DAMASK_EICMD/install/MarcMentat/2020/Marc_tools/run_damask_lmp

#!/bin/ksh
##############################################################################
#                                                                            #
#         run_marc - run a marc job                                          #
#         -------------------------                                          #
#                                                                            #
#  usage: run_marc -j jid { options }                                        #
#                                                                            #
#  where standard options are:                        required:   defaults:  #
#  --------------------------                                                #
#                                                                            #
#  -j*   jid         job id number.                   ** YES **    .         #
#  -pr*  prog        program name.                        .        marc      #
#  -v*   y|n         do or do not verify inputs.          .        yes       #
#  -q*   s|l|v|b|f   batch queue name or background,      .        short     #
#                    foreground.                                             #
#  -b*               as alternative to option -q*                            #
#                                                                            #
# ( batch queues only :                                                      #
#  -pq*              intra queue priority.                .        .         #
#  -at   DATE/TIME   delay start of job.                  .        .         #
#                    format : January,1,1990,12:31                           #
#                    or     : today,5pm                                      #
#  -cpu* secs        job CPU limit                        .        .       ) #
#                                                                            #
#  -r*   rid         restart file job id.                 .        .         #
#  -si*  sid         substructure file id.                .        .         #
#  -pi*  post        post file job id.                    .        .         #
#  -de*  did         defaults file                        .        no        #
#  -vf   vid         viewfactor                           .        no        #
#                                                                            #
#  -u*   user        user subroutine.                     .        .         #
#  -obj  obj         user objects or libraries.           .        .         #
#  -sa*  y|n         do or do not save load module.       .        no        #
#  -me               manual remeshing control             .        no        #
#  -ml               memory limit in Mbyte                                   #
#  -mo               This option is deprecated. As of Marc 2015, only        #
#                    the integer*8 version is available.                     #
#  -mpi              selects MPI version                                     #
#                    each platform has a default MPI version and some        #
#                    have an alternative version. see the include file       #
#                    for the respective platform                             #
#                    MPI_DEFAULT defines the default MPI version             #
#                    MPI_OTHER   defines versions one can switch to          #
#  -dcoup            for contact decoupling                                  #
#                    currently not supported                                 #
#  -dir              directory where the job i/o should take place.          #
#                    defaults to current directory.                          #
#  -sdir             directory where scratch files are created               #
#                    defaults to current directory.                          #
#                                                                            #
#  -alloc            only perform memory allocation test, no analysis        #
#  -list y           only list options in the input file, no analysis        #
#  -fe num           set feature number "num" for the run. only one allowed  #
#  -dytran           flag to switch from Dytran to Marc                      #
#                    dytran = 0, program will run w/o Marc-Dytran Switch     #
#                           = 1, program will restart Marc after Dytran run  #
#                          >= 2, Not supported yet.                          #
#                    currently not supported                                 #
#  -ou               force analysis to use out-of-core control               #
#                           =0,  not used                                    #
#                           =1,  element storage out-of-core                 #
#  -dll              run marc using shared library libmarc.so and exe_marc   #
#                           =1, used                                         #
#                           =2, do not free streaming input memory           # 
#                           =3, run with marc input deck                     #
#  -trk              run marc for post-tracking                              #
#  -gpuid            run marc using GPGPU capability                         #
#                    specify gpuid on to be used in the analysis. Multiple   #
#                    IDs may be assigned for DDM runs.                       #
#                    Separate a list of IDs with a colon. Each DMP           #
#                    process will be assigned a GPU ID in round robin fastion#
#                           = 0                                              #
#                           = 0:1 etc...                                     #
#                                                                            #
#  where parallel options are:                                               #
#  --------------------------                                                #
#                                                                            #
#  itree, host, and comp options are available for the domain                #
#  decomposition only.                                                       #
#  MARC_NUMBER_OF_THREADS, nthread, and dir options always available.        #
#                                                                            #
#                                                                            #
#  -nprocd           number of domains.                                      #
#                    defaults to single domain solution.                     #
#  -nprocds          number of domains if single input file.                 #
#                    defaults to single domain solution.                     #
#  -nps              same as -nprocds.                                       #
#  -nsolver          number of solver  tasks for solver types 12 and 13      #
#                    these are distributed tasks operating via MPI           #
#  -nthread_elem     number of threads for element assembly and recovery     #
#                    = 0: use defaults.                                      #
#                         defaults to 1 for single domain solution.          #
#                         defaults to number of domains for multi-domain     #
#                         solution.                                          #
#                    > 1: number of threads to be used by element assembly   #
#                         recovery.                                          #
#                    Also can be set through MARC_NUMBER_OF_THREADS          #
#                    environment variable.                                   #
#                    if both specified, -nthread_elem option will be used.   #
#                    defaults if neither MARC_NUMBER_OF_THREADS environment  #
#                    variable set nor -nthread_elem specified.               #
#  -nthread_solver   number of threads for solver types 6, 8, and 11         #
#                    = 0: use defaults.                                      #
#                         defaults to 1 for single domain solution.          #
#                         defaults to number of domains for multi-domain     #
#                         solution.                                          #
#                    > 1: number of threads to be used by 6, 8, and 11       #
#                    Also can be set through MARC_NUMBER_OF_THREADS          #
#                    environment variable.                                   #
#                    if both specified, -nthread_solver option will be used. #
#                    defaults if neither MARC_NUMBER_OF_THREADS environment  #
#                    variable set nor -nthread_solver specified.             #
#  -nthread          Same as -nthread_solver.                                #
#  -itree            message passing tree type for domain decomposition.     #
#                    for debugging purposes; should not normally be used.    #
#  -host             hostfile name for distributed execution on network.     #
#                    defaults to no hostfile, unless jobid.defhost exists.   #
#                    if jobid.defhost exists, only -np(s) necessary          #
#  -comp* y|n        to be used with user routines on a network of           #
#                    incompatible machines.                                  #
#                    if set to no, a separate executable will be created     #
#                    for each machine on the network.                        #
#                    if set to yes, the executable located on the machine    #
#                    from which marc is started will be used on all machines.#
#                    defaults to no if O/S versions different on machines.   #
#                                                                            #
#  -ci y|n           copy input files to remote hosts (default: yes)         #
#                    if "yes", input files are automatically copied to       #
#                    remote hosts for a network run if necessary.            #
#  -cr y|n           copy post files from remote hosts (default: yes)        #
#                    if "yes", post files are automatically copied back from #
#                    remote hosts for a network run if necessary.            #
##############################################################################
# set DIR to the directory in which this script is
REALCOM="`/bin/ls -l $0 |awk '{ print $NF; }'`"
DIR=`dirname $REALCOM`
# make sure DIR has an absolute path
case $DIR in
  \/*)
    ;;
  *)
    DIR=`pwd`/$DIR
    ;;
esac
DIRSCRIPT=$DIR
AWK=awk
ARCH=`uname -a | cut -f 1 -d " "`
# Sun has a bad awk, use nawk instead
if test $ARCH = "SunOS"
then
 AWK=nawk
fi
BASENAME=basename
# Sun has an incorrect /bin/basename, check if /usr/ucb/basename exists
if test $ARCH = "SunOS"
then
 if test -x /usr/ucb/basename
 then
  BASENAME=/usr/ucb/basename
 fi
fi

# echo command line in the case of ECHO_COMMAND is true
if test "$ECHO_COMMAND" = true ; then
 echo command "$0" "$@"
fi

#
#  "mode" selects version, i4 or i8
#    default is i4
#    this can be changed by a file run_marc_defaults
#    located in the tools directory of the Marc installation
#    or in the user's home directory
#      format:
#         MARC_MODE i8
#    it can also be set by the environmental variable MARC_INTEGER_SIZE
#    and by the command line option "-mo"
#    
mode=
modeerror=
modeoption=
if test -f $DIRSCRIPT/run_marc_defaults; then
 line=`$AWK '{if ($1 == "MARC_MODE") {print $1}}' $DIRSCRIPT/run_marc_defaults`
 if test "$line" = "MARC_MODE"; then
  echo 
  echo warning: the option MARC_MODE is deprecated, as of Marc 2015, only the integer*8 version is available
  echo 
  line=
 fi
 line=`$AWK '{if ($1 == "MARC_MODE") {print $2}}' $DIRSCRIPT/run_marc_defaults`
 line=`echo $line | $AWK '{print $NF}'`
 if test "$line" = "i4"; then
  modeerror="defaults file $DIRSCRIPT/run_marc_defaults used mode $line ; this must be i8"
  modeoption=error
  echo $modeerror
 fi
 if test "$line" = "i8"; then
  mode=i8
 fi
fi
if test -f $HOME/run_marc_defaults; then
 line=`$AWK '{if ($1 == "MARC_MODE") {print $1}}' $HOME/run_marc_defaults`
 if test "$line" = "MARC_MODE"; then
  echo 
  echo warning: the option MARC_MODE is deprecated, as of Marc 2015, only the integer*8 version is available
  echo
  line=
 fi
 line=`$AWK '{if ($1 == "MARC_MODE") {print $2}}' $HOME/run_marc_defaults`
 line=`echo $line | $AWK '{print $NF}'`
 if test "$line" = "i4"; then
  modeerror="defaults file $HOME/run_marc_defaults used mode $line ; this must be i8"
  modeoption=error
  echo $modeerror
 fi
 if test "$line" = "i8"; then
  mode=i8
 fi
fi
if test -n "$MARC_INTEGER_SIZE" ; then
 mode=$MARC_INTEGER_SIZE
fi
if test -z "$mode" ; then
 mode=i8
fi
case $mode in
    i4) 
    modeerror="bad value for MARC_INTEGER_SIZE variable; only i8 is supported."
    modeoption=error
    echo $modeerror
    ;;
    i8)
    MARC_INTEGER_SIZE=i8
    export MARC_INTEGER_SIZE
    ;;
    *)
    echo "bad value for MARC_INTEGER_SIZE variable; only i8 is supported."
    exit
    ;;
esac

setmode=false
for arg in $* ; do
 if $setmode ; then
     mode=$arg
     case $mode in
	 i4) 
     modeerror="bad value for mode option; only i8 is supported."
     modeoption=error
     echo
     echo $modeerror
     echo
	 ;;
	 i8)
	 MARC_INTEGER_SIZE=i8
	 export MARC_INTEGER_SIZE
	 ;;
	 *)
	 echo " "
	 echo "error, version mode must be i8"
	 echo " "
	 echo "       use  -mo i8 "
	 echo " "
	 exit
	 ;;
     esac
     setmode=false
 fi
 if [ ${arg}X = -moX -o ${arg}X = -MOX ] ; then
  echo  
  echo warning: the option -mo is deprecated, as of Marc 2015, only the integer*8 version is available
  echo
  setmode=true
 fi
 if [ ${arg}X = -i8X -o ${arg}X = -I8X ] ; then
  MARC_INTEGER_SIZE=i8
  export MARC_INTEGER_SIZE
 fi
 if [ ${arg}X = -i4X -o ${arg}X = -I4X ] ; then
  modeerror="bad value for mode option; only i8 is supported."
  modeoption=error
  echo
  echo $modeerror
  echo
 fi
done

# set to i4 version for 32 bit Linux
if test "`uname -s`" = "Linux"; then
 if test "`uname -m`" = "i686"; then
  mode=i4
  MARC_INTEGER_SIZE=i4
  export MARC_INTEGER_SIZE
 fi
fi


. "$DIR/getarch"


# getting user subroutine file name
found=0
for i in "$@"; do
  if test $found = 1; then
    DAMASK_USER=$i
    found=0
  fi
  case $i in
    -u* | -U*)
      found=1
    ;;
  esac
done
# sourcing include_linux64 (needs DAMASK_USER to be set)
. $MARC_INCLUDE

#

#
#  Dynamically determine the echo syntax
#

case "`echo '\c'`" in
   '\c')
      ECHO='echo -n'
      ECHOTXT=' '
      ;;
   *)
      ECHO='echo'
      ECHOTXT=' \c'
      ;;
esac

#  
#  Variables for the MARC environment
#

PRODUCT="Marc"
EXITMSG=$MARC_TOOLS/MESSAGES
export EXITMSG
FLEXDIR=$DIR/../flexlm/licenses
export FLEXDIR
TIMCHK=3600
export TIMCHK
BINDIR=$MARC_BIN
export BINDIR
AFMATDAT=$MARC_RUNTIME/AF_flowmat/
export AFMATDAT
export MESHERDIR
MSC_LICENSE_FINPROC=0
export MSC_LICENSE_FINPROC
#
# define directory path to global unified material database
#
MATFILE=
export MATFILE

#
# define memory limit
#  first set to MEMLIMIT from include
#  -ml option overrules if specified
memlimit=$MEMLIMIT
#
# Define share library path based on platforms
# This is required for using the Patran Mesher
#
if test $MACHINENAME = "HP"
then
  SHLIB_PATH=$MARC_LIB:$MARC_LIB_SHARED:$SHLIB_PATH
  export SHLIB_PATH
fi
# the one for IBM is defined futher down

