
[206]	184	coupled_dist=""
	185	coupled_mode="mpi1"
[1]	186	cpp_opts=""
[82]	187	cpp_options=""
[1]	188	cpumax=0
	189	cpurest=0
[1199]	190	create_executable_for_batch=false
[1]	191	delete_temporary_catalog=true
	192	do_batch=false
	193	do_compile=true
	194	do_remote=false
	195	do_stagein=true
	196	do_stageout=true
	197	do_trace=false
[352]	198	email_notification="none"
[1]	199	exclude=""
	200	executable=""
	201	execution_error=false
[1210]	202	fftw_inc=""
	203	fftw_lib=""
	204	fftw_support=false
[1289]	205	fname=test
[1]	206	fromhost=""
[78]	207	global_revision=""
[122]	208	group_number=none
[1]	209	host=""
	210	host_file=""
	211	hp=""
	212	ignore_archive_error=false
	213	input_list=""
	214	interpreted_config_file=""
[164]	215	job_catalog="~/job_queue"
[1]	216	job_on_file=""
	217	keep_data_from_previous_run=false
[183]	218	link_local_input=false
[149]	219	link_local_output=false
[1]	220	localhost_realname=$(hostname)
[260]	221	local_dvrserver_running=.FALSE.
[1]	222	locat=normal
	223	mainprog=""
	224	makefile=""
[759]	225	max_par_io_str=""
[1]	226	mc=$0
	227	while [[ $(echo $mc \| grep -c "/") != 0 ]]
	228	do
	229	mc=`echo $mc \| cut -f2- -d"/"`
	230	done
[493]	231	module_calls=""
[1]	232	mrun_script_name=$mc
[82]	233	netcdf_inc=""
	234	netcdf_lib=""
[1]	235	netcdf_support=false
	236	node_usage=default
	237	numprocs=""
[206]	238	numprocs_atmos=0
	239	numprocs_ocean=0
[1]	240	OOPT=""
	241	openmp=false
	242	output_list=""
	243	package_list=""
	244	queue=none
	245	read_from_config=""
[5]	246	restart_run=false
[622]	247	if [[ `hostname` = rte10 ]]
[1]	248	then
[1103]	249	return_addres=133.5.185.60
	250	echo "+++ WARNING: fixed return_addres = $return_addres is used !!!!!"
[693]	251	elif [[ `hostname` = climate0 ]]
	252	then
[1103]	253	return_addres=165.132.26.68
	254	echo "+++ WARNING: fixed return_addres = $return_addres is used !!!!!"
[1021]	255	elif [[ `hostname` = urban00 ]]
	256	then
[1103]	257	return_addres=147.46.30.151
	258	echo "+++ WARNING: fixed return_addres = $return_addres is used !!!!!"
[622]	259	else
	260	return_addres=$(nslookup `hostname` 2>&1 \| grep "Address:" \| tail -1 \| awk '{print $2}')
[1]	261	fi
	262	return_password=""
	263	return_username=$LOGNAME
	264	remotecall=false
	265	remote_username=""
[102]	266	run_coupled_model=false
[1]	267	run_mode=""
[397]	268	store_on_archive_system=false
[1289]	269	dashes=" ----------------------------------------------------------------------------"
[1]	270	silent=false
	271	source_list=""
	272	source_path=SOURCE
	273	tasks_per_node=""
	274	threads_per_task=1
	275	tmpcreate=false
	276	tmp_data_catalog=""
	277	transfer_problems=false
	278	usern=$LOGNAME
[377]	279	use_openmp=false
[1289]	280	version="MRUN 2.1 Rev$Rev: 1403 $"
[1]	281	working_directory=`pwd`
	282	TOPT=""
	283	XOPT=""
	284	zeit=$( date \| cut -c 12-19 )
	285
[1124]	286	typeset -i iec=0 iic=0 iin=0 ioc=0 iout=0 stagein_anz=0 stageout_anz=0
[1289]	287	typeset -x -i memory=0 # HAS TO BE EXPORTED HERE, OTHERWISE AN UNKNOWN SIDE
	288	# SIDE EFFECT MAY CAUSE DATA LOSS WHEN GETOPTS IS READING THE
	289	# SCRIPT-OPTION ARGUMENTS
[1279]	290	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]	291
	292
	293
[1289]	294	# ERROR HANDLING IN CASE OF EXIT
[83]	295	trap 'rm -rf $working_directory/tmp_mrun
[1289]	296	if [[ $locat != normal && $locat != control_c ]]
[1]	297	then
	298
[1289]	299	# CARRY OUT ERROR-COMMANDS GIVEN IN THE CONFIGURATION FILE (EC:)
[1]	300	(( i = 0 ))
	301	while (( i < iec ))
	302	do
	303	(( i = i + 1 ))
	304	printf "\n *** Execution of ERROR-command:\n"
	305	printf " >>> ${err_command[$i]}\n"
	306	eval ${err_command[$i]}
	307	done
[1101]	308	if [[ -n $interpreted_config_file ]]
	309	then
[1]	310	rm -rf $interpreted_config_file
	311	fi
[1101]	312	if [[ -n .mrun_environment ]]
	313	then
[71]	314	rm -rf .mrun_environment
	315	fi
[1]	316	if [[ $tmpcreate = true ]]
	317	then
	318	printf "\n *** Contents of \"$TEMPDIR\":\n"
	319	ls -al; cd
	320	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
	321	fi
[260]	322	if [[ "$dvrserver_id" != "" ]]
	323	then
	324	echo "+++ killing dvrserver_id=$dvrserver_id"
	325	kill $dvrserver_id
	326	fi
[1]	327	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
	328	then
	329	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
	330	fi
	331	printf "\n\n+++ MRUN killed \n\n"
	332	elif [[ $locat != control_c ]]
	333	then
	334	printf "\n\n --> all actions finished\n\n"
	335	printf " Bye, bye $usern !!\n\n"
	336	fi' exit
	337
	338
[1289]	339	# ACTIONS IN CASE OF TERMINAL-BREAK (CONTROL-C):
[83]	340	trap 'rm -rf $working_directory/tmp_mrun
[807]	341	rm -rf $working_directory/tmp_check_namelist_files
[69]	342	[[ $tmpcreate = true ]] && (cd; rm -rf $TEMPDIR)
[1]	343	if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]]
	344	then
	345	rm -rf ~/job_queue/JOBINFO.$QSUB_REQID
	346	fi
[260]	347	if [[ "$dvrserver_id" != "" ]]
	348	then
	349	echo "+++ killing dvrserver_id=$dvrserver_id"
	350	kill $dvrserver_id
	351	fi
[1]	352	printf "\n+++ MRUN killed by \"^C\" \n\n"
	353	locat=control_c
	354	exit
	355	' 2
	356
	357
[22]	358	# CHECK IF THE PATH FOR THE PALM BINARIES (SCRIPTS+UTILITY-PROGRAMS) HAS
	359	# BEEN SET
	360	if [[ "$PALM_BIN" = "" ]]
	361	then
	362	printf "\n +++ environment variable PALM_BIN has not been set"
	363	printf "\n please set it to the directory where the PALM scripts are located"
	364	locat=palm_bin; exit
	365	fi
[180]	366	export PATH=$PALM_BIN:$PATH
[22]	367
	368
[1]	369
[1289]	370	# READ SHELLSCRIPT-OPTIONS AND REBUILD THE MRUN-COMMAND STRING (MC),
	371	# WHICH WILL BE USED TO START RESTART-JOBS
[920]	372	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]	373	do
	374	case $option in
	375	(a) afname=$OPTARG;;
[397]	376	(A) store_on_archive_system=true; mc="$mc -A";;
[1]	377	(b) do_batch=true; mc="$mc -b";;
	378	(B) delete_temporary_catalog=false; mc="$mc -B";;
	379	(c) config_file=$OPTARG; mc="$mc -c$OPTARG";;
[5]	380	(C) restart_run=true; mc="$mc -C";;
[1]	381	(d) fname=$OPTARG; mc="$mc -d$OPTARG";;
[210]	382	(D) cpp_opts="$cpp_opts $OPTARG"; mc="$mc -D'$OPTARG'";;
[79]	383	(F) job_on_file="-D"; mc="$mc -F";;
[122]	384	(g) group_number=$OPTARG; mc="$mc -g$OPTARG";;
[78]	385	(G) global_revision=$OPTARG; mc="$mc -G'$OPTARG'";;
[1]	386	(h) host=$OPTARG; mc="$mc -h$OPTARG";;
	387	(H) fromhost=$OPTARG; mc="$mc -H$OPTARG";;
	388	(i) input_list=$OPTARG; mc="$mc -i'$OPTARG'";;
	389	(I) ignore_archive_error=true; mc="$mc -I";;
	390	(k) keep_data_from_previous_run=true; mc="$mc -k";;
[210]	391	(K) additional_conditions="$OPTARG"; mc="$mc -K'$OPTARG'";;
[1]	392	(m) memory=$OPTARG; mc="$mc -m$OPTARG";;
	393	(M) makefile=$OPTARG; mc="$mc -M$OPTARG";;
	394	(n) node_usage=$OPTARG; mc="$mc -n$OPTARG";;
	395	(o) output_list=$OPTARG; mc="$mc -o'$OPTARG'";;
[622]	396	(O) use_openmp=true; threads_per_task=$OPTARG; mc="$mc -O$OPTARG";;
[1]	397	(p) package_list=$OPTARG; mc="$mc -p'$OPTARG'";;
	398	(P) return_password=$OPTARG; mc="$mc -P$OPTARG";;
	399	(q) queue=$OPTARG; mc="$mc -q$OPTARG";;
	400	(r) run_mode=$OPTARG; mc="$mc -r'$OPTARG'";;
	401	(R) remotecall=true;return_addres=$OPTARG; mc="$mc -R$OPTARG";;
	402	(s) source_list=$OPTARG; mc="$mc -s'$OPTARG'";;
	403	(S) read_from_config=false; mc="$mc -S";;
	404	(t) cpumax=$OPTARG; mc="$mc -t$OPTARG";;
[759]	405	(T) mrun_tasks_per_node=$OPTARG; mc="$mc -T$OPTARG";;
[1]	406	(u) remote_username=$OPTARG; mc="$mc -u$OPTARG";;
	407	(U) return_username=$OPTARG; mc="$mc -U$OPTARG";;
	408	(v) silent=true; mc="$mc -v";;
[759]	409	(w) max_par_io_str=$OPTARG; mc="$mc -w$OPTARG";;
[1]	410	(x) do_trace=true;set -x; mc="$mc -x";;
	411	(X) numprocs=$OPTARG; mc="$mc -X$OPTARG";;
[291]	412	(y) ocean_file_appendix=true; mc="$mc -y";;
[206]	413	(Y) run_coupled_model=true; coupled_dist=$OPTARG; mc="$mc -Y'$OPTARG'";;
[807]	414	(z) check_namelist_files=false; mc="$mc -z";;
[920]	415	(Z) combine_plot_fields=false; mc="$mc -Z";;
[1]	416	(\?) printf "\n +++ unknown option $OPTARG \n"
	417	printf "\n --> type \"$0 ?\" for available options \n"
	418	locat=parameter;exit;;
	419	esac
	420	done
	421
	422
[1289]	423	# SKIP GIVEN OPTIONS TO READ POSITIONAL PARAMETER, IF GIVEN
	424	# CURRENTLY ONLY PARAMETER ? (TO OUTPUT A SHORT COMMAND INFO) IS ALLOWED
[1101]	425	(( to_shift = $OPTIND - 1 ))
	426	shift $to_shift
[1]	427
[1289]	428	# PRINT SHORT DESCRIPTION OF MRUN OPTIONS
[1]	429	if [[ "$1" = "?" ]]
	430	then
	431	(printf "\n *** mrun can be called as follows:\n"
[920]	432	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]	433	printf "\n Description of available options:\n"
	434	printf "\n Option Description Default-Value"
	435	printf "\n -a base name of input files equiv. -d"
[400]	436	printf "\n -A archiving when using file-attribute fl"
[1]	437	printf "\n -b batch-job on local machine ---"
	438	printf "\n -B do not delete temporary directory at end ---"
	439	printf "\n -c configuration file .mrun.config"
	440	printf "\n -d base name of files attached to program test"
	441	printf "\n -D preprocessor(cpp)-directives \"\" "
	442	printf "\n -F create remote job file only ---"
	443	printf "\n -h execution host $localhost_realname"
	444	printf "\n -i INPUT control list \"\" "
	445	printf "\n -I archiving errors of previous batch-jobs"
	446	printf "\n will be ignored"
	447	printf "\n -k keep data from previous run"
	448	printf "\n -K additional conditions for controling"
	449	printf "\n usage of conditional code and"
	450	printf "\n env-variables in configuration file \"\" "
	451	printf "\n -m memory demand in MB (batch-jobs) 0 MB"
	452	printf "\n -M Makefile name Makefile"
	453	printf "\n -n node usage (shared/not_shared) depending on -h"
	454	printf "\n -o OUTPUT control list \"\" "
[1304]	455	printf "\n -O threads per openMP task ---"
[1]	456	printf "\n -p software package list \"\" "
	457	printf "\n -q queue \"$queue\" "
	458	printf "\n -r run control list (combines -i -o) \"\" "
	459	printf "\n -s filenames of routines to be compiled \"\" "
	460	printf "\n must end with .f, .f90, .F, or .c !"
	461	printf "\n use \"..\" for more than one file and wildcards"
[837]	462	printf "\n -s LM compiles all locally modified files"
[1]	463	printf "\n -S config file interpreted by shellscript ---"
	464	printf "\n -t allowed cpu-time in seconds (batch) 0"
	465	printf "\n -T tasks per node depending on -h"
	466	printf "\n -u username on remote machine \"\" "
	467	printf "\n -v no prompt for confirmation ---"
[759]	468	printf "\n -w maximum parallel io streams as given by -X"
[1]	469	printf "\n -x tracing of mrun for debug purposes ---"
	470	printf "\n -X # of processors (on parallel machines) 1"
[291]	471	printf "\n -y add appendix \"_O\" to all local output"
	472	printf "\n files (ocean precursor runs followed by"
	473	printf "\n coupled atmosphere-ocean runs) ---"
[206]	474	printf "\n -Y run coupled model, \"#1 #2\" with"
	475	printf "\n #1 atmosphere and #2 ocean processors \"#/2 #/2\" depending on -X"
[920]	476	printf "\n -z disable a priori parameter file check ---"
	477	printf "\n -Z skip combine_plot_fields at the end of "
	478	printf "\n the simulation ---"
[1]	479	printf "\n "
	480	printf "\n Possible values of positional parameter <modus>:"
	481	printf "\n \"?\" - this outline \n\n") \| more
	482	exit
	483	elif [[ "$1" != "" ]]
	484	then
	485	printf "\n +++ positional parameter $1 unknown \n"
	486	locat=parameter; exit
	487	fi
	488
	489
	490
[1289]	491	# SHORT STARTING MESSAGE
[1]	492	printf "\n*** $version "
	493	printf "\n will be executed. Please wait ..."
	494
	495
[82]	496
[1289]	497	# CHECK, IF CONFIGURATION FILE EXISTS
[82]	498	if [[ ! -f $config_file ]]
	499	then
	500	printf "\n\n +++ configuration file: "
	501	printf "\n $config_file"
	502	printf "\n does not exist"
	503	locat=connect; exit
	504	fi
	505
	506
[1289]	507	# DETERMINE THE HOST-IDENTIFIER (localhost) FROM THE CONFIGURATION FILE
[82]	508	line=""
	509	grep "%host_identifier" $config_file > tmp_mrun
	510	while read line
	511	do
[206]	512	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
[82]	513	then
	514	HOSTNAME=`echo $line \| cut -d" " -s -f2`
	515	host_identifier=`echo $line \| cut -d" " -s -f3`
[83]	516	if [[ $localhost_realname = $HOSTNAME ]]
[82]	517	then
	518	localhost=$host_identifier
	519	break
	520	fi
	521	fi
	522	done < tmp_mrun
	523
	524	if [[ "$localhost" = "" ]]
	525	then
	526	printf "\n\n +++ no host identifier found in configuration file \"$config_file\""
	527	printf "\n for local host \"$localhost_realname\"."
	528	printf "\n Please add line"
	529	printf "\n \"\%host_identifier $localhost_realname <identifier>\""
	530	printf "\n to the configuration file."
	531	locat=localhost; exit
	532	fi
	533
	534
[1289]	535	# SET HOST-SPECIFIC VARIABLES
[82]	536	case $localhost_realname in
[397]	537	(r1\|r2\|h01\|b01) archive_system=tivoli;;
[82]	538	(cs*) archive_system=ut;;
	539	esac
	540
	541
[1289]	542	# ??? THIS SHOULD BE DECRIBED IN THE MRUN DOCUMENTATION ???
	543	# SET BASENAME OF THE INPUT-FILES TO THE GENERAL BASENAME (GIVEN BY OPTION -d),
	544	# IF IT HAS NOT BEEN SET BY THE USER DIFFERENTLY (USING OPTION -a)
[1]	545	[[ "$afname" = "" ]] && afname=$fname
	546
	547
[1289]	548	# ADD RUN-FILE ACTIVATION STRINGS (GIVEN BY OPTION -r) TO THE
	549	# RESPECTIVE LISTS FOR ACTIVATING THE INPUT/OUTPUT FILE CONNECTION
	550	# STATEMENTS IN THE CONFIGURATION FILE
[1]	551	if [[ "$run_mode" != "" ]]
	552	then
	553	input_list="$input_list $run_mode"
	554	output_list="$output_list $run_mode"
	555	fi
	556
	557
[1289]	558	# ??? is this (and the respective option -H) really required ???
	559	# STORE HOSTNAME, FROM WHICH THE JOB IS STARTED,
	560	# BUT ONLY IF IT HASN'T BEEN ALREADY SET BY OPTION -H
	561	# (MRUN IS AUTOMATICALLY SETTING THIS OPTION IN THE MRUN-CALLS WITHIN
	562	# THOSE BATCH-JOBS, WHICH ARE CREATED BY MRUN ITSELF)
[1]	563	if [[ "$fromhost" = "" ]]
	564	then
	565	fromhost=$localhost
	566	fi
	567
	568
[1289]	569	# CHECK, IF EXECUTION SHALL TO BE DONE ON THE REMOTE-MACHINE.
	570	# VALUE OF do_remote IS IMPORTANT FOR THE FILE CONNECTIONS.
	571	# IN CASE OF EXECUTION ON A REMOTE-MACHINE, A BATCH-JOB HAS
	572	# TO BE SUBMITTED (I.E. do_bacth=true)
[1]	573	if [[ -n $host && "$host" != $localhost ]]
	574	then
	575	do_batch=true
	576	do_remote=true
	577	case $host in
[1289]	578	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|nech\|lccrayb\|lccrayh\|lccrayf\|lcflow\|lckyoto\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
[1]	579	(*) printf "\n"
[83]	580	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
	581	printf "\n is not available"
[1]	582	locat=nqs; (( iec = 0 )); exit;;
	583	esac
	584	else
	585	host=$localhost
	586	fi
	587
	588
[1289]	589	# EVALUATE ADDITIONAL CONDITIONS GIVEN BY OPTION -K
[1]	590	if [[ -n $additional_conditions ]]
	591	then
[69]	592	cond1=`echo $additional_conditions \| cut -d" " -f1`
	593	cond2=`echo $additional_conditions \| cut -d" " -s -f2`
	594	dummy=`echo $additional_conditions \| cut -d" " -s -f3`
[1]	595	if [[ -n $dummy ]]
	596	then
	597	printf "\n +++ more than 2 additional conditions given for Option \"-K\""
	598	locat=options; exit
	599	fi
[503]	600	block=_$cond1
	601	[[ -n $cond2 ]] && block=${block}_$cond2
[1]	602	fi
	603
	604
[1289]	605	# EVALUATE MODEL COUPLING FEATURES (OPTION -Y) AND DETERMINE coupled_mode
[206]	606	if [[ $run_coupled_model = true ]]
	607	then
	608
[1289]	609	numprocs_atmos=`echo $coupled_dist \| cut -d" " -s -f1`
	610	numprocs_ocean=`echo $coupled_dist \| cut -d" " -s -f2`
	611
	612	if (( $numprocs_ocean + $numprocs_atmos != $numprocs ))
[206]	613	then
	614
[1289]	615	printf "\n +++ number of processors does not fit to specification by \"-Y\"."
	616	printf "\n PEs (total) : $numprocs"
	617	printf "\n PEs (atmosphere): $numprocs_atmos"
	618	printf "\n PEs (ocean) : $numprocs_ocean"
	619	locat=coupling; exit
[206]	620
[1289]	621	fi
[206]	622
	623
	624	# GET coupled_mode FROM THE CONFIG FILE
	625	line=""
	626	grep "%cpp_options.-D__mpi2.$host" $config_file > tmp_mrun
	627	while read line
	628	do
[1069]	629	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" && $(echo $line \| cut -d" " -s -f4) = $cond1 && $(echo $line \| cut -d" " -s -f4) = $cond2 ]]
[206]	630	then
	631	coupled_mode="mpi2"
	632	fi
	633	done < tmp_mrun
	634
	635	fi
	636
	637
[1289]	638	# CHECK, IF FILE-ARCHIVING HAS FAILED IN PREVIOUS JOB (OF A JOB-CHAIN)
[1]	639	if [[ -f ~/job_queue/ARCHIVE_ERROR_$fname ]]
	640	then
	641	if [[ $ignore_archive_error = false ]]
	642	then
	643	printf "\n +++ data archiving of previous run failed"
	644	printf "\n see directory \~/job_queue on remote machine"
	645	locat=archive; exit
	646	else
	647	printf "\n +++ warning: data archiving in a previous run failed"
	648	printf "\n MRUN continues, trying to get backup copy"
	649	fi
	650	fi
	651
	652
[1289]	653	# SAVE VALUES OF MRUN-OPTIONS SICHERN IN ORDER TO OVERWRITE
	654	# THOSE VALUES GIVEN IN THE CONFIGURATION-FILE
[1099]	655	mrun_memory=$memory
	656	mrun_group_number=$group_number
	657	mrun_cpumax=$cpumax
	658	mrun_numprocs=$numprocs
[1]	659
[1099]	660
[1289]	661	# READ AND EVALUATE THE CONFIGURATION-FILE FROM WITHIN THIS SHELLSCRIPT
	662	# (OPTION -S). THE DEFAULT IS USING THE ROUTINE interpret_config
[1]	663	if [[ "$read_from_config" = false ]]
	664	then
	665
	666	[[ $silent = false ]] && printf "\n Reading the configuration file... "
[1289]	667
	668	# READ THE CONFIGURATION FILE LINE BY LINE
[1]	669	while read zeile
	670	do
	671	[[ $silent = false ]] && printf "."
	672
	673
[1289]	674	# FIRST REPLACE ENVIRONMENT-VARIABLES BY THEIR RESPECTIVE VALUES
[1]	675	eval zeile=\"$zeile\"
	676
	677
[1289]	678	# INTERPRET THE LINE
[21]	679	if [[ "$(echo $zeile)" = "" ]]
[1]	680	then
[1289]	681	# EMPTY LINE, NO ACTION
[21]	682	continue
[1]	683
[21]	684	elif [[ "$(echo $zeile \| cut -c1)" = "#" ]]
	685	then
	686
[1289]	687	# LINE IS A COMMENT LINE
[1]	688	true
	689
	690	elif [[ "$(echo $zeile \| cut -c1)" = "%" ]]
	691	then
	692
[1289]	693	# LINE DEFINES AN ENVIRONMENT-VARIABLE
[1]	694	zeile=$(echo $zeile \| cut -c2-)
[69]	695	var=`echo $zeile \| cut -d" " -f1`
	696	value=`echo $zeile \| cut -d" " -s -f2`
	697	for_host=`echo $zeile \| cut -d" " -s -f3`
	698	for_cond1=`echo $zeile \| cut -d" " -s -f4`
	699	for_cond2=`echo $zeile \| cut -d" " -s -f5`
[1]	700
	701	if [[ "$for_host" = "" \|\| ( "$for_host" = $host && "$for_cond1" = "$cond1" && "$for_cond2" = "$cond2" ) \|\| $(echo "$input_list$output_list"\|grep -c "$for_host") != 0 ]]
	702	then
	703
[1289]	704	# REPLACE ":" BY " " IN COMPILER- CPP- OR LINKER-OPTIONS,
	705	# "::" IS REPLACED BY ":".
[1]	706	value=`echo $value \| sed 's/::/%DUM%/g' \| sed 's/:/ /g' \| sed 's/%DUM%/:/g'`
	707
	708
[1289]	709	# VALUE FROM THE CONFIGURATION-FILE IS ASSIGNED TO THE
	710	# ENVIRONMENT-VARIABLE, BUT ONLY IF NO VALUE HAS BEEN ALREADY
	711	# ASSIGNED WITHIN THIS SCRIPT (E.G. BY SCRIPT-OPTIONS).
	712	# NON-ASSIGNED VARIABLES HAVE VALUE "" OR 0 (IN CASE OF INTEGER).
	713	# HENCE THE GENERAL RULE IS: SCRIPT-OPTION OVERWRITES THE
	714	# CONFIGURATION-FILE.
[1]	715	if [[ "$(eval echo \$$var)" = "" \|\| "$(eval echo \$$var)" = "0" ]]
	716	then
	717	eval $var=\$value
	718
[1289]	719	# TERMINAL OUTPUT OF ENVIRONMENT-VARIABLES, IF TRACEBACK IS SWITCHED on
[1]	720	if [[ $do_trace = true ]]
	721	then
	722	printf "\n*** ENVIRONMENT-VARIABLE $var = $value"
	723	fi
	724	fi
	725
[1289]	726	# IF AN ENVIRONMENT-VARIABLE DETERMINES THE HOST, THEN EVALUATE IT IMMEDIATELY:
	727	# VALUE OF do-remote IS REQUIRED FOR THE FILE CONNECTIONS (COPY OF I/O FILES).
