Merge branch 'master' into particleInteractions

bin/foamEndJob

@@ -35,8 +35,94 @@
 #       to restore controlDict
 #
 #-------------------------------------------------------------------------------
+Script=${0##*/}
 
-PROGNAME=`basename $0`
+usage() {
+    while [ "$#" -ge 1 ]; do echo "$1"; shift; done
+    cat<<USAGE
+Usage: $Script [OPTION] <pid>
+Usage: $Script [OPTION] -c
+
+options:
+  -clear            use blockMesh reader  (uses .blockMesh extension)
+  -case <dir>       specify alternative case directory, default is the cwd
+  -now              stop at next time step
+  -help             print the usage
+
+Tries to end running OpenFOAM application at next write (or optionally
+at the next time step). It needs runTimeModifiable switched on in the
+controlDict. It changes stopAt in the controlDict and waits for the
+job to finish. Restores original controlDict if
+
+    - job has finished
+    - controlDict gets modified (by user)
+    - $Script gets killed.
+
+The -clear option clears any outstanding $Script for the case.
+
+USAGE
+    exit 1
+}
+
+unset clearOpt stopOpt
+
+# parse options
+while [ "$#" -gt 0 ]
+do
+    case "$1" in
+    -h | -help)
+        usage
+        ;;
+    -case)
+        [ "$#" -ge 2 ] || usage "'$1' option requires an argument"
+        cd "$2" 2>/dev/null || usage "directory does not exist:  '$2'"
+        shift 2
+        ;;
+    -c | -clear)
+        clearOpt=true
+        shift
+        ;;
+    -n | -now)
+        stopOpt=now
+        shift
+        ;;
+    -*)
+        usage "unknown option: '$*'"
+        ;;
+    *)
+        break
+        ;;
+    esac
+done
+
+
+# parent directory for normal or parallel
+case "$PWD" in
+    processor*) caseDir=".." ;;
+    *)          caseDir="."  ;;
+esac
+
+# check that case directory is writeable
+[ -w $caseDir ] || {
+    echo "$Script : $caseDir is not writeable"
+    exit 1
+}
+
+# check that controlDict is writeable
+controlDict=$caseDir/system/controlDict
+[ -w $controlDict ] || {
+    echo "$Script : $controlDict is not writeable"
+    exit 1
+}
+
+# need a pid unless with the -clear option
+if [ "$clearOpt" = true ]
+then
+    [ $# -eq 0 ] || usage
+else
+    [ $# -eq 1 ] || usage
+    PID=$1
+fi
 
 
 #-------------------------------------------------------------------------------
@@ -84,6 +170,7 @@ setRawEntry() {
     oldLine=`echo "$oldNumLine" | sed -e 's/^[^:]*://'`
     oldKey=`getKey "$oldLine"`
     oldVal=`getRawEntry $1 "$2"`
+
     if [ ! "$oldKey" -o ! "$oldVal" -o ! "$oldLine" ]
     then
         echo "setRawStringEntry: entry $2 not found in $1"
@@ -92,6 +179,7 @@ setRawEntry() {
         echo "oldLine=$oldLine"
         exit 1
     fi
+
     #echo "oldKey=$oldKey"
     #echo "lineNo=$lineNo"
     #echo "oldLine=$oldLine"
@@ -108,76 +196,30 @@ getBoolEntry()
 {
     val=`getEntry $1 $2`
     case "$val" in
-      'yes')
+    y | yes | true | on | 1)
         return 0
         ;;
-      'no')
+    n | no | false | off | 0)
-        return 123
-        ;;
-      'true')
-        return 0
-        ;;
-      'false')
-        return 123
-        ;;
-      1)
-        return 0
-        ;;
-      0)
         return 123
         ;;
     *)
-        echo "$PROGNAME : getBoolEntry : Illegal boolean value $val in dictionary $1"
+        echo "$Script : getBoolEntry : Illegal boolean value $val in dictionary $1"
         exit 1
         ;;
     esac
 }
 
-# newerFile file1 file2
-# ... could also use   if [ $file1 -nt $file2 ] ...
-newerFile()
-{
-    latest=`ls -1 -t $1 $2 2> /dev/null | head -1`
-    if [ "$latest" = $1 ]
-    then
-        return 0
-    else
-        return 1
-    fi
-}
-
 # processExists pid
 # Returns true if pid exists.
 processExists() {
-    ps -u $LOGNAME -o 'pid' | fgrep $1 >/dev/null
+    ps -u $LOGNAME -o pid | fgrep $1 >/dev/null
 }
 
-usage() {
-cat << USAGE
-Usage: $PROGNAME [-n] <root> <case> <pid>
-          or
-       $PROGNAME -c <root> <case>
-
-Tries to end running Foam application at next write or at next time
-step (-n (at your option). It needs runTimeModifiable switched on in the
-controlDict. It changes stopAt in the controlDict and waits for the job to
-finish. Restores original controlDict if
-    - job has finished
-    - controlDict gets modified (by user)
-    - $PROGNAME gets killed.
-
-The -c option clears any outstanding $PROGNAME for the case.
-
-USAGE
-    exit 1
-}
-
-
 # Restore controlDict and clean up
 restoreDict() {
-    trap 2 3 15
+    trap QUIT TERM INT
 
-    echo "$PROGNAME : Restoring controlDict from controlDict_bak."
+    echo "$Script : Restoring controlDict from controlDict_bak"
     if [ -r ${controlDict}_bak ]
     then
         cp ${controlDict}_bak $controlDict
@@ -185,7 +227,7 @@ restoreDict() {
 
     rm -f $pidFile
 
-    echo "$PROGNAME : Exiting."
+    echo "$Script : Exiting"
     exit 0
 }
 
@@ -196,105 +238,51 @@ restoreDict() {
 #
 #-------------------------------------------------------------------------------
 
-ARCH=`uname -s`
-
 #-- Force standards behaving ps
 #   Get info on all $USER processes
-case $ARCH in
+case `uname -s` in
 HP-UX*)
-    UNIX95=a; export UNIX95
+    UNIX95=a
+    export UNIX95
     ;;
 IRIX*)
-    _XPG=1; export _XPG
+    _XPG=1
+    export _XPG
     ;;
 esac
 
 
-#
+# Pid actually running
-# Initial checks
+if [ "$clearOpt" != true ]
-#
-if [ $# -lt 3 ]
-then
-    usage
-fi
-
-STOPNOW=''
-if [ $1 = '-n' ]
-then
-    STOPNOW='yes'
-    shift
-fi
-CLEAR=''
-if [ $1 = '-c' ]
-then
-    CLEAR='yes'
-    shift
-    if [ $# -ne 2 ]
-    then
-        usage
-    fi
-    ROOT=$1
-    CASE=$2
-else
-    if [ $# -ne 3 ]
-    then
-        usage
-    fi
-    ROOT=$1
-    CASE=$2
-    PID=$3
-fi
-CASE=`echo $CASE | sed -e 's!/.*!!'`       # strip of processorXXX ending
-
-#- Pid actually running
-if [ ! "$CLEAR" ]
 then
     processExists $PID
     if [ $? -ne 0 ]
     then
-        echo "$PROGNAME : process $PID not running."
+        echo "$Script : process $PID not running"
         exit 1
     fi
 fi
 
-#- case directory writeable
-if [ ! -w $ROOT/$CASE ]
-then
-    echo "$PROGNAME : $ROOT/$CASE is not writeable."
-    exit 1
-fi
-
-#- Controldict writeable
-controlDict=$ROOT/$CASE/system/controlDict
-if [ ! -w  $controlDict ]
-then
-    echo "$PROGNAME : $controlDict is not writeable."
-    exit 1
-fi
-
 #- runTimeModifiable
-getBoolEntry $controlDict 'runTimeModifiable'
+getBoolEntry $controlDict runTimeModifiable || {
-if [ $? -ne 0 ]
+    echo "$Script : runTimeModifiable not true in dictionary $controlDict"
-then
-    echo "$PROGNAME : runTimeModifiable not true in dictionary $controlDict."
     exit 1
-fi
+}
 
 #
 #- Check if another foamEndJob running
 #
-if [ "$CLEAR" ]
+if [ "$clear" = true ]
 then
-    pidFiles=`ls $ROOT/$CASE/.foamEndJob* 2>/dev/null`
+    pidFiles=`ls $caseDir/.foamEndJob* 2>/dev/null`
     for pidFile in $pidFiles
     do
         pid=`cat $pidFile`
         if [ "$pid" ]
         then
-            echo "$PROGNAME : found $PROGNAME (pid $pid) for Foam process"
+            echo "$Script : found $Script (pid $pid) for OpenFOAM process"
-            echo "  root: $ROOT"
+            echo "  case: $PWD/$caseDir"
-            echo "  case: $CASE"
+            echo "$Script : Killing $Script (pid $pid)"
-            echo "$PROGNAME : Killing $PROGNAME (pid $pid)."
             kill $pid
             rm -f $pidFile
         fi
@@ -302,7 +290,7 @@ then
     exit 0
 fi
 
-pidFile=$ROOT/$CASE/.foamEndJob${PID}
+pidFile=$caseDir/.foamEndJob$PID
 if [ -f $pidFile ]
 then
     pid=`cat $pidFile`
@@ -311,12 +299,11 @@ then
         processExists $pid
         if [ $? -eq 0 ]
         then
-            echo "$PROGNAME : found running $PROGNAME (pid $pid) for Foam process"
+            echo "$Script : found running $Script (pid $pid) for OpenFOAM process"
-            echo "  root: $ROOT"
+            echo "  case: $PWD/$caseDir"
-            echo "  case: $CASE"
             echo "  pid : $PID"
             echo "  lock: $pidFile"
-            echo "Remove the lock if this is not the case."
+            echo "Remove the lock if this is not the case"
             exit 1
         fi
     fi
@@ -331,63 +318,60 @@ echo $$ > $pidFile
 