LD_LIBRARY_PATH=$MARC_LIB_SHARED:$LD_LIBRARY_PATH:$SFMATDIR
if test -f "/etc/redhat-release"; then
  ver=`cat /etc/redhat-release | sed 's/.* release \([0-9]\).\([0-9]\+\) .*/\1\2/'`
  case "$ver" in
    6*) LD_LIBRARY_PATH="${MARC_LIB_SHARED}rh67:$LD_LIBRARY_PATH" ;;
  esac
fi
LD_LIBRARY_PATH=$MARC_LIB:$LD_LIBRARY_PATH
LD_LIBRARY_PATH=$MESHERDIR:$LD_LIBRARY_PATH
LD_LIBRARY_PATH=$LD_LIBRARY_PATH
LD_LIBRARY64_PATH=$MARC_LIB:$LD_LIBRARY64_PATH
LD_LIBRARYN32_PATH=$MARC_LIB:$LD_LIBRARYN32_PATH
export LD_LIBRARY_PATH
export LD_LIBRARY64_PATH
export LD_LIBRARYN32_PATH
 
atexit() {
kill -15 $$
#
if test $MPITYPE = "myrinet"
then
 if test -f "$host_filt"
 then
  /bin/rm $host_filt
 fi
fi
}

trap "atexit" 2

#
# defaults
#

prog=marc
exefile=marc
jid=
rid=
pid=
sid=
did=
vid=
user=
usernoext=
objs=
qid=background
cpu=
priority=
att=
trk=
verify=yes
prgsav=no
rmdll=no
cpdll=no
progdll=
pathdll=
error=
nprocd=0
nprocdddm=1
nprocdddmprint=
icreated=0
nprocdarg=
nsolver=0
nsolverarg=-ns
if test $nprocds
then
 if test $nprocds -gt 1
 then
  nprocdddm=$nprocds
  nprocdddmprint=$nprocds
  icreated=1
  nprocdarg=-nprocds
 fi
fi
ntprint=0
nt=-1
nte=-1
nts=-1
ntarg=-nt
ntearg=-nte
ntsarg=-nts
nteprint=
ntsprint=
oversubscribe=false
gpuids=
nauto=
ndcoup=0
ndytran=0
noutcore=0
dllrun=0
mesh=0
itree=0
iam=
ddm_arc=0
link=
trkrun=0
DIRJOB=`pwd`
DIRSCR=$DIRJOB
DIRSCRSET=
autoforge=0
dotdat=.dat
dotdefhost=.defhost
host=
numhost=
mfile=
userhost=
makebdf=
cpinput=yes
cpresults=yes
marcdll=libmarc.$EXT_DLL
# define hostname and strip off extensions (alpha.aaa.com)
thishost=`hostname`
thishost=${thishost%%.*}
compatible=unknown
numfield=1
justlist=
feature=
mpioption=false
iprintsimufact=
SRCLIB=$MARC_LIB/srclib.a
MDSRCLIB=$MARC_LIB/mdsrc.a
#
# check run_marc_defaults file for default MPI setting
#    located in the tools directory of the Marc installation
#    or in the user's home directory
#      format:
#         MARC_MPI <mpiversion>
#    
value=
file=
if test -f $DIRSCRIPT/run_marc_defaults; then
 value=`$AWK '{if ($1 == "MARC_MPI") {print $2}}' $DIRSCRIPT/run_marc_defaults`
 value=`echo $value | $AWK '{print $NF}'`
 if test -n "$value"; then
  file=$DIRSCRIPT/run_marc_defaults
 fi
fi
if test -f $HOME/run_marc_defaults; then
 value=`$AWK '{if ($1 == "MARC_MPI") {print $2}}' $HOME/run_marc_defaults`
 value=`echo $value | $AWK '{print $NF}'`
 if test -n "$value"; then
  file=$HOME/run_marc_defaults
 fi
fi
if test -n "$value"; then
  MARC_MPITYPE=$value
  notok=true
  for i in "$MPI_OTHER"; do
   if test "$MARC_MPITYPE" = "$i"; then
     notok=false
   fi
  done
  if test "$MARC_MPITYPE" = "$MPI_DEFAULT"; then 
   notok=false
  fi
  if $notok; then
   echo " "
   echo "  error, incorrect option for MARC_MPI"
   echo "    defined in $file: $MARC_MPITYPE"
   echo "    valid options: $MPI_OTHER $MPI_DEFAULT"
   echo " "
   exit
  fi
  if test "$value" != "$MPI_DEFAULT"; then
    exefile=marc_$value
    . $MARC_INCLUDE
    MDSRCLIB=$MARC_LIB/mdsrc.a_$value
    if test "$MUMPSSOLVER" = MUMPS; then
     MUMPSSOLVERLIBS="$MUMPSLIB_DIR/libmumps_$value.a"
    fi
  fi
fi
# 
#
# allow scratch directory to be specified with environmental variable
# MARCSCRATCH
if test $MARCSCRATCH
then
 if test -d $MARCSCRATCH
 then
  DIRSCR=$MARCSCRATCH
 else
  echo "error, scratch directory '$MARCSCRATCH'"
  echo "       specified via environmental variable MARCSCRATCH does not exist"
  exit
 fi
fi
#
##############################################################################
#           parse input - arguments always come in pairs                     #
##############################################################################

arg=$1
if [ ${arg}X = -i8X -o ${arg}X = -I8X ] ; then
 shift
 arg=$1
fi
while [ -n "$arg" ]
do
	shift
	value=$1
	case $arg in
                -al* | -AL*)
                    LD_LIBRARY_PATH=$CUDALIB1:$LD_LIBRARY_PATH
                    export LD_LIBRARY_PATH
                    $MARC_BIN/marc -alloc 1
                    exit
                ;;
                -li* | -LI*)
		    justlist=yes
		;;
                -fe* | -FE*)
		    feature=$value

		;;
		-pr* | -PR*)
                        if test `dirname $value` = '.'
                        then
                          prog=`$BASENAME $value .marc`
                          progdll=`$BASENAME $value`
                        else
                          prog=`dirname $value`/`$BASENAME $value .marc`
                          progdll=`dirname $value`/`$BASENAME $value`
                        fi
                        prdir=`dirname $value`
                        case $prdir in
                            \/*)
                              ;;
                            *)
                              prog=`pwd`/$prdir/$prog
                              ;;
                        esac
		;;
		-j* | -J*)
                        jid=`$BASENAME $value $dotdat`
                        DIRJID=`dirname $value`
                        case $DIRJID in
                           \/*)
                             ;;
                           *)
                            DIRJID=`pwd`/$DIRJID
                             ;;
                        esac        
		;;
		-r* | -R*)
			rid=`$BASENAME $value .t08`
                        DIRRID=`dirname $value`
                        case $DIRRID in
                           \/*)
                             ;;
                           *)
                            DIRRID=`pwd`/$DIRRID
                             ;;
                        esac        
		;;
		-si* | -SI*)
			sid=$value
                        DIRSID=`dirname $value`
                        case $DIRSID in
                           \/*)
                             ;;
                           *)
                            DIRSID=`pwd`/$DIRSID
                             ;;
                        esac        
		;;
		-pi* | -PI*)
                        if test -f $value.t19
                        then
                         pid=`$BASENAME $value .t19`
                        else
                         pid=`$BASENAME $value .t16`
                        fi
                        DIRPID=`dirname $value`
                        case $DIRPID in
                           \/*)
                             ;;
                           *)
                            DIRPID=`pwd`/$DIRPID
                             ;;
                        esac        
		;;
                -bdf | -BDF)
                        makebdf=1
                ;;
                -de* | -DE*)
                        did=`$BASENAME $value $dotdat`
                        DIRDID=`dirname $value`
                        case $DIRDID in
                           \/*)
                             ;;
                           *)
                            DIRDID=`pwd`/$DIRDID
                             ;;
                        esac        
                ;;
                -vf  | -VF)
                        vid=`$BASENAME $value .vfs`
                        DIRVID=`dirname $value`
                        case $DIRVID in
                           \/*)
                             ;;
                           *)
                            DIRVID=`pwd`/$DIRVID
                             ;;
                        esac        
                ;;
		-u* | -U*)
                        user=$value
                        case $user in
                           \/*)
                             ;;
                           *)
                            user=`pwd`/$user
                             ;;
                        esac
						usernoext=$user
						usernoext=`dirname $usernoext`/`$BASENAME $usernoext .f`
						usernoext=`dirname $usernoext`/`$BASENAME $usernoext .F`
						usernoext=`dirname $usernoext`/`$BASENAME $usernoext .for`
						usernoext=`dirname $usernoext`/`$BASENAME $usernoext .f90`
		;;
		-obj | -OBJ)
			objs="$value"
		;;
		-q* | -Q*)
			qid=$value
		;;
		-b* | -B*)
			case $value in
				y* | Y*)
				qid=background
				;;
				n* | N*)
				qid=foreground
				;;
				*)
				;;
			esac
		;;
		-at | -AT)
			att=$value
		;;
		-cpu* | -CPU*)
			cpu=$value
		;;
		-pq | -PQ*)
			priority=$value
		;;
		-v* | -V*)
			verify=$value
		;;
		-sa* | -SA*)
			prgsav=$value
		;;
		-np* | -NP*)
			nprocdddm=$value
			nprocdddmprint=$value
			case $arg in
				-nps* | -NPS* | -nprocds* | -NPROCDS*)
				icreated=1
				nprocdarg=-nprocds
				;;
			esac
			case $arg in
				-np | -NP | -nprocd | -NPROCD)
				icreated=0
				nprocdarg=-nprocd
				;;
			esac
		;;
		-ns* | -NS*)
			nsolver=$value
		;;
		-nt* | -NT*)
			case $arg in
				-nte | -NTE | -nthread_e* | -NTHREAD_E*)
				nte=$value
				;;
			esac
			case $arg in
				-nts | -NTS | -nthread_s* | -NTHREAD_S*)
				nts=$value
				;;
			esac
			case $arg in
				-nt | -NT | -nth* | -NTH* | -nthread* | -NTHREAD*)
				nt=$value
				;;
			esac
		;;
		-gp* | -GP*)
			gpuids=$value
		;;
		-it* | -IT*)
			itree=$value
		;;
		-iam | -IAM)
			iam=$value
			case $value in
				sfg | sfm | sim)
				iprintsimufact=true
				;;
			esac
		;;
                -au* | -AU*)
                        nauto=$value
                        echo  
                        echo warning: the option -au is no longer supported and will be ignored
                        echo
                ;;
                -dc* | -DC*)
                        ndcoup=$value
                ;;
                -dy* | -DY*)
                        ndytran=$value
                ;;
                -ou* | -OU*)
                        noutcore=$value
                ;;
                -dll | -DLL)
                        dllrun=$value
                ;;
                -trk | -TRK)
                        trkrun=$value
                ;;
                -ddm | -DDM)
                        ddm_arc=$value
                ;;
                -me | -ME  )
                        mesh=$value
                ;;
                -ml | -ML  )
                        memlimit=$value
                ;;
                -mo | -MO  )
                ;;
                -mpi | -MPI  )
                        mpioption=true
                        MARC_MPITYPE=$value
                        if test "$value" != "$MPI_DEFAULT"; then
                         exefile=marc_$value
                         . $MARC_INCLUDE
                         MDSRCLIB=$MARC_LIB/mdsrc.a_$value
                         if test "$MUMPSSOLVER" = MUMPS; then
                          MUMPSSOLVERLIBS="$MUMPSLIB_DIR/libmumps_$value.a"
                         fi
                        else
                         exefile=marc
                         . $MARC_INCLUDE
                         MDSRCLIB=$MARC_LIB/mdsrc.a
                         if test "$MUMPSSOLVER" = MUMPS; then
                          MUMPSSOLVERLIBS="$MUMPSLIB_DIR/libmumps_intelmpi.a"
                         fi
                        fi
                ;;
                -dir* | -DIR*)
                        DIRJOB=$value
                        case $DIRJOB in
                           \/*)
                             ;;
                           *)
                            DIRJOB=`pwd`/$DIRJOB
                             ;;
                        esac
                        if test -z "$DIRSCRSET"
                        then
                         DIRSCR=$DIRJOB
                        fi
                ;;
                -sd* | -SD*)
                        DIRSCR=$value
                        DIRSCRSET=yes
                        case $DIRSCR in
                           \/*)
                             ;;
                           *)
                            DIRSCR=`pwd`/$DIRSCR
                             ;;
                        esac        
                ;;
		-ho*  | -HO*)
			host=$value
		;;
		-co* | -CO*)
			compatible=$value
		;;
		-ci* | -CI*)
			cpinput=$value
		;;
		-cr* | -CR*)
			cpresults=$value
		;;
		*)
			error="$error
$arg: invalid option"
                        break
		;;
	esac
	case $value in
		-*)
			error="$error
$arg: invalid name $value"
			break
		;;
	esac
	shift
	arg=$1
        if [ ${arg}X = -i8X -o ${arg}X = -I8X -o ${arg}X = -i4X -o ${arg}X = -I4X ] ; then
         shift
         arg=$1
        fi
done
argc=`expr $# % 2`
if test $argc -eq 1
then
#
# odd number of arguments
#
	error="$error
argument list incomplete"
fi

if test $nprocdddm -gt 0
then
nprocd=$nprocdddm
fi

if test $nsolver -gt 0
then
  if test $nsolver -gt $nprocd 
  then
  nprocd=$nsolver
  fi
fi

# oversubscribe case
if test $nprocd -gt $(/usr/bin/nproc); then
  if test "$ALLOWMPIOVERSUBSCRIBE" != "true"; then
   error="$error
   The requested number of domains ($nprocd) is larger than the number
   of processors ($(/usr/bin/nproc)). As such an oversubscription may result in
   very poor performance, the analysis will not be started.
   Running an analysis in case of oversubscription can be forced
   by defining an environment variable \"ALLOWMPIOVERSUBSCRIBE\" 
   with the value \"true\"."
   oversubscribe=true
  fi
fi

# Set defaults
if test $nt -eq -1
then
nt=${MARC_NUMBER_OF_THREADS:-0}
fi
if test $nt -lt 0
then
nt=0
fi
if test $nte -eq -1
then
nte=${MARC_NUMBER_OF_THREADS:-0}
fi
if test $nte -lt 0
then
nte=0
fi
if test $nts -eq -1
then
nts=${MARC_NUMBER_OF_THREADS:-0}
fi
if test $nts -lt 0
then
nts=0
fi
#
# set number of element loop threads
#
ntprint=$nt
nteprint=$nte
# copy from -nprocd[s]
if test $nprocdddm -gt 1 
then
  nteprint=$nprocdddm
fi
# override with -nthread_elem option
if test $nte -ne 0
then
nteprint=$nte
fi
# check for minimum 1 threads per processes for DDM 
if test $nprocdddm -gt 1
then
  if test $nteprint -lt $nprocdddm
  then
  nteprint=$nprocdddm
  fi
fi
nte=$nteprint
#
# set number of Solver threads
#
ntsprint=$nts
# copy from -nthread or -nprocd[s]
if test $ntprint -ne 0
then
  ntsprint=$ntprint
else
  if test $nprocdddm -gt 1
  then
  ntsprint=$nprocdddm
  fi
fi
# override with -nthread_solver option
if test $nts -ne 0
then
  ntsprint=$nts
fi
# check for minimum 1 threads per solver process.
if test $nsolver -lt $nprocdddm
then
  if test $ntsprint -lt $nsolver
  then
  ntsprint=$nsolver
  fi
else
  if test $ntsprint -lt $nprocdddm
  then
  ntsprint=$nprocdddm
  fi
fi
if test $ntsprint -eq 1
then
  set ntsprint=0
fi
nts=$ntsprint