	728	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MASCHINE, A BATCH-JOB
	729	# MUST HAVE TO BE STARTED
[1]	730	if [[ $var = host ]]
	731	then
	732	if [[ -n $host && "$host" != $localhost ]]
	733	then
	734	do_batch=true
	735	do_remote=true
	736	case $host in
[1289]	737	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lccrayb\|lccrayh\|lccrayf\|lcflow\|lckyoto\|nech\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
[83]	738	(*) printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
	739	printf "\n is not available"
[1]	740	locat=nqs; exit;;
	741	esac
	742	else
	743	host=$localhost
	744	fi
	745	fi
	746
[1289]	747	# USER-DEFINED ENVIRONMENT VARIABLES MUST BE EXPORTED,
	748	# BECAUSE THEY MAY BE REQUIRED IN OTHER SCRIPTS CALLED
	749	# BY MRUN (E.G. subjob)
[1]	750	export $var
	751	fi
	752
	753
	754
	755
	756	elif [[ "$(echo $zeile \| cut -c1-3)" = "EC:" ]]
	757	then
	758
[1289]	759	# LINE DEFINES ERROR-COMMAND
[1]	760	(( iec = iec + 1 ))
	761	zeile=$(echo $zeile \| cut -c4-)
	762	err_command[$iec]="$zeile"
	763
	764	elif [[ "$(echo $zeile \| cut -c1-3)" = "IC:" ]]
	765	then
	766
[1289]	767	# LINE DEFINES INPUT-COMMAND
[1]	768	(( iic = iic + 1 ))
	769	zeile=$(echo $zeile \| cut -c4-)
	770	in_command[$iic]="$zeile"
	771
	772	elif [[ "$(echo $zeile \| cut -c1-3)" = "OC:" ]]
	773	then
	774
[1289]	775	# LINE DEFINES OUTPUT-COMMAND
[1]	776	(( ioc = ioc + 1 ))
	777	zeile=$(echo $zeile \| cut -c4-)
	778	out_command[$ioc]="$zeile"
	779
	780	else
	781
[1289]	782	# LINE DEFINES FILE CONNECTION. READ THE FILE ATTRIBUTES.
	783	# s2a: in/out - field
	784	# s2b: loc - field (optional)
	785	# s2c: tr/ar - field (optional)
[69]	786	s1=`echo $zeile \| cut -d" " -f1`
	787	s2=`echo $zeile \| cut -d" " -s -f2`
[1]	788	s2a=$(echo $s2 \| cut -d":" -f1)
	789	if [[ $(echo $s2 \| grep -c ":") = 0 ]]
	790	then
	791	s2b=""
	792	s2c=""
	793	else
[69]	794	s2b=`echo $s2 \| cut -d":" -f2 \| sed 's/:/ /g'`
	795	s2c=`echo $s2 \| cut -d":" -s -f3 \| sed 's/:/ /g'`
[1]	796	fi
[69]	797	s3=`echo $zeile \| cut -d" " -f3`
	798	s4=`echo $zeile \| cut -d" " -s -f4`
	799	s5=`echo $zeile \| cut -d" " -s -f5`
	800	s6=`echo $zeile \| cut -d" " -s -f6`
[1]	801
	802
[1289]	803	# STORE FILE CONNECTION, IF ACTIVATED BY ACTIVATION-STRING FROM
	804	# INPUT- OR OUTPUT-LIST.
	805	# VARIABLE S3 MAY CONTAIN A LIST OF ACTIVATION STRINGS (FIELD-SEPERATOR ":").
	806	# IF EXECUTION IS SCHEDULED FOR A REMOTE-MACHINE AND THE FILE IS ONLY
	807	# LOCALLY REQUIRED ON THAT MACHINE (I.E. s2b = loc), THE FILE CONNECTION
	808	# IS NOT CHECKED AND STORED.
[1]	809	IFSALT="$IFS"; IFS="$IFS:"
	810	if [[ "$s2a" = in && ! ( $do_remote = true && ( "$s2b" = loc \|\| "$s2b" = locopt ) ) ]]
	811	then
	812	found=false
	813	for actual in $input_list
	814	do
	815	for formal in $s3
	816	do
	817	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
	818	done
	819	done
	820	if [[ $found = true ]]
	821	then
	822	(( iin = iin + 1 ))
	823	localin[$iin]=$s1; transin[$iin]=$s2b; actionin[$iin]=$s2c;
	824	typein[$iin]=$s3; pathin[$iin]=$s4; endin[$iin]=$s5;
	825	extin[$iin]=$s6
	826	fi
	827	elif [[ "$s2a" = out && ! ( $do_remote = true && "$s2b" = loc ) ]]
	828	then
	829	found=false
	830	for actual in $output_list
	831	do
	832	for formal in $s3
	833	do
	834	[[ $actual = $formal \|\| "$formal" = "-" ]] && found=true
	835	done
	836	done
	837	if [[ $found = true ]]
	838	then
	839	(( iout = iout + 1 ))
	840	localout[$iout]=$s1; actionout[$iout]=$s2c; typeout[$iout]=$s3;
	841	pathout[$iout]=$s4; endout[$iout]=$s5; extout[$iout]=$s6
	842	fi
	843	elif [[ "$s2a" != in && "$s2a" != out ]]
	844	then
	845	printf "\n +++ I/O-attribute in configuration file $config_file has the invalid"
	846	printf "\n value \"$s2\". Only \"in\" and \"out\" are allowed!"
	847	locat=connect; exit
	848	fi
	849	IFS="$IFSALT"
	850	fi
	851	done < $config_file
	852
	853	else
	854
	855
[1289]	856	# EVALUATE THE CONFIGURATION-FILE BY FORTRAN-PROGRAM
[1]	857	[[ $silent = false ]] && printf "..."
[1289]	858	interpreted_config_file=.icf.$RANDOM
[1]	859
	860
[69]	861
[1289]	862	# PROVIDE VALUES OF ENVIRONMENT-VARIABLE FOR interpret_config VIA NAMELIST-FILE
[69]	863	cat > .mrun_environment << %%END%%
	864	&mrun_environment cond1 = '$cond1', cond2 = '$cond2',
	865	config_file = '$config_file', do_remote = '$do_remote',
	866	do_trace = '$do_trace', host = '$host',
	867	input_list = '$input_list', icf = '$interpreted_config_file',
	868	localhost = '$localhost', output_list = '$output_list' /
	869
	870	%%END%%
	871
[1289]	872	if [[ "$host" != $localhost ]]
[66]	873	then
[503]	874
[1289]	875	# REMOTE JOB FROM LOCAL HOST: JUST TAKE THE FIRST EXECUTABLE FOUND
	876	interpret_config_executable=`ls -1 ${PALM_BIN}/interpret_config*.x 2>/dev/null`
	877	if [[ $? != 0 ]]
[503]	878	then
[1289]	879	printf "\n\n +++ no interpret_config found"
	880	printf "\n run \"mbuild -u -h ...\" to generate utilities for this host"
	881	locat=interpret_config; exit
	882	fi
	883	interpret_config_executable=`echo $interpret_config_executable \| cut -d" " -f1`
	884	$interpret_config_executable
[503]	885
[1289]	886	else
[503]	887
[1289]	888	# CHECK, IF THERE IS AN EXECUTABLE FOR THE BLOCK
	889	if [[ ! -f ${PALM_BIN}/interpret_config${block}.x ]]
	890	then
	891	printf "\n\n +++ no interpret_config found for given block \"$cond1 $cond2\""
	892	printf "\n run \"mbuild -u -h ...\" to generate utilities for this block"
	893	locat=interpret_config; exit
[503]	894	else
[1289]	895	interpret_config${block}.x
	896	fi
[503]	897
[66]	898	fi
[71]	899	rm .mrun_environment
[1]	900
[71]	901
[1289]	902	# EXECUTE SHELL-COMMANDS GENERATED BY interpret_config WITHIN THIS SHELL
[1]	903	chmod u+x $interpreted_config_file
	904	export PATH=$PATH:.
	905	. $interpreted_config_file
[71]	906	rm $interpreted_config_file
[1]	907
[1099]	908	fi
[71]	909
[69]	910
[1289]	911	# VALUES OF MRUN-OPTIONS OVERWRITE THOSE FROM THE CONFIGURATION-FILE
[1099]	912	[[ $mrun_memory != 0 ]] && memory=$mrun_memory
	913	[[ "$mrun_group_number" != "none" ]] && group_number=$mrun_group_number
	914	[[ $mrun_cpumax != 0 ]] && cpumax=$mrun_cpumax
	915	[[ "$mrun_numprocs" != "" ]] && numprocs=$mrun_numprocs
	916	[[ "$max_par_io_str" != "" ]] && maximum_parallel_io_streams=$max_par_io_str
	917	[[ "$mrun_tasks_per_node" != "" ]] && tasks_per_node=$mrun_tasks_per_node
[1]	918
	919
[1289]	920	# ON THE LOCAL MACHINE, DETERMINE (FROM THE CONFIGURATION-FILE) THE PATH
	921	# FOR SOURCE-FILES TO BE COMPILED.
	922	# IN A BATCH-JOB, SOURCES (ROUTINES TO BE COMPILED) ARE COMPLETE ALREADY.
	923	# BEFORE MRUN IS CALLED IN THE JOB, SOURCES_COMPLETE = true IS ASSIGNED (SEE FURTHER BELOW).
[1]	924	if [[ "$SOURCES_COMPLETE" = "" ]]
	925	then
	926
[1289]	927	# FIRST CHECK, IF A GLOBAL SOURCE PATH (TO BE USED FOR ALL HOSTS)
	928	# HAS BEEN DEFINED
[1]	929	source_path=""
	930	line=""
	931	grep "%source_path" $config_file > tmp_mrun
	932	while read line
	933	do
	934	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	935	then
	936	if [[ "$(echo $line \| cut -d" " -f3)" = "" ]]
	937	then
	938	global_source_path=`echo $line \| cut -d" " -f2`
	939	fi
	940	fi
	941	done < tmp_mrun
	942
	943	line=""
	944	found=false
	945	grep " $localhost" $config_file \| grep "%source_path" > tmp_mrun
	946	while read line
	947	do
	948	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	949	then
	950	if [[ $found = true ]]
	951	then
	952	printf "\n\n +++ more than one source path found in configuration file"
	953	printf "\n for local host \"$localhost\" "
	954	locat=source_path; exit
	955	fi
	956	source_path=`echo $line \| cut -d" " -f2`
	957	found=true
	958	fi
	959	done < tmp_mrun
	960	rm tmp_mrun
	961
	962	if [[ "$source_path" = "" ]]
	963	then
	964	if [[ "$global_source_path" != "" ]]
	965	then
	966	source_path=$global_source_path
	967	else
	968	printf "\n\n +++ no source path found in configuration file"
	969	printf "\n for local host \"$localhost\" "
	970	locat=source_path; exit
	971	fi
	972	fi
	973	eval source_path=$source_path
	974
	975	if [[ ! -d $source_path ]]
	976	then
	977	printf "\n\n +++ source path \"$source_path\" on local host"
	978	printf "\n \"$localhost\" does not exist"
	979	locat=source_path; exit
	980	fi
	981
	982	fi
	983
	984
[1289]	985	# GET THE GLOBAL REVISION-NUMBER OF THE SVN-REPOSITORY
	986	# (HANDED OVER TO RESTART-RUNS USING OPTION -G)
	987	if [[ "$global_revision" = "" && $host != "ibmkisti" ]]
[78]	988	then
	989	global_revision=`svnversion $source_path 2>/dev/null`
	990	global_revision="Rev: $global_revision"
	991	fi
[1]	992
[78]	993
[1289]	994	# ??? das darf doch eigentlich garnicht passieren, weil optionen config-datei uebersteuern ???
	995	# CHECK AGAIN, IF EXECUTION SHALL BE DONE ON A REMOTE-HOST (BATCH-JOB).
	996	# (HOST MAY HAVE CHANGED DUE TO SETTINGS IN THE CONFIGURATION-FILE)
[1]	997	if [[ -n $host && "$host" != $localhost ]]
	998	then
	999	do_batch=true
	1000	do_remote=true
	1001	case $host in
[1289]	1002	(ibm\|ibmh\|ibmkisti\|ibmku\|ibms\|lccrayb\|lccrayh\|lccrayf\|lcflow\|lckyoto\|nech\|unics\|lcxe6\|lcxt5m\|lck\|lckiaps\|lckordi\|lckyuh\|lckyut\|lcsb) true;;
[1]	1003	(*) printf "\n"
[83]	1004	printf "\n +++ sorry: execution of batch jobs on remote host \"$host\""
	1005	printf "\n is not available"
[1]	1006	locat=nqs; (( iec = 0 )); exit;;
	1007	esac
	1008	else
	1009	host=$localhost
	1010	fi
	1011
	1012
[1289]	1013	# IN CASE OF PARALLEL EXECUTION, CHECK SOME SPECIFICATIONS CONCERNING PROCESSOR NUMBERS
[1]	1014	if [[ "$cond1" = parallel \|\| "$cond2" = parallel ]]
	1015	then
	1016
[1289]	1017	# CHECK, IF NUMBER OF CORES TO BE USED HAS BEEN GIVEN
[1]	1018	if [[ ! -n $numprocs ]]
	1019	then
	1020	printf "\n"
	1021	printf "\n +++ option \"-K parallel\" requires additional specification"
	1022	printf "\n of the number of processors to be used by"
	1023	printf "\n mrun-option \"-X\" or by environment-variable"
	1024	printf "\n \"numprocs\" in the configuration file"
	1025	locat=numprocs; (( iec = 0 )); exit
	1026	fi
	1027
[1289]	1028	# CHECK, IF THE NUMBER OF CORES PER NODE HAS BEEN GIVEN UND IF IT IS AN
	1029	# INTEGRAL DIVISOR OF THE TOTAL NUMBER OF CORES GIVEN BY OPTION -X
[1039]	1030	if [[ "$tasks_per_node" = "" && $host != lcflow && $host != lcxt5m ]]
[1]	1031	then
[759]	1032	printf "\n"
	1033	printf "\n +++ option \"-T\" (tasks per node) is missing"
	1034	printf "\n set -T option or define tasks_per_node in the config file"
	1035	locat=tasks_per_node; (( iec = 0 )); exit
	1036	fi
[1279]	1037
	1038	if (( numprocs < tasks_per_node ))
	1039	then
	1040	printf "\n"
	1041	printf "\n +++ tasks per node (-T) cannot exceed total number of processors (-X)"
	1042	printf "\n given values: -T $tasks_per_node -X $numprocs"
	1043	locat=tasks_per_node; (( iec = 0 )); exit
	1044	fi
	1045
[1039]	1046	if [[ $host != lcflow && $host != lcxt5m ]]
[759]	1047	then
[1279]	1048	(( nodes = numprocs / ( tasks_per_node * threads_per_task ) ))
[848]	1049	(( ival = $tasks_per_node ))
	1050	(( pes = numprocs ))
	1051	(( ii = pes / ival ))
[1279]	1052	(( remaining_pes = pes - ii * ival ))
	1053	if (( remaining_pes > 0 ))
[848]	1054	then
	1055	printf "\n"
[1279]	1056	printf "\n +++ WARNING: tasks per node (option \"-T\") is not an integral"
[848]	1057	printf "\n divisor of the total number of processors (option \"-X\")"
	1058	printf "\n values of this mrun-call: \"-T $tasks_per_node\" \"-X $numprocs\""
[1279]	1059	printf "\n One of the nodes is filled with $remaining_pes instead of $tasks_per_node tasks"
	1060	(( nodes = nodes + 1 ))
[848]	1061	fi
[1]	1062	fi
	1063
[759]	1064
[377]	1065	# SETTINGS FOR SUBJOB-COMMAND
[1]	1066	OOPT="-O $threads_per_task"
	1067
[1289]	1068	# SET THE TOTAL NUMBER OF NODES, REQUIRED FOR THE SUBJOB-COMMAND (SEE FURTHER BELOW)
[1]	1069	if [[ "$tasks_per_node" != "" ]]
	1070	then
[1119]	1071	TOPT="-T $tasks_per_node"
[1]	1072	fi
	1073
[1289]	1074	# CHECK node_usage FOR ALLOWED VALUES AND SET DEFAULT VALUE, IF NECESSARY
[1]	1075	if [[ $node_usage = default ]]
	1076	then
	1077	if [[ $host = ibms ]]
	1078	then
	1079	node_usage=shared
	1080	else
	1081	node_usage=not_shared
	1082	fi
	1083	fi
[181]	1084
[635]	1085	if [[ $node_usage != shared && $node_usage != not_shared && $node_usage != singlejob && "$(echo $node_usage \| cut -c1-3)" != "sla" ]]
[1]	1086	then
	1087	printf "\n"
	1088	printf "\n +++ node usage (option \"-n\") is only allowed to be set"
	1089	printf "\n \"shared\" or \"not_shared\""
	1090	locat=tasks_per_node; (( iec = 0 )); exit
	1091	fi
	1092
	1093	fi
	1094
[1289]	1095	# CHECK IF HOSTFILE EXISTS
[1]	1096	if [[ -n $hostfile ]]
	1097	then
	1098	if [[ ! -f $hostfile ]]
	1099	then
	1100	printf "\n"
	1101	printf "\n +++ hostfile \"$hostfile\" does not exist"
	1102	locat=hostfile; exit
	1103	fi
	1104	fi
	1105
	1106
[1289]	1107	# SET DEFAULT VALUE FOR THE MAXIMUM NUMBER OF PARALLEL IO STREAMS
[759]	1108	if [[ "$maximum_parallel_io_streams" = "" ]]
	1109	then
	1110	maximum_parallel_io_streams=$numprocs
	1111	fi
[1]	1112
[759]	1113
[1289]	1114	# SET PORT NUMBER OPTION FOR CALLS OF SSH/SCP, subjob AND batch_scp SCRIPTS
[1094]	1115	if [[ "$scp_port" != "" ]]
	1116	then
	1117	PORTOPT="-P $scp_port"
	1118	SSH_PORTOPT="-p $scp_port"
	1119	fi
	1120
	1121
[1289]	1122	# SET DEFAULT-QUEUE, IF NOT GIVEN
[1]	1123	if [[ $queue = none ]]
	1124	then
	1125	case $host in
[1184]	1126	(ibmh) queue=cluster;;
[693]	1127	(ibmkisti) queue=class.32plus;;
[1040]	1128	(lckiaps) queue=normal;;
[440]	1129	(lckyoto) queue=ph;;
[1099]	1130	(lckyuh) queue=fx-single;;
	1131	(lckyut) queue=cx-single;;
[635]	1132	(lctit) queue=S;;
[1]	1133	(nech) queue=none;;
	1134	(unics) queue=unics;;
	1135	esac
	1136	fi
	1137
	1138
[1289]	1139	# GENERATE FULL FILENAMES OF INPUT-FILES, INCLUDING THEIR PATH
	1140	# CHECK, IF INPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST)
[1]	1141	(( i = 0 ))
	1142	while (( i < iin ))
	1143	do
	1144	(( i = i + 1 ))
	1145	(( maxcycle = 0 ))
	1146
[1289]	1147	# GENERATE PATH AND FULL FILE NAME (then-BRANCH: FIXED FULL NAME IS GIVEN, I.E. THE
	1148	# FILE IDENTIFIER IS NOT PART OF THE FILENAME))
[1]	1149	if [[ "${actionin[$i]}" = di ]]
	1150	then
[1289]	1151	remotepathin[$i]=${pathin[$i]}/${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
	1152	# HOST ONLY
[1]	1153	eval filename=${pathin[$i]}/${endin[$i]}
	1154	else
[1289]	1155	remotepathin[$i]=${pathin[$i]}/${afname}${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE
	1156	# HOST ONLY
[1]	1157	eval filename=${pathin[$i]}/${afname}${endin[$i]}
	1158	fi
[892]	1159	eval pathname=${pathin[$i]}
[1]	1160
[1289]	1161	# SAVE INPUT FILE NAME FOR PARAMETER FILE CHECK
[920]	1162	if [[ ("${transin[$i]}" = job) && (-f $filename) ]]
	1163	then
	1164	filename_input=$filename
	1165	fi
[892]	1166
[1289]	1167	# CHECK IF FILE EXISTS
[1]	1168	if [[ $(ls $filename* 2>&1 \| grep -c "not found") = 1 \|\| \
[746]	1169	$(ls $filename* 2>&1 \| grep -c "nicht gefunden") = 1 \|\| \
[1]	1170	$(ls $filename* 2>&1 \| grep -c "No such file") = 1 \|\| \
	1171	$(ls $filename* 2>&1 \| grep -c "does not exist") = 1 ]]
	1172	then
[1289]	1173
	1174	# FILES WITH ATTRIBUTE locopt ARE OPTIONAL. NO ABORT, IF THEY DO NOT EXIST.
[1]	1175	if [[ "${transin[$i]}" != "locopt" ]]
	1176	then
	1177	printf "\n\n +++ INPUT-file: "
	1178	if [[ "${extin[$i]}" = "" ]]
	1179	then
	1180	printf "\n $filename"
	1181	else
	1182	printf "\n $filename.${extin[$i]}"
	1183	fi
	1184	printf "\n does not exist\n"
	1185	locat=input; exit
	1186	else
	1187	transin[$i]="unavailable"
	1188	fi
	1189	else
	1190
[1289]	1191	# DETERMINE THE FILE'S CYCLE NUMBER
[1]	1192	ls -1 -d $filename > filelist 2>/dev/null
	1193	ls -1 -d $filename.* >> filelist 2>/dev/null
	1194	while read zeile
	1195	do
[1101]	1196	cycle=$(echo $zeile \| cut -f2 -d".")
[1]	1197	if [[ "$cycle" = "$zeile" ]]
	1198	then
	1199	(( icycle = 0 ))
	1200	elif [[ "$cycle" = "${extin[$i]}" ]]
	1201	then
	1202	(( icycle = 0 ))
	1203	else
	1204	(( icycle = $cycle ))
	1205	fi
	1206	if (( icycle > maxcycle ))
	1207	then
	1208	(( maxcycle = icycle ))
	1209	file_to_be_used=$zeile
	1210	fi
	1211	done <filelist
	1212	rm filelist
	1213
[1289]	1214	# APPEND CYCLE NUMBER TO FILENAME
[1]	1215	if (( maxcycle > 0 ))
	1216	then
	1217	if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]]
	1218	then
	1219	filename=${filename}.$maxcycle.${extin[$i]}
	1220	else
	1221	filename=${filename}.$maxcycle
	1222	fi
	1223	else
	1224	if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]]
	1225	then
	1226	filename=${filename}.${extin[$i]}
	1227	fi
	1228	fi
	1229
[1289]	1230	# STORE FILENAME WITHOUT PATH BUT WITH CYCLE NUMBER,
	1231	# BECAUSE IT MIGHT BE REQUIRED LATER TO RESTORE THE FILE FROM AN ARCHIVE-SYSTEM
[1]	1232	absnamein[$i]=$filename
	1233	if (( maxcycle > 0 ))
	1234	then
	1235	if [[ "${actionin[$i]}" = di ]]
	1236	then
	1237	frelin[$i]=${endin[$i]}.$maxcycle
	1238	else
	1239	frelin[$i]=${afname}${endin[$i]}.$maxcycle
	1240	fi
	1241	else
	1242	if [[ "${actionin[$i]}" = di ]]
	1243	then
	1244	frelin[$i]=${endin[$i]}
	1245	else
	1246	frelin[$i]=${afname}${endin[$i]}
	1247	fi
	1248	fi
	1249
	1250	fi
	1251	done
[920]	1252
[1289]	1253	# GENERATE FULL FILENAMES OF OUTPUT-FILES (WITHOUT $ OR ~),
	1254	# CHECK, IF OUTPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST),
	1255	# OR, IN CASE THAT FILE DOES NOT EXIST, CHECK, IF IT CAN BE CREATED
	1256	# THESE ACTIONS ARE NOT CARRIED OUT, IF FILES SHALL BE TRASFERRED FROM THE REMOTE TO
	1257	# THE LOCAL HOST (BECAUSE THEIR IS NO DIRECT ACCESS TO THE LOCAL DIRECTORIES FROM THE
	1258	# REMOTE HOST)
[1]	1259	(( i = 0 ))
	1260	while (( i < iout ))
	1261	do
	1262	(( i = i + 1 ))
	1263	if [[ ! ( $fromhost != $localhost && ( "${actionout[$i]}" = tr \|\| "${actionout[$i]}" = tra \|\| "${actionout[$i]}" = trpe ) ) ]]
	1264	then
[260]	1265	if [[ "${actionout[$i]}" = tr ]]
[1]	1266	then
	1267	actionout[$i]=""
[260]	1268	elif [[ "${actionout[$i]}" = trpe ]]
	1269	then
	1270	actionout[$i]=pe
[1]	1271	elif [[ "${actionout[$i]}" = tra ]]
	1272	then
	1273	actionout[$i]=a
	1274	fi
	1275	(( maxcycle = 0 ))
	1276	eval filename=${pathout[$i]}/${fname}${endout[$i]}
	1277	eval catalogname=${pathout[$i]}
	1278	if [[ $(ls $filename* 2>&1 \| grep -c "not found") = 1 \|\| \
[746]	1279	$(ls $filename* 2>&1 \| grep -c "nicht gefunden") = 1 \|\| \
[1]	1280	$(ls $filename* 2>&1 \| grep -c "No such file") = 1 \|\| \
	1281	$(ls $filename* 2>&1 \| grep -c "does not exist") = 1 ]]
	1282	then
	1283
[1289]	1284	# IF OUTPUT-FILE DOES NOT EXIST CHECK, IF IT CAN BE CREATED
[1]	1285	if cat /dev/null > $filename
	1286	then
	1287	rm $filename
	1288	else
	1289
[1289]	1290	# CHECK, IF THE DIRECTORY WHERE FILE SHALL BE COPIED TO EXISTS
	1291	# IF IT DOES NOT EXIST, TRY TO CREATE IT
[1]	1292	if [[ ! -d $catalogname ]]
	1293	then
	1294	if mkdir -p $catalogname
	1295	then
	1296	printf "\n\n *** directory:"
	1297	printf "\n $catalogname"
	1298	printf "\n was created\n"
	1299	else
	1300	printf "\n\n +++ OUTPUT-file:"
	1301	printf "\n $filename"
	1302	printf "\n cannot be created, because directory does not exist"
	1303	printf "\n and cannot be created either"
	1304	printf "\n"
	1305	locat=output ; exit
	1306	fi 2>/dev/null
	1307	else
	1308	printf "\n\n +++ OUTPUT-file:"
	1309	printf "\n $filename"
	1310	printf "\n cannot be created, although directory exists"
	1311	printf "\n"
	1312	locat=output ; exit
	1313	fi
	1314	fi 2>/dev/null
	1315	else
	1316
[1289]	1317	# DETERMINE THE CYCLE NUMBER
[1]	1318	ls -1 -d $filename > filelist 2>/dev/null
	1319	ls -1 -d $filename.* >> filelist 2>/dev/null
	1320	while read zeile
	1321	do
[1101]	1322	cycle=$(echo $zeile \| cut -f2 -d".")