 
 #- startTime
-startTime=`getEntry $controlDict 'startTime'`
+startTime=`getEntry $controlDict startTime`
-if [ ! "$startTime" ]
+[ "$startTime" ] || {
-then
+    echo "$Script : startTime not set in dictionary $controlDict"
-    echo "$PROGNAME : startTime not set in dictionary $controlDict."
     exit 1
-fi
+}
 
 #- Write interval
-writeInterval=`getEntry $controlDict 'writeInterval'`
+writeInterval=`getEntry $controlDict writeInterval`
-if [ ! "$writeInterval" ]
+[ "$writeInterval" ] || {
-then
+    echo "$Script : writeInterval not set in dictionary $controlDict"
-    echo "$PROGNAME : writeInterval not set in dictionary $controlDict."
     exit 1
-fi
+}
 
 #- stopAt
-stopAt=`getEntry $controlDict 'stopAt'`
+stopAt=`getEntry $controlDict stopAt`
-if [ ! "$stopAt" ]
+[ "$stopAt" ] || {
-then
+    echo "$Script : stopAt not set in dictionary $controlDict"
-    echo "$PROGNAME : stopAt not set in dictionary $controlDict."
     exit 1
-fi
+}
 
 #- endTime
-endTime=`getEntry $controlDict 'endTime'`
+endTime=`getEntry $controlDict endTime`
-if [ ! "$endTime" ]
+[ "$endTime" ] || {
-then
+    echo "$Script : endTime not set in dictionary $controlDict"
-    echo "$PROGNAME : endTime not set in dictionary $controlDict."
     exit 1
-fi
+}
 
 
-echo "$PROGNAME : Read from controlDict:"
+echo "$Script : Read from controlDict:"
 echo "  controlDict   : $controlDict"
 echo "  writeInterval : $writeInterval"
 #echo "  startTime     : $startTime"
 echo "  stopAt        : $stopAt"
 #echo "  endTime       : $endTime"
 
-echo "$PROGNAME : Making backup of controlDict to controlDict_bak"
+echo "$Script : Making backup of controlDict to controlDict_bak"
 cp $controlDict ${controlDict}_bak
+
 #- Set up handler to restore controlDict
-trap restoreDict 2 3 15
+trap restoreDict QUIT TERM INT
 
-if [ "$STOPNOW" ]
+if [ "$stopOpt" = now ]
 then
-    setRawEntry  $controlDict 'stopAt' 'nextWrite'
+    setRawEntry  $controlDict stopAt nextWrite
-    setRawEntry  $controlDict 'writeInterval' '1'
+    setRawEntry  $controlDict writeInterval 1
 
-    echo "$PROGNAME : Changed in controlDict:"
+    echo "$Script : Changed in controlDict:"
-    echo "    `getLine $controlDict 'stopAt'`"
+    echo "    `getLine $controlDict stopAt`"
-    echo "    `getLine $controlDict 'writeInterval'`"
+    echo "    `getLine $controlDict writeInterval`"
 else
-    setRawEntry $controlDict 'stopAt' 'nextWrite'
+    setRawEntry $controlDict stopAt nextWrite
 
-    echo "$PROGNAME : Changed in controlDict:"
+    echo "$Script : Changed in controlDict:"
-    echo "    `getLine $controlDict 'stopAt'`"
+    echo "    `getLine $controlDict stopAt`"
 fi
 
 
@@ -401,23 +385,24 @@ sleep 5
 touch ${controlDict}_bak
 
 #- Loop a while to give NFS time to update
-if newerFile ${controlDict} ${controlDict}_bak; then
+if [ ${controlDict} -nt ${controlDict}_bak ]
-    echo "$PROGNAME : controlDict newer than controlDict_bak."
+then
-    echo "$PROGNAME : Waiting for file dates to get updated."
+    echo "$Script : controlDict newer than controlDict_bak"
+    echo "$Script : Waiting for file dates to get updated"
 
     iter=0
-    while newerFile ${controlDict} ${controlDict}_bak
+    while [ ${controlDict} -nt ${controlDict}_bak ]
     do
         if [ $iter -ge 120 ]
         then
             #- 120*5 sec = 10 mins passed. Give up
-            echo "$PROGNAME : File date not yet ok after 10 mins. Giving up."
+            echo "$Script : File date not yet ok after 10 mins ... giving up"
             break
         fi
         #- Give _bak a later time
         touch ${controlDict}_bak
 
-        #- Give nfs some time to update time on controlDict.
+        #- Give NFS a chance to update time on controlDict.
         sleep 5
 
         iter=`expr $iter + 1`
@@ -430,21 +415,20 @@ fi
 #  - controlDict modified. No restore.
 #  - controlDict_bak removed. No restore.
 
-echo "$PROGNAME : Waiting for Foam job $PID to finish ..."
+echo "$Script : Waiting for OpenFOAM job $PID to finish ..."
 
 while true
 do
     sleep 5
 
-    if [ ! -r ${controlDict}_bak ]
+    [ -r ${controlDict}_bak ] || {
-    then
+        echo "$Script : ${controlDict}_bak disappeared. Exiting without restore"
-        echo "$PROGNAME : ${controlDict}_bak dissappeared. Exiting without restore."
         exit 1
-    fi
+    }
 
-    if newerFile ${controlDict} ${controlDict}_bak
+    if [ ${controlDict} -nt ${controlDict}_bak ]
     then
-        echo "$PROGNAME : ${controlDict} modified externally. Exiting without restore."
+        echo "$Script : ${controlDict} modified externally. Exiting without restore"
         exit 0
     fi
 
@@ -454,7 +438,7 @@ do
         #- Job finished
         break
     fi
-    # echo "Foam job $PID still running ..."
+    # echo "OpenFOAM job $PID still running ..."
 done
 
 #- Dictionary restore

bin/foamLog

@@ -31,35 +31,36 @@
 # Bugs
 #     -solution singularity not handled
 #------------------------------------------------------------------------------
+Script=${0##*/}
+toolsDir=${0%/*}/tools
 
-PROGDIR=`dirname $0`
+usage() {
-PROGNAME=`basename $0`
+    while [ "$#" -ge 1 ]; do echo "$1"; shift; done
-DBFILE=${PROGNAME}.db
-
-printUsage() {
     cat <<USAGE
-$PROGNAME - extracts xy files from OpenFOAM logs.
 
-Usage: $PROGNAME [-n][-s] <log>
+Usage: $Script [OPTIONS] <log>
-           extracts xy files from log
+  -list             lists but does not extract
-       $PROGNAME -l <log>
+  -n                create single column files with the extracted data only
-           lists but does not extract
+  -quiet            quiet operation
-       $PROGNAME -h
+  -help             print the usage
-           for a help message
+
+$Script - extracts xy files from OpenFOAM logs.
 
 USAGE
+    exit 1
 }
 
+#------------------------------------------------------------------------------
 
 printHelp() {
-printUsage
+cat <<HELP
-cat <<LABHELP
+-----------------------------------------------------------------------------
 The default is to extract for all the 'Solved for' variables the initial
 residual, the final residual and the number of iterations. Additionally, a
 (user editable) database is used to extract data for standard non-solved for
 variables like Courant number, and execution time.
 
-$PROGNAME -l lists all the possible variables without extracting them.
+$Script -l lists all the possible variables without extracting them.
 
 The program will generate and run an awk script which writes a set of files,
 logs/<var>_<subIter>, for every <var> specified, for every occurrence inside
@@ -79,7 +80,7 @@ separated with '/' :
   Column 2 is the extended regular expression (egrep) to select the line.
   Column 3 is the string (fgrep) to select the column inside the line.
 The value taken will be the first (non-space)word after this column.
-The database ($PROGNAME.db) will taken from these locations:
+The database ($Script.db) will taken from these locations:
 
     .
     $HOME/.OpenFOAM/$WM_PROJECT_VERSION
@@ -87,61 +88,97 @@ The database ($PROGNAME.db) will taken from these locations:
     $WM_PROJECT_INST_DIR/site/$WM_PROJECT_VERSION
     $WM_PROJECT_INST_DIR/site
     $WM_PROJECT_DIR/etc
-    $PROGDIR/tools
+    $toolsDir
 
-Option -s suppresses the default information and only prints the extracted
+Option -q suppresses the default information and only prints the extracted
 variables.
+-----------------------------------------------------------------------------
+HELP
 
-LABHELP
+usage
 }
 
 
-# The various places to be searched:
+timeName=Time
-for i in \
+unset listOpt quietOpt
-    . \
+
-    $HOME/.OpenFOAM/$WM_PROJECT_VERSION \
+# parse options
-    $HOME/.OpenFOAM \
+while [ "$#" -gt 0 ]
-    $WM_PROJECT_INST_DIR/site/$WM_PROJECT_VERSION \
-    $WM_PROJECT_INST_DIR/site \
-    $WM_PROJECT_DIR/etc \
-    $PROGDIR/tools \
-    ;
 do
-    if [ -r $i/$DBFILE ]
+    case "$1" in
-    then
+    -h | -help)
-        DBFILE="$i/$DBFILE"
+        printHelp
+        exit 0
+        ;;
+    -n)
+        unset timeName
+        shift
+        ;;
+    -l | -list)
+        listOpt=true
+        shift
+        ;;
+    -q | -quiet | -s | -silent)
+        quietOpt=true
+        shift
+        ;;
+    -*)
+        usage "unknown option: '$*'"
+        ;;
+    *)
         break
-    fi
+        ;;
+    esac
 done
 
+# find the database file
+DBFILE=$Script.db
+[ -f $DBFILE ] || DBFILE=`foamEtcFile $Script.db` || DBFILE=$toolsDir/$Script.db
 
-myEcho() {
+# need the database file
-  if [ "$VERBOSE" ]
+[ -f $DBFILE ] || {
-  then
+    echo "$Script: Cannot read database $DBFILE"
-      echo "$*"
+    exit 1
-  fi
 }
 