# set stack size for multi-threading.
export KMP_MONITOR_STACKSIZE=7M
export OMP_STACKSIZE=7M

#
# deprecate  -nthread option at arugment of marc
nt=0
# Reset nprocdddmm, nsolver and threads if not given.
if test $nprocdddm -eq 0 
then 
  nprocdarg=
fi  
if test $nprocdddm -eq 0 
then 
  nprocdddmprint=
fi  
if test $nprocdddm -eq 0 
then 
  nprocdddm=
fi  

nsolverprint=$nsolver
if test $nsolver -eq 0 
then 
  nsolverprint=
fi  
# end of threads setting.
gpuoption=
if test "$gpuids" = "" ; then
  gpuoption=
else
  gpuoption="-gp $gpuids"
fi

if test "$gpuids" = "" ; then
 export LD_LIBRARY_PATH=$CUDALIB1:$LD_LIBRARY_PATH
else
 MARCCUDALIBS=$MARCCUDALIBS2
 export LD_LIBRARY_PATH=$CUDALIB2:$LD_LIBRARY_PATH
fi
# Linux 64 + HPMPI, Below code is taken from include_linux64 
if test $MPITYPE = hpmpi -a "$ARCHITECTURE" = "linux_amd64"
then
 export MPIHPSPECIAL="$MPIHPSPECIAL -e LD_LIBRARY_PATH=$LD_LIBRARY_PATH"
fi
if test "$iam" = sim ; then
  SFLIB="-L$SFMATDIR -lMBA_Grain"
fi

if test $nprocd -gt 1; then
  if test -f $jid$dotdefhost; then
    if test "$host" = ""; then
      host=$jid$dotdefhost
    fi
  fi
  if test -f hostfile_qa_$nprocd; then
    if test "$host" = ""; then
      host=hostfile_qa_$nprocd
    fi
  fi
fi

if test "$dllrun" -gt 0; then
  exefile=exe_marc
  prog=exe_marc
  program=$exefile
  bd=$MARC_BIN/
  if test "$dllrun" -eq 1 || test "$dllrun" -eq 2; then
    dotdat=.inp
  fi

  if test "$progdll"; then
    /bin/cp ${progdll}_$marcdll $DIRJOB/$marcdll 
    rmdll=yes
    pathdll=yes
    progdll=${progdll}_$marcdll
  else
    progdll=$marcdll
  fi

  if test "$user"; then
   . $MARC_TOOLS/make_marc_user_dll $DIRJOB $user
     user=
     if test $prgsav = no; then
       rmdll=yes
     fi
     if test $prgsav = yes; then
       cpdll=yes
       rmdll=yes
     fi
     pathdll=yes
  fi
fi

##############################################################################
#         check parameter validity                                           #
##############################################################################

while test forever; do

#
# check for input file existence
#
if test $nprocdddm -gt 1 -a $icreated -eq 0; then
 if test ! -f $DIRJID/1$jid$dotdat; then
  if test "$jid" != "" ; then
    error="$error 
input file $DIRJID/1$jid$dotdat not accessible"
  fi
 fi
else
 if test ! -f $DIRJID/$jid$dotdat; then
  if test "$jid" != "" ; then
    error="$error 
input file $DIRJID/$jid$dotdat not accessible"
  fi
 fi
fi
          if test $nprocd -gt 1; then
            if test "$host" ; then
              if test ! -f $host; then
                error="$error 
host name file $host not accessible"
              fi
            fi
          fi

#
# check if the job is already running in the background
#
if test -f $DIRJOB/$jid.pid; then
  error="$error
job is already running (the file $jid.pid exists)"
fi

#
# if the program name is other than marc, then
# assume that this is a program in the users local directory
#

bd=$MARC_BIN/

case $prog in
        marc | MARC | $exefile)
                program=$exefile
                if test "$rid"
                then
                  if test ! -f $DIRRID/$rid.t08
		  then
                    error="$error
restart file $DIRRID/$rid.t08 not accessible"
                   fi
                fi
		if test "$pid"
		then
			if test ! -f $DIRPID/$pid.t16
			then
				if test ! -f $DIRPID/$pid.t19
				then
					error="$error
post file $DIRPID/$pid.t16 or $DIRPID/$pid.t19 not accessible"
				fi
			fi
		fi
		if test "$user"
		then
			if test ! -f $user
			then
		   		error="$error
user subroutine file $user not accessible"
			fi
		fi
		if test "$objs"
		then
			missingobjs=
			for o in $objs
			do
				if test ! -f "$o"
				then
					if test -z "$missingobjs"
					then
						missingobjs="$o"
					else
						missingobjs="$missingobjs $o"
					fi
				fi
			done
			if test -n "$missingobjs"
			then
		   		error="$error
user object/library file(s) $missingobjs not accessible"
			fi
		fi
                if test "$did"
                then
                        if test $nprocdddm -gt 1 -a $icreated -eq 0
                        then
                            if test ! -f $DIRDID/1$did$dotdat
                            then
                                    error="$error
defaults file $DIRDID/1$did$dotdat not accessible"
                            fi
                        else
                            if test ! -f $DIRDID/$did$dotdat
                            then
                                    error="$error
defaults file $DIRDID/$did$dotdat not accessible"
                            fi
                        fi
                fi
                if test "$vid"
                then
                        if test $nprocdddm -gt 1 -a $icreated -eq 0
                        then
                            if test ! -f $DIRVID/1$vid.vfs
                            then
                                    error="$error
view factor file $DIRVID/1$vid.vfs not accessible"
                            fi
                        else
                            if test ! -f $DIRVID/$vid.vfs
                            then
                                    error="$error
view factor file $DIRVID/$vid.vfs not accessible"
                            fi
                        fi
                fi
                if $mpioption
                then
                    notok=true
                    for i in "$MPI_OTHER"; do
                      if test "$MARC_MPITYPE" = "$i"; then
                        notok=false
                      fi
                    done
                    if test "$MARC_MPITYPE" = "$MPI_DEFAULT"; then 
                      notok=false
                    fi
                    if $notok; then
                        error="$error 
incorrect option for -mpi option: $MARC_MPITYPE  (valid: $MPI_OTHER $MPI_DEFAULT)"
                    fi
                fi
        ;;
	*)
		program=$prog.marc
                case $prog in
                  \/* | \.\/*)
 		    bd=
                  ;;
                  *)
 		    bd=`pwd`/
                  ;;
                esac
		if test "$rid"
		then
                  if test ! -f $DIRRID/$rid.t08
                  then
                    error="$error
restart file $DIRRID/$rid.t08 not accessible"
                  fi
                fi
		if test "$pid"
		then
			if test ! -f $DIRPID/$pid.t16
			then
				if test ! -f $DIRPID/$pid.t19
				then
					error="$error
post file $DIRPID/$pid.t16 and $DIRPID/$pid.t19 not accessible"
				fi
			fi
		fi
		if test "$user"
		then
	error="$error
program option may not be used with user subroutine"
		fi
		if test "$objs"
		then
	error="$error
program option may not be used with user objects or libraries"
		fi
                if test "$did"
                then
                        if test $nprocdddm -gt 1 -a $icreated -eq 0
                        then
                            if test ! -f $DIRDID/1$did$dotdat
                            then
                                    error="$error
defaults file $DIRDID/1$did$dotdat not accessible"
                            fi
                        else
                            if test ! -f $DIRDID/$did$dotdat
                            then
                                    error="$error
defaults file $DIRDID/$did$dotdat not accessible"
                            fi
                        fi
                fi
                if test "$ndcoup"
                then
                    if test $ndcoup -gt 3
                    then
                        error="$error 
incorrect option for contact decoupling "
                    fi
                fi
                if test "$ndytran"
                then
                    if test $ndytran -gt 1
                    then
                        error="$error 
incorrect option for Marc-Dytran Switch  "
                    fi
                fi
                if $mpioption
                then
                    if test ! -x $MARC_BIN/$exefile
                    then
                        error="$error 
incorrect option for -mpi option: $MARC_MPITYPE  "
                    fi
                fi
	;;
esac

##############################################################################
#          check argument integrity                                          #
##############################################################################

if test "$jid"
then
	:
else
    if test "$user"
    then
#     allow user sub without giving job id
	qid=foreground
	verify=no
    else
	error="$error
job id required"
fi
fi

case $qid in
	S* | s*)
		qid=short
	;;
	L* | l*)
		qid=long
	;;
	V* | v*)
		qid=verylong
	;;
	B* | b*)
		qid=background
	;;
	F* | f*)
		qid=foreground
	;;
	A* | a*)
		qid=at
	;;
	*)
		error="$error
bad value for queue_id option"
	;;
esac

case $prgsav in
	N* | n*)
		prgsav=no
	;;
	Y* | y*)
		prgsav=yes
	;;
	*)
		error="$error
bad value for save option"
	;;
esac

case $verify in
	N* | n*)
		verify=no
	;;
	Y* | y*)
		verify=yes
	;;
	*)
		error="$error
bad value for verify option"
	;;
esac

case $nprocdddm in
	-* )
		error="$error
bad value for nprocd option"
	;;
esac

case $nt in
	-* )
		error="$error
bad value for nt option"
	;;
esac

case $itree in
	-* )
		error="$error
bad value for itree option"
	;;
esac
case $iam in
	-* )
		error="$error
bad value for iam option"
	;;
esac
case $compatible in
	N* | n*)
		compatible=no
	;;
	Y* | y*)
		compatible=yes
	;;
	unknown)
	;;
	*)
		error="$error
bad value for comp option"
	;;
esac
case $cpinput in
	N* | n*)
		cpinput=no
	;;
	Y* | y*)
		cpinput=yes
	;;
	*)
		error="$error
bad value for copy input option"
	;;
esac
case $cpresults in
	N* | n*)
		cpresults=no
	;;
	Y* | y*)
		cpresults=yes
	;;
	*)
		error="$error
bad value for copy results option"
	;;
esac

#
# check for external file to run
#
if test -f $MARC_TOOLS/run_marc_check
then
 . $MARC_TOOLS/run_marc_check
fi

##############################################################################
# interact with the user to get the required information to run marc or      #
# other marc system program                                                  #
##############################################################################

deletelog=yes
if test $qid = background -a $verify = no
then
echo \
"
Program name         : $prog
Marc shared lib      : $progdll
Version type         : $mode
Job ID               : $DIRJID/$jid
User subroutine name : $user
User objects/libs    : $objs
Restart file job ID  : $rid
Substructure file ID : $sid
Post file job ID     : $pid
Defaults file ID     : $did
View Factor file ID  : $vid
Save generated module: $prgsav
MPI library          : $MPITYPE
DDM processes        : $nprocdddmprint
Element loop threads : $nteprint
Solver processes     : $nsolverprint
Solver threads       : $ntsprint
GPGPU option         : $gpuids
Host file name       : $host" > $jid.log
if test "$iprintsimufact" = true ; then
 echo "DDM with ARC Mapper  : $ddm_arc" >> $jid.log
fi
echo \
"Message passing type : $itree
Run job in queue     : $qid
Run directory        : $DIRJOB
Scratch directory    : $DIRSCR
Memory limit in Mbyte: $memlimit" >> $jid.log
deletelog=no
fi
echo \
"
Program name         : $prog
Marc shared lib      : $progdll
Version type         : $mode
Job ID               : $DIRJID/$jid
User subroutine name : $user
User objects/libs    : $objs
Restart file job ID  : $rid
Substructure file ID : $sid
Post file job ID     : $pid
Defaults file ID     : $did
View Factor file ID  : $vid
Save generated module: $prgsav
MPI library          : $MPITYPE
DDM processes        : $nprocdddmprint
Element loop threads : $nteprint
Solver processes     : $nsolverprint
Solver threads       : $ntsprint"
if test "$iprintsimufact" = true ; then
 echo "DDM with ARC Mapper  : $ddm_arc"
fi
echo \
"GPGPU option         : $gpuids
Host file name       : $host
Message passing type : $itree
Run job in queue     : $qid
Run directory        : $DIRJOB
Scratch directory    : $DIRSCR
Memory limit in Mbyte: $memlimit"


case $qid in
	s* | S* | l* | L* | v* | V* )
	echo \
"Queue priority       : $priority
Queue CPU limit      : $cpu
Queue start time     : $att"
	;;
#	* )
#	echo \
#" "
#	;;
esac

if test "$modeoption"
then
 error=$modeerror
fi

if test "$error"
then
	if test $verify = yes
	then
	$ECHO "$error

Please correct or quit(correct,quit,<correct>): $ECHOTXT"
		error=
		read answer
		case $answer in
			q* | Q*)
				answer=quit
			;;
			*)
				answer=correct
			;;
		esac
	else
         $ECHO "$error
         $ECHOTXT"
         echo " "
         if test "$deletelog" = no
         then
          $ECHO "$error
          $ECHOTXT"  >> $jid.log
          echo " "  >> $jid.log
         fi
         answer=quit
	fi
else
	if test $verify = yes
	then
		$ECHO "
Are these parameters correct (yes,no,quit,<no>)? $ECHOTXT"
		read answer
		case $answer in
			q* | Q*)
				answer=quit
			;;
			y* | Y*)
				answer=yes
			;;
			*)
				answer=no
			;;
		esac
	else
		answer=yes
	fi
fi

case $answer in
	no | correct)

##############################################################################
#        prompt for each value                                               #
##############################################################################