[1]	1323	if [[ "$cycle" = "$zeile" \|\| "$cycle" = ${extout[$i]} ]]
	1324	then
	1325	(( icycle = 1 ))
	1326	else
	1327	(( icycle = $cycle + 1 ))
	1328	fi
	1329	if (( icycle > maxcycle ))
	1330	then
	1331	(( maxcycle = icycle ))
	1332	fi
	1333	done <filelist
	1334	rm filelist
	1335	fi
	1336
[1289]	1337	# APPEND CYCLE NUMBER TO FILENAME AND CHECK, IF FILE CAN BE CREATED
	1338	# IN CASE OF FILE-APPEND, FILE MUST BE APPENDED TO THE ONE WITH HIGHEST CYCLE NUMBER
[1]	1339	if [[ "${actionout[$i]}" != a ]]
	1340	then
	1341	if (( maxcycle > 0 ))
	1342	then
	1343	filename=${filename}.$maxcycle
	1344	if cat /dev/null > $filename
	1345	then
	1346	rm $filename
	1347	else
	1348	printf "\n +++ OUTPUT-file:"
	1349	printf "\n $filename"
	1350	printf "\n cannot be created"
	1351	locat=output ; exit
	1352	fi
	1353	fi
	1354	else
	1355	(( maxcycle = maxcycle - 1 ))
	1356	if (( maxcycle > 0 ))
	1357	then
	1358	filename=${filename}.$maxcycle
	1359	fi
	1360	fi
	1361
[1289]	1362	# STORE FILENAME WITHOUT PATH BUT WITH CYCLE NUMBER,
	1363	# BECAUSE IT MIGHT BE REQUIRED LATER TO STORE THE FILE ON AN ARCHIVE-SYSTEM
	1364	# OR TO PUT THIS FILENAME ON FILE OUTPUT_FILE_CONNECTIONS
[1]	1365	pathout[$i]=$filename
	1366	if (( maxcycle > 0 ))
	1367	then
	1368	frelout[$i]=${fname}${endout[$i]}.$maxcycle
	1369	else
	1370	frelout[$i]=${fname}${endout[$i]}
	1371	fi
	1372
	1373	fi
	1374	done
	1375
	1376
[1289]	1377	# THE DVR-PACKAGE REQUIRES ITS OWN LIBRARY
[83]	1378	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
	1379	then
[260]	1380	if [[ "$dvr_inc" = "" ]]
[83]	1381	then
[260]	1382	printf "\n\n +++ no value for \"dvr_inc\" given in configuration file"
[83]	1383	printf "\n This is required for the dvrp_graphics package.\n"
[260]	1384	locat=dvr; exit
[83]	1385	fi
[260]	1386	if [[ "$dvr_lib" = "" ]]
[83]	1387	then
[260]	1388	printf "\n\n +++ no value for \"dvr_lib\" given in configuration file"
[83]	1389	printf "\n This is required for the dvrp_graphics package.\n"
[260]	1390	locat=dvr; exit
[83]	1391	fi
	1392	fi
	1393
	1394
[1289]	1395	# CHECK, WETHER A MAIN PROGRAM OR AN EXECUTABLE HAVE BEEN DECLARED.
	1396	# EXECUTABLES DO NOT NEED TO BE COMPILED.
[1]	1397	if [[ "$mainprog" = "" && "$executable" = "" ]]
	1398	then
	1399	printf "\n +++ neither main program nor executable defined"
	1400	locat=source; exit
	1401	elif [[ "$mainprog" != "" && "$executable" != "" ]]
	1402	then
	1403	printf "\n +++ main program as well as executable defined"
	1404	locat=source; exit
	1405	elif [[ "$mainprog" = "" && "$executable" != "" ]]
	1406	then
	1407	do_compile=false
	1408	fi
	1409
	1410
[1289]	1411	# CREATE SOURCE-DIRECTORY TO COLLECT ROUTINES TO BE COMPILED.
	1412	# LATER THE MRUN-SCRIPT AND CONFIGURATION-FILE WILL ALSO BE COPIED TO THIS DIRECTORY.
[193]	1413	if [[ $restart_run != true && "$SOURCES_COMPLETE" = "" ]]
[191]	1414	then
	1415	rm -rf SOURCES_FOR_RUN_$fname
	1416	mkdir SOURCES_FOR_RUN_$fname
	1417	fi
	1418
	1419
[1289]	1420	# COLLECT ALL ROUTINES TO BE COMPILED
	1421	# THIS IS NOT REQUIRED WITHIN BATCH-JOBS, BECAUSE ROUTINES HAVE ALREADY BEEN COLLECTED
	1422	# BY THE MRUN-CALL WHICH CREATED THE BATCH-JOB.
[1]	1423	if [[ $do_compile = true && "$SOURCES_COMPLETE" = "" ]]
	1424	then
	1425
[5]	1426	[[ "$source_list" = LM ]] && source_list=LOCALLY_MODIFIED
[1]	1427
[838]	1428	if [[ "$source_list" = LOCALLY_MODIFIED ]]
[1]	1429	then
	1430
[1289]	1431	# DETERMINE MODIFIED FILES OF THE SVN WORKING COPY
[5]	1432	source_list=""
	1433	cd $source_path
	1434
	1435
[1289]	1436	# CHECK, IF DIRECTORY IS UNDER SVN CONTROL
[5]	1437	if [[ ! -d .svn ]]
	1438	then
	1439	printf "\n\n +++ source directory"
	1440	printf "\n \"$source_path\" "
	1441	printf "\n is not under control of \"subversion\"."
[306]	1442	printf "\n Please do not use mrun-option \"-s LOCALLY_MODIFIED\"\n"
[5]	1443	fi
	1444
	1445
[1289]	1446	# LIST ALL MODIFIED SOURCE CODE FILES
[5]	1447	Filenames=""
[69]	1448	svn status > tmp_mrun
	1449	while read line
[5]	1450	do
	1451	firstc=`echo $line \| cut -c1`
	1452	if [[ $firstc = M \|\| $firstc = "?" ]]
	1453	then
	1454	Name=`echo "$line" \| cut -c8-`
	1455	extension=`echo $Name \| cut -d. -f2`
	1456	if [[ "$extension" = f90 \|\| "$extension" = F90 \|\| "$extension" = f \|\| "$extension" = F \|\| "$extension" = c ]]
	1457	then
	1458	Filenames="$Filenames "$Name
	1459	fi
	1460	fi
[69]	1461	done < tmp_mrun
[5]	1462
	1463
[1289]	1464	# COPY FILES TO SOURCES_FOR_RUN_...
[5]	1465	for dateiname in $Filenames
	1466	do
	1467	cp $dateiname $working_directory/SOURCES_FOR_RUN_$fname
	1468	source_list=$source_list"$dateiname "
	1469	done
	1470
	1471	cd - > /dev/null
	1472
	1473
[1289]	1474	# COPY FILES GIVEN BY OPTION -s TO DIRECTORY SOURCES_FOR_RUN_...
	1475	# AUTOMATIC RESTART RUNS JUST ACCESS THE DIRECTORY CREATED BY THE INITIAL RUN
[5]	1476	elif [[ "$source_list" != "" && $restart_run != true ]]
[1]	1477	then
	1478
	1479	cd $source_path
	1480
	1481	for filename in $source_list
	1482	do
	1483
[1289]	1484	# SOURCE CODE FILE IS NOT ALLOWED TO INCLUDE PATH
[1103]	1485	if [[ $(echo $filename \| grep -c "/") != 0 ]]
[1]	1486	then
	1487	printf "\n +++ source code file: $filename"
	1488	printf "\n must not contain (\"/\") "
	1489	locat=source; exit
	1490	fi
	1491
	1492	if [[ ! -f $filename ]]
	1493	then
	1494	printf "\n +++ source code file: $filename"
	1495	printf "\n does not exist"
	1496	locat=source; exit
	1497	else
	1498	cp $filename $working_directory/SOURCES_FOR_RUN_$fname
	1499	fi
	1500
	1501	done
	1502
	1503	cd - > /dev/null
	1504
	1505	fi
	1506
	1507
[1289]	1508	# CHECK, IF A MAIN PROGRAM EXISTS AND IF IT IS PART OF THE LIST OF FILES
	1509	# TO BE COMPILED. IF NOT, ADD IT TO THE LIST.
[5]	1510	if [[ $restart_run != true ]]
[1]	1511	then
	1512
	1513	if [[ ! -f "$source_path/$mainprog" ]]
	1514	then
	1515	printf "\n\n +++ main program: $mainprog"
	1516	printf "\n does not exist in source directory"
	1517	printf "\n \"$source_path\"\n"
	1518	locat=source; exit
	1519	else
	1520	if [[ $(echo $source_list \| grep -c $mainprog) = 0 ]]
	1521	then
	1522	cp $source_path/$mainprog SOURCES_FOR_RUN_$fname
	1523	source_list=${mainprog}" $source_list"
	1524	fi
	1525	fi
	1526	fi
	1527
	1528
[1289]	1529	# CHECK, IF MAKEFILE EXISTS AND COPY IT TO THE SOURCES_FOR_RUN... DIRECTORY
	1530	# NOT REQUIRED FOR RESTART RUNS, SOURCES_FOR_RUN... HAS BEEN CREATED BY THE INITIAL RUN
[211]	1531	if [[ "$restart_run" != true ]]
	1532	then
	1533	[[ "$makefile" = "" ]] && makefile=$source_path/Makefile
	1534	if [[ ! -f $makefile ]]
	1535	then
	1536	printf "\n +++ file \"$makefile\" does not exist"
	1537	locat=make; exit
	1538	else
	1539	cp $makefile SOURCES_FOR_RUN_$fname/Makefile
	1540	fi
	1541	fi
	1542
	1543
[1289]	1544	# COPY FILES FROM OPTIONAL SOURCE PATH GIVEN IN THE CONFIGURATION FILE
[5]	1545	if [[ $restart_run != true && "$add_source_path" != "" ]]
[1]	1546	then
	1547
[1289]	1548	# DOES THE DIRECTORY EXIST?
[1]	1549	if [[ ! -d $add_source_path ]]
	1550	then
	1551	printf "\n\n +++ WARNING: additional source code directory"
	1552	printf "\n \"$add_source_path\" "
	1553	printf "\n does not exist or is not a directory."
	1554	printf "\n No source code will be used from this directory!\n"
	1555	add_source_path=""
[931]	1556	if [[ $silent == false ]]
	1557	then
	1558	sleep 3
	1559	fi
[1]	1560	else
	1561
	1562	cd $add_source_path
[211]	1563	found=false
[1]	1564
	1565	Names=$(ls -1 *.f90 2>&1)
	1566	[[ $(echo $Names \| grep -c '*.f90') = 0 ]] && AddFilenames="$Names"
	1567	Names=$(ls -1 *.F90 2>&1)
	1568	[[ $(echo $Names \| grep -c '*.F90') = 0 ]] && AddFilenames="$AddFilenames $Names"
	1569	Names=$(ls -1 *.F 2>&1)
	1570	[[ $(echo $Names \| grep -c '*.F') = 0 ]] && AddFilenames="$AddFilenames $Names"
	1571	Names=$(ls -1 *.f 2>&1)
	1572	[[ $(echo $Names \| grep -c '*.f') = 0 ]] && AddFilenames="$AddFilenames $Names"
	1573	Names=$(ls -1 *.c 2>&1)
	1574	[[ $(echo $Names \| grep -c '*.c') = 0 ]] && AddFilenames="$AddFilenames $Names"
	1575
	1576	cd - > /dev/null
	1577	cd SOURCES_FOR_RUN_$fname
	1578
[211]	1579	# COPY MAKEFILE IF EXISTING
	1580	if [[ -f $add_source_path/Makefile ]]
	1581	then
	1582	printf "\n\n *** user Makefile from directory"
	1583	printf "\n \"$add_source_path\" is used \n"
[931]	1584	if [[ $silent == false ]]
	1585	then
	1586	sleep 1
	1587	fi
[211]	1588	cp $add_source_path/Makefile .
	1589	fi
	1590
[1]	1591	for dateiname in $AddFilenames
	1592	do
	1593	if [[ -f $dateiname ]]
	1594	then
	1595	printf "\n +++ source code file \"$dateiname\" found in additional"
	1596	printf "\n source code directory \"$add_source_path\" "
[211]	1597	printf "\n but was also given with option \"-s\" which means that it should be taken"
	1598	printf "\n from directory \"$source_path\"."
[1]	1599	locat=source; exit
	1600	fi
	1601
	1602	cp $add_source_path/$dateiname .
	1603	source_list="$source_list $dateiname"
	1604
[211]	1605	# CHECK IF FILE IS CONTAINED IN MAKEFILE
	1606	if [[ $(grep -c $dateiname Makefile) = 0 ]]
	1607	then
	1608	printf "\n\n +++ user file \"$dateiname\" "
	1609	printf "\n is not listed in Makefile \n"
	1610	locat=source; exit
	1611	else
	1612
	1613	if [[ $found = false ]]
[1]	1614	then
[211]	1615	found=true
	1616	printf "\n\n *** following user file(s) added to the"
	1617	printf " files to be translated:\n "
[1]	1618	fi
[211]	1619	printf "$dateiname "
[931]	1620	if [[ $silent == false ]]
	1621	then
	1622	sleep 0.5
	1623	fi
	1624
[1]	1625	fi
	1626	done
[211]	1627	[[ $found = true ]] && printf "\n"
[1]	1628	cd - > /dev/null
	1629	fi
	1630	fi
	1631
	1632
[1289]	1633	# ADD ALL ROUTINES BELONGING TO SOFTWARE PACKAGES (GIVEN BY OPTION -p)
	1634	# TO THE LIST OF FILES TO BE COMPILED
[5]	1635	if [[ $restart_run != true && -n $package_list ]]
[1]	1636	then
	1637
	1638	cd $source_path
	1639
	1640	for package in $package_list
	1641	do
	1642
	1643	[[ $package = "dvrp_graphics+1PE" ]] && package=dvrp_graphics
	1644
[1289]	1645	# DETERMINE FILES BELONGING TO THE PACKAGE
	1646	# ERROR MESSAGE ARE REDIRECTED TO /dev/null, BECAUSE WILDCARD (*) ALSO GIVES
	1647	# THE NAME OF THE DIRECTORY
[1]	1648	package_source_list=`grep "defined( __$package " * 2>/dev/null \| cut -f1 -d:`
	1649
	1650
[1289]	1651	# ADD THESE FILES TO THE LIST OF FILES TO BE COMPILED,
	1652	# IF THEY ARE NOT ALREADY PART OF THE LIST
[1]	1653	for source_list_name in $package_source_list
	1654	do
	1655	if [[ $(echo $source_list \| grep -c $source_list_name) = 0 ]]
	1656	then
	1657
[1289]	1658	# ONLY TAKE FILES WITH VALID SUFFIX
[1]	1659	ending=`echo $source_list_name \| cut -f2 -d.`
	1660	if [[ "$ending" = f90 \|\| "$ending" = F90 \|\| "$ending" = f \|\| "$ending" = F \|\| "$ending" = c ]]
	1661	then
	1662	cp $source_list_name $working_directory/SOURCES_FOR_RUN_$fname
	1663	source_list="$source_list $source_list_name"
	1664	fi
	1665	fi
	1666	done
	1667	done
	1668
	1669	cd - > /dev/null
	1670	fi
	1671
	1672	fi # do_compile=true
	1673
	1674
[1289]	1675	# IF SOURCE CODE IS TO BE COMPILED, DO SOME MORE CHECKS
	1676	# AND SET PRE-PROCESSOR DIRECTIVES
[1199]	1677	if [[ $do_compile = true \|\| $create_executable_for_batch = true ]]
[1]	1678	then
	1679
[1289]	1680	# SET PREPROCESSOR-DIRECTIVES TO SELECT OPERATING SYSTEM SPECIFIC CODE
[1]	1681	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
	1682	then
[82]	1683	cpp_options="${cpp_options},-D__ibm=__ibm"
[1]	1684	elif [[ $(echo $localhost \| cut -c1-3) = nec ]]
	1685	then
[82]	1686	cpp_options="$cpp_options -D__nec"
	1687	elif [[ $(echo $localhost \| cut -c1-2) = lc ]]
	1688	then
	1689	cpp_options="$cpp_options -D__lc"
[1]	1690	else
[82]	1691	cpp_options="$cpp_options -D__$localhost"
[1]	1692	fi
[83]	1693
[1289]	1694	# SET DIRECTIVES GIVEN BY OPTION -K (E.G. parallel)
[1]	1695	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
	1696	then
[82]	1697	[[ -n $cond1 ]] && cpp_options="${cpp_options},-D__$cond1=__$cond1"
	1698	[[ -n $cond2 ]] && cpp_options="${cpp_options},-D__$cond2=__$cond2"
[1]	1699	else
[82]	1700	[[ -n $cond1 ]] && cpp_options="$cpp_options -D__$cond1"
	1701	[[ -n $cond2 ]] && cpp_options="$cpp_options -D__$cond2"
[1]	1702	fi
[83]	1703
[1289]	1704	# SET DIRECTIVES FOR ACTIVATING SOFTWARE-PACKAGES (OPTION -p)
[1]	1705	if [[ -n $package_list ]]
	1706	then
	1707	for package in $package_list
	1708	do
	1709	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
	1710	then
	1711	if [[ $package != "dvrp_graphics+1PE" ]]
	1712	then
[82]	1713	cpp_options="${cpp_options},-D__$package=__$package"
[1]	1714	else
[82]	1715	cpp_options="${cpp_options},-D__dvrp_graphics=__dvrp_graphics"
[1]	1716	export use_seperate_pe_for_dvrp_output=true
	1717	fi
	1718	else
	1719	if [[ $package != "dvrp_graphics+1PE" ]]
	1720	then
[82]	1721	cpp_options="$cpp_options -D__$package"
[1]	1722	else
[82]	1723	cpp_options="$cpp_options -D__dvrp_graphics"
[1]	1724	export use_seperate_pe_for_dvrp_output=true
	1725	fi
	1726	fi
	1727	done
	1728	fi
[83]	1729
[1289]	1730	# SET DIRECTIVES GIVEN BY OPTION -D
[1]	1731	if [[ -n $cpp_opts ]]
	1732	then
	1733	for popts in $cpp_opts
	1734	do
[82]	1735	if [[ $(echo $localhost \| cut -c1-3) = ibm ]]
	1736	then
	1737	cpp_options="${cpp_options},-D__$popts=__$popts"
	1738	else
	1739	cpp_options="$cpp_options -D__$popts"
	1740	fi
[1]	1741	done
	1742	fi
	1743
	1744	else
	1745
	1746
[1289]	1747	# FOR LOCAL RUNS CHECK AGAIN, IF EXECUTABLE EXISTS
[1]	1748	if [[ $do_remote = false ]]
	1749	then
	1750	if [[ ! -f $executable ]]
	1751	then
	1752	printf "\n +++ executable file: $executable"
	1753	printf "\n does not exist"
	1754	locat=executable; exit
	1755	fi
	1756	fi
	1757	fi
	1758
	1759
[1289]	1760	# DETERMINE THE JOB MODE
[635]	1761	if [[ "$ENVIRONMENT" = BATCH ]]
[1]	1762	then
[1402]	1763	batch_job=.TRUE.
[1]	1764	jobmo=BATCH
	1765	else
[1402]	1766	batch_job=.FALSE.