+# single logFile
+if [ $# -eq 1 ]
+then
+    LOG=$1
+    [ -r "$LOG" ] && [ -f "$LOG" ] || usage "Cannot read log $LOG"
+else
+    usage
+fi
+
+
+myEcho()
+{
+   [ "$quietOpt" = true ] || echo "$*"
+}
+
+
 # getSolvedVars logFile
 # Prints names of all 'solved for' variables in the log file.
-getSolvedVars() {
+getSolvedVars()
+{
     fgrep ' Solving for ' $1 | fgrep ',' | sed -e 's/.* Solving for \([^,]*\)[,:].*/\1/' | sort -u
 }
 
 
 # getQueries dbFile queryName
 # Gets regular expressions for a certain queryName from the database
-getQueries() {
+getQueries()
-    if [ ! -f "$1" ]
+{
-    then
+    dbFile=$1
-        echo "Cannot find dbFile $1"
-        exit 1
-    fi
-
     queryName=$2
 
-    LINEQ=`grep -v '^#' $1 | awk -F '/' "/$queryName/ {if (\"$queryName\" "'!= $1) next; print $2}'`
+    [ -f "$dbFile" ] || {
-    NUMQ=`grep -v '^#' $1 | awk -F '/' "/$queryName/ {if (\"$queryName\" "'!= $1) next; print $3}'`
+        echo "Cannot find dbFile $dbFile"
+        exit 1
+    }
+
+    LINEQ=`grep -v '^#' $dbFile | awk -F '/' "/$queryName/ {if (\"$queryName\" "'!= $1) next; print $2}'`
+    NUMQ=`grep -v '^#' $dbFile | awk -F '/' "/$queryName/ {if (\"$queryName\" "'!= $1) next; print $3}'`
 
     #echo "For $queryName found line selection /$LINEQ/ , column selection /$NUMQ/" 1>&2
     #if [ ! "$LINEQ" -o ! "$NUMQ" ]
@@ -153,14 +190,16 @@ getQueries() {
 
 # getDbQueryList dbFile
 # Echoes list of possible queries
-getDbQueryList() {
+getDbQueryList()
+{
     grep -v '^#' $1 | grep '[^ \t]' | awk -F '/' '{print $1}'
 }
 
 
 # getSolveQueryList logFile
 # Echoes list of queries from "solved for" variables in log file
-getSolveQueryList() {
+getSolveQueryList()
+{
     solvedVars=`getSolvedVars $1`
 
     for var in $solvedVars
@@ -174,7 +213,8 @@ getSolveQueryList() {
 
 # getAllQueries dbFile logFile
 # Gets all queries from database and from logfile
-getAllQueries() {
+getAllQueries()
+{
     #-- All solved for queries from log file
     queries=`getSolveQueryList $2`
 
@@ -208,107 +248,33 @@ getAllQueries() {
 # Main
 #-----------------------------
 
-# sort arguments
+if [ "$listOpt" = true ]
-TIMENAME='Time'
-VERBOSE='yes'
-LISTONLY=''
-
-while getopts nslh flags
-do
-    case $flags in
-    n)
-        TIMENAME=""
-        ;;
-    h)
-        printHelp
-        exit 0
-        ;;
-    s)
-        VERBOSE=""
-        ;;
-    l)
-        LISTONLY='yes'
-        ;;
-    \?)
-        printUsage
-        exit 1
-        ;;
-    esac
-done
-
-
-# Shift options
-shift `expr $OPTIND - 1`
-
-if [ ! -f $DBFILE ]
 then
-    echo "$PROGNAME: Cannot read database $DBFILE"
-    exit 1
-fi
-
-if [ "$LISTONLY" ]
-then
-    if [ $# -ne 1 ]
-    then
-        printUsage
-        exit 1
-    fi
-    LOG=$1;
-    if [ ! -r $LOG ]
-    then
-        echo "$PROGNAME: Cannot read log $LOG"
-        exit 1
-    fi
     getAllQueries $DBFILE $LOG
     exit 0
 fi
 
-if [ $# -ne 1 ]
+caseDir=.
-then
+outputDir=$caseDir/logs
-    printUsage
-    exit 1
-fi
 
-CASEDIR=.
+[ -d "$caseDir" ] || {
-LOG=$1
+    echo "$Script: Cannot read $caseDir"
-if [ ! -r $LOG ]
-then
-    echo "$PROGNAME: Cannot read log $LOG"
     exit 1
-fi
+}
 
 QUERYNAMES=`getAllQueries $DBFILE $LOG`
 
-
+#
-if [ ! "$CASEDIR" ]
+# Make logs dir in case directory and place awk file there
-then
+#
-    printUsage
+mkdir -p $outputDir
-    exit 1
+AWKFILE=$outputDir/$Script.awk
-fi
-
-if [ ! -d "$CASEDIR" ]
-then
-    echo "$PROGNAME: Cannot read $CASEDIR"
-    exit 1
-fi
-
-if [ ! -f "$LOG" ]
-then
-    echo "$PROGNAME: Cannot read log file $LOG"
-    exit 1
-fi
-
-
-#-- Make logs dir in case directory and put awk file there.
-
-mkdir -p $CASEDIR/logs
-AWKFILE=$CASEDIR/logs/$PROGNAME.awk
 
 myEcho "Using:"
 myEcho "  log      : $LOG"
 myEcho "  database : $DBFILE"
 myEcho "  awk file : $AWKFILE"
-myEcho "  files to : $CASEDIR/logs"
+myEcho "  files to : $outputDir"
 myEcho ""
 
 
@@ -316,22 +282,25 @@ myEcho ""
 # Generate Awk program
 #-----------------------------
 
-#-- header
+rm -f $AWKFILE 2> /dev/null
+cat << AWK_CONTENTS > $AWKFILE
+# header
+BEGIN {
+    Iteration=0
+    resetCounters()
+}
 
-rm -f $AWKFILE; touch $AWKFILE
+# reset counters used for variable postfix
-echo "BEGIN {" >> $AWKFILE
+function resetCounters() {
-echo "    Iteration=0" >> $AWKFILE
+AWK_CONTENTS
-echo "    resetCounters()" >> $AWKFILE
+# ----------
-echo "}" >> $AWKFILE
 
-echo "" >> $AWKFILE
-echo "# reset counters used for variable postfix" >> $AWKFILE
-echo "function resetCounters() {" >> $AWKFILE
 for queryName in $QUERYNAMES
 do
     varName=${queryName}Cnt
     echo "    ${varName}=0" >> $AWKFILE
 done
+
 echo "    # Reset counters for general Solving for extraction" >> $AWKFILE
 echo "    for (varName in subIter)" >> $AWKFILE
 echo "    {" >> $AWKFILE
@@ -341,10 +310,9 @@ echo "}" >> $AWKFILE
 echo "" >> $AWKFILE
 
 
-cat <<LABEL >> $AWKFILE
+cat << AWK_CONTENTS >> $AWKFILE
 # Extract value after columnSel
-function extract(inLine,columnSel,outVar,
+function extract(inLine,columnSel,outVar,a,b)
-                 a,b)
 {
     a=index(inLine, columnSel)
     b=length(columnSel)
@@ -352,71 +320,82 @@ function extract(inLine,columnSel,outVar,
     gsub("[,:]","",outVar[1])
 }
 
-LABEL
+AWK_CONTENTS
+# ----------
 
-
+#
-#-- Generate code for iteration separator (increments 'Iteration')
+# Code for iteration separator (increments 'Iteration')
+#
 getQueries $DBFILE 'Separator'
-cat <<LABSEP >> $AWKFILE
+cat << AWK_CONTENTS >> $AWKFILE
-#-- Iteration separator (increments 'Iteration')
+# Iteration separator (increments 'Iteration')
 /$LINEQ/ {
     Iteration++
     resetCounters()
 }
 
-LABSEP
+AWK_CONTENTS
+# ----------
 
-
+#
-#-- Generate code for extracting Time
+# Code for extracting Time
+#
 getQueries $DBFILE 'Time'
-cat <<LABTIME >> $AWKFILE
+cat << AWK_CONTENTS >> $AWKFILE
-#-- Time extraction (sets 'Time')
+# Time extraction (sets 'Time')
 /$LINEQ/ {
     extract(\$0, "$NUMQ", val)
     Time=val[1]
 }
 
-LABTIME
+AWK_CONTENTS
+# ----------
 
-
+#
-#-- Generate code for singularity handling.
+# Code for singularity handling.
-cat <<LABSING >> $AWKFILE
+#
-#-- Skip whole line with singularity variable
+cat << AWK_CONTENTS >> $AWKFILE
+# Skip whole line with singularity variable
 /solution singularity/ {
     next;
 }
-LABSING
 
+AWK_CONTENTS
+# ----------
 
-#-- Generate code for extracting solved for quantities
+#
-cat <<LABSOLVE >> $AWKFILE
+# Code for extracting solved for quantities
-#-- Extraction of any solved for variable
+#
+cat << AWK_CONTENTS >> $AWKFILE
+# Extraction of any solved for variable
 /Solving for/ {
     extract(\$0, "Solving for ", varNameVal)
 
     varName=varNameVal[1]
     file=varName "_" subIter[varName]++
-    file="$CASEDIR/logs/" file
+    file="$outputDir/" file
     extract(\$0, "Initial residual = ", val)
-    print $TIMENAME "\t" val[1] > file
+    print $timeName "\t" val[1] > file
 
     varName=varNameVal[1] "FinalRes"
     file=varName "_" subIter[varName]++
-    file="$CASEDIR/logs/" file
+    file="$outputDir/" file
     extract(\$0, "Final residual = ", val)
-    print $TIMENAME "\t" val[1] > file
+    print $timeName "\t" val[1] > file
 
     varName=varNameVal[1] "Iters"
     file=varName "_" subIter[varName]++
-    file="$CASEDIR/logs/" file
+    file="$outputDir/" file
     extract(\$0, "No Iterations ", val)
-    print $TIMENAME "\t" val[1] > file
+    print $timeName "\t" val[1] > file
 }
 
