--- MITgcm/verification/testreport	2007/10/12 21:39:37	1.105
+++ MITgcm/verification/testreport	2010/01/14 23:17:42	1.132
@@ -1,6 +1,6 @@
 #! /usr/bin/env bash
 #
-#  $Header: /home/ubuntu/mnt/e9_copy/MITgcm/verification/testreport,v 1.105 2007/10/12 21:39:37 jmc Exp $
+#  $Header: /home/ubuntu/mnt/e9_copy/MITgcm/verification/testreport,v 1.132 2010/01/14 23:17:42 jmc Exp $
 #  $Name:  $
 #
 
@@ -11,13 +11,16 @@
     echo
     echo "where possible OPTIONS are:"
     echo "  (-help|-h)               print usage"
-    echo "  (-mth)                   run multi threaded (using eedata.mth)"
+    echo "  (-mth)                   run multi-threaded (using eedata.mth)"
     echo "  (-mpi)                   compile and run using MPI"
     echo "  (-ieee|-noieee)          if possible, use IEEE compiler flags"
     echo "                             (DEF=\"-ieee\")"
+    echo "  (-gsl)                   compile with \"-gsl\" flag"
     echo "  (-of=|-optfile=)STRING   list of optfiles to use"
     echo "  (-a|-addr) STRING        list of email recipients"
-    echo "                             (DEF=\"edhill@mitgcm.org\")"
+    echo "                             (DEF=\"\" no email is sent)"
+    echo "  (-mpd|-mpackdir) DIR     location of the mpack utility"
+    echo "                             (DEF=\"../tools/mpack-1.6\")"
     echo "  (-t|-tdir) STRING        list of group and/or exp. dirs to test"
     echo "                             (recognized groups: basic, tutorials)"
     echo "                             (DEF=\"\" which test all)"
@@ -27,6 +30,7 @@
     echo "                             Bourne-compatible \"sh\" shell"
     echo "                             (DEF=\"\" for \"bash\")"
     echo "  (-adm|-ad)               perform an adjoint run"
+    echo "  (-oad)                   perform an OpenAD adjoint run"
     echo "  (-command) STRING        command to run"
     echo "                             (DEF=\"make output.txt\")"
     echo "  (-m|-make) STRING        command to use for \"make\""
@@ -64,7 +68,8 @@
 build_mpack()
 {
     printf "building the mpack utility...  "
-    if test ! -x "$MPACKDIR/mpack" ; then
+    MPACK="$MPACKDIR/mpack"
+    if test ! -x $MPACK ; then
 	if test ! -d $MPACKDIR ; then
 	    echo
 	    echo "Error: can't find \"$MPACKDIR\""
@@ -73,10 +78,10 @@
 	    echo
 	    HAVE_MPACK=f
 	fi
-	printf "building mpack...  "
 	if test "x$CC" = x ; then
 	    export CC=cc
 	fi
+	printf "building mpack (using CC=$CC)...  "
 	( cd $MPACKDIR && ./configure && $MAKE ) > tr_build_mpack.out 2>&1
 	RETVAL=$?
 	if test "x$RETVAL" != x0 ; then
@@ -87,11 +92,12 @@
 	else
 	    rm -f tr_build_mpack.out
 	    HAVE_MPACK=t
+	    echo "done"
 	fi
     else
 	HAVE_MPACK=t
+	echo "already exist"
     fi
-    echo "OK"
 }
 