		$ECHO "
Program name ($prog)? $ECHOTXT"
		read value
		if test "$value"
		then
			prog=$value
		fi
		$ECHO "Job ID ($jid)? $ECHOTXT"
		read value
		if test "$value"
		then
                  jid=`$BASENAME $value $dotdat`
                  DIRJID=`dirname $value`
                  case $DIRJID in
                    \/*)
                    ;;
                    *)
                      DIRJID=`pwd`/$DIRJID
                    ;;
                  esac        
                fi
		$ECHO "User subroutine name ($user)? $ECHOTXT"
		read value
		if test "$value"
		then
                  case $value in
                    -*)
                      user=
                    ;;
                    *)
                      user=$value
                      case $user in
                        \/*)
                        ;;
                        *)
                          user=`pwd`/$user
                        ;;
                      esac        
					  usernoext=$user
					  usernoext=`dirname $usernoext`/`$BASENAME $usernoext .f`
					  usernoext=`dirname $usernoext`/`$BASENAME $usernoext .F`
					  usernoext=`dirname $usernoext`/`$BASENAME $usernoext .for`
					  usernoext=`dirname $usernoext`/`$BASENAME $usernoext .f90`
                    ;;
                  esac
		fi
		$ECHO "User objects or libraries ($objs)? $ECHOTXT"
		read value
		if test "$value"
		then
                  case $value in
                    -*)
                      objs=
                    ;;
                    *)
                      objs="$value"
                    ;;
                  esac
		fi
		$ECHO "Restart File Job ID ($rid)? $ECHOTXT"
		read value
		if test "$value"
		then
                  case $value in
                    -*)
                      rid=
                    ;;
                    *)
                      rid=`$BASENAME $value .t08`
                      DIRRID=`dirname $value`
                      case $DIRRID in
                         \/*)
                         ;;
                         *)
                           DIRRID=`pwd`/$DIRRID
                         ;;
                      esac
                    ;;
                  esac
		fi
		$ECHO "Substructure File ID ($sid)? $ECHOTXT"
		read value
		if test "$value"
		then
                  case $value in
                    -*)
                      sid=
                    ;;
                    *)
                      sid=$value
                      DIRSID=`dirname $value`
                      case $DIRSID in
                        \/*)
                        ;;
                        *)
                          DIRSID=`pwd`/$DIRSID
                        ;;
                      esac
                    ;;
                  esac
		fi
		$ECHO "Post File Job ID ($pid)? $ECHOTXT"
		read value
		if test "$value"
		then
                  case $value in
                    -*)
                      pid=
                    ;;
                    *)
                      pid=$value
                      DIRPID=`dirname $value`
                      case $DIRPID in
                        \/*)
                        ;;
                        *)
                          DIRPID=`pwd`/$DIRPID
                        ;;
                      esac
                    ;;
                  esac
		fi
                $ECHO "Defaults File ID ($did)? $ECHOTXT"
                read value
                if test "$value"
                then
                  case $value in
                    -*)
                      did=
                    ;;
                    *)
                      did=`$BASENAME $value $dotdat`
                      DIRDID=`dirname $value`
                      case $DIRDID in
                        \/*)
                        ;;
                        *)
                          DIRDID=`pwd`/$DIRDID
                        ;;
                      esac
                    ;;
                  esac
                fi
                $ECHO "View Factor File ID ($vid)? $ECHOTXT"
                read value
                if test "$value"
                then
                  case $value in
                    -*)
                      vid=
                    ;;
                    *)
                      vid=`$BASENAME $value .vfs`
                      DIRVID=`dirname $value`
                      case $DIRVID in
                        \/*)
                        ;;
                        *)
                          DIRVID=`pwd`/$DIRVID
                        ;;
                      esac        
                    ;;
                  esac
                fi
		$ECHO "Save generated module ($prgsav)? $ECHOTXT"
		read value
		if test "$value"
		then
			prgsav=$value
		fi
		$ECHO "Run on tasks ($nprocdddm) tasks? $ECHOTXT"
		read value
		if test "$value"
		then
			nprocdddm=$value
			nprocdddmprint=$value
		fi
		$ECHO "Run on ($nte) Element loop threads ? $ECHOTXT"
		read value
		if test "$value"
		then
			nte=$value
		fi
		$ECHO "Run on ($nsolver) solvers ? $ECHOTXT"
		read value
		if test "$value"
		then
			nsolver=$value
		fi
		$ECHO "Run on ($nts) Solver threads ? $ECHOTXT"
		read value
		if test "$value"
		then
			nts=$value
		fi
#
		if test $nprocdddm -gt 0
		then
		nprocd=$nprocdddm
		fi
		if test $nsolver -gt 0
		then
		  if test $nsolver -gt $nprocd 
		  then
		  nprocd=$nsolver
		  fi
		fi
# Element loop threads.
		if test $nte -eq -1
		then
		  nte=${MARC_NUMBER_OF_THREADS:-0}
		fi
		if test $nte -lt 0
		then
		  nte=0
		fi
		nteprint=$nte
#       Copy from ddm
        if test $nprocdddm -gt 1
		  then
		    nteprint=$nprocdddm
        fi
#       override with -nthread_elem option
        if test $nte -ne 0
        then
          nteprint=$nte
        fi
#       check for minimum 1 threads per processes for DDM
        if test $nprocdddm -ne 0
        then
          if test $nteprint -lt $nprocdddm
          then
          nteprint=$nprocdddm
          fi
        fi
        nte=$nteprint
# Solver threads.
		if test $nts -eq -1
		then
		  nts=${MARC_NUMBER_OF_THREADS:-0}
		fi
		if test $nts -lt 0
		then
		  nts=0
		fi
		ntsprint=$nts
#       Copy from ddm
        if test $nprocdddm -gt 1
		  then
		    ntsprint=$nprocdddm
        fi
#       override with -nthread_solver option
        if test $nts -ne 0
        then
          ntsprint=$nts
        fi
#       check for minimum 1 threads per solver process.
        if test $nsolver -lt $nprocdddm
        then
          if test $ntsprint -lt $nsolver
          then
            ntsprint=$nsolver
          fi
        else
          if test $ntsprint -lt $nprocdddm
          then
            ntsprint=$nprocdddm
          fi
        fi
        if test $ntsprint -eq 1
        then
          set ntsprint=0
        fi
        nts=$ntsprint
#       Update print variable for -nsolver option
        nsolverprint=$nsolver
        if test $nsolver -eq 0
        then
          nsolverprint=
        fi
		$ECHO "GPGPU id option ($gpuids)? $ECHOTXT"
		read value
		if test "$value"
		then
			gpuids=$value
		fi
                if test "$gpuids" = "" ; then
                  gpuoption=
                else
                  gpuoption="-gp $gpuids"
                fi
                if test "$gpuids" = "" ; then
                 export LD_LIBRARY_PATH=$CUDALIB1:$LD_LIBRARY_PATH
                else
                 MARCCUDALIBS=$MARCCUDALIBS2
                 export LD_LIBRARY_PATH=$CUDALIB2:$LD_LIBRARY_PATH
                fi
                if test $MPITYPE = hpmpi -a "$ARCHITECTURE" = "linux_amd64"
                then
                 export MPIHPSPECIAL="$MPIHPSPECIAL -e LD_LIBRARY_PATH=$LD_LIBRARY_PATH"
                fi
#
		if test $nprocd -gt 1
		then
		  $ECHO "Message passing type ($itree)? $ECHOTXT"
		  read value
		  if test "$value"
		  then
			  itree=$value
		  fi
		  $ECHO "Host file name ($host)? $ECHOTXT"
		  read value
		  if test "$value"
		  then
			  host=$value
		  fi
		  if test $nprocdddm -gt 1
		  then
		  $ECHO "Single input file? $ECHOTXT"
		  read value
		  case $value in
			y* | Y*)
			  icreated=1
			  nprocdarg=-nprocds
			;;
	          esac
		  $ECHO "Compatible machines for DDM ($compatible)? $ECHOTXT"
		  read value
		  if test "$value"
		  then
			  compatible=$value
		  fi
		  $ECHO "Copy input files to remote hosts ($cpinput)? $ECHOTXT"
		  read value
		  if test "$value"
		  then
			  cpinput=$value
		  fi
		  $ECHO "Copy post files from remote hosts ($cpresults)? $ECHOTXT"
		  read value
		  if test "$value"
		  then
			  cpresults=$value
		  fi
		  fi
		fi
		$ECHO "Run the job in the queue ($qid)? $ECHOTXT"
		read value
		if test "$value"
		then
			qid=$value
		fi
		case $qid in 
			s* | S* | l* | L* | v* | V* )
			$ECHO "Queue priority ($priority)? $ECHOTXT"
			read value
			if test "$value"
			then
				priority=$value
			fi
			$ECHO "Job starts at ($att)? $ECHOTXT"
			read value
			if test "$value"
			then
				att=$value
			fi
			$ECHO "Queue CPU limit ($cpu)? $ECHOTXT"
			read value
			if test "$value"
			then
				cpu=$value
			fi
			;;
			* )
			;;
		esac
                $ECHO "Run directory ($DIRJOB)? $ECHOTXT"
                read value
                if test "$value"
                then
                    DIRJOB=$value
                    DIRSCR=$DIRJOB
                fi
                $ECHO "Scratch directory ($DIRSCR)? $ECHOTXT"
                read value
                if test "$value"
                then
                    DIRSCR=$value
                fi
	;;
	quit)
                if test "$deletelog" = no -a $oversubscribe = true
                then
                 echo " "  >> $jid.log
                 echo "        Exit number 8" >> $jid.log
                 echo " "  >> $jid.log
                fi
		exit 1
	;;
	*)
		break
	;;

esac

  if test $nt -eq -1
  then
  nt=${MARC_NUMBER_OF_THREADS:-0}
  fi
  if test $nt -lt 0
  then
  nt=0
  fi

done
#
if test $nt -eq 0 
then 
  ntarg=
fi  
if test $nt -eq 0 
then 
  ntprint=
fi  
if test $nt -eq 0 
then 
  nt=
fi

if test $nte -eq 0 
then 
  ntearg=
fi  
if test $nte -eq 0 
then 
  nteprint=
fi  
if test $nte -eq 0 
then 
  nte=
fi

if test $nts -eq 0 
then 
  ntsarg=
fi  
if test $nts -eq 0 
then 
  ntsprint=
fi  
if test $nts -eq 0 
then 
  nts=
fi
#
if test "$dllrun" -gt 0; then
  exefile=exe_marc
  prog=exe_marc
  program=$exefile
  bd=$MARC_BIN/
  if test "$user"; then
   . $MARC_TOOLS/make_marc_user_dll $DIRJOB $user
     user=
     pathdll=yes
     if test $prgsav = no; then
       rmdll=yes
     fi
     if test $prgsav = yes; then
       cpdll=yes
       rmdll=yes
     fi
  fi

  if test "$pathdll"; then
#
# reset share lib path
#
    if test $MACHINENAME = "HP"
    then
      SHLIB_PATH=$DIRJOB:$SHLIB_PATH
      export SHLIB_PATH
    fi
    if test $MACHINENAME = "IBM"
    then
      LIBPATH=$DIRJOB:$LIBPATH
      export LIBPATH
    fi
#
    LD_LIBRARY_PATH=$DIRJOB:$LD_LIBRARY_PATH
    LD_LIBRARY64_PATH=$DIRJOB:$LD_LIBRARY64_PATH
    LD_LIBRARYN32_PATH=$DIRJOB:$LD_LIBRARYN32_PATH
    export LD_LIBRARY_PATH
    export LD_LIBRARY64_PATH
    export LD_LIBRARYN32_PATH
  fi
fi
# end of dllrun>0


if test $program = $exefile -o $program = $prog.marc
then

# delete the old .log file unless we run in the background
if test "$deletelog" = yes
then
 if test "$jid"
 then
 /bin/rm $jid.log 2>/dev/null
 fi
else
 echo
 echo running the job in the background, see $jid.log
 echo
fi

#
# check if this is an autoforge or rezoning or radiation job
#
if test $nprocd -eq 1 -a "$jid"

then
  line=`$AWK '/^[eE][nN][dD]/ {exit} ; {print}' $DIRJID/${jid}$dotdat | grep -i "^autoforge"`
  if test "$line"
  then
   autoforge=1
  fi
  line=`$AWK '/^[eE][nN][dD]/ {exit} ; {print}' $DIRJID/${jid}$dotdat | grep -i "^rezoning"`
  if test "$line"
  then
   autoforge=1
  fi
  line=`$AWK '/^[eE][nN][dD]/ {exit} ; {print}' $DIRJID/${jid}$dotdat | grep -i "^radiation"`
  if test "$line"
  then
   autoforge=1
  fi
fi
#
# check that jobname for restarted run is not the same
# as restart file basename
#
if test "$rid"
then
 if test "$jid" = "$rid"
 then
  echo " "
  echo "ERROR: job name of current run is the same as job name"
  echo "       of the restarted job"
  echo " "
  if test "$deletelog" = no
  then
   echo " "  >> $jid.log
   echo "ERROR: job name of current run is the same as job name" >> $jid.log
   echo "       of the restarted job" >> $jid.log
   echo " " >> $jid.log
   echo "        Exit number 8" >> $jid.log
   echo " " >> $jid.log
  fi
  exit 1
 fi
fi

#
# user objects/libraries used
#

  if test "$objs"
  then
    program="$DIRJOB/$jid.marc"
    case $program in
      \/* | \.\/*)
        bd=
        ;;
      *)
        bd=`pwd`/
        ;;
    esac
    link=yes
  fi

#
# user subroutine used
#
# add DAMASK options for linking
  DAMASK="-lstdc++"

  if test "$user"
  then
    program=$usernoext.marc
    case $program in
      \/* | \.\/*)
        bd=
        ;;
      *)
        bd=`pwd`/
        ;;
    esac
    link=yes
  fi

#
# Special case for IBM using POE but not an SP machine
#  in this case we always need a host file, also for serial jobs.
#
if test $MACHINENAME = IBM -a $MPITYPE = hardware -a "$MACHINETYPE" = NONSP
then
 MP_HOSTFILE=${jid}.host
 if test -f $jid.host
 then
  /bin/rm $jid.host 2> /dev/null
 fi
 if test $nprocd -gt 1
 then
  numdom=$nprocd
  while test $numdom -gt 0
  do
   hostname -s >> $MP_HOSTFILE
   numdom=`echo $numdom | $AWK  '{sum=$1-1}; {print sum}'`
  done
 else
  hostname -s > $MP_HOSTFILE
 fi
fi
#
# check ssh for all hosts in host file
#
if test $nprocd -gt 1
then
if test $MPITYPE = "intelmpi" -a "$INTELMPI_VERSION" = "HYDRA"
  then
# get host list
  if test "$host"
  then
    line=`grep -v '^#' $host | $AWK '{host=$1;num=$2;for (i=1;i<=num;i++) print host}' | uniq`
#   count failing hosts
    counter=0
    for i in $line
    do
      $RSH -o  BatchMode=yes -o ConnectTimeout=10 $i uname -n
      status=$?
      if [[ $status != 0 ]] ; then
        counter=$((counter+1))
        if [ "$counter" = "1" ]; then
          echo " "
          echo " error - connection test failed... "
          echo " "
        fi
        echo " "
        echo " connection test with ssh failed on host $i"
        echo " check the following command: ssh $i uname -n "
        echo " "
      fi
    done
#   echo error message and quit
    if test $counter -ne 0
    then
      echo " "
      echo " A parallel job using IntelMPI cannot be started.   "
      echo " The ssh command must be working correctly between  "
      echo " the computers used in the analysis. Furthermore,   "
      echo " it must be set up such that it does not prompt the "
      echo " user for a password.                               "
      echo " "
      if test "$deletelog" = no
      then
        echo " " >> $jid.log
        echo " A parallel job using IntelMPI cannot be started.   ">> $jid.log
        echo " The ssh command must be working correctly between  ">> $jid.log
        echo " the computers used in the analysis. Furthermore,   ">> $jid.log
        echo " it must be set up such that it does not prompt the ">> $jid.log
        echo " user for a password.                               ">> $jid.log
        echo " " >> $jid.log
        echo "        Exit number 8" >> $jid.log
        echo " " >> $jid.log
      fi
      exit 1
    fi
  fi
fi
fi
#
# check correctness of host file; fix for user sub
#
  if test $nprocd -gt 1
  then