[1]	1767	jobmo=INTERACTIVE
	1768	fi
	1769
	1770
[1289]	1771	# NO INTERACTIVE RUNS ALLOWED ON LCTIT
[635]	1772	if [[ $host = lctit && $jobmo = INTERACTIVE && $do_batch = false ]]
	1773	then
	1774	printf "\n +++ no interactive runs allowed on host \"$host\" "
	1775	printf "\n please submit batch job using mrun option \"-b\" \n"
	1776	locat=normal; exit
	1777	fi
	1778
	1779
[1289]	1780	# CHECK, IF USER DEFINED A COMPILER
[1]	1781	if [[ "$compiler_name" = "" ]]
	1782	then
[82]	1783
[220]	1784	printf "\n +++ no compiler specified for \"$host $cond1 $cond2\""
[82]	1785	locat=compiler_name; exit
	1786
[1]	1787	fi
	1788
	1789
[1289]	1790	# DETERMINE THE NAME OF MRUN'S TEMPORARY WORKING DIRECTORY
[1]	1791	kennung=$RANDOM
	1792	if [[ "$tmp_user_catalog" = "" ]]
	1793	then
[312]	1794	if [[ $localhost = ibmh ]]
[1]	1795	then
[312]	1796	tmp_user_catalog=$SCRATCH
[1]	1797	elif [[ $localhost = nech ]]
	1798	then
	1799	tmp_user_catalog=$WRKSHR
	1800	else
	1801	tmp_user_catalog=/tmp
	1802	fi
	1803	fi
	1804	TEMPDIR=$tmp_user_catalog/${usern}.$kennung
	1805
	1806
[1289]	1807	# DETERMINE THE NAME OF THE DIRECTORY WHICH IS USED TO TEMPORARILY STORE DATA FOR RESTART RUNS
[1]	1808	if [[ "$tmp_data_catalog" = "" ]]
	1809	then
[622]	1810	if [[ $localhost = nech ]]
[1]	1811	then
	1812	tmp_data_catalog=$WRKSHR/mrun_restart_data
	1813	else
	1814	tmp_data_catalog=/tmp/mrun_restart_data
	1815	fi
	1816	fi
	1817
	1818
[1289]	1819	# IN CASE OF LOCAL RUNS REPLACE ENVIRONMENT VARIABLES BY THEIR VALUES
[1199]	1820	if [[ $do_remote = false && $do_compile = true \|\| $create_executable_for_batch = true ]]
[1]	1821	then
	1822	eval fopts=\"$fopts\"
	1823	eval lopts=\"$lopts\"
	1824	fi
	1825
	1826
	1827
[1289]	1828	# DETERMINE COMPILE- AND LINK-OPTIONS
[1210]	1829	fopts="$fopts $netcdf_inc $fftw_inc $dvr_inc"
	1830	lopts="$lopts $netcdf_lib $fftw_lib $dvr_lib"
[1]	1831	ROPTS="$ropts"
[1289]	1832	# 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]	1833	# then
[1]	1834	XOPT="-X $numprocs"
[1090]	1835	# fi
[1]	1836
	1837
	1838
[1289]	1839	# CHECK THE CPU-LIMIT. IT MUST BE GIVEN FOR BATCH-JOBS AND IS COMMUNICATED TO THE
	1840	# EXECUTABLE VIA NAMELIST-PARAMETER cputime
[1]	1841	done=false
	1842	while [[ $done = false ]]
	1843	do
	1844	cputime=$cpumax
	1845	if (( $cputime == 0 ))
	1846	then
[246]	1847	if [[ $do_batch = true ]]
	1848	then
	1849	printf "\n +++ cpu-time is undefined"
	1850	printf "\n >>> Please type CPU-time in seconds as INTEGER:"
	1851	printf "\n >>> "
	1852	read cputime 1>/dev/null 2>&1
	1853	else
	1854	cputime=10000000 # NO CPU LIMIT FOR INTERACTIVE RUNS
	1855	fi
[1]	1856	else
	1857	done=true
	1858	fi
	1859	cpumax=$cputime
	1860	done
	1861
	1862	(( minuten = cputime / 60 ))
	1863	(( sekunden = cputime - minuten * 60 ))
	1864
	1865
[1289]	1866	# CHECK THE MEMORY DEMAND
[1]	1867	if [[ $do_batch = true ]]
	1868	then
	1869	done=false
	1870	while [[ $done = false ]]
	1871	do
	1872	if (( memory == 0 ))
	1873	then
	1874	printf "\n +++ memory demand is undefined"
	1875	printf "\n >>> Please type memory in MByte per process as INTEGER:"
	1876	printf "\n >>> "
	1877	read memory 1>/dev/null 2>&1
	1878	else
	1879	done=true
	1880	fi
	1881	done
	1882	fi
	1883
	1884
[1289]	1885	# IN CASE OF REMOTE-JOBS CHECK, IF A USERNAME FOR THE REMOTE HOST IS GIVEN
[1]	1886	if [[ $do_remote = true && -z $remote_username ]]
	1887	then
	1888	while [[ -z $remote_username ]]
	1889	do
	1890	printf "\n +++ username on remote host \"$host\" is undefined"
	1891	printf "\n >>> Please type username:"
	1892	printf "\n >>> "
	1893	read remote_username
	1894	done
	1895	mc="$mc -u$remote_username"
	1896	fi
	1897
[892]	1898	# CHECK FOR INITIAL COMMANDS AFTER LOGIN
	1899	if [[ "$login_init_cmd" != "" ]]
	1900	then
	1901	export init_cmds="${login_init_cmd};"
	1902	fi
[221]	1903
[892]	1904
[1289]	1905	# SET THE MODULE-LOAD COMMAD AND EXPORT IT FOR subjob
[493]	1906	if [[ "$modules" != "" ]]
	1907	then
[678]	1908	if [[ $host = lctit ]]
	1909	then
	1910	export module_calls=". $modules"
	1911	else
	1912	export module_calls="module load ${modules};"
	1913	fi
[493]	1914	fi
	1915
	1916
[555]	1917
[1289]	1918	# OUTPUT OF THE MRUN-HEADER
[1]	1919	calltime=$(date)
	1920	printf "\n"
[1101]	1921	printf "#------------------------------------------------------------------------# \n"
	1922	printf "\| %-35s%35s \| \n" "$version" "$calltime"
	1923	printf "\| \| \n"
[1]	1924	spalte1="called on:"; spalte2=$localhost_realname
[1101]	1925	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1289]	1926	if [[ $do_remote = true ]]
[1]	1927	then
[1289]	1928	spalte1="execution on:"; spalte2="$host (username: $remote_username)"
[1]	1929	else
[1289]	1930	spalte1="execution on:"; spalte2="$host ($localhost_realname)"
[1]	1931	fi
[1101]	1932	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	1933	if [[ -n $numprocs ]]
	1934	then
[1106]	1935	if [[ $run_coupled_model = false ]]
	1936	then
	1937	spalte1="number of PEs:"; spalte2=$numprocs
	1938	else
	1939	spalte1="number of PEs:"; spalte2="$numprocs (atmosphere: $numprocs_atmos, ocean: $numprocs_ocean)"
	1940	fi
[1101]	1941	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	1942	fi
	1943	if [[ -n $tasks_per_node ]]
	1944	then
	1945	spalte1="tasks per node:"; spalte2="$tasks_per_node (number of nodes: $nodes)"
[1101]	1946	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1279]	1947	if (( remaining_pes > 0 ))
	1948	then
	1949	spalte1=" "; spalte2="one of the nodes only filled with $remaining_pes tasks"
	1950	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	1951	fi
[1]	1952	fi
[759]	1953	if [[ $maximum_parallel_io_streams != $numprocs ]]
	1954	then
	1955	spalte1="max par io streams:"; spalte2="$maximum_parallel_io_streams"
[1101]	1956	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[759]	1957	fi
[622]	1958	if [[ $use_openmp = true ]]
[1]	1959	then
	1960	spalte1="threads per task:"; spalte2="$threads_per_task"
[1101]	1961	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	1962	fi
[1101]	1963	printf "\| \| \n"
[1]	1964	if [[ $do_compile = true ]]
	1965	then
[475]	1966	if [[ "$mopts" != "" ]]
	1967	then
[1101]	1968	spalte1="make options:"; spalte2=$(echo "$mopts" \| cut -c-45)
	1969	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	1970	zeile=$(echo "$mopts" \| cut -c46-)
[475]	1971	while [[ "$zeile" != "" ]]
	1972	do
	1973	spalte1=""
[1101]	1974	spalte2=$(echo "$zeile" \| cut -c-45)
	1975	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	1976	zeile=$(echo "$zeile" \| cut -c46-)
[475]	1977	done
	1978	fi
	1979
[1101]	1980	spalte1="cpp directives:"; spalte2=$(echo "$cpp_options" \| cut -c-45)
	1981	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	1982	zeile=$(echo "$cpp_options" \| cut -c46-)
[1]	1983	while [[ "$zeile" != "" ]]
	1984	do
	1985	spalte1=""
[1101]	1986	spalte2=$(echo "$zeile" \| cut -c-45)
	1987	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	1988	zeile=$(echo "$zeile" \| cut -c46-)
[1]	1989	done
	1990
[1101]	1991	spalte1="compiler options:"; spalte2=$(echo "$fopts" \| cut -c-45)
	1992	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	1993	zeile=$(echo "$fopts" \| cut -c46-)
[1]	1994	while [[ "$zeile" != "" ]]
	1995	do
	1996	spalte1=""
[1101]	1997	spalte2=$(echo "$zeile" \| cut -c-45)
	1998	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	1999	zeile=$(echo "$zeile" \| cut -c46-)
[1]	2000	done
	2001
[1101]	2002	spalte1="linker options:"; spalte2=$(echo "$lopts" \| cut -c-45)
	2003	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2004	zeile=$(echo "$lopts" \| cut -c46-)
[1]	2005	while [[ "$zeile" != "" ]]
	2006	do
	2007	spalte1=""
[1101]	2008	spalte2=$(echo "$zeile" \| cut -c-45)
	2009	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2010	zeile=$(echo "$zeile" \| cut -c46-)
[1]	2011	done
	2012
[1101]	2013	spalte1="modules to be load:"; spalte2=$(echo "$modules" \| cut -c-45)
	2014	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2015	zeile=$(echo "$modules" \| cut -c46-)
[493]	2016	while [[ "$zeile" != "" ]]
	2017	do
	2018	spalte1=""
[1101]	2019	spalte2=$(echo "$zeile" \| cut -c-45)
	2020	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2021	zeile=$(echo "$zeile" \| cut -c46-)
[493]	2022	done
	2023
[1101]	2024	spalte1="main program:"; spalte2=$mainprog
	2025	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	2026	else
	2027	spalte1=executable:; spalte2=$executable
[1101]	2028	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	2029	fi
[1101]	2030	printf "\| \| \n"
	2031	spalte1="base name of files:"; spalte2=$fname
	2032	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	2033	if [[ $fname != $afname ]]
	2034	then
[1101]	2035	spalte1="base name of input files:"; spalte2=$afname
	2036	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	2037	fi
[1101]	2038	spalte1="INPUT control list:"; spalte2=$(echo $input_list)
	2039	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
	2040	spalte1="OUTPUT control list:"; spalte2=$(echo $output_list)
	2041	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	2042
[1106]	2043	if [[ "$ocean_file_appendix" = true ]]
	2044	then
	2045	printf "\| %-35s%-35s \| \n" "suffix \"_O\" is added to local files" " "
	2046	fi
	2047
[1]	2048	if [[ $do_batch = true \|\| "$LOADLBATCH" = yes ]]
	2049	then
	2050	spalte1="memory demand / PE":; spalte2="$memory MB"
[1101]	2051	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	2052	spalte1=CPU-time:; spalte2="$minuten:$sekunden"
[1101]	2053	printf "\| %-25s%-45s \| \n" "$spalte1" "$spalte2"
[1]	2054	fi
	2055
	2056	if [[ $do_compile = true ]]
	2057	then
[1101]	2058	printf "\| \| \n"
	2059	printf "\| Files to be compiled: \| \n"
[1]	2060	zeile=$source_list
	2061	while [[ "$zeile" != "" ]]
	2062	do
[1101]	2063	linestart=$(echo $zeile \| cut -c-70)
	2064	printf "\| %-70s \| \n" "$linestart"
	2065	zeile=$(echo "$zeile" \| cut -c71-)
[1]	2066	done
	2067	fi
[1101]	2068	printf "#------------------------------------------------------------------------#"
[1]	2069
	2070
	2071
[1289]	2072	# OUTPUT OF FILE CONNECTIONS IN CASE OF TRACEBACK
[1]	2073	if [[ $do_trace = true ]]
	2074	then
	2075	(( i = 0 ))
	2076	while (( i < iin ))
	2077	do
	2078	(( i = i + 1 ))
	2079	if (( i == 1 ))
	2080	then
	2081	printf "\n\n >>> INPUT-file assignments:\n"
	2082	fi
	2083	printf "\n ${localin[$i]} : ${absnamein[$i]}"
	2084	done
	2085	(( i = 0 ))
	2086	while (( i < iout ))
	2087	do
	2088	(( i = i + 1 ))
	2089	if (( i == 1 ))
	2090	then
	2091	printf "\n\n >>> OUTPUT-file assignments:\n"
	2092	fi
	2093	printf "\n ${localout[$i]} : ${pathout[$i]}"
	2094	done
	2095	(( i = 0 ))
	2096	while (( i < iic ))
	2097	do
	2098	(( i = i + 1 ))
	2099	if (( i == 1 ))
	2100	then
	2101	printf "\n\n >>> INPUT-commands:\n"
	2102	fi
	2103	printf "\n ${in_command[$i]}"
	2104	done
	2105	(( i = 0 ))
	2106	while (( i < ioc ))
	2107	do
	2108	(( i = i + 1 ))
	2109	if (( i == 1 ))
	2110	then
	2111	printf "\n\n >>> OUTPUT-commands:\n"
	2112	fi
	2113	printf "\n ${out_command[$i]}"
	2114	done
	2115	fi
	2116
	2117
[1289]	2118	# QUERY FOR CONTINUE (ON LOCAL MACHINES ONLY)
[1]	2119	if [[ $remotecall = false && $silent = false && $jobmo != BATCH ]]
	2120	then
	2121	antwort=dummy
	2122	printf "\n\n"
[1101]	2123	printf " >>> everything o.k. (y/n) ? "
	2124	while read antwort
[1]	2125	do
[1101]	2126	if [[ "$antwort" != y && "$antwort" != Y && "$antwort" != n && "$antwort" != N ]]
	2127	then
	2128	printf " >>> everything o.k. (y/n) ? "
	2129	else
	2130	break
	2131	fi
[1]	2132	done
	2133	if [[ $antwort = n \|\| $antwort = N ]]
	2134	then
	2135	locat=user_abort; (( iec = 0 )); exit
	2136	fi
	2137	if [[ $do_batch = true ]]
	2138	then
	2139	printf " >>> batch-job will be created and submitted"
	2140	else
[1289]	2141	printf " >>> MRUN will now continue to execute on this machine"
[1]	2142	fi
	2143	fi
	2144
[841]	2145
[1101]	2146	# PERFORM PARAMETER FILE CHECK (COUPLED RUNS ARE NOT SUPPORTED YET)
	2147	# DEFINE VARIABLES FOR FREQUENTLY USED DIRECTORIES
[841]	2148	check_depository="${working_directory}/trunk/UTIL"
	2149	check_sources="${working_directory}/tmp_check_namelist_files"
[818]	2150	skip_check=false
[841]	2151
[1101]	2152	# CHECK IF NAMELIST_FILE_CHECK HAS BEEN COMPILED SUCCESSFULLY
[920]	2153	if [[ ! -f $check_depository/check_namelist_files.tar ]]
[841]	2154	then
[1101]	2155	skip_check=true
	2156	reason="run on remote host or parameter file check has not been compiled."
[920]	2157	fi
	2158	if [[ ! -f $PALM_BIN/check_namelist_files.x ]]
	2159	then
[1101]	2160	skip_check=true
	2161	reason="parameter file check has not been compiled."
[892]	2162	fi
[841]	2163
[1101]	2164	# CHECK FOR PARALLEL RUN; OTHERWISE SKIP CHECK
[892]	2165	if [[ "$cond1" != "parallel" && "$cond2" != "parallel" ]]
	2166	then
[1101]	2167	skip_check=true
	2168	reason="serial run."
[841]	2169	fi
	2170
[1101]	2171	# ONLY PERFORM CHECK IF -z OPTION IS NOT SET, NO RESTART RUN IS CARRIED OUT
	2172	# AND IF THE EXECUTION HOST IS THE LOCAL HOST
	2173	# ATTENTION: THIS ROUTINE DOES NOT WORK IF THE COMPILER ON THE LOCAL HOST
	2174	# DIFFERS FROM THE COMPILER ON THE REMOTE HOST
[892]	2175	if [[ $check_namelist_files == false ]]
[807]	2176	then
[1101]	2177	skip_check=true
	2178	reason="-z option set."
[815]	2179	fi
[892]	2180
	2181	if [[ $fromhost != $localhost ]]
[815]	2182	then
[1101]	2183	skip_check=true
	2184	reason="submitting host is local host."
[892]	2185	fi
[1]	2186
[892]	2187	if [[ $run_coupled_model == true ]]
	2188	then
	2189	skip_check=true
	2190	reason="coupled run."
	2191	fi
[1]	2192
[892]	2193	if [[ $restart_run == true ]]
	2194	then
	2195	skip_check=true
	2196	reason="restart run."
	2197	fi
[807]	2198
[1101]	2199	# SKIP CHECK IN CASE OF RESTART RUN: CHECK WHETHER THE LAST CHAR IS "f" IN PARIN
[1122]	2200	(( last_char_int = `echo $filename_input \| wc -c` - 1 ))
	2201	last_char=`echo $filename_input \| cut -c $last_char_int`
[892]	2202	if [[ "$last_char" == "f" ]]
	2203	then
	2204	skip_check=true
[1069]	2205	reason="restart run."
[892]	2206	fi
[807]	2207
[892]	2208	if [[ $skip_check == false ]]
	2209	then
	2210	tmp_check=${working_directory}/tmp_check
[841]	2211
[1241]	2212	# GET TOPOGRAPHY PARAMETER FILE SUFFIX (USUALLY "_TOPO"). THIS FILE IS
[1101]	2213	# NOT NECESSARILY REQUIRED
[818]	2214	line=""
	2215	found=false
[892]	2216	grep "TOPOGRAPHY_DATA" $config_file > $tmp_check
[818]	2217	while read line1
	2218	do
	2219	line="$line1"
	2220	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	2221	then
	2222	topo_suffix=`echo $line \| tr -s " " \| cut -d" " -s -f5`
	2223	found=true
	2224	fi
	2225	done < $tmp_check
[807]	2226
[818]	2227	if [[ $found = false ]]
	2228	then
	2229	printf "\n +++ no TOPOGRAPHY list entry found in the configuration file."
	2230	fi
	2231
[1241]	2232	# GET NUDGING PARAMETER FILE SUFFIX (USUALLY "_NUDGE"). THIS FILE IS
	2233	# NOT NECESSARILY REQUIRED
	2234	line=""
	2235	found=false
	2236	grep "NUDGING_DATA" $config_file > $tmp_check
	2237	while read line1
	2238	do
	2239	line="$line1"
	2240	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	2241	then
	2242	nudge_suffix=`echo $line \| tr -s " " \| cut -d" " -s -f5`
	2243	found=true
	2244	fi
	2245	done < $tmp_check
	2246
	2247	if [[ $found = false ]]
	2248	then
	2249	printf "\n +++ no NUDGING list entry found in the configuration file."
	2250	fi
	2251
	2252	# GET LARGE SCALE FORCING PARAMETER FILE SUFFIX (USUALLY "_LSF"). THIS FILE IS
	2253	# NOT NECESSARILY REQUIRED
	2254	line=""
	2255	found=false
	2256	grep "LSF_DATA" $config_file > $tmp_check
	2257	while read line1
	2258	do
	2259	line="$line1"
	2260	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	2261	then
	2262	lsf_suffix=`echo $line \| tr -s " " \| cut -d" " -s -f5`
	2263	found=true
	2264	fi
	2265	done < $tmp_check
	2266
	2267	if [[ $found = false ]]
	2268	then
	2269	printf "\n +++ no LSF list entry found in the configuration file."
	2270	fi
	2271
[807]	2272	rm -rf ${working_directory}/tmp_check
	2273
[1241]	2274	# CHECK IF THE P3DF FILE MUST BE CHECKED
[807]	2275	for item in $input_list
	2276	do
[892]	2277	if [[ "$item" == "restart" ]]
[807]	2278	then
	2279	check_restart=1
	2280	else
	2281	check_restart=0
	2282	fi
	2283	done
	2284
[1101]	2285	# ERROR IF NO PARAMETER FILE WAS FOUND, OTHERWISE PROCEED
	2286	if [[ (! -f $filename_input) && ( "$filename_input" != "" ) ]]
[807]	2287	then
[920]	2288	printf "\n\n +++ ERROR: parameter file ($filename_input) not found."
[807]	2289	locat=check_namelist; exit
	2290	fi
	2291
[1101]	2292	# CHECK IF THE RESTART PARAMETER FILE EXISTS (IF NECESSARY)
[807]	2293	if [[ $check_restart == 1 ]]
	2294	then
[892]	2295
[920]	2296	filenamef="${filename_input}f"
[892]	2297	if [[ ! -f $filenamef ]]
[807]	2298	then
[892]	2299	printf "\n\n +++ WARNING: restart parameter file ($filenamef) is missing."
[807]	2300	check_restart=0
	2301	answer=dummy
	2302	printf "\n\n"
	2303
[818]	2304	if [[ $silent == false ]]
[807]	2305	then
[818]	2306	while [[ "$answer" != c && "$answer" != C && "$answer" != a && "$answer" != A ]]
	2307	do
	2308	printf " >>> continue anyway (c(ontinue)/a(bort)) ? "
	2309	read answer
	2310	done
	2311	if [[ $answer = a \|\| $answer = A ]]
	2312	then
	2313	printf "\n +++ Aborting...."
	2314	locat=normal; exit
	2315	fi
[807]	2316	fi
	2317	else
	2318	check_restart=1
	2319	fi
	2320	fi
	2321
[1101]	2322	# CREATE TEMPORARY SOURCES_FOR_CHECK PATH
[807]	2323	mkdir $check_sources
	2324	cd $check_sources
	2325
[892]	2326
[1101]	2327	# CHECK FOR USER CODE, OTHERWISE USE THE PRECOMPILED CHECK_NAMELIST_FILES.X
[892]	2328	if [[ -d $add_source_path ]]
[807]	2329	then
	2330	printf "\n\n *** copying files from $check_depository"
	2331	cp $check_depository/check_namelist_files.tar ./
	2332
	2333	printf "\n\n *** untar of makefile and source files in $check_sources"
	2334	tar -xf check_namelist_files.tar > /dev/null 2>&1
	2335
	2336	printf "\n\n *** adding user code."
[892]	2337	cp $add_source_path/* ./
[807]	2338	touch check_namelist_files.f90
	2339
[1101]	2340	# GET COMPILER OPTIONS AND PERFORM MAKE
[807]	2341	printf "\n\n *** compiling code if necessary...\n"
[1045]	2342
[1101]	2343	# workaround for batch jobs on local machine (lcxe6)
[1045]	2344	if [[ $do_batch == true && $do_remote == false ]]
	2345	then
	2346	eval $init_cmds
	2347	fi
	2348
[1101]	2349	# GET CHECK OPTIONS
[1083]	2350	line=""
	2351	found=false
	2352
	2353	grep "$localhost" ${base_directory}/${config_file} \| grep "%cpp_options" > $tmp_check
	2354
	2355	while read line1
	2356	do
	2357
	2358	if [[ $(echo $line1 \| cut -d" " -s -f3-) = "$localhost" ]]
	2359	then
	2360	line="$line1"
	2361	fi
	2362
	2363	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	2364	then
[1289]	2365	# REMOVE COLONS FROM OPTION-STRING, REMOVE ALL -D OPTIONS
[1101]	2366	line="$line "
[1083]	2367	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'`
	2368	found=true
	2369	fi
	2370
	2371	done < $tmp_check
	2372	copts_check="$copts_check -D__check -D__parallel"
	2373
[807]	2374	make -f Makefile_check F90=$compiler_name_ser COPT="$copts_check"
	2375
[1101]	2376	# GET MAKE OUTPUT
[807]	2377	if [[ $? != 0 ]]
	2378	then
[815]	2379	printf "\n +++ error during make."
	2380	answer=dummy
	2381	printf "\n\n"
[818]	2382	if [[ $silent == false ]]
[815]	2383	then
[818]	2384	while [[ "$answer" != c && "$answer" != C && "$answer" != a && "$answer" != A ]]
	2385	do
	2386	printf " >>> continue anyway (c(ontinue)/a(bort)) ? "
	2387	read answer
	2388	done
	2389	if [[ $answer = a \|\| $answer = A ]]
	2390	then
	2391	printf "\n +++ Aborting..."
	2392	rm -rf $check_sources
	2393	locat=normal; exit
	2394	else
	2395	skip_check=true
	2396	fi
[815]	2397	else
	2398	skip_check=true
	2399	fi
[807]	2400	fi
	2401	else
	2402	cp $PALM_BIN/check_namelist_files.x ./
	2403	fi
	2404
[920]	2405	cp $filename_input ./PARIN
[807]	2406	if [[ $check_restart == 1 ]]
	2407	then
[892]	2408	cp $filenamef ./PARINF
[807]	2409	fi
	2410
[892]	2411	if [[ -f ${pathname}/${fname}${topo_suffix} && $skip_check == false ]]
[818]	2412	then
	2413	printf "\n *** adding topography data"
[892]	2414	cp ${pathname}/${fname}${topo_suffix} ./TOPOGRAPHY_DATA
[818]	2415
[1101]	2416	# IN CASE OF TOPOGRAPHY AND HIGH GRID POINT NUMBERS, THE STACK SIZE
	2417	# MUST BE INCREASED. THIS IS DUE TO THE ARRAY nzb_local AND topo_height,
	2418	# WHICH REQUIRE SUFFICIENT MEMORY
[818]	2419	ulimit -s unlimited
	2420	fi
	2421
[1241]	2422	if [[ -f ${pathname}/${fname}${nudge_suffix} && $skip_check == false ]]
	2423	then
	2424	printf "\n *** adding nudging data"
	2425	cp ${pathname}/${fname}${nudge_suffix} ./NUDGING_DATA
	2426	fi
	2427
	2428	if [[ -f ${pathname}/${fname}${lsf_suffix} && $skip_check == false ]]
	2429	then
	2430	printf "\n *** adding large scale forcing data"
	2431	cp ${pathname}/${fname}${lsf_suffix} ./LSF_DATA
	2432	fi
	2433
[1101]	2434	# CREATE ENVPAR FILE, WHICH IS NEEDED BY CHECK_NAMELIST_FILES.X
[807]	2435	cat > ENVPAR << %%END%%
[823]	2436	&envpar run_identifier = '$fname', host = '$host',
[807]	2437	write_binary = '$write_binary', tasks_per_node = $tasks_per_node,
	2438	maximum_parallel_io_streams = $maximum_parallel_io_streams,
	2439	maximum_cpu_time_allowed = ${cpumax}.,
	2440	revision = '$global_revision',
	2441	local_dvrserver_running = $local_dvrserver_running /
	2442
	2443	%%END%%
	2444
[1101]	2445	# SAFETY CHECK: ONLY PROCEED IF THE PARAMETER CHECK PROGRAM WAS PROPERLY COMPILED
	2446	if [[ ! -f check_namelist_files.x && $skip_check == false ]]
	2447	then
[807]	2448	printf "\n +++ WARNING: check_namelist_files.x not found."
	2449	answer=dummy
	2450	printf "\n\n"
[818]	2451
	2452	if [[ $silent == false ]]
[807]	2453	then
[818]	2454	while [[ "$answer" != c && "$answer" != C && "$answer" != a && "$answer" != A ]]
	2455	do
	2456	printf " >>> continue anyway (c(ontinue)/a(bort)) ? "
	2457	read answer
	2458	done
	2459	if [[ $answer = a \|\| $answer = A ]]
	2460	then
	2461	printf "\n +++ Aborting..."
	2462	rm -rf $check_sources
	2463	locat=normal; exit
	2464	else
[1101]	2465	printf "\n *** skipping parameter file check."
[818]	2466	fi
	2467	fi
	2468
[815]	2469	elif [[ $skip_check == false ]]
	2470	then
[1101]	2471	# STARTING THE PARAMETER FILE CHECK
[807]	2472	printf "\n\n *** starting parameter file check..."
	2473
[1101]	2474	# CHECKING THE P3D FILE
[920]	2475	printf "\n\n (1) checking $filename_input"
[931]	2476	echo "$numprocs 0 0" > VARIN
[807]	2477	errors=`./check_namelist_files.x < VARIN 2>&1`
	2478
	2479	check_error=false
	2480	if [[ "$errors" == "" ]]
	2481	then
	2482	printf " --> o.k."
	2483	else
	2484	printf " --> failed."
	2485	check_error=true
	2486	printf "\n\n $errors"
	2487	fi
	2488
[1101]	2489	# CHECKING THE PD3F FILE IF NECESSARY
[807]	2490	if [[ $check_restart == 1 && $check_error == false ]]
	2491	then
[892]	2492	printf "\n\n (2) checking $filenamef"
[807]	2493
[1101]	2494	# FIRST CHECK IF INITIALIZING_ACTIONS="READ_RESTART_DATA" IS SET
	2495	# IN &INIPAR LIST
[807]	2496	found=false
[1101]	2497	cat PARINF \| while read line
[807]	2498	do
	2499	line=$(echo $line\|sed 's/ //g')
	2500	if [[ $line == "&inipar" ]]
	2501	then
	2502	start_search=true
	2503	fi
	2504
	2505	if [[ $start_search == true ]]
	2506	then
	2507	if [[ $line == "initializing_actions='read_restart_data'" ]]
	2508	then
	2509	found=true
	2510	break
	2511	fi
	2512	fi
	2513
	2514	if [[ $line == "/" ]]
	2515	then
	2516	start_search=false
	2517	fi
	2518
	2519	done
	2520
	2521	if [[ $found = false ]]
	2522	then
	2523	printf "\n\n +++ ERROR: initializing_actions = 'read_restart_data' not found"
	2524	printf "\n in &inipar list in $fname$p3df_suffix."
	2525	rm -rf $check_sources
	2526	locat=check_namelist; exit
	2527	fi
	2528
[1101]	2529	# READ max_user_pr FROM FILES
[931]	2530	if [[ -f parin_for_check ]]
	2531	then
	2532	read max_pr_user < parin_for_check
	2533	else
	2534	max_user_pr=0
	2535	fi
	2536
	2537	echo "$numprocs 1 $max_pr_user" > VARIN
[807]	2538	errors=`./check_namelist_files.x < VARIN 2>&1`
	2539
	2540	if [[ "$errors" == "" ]]
	2541	then
	2542	printf " --> o.k."
	2543	else
	2544	printf " --> failed."
	2545	check_error=true
	2546	printf "\n\n $errors"
	2547	fi
	2548	fi
	2549
[1101]	2550	# REPORT ERRORS AND CONTINUE/EXIT
[807]	2551	if [[ $check_error == true ]]
	2552	then
	2553	printf "\n +++ errors found in the parameter file!\n"
	2554	answer=dummy
	2555	printf "\n\n"
	2556
	2557	while [[ "$answer" != c && "$answer" != C && "$answer" != a && "$answer" != A ]]
	2558	do
[1101]	2559	printf " >>> continue anyway (c(ontinue)/a(bort)) ? "
	2560	read answer
[807]	2561	done
	2562
	2563	if [[ $answer = a \|\| $answer = A ]]
	2564	then
	2565	printf "\n +++ Aborting..."