 testoutput_var()
@@ -174,46 +180,6 @@
     return $digits_of_similarity
 }
 
-dashnum()
-{
-    # dashnum n1 n2 n3 ...
-    #
-    #  print numbers using %3i format or "--" if number = 99
-
-    for num in $@ ; do
-	if [ $num = 99 ]; then
-	    printf ' --'
-	else
-	    printf '%3i' $num
-	fi
-    done
-}
-
-check_for_add_mon_output()
-{
-    # Check for additional types of monitor output
-    if test "x$1" = x ; then
-	return
-    fi
-
-    for ii in $PTRACERS_NUM ; do
-	eval "HAVE_PTR0"$ii"=f"
-    done
-
-    ptr_add="trcstat_ptracerXX_min trcstat_ptracerXX_max"
-    ptr_add="$ptr_add trcstat_ptracerXX_mean trcstat_ptracerXX_sd"
-    for ii in $PTRACERS_NUM ; do
-	for jj in $ptr_add ; do
-	    name=`eval "echo $jj | sed -e 's|XX|0"$ii"|g'"`
-	    tst=`grep $name $1 | wc -l | awk '{print $1}'`
-	    if test ! "x$tst" = x0 ; then
-		eval "HAVE_PTR0"$ii"=t"
-	    fi
-	done
-	#  eval 'echo "HAVE_PTR0'$ii' = $HAVE_PTR0'$ii'"'
-    done
-}
-
 testoutput_run()
 {
     # testoutput_run directory subdir reference_output
@@ -231,12 +197,30 @@
         listVar=`echo $listChk | sed 's/ [a-zA-Z0-9]*+/&mn &mx &av &sd/g' \
                                | sed 's/+//g' | sed "s/^$sVar//"`
 	if [ $debug -gt 0 ]; then echo "testoutput_run: listVar(I)='$listVar'" 1>&2 ; fi
- 	for ii in 1 2 3 4 5 6 7 8 9 ; do
-	  tst=`eval 'echo "$HAVE_PTR0'$ii'"'`
-	 #echo "-- ptr test=" $tst "number of var=" `echo $listVar | awk '{print NF}'` 1>&2
- 	  if test "x$tst" != xt ; then listVar=`echo "$listVar" | sed "s/ pt$ii..//g"` ; fi
-        done
-        tst=`echo $sVar $listVar | awk '{ for(i=2;i<=NF;i++){t+=($i==$1)}; print t }'`
+        # check for ptracer output in reference_output file :
+        outpref=$1/results/$3
+	ptr_mon="trcstat_ptracerXX_min trcstat_ptracerXX_max"
+	ptr_mon="$ptr_mon trcstat_ptracerXX_mean trcstat_ptracerXX_sd"
+	for ii in $PTRACERS_NUM ; do
+	    ptrfound=0
+	    for jj in $ptr_mon ; do
+		name=`eval "echo $jj | sed -e 's|XX|0"$ii"|g'"`
+		tst=`grep $name $outpref | wc -l | awk '{print $1}'`
+		if test ! "x$tst" = x0 ; then ptrfound=1 ; fi
+	    done
+	    if test $ptrfound = '1' ; then
+		eval "HAVE_PTR0"$ii"=t"
+	    else
+		eval "HAVE_PTR0"$ii"=f"
+	      if test "x$ADM" = x -a "x$OADM" = x; then
+	      # remove this ptr from the list of output variable to check
+	      # echo "-- ptr test=" $tst "number of var=" `echo $listVar | awk '{print NF}'` 1>&2
+		listVar=`echo "$listVar" | sed "s/ pt$ii..//g"`
+	      fi
+	    fi
+	#   eval 'echo "HAVE_PTR0'$ii' = $HAVE_PTR0'$ii'"' 1>&2
+	done
+        tst=`echo $sVar $listVar | awk '{ for(i=2;i<=NF;i++){if($i==$1)t+=1}; print t }'`
         if test $tst != 1 ; then
           if test $tst = 0 ; then echo "==> WARNING: selected var >$sVar< not found" 1>&2
                  else echo "==> WARNING: found selected var >$sVar< $tst times" 1>&2 ; fi
@@ -280,18 +264,18 @@
 	   testoutput_var $1 "trcstat_ptracer0"$ii"_mean" "p0"$ii"_mean" $2 $3; yy=$? ;;
 	'pt1sd'|'pt2sd'|'pt3sd'|'pt4sd'|'pt5sd') ii=`echo $xx | sed 's/pt//' | sed 's/..$//'`
 	   testoutput_var $1 "trcstat_ptracer0"$ii"_sd"   "p0"$ii"_StDv"  $2 $3; yy=$? ;;
-	 'Qntmn') testoutput_var $1 "extforcing_qnet_min" "Qnet minimum"  $2 $3; yy=$? ;;
-	 'Qntmx') testoutput_var $1 "extforcing_qnet_max" "Qnet maximum"  $2 $3; yy=$? ;;
-	 'Qntav') testoutput_var $1 "extforcing_qnet_mean" "Qnet mean"	  $2 $3; yy=$? ;;
-	 'Qntsd') testoutput_var $1 "extforcing_qnet_sd"  "Qnet Std.Dev"  $2 $3; yy=$? ;;
+	 'Qntmn') testoutput_var $1 "forcing_qnet_min" "Qnet minimum"  $2 $3; yy=$? ;;
+	 'Qntmx') testoutput_var $1 "forcing_qnet_max" "Qnet maximum"  $2 $3; yy=$? ;;
+	 'Qntav') testoutput_var $1 "forcing_qnet_mean" "Qnet mean"	  $2 $3; yy=$? ;;