# construct the path name to the executable (execpath)
    execpath=$MARC_BIN/$exefile
    usersub=0
    if test $program = $prog.marc
    then
     execpath=$prog.marc
     usersub=1
    fi
    if test "$objs"
    then
     execpath="$DIRJOB/$jid.marc"
     usersub=1
    fi
    if test "$user"
    then
     execpath=$usernoext.marc
     usersub=1
    fi
    export execpath      
    execname=`$BASENAME $execpath`

    if test "$host"
    then
      userhost=$host
      case $userhost in
        \/* | \.\/*)
          ;;
        *)
          userhost=`pwd`/$userhost
          ;;
      esac

# check that the number of processes specified in the hostfile is
# equal to nprocd specified by -nprocd.
      numproc=`grep -v '^#' $host | $AWK -v sum=0 '{sum=sum+$2}; END {print sum}'`
      if test $nprocd -ne $numproc
      then
        echo " "
        echo "error, the number of processes specified in the host file"
        echo "must be equal to the number of processes given by -nprocd/-nsolver"
        echo " "
        if test "$deletelog" = no
        then
        echo " " >> $jid.log
        echo "error, the number of processes specified in the host file" >> $jid.log
        echo "must be equal to the number of processes given by -nprocd/-nsolver" >> $jid.log
        echo " " >> $jid.log
        fi
        exit 1
      fi

# check for Myrinet that the number of processes per host is 
# less than number of available user ports, 5
# .gmpi directory must exist in user's home directory
# and must have write permission from remote hosts
      if test $MPITYPE = "myrinet"
      then
        numproc=`grep -v '^#' $host | $AWK -v sum=1 '{if( $2 > 5) sum=6}; END {print sum}'`
        if test $numproc -gt 5
        then
          echo " "
          echo "error, for Myrinet the number of processes specified "
          echo "in the hostfile must not exceed 5 for a hostname"
          echo " "
          if test "$deletelog" = no
          then
          echo " " >> $jid.log
          echo "error, for Myrinet the number of processes specified " >> $jid.log
          echo "in the hostfile must not exceed 5 for a hostname" >> $jid.log
          echo " " >> $jid.log
          fi
          exit 1
        fi
        if test $MPIVERSION = "MPICH-GM1.2.1..7"
        then
          if test ! -d ~/.gmpi
          then
            echo " "
            echo "error, for Myrinet a .gmpi directory must exist "
            echo "under the user's home directory"
            echo " "
            if test "$deletelog" = no
            then
            echo " " >> $jid.log
            echo "error, for Myrinet a .gmpi directory must exist " >> $jid.log
            echo "under the user's home directory" >> $jid.log
            echo " " >> $jid.log
            fi
            exit 1
          fi
        fi
        if test $MPIVERSION = "MPICH-GM1.2.1..7"
        then
          homedir=`echo ~`
          for i in `grep -v '^#' $host | $AWK '{if (NF > 0) print $1}'`
          do
            ibase=${i%%.*}
            if test $ibase != $thishost
            then
              $RSH $i /bin/touch $homedir/.gmpi/$jid.$$ 2> tmp.$$
              if test -s tmp.$$
              then
                echo " "
                echo "error, for Myrinet a shared .gmpi directory must exist "
                echo "under the user's home directory "
                echo "with remote write permission"
                echo " "
                if test "$deletelog" = no
                then
                echo " " >> $jid.log
                echo "error, for Myrinet a shared .gmpi directory must exist " >> $jid.log
                echo "under the user's home directory " >> $jid.log
                echo "with remote write permission" >> $jid.log
                echo " " >> $jid.log
                fi
                exit 1
              else
                /bin/rm tmp.$$
                if test -f $jid.$$
                then
                 /bin/rm $jid.$$
                fi
              fi
            fi
          done
        fi
      fi

# construct the host file $jid.host which is used by mpirun
# skip lines starting with # and only consider lines with more than
# one word in them. Note that the hostfile given to this script
# has two columns: the host name and the number of shared processes
# to run on this host. mpirun wants the number of _other_
# processes to run in addition to the one being run on the machine
# on which the job is started. hence the $2-1 for fnr == 1.
      if test -f $jid.host
      then
        /bin/rm $jid.host 2> /dev/null
      fi
      if test $MPITYPE = hpmpi -o $MACHINENAME = HP -a $MPITYPE = hardware
      then
#     HPMPI or HP hardware MPI
        grep -v '^#' $host | $AWK -v path=$execpath -v en=$execname -v us=$usersub \
                                  -v mpihpspecial="$MPIHPSPECIAL" \
'{if ( NF > 0) {\
   fnr++ ; \
   printf("-h %s -np %s",$1,$2); \
   printf(" %s",mpihpspecial); \
   if ( NF == 2 ) printf(" %s\n",path);\
        if ( NF >= 3 ) printf(" -e MPI_WORKDIR=%s", $3);\
   if ( NF >= 3 ) if (us) printf(" %s/%s\n",$3,en); else printf(" %s\n",path) \
  }\
 }' > $jid.host
#     end HPMPI or HP hardware MPI
      elif test $MACHINENAME = IBM -a $MPITYPE = hardware -a "$MACHINETYPE" = NONSP
      then
#   IBM using hardware MPI (POE)
        MP_HOSTFILE=$jid.host
        grep -v '^#' $host | $AWK '{host=$1;num=$2;for (i=1;i<=num;i++) print host}' > $jid.host
#   end IBM using hardware MPI (POE)
# for Intel MPI, need to create a machinefile for DMP
      elif test $MACHINENAME = "LINUX" -a  $MPITYPE = "intelmpi"
      then
#   Intel MPI
        if test -f $jid.mfile
        then 
          /bin/rm $jid.mfile 2> /dev/null
        fi 
	/bin/cp $host $jid.host
        grep -v '^#' $host | $AWK '{host=$1;num=$2;for (i=1;i<=num;i++) print host}' > $jid.mfile
#   end Intel MPI for DMP
# for Solaris HPC 7.1, need to create a machinefile for DMP
      elif test $MACHINENAME = "SUN" -a  $MPITYPE = "hardware"
      then
#   Solaris HPC 7.1
        if test -f $jid.mfile
        then
          /bin/rm $jid.mfile 2> /dev/null
        fi
        grep -v '^#' $host | $AWK '{host=$1;num=$2;for (i=1;i<=num;i++) print host}' > $jid.mfile
#   end Solaris HPC 7.1 for DMP
# for Myrinet, construct a configuration file in ~/.gmpi
# this must be readable by each process
# format is (hostname) (port number) for each process
      elif test $MPITYPE = "myrinet"
      then
        if test $MPIVERSION = "MPICH-GM1.2.1..7"
        then
          echo $nprocd > ~/.gmpi/$jid.host
          grep -v '^#' $host | $AWK \
'BEGIN {iport[0] = 2; \
          iport[1] = 4; \
          iport[2] = 5; \
          iport[3] = 6; \
          iport[4] = 7 \
       } \
{if ( NF > 0 ) \
   for(iproc = 0; iproc < $2; iproc++) printf("%s %d\n",$1,iport[iproc]); \
}' >> ~/.gmpi/$jid.host
        else
# this is for mpich-1.2.5 and later, using the -pg option
# format: host nproc executable user arguments
# the arguments are added later
        grep -v '^#' $host | $AWK -v path=$execpath -v en=$execname -v us=$usersub -v user=`whoami` \
'{if ( NF > 0) {\
   fnr++ ; \
   if ( fnr == 1 ) printf("%s %d",$1,$2-1); \
   else printf("%s %s",$1,$2); \
   if ( NF == 2 ) printf(" %s %s\n",path,user);\
   if ( NF == 3 ) if (us) printf(" %s/%s %s\n",$3,en,user); else printf(" %s %s\n",path,user) ;\
   if ( NF == 4 ) if (us) printf(" %s/%s %s\n",$3,en,user); else printf(" %s/bin/%s %s\n",$4,en,user)  \
  }\
 }' > $jid.host
        fi
#   end Myrinet
      elif test $MACHINENAME = DEC -a $MPITYPE = hardware
      then
#   Compaq MPI via Memory Channel
        grep -v '^#' $host | $AWK '{if (NF > 0) print $1}' > $jid.host
#   end Compaq MPI
      else
#   MPICH
        grep -v '^#' $host | $AWK -v path=$execpath -v en=$execname -v us=$usersub \
'{if ( NF > 0) {\
   fnr++ ; \
   if ( fnr == 1 ) printf("%s %d",$1,$2-1); \
   else printf("%s %s",$1,$2); \
   if ( NF == 2 ) printf(" %s\n",path);\
   if ( NF == 3 ) if (us) printf(" %s/%s\n",$3,en); else printf(" %s\n",path) ;\
   if ( NF == 4 ) if (us) printf(" %s/%s\n",$3,en); else printf(" %s/bin/%s\n",$4,en)  \
  }\
 }' > $jid.host
      fi
# define the variable host and host_filt
# host_filt is used for loops over hosts
#  for Myrinet we need to use a filtered variant of userhost
#  for others we can use $host
      if test $MPITYPE = "myrinet"
      then
        if test $MPIVERSION = "MPICH-GM1.2.1..7"
        then
          host=~/.gmpi/$jid.host
	  host_filt=$jid.host_tMp
          grep -v '^#' $userhost | $AWK  '{if (NF > 0) print $1}' > $host_filt
        else
          host=$jid.host
          host_filt=$host
        fi
      else
        host=$jid.host
        host_filt=$host
        if test $MACHINENAME = "LINUX" -a $MPITYPE = "intelmpi" 
        then
          host_filt=$jid.mfile
        fi
      fi
# figure out if the machines in the hostfile are nfs mounted
# or distributed and set the variable "dirstatus" accordingly.
# only perform the check if user subroutine is used
# or a user subroutine executable is used
 
      numfield=1
      if test $MPITYPE = hpmpi -o $MACHINENAME = HP -a $MPITYPE = hardware
      then
       numfield=2
      fi
      DIR1=$DIRJOB
      if test $program = $prog.marc -o -n "$user" -o -n "$objs"
      then
        counter=0
        echo " "
        echo "checking if local or shared directories for host"
        if test "$deletelog" = no
        then
        echo "checking if local or shared directories for host" >> $jid.log
        fi
        for i in `$AWK -v n=$numfield '{print $n}' $host_filt`
        do
          ibase=${i%%.*}
          if test $ibase != $thishost
          then
            counter=$((counter+1))
            dirstatus[$counter]="shared"
            $ECHO " $i $ECHOTXT"
            if test "$deletelog" = no
            then
            $ECHO " $i $ECHOTXT" >> $jid.log
            fi
            DIR1=$DIRJOB
            line=`grep -v '^#' $userhost | grep "^$ibase "`
            workdir=`echo $line | $AWK '{print $3}'`
            if test -n "$workdir"
            then
              DIR1=$workdir
            fi
            if test -f $jid.$$
            then
              /bin/rm $jid.$$
            fi
            $RSH $i /bin/touch $DIR1/$jid.$$ 2> tmp.$$
            if test -s tmp.$$
            then
              dirstatus[$counter]="local"
              /bin/rm tmp.$$
            else
              if test ! -f $jid.$$
              then
                dirstatus[$counter]="local"
                $RSH $i /bin/rm $DIR1/$jid.$$
              else
                /bin/rm $jid.$$
              fi
            fi
            if test -f tmp.$$
            then
              /bin/rm tmp.$$
            fi
            if test -f $jid.$$
            then
              /bin/rm $jid.$$
            fi
            echo "  ${dirstatus[$counter]}"
            if test "$deletelog" = no
            then
            echo "  ${dirstatus[$counter]}" >> $jid.log
            fi
          fi
        done
        echo " "
        if test "$deletelog" = no
        then
        echo " " >> $jid.log
        fi
      fi