	2566	rm -rf $check_sources
	2567	locat=normal; exit
	2568	fi
	2569	else
	2570	printf "\n\n *** parameter file(s) seem(s) to be o.k.\n"
	2571	fi
	2572	rm -rf $check_sources
	2573	fi
	2574	else
[1103]	2575	printf "\n\n +++ skipping parameter file check due to following reason: $reason \n"
[807]	2576	fi
	2577
[818]	2578	# DELETE TEMPORARY DIRECTORY AND FINISH NAMELIST FILE CHECK
	2579	rm -rf $check_sources
[807]	2580	cd $working_directory
	2581
[892]	2582
[1199]	2583	# DETERMINE PATH FOR MAKE DEPOSITORY
	2584	if [[ $do_batch = false \|\| $create_executable_for_batch = true ]]
	2585	then
	2586
	2587	line=""
	2588	grep "%depository_path" $config_file > tmp_mrun
	2589	while read line
	2590	do
	2591	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	2592	then
	2593	if [[ "$(echo $line \| cut -d" " -s -f3)" = "" ]]
	2594	then
	2595	global_depository_path=`echo $line \| cut -d" " -s -f2`
	2596	fi
	2597	fi
	2598	done < tmp_mrun
	2599
	2600	line=""
	2601	grep " $localhost" $config_file \| grep "%depository_path" > tmp_mrun
	2602	while read line
	2603	do
	2604	if [[ "$line" != "" && $(echo $line \| cut -c1) != "#" ]]
	2605	then
	2606	if [[ "$(echo $line \| cut -d" " -s -f4)" = "$cond1" && "$(echo $line \| cut -d" " -s -f5)" = "$cond2" ]]
	2607	then
	2608	local_depository_path=`echo $line \| cut -d" " -s -f2`
	2609	fi
	2610	fi
	2611	done < tmp_mrun
	2612
	2613	if [[ "$local_depository_path" = "" ]]
	2614	then
	2615	if [[ "$global_depository_path" != "" ]]
	2616	then
	2617	local_depository_path=$global_depository_path
	2618	else
	2619	printf "\n\n +++ no depository path found in configuration file"
	2620	printf "\n for local host \"$localhost\" "
	2621	printf "\n please set \"\%depository_path\" in configuration file\n"
	2622	locat=config_file; exit
	2623	fi
	2624	fi
	2625	eval local_depository_path=$local_depository_path
	2626	[[ "$cond1" != "" ]] && local_depository_path=${local_depository_path}_$cond1
	2627	[[ "$cond2" != "" ]] && local_depository_path=${local_depository_path}_$cond2
	2628
	2629
	2630	basename=`echo $mainprog \| cut -f1 -d"."`
	2631	eval make_depository=${local_depository_path}/${basename}_current_version.tar
	2632	if [[ ! -f $make_depository ]]
	2633	then
	2634	printf "\n"
	2635	printf "\n *** WARNING: make depository \"$make_depository\" not found"
	2636	printf "\n \"make\" will fail, if the Makefile or other source files are missing\n"
	2637	fi
	2638
	2639	fi
	2640
	2641
[1289]	2642	# NOW PERFORM THOSE ACTIONS REQUIRED TO EXECUTE THE PROGRAM (PALM) ON THIS MACHINE
	2643	# (COMPILING/LINKING, EXECUTING, COPYING I/O FILES)
[1]	2644	if [[ $do_batch = false ]]
	2645	then
	2646
	2647
[1289]	2648	# CREATE THE TEMPORARY WORKING DIRECTORY
[1]	2649	mkdir -p $TEMPDIR
	2650	chmod go+rx $TEMPDIR
	2651	tmpcreate=true
	2652
	2653
[1289]	2654	# COPY EITHER THE COMPLETE SOURCE CODE FILES TO BE COMPILED OR THE EXECUTABLE
	2655	# INTO THE TEMPORARY WORKING DIRECTORY
[1]	2656	if [[ $do_compile = true ]]
	2657	then
	2658
	2659	# ON NEC, COMPILATION IS DONE ON HOST CROSS VIA CROSS COMPILING
	2660	# CREATE A TEMPORARY DIRECTORY ON THAT MACHINE (HOME MOUNTED VIA NFS)
	2661	if [[ $localhost = nech ]]
	2662	then
	2663	TEMPDIR_COMPILE=$HOME/work/${usern}.$kennung
	2664	if mkdir -p $TEMPDIR_COMPILE
	2665	then
	2666	printf "\n *** \"$TEMPDIR_COMPILE\" "
	2667	printf "\n is generated as temporary directory for cross compiling\n"
	2668	else
	2669	printf "\n +++ creating directory \"$TEMPDIR_COMPILE\" "
	2670	printf "\n needed for cross compilation failed"
	2671	locat=compile
	2672	exit
	2673	fi
	2674	else
	2675	TEMPDIR_COMPILE=$TEMPDIR
	2676	fi
	2677
[1199]	2678	cp $make_depository $TEMPDIR_COMPILE
	2679	cd $TEMPDIR_COMPILE
	2680	tar -xf $make_depository > /dev/null 2>&1
	2681	cd - > /dev/null
[1]	2682
[1255]	2683	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
	2684	# FILES ON CRAY XC30 SYSTEMS (HLRN III), rsync IS USED INSTEAD
[1281]	2685	if [[ $(echo $host \| cut -c1-6) = lccray ]]
	2686	then
	2687	rsync -av -t SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
	2688	else
	2689	cp SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null
	2690	fi
[82]	2691
[1]	2692	else
[475]	2693
[1]	2694	cp $executable ${TEMPDIR}/a.out
[475]	2695
[1]	2696	fi
	2697
	2698
[1289]	2699	# CHANGE TO THE TEMPORARY WORKING DIRECTORY
[475]	2700	cd $TEMPDIR
[1]	2701	printf "\n *** changed to temporary directory: $TEMPDIR"
	2702
	2703
[1289]	2704	# THE FOLLOWING IS REQUIRED FPR AVS-OUTPUT WITH PALM ??? REMOVE ???
	2705	# WRITE INFORMATIONS ABOUT THE OUTPUT-FILE CONNECTIONS TO A TEMPORARY FILE
	2706	# THIS FILE CAN LATER BE READ FROM USER-DEFINED CODE TO DETERMINE THE
	2707	# RELATION BETWEEN THE LOCAL TEMPORARY AND PERMANENT FILE NAMES
[1]	2708	(( i = 0 ))
	2709	while (( i < iout ))
	2710	do
	2711	(( i = i + 1 ))
	2712	if [[ "${actionout[$i]}" = tr \|\| "${actionout[$i]}" = tra \|\| "${actionout[$i]}" = trpe ]]
	2713	then
	2714	printf "${localout[$i]} ${actionout[$i]}\n${pathout[$i]}\n${localhost}_${fname}${endout[$i]}\n" >> OUTPUT_FILE_CONNECTIONS
	2715	else
	2716	printf "${localout[$i]} ${actionout[$i]}\n${pathout[$i]}\n${frelout[$i]}\n" >> OUTPUT_FILE_CONNECTIONS
	2717	fi
	2718	done
	2719
	2720
[1289]	2721	# IF REQUIRED, START WITH COMPILING
[1]	2722	if [[ $do_compile = true ]]
	2723	then
	2724
	2725
[1199]	2726	if [[ -f a.out ]]
[475]	2727	then
[82]	2728
[1199]	2729	# EXECUTABLE WAS CREATED DURING INTERACTIVE CALL OF MRUN
	2730	printf "\n\n\n *** executable a.out found"
	2731	printf "\n no compilation required \n"
	2732
[1]	2733	else
[807]	2734
[1199]	2735	# COMPILING WITH MAKE (ON NEC COMPILER IS CALLED ON HOST CROSS)
[1289]	2736	printf "\n\n\n *** compilation starts \n$dashes\n"
[1199]	2737	printf " *** compilation with make using following options:\n"
	2738	printf " make depository: $make_depository"
	2739	if [[ "$mopts" != "" ]]
	2740	then
	2741	printf " make options: $mopts\n"
	2742	fi
	2743	printf " compilername: $compiler_name\n"
	2744	printf " compiler options: $fopts\n"
	2745	printf " preprocessor directives: $cpp_options \n"
	2746	printf " linker options: $lopts \n"
	2747	if [[ "$modules" != "" ]]
	2748	then
	2749	printf " modules to be load: $modules \n"
	2750	fi
	2751	printf " source code files: $source_list \n"
[1]	2752
[1199]	2753	if [[ $localhost = nech ]]
	2754	then
	2755	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\" "
	2756	cp $TEMPDIR_COMPILE/a.out .
	2757	[[ $? != 0 ]] && compile_error=true
	2758	rm -rf $TEMPDIR_COMPILE
	2759	elif [[ $localhost = ibmh ]]
	2760	then
	2761	printf " compiler is called via ssh on \"plogin1\" \n"
	2762	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\" "
	2763	[[ ! -f a.out ]] && compile_error=true
[1289]	2764	continue # STATUS=1, IF a.out EXISTS
[1199]	2765	elif [[ $localhost = lcflow ]]
	2766	then
	2767	printf " compiler is called via ssh on \"flow\" \n"
[1201]	2768	/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]	2769	check_for_file=`/usr/bin/ssh $SSH_PORTOPT flow02.hpc.uni-oldenburg.de -l $usern "ls $TEMPDIR/a.out 2> /dev/null"`
	2770	[[ "$check_for_file" = "" ]] && compile_error=true
[1289]	2771	continue # STATUS=1, IF a.out EXISTS
[1274]	2772	elif [[ $localhost = lccrayb \|\| $localhost = lccrayf \|\| $localhost = lccrayh ]]
[1199]	2773	then
	2774	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
	2775	else
	2776	[[ "$init_cmds" != "" ]] && eval $init_cmds
	2777	[[ "$module_calls" != "" ]] && eval $module_calls
	2778	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
	2779	fi
[181]	2780
[1199]	2781	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
	2782	then
	2783	printf "\n +++ error occured while compiling or linking"
	2784	locat=compile
	2785
[181]	2786	exit
[1199]	2787	else
[1289]	2788	printf "$dashes\n *** compilation finished \n"
[1199]	2789	fi
	2790
[1]	2791	fi
[1199]	2792
[1]	2793	fi
	2794
	2795
[1289]	2796	# PROVIDE THE INPUT FILES
	2797	# LOOP OVER ALL ACTIVATED FILES (LISTED IN THE CONFIGURATION FILE)
[1]	2798	(( i = 0 ))
	2799	while (( i < iin ))
	2800	do
	2801	(( i = i + 1 ))
	2802	if (( i == 1 ))
	2803	then
[1289]	2804	printf "\n\n *** providing INPUT-files:\n$dashes"
[1]	2805	fi
	2806
	2807
[1289]	2808	# SKIP OPTIONAL FILES, IF THEY DO NOT EXIST
[1]	2809	if [[ "${transin[$i]}" = unavailable ]]
	2810	then
	2811	if [[ "${extin[$i]}" = "" \|\| "${extin[$i]}" = " " ]]
	2812	then
	2813	printf "\n +++ WARNING: input file \"${pathin[$i]}/${afname}${endin[$i]}\" "
	2814	printf "\n is not available!"
	2815	else
	2816	printf "\n +++ WARNING: input file \"${pathin[$i]}/${afname}${endin[$i]}.${extin[$i]}\" "
	2817	printf "\n is not available!"
	2818	fi
	2819	continue
	2820	fi
	2821
[1289]	2822	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
[1]	2823	files_for_pes=false; datentyp=file
	2824	if [[ "${actionin[$i]}" = pe && -n $numprocs ]]
	2825	then
	2826	files_for_pes=true; datentyp=directory
	2827	actionin[$i]=""
	2828	elif [[ "${actionin[$i]}" = pe && ! -n $numprocs ]]
	2829	then
	2830	actionin[$i]=""
	2831	elif [[ "${actionin[$i]}" = arpe && -n $numprocs ]]
	2832	then
	2833	files_for_pes=true; datentyp=directory
	2834	actionin[$i]="ar"
	2835	elif [[ "${actionin[$i]}" = arpe && ! -n $numprocs ]]
	2836	then
	2837	actionin[$i]="ar"
	2838	elif [[ "${actionin[$i]}" = flpe && -n $numprocs ]]
	2839	then
	2840	files_for_pes=true; datentyp=directory
	2841	actionin[$i]="fl"
	2842	elif [[ "${actionin[$i]}" = flpe && ! -n $numprocs ]]
	2843	then
	2844	actionin[$i]="fl"
	2845	fi
	2846
	2847	if [[ $files_for_pes = true ]]
	2848	then
	2849	printf "\n >>> INPUT: ${absnamein[$i]}/.... to ${localin[$i]}"
	2850	else
	2851	printf "\n >>> INPUT: ${absnamein[$i]} to ${localin[$i]}"
	2852	fi
	2853
[1289]	2854	# INPUT-FILE FOR A RESTART RUN.
	2855	# CHECK, IF THIS FILE STILL EXISTS ON THE TEMPORARY DATA DIRECTORY.
	2856	# IF NOT, TRY TO GET IT FROM THE ARCHIVE SYSTEM
[1]	2857	if [[ "${actionin[$i]}" = fl ]]
	2858	then
	2859	printf "\n $datentyp will be fetched from temporary directory \"${tmp_data_catalog}\" !"
	2860	if [[ $files_for_pes = false ]]
	2861	then
	2862	if [[ -f "$tmp_data_catalog/${frelin[$i]}" ]]
	2863	then
	2864	ln $tmp_data_catalog/${frelin[$i]} ${localin[$i]}
	2865	got_tmp[$i]=true
	2866	elif [[ -f "$WORK/${frelin[$i]}" && $ignore_archive_error = true ]]
	2867	then
	2868	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" !"
	2869	printf "\n *** trying to use backup copy in \"$WORK\" "
	2870	cp $WORK/${frelin[$i]} ${localin[$i]}
	2871	else
	2872	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" "
	2873	printf "\n or \"$tmp_data_catalog\" does not exist!"
	2874	printf "\n *** trying to get copy from archive"
	2875	actionin[$i]=ar
	2876	fi
	2877	else
	2878	if [[ -d "$tmp_data_catalog/${frelin[$i]}" ]]
	2879	then
	2880	mkdir ${localin[$i]}
[149]	2881	cd $tmp_data_catalog/${frelin[$i]}
	2882	for file in $(ls *)
	2883	do
	2884	ln $file $TEMPDIR/${localin[$i]}
	2885	done
	2886	cd $TEMPDIR
[1]	2887	got_tmp[$i]=true
	2888	elif [[ -d "$WORK/${frelin[$i]}" && $ignore_archive_error = true ]]
	2889	then
	2890	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" !"
	2891	printf "\n *** trying to use backup copy in \"$WORK\" "
	2892	cp -r $WORK/${frelin[$i]} ${localin[$i]}
	2893	else
	2894	printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" "
	2895	printf "\n or \"$tmp_data_catalog\" does not exist!"
	2896	printf "\n *** trying to get copy from archive"
	2897	actionin[$i]=ar
	2898	fi
	2899	fi
	2900	fi
	2901
	2902
[1289]	2903	# FILE IS STORED ON THE ARCHIVE SYSTEM
[1]	2904	if [[ "${actionin[$i]}" = ar ]]
	2905	then
	2906
	2907	if [[ $files_for_pes = false ]]
	2908	then
	2909	printf "\n file will be restored from archive-system ($archive_system)!"
	2910	else
	2911	printf "\n directory will be restored from archive-system ($archive_system)!"
	2912	fi
	2913
	2914	file_restored=false
	2915
	2916	if [[ $archive_system = asterix ]]
	2917	then
	2918	do_stagein=true
	2919	(( stagein_anz = 0 ))
	2920	while [[ $do_stagein = true ]]
	2921	do
	2922	if [[ $files_for_pes = false ]]
	2923	then
	2924	stagein -O ${frelin[$i]} > STAGEIN_OUTPUT
	2925	else
	2926	stagein -t -O ${frelin[$i]} > STAGEIN_OUTPUT
	2927	fi
	2928	cat STAGEIN_OUTPUT
	2929	if [[ $(grep -c "st.msg:i24" STAGEIN_OUTPUT) != 0 ]]
	2930	then
	2931	file_restored=true
	2932	do_stagein=false
	2933	else
	2934	(( stagein_anz = stagein_anz + 1 ))
	2935	if (( stagein_anz == 10 ))
	2936	then
	2937	printf "\n +++ stagein stoped after 10 tries"
	2938	locat=stage
	2939	exit
	2940	fi
	2941	printf "\n +++ restoring from archive failed, trying again:"
	2942	sleep 900
	2943	fi
	2944	done
	2945	elif [[ $archive_system = DMF ]]
	2946	then
	2947	if [[ $files_for_pes = false ]]
	2948	then
	2949	printf "\n +++ restoring of single files impossible with $archive_system !\n"
	2950	locat=DMF
	2951	exit
	2952	else
	2953	find $ARCHIVE/${frelin[$i]} -type m -print \| dmget
	2954	cp -r $ARCHIVE/${frelin[$i]} $PWD
	2955	file_restored=true
	2956	fi
	2957	elif [[ $archive_system = tivoli ]]
	2958	then
	2959	if [[ $files_for_pes = false ]]
	2960	then
[1289]	2961	ssh $SSH_PORTOPT $usern@bicedata.hlrn.de "cp $PERM/${frelin[$i]} $PWD"
[1]	2962	else
	2963	(( inode = 0 ))
	2964	while (( inode < nodes ))
	2965	do
[1289]	2966	ssh $SSH_PORTOPT $usern@bicedata.hlrn.de "cd $PWD; tar xf $PERM/${frelin[$i]}/${frelin[$i]}.node_$inode.tar"
[1]	2967	(( inode = inode + 1 ))
	2968	done
	2969	fi
	2970	file_restored=true
	2971	elif [[ $archive_system = ut ]]
	2972	then
	2973	if [[ $files_for_pes = false ]]
	2974	then
	2975	cp $UT/${frelin[$i]} .
	2976	else
	2977	(( inode = 0 ))
	2978	while (( inode < nodes ))
	2979	do
	2980	tar xf $UT/${frelin[$i]}/${frelin[$i]}.node_$inode.tar
	2981	(( inode = inode + 1 ))
	2982	done
	2983	fi
	2984	file_restored=true
	2985	else
	2986	printf "\n +++ archive_system=\"$archive_system\" restore impossible!"
	2987	locat=rearchive
	2988	exit
	2989	fi
	2990
	2991	if [[ $file_restored = true ]]
	2992	then
	2993
[1289]	2994	# PUT FILE ON THE TEMPORARY DATA DIRECTORY TOO.
	2995	# THIS WILL MAKE FILE ACCESS EASIER FOR LATER RUNS
[1]	2996	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog; chmod g+rx $tmp_data_catalog
	2997	if [[ $files_for_pes = false ]]
	2998	then
	2999	ln -f ${frelin[$i]} $tmp_data_catalog/${frelin[$i]}
	3000	else
	3001	mkdir $tmp_data_catalog/${frelin[$i]}
	3002	ln -f ${frelin[$i]}/* $tmp_data_catalog/${frelin[$i]}
	3003	fi
	3004	got_tmp[$i]=true
	3005
[1289]	3006	# PROVIDE THE FILE UNDER ITS LOCAL NAME
[1]	3007	mv ${frelin[$i]} ${localin[$i]}
	3008
	3009	fi
	3010	fi
	3011
	3012
[1289]	3013	# FILE IS STORED IN THE RESPECTIVE DIRECTORY GIVEN IN THE CONFIGURATION FILE
[1]	3014	if [[ "${actionin[$i]}" = "" \|\| "${actionin[$i]}" = "di" \|\| "${actionin[$i]}" = "npe" ]]
	3015	then
	3016
	3017	if [[ "${actionin[$i]}" = "npe" && -n $numprocs ]]
	3018	then
	3019
[1289]	3020	# FILE COPIES ARE PROVIDED FOR ALL CORES
	3021	# EACH FILE GETS A UNIQUE FILENAME WITH A FOUR DIGIT NUMBER
[1]	3022	printf "\n file will be provided for $numprocs processors"
	3023	mkdir ${localin[$i]}
	3024	ival=$numprocs
	3025	(( ii = 0 ))
	3026	while (( ii <= ival-1 ))
	3027	do
	3028	if (( ii < 10 ))
	3029	then
	3030	cp ${absnamein[$i]} ${localin[$i]}/_000$ii
	3031	elif (( ii < 100 ))
	3032	then
	3033	cp ${absnamein[$i]} ${localin[$i]}/_00$ii
	3034	elif (( ii < 1000 ))
	3035	then
	3036	cp ${absnamein[$i]} ${localin[$i]}/_0$ii
	3037	else
	3038	cp ${absnamein[$i]} ${localin[$i]}/_$ii
	3039	fi
	3040	(( ii = ii + 1 ))
	3041	done
	3042
	3043	else
	3044
	3045	if [[ $files_for_pes = true ]]
	3046	then
	3047
[1289]	3048	# PROVIDE FILES FOR EACH CORE
	3049	# FIRST CREATE THE LOCAL DIRECTORY, THEN COPY FILES
	3050	# FROM THE PERMANENT DIRECTORY BY LINKING THEM TO THE LOCAL ONE
[1]	3051	printf "\n providing $numprocs files for the respective processors"
	3052	mkdir ${localin[$i]}
[183]	3053	if [[ $link_local_input = true ]]
	3054	then
	3055	printf " using ln -f\n"
	3056	cd ${absnamein[$i]}
	3057	for file in $(ls *)
	3058	do
	3059	ln -f $file ${localin[$i]}
	3060	done
	3061	cd $TEMPDIR
	3062	fi
[1289]	3063
	3064	# IF "ln -f" FAILED OR IF "$link_local_input = false" DO A NORMAL "cp -r"
[183]	3065	if [[ ! -f "${localin[$i]}/_0000" ]]
	3066	then
	3067	if [[ $link_local_input = true ]]
	3068	then
	3069	printf " ln failed for .../_0000, using cp...\n"
	3070	fi
	3071	cp -r ${absnamein[$i]}/* ${localin[$i]}
	3072	fi
[1]	3073
	3074	else
[1289]	3075
	3076	# PROVIDE FILE FOR RUNS ON A SINGLE CORE
[183]	3077	if [[ $link_local_input = true ]]
	3078	then
	3079	printf " using ln -f\n"
	3080	ln -f ${absnamein[$i]} ${localin[$i]}
	3081	fi
	3082	# If "ln -f" fails of if "$link_local_input = false" do a normal "cp"
	3083	if [[ ! -f "${localin[$i]}" ]]
	3084	then
	3085	if [[ $link_local_input = true ]]
	3086	then
	3087	printf " ln failed, using cp...\n"
	3088	fi
	3089	cp ${absnamein[$i]} ${localin[$i]}
	3090	fi
[1]	3091	fi
	3092	fi
	3093	fi
	3094
	3095	done
	3096	if (( i != 0 ))
	3097	then
[1289]	3098	printf "\n$dashes\n *** all INPUT-files provided \n"
[1]	3099	fi
	3100
	3101
[1289]	3102	# EXECUTE INPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
[1]	3103	(( i = 0 ))
	3104	while (( i < iic ))
	3105	do
	3106	(( i = i + 1 ))
	3107	if (( i == 1 ))
	3108	then
[1289]	3109	printf "\n\n *** execution of INPUT-commands:\n$dashes"
[1]	3110	fi
	3111	printf "\n >>> ${in_command[$i]}"
	3112	eval ${in_command[$i]}
	3113	if (( i == iic ))
	3114	then
[1289]	3115	printf "\n$dashes\n"
[1]	3116	fi
	3117	done
	3118
	3119
[1289]	3120	# SET THE REMAINING CPU-TIME
[1]	3121	cpurest=${cpumax}.
	3122
	3123
[260]	3124	# START DVR STREAMING SERVER
	3125	if [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
	3126	then
	3127	if [[ "$dvr_server" != "" ]]
	3128	then
	3129
	3130	printf "\n\n *** preparing the dvr streaming server configuration file"
	3131
[1289]	3132	# CHECK, IF A DVR SERVER IS ALREADY RUNNING
[260]	3133	running_dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config \| grep -v grep) \| cut -d" " -f2`
	3134	if [[ "$running_dvrserver_id" != "" ]]
	3135	then
	3136
[261]	3137	printf "\n\n +++ WARNING: A dvr server with id=$running_dvrserver_id is already running!"
[260]	3138	printf "\n This server is used instead starting a new one!"
[261]	3139	printf "\n If required, script \"process_dvr_output\" has to be run manually."
[260]	3140
	3141	else
	3142
	3143	# COPY CONFIGURATION FILE FOR STREAMING SERVER FROM REPOSITORY TO HERE
	3144	if [[ -f ${PALM_BIN}/.dvrserver.config ]]
	3145	then
	3146	cp ${PALM_BIN}/.dvrserver.config .
	3147
[1289]	3148	# ENTERING THE BASEDIR, UID AND GID INTO THIS FILE
[260]	3149	user_id=`id -u`
	3150	group_id=`id -g`
[1289]	3151
	3152	# "&" IS REQUIRED AS A SEPERATOR, BECAUSE TEMPDIR CONTAINS "/"
[260]	3153	sed "s&<replace by dvr data directory>&${TEMPDIR}&g" .dvrserver.config > .dvrserver.1
	3154	sed "s/<replace by user id>/$user_id/g" .dvrserver.1 > .dvrserver.2
	3155	sed "s/<replace by group id>/$group_id/g" .dvrserver.2 > .dvrserver.3
	3156	mv .dvrserver.3 .dvrserver.config
	3157	rm .dvrserver.1 .dvrserver.2
	3158
[1289]	3159	# START DVR SERVER IN BACKGROUND, GET HIS ID AND PRINT ON TERMINAL
[260]	3160	$dvr_server .dvrserver.config >> DVR_LOGFILE 2>&1 &
	3161	dvrserver_id=`echo $(ps -edaf \| grep .dvrserver.config) \| cut -d" " -f2`
	3162	printf "\n *** streaming server with id=$dvrserver_id is started in background"
	3163	local_dvrserver_running=.TRUE.