+	 'Qntsd') testoutput_var $1 "forcing_qnet_sd"  "Qnet Std.Dev"  $2 $3; yy=$? ;;
 	 'aSImn') testoutput_var $1 "seaice_area_min"   "SIce Area min"	  $2 $3; yy=$? ;;
 	 'aSImx') testoutput_var $1 "seaice_area_max"   "SIce Area max"	  $2 $3; yy=$? ;;
 	 'aSIav') testoutput_var $1 "seaice_area_mean"  "SIce Area mean"  $2 $3; yy=$? ;;
 	 'aSIsd') testoutput_var $1 "seaice_area_sd"    "SIce Area StDv"  $2 $3; yy=$? ;;
 	 'hSImn') testoutput_var $1 "seaice_heff_min"   "SIce Heff min"	  $2 $3; yy=$? ;;
-	 'hSImx') testoutput_var $1 "seaice_heff_max"   "SIce Hell max"	  $2 $3; yy=$? ;;
-	 'hSIav') testoutput_var $1 "seaice_heff_mean"  "SIce Hell mean"  $2 $3; yy=$? ;;
-	 'hSIsd') testoutput_var $1 "seaice_heff_sd"    "SIce Hell StDv"  $2 $3; yy=$? ;;
+	 'hSImx') testoutput_var $1 "seaice_heff_max"   "SIce Heff max"	  $2 $3; yy=$? ;;
+	 'hSIav') testoutput_var $1 "seaice_heff_mean"  "SIce Heff mean"  $2 $3; yy=$? ;;
+	 'hSIsd') testoutput_var $1 "seaice_heff_sd"    "SIce Heff StDv"  $2 $3; yy=$? ;;
 	'AthSiG') testoutput_var $1 "thSI_Ice_Area_G" "thSIc Area Global" $2 $3; yy=$? ;;
 	'AthSiS') testoutput_var $1 "thSI_Ice_Area_S" "thSIc Area South"  $2 $3; yy=$? ;;
 	'AthSiN') testoutput_var $1 "thSI_Ice_Area_N" "thSIc Area North"  $2 $3; yy=$? ;;
@@ -331,20 +315,29 @@
 	(
 	    cd $1;
 	    command="$GENMAKE2  -ds -m $MAKE"
-	    if test "x$ADM" = x ; then
-		command="$command --mods=../code"
-	    else
+	    if test "x$ADM" = xt ; then
 		command="$command --mods=../code_ad"
+	    elif test "x$OADM" = xt ; then
+		command="$command -adof ../../../tools/adjoint_options/adjoint_oad -mods '../code_oad ../../OpenAD/code_oad_all'"
+	    else
+		command="$command -mods=../code"
 	    fi
 	    if test "x$OPTFILE" != xNONE ; then
-		command="$command --optfile=$OPTFILE"
+		command="$command -optfile=$OPTFILE"
 	    fi
 	    if test "x$IEEE" != x ; then
 		command="$command -ieee"
 	    fi
+	    if test "x$GSL" = xt ; then
+		command="$command -gsl"
+	    fi
 	    if test "x$MPI" = xt ; then
 		command="$command -mpi"
 	    fi
+	    if test "x$MULTI_THREAD" = xt ; then
+	    #- run multi-threaded using OpenMP:
+		command="$command -omp"
+	    fi
 	    if test "x$TS" = xt ; then
 		command="$command -ts"
 	    fi
@@ -356,7 +349,8 @@
 	    fi
 	    fi
 	    printf 'genmake ... ' 1>&2
-	    $command > make.log 2>&1
+	    # $command > make.log 2>&1
+	    eval $command > make.log 2>&1
 	    RETVAL=$?
 	    #  Reduce the size of the testing emails!
 	    head -100 Makefile > $CDIR/Makefile_head
@@ -391,8 +385,10 @@
 		    cp make.log $CDIR"/make.log"
 		    return 1
 		fi
+		echo successful 1>&2
+	    else
+		echo ''
 	    fi
-	    echo successful 1>&2
 	    exit 0
 	)
     fi
@@ -414,6 +410,7 @@
 	    find . -type l -exec rm {} \;
 	    rm -f $EXECUTABLE *.txt STD* *diagnostics.log datetime
 	    rm -rf mnc_test_*
+ 	    rm -f *_MIT_CE_000.opt0000 costfunction*0000
 	    echo successful 1>&2
 	    exit 0
 	)
@@ -450,20 +447,23 @@
 	cd $1;
 	if test -r Makefile ; then
 	    printf 'make ... ' 1>&2
-	    if test "x$ADM" = x ; then
+	    if test "x$ADM" = xt ; then
+		$MAKE adall >> make.log 2>&1
+	    elif test "x$OADM" = xt ; then
+		$MAKE adAll >> make.log 2>&1
+            else
 		if test "x$JOBS" = x ; then
 		    $MAKE >> make.log 2>&1
 		else
 		    $MAKE -j $JOBS >> make.log 2>&1
 		fi
-	    else
-		$MAKE adall >> make.log 2>&1
 	    fi
 	    RETVAL=$?
 	    if test "x$RETVAL" != x0 ; then
 		tail make.log
 		echo failed 1>&2
 		cp make.log $CDIR"/make.log"
+		rm -f $EXECUTABLE
 		return 1
 	    else
 		echo successful 1>&2
@@ -484,7 +484,7 @@
     CODE_DIR=$dir/$code_dir
     