-LABSOLVE
+AWK_CONTENTS
+# ----------
 
-
+#
-#-- generate code to process queries
+# Code to process queries
+#
 for queryName in $QUERYNAMES
 do
     getQueries $DBFILE $queryName
@@ -424,11 +403,11 @@ do
     then
         counter=${queryName}Cnt
 
-        echo "#-- Extraction of $queryName" >> $AWKFILE
+        echo "# Extraction of $queryName" >> $AWKFILE
         echo "/$LINEQ/ {" >> $AWKFILE
         echo "    extract(\$0, \"$NUMQ\", val)" >> $AWKFILE
-        echo "    file=\"$CASEDIR/logs/${queryName}_\" ${counter}" >> $AWKFILE
+        echo "    file=\"$outputDir/${queryName}_\" ${counter}" >> $AWKFILE
-        echo "    print $TIMENAME \"\\t\" val[1] > file" >> $AWKFILE
+        echo "    print $timeName \"\\t\" val[1] > file" >> $AWKFILE
         echo "    ${counter}++" >> $AWKFILE
         echo "}" >> $AWKFILE
         echo "" >> $AWKFILE

bin/foamUpdateCaseFileHeader

@@ -32,41 +32,70 @@
 #     Also removes consecutive blank lines from file.
 #
 #------------------------------------------------------------------------------
-foamVersion=$WM_PROJECT_VERSION
-
 usage() {
+    while [ "$#" -ge 1 ]; do echo "$1"; shift; done
     cat<<USAGE
 
 Usage: ${0##*/} [OPTION] <file1> ... <fileN>
 
 options:
-  -v VER  specifies the version to be written in the header
+  -version <ver>    specifies the version to be written in the header
-  -h      help
+  -help             print the usage
 
   Updates the header of application files and removes consecutive blank lines.
   By default, writes current OpenFOAM version in the header.
-  An alternative version can be specified with the -v option.
+  An alternative version can be specified with the -version option.
 
 USAGE
     exit 1
 }
 
+#------------------------------------------------------------------------------
 
-printHeader() {
+# parse options
+while [ "$#" -gt 0 ]
+do
+    case "$1" in
+    -h | -help)
+        usage
+        ;;
+    -v | -version)
+        [ "$#" -ge 2 ] || usage "'$1' option requires an argument"
+        version="$2"
+        shift 2
+        ;;
+    -*)
+        usage "unknown option: '$*'"
+        ;;
+    *)
+        break
+        ;;
+    esac
+done
+
+# constant width for version - default to WM_PROJECT_VERSION
+version=$(printf %-36s ${version:-$WM_PROJECT_VERSION})
+
+[ $# -ge 1 ] || usage
+
+#------------------------------------------------------------------------------
+
+printHeader()
+{
     cat<<HEADER
 /*--------------------------------*- C++ -*----------------------------------*\\
 | =========                 |                                                 |
 | \\\\      /  F ield         | OpenFOAM: The Open Source CFD Toolbox           |
-|  \\\\    /   O peration     | Version:  ${foamVersion}  |
+|  \\\\    /   O peration     | Version:  $version  |
 |   \\\\  /    A nd           | Web:      www.OpenFOAM.org                      |
 |    \\\\/     M anipulation  |                                                 |
 \\*---------------------------------------------------------------------------*/
 FoamFile
 {
     version     2.0;
-    format      ${1};
+    format      $1;
-    class       ${2};
+    class       $2;
-    object      ${3};
+    object      $3;
 }
 HEADER
 }
@@ -75,68 +104,40 @@ HEADER
 #
 # extract attribute '$1' from file '$2'
 #
-FoamFileAttribute() {
+FoamFileAttribute()
+{
     sed -n -e 's/[ ;]*$//' -e "s/^ *$1 *//p" $2
 }
 
 
 #
-# OPTIONS
+# main
 #
-opts=$(getopt hv: $*)
-if [ $? -ne 0 ]
-then
-    echo "Aborting due to invalid option"
-    usage
-fi
-eval set -- '$opts'
-while [ "$1" != "--" ]
-do
-    case $1 in
-    -v)
-        foamVersion=$2
-        shift
-        ;;
-    -h)
-        usage
-        ;;
-    esac
-    shift
-done
-shift
-
-[ $# -ge 1 ] || usage
-
-
-# constant width for version
-foamVersion=$(printf %-36s $foamVersion)
-
-#
-# MAIN
-#
-unset NOTE
 
+tmpFile=FoamFile.tmp$$
 for caseFile
 do
     if grep FoamFile $caseFile >/dev/null 2>&1
     then
         echo "Updating case file: $caseFile"
-        sed -n '/FoamFile/,/}/p' $caseFile > FoamFile.tmp
+        sed -n '/FoamFile/,/}/p' $caseFile > $tmpFile
 
-        FORMAT=$(FoamFileAttribute format FoamFile.tmp)
+        format=$(FoamFileAttribute format $tmpFile)
-        CLASS=$(FoamFileAttribute  class  FoamFile.tmp)
+        class=$(FoamFileAttribute  class  $tmpFile)
-        OBJECT=$(FoamFileAttribute object FoamFile.tmp)
+        object=$(FoamFileAttribute object $tmpFile)
-        # extract NOTE?
+        # extract note? - needs special handling
+        unset note
 
-        printHeader $FORMAT $CLASS $OBJECT $NOTE > FoamFile.tmp
+        printHeader $format $class $object "$note" > $tmpFile
-        sed '1,/}/d' $caseFile | sed '/./,/^$/!d' >> FoamFile.tmp
+
+        sed '1,/}/d' $caseFile | sed '/./,/^$/!d' >> $tmpFile
 
         # use cat to avoid removing/replace soft-links
-        [ -s FoamFile.tmp ] && cat FoamFile.tmp >| $caseFile
+        [ -s $tmpFile ] && cat $tmpFile >| $caseFile
-        rm -f FoamFile.tmp 2>/dev/null
+        rm -f $tmpFile 2>/dev/null
     else
         echo " Invalid case file: $caseFile" 1>&2
     fi
 done
 
-#------------------------------------------------------------------------------
+#------------------------------------------------------------------ end-of-file

src/OpenFOAM/containers/Lists/DynamicList/DynamicList.H

@@ -2,7 +2,7 @@
   =========                 |
   \\      /  F ield         | OpenFOAM: The Open Source CFD Toolbox
    \\    /   O peration     |
-    \\  /    A nd           | Copyright (C) 1991-2009 OpenCFD Ltd.
+    \\  /    A nd           | Copyright (C) 1991-2010 OpenCFD Ltd.
      \\/     M anipulation  |
 -------------------------------------------------------------------------------
 License
@@ -101,7 +101,7 @@ public:
         explicit inline DynamicList(const label);
 
         //- Construct copy.
-        explicit inline DynamicList
+        inline DynamicList
         (
             const DynamicList<T, SizeInc, SizeMult, SizeDiv>&
         );
@@ -116,7 +116,7 @@ public:
         //- Construct by transferring the parameter contents
         explicit inline DynamicList(const Xfer<List<T> >&);
 
-        //- Construct from Istream. Size set to size of read list.
+        //- Construct from Istream. Size set to size of list read.
         explicit DynamicList(Istream&);
 
 

src/OpenFOAM/db/Time/Time.C

@@ -518,11 +518,28 @@ bool Foam::Time::loop()
 
     if (running)
     {
-        operator++();
+        if (!subCycling_)
+        {
+            readModifiedObjects();
+
+            if (timeIndex_ == startTimeIndex_)
+            {
+                functionObjects_.start();
+            }
+            else
+            {
+                functionObjects_.execute();
+            }
+        }
 
         // Check update the "running" status following the "++" operation
         // to take into account possible side-effects from functionObjects
         running = run();
+
+        if (running)
+        {
+            operator++();
+        }
     }
 
     return running;
@@ -667,20 +684,6 @@ Foam::Time& Foam::Time::operator+=(const scalar deltaT)
 
 Foam::Time& Foam::Time::operator++()
 {
-    if (!subCycling_)
-    {
-        readModifiedObjects();
-
-        if (timeIndex_ == startTimeIndex_)
-        {
-            functionObjects_.start();
-        }
-        else
-        {
-            functionObjects_.execute();
-        }
-    }
-
     deltaT0_ = deltaTSave_;
     deltaTSave_ = deltaT_;
 

src/OpenFOAM/global/argList/argList.C

@@ -750,6 +750,20 @@ Foam::argList::~argList()
 
 // * * * * * * * * * * * * * * * Member Functions  * * * * * * * * * * * * * //
 
+void Foam::argList::printNotes() const
+{
+    // output notes directly - no automatic text wrapping
+    if (!notes.empty())
+    {
+        Info<< nl;
+        forAllConstIter(SLList<string>, notes, iter)
+        {
+            Info<< iter().c_str() << nl;
+        }
+    }
+}
+
+
 void Foam::argList::printUsage() const
 {
     Info<< "\nUsage: " << executable_ << " [OPTIONS]";
@@ -819,20 +833,7 @@ void Foam::argList::printUsage() const
     );
 
 
-    // output notes directly - no automatic text wrapping
+    printNotes();
-    if (!notes.empty())
-    {
-        Info<< nl;
-        for
-        (
-            SLList<string>::const_iterator iter = notes.begin();
-            iter != notes.end();
-            ++iter
-        )
-        {
-            Info<< iter().c_str() << nl;
-        }
-    }
 
     Info<< nl
         <<"Using OpenFOAM-" << Foam::FOAMversion

src/OpenFOAM/global/argList/argList.H

@@ -329,6 +329,9 @@ public:
 