	3164	else
	3165	printf "\n +++ missing file \".dvrserver.config\" in directory:"
	3166	printf "\n \"$PALM_BIN\" "
	3167	locat=dvr
	3168	exit
	3169	fi
	3170
	3171	fi
	3172
	3173	else
	3174	printf "\n\n --- INFORMATIVE: no dvr streaming server will be started"
	3175	fi
	3176	fi
	3177
	3178
[1289]	3179	# CREATE THE NAMELIST-FILE WITH VALUES OF ENVIRONMENT-VARIABLES REQUIRED BY PALM
	3180	# (FILE ENVPAR WILL BE READ BY PALM)
[260]	3181	cat > ENVPAR << %%END%%
	3182	&envpar run_identifier = '$fname', host = '$localhost',
	3183	write_binary = '$write_binary', tasks_per_node = $tasks_per_node,
[759]	3184	maximum_parallel_io_streams = $maximum_parallel_io_streams,
[260]	3185	maximum_cpu_time_allowed = ${cpumax}.,
	3186	revision = '$global_revision',
[1402]	3187	local_dvrserver_running = $local_dvrserver_running,
	3188	batch_job = $batch_job /
[260]	3189
	3190	%%END%%
	3191
	3192
[1289]	3193	# STARTING THE EXECUTABLE
	3194	printf "\n\n *** execution starts in directory\n \"`pwd`\"\n$dashes\n"
[1]	3195	PATH=$PATH:$TEMPDIR
	3196
[1289]	3197	# MPI DEBUG OPTION (ARGUMENT CHECKING, SLOWS DOWN EXECUTION DUE TO INCREASED LATENCY)
[359]	3198	if [[ "$mpi_debug" = true ]]
	3199	then
	3200	export MPI_CHECK_ARGS=1
	3201	printf "\n +++ MPI_CHECK_ARGS=$MPI_CHECK_ARGS"
	3202	fi
	3203
[693]	3204	if [[ "$totalview" = true ]]
	3205	then
	3206	printf "\n *** totalview debugger will be used"
	3207	tv_opt="-tv"
	3208	else
	3209	tv_opt=""
	3210	fi
	3211
[1]	3212	if [[ "$cond1" = debug \|\| "$cond2" = debug ]]
	3213	then
	3214	if [[ "$ENVIRONMENT" = BATCH ]]
	3215	then
[1289]	3216	continue
[1]	3217	fi
[1096]	3218	if [[ $localhost = ibmh ]]
[1]	3219	then
	3220
	3221	# SETUP THE IBM MPI ENVIRONMENT
	3222	export MP_SHARED_MEMORY=yes
	3223	export AIXTHREADS_SCOPE=S
	3224	export OMP_NUM_THREADS=$threads_per_task
	3225	export AUTHSTATE=files
	3226	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
	3227
	3228	# FOLLOWING OPTIONS ARE MANDATORY FOR TOTALVIEW
	3229	export MP_ADAPTER_USE=shared
	3230	export MP_CPU_USE=multiple
	3231	export MP_TIMEOUT=1200
	3232
	3233	unset MP_TASK_AFFINITY
	3234
	3235	# SO FAR, TOTALVIEW NEEDS HOSTFILE MECHANISM FOR EXECUTION
	3236	#(( ii = 1 ))
	3237	#while (( ii <= $numprocs ))
	3238	#do
	3239	# echo $localhost_realname >> hostfile
	3240	# (( ii = ii + 1 ))
	3241	#done
	3242	#export MP_HOSTFILE=hostfile
	3243
	3244	if [[ "$LOADLBATCH" = yes ]]
	3245	then
	3246	totalview poe a.out $ROPTS
	3247	else
	3248	echo totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1 $ROPTS
	3249	export TVDSVRLAUNCHCMD=ssh
	3250	totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1 $ROPTS
	3251	fi
[622]	3252
[1295]	3253	fi # END DEBUG MODE
	3254
[1]	3255	else
[622]	3256
[1289]	3257	# NORMAL EXECUTION
[1]	3258	if [[ -n $numprocs ]]
	3259	then
[1289]	3260
[1]	3261	# RUNNING THE PROGRAM ON PARALLEL MACHINES
	3262	if [[ $(echo $host \| cut -c1-3) = ibm ]]
	3263	then
[1289]	3264
[1]	3265	# SETUP THE IBM MPI ENVIRONMENT
[693]	3266	if [[ $host != ibmh && $host != ibmkisti ]]
[312]	3267	then
	3268	export MP_SHARED_MEMORY=yes
	3269	export AIXTHREAD_SCOPE=S
	3270	export OMP_NUM_THREADS=$threads_per_task
	3271	export XLSMPOPTS="spins=0:yields=0:stack=20000000"
	3272	export AUTHSTATE=files
	3273	export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT
	3274	# export MP_PRINTENV=yes
[1]	3275
[1289]	3276	# TUNING-VARIABLES TO IMPROVE COMMUNICATION SPEED
	3277	# DO NOT SHOW SIGNIFICANT EFFECTS (SEP 04, FEDERATION-SWITCH)
[312]	3278	export MP_WAIT_MODE=poll
	3279	[[ $node_usage = not_shared ]] && export MP_SINGLE_THREAD=yes
	3280	fi
[693]	3281
	3282	if [[ $host = ibmkisti ]]
	3283	then
	3284	export LANG=en_US
	3285	export MP_SHARED_MEMORY=yes
[696]	3286	if [[ $threads_per_task = 1 ]]
	3287	then
	3288	export MP_SINGLE_THREAD=yes
	3289	export MEMORY_AFFINITY=MCM
	3290	else
	3291	export OMP_NUM_THREADS=$threads_per_task
	3292	fi
[693]	3293	fi
	3294
[1]	3295	if [[ "$LOADLBATCH" = yes ]]
	3296	then
	3297	printf "\n--- Control: OMP_NUM_THREADS = \"$OMP_NUM_THREADS\" \n"
	3298	if [[ "$cond1" = hpmcount \|\| "$cond2" = hpmcount ]]
	3299	then
[102]	3300	/opt/optibm/HPM_2_4_1/bin/hpmcount a.out $ROPTS
[1]	3301	else
[343]	3302	if [[ $run_coupled_model = false ]]
	3303	then
	3304	if [[ "$ocean_file_appendix" = true ]]
	3305	then
	3306	echo "precursor_ocean" > runfile_atmos
	3307	else
	3308	echo "precursor_atmos" > runfile_atmos
	3309	fi
	3310	else
	3311	(( iia = $numprocs_atmos / $threads_per_task ))
	3312	(( iio = $numprocs_ocean / $threads_per_task ))
	3313	printf "\n coupled run ($iia atmosphere, $iio ocean)"
	3314	printf "\n using $coupled_mode coupling"
	3315	printf "\n\n"
	3316	echo "coupled_run $iia $iio" > runfile_atmos
	3317	fi
	3318	poe ./a.out $ROPTS < runfile_atmos
[1]	3319	fi
	3320	else
[622]	3321	if [[ $localhost = ibmh \|\| $localhost = ibms ]]
[1]	3322	then
[102]	3323	poe a.out -procs $numprocs -nodes 1 -rmpool 0 $ROPTS
[1289]	3324	elif [[ $localhost = ibmkisti \|\| $localhost = ibmku ]]
[1]	3325	then
	3326	if [[ -f $hostfile ]]
	3327	then
	3328	cp $hostfile hostfile
	3329	else
	3330	(( ii = 1 ))
	3331	while (( ii <= $numprocs ))
	3332	do
	3333	echo $localhost_realname >> hostfile
	3334	(( ii = ii + 1 ))
	3335	done
	3336	fi
	3337	export MP_HOSTFILE=hostfile
[331]	3338	if [[ $run_coupled_model = false ]]
	3339	then
	3340	if [[ "$ocean_file_appendix" = true ]]
	3341	then
	3342	echo "precursor_ocean" > runfile_atmos
	3343	else
	3344	echo "precursor_atmos" > runfile_atmos
	3345	fi
	3346	else
	3347	(( iia = $numprocs_atmos / $threads_per_task ))
	3348	(( iio = $numprocs_ocean / $threads_per_task ))
	3349	printf "\n coupled run ($iia atmosphere, $iio ocean)"
	3350	printf "\n using $coupled_mode coupling"
	3351	printf "\n\n"
	3352	echo "coupled_run $iia $iio" > runfile_atmos
	3353	fi
	3354
[1289]	3355	poe ./a.out -procs $numprocs $ROPTS < runfile_atmos
	3356
[1]	3357	else
	3358	if [[ "$host_file" = "" ]]
	3359	then
	3360	printf "\n +++ no hostfile given in configuration file"
	3361	locat=config_file
	3362	exit
	3363	else
	3364	eval host_file=$host_file
	3365	fi
	3366	export MP_HOSTFILE=$host_file
[102]	3367	poe a.out -procs $numprocs -tasks_per_node $numprocs $ROPTS
[1]	3368	fi
	3369	fi
[1289]	3370	elif [[ $host = nech ]]
[1]	3371	then
	3372	(( ii = nodes ))
	3373	if [[ $ii = 1 ]]
	3374	then
	3375	export F_ERRCNT=0 # acceptable number of errors before program is stopped
	3376	export MPIPROGINF=YES
[61]	3377	# export F_TRACE=YES\|FMT1\|FMT2 # output of ftrace informations to job protocol
[1]	3378	echo "*** execution on single node with mpirun"
[102]	3379	mpirun -np $numprocs ./a.out $ROPTS
[1]	3380	else
	3381	(( i = 0 ))
	3382	while (( i < ii ))
	3383	do
	3384	echo "-h $i -p $tasks_per_node -e ./mpi_exec_shell" >> multinode_config
	3385	(( i = i + 1 ))
	3386	done
	3387
	3388	echo "#!/bin/sh" > mpi_exec_shell
	3389	echo " " >> mpi_exec_shell
	3390	echo "set -u" >> mpi_exec_shell
	3391	echo "F_ERRCNT=0" >> mpi_exec_shell
	3392	echo "MPIPROGINV=YES" >> mpi_exec_shell
	3393	echo "OMP_NUM_THREADS=$threads_per_task" >> mpi_exec_shell
	3394	echo "cpurest=$cpurest" >> mpi_exec_shell
	3395	echo "fname=$fname" >> mpi_exec_shell
	3396	echo "localhost=$localhost" >> mpi_exec_shell
	3397	echo "return_addres=$return_addres" >> mpi_exec_shell
	3398	echo "return_username=$return_username" >> mpi_exec_shell
	3399	echo "tasks_per_node=$tasks_per_node" >> mpi_exec_shell
	3400	echo "write_binary=$write_binary" >> mpi_exec_shell
	3401	echo "use_seperate_pe_for_dvrp_output=$use_seperate_pe_for_dvrp_output" >> mpi_exec_shell
	3402	echo " " >> mpi_exec_shell
	3403	echo "export F_ERRCNT" >> mpi_exec_shell
	3404	echo "export MPIPROGINV" >> mpi_exec_shell
	3405	echo "export OMP_NUM_THREADS" >> mpi_exec_shell
	3406	echo "export cpurest" >> mpi_exec_shell
	3407	echo "export fname" >> mpi_exec_shell
	3408	echo "export localhost" >> mpi_exec_shell
	3409	echo "export return_addres" >> mpi_exec_shell
	3410	echo "export return_username" >> mpi_exec_shell
	3411	echo "export tasks_per_node" >> mpi_exec_shell
	3412	echo "export write_binary" >> mpi_exec_shell
	3413	echo "export use_seperate_pe_for_dvrp_output" >> mpi_exec_shell
	3414	echo " " >> mpi_exec_shell
[102]	3415	echo "exec ./a.out" >> mpi_exec_shell
[1]	3416
	3417	chmod u+x mpi_exec_shell
	3418	export MPIPROGINF=YES
	3419	mpirun -f multinode_config &
	3420	wait
	3421
	3422	fi
[440]	3423	elif [[ $(echo $host \| cut -c1-2) = lc && $host != lckyoto && $host != lctit ]]
[1]	3424	then
	3425
	3426	# COPY HOSTFILE FROM SOURCE DIRECTORY OR CREATE IT, IF IT
	3427	# DOES NOT EXIST
[1289]	3428	if [[ $host != lccrayb &&$host != lccrayf && $host != lccrayh && $host != lckyuh && $host != lckyut ]]
[1]	3429	then
[179]	3430	if [[ -f $hostfile ]]
	3431	then
	3432	cp $hostfile hostfile
[746]	3433	(( ii = $numprocs / $threads_per_task ))
[179]	3434	else
	3435	(( ii = 1 ))
	3436	while (( ii <= $numprocs / $threads_per_task ))
	3437	do
	3438	echo $localhost_realname >> hostfile
	3439	(( ii = ii + 1 ))
	3440	done
	3441	fi
	3442	eval zeile=\"`head -n $ii hostfile`\"
	3443	printf "\n *** running on: $zeile"
[1]	3444	fi
[179]	3445
[1]	3446	(( ii = $numprocs / $threads_per_task ))
	3447	export OMP_NUM_THREADS=$threads_per_task
[1289]	3448
[1]	3449	if [[ $threads_per_task != 1 ]]
	3450	then
[1289]	3451	# INCREASE STACK SIZE TO UNLIMITED, BECAUSE OTHERWISE LARGE RUNS
	3452	# MAY ABORT
[1304]	3453	ulimit -s unlimited
[405]	3454	printf "\n threads per task: $threads_per_task stacksize: unlimited"
[1]	3455	fi
[102]	3456	if [[ $run_coupled_model = false ]]
[1]	3457	then
[291]	3458	if [[ "$ocean_file_appendix" = true ]]
	3459	then
	3460	echo "precursor_ocean" > runfile_atmos
	3461	else
	3462	echo "precursor_atmos" > runfile_atmos
	3463	fi
[102]	3464	printf "\n\n"
[388]	3465
[1289]	3466	if [[ $host = lccrayb \|\| $host = lccrayh ]]
[1224]	3467	then
	3468	echo "--- aprun -n $ii -N $tasks_per_node a.out $ROPTS < runfile_atmos"
	3469	aprun -n $ii -N $tasks_per_node a.out $ROPTS < runfile_atmos
	3470	# aprun -n $ii -ss -r2 -j1 a.out $ROPTS < runfile_atmos
[1197]	3471	elif [[ $host = lccrayf ]]
	3472	then
	3473	aprun -n $ii -N $tasks_per_node -m ${memory}M a.out $ROPTS < runfile_atmos
[892]	3474	elif [[ $host = lcxe6 \|\| $host = lcxt5m ]]
[179]	3475	then
[544]	3476	aprun -n $ii -N $tasks_per_node a.out $ROPTS < runfile_atmos
[755]	3477	elif [[ $host = lcflow ]]
	3478	then
[1201]	3479	mpirun -bootstrap sge -np $ii -env I_MPI_FABRICS shm:ofa a.out < runfile_atmos $ROPTS
[1021]	3480	elif [[ $host = lcsb ]]
	3481	then
	3482	mpirun_rsh -hostfile $PBS_NODEFILE -np `cat $PBS_NODEFILE \| wc -l` a.out < runfile_atmos $ROPTS
[1040]	3483	elif [[ $host = lckiaps ]]
	3484	then
	3485	mpirun -np $ii -f $PBS_NODEFILE a.out < runfile_atmos $ROPTS
[1090]	3486	elif [[ $host = lckyu* ]]
	3487	then
[1106]	3488	mpiexec -n $ii --stdin runfile_atmos ./a.out $ROPTS
[164]	3489	else
[1106]	3490	mpiexec -machinefile hostfile -n $ii a.out < runfile_atmos $ROPTS
[164]	3491	fi
[1]	3492	else
[164]	3493
[1289]	3494	# CURRENTLY THERE IS NO FULL MPI-2 SUPPORT ON ICE AND XT4
[206]	3495	(( iia = $numprocs_atmos / $threads_per_task ))
	3496	(( iio = $numprocs_ocean / $threads_per_task ))
	3497	printf "\n coupled run ($iia atmosphere, $iio ocean)"
	3498	printf "\n using $coupled_mode coupling"
[102]	3499	printf "\n\n"
[164]	3500
[206]	3501	if [[ $coupled_mode = "mpi2" ]]
[164]	3502	then
[206]	3503	echo "atmosphere_to_ocean $iia $iio" > runfile_atmos
	3504	echo "ocean_to_atmosphere $iia $iio" > runfile_ocean
[197]	3505
[1289]	3506	if [[ $host = lccrayf \|\| $host = lcxe6 \|\| $host = lcxt5m ]]
[206]	3507	then
[197]	3508
[206]	3509	aprun -n $iia -N $tasks_per_node a.out < runfile_atmos $ROPTS &
	3510	aprun -n $iio -N $tasks_per_node a.out < runfile_ocean $ROPTS &
	3511
	3512	else
	3513	# WORKAROUND BECAUSE mpiexec WITH -env option IS NOT AVAILABLE ON SOME SYSTEMS
	3514	mpiexec -machinefile hostfile -n $iia a.out $ROPTS < runfile_atmos &
	3515	mpiexec -machinefile hostfile -n $iio a.out $ROPTS < runfile_ocean &
	3516	# mpiexec -machinefile hostfile -n $iia -env coupling_mode atmosphere_to_ocean a.out $ROPTS &
	3517	# mpiexec -machinefile hostfile -n $iio -env coupling_mode ocean_to_atmosphere a.out $ROPTS &
	3518	fi
	3519	wait
	3520
[164]	3521	else
	3522
[206]	3523	echo "coupled_run $iia $iio" > runfile_atmos
	3524
[1289]	3525	if [[ $host = lccrayf \|\| $host = lcxe6 \|\| $host = lcxt5m ]]
[206]	3526	then
	3527
	3528	aprun -n $ii -N $tasks_per_node a.out < runfile_atmos $ROPTS
	3529
[718]	3530	elif [[ $host = lck \|\| $host = lckordi ]]
[367]	3531	then
[1108]	3532
	3533	mpiexec -n $ii ./a.out $ROPTS < runfile_atmos &
	3534
	3535	elif [[ $host = lckyu* ]]
	3536	then
	3537
	3538	mpiexec -n $ii --stdin runfile_atmos ./a.out $ROPTS
	3539
[206]	3540	fi
	3541	wait
[164]	3542	fi
[102]	3543
[206]	3544	fi
[1289]	3545
[440]	3546	elif [[ $host = lckyoto ]]
	3547	then
	3548	set -xv
	3549	export P4_RSHCOMMAND=plesh
	3550	echo " P4_RSHCOMMAND = $P4_RSHCOMMAND"
	3551	if [[ "$ENVIRONMENT" = BATCH ]]
	3552	then
[505]	3553	if [[ "$cond2" = fujitsu ]]
	3554	then
	3555	mpiexec -n $numprocs ./a.out $ROPTS # for fujitsu-compiler
	3556	elif [[ "cond2" = pgi ]]
	3557	then
	3558	mpirun -np $numprocs -machinefile ${QSUB_NODEINF} ./a.out $ROPTS
	3559	else
	3560	mpirun_rsh -np $numprocs -hostfile ${QSUB_NODEINF} MV2_USE_SRQ=0 ./a.out ${ROPTS} \|\| /bin/true
	3561	fi
[440]	3562	else
[505]	3563	if [[ "$cond2" = "" ]]
	3564	then
	3565	mpiruni_rsh -np $numprocs ./a.out $ROPTS # for intel
	3566	else
	3567	mpirun -np $numprocs ./a.out $ROPTS
	3568	fi
[440]	3569	fi
	3570	set +xv
[1289]	3571
[1]	3572	elif [[ $host = lctit ]]
	3573	then
[678]	3574	export OMP_NUM_THREADS=$threads_per_task
	3575	echo "OMP_NUM_THREADS=$OMP_NUM_THREADS"
	3576	if [[ "$threads_per_task" != 1 ]]
	3577	then
	3578	export MV2_ENABLE_AFFINITY=0
	3579	fi
	3580	echo "----- PBS_NODEFILE content:"
	3581	cat $PBS_NODEFILE
	3582	echo "-----"
	3583	(( ii = $numprocs / $threads_per_task ))
	3584	echo "mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out $ROPTS"
	3585	mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out $ROPTS
[1]	3586	else
[102]	3587	mpprun -n $numprocs a.out $ROPTS
[1]	3588	fi
	3589	else
[102]	3590	a.out $ROPTS
[1]	3591	fi
	3592	fi
[1289]	3593
	3594	if [[ $? != 0 ]]
[1]	3595	then
	3596
[1289]	3597	# ABORT IN CASE OF RUNTIME ERRORS
[1]	3598	printf "\n +++ runtime error occured"
	3599	locat=execution
	3600	exit
[1289]	3601
[1]	3602	else
[260]	3603
[1289]	3604	printf "\n$dashes\n *** execution finished \n"
	3605
	3606	# STOP THE DVR STREAMING SERVER AND PROCESS THE DVR OUTPUT IN ORDER
	3607	# TO CREAT DVRS- AND HTML-FILES CONTAINING ALL STREAMS
[260]	3608	if [[ "$dvrserver_id" != "" ]]
	3609	then
	3610	kill $dvrserver_id
	3611	printf "\n *** dvr server with id=$dvrserver_id has been stopped"
[261]	3612
[1289]	3613	# IF THERE IS A DIRECTORY, DATA HAVE BEEN OUTPUT BY THE
	3614	# STREAMING SERVER. OTHERWISE, USER HAS CHOSEN dvrp_output=local
[262]	3615	if [[ -d DATA_DVR ]]
	3616	then
[261]	3617
[1289]	3618	# ADD THE CURRENT DVR CONFIGURATION FILE TO THE DVR OUTPUT
	3619	# DIRECTORY
[262]	3620	cp .dvrserver.config DATA_DVR
	3621
[1289]	3622	# PROCESS THE DVR OUTPUT (OPTION -s FOR GENERATING
	3623	# SEQUENCE MODE DATA TOO)
[262]	3624	process_dvr_output -d DATA_DVR -f $fname -s
	3625
	3626	else
	3627
[1289]	3628	# PROCESS THE LOCAL OUTPUT
[262]	3629	process_dvr_output -l -d DATA_DVR -f $fname
	3630
	3631	fi
	3632
	3633	elif [[ $(echo $package_list \| grep -c dvrp_graphics) != 0 ]]
	3634	then
	3635
[1289]	3636	# PROCESS DVR OUTPUT GENERATD IN LOCAL MODE (dvrp_output=local)
[262]	3637	process_dvr_output -l -d DATA_DVR -f $fname
	3638
[260]	3639	fi
[1]	3640	fi
	3641
	3642
	3643
[1289]	3644	# CALL OF combine_plot_fields IN ORDER TO MERGE SINGLE FILES WRITTEN
	3645	# BY EACH CORE INTO ONE FILE
[920]	3646	if [[ ! -f ${PALM_BIN}/combine_plot_fields${block}.x ]]
	3647	then
	3648	printf "\n\n\n +++ WARNING: no combine_plot_fields found for given block \"$cond1 $cond2\""
	3649	printf "\n 2d- and/or 3d-data may be incomplete!"
	3650	printf "\n Run \"mbuild -u -h $localhost\" to generate utilities for this block.\n"
	3651	elif [[ "$combine_plot_fields" == true ]]
	3652	then
[1270]	3653	if [[ $localhost = lccrayh \|\| $localhost = lccrayb ]]
	3654	then
	3655	printf "\n\n\n *** post-processing: now executing \"aprun -n 1 -N 1 combine_plot_fields${block}.x\" ..."
	3656	aprun -n 1 -N 1 combine_plot_fields${block}.x #$ROPTS < runfile_atmos
	3657	else
	3658	printf "\n\n\n *** post-processing: now executing \"combine_plot_fields${block}.x\" ..."
	3659	combine_plot_fields${block}.x
	3660	fi
[920]	3661	else
[1289]	3662
	3663	# TEMPORARY SOLUTION TO SKIP combine_plot_fields. THIS IS REQUIRED IN CASE OF HUGE AMOUNT OF
	3664	# DATA OUTPUT. TO DO: EXTEND THIS BRANCH BY CREATING A BATCH JOB for combine_plot_fields.
	3665	# ??? koennen wir das streichen ???
[920]	3666	printf "\n\n\n *** post-processing: skipping combine_plot_fields (-Z option set) ..."