     # These are files that should replace their counter-part when using -mpi
-    MPI_FILES=`(cd $CODE_DIR; find . -name "*_mpi")`
+    MPI_FILES=`(cd $CODE_DIR; find . -name "*_mpi" -print)`
 
     #  Is this an MPI run?
     if test "x$MPI" = xt ; then
@@ -528,6 +528,24 @@
     if test -d $1 ; then
 	(
 	    cd $1 ; shift
+            inpMPI=`(cd ../$1 ; find . -name "*.mpi" -print | sed 's:^\./::')`
+	    for xx in $inpMPI ; do
+	      if test -r "../"$1"/"$xx ; then
+	        # found 1 _mpi sfx file in 1rst input dir and it is readable
+		yy=`echo $xx | sed 's:\.mpi$::'`
+		if test "x$MPI" = "xt" ; then
+		# mpi test: remove symbolic link & link _mpi sfx file
+		    if test -h $yy ; then rm -f $yy ; fi
+		    if test ! -r $yy ; then 
+			ln -sf "../"$1"/"$xx $yy ;
+			printf "$xx " 1>&2
+		    fi
+		else
+		# not mpi test: remove symbolic link
+		    if test -h $yy ; then rm -f $yy ; fi
+		fi
+	      fi
+	    done
 	    if test -r "../"$1"/eedata.mth" ; then
 	    # found eedata.mth in 1rst input dir and it is readable
 		if test "x$MULTI_THREAD" = "xt" ; then
@@ -542,8 +560,9 @@
 		    if test -h eedata ; then rm -f eedata ; fi
 		fi
 	    fi
+	    prevDir='NONE'
 	    for ldir in $* ; do
-		if test -d "../"$ldir ; then
+		if test -d "../"$ldir -a $ldir != $prevDir ; then
                     printf 'ldir='${ldir} 1>&2
 		    files=`( cd "../"$ldir ; ls -1 | grep -v CVS )`
 		    for i in $files ; do
@@ -559,6 +578,7 @@
 		    fi
 		    printf ' ; ' 1>&2
 		fi
+		prevDir=$ldir
 	    done
 	)
     fi
@@ -575,50 +595,58 @@
 	printf 'runmodel in %s ...' $1 1>&2
 	# make output.txt
 	echo
+	if test -L $EXECUTABLE -a -x "../"$builddir"/"$EXECUTABLE ; then
+	    diff -q $EXECUTABLE "../"$builddir"/"$EXECUTABLE > /dev/null 2>&1
+	    outD=$? ; if test $outD != 0 ; then rm -f $EXECUTABLE ; fi
+	fi
         if test ! -x $EXECUTABLE -a -x "../"$builddir"/"$EXECUTABLE ; then
-	    echo " link" $EXECUTABLE "from dir ../"$builddir > run.log_00
+	    echo " link" $EXECUTABLE "from dir ../"$builddir > run.log_tmp
 	    ln -sf "../"$builddir"/"$EXECUTABLE .
 	fi
         if test ! -x $EXECUTABLE ; then
-		rm -f run.log ; touch run.log
-		if test -f run.log_00 ; then cat run.log_00 >> run.log ; fi
-		echo " no executable:" $EXECUTABLE >> run.log
+		rm -f $RUNLOG ; touch $RUNLOG
+		if test -f run.log_tmp ; then cat run.log_tmp >> $RUNLOG ; fi
+		echo " no executable:" $EXECUTABLE >> $RUNLOG
 		RETVAL=8
 		ENDVAL=-1
 	else
             if test ! -f $OUTPUTFILE -o $OUTPUTFILE -ot $EXECUTABLE ; then
               # output do not exist or is older than executable:
-		rm -f run.log ; touch run.log
-		if test -f run.log_00 ; then cat run.log_00 >> run.log ; fi
-		( eval $COMMAND ) >> run.log 2>&1
+		rm -f $RUNLOG ; touch $RUNLOG
+		if test -f run.log_tmp ; then cat run.log_tmp >> $RUNLOG ; fi
+		( eval $COMMAND ) >> $RUNLOG 2>&1
 		RETVAL=$?
 	    else
 		RETVAL=0
-		if test -f run.log ; then
-		    if test -f run.log_00 ; then cat run.log_00 >> run.log ; fi
-     		    echo "---------->> $OUTPUTFILE is up to date " >> run.log 2>&1
+		if test -f $RUNLOG ; then
+		    if test -f run.log_tmp ; then cat run.log_tmp >> $RUNLOG ; fi
+     		    echo "---------->> $OUTPUTFILE is up to date " >> $RUNLOG 2>&1
 		else 
-		    touch run.log
-		    if test -f run.log_00 ; then cat run.log_00 >> run.log ; fi
-     		    echo "---------->> $OUTPUTFILE is up to date " >> run.log 2>&1
-     		    echo " no previous run.log: assume NORMAL END" >> run.log 2>&1
+		    touch $RUNLOG
+		    if test -f run.log_tmp ; then cat run.log_tmp >> $RUNLOG ; fi
+     		    echo "---------->> $OUTPUTFILE is up to date " >> $RUNLOG 2>&1
+     		    echo " no previous $RUNLOG: assume NORMAL END" >> $RUNLOG 2>&1
 		fi
 	    fi
-	    ENDVAL=`cat run.log | grep -v 'ABNORMAL END' | grep -c 'NORMAL END'`
+	    ENDVAL=`cat $RUNLOG | grep -v 'ABNORMAL END' | grep -c 'NORMAL END'`
 	fi
-	rm -f run.log_00
-	#if test "x$RETVAL" = x0 ; then
+	rm -f run.log_tmp
 	if [ $RETVAL -eq 0 -a $ENDVAL -gt 0 ] ; then
-	    tail run.log
+	    tail $RUNLOG
 	    echo successful 1>&2
 	    # === Reduce the size of the testing emails!
 	    #cp $OUTPUTFILE $CDIR"/"$OUTPUTFILE
             if test -s STDERR.0000 ; then cp STDERR.0000 $CDIR"/STDERR.0000" ; fi
 	    return 0
+	elif [ $RETVAL -ne 0 -a $ENDVAL -gt 0 ] ; then
+	    #-- for some weird cases (run is finihed but with error code)
+	    tail $RUNLOG
+	    echo finished with error '(run:' $RETVAL ' end:' $ENDVAL ')' 1>&2
+	    return 0
 	else
-	    tail run.log
+	    tail $RUNLOG
 	    echo failed '(run:' $RETVAL ' end:' $ENDVAL ')' 1>&2
-	    cp run.log $CDIR"/run.log"
+	    cp $RUNLOG $CDIR"/"$RUNLOG
             if test -s STDERR.0000 ; then cp STDERR.0000 $CDIR"/STDERR.0000" ; fi
 	    return 1
 	fi
@@ -629,7 +657,7 @@
 {
     # create codelet for comparing model output
 