# figure out if this is a compatible set of machines
# unless explicitly specified with flag -comp
# only perform the check if user subroutine is used
# or a user subroutine executable is used
# Myrinet does not support heterogeneous
      if test $program = $prog.marc -o -n "$user" -o -n "$objs"
      then
      if test $compatible = "unknown"
      then
        thisname=$ARCH
        compatible=yes
        counter=0
        echo "checking if machines are compatible for host"
        if test "$deletelog" = no
        then
        echo "checking if machines are compatible for host" >> $jid.log
        fi
        for i in `$AWK -v n=$numfield '{print $n}' $host_filt`
        do
          ibase=${i%%.*}
          if test $ibase != $thishost
          then
            counter=$((counter+1))
            compstatus[$counter]="yes"
            $ECHO  " $i $ECHOTXT"
            if test "$deletelog" = no
            then
            $ECHO  " $i $ECHOTXT" >> $jid.log
            fi
            othername=`$RSH $i uname -a | cut -f 1 -d " "`
            if test $thisname != $othername
            then
              compatible=no
              compstatus[$counter]="no"
            fi
          fi
          echo "  ${compstatus[$counter]}"
          if test "$deletelog" = no
          then
          echo "  ${compstatus[$counter]}" >> $jid.log
          fi
        done
        echo " "
        if test "$deletelog" = no
        then
         echo " " >> $jid.log
        fi
      else
        counter=0
        for i in `$AWK -v n=$numfield '{print $n}' $host_filt`
        do
          ibase=${i%%.*}
          if test $ibase != $thishost
          then
            counter=$((counter+1))
            compstatus[$counter]=$compatible
          fi
        done
        if test $compatible = "no"
        then
          echo "all machines assumed incompatible"
          if test "$deletelog" = no
          then
          echo "all machines assumed incompatible" >> $jid.log
          fi
        else
          echo "all machines compatible"
          if test "$deletelog" = no
          then
          echo "all machines compatible" >> $jid.log
          fi
        fi
      fi
# error out if user objects or libraries are used on incompatible machines
      if test "$compatible" = "no" -a -n "$objs"
      then
        echo "User object/libraries cannot be used in a parallel job on incompatible machines"
        if test "$deletelog" = no
        then
          echo "User object/libraries cannot be used in a parallel job on incompatible machines" >> $jid.log
        fi
        exit 1
      fi
# modify new host file if NFS mounted heterogeneous machine
      doit=
      if test $program = $prog.marc 
      then
        doit=yes
      fi
      if test "$user"
      then
        doit=yes
      fi
      if test "$doit"
      then
        counter=0
        for i in `$AWK -v n=$numfield '{print $n}' $host_filt`
        do
          ibase=${i%%.*}
          if test $ibase != $thishost
          then
            counter=$((counter+1))
            if test ${dirstatus[$counter]} = "shared" -a  ${compstatus[$counter]} = "no"
            then
              $AWK -v hst=$i '{fnr++ ; \
if ($1 ~ hst) {if ( fnr == 1 ) printf("%s\n",$0); else \
printf("%s %s %s_%s\n",$1,$2,$3,$1) } else print}' $jid.host > $jid.host{$$}
        /bin/mv $jid.host{$$} $jid.host
              host=$jid.host
            fi            
          fi
        done        
      fi
      fi  #   if test $program = $prog.marc -o $user -o $obj
 
    else   # if test $host
      # assume shared memory machine if no hostfile given and
      # MPITYPE is set to mpich or Myrinet
      # check for Myrinet that the total number of processes is 
      # less than number of available user ports, 5
      if test $MPITYPE = "mpich" -o $MPITYPE = "scali"
      then
        numproc=`echo $nprocd | $AWK '{sum=$1-1}; {print sum}'`
        echo `hostname` $numproc $execpath > $jid.host
        host=$jid.host
      elif test $MPITYPE = "myrinet" 
      then
        if test $nprocd -gt 5
        then
          echo " "
          echo "error, for Myrinet the number of processes "
          echo "must not exceed 5 for a hostname"
          echo " "
          if test "$deletelog" = no
          then
          echo " " >> $jid.log
          echo "error, for Myrinet the number of processes " >> $jid.log
          echo "must not exceed 5 for a hostname" >> $jid.log
          echo " " >> $jid.log
          fi
          exit 1
        fi
        if test $MPIVERSION = "MPICH-GM1.2.1..7"
        then
        echo $nprocd > ~/.gmpi/$jid.host
        echo `hostname` $nprocd | $AWK \
'BEGIN {iport[0] = 2; \
        iport[1] = 4; \
        iport[2] = 5; \
        iport[3] = 6; \
        iport[4] = 7 \
       } \
   {for(iproc = 0; iproc < $2; iproc++) printf("%s %d\n",$1,iport[iproc])} \
' >> ~/.gmpi/$jid.host
        host=~/.gmpi/$jid.host
        else
        numproc=`echo $nprocd | $AWK '{sum=$1-1}; {print sum}'`
        echo `hostname` $numproc $execpath > $jid.host

      fi
      fi  # if test myrinet

    fi     # if test $host

  fi  # if test $nprocd -gt 1
 
fi    # if test $program = $exefile -o $program = $prog.marc

##############################################################################
#         construct run stream (Marc only)                                   #
##############################################################################

# set maximum message length for ddm to a large number
# for vendor provided mpi
if test $itree -eq 0 -a $MPITYPE = hardware
then
 itree=100000000
 if test $MACHINENAME = SGI
  then
   itree=100000001
  fi
fi
if test $itree -eq 0 -a $MPITYPE = hpmpi
then
 itree=100000000
fi
if test $itree -eq 0 -a $MPITYPE = myrinet
then
 itree=100000000
fi
if test $itree -eq 0 -a $MPITYPE = nec
then
 itree=100000000
fi
if test $itree -eq 0 -a $MPITYPE = scali
then
 itree=100000000
fi
if test $itree -eq 0 -a $MPITYPE = intelmpi
then
 itree=100000000
fi
if test $nprocdddm -lt 2
then
 nprocdarg=
else
 nprocdarg="$nprocdarg $nprocdddm"
fi
if test $nsolver -eq 0
then
 nsolverarg=
else
 nsolverarg="$nsolverarg $nsolver"
fi
if test $nprocdddm -lt 2 -a $nsolver -eq 0
then 
nprocd=0
fi
if test $nprocd -gt 0
then
 if test "$host"
 then
   if test -z "$RUN_JOB2"
   then
    echo " "
    echo "error: parallel job attempted on non-parallel version,"
    echo "       or, if parallel version is installed, the include " 
    echo "       file is probably corrupted"
    echo " "
    if test "$deletelog" = no
    then
    echo " " >> $jid.log
    echo "error: parallel job attempted on non-parallel version," >> $jid.log
    echo "       or, if parallel version is installed, the include "  >> $jid.log
    echo "       file is probably corrupted" >> $jid.log
    echo " " >> $jid.log
    fi
    exit
   fi
   if test $MPITYPE = hpmpi -o $MACHINENAME = HP -a $MPITYPE = hardware
   then
    RUN_JOB="$RUN_JOB2 $host -- -jid $jid -dirjid $DIRJID \
$nprocdarg \
$nsolverarg \
-maxnum $MAXNUM -itree $itree \
$ntearg $nte $ntsarg $nts $gpuoption -dirjob $DIRJOB "
   elif test $MACHINENAME = IBM -a $MPITYPE = hardware -a "$MACHINETYPE" = NONSP
   then
    RUN_JOB="$RUN_JOB2 $bd$program -jid $jid -dirjid $DIRJID \
$nprocdarg \
$nsolverarg \
-maxnum $MAXNUM -itree $itree \
$ntearg $nte $ntsarg $nts $gpuoption -dirjob $DIRJOB "
   elif test $MPITYPE = "myrinet"
   then
    if test $MPIVERSION = "MPICH-GM1.2.1..7"
    then
     RUN_JOB="$RUN_JOB2 $host $bd$program -jid $jid -dirjid $DIRJID \
$nprocdarg \
$nsolverarg \
-maxnum $MAXNUM -itree $itree \
$ntearg $nte $ntsarg $nts $gpuoption -dirjob $DIRJOB "
    else
     RUN_JOB_TMP="$RUN_JOB2 $host $bd$program"
     RUN_JOB=" -jid $jid -dirjid $DIRJID \
$nprocdarg \
$nsolverarg \
-maxnum $MAXNUM -itree $itree \
$ntearg $nte $ntsarg $nts $gpuoption -dirjob $DIRJOB "
    fi
   elif test $MACHINENAME = DEC -a $MPITYPE = hardware
   then
    RUN_JOB="$RUN_JOB2 $nprocd -hf $host $bd$program -jid $jid -dirjid $DIRJID \
$nprocdarg \
$nsolverarg \
-maxnum $MAXNUM -itree $itree \
$ntearg $nte $ntsarg $nts $gpuoption -dirjob $DIRJOB "
   elif test $MACHINENAME = "LINUX" -a $MPITYPE = "intelmpi"
   then
    numhost=`uniq $jid.mfile | wc -l`
    if test "$INTELMPI_VERSION" = "HYDRA"
    then
      RUN_JOB_TMP="$RUN_JOB2 -configfile $jid.cfile"
    else
      export I_MPI_JOB_CONTEXT=$$
      mpdboot -n $numhost -r $RSH -f $jid.mfile
      RUN_JOB_TMP="$RUN_JOB2 $jid.cfile"
    fi

# intelmpi uses configfile. format:
#    -host host1 -n n1 executable marcargs
# one such line per host
# collect the marcargs in RUN_JOB and construct the config file later
# collect the run stream in RUN_JOB_TMP
    RUN_JOB="-jid $jid -dirjid $DIRJID \
$nprocdarg \
$nsolverarg \
-maxnum $MAXNUM -itree $itree \
$ntearg $nte $ntsarg $nts $gpuoption -dirjob $DIRJOB "


   elif test $MACHINENAME = "SUN" -a $MPITYPE = "hardware"
   then
    RUN_JOB="$RUN_JOB2 $jid.mfile -n $nprocd $bd$program -jid $jid -dirjid $DIRJID \
$nprocdarg \
$nsolverarg \
-maxnum $MAXNUM -itree $itree \
$ntearg $nte $ntsarg $nts $gpuoption -dirjob $DIRJOB "
   else
    RUN_JOB="$RUN_JOB2 $host $bd$program -jid $jid -dirjid $DIRJID \
$nprocdarg \
$nsolverarg \
-maxnum $MAXNUM -itree $itree \
$ntearg $nte $ntsarg $nts $gpuoption -dirjob $DIRJOB "
   fi
   if test "$userhost"
   then
    RUN_JOB="$RUN_JOB -mhost $userhost"
   fi
   if test $MPITYPE = "scali"
   then
# set default working directory to /tmp to allow
# different directory names
    SCAMPI_WORKING_DIRECTORY=/tmp
    export SCAMPI_WORKING_DIRECTORY
   fi
 else
   if test -z "$RUN_JOB1"
   then
    echo " "
    echo "error: parallel job attempted on non-parallel version,"
    echo "       or, if parallel version is installed, the include " 
    echo "       file is probably corrupted"
    echo " "
    if test "$deletelog" = no
    then
    echo " " >> $jid.log
    echo "error: parallel job attempted on non-parallel version," >> $jid.log
    echo "       or, if parallel version is installed, the include "  >> $jid.log
    echo "       file is probably corrupted" >> $jid.log
    echo " " >> $jid.log
    fi
    exit
   fi
   RUNNPROCD=$nprocd
   if test $MACHINENAME = "IBM" -a $MPITYPE = "hardware"
   then
     RUNNPROCD=
     MP_PROCS=$nprocd
     export MP_PROCS
   fi
   if test $MPITYPE = "myrinet"
   then
     RUN_JOB="$RUN_JOB1 $RUNNPROCD  $bd$program -jid $jid -dirjid $DIRJID \
     $nprocdarg \
     $nsolverarg \
     -maxnum $MAXNUM -itree $itree \
     $ntearg $nte $ntsarg $nts $gpuoption -dirjob $DIRJOB "
   else
     RUN_JOB="$RUN_JOB1 $RUNNPROCD $bd$program -jid $jid -dirjid $DIRJID \
     $nprocdarg \
     $nsolverarg \
     -maxnum $MAXNUM -itree $itree \
     $ntearg $nte $ntsarg $nts $gpuoption -dirjob $DIRJOB "
   fi
   if test $MACHINENAME = "LINUX" -a $MPITYPE = "intelmpi"
   then
    if test "$INTELMPI_VERSION" = "HYDRA"
    then
      echo " " > /dev/null
    else
      export I_MPI_JOB_CONTEXT=$$
      mpdboot -n 1 -f $jid.hosts
    fi
    RUN_JOB="$RUN_JOB1 $RUNNPROCD $bd$program -jid $jid -dirjid $DIRJID \
     $nprocdarg \
     $nsolverarg \
     -maxnum $MAXNUM -itree $itree \
     $ntearg $nte $ntsarg $nts $gpuoption -dirjob $DIRJOB "
   fi
 fi
else
 if test $ndcoup -gt 0
 then
   RUN_JOB="$RUN_JOB0 $BINDIR/exe_auto $bd$program -jid $jid -dirjid $DIRJID \
-maxnum $MAXNUM \
 $ntearg $nte $ntsarg $nts $gpuoption -dirjob $DIRJOB "
 else
# this is for a serial job without auto restart:
   RUN_JOB="$RUN_JOB0 $bd$program -jid $jid -dirjid $DIRJID \
-maxnum $MAXNUM \
$ntearg $nte $ntsarg $nts $gpuoption -dirjob $DIRJOB "
 fi
fi
if test "$rid"
then
 RUN_JOB="$RUN_JOB -rid $rid -dirrid $DIRRID"
fi
if test "$pid"
then
 RUN_JOB="$RUN_JOB -pid $pid -dirpid $DIRPID"
fi
if test "$sid"
then
 RUN_JOB="$RUN_JOB -sid $sid -dirsid $DIRSID"
fi
if test "$did"
then
 RUN_JOB="$RUN_JOB -def $did -dirdid $DIRDID"
fi
if test "$vid"
then
 RUN_JOB="$RUN_JOB -vf $vid -dirvid $DIRVID"
fi
if test $ndcoup -gt 0
then
 RUN_JOB="$RUN_JOB -dcoup $ndcoup "
fi
if test $ndytran -gt 0
then
 RUN_JOB="$RUN_JOB -dytran $ndytran "
fi
if test $mesh -gt 0
then
 RUN_JOB="$RUN_JOB -me $mesh "
fi
if test $noutcore -gt 0
then
 RUN_JOB="$RUN_JOB -outcore $noutcore "
fi
if test "$dllrun" -gt 0
then
 RUN_JOB="$RUN_JOB -dll $dllrun "
fi
if test "$trkrun" -gt 0
then
 RUN_JOB="$RUN_JOB -trk $trkrun "
fi
if test "$iam"
then
 RUN_JOB="$RUN_JOB -iam $iam "
fi
if test "$justlist"
then
 RUN_JOB="$RUN_JOB -list 1 "
fi
if test "$feature"
then
 RUN_JOB="$RUN_JOB -feature $feature "
fi
if test "$memlimit" -ne 0
then
 RUN_JOB="$RUN_JOB -ml $memlimit "
fi
if test "$cpinput"
then
 RUN_JOB="$RUN_JOB -ci $cpinput "
fi
if test "$cpresults"
then
 RUN_JOB="$RUN_JOB -cr $cpresults "
fi
if test "$DIRSCR" != "$DIRJOB"
then
 RUN_JOB="$RUN_JOB -dirscr $DIRSCR"
else
 DIRSCR=$DIRJOB
fi
if test "$makebdf"
then
 RUN_JOB="$RUN_JOB -bdf $makebdf "
fi
if test $MPITYPE = "myrinet" -a "$host" -a "$MPIVERSION" != "MPICH-GM1.2.1..7"
then
 # append $RUN_JOB to all lines of the host file
 # and set RUN_JOB
 $AWK  -v args="$RUN_JOB" '{print $0,args}' $host > $host.$$
 /bin/mv $host.$$ $host
 RUN_JOB=$RUN_JOB_TMP
fi
if test $MPITYPE = "intelmpi" -a "$host"
then
  # construct config file, append $RUN_JOB to all lines of the config file
  # and set RUN_JOB
  if test "$INTELMPI_VERSION" = "HYDRA"
  then
    grep -v '^#' $host | $AWK -v args="$RUN_JOB" -v path=$execpath -v en=$execname -v us=$usersub \
    '{if ( NF > 0) {\
    printf(" -host %s",$1); \
    printf(" -n %s",$2); \
    if ( NF == 2 ) printf(" %s",path);\
    if ( NF >= 3 ) printf(" -wdir %s ",$3); \
    if ( NF >= 3 ) if (us) printf(" %s/%s",$3,en); else printf(" %s",path); \
    printf(" %s\n",args); \
    }\
    }' > $jid.cfile
  else
    grep -v '^#' $host | $AWK -v args="$RUN_JOB" -v path=$execpath -v en=$execname -v us=$usersub \
    '{if ( NF > 0) {\
    printf("-host %s -n %s",$1,$2); \
    if ( NF == 2 ) printf(" %s",path);\
    if ( NF >= 3 ) printf(" -wdir %s ",$3); \
    if ( NF >= 3 ) if (us) printf(" %s/%s",$3,en); else printf(" %s",path); \
    printf(" %s\n",args); \
    }\
    }' > $jid.cfile
  fi
  RUN_JOB=$RUN_JOB_TMP
fi
echo " "
echo "Final run stream value"
echo " RUNJOB="$RUN_JOB
if test "$deletelog" = no
then
echo " " >> $jid.log
echo "Final run stream value" >> $jid.log
echo " RUNJOB="$RUN_JOB >> $jid.log
fi