         // Print
 
+            //- Print notes (if any)
+            void printNotes() const;
+
             //- Print usage
             void printUsage() const;
 

src/postProcessing/functionObjects/Allwmake

@@ -6,7 +6,7 @@ wmake libso field
 wmake libso forces
 wmake libso IO
 wmake libso utilities
-wmake libso residualControl
+wmake libso jobControl
 wmake libso systemCall
 
 # ----------------------------------------------------------------- end-of-file

src/postProcessing/functionObjects/IO/writeRegisteredObject/writeRegisteredObject.C

@@ -29,10 +29,7 @@ License
 
 // * * * * * * * * * * * * * * Static Data Members * * * * * * * * * * * * * //
 
-namespace Foam
+defineTypeNameAndDebug(Foam::writeRegisteredObject, 0);
-{
-    defineTypeNameAndDebug(writeRegisteredObject, 0);
-}
 
 
 // * * * * * * * * * * * * * * * * Constructors  * * * * * * * * * * * * * * //

src/postProcessing/functionObjects/field/fieldAverage/controlDict

@@ -36,13 +36,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 functions
 {

src/postProcessing/functionObjects/field/fieldMinMax/fieldMinMax.C

@@ -31,10 +31,7 @@ License
 
 // * * * * * * * * * * * * * * Static Data Members * * * * * * * * * * * * * //
 
-namespace Foam
+defineTypeNameAndDebug(Foam::fieldMinMax, 0);
-{
-    defineTypeNameAndDebug(fieldMinMax, 0);
-}
 
 
 template<>

src/postProcessing/functionObjects/field/fieldValues/cellSource/cellSource.C

@@ -30,31 +30,27 @@ License
 
 // * * * * * * * * * * * * * * Static Data Members * * * * * * * * * * * * * //
 
-namespace Foam
+defineTypeNameAndDebug(Foam::fieldValues::cellSource, 0);
-{
-    namespace fieldValues
-    {
-        defineTypeNameAndDebug(cellSource, 0);
-    }
 
 template<>
-    const char* NamedEnum<fieldValues::cellSource::sourceType, 1>::
+const char* Foam::NamedEnum<Foam::fieldValues::cellSource::sourceType, 1>::
-        names[] = {"cellZone"};
+names[] =
+{
+    "cellZone"
+};
 
-    const NamedEnum<fieldValues::cellSource::sourceType, 1>
+const Foam::NamedEnum<Foam::fieldValues::cellSource::sourceType, 1>
-        fieldValues::cellSource::sourceTypeNames_;
+    Foam::fieldValues::cellSource::sourceTypeNames_;
 
 template<>
-    const char* NamedEnum<fieldValues::cellSource::operationType, 5>::
+const char* Foam::NamedEnum<Foam::fieldValues::cellSource::operationType, 5>::
 names[] =
 {
     "none", "sum", "volAverage", "volIntegrate", "weightedAverage"
 };
 
-    const NamedEnum<fieldValues::cellSource::operationType, 5>
+const Foam::NamedEnum<Foam::fieldValues::cellSource::operationType, 5>
-        fieldValues::cellSource::operationTypeNames_;
+    Foam::fieldValues::cellSource::operationTypeNames_;
-
-}
 
 
 // * * * * * * * * * * * * * Private Member Functions  * * * * * * * * * * * //
@@ -238,4 +234,3 @@ void Foam::fieldValues::cellSource::write()
 
 
 // ************************************************************************* //
-

src/postProcessing/functionObjects/field/fieldValues/controlDict

@@ -37,16 +37,16 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 functions
-(
+{
     faceObj1
     {
         type            faceSource;
@@ -60,6 +60,7 @@ functions
 //        source          faceZone;
 //        sourceName      f0;
         operation       areaAverage;
+
         fields
         (
             p
@@ -79,6 +80,7 @@ functions
         source          faceZone;
         sourceName      f0;
         operation       sum;
+
         fields
         (
             phi
@@ -96,13 +98,13 @@ functions
         source          cellZone;
         sourceName      c0;
         operation       volAverage;
+
         fields
         (
             p
             U
         );
     }
-);
+}
-
 
 // ************************************************************************* //

src/postProcessing/functionObjects/field/fieldValues/faceSource/faceSource.C

@@ -34,31 +34,27 @@ License
 
 // * * * * * * * * * * * * * * Static Data Members * * * * * * * * * * * * * //
 
-namespace Foam
+defineTypeNameAndDebug(Foam::fieldValues::faceSource, 0);
-{
-    namespace fieldValues
-    {
-        defineTypeNameAndDebug(faceSource, 0);
-    }
 
 template<>
-    const char* NamedEnum<fieldValues::faceSource::sourceType, 2>::
+const char* Foam::NamedEnum<Foam::fieldValues::faceSource::sourceType, 2>::
-        names[] = {"faceZone", "patch"};
+names[] =
+{
+    "faceZone", "patch"
+};
 
-    const NamedEnum<fieldValues::faceSource::sourceType, 2>
+const Foam::NamedEnum<Foam::fieldValues::faceSource::sourceType, 2>
-        fieldValues::faceSource::sourceTypeNames_;
+    Foam::fieldValues::faceSource::sourceTypeNames_;
 
 template<>
-    const char* NamedEnum<fieldValues::faceSource::operationType, 5>::
+const char* Foam::NamedEnum<Foam::fieldValues::faceSource::operationType, 5>::
 names[] =
 {
     "none", "sum", "areaAverage", "areaIntegrate", "weightedAverage"
 };
 
-    const NamedEnum<fieldValues::faceSource::operationType, 5>
+const Foam::NamedEnum<Foam::fieldValues::faceSource::operationType, 5>
-        fieldValues::faceSource::operationTypeNames_;
+    Foam::fieldValues::faceSource::operationTypeNames_;
-
-}
 
 
 // * * * * * * * * * * * * * Private Member Functions  * * * * * * * * * * * //

src/postProcessing/functionObjects/field/readFields/postProcessingDict

@@ -16,7 +16,7 @@ FoamFile
 // * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * //
 
 functions
-(
+{
     readFields1
     {
         type            readFields;
@@ -24,11 +24,13 @@ functions
         enabled         true;
         outputControl   timeStep;
         outputInterval  1;
+
         fields
         (
             interpolateU
         );
     }
+
     faceObj2
     {
         type            faceSource;
@@ -41,12 +43,12 @@ functions
         source          faceZone;
         sourceName      f0;
         operation       areaAverage;
+
         fields
         (
             interpolateU
         );
     }
-);
+}
-
 
 // ************************************************************************* //

src/postProcessing/functionObjects/field/readFields/readFields.C

@@ -28,10 +28,7 @@ License
 
 // * * * * * * * * * * * * * * Static Data Members * * * * * * * * * * * * * //
 
-namespace Foam
+defineTypeNameAndDebug(Foam::readFields, 0);
-{
-    defineTypeNameAndDebug(readFields, 0);
-}
 
 
 // * * * * * * * * * * * * * * * * Constructors  * * * * * * * * * * * * * * //

src/postProcessing/functionObjects/field/streamLine/streamLineParticle.C

@@ -31,14 +31,17 @@ License
 namespace Foam
 {
     defineTypeNameAndDebug(streamLineParticle, 0);
+
     defineParticleTypeNameAndDebug(streamLineParticle, 0);
+
     defineTemplateTypeNameAndDebugWithName
     (
         IOField<vectorField>,
         "vectorFieldField",
         0
     );
-};
+}
+
 
 // * * * * * * * * * * * * * Private Member Functions  * * * * * * * * * * * //
 

src/postProcessing/functionObjects/field/streamLine/streamLineParticleCloud.C

@@ -30,7 +30,7 @@ License
 namespace Foam
 {
     defineTemplateTypeNameAndDebug(Cloud<streamLineParticle>, 0);
-};
+}
 
 // * * * * * * * * * * * * * * * * Constructors  * * * * * * * * * * * * * * //
 

src/postProcessing/functionObjects/forces/forceCoeffs/forceCoeffs.C

@@ -30,10 +30,7 @@ License
 
 // * * * * * * * * * * * * * * Static Data Members * * * * * * * * * * * * * //
 
-namespace Foam
+defineTypeNameAndDebug(Foam::forceCoeffs, 0);
-{
-    defineTypeNameAndDebug(forceCoeffs, 0);
-}
 
 
 // * * * * * * * * * * * * * * * * Constructors  * * * * * * * * * * * * * * //

src/postProcessing/functionObjects/forces/forces/forces.C

@@ -39,10 +39,8 @@ License
 
 // * * * * * * * * * * * * * * Static Data Members * * * * * * * * * * * * * //
 
-namespace Foam
+defineTypeNameAndDebug(Foam::forces, 0);
-{
+
-    defineTypeNameAndDebug(forces, 0);
-}
 
 // * * * * * * * * * * * * * Private Member Functions  * * * * * * * * * * * //
 

src/postProcessing/functionObjects/forces/pointPatchFields/derived/sixDoFRigidBodyMotion/sixDoFRigidBodyMotionConstraint/fixedAxis/fixedAxis.C

@@ -34,14 +34,15 @@ namespace Foam
 namespace sixDoFRigidBodyMotionConstraints
 {
     defineTypeNameAndDebug(fixedAxis, 0);
+
     addToRunTimeSelectionTable
     (
         sixDoFRigidBodyMotionConstraint,
         fixedAxis,
         dictionary
     );
-};
+}
-};
+}
 
 
 // * * * * * * * * * * * * * * * * Constructors  * * * * * * * * * * * * * * //

src/postProcessing/functionObjects/forces/pointPatchFields/derived/sixDoFRigidBodyMotion/sixDoFRigidBodyMotionConstraint/fixedLine/fixedLine.C

@@ -34,14 +34,15 @@ namespace Foam
 namespace sixDoFRigidBodyMotionConstraints
 {
     defineTypeNameAndDebug(fixedLine, 0);
+
     addToRunTimeSelectionTable
     (
         sixDoFRigidBodyMotionConstraint,
         fixedLine,
         dictionary
     );
-};
+}
-};
+}
 