-    printf "creating the comparison code...  "
+    printf "creating the comparison code (using CC=$CC)...  "
     cat > tr_cmpnum.c <<EOF
 #include <stdio.h>
 #include <math.h>
@@ -719,6 +747,35 @@
 }
 
 
+check_eedata()
+{
+    # check_eedata size.h eedata
+    if [ $# -eq 2 ] ; then
+      if test -f $1 -a -f $2 ; then
+      sx=`grep "^     & *nSx *=" $1 | sed "s/^     & *nSx *=//" | sed 's/, *$//'`
+      nx=`grep "^ *nTx *=" $2 | tail -1 | sed 's/^ *nTx *= *//' | sed "s/, *$//"`
+      if test "x$nx" = x ; then
+	rx=10
+      else
+	rx=`expr $sx % $nx`
+      fi
+      sy=`grep "^     & *nSy *=" $1 | sed "s/^     & *nSy *=//" | sed 's/, *$//'`
+      ny=`grep "^ *nTy *=" $2 | tail -1 | sed 's/^ *nTy *= *//' | sed "s/, *$//"`
+      if test "x$ny" = x ; then
+	ry=20
+      else
+	ry=`expr $sy % $ny`
+      fi
+      echo `expr $rx + $ry`
+    else
+      echo '-1'
+      fi
+    else
+      echo '-2'
+    fi
+
+}
+
 ###############################################################################
 
 
@@ -726,14 +783,12 @@
 debug=0
 verbose=1
 clean=0
-expts=''
-# ieee=1
 
 IEEE=true
 if test "x$MITGCM_IEEE" != x ; then
     IEEE=$MITGCM_IEEE
 fi
-
+GSL=f
 
 CLEANUP=f
 QUICK=f
@@ -749,7 +804,7 @@
 SKIPDIRS=
 MPACKDIR="../tools/mpack-1.6"
 HAVE_MPACK=
-MPACK="$MPACKDIR/mpack"
+MPACK=
 COMMAND=
 if test "x$MAKE" = x ; then
     MAKE=make
@@ -764,8 +819,9 @@
 DELDIR=
 
 ADM=
+OADM=
 
-# Additional monitor types
+# list of pTracers to check for monitor output
 PTRACERS_NUM="1 2 3 4 5"
 
 MATCH_CRIT=13
@@ -798,6 +854,10 @@
             ac_prev=ADDRESSES ;;
         -addr=* | --addr=*)
             ADDRESSES=$ac_optarg ;;
+        -mpackdir | --mpackdir | -mpd | --mpd)
+            ac_prev=MPACKDIR ;;
+        -mpackdir=* | --mpackdir=* | -mpd=* | --mpd=*)
+            MPACKDIR=$ac_optarg ;;
 
 	-tdir | --tdir | -t | --t)
             ac_prev=TESTDIRS ;;
@@ -861,8 +921,11 @@
 
 	-adm | -ad) ADM=t ;;
 
+	-oad) OADM=t; NODEPEND=t ;;
+
 	-ieee) IEEE=true ;;
 	-noieee) IEEE= ;;
+        -gsl) GSL=t ;;
 