	3667	fi
[503]	3668
	3669
	3670
[1289]	3671	# EXECUTE OUTPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE
[1]	3672	(( i = 0 ))
	3673	while (( i < ioc ))
	3674	do
	3675	(( i = i + 1 ))
	3676	if (( i == 1 ))
	3677	then
[1289]	3678	printf "\n\n *** execution of OUTPUT-commands:\n$dashes"
[1]	3679	fi
	3680	printf "\n >>> ${out_command[$i]}"
	3681	eval ${out_command[$i]}
	3682	if (( i == ioc ))
	3683	then
[1289]	3684	printf "\n$dashes\n"
[1]	3685	fi
	3686	done
	3687
	3688
[1289]	3689	# IN TRACE-MODE PRINT CONTENTS OF THE CURRENT (TEMPORARY) WORKING DIRECTORY
[1]	3690	if [[ $do_trace = true ]]
	3691	then
	3692	printf "\n\n"
	3693	ls -al
	3694	fi
	3695
	3696
	3697
[1289]	3698	# COPY LOCAL OUTPUT-FILES TO THEIR PERMANENT DESTINATIONS
[1]	3699	(( i = 0 ))
	3700	while (( i < iout ))
	3701	do
	3702	(( i = i + 1 ))
	3703	if (( i == 1 ))
	3704	then
[1289]	3705	printf "\n\n *** saving OUTPUT-files:\n$dashes"
[1]	3706	fi
	3707
[1289]	3708	# CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION)
[1]	3709	files_for_pes=false; filetyp=file
	3710	if [[ "${actionout[$i]}" = pe && -n $numprocs ]]
	3711	then
	3712	files_for_pes=true; filetyp=directory
	3713	actionout[$i]=""
	3714	elif [[ "${actionout[$i]}" = pe && ! -n $numprocs ]]
	3715	then
	3716	actionout[$i]=""
	3717	elif [[ "${actionout[$i]}" = arpe && -n $numprocs ]]
	3718	then
	3719	files_for_pes=true; filetyp=directory
	3720	actionout[$i]="ar"
	3721	elif [[ "${actionout[$i]}" = arpe && ! -n $numprocs ]]
	3722	then
	3723	actionout[$i]="ar"
	3724	elif [[ "${actionout[$i]}" = flpe && -n $numprocs ]]
	3725	then
	3726	files_for_pes=true; filetyp=directory
	3727	actionout[$i]="fl"
	3728	elif [[ "${actionout[$i]}" = flpe && ! -n $numprocs ]]
	3729	then
	3730	actionout[$i]="fl"
	3731	elif [[ "${actionout[$i]}" = trpe && -n $numprocs ]]
	3732	then
	3733	files_for_pes=true; filetyp=directory
	3734	actionout[$i]="tr"
	3735	elif [[ "${actionout[$i]}" = trpe && ! -n $numprocs ]]
	3736	then
	3737	actionout[$i]="tr"
	3738	fi
	3739
	3740	if [[ ! -f ${localout[$i]} && $files_for_pes = false ]]
	3741	then
	3742	printf "\n +++ temporary OUTPUT-file ${localout[$i]} does not exist\n"
[260]	3743	elif [[ ! -d ${localout[$i]} && $files_for_pes = true ]]
[1]	3744	then
	3745	printf "\n +++ temporary OUTPUT-file ${localout[$i]}/.... does not exist\n"
	3746	else
	3747
	3748
[1289]	3749	# COPY VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
	3750	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
[1]	3751	if [[ "${actionout[$i]}" = tr ]]
	3752	then
	3753	if [[ $localhost != $fromhost ]]
	3754	then
	3755	if [[ $files_for_pes = false ]]
	3756	then
	3757	cps=""
	3758	cst=""
	3759	else
	3760	cps=-c
	3761	cst="/"
	3762	fi
[622]	3763	if [[ $localhost = nech ]]
[1]	3764	then
	3765
[1289]	3766	# TRANSFER IN SEPERATE JOB
	3767	# FIRST COPY FILE TO TEMPORY DATA DIRECTORY
[1]	3768	[[ ! -d $tmp_data_catalog/TRANSFER ]] && mkdir -p $tmp_data_catalog/TRANSFER
	3769	file_to_transfer=${fname}_${localout[$i]}_to_transfer_$kennung
	3770	if [[ $files_for_pes = false ]]
	3771	then
	3772	ln -f ${localout[$i]} $tmp_data_catalog/TRANSFER/$file_to_transfer
	3773	else
	3774	mkdir $tmp_data_catalog/TRANSFER/$file_to_transfer
	3775	ln ${localout[$i]}/* $tmp_data_catalog/TRANSFER/$file_to_transfer
	3776	fi
	3777
	3778	echo "set -x" > transfer_${localout[$i]}
	3779	echo "cd $tmp_data_catalog/TRANSFER" >> transfer_${localout[$i]}
[82]	3780
	3781	printf "\n >>> OUTPUT: ${localout[$i]}$cst by SCP in seperate job to"
	3782	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}$cst"
	3783	printf "\n or higher cycle\n"
[1094]	3784	echo "batch_scp $PORTOPT $cps -b -m -u $return_username $return_addres $file_to_transfer \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}" >> transfer_${localout[$i]}
[82]	3785
[1]	3786	echo "[[ \$? = 0 ]] && rm $file_to_transfer" >> transfer_${localout[$i]}
	3787
	3788	if [[ $localhost = nech ]]
	3789	then
[1094]	3790	subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 900 $PORTOPT transfer_${localout[$i]}
[1]	3791	else
	3792	if [[ "$LOGNAME" = b323013 ]]
	3793	then
[1094]	3794	subjob -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
[1]	3795	else
[1094]	3796	subjob -d -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
[1]	3797	fi
	3798	fi
	3799
	3800	else
	3801
[1289]	3802	# TRANSFER WITHIN THIS JOB
[1]	3803	transfer_failed=false
[82]	3804	printf "\n >>> OUTPUT: ${localout[$i]}$cst by SCP to"
	3805	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}$cst\n"
[1255]	3806	if [[ $localhost = lccrayb ]]
	3807	then
	3808	ssh $usern@blogin1 "cd $TEMPDIR; batch_scp $PORTOPT $cps -b -m -u $return_username $return_addres ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
[1274]	3809	elif [[ $localhost = lccrayh ]]
	3810	then
	3811	ssh $usern@hlogin1 "cd $TEMPDIR; batch_scp $PORTOPT $cps -b -m -u $return_username $return_addres ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
[1255]	3812	else
	3813	batch_scp $PORTOPT $cps -b -m -u $return_username $return_addres ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
	3814	fi
[82]	3815	[[ $? != 0 ]] && transfer_failed=true
[1]	3816
[1289]	3817	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
[1]	3818	if [[ $transfer_failed = true ]]
	3819	then
[1289]	3820	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
[1]	3821	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
	3822
[1289]	3823	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
[1]	3824	eval local_catalog=${pathout[$i]}
	3825	if [[ ! -d $local_catalog ]]
	3826	then
	3827	printf " *** local directory does not exist. Trying to create:\n"
	3828	printf " $local_catalog \n"
	3829	mkdir -p $local_catalog
	3830	fi
	3831	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
	3832	transfer_problems=true
	3833	fi
	3834	fi
	3835	else
	3836
[1289]	3837	# UNSET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE COPIED ON THIS MACHINE
[1]	3838	actionout[$i]=""
	3839	fi
	3840	fi
	3841
	3842
[1289]	3843	# APPEND VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m)
	3844	# IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT
[1]	3845	if [[ "${actionout[$i]}" = tra ]]
	3846	then
	3847	if [[ $localhost != $fromhost ]]
	3848	then
[622]	3849	if [[ $localhost = ibmh \|\| $localhost = nech ]]
[1]	3850	then
	3851
[1289]	3852	# TRANSFER IN SEPERATE JOB
	3853	# FIRST COPY FILE TO TEMPORY DATA DIRECTORY
[1]	3854	[[ ! -d $tmp_data_catalog/TRANSFER ]] && mkdir -p $tmp_data_catalog/TRANSFER
	3855	file_to_transfer=${fname}_${localout[$i]}_to_transfer_$kennung
	3856	ln -f ${localout[$i]} $tmp_data_catalog/TRANSFER/$file_to_transfer
	3857
	3858	echo "set -x" > transfer_${localout[$i]}
	3859	echo "cd $tmp_data_catalog/TRANSFER" >> transfer_${localout[$i]}
[82]	3860
	3861	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP in seperate job to"
	3862	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}"
	3863	printf "\n or higher cycle\n"
[1094]	3864	echo "batch_scp $PORTOPT -A -b -m -u $return_username $return_addres $file_to_transfer \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}" >> transfer_${localout[$i]}
[82]	3865
[1]	3866	echo "[[ \$? = 0 ]] && rm $file_to_transfer" >> transfer_${localout[$i]}
	3867
	3868	if [[ $localhost = nech ]]
	3869	then
[1094]	3870	subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 900 $PORTOPT transfer_${localout[$i]}
[1]	3871	else
	3872	if [[ $LOGNAME = b323013 ]]
	3873	then
[1094]	3874	subjob -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
[1]	3875	else
[1094]	3876	subjob -d -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]}
[1]	3877	fi
	3878	fi
	3879
	3880	else
	3881
[1289]	3882	# TRANSFER WITHIN THIS JOB
[1]	3883	transfer_failed=false
[82]	3884	printf "\n >>> OUTPUT: ${localout[$i]} append by SCP to"
	3885	printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}\n"
[1255]	3886	if [[ $localhost = lccrayb ]]
	3887	then
	3888	ssh $usern@blogin1 "cd $TEMPDIR; batch_scp $PORTOPT -A -b -m -u $return_username $return_addres ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
[1274]	3889	elif [[ $localhost = lccrayh ]]
	3890	then
	3891	ssh $usern@hlogin1 "cd $TEMPDIR; batch_scp $PORTOPT -A -b -m -u $return_username $return_addres ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}"
[1255]	3892	else
	3893	batch_scp $PORTOPT -A -b -m -u $return_username $return_addres ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]}
	3894	fi
[82]	3895	[[ $? != 0 ]] && transfer_failed=true
[1]	3896
[1289]	3897	# IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE
[1]	3898	if [[ $transfer_failed = true ]]
	3899	then
[1289]	3900	printf " +++ transfer failed. Trying to save a copy on this host under:\n"
[1]	3901	printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n"
	3902
[1289]	3903	# FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY
[1]	3904	eval local_catalog=${pathout[$i]}
	3905	if [[ ! -d $local_catalog ]]
	3906	then
	3907	printf " *** local directory does not exist. Trying to create:\n"
	3908	printf " $local_catalog \n"
	3909	mkdir -p $local_catalog
	3910	fi
	3911
	3912	eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung
	3913	transfer_problems=true
	3914	fi
	3915	fi
	3916	else
	3917
[1289]	3918	# RESET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE APPENDED ON THIS MACHINE
[1]	3919	actionout[$i]=a
	3920	fi
	3921	fi
	3922
	3923
[1289]	3924	# OUTPUT-FILE FOR A RESTART-RUN.
	3925	# FILE IS MOVED TO THE TEMPORARY DATA DIRECTORY USING link COMMAND.
	3926	# OPTION -f IS USED TO OVERWRITE EXISTING FILES.
	3927	# AS LAST ACTION, ARCHIVING IS INITIATED.
[1]	3928	if [[ "${actionout[$i]}" = fl ]]
	3929	then
	3930	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog
	3931	chmod g+rx $tmp_data_catalog
	3932	if [[ $files_for_pes = false ]]
	3933	then
	3934	printf "\n >>> OUTPUT: ${localout[$i]} to"
	3935	printf "\n $tmp_data_catalog/${frelout[$i]} (temporary data catalog)\n"
	3936	ln -f ${localout[$i]} $tmp_data_catalog/${frelout[$i]}
	3937	else
	3938	printf "\n >>> OUTPUT: ${localout[$i]}/.... to"
	3939	printf "\n $tmp_data_catalog/${frelout[$i]} (temporary data catalog)\n"
	3940	mkdir $tmp_data_catalog/${frelout[$i]}
[149]	3941	cd ${localout[$i]}
	3942	for file in $(ls *)
	3943	do
	3944	ln -f $file $tmp_data_catalog/${frelout[$i]}
	3945	done
	3946	cd $TEMPDIR
[1]	3947	fi
	3948
	3949
[1289]	3950	# CREATE AND SUBMIT ARCHIVING-JOB
[1]	3951	if [[ $store_on_archive_system = true ]]
	3952	then
	3953
	3954	if [[ $archive_system = asterix ]]
	3955	then
	3956	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
	3957	if [[ $files_for_pes = false ]]
	3958	then
	3959	echo "stageout ${frelout[$i]} > STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
	3960	else
	3961	echo "stageout -t ${frelout[$i]} > STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
	3962	fi
	3963	echo "cat STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
	3964	echo "if [[ \$(grep -c \"st.msg:150\" STAGE_OUTPUT${i}_$kennung) != 0 ]]" >> archive_${frelout[$i]}
	3965	echo "then" >> archive_${frelout[$i]}
	3966	echo " do_stageout=false" >> archive_${frelout[$i]}
	3967	echo "else" >> archive_${frelout[$i]}
	3968	echo " echo \" +++ $filetyp ${frelout[$i]} could not be stored on archive-system\" " >> archive_${frelout[$i]}
	3969	echo " cat /dev/null > ~/job_queue/ARCHIVE_ERROR_$fname" >> archive_${frelout[$i]}
	3970	echo " cat STAGE_OUTPUT${i}_$kennung > ~/job_queue/archive_${frelout[$i]}_error" >> archive_${frelout[$i]}
	3971	echo " echo \" *** $filetyp ${frelout[$i]} will be copied to \$WORK as backup\" " >> archive_${frelout[$i]}
	3972	if [[ $files_for_pes = false ]]
	3973	then
	3974	echo " cp ${frelout[$i]} \$WORK" >> archive_${frelout[$i]}
	3975	else
	3976	echo " cp -r ${frelout[$i]} \$WORK/${frelout[$i]}" >> archive_${frelout[$i]}
	3977	fi
	3978	echo " echo \" *** $filetyp ${frelout[$i]} saved\" " >> archive_${frelout[$i]}
	3979	echo "fi" >> archive_${frelout[$i]}
	3980	echo "rm STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]}
	3981	elif [[ $archive_system = DMF ]]
	3982	then
	3983	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
	3984	if [[ $files_for_pes = false ]]
	3985	then
	3986	printf "\n +++ archiving of single files impossible with $archive_system !\n"
	3987	locat=DMF
	3988	exit
	3989	else
[1289]	3990	# ??? nicht benÃ¶tigte Archiv-Systeme entfernen ???
[1]	3991	# FUER RECHNER IN JUELICH. DORT KOENNTEN AUCH
	3992	# EINZELNE DATEIEN GESICHERT WERDEN (SPAETER KORR.)
	3993	echo "rm -rf \$ARCHIVE/${frelout[$i]}" >> archive_${frelout[$i]}
	3994	echo "cp -r ${frelout[$i]} \$ARCHIVE" >> archive_${frelout[$i]}
	3995	fi
	3996	elif [[ $archive_system = tivoli ]]
	3997	then
	3998	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
	3999	if [[ $files_for_pes = false ]]
	4000	then
[1289]	4001	# REMOVE EXISTING OLD FILES FROM THE ARCHIVE
[1]	4002	echo "set -x" >> archive_${frelout[$i]}
	4003	echo "rm -rf \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
	4004	echo "cp ${frelout[$i]} \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
	4005	else
	4006
	4007	echo "set -x" >> archive_${frelout[$i]}
	4008	echo "rm -rf \$PERM/${frelout[$i]}/*" >> archive_${frelout[$i]}
	4009	echo "[[ ! -d \$PERM/${frelout[$i]} ]] && mkdir $PERM/${frelout[$i]}" >> archive_${frelout[$i]}
	4010	cd $tmp_data_catalog
	4011	all_files=`ls -1 ${frelout[$i]}/*`
	4012	cd - > /dev/null
	4013	(( inode = 0 ))
	4014	(( tp1 = tasks_per_node + 1 ))
	4015	while (( inode < nodes ))
	4016	do
	4017	files=`echo $all_files \| cut -d" " -f1-$tasks_per_node`
	4018	all_files=`echo $all_files \| cut -d" " -f$tp1-`
[1289]	4019	echo "tar cvf \$PERM/${frelout[$i]}/${frelout[$i]}.node_$inode.tar $files" >> archive_${frelout[$i]}
[1]	4020	(( inode = inode + 1 ))
	4021	done
	4022	fi
	4023	elif [[ $archive_system = ut ]]
	4024	then
	4025	echo "cd $tmp_data_catalog" >> archive_${frelout[$i]}
	4026	if [[ $files_for_pes = false ]]
	4027	then
[1289]	4028	# REMOVE EXISTING OLD FILES FROM THE ARCHIVE
[1]	4029	echo "set -x" >> archive_${frelout[$i]}
	4030	echo "rm -rf \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
	4031	echo "cp ${frelout[$i]} \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
	4032	else
	4033
	4034	echo "set -x" >> archive_${frelout[$i]}
	4035	echo "rm -rf \$UT/${frelout[$i]}/*" >> archive_${frelout[$i]}
	4036	echo "[[ ! -d \$UT/${frelout[$i]} ]] && mkdir $UT/${frelout[$i]}" >> archive_${frelout[$i]}
	4037	cd $tmp_data_catalog
	4038	all_files=`ls -1 ${frelout[$i]}/*`
	4039	cd - > /dev/null
	4040	(( inode = 0 ))
	4041	(( tp1 = tasks_per_node + 1 ))
	4042	while (( inode < nodes ))
	4043	do
	4044	files=`echo $all_files \| cut -d" " -f1-$tasks_per_node`
	4045	all_files=`echo $all_files \| cut -d" " -f$tp1-`
	4046	echo "tar cvf \$UT/${frelout[$i]}/${frelout[$i]}.node_$inode.tar $files" >> archive_${frelout[$i]}
	4047	(( inode = inode + 1 ))
	4048	done
	4049	fi
	4050	elif [[ $archive_system = none ]]
	4051	then
	4052	printf " +++ archiving on $localhost not available!\n"
	4053	fi
	4054
	4055	if [[ $archive_system != none ]]
	4056	then
[1289]	4057	if [[ $localhost = nech ]]
[1]	4058	then
[1094]	4059	subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 7200 $PORTOPT archive_${frelout[$i]}
[1]	4060	fi
	4061	printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n"
	4062	fi
	4063	else
[399]	4064	printf " +++ caution: option -A is switched off. No archiving on $archive_system!\n"
[1]	4065	fi
	4066
	4067
[1289]	4068	# CREATE AN EMPTY DIRECTORY IN THE USERS PERMANENT DIRECTORY,
	4069	# IN ORDER TO NOTE THE RESPECTIVE CYCLE NUMBER ON THE ARCHIVE SYSTEM
	4070	# RESTART-JOBS ARE USING THESE EMPTY-DIRECTORIES TO GET THE CURRENT HIGHEST
	4071	# CYCLE NUMBER ON THE ARCHIVE SYSTEM (IN CASE THAT INFORMATIONS ARE DIFFICULT TO
	4072	# TO ACCESS FROM THE ARCHIVE-SYSTEM DIRECTLY))
[1]	4073	if [[ $files_for_pes = false ]]
	4074	then
	4075	cat /dev/null > ${pathout[$i]}
	4076	else
	4077	mkdir -p ${pathout[$i]}
	4078	fi
	4079
	4080	fi
	4081
	4082
[1289]	4083	# COPY FROM THIS HOST TO THE ARCHIVE-SYSTEM
	4084	# IF ANY ARCHIVING FAILS, AN ERROR-FLAG-FILE IS SET
	4085	# THIS FILE REMAINS TO BE SET, EVEN IF ARCHIVING OF FURTHER FILES IS SUCCESSFULL
[1]	4086	if [[ "${actionout[$i]}" = ar ]]
	4087	then
	4088	if [[ $files_for_pes = false ]]
	4089	then
	4090	printf "\n >>> OUTPUT: ${localout[$i]} to"
	4091	printf "\n ${pathout[$i]}"
	4092	printf "\n File will be copied to archive-system ($archive_system) !\n"
	4093	else
	4094	printf "\n >>> OUTPUT: ${localout[$i]}/_.... to"
	4095	printf "\n ${pathout[$i]}"
	4096	printf "\n Directory will be copied to archive-system ($archive_system) !\n"
	4097	fi
	4098	mv ${localout[$i]} ${frelout[$i]}
	4099
	4100	file_saved=false
	4101
	4102	if [[ $archive_system = asterix ]]
	4103	then
	4104	do_stageout=true
	4105	(( stageout_anz = 0 ))
	4106	while [[ $do_stageout = true ]]
	4107	do
	4108	if [[ $files_for_pes = false ]]
	4109	then
	4110	stageout ${frelout[$i]} > STAGE_OUTPUT
	4111	else
	4112	stageout -t ${frelout[$i]} > STAGE_OUTPUT
	4113	fi
	4114	cat STAGE_OUTPUT
	4115	if [[ $(grep -c "st.msg:150" STAGE_OUTPUT) != 0 ]]
	4116	then
	4117	file_saved=true
	4118	do_stageout=false
	4119	else
	4120	if [[ $files_for_pes = false ]]
	4121	then
	4122	printf "\n +++ file ${frelout[$i]} could not be saved on archive-system"
	4123	else
	4124	printf "\n +++ directory ${frelout[$i]} could not be saved on archive-system"
	4125	fi
	4126	(( stageout_anz = stageout_anz + 1 ))
	4127	if (( stageout_anz == 10 ))
	4128	then
	4129	printf "\n +++ stoped after 10 unsuccessful tries!"
	4130	archive_save=false
	4131	do_stageout=false
	4132	else
	4133	printf "\n *** new try to store on archive after 15 min:"
	4134	sleep 900
	4135	fi
	4136	fi
	4137	done
	4138	elif [[ $archive_system = DMF ]]
	4139	then
	4140	if [[ $files_for_pes = false ]]
	4141	then
	4142	printf "\n +++ archiving of single files impossible on $archive_system!\n"
	4143	locat=DMF
	4144	exit
	4145	else
	4146	rm -rf $ARCHIVE/${frelout[$i]}
	4147	cp -r ${frelout[$i]} $ARCHIVE
	4148	fi
	4149	file_saved=true
	4150	elif [[ $archive_system = tivoli ]]
	4151	then
[1289]	4152	# ARCHIVING ONLY POSSIBLE VIA BATCH-JOB
	4153	# IN THE MEANTIME, FILE IS STORED IN THE TEMPORARY DATA DIRECTORY,
	4154	# BECAUSE MRUN'S CURRENT TEMPORARY WORKING DIRECTORY MAY ALREADY BE DELETED
	4155	# WHEN THE ARCHIVE-JOB IS EXECUTED
[1]	4156	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog
	4157	chmod g+rx $tmp_data_catalog
	4158	if [[ $files_for_pes = false ]]
	4159	then
	4160	ln -f ${frelout[$i]} $tmp_data_catalog/${frelout[$i]}
	4161	else
	4162	mkdir $tmp_data_catalog/${frelout[$i]}
	4163	ln -f ${frelout[$i]}/* $tmp_data_catalog/${frelout[$i]}
	4164	fi
	4165
[1289]	4166	# GENERATE AND SUBMIT BATCH-JOB
	4167	# FILE HAS TO BE DELETED FROM THE TEMPORARY DATA DIRECTORY
	4168	# DELETE OLD EXISTING FILES FROM THE ARCHIVE
[1]	4169	echo "cd $tmp_data_catalog" > archive_${frelout[$i]}
	4170	if [[ $files_for_pes = false ]]
	4171	then
	4172	echo "rm -rf \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
	4173	echo "cp ${frelout[$i]} \$PERM/${frelout[$i]}" >> archive_${frelout[$i]}
	4174	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
	4175	else
	4176	echo "rm -rf \$PERM/${frelout[$i]}.tar" >> archive_${frelout[$i]}
	4177	echo "tar cvf \$PERM/${frelout[$i]}.tar ${frelout[$i]}" >> archive_${frelout[$i]}
	4178	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
	4179	fi
	4180
[1094]	4181	subjob -v -d -q cdata -X 0 -m 1000 -t 43200 -c $job_catalog $PORTOPT archive_${frelout[$i]}
[1]	4182	printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n"
	4183	file_saved=true
	4184
	4185	elif [[ $archive_system = ut ]]
	4186	then
[1289]	4187	# ARCHIVING ONLY POSSIBLE VIA BATCH-JOB
	4188	# IN THE MEANTIME, FILE IS STORED IN THE TEMPORARY DATA DIRECTORY,
	4189	# BECAUSE MRUN'S CURRENT TEMPORARY WORKING DIRECTORY MAY ALREADY BE DELETED
	4190	# WHEN THE ARCHIVE-JOB IS EXECUTED
[1]	4191	[[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog
	4192	chmod g+rx $tmp_data_catalog
	4193	if [[ $files_for_pes = false ]]
	4194	then
	4195	ln -f ${frelout[$i]} $tmp_data_catalog/${frelout[$i]}
	4196	else
	4197	mkdir $tmp_data_catalog/${frelout[$i]}
	4198	ln -f ${frelout[$i]}/* $tmp_data_catalog/${frelout[$i]}
	4199	fi
	4200
[1289]	4201	# GENERATE AND SUBMIT BATCH-JOB
	4202	# FILE HAS TO BE DELETED FROM THE TEMPORARY DATA DIRECTORY
	4203	# DELETE OLD EXISTING FILES FROM THE ARCHIVE
[1]	4204	echo "cd $tmp_data_catalog" > archive_${frelout[$i]}
	4205	if [[ $files_for_pes = false ]]
	4206	then
	4207	echo "rm -rf \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
	4208	echo "cp ${frelout[$i]} \$UT/${frelout[$i]}" >> archive_${frelout[$i]}
	4209	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
	4210	else
	4211	echo "rm -rf \$UT/${frelout[$i]}.tar" >> archive_${frelout[$i]}
	4212	echo "tar cvf \$UT/${frelout[$i]}.tar ${frelout[$i]}" >> archive_${frelout[$i]}
	4213	echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]}
	4214	fi
	4215
[1094]	4216	subjob -v -c /pf/b/$usern/job_queue -d -q pp -X 0 -m 1000 -t 7200 $PORTOPT archive_${frelout[$i]}
[1]	4217	printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n"
	4218	file_saved=true
	4219
	4220	else
	4221	printf "\n +++ archive_system=\"$archive_system\" archiving impossible!"
	4222	archive_save=false
	4223	fi
[1289]	4224
	4225	# CREATE EMPTY FLAG-FILE OR -DIRECTORY
	4226	# IN ORDER TO NOTE THE RESPECTIVE CYCLE NUMBER ON THE ARCHIVE SYSTEM
	4227	# RESTART-JOBS ARE USING THESE EMPTY-DIRECTORIES TO GET THE CURRENT HIGHEST
	4228	# CYCLE NUMBER ON THE ARCHIVE SYSTEM (IN CASE THAT INFORMATIONS ARE DIFFICULT TO
	4229	# TO ACCESS FROM THE ARCHIVE-SYSTEM DIRECTLY))
[1]	4230	if [[ $file_saved = true ]]
	4231	then
	4232	if [[ $files_for_pes = false ]]
	4233	then
	4234	cat /dev/null > ${pathout[$i]}
	4235	else
	4236	mkdir -p ${pathout[$i]}
	4237	fi
	4238	fi
[1289]	4239
[1]	4240	fi
	4241
[1289]	4242	# APPEND ON THIS MACHINE
[1]	4243	if [[ "${actionout[$i]}" = "a" ]]
	4244	then
[741]	4245	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
	4246	then
	4247	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}.${extout[$i]}\n"
	4248	cat ${localout[$i]} >> ${pathout[$i]}.${extout[$i]}
	4249	else
	4250	printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}\n"
	4251	cat ${localout[$i]} >> ${pathout[$i]}
	4252	fi
[1]	4253	fi
	4254
[1289]	4255	# COPY ON THIS MACHINE
	4256	# COPY HAS TO BE USED, BECAUSE MOVE DOES NOT WORK IF FILE-ORIGIN AND TARGET ARE
	4257	# ON DIFFERENT FILE-SYSTEMS
[1]	4258	if [[ "${actionout[$i]}" = "" && $files_for_pes = false ]]
	4259	then
	4260
[1289]	4261	# COPY IN CASE OF RUNS ON SINGLE CORES
[5]	4262	if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]]
[1]	4263	then
	4264	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}.${extout[$i]}\n"
[149]	4265	if [[ $link_local_output = true ]]
	4266	then
	4267	printf " using ln -f\n"
	4268	ln -f ${localout[$i]} ${pathout[$i]}.${extout[$i]}
	4269	fi
	4270	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
	4271	if [[ ! -f "${pathout[$i]}.${extout[$i]}" ]]
	4272	then
	4273	if [[ $link_local_output = true ]]
	4274	then
	4275	printf " ln failed, using cp...\n"
	4276	fi
	4277	cp ${localout[$i]} ${pathout[$i]}.${extout[$i]}
	4278	fi
[1]	4279	else
	4280	printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}\n"
[149]	4281	if [[ $link_local_output = true ]]
	4282	then
	4283	printf " using ln -f\n"
	4284	ln -f ${localout[$i]} ${pathout[$i]}
	4285	fi
	4286	# If "ln -f" fails of if "$link_local_output = false" do a normal "cp"
	4287	if [[ ! -f "${pathout[$i]}" ]]
	4288	then
	4289	if [[ $link_local_output = true ]]
	4290	then
	4291	printf " ln failed, using cp...\n"
	4292	fi
	4293	cp ${localout[$i]} ${pathout[$i]}
	4294	fi
[1]	4295	fi
	4296
	4297	elif [[ "${actionout[$i]}" = "" && $files_for_pes = true ]]
	4298	then
	4299
[1289]	4300	# FILES FROM THE DIFFERENT CORES ARE MOVED WITH ln-COMMAND TO THE PERMANENT DIRECTORY
	4301	# AS A FIRST STEP, THE PERMANENT DIRECTORY IS CREATED
[1]	4302	printf "\n >>> OUTPUT: ${localout[$i]}/_.... to ${pathout[$i]}\n"
[149]	4303	if [[ $link_local_output = true ]]
	4304	then
	4305	printf " using ln -f\n"
	4306	mkdir ${pathout[$i]}
	4307	cd ${localout[$i]}
	4308	for file in $(ls *)
	4309	do
	4310	ln -f $file ${pathout[$i]}
	4311	done
	4312	cd $TEMPDIR
	4313	fi
[1289]	4314
	4315	# IF "ln -f" HAS FAILED OR IF "$link_local_output = false" DO A NORMAL COPY "cp -r"
[149]	4316	if [[ ! -f "${pathout[$i]}/_0000" ]]
	4317	then
	4318	if [[ $link_local_output = true ]]
	4319	then
	4320	printf " ln failed for .../_0000, using cp...\n"
	4321	fi
	4322	cp -r ${localout[$i]} ${pathout[$i]}
	4323	fi
[1]	4324
	4325	fi
	4326	fi
	4327	done
	4328	if (( i != 0 ))
	4329	then
	4330	if [[ $transfer_problems = true ]]
	4331	then
[1289]	4332	printf "\n$dashes\n *** OUTPUT-files saved"
[1]	4333	printf "\n +++ WARNING: some data transfers failed! \n"
	4334	else
[1289]	4335	printf "\n$dashes\n *** all OUTPUT-files saved \n"
[1]	4336	fi
	4337	fi
	4338
	4339
[1289]	4340	# IF REQUIRED, START A RESTART-JOB
	4341	# FILE CONTINUE_RUN MUST HAVE BEEN CREATED BY THE EXECUTABLE (PALM)
[1]	4342	if [[ -f CONTINUE_RUN ]]
	4343	then
	4344
	4345	if [[ $archive_save = true ]]
	4346	then
	4347
[1289]	4348	# ADD RESTART-OPTIONS TO THE MRUN-CALL (IF THEY ARE NOT USED ALREADY):
	4349	# -C TELLS MRUN THAT IT IS A RESTART-RUN
	4350	# -v SILENT MODE WITHOUT INTERACTIVE QUERIES
	4351	# -n BATCH-MODE (IMPORTANT ONLY IN CASE OF BATCH JOBS ON THE LOCAL MACHINE)
[1]	4352	[[ $(echo $mc \| grep -c "\-C") = 0 ]] && mc="$mc -C"
	4353	[[ $(echo $mc \| grep -c "\-v") = 0 ]] && mc="$mc -v"
	4354	[[ $(echo $mc \| grep -c "\-b") = 0 ]] && mc="$mc -b"
	4355	if [[ $(echo $mc \| grep -c "#") != 0 ]]
	4356	then
	4357	mc=`echo $mc \| sed 's/#/f/g'`
	4358	fi
	4359
	4360
[1289]	4361	# START THE RESTART-JOB
[1]	4362	printf "\n\n *** initiating restart-run on \"$return_addres\" using command:\n"
	4363	echo " $mc"
[1289]	4364	printf "\n$dashes\n"
[1]	4365	if [[ $localhost != $fromhost ]]
	4366	then
	4367
[1289]	4368	if [[ $localhost = lccrayh \|\| $localhost = nech \|\| $localhost = ibmh \|\| $localhost = ibmkisti \|\| $localhost = ibmku \|\| $localhost = ibms \|\| $localhost = lcflow \|\| $localhost = lckyu* ]]
[1]	4369	then
	4370	echo "*** ssh will be used to initiate restart-runs!"