 
 // * * * * * * * * * * * * * * * * Constructors  * * * * * * * * * * * * * * //

src/postProcessing/functionObjects/forces/pointPatchFields/derived/sixDoFRigidBodyMotion/sixDoFRigidBodyMotionConstraint/fixedOrientation/fixedOrientation.C

@@ -34,14 +34,15 @@ namespace Foam
 namespace sixDoFRigidBodyMotionConstraints
 {
     defineTypeNameAndDebug(fixedOrientation, 0);
+
     addToRunTimeSelectionTable
     (
         sixDoFRigidBodyMotionConstraint,
         fixedOrientation,
         dictionary
     );
-};
+}
-};
+}
 
 
 // * * * * * * * * * * * * * * * * Constructors  * * * * * * * * * * * * * * //

src/postProcessing/functionObjects/forces/pointPatchFields/derived/sixDoFRigidBodyMotion/sixDoFRigidBodyMotionConstraint/fixedPlane/fixedPlane.C

@@ -34,14 +34,15 @@ namespace Foam
 namespace sixDoFRigidBodyMotionConstraints
 {
     defineTypeNameAndDebug(fixedPlane, 0);
+
     addToRunTimeSelectionTable
     (
         sixDoFRigidBodyMotionConstraint,
         fixedPlane,
         dictionary
     );
-};
+}
-};
+}
 
 
 // * * * * * * * * * * * * * * * * Constructors  * * * * * * * * * * * * * * //

src/postProcessing/functionObjects/forces/pointPatchFields/derived/sixDoFRigidBodyMotion/sixDoFRigidBodyMotionConstraint/fixedPoint/fixedPoint.C

@@ -34,14 +34,15 @@ namespace Foam
 namespace sixDoFRigidBodyMotionConstraints
 {
     defineTypeNameAndDebug(fixedPoint, 0);
+
     addToRunTimeSelectionTable
     (
         sixDoFRigidBodyMotionConstraint,
         fixedPoint,
         dictionary
     );
-};
+}
-};
+}
 
 
 // * * * * * * * * * * * * * * * * Constructors  * * * * * * * * * * * * * * //

src/postProcessing/functionObjects/forces/pointPatchFields/derived/sixDoFRigidBodyMotion/sixDoFRigidBodyMotionRestraint/linearAxialAngularSpring/linearAxialAngularSpring.C

@@ -35,14 +35,15 @@ namespace Foam
 namespace sixDoFRigidBodyMotionRestraints
 {
     defineTypeNameAndDebug(linearAxialAngularSpring, 0);
+
     addToRunTimeSelectionTable
     (
         sixDoFRigidBodyMotionRestraint,
         linearAxialAngularSpring,
         dictionary
     );
-};
+}
-};
+}
 
 
 // * * * * * * * * * * * * * * * * Constructors  * * * * * * * * * * * * * * //

src/postProcessing/functionObjects/forces/pointPatchFields/derived/sixDoFRigidBodyMotion/sixDoFRigidBodyMotionRestraint/linearSpring/linearSpring.C

@@ -34,14 +34,15 @@ namespace Foam
 namespace sixDoFRigidBodyMotionRestraints
 {
     defineTypeNameAndDebug(linearSpring, 0);
+
     addToRunTimeSelectionTable
     (
         sixDoFRigidBodyMotionRestraint,
         linearSpring,
         dictionary
     );
-};
+}
-};
+}
 
 
 // * * * * * * * * * * * * * * * * Constructors  * * * * * * * * * * * * * * //

src/postProcessing/functionObjects/forces/pointPatchFields/derived/sixDoFRigidBodyMotion/sixDoFRigidBodyMotionRestraint/sphericalAngularSpring/sphericalAngularSpring.C

@@ -34,14 +34,15 @@ namespace Foam
 namespace sixDoFRigidBodyMotionRestraints
 {
     defineTypeNameAndDebug(sphericalAngularSpring, 0);
+
     addToRunTimeSelectionTable
     (
         sixDoFRigidBodyMotionRestraint,
         sphericalAngularSpring,
         dictionary
     );
-};
+}
-};
+}
 
 
 // * * * * * * * * * * * * * * * * Constructors  * * * * * * * * * * * * * * //

src/postProcessing/functionObjects/forces/pointPatchFields/derived/sixDoFRigidBodyMotion/sixDoFRigidBodyMotionRestraint/tabulatedAxialAngularSpring/tabulatedAxialAngularSpring.C

@@ -36,14 +36,15 @@ namespace Foam
 namespace sixDoFRigidBodyMotionRestraints
 {
     defineTypeNameAndDebug(tabulatedAxialAngularSpring, 0);
+
     addToRunTimeSelectionTable
     (
         sixDoFRigidBodyMotionRestraint,
         tabulatedAxialAngularSpring,
         dictionary
     );
-};
+}
-};
+}
 
 
 // * * * * * * * * * * * * * * * * Constructors  * * * * * * * * * * * * * * //

src/postProcessing/functionObjects/jobControl/Make/files

@@ -0,0 +1,7 @@
+abortCalculation/abortCalculation.C
+abortCalculation/abortCalculationFunctionObject.C
+
+residualControl/residualControl.C
+residualControl/residualControlFunctionObject.C
+
+LIB = $(FOAM_LIBBIN)/libjobControl

src/postProcessing/functionObjects/jobControl/abortCalculation/abortCalculation.C

@@ -31,10 +31,8 @@ License
 
 // * * * * * * * * * * * * * * Static Data Members * * * * * * * * * * * * * //
 
-namespace Foam
+defineTypeNameAndDebug(Foam::abortCalculation, 0);
-{
+
-    defineTypeNameAndDebug(abortCalculation, 0);
-}
 
 // * * * * * * * * * * * * * * Static Data Members * * * * * * * * * * * * * //
 

src/postProcessing/functionObjects/jobControl/residualControl/controlDict

@@ -1,4 +1,4 @@
-*--------------------------------*- C++ -*----------------------------------*\
+/*--------------------------------*- C++ -*----------------------------------*\
 | =========                 |                                                 |
 | \\      /  F ield         | OpenFOAM: The Open Source CFD Toolbox           |
 |  \\    /   O peration     | Version:  1.6                                   |
@@ -37,31 +37,32 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
-
 
 functions
-(
+{
     convergenceChecks
     {
         type            residualControl;
-        functionObjectLibs ( "libresidualControl.so" );
+        functionObjectLibs ( "libjobControl.so" );
         outputControl   timeStep;
         outputInterval  1;
 
         maxResiduals
-        (
+        {
-            (p          5e-4)
+            p       5e-4;
-            (U          1e-3)
+            U       1e-3;
-        );
-    }
-);
 
+            // possibly check turbulence fields
+            "(k|epsilon|omega)" 1e-3;
+        }
+    }
+}
 
 // ************************************************************************* //

src/postProcessing/functionObjects/jobControl/residualControl/residualControl.C

@@ -24,40 +24,35 @@ License
 \*---------------------------------------------------------------------------*/
 
 #include "residualControl.H"
-#include "dictionary.H"
 #include "fvMesh.H"
 #include "Time.H"
 
 // * * * * * * * * * * * * * * Static Data Members * * * * * * * * * * * * * //
 
-namespace Foam
+defineTypeNameAndDebug(Foam::residualControl, 0);
-{
-    defineTypeNameAndDebug(residualControl, 0);
-}
 
 
 // * * * * * * * * * * * * Protected Member Functions  * * * * * * * * * * * //
 
-bool Foam::residualControl::checkCriteria(const bool output) const
+bool Foam::residualControl::checkCriteria(const bool verbose) const
 {
     bool achieved = true;
     const fvMesh& mesh = static_cast<const fvMesh&>(obr_);
     const dictionary& solverDict = mesh.solverPerformanceDict();
-    forAll(maxResiduals_, i)
-    {
-        const word& variableName = maxResiduals_[i].first();
-        if (solverDict.found(variableName))
-        {
-            const scalar maxResidual = maxResiduals_[i].second();
 
-            const lduMatrix::solverPerformance
+    forAllConstIter(dictionary, solverDict, iter)
-                sp(solverDict.lookup(variableName));
+    {
+        const word& variableName = iter().keyword();
+        scalar maxResidual;
 
-            const scalar eqnResidual = sp.initialResidual();
+        if (maxResiduals_.readIfPresent(variableName, maxResidual))
+        {
+            const scalar eqnResidual =
+                lduMatrix::solverPerformance(iter().stream()).initialResidual();
 
             achieved = achieved && (eqnResidual < maxResidual);
 
-            if (output)
+            if (verbose)
             {
                 Info<< "    " << variableName
                     << ": requested max residual = " << maxResidual
@@ -121,7 +116,7 @@ void Foam::residualControl::read(const dictionary& dict)
 {
     if (active_)
     {
-        dict.lookup("maxResiduals") >> maxResiduals_;
+        maxResiduals_ = dict.subDict("maxResiduals");
     }
 }
 

src/postProcessing/functionObjects/jobControl/residualControl/residualControl.H

@@ -37,8 +37,8 @@ SourceFiles
 #ifndef residualControl_H
 #define residualControl_H
 
+#include "dictionary.H"
 #include "pointFieldFwd.H"
-#include "Tuple2.H"
 
 // * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * //
 
@@ -69,8 +69,8 @@ protected:
         //- On/off switch - on if obr_ is an fvMesh object
         bool active_;
 
-        //- List of variable name vs max residual
+        //- Dictionary of variable names vs max residual
-        List<Tuple2<word, scalar> > maxResiduals_;
+        dictionary maxResiduals_;
 
         //- Flag to indicate whether convergence criteria have been met
         bool criteriaSatisfied_;
@@ -79,7 +79,7 @@ protected:
     // Protected Member Functions
 