 	-verbose) verbose=2 ;;
 	-debug) debug=1 ;;
@@ -899,12 +962,17 @@
 #- setting for forward or ADM testing
 if test "x$ADM" = xt ; then
     code_dir=code_ad
-    input_dirs='input_ad input'
+    inputdir=input_ad
     ref_outp="output_adm.txt"
     EXECUTABLE="mitgcmuv_ad"
+elif test "x$OADM" = xt ; then
+    code_dir=code_oad
+    inputdir=input_oad
+    ref_outp="output_oadm.txt"
+    EXECUTABLE="mitgcmuv_ad"
 else
     code_dir=code
-    input_dirs='input'
+    inputdir=input
     ref_outp="output.txt"
     EXECUTABLE="mitgcmuv"
 fi
@@ -954,6 +1022,7 @@
     OPTFILE=$MITGCM_OF
 fi
 
+RUNLOG="run.log"
 OUTPUTFILE=$ref_outp
 if test "x$COMMAND" = x ; then
     COMMAND="./$EXECUTABLE > $OUTPUTFILE"
@@ -968,7 +1037,7 @@
 #  (use default or load experiment-specific list from file "tr_checklist")
 # content : 1rst = main variable used to decide if it pass or FAIL
 #         others = number of matching digits to be printed in summary.txt
-if test "x$ADM" = x ; then
+if test "x$ADM" = x -a "x$OADM" = x; then
     DEF_CHECK_LIST='PS PS T+ S+ U+ V+ pt1+ pt2+ pt3+ pt4+ pt5+'
     EMPTY_RESULTS='.. .. .. .. .. .. .. .. .. .. .. .. .. .. .. .. ..'
     LEN_CHECK_LIST=`echo $DEF_CHECK_LIST | sed 's/ [a-zA-Z0-9]*+/&mn &mx &av &sd/g' | awk '{print NF-1}'`
@@ -983,20 +1052,29 @@
 #  create the FORTRAN comparison code
 createcodelet
 
-#  build the mpack utility
-if test "x$ADDRESSES" = xNONE -o "x$ADDRESSES" = x ; then
+#  build the mpack utility (if ADDRESSES = NONE, do it to test the build)
+if test "x$ADDRESSES" = x ; then
     echo "skipping mpack build"
 else
     build_mpack
 fi
 
 #  Create a uniquely named directory to store results
+CMDLINE=$0
+for xx in "$@" ; do nw=`echo $xx | wc -w`
+    if test $nw = '1' ; then CMDLINE="$CMDLINE $xx"
+                        else CMDLINE="$CMDLINE '$xx'" ; fi
+done
+#for xx in "$@" ; do CMDLINE="$CMDLINE '$xx'" ; done
 MACH=`hostname`
 UNAMEA=`uname -a`
 DATE=`date +%Y%m%d`
 BASE="tr_"$MACH"_"$DATE"_"
 if test "x$OUTDIR" != x ; then
     BASE="tr_"$OUTDIR"_"$DATE"_"
+else
+    short_name=`hostname | sed 's/\..*$//'`
+    BASE="tr_"$short_name"_"$DATE"_"
 fi
 DNUM=0
 DRESULTS="$BASE$DNUM"
@@ -1011,9 +1089,10 @@
     exit 1
 fi
 SUMMARY="$DRESULTS/summary.txt"
-printf "Start time:  " >> $SUMMARY
 start_date=`date`
 echo $start_date > $SUMMARY
+echo 'run:' $CMDLINE >> $SUMMARY
+echo 'on :' $UNAMEA  >> $SUMMARY
 
 of_path=
 if test "x$OPTFILE" != xNONE ; then
@@ -1042,7 +1121,7 @@
 fi
 echo
 echo >> $SUMMARY
-if test "x$ADM" = x ; then
+if test "x$ADM" = x -a "x$OADM" = x; then
     if [ $MATCH_CRIT -lt 10 ] ; 
     then line_0="default  "$MATCH_CRIT ; 
     else line_0="default "$MATCH_CRIT ; fi
@@ -1053,14 +1132,11 @@
     line_3="N n k u  2  i  a  a  d  i  a  a  d  i  a  a  d  i  a  a  d"
     line_4="2 d e n  d  n  x  n  .  n  x  n  .  n  x  n  .  n  x  n  ."
     for ii in $PTRACERS_NUM ; do
-	#  tst=`eval 'echo $HAVE_PTR0'$ii`
-	#  if test "x$tst" = xt ; then
 	line_0="$line_0  --PTR 0"$ii"--"
 	line_1="$line_1        m  s"
 	line_2="$line_2  m  m  e  ."
 	line_3="$line_3  i  a  a  d"
 	line_4="$line_4  n  x  n  ."
-	#  fi
     done
     echo "$line_0" | tee -a $SUMMARY
     echo "$line_1" | tee -a $SUMMARY
@@ -1087,20 +1163,31 @@
 #  ...and each test directory...
 for dir in $TESTDIRS ; do
     