#
# check for external file to run using valgrind
#
if test -f $MARC_TOOLS/run_marc_valgrind
then
 . $MARC_TOOLS/run_marc_valgrind
fi


##############################################################################
#         run the requested program in a queue                               #
##############################################################################

if test "$deletelog" = yes
then
 echo
 date
else
 echo >> $jid.log
 date >> $jid.log
fi
if [ $qid = short -o $qid = long -o $qid = verylong -o $qid = at ]
then

/bin/rm -f $jid.runmarcscript


#
# compile user subroutine if present
#
if test "$link"
then
    if test -z "$FCOMPROOT"; then
        echo "$0: No compiler available"
        echo
        echo "         $PRODUCT Exit number 3"
        exit 1
    fi
    echo
    echo "Using compiler from: $FCOMPROOT"
    echo
    if test "$user"
    then
        userobj=$usermoext.o
    fi
    cat > $jid.runmarcscript << END4
    if test "$user"
    then
        if test $MACHINENAME = "CRAY"
        then
            $DFORTLOWMP $user || \
                {
                echo "$0: compile failed for $user"
                exit 1
                }
            /bin/rm $program 2>/dev/null
        else
            $DFORTLOWMP $user -o $userobj || \
                {
                echo "$0: compile failed for $user"
                exit 1
                }
            /bin/rm $program 2>/dev/null
        fi
    fi


    $LOAD $bd${program} $MARC_LIB/main.o \
    $MARC_LIB/blkdta.o $MARC_LIB/comm?.o \
    ${userobj-} \
    $objs \
    $SRCLIB \
    $MNFLIBS \
    $MDUSER  \
    ${MUMPSSOLVERLIBS} \
    $MDSRCLIB \
    $MARC_LIB/mcvfit.a \
    $STUBS \
    $SOLVERLIBS  \
    $MARCCUDALIBS  \
    $TKLIBS  \
    $MRCLIBS     \
    $METISLIBS \
    $DAMASK   \
    $SFLIB  \
    $OPENSSL_LIB \
    $SYSLIBS  \
    $SECLIBS      || \
    {
    echo "$0: link failed for ${user:+$userobj }$objs"
    exit 1
    }
END4
else
	prgsav=yes
fi
/bin/rm $userobj 2>/dev/null
/bin/rm $DIRJOB/*.mod 2>/dev/null
/bin/rm $DIRJOB/*.smod 2>/dev/null

#
# run marc
#

cat >> $jid.runmarcscript << END5

# Define share library path based on platforms
# This is required for using the Patran Mesher
if test $MACHINENAME = "IBM"
then
  LIBPATH=$MARC_LIB:$MARC_LIB_SHARED:$LIBPATH
  export LIBPATH
fi

# first remove all .out files and incremental restart files
#  the ones for ddm are removed in the code
if test $nprocdddm -gt 1
then
  numdom=$nprocdddm
  while test \$numdom -gt 0
  do
  /bin/rm $DIRJOB/$numdom$jid.out 2>/dev/null
  /bin/rm $DIRJOB/$numdom$jid.log 2>/dev/null
  /bin/rm $DIRJOB/$numdom${jid}_i_*.t08 2>/dev/null
  numdom=\`echo \$numdom | $AWK   '{sum=\$1-1}; {print sum}'\`
  done
else
  /bin/rm $DIRJOB/$jid.out 2>/dev/null
  /bin/rm $DIRJOB/${jid}_i_*.t08 2>/dev/null
fi

if test $nprocdddm -gt 1
then
    $RUN_JOB   2>>$jid.log
else
    $RUN_JOB 2>>$jid.log
fi

if test $dllrun -eq 0; then
  if test $prgsav = no
  then
      /bin/rm -f $bd$program 2>/dev/null	
  fi
else
  if test $cpdll = yes; then
     filename=$usernoext
     /bin/cp $DIRJOB/$marcdll $DIRJOB/${filename}_$marcdll 2>/dev/null
  fi
  if test $rmdll = yes
  then
     /bin/rm -f $DIRJOB/$marcdll 2>/dev/null	
  fi
fi
 
if test $nprocdddm -gt 1
then
  numdom=$nprocdddm
  while test \$numdom -gt 0
  do
  /bin/rm $DIRSCR/$numdom$jid.t02 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t03 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t11 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t12 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t13 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t14 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t15 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t22 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t23 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t32 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t33 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t74 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t75 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t76 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t77 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t78 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t79 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.*.t81* 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.*.t82* 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.*.t83* 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t84 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t85 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t86 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t87 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t88 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t90 2>/dev/null
  numdom=\`echo \$numdom | $AWK   '{sum=\$1-1}; {print sum}'\`
  done
  /bin/rm $DIRJOB/$jid.pid 2>/dev/null
else
  /bin/rm $DIRSCR/$jid.t02 2>/dev/null
  /bin/rm $DIRSCR/$jid.t03 2>/dev/null
  /bin/rm $DIRSCR/$jid.t11 2>/dev/null
  /bin/rm $DIRSCR/$jid.t12 2>/dev/null
  /bin/rm $DIRSCR/$jid.t13 2>/dev/null
  /bin/rm $DIRSCR/$jid.t14 2>/dev/null
  /bin/rm $DIRSCR/$jid.t15 2>/dev/null
  /bin/rm $DIRSCR/$jid.t22 2>/dev/null
  /bin/rm $DIRSCR/$jid.t23 2>/dev/null
  /bin/rm $DIRSCR/$jid.t32 2>/dev/null
  /bin/rm $DIRSCR/$jid.t33 2>/dev/null
  /bin/rm $DIRSCR/$jid.*.t81* 2>/dev/null
  /bin/rm $DIRSCR/$jid.*.t82* 2>/dev/null
  /bin/rm $DIRSCR/$jid.*.t83* 2>/dev/null
  /bin/rm $DIRSCR/$jid.t84 2>/dev/null
  /bin/rm $DIRJOB/$jid.pid 2>/dev/null
fi
END5


# Submit to marc batch  queue
#
if [ $qid = at ]
then
QUENAME=at
SUBMCMD=
else
#
# Submit to qsub queue
#
QUENAME=qsub
SUBMCMD="-q $qid -o /dev/null -e $jid.batch_err_log -x -r $jid"
if test "$priority" 
then
	SUBMCMD=$SUBMCMD" -p $priority"
fi
if test "$att" 
then
	SUBMCMD=$SUBMCMD" -a $att"
fi
if test "$cpu" 
then
	SUBMCMD=$SUBMCMD" -lt $cpu"
fi

fi
echo $QUENAME $SUBMCMD
#cat $jid.runmarcscript
$QUENAME $SUBMCMD < $jid.runmarcscript

/bin/rm -f $jid.runmarcscript

##############################################################################
#         run the requested program in the background                        #
##############################################################################

else
if test $qid = background
then

#
# first remove all old .out files
#  the ones for ddm are removed in the code
if test $nprocdddm -gt 1
then
  numdom=$nprocdddm
  while test $numdom -gt 0
  do
  /bin/rm $DIRJOB/$numdom$jid.out 2>/dev/null
  /bin/rm $DIRJOB/$numdom$jid.log 2>/dev/null
  numdom=`echo $numdom | $AWK   '{sum=$1-1}; {print sum}'`
  done
else
  /bin/rm $DIRJOB/$jid.out 2>/dev/null
fi
#
# compile user subroutine if present
#
(
if test "$link"
then
  if test -z "$FCOMPROOT"; then
      echo "$0: No compiler available"
      echo
      echo "         $PRODUCT Exit number 3"
      exit 1
  fi
  echo
  echo "Using compiler from: $FCOMPROOT"
  echo
  if test "$user"
  then
    # compile and link on other hosts in $host if compstatus=no
    if test $nprocd -gt 1
    then
      if test "$userhost"
      then
        counter=0
        for i in `$AWK -v n=$numfield '{print $n}' $host_filt`
        do
          ibase=${i%%.*}
          if test $ibase != $thishost
          then
            counter=$((counter+1))
            if test ${compstatus[$counter]} = "no"
            then
              DIR1=$DIRJOB
              DIR2=$DIR
              line=`grep -v '^#' $userhost | grep "^$ibase "`
              workdir=`echo $line | $AWK '{print $3}'`
              marcdir=`echo $line | $AWK '{print $4}'`
              if test -n "$workdir"
              then
                DIR1=$workdir
              fi
              if test -n "$marcdir"
              then
                DIR2=$marcdir
              fi
              # first copy over the user sub if local directories
              if test ${dirstatus[$counter]} = "local"
              then
               $RCP $user $i:$DIR1/
              fi
              # do the compilation on the other machine
              if test ${dirstatus[$counter]} = "shared"
              then
                hname=_$ibase
              else
                hname=
              fi
              remoteprog=$DIR1/${execname}$hname
              remoteuser=$DIR1/`$BASENAME $user`
              $RSH $i /bin/rm $remoteprog 2> /dev/null
              echo
              $RSH $i $DIR2/tools/comp_damask_lmp $DIR2 $DIR1 $remoteuser $remoteprog
              # check if successful, the new executable should be there
              line=`$RSH $i /bin/ls $remoteprog 2> /dev/null`
              if test "$line"
              then
                echo compilation and linking successful on host $i
              else
                echo "$0: compile failed for $user on host $i"
                echo "         $PRODUCT Exit number 3"
                exit 1
              fi
              # remove the user subroutine on remote machine
              if test ${dirstatus[$counter]} = "local"
              then
               $RSH $i /bin/rm $remoteuser 2> /dev/null
              fi
            fi
          fi
        done
      fi
    fi
    if test "$userhost"
    then
      echo
      echo "Compiling and linking user subroutine $user on host `hostname`"
    fi
    userobj=$usernoext.o
        if test $MACHINENAME = "CRAY"
        then
            $DFORTLOWMP $user || \
                {
                echo "$0: compile failed for $user"
                echo "         $PRODUCT Exit number 3"
                exit 1
                }
            /bin/rm $program 2>/dev/null
        else
            $DFORTLOWMP $user -o $userobj || \
                {
                echo "$0: compile failed for $user"
                echo "         $PRODUCT Exit number 3"
                exit 1
                }
            /bin/rm $program 2>/dev/null
        fi
  fi # if test $user


  $LOAD $bd${program} $MARC_LIB/main.o \
  $MARC_LIB/blkdta.o $MARC_LIB/comm?.o \
  ${userobj-} \
  $objs \
  $SRCLIB \
  $MNFLIBS \
  $MDUSER  \
  ${MUMPSSOLVERLIBS} \
  $MDSRCLIB \
  $MARC_LIB/mcvfit.a \
  $STUBS \
  ${SOLVERLIBS}  \
  ${MARCCUDALIBS}  \
  $TKLIBS  \
  $MRCLIBS     \
  $METISLIBS \
  $DAMASK \
  $SFLIB  \
  $OPENSSL_LIB \
  $SYSLIBS  \
  $SECLIBS    || \
  {
    echo "$0: link failed for ${user:+$userobj }$objs"
    echo "         $PRODUCT Exit number 3"
    exit 1
  }
  # copy user subroutine executable for hosts using local working dir
  if test $nprocd -gt 1
  then
    if test "$userhost"
    then
        counter=0
        for i in `$AWK -v n=$numfield '{print $n}' $host_filt`
        do
          ibase=${i%%.*}
          if test $ibase != $thishost
          then
            counter=$((counter+1))
            if test ${dirstatus[$counter]} = "local" -a ${compstatus[$counter]} = "yes"
            then            
              DIR1=$DIRJOB
              line=`grep -v '^#' $userhost | grep "^$ibase "`
              workdir=`echo $line | $AWK '{print $3}'`
              if test -n "$workdir"
              then
                DIR1=$workdir
              fi
              echo "Copying executable to host ${i}"
              $RCP $program ${i}:${DIR1}/
            fi
          fi
        done
    fi
  fi
else # if test $link
	prgsav=yes
fi   # if test $link
/bin/rm $userobj 2>/dev/null
/bin/rm $DIRJOB/*.mod 2>/dev/null
/bin/rm $DIRJOB/*.smod 2>/dev/null

#
# run marc

#

# Define share library path based on platforms
# This is required for using the Patran Mesher
if test $MACHINENAME = "IBM"
then
  LIBPATH=$MARC_LIB:$MARC_LIB_SHARED:$LIBPATH
  export LIBPATH
fi

# for DDM with ARC support

if test $ddm_arc -gt 0; then
  RUN_JOB="$BINDIR/exeddm $RUN_JOB -ddm $ddm_arc "
fi