         //- Perform residual control checks
-        bool checkCriteria(const bool output) const;
+        bool checkCriteria(const bool verbose) const;
 
         //- Disallow default bitwise copy construct
         residualControl(const residualControl&);
@@ -113,7 +113,7 @@ public:
 
     // Member Functions
 
-        //- Return name of the system call set
+        //- Return name of the residual criteria check name
         virtual const word& name() const
         {
             return name_;
@@ -122,13 +122,13 @@ public:
         //- Read the system calls
         virtual void read(const dictionary&);
 
-        //- Execute the "executeCalls" at each time-step
+        //- Check the residual criteria at each time-step
         virtual void execute();
 
-        //- Execute the "endCalls" at the final time-loop
+        //- Report residual criteria check at the final time-loop
         virtual void end();
 
-        //- Write, execute the "writeCalls"
+        //- Write, not used
         virtual void write();
 
         //- Update for changes of mesh

src/postProcessing/functionObjects/residualControl/Make/files

@@ -1,4 +0,0 @@
-residualControl.C
-residualControlFunctionObject.C
-
-LIB = $(FOAM_LIBBIN)/libresidualControl

src/postProcessing/functionObjects/systemCall/systemCall.C

@@ -29,10 +29,7 @@ License
 
 // * * * * * * * * * * * * * * Static Data Members * * * * * * * * * * * * * //
 
-namespace Foam
+defineTypeNameAndDebug(Foam::systemCall, 0);
-{
-    defineTypeNameAndDebug(systemCall, 0);
-}
 
 
 // * * * * * * * * * * * * * * * * Constructors  * * * * * * * * * * * * * * //

src/postProcessing/functionObjects/utilities/Make/files

@@ -1,6 +1,3 @@
-abortCalculation/abortCalculation.C
-abortCalculation/abortCalculationFunctionObject.C
-
 staticPressure/staticPressure.C
 staticPressure/staticPressureFunctionObject.C
 

src/postProcessing/functionObjects/utilities/dsmcFields/dsmcFields.C

@@ -34,10 +34,7 @@ using namespace Foam::constant;
 
 // * * * * * * * * * * * * * * Static Data Members * * * * * * * * * * * * * //
 
-namespace Foam
+defineTypeNameAndDebug(Foam::dsmcFields, 0);
-{
-    defineTypeNameAndDebug(dsmcFields, 0);
-}
 
 
 // * * * * * * * * * * * * * * * * Constructors  * * * * * * * * * * * * * * //

src/postProcessing/functionObjects/utilities/staticPressure/staticPressure.C

@@ -29,10 +29,8 @@ License
 
 // * * * * * * * * * * * * * * Static Data Members * * * * * * * * * * * * * //
 
-namespace Foam
+defineTypeNameAndDebug(Foam::staticPressure, 0);
-{
+
-    defineTypeNameAndDebug(staticPressure, 0);
-}
 
 // * * * * * * * * * * * * * Private Member Functions  * * * * * * * * * * * //
 

src/postProcessing/functionObjects/utilities/timeActivatedFileUpdate/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 functions
 {
@@ -54,6 +54,7 @@ functions
         outputControl   timeStep;
         outputInterval  1;
         fileToUpdate    "$FOAM_CASE/system/fvSolution";
+
         timeVsFile
         (
             ( -1   "$FOAM_CASE/system/fvSolution.0"  )

src/postProcessing/functionObjects/utilities/timeActivatedFileUpdate/timeActivatedFileUpdate.C

@@ -30,10 +30,7 @@ License
 
 // * * * * * * * * * * * * * * Static Data Members * * * * * * * * * * * * * //
 
-namespace Foam
+defineTypeNameAndDebug(Foam::timeActivatedFileUpdate, 0);
-{
-    defineTypeNameAndDebug(timeActivatedFileUpdate, 0);
-}
 
 
 // * * * * * * * * * * * * * Private Member Functions  * * * * * * * * * * * //

src/sampling/sampledSurface/isoSurface/isoSurface.C

@@ -36,10 +36,8 @@ License
 
 // * * * * * * * * * * * * * * Static Data Members * * * * * * * * * * * * * //
 
-namespace Foam
+defineTypeNameAndDebug(Foam::isoSurface, 0);
-{
+
-    defineTypeNameAndDebug(isoSurface, 0);
-}
 
 // * * * * * * * * * * * * * Private Member Functions  * * * * * * * * * * * //
 

src/sampling/sampledSurface/isoSurface/isoSurfaceCell.C

@@ -34,10 +34,8 @@ License
 
 // * * * * * * * * * * * * * * Static Data Members * * * * * * * * * * * * * //
 
-namespace Foam
+defineTypeNameAndDebug(Foam::isoSurfaceCell, 0);
-{
+
-    defineTypeNameAndDebug(isoSurfaceCell, 0);
-}
 
 // * * * * * * * * * * * * * Private Member Functions  * * * * * * * * * * * //
 

tutorials/Alltest

@@ -36,11 +36,11 @@ usage()
     while [ "$#" -ge 1 ]; do echo "$1"; shift; done
     cat<<USAGE
 
-usage: $0 [OPTION]
+usage: ${0##*/} [OPTION]
 
 options:
-  -d            sets up a default scheme on all schemes
+  -default          sets up a default scheme on all schemes
-  -h            this usage
+  -help             print the usage
 
 * quickly tests the tutorials and writes out the scheme/solver information
 
@@ -48,6 +48,30 @@ USAGE
     exit 1
 }
 
+#------------------------------------------------------------------------------
+
+unset DEFAULT_SCHEMES
+
+# parse options
+while [ "$#" -gt 0 ]
+do
+    case "$1" in
+    -h | -help)
+        usage
+        ;;
+    -d | -default)
+        DEFAULT_SCHEMES=true
+        shift
+        ;;
+    -*)
+        usage "unknown option: '$*'"
+        ;;
+    *)
+        break
+        ;;
+    esac
+done
+
 
 setDefaultFvSchemes()
 {
@@ -98,6 +122,7 @@ done
 
 [ -f "$MAIN_CONTROL_DICT" ] || usage "main controlDict not found"
 
+
 TUTORIALS_DIR=.
 TEST_RUN_DIR=../tutorialsTest
 FV_SCHEMES=\
@@ -113,30 +138,7 @@ SCHEMES_FILE="FvSchemes"
 SCHEMES_TEMP="FvSchemes.temp"
 SOLVERS_FILE="FvSolution"
 SOLVERS_TEMP="FvSolution.temp"
-DEFAULT_SCHEMES=0
 
-#
-# OPTIONS
-#
-OPTS=`getopt hd $*`
-if [ $? -ne 0 ]
-then
-    usage "Aborting due to invalid option"
-fi
-eval set -- "$OPTS"
-while [ $1 != -- ]
-do
-    case $1 in
-    -d)
-        DEFAULT_SCHEMES=1
-        ;;
-    -h)
-        usage
-        ;;
-    esac
-    shift
-done
-shift
 
 #
 # MAIN
@@ -182,7 +184,7 @@ do
     ${CD}.org > ${CD}
 done
 
-if [ $DEFAULT_SCHEMES = 1 ]
+if [ "$DEFAULT_SCHEMES" = true ]
 then
     echo "Modifying the fvSchemes to contain only default schemes"
     for FV_SC in `find . -name fvSchemes`
@@ -209,8 +211,7 @@ do
     echo "$APP: " | tr -d "\n" >> $SOLVERS_FILE
     for ST in $FV_SCHEMES
     do
-        rm $SCHEMES_TEMP > /dev/null 2>&1
+        rm $SCHEMES_TEMP $SOLVERS_TEMP > /dev/null 2>&1
-        rm $SOLVERS_TEMP > /dev/null 2>&1
         echo "  ${ST}" >> $SCHEMES_FILE
         for LOG in `find ${APP} -name "log.${APP}"`
         do

tutorials/DNS/dnsFoam/boxTurb16/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 graphFormat     raw;
 

tutorials/basic/laplacianFoam/flange/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 
 // ************************************************************************* //

tutorials/basic/potentialFoam/cylinder/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 
 // ************************************************************************* //

tutorials/basic/potentialFoam/pitzDaily/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 
 // ************************************************************************* //

tutorials/basic/scalarTransportFoam/pitzDaily/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 
 // ************************************************************************* //

tutorials/combustion/XiFoam/les/pitzDaily/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  yes;
 
@@ -57,6 +57,7 @@ functions
         functionObjectLibs ( "libfieldFunctionObjects.so" );
         enabled         true;
         outputControl   outputTime;
+
         fields
         (
             U
@@ -76,5 +77,4 @@ functions
     }
 }
 
-
 // ************************************************************************* //

tutorials/combustion/XiFoam/les/pitzDaily3D/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression compressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  yes;
 
@@ -57,6 +57,7 @@ functions
         functionObjectLibs ( "libfieldFunctionObjects.so" );
         enabled         true;
         outputControl   outputTime;
+
         fields
         (
             U
@@ -76,5 +77,4 @@ functions
     }
 }
 