+    # set builddir & rundir:
+    builddir="build"
+    if test ! -d $dir/$builddir ; then mkdir $dir/$builddir ; fi
+    rundir="run"
+    if test ! -d $dir/$rundir ; then
+	rundir=$builddir
+    fi
+    CODE_DIR=$dir/$code_dir
+    BUILD_DIR=$dir/$builddir
+
     #  Cleanup only!
     if test "x$CLEANUP" = xt ; then
-	if test -r $dir/build/Makefile ; then
-            echo '  ------  clean dir:' $dir/build
-	    ( cd $dir/build ; make CLEAN )
-	fi
-	if test -d $dir/run/CVS ; then
-            echo '  ------  clean dir:' $dir/run
-	    run_clean $dir/run
+	echo -n '  --- dir:' $BUILD_DIR ': '
+	makeclean $BUILD_DIR
+        rm -f $BUILD_DIR/$EXECUTABLE
+	if test -d $dir/$rundir/CVS ; then
+            echo -n '  --- dir:' $dir/$rundir ': '
+	    run_clean $dir/$rundir
+	fi
+	trdir=`( cd $dir ; find . -type d -name "tr_run.*" -print | sed 's/^.\///')`
+	ttd=`echo $trdir | wc -w`
+	if test $ttd != 0 ; then
+	    echo '  --- rm dir:' $trdir
+	    ( cd $dir ; rm -rf $trdir )
 	fi
-	(
-	    cd $dir
-	    rm -rf tr_run.*
-	)
 	continue
     fi
 
@@ -1111,20 +1198,8 @@
 	echo "can't read \"$fout\" -- skipping $dir"
 	continue
     fi
-    if test "x$ADM" = x ; then
-	check_for_add_mon_output  $fout
-    fi
-
-    # Check for additional types of monitor output
 
-    builddir="build"
-    if test ! -d $dir/$builddir ; then mkdir $dir/$builddir ; fi
-    rundir="run"
-    if test ! -d $dir/$rundir ; then
-	rundir=$builddir
-    fi
-    CODE_DIR=$dir/$code_dir
-    BUILD_DIR=$dir/$builddir
+    # Check for specific files for particular type of run
 
     if test ! -r $CODE_DIR"/SIZE.h_mpi" -a "x$MPI" = "xt" ; then
 	echo "can't find \"$CODE_DIR/SIZE.h_mpi\" -- skipping $dir"
@@ -1134,27 +1209,42 @@
 	echo "can't find \"$dir/input/eedata.mth\" -- skipping $dir"
 	continue
     fi
+    if test "x$MPI" = "xt" -a "x$MULTI_THREAD" = "xt" ; then
+      retv=`check_eedata $CODE_DIR"/SIZE.h_mpi" $dir"/input/eedata.mth"`
+      if test $retv != 0 ; then
+	echo "input/eedata.mth tiling misfit -- skipping $dir"
+	continue
+      fi
+    fi
 
     #  Check whether there are "extra runs" for this testdir
     extra_runs=
-    if test "x$ADM" = x ; then
-	ex_run_dirs=`( cd $dir ; echo input.* )`
-	#echo "ex_run_dirs='$ex_run_dirs'"
-	for exd in $ex_run_dirs ; do
-	    name=`echo $exd | sed -e 's/input.//g'`
-	    outf="$dir/results/output.$name.txt"
-            if test -f $outf -a -r $outf ; then
-		if test "x$MULTI_THREAD" = "xt" ; then 
-		    if test -r $dir"/"$exd"/eedata.mth" ; then
-			extra_runs="$extra_runs $name"
-		    #else echo $dir"/"$exd"/eedata.mth: not found"
-		    fi
-		else
+    ex_run_dirs=`( cd $dir ; echo $inputdir.* )`
+    #echo "ex_run_dirs='$ex_run_dirs'"
+    for exd in $ex_run_dirs ; do
+	name=`echo $exd | sed -e "s/$inputdir\.//"`
+	refExOut=`echo $ref_outp | sed "s/\./.${name}./"`
+	outf="$dir/results/$refExOut"
+        if test -f $outf -a -r $outf ; then
+	  if test "x$MULTI_THREAD" = "xt" ; then 
+	    if test -r $dir"/"$exd"/eedata.mth" ; then
+	      if test "x$MPI" = "xt" ; then
+		retv=`check_eedata $CODE_DIR"/SIZE.h_mpi" $dir"/"$exd"/eedata.mth"`
+		if test $retv = 0 ; then
 		    extra_runs="$extra_runs $name"
+		else
+		    echo $exd"/eedata.mth tiling misfit -- skipping $dir"
 		fi
+	      else
+		extra_runs="$extra_runs $name"
+	      fi
+	    #else echo $dir"/"$exd"/eedata.mth: not found"
 	    fi
-	done
-    fi
+	  else
+	    extra_runs="$extra_runs $name"
+	  fi
+	fi
+    done
 