$RUN_JOB &

marcpid=$!
echo $marcpid > $DIRJOB/$jid.pid
wait $marcpid

if test $nprocd -gt 1
then
  if test $MACHINENAME = "LINUX" -a $MPITYPE = "intelmpi"
  then
    if test "$INTELMPI_VERSION" = "HYDRA"
    then
      if test "$host"
      then
        /bin/rm $jid.mfile  2> /dev/null
        /bin/rm $jid.hosts  2> /dev/null
        /bin/rm $jid.host   2> /dev/null
        /bin/rm $jid.cfile  2> /dev/null
      fi
    fi
  fi
fi


if test $dllrun -eq 0; then
if test $prgsav = no
then
  /bin/rm -f $bd$program 2>/dev/null	
  # for network run, remove executable on remote machines
  # and executables with modified name
  if test $nprocd -gt 1
  then
    if test "$userhost"
    then
      counter=0
      if test -f "$host_filt"
      then
      for i in `$AWK -v n=$numfield '{print $n}' $host_filt`
      do
        ibase=${i%%.*}
        if test $ibase != $thishost
        then
          counter=$((counter+1))
          DIR1=$DIRJOB
          line=`grep -v '^#' $userhost | grep "^$ibase "`
          workdir=`echo $line | $AWK '{print $3}'`
          if test -n "$workdir"
          then
            DIR1=$workdir
          fi
          #  if an incompatible host uses shared directory,
          #  then the root machine deletes the executable
          if test ${dirstatus[$counter]} = "shared" -a  ${compstatus[$counter]} = "no"
          then
            hname=_$ibase
            /bin/rm ${execname}$hname
          fi
          # if local directory used, the remote machine
          # deletes the executable
          if test ${dirstatus[$counter]} = "local"
          then
            $RSH $i /bin/rm $DIR1/${execname} 2>/dev/null
          fi
        fi
      done
    fi
  fi
fi
fi
else
#dllrun >0
  if test $cpdll = yes; then
     filename=$usernoext
     /bin/cp $DIRJOB/$marcdll $DIRJOB/${filename}_$marcdll 2>/dev/null
  fi
  if test $rmdll = yes;then
     /bin/rm -f $DIRJOB/$marcdll 2>/dev/null	
  fi
fi
if test $nprocdddm -gt 1
then
  numdom=$nprocdddm
  while test $numdom -gt 0
  do
  /bin/rm $DIRSCR/$numdom$jid.t02 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t03 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t11 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t12 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t13 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t14 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t15 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t22 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t23 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t32 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t33 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t74 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t75 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t76 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t77 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t78 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t79 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.*.t81* 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.*.t82* 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.*.t83* 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t84 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t85 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t86 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t87 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t88 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t90 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.sle 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.sin 2>/dev/null
  numdom=`echo $numdom | $AWK   '{sum=$1-1}; {print sum}'`
  done
  /bin/rm $DIRJOB/$jid.pid 2>/dev/null
  if test $MPITYPE = "myrinet"
  then
   if test -f "$host_filt"
   then
    /bin/rm $host_filt
   fi
  fi
else
  /bin/rm $DIRSCR/$jid.t02 2>/dev/null
  /bin/rm $DIRSCR/$jid.t03 2>/dev/null
  /bin/rm $DIRSCR/$jid.t11 2>/dev/null
  /bin/rm $DIRSCR/$jid.t12 2>/dev/null
  /bin/rm $DIRSCR/$jid.t13 2>/dev/null
  /bin/rm $DIRSCR/$jid.t14 2>/dev/null
  /bin/rm $DIRSCR/$jid.t15 2>/dev/null
  /bin/rm $DIRSCR/$jid.t22 2>/dev/null
  /bin/rm $DIRSCR/$jid.t23 2>/dev/null
  /bin/rm $DIRSCR/$jid.t32 2>/dev/null
  /bin/rm $DIRSCR/$jid.t33 2>/dev/null
  /bin/rm $DIRSCR/$jid.*.t81* 2>/dev/null
  /bin/rm $DIRSCR/$jid.*.t82* 2>/dev/null
  /bin/rm $DIRSCR/$jid.*.t83* 2>/dev/null
  /bin/rm $DIRSCR/$jid.t84 2>/dev/null
  /bin/rm $DIRJOB/$jid.pid 2>/dev/null
  /bin/rm $DIRJOB/$jid.sle 2>/dev/null
  /bin/rm $DIRJOB/$jid.sin 2>/dev/null
fi
) 1>>$jid.log 2>&1 &


##############################################################################
#        run the requested program in the foreground                         #
##############################################################################

else

#
# compile user subroutine if present
#
if test "$link"
then
  if test -z "$FCOMPROOT"; then
      echo "$0: No compiler available"
      echo
      echo "         $PRODUCT Exit number 3"
      exit 1
  fi
  echo
  echo "Using compiler from: $FCOMPROOT"
  echo
  if test "$user"
  then
    # compile and link on other hosts in $host if compstatus=no
    if test $nprocd -gt 1
    then
      if test "$userhost"
      then
        counter=0
        for i in `$AWK -v n=$numfield '{print $n}' $host_filt`
        do
          ibase=${i%%.*}
          if test $ibase != $thishost
          then
            counter=$((counter+1))
            if test ${compstatus[$counter]} = "no"
            then
              DIR1=$DIRJOB
              DIR2=$DIR
              line=`grep -v '^#' $userhost | grep "^$ibase "`
              workdir=`echo $line | $AWK '{print $3}'`
              marcdir=`echo $line | $AWK '{print $4}'`
              if test -n "$workdir"
              then
                DIR1=$workdir
              fi
              if test -n "$marcdir"
              then
                DIR2=$marcdir
              fi
              # first copy over the user sub if local directories
              if test ${dirstatus[$counter]} = "local"
              then
               $RCP $user $i:$DIR1/
              fi
              # do the compilation on the other machine
              if test ${dirstatus[$counter]} = "shared"
              then
                hname=_$ibase
              else
                hname=
              fi
              remoteprog=$DIR1/${execname}$hname
              remoteuser=$DIR1/`$BASENAME $user`
              $RSH $i /bin/rm $remoteprog 2> /dev/null
              echo
              $RSH $i $DIR2/tools/comp_damask_lmp $DIR2 $DIR1 $remoteuser $remoteprog
              # check if successful, the new executable should be there
              line=`$RSH $i /bin/ls $remoteprog 2> /dev/null`
              if test "$line"
              then
                echo compilation and linking successful on host $i
              else
                echo "$0: compile failed for $user on host $i"
                exit 1
              fi
              # remove the user subroutine on remote machine
              if test ${dirstatus[$counter]} = "local"
              then
               $RSH $i /bin/rm $remoteuser 2> /dev/null
              fi
            fi
          fi
        done
      fi
    fi
    if test "$userhost"
    then
      echo
      echo "Compiling and linking user subroutine $user on host `hostname`"
    fi
    userobj=$usernoext.o
        if test $MACHINENAME = "CRAY"
        then
            $DFORTLOWMP $user || \
                {
                echo "$0: compile failed for $user"
                exit 1
                }
            /bin/rm $program 2>/dev/null
        else
            $DFORTLOWMP $user -o $userobj || \
                {
                echo "$0: compile failed for $user"
                exit 1
                }
            /bin/rm $program 2>/dev/null
        fi
  fi # if test $user


  $LOAD $bd${program} $MARC_LIB/main.o \
  $MARC_LIB/blkdta.o $MARC_LIB/comm?.o \
  ${userobj-} \
  $objs \
  $SRCLIB \
  $MNFLIBS \
  $MDUSER  \
  ${MUMPSSOLVERLIBS} \
  $MDSRCLIB \
  $MARC_LIB/mcvfit.a \
  $STUBS \
  ${SOLVERLIBS}  \
  ${MARCCUDALIBS}  \
  $TKLIBS  \
  $MRCLIBS     \
  $METISLIBS \
  $DAMASK \
  $SFLIB \
  $OPENSSL_LIB \
  $SYSLIBS \
  $SECLIBS         || \
  {
    echo "$0: link failed for ${user:+$userobj }$objs"
    exit 1
  }
  # copy user subroutine executable for hosts using local working dir
  if test $nprocd -gt 1
  then
    if test "$userhost"
    then
        counter=0
        for i in `$AWK -v n=$numfield '{print $n}' $host_filt`
        do
          ibase=${i%%.*}
          if test $ibase != $thishost
          then
            counter=$((counter+1))
            if test ${dirstatus[$counter]} = "local" -a ${compstatus[$counter]} = "yes"
            then            
              DIR1=$DIRJOB
              line=`grep -v '^#' $userhost | grep "^$ibase "`
              workdir=`echo $line | $AWK '{print $3}'`
              if test -n "$workdir"
              then
                DIR1=$workdir
              fi
              echo "Copying executable to host ${i}"
              $RCP $program ${i}:${DIR1}/
            fi
          fi
        done
    fi
  fi
else # if test $link
	prgsav=yes
fi   # if test $link
/bin/rm $userobj 2>/dev/null
/bin/rm $DIRJOB/*.mod 2>/dev/null
/bin/rm $DIRJOB/*.smod 2>/dev/null
# done if no job id given
if test -z "$jid"
then
 echo
 echo only compilation requested
 echo
 exit
fi
#
# run marc
#
# Define share library path based on platforms
# This is required for using the Patran Mesher
if test $MACHINENAME = "IBM"
then
  LIBPATH=$MARC_LIB:$MARC_LIB_SHARED:$LIBPATH
  export LIBPATH
fi
# first remove all .out files
#  the ones for ddm are removed in the code
if test $nprocdddm -gt 1
then
  numdom=$nprocdddm
  while test $numdom -gt 0
  do
  /bin/rm $DIRJOB/$numdom$jid.out 2>/dev/null
  /bin/rm $DIRJOB/$numdom$jid.log 2>/dev/null
  numdom=`echo $numdom | $AWK   '{sum=$1-1}; {print sum}'`
  done
else
  /bin/rm $DIRJOB/$jid.out 2>/dev/null
fi

# for DDM with ARC support

if test $ddm_arc -gt 0; then
  RUN_JOB="$BINDIR/exeddm $RUN_JOB -ddm $ddm_arc "
fi

    $RUN_JOB 

if test $nprocd -gt 1
then
  if test $MACHINENAME = "LINUX" -a $MPITYPE = "intelmpi"
  then
    if test "$INTELMPI_VERSION" = "HYDRA"
    then
      if test "$host"
      then
        /bin/rm $jid.mfile  2> /dev/null
        /bin/rm $jid.hosts  2> /dev/null
        /bin/rm $jid.host   2> /dev/null
        /bin/rm $jid.cfile  2> /dev/null
      else
        echo " " > /dev/null
      fi
    else
      if test "$host"
      then
        mpdcleanup -a -f $jid.mfile
        /bin/rm $jid.host  2> /dev/null
        /bin/rm $jid.mfile  2> /dev/null
      else
        mpdcleanup -a -f $jid.hosts
        /bin/rm $jid.hosts 2> /dev/null
      fi
    fi
  fi
fi

if test $dllrun -eq 0; then
if test $prgsav = no
then
  /bin/rm -f $bd$program 2>/dev/null
  # for network run, remove executable on remote machines
  # and executables with modified name
  if test $nprocd -gt 1
  then
    if test "$userhost"
    then
      counter=0
      if test -f "$host_filt"
      then
      for i in `$AWK -v n=$numfield '{print $n}' $host_filt`
      do
        ibase=${i%%.*}
        if test $ibase != $thishost
        then
          counter=$((counter+1))
          DIR1=$DIRJOB
          line=`grep -v '^#' $userhost | grep "^$ibase "`
          workdir=`echo $line | $AWK '{print $3}'`
          if test -n "$workdir"
          then
            DIR1=$workdir
          fi
          #  if an incompatible host uses shared directory,
          #  then the root machine deletes the executable
          if test ${dirstatus[$counter]} = "shared" -a  ${compstatus[$counter]} = "no"
          then
            hname=_$ibase
            /bin/rm ${execname}$hname
          fi
          # if local directory used, the remote machine
          # deletes the executable
          if test ${dirstatus[$counter]} = "local"
          then
            $RSH $i /bin/rm $DIR1/${execname} 2>/dev/null
          fi
        fi
      done
    fi
  fi
fi
fi
else
#dllrun >0
  if test $cpdll = yes; then
     filename=$usernoext
     /bin/cp $DIRJOB/$marcdll $DIRJOB/${filename}_$marcdll 2>/dev/null
  fi
  if test $rmdll = yes;then
     /bin/rm -f $DIRJOB/$marcdll 2>/dev/null	
  fi
fi

if test $nprocdddm -gt 1
then
  numdom=$nprocdddm
  while test $numdom -gt 0
  do
  /bin/rm $DIRSCR/$numdom$jid.t02 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t03 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t11 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t12 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t13 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t14 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t15 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t22 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t23 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t32 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t33 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t74 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t75 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t76 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t77 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t78 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t79 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.*.t81* 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.*.t82* 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.*.t83* 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t84 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t85 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t86 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t87 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t88 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.t90 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.sle 2>/dev/null
  /bin/rm $DIRSCR/$numdom$jid.sin 2>/dev/null
  numdom=`echo $numdom | $AWK  '{sum=$1-1}; {print sum}'`
  done
  /bin/rm $DIRJOB/$jid.pid 2>/dev/null
  if test $MPITYPE = "myrinet"
  then
   if test -f "$host_filt"
   then
    /bin/rm $host_filt
   fi
  fi
else
  /bin/rm $DIRSCR/$jid.t02 2>/dev/null
  /bin/rm $DIRSCR/$jid.t03 2>/dev/null
  /bin/rm $DIRSCR/$jid.t11 2>/dev/null
  /bin/rm $DIRSCR/$jid.t12 2>/dev/null
  /bin/rm $DIRSCR/$jid.t13 2>/dev/null
  /bin/rm $DIRSCR/$jid.t14 2>/dev/null
  /bin/rm $DIRSCR/$jid.t15 2>/dev/null
  /bin/rm $DIRSCR/$jid.t22 2>/dev/null
  /bin/rm $DIRSCR/$jid.t23 2>/dev/null
  /bin/rm $DIRSCR/$jid.t32 2>/dev/null
  /bin/rm $DIRSCR/$jid.t33 2>/dev/null
  /bin/rm $DIRSCR/$jid.*.t81* 2>/dev/null
  /bin/rm $DIRSCR/$jid.*.t82* 2>/dev/null
  /bin/rm $DIRSCR/$jid.*.t83* 2>/dev/null
  /bin/rm $DIRSCR/$jid.t84 2>/dev/null
  /bin/rm $DIRJOB/$jid.pid 2>/dev/null
  /bin/rm $DIRJOB/$jid.sle 2>/dev/null
  /bin/rm $DIRJOB/$jid.sin 2>/dev/null
fi


fi
fi