-
 // ************************************************************************* //

tutorials/combustion/XiFoam/ras/moriyoshiHomogeneous/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  no;
 

tutorials/combustion/dieselFoam/aachenBomb/system/controlDict

@@ -37,7 +37,7 @@ writeFormat     binary;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
@@ -47,7 +47,7 @@ adjustTimeStep  yes;
 
 maxCo           0.1;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 
 // ************************************************************************* //

tutorials/combustion/engineFoam/kivaTest/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  no;
 

tutorials/combustion/engineFoam/kivaTest/system/controlDict.1st

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  no;
 

tutorials/combustion/engineFoam/kivaTest/system/controlDict.2nd

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  no;
 

tutorials/combustion/fireFoam/les/smallPoolFire2D/system/controlDict

@@ -36,7 +36,7 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
@@ -44,7 +44,7 @@ timePrecision   6;
 
 graphFormat     raw;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  yes;
 

tutorials/combustion/reactingFoam/ras/counterFlowFlame2D/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  yes;
 

tutorials/compressible/rhoCentralFoam/LadenburgJet60psi/system/controlDict

@@ -37,7 +37,7 @@ writeFormat     ascii;
 
 writePrecision  15;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 

tutorials/compressible/rhoCentralFoam/biconic25-55Run35/sampleCone

@@ -20,32 +20,34 @@ USAGE
     exit 1
 }
 
+# -----------------------------------------------------------------------------
 
 unset timeOpt
 
-OPTS=`getopt hl $*`
+# parse options
-[ $? -eq 0 ] || usage "Aborting due to invalid option"
+while [ "$#" -gt 0 ]
-
-eval set -- "$OPTS"
-while [ $1 != -- ]
 do
-    case $1 in
+    case "$1" in
-    -l)
+    -h | -help)
-        timeOpt="-latestTime"
-        ;;
-    -h)
         usage
         ;;
+    -l | -latestTime)
+        timeOpt="-latestTime"
+        shift
+        ;;
+    *)
+        usage "unknown option/argument: '$*'"
+        ;;
     esac
-    shift
 done
-shift
+
 
 sample $timeOpt
-SDIR="sets"
+SDIR=sets
 LSDIR=`ls $SDIR | head -1`
 EXAMPLE_FILE=`ls -1 $SDIR/${LSDIR}/* | head -1`
 FS=`basename $EXAMPLE_FILE | cut -d_ -f2-`
+
 for d in $SDIR/*
 do
     cat ${d}/cone25_${FS} ${d}/cone55_${FS} ${d}/base_${FS} > ${d}/biconic_${FS}

tutorials/compressible/rhoCentralFoam/biconic25-55Run35/system/controlDict

@@ -37,7 +37,7 @@ writeFormat     ascii;
 
 writePrecision  15;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 

tutorials/compressible/rhoCentralFoam/forwardStep/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  yes;
 

tutorials/compressible/rhoCentralFoam/obliqueShock/system/controlDict

@@ -37,7 +37,7 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
@@ -45,7 +45,7 @@ timePrecision   6;
 
 graphFormat     raw;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  yes;
 

tutorials/compressible/rhoCentralFoam/shockTube/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  yes;
 

tutorials/compressible/rhoCentralFoam/wedge15Ma5/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  no;
 

tutorials/compressible/rhoPimpleFoam/angledDuct/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  no;
 

tutorials/compressible/rhoPisoFoam/les/pitzDaily/system/controlDict

@@ -37,19 +37,18 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  no;
 
 maxCo           0.5;
 
-
 functions
 {
     fieldAverage1
@@ -58,6 +57,7 @@ functions
         functionObjectLibs ( "libfieldFunctionObjects.so" );
         enabled         true;
         outputControl   outputTime;
+
         fields
         (
             U
@@ -77,5 +77,4 @@ functions
     }
 }
 
-
 // ************************************************************************* //

tutorials/compressible/rhoPisoFoam/ras/cavity/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  no;
 

tutorials/compressible/rhoPorousMRFPimpleFoam/mixerVessel2D/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  yes;
 

tutorials/compressible/rhoPorousSimpleFoam/angledDuctExplicit/system/controlDict

@@ -37,7 +37,7 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
@@ -45,7 +45,7 @@ timePrecision   6;
 
 graphFormat     raw;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 
 // ************************************************************************* //

tutorials/compressible/rhoPorousSimpleFoam/angledDuctImplicit/system/controlDict

@@ -37,7 +37,7 @@ writeFormat     binary;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
@@ -45,7 +45,7 @@ timePrecision   6;
 
 graphFormat     raw;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 
 // ************************************************************************* //

tutorials/compressible/rhoSimplecFoam/squareBend/system/controlDict

@@ -37,7 +37,7 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
@@ -45,7 +45,7 @@ timePrecision   6;
 
 graphFormat     raw;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 
 // ************************************************************************* //

tutorials/compressible/rhoSonicFoam/forwardStep/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 
 // ************************************************************************* //

tutorials/compressible/rhoSonicFoam/shockTube/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 
 // ************************************************************************* //

tutorials/compressible/rhopSonicFoam/shockTube/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  no;
 

tutorials/compressible/rhopSonicFoam/wedge15Ma5/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  no;
 

tutorials/compressible/sonicFoam/laminar/forwardStep/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 
 // ************************************************************************* //

tutorials/compressible/sonicFoam/laminar/shockTube/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 
 // ************************************************************************* //

tutorials/compressible/sonicFoam/ras/nacaAirfoil/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression compressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 functions
 {
@@ -53,10 +53,12 @@ functions
         functionObjectLibs ( "libforces.so" );
         outputControl   timeStep;
         outputInterval  1;
+
         patches
         (
             WALL10
         );
+
         pName       p;
         UName       U;
         log         true;
@@ -71,5 +73,4 @@ functions
     }
 }
 
-
 // ************************************************************************* //

tutorials/compressible/sonicFoam/ras/prism/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 
 // ************************************************************************* //

tutorials/compressible/sonicLiquidFoam/decompressionTank/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression compressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 
 // ************************************************************************* //

tutorials/discreteMethods/dsmcFoam/freeSpacePeriodic/system/controlDict

@@ -37,23 +37,23 @@ writeFormat     ascii;
 
 writePrecision  10;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  no;
 
 functions
-(
+{
     dsmcFields1
     {
         type            dsmcFields;
-        enabled   on;
         functionObjectLibs ( "libutilityFunctionObjects.so" );
+        enabled         true;
         outputControl   outputTime;
     }
     fieldAverage1
@@ -62,6 +62,7 @@ functions
         functionObjectLibs ( "libfieldFunctionObjects.so" );
         outputControl   outputTime;
         resetOnOutput   off;
+
         fields
         (
             rhoN
@@ -120,7 +121,6 @@ functions
             }
         );
     }
-);
+}
-
 
 // ************************************************************************* //

tutorials/discreteMethods/dsmcFoam/freeSpaceStream/system/controlDict

@@ -37,23 +37,23 @@ writeFormat     ascii;
 
 writePrecision  10;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  no;
 
 functions
-(
+{
     dsmcFields1
     {
         type            dsmcFields;
-        enabled   on;
         functionObjectLibs ( "libutilityFunctionObjects.so" );
+        enabled         true;
         outputControl   outputTime;
     }
     fieldAverage1
@@ -62,6 +62,7 @@ functions
         functionObjectLibs ( "libfieldFunctionObjects.so" );
         outputControl   outputTime;
         resetOnOutput   off;
+
         fields
         (
             rhoN
@@ -120,7 +121,6 @@ functions
             }
         );
     }
-);
+}
-
 
 // ************************************************************************* //

tutorials/discreteMethods/dsmcFoam/supersonicCorner/system/controlDict

@@ -37,23 +37,23 @@ writeFormat     ascii;
 
 writePrecision  10;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  no;
 
 functions
-(
+{
     dsmcFields1
     {
         type            dsmcFields;
-        enabled   on;
         functionObjectLibs ( "libutilityFunctionObjects.so" );
+        enabled         true;
         outputControl   outputTime;
     }
     fieldAverage1
@@ -62,6 +62,7 @@ functions
         functionObjectLibs ( "libfieldFunctionObjects.so" );
         outputControl   outputTime;
         resetOnOutput   off;
+
         fields
         (
             rhoN
@@ -120,7 +121,6 @@ functions
             }
         );
     }
-);
+}
-
 
 // ************************************************************************* //

tutorials/discreteMethods/dsmcFoam/wedge15Ma5/system/controlDict

@@ -38,23 +38,23 @@ writeFormat     ascii;
 
 writePrecision  10;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  no;
 
 functions
-(
+{
     dsmcFields1
     {
         type            dsmcFields;
-        enabled   on;
         functionObjectLibs ( "libutilityFunctionObjects.so" );
+        enabled         true;
         outputControl   outputTime;
     }
 
@@ -64,6 +64,7 @@ functions
         functionObjectLibs ( "libfieldFunctionObjects.so" );
         outputControl   outputTime;
         resetOnOutput   off;
+
         fields
         (
             rhoN
@@ -126,7 +127,7 @@ functions
     forces1
     {
         type            forces;
-        enabled     on;
+        enabled         true;
         functionObjectLibs ( "libforces.so" );
         outputControl   outputTime;
         patches         ( obstacle );
@@ -135,7 +136,6 @@ functions
         CofR            ( 0 0 0 );
         log             on;
     }
-);
+}
-
 
 // ************************************************************************* //

tutorials/discreteMethods/molecularDynamics/mdEquilibrationFoam/periodicCubeArgon/system/controlDict

@@ -36,13 +36,13 @@ writeFormat     ascii;
 
 writePrecision  12;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  no;
 

tutorials/discreteMethods/molecularDynamics/mdEquilibrationFoam/periodicCubeWater/system/controlDict

@@ -36,13 +36,13 @@ writeFormat     ascii;
 
 writePrecision  12;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  no;
 

tutorials/discreteMethods/molecularDynamics/mdFoam/nanoNozzle/system/controlDict

@@ -36,13 +36,13 @@ writeFormat     ascii;
 
 writePrecision  12;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  no;
 

tutorials/electromagnetics/electrostaticFoam/chargedWire/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 
 // ************************************************************************* //

tutorials/electromagnetics/mhdFoam/hartmann/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 
 // ************************************************************************* //

tutorials/financial/financialFoam/europeanCall/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 graphFormat     raw;
 

tutorials/heatTransfer/buoyantBoussinesqPisoFoam/hotRoom/system/controlDict

@@ -37,13 +37,13 @@ writeFormat     ascii;
 
 writePrecision  6;
 
-writeCompression uncompressed;
+writeCompression off;
 
 timeFormat      general;
 
 timePrecision   6;
 
-runTimeModifiable yes;
+runTimeModifiable true;
 
 adjustTimeStep  no;