     echo "-------------------------------------------------------------------------------"
     echo
@@ -1183,13 +1273,12 @@
             && symlink_mpifiles $dir $code_dir $builddir \
 	    && makedependmodel $dir/$builddir && makedepend=Y \
 	    && makemodel $dir/$builddir && make=Y \
-	    && linkdata $dir/$rundir $input_dirs \
+	    && linkdata $dir/$rundir $inputdir input \
 	    && runmodel $dir/$rundir && run=Y \
 	    && results=`testoutput_run $dir $rundir $ref_outp`
     fi
     
     echo
-# --> same processing for adjoint & forward test
 	fres=`formatresults $dir ${genmake:-N} ${makedepend:-N} ${make:-N} ${run:-N} $results`
 	echo
  	echo "$fres" | sed 's/ 99/ --/g' | sed 's/  > />/' | sed 's/  < /</' >> $SUMMARY
@@ -1199,19 +1288,26 @@
 	echo "UNAMEA='$UNAMEA'" >> $CDIR"/summary.txt"
 	echo "DATE='$DATE'" >> $CDIR"/summary.txt"
 	echo "tdir='$dir'" >> $CDIR"/summary.txt"
+	if test "x$ADM" = xt ; then
+	    head -1 $dir/$builddir/taf_ad.log >> $CDIR"/summary.txt"
+	    grep -A3 'Seconds in section "ALL' $dir/$rundir/$OUTPUTFILE \
+				>> $CDIR"/summary.txt"
+	fi
 
 	for ex in $extra_runs ; do
 	    unset run
             results=$EMPTY_RESULTS
+	    #  reference output file
+	    refExOut=`echo $ref_outp | sed "s/\./.${ex}./g"`
 	    #  Create an output dir for each OPTFILE/tdir.ex combination
 	    rel_CDIR=$DRESULTS"/"$dir"."$ex
 	    mkdir $rel_CDIR
 	    CDIR=`pwd`"/$rel_CDIR"
 	    test ! -e "$dir/tr_run.$ex" && mkdir "$dir/tr_run.$ex"
- 	    run_clean $dir/tr_run.$ex
-            linkdata $dir/tr_run.$ex input.$ex input
+	    run_clean $dir/tr_run.$ex
+	    linkdata $dir/tr_run.$ex $inputdir.$ex $inputdir input
 	    runmodel $dir/tr_run.$ex && run=Y \
-		&& results=`testoutput_run $dir tr_run.$ex "output.${ex}.txt"`
+	    && results=`testoutput_run $dir tr_run.$ex $refExOut`
 	    fres=`formatresults $dir ${genmake:-N} ${makedepend:-N} ${make:-N} ${run:-N} $results`
 	    fres="$fres.$ex"
 	    echo
@@ -1222,16 +1318,15 @@
 	    echo "UNAMEA='$UNAMEA'" >> $CDIR"/summary.txt"
 	    echo "DATE='$DATE'" >> $CDIR"/summary.txt"
 	    echo "tdir='$dir.$ex'" >> $CDIR"/summary.txt"
+            if test "x$ADM" = xt ; then
+	        head -1 $dir/$builddir/taf_ad.log >> $CDIR"/summary.txt"
+	        grep -A3 'Seconds in section "ALL' $dir/tr_run.$ex/$OUTPUTFILE \
+			           >> $CDIR"/summary.txt"
+            fi
 	    if test "x$POSTCLEAN" = xt ; then
 		run_clean $dir/tr_run.$ex
 	    fi
 	done
-# <-- same processing for adjoint & forward test
-    if test "x$ADM" = xt ; then
-	head -1 $dir/$builddir/taf_ad.log >> $CDIR"/summary.txt"
-	grep -A3 'Seconds in section "ALL' $dir/$rundir/$OUTPUTFILE \
-			   >> $CDIR"/summary.txt"
-    fi
 
     #postclean $dir/$builddir
     if test "x$POSTCLEAN" = xt ; then
@@ -1244,7 +1339,7 @@
 done
 
 printf "Start time:  " >> $SUMMARY
-echo $start_date >> $SUMMARY
+echo "$start_date" >> $SUMMARY
 printf "End time:    " >> $SUMMARY
 date >> $SUMMARY
 
@@ -1269,9 +1364,9 @@
 	    echo "An email containing results was sent to the following addresses:"
 	    echo "  \"$ADDRESSES\""
 	    echo
+	    test -f $DRESULTS".tar"  &&  rm -f $DRESULTS".tar"
+	    test -f $DRESULTS".tar.gz"  &&  rm -f $DRESULTS".tar.gz"
 	fi
-	test -f $DRESULTS".tar"  &&  rm -f $DRESULTS".tar"
-	test -f $DRESULTS".tar.gz"  &&  rm -f $DRESULTS".tar.gz"
     fi
 fi