	4371	echo " return_addres=\"$return_addres\" "
	4372	echo " return_username=\"$return_username\" "
[635]	4373	if [[ $(echo $return_addres \| grep -c "130.75.105") = 1 ]]
[1]	4374	then
[1190]	4375	if [[ $localhost = ibmh ]]
	4376	then
	4377	ssh $SSH_PORTOPT $usern@136.172.40.15 "ssh $SSH_PORTOPT $return_addres -l $return_username \"PATH=\\\$PATH:$LOCAL_MRUN_PATH;. /muksoft/packages/intel/bin/compilervars.sh intel64;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc\" "
[1255]	4378	elif [[ $localhost = lccrayb ]]
	4379	then
	4380	ssh $usern@blogin1 "ssh $SSH_PORTOPT $return_addres -l $return_username \"PATH=\\\$PATH:$LOCAL_MRUN_PATH;. /muksoft/packages/intel/bin/compilervars.sh intel64;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc\" "
[1274]	4381	elif [[ $localhost = lccrayh ]]
	4382	then
	4383	ssh $usern@hlogin1 "ssh $SSH_PORTOPT $return_addres -l $return_username \"PATH=\\\$PATH:$LOCAL_MRUN_PATH;. /muksoft/packages/intel/bin/compilervars.sh intel64;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc\" "
	4384
[1190]	4385	else
	4386	ssh $SSH_PORTOPT $return_addres -l $return_username "PATH=\$PATH:$LOCAL_MRUN_PATH;. /muksoft/packages/intel/bin/compilervars.sh intel64;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc "
	4387	fi
[1]	4388	else
[693]	4389	if [[ $localhost = ibmkisti ]]
	4390	then
[1094]	4391	ssh $SSH_PORTOPT $usern@gaiad "ssh $SSH_PORTOPT $return_addres -l $return_username \"PATH=\\\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc\" "
[1255]	4392	elif [[ $localhost = lcflow ]]
	4393	then
	4394	/usr/bin/ssh $SSH_PORTOPT $return_addres -l $return_username "PATH=\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc "
	4395	elif [[ $localhost = lccrayb ]]
	4396	then
	4397	ssh $usern@blogin1 "ssh $SSH_PORTOPT $return_addres -l $return_username \"PATH=\\\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc\" "
[1274]	4398	elif [[ $localhost = lccrayh ]]
	4399	then
[1357]	4400	ssh $usern@hlogin1 "ssh $SSH_PORTOPT $return_addres -l $return_username \"PATH=\\\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc\" "
[693]	4401	else
[1255]	4402	ssh $SSH_PORTOPT $return_addres -l $return_username "PATH=\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc "
[693]	4403	fi
[1]	4404	fi
	4405	else
	4406	printf "\n +++ no restart mechanism available for host \"$localhost\" "
	4407	locat=restart; exit
	4408	fi
	4409
[1289]	4410	# WAIT TO ALLOW THE RESTART-JOB TO BE QUEUED, BEFORE THE CURRENT JOB IS FINISHED
[399]	4411	if [[ $queue = special1q ]]
	4412	then
	4413	sleep 120
	4414	else
	4415	sleep 30
	4416	fi
[1]	4417
	4418	else
	4419
[1289]	4420	# JOBS RUNNING (AND STARTED) ON THE LOCAL MACHINE CAN DIRECTLY CALL MRUN (WITHOUT
	4421	# USING SSH)
[1]	4422	cd $LOCAL_PWD
[1289]	4423	if [[ $localhost = lckyuh ]]
[108]	4424	then
[1103]	4425	printf "\n +++ WARNING: no restart mechanism available for host \"$localhost\" "
	4426	printf "\n please restart job manually using command:\n"
	4427	printf "\n \"$mc\" "
[108]	4428	else
[1289]	4429	eval $mc # THE ' MUST BE EVALUATED
[108]	4430	fi
[1]	4431	cd - > /dev/null
	4432	fi
[1103]	4433	if [[ $localhost = lckyuh ]]
	4434	then
[1289]	4435	printf "\n$dashes\n *** restart-run to be initiated manually\n"
[1103]	4436	else
[1289]	4437	printf "\n$dashes\n *** restart-run initiated \n"
[1103]	4438	fi
[1]	4439
	4440
[1289]	4441	# DELETE INPUT-(RESTART)FILES, WHICH HAVE BEEN FETCHED FROM THE TEMPORARY DATA
	4442	# DIRECTORY, BACAUSE THEY ARE NOT REQUIRED BY THE RESTART-JOB.
	4443	# THIS IS DONE IN ORDER TO AVOID EXCEEDING DISC QUOTAS OR DISC SPACE (RESTART-FILES
	4444	# MAY BE VERY HUGE)
[1]	4445	(( i = 0 ))
	4446	while (( i < iin ))
	4447	do
	4448	(( i = i + 1 ))
	4449	if [[ "${got_tmp[$i]}" = true && $keep_data_from_previous_run = false ]]
	4450	then
	4451	rm -r $tmp_data_catalog/${frelin[$i]}
	4452	fi
	4453	done
	4454
	4455	else
	4456
	4457	printf "\n +++ no restart-run possible, since errors occured"
	4458	printf "\n during the archive process"
	4459	fi
	4460
	4461	fi
	4462
	4463
	4464
[1289]	4465	# SEND EMAIL NOTIFICATION ABOUT THE FINISHED RUN
[352]	4466	if [[ "$email_notification" != "none" ]]
[1]	4467	then
	4468
	4469	if [[ $localhost != $fromhost ]]
	4470	then
	4471	if [[ -f CONTINUE_RUN ]]
	4472	then
	4473	echo "PALM restart run necessary" > email_text
	4474	echo "description header of actual run:" >> email_text
	4475	cat CONTINUE_RUN >> email_text
	4476	echo "mrun-command to restart:" >> email_text
	4477	echo "$mc" >> email_text
	4478	else
	4479	echo "PALM run with base filename \"$fname\" on host \"$localhost\" finished" > email_text
	4480	fi
	4481	mail $email_notification < email_text
	4482	printf "\n *** email notification sent to \"$email_notification\" "
	4483	fi
	4484	fi
	4485
	4486
	4487
[1289]	4488	# ALL ACTIONS FINISHED, TEMPORARY WORKING-DIRECTORY CAN BE DELETED
[1]	4489	cd $HOME
	4490	[[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR
	4491
	4492	else
	4493
	4494
[1289]	4495	# PREPARING ACTIONS,
	4496	# IF A BATCH-JOB IS TO BE GENERATED AND STARTED ON A REMOTE-MACHINE GERECHNET
[1]	4497
[1289]	4498	# BUILD THE MRUN-COMMAND TO BE CALLED IN THE BATCH-JOB ON THE REMOTE-MACHINE
[821]	4499	mrun_com="$mrun_script_name -a $afname -c $config_file -d $fname -h $host -H $fromhost -m $memory -t $cpumax -q $queue -R $return_addres -U $return_username -u $remote_username"
[1]	4500	[[ "$cpp_opts" != "" ]] && mrun_com=${mrun_com}" -D \"$cpp_opts\""
[79]	4501	[[ "$global_revision" != "" ]] && mrun_com=${mrun_com}" -G \"$global_revision\""
[123]	4502	[[ $group_number != none ]] && mrun_com=${mrun_com}" -g $group_number"
[1]	4503	[[ $do_compile = true ]] && mrun_com=${mrun_com}" -s \"$source_list\""
	4504	[[ "$input_list" != "" ]] && mrun_com=${mrun_com}" -i \"$input_list\""
	4505	[[ $ignore_archive_error = true ]] && mrun_com=${mrun_com}" -I"
	4506	[[ $keep_data_from_previous_run = true ]] && mrun_com=${mrun_com}" -k"
	4507	[[ "$additional_conditions" != "" ]] && mrun_com=${mrun_com}" -K \"$additional_conditions\""
	4508	[[ "$output_list" != "" ]] && mrun_com=${mrun_com}" -o \"$output_list\""
	4509	[[ "$read_from_config" = false ]] && mrun_com=${mrun_com}" -S"
	4510	[[ $do_trace = true ]] && mrun_com=${mrun_com}" -x"
	4511	[[ "$numprocs" != "" ]] && mrun_com=${mrun_com}" -X $numprocs"
	4512	if [[ $use_openmp = true ]]
	4513	then
[622]	4514	mrun_com=${mrun_com}" -O $threads_per_task"
[1]	4515	fi
[759]	4516	[[ "$tasks_per_node" != "" ]] && mrun_com=${mrun_com}" -T $tasks_per_node"
[397]	4517	[[ $store_on_archive_system = true ]] && mrun_com=${mrun_com}" -A"
[1]	4518	[[ $package_list != "" ]] && mrun_com=${mrun_com}" -p \"$package_list\""
	4519	[[ $return_password != "" ]] && mrun_com=${mrun_com}" -P $return_password"
	4520	[[ $delete_temporary_catalog = false ]] && mrun_com=${mrun_com}" -B"
[127]	4521	[[ $node_usage != default && "$(echo $node_usage \| cut -c1-3)" != "sla" && $node_usage != novice ]] && mrun_com=${mrun_com}" -n $node_usage"
[291]	4522	[[ "$ocean_file_appendix" = true ]] && mrun_com=${mrun_com}" -y"
[206]	4523	[[ $run_coupled_model = true ]] && mrun_com=${mrun_com}" -Y \"$coupled_dist\""
[920]	4524	[[ "$check_namelist_files" = false ]] && mrun_com=${mrun_com}" -z"
	4525	[[ "$combine_plot_fields" = false ]] && mrun_com=${mrun_com}" -Z"
[759]	4526	[[ "$max_par_io_str" != "" ]] && mrun_com=${mrun_com}" -w $max_par_io_str"
[1]	4527	if [[ $do_remote = true ]]
	4528	then
	4529	printf "\n>>>> MRUN-command on execution host:\n>>>> $mrun_com \n"
	4530	fi
	4531
	4532
[1289]	4533	# CREATE EXECUTABLE FOR BATCH JOB
[1199]	4534	if [[ $create_executable_for_batch = true && $restart_run != true ]]
	4535	then
	4536
	4537	printf "\n *** creating the executable for batch job\n"
	4538
[1289]	4539	# METHOD ONLY WORKS FOR BATCH JOBS ON LOCAL HOSTS
[1199]	4540	if [[ $host != $localhost ]]
	4541	then
	4542	printf "\n +++ creation of executables is only allowed for batch jobs on local hosts."
	4543	printf "\n Please set create_executable_for_batch = false in the config-file.\n"
	4544	locat=create_executable; exit
	4545	fi
	4546
	4547	mkdir $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
	4548	cd $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
	4549
	4550	cp $make_depository .
	4551	tar -xf $make_depository > /dev/null 2>&1
	4552	cp ../* . > /dev/null 2>&1
	4553
	4554	make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts"
	4555
	4556	if [[ $? != 0 \|\| "$compile_error" = true \|\| "$module_compile_error" = true ]]
	4557	then
	4558	printf "\n +++ error occured while compiling or linking"
	4559	locat=compile
	4560	exit
	4561	fi
	4562
	4563	mv a.out ..
	4564	cd - > /dev/null 2>&1
	4565	rm -rf $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE
	4566
	4567	printf " *** executable created in \"$working_directory/SOURCES_FOR_RUN_${fname}\"\n "
	4568
	4569	fi
	4570
	4571
[1289]	4572	# BUILD THE JOB-SCRIPTS ON FILE jobfile
[1]	4573	jobfile=jobfile.$RANDOM
	4574
	4575
[1289]	4576	# CREATE TEMPORARY DIRECTORY AND SWITCH TO IT
[1]	4577	echo "mkdir $TEMPDIR" >> $jobfile
	4578	echo "cd $TEMPDIR" >> $jobfile
	4579
	4580
[1289]	4581	# ACTIVATE ERROR-TRACEBACK
[1]	4582	if [[ $do_trace = true ]]
	4583	then
	4584	echo "set -x" >> $jobfile
	4585	else
	4586	echo "set +vx" >> $jobfile
	4587	fi
	4588
	4589
[1289]	4590	# INITIALIZE THE ENVIRONMENT AND LOAD MODULES
[1043]	4591	if [[ "$init_cmds" != "" ]]
	4592	then
	4593	echo "$init_cmds" >> $jobfile
	4594	fi
	4595	if [[ "$module_calls" != "" ]]
	4596	then
	4597	echo "$module_calls" >> $jobfile
	4598	fi
	4599
	4600
[1289]	4601	# PROVIDE SOURCE-CODE FILES, MRUN-SCRIPT AND CONFIGURATION-FILE FOR THE JOB
	4602	# then-CLAUSE: FILES ARE COLLECTED IN THE SOURCES_FOR_RUN_... DIRECTORY ON THE LOCAL HOST,
	4603	# WHICH IS THEN FETCHED FROM THE BATCH-JOB BY USING cp/scp
	4604	# THE SOURCE-CODE FILES ALREADY EXIST IN THIS DIRECTORY
	4605	# else-CLAUSE: FILE-CONTENTS ARE PUT INTO THE JOB-FILE AS HERE-DOCUMENTS
	4606	# THIS MAY CREATE A QUITE LARGE JOB-FILE, WHICH CAN CAUSE PROBLEMS WITH SOME
	4607	# QUEUEING-SYSTEMS
	4608	if [[ $host = ibmkisti \|\| $host = lccrayb \|\| $host = lccrayf \|\| $host = lccrayh ]]
[1]	4609	then
	4610
[1289]	4611	# COPY CONFIGURATION-FILE AND MRUN-SCRIPT INTO THE SOURCES_FOR_RUN... DIRECTORY
[191]	4612	if [[ $restart_run != true ]]
	4613	then
	4614	cp $config_file $working_directory/SOURCES_FOR_RUN_$fname
	4615	cp ${PALM_BIN}/$mrun_script_name $working_directory/SOURCES_FOR_RUN_$fname
	4616	fi
[1]	4617
[1289]	4618	# COPY THE SOURCES_FOR_RUN... DIRECTORY FROM THE LOCAL HOST TO THE JOB VIA scp
	4619	# (then-CLAUSE: JOBS ON THE LOCAL HOST CAN JUST USE cp)
[193]	4620	echo "set -x" >> $jobfile
[693]	4621	if [[ $host = $localhost ]]
	4622	then
[1199]	4623
	4624	# DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT
	4625	# FILES ON CRAY XC30 SYSTEMS (CSC HELSINKI), rsync IS USED INSTEAD
[1281]	4626	if [[ $(echo $host \| cut -c1-6) = lccray ]]
	4627	then
	4628	echo "rsync -av -t $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
	4629	else
	4630	echo "cp -r $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
	4631	fi
[1199]	4632
[693]	4633	else
[1255]	4634	if [[ $host = ibmkisti ]]
[693]	4635	then
[1289]	4636	# ON KISTI'S IBM FIREWALL IS ONLY OPENED ON INTERACTIVE NODE
[693]	4637	echo "localdir=\`pwd\`" >> $jobfile
[1094]	4638	echo "ssh $SSH_PORTOPT $remote_username@gaiad \"cd \$localdir; scp $PORTOPT -r $return_username@$return_addres:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
[1255]	4639	elif [[ $host = lccrayb ]]
	4640	then
	4641	echo "localdir=\`pwd\`" >> $jobfile
	4642	echo "ssh $SSH_PORTOPT $remote_username@blogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_addres:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
[1274]	4643	elif [[ $host = lccrayh ]]
	4644	then
	4645	echo "localdir=\`pwd\`" >> $jobfile
	4646	echo "ssh $SSH_PORTOPT $remote_username@hlogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_addres:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile
	4647
[1255]	4648	else
	4649	echo "scp $PORTOPT -r $return_username@$return_addres:$working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile
[693]	4650	fi
	4651	fi
[193]	4652	echo "export SOURCES_COMPLETE=true" >> $jobfile
[1]	4653
[1289]	4654	# MOVE MRUN-SCRIPT AND CONFIGURATION-FILE FROM THE SOURCES_FOR_RUN... DIRECTORY TO THE
	4655	# WORKING DIRECTORY OF THE JOB
[193]	4656	echo "mv SOURCES_FOR_RUN_$fname/$config_file . " >> $jobfile
	4657	echo "mv SOURCES_FOR_RUN_$fname/$mrun_script_name . " >> $jobfile
[1199]	4658	echo "chmod u+rwx $mrun_script_name" >> $jobfile
[193]	4659	echo "execute_mrun=true" >> $jobfile
	4660	echo " " >> $jobfile
	4661
[191]	4662	else
	4663
[1289]	4664	# PROVIDE SOURCE-CODE FILES AND MAKEFILE AS HERE DOCUMENT
[191]	4665	if [[ $do_compile = true ]]
	4666	then
	4667
	4668	source_catalog=SOURCES_FOR_RUN_$fname
	4669
[1289]	4670	# CREATE SOURCES_FOR_RUN... DIRECTORY TO STORE THE SOURCE CODE FILES AND THE MAKEFILE
[191]	4671	echo "mkdir SOURCES_FOR_RUN_$fname" >> $jobfile
	4672	echo "export SOURCES_COMPLETE=true" >> $jobfile
	4673	echo "cd SOURCES_FOR_RUN_$fname" >> $jobfile
	4674
	4675	for filename in $source_list
	4676	do
[1289]	4677	# BACKSLASH IS USED FOR MASKING
[191]	4678	echo "cat > $filename << \"%END%\"" >> $jobfile
	4679	cat $source_catalog/$filename >> $jobfile
	4680	echo " " >> $jobfile
	4681	echo "%END%" >> $jobfile
	4682	echo " " >> $jobfile
	4683	done
	4684
[1289]	4685	# BACKSLASH IS USED FOR MASKING
[191]	4686	echo "cat > Makefile << \"%END%\"" >> $jobfile
	4687	cat $source_catalog/Makefile >> $jobfile
[1]	4688	echo " " >> $jobfile
	4689	echo "%END%" >> $jobfile
	4690	echo " " >> $jobfile
	4691
[191]	4692	echo "cd - > /dev/null" >> $jobfile
[1]	4693
[191]	4694	fi
[1]	4695
	4696
[1289]	4697	# PROVIDE THE CONFIGURATION-FILE AS HERE-DOCUMENT
	4698	# BACKSLASH IS USED FOR MASKING
	4699	# LINES WITH #$ IN THE CONFIGURATION-FILE, COMING FROM THE SVN KEYWORD SUBSTITUTION,
	4700	# ARE REMOVED FROM THE FILE IN ORDER TO AVOID PROBLEMS WITH THE SGE BATCH SYSTEM
[191]	4701	echo "cat > $config_file << \"%END%\"" >> $jobfile
[1101]	4702	if [[ $host = lckyuh ]]
	4703	then
[1289]	4704	# NO CROSS-COMPILER ON COMPUTE NODE
[1101]	4705	sed 's/frtpx/frt/g' $config_file >> $jobfile
	4706	else
	4707	sed 's/#$.*//g' $config_file >> $jobfile
	4708	fi
[191]	4709	echo "%END%" >> $jobfile
	4710	echo " " >> $jobfile
[1]	4711
	4712
[1289]	4713	# PROVIDE THE MRUN-SCRIPTS AS HERE-DOCUMENT
	4714	# BACKSLASH IS USED FOR MASKING
[1101]	4715	echo "cat > $mrun_script_name <<\"%END%\"" >> $jobfile
[1103]	4716	if [[ $host = lckyuh ]]
	4717	then
	4718	sed 's/\/bin\/ksh/\/bin\/bash/g' ${PALM_BIN}/$mrun_script_name >> $jobfile
	4719	else
	4720	cat ${PALM_BIN}/$mrun_script_name >> $jobfile
	4721	fi
[1101]	4722	echo "%END%" >> $jobfile
[191]	4723	echo "chmod u+x $mrun_script_name" >> $jobfile
	4724	echo "execute_mrun=true" >> $jobfile
	4725	echo " " >> $jobfile
[1]	4726
	4727	fi
	4728
[191]	4729
[1289]	4730	# GET REQUIRED INPUT-FILES BY SCP OR BY SENDING THEM WITH THE JOB AS HERE-DOCUMENT
	4731	# PUT THESE FILES INTO THE USER'S RESPECTIVE PERMANENT DIRECTORIES ON THE REMOTE-HOST
	4732	# IF THE DIRECTORIES DO NOT EXIST, TRY TO CREATE THEM
[1]	4733	if [[ $do_remote = true ]]
	4734	then
	4735	(( i = 0 ))
	4736	while (( i < iin ))
	4737	do
	4738	(( i = i + 1 ))
	4739	echo "[[ ! -d ${pathin[$i]} ]] && mkdir -p ${pathin[$i]}" >> $jobfile
	4740	if [[ "${transin[$i]}" = job ]]
	4741	then
	4742	echo "cat > ${remotepathin[$i]} <<\"%END%\"" >> $jobfile
	4743	eval cat ${pathin[$i]}/${frelin[$i]} >> $jobfile
	4744	echo " " >> $jobfile
	4745	echo "%END%" >> $jobfile
	4746	else
[1094]	4747	echo "batch_scp $PORTOPT -b -o -g -s -u $return_username $return_addres ${remotepathin[$i]} \"${pathin[$i]}\" ${frelin[$i]}" >> $jobfile
[1]	4748	fi
	4749
[1289]	4750	# CHECK, IF FILE COULD BE CREATED
[1]	4751	echo "if [[ \$? = 1 ]]" >> $jobfile
	4752	echo "then" >> $jobfile
	4753	echo " echo \" \" " >> $jobfile
	4754	echo " echo \"+++ file ${remotepathin[$i]} could not be created\" " >> $jobfile
	4755	echo " echo \" please check, if directory exists on $host!\" " >> $jobfile
	4756	echo " echo \"+++ MRUN will not be continued\" " >> $jobfile
	4757	echo " execute_mrun=false" >> $jobfile
	4758	echo "fi" >> $jobfile
	4759	done
	4760	fi
	4761
[1289]	4762	# PROVIDE NAME OF THE CURRENT WORKING-DIRECTORY ON THE LOCAL MACHINE (FROM WHERE THE JOB IS
	4763	# STARTED) BY SETTING AN ENVIRONMENT-VARIABLE. THIS INFORMATION IS USED IN THE JOB BY MRUN
	4764	# IN CASE THAT RESTART-RUNS HAVE TO BE GENERATED
[1]	4765	echo "LOCAL_PWD=$working_directory" >> $jobfile
	4766	echo "export LOCAL_PWD" >> $jobfile
	4767
[1289]	4768	# PROVIDE THE PATH OF THE LOCAL MRUN-SCRIPT FOR THE SAME REASON
[22]	4769	echo "LOCAL_MRUN_PATH=$PALM_BIN" >> $jobfile
[1]	4770	echo "export LOCAL_MRUN_PATH" >> $jobfile
	4771
[1289]	4772	# lcflow ALSO REQUIRES TO PROVIDE PATH FOR THE PALM-SCRIPTS
	4773	if [[ $host = lcflow \|\| $localhost = lcflow ]]
[66]	4774	then
[1099]	4775	echo "export PALM_BIN=$PALM_BIN" \| sed -e 's:'$HOME':$HOME:' >> $jobfile
	4776	echo "export PATH=\$PATH:\$PALM_BIN" >> $jobfile
[66]	4777	fi
[1]	4778
[1289]	4779	# CALL MRUN WITHIN THE JOB (SETTING QUEUE IS A WORKAROUND FOR ibmkisti)
	4780	# AS FINAL ACTION, REMOVE THE TEMPORARY DIRECTORY CREATED AT THE BEGINNING OF THE JOB
[1101]	4781	echo "set -x" >> $jobfile
	4782	echo "queue=$queue" >> $jobfile
[1]	4783	echo "[[ \$execute_mrun = true ]] && ./$mrun_com" >> $jobfile
[1101]	4784	echo 'ls -al; echo `pwd`' >> $jobfile
	4785	echo "cd \$HOME" >> $jobfile
	4786	echo "rm -rf $TEMPDIR" >> $jobfile
[1]	4787
	4788
	4789
	4790
[1289]	4791	# START THE JOB USING SUBJOB-COMMAND
[1]	4792	if [[ $silent = false ]]
	4793	then
	4794	printf "\n "
	4795	else
	4796	printf "\n\n"
	4797	fi
	4798
[1094]	4799	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]	4800	rm -rf $jobfile
	4801
	4802
[1289]	4803	fi # END OF REMOTE-PART

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